Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 26 of 120
Found at i:6804915 original size:21 final size:21
Alignment explanation
Indices: 6804891--6804930 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6804881 GTAAAATAAA
6804891 AAAGAA-ACAAACAAACAAAAC
1 AAAGAAGA-AAACAAACAAAAC
*
6804912 AAAGAAGAAAAGAAACAAA
1 AAAGAAGAAAACAAACAAA
6804931 GAGTAATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.78, C:0.12, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAGAAGAAAACAAACAAAAC
Found at i:6805383 original size:11 final size:11
Alignment explanation
Indices: 6805367--6805391 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6805357 GAATTTACGG
6805367 TAGAAATTGAA
1 TAGAAATTGAA
6805378 TAGAAATTGAA
1 TAGAAATTGAA
6805389 TAG
1 TAG
6805392 GAAAATTTAA
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:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (11 bp):
TAGAAATTGAA
Found at i:6805769 original size:31 final size:30
Alignment explanation
Indices: 6805734--6805800 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
6805724 ATATGTGAGT
*
6805734 AATTGAGA-TGAATATTGAATTAAGAAAGTGA
1 AATTGAAAGTGAATATTGAA-T-AGAAAGTGA
* *
6805765 AATTGAAATGTGATTATTGAATAGAAATTGA
1 AATTGAAA-GTGAATATTGAATAGAAAGTGA
6805796 AATTG
1 AATTG
6805801 TTTGAATTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 20 0.65
32 1 0.03
33 10 0.32
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (30 bp):
AATTGAAAGTGAATATTGAATAGAAAGTGA
Found at i:6806120 original size:22 final size:23
Alignment explanation
Indices: 6806083--6806126 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
6806073 GCTTTGCCGA
*
6806083 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGCCGTATT
6806106 TCAGGCAC-TTATGTGCCGTAT
1 TCAGGCACTTTATGTGCCGTAT
6806127 ACTGATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGCCGTATT
Found at i:6815697 original size:9 final size:9
Alignment explanation
Indices: 6815604--6815767 Score: 60
Period size: 9 Copynumber: 18.0 Consensus size: 9
6815594 AATATAATAG
*
6815604 TATAATATT
1 TATAATTTT
*
6815613 TATATAGTTT
1 TATA-ATTTT
*
6815623 TATTATTTT
1 TATAATTTT
6815632 TATAAATTTT
1 TAT-AATTTT
*
6815642 CAT-ATTTT
1 TATAATTTT
6815650 TA-AAGTTATCCGT
1 TATAA-TT-T---T
*
6815663 TATTATTTT
1 TATAATTTT
*
6815672 TATAACTTT
1 TATAATTTT
6815681 TACCTAATTTT
1 TA--TAATTTT
6815692 TATAATTTCT
1 TATAATTT-T
6815702 T-T-A-TTT
1 TATAATTTT
*
6815708 TAT-CTTTT
1 TATAATTTT
*
6815716 TGTAATTTT
1 TATAATTTT
6815725 TAT-A-TTT
1 TATAATTTT
6815732 TATAA-TTT
1 TATAATTTT
*
6815740 TA-ATTCTTT
1 TATAAT-TTT
*
6815749 TATATTTTT
1 TATAATTTT
6815758 TAATAATTTT
1 T-ATAATTTT
6815768 CACAAAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
6 2 0.02
7 10 0.08
8 20 0.17
9 45 0.38
10 26 0.22
11 8 0.07
12 1 0.01
13 5 0.04
14 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (9 bp):
TATAATTTT
Found at i:6815721 original size:24 final size:24
Alignment explanation
Indices: 6815688--6815756 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
6815678 TTTTACCTAA
6815688 TTTTTATAATTTCTT-TATTTTATC
1 TTTTTATAATTT-TTATATTTTATC
* *
6815712 TTTTTGTAATTTTTATATTTTATA
1 TTTTTATAATTTTTATATTTTATC
* *
6815736 ATTTTA-ATTCTTTTATATTTT
1 TTTTTATAAT-TTTTATATTTT
6815757 TTAATAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 4 0.11
24 34 0.89
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.71
Consensus pattern (24 bp):
TTTTTATAATTTTTATATTTTATC
Found at i:6820585 original size:25 final size:26
Alignment explanation
Indices: 6820556--6820607 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
6820546 TTTTGGGAAG
6820556 TAAATAATTTT-TACTAATTTT-TTTA
1 TAAATAATTTTATA-TAATTTTATTTA
*
6820581 TAAATTATTTTATATAATTTTATTTA
1 TAAATAATTTTATATAATTTTATTTA
6820607 T
1 T
6820608 TAACATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (26 bp):
TAAATAATTTTATATAATTTTATTTA
Found at i:6820615 original size:25 final size:25
Alignment explanation
Indices: 6820556--6820622 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
6820546 TTTTGGGAAG
*
6820556 TAAATAATTTT-TACTAATTTTTTTA
1 TAAATCATTTTATA-TAATTTTTTTA
*
6820581 TAAATTATTTTATATAATTTTATTTA
1 TAAATCATTTTATATAATTTT-TTTA
*
6820607 TTAA-CATTTTA-ATAAT
1 TAAATCATTTTATATAAT
6820623 ATAAAAGCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.14
25 23 0.62
26 9 0.24
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
TAAATCATTTTATATAATTTTTTTA
Found at i:6824771 original size:51 final size:51
Alignment explanation
Indices: 6824711--6824813 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
6824701 TGCAAAATCA
6824711 TATGATTTACCAAACTAAAAATTTGGTTTTCAAAATTAAAACTCTAGAAAG
1 TATGATTTACCAAACTAAAAATTTGGTTTTCAAAATTAAAACTCTAGAAAG
6824762 TATGATTTACCAAACTAAAAATTTGGTTTTCAAAATTAAAACTCTAGAAAG
1 TATGATTTACCAAACTAAAAATTTGGTTTTCAAAATTAAAACTCTAGAAAG
6824813 T
1 T
6824814 TCCATTACAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (51 bp):
TATGATTTACCAAACTAAAAATTTGGTTTTCAAAATTAAAACTCTAGAAAG
Found at i:6825130 original size:14 final size:14
Alignment explanation
Indices: 6825111--6825137 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6825101 TAATCAACAA
6825111 TTATTTAATTAAAT
1 TTATTTAATTAAAT
6825125 TTATTTAATTAAA
1 TTATTTAATTAAA
6825138 AATTAATTAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTTAATTAAAT
Found at i:6831936 original size:26 final size:25
Alignment explanation
Indices: 6831907--6831965 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 25
6831897 CATTGTATTC
*
6831907 ATATTTATAT-ACATAAAATTTAATAA
1 ATATTTATATAACA-AAAA-CTAATAA
6831933 ATATCTT-TATAACAAAAACTAATAA
1 ATAT-TTATATAACAAAAACTAATAA
6831958 ATACTTTA
1 ATA-TTTA
6831966 GTTGCTACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
25 11 0.39
26 12 0.43
27 5 0.18
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (25 bp):
ATATTTATATAACAAAAACTAATAA
Found at i:6842784 original size:13 final size:13
Alignment explanation
Indices: 6842766--6842808 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6842756 TAGATTTTTC
6842766 CTAAATATTATCA
1 CTAAATATTATCA
*
6842779 CTAAATA--AT-T
1 CTAAATATTATCA
6842789 CTAAATATTATCA
1 CTAAATATTATCA
6842802 CTAAATA
1 CTAAATA
6842809 ATTCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:6842796 original size:23 final size:23
Alignment explanation
Indices: 6842766--6842817 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
6842756 TAGATTTTTC
6842766 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
6842789 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
6842812 CTAAAT
1 CTAAAT
6842818 TTAAAAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:6842830 original size:23 final size:23
Alignment explanation
Indices: 6842766--6842830 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
6842756 TAGATTTTTC
** *
6842766 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
** *
6842789 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
6842812 CTAAAT-TTAAAAATCAAAT
1 CTAAATATTAAAAAT-AAAT
6842831 TTAAACTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 5 0.13
23 33 0.87
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTAAAAATAAATAATT
Found at i:6846876 original size:5 final size:6
Alignment explanation
Indices: 6846860--6846884 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6846850 GTAGAAATGC
6846860 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
6846885 GAGGGGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:6852591 original size:839 final size:838
Alignment explanation
Indices: 6850499--6853007 Score: 4984
Period size: 839 Copynumber: 3.0 Consensus size: 838
6850489 ATGCCACAAA
6850499 TCAAAAATAAAATAATATAGTCTCTAAATAACAAAATATCAAATAATAAATCTAAAGTAATTTAA
1 TCAAAAATAAAATAATATAGTCTCTAAATAACAAAATATCAAATAATAAATCTAAAGTAATTTAA
6850564 TAAAACAAAATCGAGTCAAGTCCCTTCGGATGCCGTGTTCGCGTCCTAACCTGGCGGGTCATCTG
66 TAAAACAAAATCGAGTCAAGTCCCTTCGGATGCCGTGTTCGCGTCCTAACCTGGCGGGTCATCTG
6850629 TAGAGATTGGAAATAAAAAGGGAGTGAGCTATAAAGCTTAGTGTGAGTTCAATCACAAGAAAATC
131 TAGAGATTGGAAATAAAAAGGGAGTGAGCTATAAAGCTTAGTGTGAGTTCAATCACAAGAAAATC
6850694 AATGCAAATGATAAACATATGGTAAGCATGTCATATAGAATTAATTCACAATGGCAGTTTCAGAA
196 AATGCAAATGATAAACATATGGTAAGCATGTCATATAGAATTAATTCACAATGGCAGTTTCAGAA
6850759 TACCATCATGTCATATCACTCAACAATATACATATAAAAATATATGTCATCATAAATTCCAGTTT
261 TACCATCATGTCATATCACTCAACAATATACATATAAAAATATATGTCATCATAAATTCCAGTTT
6850824 TGTATGCACATGTTTTATGGATGCCATACAACTTTGATTTTTAACAGAATAGATCCTACCCCACT
326 TGTATGCACATGTTTTATGGATGCCATACAACTTTGATTTTTAACAGAATAGATCCTACCCCACT
*
6850889 ACTACACACCACAATGGGAGTTTCCCTAAACTTTGTCCACCAACACACCGGGTTGTGGTTTTTAC
391 ACTACACACCACAATGGGAGTTTCCCTGAACTTTGTCCACCAACACACCGGGTTGTGGTTTTTAC
6850954 CACTACTAGTTCGCAGATGAAATTGCCAAAGGTTGTGGACACACAACAAATCTCTACAGATGGAA
456 CACTACTAGTTCGCAGATGAAATTGCCAAAGGTTGTGGACACACAACAAATCTCTACAGATGGAA
6851019 TCTGCCTCTAGCTATGGATTTCACAATAAATAACTCGCAGATAGAATCTGCCTTTGGTTATGGAT
521 TCTGCCTCTAGCTATGGATTTCACAATAAATAACTCGCAGATAGAATCTGCCTTTGGTTATGGAT
6851084 ACACAACAAATTTTTGTAGATAAACTGCCAATCTTCCTCTGTTCATATCGTCCCACCCCATGCAA
586 ACACAACAAATTTTTGTAGATAAACTGCCAATCTTCCTCTGTTCATATCGTCCCACCCCATGCAA
6851149 TGCAATGTGTTATACATATAACAGATCGATACGGTAATAATTATTATGCTTATCACAAATCTAAT
651 TGCAATGTGTTATACATATAACAGATCGATACGGTAATAATTATTATGCTTATCACAAATCTAAT
6851214 CACCAACCAAAAACATGCTTTATCATGTATACAATTTAACGATAACATAAGGCATGTTGATCATA
716 CACCAACCAAAAACATGCTTTATCATGTATACAATTTAACGATAACATAAGGCATGTTGATCATA
6851279 CAAAACATAATACGAGTGTATTAGGCATAAATTTTTCACAAATCATTGCATATTTTTG
781 CAAAACATAATACGAGTGTATTAGGCATAAATTTTTCACAAATCATTGCATATTTTTG
6851337 TCAAAAATAAAATAATATAGTCTCTAAATAACAAAATATCAAATAATAAATCTAAAGTAATTTAA
1 TCAAAAATAAAATAATATAGTCTCTAAATAACAAAATATCAAATAATAAATCTAAAGTAATTTAA
6851402 TAAAACAAAATCGAGTCAAGTCCCTTCGGATGCCGTGTTCGCGTCCTAACCTGGCGGGTCATCTG
66 TAAAACAAAATCGAGTCAAGTCCCTTCGGATGCCGTGTTCGCGTCCTAACCTGGCGGGTCATCTG
6851467 TAGAGATTGGAAATAAAAAGGGAGTGAGCTATAAAGCTTAGTGTGAGTTCAATCACAAGAAAATC
131 TAGAGATTGGAAATAAAAAGGGAGTGAGCTATAAAGCTTAGTGTGAGTTCAATCACAAGAAAATC
6851532 AATGCAAATGATAAACATATGGTAAGCATGTCATATAGAATTAATTCACAATGGCAGTTTCAGAA
196 AATGCAAATGATAAACATATGGTAAGCATGTCATATAGAATTAATTCACAATGGCAGTTTCAGAA
6851597 TACCATCATGTCATATCACTCAACAATATACATATAAAAATATATGTCATCATAAATTCCAGTTT
261 TACCATCATGTCATATCACTCAACAATATACATATAAAAATATATGTCATCATAAATTCCAGTTT
6851662 TGTATGCACATGTTTTATGGATGCCATACAACTTTGATTTTTAACAGAATAGATCCTACCCCACT
326 TGTATGCACATGTTTTATGGATGCCATACAACTTTGATTTTTAACAGAATAGATCCTACCCCACT
6851727 ACTACACACCACAATGGGAGTTTCCCTGAACTTTGTCCACCAACACACCGGGTTGTGGTTTTTAC
391 ACTACACACCACAATGGGAGTTTCCCTGAACTTTGTCCACCAACACACCGGGTTGTGGTTTTTAC
6851792 CACTACTAGTTCGCAGATGAAATTGCCAAAGGTTGTGGACACACAACAAATCTCTACAGATGGAA
456 CACTACTAGTTCGCAGATGAAATTGCCAAAGGTTGTGGACACACAACAAATCTCTACAGATGGAA
6851857 TCTGCCTCTAGCTATGGATTTCACAATAAATAACTCGCAGATAGAATCTGCCTTTGGTTATGGAT
521 TCTGCCTCTAGCTATGGATTTCACAATAAATAACTCGCAGATAGAATCTGCCTTTGGTTATGGAT
*
6851922 ACACAACAAATTTTTGTATATAAACTGCCAATCTTCCTCTGTTCATATCGTCCCACCCCATGCAA
586 ACACAACAAATTTTTGTAGATAAACTGCCAATCTTCCTCTGTTCATATCGTCCCACCCCATGCAA
6851987 TGCAATGTGTTATACATATAACAGATCGATACGGTAATAATTATTATGCTTATCACAAATCTAAT
651 TGCAATGTGTTATACATATAACAGATCGATACGGTAATAATTATTATGCTTATCACAAATCTAAT
6852052 CACCAACCAAAAACATGCTTTATCATGTATACAATTTAACGATAACATAAGGCATGTTTGATCAT
716 CACCAACCAAAAACATGCTTTATCATGTATACAATTTAACGATAACATAAGGCATG-TTGATCAT
6852117 ACAAAACATAATACGAGTGTATTAGGCATAAATTTTTCACAAATCATTGCATATTTTTG
780 ACAAAACATAATACGAGTGTATTAGGCATAAATTTTTCACAAATCATTGCATATTTTTG
6852176 TCAAAAATAAAATAATATAGTCTCTAAATAACAAAATATCAAATAATAAATCTAAAGTAATTTAA
1 TCAAAAATAAAATAATATAGTCTCTAAATAACAAAATATCAAATAATAAATCTAAAGTAATTTAA
6852241 TAAAACAAAATCGAGTCAAGTCCCTTCGGATGCCGTGTTCGCGTCCTAACCTGGCGGGTCATCTG
66 TAAAACAAAATCGAGTCAAGTCCCTTCGGATGCCGTGTTCGCGTCCTAACCTGGCGGGTCATCTG
6852306 TAGAGATTGGAAATAAAAAGGGAGTGAGCTATAAAGCTTAGTGTGAGTTCAATCACAAGAAAATC
131 TAGAGATTGGAAATAAAAAGGGAGTGAGCTATAAAGCTTAGTGTGAGTTCAATCACAAGAAAATC
6852371 AATGCAAATGATAAACATATGGTAAGCATGTCATATAGAATTAATTCACAATGGCAGTTTCAGAA
196 AATGCAAATGATAAACATATGGTAAGCATGTCATATAGAATTAATTCACAATGGCAGTTTCAGAA
6852436 TACCATCATGTCATATCACTCAACAATATACATATAAAAATATATGTCATCATAAATTCCAGTTT
261 TACCATCATGTCATATCACTCAACAATATACATATAAAAATATATGTCATCATAAATTCCAGTTT
6852501 TGTATGCACATGTTTTATGGATGCCATACAACTTTGATTTTTAACAGAATAGATCCTACCCCACT
326 TGTATGCACATGTTTTATGGATGCCATACAACTTTGATTTTTAACAGAATAGATCCTACCCCACT
6852566 ACTACACACCACAATGGGAGTTTCCCTGAACTTTGTCCACCAACACACCGGGTTGTGGTTTTTAC
391 ACTACACACCACAATGGGAGTTTCCCTGAACTTTGTCCACCAACACACCGGGTTGTGGTTTTTAC
6852631 CACTACTAGTTCGCAGATGAAATTGCCAAAGGTTGTGGACACACAACAAATCTCTACAGATGGAA
456 CACTACTAGTTCGCAGATGAAATTGCCAAAGGTTGTGGACACACAACAAATCTCTACAGATGGAA
6852696 TCTGCCTCTAGCTATGGATTTCACAATAAATAACTCGCAGATAGAATCTGCCTTTGGTTATGGAT
521 TCTGCCTCTAGCTATGGATTTCACAATAAATAACTCGCAGATAGAATCTGCCTTTGGTTATGGAT
6852761 ACACAACAAATTTTTGTAGATAAACTGCCAATCTTCCTCTGTTCATATCGTCCCACCCCATGCAA
586 ACACAACAAATTTTTGTAGATAAACTGCCAATCTTCCTCTGTTCATATCGTCCCACCCCATGCAA
6852826 TGCAATGTGTTATACATATAACAGATCGATACGGTAATAATTATTATGCTTATCACAAATCTAAT
651 TGCAATGTGTTATACATATAACAGATCGATACGGTAATAATTATTATGCTTATCACAAATCTAAT
6852891 CACCAACCAAAAACATGCTTTATCATGTATACAATTTAACGATAACATAAGGCATGTTGATCATA
716 CACCAACCAAAAACATGCTTTATCATGTATACAATTTAACGATAACATAAGGCATGTTGATCATA
6852956 CAAAACATAATACGAGTGTATTAGGCATAAATTTTTCACAAATCA-TGCATAT
781 CAAAACATAATACGAGTGTATTAGGCATAAATTTTTCACAAATCATTGCATAT
6853008 ATAGTAATAA
Statistics
Matches: 1667, Mismatches: 3, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
837 7 0.00
838 823 0.49
839 837 0.50
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (838 bp):
TCAAAAATAAAATAATATAGTCTCTAAATAACAAAATATCAAATAATAAATCTAAAGTAATTTAA
TAAAACAAAATCGAGTCAAGTCCCTTCGGATGCCGTGTTCGCGTCCTAACCTGGCGGGTCATCTG
TAGAGATTGGAAATAAAAAGGGAGTGAGCTATAAAGCTTAGTGTGAGTTCAATCACAAGAAAATC
AATGCAAATGATAAACATATGGTAAGCATGTCATATAGAATTAATTCACAATGGCAGTTTCAGAA
TACCATCATGTCATATCACTCAACAATATACATATAAAAATATATGTCATCATAAATTCCAGTTT
TGTATGCACATGTTTTATGGATGCCATACAACTTTGATTTTTAACAGAATAGATCCTACCCCACT
ACTACACACCACAATGGGAGTTTCCCTGAACTTTGTCCACCAACACACCGGGTTGTGGTTTTTAC
CACTACTAGTTCGCAGATGAAATTGCCAAAGGTTGTGGACACACAACAAATCTCTACAGATGGAA
TCTGCCTCTAGCTATGGATTTCACAATAAATAACTCGCAGATAGAATCTGCCTTTGGTTATGGAT
ACACAACAAATTTTTGTAGATAAACTGCCAATCTTCCTCTGTTCATATCGTCCCACCCCATGCAA
TGCAATGTGTTATACATATAACAGATCGATACGGTAATAATTATTATGCTTATCACAAATCTAAT
CACCAACCAAAAACATGCTTTATCATGTATACAATTTAACGATAACATAAGGCATGTTGATCATA
CAAAACATAATACGAGTGTATTAGGCATAAATTTTTCACAAATCATTGCATATTTTTG
Found at i:6855746 original size:89 final size:89
Alignment explanation
Indices: 6855632--6855801 Score: 261
Period size: 89 Copynumber: 1.9 Consensus size: 89
6855622 AATTAAGTCC
* * * *
6855632 TTTTTTTTGCATTCAATTGGGTACTTGAACTT-TCAGAATGCATCAAAAAGACCCTCAAAATTTT
1 TTTTTTTTGCAATCAATTAGGTACTT-AAATTGTCAAAATGCATCAAAAAGACCCTCAAAATTTT
6855696 CCAAAAAAAGCAATTAAGCCCCTAT
65 CCAAAAAAAGCAATTAAGCCCCTAT
* *
6855721 TTTTTTTTGCAATCAATTAGGTACTTAAATTGTCAAAATGCATCAAAAAGACCCTCAAATTTTTT
1 TTTTTTTTGCAATCAATTAGGTACTTAAATTGTCAAAATGCATCAAAAAGACCCTCAAAATTTTC
*
6855786 CAAAAAAGGCAATTAA
66 CAAAAAAAGCAATTAA
6855802 ACTCCTTTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 4 0.05
89 69 0.95
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (89 bp):
TTTTTTTTGCAATCAATTAGGTACTTAAATTGTCAAAATGCATCAAAAAGACCCTCAAAATTTTC
CAAAAAAAGCAATTAAGCCCCTAT
Found at i:6856015 original size:26 final size:28
Alignment explanation
Indices: 6855958--6856016 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
6855948 AAAAACAACA
*
6855958 AAAAATATAAAAATTATTAAACTTTAAT
1 AAAAATATAAAAATTATTAAACATTAAT
*
6855986 -AAAATAT-AAAATTTTTAAA-ATTAAT
1 AAAAATATAAAAATTATTAAACATTAAT
6856011 AAAAAT
1 AAAAAT
6856017 TAGAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.18
26 16 0.57
27 7 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (28 bp):
AAAAATATAAAAATTATTAAACATTAAT
Found at i:6856057 original size:20 final size:20
Alignment explanation
Indices: 6856029--6856074 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
6856019 GAAAGAAAAA
6856029 TATAAAAATATT-TAAAA-TT
1 TATAAAAA-ATTGTAAAATTT
6856048 TATAAAAAATTGTAAAATTT
1 TATAAAAAATTGTAAAATTT
6856068 TATAAAA
1 TATAAAA
6856075 TGCATCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 13 0.52
20 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TATAAAAAATTGTAAAATTT
Found at i:6856090 original size:19 final size:19
Alignment explanation
Indices: 6856068--6856105 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6856058 TGTAAAATTT
6856068 TATAAAATGCATCAAAAAG
1 TATAAAATGCATCAAAAAG
6856087 TATAAAATGCATCAAAAAG
1 TATAAAATGCATCAAAAAG
6856106 GCCTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.21
Consensus pattern (19 bp):
TATAAAATGCATCAAAAAG
Found at i:6856387 original size:10 final size:10
Alignment explanation
Indices: 6856374--6856446 Score: 78
Period size: 10 Copynumber: 7.4 Consensus size: 10
6856364 TTTCTATATA
6856374 TTTTATAATT
1 TTTTATAATT
*
6856384 TTTTATGA-T
1 TTTTATAATT
**
6856393 TTTTATAAAA
1 TTTTATAATT
*
6856403 TTTTAAAATT
1 TTTTATAATT
6856413 TTTTATAATT
1 TTTTATAATT
*
6856423 TTTTACAA-T
1 TTTTATAATT
6856432 TTTTATAATCT
1 TTTTATAAT-T
6856443 TTTT
1 TTTT
6856447 CTAAATAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
9 16 0.31
10 30 0.59
11 5 0.10
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:6856398 original size:19 final size:19
Alignment explanation
Indices: 6856374--6856446 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
6856364 TTTCTATATA
**
6856374 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTAAAAT
**
6856393 TTTTATAAAATTTTAAAATT
1 TTTTATAATTTTTTAAAA-T
*
6856413 TTTTATAATTTTTTACAAT
1 TTTTATAATTTTTTAAAAT
6856432 TTTTATAATCTTTTT
1 TTTTATAAT-TTTTT
6856447 CTAAATAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 24 0.53
20 21 0.47
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTAAAAT
Found at i:6856498 original size:29 final size:28
Alignment explanation
Indices: 6856455--6856512 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 28
6856445 TTCTAAATAA
*
6856455 TAAAAATTAATA-TTTTATATATTTTTAT
1 TAAAAATTAATATTTTTATA-ACTTTTAT
6856483 TAAAAATTAATAATTTTTATAACTTTTAT
1 TAAAAATTAAT-ATTTTTATAACTTTTAT
6856512 T
1 T
6856513 GGTTTGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.41
29 9 0.33
30 7 0.26
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
TAAAAATTAATATTTTTATAACTTTTAT
Found at i:6861221 original size:13 final size:13
Alignment explanation
Indices: 6861203--6861228 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6861193 CGTCAAGTCC
6861203 TAGCTACAGGATG
1 TAGCTACAGGATG
6861216 TAGCTACAGGATG
1 TAGCTACAGGATG
6861229 CTACATTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (13 bp):
TAGCTACAGGATG
Found at i:6869421 original size:20 final size:21
Alignment explanation
Indices: 6869396--6869436 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6869386 ATGTTGAATT
6869396 AATTGA-TGAATTACAAGTTA
1 AATTGATTGAATTACAAGTTA
*
6869416 AATTGATTGAATTTCAAGTTA
1 AATTGATTGAATTACAAGTTA
6869437 GAAGTTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (21 bp):
AATTGATTGAATTACAAGTTA
Found at i:6870319 original size:22 final size:23
Alignment explanation
Indices: 6870278--6870323 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
6870268 GGATTTATAT
6870278 TATTCTGGATATGTTAGGTTGGA
1 TATTCTGGATATGTTAGGTTGGA
* *
6870301 TATTCTGG-TGTGTTTGGTTGGA
1 TATTCTGGATATGTTAGGTTGGA
6870323 T
1 T
6870324 CCGTGTATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.15, C:0.04, G:0.33, T:0.48
Consensus pattern (23 bp):
TATTCTGGATATGTTAGGTTGGA
Found at i:6871394 original size:15 final size:15
Alignment explanation
Indices: 6871376--6871411 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
6871366 CGAAAATCCG
6871376 TTTTATTAATGTTAA
1 TTTTATTAATGTTAA
6871391 TTTTATTAATGTTAA
1 TTTTATTAATGTTAA
6871406 TTTTAT
1 TTTTAT
6871412 AAAAGATGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTTATTAATGTTAA
Found at i:6872644 original size:19 final size:18
Alignment explanation
Indices: 6872622--6872659 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
6872612 TATAATAATG
*
6872622 ATAACAATAATAAATAGTA
1 ATAAAAATAAT-AATAGTA
6872641 ATAAAAATAATAATAGTA
1 ATAAAAATAATAATAGTA
6872659 A
1 A
6872660 ATTAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAAAAATAATAATAGTA
Found at i:6875053 original size:44 final size:44
Alignment explanation
Indices: 6874981--6875418 Score: 217
Period size: 44 Copynumber: 9.5 Consensus size: 44
6874971 TATCTCCGTG
* * *
6874981 AAGTTGCAGTGGAGCAAGA-TGAACCTACAAATCCTATATCCCTG
1 AAGTTGCAGTGGATC-AGATTGAAGCTACAAATCCTATATCCCTA
* * *
6875025 AAGTTGCAGTGGATC-GTATTGAAGCTACAATTCCTATACCCCAA
1 AAGTTGCAGTGGATCAG-ATTGAAGCTACAAATCCTATATCCCTA
* * * * *
6875069 AAGTTGTAGTGGGTCAGAATGAAACTACAATGACAAATCCTATATCCTTA
1 AAGTTGCAGTGGATCAGATTG-AA--GC--T-ACAAATCCTATATCCCTA
* * * * *
6875119 AAGTTACAGTGGATC-GAATTAAAGCTACAAATCTTATACCCCTG
1 AAGTTGCAGTGGATCAG-ATTGAAGCTACAAATCCTATATCCCTA
* * * *
6875163 AAGTTGCAGTAGG-TCGGATTGAATCTACCATAGCAAGTCTTATCTCCCTA
1 AAGTTGCAGT-GGATCAGATTGAAGCTA-C--A--AA-TCCTATATCCCTA
* * * * * *
6875213 AACTTGCAGTCGAACAAGA-TGAAGCTACAAATCTTATA-CCATTG
1 AAGTTGCAGTGGATC-AGATTGAAGCTACAAATCCTATATCC-CTA
* * * *
6875257 AATTTGCAGTGGGTCAGATTGAAGTTACCATAA-CGAACTTTATCTCTCTA
1 AAGTTGCAGTGGATCAGATTGAAGCTA-CA-AATC---CTATATC-C-CTA
* * * * * *
6875307 AAGTTTCAGCGGAGCA-AGGTGAACCTACAAATCTTATATCCCTA
1 AAGTTGCAGTGGATCAGA-TTGAAGCTACAAATCCTATATCCCTA
* * *
6875351 AAGTTGTAGTGGATCAGATTGAAGCTACAAATCCTATACCCCTG
1 AAGTTGCAGTGGATCAGATTGAAGCTACAAATCCTATATCCCTA
* *
6875395 AAGTTGCAGTGGGTCGGATTGAAG
1 AAGTTGCAGTGGATCAGATTGAAG
6875419 TTACCATAGC
Statistics
Matches: 292, Mismatches: 70, Indels: 64
0.69 0.16 0.15
Matches are distributed among these distances:
42 1 0.00
43 6 0.02
44 165 0.57
45 15 0.05
46 7 0.02
47 4 0.01
48 5 0.02
49 13 0.04
50 74 0.25
51 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (44 bp):
AAGTTGCAGTGGATCAGATTGAAGCTACAAATCCTATATCCCTA
Found at i:6875167 original size:94 final size:93
Alignment explanation
Indices: 6875006--6875380 Score: 308
Period size: 94 Copynumber: 4.0 Consensus size: 93
6874996 AAGATGAACC
* * * * *
6875006 TACAAATCCTATATCCCTGAAGTTGCAGTGGATCGTA-TTGAAGCTACAATTCCTATACCCCAAA
1 TACAAATCCTATATCCCTAAAGTTGCAGTGGATC-AAGTTGAAGCTACAAATCTTATACCCCTAA
* * *
6875070 AGTTGTAGTGGGTCAGAATGAAACTACAA
65 AGTTGCAGTGGGTCAGATTGAAGCTACAA
* * * *
6875099 TGACAAATCCTATATCCTTAAAGTTACAGTGGATCGAA-TTAAAGCTACAAATCTTATACCCCTG
1 T-ACAAATCCTATATCCCTAAAGTTGCAGTGGATC-AAGTTGAAGCTACAAATCTTATACCCCTA
* * * *
6875163 AAGTTGCAGTAGGTCGGATTGAATCTACCA
64 AAGTTGCAGTGGGTCAGATTGAAGCTACAA
* * * * * * * ** *
6875193 TAGCAAGTCTTATCTCCCTAAACTTGCAGTCGAACAAGATGAAGCTACAAATCTTATACCATTGA
1 TA-CAAATCCTATATCCCTAAAGTTGCAGTGGATCAAGTTGAAGCTACAAATCTTATACCCCTAA
* * *
6875258 ATTTGCAGTGGGTCAGATTGAAGTTACCA
65 AGTTGCAGTGGGTCAGATTGAAGCTACAA
* * * * * * * *
6875287 TAACGAA--CTTTATCTCTCTAAAGTTTCAGCGGAGCAAGGTGAACCTACAAATCTTATATCCCT
1 T-ACAAATCCTATATC-C-CTAAAGTTGCAGTGGATCAAGTTGAAGCTACAAATCTTATACCCCT
* *
6875350 AAAGTTGTAGTGGATCAGATTGAAGCTACAA
63 AAAGTTGCAGTGGGTCAGATTGAAGCTACAA
6875381 ATCCTATACC
Statistics
Matches: 223, Mismatches: 53, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
92 4 0.02
93 5 0.02
94 213 0.96
95 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (93 bp):
TACAAATCCTATATCCCTAAAGTTGCAGTGGATCAAGTTGAAGCTACAAATCTTATACCCCTAAA
GTTGCAGTGGGTCAGATTGAAGCTACAA
Found at i:6875436 original size:94 final size:94
Alignment explanation
Indices: 6875338--6875512 Score: 237
Period size: 94 Copynumber: 1.9 Consensus size: 94
6875328 AACCTACAAA
* *
6875338 TCTTATATCCCTAAAGTTGTAGT-GGATC-AGATTGAAGCTACAAATCCTATACCCCTGAAGTTG
1 TCTTATATCCCTAAAGTTGTAGTAGG-GCAAGA-TGAAGCTACAAATCCTATACCCCTGAAGTTA
* *
6875401 CAGTGGGTCGGATTGAAGTTACCATAGCGAG
64 AAGTGGATCGGATTGAAGTTACCATAGCGAG
* * * * *
6875432 TCTTATCTCCCTAAAGTTGTAGTAGGGCAAGATGAAGCTGCAAATCCTATATCTCTGTAGTTAAA
1 TCTTATATCCCTAAAGTTGTAGTAGGGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTAAA
6875497 GTGGATCGGATTGAAG
66 GTGGATCGGATTGAAG
6875513 AGACAATTCC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
94 65 0.93
95 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (94 bp):
TCTTATATCCCTAAAGTTGTAGTAGGGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTAAA
GTGGATCGGATTGAAGTTACCATAGCGAG
Found at i:6875448 original size:138 final size:138
Alignment explanation
Indices: 6875200--6875548 Score: 364
Period size: 138 Copynumber: 2.5 Consensus size: 138
6875190 CCATAGCAAG
* * * * * * * *
6875200 TCTTATCTCCCTAAACTTGCAGTCGAACAAGA-TGAAGCTACAAATCTTATACCATTGAATTTGC
1 TCTTATATCCCTAAAGTTGAAGTGGATC-AGATTGAAGCTACAAATCCTATACCACTGAAGTTGC
* * * *
6875264 AGTGGGTCAGATTGAAGTTACCATAACGAACTTTATCTCTCTAAAGTT-TCAG-CGGAGCAAGGT
65 AGTGGGTCGGATTGAAGTTACCATAACGAACTTTATCTCCCTAAAGTTGT-AGTAGG-GCAAGAT
6875327 GAACCTACAAA
128 GAACCTACAAA
* *
6875338 TCTTATATCCCTAAAGTTGTAGTGGATCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCA
1 TCTTATATCCCTAAAGTTGAAGTGGATCAGATTGAAGCTACAAATCCTATACCACTGAAGTTGCA
* *
6875403 GTGGGTCGGATTGAAGTTACCATAGCG-AGTCTTATCTCCCTAAAGTTGTAGTAGGGCAAGATGA
66 GTGGGTCGGATTGAAGTTACCATAACGAACT-TTATCTCCCTAAAGTTGTAGTAGGGCAAGATGA
* *
6875467 AGCTGCAAA
130 ACCTACAAA
* * ** * * ** * * *
6875476 TCCTATATCTCTGTAGTTAAAGTGGATCGGATTGAAGAGACAATTCCTATACCTCTGAAGTTACA
1 TCTTATATCCCTAAAGTTGAAGTGGATCAGATTGAAGCTACAAATCCTATACCACTGAAGTTGCA
*
6875541 GTAGGTCG
66 GTGGGTCG
6875549 TAATGAAATT
Statistics
Matches: 177, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
137 5 0.03
138 169 0.95
139 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (138 bp):
TCTTATATCCCTAAAGTTGAAGTGGATCAGATTGAAGCTACAAATCCTATACCACTGAAGTTGCA
GTGGGTCGGATTGAAGTTACCATAACGAACTTTATCTCCCTAAAGTTGTAGTAGGGCAAGATGAA
CCTACAAA
Found at i:6875596 original size:232 final size:228
Alignment explanation
Indices: 6874918--6875598 Score: 583
Period size: 232 Copynumber: 2.9 Consensus size: 228
6874908 ACATCTTAAC
* * * * * * * * *
6874918 TCCTATACCCCTAAAATAGCAGTGGGTCGGATTGAAGCTA-AAGTGGCGAATCTTATCTCCGTGA
1 TCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCA-TAGCGAGTCTTATCTCCCTAA
* * *
6874982 AGTTGCAGTGGAGCAAGATGAACCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGTATTGA
65 AGTTGCAGTGG-GCAAGATGAAGCTACAAATCCTATATCTCTGAAGTTGCAGTGGATCGGATTGA
* * * ** * * *
6875047 AGCTACAATTCCTATACCCCAAAAGTTGTAGTGGGTCAGAATGAAACTACAATGACAAATCCTAT
129 AGATACAATTCCTATACCTCTAAAGTTACAGTAGGTC-GAATGAAA-TATAATG-CAAATCTTAT
*
6875112 AT-CCTTAAAGTTACAGTGGATCGAATTAAAGCTACAAA
191 ATCCCTT-AAGTTGCAGTGGATCGAATTAAAGCTACAAA
* * *
6875150 TCTTATACCCCTGAAGTTGCAGTAGGTCGGATTGAA-TCTACCATAGCAAGTCTTATCTCCCTAA
1 TCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGT-TACCATAGCGAGTCTTATCTCCCTAA
* ** * * * * *
6875214 ACTTGCAGTCGAACAAGATGAAGCTACAAATCTTATACCAT-TGAATTTGCAGTGGGTCAGATTG
65 AGTTGCAGT-GGGCAAGATGAAGCTACAAATCCTATATC-TCTGAAGTTGCAGTGGATCGGATTG
* * * * * * * **
6875278 AAGTTACCATAACGAACTTTATCTCTCTAAAGTTTCAG-CGG-AGCAAGGTG-AACCT-A--CAA
128 AAGATACAAT-TC---CTATA-C-CTCTAAAGTTACAGTAGGTCG-AA--TGAAATATAATGCAA
* * *
6875337 ATCTTATATCCCTAAAGTTGTAGTGGATC-AGATTGAAGCTACAAA
184 ATCTTATATCCCTTAAGTTGCAGTGGATCGA-ATTAAAGCTACAAA
6875382 TCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAGCGAGTCTTATCTCCCTAAA
1 TCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAGCGAGTCTTATCTCCCTAAA
* * * **
6875447 GTTGTAGTAGGGCAAGATGAAGCTGCAAATCCTATATCTCTGTAGTTAAAGTGGATCGGATTGAA
66 GTTGCAGT-GGGCAAGATGAAGCTACAAATCCTATATCTCTGAAGTTGCAGTGGATCGGATTGAA
* * * * *
6875512 GAGACAATTCCTATACCTCTGAAGTTACAGTAGGTCGTAATGAAATTATAATGGCGAATCTTTTT
130 GATACAATTCCTATACCTCTAAAGTTACAGTAGGTCG-AATGAAA-TATAAT-GCAAATCTTATA
*
6875577 TCCCTTAATTTGCAGTGGATCG
192 TCCCTTAAGTTGCAGTGGATCG
6875599 GAATGAAATT
Statistics
Matches: 347, Mismatches: 76, Indels: 51
0.73 0.16 0.11
Matches are distributed among these distances:
226 14 0.04
227 5 0.01
228 8 0.02
229 1 0.00
231 3 0.01
232 284 0.82
233 7 0.02
235 2 0.01
236 6 0.02
237 5 0.01
238 12 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (228 bp):
TCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAGCGAGTCTTATCTCCCTAAA
GTTGCAGTGGGCAAGATGAAGCTACAAATCCTATATCTCTGAAGTTGCAGTGGATCGGATTGAAG
ATACAATTCCTATACCTCTAAAGTTACAGTAGGTCGAATGAAATATAATGCAAATCTTATATCCC
TTAAGTTGCAGTGGATCGAATTAAAGCTACAAA
Found at i:6875629 original size:50 final size:50
Alignment explanation
Indices: 6875533--6875645 Score: 149
Period size: 50 Copynumber: 2.3 Consensus size: 50
6875523 TATACCTCTG
* * * *
6875533 AAGTTACAGTAGG-TCGTAATGAAATTATAATGGCGAATCTTTTTTCCCTT
1 AAGTTGCAGT-GGATCGGAATGAAATTACAATGGCGAATCTTTTTTCCCTA
*
6875583 AATTTGCAGTGGATCGGAATGAAATTACAATGGCGAAT-TTTATTTCCCTA
1 AAGTTGCAGTGGATCGGAATGAAATTACAATGGCGAATCTTT-TTTCCCTA
6875633 AAGTTGCAGTGGA
1 AAGTTGCAGTGGA
6875646 GCAAGATGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
49 5 0.09
50 50 0.91
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (50 bp):
AAGTTGCAGTGGATCGGAATGAAATTACAATGGCGAATCTTTTTTCCCTA
Found at i:6875662 original size:50 final size:50
Alignment explanation
Indices: 6875550--6875662 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
6875540 AGTAGGTCGT
* * * * * *
6875550 AATGAAATTATAATGGCGAATCTTTTTTCCCTTAATTTGCAGTGGATCGG
1 AATGAAACTACAATGGCGAATCTTTTTTCCCTAAAGTTGCAGTGGAGCAG
*
6875600 AATGAAATTACAATGGCGAAT-TTTATTTCCCTAAAGTTGCAGTGGAGCA-
1 AATGAAACTACAATGGCGAATCTTT-TTTCCCTAAAGTTGCAGTGGAGCAG
*
6875649 AGATGAAGCTACAA
1 A-ATGAAACTACAA
6875663 ATATTATATC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 4 0.07
50 50 0.93
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (50 bp):
AATGAAACTACAATGGCGAATCTTTTTTCCCTAAAGTTGCAGTGGAGCAG
Found at i:6876929 original size:21 final size:21
Alignment explanation
Indices: 6876900--6876939 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6876890 TTTTATTGTA
*
6876900 GTTTCAATTTAGTCTCCTGTTC
1 GTTTCAATTGAGTC-CCTGTTC
6876922 GTTT-AATTGAGTCCCTGT
1 GTTTCAATTGAGTCCCTGT
6876940 ACTTGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (21 bp):
GTTTCAATTGAGTCCCTGTTC
Found at i:6877118 original size:16 final size:17
Alignment explanation
Indices: 6877099--6877139 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
6877089 TATGTAATTA
6877099 TTTTATTATCAT-ACAT
1 TTTTATTATCATGACAT
*
6877115 TTTTA-TATCATGCCAT
1 TTTTATTATCATGACAT
*
6877131 TATTATTAT
1 TTTTATTAT
6877140 TATTATCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 6 0.29
16 12 0.57
17 3 0.14
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTTATTATCATGACAT
Found at i:6884500 original size:18 final size:18
Alignment explanation
Indices: 6884477--6884512 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6884467 TATGTAATCA
6884477 TTTTGCTAACCCAAGGTC
1 TTTTGCTAACCCAAGGTC
6884495 TTTTGCTAACCCAAGGTC
1 TTTTGCTAACCCAAGGTC
6884513 AAAATAGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (18 bp):
TTTTGCTAACCCAAGGTC
Found at i:6887556 original size:18 final size:18
Alignment explanation
Indices: 6887533--6887567 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6887523 AGAAATAGCT
*
6887533 GCAAAATAATACATAAAA
1 GCAAAACAATACATAAAA
6887551 GCAAAACAATACATAAA
1 GCAAAACAATACATAAA
6887568 TGCTTAAAAT
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:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (18 bp):
GCAAAACAATACATAAAA
Found at i:6890302 original size:2 final size:2
Alignment explanation
Indices: 6890295--6890333 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6890285 ATTTCCTTTT
6890295 TA TA TA TA TA 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 TA TA TA TA TA T
6890334 TTATCTCGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6890653 original size:4 final size:4
Alignment explanation
Indices: 6890631--6890666 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
6890621 AATGGCATAG
*
6890631 AAAT AATAT AAAC AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
6890667 AATCAATAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:6891224 original size:3 final size:3
Alignment explanation
Indices: 6891216--6891332 Score: 150
Period size: 3 Copynumber: 39.0 Consensus size: 3
6891206 GTATATATAG
6891216 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
6891264 TAA TAA TAA TAA TAA TAA TAA CTTAA TAA CAA GAA -AA TAA -AA T-T
1 TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TAA TAA TAA
*
6891308 TAA TAA AAA TAAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA
6891333 AAAGACTAAA
Statistics
Matches: 102, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
2 5 0.05
3 91 0.89
4 3 0.03
5 3 0.03
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:6891655 original size:21 final size:21
Alignment explanation
Indices: 6891606--6891703 Score: 112
Period size: 21 Copynumber: 4.7 Consensus size: 21
6891596 AAATTAAATC
*
6891606 TCTAAGATTACA-AAATCATA
1 TCTAAGATTGCATAAATCATA
6891626 TCTTCTAAGATTGCATAAATCATA
1 ---TCTAAGATTGCATAAATCATA
*
6891650 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATAAATCATA
6891671 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTGCATAAATCATA
* *
6891690 TATAAGATTACATA
1 TCTAAGATTGCATA
6891704 TCCTTGAAGA
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.25
21 33 0.48
23 11 0.16
24 8 0.12
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (21 bp):
TCTAAGATTGCATAAATCATA
Found at i:6910908 original size:49 final size:49
Alignment explanation
Indices: 6910813--6910908 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
6910803 CTCACGGTGG
* * **
6910813 TTATACGGTCACGGGTTGAAGTATAACTAGGGCTCCTGGTTAATGGTAA
1 TTATACGGTCACGAGTTAAAGTATAACTAGGGCTCCCAGTTAATGGTAA
* *
6910862 TTATACGGTCACGAGTTAAAGTATAACTGGGGAC-CCCAGTTGATGGT
1 TTATACGGTCACGAGTTAAAGTATAACTAGGG-CTCCCAGTTAATGGT
6910909 GGTTATGTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
49 39 0.98
50 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (49 bp):
TTATACGGTCACGAGTTAAAGTATAACTAGGGCTCCCAGTTAATGGTAA
Found at i:6913980 original size:28 final size:27
Alignment explanation
Indices: 6913940--6913997 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
6913930 GAATCAAACA
*
6913940 CAGAATTAGAAATGATTTTCTTTACTTT
1 CAGAATCAGAAATGATTTTC-TTACTTT
6913968 CAGAATCAGAAATGATTTTCTTACTTT
1 CAGAATCAGAAATGATTTTCTTACTTT
6913995 CAG
1 CAG
6913998 TAGGAAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (27 bp):
CAGAATCAGAAATGATTTTCTTACTTT
Found at i:6923576 original size:6 final size:6
Alignment explanation
Indices: 6923565--6923591 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6923555 AGGTTTCTAA
6923565 AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAA
6923592 CTTGTAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:6923784 original size:25 final size:27
Alignment explanation
Indices: 6923733--6923792 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
6923723 AAATTTCTCG
*
6923733 AAATTTTACCGGGGGTAAAATCATC-A
1 AAATTTTACCGGGGATAAAATCATCAA
**
6923759 AAATTTTACC-GGGATAAAATTGTCAA
1 AAATTTTACCGGGGATAAAATCATCAA
6923785 AAATTTTA
1 AAATTTTA
6923793 ATGGAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (27 bp):
AAATTTTACCGGGGATAAAATCATCAA
Found at i:6932232 original size:7 final size:6
Alignment explanation
Indices: 6932206--6932230 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6932196 ATGCATTCAA
6932206 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
6932231 TAAAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:6951710 original size:9 final size:9
Alignment explanation
Indices: 6951696--6951723 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6951686 TATAGTTTGA
6951696 TATTCGAAT
1 TATTCGAAT
6951705 TATTCGAAT
1 TATTCGAAT
6951714 TATTCGAAT
1 TATTCGAAT
6951723 T
1 T
6951724 TGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:6956738 original size:23 final size:24
Alignment explanation
Indices: 6956711--6956763 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
6956701 ATTTCAAATG
6956711 TTTTATAACAT-TATTTTTTAAAA
1 TTTTATAACATATATTTTTTAAAA
*
6956734 TTTTA-AATATATATTTTTTAAAA
1 TTTTATAACATATATTTTTTAAAA
6956757 TTATTAT
1 TT-TTAT
6956764 TATTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 4 0.15
23 19 0.73
24 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTATAACATATATTTTTTAAAA
Found at i:6956754 original size:15 final size:18
Alignment explanation
Indices: 6956733--6956839 Score: 73
Period size: 19 Copynumber: 6.0 Consensus size: 18
6956723 ATTTTTTAAA
6956733 ATTTTAAATA-TA-TATT
1 ATTTTAAATATTATTATT
6956749 -TTTTAAA-ATTATTATT
1 ATTTTAAATATTATTATT
*
6956765 ATTTTAAAT-TTAAATATT
1 ATTTTAAATATT-ATTATT
* *
6956783 ATTTTTTAAATTTTAAATATT
1 A--TTTTAAATATT-ATTATT
* *
6956804 ATTTTAAATATTATAAAAT
1 ATTTTAAATATTAT-TATT
*
6956823 ATTTAAAATA-TATTATT
1 ATTTTAAATATTATTATT
6956840 TTTAAAGATA
Statistics
Matches: 74, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
14 1 0.01
15 9 0.12
16 4 0.05
17 11 0.15
18 10 0.14
19 21 0.28
20 8 0.11
21 10 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTAAATATTATTATT
Found at i:6956773 original size:16 final size:17
Alignment explanation
Indices: 6956733--6956841 Score: 68
Period size: 16 Copynumber: 6.3 Consensus size: 17
6956723 ATTTTTTAAA
6956733 ATTTTAAA-TATATATT
1 ATTTTAAATTATATATT
6956749 -TTTTAAAATTAT-TATT
1 ATTTT-AAATTATATATT
*
6956765 ATTTTAAATTTAAATATT
1 ATTTTAAA-TTATATATT
*
6956783 ATTTTTTAAATTTTAAATATT
1 A--TTTTAAA--TTATATATT
**
6956804 ATTTTAAA-TATTATAAA
1 ATTTTAAATTA-TATATT
6956821 ATATTTAAA--ATATATT
1 AT-TTTAAATTATATATT
6956837 ATTTT
1 ATTTT
6956842 TAAAGATATG
Statistics
Matches: 77, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
15 7 0.09
16 18 0.23
17 16 0.21
18 11 0.14
19 7 0.09
20 7 0.09
21 11 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTATATATT
Found at i:6956774 original size:39 final size:40
Alignment explanation
Indices: 6956720--6956812 Score: 122
Period size: 39 Copynumber: 2.4 Consensus size: 40
6956710 GTTTTATAAC
6956720 ATTATT-TTTTAAAATTTTAAATATATATTTTTTAAA-ATT-
1 ATTATTATTTT-AAATTTTAAATAT-TATTTTTTAAATATTA
*
6956759 ATTATTATTTTAAA-TTTAAATATTATTTTTTAAATTTTA
1 ATTATTATTTTAAATTTTAAATATTATTTTTTAAATATTA
*
6956798 AATATTATTTTAAAT
1 ATTATTATTTTAAAT
6956813 ATTATAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
37 11 0.23
38 11 0.23
39 22 0.46
40 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (40 bp):
ATTATTATTTTAAATTTTAAATATTATTTTTTAAATATTA
Found at i:6956784 original size:21 final size:21
Alignment explanation
Indices: 6956711--6956808 Score: 107
Period size: 21 Copynumber: 4.8 Consensus size: 21
6956701 ATTTCAAATG
*
6956711 TTTTATAACATTATTTTTTAAAA
1 TTTTA-AATATTATTTTTT-AAA
6956734 TTTTAAATATATATTTTTTAAA
1 TTTTAAATAT-TATTTTTTAAA
* *
6956756 -ATT-ATTATTA--TTTTAAA
1 TTTTAAATATTATTTTTTAAA
6956773 -TTTAAATATTATTTTTTAAA
1 TTTTAAATATTATTTTTTAAA
6956793 TTTTAAATATTATTTT
1 TTTTAAATATTATTTT
6956809 AAATATTATA
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
17 9 0.14
18 6 0.09
19 2 0.03
20 11 0.17
21 17 0.26
22 7 0.11
23 13 0.20
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAAATATTATTTTTTAAA
Found at i:6956809 original size:12 final size:12
Alignment explanation
Indices: 6956792--6956817 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6956782 TATTTTTTAA
6956792 ATTTTAAATATT
1 ATTTTAAATATT
6956804 ATTTTAAATATT
1 ATTTTAAATATT
6956816 AT
1 AT
6956818 AAAATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTTAAATATT
Found at i:6956820 original size:21 final size:20
Alignment explanation
Indices: 6956722--6956825 Score: 85
Period size: 20 Copynumber: 5.2 Consensus size: 20
6956712 TTTATAACAT
*
6956722 TATT-TTTTAAAATTTTAAA
1 TATTATTTTAAAATTATAAA
6956741 TATATATTTTTTAAAATTAT---
1 TAT-TA--TTTTAAAATTATAAA
6956761 TATTATTTT-AAATT-TAAA
1 TATTATTTTAAAATTATAAA
* *
6956779 TATTATTTTTTAAATTTTAAA
1 TATTA-TTTTAAAATTATAAA
6956800 TATTATTTTAAATATTATAAAA
1 TATTATTTTAAA-ATTAT-AAA
6956822 TATT
1 TATT
6956826 TAAAATATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 21
0.74 0.03 0.22
Matches are distributed among these distances:
15 1 0.01
16 5 0.07
17 4 0.06
18 5 0.07
19 9 0.13
20 15 0.21
21 13 0.19
22 7 0.10
23 11 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATTTTAAAATTATAAA
Found at i:6956825 original size:19 final size:20
Alignment explanation
Indices: 6956761--6956833 Score: 75
Period size: 19 Copynumber: 3.8 Consensus size: 20
6956751 TTAAAATTAT
6956761 TATTATTTT-AA-ATTTAAA
1 TATTATTTTAAATATTTAAA
6956779 TATTATTTTTTAAAT-TTTAAA
1 TATTA--TTTTAAATATTTAAA
6956800 TATTATTTTAAATATTATAAA
1 TATTATTTTAAATATT-TAAA
*
6956821 -A-TATTTAAAATAT
1 TATTATTTTAAATAT
6956834 ATTATTTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
18 5 0.10
19 19 0.40
20 7 0.15
21 17 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTATTTTAAATATTTAAA
Found at i:6956896 original size:13 final size:12
Alignment explanation
Indices: 6956878--6956983 Score: 59
Period size: 13 Copynumber: 8.8 Consensus size: 12
6956868 ATTTTTTATA
6956878 ATATTTTAAATGT
1 ATATTTTAAAT-T
6956891 ATATTTTAAA--
1 ATATTTTAAATT
6956901 AT-TTTTAAATAT
1 ATATTTTAAAT-T
6956913 ATATTTT---TT
1 ATATTTTAAATT
6956922 A-ATTTTAAA-T
1 ATATTTTAAATT
6956932 ATAATTTTTAAATT
1 AT-A-TTTTAAATT
*
6956946 ATTTTTTAAAAATT
1 ATATTTT--AAATT
6956960 ATGATTTTTTAAATT
1 AT-A--TTTTAAATT
6956975 AT-TTTTAAA
1 ATATTTTAAA
6956984 GATATTTAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 34
0.68 0.02 0.31
Matches are distributed among these distances:
8 5 0.07
9 9 0.12
10 5 0.07
11 7 0.09
12 7 0.09
13 21 0.28
14 10 0.13
15 7 0.09
17 4 0.05
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
ATATTTTAAATT
Found at i:6956908 original size:22 final size:22
Alignment explanation
Indices: 6956871--6956945 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
6956861 ATTTATTATT
* *
6956871 TTTTATAATATTTTAAATGTATA
1 TTTTAAAAT-TTTTAAATATATA
6956894 TTTTAAAATTTTTAAATATATA
1 TTTTAAAATTTTTAAATATATA
**
6956916 TTTTTTAA-TTTTAAATATA-A
1 TTTTAAAATTTTTAAATATATA
*
6956936 TTTTTAAATT
1 TTTTAAAATT
6956946 ATTTTTTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 8 0.17
21 12 0.26
22 18 0.39
23 8 0.17
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTTAAAATTTTTAAATATATA
Found at i:6960663 original size:53 final size:53
Alignment explanation
Indices: 6960606--6960713 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
6960596 GTTGCAAAAT
6960606 TGATTGCAAAGGAAGGGAAATTAGCCACATTAAAATTAACTTTTAGTGAGGTC
1 TGATTGCAAAGGAAGGGAAATTAGCCACATTAAAATTAACTTTTAGTGAGGTC
6960659 TGATTGCAAAGGAAGGGAAATTAGCCACATTAAAATTAACTTTTAGTGAGGTC
1 TGATTGCAAAGGAAGGGAAATTAGCCACATTAAAATTAACTTTTAGTGAGGTC
6960712 TG
1 TG
6960714 TTTGATATCC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (53 bp):
TGATTGCAAAGGAAGGGAAATTAGCCACATTAAAATTAACTTTTAGTGAGGTC
Found at i:6965243 original size:18 final size:19
Alignment explanation
Indices: 6965216--6965266 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
6965206 GACATGTGAC
*
6965216 AAAAAATAATAAATA-AAT
1 AAAAATTAATAAATAGAAT
6965234 AAAAATTAATAAA-AGTAAT
1 AAAAATTAATAAATAG-AAT
*
6965253 AAAAATTATTAAAT
1 AAAAATTAATAAAT
6965267 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 12 0.43
19 15 0.54
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAATTAATAAATAGAAT
Found at i:6965244 original size:10 final size:10
Alignment explanation
Indices: 6965220--6965326 Score: 62
Period size: 10 Copynumber: 10.9 Consensus size: 10
6965210 TGTGACAAAA
*
6965220 AATAATAAATA
1 AATAA-AAATT
6965231 AATAAAAATT
1 AATAAAAATT
*
6965241 AAT-AAAAGT
1 AATAAAAATT
6965250 AATAAAAATT
1 AATAAAAATT
* **
6965260 ATTAAATTTT
1 AATAAAAATT
*
6965270 AAT-TAAA--
1 AATAAAAATT
6965277 AATAAAAATT
1 AATAAAAATT
*
6965287 TATAAAAATTT
1 AATAAAAA-TT
*
6965298 ATAAAAAAATT
1 A-ATAAAAATT
*
6965309 -ATAAAATTT
1 AATAAAAATT
*
6965318 TATAAAAAT
1 AATAAAAAT
6965327 CGAAAAAAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 15
0.69 0.16 0.14
Matches are distributed among these distances:
7 3 0.04
8 3 0.04
9 16 0.22
10 35 0.49
11 9 0.12
12 6 0.08
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (10 bp):
AATAAAAATT
Found at i:6965294 original size:11 final size:10
Alignment explanation
Indices: 6965278--6965326 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
6965268 TTAATTAAAA
6965278 ATAAAAATTT
1 ATAAAAATTT
6965288 ATAAAAATTT
1 ATAAAAATTT
*
6965298 ATAAAAAAATT
1 AT-AAAAATTT
*
6965309 ATAAAATTTT
1 ATAAAAATTT
6965319 ATAAAAAT
1 ATAAAAAT
6965327 CGAAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:6965310 original size:21 final size:21
Alignment explanation
Indices: 6965280--6965325 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
6965270 AATTAAAAAT
*
6965280 AAAAATTTATAAAAATTTATA
1 AAAAAATTATAAAAATTTATA
*
6965301 AAAAAATTATAAAATTTTATA
1 AAAAAATTATAAAAATTTATA
6965322 AAAA
1 AAAA
6965326 TCGAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAAATTATAAAAATTTATA
Found at i:6965333 original size:29 final size:30
Alignment explanation
Indices: 6965278--6965382 Score: 99
Period size: 29 Copynumber: 3.5 Consensus size: 30
6965268 TTAATTAAAA
* * *
6965278 ATAAAAATTTATAAAAATTTATAAAAAAATT
1 ATAAAATTTTAT-AAAATATAGAAAAAAATT
*
6965309 ATAAAATTTTATAAAA-ATCGAAAAAAA-T
1 ATAAAATTTTATAAAATATAGAAAAAAATT
* *
6965337 AT-AAAGTATATAGAAATATAGAAAAAAATTT
1 ATAAAATTTTATA-AAATATAGAAAAAAA-TT
*
6965368 ATAGAATTTTATAAA
1 ATAAAATTTTATAAA
6965383 GTTGTAAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
27 8 0.14
28 6 0.10
29 18 0.31
30 4 0.07
31 16 0.27
32 7 0.12
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (30 bp):
ATAAAATTTTATAAAATATAGAAAAAAATT
Found at i:6965659 original size:37 final size:37
Alignment explanation
Indices: 6965611--6965691 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
6965601 GTTAAAGAAT
* * *
6965611 TTTTTTTATTTTTA-TAAAAGTTTACAATTTTTTATAA
1 TTTTTATATTTTTATTAAAAGTTAAC-AGTTTTTATAA
*
6965648 TTTTTATATTTTTATTGAAAGTTAACAGTTTTTATAA
1 TTTTTATATTTTTATTAAAAGTTAACAGTTTTTATAA
*
6965685 ATTTTAT
1 TTTTTAT
6965692 TGATATTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
37 29 0.76
38 9 0.24
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.60
Consensus pattern (37 bp):
TTTTTATATTTTTATTAAAAGTTAACAGTTTTTATAA
Found at i:6971038 original size:27 final size:27
Alignment explanation
Indices: 6971015--6971071 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
6971005 CAGGTTGCGG
* *
6971015 CTATTTGATAGGCGCAACTAGTTGAGC
1 CTATCTGACAGGCGCAACTAGTTGAGC
* *
6971042 CTATCTGACAGGCGCGACTAGTTGTGC
1 CTATCTGACAGGCGCAACTAGTTGAGC
6971069 CTA
1 CTA
6971072 ACTCAGAGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (27 bp):
CTATCTGACAGGCGCAACTAGTTGAGC
Found at i:6971081 original size:27 final size:27
Alignment explanation
Indices: 6971024--6971085 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
6971014 GCTATTTGAT
* * *
6971024 AGGCGCAACTAGTTGAGCCTATCTGAC
1 AGGCGCGACTAGTTGAGCCTAACTCAC
* *
6971051 AGGCGCGACTAGTTGTGCCTAACTCAG
1 AGGCGCGACTAGTTGAGCCTAACTCAC
6971078 AGGCGCGA
1 AGGCGCGA
6971086 ATGGTGGGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.24, C:0.26, G:0.31, T:0.19
Consensus pattern (27 bp):
AGGCGCGACTAGTTGAGCCTAACTCAC
Found at i:6971710 original size:27 final size:27
Alignment explanation
Indices: 6971666--6971742 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
6971656 CACACACCAT
* * *
6971666 TCGCGCCTACCTGCCAGGCTCGATTAG
1 TCGCGCCTATCTGACAGGCGCGATTAG
6971693 TCGCGCCTATCTGACAGGCGCGATTAG
1 TCGCGCCTATCTGACAGGCGCGATTAG
*
6971720 TCACGCCTATCTGACAGGCGCGA
1 TCGCGCCTATCTGACAGGCGCGA
6971743 CCATTTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (27 bp):
TCGCGCCTATCTGACAGGCGCGATTAG
Found at i:6972877 original size:26 final size:24
Alignment explanation
Indices: 6972829--6972879 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
6972819 TTTAAAATAC
* *
6972829 TTTTAAAATATTTTTATTTTTTAT
1 TTTTAAAATATTTTTAATGTTTAT
6972853 TTTTAAAATGATTTTTTAATGTTTAT
1 TTTTAAAAT-A-TTTTTAATGTTTAT
6972879 T
1 T
6972880 AAAAAATGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTTAAAATATTTTTAATGTTTAT
Found at i:6977912 original size:23 final size:22
Alignment explanation
Indices: 6977879--6977965 Score: 95
Period size: 23 Copynumber: 3.8 Consensus size: 22
6977869 GGACTCACCA
6977879 CAGCTCGTATGAGCTTACCGTTT
1 CAGCTC-TATGAGCTTACCGTTT
* *
6977902 TAGCTCTTATGAGCTTACTGTTT
1 CAGCTC-TATGAGCTTACCGTTT
*
6977925 CAGCTCTACGGAGCTTACCG-TT
1 CAGCTCTA-TGAGCTTACCGTTT
*
6977947 CAGCTCGATAGAGCTTACC
1 CAGCTCTAT-GAGCTTACC
6977966 ATTTACTGGC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 20 0.37
23 34 0.63
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (22 bp):
CAGCTCTATGAGCTTACCGTTT
Found at i:6978906 original size:13 final size:13
Alignment explanation
Indices: 6978888--6978912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6978878 ACATGTTTGG
6978888 ATATGAAATTGAT
1 ATATGAAATTGAT
6978901 ATATGAAATTGA
1 ATATGAAATTGA
6978913 CATTGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:6981757 original size:41 final size:41
Alignment explanation
Indices: 6981712--6981814 Score: 98
Period size: 41 Copynumber: 2.5 Consensus size: 41
6981702 CATCGGCATA
* *
6981712 AAGCCTACTAATCACAAATCCAGATATGATACACCAGCACG
1 AAGCCTACTAAGCACAAAGCCAGATATGATACACCAGCACG
* * * * * **
6981753 AAGCCTGCTAGGCATAAAGCCTGATCTGATACACCAGCATA
1 AAGCCTACTAAGCACAAAGCCAGATATGATACACCAGCACG
* * *
6981794 AAGCCTGCTAGGCACAGAGCC
1 AAGCCTACTAAGCACAAAGCC
6981815 TGAATATCAC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.17
Consensus pattern (41 bp):
AAGCCTACTAAGCACAAAGCCAGATATGATACACCAGCACG
Found at i:6981815 original size:41 final size:41
Alignment explanation
Indices: 6981724--6981817 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
6981714 GCCTACTAAT
* * * *
6981724 CACAAATCCAGATATGATACACCAGCACGAAGCCTGCTAGG
1 CACAAAGCCTGATCTGATACACCAGCACAAAGCCTGCTAGG
* *
6981765 CATAAAGCCTGATCTGATACACCAGCATAAAGCCTGCTAGG
1 CACAAAGCCTGATCTGATACACCAGCACAAAGCCTGCTAGG
*
6981806 CACAGAGCCTGA
1 CACAAAGCCTGA
6981818 ATATCACTGA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (41 bp):
CACAAAGCCTGATCTGATACACCAGCACAAAGCCTGCTAGG
Found at i:6984385 original size:23 final size:22
Alignment explanation
Indices: 6984330--6984385 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
6984320 TCGAATTGAG
* *
6984330 TAATTCAAATTTTAATTTCGAA
1 TAATTCAAATTTTAAATTCAAA
6984352 TCAAATT-AAATTTTACAATTCAAA
1 T--AATTCAAATTTTA-AATTCAAA
6984376 TAATTCAAAT
1 TAATTCAAAT
6984386 ATATGATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
22 5 0.18
23 12 0.43
24 11 0.39
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATTCAAATTTTAAATTCAAA
Found at i:6984414 original size:15 final size:15
Alignment explanation
Indices: 6984390--6984419 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6984380 TCAAATATAT
6984390 GATTGGTGTAAATAC
1 GATTGGTGTAAATAC
*
6984405 GATTGTTGTAAATAC
1 GATTGGTGTAAATAC
6984420 AATTTTGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (15 bp):
GATTGGTGTAAATAC
Found at i:6989742 original size:2 final size:2
Alignment explanation
Indices: 6989731--6989764 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
6989721 AATTAGCTGG
6989731 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6989765 TAGTCATGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6996255 original size:15 final size:16
Alignment explanation
Indices: 6996221--6996256 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6996211 TAAATATTTA
*
6996221 ATATAAAGAAAATCAT
1 ATATAAAGAAAATAAT
6996237 ATATAAAGAAAA-AAT
1 ATATAAAGAAAATAAT
6996252 ATATA
1 ATATA
6996257 TCAAACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (16 bp):
ATATAAAGAAAATAAT
Found at i:6999172 original size:30 final size:30
Alignment explanation
Indices: 6999136--6999197 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
6999126 TGTGGTAAAT
*
6999136 TTGACATAGTGAATAAAAGTTGAAGGAGGA
1 TTGACATAGTGAATAAAAATTGAAGGAGGA
6999166 TTGACATAGTGAATAAAAATTGAAGGAGGA
1 TTGACATAGTGAATAAAAATTGAAGGAGGA
6999196 TT
1 TT
6999198 ATGAAATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.27, T:0.26
Consensus pattern (30 bp):
TTGACATAGTGAATAAAAATTGAAGGAGGA
Found at i:7008267 original size:24 final size:25
Alignment explanation
Indices: 7008231--7008278 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
7008221 AAAATAATTT
* *
7008231 AAATTAATCAGAGTTCGACTGAAAC
1 AAATAAATCAGAGTTCAACTGAAAC
*
7008256 AAATAAAT-AGAGTTTAACTGAAA
1 AAATAAATCAGAGTTCAACTGAAA
7008279 GATTATCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (25 bp):
AAATAAATCAGAGTTCAACTGAAAC
Found at i:7018536 original size:24 final size:23
Alignment explanation
Indices: 7018492--7018536 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
7018482 GTTTTATGGC
*
7018492 TTTTAGGGTTTAGGGTGCAGGCT
1 TTTTAGGGTTTAGGGTCCAGGCT
7018515 TTTTAGGAG-TTAGGGGTCCAGG
1 TTTTAGG-GTTTA-GGGTCCAGG
7018537 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.16, C:0.09, G:0.40, T:0.36
Consensus pattern (23 bp):
TTTTAGGGTTTAGGGTCCAGGCT
Found at i:7020257 original size:22 final size:22
Alignment explanation
Indices: 7020227--7020268 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7020217 ATTTGGAGAT
*
7020227 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
7020249 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
7020269 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:7020289 original size:52 final size:51
Alignment explanation
Indices: 7020218--7020320 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
7020208 TTAATATGGA
* * *
7020218 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
7020269 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
7020321 AAATTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:7020295 original size:22 final size:23
Alignment explanation
Indices: 7020270--7020361 Score: 111
Period size: 22 Copynumber: 4.2 Consensus size: 23
7020260 ATTTGAGAGT
7020270 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
7020292 TTGATAGAAATTTT-GAAGGGAA
1 TTGAGAGAAATTTTGGAAGGAAA
*
7020314 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
7020336 TTGAGAG-AATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
7020358 TTGA
1 TTGA
7020362 TATTGAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.15
22 41 0.68
23 10 0.17
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTGGAAGGAAA
Found at i:7020319 original size:44 final size:44
Alignment explanation
Indices: 7020270--7020361 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
7020260 ATTTGAGAGT
* * * *
7020270 TTGAGAG-AATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAAGG-AATTGAGAGAAATTTTGAAAGAAA
*
7020314 TTGAGAGAAATTTTGAAAGGAATTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
7020358 TTGA
1 TTGA
7020362 TATTGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 31 0.74
45 11 0.26
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (44 bp):
TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
Found at i:7021197 original size:61 final size:61
Alignment explanation
Indices: 7021072--7021197 Score: 137
Period size: 61 Copynumber: 2.1 Consensus size: 61
7021062 TCATAAATAC
* * * * * * * **
7021072 AAAATTTCAACAAATGTAGCCCTTAATATTTACAAAATTTGTCATTTTAGTTCTAATTTTA
1 AAAAATTCAACAAATGTAACCCTCAATATTTACAAAATCTGTCAATTTAATTCTAACTCAA
* *
7021133 AAAAATTCAATAAATTTAACCCTCAATATTTACAAAATCTGTCAATTTAA-TCTTAACTCAA
1 AAAAATTCAACAAATGTAACCCTCAATATTTACAAAATCTGTCAATTTAATTC-TAACTCAA
7021194 AAAA
1 AAAA
7021198 TTTAAAAAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
60 2 0.04
61 51 0.96
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (61 bp):
AAAAATTCAACAAATGTAACCCTCAATATTTACAAAATCTGTCAATTTAATTCTAACTCAA
Found at i:7022552 original size:2 final size:2
Alignment explanation
Indices: 7022545--7022581 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7022535 TGGATTTGAA
7022545 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7022582 TATGCCTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7041178 original size:30 final size:30
Alignment explanation
Indices: 7041144--7041205 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
7041134 CTTAACAAGA
7041144 AAATGCCTCTAAAAT-AATAAAAAAATTAAC
1 AAATGCCTCTAAAATAAAT-AAAAAATTAAC
* * *
7041174 AAATGCCTTTAAACTAAATACAAAATTAAC
1 AAATGCCTCTAAAATAAATAAAAAATTAAC
7041204 AA
1 AA
7041206 TAAAAATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAAATAAAAAATTAAC
Found at i:7049423 original size:2 final size:2
Alignment explanation
Indices: 7049416--7049452 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7049406 ACATTAGATA
7049416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7049453 ANNNNNNNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7049630 original size:29 final size:30
Alignment explanation
Indices: 7049582--7049641 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
7049572 AGTATCAAAT
7049582 AACGTATTAAAACCATTAAAATTTAATTTA
1 AACGTATTAAAACCATTAAAATTTAATTTA
7049612 AACGTATT-AAACCATTAAAATTTAATTTA
1 AACGTATTAAAACCATTAAAATTTAATTTA
7049641 A
1 A
7049642 CTTAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (30 bp):
AACGTATTAAAACCATTAAAATTTAATTTA
Found at i:7054155 original size:30 final size:30
Alignment explanation
Indices: 7054116--7054173 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
7054106 ATGTTATGAA
* *
7054116 TTAATTGTAT-TTGATTTACTTTTGGCATAT
1 TTAAATGTATATTGATTGA-TTTTGGCATAT
7054146 TTAAATGTATATTGATTGATTTTGGCAT
1 TTAAATGTATATTGATTGATTTTGGCAT
7054174 CAATTTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (30 bp):
TTAAATGTATATTGATTGATTTTGGCATAT
Found at i:7069769 original size:21 final size:21
Alignment explanation
Indices: 7069743--7069791 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7069733 ATTCATAGTT
*
7069743 TTTTTTAATCTAAAATTTTGA
1 TTTTTTAATCTAAAATTTTAA
* *
7069764 TTTTTTATTGTAAAATTTTAA
1 TTTTTTAATCTAAAATTTTAA
*
7069785 TATTTTA
1 TTTTTTA
7069792 TTGTTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTTTTAATCTAAAATTTTAA
Found at i:7069792 original size:21 final size:21
Alignment explanation
Indices: 7069753--7069795 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7069743 TTTTTTAATC
* *
7069753 TAAAATTTTGATTTTTTATTG
1 TAAAATTTTAATATTTTATTG
7069774 TAAAATTTTAATATTTTATTG
1 TAAAATTTTAATATTTTATTG
7069795 T
1 T
7069796 TTATAACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TAAAATTTTAATATTTTATTG
Found at i:7075885 original size:14 final size:14
Alignment explanation
Indices: 7075866--7075895 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7075856 AAAAGTAAAG
7075866 AGTATTTATAGAGC
1 AGTATTTATAGAGC
7075880 AGTATTTATAGAGC
1 AGTATTTATAGAGC
7075894 AG
1 AG
7075896 ATTAGAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (14 bp):
AGTATTTATAGAGC
Found at i:7079319 original size:3 final size:3
Alignment explanation
Indices: 7079311--7079339 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7079301 ATATTAAGCC
7079311 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7079340 TTGCAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7095838 original size:48 final size:48
Alignment explanation
Indices: 7095780--7095876 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
7095770 ACCAGTAATT
* * *
7095780 ATACGTAACATATAACATATACAGAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATATAACACATACAGAGTCATATTAACTCACTCTTTTCA
* * * *
7095828 ATACATAACATATATCACGTACAGAGTTATATTAACTCCCTCTTTTCA
1 ATACATAACATATAACACATACAGAGTCATATTAACTCACTCTTTTCA
7095876 A
1 A
7095877 ATCCTTCCTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (48 bp):
ATACATAACATATAACACATACAGAGTCATATTAACTCACTCTTTTCA
Found at i:7098459 original size:5 final size:5
Alignment explanation
Indices: 7098449--7098473 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7098439 AAGTCTCATG
7098449 TATGC TATGC TATGC TATGC TATGC
1 TATGC TATGC TATGC TATGC TATGC
7098474 ACACGCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TATGC
Found at i:7100419 original size:27 final size:25
Alignment explanation
Indices: 7100381--7100440 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 25
7100371 TTATTAGGGA
*
7100381 TAAAATCGTCAAAATTTTACCGAGAGG
1 TAAAATTGTCAAAATTTTACCG-GA-G
*
7100408 TAAAATTGTCAAAATTTTACTGGAG
1 TAAAATTGTCAAAATTTTACCGGAG
7100433 TAAAATTG
1 TAAAATTG
7100441 AGATGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 9 0.29
26 2 0.06
27 20 0.65
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (25 bp):
TAAAATTGTCAAAATTTTACCGGAG
Found at i:7106396 original size:26 final size:26
Alignment explanation
Indices: 7106358--7106409 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
7106348 ACTTAACAGA
*
7106358 TCTTTTAAGGAGACGACCCCTTGATG
1 TCTTTTAAAGAGACGACCCCTTGATG
**
7106384 TCTTTTAAAGAGACGACTTCTTGATG
1 TCTTTTAAAGAGACGACCCCTTGATG
7106410 CCTTCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTTTTAAAGAGACGACCCCTTGATG
Found at i:7115387 original size:17 final size:17
Alignment explanation
Indices: 7115362--7115401 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
7115352 AAAAGAATAC
7115362 CAAAGAGAAAAGAA-AGAA
1 CAAA-AGAAAAGAAGA-AA
7115380 CAAAAGAAAAGAAGAAA
1 CAAAAGAAAAGAAGAAA
7115397 CAAAA
1 CAAAA
7115402 TAAGAGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.75, C:0.07, G:0.17, T:0.00
Consensus pattern (17 bp):
CAAAAGAAAAGAAGAAA
Found at i:7119531 original size:26 final size:27
Alignment explanation
Indices: 7119469--7119534 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
7119459 ATTTTACTTC
7119469 AGTAAAATTTTGATAATTTTACCCCCT
1 AGTAAAATTTTGATAATTTTACCCCCT
* *
7119496 AATAATATTTTGA-AGATTTTA-CCCCT
1 AGTAAAATTTTGATA-ATTTTACCCCCT
*
7119522 GGTAAAATTTTGA
1 AGTAAAATTTTGA
7119535 GAAAATTCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 16 0.48
27 17 0.52
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (27 bp):
AGTAAAATTTTGATAATTTTACCCCCT
Found at i:7120254 original size:41 final size:42
Alignment explanation
Indices: 7120156--7120265 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
7120146 CGCTTTTATG
* *
7120156 AAAATCCTTCCAGTTGGAAGCGTTTTCAGGTGAAATTCAGAA
1 AAAACCCTTCCAGTTGGAAGCATTTTCAGGTGAAATTCAGAA
* * * * *
7120198 AAAACACGTCTAGTTGTAAGCATTTTCAGGTG-ATTTGCA-AA
1 AAAACCCTTCCAGTTGGAAGCATTTTCAGGTGAAATT-CAGAA
*
7120239 AAAACCCTTCCAGTTGGAAGCACTTTC
1 AAAACCCTTCCAGTTGGAAGCATTTTC
7120266 TGCCACATCA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 27 0.49
42 28 0.51
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (42 bp):
AAAACCCTTCCAGTTGGAAGCATTTTCAGGTGAAATTCAGAA
Found at i:7123277 original size:16 final size:17
Alignment explanation
Indices: 7123237--7123277 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7123227 ATAGAATAAA
7123237 TTTAATTTTAATTGTGAT
1 TTTAA-TTTAATTGTGAT
*
7123255 TTT-ATTTAATTTTG-T
1 TTTAATTTAATTGTGAT
7123270 TTTAATTT
1 TTTAATTT
7123278 GTTTAATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 13 0.62
17 1 0.05
18 3 0.14
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (17 bp):
TTTAATTTAATTGTGAT
Found at i:7123718 original size:32 final size:32
Alignment explanation
Indices: 7123670--7123732 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
7123660 CAGTGAATTA
*
7123670 AAAAAATAAAAATGATGTAAGATGATATCATT
1 AAAAAATAAAAATGATGTAAGATAATATCATT
* *
7123702 AAAAAATACAAGTGATGTAAGATAATATCAT
1 AAAAAATAAAAATGATGTAAGATAATATCAT
7123733 GGAGAAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.27
Consensus pattern (32 bp):
AAAAAATAAAAATGATGTAAGATAATATCATT
Found at i:7124326 original size:39 final size:38
Alignment explanation
Indices: 7124230--7124331 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 38
7124220 ATACAAAAAA
* *
7124230 TTATTTAATTATATAAATTATTACAAATTTCATAATAT
1 TTATATAATTATATAAAATATTACAAATTTCATAATAT
* * * *
7124268 TTATAATAATTGTATAAAATATTACAATTTTCGTAATTCTT
1 TTAT-ATAATTATATAAAATATTACAAATTTCATAA-T-AT
*
7124309 TTATGTAATTATA-AAAATATTAC
1 TTATATAATTATATAAAATATTAC
7124332 TGAATTATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.08
39 36 0.68
40 8 0.15
41 5 0.09
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (38 bp):
TTATATAATTATATAAAATATTACAAATTTCATAATAT
Found at i:7124356 original size:19 final size:19
Alignment explanation
Indices: 7124315--7124356 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7124305 TCTTTTATGT
*
7124315 AATTATAAAAATATTACTG
1 AATTATAAAAATATTACTA
*
7124334 AATTATATAAATTATTA-TA
1 AATTATA-AAAATATTACTA
7124353 AATT
1 AATT
7124357 TGATTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AATTATAAAAATATTACTA
Found at i:7137314 original size:13 final size:15
Alignment explanation
Indices: 7137296--7137328 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
7137286 ACAATGGGTG
7137296 AAAAAAAATT-ATA-
1 AAAAAAAATTGATAT
7137309 AAAAAAAATTGATAT
1 AAAAAAAATTGATAT
7137324 AAAAA
1 AAAAA
7137329 TTAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAAAAATTGATAT
Found at i:7137698 original size:24 final size:25
Alignment explanation
Indices: 7137666--7137712 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
7137656 TTTTATGATT
*
7137666 ATTTTTTTATA-CAAATTTTTTATG
1 ATTTTTTTAAAGCAAATTTTTTATG
*
7137690 ATTTTTTTAAAGCAGATTTTTTA
1 ATTTTTTTAAAGCAAATTTTTTA
7137713 ATGAGTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (25 bp):
ATTTTTTTAAAGCAAATTTTTTATG
Found at i:7141732 original size:22 final size:22
Alignment explanation
Indices: 7141680--7141734 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7141670 TAAAGAAATA
*
7141680 AAAAGAAAAAATTAAATTGTTC
1 AAAAGAAAAAATTAAATTGCTC
* *
7141702 AACATAAAAAATT-AATTGCTC
1 AAAAGAAAAAATTAAATTGCTC
7141723 AAAACGAAAAAA
1 AAAA-GAAAAAA
7141735 ATATAGGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.62, C:0.09, G:0.07, T:0.22
Consensus pattern (22 bp):
AAAAGAAAAAATTAAATTGCTC
Found at i:7144980 original size:17 final size:16
Alignment explanation
Indices: 7144927--7144983 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
7144917 AATCTAGAGT
7144927 AAAAGAA-AGAAAAGAA
1 AAAAGAAGAG-AAAGAA
*
7144943 AAAAAAAG-GAAAGGGAA
1 AAAAGAAGAGAAA--GAA
7144960 AAAAGAAGAGAAAGAA
1 AAAAGAAGAGAAAGAA
7144976 TAAAAGAA
1 -AAAAGAA
7144984 CGTTTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 3 0.09
16 10 0.29
17 17 0.50
18 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (16 bp):
AAAAGAAGAGAAAGAA
Found at i:7156624 original size:41 final size:41
Alignment explanation
Indices: 7156575--7156668 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
7156565 ATCGGCTTTT
7156575 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
* *
7156616 AGCTTGCTAGCCTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
7156657 AGCCTGCTAGAC
1 AGCCTGCTAGAC
7156669 ATAAAGTCTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
Found at i:7156690 original size:41 final size:41
Alignment explanation
Indices: 7156575--7156693 Score: 123
Period size: 41 Copynumber: 2.9 Consensus size: 41
7156565 ATCGGCTTTT
* * * *
7156575 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACATAAAGTCCGAAATATCTCACCGGCATCA
* * * * * *
7156616 AGCTTGCTAGCCTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACATAAAGTCCGAAATATCTCACCGGCATCA
*
7156657 AGCCTGCTAGACATAAAGTCTG-AATCATCTCACCGGC
1 AGCCTGCTAGACATAAAGTCCGAAAT-ATCTCACCGGC
7156694 GATAAAGCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 3 0.04
41 65 0.96
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCCGAAATATCTCACCGGCATCA
Found at i:7157502 original size:2 final size:2
Alignment explanation
Indices: 7157497--7157534 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7157487 ACACACACAC
7157497 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
7157535 TCTTACATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7168770 original size:27 final size:27
Alignment explanation
Indices: 7168731--7168794 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
7168721 AAGCAATTCG
7168731 CTAGTCA-CATGTCCACCAGGCAG-TCTA
1 CTAGTCATC-TGTCCACCAGGCAGCTC-A
7168758 CTAGTCATCTGTCCACCAGGCAGCTCA
1 CTAGTCATCTGTCCACCAGGCAGCTCA
*
7168785 CCAGTCATCT
1 CTAGTCATCT
7168795 ATTCTACGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 31 0.91
28 3 0.09
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.23
Consensus pattern (27 bp):
CTAGTCATCTGTCCACCAGGCAGCTCA
Found at i:7170322 original size:81 final size:81
Alignment explanation
Indices: 7170187--7170354 Score: 309
Period size: 81 Copynumber: 2.1 Consensus size: 81
7170177 ATCTTGGCAA
* *
7170187 ATTGAGTTAATTCTTAGGTATAGAGGCATCTTATACTTCTACTAGTTTGTTTCTTTCTTAAAGGA
1 ATTGAGTTAATTCTTAGGTATAGAGGCACCTTATACTTCTACTAGTTTGTTTCTTTCTCAAAGGA
*
7170252 ATTACATAGATGATTT
66 AATACATAGATGATTT
7170268 ATTGAGTTAATTCTTAGGTATAGAGGCACCTTATACTTCTACTAGTTTGTTTCTTTCTCAAAGGA
1 ATTGAGTTAATTCTTAGGTATAGAGGCACCTTATACTTCTACTAGTTTGTTTCTTTCTCAAAGGA
7170333 AATACATAGATGATTT
66 AATACATAGATGATTT
7170349 ATTGAG
1 ATTGAG
7170355 GAAGGCTCAT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (81 bp):
ATTGAGTTAATTCTTAGGTATAGAGGCACCTTATACTTCTACTAGTTTGTTTCTTTCTCAAAGGA
AATACATAGATGATTT
Found at i:7170376 original size:81 final size:81
Alignment explanation
Indices: 7170187--7170376 Score: 222
Period size: 81 Copynumber: 2.3 Consensus size: 81
7170177 ATCTTGGCAA
* * * * * * *
7170187 ATTGAGTTAATTCTTAGGTATAGAGGCATCTTATACTTCTACTAGTTTGTTTCTTTCTTAAAGGA
1 ATTGAGTGAACTCATAGGCATACAGGCACCTTATACTTCTACTAGTTTGTTTCTTTCTCAAAGGA
*
7170252 ATTACATAGATGATTT
66 AATACATAGATGATTT
* * * * *
7170268 ATTGAGTTAATTCTTAGGTATAGAGGCACCTTATACTTCTACTAGTTTGTTTCTTTCTCAAAGGA
1 ATTGAGTGAACTCATAGGCATACAGGCACCTTATACTTCTACTAGTTTGTTTCTTTCTCAAAGGA
7170333 AATACATAGATGATTT
66 AATACATAGATGATTT
*
7170349 ATTGAG-GAAGGCTCATATGCAT-CAGGCA
1 ATTGAGTGAA--CTCATAGGCATACAGGCA
7170377 AAAGGTACTC
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
80 2 0.02
81 89 0.91
82 7 0.07
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (81 bp):
ATTGAGTGAACTCATAGGCATACAGGCACCTTATACTTCTACTAGTTTGTTTCTTTCTCAAAGGA
AATACATAGATGATTT
Found at i:7173538 original size:2 final size:2
Alignment explanation
Indices: 7173531--7173558 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7173521 TATTAAAGCT
7173531 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7173559 CATGTATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7184405 original size:15 final size:16
Alignment explanation
Indices: 7184382--7184412 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7184372 TTTAGTATTA
7184382 TATATATTTAAAAATT
1 TATATATTTAAAAATT
7184398 TATA-ATTTAAAAATT
1 TATATATTTAAAAATT
7184413 ACATCGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATATATTTAAAAATT
Found at i:7189808 original size:21 final size:21
Alignment explanation
Indices: 7189784--7189837 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
7189774 ATTTCTTTTG
7189784 AACCTCTGCTTCTCGGGCTGC
1 AACCTCTGCTTCTCGGGCTGC
*
7189805 AACCTCTACTTCTCGGGCTGC
1 AACCTCTGCTTCTCGGGCTGC
*
7189826 AGCCTCTGCTTC
1 AACCTCTGCTTC
7189838 CCTCGCTGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.11, C:0.39, G:0.20, T:0.30
Consensus pattern (21 bp):
AACCTCTGCTTCTCGGGCTGC
Found at i:7194318 original size:2 final size:2
Alignment explanation
Indices: 7194311--7194349 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7194301 AATTTGGTCC
7194311 TA TA TA TA TA 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 TA TA TA TA TA T
7194350 CTCCAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.