Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007853.1 Hibiscus syriacus cultivar Beakdansim tig00110213_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: 2309479
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:677761 original size:30 final size:31
Alignment explanation
Indices: 677727--677799 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
677717 CACGTCGGAC
* *
677727 ACCATATTGCAAAGGA-A-TAAATGTTGGGGG
1 ACCATATTGCAAA-CATACTAAATGTTGGAGG
677757 ACCATATTGCAAACATACTAAATGTTGGAGG
1 ACCATATTGCAAACATACTAAATGTTGGAGG
*
677788 ACTATATTGCAA
1 ACCATATTGCAA
677800 GTTTTAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.03
30 14 0.37
31 23 0.61
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (31 bp):
ACCATATTGCAAACATACTAAATGTTGGAGG
Found at i:693369 original size:41 final size:41
Alignment explanation
Indices: 693271--693369 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
693261 GTTCCTCAGC
* * * **
693271 CGTTAATCCTCATGAACCCATTAATGGAATTTTTTCTCGGT
1 CGTTAATCCTCATTAACCCACTAATGGAATTTTCTCTCAAT
*
693312 CGTTAATTCC-CGTTAACCCACTAATGGAAGTTTTCT-TCAAT
1 CGTTAA-TCCTCATTAACCCACTAATGGAA-TTTTCTCTCAAT
693353 CGTTAATCCTCATTAAC
1 CGTTAATCCTCATTAAC
693370 GAAAGTCTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
40 3 0.06
41 37 0.77
42 8 0.17
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.37
Consensus pattern (41 bp):
CGTTAATCCTCATTAACCCACTAATGGAATTTTCTCTCAAT
Found at i:708557 original size:194 final size:194
Alignment explanation
Indices: 708228--708619 Score: 775
Period size: 194 Copynumber: 2.0 Consensus size: 194
708218 CTAGAAGAAT
708228 GATGAATGCATGTTGCCACCTATATTATGAATGCAAATGAGCTAAATATAAAGGCATGTGCATTG
1 GATGAATGCATGTTGCCACCTATATTATGAATGCAAATGAGCTAAATATAAAGGCATGTGCATTG
708293 AATGAGCTAAAAAATGATGCATAAACATTGCATAAGCATAAAAAATGAGTTAAGAATAAATGTGT
66 AATGAGCTAAAAAATGATGCATAAACATTGCATAAGCATAAAAAATGAGTTAAGAATAAATGTGT
708358 ATGCATAGATTGGGCTAAGAATGAATGCATGAGCTAACATAACCATGAAATGTGCTTAAGTAAA
131 ATGCATAGATTGGGCTAAGAATGAATGCATGAGCTAACATAACCATGAAATGTGCTTAAGTAAA
708422 GATGAATGCATGTTGCCACCTATATTATGAATGCAAATGAGCTAAATATAAAGGCATGTGCATTG
1 GATGAATGCATGTTGCCACCTATATTATGAATGCAAATGAGCTAAATATAAAGGCATGTGCATTG
*
708487 AATGAGCTAAAGAATGATGCATAAACATTGCATAAGCATAAAAAATGAGTTAAGAATAAATGTGT
66 AATGAGCTAAAAAATGATGCATAAACATTGCATAAGCATAAAAAATGAGTTAAGAATAAATGTGT
708552 ATGCATAGATTGGGCTAAGAATGAATGCATGAGCTAACATAACCATGAAATGTGCTTAAGTAAA
131 ATGCATAGATTGGGCTAAGAATGAATGCATGAGCTAACATAACCATGAAATGTGCTTAAGTAAA
708616 GATG
1 GATG
708620 TTATATGCAT
Statistics
Matches: 197, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
194 197 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (194 bp):
GATGAATGCATGTTGCCACCTATATTATGAATGCAAATGAGCTAAATATAAAGGCATGTGCATTG
AATGAGCTAAAAAATGATGCATAAACATTGCATAAGCATAAAAAATGAGTTAAGAATAAATGTGT
ATGCATAGATTGGGCTAAGAATGAATGCATGAGCTAACATAACCATGAAATGTGCTTAAGTAAA
Found at i:709059 original size:4 final size:4
Alignment explanation
Indices: 709050--709077 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
709040 ATAATTAAAT
709050 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
709078 GTTAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:709323 original size:64 final size:64
Alignment explanation
Indices: 709244--709372 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
709234 AAATAATATA
709244 CTTTAAAGGCAATAGTGCATTTATGCTTTATTTTTAAAAAAATAGTTAGAAACAAGCCTAGGTC
1 CTTTAAAGGCAATAGTGCATTTATGCTTTATTTTTAAAAAAATAGTTAGAAACAAGCCTAGGTC
**
709308 CTTTAAAGGCAATAGTGCATTTATGCTTTATTTTTAAAAAAATAGTTAGATTCAAGCCTAGGTC
1 CTTTAAAGGCAATAGTGCATTTATGCTTTATTTTTAAAAAAATAGTTAGAAACAAGCCTAGGTC
709372 C
1 C
709373 CTCTCTGCTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (64 bp):
CTTTAAAGGCAATAGTGCATTTATGCTTTATTTTTAAAAAAATAGTTAGAAACAAGCCTAGGTC
Found at i:711637 original size:32 final size:31
Alignment explanation
Indices: 711593--711677 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
711583 AGAAAGTTCG
* *
711593 GGGCCACGGGGCCTACCTAAGAACACATCTTA
1 GGGCCACAGGGCCTACCTAAGAA-ACATCTCA
* ** **
711625 GGGCCGCAGGGCCTACCCGAGAATGATCTCA
1 GGGCCACAGGGCCTACCTAAGAAACATCTCA
*
711656 GGGCCACAGAGCCTACCTAAGA
1 GGGCCACAGGGCCTACCTAAGA
711678 GTCACATTAG
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.55
32 19 0.45
ACGTcount: A:0.27, C:0.32, G:0.28, T:0.13
Consensus pattern (31 bp):
GGGCCACAGGGCCTACCTAAGAAACATCTCA
Found at i:711641 original size:61 final size:63
Alignment explanation
Indices: 711556--711677 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 63
711546 ACCTAAGGGA
* * *
711556 ACATCTTAGGGCCTGAGAGCCTACCCAAGAAAG-T-TCGGGGCCACGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGAAAGATCTCAGGGCCACAGAGCCTACCTAAGAAC
* * *
711617 ACATCTTAGGGCC-GCAGGGCCTACCCGAGAATGATCTCAGGGCCACAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGAAAGATCTCAGGGCCACAGAGCCTACCTAAGA
711678 GTCACATTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 1 0.02
61 28 0.54
62 1 0.02
63 22 0.42
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGAAAGATCTCAGGGCCACAGAGCCTACCTAAGAAC
Found at i:712174 original size:26 final size:26
Alignment explanation
Indices: 712145--712194 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
712135 ATGTTTTTCC
712145 ATTCATTTC-AAAGCTTGATGATATCT
1 ATTCATTTCTAAA-CTTGATGATATCT
*
712171 ATTCATTTCTAAACTTGGTGATAT
1 ATTCATTTCTAAACTTGATGATAT
712195 TCTTGAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (26 bp):
ATTCATTTCTAAACTTGATGATATCT
Found at i:718925 original size:20 final size:20
Alignment explanation
Indices: 718902--718954 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
718892 AACGCGATCC
718902 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
718922 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
718942 CCAAAAATCGCAA
1 CC-AGAATCGCAA
718955 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:719035 original size:20 final size:20
Alignment explanation
Indices: 719010--719203 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
719000 GATTTTCCAT
* *
719010 AATCGCAACGCGAATA-TTAA
1 AATCGCAACGCGAACACAT-A
719030 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
719050 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
719070 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
719090 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
719110 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
719130 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
719150 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
719171 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
719191 AATCGCAACGCGA
1 AATCGCAACGCGA
719204 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 2 0.01
20 120 0.86
21 16 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:719073 original size:40 final size:39
Alignment explanation
Indices: 719029--719203 Score: 197
Period size: 40 Copynumber: 4.4 Consensus size: 39
719019 GCGAATATTA
719029 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAAC-CATAAATCGCAACGCGTATCCGT
* * * **
719069 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGT
1 AAATCGCAACGCG-AACCATAAATCGCAACGCGTATCCGT
* * * *
719109 AAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCG-AACCATAAATCGCAACGCGTATCCGT
** *
719149 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAA-CCAT-AAATCGCAACGCGTATCCGT
719190 AAATCGCAACGCGA
1 AAATCGCAACGCGA
719204 TATTTAAAGC
Statistics
Matches: 113, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 79 0.70
41 33 0.29
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGAACCATAAATCGCAACGCGTATCCGT
Found at i:719093 original size:60 final size:60
Alignment explanation
Indices: 719029--719202 Score: 249
Period size: 60 Copynumber: 2.9 Consensus size: 60
719019 GCGAATATTA
* *
719029 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
* *** * *
719089 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
**
719149 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCG
719203 ATATTTAAAG
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 66 0.68
61 31 0.32
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
Found at i:719619 original size:33 final size:33
Alignment explanation
Indices: 719580--719650 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
719570 TTCACTTAGA
*
719580 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
719613 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
719646 TTTCA
1 TTTCA
719651 AGTTAGTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:719786 original size:14 final size:14
Alignment explanation
Indices: 719767--719820 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
719757 AGAATGACTG
719767 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
719781 TCGCAACGCGAATGAAAA
1 TCGCAA--CG-A-GAGAA
719799 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
719813 TCGCAACG
1 TCGCAACG
719821 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 4 0.12
17 1 0.03
18 10 0.29
ACGTcount: A:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:719854 original size:19 final size:18
Alignment explanation
Indices: 719832--719928 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
719822 GAAACCAAAA
*
719832 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
719851 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
719865 TCTCGTTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
719883 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
* *
719897 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATT-TCATT
719916 TCGCGTTGCGATT
1 TCGCGTTGCGATT
719929 CTCTCGTTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
14 20 0.31
15 4 0.06
16 2 0.03
17 6 0.09
18 10 0.16
19 22 0.34
ACGTcount: A:0.10, C:0.25, G:0.23, T:0.42
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:719873 original size:14 final size:14
Alignment explanation
Indices: 719854--719942 Score: 88
Period size: 14 Copynumber: 5.7 Consensus size: 14
719844 TTTCATTTCG
719854 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
719868 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
719886 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
719900 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
719917 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
719933 CGTTGCGATT
1 CGTTGCGATT
719943 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 28 0.44
15 4 0.06
16 5 0.08
17 8 0.12
18 11 0.17
19 8 0.12
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:719925 original size:33 final size:33
Alignment explanation
Indices: 719837--719950 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
719827 CAAAATCGCA
719837 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
719870 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
719902 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
719935 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
719951 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 32 0.42
33 44 0.58
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:721928 original size:93 final size:93
Alignment explanation
Indices: 721632--722096 Score: 859
Period size: 93 Copynumber: 5.0 Consensus size: 93
721622 TAGATTGCTT
*
721632 AGTAAATTTATTCGG-TGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
721696 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
721724 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
721788 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
721816 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
721881 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
721909 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAA-ACATGTGAAAATAG
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACAC-TGTG-AAATAG
721973 TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
64 TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
722003 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
722067 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
722094 AGT
1 AGT
722097 TTCATTTGCA
Statistics
Matches: 365, Mismatches: 3, Indels: 11
0.96 0.01 0.03
Matches are distributed among these distances:
91 30 0.08
92 114 0.31
93 129 0.35
94 90 0.25
95 2 0.01
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:721968 original size:185 final size:187
Alignment explanation
Indices: 721632--722096 Score: 861
Period size: 185 Copynumber: 2.5 Consensus size: 187
721622 TAGATTGCTT
*
721632 AGTAAATTTATTCGG-TGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
721696 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
721761 GTGTATTCTTTAACACTGTG-AAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
721816 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
721881 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
721946 GTGTATTCTTTAA-ACATGTGAAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACAC-TGTGAAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
722003 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
722067 -TTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
722097 TTCATTTGCA
Statistics
Matches: 274, Mismatches: 3, Indels: 7
0.96 0.01 0.02
Matches are distributed among these distances:
184 16 0.06
185 160 0.58
186 12 0.04
187 86 0.31
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (187 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:722151 original size:19 final size:19
Alignment explanation
Indices: 722127--722224 Score: 84
Period size: 19 Copynumber: 5.4 Consensus size: 19
722117 TAGTTTACTT
* *
722127 TCGCAACACGAACTTAAAA
1 TCGCAACGCGAACTCAAAA
722146 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCG-AACTCAAAA
* *
722165 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAACTCAAAA
*
722184 TCGCAA--CG-A--CAGAA
1 TCGCAACGCGAACTCAAAA
722198 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCG-AACTCAAAA
722217 TCGCAACG
1 TCGCAACG
722225 ACAAGATCGC
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
14 9 0.14
16 3 0.05
17 2 0.03
18 3 0.05
19 45 0.69
20 3 0.05
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAACTCAAAA
Found at i:722205 original size:33 final size:32
Alignment explanation
Indices: 722162--722254 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
722152 CGCGAAACCA
**
722162 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
722194 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
722227 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
722255 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:722252 original size:52 final size:51
Alignment explanation
Indices: 722142--722254 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 51
722132 ACACGAACTT
* *
722142 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAAC-AC
* * *
722194 AGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGATCGCAACGCGAAAC-C
1 AAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-AT-GAAAAGCGAAACAC
722246 AAAATCGCA
1 AAAATCGCA
722255 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
52 41 0.79
53 3 0.06
54 8 0.15
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (51 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAACAC
Found at i:722254 original size:19 final size:19
Alignment explanation
Indices: 722142--722254 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
722132 ACACGAACTT
722142 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
**
722161 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACC
722180 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
722194 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
722213 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
722227 AAGATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
722246 AAAATCGCA
1 AAAATCGCA
722255 TTGCGATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 46 0.60
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:722272 original size:19 final size:19
Alignment explanation
Indices: 722250--722384 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
722240 GAAACCAAAA
*
722250 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
722269 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
722285 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
722302 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
722318 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
722335 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
722354 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
722374 TCGTGTTGCGA
1 TCGCGTTGCGA
722385 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:722291 original size:14 final size:14
Alignment explanation
Indices: 722272--722328 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
722262 TTTCATTTCG
722272 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
722286 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
722303 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
722319 CGTTGCGATT
1 CGTTGCGATT
722329 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:722297 original size:33 final size:33
Alignment explanation
Indices: 722255--722347 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
722245 CAAAATCGCA
*
722255 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
722288 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
722321 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
722348 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:724178 original size:13 final size:14
Alignment explanation
Indices: 724153--724187 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
724143 ATTGTTTAAT
724153 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
724167 TGATTTGT-AAAGT
1 TGATTTGTAAAAGA
724180 TGATTTGT
1 TGATTTGT
724188 GTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:724310 original size:19 final size:19
Alignment explanation
Indices: 724294--724395 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
724284 AAAAATGACT
724294 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
724313 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
724332 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
724346 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
724365 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
724385 ATCGCAATGCG
1 ATCGCAATGCG
724396 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:724454 original size:19 final size:19
Alignment explanation
Indices: 724424--724713 Score: 348
Period size: 19 Copynumber: 16.7 Consensus size: 19
724414 GATTATCTCG
724424 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
724442 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
724461 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
724475 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
724494 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
724508 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
724527 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
724546 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
724560 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
724579 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
724598 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
724617 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
724631 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
724650 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
724669 TTGCGA--TTC---TCG--
1 TTGCGATTTTCATTTCGCA
724681 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
724701 TTGCGATTTTCAT
1 TTGCGATTTTCAT
724714 GTTGGATTTT
Statistics
Matches: 237, Mismatches: 6, Indels: 56
0.79 0.02 0.19
Matches are distributed among these distances:
12 6 0.03
14 30 0.13
16 30 0.13
17 33 0.14
18 8 0.03
19 117 0.49
20 13 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:724482 original size:33 final size:35
Alignment explanation
Indices: 724424--724709 Score: 284
Period size: 33 Copynumber: 8.3 Consensus size: 35
724414 GATTATCTCG
724424 TTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTC-TTTCG-ATTGCGATTTTCATTTCGCA
724461 TTGCGA-TTCTTTCG-TTGCGATTTTCATTTCGCA
1 TTGCGATTTCTTTCGATTGCGATTTTCATTTCGCA
724494 TTGCGA-TTCTTTCG-TTGCGATTTTCATTTCGCA
1 TTGCGATTTCTTTCGATTGCGATTTTCATTTCGCA
* *
724527 TTGCGATTTTAATTTCGCATTGCGA--TTC-TGTCG--
1 TTGCGA-TTT-CTTTCG-ATTGCGATTTTCATTTCGCA
724560 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGA-TTTC-TTTCG-ATTGCGATTTTCATTTCGCA
*
724598 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--
1 TTGCGA-TTTC-TTTCG-ATTGCGATTTTCATTTCGCA
724631 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGA-TTTC-TTTCG-ATTGCGATTTTCATTTCGCA
724669 TTGCGA-TTC--TCG-TTGCGATTTTCATTTCCGCA
1 TTGCGATTTCTTTCGATTGCGATTTTCATTT-CGCA
724701 TTGCGATTT
1 TTGCGATTT
724710 TCATGTTGGA
Statistics
Matches: 225, Mismatches: 6, Indels: 40
0.83 0.02 0.15
Matches are distributed among these distances:
31 15 0.07
32 10 0.04
33 111 0.49
35 21 0.09
36 25 0.11
37 6 0.03
38 37 0.16
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (35 bp):
TTGCGATTTCTTTCGATTGCGATTTTCATTTCGCA
Found at i:724531 original size:52 final size:49
Alignment explanation
Indices: 724421--724708 Score: 293
Period size: 52 Copynumber: 5.6 Consensus size: 49
724411 TGCGATTATC
724421 TCGTTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TT
1 TCGTTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATT
724472 TCGTTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATT
1 TCGTTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGA-TTTCATT
* *
724522 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATT
1 TCG--TTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGA-TTTCATT
*
724574 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TC
1 TCG--TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATT
* * *
724628 TCGTTGCGATTTTCATTTCGCATTGCGA-T-TTTCATTTCGCATTGCGATT
1 TCGTTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCG-ATTTC-ATT
724677 CTCGTTGCGATTTTCATTTCCGCATTGCGATT
1 -TCGTTGCGATTTTCATTT-CGCATTGCGATT
724709 TTCATGTTGG
Statistics
Matches: 210, Mismatches: 9, Indels: 35
0.83 0.04 0.14
Matches are distributed among these distances:
45 4 0.02
46 1 0.00
47 12 0.06
49 10 0.05
50 26 0.12
51 19 0.09
52 118 0.56
54 7 0.03
55 7 0.03
57 6 0.03
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (49 bp):
TCGTTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTCATT
Found at i:724688 original size:31 final size:32
Alignment explanation
Indices: 724650--724739 Score: 123
Period size: 31 Copynumber: 2.8 Consensus size: 32
724640 TCATTTCGCA
724650 TTGCGATTTTCATTTCGCATTGCGATTCTC-G
1 TTGCGATTTTCATTTCGCATTGCGATTCTCAG
*
724681 TTGCGATTTTCATTTCCGCATTGCGATTTTCATG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCA-G
*
724715 TTG-GATTTTCA-TTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
724740 GTATTTTCCG
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
31 26 0.48
32 16 0.30
33 8 0.15
34 4 0.07
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (32 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCAG
Found at i:724727 original size:33 final size:34
Alignment explanation
Indices: 724442--724739 Score: 249
Period size: 33 Copynumber: 8.8 Consensus size: 34
724432 TCATTTCGCA
724442 TTGCGATTTTCATTTCGCATTGCGATTCTT--TCG
1 TTGCGATTTTCATTTCGCATTGCGATT-TTCATCG
724475 TTGCGATTTTCATTTCGCATTGCGATTCTT--TCG
1 TTGCGATTTTCATTTCGCATTGCGATT-TTCATCG
*
724508 TTGCGATTTTCATTTCGCATTGCGATTTTAATTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCA--TCG
*
724544 CATTGCGA--TTC-TGTCG--TTGCGATTTTCATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTTTCA--TCG
724577 CATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTTTCA--TCG
*
724615 CATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTTTCA--TCG
724648 CATTGCGATTTTCATTTCGCATTGCGA--TTC-TCG
1 --TTGCGATTTTCATTTCGCATTGCGATTTTCATCG
724681 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTTTCATCG
*
724715 TTG-GATTTTCA-TTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
724740 GTATTTTCCG
Statistics
Matches: 239, Mismatches: 6, Indels: 42
0.83 0.02 0.15
Matches are distributed among these distances:
31 26 0.11
32 14 0.06
33 120 0.50
34 7 0.03
35 15 0.06
36 20 0.08
38 37 0.15
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (34 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATCG
Found at i:727210 original size:22 final size:24
Alignment explanation
Indices: 727185--727229 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
727175 TTGAAACATC
727185 ATCAAAATCC-G-TATTGACCAAT
1 ATCAAAATCCGGATATTGACCAAT
*
727207 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
727230 GACCAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 1 0.05
24 10 0.50
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:727933 original size:20 final size:20
Alignment explanation
Indices: 727905--728257 Score: 297
Period size: 20 Copynumber: 18.4 Consensus size: 20
727895 AAATTTCAGT
* * *
727905 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
727925 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
727945 GTT--GA-TTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
727962 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
727982 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
**
728002 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
728022 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
728042 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
728062 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
728082 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
728102 GTTGCGGTTTACGGATAC-C
1 GTTGCGATTTACGGATTCGC
*
728121 GTTGCGATTTACGGA-T-AC
1 GTTGCGATTTACGGATTCGC
*
728139 GTTGCGA--T----ATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
728153 ATTGCGATTTACCCA-T-AC
1 GTTGCGATTTACGGATTCGC
* *
728171 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
728191 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
728211 GTTGCGATTTA-TGTTTCGC
1 GTTGCGATTTACGGATTCGC
**
728230 GTTGCGATTT-CATATTCGC
1 GTTGCGATTTACGGATTCGC
728249 GTTGCGATT
1 GTTGCGATT
728258 ATGGAAAATC
Statistics
Matches: 280, Mismatches: 38, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
12 1 0.00
14 7 0.03
16 2 0.01
17 13 0.05
18 23 0.08
19 46 0.16
20 188 0.67
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:728016 original size:40 final size:38
Alignment explanation
Indices: 727905--728239 Score: 350
Period size: 40 Copynumber: 8.8 Consensus size: 38
727895 AAATTTCAGT
* * * *
727905 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGA-TA-C
* * *
727945 GTT--GA-TTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGA-TA-C
727982 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGA-TA-C
728022 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATAC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATAC
728060 GCATTGCGATTTACGGATACGCGTTGCGATTTACGGATACAC
1 G--TTGCGATTTACGGATACGCGTTGCGATTTACGGAT--AC
*
728102 GTTGCGGTTTACGGATAC-CGTTGCGATTTACGGATAC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATAC
* **
728139 GTTGCGA--T----ATACGCATTGCGATTTACCCATAC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATAC
*
728171 GTTGCGATTTACGGATACACGTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATA--C
* * *
728211 GTTGCGATTTA-TGTTTCGCGTTGCGATTT
1 GTTGCGATTTACGGATACGCGTTGCGATTT
728240 CATATTCGCG
Statistics
Matches: 263, Mismatches: 16, Indels: 33
0.84 0.05 0.11
Matches are distributed among these distances:
31 4 0.02
32 23 0.09
34 1 0.00
35 1 0.00
37 43 0.16
38 23 0.09
39 35 0.13
40 130 0.49
42 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (38 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTACGGATAC
Found at i:728045 original size:60 final size:59
Alignment explanation
Indices: 727905--728239 Score: 333
Period size: 60 Copynumber: 5.8 Consensus size: 59
727895 AAATTTCAGT
* * * * * * *
727905 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTA-TCGTT--GA-TTACAGATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGA-TATC
*
727962 GTTGCGATTTACGGATTA-TCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGA-TATC
* *
728022 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATA-TC
* *
728082 GTTGCGATTTACGGATACACGTTGCGGTTTACGGATAC-CGTTGCGATTTACGGATA-C
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATATC
* ** *
728139 GTTGCGA--T----ATACGCATTGCGATTTACCCATA--CGTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATA-TC
* * *
728191 GTTGCGATTTACGGATACGCGTTGCGATTTA-TGTTTCGCGTTGCGATTT
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTT
728240 CATATTCGCG
Statistics
Matches: 239, Mismatches: 22, Indels: 32
0.82 0.08 0.11
Matches are distributed among these distances:
50 18 0.08
51 18 0.08
52 8 0.03
54 1 0.00
55 1 0.00
56 2 0.01
57 43 0.18
58 17 0.07
59 34 0.14
60 97 0.41
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (59 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATATC
Found at i:728158 original size:32 final size:32
Alignment explanation
Indices: 728122--728183 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
728112 ACGGATACCG
**
728122 TTGCGATTTACGGATACGTTGCGATATACGCA
1 TTGCGATTTACCCATACGTTGCGATATACGCA
*
728154 TTGCGATTTACCCATACGTTGCGATTTACG
1 TTGCGATTTACCCATACGTTGCGATATACG
728184 GATACACGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (32 bp):
TTGCGATTTACCCATACGTTGCGATATACGCA
Found at i:728232 original size:19 final size:19
Alignment explanation
Indices: 728208--728257 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
728198 TTTACGGATA
*
728208 CGCGTTGCGATTT-ATGTTT
1 CGCGTTGCGATTTCAT-ATT
728227 CGCGTTGCGATTTCATATT
1 CGCGTTGCGATTTCATATT
728246 CGCGTTGCGATT
1 CGCGTTGCGATT
728258 ATGGAAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 27 0.93
20 2 0.07
ACGTcount: A:0.12, C:0.20, G:0.26, T:0.42
Consensus pattern (19 bp):
CGCGTTGCGATTTCATATT
Found at i:736033 original size:31 final size:31
Alignment explanation
Indices: 735993--736055 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
735983 AATAAATTAG
* *
735993 TCACAAACGTTATCGATTTATAACAATTTGA
1 TCACAAACGTTATCAATTTATAACAAATTGA
*
736024 TCACTAACGTTATCAATTTATAACAAATTGA
1 TCACAAACGTTATCAATTTATAACAAATTGA
736055 T
1 T
736056 TACTGGACGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37
Consensus pattern (31 bp):
TCACAAACGTTATCAATTTATAACAAATTGA
Found at i:743581 original size:16 final size:16
Alignment explanation
Indices: 743560--743590 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
743550 TTTTTCCTAT
743560 TACTGCAAAACCATAC
1 TACTGCAAAACCATAC
743576 TACTGCAAAACCATA
1 TACTGCAAAACCATA
743591 TGCTTTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (16 bp):
TACTGCAAAACCATAC
Found at i:748782 original size:6 final size:7
Alignment explanation
Indices: 748757--748789 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
748747 TTCCAGAAAA
748757 TATTTTC
1 TATTTTC
748764 TATTTTC
1 TATTTTC
748771 TATTTT-
1 TATTTTC
748777 TATTTTC
1 TATTTTC
*
748784 TGTTTT
1 TATTTT
748790 GTTTTCAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (7 bp):
TATTTTC
Found at i:748782 original size:13 final size:14
Alignment explanation
Indices: 748757--748789 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
748747 TTCCAGAAAA
748757 TATTTTCTATTTTC
1 TATTTTCTATTTTC
748771 TATTTT-TATTTTC
1 TATTTTCTATTTTC
*
748784 TGTTTT
1 TATTTT
748790 GTTTTCAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (14 bp):
TATTTTCTATTTTC
Found at i:752040 original size:157 final size:159
Alignment explanation
Indices: 751819--752140 Score: 596
Period size: 158 Copynumber: 2.0 Consensus size: 159
751809 AATACAAGCG
751819 TCATTGTCAACGGTTGAGAGTTTTTGAACAAATAATACATTGTATCATTCCAAATTTATAAAAAA
1 TCATTGTCAACGGTTGAGAGTTTTTGAACAAATAATACATTGTATCATTCCAAATTTATAAAAAA
751884 AAATGTGTTATTTGATTAATAAAAAATTAAATACTAAATTT-AATTATAAATATATAAAATGAT-
66 AAATGTGTTATTTGATTAATAAAAAATTAAATACTAAATTTAAATTATAAATATATAAAATGATA
751947 AAATTGTATATTTTTCCCTTT-AAGTGAT
131 AAATTGTATATTTTTCCCTTTAAAGTGAT
751975 TCATTGTCAAACGGTTGAGAGTTTTTGAACAAATAATACATTGTATTCATTCCAAATTTATAAAA
1 TCATTGTC-AACGGTTGAGAGTTTTTGAACAAATAATACATTGTA-TCATTCCAAATTTATAAAA
752040 AAAAATGTGTTATTTGATTAATAAAAAATTAAATACTAAATTTAAATTATAAATATATAAAATGA
64 AAAAATGTGTTATTTGATTAATAAAAAATTAAATACTAAATTTAAATTATAAATATATAAAATGA
752105 TAAAATTGTATATTTTTCCCTTTAAAGTGAT
129 TAAAATTGTATATTTTTCCCTTTAAAGTGAT
*
752136 ACATT
1 TCATT
752141 TACAATTTAT
Statistics
Matches: 160, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
156 8 0.05
157 36 0.22
158 62 0.39
159 22 0.14
160 21 0.13
161 11 0.07
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.39
Consensus pattern (159 bp):
TCATTGTCAACGGTTGAGAGTTTTTGAACAAATAATACATTGTATCATTCCAAATTTATAAAAAA
AAATGTGTTATTTGATTAATAAAAAATTAAATACTAAATTTAAATTATAAATATATAAAATGATA
AAATTGTATATTTTTCCCTTTAAAGTGAT
Found at i:752429 original size:2 final size:2
Alignment explanation
Indices: 752422--752474 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
752412 CAATCAATCA
752422 AT AT AT AT AT AT AT AT AT AT A- 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
752463 AT AT AT AT AT AT
1 AT AT AT AT AT AT
752475 CAAATATGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:752702 original size:31 final size:31
Alignment explanation
Indices: 752653--752713 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
752643 CAAGTTAAAT
* * *
752653 AATAAAAATATTTGTAATTATTTTTTTATAA
1 AATAAAAATATATATAATTATATTTTTATAA
*
752684 AATATAAATATATATAATTATATTTTTATA
1 AATAAAAATATATATAATTATATTTTTATA
752714 CTTTATGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (31 bp):
AATAAAAATATATATAATTATATTTTTATAA
Found at i:774467 original size:51 final size:51
Alignment explanation
Indices: 774386--774552 Score: 221
Period size: 51 Copynumber: 3.3 Consensus size: 51
774376 TTAGCAGTAA
*
774386 AGCGCGCCCCCTGTACCGCACTATACGATGATGTGGCGCCACGTGGGGTAT
1 AGCGCGCCCCCTGCACCGCACTATACGATGATGTGGCGCCACGTGGGGTAT
* * *
774437 AGCGCGCCCCCTGCACCGCACTCTATGATGATGTGGTGCCACGTGGGGTAT
1 AGCGCGCCCCCTGCACCGCACTATACGATGATGTGGCGCCACGTGGGGTAT
* * * **
774488 AGCGCG-CCCCTGCACCGCGCTATACGATGATCTGACATACACGT-GGGTAT
1 AGCGCGCCCCCTGCACCGCACTATACGATGATGTGGC-GCCACGTGGGGTAT
*
774538 AGCGCGGCCCCTGCA
1 AGCGCGCCCCCTGCA
774553 ATGCGCTATA
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
50 36 0.35
51 66 0.65
ACGTcount: A:0.18, C:0.33, G:0.30, T:0.19
Consensus pattern (51 bp):
AGCGCGCCCCCTGCACCGCACTATACGATGATGTGGCGCCACGTGGGGTAT
Found at i:774586 original size:50 final size:48
Alignment explanation
Indices: 774425--774587 Score: 134
Period size: 50 Copynumber: 3.2 Consensus size: 48
774415 GATGTGGCGC
* * * * * **
774425 CACGTGGGGTATAGCGCGCCCCCTGCACCGCACTCTATGATGATGTGGTGC
1 CACGTGGGGTATAGCGCG-CCCCTGCAACGCGCTATACGATGATCT-G-AA
*
774476 CACGTGGGGTATAGCGCGCCCCTGCACCGCGCTATACGATGATCTGACATA
1 CACGTGGGGTATAGCGCGCCCCTGCAACGCGCTATACGATGATCTG--A-A
*
774527 CACGT-GGGTATAGCGCGGCCCCTGCAATGCGCTATACCTGAAT-ATCTG-A
1 CACGTGGGGTATAGCGC-GCCCCTGCAACGCGCTATA-C-G-ATGATCTGAA
774576 CACGTGGGGTAT
1 CACGTGGGGTAT
774588 TATTTATTAT
Statistics
Matches: 96, Mismatches: 9, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
49 7 0.07
50 40 0.42
51 40 0.42
52 1 0.01
53 6 0.06
54 2 0.02
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.21
Consensus pattern (48 bp):
CACGTGGGGTATAGCGCGCCCCTGCAACGCGCTATACGATGATCTGAA
Found at i:775241 original size:51 final size:51
Alignment explanation
Indices: 775136--775259 Score: 146
Period size: 51 Copynumber: 2.5 Consensus size: 51
775126 AGATATCCAG
* * ** *
775136 GTATAGCGCGCTG-AAGGGGTCGCGCTATACCCACGTGTATGCCAGATCACC
1 GTATAGCGCGGTGCAAGGGG-CGCACTATACCCACGTGTACACCACATCACC
*
775187 GTATAGCGCGGTGCAAGGGGCGCACTATACCCCACGTG-ACACCACATCATC
1 GTATAGCGCGGTGCAAGGGGCGCACTATA-CCCACGTGTACACCACATCACC
*
775238 GTATAACGCGGTGC-AGGGGCGC
1 GTATAGCGCGGTGCAAGGGGCGC
775260 GCTTTACTGC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 8 0.12
51 42 0.66
52 14 0.22
ACGTcount: A:0.23, C:0.30, G:0.31, T:0.17
Consensus pattern (51 bp):
GTATAGCGCGGTGCAAGGGGCGCACTATACCCACGTGTACACCACATCACC
Found at i:775728 original size:16 final size:17
Alignment explanation
Indices: 775699--775730 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
775689 TTTTAGAAAA
775699 TTAAAATTATTTCAAAT
1 TTAAAATTATTTCAAAT
775716 TTAAAATTA-TTCAAA
1 TTAAAATTATTTCAAA
775731 AAATTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAATTATTTCAAAT
Found at i:775776 original size:15 final size:15
Alignment explanation
Indices: 775738--775768 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
775728 AAAAAATTAT
775738 ATAAAAATACTAAAA
1 ATAAAAATACTAAAA
775753 ATAAAAATACTAAAA
1 ATAAAAATACTAAAA
775768 A
1 A
775769 ATTAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAAAATACTAAAA
Found at i:775831 original size:17 final size:16
Alignment explanation
Indices: 775749--775832 Score: 54
Period size: 17 Copynumber: 5.4 Consensus size: 16
775739 TAAAAATACT
*
775749 AAAAA-TAAAAATACTA
1 AAAAATTAAATATA-TA
775765 AAAAATTAAATATAT-
1 AAAAATTAAATATATA
** *
775780 ATTAA--AAAT-TAAA
1 AAAAATTAAATATATA
775793 AAAAATTAAATATATA
1 AAAAATTAAATATATA
775809 ATAAAATATAAAT-TATTA
1 A-AAAAT-TAAATATA-TA
775827 AAAAAT
1 AAAAAT
775833 CAAAAATATT
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
12 2 0.04
13 7 0.13
15 7 0.13
16 10 0.19
17 19 0.36
18 8 0.15
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATTAAATATATA
Found at i:776288 original size:2 final size:2
Alignment explanation
Indices: 776281--776309 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
776271 TTTTATAGTT
776281 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
776310 TAATTTTAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:776403 original size:17 final size:16
Alignment explanation
Indices: 776370--776420 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
776360 AGTAAATTAT
*
776370 TTTTTATTTTT-AGTA
1 TTTTTATTTTTAAATA
776385 TTTTTATTTTTTAAATA
1 TTTTTA-TTTTTAAATA
* *
776402 TTATTATATTTAAAT-
1 TTTTTATTTTTAAATA
776417 TTTT
1 TTTT
776421 AAAATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 9 0.30
16 13 0.43
17 8 0.27
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTTATTTTTAAATA
Found at i:776435 original size:24 final size:25
Alignment explanation
Indices: 776390--776436 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
776380 TAGTATTTTT
* *
776390 ATTTTTTAAATATTATTATATTTAA
1 ATTTTTAAAATATAATTATATTTAA
*
776415 ATTTTTAAAATA-AATTTTATTT
1 ATTTTTAAAATATAATTATATTT
776437 TAAAATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTAAAATATAATTATATTTAA
Found at i:785044 original size:23 final size:21
Alignment explanation
Indices: 785018--785068 Score: 50
Period size: 25 Copynumber: 2.2 Consensus size: 21
785008 ATCAAAACGG
785018 AATTAAAAAATAA-AATTAAGTAT
1 AATTAAAAAA-AATAATTAA--AT
785041 AATTCCAAAAAAAATAATTAAAT
1 AATT--AAAAAAAATAATTAAAT
785064 AATTA
1 AATTA
785069 GAATATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.04
23 10 0.40
24 2 0.08
25 12 0.48
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AATTAAAAAAAATAATTAAAT
Found at i:795954 original size:16 final size:17
Alignment explanation
Indices: 795933--795984 Score: 67
Period size: 15 Copynumber: 3.2 Consensus size: 17
795923 TATTTAATTT
795933 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
795949 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
795964 AATTACTCTAACTTTCA
1 AATTACTCTAACTTTCA
795981 AATT
1 AATT
795985 TATTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
14 4 0.13
15 10 0.32
16 7 0.23
17 7 0.23
18 3 0.10
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:795969 original size:15 final size:14
Alignment explanation
Indices: 795927--795974 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
795917 TAATTTTATT
795927 TAATTTAATTACT-
1 TAATTTAATTACTC
795940 TAACTTTCAAATTACTCC
1 TAA-TTT--AATTACT-C
795958 TAATTTAATTACTC
1 TAATTTAATTACTC
795972 TAA
1 TAA
795975 CTTTCAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.10
14 7 0.23
15 7 0.23
16 7 0.23
17 3 0.10
18 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.46
Consensus pattern (14 bp):
TAATTTAATTACTC
Found at i:798470 original size:29 final size:29
Alignment explanation
Indices: 798424--798502 Score: 131
Period size: 29 Copynumber: 2.7 Consensus size: 29
798414 TTGTACAATA
798424 ACCAAAGAGGTCGTCATGCACGCCCAACG
1 ACCAAAGAGGTCGTCATGCACGCCCAACG
* *
798453 ATCAAAGAGGTCGCCATGCACGCCCAACG
1 ACCAAAGAGGTCGTCATGCACGCCCAACG
*
798482 ACCAAGGAGGTCGTCATGCAC
1 ACCAAAGAGGTCGTCATGCAC
798503 TCGGGGCGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.11
Consensus pattern (29 bp):
ACCAAAGAGGTCGTCATGCACGCCCAACG
Found at i:798618 original size:45 final size:46
Alignment explanation
Indices: 798567--798658 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
798557 GCACTCGGGG
798567 TGACCAAGGATC-GTTCATGCATGGGGCACTCGAGGCGACCAAGGA
1 TGACCAAGGATCGGTTCATGCATGGGGCACTCGAGGCGACCAAGGA
*
798612 TGACCAAGGATCGGTTCATGCATGGGGCACTCGGGGCGACCAAGGA
1 TGACCAAGGATCGGTTCATGCATGGGGCACTCGAGGCGACCAAGGA
798658 T
1 T
798659 CAATTCATGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 12 0.27
46 33 0.73
ACGTcount: A:0.25, C:0.24, G:0.35, T:0.16
Consensus pattern (46 bp):
TGACCAAGGATCGGTTCATGCATGGGGCACTCGAGGCGACCAAGGA
Found at i:803293 original size:14 final size:14
Alignment explanation
Indices: 803274--803313 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
803264 AATATATTCA
803274 AATAAAATTTATAT
1 AATAAAATTTATAT
*
803288 AATAAAATTTAAAT
1 AATAAAATTTATAT
* *
803302 TATAATATTTAT
1 AATAAAATTTAT
803314 TTTAGAATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATAAAATTTATAT
Found at i:807766 original size:21 final size:21
Alignment explanation
Indices: 807740--807783 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
807730 TCCATGAACA
* *
807740 ATCATATTAATATCATAAACT
1 ATCATATCAATAACATAAACT
807761 ATCATATCAATAACATAAACT
1 ATCATATCAATAACATAAACT
807782 AT
1 AT
807784 TCATCGATGA
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:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (21 bp):
ATCATATCAATAACATAAACT
Found at i:811603 original size:22 final size:21
Alignment explanation
Indices: 811578--811622 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
811568 ATCTATGAGA
811578 AATACTTCAAATTTTATAAAAT
1 AATA-TTCAAATTTTATAAAAT
* *
811600 AATATTTAAGTTTTATAAAAT
1 AATATTCAAATTTTATAAAAT
811621 AA
1 AA
811623 AATTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (21 bp):
AATATTCAAATTTTATAAAAT
Found at i:812140 original size:13 final size:14
Alignment explanation
Indices: 812124--812156 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
812114 AATAATTTGA
812124 TAAAATA-AATTAT
1 TAAAATATAATTAT
*
812137 TAAAATATAATTTT
1 TAAAATATAATTAT
812151 TAAAAT
1 TAAAAT
812157 TAAGTGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAAATATAATTAT
Found at i:823910 original size:27 final size:27
Alignment explanation
Indices: 823876--823936 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
823866 ATTCTTTTTC
823876 TGAAAGCAGTCCTGTAAGGAATACTGA
1 TGAAAGCAGTCCTGTAAGGAATACTGA
823903 TGAAAGCAGTCCTGTAAGGAATACTGA
1 TGAAAGCAGTCCTGTAAGGAATACTGA
823930 TGAAAGC
1 TGAAAGC
823937 TTTCAGGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (27 bp):
TGAAAGCAGTCCTGTAAGGAATACTGA
Found at i:832247 original size:28 final size:26
Alignment explanation
Indices: 832185--832247 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
832175 TTTGATCCCT
*
832185 CTTTTTTTTCTTTCATTCTTTTTGAC
1 CTTTTTTTTCTTTCATTCTTTTAGAC
* *
832211 CTTCCTTTTTTCTTTCTTTCATTTTAGCC
1 CTT--TTTTTTCTTTCATTC-TTTTAGAC
832240 ACTTTTTT
1 -CTTTTTT
832248 CATTTCCTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 3 0.10
28 18 0.60
29 6 0.20
30 3 0.10
ACGTcount: A:0.08, C:0.22, G:0.03, T:0.67
Consensus pattern (26 bp):
CTTTTTTTTCTTTCATTCTTTTAGAC
Found at i:834013 original size:53 final size:53
Alignment explanation
Indices: 833953--834057 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
833943 ACATTCTAAG
833953 GCCATGATTTGATGATTGCCTCGAAATTATATAAAAAGTTTCATCTTGTAAAT
1 GCCATGATTTGATGATTGCCTCGAAATTATATAAAAAGTTTCATCTTGTAAAT
834006 GCCATGATTTGATGATTGCCTCGAAATTATATAAAAAGTTTCATCTTGTAAA
1 GCCATGATTTGATGATTGCCTCGAAATTATATAAAAAGTTTCATCTTGTAAA
834058 ATTCTAAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (53 bp):
GCCATGATTTGATGATTGCCTCGAAATTATATAAAAAGTTTCATCTTGTAAAT
Found at i:837746 original size:329 final size:329
Alignment explanation
Indices: 837131--837788 Score: 1291
Period size: 329 Copynumber: 2.0 Consensus size: 329
837121 TGCGATGGAG
837131 ACTCCATCATAGACGAGTCGGGAGTGATTTTCTCAACGTAACTTCCCGTACCCACATCGCAAAGC
1 ACTCCATCATAGACGAGTCGGGAGTGATTTTCTCAACGTAACTTCCCGTACCCACATCGCAAAGC
837196 TCTTCTAGCAACTGTTGTGCCGGCCACAGAAACTTTGATCCCTTCAGAATCGAAGCGTAGCCAGT
66 TCTTCTAGCAACTGTTGTGCCGGCCACAGAAACTTTGATCCCTTCAGAATCGAAGCGTAGCCAGT
837261 GAAAGGACCGAGAGGGACCGAGCTCCGGGAAACCTCATGGACGTAGAAGCGACATATCCAGTGGG
131 GAAAGGACCGAGAGGGACCGAGCTCCGGGAAACCTCATGGACGTAGAAGCGACATATCCAGTGGG
837326 AGTAACTTTGTCGCTGTAGATAGCAGAGTCGTACCTTTGTAGATTTAGCGCCATAGAAAGATTGT
196 AGTAACTTTGTCGCTGTAGATAGCAGAGTCGTACCTTTGTAGATTTAGCGCCATAGAAAGATTGT
837391 TTTGGTGGGTATTAGGAGATAGATAGAGAAAGAGACAAGCCTTGACCGGTGGCACTAGCCTCGGG
261 TTTGGTGGGTATTAGGAGATAGATAGAGAAAGAGACAAGCCTTGACCGGTGGCACTAGCCTCGGG
837456 TTTA
326 TTTA
837460 ACTCCATCATAGACGAGTCGGGAGTGATTTTCTCAACGTAACTTCCCGTACCCACATCGCAAAGC
1 ACTCCATCATAGACGAGTCGGGAGTGATTTTCTCAACGTAACTTCCCGTACCCACATCGCAAAGC
837525 TCTTCTAGCAACTGTTGTGCCGGCCACAGAAACTTTGATCCCTTCAGAATCGAAGCGTAGCCAGT
66 TCTTCTAGCAACTGTTGTGCCGGCCACAGAAACTTTGATCCCTTCAGAATCGAAGCGTAGCCAGT
837590 GAAAGGACCGAGAGGGACCGAGCTCCGGGAAACCTCATTGGACGTAGAAGCGACATATCCAGTGG
131 GAAAGGACCGAGAGGGACCGAGCTCCGGGAAACCTCA-TGGACGTAGAAGCGACATATCCAGTGG
837655 GAGTAACTTTGTCGCTGTAGATAGCAGAGTCGTACCTTTGTAGATTTAGCGCCATAGAAAGATTG
195 GAGTAACTTTGTCGCTGTAGATAGCAGAGTCGTACCTTTGTAGATTTAGCGCCATAGAAAGATTG
*
837720 TTTTGGTGGGTATTATGAGA-AGATAGAGAAAGAGACAAGCCTTGACCGGTGGCACTAGCCTCGG
260 TTTTGGTGGGTATTAGGAGATAGATAGAGAAAGAGACAAGCCTTGACCGGTGGCACTAGCCTCGG
837784 GTTTA
325 GTTTA
837789 TATACAACGA
Statistics
Matches: 327, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
329 216 0.66
330 111 0.34
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (329 bp):
ACTCCATCATAGACGAGTCGGGAGTGATTTTCTCAACGTAACTTCCCGTACCCACATCGCAAAGC
TCTTCTAGCAACTGTTGTGCCGGCCACAGAAACTTTGATCCCTTCAGAATCGAAGCGTAGCCAGT
GAAAGGACCGAGAGGGACCGAGCTCCGGGAAACCTCATGGACGTAGAAGCGACATATCCAGTGGG
AGTAACTTTGTCGCTGTAGATAGCAGAGTCGTACCTTTGTAGATTTAGCGCCATAGAAAGATTGT
TTTGGTGGGTATTAGGAGATAGATAGAGAAAGAGACAAGCCTTGACCGGTGGCACTAGCCTCGGG
TTTA
Found at i:842181 original size:27 final size:30
Alignment explanation
Indices: 842128--842182 Score: 80
Period size: 27 Copynumber: 1.9 Consensus size: 30
842118 AGTTTAGGTA
*
842128 TTTATTTTGATAAGAAATAAATTAATATAT
1 TTTATTTTGATAAGAAATAAATAAATATAT
842158 TTTA-TTTGAT-A-AAATAAATAAATAT
1 TTTATTTTGATAAGAAATAAATAAATAT
842183 TTAAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 13 0.54
28 1 0.04
29 6 0.25
30 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (30 bp):
TTTATTTTGATAAGAAATAAATAAATATAT
Found at i:842538 original size:2 final size:2
Alignment explanation
Indices: 842533--842587 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
842523 TTAAAGGTAA
842533 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
842575 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
842588 AGTTAATTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:842868 original size:16 final size:18
Alignment explanation
Indices: 842839--842871 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
842829 TTTTACTTTA
842839 TTATATTATATTTTTTTC
1 TTATATTATATTTTTTTC
842857 TTAT-TTAT-TTTTTTT
1 TTATATTATATTTTTTT
842872 AATAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTATATTATATTTTTTTC
Found at i:843423 original size:21 final size:23
Alignment explanation
Indices: 843398--843440 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
843388 ATGTTTTGCC
843398 ATTTTAAATAAAA-AA-AAATTA
1 ATTTTAAATAAAACAACAAATTA
*
843419 ATTTTAATTAAAACAACAAATT
1 ATTTTAAATAAAACAACAAATT
843441 TAGGTCTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 2 0.11
23 5 0.26
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTTTAAATAAAACAACAAATTA
Found at i:845707 original size:55 final size:55
Alignment explanation
Indices: 845636--845907 Score: 320
Period size: 55 Copynumber: 4.9 Consensus size: 55
845626 CTTCGGAAAA
* * * *
845636 CGTGTCCGCTCTCTATTCTTTCAGAGAGTATAAGACTCAAACAATCTTCAATAAT
1 CGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
* * *
845691 CGTGTCTGCTCCCTATTCCTTCAAAGAGTATAAGACTCGAACAATCTTCAACGAT
1 CGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
* *
845746 CGTGTATGCTCCCTATT-TCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAGT
1 CGTGTCTGCTCCCTATTCT-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
*
845801 CGTGTCTACTCCCTATGTC-TTCAGAGAGAGTATAAGACTCGAACAATCTTCAACAAT
1 CGTGTCTGCTCCCTAT-TCTTTC--AGAGAGTATAAGACTCGAACAATCTTCAACAAT
* * *
845858 CGGGT-TCGCTCCCTCTTTCTTTCAG-GCAGTAT-AGAACTCGAATAATCTTC
1 CGTGTCT-GCTCCCT-ATTCTTTCAGAG-AGTATAAG-ACTCGAACAATCTTC
845908 TTACGGGGTT
Statistics
Matches: 188, Mismatches: 19, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
55 117 0.62
56 23 0.12
57 44 0.23
58 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (55 bp):
CGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
Found at i:845961 original size:54 final size:53
Alignment explanation
Indices: 845858--846504 Score: 787
Period size: 54 Copynumber: 12.2 Consensus size: 53
845848 CTTCAACAAT
* * * ** **
845858 CGGGTTCGCTCCCTCTTTCTTTCAGGCAGTATAGAACTCGA-ATAATCTTCTTA
1 CGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGACATCTTCTTCAAA
* * *
845911 CGGGGTTCACTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAATCTTCTTCAAA
1 C-GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGACATCTTCTTCAAA
*
845965 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATCTT-TTC-AA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-GACATCTTCTTCAAA
* * * * * *
846017 CGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCG-GAT-ATCTTCACA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGACATCTTCTTCAAA
* *
846068 CGGGTTCGCTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGACATCTTCTTCAAA
* *
846121 CGGGTTCGCTTCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-GACATCTTCTTCAAA
*
846175 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-GACATCTTCTTCAAA
846229 C-GGTTCGCT-CC-CTTTCTCTA-GGAGTATGGAACTCGTACATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG-ACATCTTCTTCAAA
* *
846279 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGATATTTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-GACATCTTCTTCAAA
* *
846333 CGGGTTCGCTTCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-GACATCTTCTTCAAA
* * * ** *
846387 CTGGTTCGCTCCCTCTTTCTTTAAGGAGTATAAAACTCGTACCTCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG-ACATCTTCTTCAAA
* * *
846441 CGGGTTCGCTCCCTCTTTCT-TCAGGGAGTATGAAACTC-A-AACAATCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGACATC-TTCTTCAAA
*
846493 CAGGTTCGCTCC
1 CGGGTTCGCTCC
846505 AAAGGTTGAA
Statistics
Matches: 526, Mismatches: 51, Indels: 35
0.86 0.08 0.06
Matches are distributed among these distances:
49 2 0.00
50 33 0.06
51 54 0.10
52 63 0.12
53 116 0.22
54 257 0.49
55 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (53 bp):
CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGACATCTTCTTCAAA
Found at i:846286 original size:158 final size:161
Alignment explanation
Indices: 845858--846504 Score: 849
Period size: 158 Copynumber: 4.1 Consensus size: 161
845848 CTTCAACAAT
* * * * *
845858 CGGGTTCGCTCCCTCTTTCTTTCAGGCAGTATAGAACTCGAATAATCTTCTT---ACGGGGTTCA
1 CGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCGGA-CATCTTCTTCAAAC-GGGTTCG
845920 CTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCT
63 CTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCT
845985 CTAGGGAGTATGGAACTCAAACATCTT-TTC-AA
128 CTAGGGAGTATGGAACTCAAACATCTTCTTCAAA
* * * * * *
846017 CGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGG--AT-ATCTTCACACGGGTTCGCTC
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
*
846079 CCTCTTTCTCTAGGAAGTATGGAACTCGAAATCTTCTTCAAACGGGTTCGCTTCCTCTTTCTCTA
66 CCTCTTTCTCTAGGAAGTATGGAACTCGAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTA
* **
846144 GGGAGTATAGAACTCGGACATCTTCTTCAAA
131 GGGAGTATGGAACTCAAACATCTTCTTCAAA
846175 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAAC-GGTTCGCT-
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
*
846238 CC-CTTTCTCTAGG-AGTATGGAACTCGTACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT
66 CCTCTTTCTCTAGGAAGTATGGAACTCG-AAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT
** * *
846301 AGGGAGTATGGAACTCGGATATTTTCTTCAAA
130 AGGGAGTATGGAACTCAAACATCTTCTTCAAA
* *
846333 CGGGTTCGCTTCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACTGGTTCGCTC
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
* ** **
846398 CCTCTTTCTTTAAGG-AGTATAAAACTCGTACCTCTTCTTCAAACGGGTTCGCTCCCTCTTTCT-
66 CCTCTTTCTCT-AGGAAGTATGGAACTCG-AAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTC
* *
846461 TCAGGGAGTATGAAACTCAAACA--ATCTTCAAA
129 T-AGGGAGTATGGAACTCAAACATCTTCTTCAAA
*
846493 CAGGTTCGCTCC
1 CGGGTTCGCTCC
846505 AAAGGTTGAA
Statistics
Matches: 440, Mismatches: 34, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
154 4 0.01
155 2 0.00
156 94 0.21
157 18 0.04
158 180 0.41
159 31 0.07
160 30 0.07
161 16 0.04
162 65 0.15
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (161 bp):
CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
CCTCTTTCTCTAGGAAGTATGGAACTCGAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTA
GGGAGTATGGAACTCAAACATCTTCTTCAAA
Found at i:846917 original size:36 final size:36
Alignment explanation
Indices: 846827--846947 Score: 91
Period size: 36 Copynumber: 3.3 Consensus size: 36
846817 ACTCTTATGA
* * * *
846827 GAAGGCTTAAAATGGATTTCCTTCACGACTCTTT-GAT
1 GAAGGCTTAAGACGG-TTTACTTCACTACTCTTTAG-T
* ** * * * * *
846864 GAAGACACAAGATGGTTTGCTTCATTATTCTTTGGT
1 GAAGGCTTAAGACGGTTTACTTCACTACTCTTTAGT
* *
846900 GCATGCTTAAGACGGTTTACTTCACTACTCTTTAGT
1 GAAGGCTTAAGACGGTTTACTTCACTACTCTTTAGT
846936 GAAGGCTTAAGA
1 GAAGGCTTAAGA
846948 TTGACTTTGC
Statistics
Matches: 63, Mismatches: 20, Indels: 3
0.73 0.23 0.03
Matches are distributed among these distances:
36 51 0.81
37 12 0.19
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGACGGTTTACTTCACTACTCTTTAGT
Found at i:850383 original size:51 final size:50
Alignment explanation
Indices: 850319--850423 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 50
850309 AAAATCCTTT
*
850319 AAAATGTTTAGAAAAACGAAAAACGTGTTCAAACAAGATGTTACAAATGAC
1 AAAATGTTGAGAAAAACGAAAAACGTGTTCAAACAAGATG-TACAAATGAC
850370 AAAATGTTGAGAAAAACGAAAAACGTGTTCAAACAAGATGTACAAATGAC
1 AAAATGTTGAGAAAAACGAAAAACGTGTTCAAACAAGATGTACAAATGAC
850420 AAAA
1 AAAA
850424 AGTTTCTTGA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 14 0.26
51 39 0.74
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.19
Consensus pattern (50 bp):
AAAATGTTGAGAAAAACGAAAAACGTGTTCAAACAAGATGTACAAATGAC
Found at i:852793 original size:46 final size:47
Alignment explanation
Indices: 852720--852842 Score: 178
Period size: 47 Copynumber: 2.6 Consensus size: 47
852710 CACAAAAAGA
* *
852720 AAACCTAATCGCATGA-TATCTAATTCGCATGC-TTGTTCGAGAAAAT
1 AAACCTAACCGCATGATTA-CTAGTTCGCATGCTTTGTTCGAGAAAAT
*
852766 AAACATAACCGCATGATTACTAGTTCGCATGCTTTGTTCGAGAAAAT
1 AAACCTAACCGCATGATTACTAGTTCGCATGCTTTGTTCGAGAAAAT
* *
852813 ATACCTAACCGCATGATTTCTAGTTCGCAT
1 AAACCTAACCGCATGATTACTAGTTCGCAT
852843 ACATTTTTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
46 26 0.38
47 43 0.62
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (47 bp):
AAACCTAACCGCATGATTACTAGTTCGCATGCTTTGTTCGAGAAAAT
Found at i:858386 original size:30 final size:31
Alignment explanation
Indices: 858350--858421 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
858340 ATGACCGGAC
*
858350 GTTTATTTTTTAAAG-TGTTCGTATTTATTT
1 GTTTATTTTTTAAAGATGTTCATATTTATTT
*
858380 GTTTA-TTTTTAATGATGTTCATATTTATTT
1 GTTTATTTTTTAAAGATGTTCATATTTATTT
* *
858410 ATTTATTGTTTA
1 GTTTATTTTTTA
858422 CAAATATGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 8 0.22
30 23 0.64
31 5 0.14
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.64
Consensus pattern (31 bp):
GTTTATTTTTTAAAGATGTTCATATTTATTT
Found at i:860760 original size:23 final size:22
Alignment explanation
Indices: 860706--860763 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
860696 TTAATAATTC
* *
860706 AATAAAATATTGAGTTTTTTAA
1 AATAAAATTTTAAGTTTTTTAA
*
860728 AATAATAATTTTAAGCTTTTTTCA
1 AATAA-AATTTTAAG-TTTTTTAA
860752 AATAAAATTTTA
1 AATAAAATTTTA
860764 TAGGCCTGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.16
23 14 0.45
24 12 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (22 bp):
AATAAAATTTTAAGTTTTTTAA
Found at i:869468 original size:19 final size:21
Alignment explanation
Indices: 869444--869492 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
869434 ACTCATGTTT
*
869444 AAAATAATATAAA-A-TTTTA
1 AAAATAAAATAAATATTTTTA
869463 AAAATAAAATAAATATTTTTA
1 AAAATAAAATAAATATTTTTA
869484 AAAATAAAA
1 AAAATAAAA
869493 ATACATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 12 0.44
20 1 0.04
21 14 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAAAATAAATATTTTTA
Found at i:871535 original size:57 final size:57
Alignment explanation
Indices: 871447--871562 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
871437 TCTGATTTGA
871447 TATTCTAGTTTGTGAGTTTATTTGGTTCATGATTATTGTAGGTGGTGGATCGAGGTT
1 TATTCTAGTTTGTGAGTTTATTTGGTTCATGATTATTGTAGGTGGTGGATCGAGGTT
871504 TATTCTAGTTTGTGAGTTTATTTGGTTCATGATTATTGTAGGTGGTGGATCGAGGTT
1 TATTCTAGTTTGTGAGTTTATTTGGTTCATGATTATTGTAGGTGGTGGATCGAGGTT
871561 TA
1 TA
871563 GAAGTCGTGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.18, C:0.05, G:0.29, T:0.47
Consensus pattern (57 bp):
TATTCTAGTTTGTGAGTTTATTTGGTTCATGATTATTGTAGGTGGTGGATCGAGGTT
Found at i:877193 original size:23 final size:23
Alignment explanation
Indices: 877167--877211 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
877157 CACCACAGCT
*
877167 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
877190 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
877212 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:877483 original size:144 final size:148
Alignment explanation
Indices: 877179--877489 Score: 497
Period size: 144 Copynumber: 2.1 Consensus size: 148
877169 TATAAATGCA
*
877179 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAG-GCCATATAATGATGTCCATAAGGACCACATAGAA
* * *
877243 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
64 TCCCTTAAGAATCATATACATATACTAAGGATCAAGCA-GTGTCTTTCCAAGACTTCACACATGT
* *
877308 TCCACAGAATATATATATATC
128 TCCAAAGAATATACATATATC
877329 CCGAAGGACCGCGTAGAATTGCACCGTA-GCCATATAATGATGTCCATAA-GACCACATAGAATC
1 CCGAAGGACCGCGTAGAATTGCACCGTAGGCCATATAATGATGTCCATAAGGACCACATAGAATC
877392 CCTTAAGAATCATATACATATACTAAGGATCAAGCA-TGTCTTT-CAAGACTTCACACATGTTCC
66 CCTTAAGAATCATATACATATACTAAGGATCAAGCAGTGTCTTTCCAAGACTTCACACATGTTCC
*
877455 AAAGAATATACATATGTC
131 AAAGAATATACATATATC
877473 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
877490 CCCTCTACCC
Statistics
Matches: 153, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
144 52 0.34
145 7 0.05
147 46 0.30
148 21 0.14
149 1 0.01
150 26 0.17
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (148 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGGCCATATAATGATGTCCATAAGGACCACATAGAATC
CCTTAAGAATCATATACATATACTAAGGATCAAGCAGTGTCTTTCCAAGACTTCACACATGTTCC
AAAGAATATACATATATC
Found at i:879871 original size:129 final size:128
Alignment explanation
Indices: 879681--879941 Score: 481
Period size: 129 Copynumber: 2.0 Consensus size: 128
879671 TGCAATCTAA
879681 TAACTTCTTAATATATAGCTCTGCATACTTTCATAGAGAAAATTCGTTCTAACCGGAAGAAAATG
1 TAACTTCTTAATATATAGCTCTGCATACTTTCATAGAGAAAATTCGTTCTAACCGGAAGAAAATG
879746 CGCTGACTTAGTTAATCGATCATCAATTACCCAGATTGATTCTCTTTTGTTCGGGGTC-AGGG
66 CGCTGACTTAGTTAATCGATCATCAATTACCCAGATTGATTCTCTTTTGTTCGGGGTCAAGGG
879808 TAACTTCTCTAATATATAGCTCTGCATACTTTTCCATAGAG-AAATTCGTTCTAACCGGAAGAAA
1 TAACTTCT-TAATATATAGCTCTGCATAC-TTT-CATAGAGAAAATTCGTTCTAACCGGAAGAAA
879872 ATGCGCTGACTTAGTTAATCGATCATCAATTACCCAGATTGATTCTCTTTTGTTCGGGGTCAAGG
63 ATGCGCTGACTTAGTTAATCGATCATCAATTACCCAGATTGATTCTCTTTTGTTCGGGGTCAAGG
879937 G
128 G
879938 TAAC
1 TAAC
879942 CCCGAAACAA
Statistics
Matches: 130, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
127 8 0.06
128 20 0.15
129 87 0.67
130 15 0.12
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (128 bp):
TAACTTCTTAATATATAGCTCTGCATACTTTCATAGAGAAAATTCGTTCTAACCGGAAGAAAATG
CGCTGACTTAGTTAATCGATCATCAATTACCCAGATTGATTCTCTTTTGTTCGGGGTCAAGGG
Found at i:884085 original size:23 final size:23
Alignment explanation
Indices: 884059--884103 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
884049 CACCACAGCT
*
884059 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
884082 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
884104 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:884326 original size:150 final size:149
Alignment explanation
Indices: 884071--884386 Score: 544
Period size: 150 Copynumber: 2.1 Consensus size: 149
884061 TATAAATGCA
*
884071 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
* *
884135 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTT-CAAGACTTCACACATGT
* *
884200 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
*
884221 CTGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
884286 TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
*
884351 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
884370 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
884387 CCCTCTACCC
Statistics
Matches: 157, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
149 52 0.33
150 105 0.67
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:885013 original size:22 final size:20
Alignment explanation
Indices: 884974--885014 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
884964 CCCTAGCCCA
*
884974 AAAATCCTATTTTGAGCTCG
1 AAAATCCTATTTTCAGCTCG
884994 AAAATCCTATCTTTTCAGCTC
1 AAAATCCTA--TTTTCAGCTC
885015 AAATATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (20 bp):
AAAATCCTATTTTCAGCTCG
Found at i:893913 original size:26 final size:27
Alignment explanation
Indices: 893850--893918 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
893840 GTGTTACATA
* *
893850 AAAAGGTAAGAAAGAAATAAATTAAAT
1 AAAAGATAAGAAAGAAACAAATTAAAT
*
893877 TAAA-ATGAAGAAA-AAACAAATTAAAT
1 AAAAGAT-AAGAAAGAAACAAATTAAAT
893903 AAAAGATAAGATAAGA
1 AAAAGATAAGA-AAGA
893919 TAAAGAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
26 20 0.59
27 13 0.38
28 1 0.03
ACGTcount: A:0.68, C:0.01, G:0.13, T:0.17
Consensus pattern (27 bp):
AAAAGATAAGAAAGAAACAAATTAAAT
Found at i:894000 original size:13 final size:12
Alignment explanation
Indices: 893982--894022 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
893972 AAAAGAAGAA
893982 AAAATATATAAAT
1 AAAATA-ATAAAT
893995 AAAATAGATAAAT
1 AAAATA-ATAAAT
894008 AAAATAAT-AAT
1 AAAATAATAAAT
894019 AAAA
1 AAAA
894023 AAAAACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 7 0.26
12 2 0.07
13 18 0.67
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:894056 original size:35 final size:35
Alignment explanation
Indices: 894017--894089 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
894007 TAAAATAATA
*
894017 ATAAAA-AAAAACAAAAATAATATATATATATCTAT
1 ATAAAATAAAAACAAAAA-AATATATATATATATAT
*
894052 ATAAAATAAAAACATAAAAATATATATATATATAT
1 ATAAAATAAAAACAAAAAAATATATATATATATAT
894087 ATA
1 ATA
894090 TATATATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 25 0.71
36 10 0.29
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (35 bp):
ATAAAATAAAAACAAAAAAATATATATATATATAT
Found at i:894078 original size:2 final size:2
Alignment explanation
Indices: 894071--894097 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
894061 AAACATAAAA
894071 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 A
894098 AATTAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:894164 original size:11 final size:11
Alignment explanation
Indices: 894148--894172 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
894138 TATGTAATCT
894148 AAAAATATAAA
1 AAAAATATAAA
894159 AAAAATATAAA
1 AAAAATATAAA
894170 AAA
1 AAA
894173 GAATGCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATATAAA
Found at i:895498 original size:35 final size:39
Alignment explanation
Indices: 895409--895503 Score: 128
Period size: 39 Copynumber: 2.6 Consensus size: 39
895399 AAACTCGAGG
* *
895409 GTTTG-GTGTTTCAAGAGAAACATTTTCAAAGGTTTTTT
1 GTTTGTGTGTTTCAAGAGAAACAATTTCAAAGGTGTTTT
*
895447 GTTTGTGTGTTTCAAGAGAAACAATTTC-GAGG-GTTTT
1 GTTTGTGTGTTTCAAGAGAAACAATTTCAAAGGTGTTTT
895484 -TTT-TGTGTTTCAAGAGAAAC
1 GTTTGTGTGTTTCAAGAGAAAC
895504 TGTCTCAAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
35 17 0.32
36 3 0.06
37 4 0.08
38 8 0.15
39 21 0.40
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.42
Consensus pattern (39 bp):
GTTTGTGTGTTTCAAGAGAAACAATTTCAAAGGTGTTTT
Found at i:895581 original size:37 final size:36
Alignment explanation
Indices: 895490--895723 Score: 159
Period size: 37 Copynumber: 6.6 Consensus size: 36
895480 TTTTTTTTGT
* *
895490 GTTTCAAGAGAAACTGTCTCAAGAG-GAACAAAATTT
1 GTTTCAAAAGAAACTGTCTCAAGAGAG-ACAAAATTA
895526 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTA
1 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTA
* * * *
895563 G-TTCTAAAAGAAAATGTCTCAAGGGAGACGAAATTT
1 GTTTC-AAAAGAAACTGTCTCAAGAGAGACAAAATTA
* * *
895599 GTTTCAAGGAA-AAGA-TAT-TC-A-A-AG----ATTTT
1 GTTTCAA--AAGAA-ACTGTCTCAAGAGAGACAAAATTA
** *
895628 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTT
1 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTA
** *
895665 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTT
1 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTA
**
895702 GTTTCAAGGGAAACTGTCTCAA
1 GTTTCAAAAGAAACTGTCTCAA
895724 AACTCGTTTT
Statistics
Matches: 167, Mismatches: 13, Indels: 35
0.78 0.06 0.16
Matches are distributed among these distances:
27 1 0.01
28 4 0.02
29 13 0.08
30 1 0.01
31 1 0.01
32 2 0.01
33 2 0.01
35 1 0.01
36 41 0.25
37 98 0.59
38 3 0.02
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (36 bp):
GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTA
Found at i:895699 original size:102 final size:103
Alignment explanation
Indices: 895523--895710 Score: 272
Period size: 102 Copynumber: 1.8 Consensus size: 103
895513 AGGAACAAAA
*
895523 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAAATGTCTCAAGGG
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAAATGTCTCAAGAG
*
895588 AGACGAAA-TTTGTTTCAAGGAAAAGATATTCAAAGAT
66 AGACAAAATTTTGTTTCAAGGAAAAGATATTCAAAGAT
** * * ** *
895625 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTT-TCAAGGGAAACTGTCTCAAGA
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCT-AAAAGAAAATGTCTCAAGA
895689 GAGACAAAATTTTGTTTCAAGG
65 GAGACAAAATTTTGTTTCAAGG
895711 GAAACTGTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
101 1 0.01
102 62 0.83
103 12 0.16
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (103 bp):
TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAAATGTCTCAAGAG
AGACAAAATTTTGTTTCAAGGAAAAGATATTCAAAGAT
Found at i:895840 original size:37 final size:37
Alignment explanation
Indices: 895790--895860 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
895780 AAGGTTTATA
895790 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTTG
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTTG
*
895827 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
895861 AATTTCAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (37 bp):
TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTTG
Found at i:895874 original size:36 final size:37
Alignment explanation
Indices: 895784--895874 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 37
895774 ATTTTCAAGG
895784 TTTATATTTC-AAGAGAAACTATCTCAAGAGAGACAAAA
1 TTTA-ATTTCAAAG-GAAACTATCTCAAGAGAGACAAAA
** *
895822 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTAATTTCAAAGGAAACTATCTCAAGAGAGACAAAA
895859 -TTAATTTCAAAGGAAA
1 TTTAATTTCAAAGGAAA
895875 TGTTTTCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
36 13 0.28
37 28 0.61
38 5 0.11
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (37 bp):
TTTAATTTCAAAGGAAACTATCTCAAGAGAGACAAAA
Found at i:895940 original size:36 final size:36
Alignment explanation
Indices: 895890--895975 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
895880 TCAATGTTTA
* * *
895890 TGTTTCAAGAGAAACTGTCTCAAAG-GAGACAAAATT
1 TGTTTCAAGGGAAACT-ACCCAAAGCGAGACAAAATT
* *
895926 TGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATT
1 TGTTTCAAGGGAAACTACCCAAAGCGAGACAAAATT
*
895962 TATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
895976 TGTTTTCAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 5 0.12
36 38 0.88
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTACCCAAAGCGAGACAAAATT
Found at i:895983 original size:101 final size:102
Alignment explanation
Indices: 895761--895999 Score: 356
Period size: 101 Copynumber: 2.4 Consensus size: 102
895751 ATATTTTGTG
** * *
895761 TTTCAAGGGAAACATTTTCAAGGTTTATATTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTT
* *
895826 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
* *
895863 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAA-AGGAGACAAAA-TT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGA-GAGACAAAATTT
* * *
895926 TGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTA
65 TGTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
895964 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
896000 GGAGACAAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
101 71 0.57
102 53 0.43
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTT
GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
Found at i:896041 original size:87 final size:86
Alignment explanation
Indices: 895909--896086 Score: 293
Period size: 87 Copynumber: 2.1 Consensus size: 86
895899 AGAAACTGTC
* *
895909 TCAAAGGAGACAAAATTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGGA
1 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGGA
*
895974 AATGTTTTCAATGTTTATGTT
66 AATGTTTTCAATATTTATGTT
* * *
895995 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTT-GTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
896060 AAATGTTTTCAATATTTATGTT
65 AAATGTTTTCAATATTTATGTT
896082 TCAAG
1 TCAAG
896087 AGAAACTGTC
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 17 0.20
87 68 0.80
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (86 bp):
TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGGA
AATGTTTTCAATATTTATGTT
Found at i:896128 original size:37 final size:37
Alignment explanation
Indices: 896073--896154 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
896063 TGTTTTCAAT
* * *
896073 ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
1 ATTTA-GTTCCAAAAGAAAATGTCTCAAGGGAGACAAA
*
896111 ATTTAGTTCCAAAAGAAAATGTCTCAAGGGAGACATA
1 ATTTAGTTCCAAAAGAAAATGTCTCAAGGGAGACAAA
896148 A-TTAGTT
1 ATTTAGTT
896155 TCAATGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 6 0.15
37 29 0.73
38 5 0.12
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (37 bp):
ATTTAGTTCCAAAAGAAAATGTCTCAAGGGAGACAAA
Found at i:898251 original size:15 final size:14
Alignment explanation
Indices: 898231--898264 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
898221 AGAAACATGG
*
898231 AGGAAGAGAGATGAA
1 AGGAAGAGA-AAGAA
898246 AGGAAGAGAAAGAA
1 AGGAAGAGAAAGAA
898260 AGGAA
1 AGGAA
898265 ATTTGAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (14 bp):
AGGAAGAGAAAGAA
Found at i:912722 original size:3 final size:3
Alignment explanation
Indices: 912714--912753 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
912704 AGACATTATC
912714 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
912754 AATTACTCGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:918013 original size:23 final size:21
Alignment explanation
Indices: 917997--918036 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
917987 ATAATATGAC
917997 ATAAATTATAAAAATAAATAA
1 ATAAATTATAAAAATAAATAA
* *
918018 ATATATTTTAAAAATAAAT
1 ATAAATTATAAAAATAAAT
918037 TTTAAAATAC
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATTATAAAAATAAATAA
Found at i:919335 original size:16 final size:16
Alignment explanation
Indices: 919305--919334 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
919295 ATAGACAAGT
919305 TATTTAAATATTTTTA
1 TATTTAAATATTTTTA
919321 TATTT-AATATTTTT
1 TATTTAAATATTTTT
919335 TTAATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTAAATATTTTTA
Found at i:924409 original size:15 final size:15
Alignment explanation
Indices: 924389--924425 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
924379 ACAGTAAGAT
924389 TTCATGTATTTAAGG
1 TTCATGTATTTAAGG
924404 TTCATGTATTTAAGG
1 TTCATGTATTTAAGG
*
924419 TTTATGT
1 TTCATGT
924426 TTGAGTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.19, T:0.51
Consensus pattern (15 bp):
TTCATGTATTTAAGG
Found at i:926127 original size:60 final size:59
Alignment explanation
Indices: 926063--926197 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
926053 TTTAAATTTT
* * * *
926063 AATAAT-TAAATATATATAAATAATTTTAAATTATATTT-TTTTAAATTTAAAATAATTACA
1 AATAATATAAATAAATATAAA-AAATTTAAA-AATATTTATTTAAAATTT-AAATAATTACA
*
926123 AATAATCATAAATAAATATAAAAAATTTAAAAATATTTATTTAAAATTTGAATAATT--A
1 AATAAT-ATAAATAAATATAAAAAATTTAAAAATATTTATTTAAAATTTAAATAATTACA
926181 AATAAATATAATATAAA
1 AAT-AATATAA-ATAAA
926198 CCTACTTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
58 8 0.12
59 8 0.12
60 19 0.29
61 17 0.26
62 13 0.20
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (59 bp):
AATAATATAAATAAATATAAAAAATTTAAAAATATTTATTTAAAATTTAAATAATTACA
Found at i:928348 original size:50 final size:49
Alignment explanation
Indices: 928284--928382 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 49
928274 TACAACAAGC
928284 TTTTCAACACATGATAAATTATAGAATCACTAGAGATATTTGAGAAAGAG
1 TTTTCAACACATGATAAATTATAGAA-CACTAGAGATATTTGAGAAAGAG
* *
928334 TTTTCAACATATGATAAATTATAGAACTCTAGAGATATTTGAGAAAGAG
1 TTTTCAACACATGATAAATTATAGAACACTAGAGATATTTGAGAAAGAG
928383 ATGGAAGATC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 22 0.47
50 25 0.53
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (49 bp):
TTTTCAACACATGATAAATTATAGAACACTAGAGATATTTGAGAAAGAG
Found at i:931385 original size:15 final size:15
Alignment explanation
Indices: 931365--931393 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
931355 CTATATTAGG
931365 GACTTAAACAAAAGA
1 GACTTAAACAAAAGA
931380 GACTTAAACAAAAG
1 GACTTAAACAAAAG
931394 GGGTCAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (15 bp):
GACTTAAACAAAAGA
Found at i:931650 original size:4 final size:4
Alignment explanation
Indices: 931641--931673 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
931631 ATCAATTCCT
931641 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
931674 GGTTAAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:935263 original size:19 final size:19
Alignment explanation
Indices: 935239--935288 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
935229 ATGCAATTAA
935239 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
935258 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
935277 TGCATCGATGCA
1 TGCATCGATGCA
935289 CATGTTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (19 bp):
TGCATCGATGCATAAGGAG
Found at i:935297 original size:24 final size:21
Alignment explanation
Indices: 935239--935313 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 21
935229 ATGCAATTAA
935239 TGCATCGATG--CATAAGGAG
1 TGCATCGATGCACATAAGGAG
935258 TGCATCGATG--CATAAGGAG
1 TGCATCGATGCACATAAGGAG
935277 TGCATCGATGCACATGTTAAGG-G
1 TGCATCGATGCACA---TAAGGAG
935300 ATGCATCGATGCAC
1 -TGCATCGATGCAC
935314 TTCAAGGGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
19 29 0.58
21 2 0.04
23 1 0.02
24 18 0.36
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (21 bp):
TGCATCGATGCACATAAGGAG
Found at i:936880 original size:23 final size:23
Alignment explanation
Indices: 936850--936916 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
936840 CATTTGATAT
* *
936850 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTATACAC
*
936873 GGCACTTCGGTGCAATTATACAT
1 GGCACTTCGGTGCAATTATACAC
* *
936896 GGCACTTAGGTGCATTTATAC
1 GGCACTTCGGTGCAATTATAC
936917 GAGCTGTGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTATACAC
Found at i:954778 original size:29 final size:30
Alignment explanation
Indices: 954718--954780 Score: 92
Period size: 29 Copynumber: 2.0 Consensus size: 30
954708 GTTTTGAAGT
954718 ATGAATTTTAAATCTTATTTATTTATTTAAATA
1 ATGAATTTTAAATC---TTTATTTATTTAAATA
954751 ATGAATTTTAAATC-TTATTTATTTAAATA
1 ATGAATTTTAAATCTTTATTTATTTAAATA
954780 A
1 A
954781 CTAATTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 16 0.53
33 14 0.47
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (30 bp):
ATGAATTTTAAATCTTTATTTATTTAAATA
Found at i:966008 original size:2 final size:2
Alignment explanation
Indices: 966001--966035 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
965991 TCTGCTTGTC
*
966001 CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
966036 GTATTCTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:966384 original size:190 final size:190
Alignment explanation
Indices: 966056--966435 Score: 625
Period size: 190 Copynumber: 2.0 Consensus size: 190
966046 CAGCTACCAC
*
966056 GTATAAAAGGAAAAAGGTAATTATTTTTTAAATAAAGTTTAAGTAATAACATACTAACAATACCG
1 GTATAAAAGGAAAAAGGTAATTATTTTTTAAATAAAGTTTAAGTAATAACAGACTAACAATACCG
* * * *
966121 GCGTTTTTTTGAAAAATTATTTTTTTAATTTAATATTTTTGATCAGGTACCGATAAGGTTATGTT
66 ACGTTTTTTCGAAAAATTATTTTTTTAATTTAATATTTTTGATCAGGTACCGATAAGATTATATT
* * *
966186 TTTTGATCTAACACCCTTTGCAGTAAGGAGTGCTCCTACATGGCGCTATACGCTGATTTG
131 TCTTGATCTAACACCCTTTGCAGTAAGGAGTACCCCTACATGGCGCTATACGCTGATTTG
* * * *
966246 GTATAAAAGGAAAAATGTAATTATTTTTTAAATAAAGTTTAAGTAATAATAGACTAATAATATCG
1 GTATAAAAGGAAAAAGGTAATTATTTTTTAAATAAAGTTTAAGTAATAACAGACTAACAATACCG
* *
966311 ACGTTTTTTCGAAAAATTATTTTTTTAATTTAATATTTTTGATCAGGTACCGGTAATATTATATT
66 ACGTTTTTTCGAAAAATTATTTTTTTAATTTAATATTTTTGATCAGGTACCGATAAGATTATATT
*
966376 TCTTGATCTAACACCCTTTGCAGTAAGGCGTACCCCTACATGGCGCTATACGCTGATTTG
131 TCTTGATCTAACACCCTTTGCAGTAAGGAGTACCCCTACATGGCGCTATACGCTGATTTG
966436 ACACTACGTG
Statistics
Matches: 175, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
190 175 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (190 bp):
GTATAAAAGGAAAAAGGTAATTATTTTTTAAATAAAGTTTAAGTAATAACAGACTAACAATACCG
ACGTTTTTTCGAAAAATTATTTTTTTAATTTAATATTTTTGATCAGGTACCGATAAGATTATATT
TCTTGATCTAACACCCTTTGCAGTAAGGAGTACCCCTACATGGCGCTATACGCTGATTTG
Found at i:970259 original size:13 final size:13
Alignment explanation
Indices: 970241--970285 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
970231 ATGATAAATA
*
970241 AAAAAATTACAAT
1 AAAAAACTACAAT
* *
970254 AAAAAAGTCCAAT
1 AAAAAACTACAAT
*
970267 AAACAACTACAAT
1 AAAAAACTACAAT
970280 AAAAAA
1 AAAAAA
970286 GTACTAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.69, C:0.13, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:975940 original size:12 final size:12
Alignment explanation
Indices: 975923--975947 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
975913 AATTTAACCT
975923 ATTAAAAATAAA
1 ATTAAAAATAAA
975935 ATTAAAAATAAA
1 ATTAAAAATAAA
975947 A
1 A
975948 CCTTTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATTAAAAATAAA
Found at i:979941 original size:3 final size:3
Alignment explanation
Indices: 979933--979971 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
979923 ATTTCCCCAA
979933 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
979972 ATGAAGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Done.