Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 94 of 332
Found at i:30117090 original size:44 final size:44
Alignment explanation
Indices: 30117022--30117137 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 44
30117012 AAATATAGGC
* * *
30117022 CCTTGAAGTTGCAATGGAGTAGATTAATACTA-CAAATCTTATTT
1 CCTTGAAGTTGCAGTGGAGCAGATTAAGA-TAGCAAATCTTATTT
* * *
30117066 CTTTGAAGTTGTAGTGGAGCAGATTGAAGATAGCGAATCTTATTT
1 CCTTGAAGTTGCAGTGGAGCAGATT-AAGATAGCAAATCTTATTT
* * *
30117111 CCCTAAAGTTGCAGTGGAACAGATTAA
1 CCTTGAAGTTGCAGTGGAGCAGATTAA
30117138 AGCTGCAAGT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 25 0.42
45 34 0.58
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (44 bp):
CCTTGAAGTTGCAGTGGAGCAGATTAAGATAGCAAATCTTATTT
Found at i:30117397 original size:89 final size:89
Alignment explanation
Indices: 30117237--30117524 Score: 357
Period size: 89 Copynumber: 3.2 Consensus size: 89
30117227 ATCCCCCCAT
* *
30117237 AGTTGTAATGGAGCAGATT-AA-A-ACCATAAGTCTTATCTCCATGAAGTTGCAGTGGAGCATAT
1 AGTTGCAATGGAGCAGATTGAAGATAGCA-AA-TCTTATCTCCATGAAGTTGCAGTGGAGCATAT
*
30117299 TAAAACTACAAATCTTATTTCCCTGA
64 TAAAGCTACAAATCTTATTTCCCTGA
* * ** * * *
30117325 AGTTGCAATGGAGCAGATTGAAGATGGTAAATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATTG
1 AGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCCATGAAGTTGCAGTGGAGCATATTA
* *
30117390 AAGCTACAAATATTATTTCTCTGA
66 AAGCTACAAATCTTATTTCCCTGA
* * *
30117414 AGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTGGAACATATTA
1 AGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCCATGAAGTTGCAGTGGAGCATATTA
* *
30117479 AAGCTACAAATCTCATCTCCCTGA
66 AAGCTACAAATCTTATTTCCCTGA
* * *
30117503 GGTTGCAACGGAGTAGATTGAA
1 AGTTGCAATGGAGCAGATTGAA
30117525 ATTACAAATC
Statistics
Matches: 169, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
88 18 0.11
89 147 0.87
90 3 0.02
91 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (89 bp):
AGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCCATGAAGTTGCAGTGGAGCATATTA
AAGCTACAAATCTTATTTCCCTGA
Found at i:30117531 original size:44 final size:44
Alignment explanation
Indices: 30117237--30117534 Score: 269
Period size: 44 Copynumber: 6.7 Consensus size: 44
30117227 ATCCCCCCAT
* * * * * *
30117237 AGTTGTAATGGAGCAGATTAAAACCATAAGTCTTATCTCCATGA
1 AGTTGCAATGGAGCAGATTGAAACTACAAATCTTATCTCCCTGA
* * * *
30117281 AGTTGCAGTGGAGCATATTAAAACTACAAATCTTATTTCCCTGA
1 AGTTGCAATGGAGCAGATTGAAACTACAAATCTTATCTCCCTGA
** **
30117325 AGTTGCAATGGAGCAGATTGAAGA-TGGTAAATCTTATCTCTTTGA
1 AGTTGCAATGGAGCAGATTGAA-ACT-ACAAATCTTATCTCCCTGA
* * * * * *
30117370 AGTTGCAGTAGAGCAGATTGAAGCTACAAATATTATTTCTCTGA
1 AGTTGCAATGGAGCAGATTGAAACTACAAATCTTATCTCCCTGA
30117414 AGTTGCAATGGAGCAGATTGAAGA-TAGCAAATCTTATCTCCCTGA
1 AGTTGCAATGGAGCAGATTGAA-ACTA-CAAATCTTATCTCCCTGA
* * * * *
30117459 AGTTGTAGTGGAACATATT-AAAGCTACAAATCTCATCTCCCTGA
1 AGTTGCAATGGAGCAGATTGAAA-CTACAAATCTTATCTCCCTGA
* * * *
30117503 GGTTGCAACGGAGTAGATTGAAATTACAAATC
1 AGTTGCAATGGAGCAGATTGAAACTACAAATC
30117535 CTATACGTCT
Statistics
Matches: 203, Mismatches: 43, Indels: 16
0.77 0.16 0.06
Matches are distributed among these distances:
43 1 0.00
44 131 0.65
45 71 0.35
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
AGTTGCAATGGAGCAGATTGAAACTACAAATCTTATCTCCCTGA
Found at i:30119819 original size:20 final size:17
Alignment explanation
Indices: 30119775--30119816 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
30119765 GATTAGTACC
30119775 ATTATTATAAAATTGAT
1 ATTATTATAAAATTGAT
*
30119792 ATTATTATAAAATTGGT
1 ATTATTATAAAATTGAT
*
30119809 ATTCTTAT
1 ATTATTAT
30119817 TATTTTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (17 bp):
ATTATTATAAAATTGAT
Found at i:30131306 original size:13 final size:13
Alignment explanation
Indices: 30131288--30131312 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30131278 AGCTTATTAA
30131288 CCCTAATAGACTG
1 CCCTAATAGACTG
30131301 CCCTAATAGACT
1 CCCTAATAGACT
30131313 CAATATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (13 bp):
CCCTAATAGACTG
Found at i:30136824 original size:11 final size:11
Alignment explanation
Indices: 30136810--30136862 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 11
30136800 TTCTAAAACT
30136810 TTATAAAAAAA
1 TTATAAAAAAA
**
30136821 TTAT-TGAAAA
1 TTATAAAAAAA
30136831 TCTATAAAAAAA
1 T-TATAAAAAAA
30136843 TTTATAAAAAAA
1 -TTATAAAAAAA
30136855 TATATAAA
1 T-TATAAA
30136863 TGATTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 5 0.15
11 8 0.24
12 20 0.59
13 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (11 bp):
TTATAAAAAAA
Found at i:30138771 original size:10 final size:9
Alignment explanation
Indices: 30138757--30138810 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
30138747 CAAAAAAAGG
30138757 AAAAATTAT
1 AAAAATTAT
30138766 AGAAAATTAT
1 A-AAAATTAT
*
30138776 AAAAAATAT
1 AAAAATTAT
30138785 AAAAATTTACT
1 AAAAA-TTA-T
*
30138796 AAAATTTAT
1 AAAAATTAT
30138805 AAAAAT
1 AAAAAT
30138811 ATTCAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 19 0.50
10 14 0.37
11 5 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:30138798 original size:20 final size:19
Alignment explanation
Indices: 30138757--30138810 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
30138747 CAAAAAAAGG
30138757 AAAAATTATAGAAAA-TTAT
1 AAAAATTATA-AAAATTTAT
*
30138776 AAAAAATATAAAAATTTACT
1 AAAAATTATAAAAATTTA-T
*
30138796 AAAATTTATAAAAAT
1 AAAAATTATAAAAAT
30138811 ATTCAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 14 0.47
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAAATTTAT
Found at i:30138819 original size:20 final size:20
Alignment explanation
Indices: 30138757--30138823 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
30138747 CAAAAAAAGG
30138757 AAAAA-TTATAGAAAATTATA-
1 AAAAATTTATA-AAAATT-TAC
30138777 AAAAA--TATAAAAATTTAC
1 AAAAATTTATAAAAATTTAC
*
30138795 TAAAATTTATAAAAATATT-C
1 AAAAATTTATAAAAAT-TTAC
30138815 AAAAATTTA
1 AAAAATTTA
30138824 ATATTTTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.05
18 10 0.24
19 4 0.10
20 23 0.56
21 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (20 bp):
AAAAATTTATAAAAATTTAC
Found at i:30145643 original size:22 final size:23
Alignment explanation
Indices: 30145598--30145644 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
30145588 AACAATTATA
30145598 ATACTTTTCAAATATTATAATTT
1 ATACTTTTCAAATATTATAATTT
*
30145621 ATACATTTT-AAA-ATTATATTTT
1 ATAC-TTTTCAAATATTATAATTT
30145643 AT
1 AT
30145645 TATTCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 7 0.32
24 4 0.18
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (23 bp):
ATACTTTTCAAATATTATAATTT
Found at i:30145993 original size:22 final size:22
Alignment explanation
Indices: 30145965--30146013 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
30145955 ACAATATGAC
*
30145965 TGTTGGAATCTGAATGTTACAA
1 TGTTGGAATCTGAACGTTACAA
30145987 TGTTGGAATCTGAACGTTACAA
1 TGTTGGAATCTGAACGTTACAA
30146009 TGTTG
1 TGTTG
30146014 CAATATGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (22 bp):
TGTTGGAATCTGAACGTTACAA
Found at i:30146911 original size:20 final size:18
Alignment explanation
Indices: 30146881--30146923 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
30146871 TTTGTAAAGT
*
30146881 TTGTAAAATAAGTTGTAAA
1 TTGTGAAATAA-TTGTAAA
30146900 TGTGTGAAATAATTG-AAA
1 T-TGTGAAATAATTGTAAA
30146918 TTGTGA
1 TTGTGA
30146924 GTTGCTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (18 bp):
TTGTGAAATAATTGTAAA
Found at i:30147626 original size:46 final size:47
Alignment explanation
Indices: 30147559--30147835 Score: 195
Period size: 49 Copynumber: 5.8 Consensus size: 47
30147549 TGATATGTGT
* *
30147559 GCTAGTGTAAGACATGTCTGGGACATTCATCGGTATTGAGATAAG-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATAAGAA
* * *
30147605 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGTTATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATAAG-AA
* * * ** *
30147653 GCTAGTGTAAGACCTGTCTGGGACATGGCATTGACACCGATAGATGAG-A
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATTG--AGATAAGAA
* * * * * * *
30147702 GCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATTGAGATAAG-AA
* * * *
30147751 G-TCAGTGTAAGACCTATCTGGGACATGGCATCGAC-TT-AGATATGTAA
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCATCGGCATTGAGATAAG-AA
* * *
30147798 GCTAGTGTAAGATCATGTTTGGAACATGGCATTGGCAT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT
30147836 CGTACCCTAT
Statistics
Matches: 184, Mismatches: 36, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
46 40 0.22
47 22 0.12
48 45 0.24
49 73 0.40
51 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATAAGAA
Found at i:30147717 original size:49 final size:49
Alignment explanation
Indices: 30147608--30147829 Score: 202
Period size: 49 Copynumber: 4.6 Consensus size: 49
30147598 GATAAGAGCT
* * * * * *
30147608 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGT-TATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGA-TAGATGAAAGCC
* *
30147656 AGTGTAAGACCTGTCTGGGACATGGCATTGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * *
30147705 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * *
30147754 AGTGTAAGACCTATCTGGGACATGGCATCGACTTAGAT--ATGTAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * *
30147801 AGTGTAAGATCATGTTTGGAACATGGCAT
1 AGTGTAAGA-CCTGTCTGGGACATGGCAT
30147830 TGGCATCGTA
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
47 15 0.10
48 39 0.27
49 88 0.62
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:30147720 original size:97 final size:98
Alignment explanation
Indices: 30147597--30147781 Score: 268
Period size: 98 Copynumber: 1.9 Consensus size: 98
30147587 ATCGGTATTG
* * * *
30147597 AGATAAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGT-TATGCAAG-CTAGT
1 AGATAAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCGA-TATATGAAAGTC-AGT
*
30147659 GTAAGACCTGTCTGGGACATGGCATTGACACCGAT
64 GTAAGACCTATCTGGGACATGGCATTGACACCGAT
* *
30147694 AGATGAGAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGT
1 AGATAAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGT
30147759 AAGACCTATCTGGGACATGGCAT
66 AAGACCTATCTGGGACATGGCAT
30147782 CGACTTAGAT
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
97 31 0.40
98 46 0.59
99 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (98 bp):
AGATAAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGT
AAGACCTATCTGGGACATGGCATTGACACCGAT
Found at i:30155660 original size:32 final size:32
Alignment explanation
Indices: 30155622--30155693 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
30155612 TGAATTGGGT
* *
30155622 CGTGTGGGTCCC-ACACGTGTGAACCACACGGG
1 CGTGTGGG-CCCTACACGGGTGAACCACACGGA
*
30155654 CTTGTGGGCCCTACACGGGTGAACCACACGGA
1 CGTGTGGGCCCTACACGGGTGAACCACACGGA
30155686 CGTGTGGG
1 CGTGTGGG
30155694 AATATTGGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 3 0.09
32 32 0.91
ACGTcount: A:0.18, C:0.29, G:0.36, T:0.17
Consensus pattern (32 bp):
CGTGTGGGCCCTACACGGGTGAACCACACGGA
Found at i:30158697 original size:42 final size:42
Alignment explanation
Indices: 30158651--30158732 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
30158641 CGATATCTTG
* ** *
30158651 TATCGGTGCCATACCCCTGACATGGTCTTGCACAAAATCAAA
1 TATCGATGCCATACCCCAAACATGGTCTTACACAAAATCAAA
* * *
30158693 TATCGATGCCATATCCCAAATATGGTCTTACACGAAATCA
1 TATCGATGCCATACCCCAAACATGGTCTTACACAAAATCA
30158733 CACATAACCC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (42 bp):
TATCGATGCCATACCCCAAACATGGTCTTACACAAAATCAAA
Found at i:30161443 original size:28 final size:28
Alignment explanation
Indices: 30161403--30161471 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
30161393 GTAATGCAAA
* * * * *
30161403 AATCTGACTGTTACAATATGGTTGTTGG
1 AATCTAACCGTTACAATATGATCGTTAG
30161431 AATCTAACCGTTACAATATGATCGTTAG
1 AATCTAACCGTTACAATATGATCGTTAG
*
30161459 AATTTAACCGTTA
1 AATCTAACCGTTA
30161472 GAATTTGACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (28 bp):
AATCTAACCGTTACAATATGATCGTTAG
Found at i:30161470 original size:14 final size:14
Alignment explanation
Indices: 30161430--30161477 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
30161420 ATGGTTGTTG
*
30161430 GAATCTAACCGTTA
1 GAATTTAACCGTTA
* * * *
30161444 CAATATGATCGTTA
1 GAATTTAACCGTTA
30161458 GAATTTAACCGTTA
1 GAATTTAACCGTTA
30161472 GAATTT
1 GAATTT
30161478 GACTATTGCA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (14 bp):
GAATTTAACCGTTA
Found at i:30169506 original size:51 final size:52
Alignment explanation
Indices: 30169429--30169562 Score: 211
Period size: 52 Copynumber: 2.6 Consensus size: 52
30169419 TGGATACCCG
*
30169429 GTGGCCTTCACATAGTACCACCCTTGTAGTCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTATCCTTCTTCACAAA
* *
30169480 GTGGCCTTCACATAGTACCACACTTGT-GACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAG-TCAAAGCTATCCTTCTTCACAAA
30169532 GTGGCCTTCACATAGTACCACACTTG-AGTCA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCA
30169563 CTAGTGACAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
50 1 0.01
51 36 0.47
52 39 0.51
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTATCCTTCTTCACAAA
Found at i:30170827 original size:16 final size:18
Alignment explanation
Indices: 30170789--30170827 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
30170779 TTGGAGTTTT
*
30170789 TTTATCCAACACCTATAA
1 TTTATCCAACACCAATAA
30170807 TTTATCCAAC-CCAAT-A
1 TTTATCCAACACCAATAA
30170823 TTTAT
1 TTTAT
30170828 TTTTATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTATCCAACACCAATAA
Found at i:30170866 original size:13 final size:13
Alignment explanation
Indices: 30170850--30170902 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
30170840 AAATATTTTT
30170850 ATTTAATAAATTA
1 ATTTAATAAATTA
*
30170863 ATTTAATTAATTA
1 ATTTAATAAATTA
*
30170876 AATTAACTAAATTA
1 ATTTAA-TAAATTA
*
30170890 ATTT-CTAAATTA
1 ATTTAATAAATTA
30170902 A
1 A
30170903 ATAATTTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 8 0.24
13 17 0.50
14 9 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTAATAAATTA
Found at i:30170872 original size:9 final size:9
Alignment explanation
Indices: 30170852--30170892 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
30170842 ATATTTTTAT
30170852 TTAA-TAAA
1 TTAATTAAA
*
30170860 TTAATTTAA
1 TTAATTAAA
30170869 TTAATTAAA
1 TTAATTAAA
*
30170878 TTAACTAAA
1 TTAATTAAA
30170887 TTAATT
1 TTAATT
30170893 TCTAAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 4 0.14
9 24 0.86
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAATTAAA
Found at i:30178567 original size:30 final size:30
Alignment explanation
Indices: 30178523--30178581 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
30178513 TTTAATACGA
*
30178523 ACTTTGGCAAAATTACATTTTTGCCCCTAT
1 ACTTTGGCAAAATTACACTTTTGCCCCTAT
* *
30178553 ACTTTTGCATAATTACACTTTTGCCCCTA
1 ACTTTGGCAAAATTACACTTTTGCCCCTA
30178582 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.41
Consensus pattern (30 bp):
ACTTTGGCAAAATTACACTTTTGCCCCTAT
Found at i:30187816 original size:10 final size:10
Alignment explanation
Indices: 30187798--30187848 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
30187788 AAATGAAAAA
*
30187798 GAAATGAGCT
1 GAAACGAGCT
30187808 GAAACGAGCT
1 GAAACGAGCT
*
30187818 AAAATCGAGCT
1 GAAA-CGAGCT
*
30187829 CAAACGAGCT
1 GAAACGAGCT
30187839 GAAACGAGCT
1 GAAACGAGCT
30187849 CAAGTGAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
10 27 0.75
11 9 0.25
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (10 bp):
GAAACGAGCT
Found at i:30187827 original size:21 final size:21
Alignment explanation
Indices: 30187799--30187851 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
30187789 AATGAAAAAG
*
30187799 AAAT-GAGCTGAAACGAGCTA
1 AAATCGAGCTCAAACGAGCTA
*
30187819 AAATCGAGCTCAAACGAGCTG
1 AAATCGAGCTCAAACGAGCTA
30187840 AAA-CGAGCTCAA
1 AAATCGAGCTCAA
30187852 GTGAGCTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (21 bp):
AAATCGAGCTCAAACGAGCTA
Found at i:30187857 original size:20 final size:21
Alignment explanation
Indices: 30187798--30187860 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 21
30187788 AAATGAAAAA
*
30187798 GAAAT-GAGCTGAAACGAGCT
1 GAAATCGAGCTCAAACGAGCT
*
30187818 AAAATCGAGCTCAAACGAGCT
1 GAAATCGAGCTCAAACGAGCT
**
30187839 GAAA-CGAGCTCAAGTGAGCT
1 GAAATCGAGCTCAAACGAGCT
30187859 GA
1 GA
30187861 TTGGAGCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (21 bp):
GAAATCGAGCTCAAACGAGCT
Found at i:30195961 original size:40 final size:40
Alignment explanation
Indices: 30195879--30196135 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
30195869 AAGCCAAGTA
* * * *
30195879 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
30195917 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
30195957 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
30195997 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30196037 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
30196077 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
30196117 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30196136 TTATCATCCG
Statistics
Matches: 199, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 170 0.85
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30204076 original size:40 final size:40
Alignment explanation
Indices: 30203994--30204250 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
30203984 AAGCCAAGTA
* * * *
30203994 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
30204032 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
30204072 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
30204112 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30204152 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
30204192 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
30204232 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30204251 TTATCATCCG
Statistics
Matches: 199, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 170 0.85
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30210185 original size:30 final size:31
Alignment explanation
Indices: 30210114--30210191 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
30210104 TTTAACAATT
*
30210114 ACTGGGCCGAAGCCTTTTCATAAATCATCTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
30210145 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
30210176 ACT-GGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
30210192 ACTGTAAGCG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 13 0.28
31 33 0.72
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:30210431 original size:24 final size:24
Alignment explanation
Indices: 30210384--30210455 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
30210374 GCTTTATCAT
** *
30210384 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCCTTTTTTA
*
30210409 ATAACTGGGGCAAAGCCTTTTTTG
1 ATAACTGGGGCAAAGCCTTTTTTA
*
30210433 ATAAACTGGGGCAAAGCCCTTTT
1 AT-AACTGGGGCAAAGCCTTTTT
30210456 CGGTAAACTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 14 0.34
25 27 0.66
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCTTTTTTA
Found at i:30210439 original size:25 final size:25
Alignment explanation
Indices: 30210411--30210480 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
30210401 CTCTTTTAAT
*
30210411 AACTGGGGCAAAGCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
30210436 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
30210461 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
30210481 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:30211309 original size:27 final size:27
Alignment explanation
Indices: 30211279--30211343 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
30211269 GGGCGTATTC
30211279 ATCATTTTACCATACAAGGG-TATTACG
1 ATCATTTTACCATACAAGGGCT-TTACG
* * *
30211306 ATCACTTTACCCTACAGGGGCTTTACG
1 ATCATTTTACCATACAAGGGCTTTACG
* *
30211333 GTCTTTTTACC
1 ATCATTTTACC
30211344 TATTAGAGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (27 bp):
ATCATTTTACCATACAAGGGCTTTACG
Found at i:30211445 original size:27 final size:27
Alignment explanation
Indices: 30211377--30211821 Score: 241
Period size: 27 Copynumber: 16.5 Consensus size: 27
30211367 CATCCTATAA
* * * *
30211377 GGGTGTTTTGGTAAATCTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
* **
30211404 GGGTATTTAT-ATAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAATCAG
*
30211431 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
* * *
30211457 AGGGTATTTCGATAATTTCACAAA-CTAG
1 -GGGTATTTTGGTAATTTTACAAATC-AG
*
30211485 TGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
* * **
30211512 GGGTGTTTTGGTAATTCTACCCTAT-AG
1 GGGTATTTTGGTAATTTTA-CAAATCAG
** *
30211539 GGGTATTTCAGTAATTTCAC-AATC-G
1 GGGTATTTTGGTAATTTTACAAATCAG
**** * **
30211564 AGGGTAAAACGGTAATTCTATCTTA-CAG
1 -GGGTATTTTGGTAATTTTA-CAAATCAG
* **
30211592 GAGTATTTCAGTAATTTTACAAATC-G
1 GGGTATTTTGGTAATTTTACAAATCAG
* ** * *
30211618 AGAGTATTTCAGTAATTTTGCAAA-CTG
1 -GGGTATTTTGGTAATTTTACAAATCAG
**
30211645 AGGGTATTTCAGTAATTTTACAAATC-G
1 -GGGTATTTTGGTAATTTTACAAATCAG
* * * * *
30211672 ATGATATTTAGGTAATTTTATAAATCGG
1 -GGGTATTTTGGTAATTTTACAAATCAG
*
30211700 GGGTATTTTGGTAATTTTATAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
* * *
30211727 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
*
30211754 GGGTATTTTAGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
** * *
30211781 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
30211808 GGGTATTTTGGTAA
1 GGGTATTTTGGTAA
30211822 ACTAAAGTAT
Statistics
Matches: 332, Mismatches: 65, Indels: 42
0.76 0.15 0.10
Matches are distributed among these distances:
25 3 0.01
26 22 0.07
27 297 0.89
28 10 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:30211500 original size:81 final size:79
Alignment explanation
Indices: 30211415--30211776 Score: 271
Period size: 81 Copynumber: 4.5 Consensus size: 79
30211405 GGTATTTATA
* *
30211415 TAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-GATAATTTCACA
1 TAATTTTATAAA-CAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAG-TAATTTCACA
*
30211479 AACTAGTGGTATTTTGG
64 AACTAG-GGTATTTCGG
* * * ** *
30211496 TAATTTTACAAACTAGGGGTGTTTTGGTAATTCTACCCTATAG-GGGTATTTCAGTAATTTCACA
1 TAATTTTATAAAC-AGGGGTATTTTGGTAATTTTA-CAAATCGAGGGTATTTCAGTAATTTCACA
* * ***
30211560 ATCGAGGGTAAAACGG
64 AACTAGGGTATTTCGG
* ** * ** * **
30211576 TAATTCTATCTTACAGGAGTATTTCAGTAATTTTACAAATCGAGAGTATTTCAGTAATTTTGCAA
1 TAATTTTAT-AAACAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAA
*
30211641 ACTGAGGGTATTTCAG
65 ACT-AGGGTATTTCGG
* * * * * * ** * *
30211657 TAATTTTACAAATC-GATGATATTTAGGTAATTTTATAAATCGGGGGTATTTTGGTAATTTTATA
1 TAATTTTATAAA-CAG-GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACA
*
30211721 AACTAGGGGTATTTTGG
64 AACTA-GGGTATTTCGG
* *
30211738 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA
1 TAATTTTATAAA-CAGGGGTATTTTGGTAATTTTACAAA
30211777 CTAGGGGTAT
Statistics
Matches: 211, Mismatches: 60, Indels: 20
0.73 0.21 0.07
Matches are distributed among these distances:
79 4 0.02
80 53 0.25
81 149 0.71
82 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (79 bp):
TAATTTTATAAACAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAA
CTAGGGTATTTCGG
Found at i:30211784 original size:81 final size:80
Alignment explanation
Indices: 30211415--30211821 Score: 266
Period size: 81 Copynumber: 5.0 Consensus size: 80
30211405 GGTATTTATA
* * * * * * *
30211415 TAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAA
1 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAATAG-GGGTATTTCGGTAATTTTACAA
*
30211480 ACTAGTGGTATTTTGG
65 ACTAGGGGTATTTTGG
* * * * * * ** * *
30211496 TAATTTTACAAACTAGGGGTGTTTTGGTAATTCTACCCTATAGGGGTATTTCAGTAATTTCACAA
1 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTA-CAAATAGGGGTATTTCGGTAATTTTACAA
* * ****
30211561 TCGA-GGGTAAAACGG
65 ACTAGGGGTATTTTGG
* ** * * * * *
30211576 TAATTCTATCTTA-C-AGGAGTATTTCAGTAATTTTACAAATCGAGAGTATTTCAGTAATTTTGC
1 TAATTTTAT-AAACCAAGG-GTATTTTAGTAATTTTACAAATAG-GGGTATTTCGGTAATTTTAC
**
30211639 AAACT-GAGGGTATTTCAG
63 AAACTAG-GGGTATTTTGG
* * * * * * * * *
30211657 TAATTTTACAAATCGATGATA-TTTAGGTAATTTTATAAATCGGGGGTATTTTGGTAATTTTATA
1 TAATTTTATAAACCAAGGGTATTTTA-GTAATTTTACAAAT-AGGGGTATTTCGGTAATTTTACA
30211721 AACTAGGGGTATTTTGG
64 AACTAGGGGTATTTTGG
* **
30211738 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAA
1 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA-TAGGGGTATTTCGGTAATTTTACAA
* *
30211803 ACCAAGGGTATTTTGG
65 ACTAGGGGTATTTTGG
30211819 TAA
1 TAA
30211822 ACTAAAGTAT
Statistics
Matches: 247, Mismatches: 66, Indels: 26
0.73 0.19 0.08
Matches are distributed among these distances:
79 6 0.02
80 50 0.20
81 178 0.72
82 13 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAATAGGGGTATTTCGGTAATTTTACAAA
CTAGGGGTATTTTGG
Found at i:30220268 original size:40 final size:41
Alignment explanation
Indices: 30220203--30220297 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 41
30220193 ATTATGTTTG
*
30220203 GCACTTAGTGTGCG-TTTCGAGATAGCTTCGGCTATATATA
1 GCACTTAGTGTGCGAATTCGAGATAGCTTCGGCTATATATA
* * * * *
30220243 GCACTTAGTGTGCGAATTGGA-ATAGCTTTGGTTATATGTG
1 GCACTTAGTGTGCGAATTCGAGATAGCTTCGGCTATATATA
*
30220283 GCACTAAGTGTGCGA
1 GCACTTAGTGTGCGA
30220298 TACTGAGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 43 0.91
41 4 0.09
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (41 bp):
GCACTTAGTGTGCGAATTCGAGATAGCTTCGGCTATATATA
Found at i:30223530 original size:47 final size:47
Alignment explanation
Indices: 30223473--30223776 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
30223463 ATTGATGTAC
* * *
30223473 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
30223520 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
30223569 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
30223616 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
30223663 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
30223710 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
30223757 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
30223777 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:30226269 original size:38 final size:38
Alignment explanation
Indices: 30226205--30226279 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
30226195 AATCCGAGTT
*
30226205 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
30226243 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
30226280 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:30226392 original size:40 final size:40
Alignment explanation
Indices: 30226333--30226639 Score: 483
Period size: 40 Copynumber: 7.7 Consensus size: 40
30226323 AGGTCTCGAC
30226333 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
30226372 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
30226412 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
30226452 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
30226492 GATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
30226532 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * *
30226572 GATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
30226611 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
30226640 ATCATGCTGG
Statistics
Matches: 248, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 37 0.15
40 211 0.85
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:30230061 original size:47 final size:47
Alignment explanation
Indices: 30230004--30230307 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
30229994 ATTGATGTAC
* * *
30230004 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
30230051 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
30230100 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
30230147 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
30230194 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
30230241 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
30230288 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
30230308 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:30234657 original size:8 final size:8
Alignment explanation
Indices: 30234644--30234670 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
30234634 GGGAATCATC
30234644 ATCACATT
1 ATCACATT
30234652 ATCACATT
1 ATCACATT
30234660 ATCACATT
1 ATCACATT
30234668 ATC
1 ATC
30234671 GACTACTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (8 bp):
ATCACATT
Found at i:30242001 original size:93 final size:93
Alignment explanation
Indices: 30241888--30242059 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
30241878 CGCCCATAAG
* * * *
30241888 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCAATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAATGAACTCGGACTCAACTCA
30241953 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
30241981 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAATGAACTCGGACTCAACTCA
*
30242046 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
30242060 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:30242056 original size:46 final size:46
Alignment explanation
Indices: 30241889--30242056 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
30241879 GCCCATAAGC
* * * * *
30241889 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCAATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
* * ** *
30241935 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCCA-TAAAT
*
30241982 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
*
30242028 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
30242057 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
44 3 0.03
46 61 0.61
47 31 0.31
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
Found at i:30249545 original size:91 final size:91
Alignment explanation
Indices: 30249436--30249604 Score: 304
Period size: 91 Copynumber: 1.9 Consensus size: 91
30249426 CGCCCATAAG
*
30249436 CGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAA-TGAACTCGGACTCAACTCA
30249500 ACGAGTTCGGATGCCTAGTTACATTCA
65 ACGAGTTCGGATGCCTAGTTACATTCA
*
30249527 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAA
30249592 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30249605 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 61 0.81
92 14 0.19
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (91 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCA
Found at i:30249601 original size:45 final size:44
Alignment explanation
Indices: 30249437--30249600 Score: 206
Period size: 45 Copynumber: 3.6 Consensus size: 44
30249427 GCCCATAAGC
* *
30249437 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCATAA-T
* * * *
30249482 GAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACATTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--TCCA-TAAT
30249528 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAT
1 GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATCCATAAT
30249573 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
30249601 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 57 0.56
46 34 0.33
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCATAAT
Found at i:30255438 original size:16 final size:16
Alignment explanation
Indices: 30255419--30255450 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30255409 AATTGTTTTA
30255419 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
30255435 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
30255451 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:30255713 original size:50 final size:50
Alignment explanation
Indices: 30255650--30255889 Score: 248
Period size: 50 Copynumber: 4.8 Consensus size: 50
30255640 ACTGAAGCTC
* * *
30255650 TCTGGTACGCGTAGTAGCCTGTACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * * * * *
30255700 TCTGGTGCACGTAGTAGCCTGCGCTTAGTACTATACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * ** *
30255750 TCTGATACACGTAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAA
* ** * *
30255802 -CGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* *
30255851 TCTAGTACATGTAGTAGCCTGCACTTAGTACTACACACG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACG
30255890 TGACTCACAA
Statistics
Matches: 149, Mismatches: 38, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
49 3 0.02
50 110 0.74
51 35 0.23
52 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
Found at i:30255865 original size:101 final size:101
Alignment explanation
Indices: 30255711--30255892 Score: 267
Period size: 101 Copynumber: 1.8 Consensus size: 101
30255701 CTGGTGCACG
* * * * *
30255711 TAGTAGCCTGCGCTTAGTACTATACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
*
30255776 AGTACTACATACGTGATCGAAGTTAACGGGTATGCA
66 AGTACTACACACGTGATCGAAGTTAACGGGTATGCA
* * *
30255812 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT-AGTACATGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGA-TACACGTAGTAGCCTGCACT
30255876 TAGTACTACACACGTGA
65 TAGTACTACACACGTGA
30255893 CTCACAACGA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 1 0.01
101 70 0.99
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTAACGGGTATGCA
Found at i:30261278 original size:28 final size:29
Alignment explanation
Indices: 30261235--30261304 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
30261225 CTGAATCTCA
*
30261235 CCATAAAGGCAT-CCTTT-AAGAGGGTTT
1 CCATAAAGGCTTACCTTTCAAGAGGGTTT
* * **
30261262 CCATAAGGGCTTACCTTTCTAGAGTTTTT
1 CCATAAAGGCTTACCTTTCAAGAGGGTTT
30261291 CCATAAAGGCTTAC
1 CCATAAAGGCTTAC
30261305 GCTTCTAGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 10 0.29
28 5 0.14
29 20 0.57
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (29 bp):
CCATAAAGGCTTACCTTTCAAGAGGGTTT
Found at i:30261293 original size:29 final size:29
Alignment explanation
Indices: 30261259--30261318 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
30261249 TTTAAGAGGG
*
30261259 TTTCCATAAGGGCTTAC-CTTTCTAGAGTT
1 TTTCCATAAAGGCTTACGC-TTCTAGAGTT
30261288 TTTCCATAAAGGCTTACGCTTCTAGAGTT
1 TTTCCATAAAGGCTTACGCTTCTAGAGTT
30261317 TT
1 TT
30261319 GTCACAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (29 bp):
TTTCCATAAAGGCTTACGCTTCTAGAGTT
Found at i:30261327 original size:29 final size:29
Alignment explanation
Indices: 30261259--30261327 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
30261249 TTTAAGAGGG
* *
30261259 TTTCCATAAGGGCTTACCTTTCTAGAGTT
1 TTTCCACAAAGGCTTACCTTTCTAGAGTT
*
30261288 TTTCCATAAAGGCTTACGC-TTCTAGAGTT
1 TTTCCACAAAGGCTTAC-CTTTCTAGAGTT
30261317 TTGT-CACAAAG
1 TT-TCCACAAAG
30261328 ACTTTTATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 34 0.94
30 2 0.06
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (29 bp):
TTTCCACAAAGGCTTACCTTTCTAGAGTT
Found at i:30261540 original size:53 final size:52
Alignment explanation
Indices: 30261451--30261558 Score: 137
Period size: 53 Copynumber: 2.1 Consensus size: 52
30261441 CCTTAAATTT
30261451 TTCCATATGATGCCATAACCCACCAGTTACGATCTTACAAAATATCGTATTC
1 TTCCATATGATGCCATAACCCACCAGTTACGATCTTACAAAATATCGTATTC
* * * * * *
30261503 TTCCTATATGATTCCATAATCCACTAGTTA-GATTCTTACACAATATGGTCTTC
1 TTCC-ATATGATGCCATAACCCACCAGTTACGA-TCTTACAAAATATCGTATTC
30261556 TTC
1 TTC
30261559 TAGTGCCATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 6 0.12
53 42 0.88
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (52 bp):
TTCCATATGATGCCATAACCCACCAGTTACGATCTTACAAAATATCGTATTC
Found at i:30266590 original size:28 final size:28
Alignment explanation
Indices: 30266552--30266608 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
30266542 CTTTATGGAT
*
30266552 TTAGTGCTTCAATCAACACAATTCGTGA
1 TTAGTGCTTCAATCAACACAATTCATGA
*
30266580 TTAGTGCTTCAATCAACATAATTCATGA
1 TTAGTGCTTCAATCAACACAATTCATGA
30266608 T
1 T
30266609 GCTCTTTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (28 bp):
TTAGTGCTTCAATCAACACAATTCATGA
Found at i:30267434 original size:46 final size:47
Alignment explanation
Indices: 30267374--30267598 Score: 307
Period size: 46 Copynumber: 4.9 Consensus size: 47
30267364 TTTGACGTGA
* * * * * *
30267374 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAAGT
** * *
30267420 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAAGT
* *
30267466 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAAGT
30267512 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAAGT
30267558 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
30267599 TAGAGACACA
Statistics
Matches: 165, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 5 0.03
46 160 0.97
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAAGT
Found at i:30276586 original size:3 final size:3
Alignment explanation
Indices: 30276578--30276609 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
30276568 TTTTCGTAAA
30276578 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
30276610 TTTATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:30278073 original size:51 final size:51
Alignment explanation
Indices: 30277997--30278116 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 51
30277987 TCCCAAACTT
* * * *
30277997 ACTTCATACTTCATCCGGAATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGA
* *
30278048 ACTTCATATTTCATCCTG-ATATATTACTTTATTGCTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGGAAT-TATTACTTTATTGCTCTAGCTTCAACAAGA
*
30278099 GCTTCATATTTCATCCGG
1 ACTTCATATTTCATCCGG
30278117 TGTGAAAAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 2 0.03
51 58 0.97
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.41
Consensus pattern (51 bp):
ACTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGA
Found at i:30278992 original size:16 final size:16
Alignment explanation
Indices: 30278954--30279003 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
30278944 TCTATAATTC
*
30278954 ATATTATAATTTAAATA
1 ATATAATAA-TTAAATA
* *
30278971 AAATAATAATTATATA
1 ATATAATAATTAAATA
*
30278987 ATATAATAATTTAATA
1 ATATAATAATTAAATA
30279003 A
1 A
30279004 AGTAAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATAATTAAATA
Found at i:30284299 original size:3 final size:3
Alignment explanation
Indices: 30284291--30284319 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30284281 TTTTCGTAAA
30284291 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
30284320 TTTTATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:30285781 original size:51 final size:50
Alignment explanation
Indices: 30285705--30285823 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 50
30285695 TCCCAAACTT
* * * *
30285705 ACTTCATACTTCATCCAGAATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCC-GAATTATTACTTTATTGCTCTAGCTTCAACAAGA
*
30285756 ACTTCATATTTCATCCGAATATATTACTTTATTGCTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGAAT-TATTACTTTATTGCTCTAGCTTCAACAAGA
*
30285807 GCTTCATATTTCATCCG
1 ACTTCATATTTCATCCG
30285824 GATAACTTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 4 0.07
51 57 0.93
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (50 bp):
ACTTCATATTTCATCCGAATTATTACTTTATTGCTCTAGCTTCAACAAGA
Found at i:30297269 original size:33 final size:33
Alignment explanation
Indices: 30297227--30297294 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
30297217 ATATTGTGAT
30297227 TGTCTTCGAAATGATATGTGATATGTATATAGA
1 TGTCTTCGAAATGATATGTGATATGTATATAGA
*
30297260 TGTCTTCGAAATGATATGTGATATGTGTATAGA
1 TGTCTTCGAAATGATATGTGATATGTATATAGA
30297293 TG
1 TG
30297295 AAACCATGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.40
Consensus pattern (33 bp):
TGTCTTCGAAATGATATGTGATATGTATATAGA
Found at i:30307751 original size:32 final size:32
Alignment explanation
Indices: 30307715--30307788 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
30307705 TGGCATAAAA
* * *
30307715 CCATCAGTAATTGTAATA-AATACGGTACATAT
1 CCATCAGTAATGGTAATATAAT-CGGCACATAG
*
30307747 CCATCAGCAATGGTAATATAATCGGCACATAG
1 CCATCAGTAATGGTAATATAATCGGCACATAG
*
30307779 CCATAAGTAA
1 CCATCAGTAA
30307789 ATATGATCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 32 0.91
33 3 0.09
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (32 bp):
CCATCAGTAATGGTAATATAATCGGCACATAG
Found at i:30309202 original size:40 final size:39
Alignment explanation
Indices: 30309128--30309352 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 39
30309118 AACCCAAGTA
* * *
30309128 CCTTCGGGATTTAG-CCAGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
* *
30309167 CCTTTGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
*
30309207 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
*
30309250 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* * *
30309290 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
*
30309330 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30309353 CATCCGAATA
Statistics
Matches: 163, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
39 12 0.07
40 112 0.69
41 2 0.01
43 36 0.22
44 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:30309248 original size:83 final size:80
Alignment explanation
Indices: 30309128--30309352 Score: 326
Period size: 83 Copynumber: 2.8 Consensus size: 80
30309118 AACCCAAGTA
* * * * *
30309128 CCTTCGGGATTTAG-CCAGATATAGCAACTCGCACAAATGCCTTTGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
30309192 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* *
30309207 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAG-AA--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
30309272 TAGTCACTAGCACAAATG
63 TAGTCACTAGCACAAATG
* * *
30309290 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCGCAAATGCCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30309353 CATCCGAATA
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
79 13 0.10
80 41 0.32
81 1 0.01
82 1 0.01
83 74 0.57
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:30311588 original size:27 final size:27
Alignment explanation
Indices: 30311550--30311665 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 27
30311540 CAAAACAGTC
* * *
30311550 ATTTTACCCTATAGGGGTGTTTCGGAA
1 ATTTTACACTATAGGGGTATTTCGGTA
* *
30311577 ATTTTACACTATAAGGGTATTTTGGTA
1 ATTTTACACTATAGGGGTATTTCGGTA
* *
30311604 ATTTTACA-AATCAGGGATATTTCGGTA
1 ATTTTACACTAT-AGGGGTATTTCGGTA
* * *
30311631 ATTTTACA-AATTGGGGGTATTTCGATA
1 ATTTTACACTA-TAGGGGTATTTCGGTA
30311658 ATTTTACA
1 ATTTTACA
30311666 AACTGGGGTT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 2 0.03
27 72 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACACTATAGGGGTATTTCGGTA
Found at i:30311666 original size:27 final size:27
Alignment explanation
Indices: 30311591--30311673 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
30311581 TACACTATAA
* **
30311591 GGGTATTTTGGTAATTTTACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATTGG
*
30311618 GGATATTTCGGTAATTTTACAAATTGG
1 GGGTATTTCGGTAATTTTACAAATTGG
* *
30311645 GGGTATTTCGATAATTTTACAAACTGG
1 GGGTATTTCGGTAATTTTACAAATTGG
30311672 GG
1 GG
30311674 TTTTAACGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATTGG
Found at i:30315717 original size:27 final size:26
Alignment explanation
Indices: 30315669--30315728 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
30315659 GCGAGGCTGC
*
30315669 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
30315696 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
30315722 CAGATAT
1 CAGATAT
30315729 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:30317896 original size:42 final size:42
Alignment explanation
Indices: 30317837--30317944 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 42
30317827 TAAGATAACG
* *
30317837 TGTAAGACCATATCTGGGATATGGTATCAATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATACGAGACTTCA
* * *
30317879 TGTAAGACCATAGCTGGGCA-ATTGGCATCGATACGAGATTTCA
1 TGTAAGACCATATCTGGG-ATA-TGGCATCAATACGAGACTTCA
*
30317922 TGTAAGACCATATCTAGGATATG
1 TGTAAGACCATATCTGGGATATG
30317945 ACATTGGTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 21 0.38
43 35 0.62
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATACGAGACTTCA
Found at i:30331067 original size:47 final size:47
Alignment explanation
Indices: 30331013--30331344 Score: 495
Period size: 47 Copynumber: 7.1 Consensus size: 47
30331003 TTAGGATTTT
** * * **
30331013 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30331060 ATGTGATGAATGTGAACATGCATATGTGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30331107 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
30331154 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
30331201 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
30331248 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
30331295 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
30331342 ATG
1 ATG
30331345 CGAAATGTGT
Statistics
Matches: 264, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 261 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:30331301 original size:22 final size:22
Alignment explanation
Indices: 30331180--30331301 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
30331170 CATGCATATG
*
30331180 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * * *
30331202 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCAGAAT-GGC-CA-A
*
30331227 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
30331249 TGTGATGAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
30331274 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
30331296 TGTGAT
1 TGTGAT
30331302 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 15 0.20
25 19 0.25
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:30331374 original size:46 final size:46
Alignment explanation
Indices: 30331318--30331500 Score: 287
Period size: 46 Copynumber: 4.0 Consensus size: 46
30331308 GGAAGTGTAT
*
30331318 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
30331364 ATATGAGGTAAAGCTGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
30331410 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
30331456 ATATGTGGTAAAGCCAAATGGCTAATG-TAAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAA-ATGTGTATGAGATG
30331501 TGTATATATA
Statistics
Matches: 127, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 2 0.02
46 125 0.98
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:30341712 original size:23 final size:23
Alignment explanation
Indices: 30341686--30341731 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
30341676 GATGAATATG
30341686 CTGAAAATTTGAAATTTATGGAA
1 CTGAAAATTTGAAATTTATGGAA
30341709 CTGAAAATTTGAAATTTATGGAA
1 CTGAAAATTTGAAATTTATGGAA
30341732 GAAAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.35
Consensus pattern (23 bp):
CTGAAAATTTGAAATTTATGGAA
Found at i:30348020 original size:348 final size:348
Alignment explanation
Indices: 30347383--30348062 Score: 1306
Period size: 348 Copynumber: 2.0 Consensus size: 348
30347373 CGTAAGCCAA
30347383 GTACGCCTCACACCCTTTCTAAACCAATTTCTCAGCCACAAGAGCGAAAATCACATTAGACAAGT
1 GTACGCCTCACACCCTTTCTAAACCAATTTCTCAGCCACAAGAGCGAAAATCACATTAGACAAGT
30347448 AATCTAGATGCTCGCCAATCACAACCACCTCCTTATCATCTTCAGTCCTTAAAACGACCCTTTTA
66 AATCTAGATGCTCGCCAATCACAACCACCTCCTTATCATCTTCAGTCCTTAAAACGACCCTTTTA
*
30347513 GTCATACAGTCCAAACTAACTCAGTGCTTGACCAACCAATCCATGCCAAGAATTAAGTCGAACTC
131 GTCATACAGTCCAAACTAACTCAGTGCTTGACCAACCAATCCATGCCAAGAATTAAGTCAAACTC
*
30347578 CCCAAACGAAAGCTCCATCAGATCTTCCAAAAAAATAGTGCCTTGCACCTCTAATGGAACATCCC
196 CCCAAACGAAAGCTCCATCAGATCTACCAAAAAAATAGTGCCTTGCACCTCTAATGGAACATCCC
30347643 TACAGAGTTTACTAACCTAGACAAACTGCCCCAACGGACTCAGTACAATTATCTCACTAGAAGTG
261 TACAGAGTTTACTAACCTAGACAAACTGCCCCAACGGACTCAGTACAATTATCTCACTAGAAGTG
30347708 CTCTCAAGAGCGAAGTACGCCTT
326 CTCTCAAGAGCGAAGTACGCCTT
*
30347731 GTACGCCTCACACCTTTTCTAAACCAATTTCTCAGCCACAAGAGCGAAAATCACATTAGACAAGT
1 GTACGCCTCACACCCTTTCTAAACCAATTTCTCAGCCACAAGAGCGAAAATCACATTAGACAAGT
30347796 AATCTAGATGCTCGCCAATCACAACCACCTCCTTATCATCTTCAGTCCTTAAAACGACCCTTTTA
66 AATCTAGATGCTCGCCAATCACAACCACCTCCTTATCATCTTCAGTCCTTAAAACGACCCTTTTA
*
30347861 GTCATACAGTCCAAACTAACTCAGTGCTTGACCAACCAATCCATGCCCAGAATTAAGTCAAACTC
131 GTCATACAGTCCAAACTAACTCAGTGCTTGACCAACCAATCCATGCCAAGAATTAAGTCAAACTC
*
30347926 CCCAAACGAAAGCTCCATCAGATCTACCAGAAAAATAGTGCCTTGCACCTCTAATGGAACATCCC
196 CCCAAACGAAAGCTCCATCAGATCTACCAAAAAAATAGTGCCTTGCACCTCTAATGGAACATCCC
*
30347991 TACAGAGTTTACTAACCTGGACAAACTGCCCCAACGGACTCAGTACAATTATCTCACTAGAAGTG
261 TACAGAGTTTACTAACCTAGACAAACTGCCCCAACGGACTCAGTACAATTATCTCACTAGAAGTG
30348056 CTCTCAA
326 CTCTCAA
30348063 CAATTACTCC
Statistics
Matches: 326, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
348 326 1.00
ACGTcount: A:0.34, C:0.31, G:0.13, T:0.23
Consensus pattern (348 bp):
GTACGCCTCACACCCTTTCTAAACCAATTTCTCAGCCACAAGAGCGAAAATCACATTAGACAAGT
AATCTAGATGCTCGCCAATCACAACCACCTCCTTATCATCTTCAGTCCTTAAAACGACCCTTTTA
GTCATACAGTCCAAACTAACTCAGTGCTTGACCAACCAATCCATGCCAAGAATTAAGTCAAACTC
CCCAAACGAAAGCTCCATCAGATCTACCAAAAAAATAGTGCCTTGCACCTCTAATGGAACATCCC
TACAGAGTTTACTAACCTAGACAAACTGCCCCAACGGACTCAGTACAATTATCTCACTAGAAGTG
CTCTCAAGAGCGAAGTACGCCTT
Found at i:30350599 original size:31 final size:31
Alignment explanation
Indices: 30350561--30350638 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
30350551 TGGCCAACAA
*
30350561 CCCACACACCTGTGTGAAACACCCGTATGGG
1 CCCACACACCTGTGTGAAACACCCATATGGG
*
30350592 CCCACACACCCGTGTGAAACACCCATATGGG
1 CCCACACACCTGTGTGAAACACCCATATGGG
*
30350623 CCCACACGCCTGTGTG
1 CCCACACACCTGTGTG
30350639 GCCCACAAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.24, C:0.38, G:0.22, T:0.15
Consensus pattern (31 bp):
CCCACACACCTGTGTGAAACACCCATATGGG
Found at i:30356828 original size:36 final size:36
Alignment explanation
Indices: 30356781--30356852 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
30356771 AGAGTAAGTC
* *
30356781 TGTTGGATTTGGTAAATCAATAAGATGAAGATATAA
1 TGTTGGATTTGGTAAATCAATAAAATAAAGATATAA
30356817 TGTTGGATTTGGTAAATCAATAAAATAAAGATATAA
1 TGTTGGATTTGGTAAATCAATAAAATAAAGATATAA
30356853 GGTCTTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (36 bp):
TGTTGGATTTGGTAAATCAATAAAATAAAGATATAA
Found at i:30361562 original size:89 final size:88
Alignment explanation
Indices: 30361411--30361679 Score: 474
Period size: 84 Copynumber: 3.1 Consensus size: 88
30361401 TTTCATCATT
*
30361411 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAACCACATAGGTTTCGTACATACC
1 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
30361476 TGTACCATTATGTTCTTTCTATCA
66 TGTACCA-TATGTTCTTTCTATCA
30361500 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
1 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
30361565 TGTACC--A--TTCTTTCTATCA
66 TGTACCATATGTTCTTTCTATCA
30361584 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
1 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
30361649 TGTACCACTATGTTCTTATCTATCA
66 TGTACCA-TATGTTCTT-TCTATCA
30361674 CATTTA
1 CATTTA
30361680 TCACTCCAAT
Statistics
Matches: 173, Mismatches: 1, Indels: 11
0.94 0.01 0.06
Matches are distributed among these distances:
84 83 0.48
86 1 0.01
87 1 0.01
89 75 0.43
90 13 0.08
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (88 bp):
CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
TGTACCATATGTTCTTTCTATCA
Found at i:30361784 original size:43 final size:42
Alignment explanation
Indices: 30361736--30361924 Score: 252
Period size: 43 Copynumber: 4.4 Consensus size: 42
30361726 TTCAACGAAC
*
30361736 TCACACACTTAGTGCCAATTAATTAGCTGAAGCTATAATTATA
1 TCACACACTTAGTGCCAATTAATTAGCCGAAGCTATAATT-TA
* *
30361779 TCACACACTTAGTTCCAATTAATTAGCCGAGGCTATAATTTTA
1 TCACACACTTAGTGCCAATTAATTAGCCGAAGCTATAA-TTTA
* *
30361822 TCGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTA
1 TCACACACTTAGTGCCAATTAATTAGCCGAAGCTATAATT-TA
* * *
30361865 TCACACATTTAGTGCCAATTAATTAGCCGTAGCTATTTCATTTA
1 TCACACACTTAGTGCCAATTAATTAGCCGAAGCTA--TAATTTA
*
30361909 TCGCACACTTAGTGCC
1 TCACACACTTAGTGCC
30361925 TCAAATTCAA
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
42 2 0.02
43 106 0.82
44 18 0.14
45 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (42 bp):
TCACACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTTA
Found at i:30367397 original size:46 final size:46
Alignment explanation
Indices: 30367340--30367468 Score: 160
Period size: 46 Copynumber: 2.8 Consensus size: 46
30367330 TATATCTCGA
30367340 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTC-TCAA-T
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCT--TCAT-AAGT
*
30367387 -GCCGATGCATGTCCCT-GACATGTCTTACACTGGCT-TTCATAATGT
1 GGCCGATGCATGT-CCTAGACATGTCTTACACTAGCTCTTCATAA-GT
*
30367432 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTC
30367469 ACATACCACC
Statistics
Matches: 72, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
43 4 0.06
44 1 0.01
45 4 0.06
46 60 0.83
47 3 0.04
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTTCATAAGT
Found at i:30373317 original size:22 final size:22
Alignment explanation
Indices: 30373289--30373351 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
30373279 ACGTGTGTGA
30373289 CCACACGGGCGTGTGACCCAAG
1 CCACACGGGCGTGTGACCCAAG
*
30373311 CCACACGGGTGTGTGACCCAAG
1 CCACACGGGCGTGTGACCCAAG
30373333 CCACACGGGCGTGTGACCC
1 CCACACGGGCGTGTGACCC
30373352 CTATTTTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.21, C:0.37, G:0.32, T:0.11
Consensus pattern (22 bp):
CCACACGGGCGTGTGACCCAAG
Found at i:30374349 original size:28 final size:29
Alignment explanation
Indices: 30374309--30374380 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 29
30374299 GCTAGAGAAT
* * *
30374309 TGGAAGTCGTTGTGGCAATCTATG-AAAA
1 TGGAAGCCTTTGTGGCAATATATGAAAAA
* **
30374337 TGGAAGCCTTTGTAGTGATATATGAAAAA
1 TGGAAGCCTTTGTGGCAATATATGAAAAA
30374366 T-GAATGCCTTTGTGG
1 TGGAA-GCCTTTGTGG
30374381 TGCGCTCTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
28 21 0.60
29 14 0.40
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.32
Consensus pattern (29 bp):
TGGAAGCCTTTGTGGCAATATATGAAAAA
Found at i:30382664 original size:10 final size:10
Alignment explanation
Indices: 30382649--30382693 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
30382639 ATTGAAACAT
30382649 TTTAATATAA
1 TTTAATATAA
30382659 TTTAATAT-A
1 TTTAATATAA
30382668 --TAATAT--
1 TTTAATATAA
30382674 TTTAATATAA
1 TTTAATATAA
30382684 TTTAATATAA
1 TTTAATATAA
30382694 AAATAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 6 0.19
8 6 0.19
9 1 0.03
10 18 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TTTAATATAA
Found at i:30382764 original size:32 final size:31
Alignment explanation
Indices: 30382728--30382812 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 31
30382718 TAAATTATAT
30382728 TATTTTTATTAAATTATATTTAATAA--TA-
1 TATTTTTATTAAATTATATTTAATAATTTAC
* *
30382756 -A-TTATATTTAAA-TATGATTAAATAATTTAC
1 TATTTTTA-TTAAATTAT-ATTTAATAATTTAC
30382786 TATTTTTTATTAAATTATATTTAATAA
1 TA-TTTTTATTAAATTATATTTAATAA
30382813 CAATCCTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
26 7 0.16
27 14 0.32
29 2 0.05
31 1 0.02
32 13 0.30
33 7 0.16
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (31 bp):
TATTTTTATTAAATTATATTTAATAATTTAC
Found at i:30389644 original size:25 final size:25
Alignment explanation
Indices: 30389566--30389641 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
30389556 GCGCTCTCTG
*
30389566 ATTATTAGCACATTGGTGCTATCTA
1 ATTATTAGCACGTTGGTGCTATCTA
* *
30389591 ATTATTAGCACGTTGGTGCTCTCTG
1 ATTATTAGCACGTTGGTGCTATCTA
*
30389616 ATTATTAGCACGTTAGTGCTTATCTA
1 ATTATTAGCACGTTGGTGC-TATCTA
30389642 TTAGCACATT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 40 0.91
26 4 0.09
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (25 bp):
ATTATTAGCACGTTGGTGCTATCTA
Found at i:30395196 original size:489 final size:489
Alignment explanation
Indices: 30394278--30395745 Score: 2848
Period size: 489 Copynumber: 3.0 Consensus size: 489
30394268 GAGTGTAGGA
30394278 AACCAAAAGTTGTGGTGTAACAGTTGTAACAAGTTTCACTTTGGAGAGTGTCGGATGAGGAGCGA
1 AACCAAAAGTTGTGGTGTAACAGTTGTAACAAGTTTCACTTTGGAGAGTGTCGGATGAGGAGCGA
*
30394343 GGCATGCTATAGATATGGTTCTCTTAATCACTTTCTTAAGGATTGCCTAGAACGAGAAGACAAAG
66 GGCATGCTATAGATGTGGTTCTCTTAATCACTTTCTTAAGGATTGCCTAGAACGAGAAGACAAAG
* *
30394408 AGGTTGAGCCAACTCTGAAACTGAATGCTCCTATCTCTCAAGGTAGGCCTCCAAGATATCCCAGA
131 AGGTTGATCCAACTCTGAAACTGAATGCTCCTATCTCTCAAGGTAGGCCTCCAAGATATCCCGGA
*
30394473 AGTGCCAGTGGAGGTCGTTGTGTTACAAAGGACTCTACTGCCAAATCAGAGGCTCGAGTTCCAGC
196 AGTGCCAGTGGAGGTCGTTGTGTTACAAAGGACTCTACTACCAAATCAGAGGCTCGAGTTCCAGC
30394538 GAGAACTTATGCTATATGCGCTAGAGAGAAAGCCTCAGCTCATGATGTCATTACGAGTACATTTT
261 GAGAACTTATGCTATATGCGCTAGAGAGAAAGCCTCAGCTCATGATGTCATTACGAGTACATTTT
30394603 CTCTTTATGATATTCCTGTTGTTGCTTTGATTGACCCGGGGTCAACCCATTCGTATGTTTGCATG
326 CTCTTTATGATATTCCTGTTGTTGCTTTGATTGACCCGGGGTCAACCCATTCGTATGTTTGCATG
30394668 AAATCGGTGTCTAAAAAAGAATTACCTGTAGAATTTACGGAATACGTGATTAAGGTGTCGAATCC
391 AAATCGGTGTCTAAAAAAGAATTACCTGTAGAATTTACGGAATACGTGATTAAGGTGTCGAATCC
30394733 GTTAGGCAAACATGTACTAGTTGATAAGGTATGC
456 GTTAGGCAAACATGTACTAGTTGATAAGGTATGC
30394767 AACCAAAAGTTGTGGTGTAACAGTTGTAACAAGTTTCACTTTGGAGAGTGTCGGATGAGGAGCGA
1 AACCAAAAGTTGTGGTGTAACAGTTGTAACAAGTTTCACTTTGGAGAGTGTCGGATGAGGAGCGA
*
30394832 GGCATGCTATAGATGTGGTTCTCTTAATCATTTTCTTAAGGATTGCCTAGAACGAGAAGACAAAG
66 GGCATGCTATAGATGTGGTTCTCTTAATCACTTTCTTAAGGATTGCCTAGAACGAGAAGACAAAG
30394897 AGGTTGATCCAACTCTGAAACTGAATGCTCCTATCTCTCAAGGTAGGCCTCCAAGATATCCCGGA
131 AGGTTGATCCAACTCTGAAACTGAATGCTCCTATCTCTCAAGGTAGGCCTCCAAGATATCCCGGA
30394962 AGTGCCAGTGGAGGTCGTTGTGTTACAAAGGACTCTACTACCAAATCAGAGGCTCGAGTTCCAGC
196 AGTGCCAGTGGAGGTCGTTGTGTTACAAAGGACTCTACTACCAAATCAGAGGCTCGAGTTCCAGC
30395027 GAGAACTTATGCTATATGCGCTAGAGAGAAAGCCTCAGCTCATGATGTCATTACGAGTACATTTT
261 GAGAACTTATGCTATATGCGCTAGAGAGAAAGCCTCAGCTCATGATGTCATTACGAGTACATTTT
30395092 CTCTTTATGATATTCCTGTTGTTGCTTTGATTGACCCGGGGTCAACCCATTCGTATGTTTGCATG
326 CTCTTTATGATATTCCTGTTGTTGCTTTGATTGACCCGGGGTCAACCCATTCGTATGTTTGCATG
30395157 AAATCGGTGTCTAAAAAAGAATTACCTGTAGAATTTACGGAATACGTGATTAAGGTGTCGAATCC
391 AAATCGGTGTCTAAAAAAGAATTACCTGTAGAATTTACGGAATACGTGATTAAGGTGTCGAATCC
30395222 GTTAGGCAAACATGTACTAGTTGATAAGGTATGC
456 GTTAGGCAAACATGTACTAGTTGATAAGGTATGC
30395256 AACCAAAAGTTGTGGTGTAACAGTTGTAACAAGTTTCACTTTGGAGAGTGTCGGATGAGGAGCGA
1 AACCAAAAGTTGTGGTGTAACAGTTGTAACAAGTTTCACTTTGGAGAGTGTCGGATGAGGAGCGA
*
30395321 GGCATGCTATAGATGTGGTTCTCTTAATCACTTTCTTAAGGATTGCCTAAAACGAGAAGACAAAG
66 GGCATGCTATAGATGTGGTTCTCTTAATCACTTTCTTAAGGATTGCCTAGAACGAGAAGACAAAG
30395386 AGGTTGATCCAACTCTGAAACTGAATGCTCCTATCTCTCAAGGTAGGCCTCCAAGATATCCCGGA
131 AGGTTGATCCAACTCTGAAACTGAATGCTCCTATCTCTCAAGGTAGGCCTCCAAGATATCCCGGA
30395451 AGTGCCAGTGGAGGTCGTTGTGTTACAAAGGACTCTACTACCAAATCAGAGGCTCGAGTTCCAGC
196 AGTGCCAGTGGAGGTCGTTGTGTTACAAAGGACTCTACTACCAAATCAGAGGCTCGAGTTCCAGC
30395516 GAGAACTTATGCTATATGCGCTAGAGAGAAAGCCTCAGCTCATGATGTCATTACGAGTACATTTT
261 GAGAACTTATGCTATATGCGCTAGAGAGAAAGCCTCAGCTCATGATGTCATTACGAGTACATTTT
30395581 CTCTTTATGATATTCCTGTTGTTGCTTTGATTGACCCGGGGTCAACCCATTCGTATGTTTGCATG
326 CTCTTTATGATATTCCTGTTGTTGCTTTGATTGACCCGGGGTCAACCCATTCGTATGTTTGCATG
* * *
30395646 AAATTGGTGTCTAAAAAAGAATTATCTGTAGAATTTACGGAATACGTGATTAAGGTGTCGAATTC
391 AAATCGGTGTCTAAAAAAGAATTACCTGTAGAATTTACGGAATACGTGATTAAGGTGTCGAATCC
30395711 GTTAGGCAAACATGTACTAG-TGATAAGGTATGC
456 GTTAGGCAAACATGTACTAGTTGATAAGGTATGC
30395744 AA
1 AA
30395746 GAAATGTCCA
Statistics
Matches: 969, Mismatches: 10, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
488 15 0.02
489 954 0.98
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (489 bp):
AACCAAAAGTTGTGGTGTAACAGTTGTAACAAGTTTCACTTTGGAGAGTGTCGGATGAGGAGCGA
GGCATGCTATAGATGTGGTTCTCTTAATCACTTTCTTAAGGATTGCCTAGAACGAGAAGACAAAG
AGGTTGATCCAACTCTGAAACTGAATGCTCCTATCTCTCAAGGTAGGCCTCCAAGATATCCCGGA
AGTGCCAGTGGAGGTCGTTGTGTTACAAAGGACTCTACTACCAAATCAGAGGCTCGAGTTCCAGC
GAGAACTTATGCTATATGCGCTAGAGAGAAAGCCTCAGCTCATGATGTCATTACGAGTACATTTT
CTCTTTATGATATTCCTGTTGTTGCTTTGATTGACCCGGGGTCAACCCATTCGTATGTTTGCATG
AAATCGGTGTCTAAAAAAGAATTACCTGTAGAATTTACGGAATACGTGATTAAGGTGTCGAATCC
GTTAGGCAAACATGTACTAGTTGATAAGGTATGC
Found at i:30406617 original size:23 final size:24
Alignment explanation
Indices: 30406591--30406639 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
30406581 ACTAAACTAG
* *
30406591 AATTACAATTA-AAAAGAAACATA
1 AATTACAAATAGAAAAGAAAAATA
*
30406614 AATTACAAATAGAAAATAAAAATA
1 AATTACAAATAGAAAAGAAAAATA
30406638 AA
1 AA
30406640 CAAGCAACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.20
Consensus pattern (24 bp):
AATTACAAATAGAAAAGAAAAATA
Found at i:30408382 original size:51 final size:51
Alignment explanation
Indices: 30408327--30408474 Score: 244
Period size: 51 Copynumber: 2.9 Consensus size: 51
30408317 TGAACCTTAG
*
30408327 GAATAAAATAGCTTTGGACACAAGTGTGATACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
30408378 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
30408429 GAATAAAATAGTTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
30408475 CGGGTATCCG
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 1 0.01
51 90 0.99
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:30413570 original size:22 final size:22
Alignment explanation
Indices: 30413526--30413571 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
30413516 CTATGCTTAT
* * *
30413526 TTTTAACAAAATTATTTTTAAA
1 TTTTAACAAAATAAATTTAAAA
*
30413548 TTTTAAGAAAATAAATTTAAAA
1 TTTTAACAAAATAAATTTAAAA
30413570 TT
1 TT
30413572 AAAATGAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTTAACAAAATAAATTTAAAA
Found at i:30419699 original size:27 final size:27
Alignment explanation
Indices: 30419661--30419714 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
30419651 AATATTCGGG
*
30419661 AATCATATATATAAAGTTATAAATAAA
1 AATCATATATATAAAGTTACAAATAAA
30419688 AATCATATATATAAAGTTACAAATAAA
1 AATCATATATATAAAGTTACAAATAAA
30419715 GGTGGATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (27 bp):
AATCATATATATAAAGTTACAAATAAA
Found at i:30425802 original size:25 final size:25
Alignment explanation
Indices: 30425754--30425802 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
30425744 CATAATTGAA
* * *
30425754 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
30425779 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
30425803 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:30426245 original size:43 final size:43
Alignment explanation
Indices: 30426198--30426326 Score: 197
Period size: 43 Copynumber: 3.0 Consensus size: 43
30426188 TATGTAATTG
* * *
30426198 ATATTGAAATGGAAAAGATGAAAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
30426241 ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
* *
30426284 ATATTAAAAT-GACAAATATGAGGAATGATTATGAGATGAGAAA
1 ATATTGAAATGGA-AAATATGAGAAATGATTATGAGATGAGAAA
30426327 TGAAAAATGA
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 2 0.03
43 78 0.98
ACGTcount: A:0.53, C:0.01, G:0.22, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
Found at i:30426267 original size:16 final size:16
Alignment explanation
Indices: 30426203--30426267 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
30426193 AATTGATATT
*
30426203 GAAATGGAAAAGATGA
1 GAAATGGAAAATATGA
*
30426219 AAAAT-G--AATATGA
1 GAAATGGAAAATATGA
*
30426232 G--ATGAGAAAATAT-T
1 GAAATG-GAAAATATGA
30426246 GAAATGGAAAATATGA
1 GAAATGGAAAATATGA
30426262 GAAATG
1 GAAATG
30426268 ATTATGAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
11 2 0.05
13 7 0.19
14 1 0.03
15 14 0.38
16 13 0.35
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (16 bp):
GAAATGGAAAATATGA
Found at i:30431231 original size:42 final size:42
Alignment explanation
Indices: 30431172--30431293 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
30431162 TTAAGGTCAC
*
30431172 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * * * *
30431214 TGAGATTTCGTGTAAGACGATAGCTGGGCTATTAGTATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
** *
30431257 CAAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
30431294 TGGTACGGTA
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:30433915 original size:21 final size:22
Alignment explanation
Indices: 30433891--30433935 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
30433881 CTACATAGTG
30433891 TCGCACACTTAGTCCATCA-AT
1 TCGCACACTTAGTCCATCATAT
*
30433912 TCGCACACTTAGTGCATCATAT
1 TCGCACACTTAGTCCATCATAT
30433934 TC
1 TC
30433936 ATTTCACACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (22 bp):
TCGCACACTTAGTCCATCATAT
Found at i:30433951 original size:27 final size:27
Alignment explanation
Indices: 30433915--30433980 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
30433905 CATCAATTCG
* * **
30433915 CACACTTAGTGCATCATATTCATTTCA
1 CACACTTAGTGCAACATAGTCAAATCA
*
30433942 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCAACATAGTCAAATCA
30433969 CACACTTAGTGC
1 CACACTTAGTGC
30433981 TGTACAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (27 bp):
CACACTTAGTGCAACATAGTCAAATCA
Found at i:30442062 original size:51 final size:51
Alignment explanation
Indices: 30442007--30442104 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
30441997 AATCTGACGT
*
30442007 TTTTAAATAAATATAAATATTTGTTTAAT-TTGTTTTATTTTAAATCTGGTG
1 TTTTAAATAAATATAAATATTT-TTTAATATTATTTTATTTTAAATCTGGTG
* *
30442058 TTTTACATAAATATAAATATTTTTTTATATTATTTTATTTTAAATCT
1 TTTTAAATAAATATAAATATTTTTTAATATTATTTTATTTTAAATCT
30442105 TGTCTATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 5 0.12
51 38 0.88
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (51 bp):
TTTTAAATAAATATAAATATTTTTTAATATTATTTTATTTTAAATCTGGTG
Found at i:30442356 original size:82 final size:80
Alignment explanation
Indices: 30442256--30442453 Score: 245
Period size: 82 Copynumber: 2.5 Consensus size: 80
30442246 AATTGAATAA
*
30442256 AATTTGTTTC-AGAATTTATTCCTACCGTTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAA
1 AATTTTTTTCGAG-ATTTATTCCTACCGTTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAA
*
30442320 ACGAGAATTAACTGAAT
65 AC-AGAATTAACTAAAT
* * * * * *
30442337 AATTTTGTTTTGGGATTTATTCCCACCGTTTAATAGATTTTATTCGATTTTGATTTTGTTTCCAA
1 AATTTT-TTTCGAGATTTATTCCTACCGTTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAA
* *
30442402 ACAGATTTAATTAAAT
65 ACAGAATTAACTAAAT
* * *
30442418 AATTTTTTTCGAGATTTAATCCTGCAGTTCAACAGA
1 AATTTTTTTCGAGATTTATTCCTACCGTTCAACAGA
30442454 ATTGATTTTG
Statistics
Matches: 97, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
80 22 0.23
81 22 0.23
82 52 0.54
83 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (80 bp):
AATTTTTTTCGAGATTTATTCCTACCGTTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAAA
CAGAATTAACTAAAT
Found at i:30447492 original size:6 final size:6
Alignment explanation
Indices: 30447475--30447504 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
30447465 TCAGATCTTG
30447475 TATTTAA TATTTA TATTTA TATTTA TATTT
1 TATTT-A TATTTA TATTTA TATTTA TATTT
30447505 GTTCACTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:30452474 original size:21 final size:21
Alignment explanation
Indices: 30452439--30452483 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
30452429 AAACATTCAA
*
30452439 AATTTGTACCATACATA-ATC
1 AATTTGTACCATACAAAGATC
*
30452459 AATTTGATATCATACAAAGATC
1 AATTTG-TACCATACAAAGATC
30452481 AAT
1 AAT
30452484 CCAAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 9 0.43
22 6 0.29
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (21 bp):
AATTTGTACCATACAAAGATC
Found at i:30460908 original size:25 final size:25
Alignment explanation
Indices: 30460872--30460938 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
30460862 TGGACACACC
*
30460872 ACAGCTCATATGAGCTTCCCGATTT
1 ACAGCTCGTATGAGCTTCCCGATTT
* *
30460897 GCAGCTCGTATGAGCTTCTCGATTT
1 ACAGCTCGTATGAGCTTCCCGATTT
*
30460922 ATAGCTCGTATGAGCTT
1 ACAGCTCGTATGAGCTT
30460939 ACTGGTTCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (25 bp):
ACAGCTCGTATGAGCTTCCCGATTT
Found at i:30460952 original size:25 final size:24
Alignment explanation
Indices: 30460871--30460955 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
30460861 GTGGACACAC
* *
30460871 CACAGCTCATATGAGCTTCCCGATT
1 CACAGCTCGTATGAGCTT-CTGATT
**
30460896 TGCAGCTCGTATGAGCTTCTCGATT
1 CACAGCTCGTATGAGCTTCT-GATT
* * *
30460921 TATAGCTCGTATGAGCTTACTGGTT
1 CACAGCTCGTATGAGCTT-CTGATT
30460946 CACAGCTCGT
1 CACAGCTCGT
30460956 GAGAGCATAC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 46 0.94
26 2 0.04
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (24 bp):
CACAGCTCGTATGAGCTTCTGATT
Found at i:30463406 original size:57 final size:58
Alignment explanation
Indices: 30463313--30463436 Score: 144
Period size: 57 Copynumber: 2.2 Consensus size: 58
30463303 AGCTTGGATG
* * * *
30463313 GGTAATCCTGATATAATCTCTCTCGAGCATATGTTACGATTA-GGGTTTAGCCTAGACT
1 GGTAATCCTAATATAATCTCTCTCGAGCATACGTTAC-ATAATGGATTTAGCCTAGACT
* * * * *
30463371 GGTAATCCTAAT-TGATCTCTTTTGAGCATACGTTACATAATGGATTTAGCCTGGATT
1 GGTAATCCTAATATAATCTCTCTCGAGCATACGTTACATAATGGATTTAGCCTAGACT
30463428 GGTAATCCT
1 GGTAATCCT
30463437 GTAATATGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
56 3 0.05
57 42 0.75
58 11 0.20
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (58 bp):
GGTAATCCTAATATAATCTCTCTCGAGCATACGTTACATAATGGATTTAGCCTAGACT
Found at i:30475104 original size:24 final size:24
Alignment explanation
Indices: 30475076--30475127 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
30475066 TTTCTAGAAG
*
30475076 ATTTATTATTTATTA-CTATAATAT
1 ATTTAGTATTTATTAGC-ATAATAT
30475100 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
30475124 ATTT
1 ATTT
30475128 GACATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:30475134 original size:24 final size:25
Alignment explanation
Indices: 30475083--30475139 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
30475073 AAGATTTATT
*
30475083 ATTTATTA-CTATAATATATTTAGT
1 ATTTATTAGCTATAATATATTTAGC
30475107 ATTTATTAGC-ATAATATATTT-GAC
1 ATTTATTAGCTATAATATATTTAG-C
30475131 ATTTATTAG
1 ATTTATTAG
30475140 AATTAGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 1 0.03
24 28 0.93
25 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (25 bp):
ATTTATTAGCTATAATATATTTAGC
Found at i:30476149 original size:32 final size:32
Alignment explanation
Indices: 30476108--30476171 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
30476098 AGAAGAAAGG
30476108 GCACATTAAGTCTGAGTGCTATAAGTTGCAGA
1 GCACATTAAGTCTGAGTGCTATAAGTTGCAGA
30476140 GCACATTAAGTCTGAGTGCTATAAGTTGCAGA
1 GCACATTAAGTCTGAGTGCTATAAGTTGCAGA
30476172 ATAAGATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (32 bp):
GCACATTAAGTCTGAGTGCTATAAGTTGCAGA
Found at i:30478198 original size:40 final size:40
Alignment explanation
Indices: 30478109--30478200 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 40
30478099 CACTCCGTCT
* *
30478109 AACCCAACACACC--ATGTGGGGATAAAATCGACCCACCC
1 AACCCTACACACCAAATATGGGGATAAAATCGACCCACCC
* * *
30478147 ATCCCTGCACACCAAATATGGGGATAAAATCGACCCATCC
1 AACCCTACACACCAAATATGGGGATAAAATCGACCCACCC
*
30478187 AACCGTACACACCA
1 AACCCTACACACCA
30478201 TAAAGTATCG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 10 0.23
40 34 0.77
ACGTcount: A:0.37, C:0.36, G:0.14, T:0.13
Consensus pattern (40 bp):
AACCCTACACACCAAATATGGGGATAAAATCGACCCACCC
Found at i:30478582 original size:17 final size:18
Alignment explanation
Indices: 30478560--30478600 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
30478550 CCCGTTTGGG
*
30478560 CCACACGCCT-GTGTGGC
1 CCACACGACTCGTGTGGC
30478577 CCACAC-ACTCGTGTGGC
1 CCACACGACTCGTGTGGC
30478594 CCACACG
1 CCACACG
30478601 GCTCAAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.17, C:0.44, G:0.24, T:0.15
Consensus pattern (18 bp):
CCACACGACTCGTGTGGC
Found at i:30483920 original size:43 final size:43
Alignment explanation
Indices: 30483843--30484022 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 43
30483833 TCTGAATTCA
* * **
30483843 TTCACCGACATTTTA-CCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
30483885 TTCACCGGCATTATAGCCTGTTAGGCCCGAGGCCCGATAGGCCCGATATTAT
1 TTCACCGGCATTATAGCC---T--G--CTAGGCCCGA-A-GCCCGATATCAT
* *
30483937 CTCACCGGCATTATAGCCTGCTAGGGCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * *
30483980 TTCACCGGTATTATAGCCTGCTAGGCTCGAAGCTCGTATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
30484023 CATTTCGATA
Statistics
Matches: 112, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 13 0.12
43 44 0.39
44 7 0.06
45 8 0.07
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 7 0.06
51 1 0.01
52 28 0.25
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:30483951 original size:52 final size:52
Alignment explanation
Indices: 30483873--30483975 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
30483863 TAGGCTTGAA
* * *
30483873 GCCCGATATCATTTCACCGGCATTATAGCCTGTTAGGCCCGAGGCCCGATAG
1 GCCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAG
* *
30483925 GCCCGATATTATCTCACCGGCATTATAGCCTGCTAGGGCCGAAGCCCGATA
1 GCCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
30483976 TCATTTCACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.22
Consensus pattern (52 bp):
GCCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAG
Found at i:30484912 original size:70 final size:70
Alignment explanation
Indices: 30484795--30484929 Score: 216
Period size: 70 Copynumber: 1.9 Consensus size: 70
30484785 TAGCACATAA
* * * * * *
30484795 CACCATGATTTTGTCCTAATTTGGACAGCCAATAATTTATAGTATTACAGCAGCATATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAACAAATTAATTAG
30484860 CTAAG
66 CTAAG
30484865 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAACAAATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAACAAATTAATTAG
30484930 TAATAAACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (70 bp):
CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAACAAATTAATTAG
CTAAG
Found at i:30492262 original size:23 final size:23
Alignment explanation
Indices: 30492232--30492278 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
30492222 AGCAGTTTTG
30492232 ACAATTGTGTTTATTTTAAGAAA
1 ACAATTGTGTTTATTTTAAGAAA
30492255 ACAATTGTGTTTATTTTAAGAAA
1 ACAATTGTGTTTATTTTAAGAAA
30492278 A
1 A
30492279 ACAGTTATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (23 bp):
ACAATTGTGTTTATTTTAAGAAA
Found at i:30492295 original size:24 final size:23
Alignment explanation
Indices: 30492232--30492296 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
30492222 AGCAGTTTTG
* *
30492232 ACAATTGTGTTTATTTTAAGAAA
1 ACAATTATGGTTATTTTAAGAAA
* *
30492255 ACAATTGTGTTTATTTTAAGAAAA
1 ACAATTATGGTTATTTTAAG-AAA
* *
30492279 ACAGTTATGGTTCTTTTA
1 ACAATTATGGTTATTTTA
30492297 TGTATCTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (23 bp):
ACAATTATGGTTATTTTAAGAAA
Found at i:30496385 original size:24 final size:24
Alignment explanation
Indices: 30496328--30496379 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
30496318 CTTTTAGAAG
* *
30496328 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
30496352 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
30496376 ATTT
1 ATTT
30496380 GACATTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:30496390 original size:24 final size:24
Alignment explanation
Indices: 30496328--30496391 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
30496318 CTTTTAGAAG
* * *
30496328 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTGATTAGCATAATAT
*
30496352 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTGATTAGCATAATAT
30496376 ATTT-GACATTGATTAG
1 ATTTAG-CATTGATTAG
30496392 AATTAGGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 1 0.03
24 35 0.97
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTGATTAGCATAATAT
Found at i:30497361 original size:29 final size:27
Alignment explanation
Indices: 30497325--30497390 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 27
30497315 TATTAAATGT
*
30497325 TTTTTAAAAAAATAAAAAATAAAAACTA
1 TTTTTAAAAAAAT-AAAAATAAAAAATA
*
30497353 TTTTCTAAAAAAATGAAAATAAAAAATA
1 TTTT-TAAAAAAATAAAAATAAAAAATA
30497381 TTTTTAAAAA
1 TTTTTAAAAA
30497391 TCAAACGACA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 6 0.17
28 20 0.57
29 9 0.26
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (27 bp):
TTTTTAAAAAAATAAAAATAAAAAATA
Found at i:30505463 original size:12 final size:12
Alignment explanation
Indices: 30505446--30505470 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30505436 CCTACACCAA
30505446 ACAAAATGGCAC
1 ACAAAATGGCAC
30505458 ACAAAATGGCAC
1 ACAAAATGGCAC
30505470 A
1 A
30505471 AATAGGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.16, T:0.08
Consensus pattern (12 bp):
ACAAAATGGCAC
Found at i:30510178 original size:19 final size:20
Alignment explanation
Indices: 30510154--30510194 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
30510144 TTGTTCACTT
30510154 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTGTTCTC
30510173 TCTTTTCTTTGTTTGTTCTC
1 TCTTTTCTTTGTTTGTTCTC
30510193 TC
1 TC
30510195 AATTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.22, G:0.07, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTGTTCTC
Found at i:30515096 original size:39 final size:39
Alignment explanation
Indices: 30515034--30515325 Score: 190
Period size: 39 Copynumber: 7.7 Consensus size: 39
30515024 TTATTTCACG
* **
30515034 TAATCAGTGGATATGGCTCGTTTGAGCATGCATTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
* *
30515073 TAATCATTGGATATCGCTTGTTTGAGCAAACATTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
* * *
30515112 TAATCAGTGGGTATTGCTCATTTGAGCAAACATTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
* * *
30515151 TAATCAATGGATAT-TCTCATTTGAGC-AACTATTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAAC-ATTCAGTA
* * * ** *
30515189 GAACCAATAAATATTGCTCGTTTGAGC--AC-TTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
* * ** * * *
30515225 GAATCATTAAACATTGCTCGTTTGGGC--ACATTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
** * * * * *
30515262 GGATCAGTAGATATTGATCG-TTGAGC--ACTTTCGGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
* * * *
30515298 GAATCAATAGATATTGCTCGTTTGAGCA
1 TAATCAGTGGATATCGCTCGTTTGAGCA
30515326 CTTCAATAGA
Statistics
Matches: 214, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
36 62 0.29
37 31 0.14
38 31 0.14
39 90 0.42
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (39 bp):
TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
Found at i:30515319 original size:109 final size:109
Alignment explanation
Indices: 30515036--30516538 Score: 1694
Period size: 109 Copynumber: 13.7 Consensus size: 109
30515026 ATTTCACGTA
* * * * * * * * *
30515036 ATCAGTGGATATGGCTCGTTTGAGCATGCATTCAGTATAATCATTGGATATCGCTTGTTTGAGCA
1 ATCAGTAGATATTGCTCG-TTGAGCA--CTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGC-
* * ** * **
30515101 AACATTCAGTATAATCAGTGGGTATTGCTCATTTGAGCAAACATTCAGTATA
62 -AC-TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGC--ACATTCAGTAGG
* * * * *
30515153 ATCAATGGATATT-CTCATTTGAGCAACTATTCAGTAGAACCAATAAATATTGCTCGTTTGAGCA
1 ATCAGTAGATATTGCTC-GTTGAGC-ACT-TTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCA
* * *
30515217 CTTCAGTAGAATCATTAAACATTGCTCGTTTGGGCACATTCAGTAGG
63 CTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
* * * *
30515264 ATCAGTAGATATTGATCGTTGAGCACTTTCGGTAGAATCAATAGATATTGCTCGTTTGAGCACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCACTT
* * *
30515329 CAATAGAACCAGTAGACATTGCT-GATTTGAGCACATTTAGTAGG
66 CAGTAGAATCAGTAGACATTGCTCG-TTTGAGCACATTCAGTAGG
* * * * * *
30515373 ATTAATAGATATTGCTCGTTGAGCACTTTTAATAGAACCAATAGATATTGCTCGTTTAAGCACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCAC-T
* * *
30515438 TCACTAGAATCAGCAGACATTGCTCGTTTGAGTACATTCAGTAGG
65 TCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
* * * * * *
30515483 ACCAGTAGGTATTGCTCATTGAGCACTTTCAGTAGAACCAATAGATATTGCTC-ATTGAGAACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCACTT
* * *
30515547 CAGTAGAATCAATAGACATTTCTCGTTTGAGCATATTCAGTAGG
66 CAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
* * ** * * * ** * *
30515591 ATCAGAAGCTATAACTTGTAGAGCAC-TTCAATAGAATTAGTAGATATTGCTCATTTGAGCATTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCA-CT
* *
30515655 TCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTTAGTAGG
65 TCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
* * * * * *
30515700 ATCAATAGATATTGCTAGTTAAGAACTTTCAGTAGAACCAGTAGATATTGTTTG-TTGAGCACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCAC-T
*
30515764 TCAGTAGAATCAGTAGACATTTCTCGTTTGAGCACATTCAGTAGG
65 TCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
* * * * *
30515809 ATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATCAATAGATATTGCTCGTTTGAGCACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCACTT
* * *
30515874 CAGTAGAACCAGTAGACATTGCTGGTTTGAGCACATTTAGTAGG
66 CAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
* *
30515918 ATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCAC-T
* * * * *
30515983 TCACTAGAATCAGTAGACATTACTCGTTTAAGTACATTCAATAGG
65 TCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
* * * * *
30516028 ATCAGTAAATATTGCTCATTGAGCACTTTCAGTAGAACCAATAGATATTGCTC-ATTGACCACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCACTT
* * *
30516092 CAGTAGAATCAATAGACATTTCTCGTTTAAGCACATTCAGTAGG
66 CAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
* * ** *
30516136 ATCAGAAGATATTGCTCGTTGAGCAC-TTCAATAGAATTAGTAGATATTGCTCATTTGAGCACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCAC-T
* *
30516200 TCAGTAGAATCAGTAGACATTACTCATTTGAGCACATTCAGTAGG
65 TCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
*
30516245 ATCAGTAGATATTG-TCCGTTAAGCACTTTCAGTAGAACCAGTAGATATTGCTCG-TTGAGCACT
1 ATCAGTAGATATTGCT-CGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCAC-
*
30516308 TTCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTCAGTAGG
64 TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
* * * * ** * * *
30516354 ATCATTAGATATTGCTCGTTGAGCATTTTCAGTGGTATTAGTAGATATTGTTTGTTTGAGAACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCAC-T
* * *
30516419 TAAGTAGAATCAATAGACATTGCTCGTTTGAGCACATTTAGTAGG
65 TCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
* * * * *
30516464 ATCAGTAGATATTGCTCGTTAAGCACTTTCAGTAGTATCAGTAGATATTGCTC-ATTGAGTACTT
1 ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCACTT
30516528 CAGTAGAATCA
66 CAGTAGAATCA
30516539 ATATTCAGGT
Statistics
Matches: 1181, Mismatches: 186, Indels: 47
0.84 0.13 0.03
Matches are distributed among these distances:
107 44 0.04
108 149 0.13
109 558 0.47
110 323 0.27
111 28 0.02
112 2 0.00
113 26 0.02
114 2 0.00
115 1 0.00
116 36 0.03
117 12 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (109 bp):
ATCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGCACTT
CAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAGG
Found at i:30516211 original size:545 final size:545
Alignment explanation
Indices: 30515105--30516538 Score: 2138
Period size: 545 Copynumber: 2.6 Consensus size: 545
30515095 TGAGCAAACA
* * ** * ** * *
30515105 TTCAGTATAATCAGTGGGTATTGCTCATTTGAGCAAACATTCAGTATAATCAATGGATATTCTCA
1 TTCAGTAGAATCAGTAGACATTACTCATTTGAGC--ACATTCAGTAGGATCAATAGATATTGTCA
* * * * *
30515170 TTTGAGCAACTATTCAGTAGAACCAATAAATATTGCTCGTTTGAGCAC-TTCAGTAGAATCATTA
64 GTTAAG-AACT-TTCAGTAGAACCAGTAGATATTGCTCG-TTGAGCACTTTCAGTAGAATCAGTA
* * * * * * *
30515234 AACATTGCTCGTTTGGGCACATTCAGTAGGATCAGTAGATATTGATCGTTGAGCACTTTCGGTAG
126 GACATTACTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGG
* * *
30515299 AATCAATAGATATTGCTCGTTTGAGCACTTCAATAGAACCAGTAGACATTGCTGATTTGAGCACA
191 TATCAATAGATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACA
* * *
30515364 TTTAGTAGGATTAATAGATATTGCTCGTTGAGCACTTTTAATAGAACCAATAGATATTGCTCGTT
256 TTTAGTAGGATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTT
* * * * **
30515429 TAAGCACTTTCACTAGAATCAGCAGACATTGCTCGTTTGAGTACATTCAGTAGGACCAGTAGGTA
321 TGAGCACTTTCACTAGAATCAGCAGACATTACTCGTTTAAGTACATTCAATAGGACCAGTAAATA
*
30515494 TTGCTCATTGAGCACTTTCAGTAGAACCAATAGATATTGCTCATTGAGAACTTCAGTAGAATCAA
386 TTGCTCATTGAGCACTTTCAGTAGAACCAATAGATATTGCTCATTGACAACTTCAGTAGAATCAA
* * * *
30515559 TAGACATTTCTCGTTTGAGCATATTCAGTAGGATCAGAAGCTATAACTTGTAGAGCACTTCAATA
451 TAGACATTTCTCGTTTAAGCACATTCAGTAGGATCAGAAGATATAACTCGTAGAGCACTTCAATA
*
30515624 GAATTAGTAGATATTGCTCATTTGAGCATT
516 GAATTAGTAGATATTGCTCATTTGAGCACT
* *
30515654 TTCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTTAGTAGGATCAATAGATATTG-CTAG
1 TTCAGTAGAATCAGTAGACATTACTCATTTGAGCACATTCAGTAGGATCAATAGATATTGTC-AG
* *
30515718 TTAAGAACTTTCAGTAGAACCAGTAGATATTGTTTGTTGAGCACTTTCAGTAGAATCAGTAGACA
65 TTAAGAACTTTCAGTAGAACCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGACA
*
30515783 TTTCTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATC
130 TTACTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATC
30515848 AATAGATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACATTTA
195 AATAGATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACATTTA
30515913 GTAGGATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAG
260 GTAGGATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAG
* *
30515978 CACTTTCACTAGAATCAGTAGACATTACTCGTTTAAGTACATTCAATAGGATCAGTAAATATTGC
325 CACTTTCACTAGAATCAGCAGACATTACTCGTTTAAGTACATTCAATAGGACCAGTAAATATTGC
*
30516043 TCATTGAGCACTTTCAGTAGAACCAATAGATATTGCTCATTGACCACTTCAGTAGAATCAATAGA
390 TCATTGAGCACTTTCAGTAGAACCAATAGATATTGCTCATTGACAACTTCAGTAGAATCAATAGA
** *
30516108 CATTTCTCGTTTAAGCACATTCAGTAGGATCAGAAGATATTGCTCGTTGAGCACTTCAATAGAAT
455 CATTTCTCGTTTAAGCACATTCAGTAGGATCAGAAGATATAACTCGTAGAGCACTTCAATAGAAT
30516173 TAGTAGATATTGCTCATTTGAGCACT
520 TAGTAGATATTGCTCATTTGAGCACT
* *
30516199 TTCAGTAGAATCAGTAGACATTACTCATTTGAGCACATTCAGTAGGATCAGTAGATATTGTCCGT
1 TTCAGTAGAATCAGTAGACATTACTCATTTGAGCACATTCAGTAGGATCAATAGATATTGTCAGT
*
30516264 TAAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGACAT
66 TAAGAACTTTCAGTAGAACCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGACAT
* *
30516329 TACTCGTTTGAGCACATTCAGTAGGATCATTAGATATTGCTCGTTGAGCATTTTCAGTGGTATTA
131 TACTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATCA
* * * * * * * *
30516394 GTAGATATTGTTTGTTTGAGAACTTTAAGTAGAATCAATAGACATTGCTCGTTTGAGCACATTTA
196 ATAGATATTGCTCGTTTGAGCAC-TTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACATTTA
* * * * * *
30516459 GTAGGATCAGTAGATATTGCTCGTTAAGCACTTTCAGTAGTATCAGTAGATATTGCTC-ATTGAG
260 GTAGGATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAG
* *
30516523 TAC-TTCAGTAGAATCA
325 CACTTTCACTAGAATCA
30516539 ATATTCAGGT
Statistics
Matches: 806, Mismatches: 75, Indels: 13
0.90 0.08 0.01
Matches are distributed among these distances:
544 20 0.02
545 636 0.79
546 96 0.12
547 26 0.03
549 28 0.03
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (545 bp):
TTCAGTAGAATCAGTAGACATTACTCATTTGAGCACATTCAGTAGGATCAATAGATATTGTCAGT
TAAGAACTTTCAGTAGAACCAGTAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGACAT
TACTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATCA
ATAGATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACATTTAG
TAGGATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGC
ACTTTCACTAGAATCAGCAGACATTACTCGTTTAAGTACATTCAATAGGACCAGTAAATATTGCT
CATTGAGCACTTTCAGTAGAACCAATAGATATTGCTCATTGACAACTTCAGTAGAATCAATAGAC
ATTTCTCGTTTAAGCACATTCAGTAGGATCAGAAGATATAACTCGTAGAGCACTTCAATAGAATT
AGTAGATATTGCTCATTTGAGCACT
Found at i:30518304 original size:19 final size:20
Alignment explanation
Indices: 30518282--30518320 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30518272 TTTAGTCATA
* *
30518282 TAAT-AATTTTTTATTATTT
1 TAATAAATTATTTAATATTT
30518301 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
30518321 CAATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Done.