Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 213 of 316
Found at i:69667200 original size:48 final size:46
Alignment explanation
Indices: 69666995--69667268 Score: 169
Period size: 48 Copynumber: 5.8 Consensus size: 46
69666985 GGTGATGTGT
* ** * *
69666995 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGG-CTGCATTTCA
1 GAGCCAGTGTAAGACCATG-TT-GGACATGGCATCGGCCACCATATGA
* * * * ***
69667042 TATGCCAGTGTAAGACCATGTTTGGAAGATGACATCGGCTATGTTATGA
1 GA-GCCAGTGTAAGACCATG-TTGG-ACATGGCATCGGCCACCATATGA
*****
69667091 GAGCCAGTGTAAGACCATGTTGGACATGGCATCGGTGTTGAT-TGTA
1 GAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCACCATATG-A
* *
69667137 -AGCCAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCACCATATGA
1 GAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCCACCATATGA
** * * ** * *
69667184 GAGCCAGTGTAAGACCATGTTGGACACAGCCTC-GACATTGAGACGA
1 GAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCA-CCATATGA
*
69667230 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCC
1 GAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCC
69667269 TCGCTTGCAT
Statistics
Matches: 176, Mismatches: 39, Indels: 22
0.74 0.16 0.09
Matches are distributed among these distances:
45 24 0.14
46 46 0.26
47 24 0.14
48 76 0.43
49 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCACCATATGA
Found at i:69678201 original size:55 final size:54
Alignment explanation
Indices: 69678140--69678258 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 54
69678130 CGTGTGCGAC
* * *
69678140 ACTGACTTTAGGGCACGACCATGACACACGCCCGTGTGGCCTACCCGTGGGCAAT
1 ACTGACTTTA-GACACGACCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
* * * * *
69678195 ATTGACTTATAGACACGGCTATGGCATACGCCCGTGTGGCCTAACCGTGGACAAT
1 ACTGACTT-TAGACACGACCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
69678250 ACTGA-TTTA
1 ACTGACTTTA
69678259 AAAATTTAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 48 0.89
56 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (54 bp):
ACTGACTTTAGACACGACCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
Found at i:69681568 original size:47 final size:46
Alignment explanation
Indices: 69681504--69681676 Score: 156
Period size: 47 Copynumber: 3.7 Consensus size: 46
69681494 CACGAAACTT
69681504 AGCCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCG
1 AGCCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCG
* * *
69681550 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTTACCTC-TAC-
1 A-GCCGATGCATGTCCCAGACACGTCTTACACTGG--CTAACATCAT-CG
** * * *
69681598 A-CCGATGCCATGTCCCAGACGTGGTCTTACACGGGCTATCATGATGCG
1 AGCCGATG-CATGTCCCAGAC-ACGTCTTACACTGGCTAACATCAT-CG
* * *
69681646 A-CTGATGCATGTCCTAGACACATCTTACACT
1 AGCCGATGCATGTCCCAGACACGTCTTACACT
69681677 AGCCCTCATC
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
46 19 0.19
47 57 0.56
48 19 0.19
49 7 0.07
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (46 bp):
AGCCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCG
Found at i:69681665 original size:94 final size:90
Alignment explanation
Indices: 69681416--69681679 Score: 260
Period size: 94 Copynumber: 2.8 Consensus size: 90
69681406 AAGTTGCCGC
* * * *
69681416 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACGTGCTGATGCATGTCCCAGACA
1 TGCCATGTCCCAGAC-TGGTCTTACACTGGCTATCATG-AT-CG-ACTGATGCATGTCCCAGACA
* *
69681481 TGTCTTACACAAGCACGAAACTTAGCCGA
62 TGTCTTACACTAGCACGAAACTTAACCGA
** * * *
69681510 TG-CATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCCGATGCATGTCCCAGACATG
1 TGCCATGTCCCAGACTGGTCTTACACTGGCTATCATGATCGA--CTGATGCATGTCCCAGACATG
* ** *
69681574 TCTTACACTGGCACTTACCTCTACACCGA
64 TCTTACACTAGCACGAAACT-TA-ACCGA
* * **
69681603 TGCCATGTCCCAGACGTGGTCTTACACGGGCTATCATGATGCGACTGATGCATGTCCTAGACACA
1 TGCCATGTCCCAGAC-TGGTCTTACACTGGCTATCATGAT-CGACTGATGCATGTCCCAGACATG
69681668 TCTTACACTAGC
64 TCTTACACTAGC
69681680 CCTCATCTCA
Statistics
Matches: 138, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
90 2 0.01
91 37 0.27
92 17 0.12
93 18 0.13
94 42 0.30
95 19 0.14
96 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (90 bp):
TGCCATGTCCCAGACTGGTCTTACACTGGCTATCATGATCGACTGATGCATGTCCCAGACATGTC
TTACACTAGCACGAAACTTAACCGA
Found at i:69682579 original size:60 final size:60
Alignment explanation
Indices: 69682454--69682588 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 60
69682444 GAGTTAGCTG
* ** *
69682454 GGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCCTTATAGTATTAGAGTATACTG
1 GGCC-TAGCCCATATCAATAACAATCTGGGCCATAGCCCATTATAGTACGAGAGTATACTA
* * * *
69682515 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTATAAGT-CGAGA-TATATTA
1 GGCCTAGCCCATATCAATAACAATCTGGGCCATAGCCC-ATTAT-AGTACGAGAGTATACTA
*
69682575 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
69682589 TAACACAGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
60 49 0.78
61 11 0.17
62 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATAACAATCTGGGCCATAGCCCATTATAGTACGAGAGTATACTA
Found at i:69682606 original size:20 final size:20
Alignment explanation
Indices: 69682581--69682620 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
69682571 ATTAGGCCTT
69682581 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTTGG
*
69682601 GCCCATTTCAATACAGTTGG
1 GCCCATTTCAACACAGTTGG
69682621 TCCATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
GCCCATTTCAACACAGTTGG
Found at i:69692024 original size:39 final size:39
Alignment explanation
Indices: 69691957--69692213 Score: 390
Period size: 39 Copynumber: 6.5 Consensus size: 39
69691947 ACAAAGCATG
* * *
69691957 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
69691997 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
69692037 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
69692076 CCGAACTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
69692115 CGGGACTTAGCCCGGATATAATACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
69692154 TGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
69692193 CGGGACTTAGCTCGGATATAA
1 CGGGACTTAGCCCGGATATAA
69692214 TTCTCCATTA
Statistics
Matches: 200, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 179 0.89
40 21 0.10
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:69695215 original size:60 final size:59
Alignment explanation
Indices: 69695091--69695226 Score: 141
Period size: 60 Copynumber: 2.3 Consensus size: 59
69695081 AGATTTAACA
* *
69695091 GGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCCTTACAGTATCAGAGTGTACT
1 GGGCC-TAGCCCATATCAATAACAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATACT
* * ** *
69695152 GGGCCTAGCCCATATCAGTATCAATCTGGGCTGTAGCCCTATTACA-AGTC-GAGATATATT
1 GGGCCTAGCCCATATCAATAACAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATACT
*
69695212 GGGCCTTGCCCATAT
1 GGGCCTAGCCCATAT
69695227 TAACACATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 4 0.06
60 50 0.78
61 10 0.16
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (59 bp):
GGGCCTAGCCCATATCAATAACAATCTGGGCCATAGCCCATTACAGATCAGAGTATACT
Found at i:69697914 original size:49 final size:49
Alignment explanation
Indices: 69697837--69698081 Score: 328
Period size: 49 Copynumber: 4.9 Consensus size: 49
69697827 TAGCCGAAGC
* * * *
69697837 TATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
69697886 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * **
69697936 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTAAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * *
69697987 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
69698036 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
69698082 TCACAATAGC
Statistics
Matches: 168, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 83 0.49
50 48 0.29
51 37 0.22
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:69698019 original size:101 final size:98
Alignment explanation
Indices: 69697850--69698080 Score: 318
Period size: 100 Copynumber: 2.3 Consensus size: 98
69697840 CTGGTACGCA
* * * * *
69697850 TAGTAGCCTGTACTTAGTACTACACATGTGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCAGGTACACATAGTAGCCTGCACTTA
*
69697915 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCTGATACACG
* *
69697949 TAGTAGCCTGCACTTAGTACTACACACGTGATTAAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** *
69698014 TAGTACTACACATGCGACCAATTATCTGGTACACG
64 TAGTACTACACACGCGACCAACCATCTGATACACG
*
69698049 TAGTAGCCTACACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
69698081 CTCACAATAG
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 29 0.25
100 45 0.39
101 42 0.36
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:69698762 original size:30 final size:30
Alignment explanation
Indices: 69698728--69698787 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
69698718 CTTTAATACG
69698728 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* **
69698758 AACTTTTGCGTAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
69698788 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:69700864 original size:15 final size:15
Alignment explanation
Indices: 69700835--69700873 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
69700825 AACAGAGAAG
*
69700835 CCAAGAATAACGAAAT
1 CCAAG-ATAAAGAAAT
69700851 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
69700866 CCATGATA
1 CCAAGATA
69700874 CGAGAATCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.54, C:0.18, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:69703701 original size:49 final size:49
Alignment explanation
Indices: 69703629--69703853 Score: 306
Period size: 49 Copynumber: 4.5 Consensus size: 49
69703619 CTGGTACGCA
*
69703629 TAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
* * **
69703678 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAATCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGATACACG
* * * * * *
69703728 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCCGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGATACACG
* *
69703779 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
69703828 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
69703854 CGTGACCTCA
Statistics
Matches: 154, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
49 68 0.44
50 48 0.31
51 38 0.25
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
Found at i:69703802 original size:101 final size:98
Alignment explanation
Indices: 69703629--69703860 Score: 338
Period size: 100 Copynumber: 2.3 Consensus size: 98
69703619 CTGGTACGCA
* * * *
69703629 TAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGATACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACATAGTAGCCTGCACTTA
*
69703694 GTACTACACATGTGACCTAATCATCTAATACACG
66 GTACTACACATGCGACC-AATCATCTAATACACG
* * *
69703728 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCCGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGATACACATAGTAGCCTGCACT
* **
69703793 TAGTACTACACATGCGACCAATTATCTGGTACACG
64 TAGTACTACACATGCGACCAATCATCTAATACACG
69703828 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
69703861 TCACAATAGC
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
99 29 0.24
100 47 0.39
101 43 0.36
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCAATCATCTAATACACG
Found at i:69706114 original size:46 final size:46
Alignment explanation
Indices: 69706046--69706136 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
69706036 TATATATACA
* * *
69706046 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
69706092 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
69706137 ATACACATCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:69706647 original size:47 final size:47
Alignment explanation
Indices: 69706150--69706645 Score: 785
Period size: 47 Copynumber: 10.6 Consensus size: 47
69706140 CACATCCACG
* *
69706150 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
69706197 TTTATCACATTGGCCATTCGGCCTCATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
69706244 TTCTTCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
69706291 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
69706338 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
69706385 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
69706432 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * *
69706479 TTCATCACATTGGCCATTCGGTCTTACCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * *
69706526 TTCATCACATTTGCCATTCGGCCTTAGCACAAAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * *
69706573 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
69706620 TTCATCACATTTGCCATTCGGCCTTA
1 TTCATCACATTGGCCATTCGGCCTTA
69706646 GCTCATGTAT
Statistics
Matches: 422, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 422 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:69713128 original size:20 final size:19
Alignment explanation
Indices: 69713100--69713143 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
69713090 GTCTTTCGAG
*
69713100 TTTTTGATCAAACGTTCAA
1 TTTTTGATCAAACATTCAA
*
69713119 TTTTTCGATCAAACATTCGA
1 TTTTT-GATCAAACATTCAA
69713139 TTTTT
1 TTTTT
69713144 TGTCATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (19 bp):
TTTTTGATCAAACATTCAA
Found at i:69714904 original size:47 final size:46
Alignment explanation
Indices: 69714641--69714904 Score: 141
Period size: 47 Copynumber: 5.6 Consensus size: 46
69714631 TTGCCAATGT
* *** * *
69714641 CATGTCCC-GACGTGGTCTTACACTGGCTATCTTCATCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCGAAAT-G-TGCTGATG
* * * *
69714688 CCATGTCCCAGACATAGTCTTACACTAGCTCTCATGTATAA-GTGTTGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTATC--G-A-AATGTGCTGATG
* * * *
69714738 CATATCCCAGACAT-GTCTTACACTAGC-A-CGAAGCT-TAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCGAA-ATGT-GCTGATG
* * ** * *
69714782 CATGTCCCAAACA-CGTCTTACACTGGC-ACTC-ATCTCTACGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTA-TCGAAATGTGC-T-GATG
* *
69714828 CCATGTCCCAGACATGGTCTTATATTGGCTATCGAAATGTGGCTGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTATCGAAATGT-GCTGATG
69714876 CATGTCCCAGACATGGTCTTACACTGGCT
1 CATGTCCCAGACATGGTCTTACACTGGCT
69714905 CTCACATAAC
Statistics
Matches: 166, Mismatches: 31, Indels: 39
0.70 0.13 0.17
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 33 0.20
45 2 0.01
46 6 0.04
47 39 0.23
48 38 0.23
49 37 0.22
50 6 0.04
51 1 0.01
53 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTATCGAAATGTGCTGATG
Found at i:69717716 original size:50 final size:48
Alignment explanation
Indices: 69717611--69717890 Score: 244
Period size: 50 Copynumber: 5.8 Consensus size: 48
69717601 TGATATGTGT
* * * **
69717611 GCTAGTGTAAGA-CATATCTAGGACAT-GCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGAGA
*
69717657 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGACCTGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGA--TGAGA
* * *
69717707 TCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACTAATAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCA-AGATGAGA
* * * *
69717757 GCCAGTGTAAAACCATGTCTGGGACATGGCATCGGTCTCGATATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-A-AGATGAGA
* * * * ** * *
69717807 GTTAGTATAAGACCATGTTTGGGACATGACATCAACTTCGATGTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-AAG-ATGAGA
* * *
69717857 -C-AGTATAAGACCATGTCTGGGATATGGCGTCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
69717891 ATCTTACCCT
Statistics
Matches: 190, Mismatches: 36, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
46 12 0.06
47 12 0.06
48 39 0.21
49 2 0.01
50 119 0.63
51 3 0.02
52 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGAGA
Found at i:69718661 original size:16 final size:16
Alignment explanation
Indices: 69718639--69718675 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
69718629 AATCACGTAA
69718639 AATATAAAAATTGCAT
1 AATATAAAAATTGCAT
*
69718655 GATATAAAAATTGCAT
1 AATATAAAAATTGCAT
69718671 AATAT
1 AATAT
69718676 TATTTTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (16 bp):
AATATAAAAATTGCAT
Found at i:69719454 original size:164 final size:164
Alignment explanation
Indices: 69719183--69719496 Score: 592
Period size: 164 Copynumber: 1.9 Consensus size: 164
69719173 TTTAAGGGAC
*
69719183 TAAAATATAAAATAAATGAAATATATGGACTTATATGAACTTCATGAAAATTCGGCTAAGCATGT
1 TAAAATATAAAATAAATGAAATATATGGACTTATATGAACTTCATGAAAACTCGGCTAAGCATGT
*
69719248 GAAAATGGAAATTTTGTGTATTTTGTGATTTTATGAATTAGGGACTAAAGTGTTAAAATGTGAAA
66 GAAAAAGGAAATTTTGTGTATTTTGTGATTTTATGAATTAGGGACTAAAGTGTTAAAATGTGAAA
*
69719313 ATGTGAGAGCTAATCTGTAAATATGTGTTTTTGG
131 ATATGAGAGCTAATCTGTAAATATGTGTTTTTGG
69719347 TAAAATATAAAATAAATGAAATATATGGACTTATATGAACTTCATGAAAACTCGGCTAAGCATGT
1 TAAAATATAAAATAAATGAAATATATGGACTTATATGAACTTCATGAAAACTCGGCTAAGCATGT
69719412 GAAAAAGGAAATTTTGTGTATTTTGTGATTTTATGAATTAGGGACTAAAGTGTTAAAATGTGAAA
66 GAAAAAGGAAATTTTGTGTATTTTGTGATTTTATGAATTAGGGACTAAAGTGTTAAAATGTGAAA
*
69719477 ATATGAGAGCTAATTTGTAA
131 ATATGAGAGCTAATCTGTAA
69719497 CATGCCCTAA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 146 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (164 bp):
TAAAATATAAAATAAATGAAATATATGGACTTATATGAACTTCATGAAAACTCGGCTAAGCATGT
GAAAAAGGAAATTTTGTGTATTTTGTGATTTTATGAATTAGGGACTAAAGTGTTAAAATGTGAAA
ATATGAGAGCTAATCTGTAAATATGTGTTTTTGG
Found at i:69719973 original size:42 final size:43
Alignment explanation
Indices: 69719914--69719996 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 43
69719904 TGAAATTTAC
* *
69719914 GTGTAAAACCATGTCTGGGACATTGGCATC-ATATTTGATTTT
1 GTGTAAAACCATGTCTGGGACAGTGGCATCGATACTTGATTTT
* * *
69719956 GTGTAACACCCTGTCTGGGATAGTGGCATCGATACTTGATT
1 GTGTAAAACCATGTCTGGGACAGTGGCATCGATACTTGATT
69719997 ACATGTAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (43 bp):
GTGTAAAACCATGTCTGGGACAGTGGCATCGATACTTGATTTT
Found at i:69720026 original size:43 final size:41
Alignment explanation
Indices: 69719869--69720027 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 41
69719859 TATGTGTCTT
*
69719869 CGTGTAAGATCACGTCTGGAACGTTGGCATCGAT-TTGAAATTTA
1 CGTGTAAGA-CACGTCTGGGACGTTGGCATCGATATTG--A-TTA
* * * *
69719913 CGTGTAAAACCATGTCTGGGACATTGGCATC-ATATTTGATTT
1 CGTGTAAGA-CACGTCTGGGACGTTGGCATCGATA-TTGATTA
* * * *
69719955 TGTGTAACACCCTGTCTGGGATAG-TGGCATCGATACTTGATTA
1 CGTGTAAGACAC-GTCTGGGA-CGTTGGCATCGATA-TTGATTA
*
69719998 CATGTAAGAGCACGTCTGGGACGTTGGCAT
1 CGTGTAAGA-CACGTCTGGGACGTTGGCAT
69720028 TGTACGAGTT
Statistics
Matches: 89, Mismatches: 19, Indels: 15
0.72 0.15 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.28
43 32 0.36
44 28 0.31
45 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (41 bp):
CGTGTAAGACACGTCTGGGACGTTGGCATCGATATTGATTA
Found at i:69723760 original size:47 final size:48
Alignment explanation
Indices: 69723668--69723794 Score: 172
Period size: 47 Copynumber: 2.7 Consensus size: 48
69723658 TGACCTCGAT
* *
69723668 ATATAAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCTATGAG
1 ATATAAGTCAGTGTAAGACTATGTCTGGGACATGGCATCGACTATGAG
69723714 ATGA-AAGTCAGTGTAAGACTATGTCTGGGACATGGCATCGAC-ATGAG
1 AT-ATAAGTCAGTGTAAGACTATGTCTGGGACATGGCATCGACTATGAG
* * *
69723761 ATATGAGTTAGTGTAAGACTGTGTCTGGGACATG
1 ATATAAGTCAGTGTAAGACTATGTCTGGGACATG
69723795 ACGTCGGTAC
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
46 17 0.24
47 48 0.67
48 7 0.10
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (48 bp):
ATATAAGTCAGTGTAAGACTATGTCTGGGACATGGCATCGACTATGAG
Found at i:69724798 original size:28 final size:28
Alignment explanation
Indices: 69724767--69724828 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
69724757 CACACGGGCT
* * * *
69724767 AGGACACGGGTGTTTCATGGCCGTGTGA
1 AGGACACGAGCGTGTCATGGCAGTGTGA
69724795 AGGACACGAGCGTGTCATGGCAGTGTGA
1 AGGACACGAGCGTGTCATGGCAGTGTGA
69724823 AGGACA
1 AGGACA
69724829 TGGGCCAGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.18, G:0.39, T:0.19
Consensus pattern (28 bp):
AGGACACGAGCGTGTCATGGCAGTGTGA
Found at i:69740597 original size:27 final size:27
Alignment explanation
Indices: 69740567--69740744 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
69740557 ATATTGAGTC
* * * *
69740567 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
69740594 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
69740621 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
69740649 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
69740676 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
69740703 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
69740730 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69740745 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:69740706 original size:82 final size:81
Alignment explanation
Indices: 69740588--69740743 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
69740578 TGCTATATAA
* *
69740588 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
69740653 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
69740670 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
69740734 CACTTAGTGC
65 CACTTAGTGC
69740744 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:69744990 original size:44 final size:41
Alignment explanation
Indices: 69744922--69745008 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
69744912 TAATTTTAAT
* * *
69744922 TTAAATTCTAATTTTTTTTTAATGTGTAATGATCACAACTTCTA
1 TTAAATTATAATTATTTTTGAATGTGT--T-ATCACAACTTCTA
*
69744966 TTAAATTATAGTTATTTTTGAATGTGTTATCACAACTTCTA
1 TTAAATTATAATTATTTTTGAATGTGTTATCACAACTTCTA
69745007 TT
1 TT
69745009 TTATTTCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 15 0.38
42 1 0.03
44 23 0.59
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (41 bp):
TTAAATTATAATTATTTTTGAATGTGTTATCACAACTTCTA
Found at i:69745234 original size:23 final size:23
Alignment explanation
Indices: 69745208--69745295 Score: 104
Period size: 23 Copynumber: 3.6 Consensus size: 23
69745198 ACTGATAGTA
* *
69745208 AAATATGGATATTTTATTTATAT
1 AAATATGAATATTTTAATTATAT
69745231 AAATATGACATATTTTAACTTAGTAT
1 AAATATGA-ATATTTTAA-TTA-TAT
69745257 AAAATTATGAATATTTTAATTATAT
1 -AAA-TATGAATATTTTAATTATAT
*
69745282 AAATATGAGTATTT
1 AAATATGAATATTT
69745296 GTTTAAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
23 17 0.30
24 11 0.19
25 6 0.11
26 6 0.11
27 12 0.21
28 5 0.09
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (23 bp):
AAATATGAATATTTTAATTATAT
Found at i:69747038 original size:5 final size:5
Alignment explanation
Indices: 69747028--69747075 Score: 71
Period size: 5 Copynumber: 9.4 Consensus size: 5
69747018 AATACTAATA
69747028 ATTAT ATTAT ATTAT ATTAT ATTAT ATTTAT ATGT-T ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT A-TTAT AT-TAT ATTAT ATTAT AT
69747076 AAATAGATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.03
5 33 0.82
6 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:69747358 original size:15 final size:15
Alignment explanation
Indices: 69747338--69747367 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69747328 AAGATTAGGA
69747338 TAAAGTTTTGTTTTC
1 TAAAGTTTTGTTTTC
*
69747353 TAAAGTTTTTTTTTC
1 TAAAGTTTTGTTTTC
69747368 AATTTTATTT
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:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (15 bp):
TAAAGTTTTGTTTTC
Found at i:69751824 original size:48 final size:48
Alignment explanation
Indices: 69751753--69751943 Score: 258
Period size: 48 Copynumber: 4.0 Consensus size: 48
69751743 ACTTGGGAGT
*
69751753 CTCGCACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAA
* * * *
69751801 CTCGCACCCAAAGTGTCGATATCAT-GCCACGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATGGCC-CGAAGCCAAATCAATGAAA
* * * *
69751849 CTCTCATCCGAAGTGCCAATATCATGCCCCGAAGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAA
* **
69751897 CTCGCACACGAAGTGCCAATATCATGGCTTGAAGCCAAATCAATGAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAA
69751944 TTCCCTAATG
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
47 3 0.02
48 118 0.96
49 2 0.02
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.18
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAA
Found at i:69752806 original size:15 final size:16
Alignment explanation
Indices: 69752786--69752819 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
69752776 TCTTGTTTTT
*
69752786 CTTTAATTC-AATTTA
1 CTTTAATACTAATTTA
69752801 CTTTAATACTAATTTA
1 CTTTAATACTAATTTA
69752817 CTT
1 CTT
69752820 ATTTAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (16 bp):
CTTTAATACTAATTTA
Found at i:69754544 original size:40 final size:40
Alignment explanation
Indices: 69754500--69754593 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
69754490 TATGTTCGGT
*
69754500 ACTAAGTGTGCAATTTGAAATAGCTTCGCCTATAAATAGC
1 ACTAAGTGTGCAATTTGAAATAGCTTCGACTATAAATAGC
* * ** *
69754540 ACTAAGTGTGTGAA-TTGGAATAGCTTCGACTATATGTGGC
1 ACTAAGTGTG-CAATTTGAAATAGCTTCGACTATAAATAGC
69754580 ACTAAGTGTGCAAT
1 ACTAAGTGTGCAAT
69754594 ATTGTTTCAG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
39 2 0.04
40 41 0.91
41 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (40 bp):
ACTAAGTGTGCAATTTGAAATAGCTTCGACTATAAATAGC
Found at i:69761526 original size:40 final size:40
Alignment explanation
Indices: 69761461--69761619 Score: 122
Period size: 40 Copynumber: 3.9 Consensus size: 40
69761451 GACTATGTTC
*
69761461 AGCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAAT
1 AGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
* * * * **
69761501 AGCACTGAGTGTGCTAATTGGAATAGCTTTGGCTATATGT
1 AGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
* * * * * *
69761541 GGCACTAAGTGTGCAATATTGAGATAGTTTCGGTTTATTACGAT
1 AGCACTAAGTGTGCGA-ATTGAAATAGCTTCGG-CTA-TA-AAT
* **
69761585 GGCACTAAGTGTGCGATATT-TTATAGCTTCGGCTA
1 AGCACTAAGTGTGCGA-ATTGAAATAGCTTCGGCTA
69761620 GATTATTGGT
Statistics
Matches: 93, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
40 46 0.49
41 12 0.13
42 4 0.04
43 11 0.12
44 20 0.22
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (40 bp):
AGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
Found at i:69766596 original size:24 final size:24
Alignment explanation
Indices: 69766564--69766612 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
69766554 CTAGCCAATG
69766564 TAAGGGTTTAAATAGTATACTCAT
1 TAAGGGTTTAAATAGTATACTCAT
*
69766588 TAAGGGTTTAAATGGTATACTCAT
1 TAAGGGTTTAAATAGTATACTCAT
69766612 T
1 T
69766613 CTTTTGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (24 bp):
TAAGGGTTTAAATAGTATACTCAT
Found at i:69768234 original size:13 final size:13
Alignment explanation
Indices: 69768216--69768252 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
69768206 CGGGCGTGTG
69768216 TGGGCATGTGTTT
1 TGGGCATGTGTTT
69768229 TGGGCATGTGTTT
1 TGGGCATGTGTTT
*
69768242 TGGCCATGTGT
1 TGGGCATGTGT
69768253 CCTCTACACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.08, C:0.11, G:0.38, T:0.43
Consensus pattern (13 bp):
TGGGCATGTGTTT
Found at i:69786178 original size:40 final size:40
Alignment explanation
Indices: 69786123--69786270 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
69786113 TCCAAACATA
*
69786123 AATGCCTTCGAGACTTAACCCGGTTATAATAACCCGCACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
* *
69786163 AATGCCTTTGGGACTTAACCCGGCTATAATAACCCGCACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
*
69786203 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGTACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
*
69786243 AATGCCTTCAGGACTTAACCCGGTTATA
1 AATGCCTTCGGGACTTAACCCGGTTATA
69786271 TTTTTTTTTC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
Found at i:69789540 original size:16 final size:16
Alignment explanation
Indices: 69789510--69789553 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
69789500 TGATGTACTT
69789510 CTCTCTCTT-GTAATC
1 CTCTCTCTTGGTAATC
69789525 CTCTCTCTTGGTAATC
1 CTCTCTCTTGGTAATC
69789541 CTCTCTCTTGGTA
1 CTCTCTCTTGGTA
69789554 CCACAGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 9 0.32
16 19 0.68
ACGTcount: A:0.11, C:0.32, G:0.11, T:0.45
Consensus pattern (16 bp):
CTCTCTCTTGGTAATC
Found at i:69794705 original size:29 final size:28
Alignment explanation
Indices: 69794668--69794835 Score: 153
Period size: 29 Copynumber: 5.9 Consensus size: 28
69794658 TATGTCAATT
* *
69794668 TTTG-TAAAACGATGCCTTTGTGGTGATC
1 TTTGTTAAAA-GAAGCCTTTGTGGTAATC
* * *
69794696 TCTATTAAAAGGAAGCCTTTGTGACT-ATC
1 TTTGTTAAAA-GAAGCCTTTGTG-GTAATC
**
69794725 TTTGTTAAAATGAAGCCTTTGTGACAATC
1 TTTGTTAAAA-GAAGCCTTTGTGGTAATC
69794754 TTTGTTAAAAGAAAGCCTTTGTGGTAATC
1 TTTGTTAAAAG-AAGCCTTTGTGGTAATC
* *
69794783 TCTT-TTAAAAGAAAGCCTTTGTGGCAGTC
1 T-TTGTTAAAAG-AAGCCTTTGTGGTAATC
* *
69794812 TTTGTCAAAAGATGCCTTTGTGGT
1 TTTGTTAAAAGAAGCCTTTGTGGT
69794836 GAGACTTTGA
Statistics
Matches: 117, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
28 16 0.14
29 98 0.84
30 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (28 bp):
TTTGTTAAAAGAAGCCTTTGTGGTAATC
Found at i:69796644 original size:43 final size:43
Alignment explanation
Indices: 69796597--69796749 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 43
69796587 CATAGGATTT
* * * *
69796597 TCGATATGTGTTTTCGTGTAATACCATATCTTGGACATTGGCG
1 TCGATATGTGATTTCGTGTAAGACCATGTCTTGGACATTGGCA
* * *
69796640 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCA
1 TCGATATGTGATTTCGTGTAAGACCATGTCTTGGACATTGGCA
* * *
69796683 TCG-TATTTGATTTC-TGTAAGACCCTGT-TTGGGACAGTGGCA
1 TCGATATGTGATTTCGTGTAAGACCATGTCTT-GGACATTGGCA
** *
69796724 TCGATATGTGATAGCATGTAAGACCA
1 TCGATATGTGATTTCGTGTAAGACCA
69796750 CATTTGGGAC
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 1 0.01
41 24 0.27
42 17 0.19
43 48 0.53
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTTCGTGTAAGACCATGTCTTGGACATTGGCA
Found at i:69796756 original size:43 final size:41
Alignment explanation
Indices: 69796629--69796767 Score: 115
Period size: 43 Copynumber: 3.3 Consensus size: 41
69796619 ACCATATCTT
* * * *
69796629 GGACATTGGCGTCGATATGTGATTACGTGTAAGACCATGTCTG
1 GGACAGTGGCATCGATATGTGA-TAC-TGTAAGACCACGTTTG
* *
69796672 GGACA-TCGGCATCG-TATTTGATTTCTGTAAGACC-CTGTTTG
1 GGACAGT-GGCATCGATATGTGA-TACTGTAAGACCAC-GTTTG
*
69796713 GGACAGTGGCATCGATATGTGATAGCATGTAAGACCACATTTG
1 GGACAGTGGCATCGATATGTGATA-C-TGTAAGACCACGTTTG
69796756 GGAC-GTTGGCAT
1 GGACAG-TGGCAT
69796768 TGTACGATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
41 26 0.32
42 19 0.24
43 34 0.43
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (41 bp):
GGACAGTGGCATCGATATGTGATACTGTAAGACCACGTTTG
Found at i:69799150 original size:29 final size:27
Alignment explanation
Indices: 69799132--69799201 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
69799122 ATATTAAGTC
69799132 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
69799159 CGCAGACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
69799187 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
69799202 GTACAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:69799195 original size:28 final size:28
Alignment explanation
Indices: 69799132--69799229 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
69799122 ATATTAAGTC
*
69799132 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
69799159 CGCAGACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
69799187 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
69799216 CGCACACTTAGTGC
1 CGCACACTTAGTGC
69799230 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:69817872 original size:40 final size:40
Alignment explanation
Indices: 69817813--69818085 Score: 420
Period size: 40 Copynumber: 6.8 Consensus size: 40
69817803 GAACATTGGA
* *
69817813 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
69817853 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
69817893 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
69817933 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
69817973 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
69818013 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
69818053 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
69818086 TTTGCGGCTG
Statistics
Matches: 211, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 211 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:69817946 original size:80 final size:80
Alignment explanation
Indices: 69817813--69818085 Score: 465
Period size: 80 Copynumber: 3.4 Consensus size: 80
69817803 GAACATTGGA
69817813 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGACATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGACATATCCGGGCTAAGACCCGAAGG
*
69817878 CAATTATGCGAGATG
66 CAATTATGCGAGTTG
69817893 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGACATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGACATATCCGGGCTAAGACCCGAAGG
69817958 CAATTATGCGAGTTG
66 CAATTATGCGAGTTG
* * * *
69817973 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGACATATCCGGGCTAAGACCCGAAGG
*
69818038 CAATTATGCGAGTTC
66 CAATTATGCGAGTTG
* * *
69818053 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGTTATGACCCGAAGGCAATTATG
69818086 TTTGCGGCTG
Statistics
Matches: 183, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 183 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGACATATCCGGGCTAAGACCCGAAGG
CAATTATGCGAGTTG
Found at i:69820484 original size:25 final size:25
Alignment explanation
Indices: 69820450--69820578 Score: 134
Period size: 25 Copynumber: 5.2 Consensus size: 25
69820440 AAAGCAAACC
69820450 AAGCCTTTGTGGTGAATATTCTATA
1 AAGCCTTTGTGGTGAATATTCTATA
* * *
69820475 AAGCCTTTGTGGCGAATACTCTGTA
1 AAGCCTTTGTGGTGAATATTCTATA
* * * *
69820500 AAGCCATTATGGTAAATATTCTGTA
1 AAGCCTTTGTGGTGAATATTCTATA
* * *
69820525 AAGCATTTGTGGTGAA-CTCCTTATA
1 AAGCCTTTGTGGTGAATATTC-TATA
* *
69820550 AAGCCTTTCTGGTGAATATTATATA
1 AAGCCTTTGTGGTGAATATTCTATA
69820575 AAGC
1 AAGC
69820579 TTCAGTGGCA
Statistics
Matches: 82, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
24 2 0.02
25 79 0.96
26 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (25 bp):
AAGCCTTTGTGGTGAATATTCTATA
Found at i:69820552 original size:50 final size:50
Alignment explanation
Indices: 69820450--69820578 Score: 152
Period size: 50 Copynumber: 2.6 Consensus size: 50
69820440 AAAGCAAACC
* * *
69820450 AAGCCTTTGTGGTGAATATTCTATAAAGCCTTTGTGGCGAATACTCTGTA
1 AAGCCTTTATGGTGAATATTCTATAAAGCATTTGTGGCGAATACTCTATA
* * * * *
69820500 AAGCCATTATGGTAAATATTCTGTAAAGCATTTGTGGTGAACTCCT-TATA
1 AAGCCTTTATGGTGAATATTCTATAAAGCATTTGTGGCGAA-TACTCTATA
* *
69820550 AAGCCTTTCTGGTGAATATTATATAAAGC
1 AAGCCTTTATGGTGAATATTCTATAAAGC
69820579 TTCAGTGGCA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 62 0.95
51 3 0.05
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (50 bp):
AAGCCTTTATGGTGAATATTCTATAAAGCATTTGTGGCGAATACTCTATA
Found at i:69823889 original size:46 final size:46
Alignment explanation
Indices: 69823837--69823961 Score: 196
Period size: 46 Copynumber: 2.7 Consensus size: 46
69823827 GGTTGAGCAT
* *
69823837 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
69823883 CTGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
69823929 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
69823962 GGGGCGGGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:69826960 original size:15 final size:15
Alignment explanation
Indices: 69826928--69826983 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
69826918 GTATCTTGGG
**
69826928 TTTCTTTATTCTAAA
1 TTTCTTTATTCTGGA
69826943 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
69826958 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
69826973 TTTCTTTATTC
1 TTTCTTTATTC
69826984 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.16, C:0.16, G:0.07, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:69829433 original size:46 final size:46
Alignment explanation
Indices: 69829383--69829555 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
69829373 TGGTTGAGCA
69829383 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
69829429 TCCGAACTCGTTGAGTTGAGTCCGAATTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
69829474 CATCCGAACTCATTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
69829522 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
69829556 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 27 0.26
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:69836291 original size:43 final size:42
Alignment explanation
Indices: 69836194--69836313 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
69836184 AGGGTTATTA
** *
69836194 AGATTACGTGTAAGACCATATTTGGGATATGGCATCGATATG
1 AGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATACG
* *
69836236 AGACTT-CGTGTAAGACCATGGCTGGGCTATTGGCATCGATACG
1 AGA-TTACGTGTAAGACCATAGCTGGGATA-TGGCATCGATACG
* *
69836279 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACGTGTAAGACCATAGCTGGGATATGGCAT
69836314 TGGTACGGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 30 0.45
43 36 0.55
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATACG
Found at i:69843443 original size:26 final size:26
Alignment explanation
Indices: 69843406--69843457 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
69843396 TCATTTCAAT
* *
69843406 GTCGATGTCATGTCCCAGACATGGTC
1 GTCGATGCCATGTCCCAAACATGGTC
69843432 GTCGATGCCATGTCCCAAACATGGTC
1 GTCGATGCCATGTCCCAAACATGGTC
69843458 CTATACTGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (26 bp):
GTCGATGCCATGTCCCAAACATGGTC
Found at i:69847940 original size:42 final size:42
Alignment explanation
Indices: 69847893--69848047 Score: 213
Period size: 42 Copynumber: 3.7 Consensus size: 42
69847883 ATAAGGTTAT
* * *
69847893 GTGTAAGACCATATATGGGATATGGAATCGACATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
*
69847935 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
* * *
69847977 GTGTAAGACCATAGCTGCGCTATTGGCATCGATATGAGA-TTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTT-C
*
69848020 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
69848048 TGGTACGGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 65 0.66
43 34 0.34
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
Found at i:69848025 original size:85 final size:84
Alignment explanation
Indices: 69847893--69848047 Score: 222
Period size: 85 Copynumber: 1.8 Consensus size: 84
69847883 ATAAGGTTAT
* * *
69847893 GTGTAAGACCATATATGGGATATGGAATCGACATGAGACTTCGTGTAAGACCATATCTGGGATAT
1 GTGTAAGACCATAGATGCGATATGGAATCGACATGAGACTTCATGTAAGACCATATCTGGGATAT
69847958 GGCATCAATATGAGACTTC
66 GGCATCAATATGAGACTTC
* * * *
69847977 GTGTAAGACCATAGCTGCGCTATTGGCATCGATATGAGA-TTACATGTAAGACCATATCTGGGAT
1 GTGTAAGACCATAGATGCGATA-TGGAATCGACATGAGACTT-CATGTAAGACCATATCTGGGAT
69848041 ATGGCAT
64 ATGGCAT
69848048 TGGTACGGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 20 0.32
85 42 0.68
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (84 bp):
GTGTAAGACCATAGATGCGATATGGAATCGACATGAGACTTCATGTAAGACCATATCTGGGATAT
GGCATCAATATGAGACTTC
Found at i:69854130 original size:29 final size:30
Alignment explanation
Indices: 69854077--69854136 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
69854067 GATTCATACA
69854077 TGGAAAATAAAATAAAAAAAGGATGA-AAT
1 TGGAAAATAAAATAAAAAAAGGATGATAAT
*
69854106 TGGAAAGTGAAAA-AAATAAAA-GATGATAAT
1 TGGAAAAT-AAAATAAA-AAAAGGATGATAAT
69854136 T
1 T
69854137 AATTATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (30 bp):
TGGAAAATAAAATAAAAAAAGGATGATAAT
Found at i:69854900 original size:42 final size:42
Alignment explanation
Indices: 69854822--69854901 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
69854812 GTGTAGGTTT
* *
69854822 CACATGGCCAAGACACACGCCCATGTTCTAGGCCGTGTAGCA
1 CACACGGCCAAGACACACGCCCATGTTCTAGCCCGTGTAGCA
* *
69854864 CACACGGCTAAGACACATGCCCATGTCTCTA-CCCGTGT
1 CACACGGCCAAGACACACGCCCATGT-TCTAGCCCGTGT
69854902 GCTCAATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 29 0.88
43 4 0.12
ACGTcount: A:0.25, C:0.35, G:0.21, T:0.19
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCATGTTCTAGCCCGTGTAGCA
Found at i:69860504 original size:77 final size:77
Alignment explanation
Indices: 69860377--69860527 Score: 275
Period size: 77 Copynumber: 2.0 Consensus size: 77
69860367 ATACTCATTG
*
69860377 TTGGAAGTAACAATGAAATGGTAAAATATACCAAAGACATGTGAAATTCAAGATTGACATGAAAG
1 TTGGAAGTAACAATGAAATAGTAAAATATACCAAAGACATGTGAAATTCAAGATTGACATGAAAG
69860442 ATATAGGACTTC
66 ATATAGGACTTC
* *
69860454 TTGGAAGTAACAATGAAATAGTAAAATGTACCAAAGACATGTTAAATTCAAGATTGACATGAAAG
1 TTGGAAGTAACAATGAAATAGTAAAATATACCAAAGACATGTGAAATTCAAGATTGACATGAAAG
69860519 ATATAGGAC
66 ATATAGGAC
69860528 CAGTTATGTG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (77 bp):
TTGGAAGTAACAATGAAATAGTAAAATATACCAAAGACATGTGAAATTCAAGATTGACATGAAAG
ATATAGGACTTC
Found at i:69862710 original size:43 final size:43
Alignment explanation
Indices: 69862659--69862768 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
69862649 CAATGCTGAC
* *
69862659 GTCCCAGACGTGGTCTTACATGTAATTCAG-TATCAATGCCTCT
1 GTCCCAGACATGGTCTTACATGTAATTCAGATA-CAATGCCGCT
* * * *
69862702 GTCCCAGACAAGGTCTTACACG-AATTCAGATACGATGCCGGT
1 GTCCCAGACATGGTCTTACATGTAATTCAGATACAATGCCGCT
*
69862744 GTCCCAGACATGGTCTTACGTGTAA
1 GTCCCAGACATGGTCTTACATGTAA
69862769 ATCTCAAATC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 33 0.59
43 23 0.41
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAATTCAGATACAATGCCGCT
Found at i:69863640 original size:75 final size:76
Alignment explanation
Indices: 69863507--69863658 Score: 225
Period size: 75 Copynumber: 2.0 Consensus size: 76
69863497 CGAAGCAACG
* * * * *
69863507 ATCATAGAAACGTATAAATTATAAAAAATAGACGAAAATTCATGCCTTAACCAAGGATTACCAAT
1 ATCATAGAAACATAGAAATTATAAAAAACAAACGAAAATTCATACCTTAACCAAGGATTACCAAT
*
69863572 GTCGAATATCA
66 GCCGAATATCA
* *
69863583 ATCATAGAAACATAGAAATTATCAAAAACAAATG-AAATTCATACCTTAACCAAGGATTACCAAT
1 ATCATAGAAACATAGAAATTATAAAAAACAAACGAAAATTCATACCTTAACCAAGGATTACCAAT
69863647 GCCGAATATCA
66 GCCGAATATCA
69863658 A
1 A
69863659 AACCCCATTT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
75 40 0.59
76 28 0.41
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.24
Consensus pattern (76 bp):
ATCATAGAAACATAGAAATTATAAAAAACAAACGAAAATTCATACCTTAACCAAGGATTACCAAT
GCCGAATATCA
Found at i:69864816 original size:17 final size:17
Alignment explanation
Indices: 69864794--69864829 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
69864784 TATTATAAGT
69864794 GAATTCAATCAAAGGTA
1 GAATTCAATCAAAGGTA
69864811 GAATTCAATCAAAGGTA
1 GAATTCAATCAAAGGTA
69864828 GA
1 GA
69864830 TATTGTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (17 bp):
GAATTCAATCAAAGGTA
Found at i:69870888 original size:40 final size:40
Alignment explanation
Indices: 69870827--69870960 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
69870817 CCTGCAGAAC
* * *
69870827 TTTAAGCCCGGATAT--AGTACCAGCACTAAGCCTACGGGA
1 TTTAA-CCCGGATATACATTACCAGCACGAAGCCTGCGGGA
*
69870866 TTTGACCCGGATATACATTACCAGCACGAAGCCTGCGGGA
1 TTTAACCCGGATATACATTACCAGCACGAAGCCTGCGGGA
* *
69870906 TTTAACCCGGATATACGTTACCAGCACGAAGCCTGTGGGA
1 TTTAACCCGGATATACATTACCAGCACGAAGCCTGCGGGA
*
69870946 TTTAACCCAGATATA
1 TTTAACCCGGATATA
69870961 TAATATATCG
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 9 0.11
39 4 0.05
40 72 0.85
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (40 bp):
TTTAACCCGGATATACATTACCAGCACGAAGCCTGCGGGA
Found at i:69878991 original size:39 final size:38
Alignment explanation
Indices: 69878936--69879080 Score: 191
Period size: 39 Copynumber: 3.7 Consensus size: 38
69878926 TTCCAACCCA
* * * **
69878936 AATGCCTTCGGAACTTAGCCCAGATTTAACATCAATACG
1 AATGCCTTCGGGACTTAGCCC-GATATAATATCAGCACG
* *
69878975 AATGCCTTTGGGACTTAGCCCGAATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCG-ATATAATATCAGCACG
*
69879014 AATGCCTTCGGGACTTAACCCGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGATATAATATCAGCACG
69879052 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCC-GATATAA
69879081 ATCTCACACA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 36 0.39
39 57 0.61
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAGCCCGATATAATATCAGCACG
Found at i:69879065 original size:77 final size:78
Alignment explanation
Indices: 69878936--69879080 Score: 211
Period size: 77 Copynumber: 1.9 Consensus size: 78
69878926 TTCCAACCCA
* * * *
69878936 AATGCCTTCGGAACTTAGCCCAGATTTAACATCAATACGAATGCCTTTGGGACTTAGCCCGAATA
1 AATGCCTTCGGAACTTAACCCAGATATAACATCAACACGAATGCCTTCGGGACTTAGCCCGAATA
69879001 TAATACCAGCACG
66 TAATACCAGCACG
* * * *
69879014 AATGCCTTCGGGACTTAACCC-GATATAATATCAGCACGAATGCCTTCGGGACTTAGCCCGGATA
1 AATGCCTTCGGAACTTAACCCAGATATAACATCAACACGAATGCCTTCGGGACTTAGCCCGAATA
69879078 TAA
66 TAA
69879081 ATCTCACACA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 40 0.68
78 19 0.32
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (78 bp):
AATGCCTTCGGAACTTAACCCAGATATAACATCAACACGAATGCCTTCGGGACTTAGCCCGAATA
TAATACCAGCACG
Found at i:69885372 original size:27 final size:26
Alignment explanation
Indices: 69885341--69885518 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
69885331 TAAATTGTAC
69885341 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
69885368 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* * *
69885394 ATGCACTAAGCGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
69885422 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
69885450 AGCACTAAGTGTGCGATTTGATTCTGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
69885477 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
69885504 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69885519 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:69885509 original size:82 final size:81
Alignment explanation
Indices: 69885338--69885518 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
69885328 GATTAAATTG
* *
69885338 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
69885403 GCGTGCGAATTGACCA
66 GCGTGCGAATTGACCA
* * ** * *
69885419 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTCTG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* * **
69885483 AAGTGTGCGAGTTGATTA
64 AAGCGTGCGAATTGACCA
* *
69885501 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
69885519 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GCGTGCGAATTGACCA
Found at i:69904177 original size:9 final size:9
Alignment explanation
Indices: 69904165--69904192 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
69904155 GGATATGTTG
69904165 AGATTATTC
1 AGATTATTC
69904174 AGATTATTC
1 AGATTATTC
69904183 AGATTATTC
1 AGATTATTC
69904192 A
1 A
69904193 CCTGCACATT
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:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (9 bp):
AGATTATTC
Found at i:69906759 original size:40 final size:40
Alignment explanation
Indices: 69906729--69906978 Score: 394
Period size: 40 Copynumber: 6.3 Consensus size: 40
69906719 GGACTAAGAT
* * * **
69906729 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69906769 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69906809 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69906849 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69906889 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
69906929 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69906968 CCGAAGGCATT
1 CCGAAGGCATT
69906979 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 33 0.17
40 166 0.83
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:69906889 original size:120 final size:119
Alignment explanation
Indices: 69906676--69906978 Score: 401
Period size: 120 Copynumber: 2.5 Consensus size: 119
69906666 TTGAATGCTG
* * * * * * * * *
69906676 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
69906740 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
** * *
69906796 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
69906861 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
69906916 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
69906979 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
119 34 0.21
120 123 0.76
121 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:69914847 original size:40 final size:40
Alignment explanation
Indices: 69914724--69914967 Score: 340
Period size: 40 Copynumber: 6.3 Consensus size: 40
69914714 GGACTAAGAT
* * * **
69914724 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69914764 CCGAAGGCATTCGTGCGAG-T-TT-AAT-C-GGTTAAGT-
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69914798 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69914838 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69914878 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
69914918 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69914957 CCGAAGGCATT
1 CCGAAGGCATT
69914968 TGAACGAGGA
Statistics
Matches: 189, Mismatches: 9, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
34 19 0.10
35 9 0.05
36 3 0.02
37 6 0.03
38 2 0.01
39 42 0.22
40 108 0.57
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:69914884 original size:114 final size:119
Alignment explanation
Indices: 69914671--69914967 Score: 347
Period size: 114 Copynumber: 2.5 Consensus size: 119
69914661 TTGAATGCTG
* * * * * * * * *
69914671 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
69914735 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-T-TT-AA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
** * *
69914788 T-C-GGTTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
69914850 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
69914905 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
69914968 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
113 1 0.01
114 79 0.52
115 12 0.08
116 3 0.02
117 4 0.03
118 1 0.01
119 41 0.27
120 11 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:69914915 original size:80 final size:79
Alignment explanation
Indices: 69914724--69914967 Score: 338
Period size: 74 Copynumber: 3.1 Consensus size: 79
69914714 GGACTAAGAT
* * * **
69914724 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTT-A
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAA
69914787 AT-C-GGTTAAGT-
66 ATCCGGGTTAAGTC
69914798 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTA
69914863 AATCCGGGTTAAGTC
65 AATCCGGGTTAAGTC
* *
69914878 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTA
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTA
* * *
69914942 AAACCGGGCTATGTC
65 AATCCGGGTTAAGTC
69914957 CCGAAGGCATT
1 CCGAAGGCATT
69914968 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 11, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
74 54 0.35
75 1 0.01
76 2 0.01
77 3 0.02
78 1 0.01
79 41 0.27
80 51 0.33
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAA
ATCCGGGTTAAGTC
Found at i:69914987 original size:79 final size:80
Alignment explanation
Indices: 69914746--69915002 Score: 269
Period size: 79 Copynumber: 3.3 Consensus size: 80
69914736 GTGCGAGATA
* *
69914746 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT--T--AATC-GGTTAAGT-CCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
69914805 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* ** * *
69914820 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
69914885 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
69914900 TTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
69914964 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
69914979 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
69915003 TACGTGATTT
Statistics
Matches: 160, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
74 38 0.24
76 1 0.01
78 17 0.11
79 53 0.33
80 51 0.32
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:69919685 original size:21 final size:18
Alignment explanation
Indices: 69919631--69919687 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 18
69919621 CCTTTAAATT
69919631 AAGTTAAAATGGTTTCAATC
1 AAGTTAAAAT--TTTCAATC
*
69919651 AAGTTAGAATTTTCAATC
1 AAGTTAAAATTTTCAATC
69919669 AAAGTTAAACTATTTTCAA
1 -AAGTTAAA--ATTTTCAA
69919688 AACAAGTCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 8 0.25
19 7 0.22
20 9 0.28
21 8 0.25
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
AAGTTAAAATTTTCAATC
Found at i:69923934 original size:20 final size:19
Alignment explanation
Indices: 69923909--69923966 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
69923899 TCAACCTTTA
69923909 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
* *
69923929 AATCAAGTTAGAATTTTTC
1 AATCAAGTTAAAATGTTTC
*
69923948 AATCAAAGTTAAATTGTTT
1 AATC-AAGTTAAAATGTTT
69923967 TTAAAACAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:69938968 original size:5 final size:5
Alignment explanation
Indices: 69938958--69938983 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
69938948 TATATAAAAT
69938958 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
69938984 AATTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:69938986 original size:17 final size:17
Alignment explanation
Indices: 69938940--69938978 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
69938930 TGATTTCTTT
* *
69938940 TAAAAAATTATATAAAA
1 TAAAAAATAAAATAAAA
*
69938957 TATAAAATAAAATAAAA
1 TAAAAAATAAAATAAAA
69938974 TAAAA
1 TAAAA
69938979 TAAAAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAATAAAATAAAA
Found at i:69940375 original size:22 final size:23
Alignment explanation
Indices: 69940350--69940397 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
69940340 GAAAATAATA
*
69940350 TTTTAATTCTAAATTTA-ATTTT
1 TTTTAATTCTAAATTTATACTTT
*
69940372 TTTTAATTTTAAATTTATACTTT
1 TTTTAATTCTAAATTTATACTTT
69940395 TTT
1 TTT
69940398 ATCAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTAATTCTAAATTTATACTTT
Found at i:69940556 original size:18 final size:18
Alignment explanation
Indices: 69940535--69940572 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
69940525 TTTTTAAGTG
* *
69940535 TTAAAAAATTAAAATTAT
1 TTAAAAAATAAAAAATAT
69940553 TTAAAAAATAAAAAATAT
1 TTAAAAAATAAAAAATAT
69940571 TT
1 TT
69940573 TGAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAAAATAAAAAATAT
Found at i:69945576 original size:28 final size:28
Alignment explanation
Indices: 69945511--69945661 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
69945501 GAGATTGGCG
* * * *
69945511 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
69945540 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69945568 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
69945596 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69945624 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69945651 CTGAGTGTGCG
1 CTAAGTGTGCG
69945662 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:69952594 original size:46 final size:46
Alignment explanation
Indices: 69952538--69952706 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
69952528 TGGTTGAGCA
*
69952538 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
* * * *
69952584 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAA--A--CG
* *
69952631 TCCGAACTCGTTGAGTTGAGTCCGAGTTTATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
* **
69952677 CCCGAGTTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
69952707 CTTAGGGGCG
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 56 0.55
47 28 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
Found at i:69952694 original size:93 final size:93
Alignment explanation
Indices: 69952535--69952705 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
69952525 GGATGGTTGA
* *
69952535 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGCCCGAACTCGTTGAGT
69952600 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * **
69952628 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTATTTATGGATGCGAACGCCCGAGTTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGCCCGAACTCGTTGAGT
69952693 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
69952706 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:69955688 original size:15 final size:15
Alignment explanation
Indices: 69955649--69955728 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
69955639 GTATCTTGGG
*
69955649 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
69955664 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
69955679 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
69955694 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
69955709 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
69955723 TTTCTT
1 TTTCTT
69955729 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:69955718 original size:30 final size:30
Alignment explanation
Indices: 69955640--69955727 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
69955630 CATAGTGTCG
* * *
69955640 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
69955670 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
69955700 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
69955728 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:69960110 original size:46 final size:45
Alignment explanation
Indices: 69959996--69960127 Score: 147
Period size: 46 Copynumber: 2.9 Consensus size: 45
69959986 AGACTATTTG
* * * **
69959996 TTGTGTAGGTTCAACCCTAACGAGTGACCAGACACTATTATTTTAT
1 TTGTGTAGGTTCAA-CCTAATGGGTGACCAAACACTATTATTCGAT
* *
69960042 TTATGTAGGTTCAACCCCAATGGGTGACCAAACACTATTATTCGAT
1 TTGTGTAGGTTCAA-CCTAATGGGTGACCAAACACTATTATTCGAT
* * *
69960088 TTGTGTAGGTTTAACCTAAATGGGTAACCAAAAACTATTA
1 TTGTGTAGGTTCAACCT-AATGGGTGACCAAACACTATTA
69960128 CTTTCACCTG
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 2 0.03
46 71 0.97
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (45 bp):
TTGTGTAGGTTCAACCTAATGGGTGACCAAACACTATTATTCGAT
Found at i:69963577 original size:40 final size:39
Alignment explanation
Indices: 69963483--69963710 Score: 135
Period size: 40 Copynumber: 5.7 Consensus size: 39
69963473 TATTCGAATG
* *
69963483 ATATCCGGGCTAAG-TCCCAAAGGCTTTTGTGCTAG-GTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTG--AGAGTG-CT
* *
69963524 ATAAT-CGGACTAAGATCCGAAGGCATTCGTGAGAGTTGCT
1 AT-ATCCGGGCTAAGATCCGAAGGCATTTGTGAGAG-TGCT
* * ** * *
69963564 ATATCCGGGCTAAGACCCGAAGGAATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGAGAGTG-CT
* ** *
69963604 ATATCCGGGCTAA-AACCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGAGAGTG-CT
* * *
69963644 ATATCCGGGCTAAG-TCTCGAAGGCATTTATGCTAGAG-ACC
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTG--AGAGTGCT
* *
69963684 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGATCCGAAGGCATT
69963711 GCGCAAGTAG
Statistics
Matches: 152, Mismatches: 23, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
39 8 0.05
40 113 0.74
41 26 0.17
42 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGAGAGTGCT
Found at i:69963656 original size:80 final size:80
Alignment explanation
Indices: 69963562--69963710 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 80
69963552 GTGAGAGTTG
* * ** * *
69963562 CTATATCCGGGCTAAGACCCGAAGGAATTTGTGCTAGCGATTATATCCGGGCTAAAACCTGAAGG
1 CTATATCCGGGCTAAGACCCGAAGGAATTTATGCTAGAGACCACATCCGGGCTAAAACCCGAAGG
69963627 CATTTGTGCTAGCGA
66 CATTTGTGCTAGCGA
* * * *
69963642 CTATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAGAGACCACATCCGGGCTAAGACCCGAAGG
1 CTATATCCGGGCTAAGACCCGAAGGAATTTATGCTAGAGACCACATCCGGGCTAAAACCCGAAGG
69963707 CATT
66 CATT
69963711 GCGCAAGTAG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 59 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
CTATATCCGGGCTAAGACCCGAAGGAATTTATGCTAGAGACCACATCCGGGCTAAAACCCGAAGG
CATTTGTGCTAGCGA
Found at i:69971737 original size:40 final size:40
Alignment explanation
Indices: 69971679--69971822 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
69971669 TATTCGAATG
*
69971679 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
69971719 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
69971759 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGAGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* *
69971799 ACATCCGGGCTAAGACTCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
69971823 CTTGCGCAAG
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:69980091 original size:56 final size:54
Alignment explanation
Indices: 69979967--69980118 Score: 223
Period size: 56 Copynumber: 2.8 Consensus size: 54
69979957 ATGTATATGA
* ** *
69979967 GGCATCGATATGTGATTCTAATATATGTATGCGAGTAAGACCACTTTATACGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACTTTATACGTT
*
69980021 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCAC--TTTATACGTT
* *
69980077 GGCATTGATATGTGACTTCGATATATGTGTGCGAGTAAGACC
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACC
69980119 CTGTCTGGGA
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 40 0.45
56 49 0.55
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (54 bp):
GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACTTTATACGTT
Found at i:69980136 original size:56 final size:56
Alignment explanation
Indices: 69979967--69980147 Score: 192
Period size: 56 Copynumber: 3.3 Consensus size: 56
69979957 ATGTATATGA
* ** * * * *
69979967 GGCATCGATATGTGATTCTAATATATGTATGCGAGTAAGACCAC-TT-TATACGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTGGACATGTT
** *
69980021 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTGGACATGTT
* *
69980077 GGCATTGATATGTGACTTCGATATATGTGTGCGAGTAAGACC-CTGTCTGGGACA-G-T
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCAC-GT-T-GGACATGTT
69980133 GGCATCGATATGTGA
1 GGCATCGATATGTGA
69980148 TTACATGTAA
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
54 40 0.36
55 3 0.03
56 64 0.58
57 2 0.02
58 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (56 bp):
GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTGGACATGTT
Found at i:69983005 original size:48 final size:48
Alignment explanation
Indices: 69982954--69983166 Score: 363
Period size: 48 Copynumber: 4.4 Consensus size: 48
69982944 GCCGAATCAC
* * *
69982954 TAGCCATTTGGCTTTACCACATATACATATCTCATACATAGTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
69983002 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
**
69983050 TAGCCATTCGGCTTTACTGCATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
69983098 TAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
69983146 TAGCCATTCGGCTTTACCACA
1 TAGCCATTCGGCTTTACCACA
69983167 CACATATATA
Statistics
Matches: 154, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 154 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:69986510 original size:28 final size:27
Alignment explanation
Indices: 69986423--69986518 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 27
69986413 CTGATTTCGT
*
69986423 ACACATAGCGCTC-GATTAAAGAACTCGC
1 ACACATAGTGCTCAG-TT-AAGAACTCGC
* **
69986451 ACACATAGTGCCTCAATTACCAATCTCGC
1 ACACATAGTG-CTCAGTTAAGAA-CTCGC
*
69986480 ACACATAGTGCTCAGTTGAAGAACTTGC
1 ACACATAGTGCTCAGTT-AAGAACTCGC
*
69986508 ACACACAGTGC
1 ACACATAGTGC
69986519 CTCATAACTC
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
28 32 0.58
29 23 0.42
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (27 bp):
ACACATAGTGCTCAGTTAAGAACTCGC
Found at i:69986594 original size:40 final size:40
Alignment explanation
Indices: 69986550--69986877 Score: 557
Period size: 40 Copynumber: 8.2 Consensus size: 40
69986540 CCTTCGAGGT
* *
69986550 TTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
69986590 TTAGCCCGGATACATTACTAGCGCGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
69986630 TTAGCCCGGATACATCACTAGCCCGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
69986670 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
69986710 TTAGCCCGGACACATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
69986750 TTAGCCCGAATACATCACTAGCACAAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
69986790 TTAGCCCGGATACATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
69986830 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
69986870 TTAGCCCG
1 TTAGCCCG
69986878 ACTATATAAC
Statistics
Matches: 269, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 269 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:69988865 original size:27 final size:27
Alignment explanation
Indices: 69988835--69989012 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
69988825 ATATTGAGTC
* * * *
69988835 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
69988862 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
69988889 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
69988917 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
69988944 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
69988971 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
69988998 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69989013 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:69988974 original size:82 final size:81
Alignment explanation
Indices: 69988856--69989011 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
69988846 TGCTATATAA
* *
69988856 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
69988921 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
69988938 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
69989002 CACTTAGTGC
65 CACTTAGTGC
69989012 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:69993614 original size:27 final size:27
Alignment explanation
Indices: 69993584--69993761 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
69993574 ATATTGAGTC
* * * *
69993584 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
69993611 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
69993638 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
69993666 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
69993693 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
69993720 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
69993747 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69993762 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:69993723 original size:82 final size:81
Alignment explanation
Indices: 69993605--69993760 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
69993595 TGCTATATAA
* *
69993605 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
69993670 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
69993687 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
69993751 CACTTAGTGC
65 CACTTAGTGC
69993761 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:70000307 original size:27 final size:27
Alignment explanation
Indices: 70000277--70000454 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
70000267 ATATTGAGTC
* * * *
70000277 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
70000304 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70000331 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
70000359 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
70000386 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
70000413 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70000440 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
70000455 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:70000416 original size:82 final size:81
Alignment explanation
Indices: 70000298--70000453 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
70000288 TGCTATATAA
* *
70000298 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
70000363 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
70000380 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
70000444 CACTTAGTGC
65 CACTTAGTGC
70000454 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:70002908 original size:37 final size:37
Alignment explanation
Indices: 70002851--70002950 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
70002841 CGAATAGTCC
*
70002851 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
70002888 CCACACGTAGTCATCCGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
70002925 CCACACGTAGTCATCGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
70002951 AGAATATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:70003180 original size:48 final size:48
Alignment explanation
Indices: 70003123--70003530 Score: 681
Period size: 48 Copynumber: 8.5 Consensus size: 48
70003113 CTAGCCGAAT
* *
70003123 CACTAGCCATTCGGCTTTACAACATATACATATCTCATACATATTTCG
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
70003171 CATTAGCCATTCGTCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
70003219 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATAGTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
70003267 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
70003315 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATAGTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
70003363 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * **
70003411 TATTAGCCATTCGGCTTTACTGCATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
70003459 CATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
70003507 CATTAGCCATTCGGCTTTACCACA
1 CACTAGCCATTCGGCTTTACCACA
70003531 CACATATATA
Statistics
Matches: 337, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 337 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
Found at i:70006912 original size:42 final size:42
Alignment explanation
Indices: 70006850--70006973 Score: 131
Period size: 50 Copynumber: 2.8 Consensus size: 42
70006840 TATGTGTTAT
* * *
70006850 CATGTAAGACTATATTTGGGATATGGCGTTGATATGAGATCC
1 CATGTAAGACCATGTTTGGGATATGGCATTGATATGAGATCC
*
70006892 CATGTAAGACCATGTCTGGGACATGGCATTGGCATTGACATATGAGATCC
1 CATGTAAGACCATGTTTGGG--AT---A-TGGCATTG--ATATGAGATCC
*
70006942 CATGTAAGACCATGTTTGGGACATGGCATTGA
1 CATGTAAGACCATGTTTGGGATATGGCATTGA
70006974 CATCGAGTGG
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
42 18 0.26
44 10 0.15
45 1 0.01
47 1 0.01
48 8 0.12
50 30 0.44
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (42 bp):
CATGTAAGACCATGTTTGGGATATGGCATTGATATGAGATCC
Found at i:70006940 original size:50 final size:49
Alignment explanation
Indices: 70006881--70007025 Score: 184
Period size: 50 Copynumber: 3.0 Consensus size: 49
70006871 TATGGCGTTG
*
70006881 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
* *
70006930 CATATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGACATCGA
1 -ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
* * * * * * *
70006980 GT-GGTGATGCCATGTAAGACCATATCTAGGATATGGCATTGGCATC
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
70007026 TAATTATGTG
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 36 0.43
49 1 0.01
50 46 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (49 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
Found at i:70015017 original size:66 final size:66
Alignment explanation
Indices: 70014931--70015064 Score: 191
Period size: 66 Copynumber: 2.0 Consensus size: 66
70014921 CTTGTAAATG
* * *
70014931 AAATGAGCAAACCATATGTTTTGAA-AAAGAAAAATGGTGTTTGGTAAGAGAGAAAATGAGAGGA
1 AAATGAGCAAACCATATGTTTTGAAGAAA-AAAAATGGTGTTTAGCAAGAGACAAAATGAGA-GA
70014995 AAA
64 AAA
* *
70014998 AAATG-GCAGACCATGTGTTTTGAAGAAAAAAAATGGTGTTTAGCAAGAGACAAAATGAGAGAAA
1 AAATGAGCAAACCATATGTTTTGAAGAAAAAAAATGGTGTTTAGCAAGAGACAAAATGAGAGAAA
70015062 A
66 A
70015063 AA
1 AA
70015065 TTTTGTTAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 7 0.11
66 46 0.75
67 8 0.13
ACGTcount: A:0.49, C:0.06, G:0.25, T:0.20
Consensus pattern (66 bp):
AAATGAGCAAACCATATGTTTTGAAGAAAAAAAATGGTGTTTAGCAAGAGACAAAATGAGAGAAA
A
Found at i:70015112 original size:35 final size:35
Alignment explanation
Indices: 70015066--70015136 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
70015056 GAGAAAAAAT
70015066 TTTGTTAAATAGATGACATCATTTATAACGTCATG
1 TTTGTTAAATAGATGACATCATTTATAACGTCATG
70015101 TTTGTTAAATAGATGACATCATTTATAACGTCATG
1 TTTGTTAAATAGATGACATCATTTATAACGTCATG
70015136 T
1 T
70015137 GCTTATGTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (35 bp):
TTTGTTAAATAGATGACATCATTTATAACGTCATG
Found at i:70015475 original size:8 final size:9
Alignment explanation
Indices: 70015448--70015478 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
70015438 GTCATTTTGG
70015448 TGATAGTTTT
1 TGAT-GTTTT
70015458 TGATGTTTT
1 TGATGTTTT
70015467 TGATGTTTT
1 TGATGTTTT
70015476 TGA
1 TGA
70015479 GATCTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (9 bp):
TGATGTTTT
Found at i:70018113 original size:43 final size:43
Alignment explanation
Indices: 70018038--70018162 Score: 189
Period size: 43 Copynumber: 2.9 Consensus size: 43
70018028 CGTACGGTAC
*
70018038 TATTCGGGCCTTCTAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
1 TATT-GGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
70018083 TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
1 TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
** *
70018126 TATCAGGCTTCGAGCCTAGCAGGC-GTAATGCCGGTGA
1 TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
70018163 ATGAGTTCAG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
42 12 0.16
43 57 0.75
44 3 0.04
45 4 0.05
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (43 bp):
TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
Found at i:70022897 original size:244 final size:243
Alignment explanation
Indices: 70022467--70022954 Score: 895
Period size: 244 Copynumber: 2.0 Consensus size: 243
70022457 ATGGTTGTTT
*
70022467 GATGTTCCAAGATAGAGTCTATGTACCTAGAGATGAAGAGCTTATTGGGAAAATTCTTCACGAGG
1 GATGTTCCAAGATAGAGTCTATATACCTAGAGATGAAGAGCTTATTGGGAAAATTCTTCACGAGG
*
70022532 CAATAGTAGTTGTATGTCGATTCATCTGGGTAGTACCAAGATGTATAATGACTTGAAGAGGTTGT
66 CAATAGTAGTTGTATGTCGATTCATCCGGGTAGTACCAAGATGTATAATGACTTGAAGAGGTTGT
70022597 ATTGGTGGCCGGGTATGAAAGCAGACATCTCAGAGTTTGTGTCGAAATGCTTAATTTGTCAGCAA
131 ATTGGTGGCCGGGTATGAAAGCAGACATCTCAGAGTTTGTGTCGAAATGCTTAATTTGTCAGCAA
70022662 GTAAAAGCCGAGCACCAAGTACCTTCGGGTTTACTTCAGCCTGTGATG
196 GTAAAAGCCGAGCACCAAGTACCTTCGGGTTTACTTCAGCCTGTGATG
* *
70022710 GATGTTCCAAGATAGGGTCTGTATACCTAGAGATGAAGAGCTTATTGGGAAAATTCTTCACGAGG
1 GATGTTCCAAGATAGAGTCTATATACCTAGAGATGAAGAGCTTATTGGGAAAATTCTTCACGAGG
* *
70022775 CACATAGTATTTGTATGTTGATTCATCCGGGTAGTACCAAGATGTATAATGACTTGAAGAGGTTG
66 CA-ATAGTAGTTGTATGTCGATTCATCCGGGTAGTACCAAGATGTATAATGACTTGAAGAGGTTG
*
70022840 TATTGGTGGCCGGGTATGAAAGCAGACATCTCAGAGTTTGTGTCGAAATGTTTAATTTGTCAGCA
130 TATTGGTGGCCGGGTATGAAAGCAGACATCTCAGAGTTTGTGTCGAAATGCTTAATTTGTCAGCA
*
70022905 AGTGAAAGCCGAGCACCAAGTACCTTCGGGTTTACTTCAGCCTGTGATG
195 AGTAAAAGCCGAGCACCAAGTACCTTCGGGTTTACTTCAGCCTGTGATG
70022954 G
1 G
70022955 TTCTCGAGTG
Statistics
Matches: 236, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
243 64 0.27
244 172 0.73
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (243 bp):
GATGTTCCAAGATAGAGTCTATATACCTAGAGATGAAGAGCTTATTGGGAAAATTCTTCACGAGG
CAATAGTAGTTGTATGTCGATTCATCCGGGTAGTACCAAGATGTATAATGACTTGAAGAGGTTGT
ATTGGTGGCCGGGTATGAAAGCAGACATCTCAGAGTTTGTGTCGAAATGCTTAATTTGTCAGCAA
GTAAAAGCCGAGCACCAAGTACCTTCGGGTTTACTTCAGCCTGTGATG
Found at i:70039174 original size:27 final size:26
Alignment explanation
Indices: 70039142--70039214 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 26
70039132 TATGTTATAT
70039142 TTGAAATTGTTATTGATTGTGAATGTGA
1 TTGAAATTGTTATTGATTGTG-AT-TGA
*
70039170 -TGAAATTGATA-TGAATATGTGATTGA
1 TTGAAATTGTTATTG-AT-TGTGATTGA
70039196 TTGAAA-TGTGTATTGATTG
1 TTGAAATTGT-TATTGATTG
70039215 GAAACTGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
26 9 0.24
27 23 0.61
28 6 0.16
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.44
Consensus pattern (26 bp):
TTGAAATTGTTATTGATTGTGATTGA
Found at i:70039210 original size:16 final size:16
Alignment explanation
Indices: 70039174--70039214 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
70039164 ATGTGATGAA
70039174 ATTGATATGAATATGTG
1 ATTGAT-TGAATATGTG
70039191 ATTGATTGAA-ATGTG
1 ATTGATTGAATATGTG
70039206 TATTGATTG
1 -ATTGATTG
70039215 GAAACTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.22
16 12 0.52
17 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (16 bp):
ATTGATTGAATATGTG
Found at i:70039422 original size:28 final size:28
Alignment explanation
Indices: 70039369--70039452 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
70039359 CACTTTGTGC
70039369 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
70039398 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* * *
70039426 GATACTAGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
70039453 CTGGTGTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.64
29 18 0.36
ACGTcount: A:0.20, C:0.04, G:0.30, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:70039464 original size:23 final size:24
Alignment explanation
Indices: 70039373--70039466 Score: 82
Period size: 28 Copynumber: 3.6 Consensus size: 24
70039363 TTGTGCTATT
70039373 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
70039400 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
*
70039430 CTAGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
70039453 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
70039467 TTGGACATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
23 16 0.28
24 1 0.02
25 2 0.04
28 17 0.30
29 14 0.25
30 5 0.09
31 2 0.04
ACGTcount: A:0.17, C:0.04, G:0.33, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:70039697 original size:23 final size:23
Alignment explanation
Indices: 70039669--70039742 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
70039659 AGACACTTTA
*
70039669 TGTGTCGTATTTTAGGCACCTTG
1 TGTGTCGTATTTCAGGCACCTTG
*
70039692 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTTG
*
70039713 TGTGTCG--TTTCAGGCA-CTTA
1 TGTGTCGTATTTCAGGCACCTTG
70039733 TGTGTCGTAT
1 TGTGTCGTAT
70039743 ACTGATCAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
20 9 0.21
21 24 0.56
22 1 0.02
23 9 0.21
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTTG
Found at i:70039706 original size:21 final size:21
Alignment explanation
Indices: 70039682--70039742 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
70039672 GTCGTATTTT
70039682 AGGCACCTTGTGTGTCGTATC
1 AGGCACCTTGTGTGTCGTATC
* *
70039703 AGGCACCTCGTGTGTCGTTTC
1 AGGCACCTTGTGTGTCGTATC
*
70039724 AGGCA-CTTATGTGTCGTAT
1 AGGCACCTTGTGTGTCGTAT
70039743 ACTGATCAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 11 0.31
21 24 0.69
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.34
Consensus pattern (21 bp):
AGGCACCTTGTGTGTCGTATC
Found at i:70040932 original size:53 final size:53
Alignment explanation
Indices: 70040846--70040950 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
70040836 TGATATGTGA
* * * **
70040846 TCTGTGTAAGACCATATCTGGGCTATGGGATCA-GAGATATGTGATTACGTGCT
1 TCTGTATAAGACCAAATCTGGGATATGACATCAGGAGATATGTGATT-CGTGCT
*
70040899 TCTGTATAAGACCAAATCTGGGATATGACATCAGTGTGATATGTGATTCGTG
1 TCTGTATAAGACCAAATCTGGGATATGACATCAG-GAGATATGTGATTCGTG
70040951 TAAGACCATG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
53 28 0.64
54 4 0.09
55 12 0.27
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (53 bp):
TCTGTATAAGACCAAATCTGGGATATGACATCAGGAGATATGTGATTCGTGCT
Found at i:70044146 original size:46 final size:46
Alignment explanation
Indices: 70043995--70044211 Score: 172
Period size: 47 Copynumber: 4.7 Consensus size: 46
70043985 GGTAAGGTGT
* * *
70043995 CGATGCCATGTCCCAGACATAGTCTTACACTGGCTTATATCTCAAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGC
* * * * *
70044042 CGAAGCCGTGTCCCAGATATGCTCTTACACTGAC-TATCATCTTGTAGC
1 CGATGCCATGTCCCAGACATG-TCTTACACTGGCTTA-CATCTCG-AGC
* * *
70044090 CAACG-TATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA-GC
* * * * * * *
70044136 CGATG-CATGTCCCAAACGTGTCATACACTAGCACT-CGTCTCAATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGC-TTACATCTCGA-GC
*
70044182 CGATGCCATGTCCCAGACATATCTTACACT
1 CGATGCCATGTCCCAGACATGTCTTACACT
70044212 AGCTCTCACA
Statistics
Matches: 133, Mismatches: 30, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 60 0.45
47 67 0.50
48 5 0.04
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGC
Found at i:70045961 original size:117 final size:117
Alignment explanation
Indices: 70045755--70045968 Score: 419
Period size: 117 Copynumber: 1.8 Consensus size: 117
70045745 ATGATCATCA
*
70045755 ATCAAATTTACCAGTTATTTATACATCATAAGTATAGACTTATAATCACAAGGTCATCACAAGAT
1 ATCAAATTTACCACTTATTTATACATCATAAGTATAGACTTATAATCACAAGGTCATCACAAGAT
70045820 CATTTTCATAGGTAGGACTTACTCATTTACATCAACAAAAAAACTTAAACTT
66 CATTTTCATAGGTAGGACTTACTCATTTACATCAACAAAAAAACTTAAACTT
70045872 ATCAAATTTACCACTTATTTATACATCATAAGTATAGACTTATAATCACAAGGTCATCACAAGAT
1 ATCAAATTTACCACTTATTTATACATCATAAGTATAGACTTATAATCACAAGGTCATCACAAGAT
70045937 CATTTTCATAGGTAGGACTTACTCATTTACAT
66 CATTTTCATAGGTAGGACTTACTCATTTACAT
70045969 TCTTACCAAA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 96 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (117 bp):
ATCAAATTTACCACTTATTTATACATCATAAGTATAGACTTATAATCACAAGGTCATCACAAGAT
CATTTTCATAGGTAGGACTTACTCATTTACATCAACAAAAAAACTTAAACTT
Found at i:70046511 original size:48 final size:48
Alignment explanation
Indices: 70046238--70046499 Score: 364
Period size: 48 Copynumber: 5.5 Consensus size: 48
70046228 TGCCAGTGCT
* * *
70046238 ATGTCCCAGACATGGTCTTACACTCGCTCACATAACGATGCTGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCC
** *
70046286 ATGTCCCAGACATGGTCTTACACTGGCTCATGTAACAATGTCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCC
* *
70046334 ATGTCCCAGACATGGTCTTACACTGGCTCACATAAAAATGCTGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCC
*
70046382 ATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGTCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCC
** * *
70046430 ATGTCCCAGACATGGTCTTA-TGTGGGATCACATAATAATGCCGATGCC
1 ATGTCCCAGACATGGTCTTACACT-GGCTCACATAACAATGCCGATGCC
* * *
70046478 ATATCCTAGATATGGTCTTACA
1 ATGTCCCAGACATGGTCTTACA
70046500 TGGTTACACA
Statistics
Matches: 189, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
47 1 0.01
48 188 0.99
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCC
Found at i:70051059 original size:40 final size:40
Alignment explanation
Indices: 70051004--70051105 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
70050994 AAATCAATGG
70051004 TATGAGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTA
1 TATGAGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTA
* *
70051044 TATGAGGCACTAAGTGTGCAATTCAAAATAGCTTCTGCTA
1 TATGAGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTA
* * *
70051084 TTTGAGGCACTATGTATGCGAT
1 TATGAGGCACTAAGTGTGCGAT
70051106 ACTGAGATAG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (40 bp):
TATGAGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTA
Found at i:70062852 original size:9 final size:9
Alignment explanation
Indices: 70062838--70062864 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
70062828 ATGATCATGC
70062838 ATGTATGAA
1 ATGTATGAA
70062847 ATGTATGAA
1 ATGTATGAA
70062856 ATGTATGAA
1 ATGTATGAA
70062865 GTTTGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (9 bp):
ATGTATGAA
Done.