Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 82 of 84
Found at i:17693535 original size:2 final size:2
Alignment explanation
Indices: 17693522--17693552 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
17693512 ATGCCTTAGC
*
17693522 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17693553 TGTTATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17698112 original size:24 final size:24
Alignment explanation
Indices: 17698080--17698130 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
17698070 TAATCGTCAT
17698080 TAGAACCTTGAGTGAAAAACAACA
1 TAGAACCTTGAGTGAAAAACAACA
*
17698104 TAGAACCTTGAGTGAAAAACAAGA
1 TAGAACCTTGAGTGAAAAACAACA
17698128 TAG
1 TAG
17698131 GGCATCACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.18
Consensus pattern (24 bp):
TAGAACCTTGAGTGAAAAACAACA
Found at i:17700360 original size:22 final size:22
Alignment explanation
Indices: 17700335--17700377 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17700325 GTCAATTCTC
17700335 TAAGACCTCCAGGCATAATTTT
1 TAAGACCTCCAGGCATAATTTT
**
17700357 TAAGACCTCTGGGCATAATTT
1 TAAGACCTCCAGGCATAATTT
17700378 CGATTCGCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (22 bp):
TAAGACCTCCAGGCATAATTTT
Found at i:17700451 original size:110 final size:110
Alignment explanation
Indices: 17700284--17700485 Score: 264
Period size: 110 Copynumber: 1.8 Consensus size: 110
17700274 CACGTGTTAA
* *
17700284 CCTGATTGATTCTTTATTTTTTGACTTACGATGTTGTCCCAGTCAATTCTCTAAGACCTCCAGG-
1 CCTGATCGATTCTTTATTTTTTGACTTACGATATTGTCCCAGTCAATTCTCTAAGACCT-CAGGA
* *
17700348 CATAATTTTTAAGACCTCTGGGCATAATTTCGATTCGCGGTATTGT
65 CATAATTTTTAAGACATCCGGGCATAATTTCGATTCGCGGTATTGT
* * * * * **
17700394 CCTGATCGATTCTTTATTTTTTTACTTGC-AGTATTGTCCCAGTTAATTTTGTAAGACCTTTGGA
1 CCTGATCGATTCTTTATTTTTTGACTTACGA-TATTGTCCCAGTCAATTCTCTAAGACCTCAGGA
*
17700458 CATGATTTTTAAGACATCCGGGCATAAT
65 CATAATTTTTAAGACATCCGGGCATAAT
17700486 CTTTAAAACC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
109 3 0.04
110 75 0.96
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (110 bp):
CCTGATCGATTCTTTATTTTTTGACTTACGATATTGTCCCAGTCAATTCTCTAAGACCTCAGGAC
ATAATTTTTAAGACATCCGGGCATAATTTCGATTCGCGGTATTGT
Found at i:17700490 original size:22 final size:22
Alignment explanation
Indices: 17700465--17700507 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17700455 GGACATGATT
*
17700465 TTTAAGACATCCGGGCATAATC
1 TTTAAAACATCCGGGCATAATC
* *
17700487 TTTAAAACCTCTGGGCATAAT
1 TTTAAAACATCCGGGCATAAT
17700508 TTGGATTCGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (22 bp):
TTTAAAACATCCGGGCATAATC
Found at i:17700840 original size:93 final size:94
Alignment explanation
Indices: 17700675--17700912 Score: 280
Period size: 93 Copynumber: 2.5 Consensus size: 94
17700665 GAGCATGATT
* * * * * * ** *
17700675 TTTAAGACCTCTGAGCATAATTTCGATTCACGATATTGTCCCGATTGATTCTATAAGATCTTCGA
1 TTTAAGACCTCTGGGCATAATTTCGA-TCGCAATGTTCTCCCAATCAATTCTATAAGACCTTCGA
*
17700740 GCATGATTTCTAGGACATTCAGGCATAATC
65 GCATGATTTCTAAGACATTCAGGCATAATC
* * * * *
17700770 TTTAAGACCTTTGGGCATAATTTTGAT-GCGATGTTCTCCCAATCAATTCTATAAGACCTTTGGG
1 TTTAAGACCTCTGGGCATAATTTCGATCGCAATGTTCTCCCAATCAATTCTATAAGACCTTCGAG
* * **
17700834 CATGATTTTTAAGACCTTTGGGCATAATC
66 CATGATTTCTAAGACATTCAGGCATAATC
*
17700863 TTTAAGACCTCTGGGCATAATTTCGATCGCAATGTTGTCCCAATCAATTC
1 TTTAAGACCTCTGGGCATAATTTCGATCGCAATGTTCTCCCAATCAATTC
17700913 CTTATTTTTT
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
93 77 0.64
94 21 0.17
95 23 0.19
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (94 bp):
TTTAAGACCTCTGGGCATAATTTCGATCGCAATGTTCTCCCAATCAATTCTATAAGACCTTCGAG
CATGATTTCTAAGACATTCAGGCATAATC
Found at i:17700849 original size:22 final size:22
Alignment explanation
Indices: 17700821--17700885 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
17700811 ATCAATTCTA
*
17700821 TAAGACCTTTGGGCATGATTTT
1 TAAGACCTTTGGGCATAATTTT
*
17700843 TAAGACCTTTGGGCATAATCTT
1 TAAGACCTTTGGGCATAATTTT
*
17700865 TAAGACCTCTGGGCATAATTT
1 TAAGACCTTTGGGCATAATTT
17700886 CGATCGCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (22 bp):
TAAGACCTTTGGGCATAATTTT
Found at i:17700941 original size:37 final size:37
Alignment explanation
Indices: 17700891--17700995 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
17700881 AATTTCGATC
* * *
17700891 GCAATGTTGTCCCAATCAATTCCTTATTTTTTAACTT
1 GCAATGTTATCCCAATCAATTCTTTATTTCTTAACTT
* *
17700928 GCAATGTTATCCCAATTAATTCTTTATTCCTTAACTT
1 GCAATGTTATCCCAATCAATTCTTTATTTCTTAACTT
*** * *
17700965 GTGCTGTTATCCAAATCGATTCTTTATTTCT
1 GCAATGTTATCCCAATCAATTCTTTATTTCT
17700996 CGACTCGCGG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.47
Consensus pattern (37 bp):
GCAATGTTATCCCAATCAATTCTTTATTTCTTAACTT
Found at i:17701314 original size:20 final size:21
Alignment explanation
Indices: 17701280--17701318 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17701270 GTTTAATATT
17701280 AAAATAAAAAGGAAAAAAAAG
1 AAAATAAAAAGGAAAAAAAAG
17701301 AAAATAAAAA-GAAAAAAA
1 AAAATAAAAAGGAAAAAAA
17701319 TAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAATAAAAAGGAAAAAAAAG
Found at i:17702654 original size:3 final size:3
Alignment explanation
Indices: 17702648--17702705 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
17702638 ATGTTGTTCT
* *
17702648 ATA ATA ATTA ATA ATA ATA ACA ATA ATA A-A CAAA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
17702694 ATA ATA ATA ATA
1 ATA ATA ATA ATA
17702706 TAAAAATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
2 1 0.02
3 44 0.90
4 4 0.08
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:17702855 original size:3 final size:3
Alignment explanation
Indices: 17702821--17702894 Score: 79
Period size: 3 Copynumber: 26.3 Consensus size: 3
17702811 TTGGAGAATT
17702821 ATA A-A ATA A-A ATA A-A ATA A-A ATA A-A CATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* *
17702862 ATA AT- TTA ACA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17702895 ATTTTCATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
2 10 0.17
3 49 0.82
4 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:17702892 original size:26 final size:26
Alignment explanation
Indices: 17702817--17702892 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
17702807 GATGTTGGAG
17702817 AATTATAA-AATAA-AATAA-AATAA-
1 AATT-TAACAATAATAATAATAATAAT
*
17702840 AA-TAAAC-ATAATAATAATAATAAT
1 AATTTAACAATAATAATAATAATAAT
17702864 AATTTAACAATAATAATAATAATAAT
1 AATTTAACAATAATAATAATAATAAT
17702890 AAT
1 AAT
17702893 AAATTTTCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
21 6 0.13
22 6 0.13
23 7 0.16
24 2 0.04
25 4 0.09
26 20 0.44
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (26 bp):
AATTTAACAATAATAATAATAATAAT
Found at i:17703078 original size:14 final size:14
Alignment explanation
Indices: 17703025--17703080 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
17703015 GGAAAATTAA
*
17703025 AAAATTCAAACCCT
1 AAAATTAAAACCCT
* *
17703039 AAATTTCACAACCCT
1 AAAATT-AAAACCCT
* *
17703054 AAAACTGAAACCCT
1 AAAATTAAAACCCT
17703068 AAAATTAAAACCC
1 AAAATTAAAACCC
17703081 CAAACCTCCA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAATTAAAACCCT
Found at i:17703135 original size:43 final size:42
Alignment explanation
Indices: 17703061--17703148 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
17703051 CCTAAAACTG
* *
17703061 AAACCCTAAAATTAAAACCCCAAACCTCCAAATCTTAAAATT
1 AAACCCTAAAATCAAAACCCCAAACCTCCAAATCATAAAATT
* * * *
17703103 AAACCCTAAAATCCAAATCCTAAATCTTCCAAATCATAAAATT
1 AAACCCTAAAATCAAAACCCCAAA-CCTCCAAATCATAAAATT
17703146 AAA
1 AAA
17703149 ACCTTAAACC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 20 0.51
43 19 0.49
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (42 bp):
AAACCCTAAAATCAAAACCCCAAACCTCCAAATCATAAAATT
Found at i:17703198 original size:13 final size:13
Alignment explanation
Indices: 17703154--17703204 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
17703144 TTAAAACCTT
17703154 AAACCCTAAAATCA
1 AAACCCT-AAATCA
* *
17703168 AAAACCT-AATCCCC
1 AAACCCTAAAT--CA
17703182 AAACCCTAAATCA
1 AAACCCTAAATCA
17703195 AAACCCTAAA
1 AAACCCTAAA
17703205 CTTTCCAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
12 3 0.10
13 11 0.37
14 13 0.43
15 3 0.10
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.14
Consensus pattern (13 bp):
AAACCCTAAATCA
Found at i:17703268 original size:15 final size:15
Alignment explanation
Indices: 17703250--17703280 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17703240 GAAATTCAAA
17703250 CCAAAACCCCAAAAT
1 CCAAAACCCCAAAAT
*
17703265 CCAAAACTCCAAAAT
1 CCAAAACCCCAAAAT
17703280 C
1 C
17703281 TTGAAACTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.39, G:0.00, T:0.10
Consensus pattern (15 bp):
CCAAAACCCCAAAAT
Found at i:17709870 original size:41 final size:41
Alignment explanation
Indices: 17709824--17709905 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
17709814 ATGTTATTAA
17709824 TTGTTTTTTCCTTTCCTGATTCCCAGGCAATCTTAATTTCC
1 TTGTTTTTTCCTTTCCTGATTCCCAGGCAATCTTAATTTCC
*
17709865 TTGTTTTTTCCTTTCCTGATTCCCAGGCACTCTTAATTTCC
1 TTGTTTTTTCCTTTCCTGATTCCCAGGCAATCTTAATTTCC
17709906 CTTTCCCAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.13, C:0.28, G:0.10, T:0.49
Consensus pattern (41 bp):
TTGTTTTTTCCTTTCCTGATTCCCAGGCAATCTTAATTTCC
Found at i:17710380 original size:48 final size:48
Alignment explanation
Indices: 17710324--17710423 Score: 139
Period size: 48 Copynumber: 2.1 Consensus size: 48
17710314 ATGCTAATTC
* *
17710324 AAGCTCACTTGAACTCCATCATGTTC-AGCTAAAGAGAAGTTTTAATCA
1 AAGCTCACTTGAACTCCAACATGTTCGA-CTAAAGAAAAGTTTTAATCA
* * *
17710372 AAGCTCACTTGGACTGCAACATGTTCGACTAAAGAAAAGTTTTAATTA
1 AAGCTCACTTGAACTCCAACATGTTCGACTAAAGAAAAGTTTTAATCA
17710420 AAGC
1 AAGC
17710424 ATGATTATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 45 0.98
49 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (48 bp):
AAGCTCACTTGAACTCCAACATGTTCGACTAAAGAAAAGTTTTAATCA
Found at i:17710703 original size:14 final size:14
Alignment explanation
Indices: 17710684--17710716 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
17710674 TTTATCTATT
17710684 TGGATTTCAAGAAA
1 TGGATTTCAAGAAA
17710698 TGGATTTCAAGAAA
1 TGGATTTCAAGAAA
17710712 TGGAT
1 TGGAT
17710717 AAAAAATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (14 bp):
TGGATTTCAAGAAA
Found at i:17710969 original size:7 final size:7
Alignment explanation
Indices: 17710959--17710984 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17710949 TCTCATTTAG
17710959 TTCTTAA
1 TTCTTAA
17710966 TTCTTAA
1 TTCTTAA
17710973 TTCTTAA
1 TTCTTAA
17710980 TTCTT
1 TTCTT
17710985 TTAGTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (7 bp):
TTCTTAA
Found at i:17714997 original size:39 final size:38
Alignment explanation
Indices: 17714878--17714997 Score: 93
Period size: 39 Copynumber: 3.1 Consensus size: 38
17714868 TTGAAACCTC
**
17714878 AACAGTAACTTCATTAAGCACATTAACTTCATCTATGTT
1 AACAGTAACTTCATTAAGCACATTAACTTCATC-ACATT
* * * ** *
17714917 TAC-TTCAACTTCATTAAATC-CATTAATCCTT-AAAACCTT
1 AACAGT-AACTTCATT-AAGCACATTAA--CTTCATCACATT
17714956 AACAGTAACTTCATTAAGCACATTAACTTCATTCACATT
1 AACAGTAACTTCATTAAGCACATTAACTTCA-TCACATT
17714995 AAC
1 AAC
17714998 TTCCCCTCCA
Statistics
Matches: 60, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
37 3 0.05
38 5 0.08
39 44 0.73
40 5 0.08
41 3 0.05
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (38 bp):
AACAGTAACTTCATTAAGCACATTAACTTCATCACATT
Found at i:17715000 original size:78 final size:78
Alignment explanation
Indices: 17714871--17715015 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 78
17714861 AATCCATTTG
** * *
17714871 AAACCTCAACAGTAACTTCATTAAGCACATTAACTTCATCTATGTTTACTTCAACTTCATTAAAT
1 AAACCTCAACAGTAACTTCATTAAGCACATTAACTTCATCTACATTAACTTCAACTCCATTAAAT
17714936 CCATTAATCCTTA
66 CCATTAATCCTTA
* **
17714949 AAACCTTAACAGTAACTTCATTAAGCACATTAACTTCAT-TCACATTAACTTCCCCTCCATTAAA
1 AAACCTCAACAGTAACTTCATTAAGCACATTAACTTCATCT-ACATTAACTTCAACTCCATTAAA
17715013 TCC
65 TCC
17715016 CTCAACAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 1 0.02
78 58 0.98
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (78 bp):
AAACCTCAACAGTAACTTCATTAAGCACATTAACTTCATCTACATTAACTTCAACTCCATTAAAT
CCATTAATCCTTA
Found at i:17724138 original size:14 final size:15
Alignment explanation
Indices: 17724119--17724152 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
17724109 TCAAGGCTTG
17724119 TAAAACAAAA-AAAA
1 TAAAACAAAACAAAA
17724133 TAAAACAAAACAAAA
1 TAAAACAAAACAAAA
17724148 -AAAAC
1 TAAAAC
17724153 TCGTCCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (15 bp):
TAAAACAAAACAAAA
Found at i:17725535 original size:18 final size:18
Alignment explanation
Indices: 17725434--17725535 Score: 52
Period size: 18 Copynumber: 5.7 Consensus size: 18
17725424 TGTTCTTGAA
*
17725434 ACATTTAAGGTGGAAGAT
1 ACATTTGAGGTGGAAGAT
* *
17725452 ATATTTGA---GGATGAT
1 ACATTTGAGGTGGAAGAT
* **
17725467 ATATTTGTA-GTGGGGGAT
1 ACATTTG-AGGTGGAAGAT
* *
17725485 ACATTTGTGGT-AAATGAT
1 ACATTTGAGGTGGAA-GAT
17725503 ACATTTGAGGAGGTGGAAGAT
1 ACATTT---GAGGTGGAAGAT
17725524 ACATTTGAGGTG
1 ACATTTGAGGTG
17725536 AATAATAACC
Statistics
Matches: 63, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
15 13 0.21
16 1 0.02
18 34 0.54
21 13 0.21
22 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.33
Consensus pattern (18 bp):
ACATTTGAGGTGGAAGAT
Found at i:17727964 original size:16 final size:16
Alignment explanation
Indices: 17727925--17727964 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
17727915 ACCTCATAAG
*
17727925 ATGTTGGAAGTTTTAC
1 ATGTTGGCAGTTTTAC
17727941 ATGTTGGCAGTTTTAC
1 ATGTTGGCAGTTTTAC
17727957 ATGTTGGC
1 ATGTTGGC
17727965 CAACTTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (16 bp):
ATGTTGGCAGTTTTAC
Found at i:17727974 original size:18 final size:16
Alignment explanation
Indices: 17727925--17727974 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
17727915 ACCTCATAAG
* *
17727925 ATGTTGGAAGTTTTAC
1 ATGTTGGCACTTTTAC
*
17727941 ATGTTGGCAGTTTTAC
1 ATGTTGGCACTTTTAC
17727957 ATGTTGGCCAACTTTTAC
1 ATGTTGG-C-ACTTTTAC
17727975 TGCCACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 22 0.73
17 1 0.03
18 7 0.23
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (16 bp):
ATGTTGGCACTTTTAC
Found at i:17729599 original size:20 final size:19
Alignment explanation
Indices: 17729566--17729604 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
17729556 AAAAGAATTG
* *
17729566 ACAACAATATAAATATCAAA
1 ACAACAAAAAAAAT-TCAAA
17729586 ACAACAAAAAAAATTCAAA
1 ACAACAAAAAAAATTCAAA
17729605 TTCAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (19 bp):
ACAACAAAAAAAATTCAAA
Found at i:17729894 original size:20 final size:20
Alignment explanation
Indices: 17729863--17729952 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 20
17729853 CCTCAATACC
*
17729863 CCACCACACCCAATCCCTTT
1 CCACCCCACCCAATCCCTTT
* * *
17729883 CCACCCCCCCCAA--AC-GT
1 CCACCCCACCCAATCCCTTT
* * *
17729900 CCTACCACACCCTATCCCTTC
1 CC-ACCCCACCCAATCCCTTT
17729921 CCACCCCACCCAATCCCTTT
1 CCACCCCACCCAATCCCTTT
*
17729941 CTACCCC-CCCAA
1 CCACCCCACCCAA
17729953 CACCCCACTA
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
17 3 0.06
18 9 0.17
19 5 0.10
20 33 0.63
21 2 0.04
ACGTcount: A:0.22, C:0.60, G:0.01, T:0.17
Consensus pattern (20 bp):
CCACCCCACCCAATCCCTTT
Found at i:17730136 original size:16 final size:15
Alignment explanation
Indices: 17730107--17730138 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17730097 CTTTTCAGAA
17730107 TTTTTTTTTCTCTCT
1 TTTTTTTTTCTCTCT
17730122 TTTTTTTTTCATCTCT
1 TTTTTTTTTC-TCTCT
17730138 T
1 T
17730139 ATTTCTCTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTCTCTCT
Found at i:17731319 original size:6 final size:6
Alignment explanation
Indices: 17731238--17731318 Score: 67
Period size: 6 Copynumber: 13.8 Consensus size: 6
17731228 ACTTTGACCA
* * * *
17731238 AAAAT- AAAAT- AAAATC AAAATC AAAATT AACATT AAAATC CAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
* * * * *
17731284 CAAATC CAAATC AAAATT ACAATC AAAATT AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
17731319 TTTTGGACTT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
5 10 0.16
6 54 0.84
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAATC
Found at i:17731648 original size:38 final size:38
Alignment explanation
Indices: 17731606--17731725 Score: 170
Period size: 38 Copynumber: 3.2 Consensus size: 38
17731596 TCCATCATTG
17731606 AGGCTTGAAACTTTAAATAAAATACTCTCCCACAACTA
1 AGGCTTGAAACTTTAAATAAAATACTCTCCCACAACTA
* *
17731644 AGGCTTGAAACTTTAAATAAATTACTCCCCCACAACTA
1 AGGCTTGAAACTTTAAATAAAATACTCTCCCACAACTA
* * * *
17731682 AGACTTGAAACTTTAAATGAAATGCTGCT-CCACAATTA
1 AGGCTTGAAACTTTAAATAAAATACT-CTCCCACAACTA
17731720 AGGCTT
1 AGGCTT
17731726 ACTACTTTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 71 0.99
39 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.28
Consensus pattern (38 bp):
AGGCTTGAAACTTTAAATAAAATACTCTCCCACAACTA
Found at i:17731841 original size:22 final size:22
Alignment explanation
Indices: 17731792--17731855 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
17731782 GAAATTTTAG
* * *
17731792 AGATCATGTTTGAAGGTTTTGA
1 AGATTATGCTTGAAGGTTTTCA
*
17731814 AAATTATGCTTGAAGGTTTTCA
1 AGATTATGCTTGAAGGTTTTCA
* *
17731836 AGATTATACTTGGAGGTTTT
1 AGATTATGCTTGAAGGTTTT
17731856 ATAAATTATG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.42
Consensus pattern (22 bp):
AGATTATGCTTGAAGGTTTTCA
Found at i:17731863 original size:22 final size:21
Alignment explanation
Indices: 17731805--17731931 Score: 76
Period size: 22 Copynumber: 5.8 Consensus size: 21
17731795 TCATGTTTGA
* *
17731805 AGGTTTTGAAAATTATGCTTGA
1 AGGTTTT-AAAATTATACTTGG
*
17731827 AGGTTTTCAAGATTATACTTGG
1 AGGTTTT-AAAATTATACTTGG
* **
17731849 AGGTTTTATAAATTATGCCCGG
1 AGGTTTTA-AAATTATACTTGG
* * *
17731871 AGATCTTGAAGATTATA-TCTGG
1 AGGT-TTTAAAATTATACT-TGG
* *
17731893 AGGTCTTAAAAATCATACTTGG
1 AGGT-TTTAAAATTATACTTGG
*
17731915 AGGTTTTCAAGATTATA
1 AGGTTTT-AAAATTATA
17731932 TCCGAAAGTC
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
21 3 0.04
22 72 0.91
23 4 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (21 bp):
AGGTTTTAAAATTATACTTGG
Found at i:17731927 original size:44 final size:44
Alignment explanation
Indices: 17731813--17731962 Score: 149
Period size: 44 Copynumber: 3.4 Consensus size: 44
17731803 GAAGGTTTTG
* * *
17731813 AAAATTATGCTTGAAGGTTTTCAAGATTATA-CTTGGAGGTTTTA
1 AAAATCATGCTTGGAGGTTTTCAAGATTATATC-TGGAGGTCTTA
* * ** * * *
17731857 TAAATTATGCCCGGAGATCTTGAAGATTATATCTGGAGGTCTTA
1 AAAATCATGCTTGGAGGTTTTCAAGATTATATCTGGAGGTCTTA
* * * *
17731901 AAAATCATACTTGGAGGTTTTCAAGATTATATCCGAAAGTCTTA
1 AAAATCATGCTTGGAGGTTTTCAAGATTATATCTGGAGGTCTTA
*
17731945 CAAATCATGCTTGGAGGT
1 AAAATCATGCTTGGAGGT
17731963 GTTGGAGATC
Statistics
Matches: 84, Mismatches: 21, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
44 83 0.99
45 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (44 bp):
AAAATCATGCTTGGAGGTTTTCAAGATTATATCTGGAGGTCTTA
Found at i:17732272 original size:9 final size:9
Alignment explanation
Indices: 17732236--17732296 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
17732226 TAGACATGTA
17732236 TAATGAATG
1 TAATGAATG
17732245 TAGAATGCAATG
1 T--AATG-AATG
*
17732257 -CATGAATG
1 TAATGAATG
17732265 TAATGAATG
1 TAATGAATG
* *
17732274 CAATGAATA
1 TAATGAATG
*
17732283 TAGTGAATG
1 TAATGAATG
17732292 TAATG
1 TAATG
17732297 CAAAAGATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
8 4 0.10
9 28 0.70
11 4 0.10
12 4 0.10
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.30
Consensus pattern (9 bp):
TAATGAATG
Found at i:17732275 original size:22 final size:20
Alignment explanation
Indices: 17732238--17732278 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
17732228 GACATGTATA
17732238 ATGAATGTAGAATGCAATGC
1 ATGAATGTAGAATGCAATGC
17732258 ATGAATGTAATGAATGCAATG
1 ATGAATGT-A-GAATGCAATG
17732279 AATATAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.27
Consensus pattern (20 bp):
ATGAATGTAGAATGCAATGC
Found at i:17732279 original size:18 final size:18
Alignment explanation
Indices: 17732237--17732296 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
17732227 AGACATGTAT
17732237 AATGAATGTAGAATGCAATGC
1 AATGAATGT--AATG-AATGC
17732258 -ATGAATGTAATGAATGC
1 AATGAATGTAATGAATGC
* * *
17732275 AATGAATATAGTGAATGT
1 AATGAATGTAATGAATGC
17732293 AATG
1 AATG
17732297 CAAAAGATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 5 0.14
18 22 0.63
20 8 0.23
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.28
Consensus pattern (18 bp):
AATGAATGTAATGAATGC
Found at i:17732364 original size:18 final size:18
Alignment explanation
Indices: 17732343--17732403 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
17732333 CAAAGGTTCT
17732343 AAGATTCTTAAAGATTCC
1 AAGATTCTTAAAGATTCC
** *
17732361 AAGATTCGCAAAGATCCC
1 AAGATTCTTAAAGATTCC
*
17732379 AAGATTCTTAAAGATTCT
1 AAGATTCTTAAAGATTCC
17732397 AAGATTC
1 AAGATTC
17732404 ACGAAGGTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (18 bp):
AAGATTCTTAAAGATTCC
Found at i:17732416 original size:18 final size:18
Alignment explanation
Indices: 17732394--17732438 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
17732384 TCTTAAAGAT
*
17732394 TCTAAGATTCACGAAGG-
1 TCTAAGATTCACAAAGGC
17732411 TGCTAA-ATTCACAAAGGC
1 T-CTAAGATTCACAAAGGC
17732429 TCTAAGATTC
1 TCTAAGATTC
17732439 TAAAGGATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (18 bp):
TCTAAGATTCACAAAGGC
Found at i:17732525 original size:18 final size:18
Alignment explanation
Indices: 17732504--17732596 Score: 71
Period size: 18 Copynumber: 5.2 Consensus size: 18
17732494 AGGCTCCCAA
*
17732504 ATTCACAAAATTTTCAAG
1 ATTCACAAAAGTTTCAAG
*
17732522 ATTCACAAAAGTTCCAAG
1 ATTCACAAAAGTTTCAAG
** * *
17732540 ATTTTCAAAGGTTCCAAG
1 ATTCACAAAAGTTTCAAG
** * *
17732558 ATTCGTAAAAATTTTAAG
1 ATTCACAAAAGTTTCAAG
*
17732576 ATTCA-TAAAGATTTCAAG
1 ATTCACAAAAG-TTTCAAG
17732594 ATT
1 ATT
17732597 TTCAAACATT
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
17 3 0.05
18 55 0.95
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (18 bp):
ATTCACAAAAGTTTCAAG
Found at i:17732550 original size:54 final size:53
Alignment explanation
Indices: 17732491--17732602 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 53
17732481 TCCAGATTCA
17732491 CAAAGGCTCCCAA-ATTC-ACAAAATTTTCAAGATTCACAAAAG-TTCCAAGATTTT
1 CAAAGG-TCCCAAGATTCGA-AAAATTTT-AAGATTCA-AAAAGATTCCAAGATTTT
* * *
17732545 CAAAGGTTCCAAGATTCGTAAAAATTTTAAGATTCATAAAGATTTCAAGATTTT
1 CAAAGGTCCCAAGATTCG-AAAAATTTTAAGATTCAAAAAGATTCCAAGATTTT
17732599 CAAA
1 CAAA
17732603 CATTCTTAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
53 9 0.18
54 33 0.65
55 8 0.16
56 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (53 bp):
CAAAGGTCCCAAGATTCGAAAAATTTTAAGATTCAAAAAGATTCCAAGATTTT
Found at i:17732731 original size:44 final size:45
Alignment explanation
Indices: 17732647--17732732 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
17732637 CATTTGAAAA
* * ** *
17732647 TCTTATTTGAAAAATTTTAGAGATTCACATTTAAGGTTCAAAGGT
1 TCTTATTTGAAAAACTTTAGAAATTCACATCCAAGATTCAAAGGT
17732692 TCTTATTTG-AAAACTTTAGAAATTCACATCCAAGATTCAAA
1 TCTTATTTGAAAAACTTTAGAAATTCACATCCAAGATTCAAA
17732733 TATTCACATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 27 0.75
45 9 0.25
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (45 bp):
TCTTATTTGAAAAACTTTAGAAATTCACATCCAAGATTCAAAGGT
Found at i:17732828 original size:38 final size:36
Alignment explanation
Indices: 17732786--17732868 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 36
17732776 TCTCATAAAA
** *
17732786 AAAATTCAAAGATTTGCATTTGAAAAGATTTCACATCC
1 AAAATTCAAAGATTCACATTTGAAAAG-TTT-AAATCC
* *
17732824 AAAATTCAAATATTCACATTTGAAAAGTTTAAATCT
1 AAAATTCAAAGATTCACATTTGAAAAGTTTAAATCC
17732860 AAAATTCAA
1 AAAATTCAA
17732869 TGGTTCAAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 13 0.32
37 3 0.08
38 24 0.60
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (36 bp):
AAAATTCAAAGATTCACATTTGAAAAGTTTAAATCC
Found at i:17733399 original size:71 final size:71
Alignment explanation
Indices: 17733274--17733579 Score: 389
Period size: 71 Copynumber: 4.3 Consensus size: 71
17733264 GTTCCAACTG
* * * * * ** * *
17733274 TGATGCAAATGCAATATT-TAAACAATGGTTTAAATGGTCACCAAATGCTGCAAATGCATGGTAT
1 TGATACAAATGCAATATTCAAAATAATGATTTAAGTACTCACCAAATGATGCAAATGCATGGAAT
*
17733338 AAATAA
66 AAACAA
* * * *
17733344 TGATACAAATGCAATATTCAAAAGAATGATTTAAGTACTCACCAAATGATGCAAATGTATGGTAC
1 TGATACAAATGCAATATTCAAAATAATGATTTAAGTACTCACCAAATGATGCAAATGCATGGAAT
17733409 AAACAA
66 AAACAA
* * * * * *
17733415 TGATATAACTACAATATTCAAAATAATGATTTAAGTACTCTCCAAATGATGTAGATGCATGGAAT
1 TGATACAAATGCAATATTCAAAATAATGATTTAAGTACTCACCAAATGATGCAAATGCATGGAAT
17733480 AAACAA
66 AAACAA
*
17733486 TGATACAAATGCAATATTCAAAATAATGATTTAAGTACTCACCAAATGATGCAGATGCATGGAAT
1 TGATACAAATGCAATATTCAAAATAATGATTTAAGTACTCACCAAATGATGCAAATGCATGGAAT
*
17733551 AAACAG
66 AAACAA
* *
17733557 TGATATAAATACAATATTCAAAA
1 TGATACAAATGCAATATTCAAAA
17733580 CAATTATCAA
Statistics
Matches: 206, Mismatches: 29, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
70 17 0.08
71 189 0.92
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.27
Consensus pattern (71 bp):
TGATACAAATGCAATATTCAAAATAATGATTTAAGTACTCACCAAATGATGCAAATGCATGGAAT
AAACAA
Found at i:17734664 original size:10 final size:10
Alignment explanation
Indices: 17734649--17734731 Score: 77
Period size: 10 Copynumber: 8.5 Consensus size: 10
17734639 ACATTTTCCA
17734649 TCTTTTTTTT
1 TCTTTTTTTT
17734659 AT-TTTTTCTTT
1 -TCTTTTT-TTT
17734670 TC-TTTTTTT
1 TCTTTTTTTT
17734679 TCTTTTTTTT
1 TCTTTTTTTT
17734689 TC-TTTTTTT
1 TCTTTTTTTT
*
17734698 TCTTTCCTTTT
1 TCTTT-TTTTT
*
17734709 TC--CTTTTT
1 TCTTTTTTTT
*
17734717 CCTTTTTTTT
1 TCTTTTTTTT
17734727 TCTTT
1 TCTTT
17734732 CATTTTTCCA
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
8 5 0.08
9 14 0.24
10 30 0.51
11 10 0.17
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:17734674 original size:21 final size:19
Alignment explanation
Indices: 17734649--17734731 Score: 96
Period size: 19 Copynumber: 4.3 Consensus size: 19
17734639 ACATTTTCCA
*
17734649 TCTTTTTTTTATTTTTTCTTT
1 TCTTTTTTTT-CTTTTT-TTT
17734670 TCTTTTTTTTCTTTTTTTT
1 TCTTTTTTTTCTTTTTTTT
*
17734689 TCTTTTTTTTCTTTCCTTTT
1 TCTTTTTTTTCTTT-TTTTT
* *
17734709 TC-CTTTTTCCTTTTTTTT
1 TCTTTTTTTTCTTTTTTTT
17734727 TCTTT
1 TCTTT
17734732 CATTTTTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.11
19 27 0.50
20 11 0.20
21 10 0.19
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (19 bp):
TCTTTTTTTTCTTTTTTTT
Found at i:17734677 original size:14 final size:14
Alignment explanation
Indices: 17734660--17734731 Score: 65
Period size: 14 Copynumber: 4.7 Consensus size: 14
17734650 CTTTTTTTTA
17734660 TTTTTTCTTTTCTT
1 TTTTTTCTTTTCTT
17734674 TTTTTTCTTTT-TT
1 TTTTTTCTTTTCTT
*
17734687 TTTCTTTTTTTTCTT
1 TTT-TTTCTTTTCTT
17734702 TCCTTTTTCCTTTTTCCTTT
1 T--TTTTT-C-TTTT-C-TT
17734722 TTTTTTCTTT
1 TTTTTTCTTT
17734732 CATTTTTCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
13 5 0.10
14 18 0.38
15 3 0.06
16 6 0.12
17 3 0.06
18 9 0.19
19 1 0.02
20 3 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTCTTTTCTT
Found at i:17734716 original size:1 final size:1
Alignment explanation
Indices: 17734651--17734698 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
17734641 ATTTTCCATC
* * * * *
17734651 TTTTTTTTATTTTTTCTTTTCTTTTTTTTCTTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17734699 CTTTCCTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.02, C:0.08, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:17736161 original size:138 final size:136
Alignment explanation
Indices: 17735957--17736377 Score: 396
Period size: 138 Copynumber: 3.1 Consensus size: 136
17735947 CATACAAAAT
* * * * * *
17735957 TGTTTACTTGGATAAGGAAATGCATATGCAAATATATGTATGCAATACATGGTACAAACAAAAAT
1 TGTTTACATGGATAA--AAGTGTATATGCAAGTA-ATGTATGCAATACATAGTA-AAACAAGAAT
* * *
17736022 TCATATTCA-AATCTATGTACAAAACTAAAAAGTGAAAGATTTTCCCAAGCAAATAAAATAATGT
62 TCATATTCACAATCTATGTACAAAACTAAAAAG-CAAAGATTGTCCCAAACAAATAAAATAATGT
*
17736086 ACACACGAAGA
126 ACACACAAAGA
*
17736097 TGTTTACATGGATAAAAGTGTATATGCAAGTACATGTATGCAATGCATAGTAAAAGCAAGAATTC
1 TGTTTACATGGATAAAAGTGTATATGCAAGTA-ATGTATGCAATACATAGTAAAA-CAAGAATTC
* * * * * *
17736162 GTATTCACAA-CTATGTATAAAACTGAAAAGACAAAGATTGCCCCTAAAACAAATTAAATAATAT
64 ATATTCACAATCTATGTACAAAACTAAAAAG-CAAAGATTGTCCC--AAACAAATAAAATAATGT
* *
17736226 ACATACAAAAATA
126 AC--ACACAAAGA
* * *
17736239 TGTTTACATGGAT-AAAGATGTATATACAAGT-A--TAT--AATACATA--ATAACAAGAATTTA
1 TGTTTACATGGATAAAAG-TGTATATGCAAGTAATGTATGCAATACATAGTAAAACAAGAATTCA
* *
17736296 TATTCACAAT-TATATACAAAACTAAAAAAGCAAAGATTGTCCCAAACAAATGAAATAATGTACA
65 TATTCACAATCTATGTACAAAACT-AAAAAGCAAAGATTGTCCCAAACAAATAAAATAATGTACA
*
17736360 TACAAAGA
129 CACAAAGA
* *
17736368 TATTTGCATG
1 TGTTTACATG
17736378 AATGCAAATA
Statistics
Matches: 235, Mismatches: 37, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
129 14 0.06
131 18 0.08
133 40 0.17
134 8 0.03
136 7 0.03
137 3 0.01
138 76 0.32
139 2 0.01
140 32 0.14
141 4 0.02
142 31 0.13
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.27
Consensus pattern (136 bp):
TGTTTACATGGATAAAAGTGTATATGCAAGTAATGTATGCAATACATAGTAAAACAAGAATTCAT
ATTCACAATCTATGTACAAAACTAAAAAGCAAAGATTGTCCCAAACAAATAAAATAATGTACACA
CAAAGA
Found at i:17737557 original size:27 final size:26
Alignment explanation
Indices: 17737527--17737577 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
17737517 AACATGCAAC
*
17737527 ATTATAAATAAAAATCATGCCAAAAAT
1 ATTA-AAATAAAAATCATACCAAAAAT
*
17737554 ATTACAATAAAAATCATACCAAAA
1 ATTAAAATAAAAATCATACCAAAA
17737578 TCATGGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.24
Consensus pattern (26 bp):
ATTAAAATAAAAATCATACCAAAAAT
Found at i:17738799 original size:14 final size:14
Alignment explanation
Indices: 17738761--17738799 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
17738751 ATTGGCAGAG
17738761 GAGAAAGAGAAAAA
1 GAGAAAGAGAAAAA
*
17738775 AAG-AAGAAGAAAAA
1 GAGAAAG-AGAAAAA
17738789 GAGAAAGAGAA
1 GAGAAAGAGAA
17738800 TAAGTAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
13 3 0.14
14 15 0.71
15 3 0.14
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
GAGAAAGAGAAAAA
Found at i:17738989 original size:27 final size:26
Alignment explanation
Indices: 17738952--17739012 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
17738942 TTTTGACTGG
*
17738952 AAAGAGAAAGAACAAGAAAGGAAGGAAA
1 AAAGA-AAAGAACAAG-AAGAAAGGAAA
**
17738980 AAAGAAAAGAATGAGAAGAAAGGAAA
1 AAAGAAAAGAACAAGAAGAAAGGAAA
17739006 AAA-AAAA
1 AAAGAAAA
17739013 CCCAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 13 0.43
27 8 0.27
28 5 0.17
ACGTcount: A:0.72, C:0.02, G:0.25, T:0.02
Consensus pattern (26 bp):
AAAGAAAAGAACAAGAAGAAAGGAAA
Found at i:17739437 original size:13 final size:13
Alignment explanation
Indices: 17739419--17739443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17739409 TAATTTCATA
17739419 TTTTAAAATGATT
1 TTTTAAAATGATT
17739432 TTTTAAAATGAT
1 TTTTAAAATGAT
17739444 ATGATATCTT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TTTTAAAATGATT
Found at i:17740920 original size:3 final size:3
Alignment explanation
Indices: 17740912--17740969 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
17740902 AAATAAAATG
17740912 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17740960 TAA TAA TAA T
1 TAA TAA TAA T
17740970 GTTCTACATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:17742109 original size:38 final size:38
Alignment explanation
Indices: 17742040--17742116 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
17742030 TAATATATAG
* *
17742040 TACATGTATTCCATTTCATATCCATCTTAATGA-AGTGT
1 TACATGTATTCCATCTCATAT-CATCATAATGATAGTGT
17742078 TACATGTATTCCATCTCATGCAT-ATCATAATGATAGTGT
1 TACATGTATTCCATCTCAT--ATCATCATAATGATAGTGT
17742117 CAATTTCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 27 0.79
39 5 0.15
40 2 0.06
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (38 bp):
TACATGTATTCCATCTCATATCATCATAATGATAGTGT
Found at i:17742474 original size:14 final size:13
Alignment explanation
Indices: 17742455--17742515 Score: 61
Period size: 14 Copynumber: 4.6 Consensus size: 13
17742445 CTGTTGTTCT
17742455 AAGAAAAAAAGAGA
1 AAGAAAAAAA-AGA
*
17742469 AAGAAAAAGAAGA
1 AAGAAAAAAAAGA
*
17742482 AA-AAAGAAAAGA
1 AAGAAAAAAAAGA
*
17742494 AATAAAGAAAAAGA
1 AAGAAA-AAAAAGA
*
17742508 AATAAAAA
1 AAGAAAAA
17742516 GAGAGAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 10 0.24
13 10 0.24
14 21 0.51
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.03
Consensus pattern (13 bp):
AAGAAAAAAAAGA
Found at i:17742479 original size:10 final size:10
Alignment explanation
Indices: 17742455--17742525 Score: 67
Period size: 10 Copynumber: 7.2 Consensus size: 10
17742445 CTGTTGTTCT
17742455 AAGAAA-AAA
1 AAGAAAGAAA
17742464 AGAGAAAGAAA
1 A-AGAAAGAAA
17742475 AAG-AAGAAAA
1 AAGAAAG-AAA
*
17742485 AAGAAA-AGA
1 AAGAAAGAAA
*
17742494 AATAAAGAAA
1 AAGAAAGAAA
*
17742504 AAGAAATAAA
1 AAGAAAGAAA
*
17742514 AAGAGAGAAA
1 AAGAAAGAAA
17742524 AA
1 AA
17742526 ATTGAACATT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
9 11 0.22
10 33 0.66
11 6 0.12
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:17746092 original size:16 final size:16
Alignment explanation
Indices: 17746042--17746086 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
17746032 GGGGGCATGC
17746042 AAAG-AAGAGCAAAAAA
1 AAAGAAAGAG-AAAAAA
17746058 AAAGAAAGAGAAAAAA
1 AAAGAAAGAGAAAAAA
17746074 AAAGAAA-AGAAAA
1 AAAGAAAGAGAAAA
17746087 TGAAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.21
16 17 0.61
17 5 0.18
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAGAAAAAA
Found at i:17746598 original size:17 final size:17
Alignment explanation
Indices: 17746578--17746650 Score: 53
Period size: 17 Copynumber: 4.3 Consensus size: 17
17746568 AGGAGAATAA
17746578 GAAAAGAGAAAAAAAAT
1 GAAAAGAGAAAAAAAAT
*
17746595 GAAAAGA-AGAAGAAAAT
1 GAAAAGAGA-AAAAAAAT
**
17746612 GAGAAATTG-AAAAAAAT
1 GA-AAAGAGAAAAAAAAT
* *
17746629 -AAAAAATAAAAAAAAAT
1 GAAAAGA-GAAAAAAAAT
17746646 GAAAA
1 GAAAA
17746651 AAAGGGAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
15 3 0.07
16 2 0.05
17 31 0.72
18 7 0.16
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (17 bp):
GAAAAGAGAAAAAAAAT
Found at i:17746651 original size:17 final size:17
Alignment explanation
Indices: 17746586--17746651 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
17746576 AAGAAAAGAG
17746586 AAAAAAAATGAAAAGA-A
1 AAAAAAAATGAAAA-ATA
* * * *
17746603 GAAGAAAATGAGAAATT
1 AAAAAAAATGAAAAATA
* *
17746620 GAAAAAAATAAAAAATA
1 AAAAAAAATGAAAAATA
17746637 AAAAAAAATGAAAAA
1 AAAAAAAATGAAAAA
17746652 AAGGGAAAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
16 1 0.03
17 37 0.97
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (17 bp):
AAAAAAAATGAAAAATA
Found at i:17748364 original size:25 final size:25
Alignment explanation
Indices: 17748335--17748392 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
17748325 GGTAATGAAT
**
17748335 TTTGCATTTAAAATTGCAAGGAGCA
1 TTTGCATTTAAAATCACAAGGAGCA
*
17748360 TTTGCATTTACAATCACAAGGAGCA
1 TTTGCATTTAAAATCACAAGGAGCA
17748385 TTTGCATT
1 TTTGCATT
17748393 ATTGAAAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (25 bp):
TTTGCATTTAAAATCACAAGGAGCA
Found at i:17750160 original size:2 final size:2
Alignment explanation
Indices: 17750153--17750183 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17750143 GGTTTGTTGG
17750153 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17750184 TTTGCTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17750854 original size:15 final size:16
Alignment explanation
Indices: 17750834--17750867 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
17750824 ATCTAGATTG
17750834 TTTATTTATT-TTTAT
1 TTTATTTATTATTTAT
17750849 TTTATTTATTATTTAT
1 TTTATTTATTATTTAT
17750865 TTT
1 TTT
17750868 TATGCCAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTATTATTTAT
Found at i:17751144 original size:18 final size:18
Alignment explanation
Indices: 17751099--17751163 Score: 64
Period size: 17 Copynumber: 3.7 Consensus size: 18
17751089 TTTATTCATG
* *
17751099 AAATTCGAAAATGGAAAA
1 AAATTAGAAAATGTAAAA
17751117 AAA-TAGAAAATGTAAAA
1 AAATTAGAAAATGTAAAA
*
17751134 AAATTATAAAA--TAAAA
1 AAATTAGAAAATGTAAAA
*
17751150 AAATGTTGAAAATG
1 AAAT-TAGAAAATG
17751164 CCATTGGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 9 0.24
17 20 0.53
18 9 0.24
ACGTcount: A:0.65, C:0.02, G:0.12, T:0.22
Consensus pattern (18 bp):
AAATTAGAAAATGTAAAA
Found at i:17752789 original size:18 final size:18
Alignment explanation
Indices: 17752766--17752878 Score: 76
Period size: 18 Copynumber: 6.6 Consensus size: 18
17752756 AAAGTTCAAA
*
17752766 AATTTTATTTTTGATTGT
1 AATTTTATTTTTGATTTT
*
17752784 AA---T-TTTTT-CTTTT
1 AATTTTATTTTTGATTTT
* *
17752797 AATGTTACTTTTGATTTT
1 AATTTTATTTTTGATTTT
* * *
17752815 AATGTTGA-TTTTAATTTC
1 AAT-TTTATTTTTGATTTT
* *
17752833 AATTTTAGTTTTAATTTT
1 AATTTTATTTTTGATTTT
*
17752851 AATTTTAATTTTGATTTT
1 AATTTTATTTTTGATTTT
*
17752869 GATTTTATTT
1 AATTTTATTT
17752879 ATTGGTCAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
13 5 0.07
14 5 0.07
15 1 0.01
16 1 0.01
17 7 0.09
18 53 0.72
19 2 0.03
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (18 bp):
AATTTTATTTTTGATTTT
Found at i:17752814 original size:6 final size:6
Alignment explanation
Indices: 17752793--17752875 Score: 85
Period size: 6 Copynumber: 13.8 Consensus size: 6
17752783 TAATTTTTTC
* * * * * * *
17752793 TTTTAA TGTTAC TTTTGA TTTTAA TGTTGA TTTTAA TTTCAA TTTTAG
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
* *
17752841 TTTTAA TTTTAA TTTTAA TTTTGA TTTTGA TTTTA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
17752876 TTTATTGGTC
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.64
Consensus pattern (6 bp):
TTTTAA
Found at i:17753919 original size:39 final size:41
Alignment explanation
Indices: 17753862--17753940 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 41
17753852 CGTGAGTTCT
* * **
17753862 TATTTTTCATTTTCTTTTTTTATTTTATTT-CT-ATCTTTC
1 TATTTTTCAATTTATTTTTGGATTTTATTTCCTAATCTTTC
*
17753901 TATTTTTTAATTTATTTTTGGATTTTATTTCCTAATCTTT
1 TATTTTTCAATTTATTTTTGGATTTTATTTCCTAATCTTT
17753941 ATTTTTATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 25 0.76
40 2 0.06
41 6 0.18
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (41 bp):
TATTTTTCAATTTATTTTTGGATTTTATTTCCTAATCTTTC
Found at i:17754203 original size:24 final size:24
Alignment explanation
Indices: 17754171--17754218 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17754161 ATTTGCATGA
17754171 ATTTGCATGAGTACTTAATTATTT
1 ATTTGCATGAGTACTTAATTATTT
* * *
17754195 ATTTGCATGATTATTTATTTATTT
1 ATTTGCATGAGTACTTAATTATTT
17754219 GCATATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.56
Consensus pattern (24 bp):
ATTTGCATGAGTACTTAATTATTT
Found at i:17754212 original size:20 final size:18
Alignment explanation
Indices: 17754188--17754237 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 18
17754178 TGAGTACTTA
17754188 ATTATTTATTTGCATGATT
1 ATTATTTATTTGCAT-ATT
17754207 ATTTATTTATTTGCATATT
1 A-TTATTTATTTGCATATT
17754226 ATTATTATATTT
1 ATTATT-TATTT
17754238 TACATTATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 14 0.48
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (18 bp):
ATTATTTATTTGCATATT
Found at i:17754300 original size:16 final size:16
Alignment explanation
Indices: 17754279--17754309 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17754269 TTATATGATA
17754279 TTATTGCATAATATTT
1 TTATTGCATAATATTT
*
17754295 TTATTGCATGATATT
1 TTATTGCATAATATT
17754310 ATATATTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (16 bp):
TTATTGCATAATATTT
Found at i:17756344 original size:18 final size:18
Alignment explanation
Indices: 17756318--17756362 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
17756308 GATTAAAGGT
17756318 TTTTATTTTTCATTTTTA
1 TTTTATTTTTCATTTTTA
* * *
17756336 TTTTCTTTTTGATTTTTGG
1 TTTTATTTTTCATTTTT-A
17756355 TTTTATTT
1 TTTTATTT
17756363 CTATATTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTATTTTTCATTTTTA
Found at i:17756375 original size:24 final size:24
Alignment explanation
Indices: 17756331--17756376 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
17756321 TATTTTTCAT
*
17756331 TTTTATTTTCTTTTTGATTTTTGG
1 TTTTATTTTCTTATTGATTTTTGG
*
17756355 TTTTA-TTTCTATATTGTTTTTT
1 TTTTATTTTCT-TATTGATTTTT
17756377 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.76
Consensus pattern (24 bp):
TTTTATTTTCTTATTGATTTTTGG
Found at i:17756678 original size:34 final size:35
Alignment explanation
Indices: 17756640--17756726 Score: 126
Period size: 34 Copynumber: 2.6 Consensus size: 35
17756630 TATTGTATGA
*
17756640 TTAATTATTTATTTGCATGAATTTACATGATT-TC
1 TTAATTATTTATTTGCATGAATATACATGATTATC
17756674 TTAATTATTTATTTGCATGAATATACATGATTATC
1 TTAATTATTTATTTGCATGAATATACATGATTATC
* *
17756709 -TAA-TATTCATTGGCATGA
1 TTAATTATTTATTTGCATGA
17756727 TTATTTATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
33 13 0.27
34 34 0.69
35 2 0.04
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.48
Consensus pattern (35 bp):
TTAATTATTTATTTGCATGAATATACATGATTATC
Found at i:17767957 original size:12 final size:12
Alignment explanation
Indices: 17767940--17767964 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17767930 ACCTCTCTTA
17767940 TTTTTATTTTTG
1 TTTTTATTTTTG
17767952 TTTTTATTTTTG
1 TTTTTATTTTTG
17767964 T
1 T
17767965 GCCTTTTTTT
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:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTATTTTTG
Found at i:17769035 original size:24 final size:24
Alignment explanation
Indices: 17768987--17769052 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
17768977 ATAAATTTTA
17768987 AAAT-AATTTTATTCATT-TAATAT
1 AAATAAATTTTATT-ATTATAATAT
17769010 AAATAAATTTTATTATTAT-ATGAT
1 AAATAAATTTTATTATTATAAT-AT
* *
17769034 AAATAAAATTTATTGTTAT
1 AAATAAATTTTATTATTAT
17769053 GTATTATTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
23 9 0.24
24 29 0.76
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (24 bp):
AAATAAATTTTATTATTATAATAT
Found at i:17770063 original size:27 final size:27
Alignment explanation
Indices: 17769995--17770064 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
17769985 TCAAATCCGT
*
17769995 ATATATATTTTATTA-AAATTTTAAATT
1 ATAT-TATTTTATTATAAATTTTAAATC
* * *
17770022 ATATTATTTTTTTATAATTTTTATATC
1 ATATTATTTTATTATAAATTTTAAATC
*
17770049 ATATTATTGTATTATA
1 ATATTATTTTATTATA
17770065 TTTAAATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
26 9 0.25
27 27 0.75
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (27 bp):
ATATTATTTTATTATAAATTTTAAATC
Found at i:17771424 original size:2 final size:2
Alignment explanation
Indices: 17771412--17771444 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
17771402 ATCCAAAAGA
17771412 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17771445 CAATTTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17771676 original size:2 final size:2
Alignment explanation
Indices: 17771669--17771701 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
17771659 AAAGGACAAT
*
17771669 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17771702 TACGTTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:17776950 original size:48 final size:49
Alignment explanation
Indices: 17776883--17776978 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 49
17776873 ATCAACAATT
* *
17776883 TAAAATAATAAACTAAAAATTCAAA-GAAATAATAAAA-AATAAATAAAAC
1 TAAAATAATAAAATAAAAATT-AAAGGAAA-AATAAAATAAAAAATAAAAC
* *
17776932 TAAAA-AATAAAATCAAAATTAAAGGAAAATTAAAATAAAAAATAAAA
1 TAAAATAATAAAATAAAAATTAAAGGAAAAATAAAATAAAAAATAAAA
17776979 GAGAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
47 9 0.22
48 27 0.66
49 5 0.12
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (49 bp):
TAAAATAATAAAATAAAAATTAAAGGAAAAATAAAATAAAAAATAAAAC
Found at i:17777924 original size:13 final size:13
Alignment explanation
Indices: 17777906--17777936 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17777896 CTAAAAATAA
17777906 TAAAAACTAAAAT
1 TAAAAACTAAAAT
17777919 TAAAAACTAAAAT
1 TAAAAACTAAAAT
*
17777932 CAAAA
1 TAAAA
17777937 TTAAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (13 bp):
TAAAAACTAAAAT
Found at i:17780341 original size:31 final size:31
Alignment explanation
Indices: 17780303--17780363 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
17780293 TCAAGAAAAT
*
17780303 ACTCATGATTTACG-GGATAAGATGATCATTG
1 ACTCATGATTTACGAGG-TAAAATGATCATTG
*
17780334 ACTCATGATTTATGAGGTAAAATGATCATT
1 ACTCATGATTTACGAGGTAAAATGATCATT
17780364 TTGTTATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (31 bp):
ACTCATGATTTACGAGGTAAAATGATCATTG
Found at i:17781003 original size:14 final size:14
Alignment explanation
Indices: 17780971--17781014 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
17780961 TTCTAAAAAC
* *
17780971 AATTTTTATTTTTT
1 AATTTTTAATTTTG
*
17780985 TATTTTTAATTTTG
1 AATTTTTAATTTTG
*
17780999 AATTTTGAATTTTG
1 AATTTTTAATTTTG
17781013 AA
1 AA
17781015 AAACATGATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
AATTTTTAATTTTG
Found at i:17783020 original size:28 final size:29
Alignment explanation
Indices: 17782957--17783023 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
17782947 TTGATTTTAT
*
17782957 ATTTATATATATGTATTATATTAATAAAA
1 ATTTATATTTATGTATTATATTAATAAAA
17782986 ATATTATATTTATGTA-TA-ATTAA-AATATA
1 AT-TTATATTTATGTATTATATTAATAA-A-A
17783015 ATTTATATT
1 ATTTATATT
17783024 AAAAATAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
27 2 0.06
28 13 0.38
29 7 0.21
30 12 0.35
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
ATTTATATTTATGTATTATATTAATAAAA
Found at i:17789280 original size:20 final size:21
Alignment explanation
Indices: 17789255--17789294 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17789245 TATATTTATA
*
17789255 TATTTAATAA-ATTAATTTTT
1 TATTTAATAATATAAATTTTT
17789275 TATTTAATAATATAAATTTT
1 TATTTAATAATATAAATTTT
17789295 ATTTTAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTAATAATATAAATTTTT
Found at i:17791943 original size:53 final size:53
Alignment explanation
Indices: 17791880--17791980 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
17791870 CAGCTAAAAA
*
17791880 TCATGGCACTATCCAACAAAACTAGTACCTGTACAACTAAATTAAAGTAACCT
1 TCATGACACTATCCAACAAAACTAGTACCTGTACAACTAAATTAAAGTAACCT
* * * *
17791933 TCATGACACTATCCAACAAAATTAGTGCTTGTATAACTAAATTAAAGT
1 TCATGACACTATCCAACAAAACTAGTACCTGTACAACTAAATTAAAGT
17791981 TAAAGTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.28
Consensus pattern (53 bp):
TCATGACACTATCCAACAAAACTAGTACCTGTACAACTAAATTAAAGTAACCT
Found at i:17792595 original size:24 final size:26
Alignment explanation
Indices: 17792550--17792600 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
17792540 TTTTATTGTA
17792550 TTTGTTTGCAATTTTATTTATC-CTT
1 TTTGTTTGCAATTTTATTTATCTCTT
17792575 TTTGTTT-C-ATTATTATTTATCTCTT
1 TTTGTTTGCAATT-TTATTTATCTCTT
17792600 T
1 T
17792601 GGTTAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 3 0.12
24 10 0.42
25 11 0.46
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.67
Consensus pattern (26 bp):
TTTGTTTGCAATTTTATTTATCTCTT
Found at i:17792801 original size:33 final size:32
Alignment explanation
Indices: 17792759--17792821 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
17792749 ATGCATAGCT
17792759 TTTGAAGTTAACTT-GATATAAAGTTCCTATCTA
1 TTTGAAGTTAACTTAGAT-TAAA-TTCCTATCTA
17792792 TTTGAAGTTAACTTAAGATTAAATTCCTAT
1 TTTGAAGTTAACTT-AGATTAAATTCCTAT
17792822 ATGTTGACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 21 0.75
34 4 0.14
35 3 0.11
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (32 bp):
TTTGAAGTTAACTTAGATTAAATTCCTATCTA
Found at i:17799522 original size:18 final size:18
Alignment explanation
Indices: 17799499--17799540 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
17799489 TATAGCTTTC
17799499 ATGCATTGCATCCATTAT
1 ATGCATTGCATCCATTAT
* *
17799517 ATGCATTTCATGCATTAT
1 ATGCATTGCATCCATTAT
17799535 ATGCAT
1 ATGCAT
17799541 AACATTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (18 bp):
ATGCATTGCATCCATTAT
Found at i:17799550 original size:18 final size:18
Alignment explanation
Indices: 17799511--17799550 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17799501 GCATTGCATC
**
17799511 CATTATATGCATTTCATG
1 CATTATATGCATAACATG
*
17799529 CATTATATGCATAACATT
1 CATTATATGCATAACATG
17799547 CATT
1 CATT
17799551 TAAAGTGTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.42
Consensus pattern (18 bp):
CATTATATGCATAACATG
Found at i:17801600 original size:13 final size:13
Alignment explanation
Indices: 17801565--17801614 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
17801555 TTGGAAATTT
17801565 TTTATTT-TTTTA
1 TTTATTTATTTTA
* *
17801577 -TTGTTTGTTTTA
1 TTTATTTATTTTA
17801589 TGTTA-TTATTTTA
1 T-TTATTTATTTTA
17801602 TTTATTTATTTTA
1 TTTATTTATTTTA
17801615 AAAGTATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 5 0.16
12 8 0.26
13 16 0.52
14 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:17805827 original size:17 final size:17
Alignment explanation
Indices: 17805795--17805826 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17805785 TAGCAGTGTT
17805795 TTTTTTTATCTGTTTTA
1 TTTTTTTATCTGTTTTA
17805812 TTTTTTTAT-TGTTTT
1 TTTTTTTATCTGTTTT
17805827 TTTATAGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.81
Consensus pattern (17 bp):
TTTTTTTATCTGTTTTA
Found at i:17806051 original size:11 final size:10
Alignment explanation
Indices: 17806037--17806088 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
17806027 AAAAGCTGCC
17806037 AAAAAGAGAAA
1 AAAAAGA-AAA
17806048 AAAAAG---A
1 AAAAAGAAAA
17806055 AAAAAGAAAA
1 AAAAAGAAAA
*
17806065 AAAAAGAAAG
1 AAAAAGAAAA
*
17806075 AAAAATAAAA
1 AAAAAGAAAA
17806085 AAAA
1 AAAA
17806089 TAAATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
7 7 0.20
10 22 0.63
11 6 0.17
ACGTcount: A:0.87, C:0.00, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:17806057 original size:7 final size:7
Alignment explanation
Indices: 17806047--17806079 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
17806037 AAAAAGAGAA
17806047 AAAAAAG
1 AAAAAAG
17806054 AAAAAAG
1 AAAAAAG
17806061 AAAAAA-
1 AAAAAAG
17806067 AAAGAAAG
1 AAA-AAAG
17806075 AAAAA
1 AAAAA
17806080 TAAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 18 0.75
8 3 0.12
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:17806065 original size:17 final size:17
Alignment explanation
Indices: 17806037--17806087 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
17806027 AAAAGCTGCC
17806037 AAAAAGAGAAAAAAAAGA
1 AAAAAGA-AAAAAAAAGA
17806055 AAAAAGAAAAAAAAAGA
1 AAAAAGAAAAAAAAAGA
17806072 AAGAAA-AATAAAAAAA
1 AA-AAAGAA-AAAAAAA
17806088 ATAAATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGA
Found at i:17806066 original size:14 final size:14
Alignment explanation
Indices: 17806037--17806084 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
17806027 AAAAGCTGCC
*
17806037 AAAAAGAGAAA-AA
1 AAAAAAAGAAAGAA
*
17806050 AAAGAAA-AAAGAA
1 AAAAAAAGAAAGAA
17806063 AAAAAAAGAAAGAA
1 AAAAAAAGAAAGAA
17806077 AAATAAAA
1 AAA-AAAA
17806085 AAAATAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 3 0.10
13 13 0.45
14 9 0.31
15 4 0.14
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAAAAGAAAGAA
Found at i:17806092 original size:9 final size:9
Alignment explanation
Indices: 17806037--17806088 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
17806027 AAAAGCTGCC
*
17806037 AAAAAGAGA
1 AAAAAAAGA
17806046 AAAAAAAGA
1 AAAAAAAGA
*
17806055 AAAAAGA-A
1 AAAAAAAGA
17806063 AAAAAAAGA
1 AAAAAAAGA
*
17806072 AAGAAAAATA
1 AA-AAAAAGA
17806082 AAAAAAA
1 AAAAAAA
17806089 TAAATTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 7 0.19
9 22 0.59
10 8 0.22
ACGTcount: A:0.87, C:0.00, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:17806348 original size:44 final size:43
Alignment explanation
Indices: 17806265--17806367 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 43
17806255 CTTTTAATAT
*
17806265 AGGCTCAACGACTTTTGAAAATTCAAAAAGGCTCATCTAAGCAA
1 AGGCTCAACAACTTTTGAAAATT-AAAAAGGCTCATCTAAGCAA
* * *
17806309 AGGCTCAACAACTTTTGAAAA-TATAAAAGGACTCCTCTAAGTAG
1 AGGCTCAACAACTTTTGAAAATTA-AAAAGG-CTCATCTAAGCAA
*
17806353 AGGTTCAACAACTTT
1 AGGCTCAACAACTTT
17806368 AAAGAATTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 1 0.02
43 7 0.13
44 44 0.85
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (43 bp):
AGGCTCAACAACTTTTGAAAATTAAAAAGGCTCATCTAAGCAA
Found at i:17806520 original size:102 final size:97
Alignment explanation
Indices: 17806289--17806911 Score: 421
Period size: 95 Copynumber: 6.4 Consensus size: 97
17806279 TTGAAAATTC
* * ** *
17806289 AAAAAGGCTCATCTAAGCAAAGGCTCAACAACTTTTGAAAAT-A---T-AAAAGGACTCCTCTAA
1 AAAAA-GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTGAAAAAG-CTCCTCTAA
* * * *
17806349 GTAGAGGTTCAACAACTTTAAAGAATTTATCTTAAG
64 GTAGAGGCTCAACAAC-TTAAAAAAATCATCTT-AG
* * * * * * *
17806385 AAAAAGCTTCTCTAAGCAGTGACTCAACGACTTTAAAGATTCATTTTGAAAAAAAAGCTCCTCTA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTG---AAAAAGCTCCTCTA
* *
17806450 AATAGAGGCTCTACAACTTAAAAAAAAATCATCTTAG
63 AGTAGAGGCTCAACAACTT--AAAAAAATCATCTTAG
* * *
17806487 AAAAAGCTCCTCTAAGTAGAGGCTCTATAACTTTAAAAAATCATCTTGAAAAAGCTCCTCTAAGT
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTGAAAAAGCTCCTCTAAGT
* * * *
17806552 AGAAGCTCAATAACTT-TAAAAGTCATCTT-G
66 AGAGGCTCAACAACTTAAAAAAATCATCTTAG
* * * * * **
17806582 GAAAAGTTCCTCTAAGCAAAGGCTCAACAACTTT--AAAATCATCTTGGAAGAGCTCCTCTAAAC
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTGAAAAAGCTCCTCTAAGT
* * *
17806645 AGAGGCTGAACAACTT-TAAAAATCTAT-TTTG
66 AGAGGCTCAACAACTTAAAAAAATC-ATCTTAG
* * * *
17806676 AAAAAAACTCCTCTAAACAGAGGCTCCACAACTTTAAAAAAAATCATATTGGGAAAAA-CTCCTC
1 -AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT--AAAAAATCATCTT--GAAAAAGCTCCTC
** * * *
17806740 TAACCAGAGGCTCCATAACTTAAAAAAATAATCTT-G
61 TAAGTAGAGGCTCAACAACTTAAAAAAATCATCTTAG
* ** * * * * * *
17806776 GAAAAGCTTATCTAAGTAGAAGCTCAACAACTTT-AAAAGTCATATTTAAAAAGCTCCTCTAAGC
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTGAAAAAGCTCCTCTAAGT
* * ** * * *
17806840 AGAGGCCCCACAACTTTCAAAATTCATTTTAAA
66 AGAGGCTCAACAACTTAAAAAAATCATCTT-AG
* * *
17806873 AAAAAGCTCCTCTAAG-TGAAGGCTCAATAATTTTAAAAA
1 AAAAAGCTCCTCTAAGCAG-AGGCTCAACAACTTTAAAAA
17806912 TCTCATCTAT
Statistics
Matches: 413, Mismatches: 88, Indels: 50
0.75 0.16 0.09
Matches are distributed among these distances:
93 47 0.11
94 8 0.02
95 116 0.28
96 29 0.07
97 25 0.06
98 4 0.01
99 66 0.16
100 26 0.06
101 14 0.03
102 62 0.15
103 16 0.04
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (97 bp):
AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTGAAAAAGCTCCTCTAAGT
AGAGGCTCAACAACTTAAAAAAATCATCTTAG
Found at i:17806544 original size:48 final size:48
Alignment explanation
Indices: 17806289--17806911 Score: 433
Period size: 51 Copynumber: 12.8 Consensus size: 48
17806279 TTGAAAATTC
* * **
17806289 AAAAAGGCTCATCTAAGCAAAGGCTCAACAACTTTTGAAAAT-A---T-
1 AAAAA-GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTG
* * * * *
17806333 AAAAGGACTCCTCTAAGTAGAGGTTCAACAACTTTAAAGAATTTATCTTAAG
1 AAAAAG-CTCCTCTAAGCAGAGGCTCAACAACTTTAAA-AAATCATCTT--G
* * * * * * *
17806385 AAAAAGCTTCTCTAAGCAGTGACTCAACGACTTTAAAGATTCATTTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTG
** * *
17806433 AAAAAAAAGCTCCTCTAAATAGAGGCTCTACAACTTAAAAAAAAATCATCTTAG
1 ---AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT--TAAAAAATCATCTT-G
* * *
17806487 AAAAAGCTCCTCTAAGTAGAGGCTCTATAACTTTAAAAAATCATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTG
* * * *
17806535 AAAAAGCTCCTCTAAGTAGAAGCTCAATAACTTT-AAAAGTCATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTG
* * *
17806582 GAAAAGTTCCTCTAAGCAAAGGCTCAACAACTTT--AAAATCATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTG
* * * * *
17806628 GAAGAGCTCCTCTAAACAGAGGCTGAACAACTTT-AAAAATCTATTTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATC-ATCTTG
* * * *
17806676 AAAAAAACTCCTCTAAACAGAGGCTCCACAACTTTAAAAAAAATCATATTGGG
1 -AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT--AAAAAATCATCTT--G
* * * * *
17806729 AAAAA-CTCCTCTAACCAGAGGCTCCATAACTTAAAAAAATAATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTG
* ** * * * * *
17806776 GAAAAGCTTATCTAAGTAGAAGCTCAACAACTTT-AAAAGTCATATTT
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTG
* * * * * *
17806823 AAAAAGCTCCTCTAAGCAGAGGCCCCACAACTTTCAAAATTCATTTTAAA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTT--G
* * *
17806873 AAAAAGCTCCTCTAAG-TGAAGGCTCAATAATTTTAAAAA
1 AAAAAGCTCCTCTAAGCAG-AGGCTCAACAACTTTAAAAA
17806912 TCTCATCTAT
Statistics
Matches: 463, Mismatches: 88, Indels: 50
0.77 0.15 0.08
Matches are distributed among these distances:
43 1 0.00
44 29 0.06
45 3 0.01
46 41 0.09
47 87 0.19
48 69 0.15
49 55 0.12
50 38 0.08
51 111 0.24
52 17 0.04
53 11 0.02
54 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (48 bp):
AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATCATCTTG
Found at i:17806700 original size:241 final size:244
Alignment explanation
Indices: 17806414--17806862 Score: 647
Period size: 241 Copynumber: 1.9 Consensus size: 244
17806404 TGACTCAACG
* * *
17806414 ACTTTAAAGATTCATTTTGAAAAAAAAGCTCCTCTAAATAGAGGCTCTACAACTTAAAAAAAAAT
1 ACTTTAAAAATTCATTTTGAAAAAAAAGCTCCTCTAAACAGAGGCTCCACAACTTAAAAAAAAAT
* ** * * *
17806479 CATCTT-AGAAAAAGCTCCTCTAAGTAGAGGCTCTATAACTTTAAAAAATCATCTTGAAAAAGCT
66 CATATTGAGAAAAA-CTCCTCTAACCAGAGGCTCCATAACTTAAAAAAATAATCTTGAAAAAGCT
* * * * * *
17806543 CCTCTAAGTAGAAGCTCAATAACTTTAAAAGTCATCTTGGAAAAGTTCCTCTAAGCAAAGGCTCA
130 CATCTAAGTAGAAGCTCAACAACTTTAAAAGTCATATTGAAAAAGCTCCTCTAAGCAAAGGCCCA
17806608 ACAACTTT-AAAATCATCTTGGAAGAGCTCCTCTAAACAGAGGCTGAACA
195 ACAACTTTCAAAATCATCTTGGAAGAGCTCCTCTAAACAGAGGCTGAACA
*
17806657 ACTTTAAAAA-TCTATTTTG-AAAAAAA-CTCCTCTAAACAGAGGCTCCACAACTTTAAAAAAAA
1 ACTTTAAAAATTC-ATTTTGAAAAAAAAGCTCCTCTAAACAGAGGCTCCACAACTTAAAAAAAAA
* *
17806719 TCATATTGGGAAAAACTCCTCTAACCAGAGGCTCCATAACTTAAAAAAATAATCTTGGAAAAGCT
65 TCATATTGAGAAAAACTCCTCTAACCAGAGGCTCCATAACTTAAAAAAATAATCTTGAAAAAGCT
* * * *
17806784 TATCTAAGTAGAAGCTCAACAACTTTAAAAGTCATATTTAAAAAGCTCCTCTAAGCAGAGGCCCC
130 CATCTAAGTAGAAGCTCAACAACTTTAAAAGTCATATTGAAAAAGCTCCTCTAAGCAAAGGCCCA
17806849 ACAACTTTCAAAAT
195 ACAACTTTCAAAAT
17806863 TCATTTTAAA
Statistics
Matches: 181, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
241 146 0.81
242 20 0.11
243 15 0.08
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (244 bp):
ACTTTAAAAATTCATTTTGAAAAAAAAGCTCCTCTAAACAGAGGCTCCACAACTTAAAAAAAAAT
CATATTGAGAAAAACTCCTCTAACCAGAGGCTCCATAACTTAAAAAAATAATCTTGAAAAAGCTC
ATCTAAGTAGAAGCTCAACAACTTTAAAAGTCATATTGAAAAAGCTCCTCTAAGCAAAGGCCCAA
CAACTTTCAAAATCATCTTGGAAGAGCTCCTCTAAACAGAGGCTGAACA
Found at i:17806845 original size:146 final size:144
Alignment explanation
Indices: 17806340--17806861 Score: 437
Period size: 146 Copynumber: 3.6 Consensus size: 144
17806330 TATAAAAGGA
* * *
17806340 CTCCTCTAAGTAGAGGTTCAACAACTTTAAAGAAT-TTATCTTAAGAAAAAGCTTCTCTAAGCAG
1 CTCCTCTAAGTAGAGGCTCAACAACTTTAAA-AATCATAT-TT---AAAAAGCTCCTCTAAGCAG
* * * * * * * * * *
17806404 TGACTCAACGACTTT-AAAGATTCATTTTGAAAAAAAAGCTCCTCTAAATAGAGGCTCTACAACT
61 AGGCTCCACAACTTTAAAAAAATCATATTG--GAAAAA-CTCCTCTAAACAGAGGCTCAACAACT
*
17806468 TAAAAAAAAATCATCTTAGAAAAAG
123 T--AAAAAAATCATCTT-GGAAAAG
* * * * * *
17806493 CTCCTCTAAGTAGAGGCTCTATAACTTTAAAAAATCATCTTGAAAAAGCTCCTCTAAGTAGAAGC
1 CTCCTCTAAGTAGAGGCTCAACAACTTT-AAAAATCATATTTAAAAAGCTCCTCTAAGCAGAGGC
* * * * ** * * *
17806558 TCAATAACTTT--AAAAGTCATCTTGGAAAAGTTCCTCTAAGCAAAGGCTCAACAACTT--TAAA
65 TCCACAACTTTAAAAAAATCATATTGGAAAAACTCCTCTAAACAGAGGCTCAACAACTTAAAAAA
*
17806619 ATCATCTTGGAAGAG
130 ATCATCTTGGAAAAG
** * * *
17806634 CTCCTCTAAACAGAGGCTGAACAACTTTAAAAATC-TATTTTGAAAAAAACTCCTCTAAACAGAG
1 CTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATCATA-TTT--AAAAAGCTCCTCTAAGCAGAG
* * *
17806698 GCTCCACAACTTTAAAAAAAATCATATTGGGAAAAACTCCTCTAACCAGAGGCTCCATAACTTAA
63 GCTCCACAACTTT-AAAAAAATCATATT-GGAAAAACTCCTCTAAACAGAGGCTCAACAACTTAA
*
17806763 AAAAATAATCTTGGAAAAG
126 AAAAATCATCTTGGAAAAG
** * * *
17806782 CTTATCTAAGTAGAAGCTCAACAACTTTAAAAGTCATATTTAAAAAGCTCCTCTAAGCAGAGGCC
1 CTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATCATATTTAAAAAGCTCCTCTAAGCAGAGGCT
*
17806847 CCACAACTTTCAAAA
66 CCACAACTTTAAAAA
17806862 TTCATTTTAA
Statistics
Matches: 296, Mismatches: 61, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
139 1 0.00
140 9 0.03
141 28 0.09
142 39 0.13
145 14 0.05
146 81 0.27
147 4 0.01
148 47 0.16
149 12 0.04
150 27 0.09
153 29 0.10
154 5 0.02
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.26
Consensus pattern (144 bp):
CTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATCATATTTAAAAAGCTCCTCTAAGCAGAGGCT
CCACAACTTTAAAAAAATCATATTGGAAAAACTCCTCTAAACAGAGGCTCAACAACTTAAAAAAA
TCATCTTGGAAAAG
Found at i:17817039 original size:46 final size:46
Alignment explanation
Indices: 17816986--17817074 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
17816976 TGATAACTTG
* *
17816986 ATTTCGACTTTTGAGTAAACACTTTATCTTGACACTATAGTTCCTA
1 ATTTCGACTTTCGAGTAAACACTTTATCTGGACACTATAGTTCCTA
*
17817032 ATTTCGACTTTCGAGTAAACACTTTATCTGGACACTGTAGTTC
1 ATTTCGACTTTCGAGTAAACACTTTATCTGGACACTATAGTTC
17817075 TATTCTAAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (46 bp):
ATTTCGACTTTCGAGTAAACACTTTATCTGGACACTATAGTTCCTA
Found at i:17818076 original size:15 final size:14
Alignment explanation
Indices: 17818048--17818074 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17818038 GTGTGAATTT
17818048 TTTATTTTTTTTTA
1 TTTATTTTTTTTTA
17818062 TTTATTTTTTTTT
1 TTTATTTTTTTTT
17818075 TACCTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTATTTTTTTTTA
Found at i:17819334 original size:22 final size:22
Alignment explanation
Indices: 17819291--17819334 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
17819281 AAGAACTTTA
* * *
17819291 TTATATATTTTATCATATATTT
1 TTATATATTTTAACAAAAATTT
*
17819313 TTATCTATTTTAACAAAAATTT
1 TTATATATTTTAACAAAAATTT
17819335 ATTCTAACAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATATTTTAACAAAAATTT
Found at i:17819791 original size:20 final size:20
Alignment explanation
Indices: 17819766--17819810 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17819756 TGCTCTGCTA
*
17819766 CGTCGATCGTCGTCAGTGGT
1 CGTCGATCGTCGTCAATGGT
*
17819786 CGTCGATCGTTGTCAATGGT
1 CGTCGATCGTCGTCAATGGT
*
17819806 TGTCG
1 CGTCG
17819811 CTCACCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (20 bp):
CGTCGATCGTCGTCAATGGT
Found at i:17827980 original size:28 final size:27
Alignment explanation
Indices: 17827949--17828003 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
17827939 TTTAGGGATG
17827949 TTTTACTGTTT-TTTATTATTTATTTTAA
1 TTTTACT-TTTCTTT-TTATTTATTTTAA
*
17827977 TTTTTCTTTTCCTTTTTATTTATTTTA
1 TTTTACTTTT-CTTTTTATTTATTTTA
17828004 TCTAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 3 0.12
28 18 0.75
29 3 0.12
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTTACTTTTCTTTTTATTTATTTTAA
Found at i:17828364 original size:20 final size:20
Alignment explanation
Indices: 17828327--17828364 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17828317 ATCAAGTAAT
* *
17828327 TTTTTAATTATAATTTTTAG
1 TTTTTAATTACAAATTTTAG
17828347 TTTTTAATTACAAATTTT
1 TTTTTAATTACAAATTTT
17828365 TTAACCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTTAATTACAAATTTTAG
Found at i:17831211 original size:67 final size:67
Alignment explanation
Indices: 17831064--17831199 Score: 209
Period size: 67 Copynumber: 2.0 Consensus size: 67
17831054 TTGAACTAAG
* *
17831064 TTCCCTCCAAGAAACGATGACCACAACATAATTATGCAATTACAAACTCAAATTTTCATCAATTA
1 TTCCCTTCAAGAAACGATGACCACAACATAATTATCCAATTACAAACTCAAATTTTCATCAATTA
17831129 AT
66 AT
* * * * *
17831131 TTCCCTTCAAGAAACGCTGACCACAACATAATTATCCCATTTCAGACTCAAATTTTCATCCATTA
1 TTCCCTTCAAGAAACGATGACCACAACATAATTATCCAATTACAAACTCAAATTTTCATCAATTA
17831196 AT
66 AT
17831198 TT
1 TT
17831200 GGCTTGGAGA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.31
Consensus pattern (67 bp):
TTCCCTTCAAGAAACGATGACCACAACATAATTATCCAATTACAAACTCAAATTTTCATCAATTA
AT
Found at i:17833032 original size:56 final size:56
Alignment explanation
Indices: 17832962--17833153 Score: 224
Period size: 56 Copynumber: 3.4 Consensus size: 56
17832952 TCTCAATATT
* * * *
17832962 TGCCTTCGTAAAGGCTTAGCTCAACCATCTTAG-CCAAAGAGCTCATCTTGGTAAAA
1 TGCCTTCCTAAAAGCTTAGCTCAACCA-CTTAGACCAAAAAGCTCATCTTGATAAAA
* * * * ** *
17833018 TGCCTTCATAAAGGCTTAACTCAACCACTTTGACCAAAAAGCTCATCTCAATAAAT
1 TGCCTTCCTAAAAGCTTAGCTCAACCACTTAGACCAAAAAGCTCATCTTGATAAAA
* * * *
17833074 TGTCTTCCTAAAAGATTAGCTCAACCACTTCAGTCCAAAAAGCTCTTCTTGATAAAA
1 TGCCTTCCTAAAAGCTTAGCTCAACCACTT-AGACCAAAAAGCTCATCTTGATAAAA
17833131 TGCCTTCCTAAAAGCTTAGCTCA
1 TGCCTTCCTAAAAGCTTAGCTCA
17833154 GCCAACTCGA
Statistics
Matches: 113, Mismatches: 21, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
55 4 0.04
56 68 0.60
57 41 0.36
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.28
Consensus pattern (56 bp):
TGCCTTCCTAAAAGCTTAGCTCAACCACTTAGACCAAAAAGCTCATCTTGATAAAA
Found at i:17833148 original size:113 final size:111
Alignment explanation
Indices: 17832883--17833153 Score: 310
Period size: 111 Copynumber: 2.4 Consensus size: 111
17832873 GGTCATCTAG
* * * * * ** *
17832883 GCCAAAAAGTTCTTTTTGATAAATTGCCCTCATAAAAGCTTAGCTCGATTACCTTAATCAAAAAG
1 GCCAAAAAGCTCTTCTTGATAAAATGCCTTCATAAAAGCTTAGCTCAACCACCTTAACCAAAAAG
* * * *
17832948 CACATCTCAATATTTGCCTTCGTAAAGGCTTAGCTCAACCATCTTA
66 CACATCTCAATAATTGCCTTCCTAAAAGATTAGCTCAACCATCTTA
* * * * * * *
17832994 GCCAAAGAGCTCATCTTGGTAAAATGCCTTCATAAAGGCTTAACTCAACCACTTTGACCAAAAAG
1 GCCAAAAAGCTCTTCTTGATAAAATGCCTTCATAAAAGCTTAGCTCAACCACCTTAACCAAAAAG
* *
17833059 CTCATCTCAATAAATTGTCTTCCTAAAAGATTAGCTCAACCA-CTTCA
66 CACATCTCAAT-AATTGCCTTCCTAAAAGATTAGCTCAACCATCTT-A
*
17833106 GTCCAAAAAGCTCTTCTTGATAAAATGCCTTCCTAAAAGCTTAGCTCA
1 G-CCAAAAAGCTCTTCTTGATAAAATGCCTTCATAAAAGCTTAGCTCA
17833154 GCCAACTCGA
Statistics
Matches: 130, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
111 63 0.48
112 27 0.21
113 40 0.31
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (111 bp):
GCCAAAAAGCTCTTCTTGATAAAATGCCTTCATAAAAGCTTAGCTCAACCACCTTAACCAAAAAG
CACATCTCAATAATTGCCTTCCTAAAAGATTAGCTCAACCATCTTA
Found at i:17833176 original size:113 final size:112
Alignment explanation
Indices: 17832883--17833189 Score: 282
Period size: 111 Copynumber: 2.7 Consensus size: 112
17832873 GGTCATCTAG
* * * * * * * ** * *
17832883 GCCAAAAAGTTCTTTTTGATAAATTGCCCTCATAAAAGCTTAGCTCGATTACCTT-AATCAAAAA
1 GCCAAAAAGCTCATCTTGATAAAATGCCTTCATAAAAGCTTAACTCAACCA-CTTCGACCAAAAA
* * * * *
17832947 GCACATCTCAAT-ATTTGCCTTCGTAAAGGCTTAGCTCAACCATCTTA
65 GCTCATCTCAATAAATTGCCTTCCTAAAAGATTAGCTCAACCATCTTA
* * * *
17832994 GCCAAAGAGCTCATCTTGGTAAAATGCCTTCATAAAGGCTTAACTCAACCACTTTGACCAAAAAG
1 GCCAAAAAGCTCATCTTGATAAAATGCCTTCATAAAAGCTTAACTCAACCACTTCGACCAAAAAG
*
17833059 CTCATCTCAATAAATTGTCTTCCTAAAAGATTAGCTCAACCA-CTTCA
66 CTCATCTCAATAAATTGCCTTCCTAAAAGATTAGCTCAACCATCTT-A
* * * * *
17833106 GTCCAAAAAGCTCTTCTTGATAAAATGCCTTCCTAAAAGCTTAGCTCAGCCAAC-TCGACCCAAT
1 G-CCAAAAAGCTCATCTTGATAAAATGCCTTCATAAAAGCTTAACTCAACC-ACTTCGA-CCAAA
**
17833170 AA-CTCATCTCTGTAAATTGC
63 AAGCTCATCTCAATAAATTGC
17833190 TTTTGTAAAG
Statistics
Matches: 158, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
110 3 0.02
111 60 0.38
112 27 0.17
113 60 0.38
114 8 0.05
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.29
Consensus pattern (112 bp):
GCCAAAAAGCTCATCTTGATAAAATGCCTTCATAAAAGCTTAACTCAACCACTTCGACCAAAAAG
CTCATCTCAATAAATTGCCTTCCTAAAAGATTAGCTCAACCATCTTA
Found at i:17833376 original size:18 final size:18
Alignment explanation
Indices: 17833353--17833391 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
17833343 AGTTCAACCA
17833353 AAAGAGCTCAACTCAATC
1 AAAGAGCTCAACTCAATC
*
17833371 AAAGAGTTCAACTCAATC
1 AAAGAGCTCAACTCAATC
17833389 AAA
1 AAA
17833392 AAAACTCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.10, T:0.18
Consensus pattern (18 bp):
AAAGAGCTCAACTCAATC
Found at i:17839989 original size:69 final size:68
Alignment explanation
Indices: 17839860--17839996 Score: 247
Period size: 69 Copynumber: 2.0 Consensus size: 68
17839850 AATAGAAACA
*
17839860 TATTAGTTAGTAGATTGTATTTATGCTAACTTTGTCTAGTGTTCTCATTACATCATACATAACAA
1 TATTAGTTAGTAGATTGTATTTATGCTAACTTTGTCCAGTGTTCTCATTACATCATACATAACAA
17839925 TCT
66 TCT
*
17839928 TATTAGTTAGTAGATTGTATTTATGCTAAACTTTGTCCAGTTTTCTCATTACATCATACATAACA
1 TATTAGTTAGTAGATTGTATTTATGCT-AACTTTGTCCAGTGTTCTCATTACATCATACATAACA
17839993 ATCT
65 ATCT
17839997 CTCTCATTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
68 27 0.41
69 39 0.59
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (68 bp):
TATTAGTTAGTAGATTGTATTTATGCTAACTTTGTCCAGTGTTCTCATTACATCATACATAACAA
TCT
Found at i:17842420 original size:65 final size:65
Alignment explanation
Indices: 17842338--17842472 Score: 166
Period size: 65 Copynumber: 2.1 Consensus size: 65
17842328 ATTTTTAGTC
* *
17842338 AAAAAGGCCTTTAATAATCTCATCGT-CAAAATAT-AAGGGGATTATTGAAGGTGTTTTATGCAA
1 AAAAAGGCCTTTAATAATCTC-TCGTAAAAAATATCAA-GGGATTATTGAAGGCGTTTTATGCAA
17842401 AA
64 AA
* * ** * *
17842403 AAAAATGCCTTTAATAATTTCTTTTAAAAAATTTCAAGGGATTATTGAAGGCGTTTTTTGCAAAA
1 AAAAAGGCCTTTAATAATCTCTCGTAAAAAATATCAAGGGATTATTGAAGGCGTTTTATGCAAAA
17842468 AAAAA
1 AAAAA
17842473 AAAAAACACC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 2 0.03
65 56 0.93
66 2 0.03
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (65 bp):
AAAAAGGCCTTTAATAATCTCTCGTAAAAAATATCAAGGGATTATTGAAGGCGTTTTATGCAAAA
Found at i:17842600 original size:35 final size:34
Alignment explanation
Indices: 17842554--17842622 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 34
17842544 CCTTTAATAA
* *
17842554 TTTTTTAAAAAAATTTTAGGAGATTATTGAAGGC
1 TTTTTTAAAAAAAATTAAGGAGATTATTGAAGGC
*
17842588 TTTTTTGAAAAAAAATTAAGGGGATTATTGAAGGC
1 TTTTTT-AAAAAAAATTAAGGAGATTATTGAAGGC
17842623 GTTTCAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 6 0.19
35 25 0.81
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.38
Consensus pattern (34 bp):
TTTTTTAAAAAAAATTAAGGAGATTATTGAAGGC
Found at i:17857021 original size:160 final size:160
Alignment explanation
Indices: 17856748--17857246 Score: 569
Period size: 160 Copynumber: 3.1 Consensus size: 160
17856738 TGGTGGCCAG
* * ** * * * *
17856748 TTGATTATGTGTGAAAAAAGTTATCATTTACATCTGTTTAAAATTTTTTATGCTGTTAAGAGCCA
1 TTGA-TATATGTG-AAAAAGTTATCATTTACGTCTGTTTAGGATATTTTATGCCGTTAAAAGGCA
* * * * * * *
17856813 AACATGCAAATTTGTTGTTATTGTTCTATTTAAAGAGTTTGCATAGCTTTAATACATGATATTAA
64 AA-ATGAAAATTTGATATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAA
* *
17856878 ACTTGTCAGAATAATTGAACTTGATTTCTACAA
128 ACTTGTCAGAATGATTGAACTTGATTTCTTCAA
* * * *
17856911 TTGATATGTGTGAAAAAGCTAACATTTACGTTTGTTTAGGATATTTTATGCCGTTAAAAGGCAAA
1 TTGATATATGTGAAAAAGTTATCATTTACGTCTGTTTAGGATATTTTATGCCGTTAAAAGGCAAA
* *
17856976 ATGAAAATTTGATATTATTGTTCTGTTTTAATAGTTTGGATAGCTTCAATACATGATATTAAACT
66 ATGAAAATTTGATATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACT
* *
17857041 TGTCTGAATGATTGAACTTGGTTTCTTCAA
131 TGTCAGAATGATTGAACTTGATTTCTTCAA
* * *
17857071 TTGATATATATGAAAAAGTTATCATTTATGTCTATTTAGGACTATTTTTAT--CGTTAAAAGGCA
1 TTGATATATGTGAAAAAGTTATCATTTACGTCTGTTTAGGA-TA-TTTTATGCCGTTAAAAGGC-
* ** *
17857134 AAAAT-ACAAATTTGCTATTATTAATCTATTTTAACAGTTTGGATAACTTCAATACATGATATTA
63 AAAATGA-AAATTTGATATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTA
*
17857198 AACTTTTTCA-AATGATTGAACTT-ATTT-TTCATGA
127 AAC-TTGTCAGAATGATTGAACTTGATTTCTTCA--A
17857232 TTGATATATGTGAAA
1 TTGATATATGTGAAA
17857247 GGCCAAAATG
Statistics
Matches: 290, Mismatches: 39, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
159 4 0.01
160 132 0.46
161 132 0.46
162 18 0.06
163 4 0.01
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (160 bp):
TTGATATATGTGAAAAAGTTATCATTTACGTCTGTTTAGGATATTTTATGCCGTTAAAAGGCAAA
ATGAAAATTTGATATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACT
TGTCAGAATGATTGAACTTGATTTCTTCAA
Found at i:17857806 original size:18 final size:19
Alignment explanation
Indices: 17857771--17857806 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17857761 TTATGATATT
17857771 AATGCTGATACAAACATAC
1 AATGCTGATACAAACATAC
17857790 AATGCTGATAC-AACATA
1 AATGCTGATACAAACATA
17857807 AACTATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.22
Consensus pattern (19 bp):
AATGCTGATACAAACATAC
Found at i:17859905 original size:28 final size:28
Alignment explanation
Indices: 17859873--17859941 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
17859863 ACATAAATCC
17859873 ACACAATTTAAAATTATAAACAGATCAT
1 ACACAATTTAAAATTATAAACAGATCAT
* * *
17859901 ACACAATTTAAATTTATATACAGATTAT
1 ACACAATTTAAAATTATAAACAGATCAT
**
17859929 ACACGGTTTAAAA
1 ACACAATTTAAAA
17859942 CCCATTTTTA
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:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (28 bp):
ACACAATTTAAAATTATAAACAGATCAT
Found at i:17866249 original size:6 final size:6
Alignment explanation
Indices: 17866240--17866375 Score: 69
Period size: 6 Copynumber: 22.2 Consensus size: 6
17866230 CCTCTTTATA
* * *
17866240 TCTATC TCTATGC -CT-TC TCCTATC TCTATT TCCATC TCTATC TCTCTC
1 TCTATC TCTAT-C TCTATC T-CTATC TCTATC TCTATC TCTATC TCTATC
* * * ** * *
17866288 TCTATC CCTATCCC TCCTATC TCTGTC TCTGTC TCTGCC TCTGTC TCTGTC
1 TCTATC TCTAT--C T-CTATC TCTATC TCTATC TCTATC TCTATC TCTATC
* * * * **
17866339 TCTGTC TCTGTC TCTGTA TCTATC TCGGTC TCTATC T
1 TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC T
17866376 TCTTTTTGTC
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
4 1 0.01
5 1 0.01
6 92 0.88
7 6 0.06
8 1 0.01
9 4 0.04
ACGTcount: A:0.09, C:0.37, G:0.08, T:0.46
Consensus pattern (6 bp):
TCTATC
Found at i:17866364 original size:18 final size:18
Alignment explanation
Indices: 17866304--17866371 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
17866294 CCTATCCCTC
17866304 CTATCTCTGTCTCTGTCT
1 CTATCTCTGTCTCTGTCT
**
17866322 CTGCCTCTGTCTCTGTCT
1 CTATCTCTGTCTCTGTCT
* *
17866340 CTGTCTCTGTCTCTGTAT
1 CTATCTCTGTCTCTGTCT
*
17866358 CTATCTCGGTCTCT
1 CTATCTCTGTCTCT
17866372 ATCTTCTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.04, C:0.34, G:0.15, T:0.47
Consensus pattern (18 bp):
CTATCTCTGTCTCTGTCT
Done.