Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008013.1 Hibiscus syriacus cultivar Beakdansim tig00110478_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: 1461402
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:608850 original size:20 final size:19
Alignment explanation
Indices: 608792--608851 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
608782 TCGCGTTGCG
608792 ATTCTCCGTTGCGA-TGTC
1 ATTCTCCGTTGCGATTGTC
*
608810 ATTC-CGCGTTGCGATAGTC
1 ATTCTC-CGTTGCGATTGTC
*
608829 ATTCTCTCGTTGCGATTTTC
1 ATTCTC-CGTTGCGATTGTC
608849 ATT
1 ATT
608852 TCAACCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.03
18 12 0.34
19 7 0.20
20 15 0.43
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.42
Consensus pattern (19 bp):
ATTCTCCGTTGCGATTGTC
Found at i:610951 original size:94 final size:94
Alignment explanation
Indices: 610549--610928 Score: 656
Period size: 94 Copynumber: 4.1 Consensus size: 94
610539 TAGATTGCTT
* * * *
610549 AGTAAATTTATTCGGTTTCTGCCAATACTGCTAAACTGTTTATTCTTTAACAATGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
610614 ATTTGTCTTTTGTTTTATCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
610643 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
610708 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
610737 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
610802 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
610831 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
610896 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
610924 AGTAA
1 AGTAA
610929 TGTAATCCAT
Statistics
Matches: 277, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
93 25 0.09
94 252 0.91
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:611031 original size:19 final size:17
Alignment explanation
Indices: 611016--611100 Score: 70
Period size: 19 Copynumber: 4.9 Consensus size: 17
611006 AAAAATGACT
611016 ATCGCAACGCAAAATGA
1 ATCGCAACGCAAAATGA
*
611033 ATCGCAATG-AGAAATGAAA
1 ATCGCAACGCA-AAATG--A
*
611052 ATCGCAACG--AGA-GA
1 ATCGCAACGCAAAATGA
611066 ATCGCAACGCAAAATGAAA
1 ATCGCAACGCAAAATG--A
611085 ATCGCAACGACAAAAT
1 ATCGCAACG-CAAAAT
611101 CGCAACGCGA
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
14 10 0.18
16 4 0.07
17 16 0.29
19 19 0.35
20 6 0.11
ACGTcount: A:0.49, C:0.20, G:0.19, T:0.12
Consensus pattern (17 bp):
ATCGCAACGCAAAATGA
Found at i:611081 original size:33 final size:34
Alignment explanation
Indices: 611031--611112 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 34
611021 AACGCAAAAT
* *
611031 GAATCGCAATG-AGAAATGAAAATCGCAACGAGA
1 GAATCGCAACGCAGAAATGAAAATCGCAACGACA
611064 GAATCGCAACGCA-AAATGAAAATCGCAACGACA
1 GAATCGCAACGCAGAAATGAAAATCGCAACGACA
*
611097 AAATCGCAACGC-GAAA
1 GAATCGCAACGCAGAAA
611113 CTATAATCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 43 0.98
34 1 0.02
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.10
Consensus pattern (34 bp):
GAATCGCAACGCAGAAATGAAAATCGCAACGACA
Found at i:611203 original size:20 final size:20
Alignment explanation
Indices: 611155--611203 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
611145 ACGATTCTCT
611155 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
611175 CATTACGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
611195 CGTTGCGAT
1 CGTTGCGAT
611204 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:611776 original size:21 final size:20
Alignment explanation
Indices: 611687--611789 Score: 66
Period size: 21 Copynumber: 5.0 Consensus size: 20
611677 GACTCACCTG
611687 TCATCGTTCAAGAGG-CCTCC
1 TCATCGTTCAAGAGGCCCT-C
* *
611707 CCTATCGTTCAAGA-GCCCTA
1 TC-ATCGTTCAAGAGGCCCTC
** *
611727 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAG-GCCCTC
* * *
611748 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCC-CTC
*
611769 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGG-CCCTC
611790 CCAACATTCT
Statistics
Matches: 60, Mismatches: 17, Indels: 11
0.68 0.19 0.12
Matches are distributed among these distances:
19 9 0.15
20 5 0.08
21 44 0.73
22 2 0.03
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.23
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:613167 original size:14 final size:14
Alignment explanation
Indices: 613148--613183 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
613138 ATTGTTTAAT
613148 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
613162 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
613176 TGATTTGT
1 TGATTTGT
613184 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:613368 original size:20 final size:20
Alignment explanation
Indices: 613343--613431 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
613333 TCGATTCTCT
613343 CATTGCGATAGTCATTTCCG
1 CATTGCGATAGTCATTTCCG
*
613363 CATTGCGATAGTCAATTCCG
1 CATTGCGATAGTCATTTCCG
613383 CATTGCGATAGTCATTTCCG
1 CATTGCGATAGTCATTTCCG
**
613403 TGTTGCGATAGTCATATT-CG
1 CATTGCGATAGTCAT-TTCCG
*
613423 CGTTGCGAT
1 CATTGCGAT
613432 TTCCGCGTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (20 bp):
CATTGCGATAGTCATTTCCG
Found at i:613678 original size:33 final size:33
Alignment explanation
Indices: 613632--613716 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
613622 TTGCAACGCG
**
613632 GAAATGACTATCGCAACGAGAGAATCGCAATAC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATAC
* * * *
613665 GAAATGAAAATCGCTATGAGTGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATAC
613698 GAAAATGAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
613717 CGAAACTAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 28 0.65
34 15 0.35
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATAC
Found at i:613769 original size:34 final size:33
Alignment explanation
Indices: 613731--613815 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
613721 ACTAATTTCA
*
613731 CGTTGCGATTTTCATTTTCGCATTGTGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
* *
613765 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
* **
613798 CGTTACGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
613816 CACGTTGCGA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 31 0.70
34 13 0.30
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:613788 original size:33 final size:34
Alignment explanation
Indices: 613731--613806 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 34
613721 ACTAATTTCA
*
613731 CGTTGCGATTTTCATTTTCGCATTGTGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
613765 CGTTGTGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
613798 CGTTACGAT
1 CGTTGCGAT
613807 AGTCATTTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:613826 original size:20 final size:20
Alignment explanation
Indices: 613798--613886 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
613788 GCGATTCTCT
* *
613798 CGTTACGATAGTCATTTCCA
1 CGTTGCGATAGTCATTTCCG
*
613818 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
613838 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
613858 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
613878 CGTTGCGAT
1 CGTTGCGAT
613887 TTTCGCGTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:613893 original size:14 final size:14
Alignment explanation
Indices: 613874--613900 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
613864 GATAGTCATA
613874 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
613888 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
613901 AGTCAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.22, G:0.30, T:0.41
Consensus pattern (14 bp):
TTCGCGTTGCGATT
Found at i:616873 original size:21 final size:21
Alignment explanation
Indices: 616848--616913 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
616838 GTATATGATT
616848 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
*
616869 CTTAAGGAATGATATGTAGTC
1 CTTAAGGAATGATATGTGGTC
616890 CTTAAGGAATG-TATGTGGTC
1 CTTAAGGAATGATATGTGGTC
616910 CTTA
1 CTTA
616914 TGGACATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
20 12 0.28
21 31 0.72
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.35
Consensus pattern (21 bp):
CTTAAGGAATGATATGTGGTC
Found at i:616972 original size:22 final size:22
Alignment explanation
Indices: 616930--616972 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
616920 TTATTATATG
**
616930 GCACTACGGTGCAATTCTACGT
1 GCACTACGGTGCAATGATACGT
*
616952 GCACTTCGGTGCAATGATACG
1 GCACTACGGTGCAATGATACG
616973 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (22 bp):
GCACTACGGTGCAATGATACGT
Found at i:619516 original size:24 final size:24
Alignment explanation
Indices: 619482--619535 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
619472 CTGAAAAATC
619482 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
619506 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
619530 ATCAAA
1 ATCAAA
619536 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:619549 original size:24 final size:24
Alignment explanation
Indices: 619482--619549 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
619472 CTGAAAAATC
* * *
619482 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
619506 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
619530 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
619550 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:620409 original size:20 final size:20
Alignment explanation
Indices: 620386--620501 Score: 87
Period size: 20 Copynumber: 5.8 Consensus size: 20
620376 TTGCGATAGT
* *
620386 CAGAATCTCGTTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
620406 CAGATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
* * *
620426 C-GTATTCGCATTACAATTTA
1 CAG-AATCGCATTGCGATTTA
*
620446 C-GTATTCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
620466 C-GTAATCGCGTTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
620486 C-GTATTCGCATTGCGA
1 CAG-AATCGCATTGCGA
620502 ATTAGGAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
19 1 0.01
20 83 0.99
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTTA
Found at i:620445 original size:40 final size:40
Alignment explanation
Indices: 620401--620501 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
620391 TCTCGTTGCG
*
620401 ATTTACAG-ATTCGCATTGCGATTTACGTATTCGCATTACA
1 ATTTAC-GTATTCGCATTGCGATTTACGTAATCGCATTACA
* * *
620441 ATTTACGTATTCGCATTGCGATTTACGTAATCGCGTTGCG
1 ATTTACGTATTCGCATTGCGATTTACGTAATCGCATTACA
620481 ATTTACGTATTCGCATTGCGA
1 ATTTACGTATTCGCATTGCGA
620502 ATTAGGAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (40 bp):
ATTTACGTATTCGCATTGCGATTTACGTAATCGCATTACA
Found at i:620522 original size:21 final size:21
Alignment explanation
Indices: 620498--620543 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
620488 TATTCGCATT
620498 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
620519 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
620540 GCGA
1 GCGA
620544 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:620638 original size:20 final size:20
Alignment explanation
Indices: 620594--620825 Score: 256
Period size: 20 Copynumber: 11.6 Consensus size: 20
620584 TACCGGAGAT
*
620594 CGCGTTGCGAATTATC-GAT-
1 CGCGTTGCGATTTA-CGGATA
620613 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
620633 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
620653 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * *
620674 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
620694 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* * *
620714 CGTGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
620734 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
620754 CGCGTTGCGATTTACGTAT-
1 CGCGTTGCGATTTACGGATA
*
620773 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
620794 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
620815 CTCGTTGCGAT
1 CGCGTTGCGAT
620826 AGTCAGAATC
Statistics
Matches: 177, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
18 1 0.01
19 17 0.10
20 122 0.69
21 37 0.21
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:620699 original size:40 final size:40
Alignment explanation
Indices: 620594--620886 Score: 342
Period size: 40 Copynumber: 7.3 Consensus size: 40
620584 TACCGGAGAT
* *
620594 CGCGTTGCGAATTATCG-A-TCGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTA-CGTATTCTCGTTGCGATTTACGGATA
*
620633 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATA
* *
620674 CGCATTGCGATTTACGTATTCTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
*
620714 CGTGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
*
620754 CGCGTTGCGATTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
* * * *
620794 CGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-A
1 CGCGTTGCGA-TTTACGTATTCTCGTTGCGAT-TTACGGATA
** * * * ** *
620834 TCGCGTTGCGATTTATATGTTCGCGTTGCGATTTTCATATT
1 -CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
620875 CGCGTTGCGATT
1 CGCGTTGCGATT
620887 CTGGAAAATC
Statistics
Matches: 221, Mismatches: 25, Indels: 15
0.85 0.10 0.06
Matches are distributed among these distances:
39 13 0.06
40 148 0.67
41 59 0.27
42 1 0.00
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (40 bp):
CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
Found at i:620761 original size:121 final size:122
Alignment explanation
Indices: 620612--620886 Score: 387
Period size: 121 Copynumber: 2.3 Consensus size: 122
620602 GAATTATCGA
620612 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
* * * * *
620677 ATTGCGA-TTTACGTATTCTCGTTGCGAT-TTACAG-ATACGTGTTGCGATTTACGTAT
66 ATTGCGATTTTACGGATACTCGTTGCGATAGT-CAGAAT-CGCGTTGCGATTTACATAT
*
620733 TCTCGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTGTCGTTGCGATTTACGGATACGC
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
* * *
620797 GTTGCGATTTTACGGATACTCGTTGCGATAGTCAGAATCGCGTTGCGATTTATATGT
66 ATTGCGATTTTACGGATACTCGTTGCGATAGTCAGAATCGCGTTGCGATTTACATAT
* ** *
620854 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATT
620887 CTGGAAAATC
Statistics
Matches: 136, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
120 39 0.29
121 93 0.68
122 4 0.03
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (122 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
ATTGCGATTTTACGGATACTCGTTGCGATAGTCAGAATCGCGTTGCGATTTACATAT
Found at i:620857 original size:20 final size:20
Alignment explanation
Indices: 620834--620886 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
620824 ATAGTCAGAA
*
620834 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
620854 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
620874 TCGCGTTGCGATT
1 TCGCGTTGCGATT
620887 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:622501 original size:39 final size:39
Alignment explanation
Indices: 622444--622522 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
622434 TATTTTTGTA
**
622444 GCTTCTCCAGCATGATTCCTCTCCAAAACACGAGTGATG
1 GCTTCTCCAGCAACATTCCTCTCCAAAACACGAGTGATG
*
622483 GCTTCTTCAGCAACATTCCTCTCCAAAACACGAGTGATG
1 GCTTCTCCAGCAACATTCCTCTCCAAAACACGAGTGATG
622522 G
1 G
622523 AACCTTCATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (39 bp):
GCTTCTCCAGCAACATTCCTCTCCAAAACACGAGTGATG
Found at i:629778 original size:22 final size:22
Alignment explanation
Indices: 629753--629794 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
629743 GTATAAAAAA
629753 AACACCAAATAAT-ATATATAGT
1 AACA-CAAATAATAATATATAGT
*
629775 AACACTAATAATAATATATA
1 AACACAAATAATAATATATA
629795 ATGTGGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (22 bp):
AACACAAATAATAATATATAGT
Found at i:636315 original size:30 final size:30
Alignment explanation
Indices: 636281--636338 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
636271 ATCAAATAGT
636281 TAAGAATATTTTCGAAAATATATTATATTA
1 TAAGAATATTTTCGAAAATATATTATATTA
636311 TAAGAATATTTTCGAAAATATATTATAT
1 TAAGAATATTTTCGAAAATATATTATAT
636339 CGATAATCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (30 bp):
TAAGAATATTTTCGAAAATATATTATATTA
Found at i:639537 original size:70 final size:70
Alignment explanation
Indices: 639437--639579 Score: 268
Period size: 70 Copynumber: 2.0 Consensus size: 70
639427 GAAGTTTGGT
639437 GAAGATGACTTTAGTGATGGTAAAGTTGGTGAATGCAAGTTTGACGAAGGGAAAGGTGAAGAAAG
1 GAAGATGACTTTAGTGATGGTAAAGTTGGTGAATGCAAGTTTGACGAAGGGAAAGGTGAAGAAAG
639502 AACAA
66 AACAA
* *
639507 GAAGATGACTTTAGTGATGGTAAAGTTGGTGAATGCAAGTTTGATGAAGGTAAAGGTGAAGAAAG
1 GAAGATGACTTTAGTGATGGTAAAGTTGGTGAATGCAAGTTTGACGAAGGGAAAGGTGAAGAAAG
639572 AACAA
66 AACAA
639577 GAA
1 GAA
639580 ATTTTTCACC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (70 bp):
GAAGATGACTTTAGTGATGGTAAAGTTGGTGAATGCAAGTTTGACGAAGGGAAAGGTGAAGAAAG
AACAA
Found at i:654181 original size:40 final size:40
Alignment explanation
Indices: 654118--654194 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
654108 ATAAATTGTA
* *
654118 AAATAGAAATACACATCATTTATAGGTTGAGTTGTGAGAT
1 AAATAGAAATACACATCATTTATAAGTTGAGTCGTGAGAT
* *
654158 AAATAGAAGTACACTTTCA-TTATAAGTTGAGTCGTGA
1 AAATAGAAATACAC-ATCATTTATAAGTTGAGTCGTGA
654195 TCTTAGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.32
Consensus pattern (40 bp):
AAATAGAAATACACATCATTTATAAGTTGAGTCGTGAGAT
Found at i:656109 original size:35 final size:34
Alignment explanation
Indices: 656024--656110 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
656014 AATATAATTT
*
656024 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
656058 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
656096 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
656111 ACTGAAATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:656200 original size:20 final size:20
Alignment explanation
Indices: 656170--656221 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
656160 TAAATGAGAA
* *
656170 ATAATAAAAAAATTAC-AAT
1 ATAACAAAAAAAATACAAAT
*
656189 TTAACAAAAAAAATACAAAT
1 ATAACAAAAAAAATACAAAT
*
656209 ATAATAAAAAAAA
1 ATAACAAAAAAAA
656222 ATCTATCGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (20 bp):
ATAACAAAAAAAATACAAAT
Found at i:658440 original size:253 final size:249
Alignment explanation
Indices: 657972--658474 Score: 938
Period size: 253 Copynumber: 2.0 Consensus size: 249
657962 CAACAAACCA
657972 AAAAGAGGAAATCCAGGTATTCTTCTTCTTCTTCTTCCAATTTTTATCTTTAATTTCTTGGAAGT
1 AAAAGAGGAAATCCAGGTATTCTTCTTCTTCTTCTTCCAATTTTTATCTTTAATTTCTTGGAAGT
658037 GTTTCTTCCTGTTTGCCATCTGTATCTTTTATTTTATTTTTTCAACAGTTAAATTTTACCTTTTT
66 GTTTCTTCCTGTTTGCCATCTGTATCTTTTATTTTATTTTTTCAACAGTTAAATTTTACCTTTTT
658102 TTATCATTTCGAGAAGAAATTCGAGGGTCCAATTATATTTGGATCTTCGGAATTCTTTTCTTGAA
131 TTATCATTTCGAGAAGAAATTCGAGGGTCCAATTATATTTGGATCTTCGGAATTCTTTTCTTGAA
658167 TTTGAAGCAAACCCATTTTAGAATCGGGGCTTAATTTTTCTGGGTTTTGGTTTG
196 TTTGAAGCAAACCCATTTTAGAATCGGGGCTTAATTTTTCTGGGTTTTGGTTTG
658221 AAAAGAGGAAATCCAGGTATTCTTCTTCTTCTTCTTCCAATTTTTATCTTTAATTTCTTGGAAGT
1 AAAAGAGGAAATCCAGGTATTCTTCTTCTTCTTCTTCCAATTTTTATCTTTAATTTCTTGGAAGT
658286 GTTTTTCTTCCTGTTTGCCCATCTGTATCTTTTATTTTATTTTTTCAACAGTTAAATTTTACCTT
66 G--TTTCTTCCTGTTTG-CCATCTGTATCTTTTATTTTATTTTTTCAACAGTTAAATTTTACC-T
658351 TTTTTTATCATTTCGAGAAGAAATTCGAGGGTCCAATT-TATATTGGATTCTTCGGAATTC-TTT
127 TTTTTTATCATTTCGAGAAGAAATTCGAGGGTCCAATTATAT-TTGGA-TCTTCGGAATTCTTTT
658414 CTTGAATTTGAAGCAAACCCATTTTAGAATCGGGGCTTAATTTTTCTGGGTTTTGGTTTG
190 CTTGAATTTGAAGCAAACCCATTTTAGAATCGGGGCTTAATTTTTCTGGGTTTTGGTTTG
658474 A
1 A
658475 TTCTCGAGTC
Statistics
Matches: 248, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
249 66 0.27
251 14 0.06
252 48 0.19
253 108 0.44
254 12 0.05
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (249 bp):
AAAAGAGGAAATCCAGGTATTCTTCTTCTTCTTCTTCCAATTTTTATCTTTAATTTCTTGGAAGT
GTTTCTTCCTGTTTGCCATCTGTATCTTTTATTTTATTTTTTCAACAGTTAAATTTTACCTTTTT
TTATCATTTCGAGAAGAAATTCGAGGGTCCAATTATATTTGGATCTTCGGAATTCTTTTCTTGAA
TTTGAAGCAAACCCATTTTAGAATCGGGGCTTAATTTTTCTGGGTTTTGGTTTG
Found at i:666387 original size:46 final size:48
Alignment explanation
Indices: 666334--666425 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 48
666324 GTAGGATACA
*
666334 AGGATCAATCAAGTTTTGA-TTAATCATAAGGCTC-AAAAGAAGATTG
1 AGGATCAATCAAGGTTTGATTTAATCATAAGGCTCAAAAAGAAGATTG
*
666380 AGGATCAATCAAGGTTTGATTTAATCATAAGTCTCAAAAAGAAGAT
1 AGGATCAATCAAGGTTTGATTTAATCATAAGGCTCAAAAAGAAGAT
666426 CGAAATTGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 18 0.43
47 14 0.33
48 10 0.24
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.28
Consensus pattern (48 bp):
AGGATCAATCAAGGTTTGATTTAATCATAAGGCTCAAAAAGAAGATTG
Found at i:674676 original size:20 final size:20
Alignment explanation
Indices: 674651--674704 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
674641 CGATTTTAGA
674651 AAATCGCAATGCGAATTTGT
1 AAATCGCAATGCGAATTTGT
674671 AAATCGCAATGCGAATTTGT
1 AAATCGCAATGCGAATTTGT
*
674691 AAATCGCAACGCGA
1 AAATCGCAATGCGA
674705 TTCTGATTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (20 bp):
AAATCGCAATGCGAATTTGT
Found at i:675809 original size:14 final size:14
Alignment explanation
Indices: 675780--675816 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
675770 AGAAAAAGAA
675780 GAAGAATAAATCCCC
1 GAAGAA-AAATCCCC
*
675795 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
675809 GAAGAAAA
1 GAAGAAAA
675817 TGCCACAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.19, T:0.08
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:677872 original size:18 final size:18
Alignment explanation
Indices: 677849--677883 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
677839 AGAAAAAGGC
*
677849 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
677867 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
677884 CAACTGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:678194 original size:140 final size:140
Alignment explanation
Indices: 677941--678223 Score: 512
Period size: 140 Copynumber: 2.0 Consensus size: 140
677931 GCAAACGTTG
* *
677941 TATTATGTGTATTTTATGTGTAATCTTTTAATATTTTCAGTTAGACATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
*
678006 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCACAACG
66 TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTCATTTGAATATCACAACG
678071 CGAATTTGAC
131 CGAATTTGAC
678081 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
* * *
678146 TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACATATTCATTTGACTATCGCAACG
66 TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTCATTTGAATATCACAACG
678211 CGAATTTGAC
131 CGAATTTGAC
678221 TAT
1 TAT
678224 CGCAACGCGA
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTCATTTGAATATCACAACG
CGAATTTGAC
Found at i:678219 original size:20 final size:20
Alignment explanation
Indices: 678194--678290 Score: 158
Period size: 20 Copynumber: 4.8 Consensus size: 20
678184 TTACATATTC
678194 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
678214 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
678234 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
678254 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
*
678274 ATTTGACTATCTCAACG
1 ATTTGACTATCGCAACG
678291 AGAAAATCGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:678505 original size:14 final size:14
Alignment explanation
Indices: 678486--678522 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
678476 CATCAATTAA
678486 ACAAATCAACTTTT
1 ACAAATCAACTTTT
678500 ACAAATCAACTTTT
1 ACAAATCAACTTTT
678514 ACAAATCAA
1 ACAAATCAA
678523 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:679949 original size:21 final size:21
Alignment explanation
Indices: 679920--680026 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 21
679910 GAATGGTGGG
* *
679920 AGAGACCTCTTCAACGATGAC
1 AGAGGCCTCTTAAACGATGAC
* * **
679941 AGGGGCCTCTTGAACGATGGG
1 AGAGGCCTCTTAAACGATGAC
* * * ** *
679962 AGGGGACTCTTGAGGGATGAT
1 AGAGGCCTCTTAAACGATGAC
*
679983 AGAGGACTCTTAAACGAT-AGC
1 AGAGGCCTCTTAAACGATGA-C
680004 AGAGGCCTCTTAAACGATGAC
1 AGAGGCCTCTTAAACGATGAC
680025 AG
1 AG
680027 TTGAGTCGGG
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
20 1 0.01
21 66 0.97
22 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.31, T:0.20
Consensus pattern (21 bp):
AGAGGCCTCTTAAACGATGAC
Found at i:679972 original size:42 final size:42
Alignment explanation
Indices: 679926--680026 Score: 94
Period size: 42 Copynumber: 2.4 Consensus size: 42
679916 TGGGAGAGAC
* * * * * * *
679926 CTCTTCAACGATGACAGGGGCCTCTTGAACGATGGGAGGGGA
1 CTCTTAAACGATGACAGAGGACTCTTAAACGATAGCAGAGGA
* ** * *
679968 CTCTTGAGGGATGATAGAGGACTCTTAAACGATAGCAGAGGC
1 CTCTTAAACGATGACAGAGGACTCTTAAACGATAGCAGAGGA
680010 CTCTTAAACGATGACAG
1 CTCTTAAACGATGACAG
680027 TTGAGTCGGG
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.21
Consensus pattern (42 bp):
CTCTTAAACGATGACAGAGGACTCTTAAACGATAGCAGAGGA
Found at i:680419 original size:13 final size:13
Alignment explanation
Indices: 680401--680442 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
680391 TTATTCTTGA
680401 AACTTAAATTTGC
1 AACTTAAATTTGC
680414 AACTTAAATTTGC
1 AACTTAAATTTGC
680427 AACTTAAATTTGC
1 AACTTAAATTTGC
680440 AAC
1 AAC
680443 ATTGTGAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (13 bp):
AACTTAAATTTGC
Found at i:680582 original size:20 final size:20
Alignment explanation
Indices: 680559--680626 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
680549 GAAACTTAAA
*
680559 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
680579 ATCGTAACGC-AGAAATGACT
1 ATCGCAACGCGA-AAATGACT
**
680599 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
680619 ATCGCAAC
1 ATCGCAAC
680627 AAGATAATCG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.02
20 39 0.95
21 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:680694 original size:19 final size:19
Alignment explanation
Indices: 680632--680685 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
680622 GCAACAAGAT
* **
680632 AATCGCAATGCGAAATAAA
1 AATCGCAACGCGAAACCAA
680651 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
*
680670 AATCGCAACGTGAAAC
1 AATCGCAACGCGAAAC
680686 TAAATTCGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:680715 original size:20 final size:20
Alignment explanation
Indices: 680690--680727 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
680680 TGAAACTAAA
680690 TTCGCGTTGCAATTTTCATT
1 TTCGCGTTGCAATTTTCATT
*
680710 TTCGCGTTGCGATTTTCA
1 TTCGCGTTGCAATTTTCA
680728 CGTTGCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (20 bp):
TTCGCGTTGCAATTTTCATT
Found at i:680726 original size:14 final size:14
Alignment explanation
Indices: 680707--680739 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
680697 TGCAATTTTC
*
680707 ATTTTCGCGTTGCG
1 ATTTTCACGTTGCG
680721 ATTTTCACGTTGCG
1 ATTTTCACGTTGCG
680735 ATTTT
1 ATTTT
680740 ATTTCGCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.48
Consensus pattern (14 bp):
ATTTTCACGTTGCG
Found at i:680794 original size:20 final size:19
Alignment explanation
Indices: 680740--680814 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
680730 TTGCGATTTT
*
680740 ATTTCGCATTGCGATAGTC
1 ATTTCGCGTTGCGATAGTC
* * *
680759 AAATTCGTGTTACGATAGTC
1 -ATTTCGCGTTGCGATAGTC
680779 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGATAGTC
680799 ATTTTCGCGTTGCGAT
1 A-TTTCGCGTTGCGAT
680815 TTTAAGTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.07
20 40 0.87
21 3 0.07
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (19 bp):
ATTTCGCGTTGCGATAGTC
Found at i:680831 original size:40 final size:38
Alignment explanation
Indices: 680721--680833 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 38
680711 TCGCGTTGCG
* *
680721 ATTTTCACGTTGCGATTTTATTTCGCATTGCGATAGTC
1 ATTTTCGCGTTGCGATTTTATTTCGCGTTGCGATAGTC
** * * * *
680759 AAATTCGTGTTACGATAGTCATTTCCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGAT-TTTATTT-CGCGTTGCGATAGTC
*
680799 ATTTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 ATTTTCGCGTTGCGATTTT-A-TTTCGCGTTGCGA
680834 CTATTCTTCT
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
38 11 0.20
39 6 0.11
40 36 0.64
41 3 0.05
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.42
Consensus pattern (38 bp):
ATTTTCGCGTTGCGATTTTATTTCGCGTTGCGATAGTC
Found at i:682753 original size:20 final size:20
Alignment explanation
Indices: 682730--682795 Score: 91
Period size: 19 Copynumber: 3.4 Consensus size: 20
682720 TCTGAAACTT
*
682730 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
682750 AAAACCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
*
682769 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
682788 AAAATCGC
1 AAAATCGC
682796 GTTGCAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
19 26 0.63
20 15 0.37
ACGTcount: A:0.50, C:0.24, G:0.17, T:0.09
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:683212 original size:22 final size:22
Alignment explanation
Indices: 683185--683235 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
683175 GATGGAGATA
683185 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
683207 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
*
683229 GATGGAT
1 GACGGAT
683236 GTCGCCGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.12, G:0.45, T:0.24
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:683467 original size:21 final size:21
Alignment explanation
Indices: 683443--683483 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
683433 ATTTACATAT
*
683443 TCGCATTGCGAATTTGGAAAA
1 TCGCATTGCGAATCTGGAAAA
*
683464 TCGCGTTGCGAATCTGGAAA
1 TCGCATTGCGAATCTGGAAA
683484 CTGATTTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (21 bp):
TCGCATTGCGAATCTGGAAAA
Found at i:689790 original size:14 final size:14
Alignment explanation
Indices: 689766--689793 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
689756 TTTTCAGAAT
689766 CTGTTTTTAATAAA
1 CTGTTTTTAATAAA
689780 CTGTTTTTAATAAA
1 CTGTTTTTAATAAA
689794 AAGCATACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
CTGTTTTTAATAAA
Found at i:695282 original size:9 final size:9
Alignment explanation
Indices: 695247--695303 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
695237 TTTATATCTA
*
695247 TAAAAAAAT
1 TAAATAAAT
*
695256 TATATAAA-
1 TAAATAAAT
*
695264 TAAA-ATAT
1 TAAATAAAT
695272 TAAATAAAT
1 TAAATAAAT
*
695281 TAAAT-ACT
1 TAAATAAAT
695289 TAAATAAAT
1 TAAATAAAT
695298 TAAATA
1 TAAATA
695304 CAAAATATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
7 2 0.05
8 14 0.37
9 22 0.58
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAATAAAT
Found at i:695284 original size:17 final size:17
Alignment explanation
Indices: 695249--695301 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
695239 TATATCTATA
* *
695249 AAAAAATTATATAAA-T
1 AAAATATTAAATAAATT
695265 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
695282 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
695299 AAA
1 AAA
695302 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 18 0.56
17 12 0.38
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:695302 original size:17 final size:17
Alignment explanation
Indices: 695259--695304 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
695249 AAAAAATTAT
*
695259 ATAAATAAAATA-TTAA
1 ATAAATTAAATACTTAA
695275 ATAAATTAAATACTTAA
1 ATAAATTAAATACTTAA
695292 ATAAATTAAATAC
1 ATAAATTAAATAC
695305 AAAATATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATTAAATACTTAA
Found at i:697553 original size:2 final size:2
Alignment explanation
Indices: 697546--697571 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
697536 TTTTCTTTTC
697546 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
697572 TCTAGTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:700348 original size:25 final size:25
Alignment explanation
Indices: 700319--700371 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
700309 ATAAAACCTG
*
700319 GAGAAAAAAAGAAGGGACGGAAAGT
1 GAGAAAAAAAAAAGGGACGGAAAGT
700344 GAGAAAAAAAAAAGGGACGGAAAGT
1 GAGAAAAAAAAAAGGGACGGAAAGT
700369 GAG
1 GAG
700372 GGAAAACCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.57, C:0.04, G:0.36, T:0.04
Consensus pattern (25 bp):
GAGAAAAAAAAAAGGGACGGAAAGT
Found at i:700377 original size:26 final size:26
Alignment explanation
Indices: 700321--700377 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
700311 AAAACCTGGA
700321 GAAAAAAAGAAGGGACGGAAAGTGA-
1 GAAAAAAAGAAGGGACGGAAAGTGAG
*
700346 GAAAAAAAAAAGGGACGGAAAGTGAG
1 GAAAAAAAGAAGGGACGGAAAGTGAG
*
700372 GGAAAA
1 GAAAAA
700378 CCTGGAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.58, C:0.04, G:0.35, T:0.04
Consensus pattern (26 bp):
GAAAAAAAGAAGGGACGGAAAGTGAG
Found at i:702653 original size:19 final size:18
Alignment explanation
Indices: 702621--702665 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
702611 AATTGAACAT
702621 CGATGCA-TTACATGCAC
1 CGATGCACTTACATGCAC
*
702638 CGATGCACTATACATGCAT
1 CGATGCACT-TACATGCAC
702657 CGATGCACT
1 CGATGCACT
702666 CTGATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 7 0.28
18 1 0.04
19 17 0.68
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (18 bp):
CGATGCACTTACATGCAC
Found at i:708629 original size:21 final size:21
Alignment explanation
Indices: 708599--708683 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
708589 TACATCCCCT
*
708599 TGAATGTGCATCGATGCATCA
1 TGAATATGCATCGATGCATCA
* * *
708620 TGAAGATGCACCGATGCATTCCT
1 TGAATATGCATCGATGCA-T-CA
*
708643 TGAATATGCATCGATGCATAA
1 TGAATATGCATCGATGCATCA
* *
708664 AGACTATGCATCGATGCATC
1 TGAATATGCATCGATGCATC
708684 CATCGGATTT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
21 32 0.63
22 2 0.04
23 17 0.33
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (21 bp):
TGAATATGCATCGATGCATCA
Found at i:708651 original size:23 final size:23
Alignment explanation
Indices: 708581--708661 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 23
708571 CACTTGTCAG
* * *
708581 TGCATCGATACATCCCCTTGAATG
1 TGCATCGATGCAT-TCCTTGAATA
* *
708605 TGCATCGATGCA-T-CATGAAGA
1 TGCATCGATGCATTCCTTGAATA
*
708626 TGCACCGATGCATTCCTTGAATA
1 TGCATCGATGCATTCCTTGAATA
708649 TGCATCGATGCAT
1 TGCATCGATGCAT
708662 AAAGACTATG
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 16 0.35
22 1 0.02
23 18 0.39
24 11 0.24
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (23 bp):
TGCATCGATGCATTCCTTGAATA
Found at i:708673 original size:44 final size:44
Alignment explanation
Indices: 708596--708682 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
708586 CGATACATCC
* * *
708596 CCTTGAATGTGCATCGATGCATCATGAAGATGCACCGATGCATT
1 CCTTGAATATGCATCGATGCATAAAGAAGATGCACCGATGCATT
** *
708640 CCTTGAATATGCATCGATGCATAAAGACTATGCATCGATGCAT
1 CCTTGAATATGCATCGATGCATAAAGAAGATGCACCGATGCAT
708683 CCATCGGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
CCTTGAATATGCATCGATGCATAAAGAAGATGCACCGATGCATT
Found at i:710225 original size:21 final size:21
Alignment explanation
Indices: 710199--710242 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
710189 ACTCCAGGAG
*
710199 CTAGTTCTTCTCGAGCTGCTC
1 CTAGTTCTTCTCGAGCTCCTC
*
710220 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCTCGAGCTCCTC
710241 CT
1 CT
710243 CCTCCTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.36, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCTCGAGCTCCTC
Found at i:711339 original size:19 final size:19
Alignment explanation
Indices: 711315--711351 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
711305 TCGAATGCAT
711315 TACATGCACCGATGCACTA
1 TACATGCACCGATGCACTA
*
711334 TACATGCATCGATGCACT
1 TACATGCACCGATGCACT
711352 CTGATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (19 bp):
TACATGCACCGATGCACTA
Found at i:711388 original size:66 final size:64
Alignment explanation
Indices: 711301--711460 Score: 180
Period size: 66 Copynumber: 2.5 Consensus size: 64
711291 GAATAAATTG
* * * *
711301 AACATCGAATGCATTACATGCACCGATGCACTATA-CATGCATCGATGCACTC-TGATTTTAAAT
1 AACATCGAATGCATTTCATGCATCGATGCAC-ACACCATGCATCGATGCACTCAGGATTTT---T
*
711364 GAA
62 CAA
* * * *
711367 AACATCGAATGCATTTGATGCATCGATGAACACACCATGCATCGATGCATTCAGGCTTTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACACCATGCATCGATGCACTCAGGATTTTTCAA
*
711431 AACATCGAATGCATTTTATGCATCGATGCA
1 AACATCGAATGCATTTCATGCATCGATGCA
711461 TACTTAGTGC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 31 0.38
65 2 0.02
66 43 0.53
67 5 0.06
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACACCATGCATCGATGCACTCAGGATTTTTCAA
Found at i:719129 original size:12 final size:12
Alignment explanation
Indices: 719101--719129 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
719091 ATAATCATAT
719101 ATCATATTTTTA
1 ATCATATTTTTA
719113 A-CATATTTTTA
1 ATCATATTTTTA
719124 ATCATA
1 ATCATA
719130 AAATCAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (12 bp):
ATCATATTTTTA
Found at i:725579 original size:21 final size:21
Alignment explanation
Indices: 725555--725594 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
725545 TCTTGCTCTT
725555 CTTCACCCTCTTCATCATCAC
1 CTTCACCCTCTTCATCATCAC
* *
725576 CTTCATCCTCTTCTTCATC
1 CTTCACCCTCTTCATCATC
725595 TTCACCCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.45, G:0.00, T:0.40
Consensus pattern (21 bp):
CTTCACCCTCTTCATCATCAC
Found at i:725603 original size:18 final size:18
Alignment explanation
Indices: 725566--725628 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
725556 TTCACCCTCT
* * *
725566 TCATCATCACCTTCATCC
1 TCATCTTCATCTTCACCC
*
725584 TCTTCTTCATCTTCACCC
1 TCATCTTCATCTTCACCC
* * *
725602 TCAGCTTCTTCATCACCC
1 TCATCTTCATCTTCACCC
725620 TCATCTTCA
1 TCATCTTCA
725629 GCATTATTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.17, C:0.43, G:0.02, T:0.38
Consensus pattern (18 bp):
TCATCTTCATCTTCACCC
Found at i:725611 original size:24 final size:24
Alignment explanation
Indices: 725563--725612 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
725553 TTCTTCACCC
* *
725563 TCTTCATCATCACCTTCATCCTCT
1 TCTTCATCATCACCCTCAGCCTCT
* *
725587 TCTTCATCTTCACCCTCAGCTTCT
1 TCTTCATCATCACCCTCAGCCTCT
725611 TC
1 TC
725613 ATCACCCTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.14, C:0.42, G:0.02, T:0.42
Consensus pattern (24 bp):
TCTTCATCATCACCCTCAGCCTCT
Found at i:729342 original size:17 final size:17
Alignment explanation
Indices: 729320--729361 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
729310 TCGTTCGTGT
729320 TTTTAAATAA-ATGTTTA
1 TTTTAAATAATAT-TTTA
*
729337 TTTTAATTAATATTTTA
1 TTTTAAATAATATTTTA
729354 TTTTAAAT
1 TTTTAAAT
729362 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTAAATAATATTTTA
Found at i:730689 original size:18 final size:18
Alignment explanation
Indices: 730666--730754 Score: 142
Period size: 18 Copynumber: 4.9 Consensus size: 18
730656 ACTGAATATT
*
730666 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
* *
730684 TGTCCCGTAGAACCACTA
1 TGTCCCGAAGGACCACTA
730702 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
730720 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
730738 TGTCCCGAAAGACCACT
1 TGTCCCGAAGGACCACT
730755 GTTAATCCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:735545 original size:18 final size:18
Alignment explanation
Indices: 735522--735556 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
735512 ACTGAATATT
735522 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
735540 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
735557 GTTAATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:743883 original size:18 final size:18
Alignment explanation
Indices: 743860--743894 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
743850 ATTATTCTAG
743860 TTGAATTATCGAGTCAAC
1 TTGAATTATCGAGTCAAC
743878 TTGAATTATCGAGTCAA
1 TTGAATTATCGAGTCAA
743895 TTTTCGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (18 bp):
TTGAATTATCGAGTCAAC
Found at i:755226 original size:21 final size:21
Alignment explanation
Indices: 755184--755226 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
755174 CTTCTTCTCC
* *
755184 CCGCTCGCGTTCCCGGTTCCT
1 CCGCTCGCGTTCCCGATCCCT
755205 CCGCTCG-GATTCCCGATCCCT
1 CCGCTCGCG-TTCCCGATCCCT
755226 C
1 C
755227 TCCCGCTGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.05, C:0.49, G:0.21, T:0.26
Consensus pattern (21 bp):
CCGCTCGCGTTCCCGATCCCT
Found at i:756332 original size:27 final size:26
Alignment explanation
Indices: 756293--756395 Score: 77
Period size: 27 Copynumber: 3.8 Consensus size: 26
756283 CATTAGGTAA
756293 AAATTA-CAAAAATATCTTTATGAGTAG
1 AAATTATC-AAAATA-CTTTATGAGTAG
*
756320 AAATTATCAAAATACTCTTAT-ACGTAA
1 AAATTATCAAAATACT-TTATGA-GTAG
*
756347 AAATTATTAAAATACCTTTATG-GATAG
1 AAATTATCAAAATA-CTTTATGAG-TAG
* *
756374 AAAATGACCAAAATACTCTTAT
1 -AAATTATCAAAATACT-TTAT
756396 ATGTGGAAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
26 4 0.06
27 40 0.65
28 18 0.29
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.33
Consensus pattern (26 bp):
AAATTATCAAAATACTTTATGAGTAG
Found at i:756349 original size:54 final size:55
Alignment explanation
Indices: 756289--756396 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 55
756279 ATACCATTAG
* * *
756289 GTAAAAATTACAAAAATATCTTTAT-GAGTAG-AAATTATCAAAATACTCTTATAC
1 GTAAAAATTACAAAAATACCTTTATGGA-TAGAAAATGACCAAAATACTCTTATAC
**
756343 GTAAAAATTATTAAAATACCTTTATGGATAGAAAATGACCAAAATACTCTTATA
1 GTAAAAATTACAAAAATACCTTTATGGATAGAAAATGACCAAAATACTCTTATA
756397 TGTGGAAAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
54 25 0.53
55 22 0.47
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (55 bp):
GTAAAAATTACAAAAATACCTTTATGGATAGAAAATGACCAAAATACTCTTATAC
Found at i:757105 original size:20 final size:21
Alignment explanation
Indices: 757067--757108 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
757057 ACTATTAGTA
757067 AAACAACATCAATCATTTTAT
1 AAACAACATCAATCATTTTAT
*
757088 AAACAAC-TCAAATCTTTTTAT
1 AAACAACATC-AATCATTTTAT
757109 CAGAACTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (21 bp):
AAACAACATCAATCATTTTAT
Found at i:759097 original size:19 final size:20
Alignment explanation
Indices: 759060--759097 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
759050 ATCTTTTAAG
759060 ATAAAATATTTACTCAAACA
1 ATAAAATATTTACTCAAACA
*
759080 ATAAATTATTTACT-AAAC
1 ATAAAATATTTACTCAAAC
759098 TAATCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAAAATATTTACTCAAACA
Found at i:762953 original size:17 final size:17
Alignment explanation
Indices: 762931--762969 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
762921 CTGTGTCCCG
*
762931 ACCCGGATGTTACGGGT
1 ACCCGGATGTTACAGGT
* *
762948 ACCCGGATTTTGCAGGT
1 ACCCGGATGTTACAGGT
762965 ACCCG
1 ACCCG
762970 TTTTTTCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.23
Consensus pattern (17 bp):
ACCCGGATGTTACAGGT
Found at i:764147 original size:185 final size:185
Alignment explanation
Indices: 763818--764202 Score: 625
Period size: 185 Copynumber: 2.1 Consensus size: 185
763808 TTTTCTAATT
* * *
763818 TATATAA-AAATTAAATGTTTTTTAATTAAAAAAAGTTTATAATTAATTTAAATAATATATAATT
1 TATATAATATATTTAATGTTTTTTAATTAAAAAAAGTTTACAATTAATTTAAATAATATATAATT
763882 ATAAAATAAAAAAATTTCAGATAGATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
66 ATAAAATAAAAAAATTTCAGATAGATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
* * * *
763947 TGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTA
131 TAGATCTTAAATTATTAATTGGGTTTCAAATAGTTTGGGCTAAGCCCATATGTTA
*
764002 TATATAATATATTTAATTTTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATGTTTTTTAATT-AAAAAA-AGTTTACAATTAATTTAAATAATATATAA
*
764067 TTATAAAAT-AAAAAATTT-ATATA-ATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGT
64 TTATAAAATAAAAAAATTTCAGATAGA-TTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGT
*
764129 TATTAGATCTTAAATTATTAATTGGGTTTCAAATAGTTTGGGCTAAGCCTATATGTTA
128 TATTAGATCTTAAATTATTAATTGGGTTTCAAATAGTTTGGGCTAAGCCCATATGTTA
764187 TATATAATATATTTAA
1 TATATAATATATTTAA
764203 AATTTAAAAT
Statistics
Matches: 187, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
184 8 0.04
185 127 0.68
186 15 0.08
187 37 0.20
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.45
Consensus pattern (185 bp):
TATATAATATATTTAATGTTTTTTAATTAAAAAAAGTTTACAATTAATTTAAATAATATATAATT
ATAAAATAAAAAAATTTCAGATAGATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
TAGATCTTAAATTATTAATTGGGTTTCAAATAGTTTGGGCTAAGCCCATATGTTA
Found at i:766146 original size:22 final size:22
Alignment explanation
Indices: 766112--766162 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
766102 CTGAGTGGCA
*
766112 TATGAAATTTGTCCCAAAGGACC
1 TATG-AATATGTCCCAAAGGACC
* **
766135 TGTGAATATGTCCTGAAGGACC
1 TATGAATATGTCCCAAAGGACC
766157 TATGAA
1 TATGAA
766163 ACCCTCGACT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (22 bp):
TATGAATATGTCCCAAAGGACC
Found at i:766560 original size:43 final size:43
Alignment explanation
Indices: 766499--766585 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
766489 TCACCTTGGC
*
766499 CTTCTTGCATTGGTTCAATCCTAATTCTTCGATTATTCCGGAA
1 CTTCTTGCATTGGTTCAATCCTAATTCTTCGATTAGTCCGGAA
*
766542 CTTCTTGCGTTGGTTCAATCCTAATTCTTCGATTAGTCCGGAA
1 CTTCTTGCATTGGTTCAATCCTAATTCTTCGATTAGTCCGGAA
766585 C
1 C
766586 GAAATTACGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (43 bp):
CTTCTTGCATTGGTTCAATCCTAATTCTTCGATTAGTCCGGAA
Found at i:774180 original size:171 final size:171
Alignment explanation
Indices: 773889--774234 Score: 665
Period size: 171 Copynumber: 2.0 Consensus size: 171
773879 CCCTAATTCA
773889 TAAATACCTAAAACTATAATTAAGTTTAGGAATTGAGGCTACGAGAAAGGAATATCTAGCAGTAG
1 TAAATACCTAAAACTATAATTAAGTTTAGGAATTGAGGCTACGAGAAAGGAATATCTAGCAGTAG
*
773954 GGGTCCAGTGACGGGTGGGTGGTTGCCTAGAATAGGACTGTAAATGAGCCGAGTCGACTCGAAAA
66 GGGTCCAGTGACGGATGGGTGGTTGCCTAGAATAGGACTGTAAATGAGCCGAGTCGACTCGAAAA
774019 TTATAAAATGAAGTTCGACTCAGCTCGAAAACTCGCGAGCT
131 TTATAAAATGAAGTTCGACTCAGCTCGAAAACTCGCGAGCT
774060 TAAATACCTAAAACTATAATTAAGTTTAGGAATTGAGGCTACGAGAAAGGAATATCTAGCAGTAG
1 TAAATACCTAAAACTATAATTAAGTTTAGGAATTGAGGCTACGAGAAAGGAATATCTAGCAGTAG
* *
774125 GGGTCCAGTGACGGATGGGTGGTTGCCTAGAATAGGGCTGTAAATGAGTCGAGTCGACTCGAAAA
66 GGGTCCAGTGACGGATGGGTGGTTGCCTAGAATAGGACTGTAAATGAGCCGAGTCGACTCGAAAA
774190 TTATAAAATGAAGTTCGACTCAGCTCGAAAACTCGCGAGCT
131 TTATAAAATGAAGTTCGACTCAGCTCGAAAACTCGCGAGCT
774231 TAAA
1 TAAA
774235 ATTTTCAAAC
Statistics
Matches: 172, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 172 1.00
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (171 bp):
TAAATACCTAAAACTATAATTAAGTTTAGGAATTGAGGCTACGAGAAAGGAATATCTAGCAGTAG
GGGTCCAGTGACGGATGGGTGGTTGCCTAGAATAGGACTGTAAATGAGCCGAGTCGACTCGAAAA
TTATAAAATGAAGTTCGACTCAGCTCGAAAACTCGCGAGCT
Found at i:774830 original size:27 final size:27
Alignment explanation
Indices: 774800--774853 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
774790 ATCTTATGAT
774800 AAATATATTATCTTTATTAAAAATCGA
1 AAATATATTATCTTTATTAAAAATCGA
774827 AAATATATTATCTTTATTAAAAATCGA
1 AAATATATTATCTTTATTAAAAATCGA
774854 TTAATAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (27 bp):
AAATATATTATCTTTATTAAAAATCGA
Found at i:790278 original size:18 final size:19
Alignment explanation
Indices: 790254--790301 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
790244 TTAGTCCCTT
790254 TTATTATATATTCAT-TTA
1 TTATTATATATTCATGTTA
*
790272 TTTTTAT-TATTCATGTTA
1 TTATTATATATTCATGTTA
790290 TTATTATTATAT
1 TTATTA-TATAT
790302 ATATATAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 7 0.28
18 14 0.56
19 1 0.04
20 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATTATATATTCATGTTA
Found at i:791941 original size:18 final size:19
Alignment explanation
Indices: 791918--791953 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
791908 ATCTTATTAA
791918 CTCTTTCATTTT-TTTCCT
1 CTCTTTCATTTTATTTCCT
*
791936 CTCTTTTATTTTATTTCC
1 CTCTTTCATTTTATTTCC
791954 ATCATCTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (19 bp):
CTCTTTCATTTTATTTCCT
Found at i:792455 original size:160 final size:153
Alignment explanation
Indices: 792163--792476 Score: 556
Period size: 160 Copynumber: 2.0 Consensus size: 153
792153 CTATCAGCCT
792163 AAAACAGAACAATGTGCAGGAGCTTCGATATCTGGGACGTGGAAGAAAGATCGGAAACAGAAGTT
1 AAAACAGAACAATGTGCAGGAGCTTCGATATCTGGGACGTGGAAGAAAGATCGGAAACAGAAGTT
792228 CAGCCACGGTACGGTGACATTGCACTTTTACTTCACGTAGGATTGATGAGCCCTTGATTAGAGCC
66 CAGCCACGGTACGGTGACATTGCACTTTTACTTCACGTAGGATTGATGAGCCCTTGATTAGAGCC
792293 ATGGTCCAATTCTGGAACCCGGA
131 ATGGTCCAATTCTGGAACCCGGA
*
792316 AAAACAGAACAATGTGCAGGAGCTTCGAGATATCTGGGACAGTTGGAAGAATGATCGGAAACAGA
1 AAAACAGAACAATGTGCAGGAGCTTC--GATATCTGGGAC-G-TGGAAGAAAGATCGGAAACAGA
792381 AGTTCAGCCAACGGGTACGGTGACATTGCACTTTTACTTCACGTTAGGATTGATGAGCCCTTGAT
62 AGTTCAGCC-AC-GGTACGGTGACATTGCACTTTTACTTCACG-TAGGATTGATGAGCCCTTGAT
792446 TAGAGCCATGGTCCAATTCTGGAACCCGGA
124 TAGAGCCATGGTCCAATTCTGGAACCCGGA
792476 A
1 A
792477 TACAGTTGTT
Statistics
Matches: 153, Mismatches: 1, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
153 26 0.17
155 12 0.08
156 1 0.01
157 30 0.20
158 2 0.01
159 30 0.20
160 52 0.34
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (153 bp):
AAAACAGAACAATGTGCAGGAGCTTCGATATCTGGGACGTGGAAGAAAGATCGGAAACAGAAGTT
CAGCCACGGTACGGTGACATTGCACTTTTACTTCACGTAGGATTGATGAGCCCTTGATTAGAGCC
ATGGTCCAATTCTGGAACCCGGA
Found at i:795414 original size:183 final size:183
Alignment explanation
Indices: 795106--795640 Score: 950
Period size: 183 Copynumber: 2.9 Consensus size: 183
795096 ATTAAATCCG
* *
795106 TAAAGCTAAGCTATTCCACTATGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
795171 ATAGATTATGTTCAAACTATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
795236 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
795289 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
795354 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
* * *
795419 TTGTCAGGCCGAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTT
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
795472 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** *
795537 ATAGATTACATTCAAA-TCATGAAATTGCTCGGACACTTGGCAATTC-GTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
795600 TTTGTCAGGTCAAAGACTTTGTGATG-GATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
795641 TAAACATAAA
Statistics
Matches: 338, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
181 14 0.04
182 42 0.12
183 282 0.83
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:796826 original size:36 final size:34
Alignment explanation
Indices: 796786--796899 Score: 86
Period size: 36 Copynumber: 3.2 Consensus size: 34
796776 CACTCAAATT
796786 TGTTTTTCTTAAAACATACTTTGTCTCACTTGAGAC
1 TGTTTTTCTTAAAACA-A-TTTGTCTCACTTGAGAC
* * * ** *
796822 TGTTTTTCTCGAAAGA-AGATTTATTTCACTCAAGAT
1 TGTTTTTCT-TAAA-ACA-ATTTGTCTCACTTGAGAC
*
796858 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC
1 TGTTTTTCTTAAAAC-A-ATTTGTCTCACTTGAGAC
*
796894 CGTTTT
1 TGTTTT
796900 CACTCGAAAG
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
34 1 0.02
35 3 0.05
36 49 0.83
37 5 0.08
38 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (34 bp):
TGTTTTTCTTAAAACAATTTGTCTCACTTGAGAC
Found at i:796862 original size:72 final size:75
Alignment explanation
Indices: 796770--796944 Score: 218
Period size: 72 Copynumber: 2.4 Consensus size: 75
796760 ATGCATATGA
* * * *
796770 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTC
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTC
796832 GAAAGAA-G-AT
64 GAAAGAAGGCAT
*
796842 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
796907 AAGAAGGCAT
66 AAGAAGGCAT
**
796917 TTCATTTCACTCAAGGCTGTTTTT-TTAA
1 TT-ATTTCACTCAAGATTGTTTTTCTTAA
796945 GAAGATTTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
71 1 0.01
72 50 0.56
73 11 0.12
74 1 0.01
75 8 0.09
76 19 0.21
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
AAGAAGGCAT
Found at i:796979 original size:73 final size:72
Alignment explanation
Indices: 796786--796981 Score: 177
Period size: 72 Copynumber: 2.7 Consensus size: 72
796776 CACTCAAATT
* * * * *
796786 TGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTCGAAAGAAGATTTATTTC
1 TGTTTTTCTT-AAACA-AGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAGATTTATTTC
*
796849 ACTCAAGAT
64 ACTCAAGAC
* *
796858 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAGGCATTTCATT
1 TGTTTTTCTT-AAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAA-G-ATTT-ATT
*
796923 TCACTCAAGGC
62 TCACTCAAGAC
* * * *
796934 TGTTTTT-TT-AAGAAGATTTTATCTTGCTTGAGATAG-TTTCCCTCGAAA
1 TGTTTTTCTTAAACAAGA-TTTATCTCGCTTGAGACAGTTTTCACTCGAAA
796982 CATAAAATTT
Statistics
Matches: 106, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
71 1 0.01
72 37 0.35
73 27 0.25
74 16 0.15
75 6 0.06
76 19 0.18
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (72 bp):
TGTTTTTCTTAAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAGATTTATTTCAC
TCAAGAC
Found at i:797124 original size:104 final size:104
Alignment explanation
Indices: 797015--797278 Score: 440
Period size: 103 Copynumber: 2.5 Consensus size: 104
797005 ACAGTTTCTC
*
797015 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAAT
1 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
797080 TGTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 TGTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * *
797119 TTGAAAACATTTCCCTTGAAA-TGATTTTTTTTCTCTTGAGATAGTTTCTCTCGAAACAGAAAAT
1 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
*
797183 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 TGTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * * *
797222 TTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAA
1 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAA
797279 ATAATTTAAC
Statistics
Matches: 147, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
103 98 0.67
104 49 0.33
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (104 bp):
TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
TGTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:797656 original size:105 final size:105
Alignment explanation
Indices: 797456--798086 Score: 912
Period size: 105 Copynumber: 6.0 Consensus size: 105
797446 ATATCGTGAC
* * * * * * *
797456 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
797521 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
797562 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
797627 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
797667 ACTTCAGACAACGCAAGTTAAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
797732 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
797772 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
797837 ATCTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
797877 ACTCCAGACAACGCAAGTTCAACTCCACGACGAATGGACCGCTGCTTGTCAATAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
** *
797938 A-TTCAGATTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
797977 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
** * * * *
798042 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGGTATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
798083 ACTC
1 ACTC
798087 GGAACAATGC
Statistics
Matches: 478, Mismatches: 41, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
100 78 0.16
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 305 0.64
106 82 0.17
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:798722 original size:37 final size:37
Alignment explanation
Indices: 798629--798732 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
798619 ATTTTCGTCA
* *
798629 TACTAGGATTCAAACTCCTAAAAATATGATAAAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
* * *
798666 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
* * * *
798703 TACTAAGATTTAAATTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
798733 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
Found at i:799117 original size:18 final size:17
Alignment explanation
Indices: 799076--799126 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 17
799066 TATTAGTCCC
799076 TTTATTTATTATATATTCA
1 TTTATTT-TTAT-TATTCA
799095 TTTATTTTTATTATTCA
1 TTTATTTTTATTATTCA
*
799112 TGTTATTATTATTAT
1 T-TTATTTTTATTAT
799127 ATATATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.23
18 16 0.53
19 7 0.23
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATTTTTATTATTCA
Found at i:799328 original size:9 final size:9
Alignment explanation
Indices: 799309--799408 Score: 77
Period size: 9 Copynumber: 11.2 Consensus size: 9
799299 TCTTATAACC
799309 TTATATATTT
1 TTAT-TATTT
799319 TTATTATTT
1 TTATTATTT
799328 TTATTATTT
1 TTATTATTT
*
799337 TCATT-TTT
1 TTATTATTT
*
799345 TTATTCATTA
1 TTATT-ATTT
*
799355 TTATTA-TA
1 TTATTATTT
799363 TTATTATTT
1 TTATTATTT
*
799372 TT-TTA-TC
1 TTATTATTT
799379 TTACTTATTT
1 TTA-TTATTT
799389 ATT-TTATTT
1 -TTATTATTT
799398 ATT-TTATTT
1 -TTATTATTT
799407 TT
1 TT
799409 CCCTTGTATC
Statistics
Matches: 77, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
7 3 0.04
8 20 0.26
9 40 0.52
10 12 0.16
11 2 0.03
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (9 bp):
TTATTATTT
Found at i:799369 original size:21 final size:21
Alignment explanation
Indices: 799320--799370 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
799310 TATATATTTT
*
799320 TATTATT-TTTATTATTTTCA
1 TATTATTATTCATTATTTTCA
* *
799340 TTTTTTTATTCATTATTATT-A
1 TATTATTATTCATTATT-TTCA
799361 TATTATTATT
1 TATTATTATT
799371 TTTTTATCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 5 0.21
21 17 0.71
22 2 0.08
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTATTATTCATTATTTTCA
Found at i:805240 original size:6 final size:6
Alignment explanation
Indices: 805229--805266 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
805219 ATACTTATTC
805229 GGACAT GGACAT GGACAT GGACAT GGACAT GGACAT GG
1 GGACAT GGACAT GGACAT GGACAT GGACAT GGACAT GG
805267 GGTAGTGTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.37, T:0.16
Consensus pattern (6 bp):
GGACAT
Found at i:809184 original size:2 final size:2
Alignment explanation
Indices: 809179--809226 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
809169 TTTTGATGTA
809179 AT AT 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 AT AT
809221 AT AT AT
1 AT AT AT
809227 TGTGTTTGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:809463 original size:23 final size:23
Alignment explanation
Indices: 809437--809505 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 23
809427 TATACTCTTA
809437 ATTTTTTAATTTTTATATAATTT
1 ATTTTTTAATTTTTATATAATTT
*
809460 A-TTTTT-ATTTTTTTATAATTTT
1 ATTTTTTAATTTTTATATAA-TTT
*
809482 ATTTTTTTAAATTTTAATATAATT
1 A-TTTTTT-AATTTTTATATAATT
809506 AAAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 11 0.29
22 9 0.24
23 1 0.03
24 5 0.13
25 2 0.05
26 10 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTTTTAATTTTTATATAATTT
Found at i:809471 original size:22 final size:22
Alignment explanation
Indices: 809439--809487 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
809429 TACTCTTAAT
809439 TTTTTAATTTTTATATAA-TTTA
1 TTTTTAATTTTT-TATAATTTTA
*
809461 TTTTTATTTTTTTATAATTTTA
1 TTTTTAATTTTTTATAATTTTA
809483 TTTTT
1 TTTTT
809488 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTAATTTTTTATAATTTTA
Found at i:809481 original size:16 final size:15
Alignment explanation
Indices: 809462--809497 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
809452 TATAATTTAT
809462 TTTTATTTTTTTATAA
1 TTTTATTTTTTTA-AA
809478 TTTTATTTTTTTAAA
1 TTTTATTTTTTTAAA
809493 TTTTA
1 TTTTA
809498 ATATAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTATTTTTTTAAA
Found at i:827226 original size:9 final size:9
Alignment explanation
Indices: 827214--827281 Score: 70
Period size: 9 Copynumber: 7.6 Consensus size: 9
827204 AATAAAAGAG
827214 AAAAATGAA
1 AAAAATGAA
827223 AAAAATGAA
1 AAAAATGAA
827232 AAATAAT-AA
1 AAA-AATGAA
*
827241 TAAAAATGAG
1 -AAAAATGAA
*
827251 AAGAA-GAA
1 AAAAATGAA
827259 AAAGAA-GAA
1 AAA-AATGAA
827268 AAAAATGAA
1 AAAAATGAA
827277 AAAAA
1 AAAAA
827282 AGGAAAATGA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
8 6 0.12
9 37 0.74
10 7 0.14
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.10
Consensus pattern (9 bp):
AAAAATGAA
Found at i:827323 original size:25 final size:25
Alignment explanation
Indices: 827295--827346 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
827285 AAAATGATGG
827295 AAAAACGAAAAGGAAAAAAGAAAAA
1 AAAAACGAAAAGGAAAAAAGAAAAA
** * *
827320 AAAATGGAAAATGAAAAAAGAGAAA
1 AAAAACGAAAAGGAAAAAAGAAAAA
827345 AA
1 AA
827347 TGAAAAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (25 bp):
AAAAACGAAAAGGAAAAAAGAAAAA
Found at i:827354 original size:42 final size:44
Alignment explanation
Indices: 827207--827355 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 44
827197 AAGAAGAAAT
*
827207 AAAAGAGAAAAATGAAAAAAATGAAAAATAATAAT-AAAAATGAGA
1 AAAAGAGAAAAATGAAAAAAATGAAAAA-AA-AATGGAAAATGAGA
* *
827252 AGAAGA-AAAAGAAGAAAAAAATG-AAAAAAAA-GGAAAATGATGGA
1 AAAAGAGAAAA-ATGAAAAAAATGAAAAAAAAATGGAAAATGA--GA
* *
827296 AAAA-CG-AAAA-GGAAAAAA-GAAAAAAAAATGGAAAATGA-A
1 AAAAGAGAAAAATGAAAAAAATGAAAAAAAAATGGAAAATGAGA
827335 AAAAGAGAAAAATGAAAAAAA
1 AAAAGAGAAAAATGAAAAAAA
827356 GAGAAATAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 23
0.74 0.07 0.20
Matches are distributed among these distances:
39 5 0.06
40 2 0.02
41 19 0.22
42 26 0.30
43 5 0.06
44 13 0.15
45 16 0.19
ACGTcount: A:0.74, C:0.01, G:0.17, T:0.08
Consensus pattern (44 bp):
AAAAGAGAAAAATGAAAAAAATGAAAAAAAAATGGAAAATGAGA
Found at i:827362 original size:15 final size:16
Alignment explanation
Indices: 827327--827361 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
827317 AAAAAAATGG
827327 AAAATGAAAAAAGAGA
1 AAAATGAAAAAAGAGA
827343 AAAATGAAAAAAAGAGA
1 AAAATG-AAAAAAGAGA
827360 AA
1 AA
827362 TAAAAGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (16 bp):
AAAATGAAAAAAGAGA
Found at i:828743 original size:51 final size:51
Alignment explanation
Indices: 828678--829162 Score: 495
Period size: 55 Copynumber: 9.1 Consensus size: 51
828668 GAAGCAAACT
828678 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * *
828729 GGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
*
828780 AGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
828831 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * * *
828882 AGTTCGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACA
1 CGTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
** * * *
828937 CGTTT-TATGAAGATTGTTCGAGTTATATACTCCCTGAATGAATAGGGAGCGGACC
1 CGTTTGT-TGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * * * **
828992 CGTTTGTTGAAGATTATTCGAGTCTTATATTCCCTGAACGAATAGGGAACATACA
1 CGTTTGTTGAAG---ATT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * *
829047 CGTTTGTTGAAGATTGTTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACA
1 CGTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * *
829102 CGTTTGTTGAAGATTGTTTGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACA
1 CGTTTGTTGAAGA----TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
829157 CGTTTG
1 CGTTTG
829163 CTAAGGATTG
Statistics
Matches: 389, Mismatches: 32, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
51 159 0.41
52 1 0.00
54 3 0.01
55 221 0.57
56 4 0.01
58 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (51 bp):
CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
Found at i:828948 original size:55 final size:54
Alignment explanation
Indices: 828693--829226 Score: 412
Period size: 55 Copynumber: 9.9 Consensus size: 54
828683 GTTGAAGATT
* * * *
828693 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAGGTTCGTTGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACGTT-TTTGAAGATTGTTC
* *
828744 GAGTCCTATACTCTCTGAAGGAATAGGGAGC-AGACAAGTTTGTTGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGA-ACACGTTT-TTGAAGATTGTTC
* * * *
828795 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACGTT-TTTGAAGATTGTTC
* * * *
828846 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACGTT-TTTGAAGATTGTTC
*
828901 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACACGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACGTTTT-TGAAGATTGTTC
* * * * * *
828956 GAGTTATATACTCCCTGAATGAATAGGGAGCGGACCCGTTTGTTGAAGATTATTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACGTTT-TTGAAGATTGTTC
* * * *
829011 GAG-TCTTATATTCCCTGAACGAATAGGGAAC-ATACACGTTTGTTGAAGATTGTTC
1 GAGTTC-TATACTCTCTGAAGGAATAGGGAGCGA-ACACGTTT-TTGAAGATTGTTC
* * *
829066 GAG-TCTTATACTCCCTGAACGAATAGGGAGC-AGACACGTTTGTTGAAGATTGTTT
1 GAGTTC-TATACTCTCTGAAGGAATAGGGAGCGA-ACACGTTT-TTGAAGATTGTTC
* * *
829121 GAG-TCTTATACTCCCTGAATGAATAGGGAGC-AGACACGTTTGCT-AAGGATTGTTC
1 GAGTTC-TATACTCTCTGAAGGAATAGGGAGCGA-ACACGTTT-TTGAA-GATTGTTC
* * *
829176 GAG-TCTTATACTC-CTTGAAAGAAAAGGGAGC-AGACCCGTTGTTTGAAGATT
1 GAGTTC-TATACTCTC-TGAAGGAATAGGGAGCGA-ACACGTT-TTTGAAGATT
829227 TTTCAAGTAT
Statistics
Matches: 432, Mismatches: 35, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
51 142 0.33
54 7 0.02
55 279 0.65
56 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (54 bp):
GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACGTTTTTGAAGATTGTTC
Found at i:829004 original size:110 final size:106
Alignment explanation
Indices: 828678--829228 Score: 490
Period size: 110 Copynumber: 5.2 Consensus size: 106
828668 GAAGCAAACT
* * * *
828678 CGTTTGTTGAAGA--TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAGGTTCGTTGAAG
1 CGTTTGTTGAAGATTTTGAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACGTT-TTTGAAG
* *
828741 A---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
65 ATTGTTCGAGT-TTATACTCCCTGAAGGAATAGGGAGCAGACA
* * * * *
828780 AGTTTGTTGAAGA--TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAG
1 CGTTTGTTGAAGATTTTGAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACGTT-TTTGAAG
* * *
828843 A---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
65 ATTGTTCGAGT-TTATACTCCCTGAAGGAATAGGGAGCAGACA
* * *
828882 AGTTCGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACACGTTTTATGA
1 CGTTTGTTGAAGATT-TT-GAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACGTTTT-TGA
* * *
828947 AGATTGTTCGAGTTATATACTCCCTGAATGAATAGGGAGCGGACC
63 AGATTGTTCGAGTT-TATACTCCCTGAAGGAATAGGGAGCAGACA
* * * *
828992 CGTTTGTTGAAGATTATTCGAG-TCTTATATTCCCTGAACGAATAGGGAAC-ATACACGTTTGTT
1 CGTTTGTTGAAGATT-TT-GAGTTC-TATACTCTCTGAAGGAATAGGGAGCGA-ACACGTTT-TT
*
829055 GAAGATTGTTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACA
61 GAAGATTGTTCGAGT-TTATACTCCCTGAAGGAATAGGGAGCAGACA
* * *
829102 CGTTTGTTGAAGATTGTTTGAG-TCTTATACTCCCTGAATGAATAGGGAGC-AGACACGTTTGCT
1 CGTTTGTTGAAGA-T-TTTGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGA-ACACGTTT-TT
* * * *
829165 -AAGGATTGTTCGAGTCTTATACTCCTTGAAAGAAAAGGGAGCAGACC
61 GAA-GATTGTTCGAGT-TTATACTCCCTGAAGGAATAGGGAGCAGACA
829212 CG-TTGTTTGAAGATTTT
1 CGTTTG-TTGAAGATTTT
829229 TCAAGTATCA
Statistics
Matches: 398, Mismatches: 33, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
102 111 0.28
105 3 0.01
106 42 0.11
108 3 0.01
109 11 0.03
110 222 0.56
111 5 0.01
112 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (106 bp):
CGTTTGTTGAAGATTTTGAGTTCTATACTCTCTGAAGGAATAGGGAGCGAACACGTTTTTGAAGA
TTGTTCGAGTTTATACTCCCTGAAGGAATAGGGAGCAGACA
Found at i:829078 original size:165 final size:163
Alignment explanation
Indices: 828678--829226 Score: 571
Period size: 165 Copynumber: 3.4 Consensus size: 163
828668 GAAGCAAACT
* * * * * *
828678 CGTTTGTTGAAG---ATT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAGGTTCGTTGA
1 CGTTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTGTTGA
* *
828739 AGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACAAGTTTGTTGAAGA---TTGA
66 AGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTGA
* * *
828797 GTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
131 GT-TTATACTCCCTGAATGAATAGGGAGCGGACA
* * * * * * * *
828831 AGTTCGTTGAAG---ATT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGA
1 CGTTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTGTTGA
*
828892 AGATTGTTCGAGT-TCTATACTCTCTGAAGGAATAGAGAGC-GAACACGTTT-TATGAAGATTGT
66 AGATTGTTCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCAG-ACACGTTTGT-TGAAGATTGT
*
828954 TCGAGTTATATACTCCCTGAATGAATAGGGAGCGGACC
128 T-GAGTT-TATACTCCCTGAATGAATAGGGAGCGGACA
* * * *
828992 CGTTTGTTGAAGATTATTCGAGTCTTATATTCCCTGAACGAATAGGGAACATACACGTTTGTTGA
1 CGTTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTGTTGA
* *
829057 AGATTGTTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTTG
66 AGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTG-TTG
*
829122 AGTCTTATACTCCCTGAATGAATAGGGAGCAGACA
130 AGT-TTATACTCCCTGAATGAATAGGGAGCGGACA
* * * * *
829157 CGTTTGCT-AAGGATTGTTCGAGTCTTATACTCCTTGAAAGAAAAGGGAGCAGACCCG-TTGTTT
1 CGTTTGTTGAA-GATTATTCGAGTCTTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTG-TT
829220 GAAGATT
64 GAAGATT
829227 TTTCAAGTAT
Statistics
Matches: 338, Mismatches: 35, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
153 61 0.18
156 4 0.01
157 41 0.12
160 2 0.01
161 41 0.12
164 8 0.02
165 175 0.52
166 6 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (163 bp):
CGTTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTGTTGA
AGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTGA
GTTTATACTCCCTGAATGAATAGGGAGCGGACA
Found at i:834122 original size:64 final size:63
Alignment explanation
Indices: 834009--834127 Score: 166
Period size: 63 Copynumber: 1.9 Consensus size: 63
833999 TGTACAGCAT
* * *
834009 GAGAGATATAATGCCACTAGTCCATGCTTGGGATTTATTAATCACAAGAAAACGATACAACAC
1 GAGAGATACAATGCCACAAGTCCATGCCTGGGATTTATTAATCACAAGAAAACGATACAACAC
* * * *
834072 GAGAGATACAATGTCACAAGTCTATGCCTGGGCATTTATTAATTATAAGAAAACGA
1 GAGAGATACAATGCCACAAGTCCATGCCTGGG-ATTTATTAATCACAAGAAAACGA
834128 AAGTGCATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 27 0.56
64 21 0.44
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.25
Consensus pattern (63 bp):
GAGAGATACAATGCCACAAGTCCATGCCTGGGATTTATTAATCACAAGAAAACGATACAACAC
Found at i:835089 original size:486 final size:486
Alignment explanation
Indices: 834165--835105 Score: 1381
Period size: 486 Copynumber: 1.9 Consensus size: 486
834155 TTAATTCCAT
*
834165 TCAATAAGCTGGAAGATATCACAGCCTTGATGATCATAAATTTGGTAGTTTGCCAACACGATGGA
1 TCAATAAGCTGGAAGATATCACAGCCTTGATGATCATAAATTCGGTAGTTTGCCAACACGATGGA
* * **
834230 CTCGTATGTTGGATTAGCCAAACCCCATTGGCATAAATAGCATCCTGATTGCACATGAACAATCC
66 CTCGTATGATGGATCAGCCAAACCCCATAAGCATAAATAGCATCCTGATTGCACATGAACAATCC
*** * * * * *
834295 GGACCGTCTTCTTAGCAGGGTCTACAGGGGCAAACTTGAACAACGTGCATGACTCCTTGGACTGG
131 GGACCGAAGTCATAGCAGAGTCCACAGGGACAAACTTGAACAACGTGCATGACTCCTTGGACAGG
* * ***
834360 TCTTCCTCCTTGTTGCTGGCTGTTGCAGTAATCCAATACTGCTCGGCTGGGTTTCCGGTGATGGA
196 TCTTCCTCCTTCTTGCTGGCGGTTGCAGTAATCCAATACTGCTCCAATGGGTTTCCGGTGATGGA
* *
834425 AAGATTTTTGCTTCTTTCCCAATATTTGTTGTTTGTGCGACTTCTTATGTGGAACAAACCATCTG
261 AAGATTTTTGCTTCTTTCCCAATATTTGTTGTTTGTGCAACTTCGTATGTGGAACAAACCATCTG
* * * *
834490 CGCTAGCAACCTCCATTTCAAATTTTGCATATGGGCTCTCAGCATAAGTCTCGAAAAATTTGAGA
326 CGCTAGCAACCTCCACTTCAAATTTTGCAAATGGGCTCTCAACATAAGTCTCGAAAAACTTGAGA
* * *
834555 TAACCATCTATGGTTTCAGCATCACGAACATAGCCCAAGTATACACCTTTGGGATTGAATCCAAG
391 TAACCATCGATGGTTTCACCATCACGAACATAGCCCAAGTAAACACCTTTGGGATTGAATCCAAG
834620 TGTGATCAACTTCGCGGTTGGCAATTTCAAA
456 TGTGATCAACTTCGCGGTTGGCAATTTCAAA
* * *
834651 TCAATAAGTTGGAAGATATCACAGCCTTGATGATCATGAATTCGGTAGTTTGCCAACACGAT-GC
1 TCAATAAGCTGGAAGATATCACAGCCTTGATGATCATAAATTCGGTAGTTTGCCAACACGATGGA
* * *
834715 CGTGGTATGATGGATCAGCC-AACTTCCATAAGCATAAATAGCATCCTGATTGGACATGAACAAT
66 C-TCGTATGATGGATCAGCCAAAC-CCCATAAGCATAAATAGCATCCTGATTGCACATGAACAAT
* * *
834779 CCGGACCGAAGTCATAGTAGAGTCCACAGGGATACACTTGAACAACGTGCATGACTCCTTGGACA
129 CCGGACCGAAGTCATAGCAGAGTCCACAGGGACAAACTTGAACAACGTGCATGACTCCTTGGACA
834844 GGTCTTCCTCCTTCTTG-TCGGCGGTTGCAGTAATCCAATACTGCTCCAATGGGTTTCCGGTGAT
194 GGTCTTCCTCCTTCTTGCT-GGCGGTTGCAGTAATCCAATACTGCTCCAATGGGTTTCCGGTGAT
834908 GGAAAGATTTTTGCTTCTTTCCCAATATTTGTTGTTT-TGGCAACTTCGTATGTGGAACAAACCA
258 GGAAAGATTTTTGCTTCTTTCCCAATATTTGTTGTTTGT-GCAACTTCGTATGTGGAACAAACCA
* ** * *
834972 TCTGCGTTAGCAACCTCCACTTGGAATTTTGCAAATGGGCTCTCAACATCAGTTTCGAAAAACTT
322 TCTGCGCTAGCAACCTCCACTTCAAATTTTGCAAATGGGCTCTCAACATAAGTCTCGAAAAACTT
* ** *
835037 GAGATACCCATCGAT-GTTTCCACCATCA-GCAACATAGGTCAAGTAAACACCTTTGGGGTTGAA
387 GAGATAACCATCGATGGTTT-CACCATCACG-AACATAGCCCAAGTAAACACCTTTGGGATTGAA
835100 TCCAAG
450 TCCAAG
835106 AGCAATAAAG
Statistics
Matches: 404, Mismatches: 45, Indels: 12
0.88 0.10 0.03
Matches are distributed among these distances:
485 12 0.03
486 392 0.97
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (486 bp):
TCAATAAGCTGGAAGATATCACAGCCTTGATGATCATAAATTCGGTAGTTTGCCAACACGATGGA
CTCGTATGATGGATCAGCCAAACCCCATAAGCATAAATAGCATCCTGATTGCACATGAACAATCC
GGACCGAAGTCATAGCAGAGTCCACAGGGACAAACTTGAACAACGTGCATGACTCCTTGGACAGG
TCTTCCTCCTTCTTGCTGGCGGTTGCAGTAATCCAATACTGCTCCAATGGGTTTCCGGTGATGGA
AAGATTTTTGCTTCTTTCCCAATATTTGTTGTTTGTGCAACTTCGTATGTGGAACAAACCATCTG
CGCTAGCAACCTCCACTTCAAATTTTGCAAATGGGCTCTCAACATAAGTCTCGAAAAACTTGAGA
TAACCATCGATGGTTTCACCATCACGAACATAGCCCAAGTAAACACCTTTGGGATTGAATCCAAG
TGTGATCAACTTCGCGGTTGGCAATTTCAAA
Found at i:852019 original size:23 final size:23
Alignment explanation
Indices: 851989--852094 Score: 160
Period size: 23 Copynumber: 4.7 Consensus size: 23
851979 TCTCAGACAA
*
851989 ATGGAAGAAGAAGAAACGGGTTT
1 ATGGAAGAAGAAGAAATGGGTTT
*
852012 ATGGAAGAA-AAAAAATGGGTTT
1 ATGGAAGAAGAAGAAATGGGTTT
* *
852034 ATGGAAGAAAAAGAAATGAGTTT
1 ATGGAAGAAGAAGAAATGGGTTT
*
852057 ATGGAAGAAGAGGAAATGGGTTT
1 ATGGAAGAAGAAGAAATGGGTTT
852080 ATGGAAGAAGAAGAA
1 ATGGAAGAAGAAGAA
852095 TAGTGCAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
22 20 0.27
23 54 0.73
ACGTcount: A:0.48, C:0.01, G:0.32, T:0.19
Consensus pattern (23 bp):
ATGGAAGAAGAAGAAATGGGTTT
Found at i:852057 original size:45 final size:46
Alignment explanation
Indices: 851989--852094 Score: 160
Period size: 45 Copynumber: 2.3 Consensus size: 46
851979 TCTCAGACAA
*
851989 ATGGAAGAAGAAGAAACGGGTTTATGGAAGAA-AAAAAATGGGTTT
1 ATGGAAGAAGAAGAAACGAGTTTATGGAAGAAGAAAAAATGGGTTT
* * **
852034 ATGGAAGAAAAAGAAATGAGTTTATGGAAGAAGAGGAAATGGGTTT
1 ATGGAAGAAGAAGAAACGAGTTTATGGAAGAAGAAAAAATGGGTTT
852080 ATGGAAGAAGAAGAA
1 ATGGAAGAAGAAGAA
852095 TAGTGCAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
45 29 0.54
46 25 0.46
ACGTcount: A:0.48, C:0.01, G:0.32, T:0.19
Consensus pattern (46 bp):
ATGGAAGAAGAAGAAACGAGTTTATGGAAGAAGAAAAAATGGGTTT
Found at i:852490 original size:16 final size:13
Alignment explanation
Indices: 852460--852502 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
852450 TGGTTTTCAT
852460 TATTAAAAAAATA
1 TATTAAAAAAATA
*
852473 TATTAAAAAAAGTT
1 TATTAAAAAAA-TA
*
852487 TATATATAAAAATA
1 TAT-TAAAAAAATA
852501 TA
1 TA
852503 GATAACTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.44
14 7 0.28
15 7 0.28
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (13 bp):
TATTAAAAAAATA
Found at i:854988 original size:31 final size:31
Alignment explanation
Indices: 854951--855045 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 31
854941 TGACCATTTT
*
854951 GTAACTTTTAATAGTCGAGAGACTCAAGAAA
1 GTAACTTTTAATAGTCGAGAGACTCAACAAA
* * ****
854982 GTAACTTCCT-ATAGTCGGGAGA-TC-ATTTT
1 GTAACTT-TTAATAGTCGAGAGACTCAACAAA
855011 GTAACTTTTAATAGTCGAGAGACTCAACAAA
1 GTAACTTTTAATAGTCGAGAGACTCAACAAA
855042 GTAA
1 GTAA
855046 TATCCTATAG
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
28 1 0.02
29 19 0.40
30 4 0.08
31 23 0.48
32 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAACTTTTAATAGTCGAGAGACTCAACAAA
Found at i:855012 original size:60 final size:59
Alignment explanation
Indices: 854933--855068 Score: 211
Period size: 60 Copynumber: 2.3 Consensus size: 59
854923 AATATAATAA
* * *
854933 ATAGTCTGTGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAAGAAAGTAACT-TCCT
1 ATAGTCGGGGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGTAA-TATCCT
*
854992 ATAGTCGGGAGATCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGTAATATCCT
1 ATAGTCGGG-GACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGTAATATCCT
855052 ATAGTCGGGGACCATTT
1 ATAGTCGGGGACCATTT
855069 GTGTTGTTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
59 15 0.21
60 55 0.79
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (59 bp):
ATAGTCGGGGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGTAATATCCT
Found at i:855024 original size:29 final size:30
Alignment explanation
Indices: 854945--855036 Score: 98
Period size: 29 Copynumber: 3.1 Consensus size: 30
854935 AGTCTGTGAC
854945 CATTTTGTAACTTTTAATAGTCGAGAGACT
1 CATTTTGTAACTTTTAATAGTCGAGAGACT
**** * *
854975 CAAGAAAGTAACTTCCT-ATAGTCGGGAGA-T
1 C-ATTTTGTAACTT-TTAATAGTCGAGAGACT
855005 CATTTTGTAACTTTTAATAGTCGAGAGACT
1 CATTTTGTAACTTTTAATAGTCGAGAGACT
855035 CA
1 CA
855037 ACAAAGTAAT
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
28 1 0.02
29 19 0.41
30 6 0.13
31 19 0.41
32 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (30 bp):
CATTTTGTAACTTTTAATAGTCGAGAGACT
Found at i:856555 original size:18 final size:18
Alignment explanation
Indices: 856532--856569 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
856522 TACAAAGAAT
856532 ATTT-AAATTATATAAAAA
1 ATTTAAAATT-TATAAAAA
*
856550 ATTTAAAATTTTTAAAAA
1 ATTTAAAATTTATAAAAA
856568 AT
1 AT
856570 GTGATTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAAAATTTATAAAAA
Found at i:868136 original size:27 final size:27
Alignment explanation
Indices: 868098--868150 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
868088 AACTTTGAAA
868098 TTCAAAGCTTAAAGATCATTTTTCTTG
1 TTCAAAGCTTAAAGATCATTTTTCTTG
868125 TTCAAAGCTTAAAGATCATTTTTCTT
1 TTCAAAGCTTAAAGATCATTTTTCTT
868151 CAACTTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.45
Consensus pattern (27 bp):
TTCAAAGCTTAAAGATCATTTTTCTTG
Done.