Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold12
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: 2382857
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 280777 characters in sequence are not A, C, G, or T
File 5 of 12
Found at i:913206 original size:34 final size:35
Alignment explanation
Indices: 913144--913230 Score: 106
Period size: 34 Copynumber: 2.5 Consensus size: 35
913134 CATTAACGTT
* *
913144 GATCTTCATCTCCCTCTC-CCACTAAACCACCTTC
1 GATCTTCATCTCCCTCTCTCAACTAAACCACCGTC
* *
913178 GATCTCCATCTCCCTCTCTCAAC-GAACCACCGTC
1 GATCTTCATCTCCCTCTCTCAACTAAACCACCGTC
* *
913212 GATCTTTATCTCCATCTCT
1 GATCTTCATCTCCCTCTCT
913231 ACCTTTACAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 42 0.93
35 3 0.07
ACGTcount: A:0.20, C:0.44, G:0.06, T:0.31
Consensus pattern (35 bp):
GATCTTCATCTCCCTCTCTCAACTAAACCACCGTC
Found at i:913601 original size:23 final size:23
Alignment explanation
Indices: 913571--913628 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 23
913561 TTTTACAATT
913571 TGTATCGATACAAAT-CGATAAAA
1 TGTATCGATACAAATGC-ATAAAA
*
913594 TGTATCGATAC--ATGCTTAAAA
1 TGTATCGATACAAATGCATAAAA
913615 TGTATCGATACAAA
1 TGTATCGATACAAA
913629 ATCACCCTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 18 0.58
22 1 0.03
23 12 0.39
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (23 bp):
TGTATCGATACAAATGCATAAAA
Found at i:913699 original size:21 final size:22
Alignment explanation
Indices: 913673--913728 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 22
913663 ATATAAATAA
913673 ATGTATCGATACATTTACT-AT
1 ATGTATCGATACATTTACTCAT
*
913694 ATGTATCGATACA-TTATTCAT
1 ATGTATCGATACATTTACTCAT
913715 -TGTATCGATACATT
1 ATGTATCGATACATT
913729 CTGGGTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (22 bp):
ATGTATCGATACATTTACTCAT
Found at i:917519 original size:18 final size:17
Alignment explanation
Indices: 917486--917533 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
917476 AAAAGATTAA
* * *
917486 AAATAATAATATTCAAT
1 AAATAATAAAAATCAAG
917503 ATAATAATAAAAATCAAG
1 A-AATAATAAAAATCAAG
*
917521 AAATAAAAAAAAT
1 AAATAATAAAAAT
917534 TCAAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (17 bp):
AAATAATAAAAATCAAG
Found at i:917619 original size:21 final size:20
Alignment explanation
Indices: 917593--917762 Score: 102
Period size: 14 Copynumber: 9.6 Consensus size: 20
917583 AAAAGAAAAC
917593 AAGGCATGGAATAAAAAAATG
1 AAGGCATGGAAT-AAAAAATG
*
917614 AAGGCATGGAAT----GATG
1 AAGGCATGGAATAAAAAATG
917630 --GGCATGGAATAAAAAAATG
1 AAGGCATGGAAT-AAAAAATG
*
917649 AAGGCATGGAAT----GATG
1 AAGGCATGGAATAAAAAATG
917665 --GGCATGGAATATAAAAATG
1 AAGGCATGGAATA-AAAAATG
*
917684 AAGGCATGGAAT----GATG
1 AAGGCATGGAATAAAAAATG
917700 --GGCAT-GAATAAAAAATG
1 AAGGCATGGAATAAAAAATG
*
917717 AAGGCATGGAAT----GATG
1 AAGGCATGGAATAAAAAATG
917733 --GGCATGGAATAAAAAATG
1 AAGGCATGGAATAAAAAATG
917751 AAGGCATGGAAT
1 AAGGCATGGAAT
917763 GATAGGCAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 55
0.64 0.05 0.31
Matches are distributed among these distances:
13 4 0.04
14 35 0.31
16 12 0.11
17 3 0.03
18 3 0.03
19 11 0.10
20 14 0.12
21 32 0.28
ACGTcount: A:0.46, C:0.06, G:0.31, T:0.18
Consensus pattern (20 bp):
AAGGCATGGAATAAAAAATG
Found at i:917641 original size:35 final size:35
Alignment explanation
Indices: 917595--917770 Score: 313
Period size: 35 Copynumber: 5.1 Consensus size: 35
917585 AAGAAAACAA
917595 GGCATGGAATAAAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATAAAAAAATGAAGGCATGGAATGATG
917630 GGCATGGAATAAAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATAAAAAAATGAAGGCATGGAATGATG
*
917665 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATAAAAAAATGAAGGCATGGAATGATG
917700 GGCAT-GAAT-AAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATAAAAAAATGAAGGCATGGAATGATG
*
917733 GGCATGGAAT-AAAAAATGAAGGCATGGAATGATA
1 GGCATGGAATAAAAAAATGAAGGCATGGAATGATG
917767 GGCA
1 GGCA
917771 AAAAAATGAA
Statistics
Matches: 137, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
33 28 0.20
34 35 0.26
35 74 0.54
ACGTcount: A:0.45, C:0.06, G:0.31, T:0.18
Consensus pattern (35 bp):
GGCATGGAATAAAAAAATGAAGGCATGGAATGATG
Found at i:919299 original size:79 final size:79
Alignment explanation
Indices: 919166--919516 Score: 472
Period size: 79 Copynumber: 4.4 Consensus size: 79
919156 GTTAAGTTTC
* * * *
919166 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTGTTTCCGCGGGGATACTCCAACTCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
919231 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
919245 TTAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
919310 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
919324 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
** *
919389 TTAGCTCCAAAACA
66 TTATTTCTAAAACA
* * *
919403 TCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCAC-A-GGGATACTCCAACCCCGG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTA-TTTC-CGAGGGGATACTCCAACCCC-G
** *
919466 CCTTTATTTCTAAAGCA
63 ATTTTATTTCTAAAACA
** *
919483 TCAATTTTTTTTTAATCGGGGATACTCTAACCCC
1 TCAA-TTTTTCATAATCGGGGATACTCCAACCCC
919517 AATTTTATTT
Statistics
Matches: 238, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
79 193 0.81
80 21 0.09
81 24 0.10
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
TTATTTCTAAAACA
Found at i:919454 original size:158 final size:159
Alignment explanation
Indices: 919166--919516 Score: 526
Period size: 158 Copynumber: 2.2 Consensus size: 159
919156 GTTAAGTTTC
* * *
919166 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTGTTTCCGCGGGGATACTCCAACTCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGATT
** * * * * * *
919231 TTATTTCTAAAACATTAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATA
66 TTAGCTCCAAAACATCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAAGGGATA
*
919296 CTCCAACCCCGG-TTTTATTTCTAAAACA
131 CTCCAACCCCGGCCTTTATTTCTAAAACA
919324 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGATT
919389 TTAGCTCCAAAACATCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTC-ACAGGGAT
66 TTAGCTCCAAAACATCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCGA-AGGGAT
*
919453 ACTCCAACCCCGGCCTTTATTTCTAAAGCA
130 ACTCCAACCCCGGCCTTTATTTCTAAAACA
** *
919483 TCAATTTTTTTTTAATCGGGGATACTCTAACCCC
1 TCAA-TTTTTCATAATCGGGGATACTCCAACCCC
919517 AATTTTATTT
Statistics
Matches: 174, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
157 1 0.01
158 129 0.74
159 18 0.10
160 26 0.15
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (159 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGATT
TTAGCTCCAAAACATCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAAGGGATA
CTCCAACCCCGGCCTTTATTTCTAAAACA
Found at i:924285 original size:13 final size:13
Alignment explanation
Indices: 924267--924292 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
924257 CAATTTTTTG
924267 TGTATCGATACAT
1 TGTATCGATACAT
924280 TGTATCGATACAT
1 TGTATCGATACAT
924293 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:926668 original size:21 final size:21
Alignment explanation
Indices: 926644--926690 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
926634 TTTAATGCTG
926644 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
926664 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
926685 ATTTTG
1 ATTTTG
926691 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:926829 original size:13 final size:13
Alignment explanation
Indices: 926811--926849 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
926801 ATAATCACCC
*
926811 TGTATCGATACAG
1 TGTATCGATACAA
926824 TGTATCGATACAA
1 TGTATCGATACAA
*
926837 TGTGTCGATACAA
1 TGTATCGATACAA
926850 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:926864 original size:20 final size:20
Alignment explanation
Indices: 926835--926913 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 20
926825 GTATCGATAC
*
926835 AATGTGTCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
926855 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
926880 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
926900 CATGTATCGATACA
1 AATGTATCGATACA
926914 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
20 31 0.63
25 18 0.37
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:928669 original size:15 final size:15
Alignment explanation
Indices: 928649--928679 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
928639 ATTTCGTTTG
*
928649 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
928664 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
928679 G
1 G
928680 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:930512 original size:21 final size:21
Alignment explanation
Indices: 930483--930527 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
930473 AAGTTTTCAT
*
930483 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAACTTCATTA
*
930503 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
930525 TTT
1 TTT
930528 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:932751 original size:13 final size:13
Alignment explanation
Indices: 932733--932758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
932723 CAATTTTTTG
932733 TGTATCGATACAT
1 TGTATCGATACAT
932746 TGTATCGATACAT
1 TGTATCGATACAT
932759 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:935384 original size:55 final size:55
Alignment explanation
Indices: 935300--935746 Score: 610
Period size: 55 Copynumber: 8.0 Consensus size: 55
935290 GACGCCTTTT
*
935300 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
* *
935355 CCTTTTAAAGCCCACACATGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
*
935410 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACG
* * *
935465 TCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
* * * * * *
935520 CCTTTCAAATCCTACACTAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
* * * * *
935575 CCTTTTCTTTTCAAAGACCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCATGATG
1 -C----CTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
* *
935636 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
* *
935691 CCTTTTAAAGCCCACACAAGTTGGTGGC-GCTTCCTAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACG
935746 C
1 C
935747 TCCCTCCTTT
Statistics
Matches: 344, Mismatches: 39, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
54 7 0.02
55 285 0.83
56 8 0.02
60 5 0.01
61 39 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (55 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:935838 original size:100 final size:95
Alignment explanation
Indices: 935665--935846 Score: 267
Period size: 100 Copynumber: 1.9 Consensus size: 95
935655 GTTGGTGGCA
* *
935665 CCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCGCTTCCTAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTC
935730 CTCAAAGAGCAGGACGCTCCCTCCTTTCGC
66 CTCAAAGAGCAGGACGCTCCCTCCTTTCGC
*
935760 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTC
1 CCTTTCAGTCCTCAAAGAGCAGGA---C-T--CCTTTCAAAGCCCACACAAGTTGGTGGCACTTC
*
935824 CTAGTCTTCAAAGAGCAGGACGC
60 CTAGTCCTCAAAGAGCAGGACGC
935847 CTTTTAAAGC
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
94 18 0.23
95 5 0.06
97 1 0.01
98 1 0.01
100 52 0.68
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (95 bp):
CCTTTCAGTCCTCAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTC
CTCAAAGAGCAGGACGCTCCCTCCTTTCGC
Found at i:935877 original size:55 final size:54
Alignment explanation
Indices: 935764--936366 Score: 564
Period size: 55 Copynumber: 10.4 Consensus size: 54
935754 TTTCGCCCTT
*
935764 TAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGACGCC-T----TTT-AAAGCCCACACAAGTTGGTGGCACTT-C
* *
935825 TAGTCTTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGCCACTTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC--TTC
* *
935881 TAGTCCTCACAGAGCATGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-
1 TAGTCCTCAAAGAGCAGGACGCC-T----TTT-AAAGCCCACACAAGTTGGTGGCA-CTTC
* * *
935941 TCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGCCACTTT
1 T-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
* *
935996 TCAGTCCTCAAAGAGTAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTT-
1 T-AGTCCTCAAAGAGCAGGACGC---C-TTTT--AAAGCCCACACAAGTTGGTGGCA-CTTC
* * * *
936057 TCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTAGTGACACTTT
1 T-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
* * *
936112 TCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGACACTTT
1 T-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
* * * * *
936167 TCAGTCCTCAAAGAGCAAGATGCTTTCTTTTTGCAAATCCCATACTAGTTGGTGGCATCTTC
1 T-AGTCCTCAAAGAGCAGGACGC---C-TTTT--AAAGCCCACACAAGTTGGTGGCA-CTTC
*
936229 TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACAAGTTGGTGGCACCTT-
1 TAGTCCTCAAAGAGCAGGACG-C----CTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTC
*
936289 TCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 T-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-C
*
936345 TAGTCCTCAAAGAGTAGGACGC
1 TAGTCCTCAAAGAGCAGGACGC
936367 TCCCTCCTTT
Statistics
Matches: 471, Mismatches: 40, Indels: 68
0.81 0.07 0.12
Matches are distributed among these distances:
54 9 0.02
55 200 0.42
56 33 0.07
57 7 0.01
58 3 0.01
59 8 0.02
60 5 0.01
61 167 0.35
62 34 0.07
63 5 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (54 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
Found at i:936069 original size:116 final size:116
Alignment explanation
Indices: 935764--936366 Score: 776
Period size: 116 Copynumber: 5.2 Consensus size: 116
935754 TTTCGCCCTT
* * *
935764 TAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACGAGTTGGTGGCA-CTTCCTAG
1 TAGTCCTCAAAGAGCAGGACGCCTTC-CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AG
* *
935828 TCTTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGCCACTTTTC
64 TCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGCCACTTTTC
* * *
935881 TAGTCCTCACAGAGCATGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 TAGTCCTCAAAGAGCAGGACGCCTTC-CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
*
935946 CCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGCCACTTTTC
65 CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGCCACTTTTC
* * * *
935998 -AGTCCTCAAAGAGTAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 TAGTCCTCAAAGAGCAGGACGCCTTCCTTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
936062 CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTAGTGACACTTTTC
65 CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGCCACTTTTC
* *
936114 -AGTCCTCAAAGAGCAGGA---C-TCCTTTT-AAAGCCCACACAAGTTGGTGACACTTTTCAGTC
1 TAGTCCTCAAAGAGCAGGACGCCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * * * * *
936173 CTCAAAGAGCAAGATGCTTTCTTTTTGCAAATCCCATACTAGTTGGTGGCA-TCTTC
66 CTCAAAGAGCAGGA--C--TCCTTTT--AAAGCCCACACAAGTTGGTGCCACTTTTC
* *
936229 TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACAAGTTGGTGGCACCTTTCAGT
1 TAGTCCTCAAAGAGCAGGACGCC-TTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
936294 CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCC
65 CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGCCACTTTTC
*
936345 TAGTCCTCAAAGAGTAGGACGC
1 TAGTCCTCAAAGAGCAGGACGC
936367 TCCCTCCTTT
Statistics
Matches: 429, Mismatches: 41, Indels: 33
0.85 0.08 0.07
Matches are distributed among these distances:
110 44 0.10
112 7 0.02
114 6 0.01
115 7 0.02
116 198 0.46
117 106 0.25
118 10 0.02
119 1 0.00
120 1 0.00
121 6 0.01
122 43 0.10
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (116 bp):
TAGTCCTCAAAGAGCAGGACGCCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGCCACTTTTC
Found at i:936132 original size:171 final size:173
Alignment explanation
Indices: 935760--936363 Score: 728
Period size: 171 Copynumber: 3.5 Consensus size: 173
935750 CTCCTTTCGC
* *
935760 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTC
1 CCTTTCAGTCCTCAAAGAGCAGGA---C-T--CCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
* * * *
935824 CTAGTCTTCAAAGAGCAGGACGC---C-TTTT--AAAGCCCACACAAGTTGGTGCCACTTTTCTA
60 CTAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCTA
* * *
935883 GTCCTCACAGAGCATGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCA
125 GTCCTCAAAGAGCA-G--GACTT--CCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
935937 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGCCACTT-TTCAGT
1 CCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT-AGT
*
936001 CCTCAAAGAGTAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCT
65 CCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCT
* *
936065 CAAAGAGCAGGAC-TCCTTTTAAAGCCCACACAAGTTAGTGACA
130 CAAAGAGCAGGACTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
936108 CTTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGACACTT-TTCAGT
1 CCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT-AGT
* * * * *
936172 CCTCAAAGAGCAAGATGCTTTCTTTTTGCAAATCCCATACTAGTTGGTGGCATC-TTCTAGTCCT
65 CCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCT
* *
936236 CAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACAAGTTGGTGGCA
130 CAAAGAGCAGGA---C-TTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
936285 CCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTC
*
936350 CTCAAAGAGTAGGA
66 CTCAAAGAGCAGGA
936364 CGCTCCCTCC
Statistics
Matches: 378, Mismatches: 33, Indels: 32
0.85 0.07 0.07
Matches are distributed among these distances:
170 3 0.01
171 154 0.41
172 47 0.12
173 1 0.00
174 3 0.01
175 2 0.01
176 11 0.03
177 111 0.29
178 46 0.12
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (173 bp):
CCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTC
CTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTC
AAAGAGCAGGACTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:936139 original size:27 final size:27
Alignment explanation
Indices: 936055--936139 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
936045 TGGTGGCACC
936055 TTTCAGTCCTCAAAGAGCAGGACTCCT
1 TTTCAGTCCTCAAAGAGCAGGACTCCT
* * * ** *
936082 TTTAAAGCCCACACAAG-TTAGTGAC-ACT
1 TTT-CAGTCCTCA-AAGAGCAG-GACTCCT
936110 TTTCAGTCCTCAAAGAGCAGGACTCCT
1 TTTCAGTCCTCAAAGAGCAGGACTCCT
936137 TTT
1 TTT
936140 AAAGCCCACA
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
26 6 0.15
27 16 0.39
28 13 0.32
29 6 0.15
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (27 bp):
TTTCAGTCCTCAAAGAGCAGGACTCCT
Found at i:936512 original size:156 final size:152
Alignment explanation
Indices: 936229--936519 Score: 383
Period size: 156 Copynumber: 1.9 Consensus size: 152
936219 TGGCATCTTC
*
936229 TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACAAGTTGGTGGCACCTTTCAGT
1 TAGTCCTCAAAGAGCAGGACGCC---TCTTTTCAAAGACCACACAAGTTGATGGCACCTTTCAGT
*
936294 CCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAG
63 CCTCAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAG
*
936359 TAGGACGCTCCCTCCTTTCGCCCTT
128 CAGGACGCTCCCTCCTTTCGCCCTT
* *
936384 TAGTCCTCAAAGAGCAGGACG-C-CTTTT-AAAGCCCACACAAGTTGATGGCACTTTTCTAGTCC
1 TAGTCCTCAAAGAGCAGGACGCCTCTTTTCAAAGACCACACAAGTTGATGGCACCTTTC-AGTCC
* * *
936446 TCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT-TTCAGTCTTCA
65 TCAAAGAGCAGGA---C-T--CCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT-AGTCCTCA
936510 AAGAGCAGGA
123 AAGAGCAGGA
936520 TGCTTTCTTT
Statistics
Matches: 120, Mismatches: 8, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
149 26 0.22
150 22 0.18
153 1 0.01
154 2 0.02
155 22 0.18
156 47 0.39
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (152 bp):
TAGTCCTCAAAGAGCAGGACGCCTCTTTTCAAAGACCACACAAGTTGATGGCACCTTTCAGTCCT
CAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAG
GACGCTCCCTCCTTTCGCCCTT
Found at i:936550 original size:61 final size:59
Alignment explanation
Indices: 936384--936635 Score: 306
Period size: 61 Copynumber: 4.3 Consensus size: 59
936374 TTTCGCCCTT
* *
936384 TAGTCCTCAAAGAGCAGGA-C-GCCTTTT-AAAGCCCACACAAGTTGATGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGAGCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
936440 TAGTCCTCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGA-G-CTTC-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * *
936502 -AGTCTTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGA-GC-TTCCTTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTC
*
936563 -AGTCCTCAAAGAGCAGGA-C-TCCTTTT-AAAGCCCACACAAGTTGGTGGCAC-TTCC
1 TAGTCCTCAAAGAGCAGGAGCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
936617 TAGTCCTCAAAGAGCAGGA
1 TAGTCCTCAAAGAGCAGGA
936636 CGCTCCCTCC
Statistics
Matches: 171, Mismatches: 16, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
54 3 0.02
55 40 0.23
56 18 0.11
57 6 0.04
59 2 0.01
60 5 0.03
61 69 0.40
62 28 0.16
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (59 bp):
TAGTCCTCAAAGAGCAGGAGCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:936599 original size:272 final size:270
Alignment explanation
Indices: 936114--936908 Score: 1140
Period size: 272 Copynumber: 2.9 Consensus size: 270
936104 GACACTTTTC
* *
936114 AGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGACACTTTTC-AGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
* * * ** * * * * *
936178 AGAGCAAGATGCTTTCTTTTTGCAAATCCCATACTAGTTGGTGGCA-TCTTCTAGTCCTCAAAGA
66 AGAGCAGGACGCCTTCCCTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCTTCAAAGA
*
936242 GCAGGACGCCTTT-TCTTTTCAAAGACCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCA
129 GCAGGACG-CTTTCT-TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCA
*
936306 GGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACGCTCCC
192 GGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCCC
*
936371 TCCTTTCGCCCTTT
257 TCCTTTCACCCTTT
*
936385 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGATGGCACTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
*
936450 AGAGTAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAG
66 AGAGCAGGACGCCTTC-CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAG
* * * *
936515 CAGGATGCTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGG
130 CAGGACGCTTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
936580 ACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCCCTC
194 ACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCCCTC
936645 CTTTCACCCTTT
259 CTTTCACCCTTT
* *
936657 AGTCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
*
936722 AGAGCAGGACGCCTTCACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAG
66 AGAGCAGGACGCCTTC-CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAG
*
936787 CAGGACGC---C--TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGA
130 CAGGACGCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
* * * *
936847 TGCTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCACTT-TTCAGTCCTCAAAGAGCAGGAC
195 --C--TCCTTTT--AAAGCCCACACAAGTTGGTGGCACTTCCT-AGTCCTCAAAGAGCAGGAC
936909 TCCTTTTGAA
Statistics
Matches: 476, Mismatches: 36, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
266 44 0.09
267 3 0.01
268 1 0.00
269 1 0.00
270 6 0.01
271 61 0.13
272 353 0.74
273 7 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (270 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
AGAGCAGGACGCCTTCCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGC
AGGACGCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCCCTCCT
TTCACCCTTT
Found at i:936606 original size:116 final size:120
Alignment explanation
Indices: 936384--936635 Score: 319
Period size: 116 Copynumber: 2.2 Consensus size: 120
936374 TTTCGCCCTT
* *
936384 TAGTCCTCAAAGAGCAGGACGC---C-TTTT--AAAGCCCACACAAGTTGATGGCACTTTTCTAG
1 TAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACAAGTTGATGGCACTTTTCTAG
* *
936443 TCCTCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT-T
66 TCCTCAAAGAGCAGGA--CCTTC-CCTTTCAAAGCCCACACAAGTTGGTGGCACTTCC
* * *
936500 TCAGTCTTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCACTTTTC-A
1 T-AGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACAAGTTGATGGCACTTTTCTA
*
936564 GTCCTCAAAGAGCAGGA-C-T-CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
65 GTCCTCAAAGAGCAGGACCTTCCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCC
936617 TAGTCCTCAAAGAGCAGGA
1 TAGTCCTCAAAGAGCAGGA
936636 CGCTCCCTCC
Statistics
Matches: 119, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
116 49 0.41
117 20 0.17
118 1 0.01
119 1 0.01
120 1 0.01
121 4 0.03
122 17 0.14
123 26 0.22
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
TAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACAAGTTGATGGCACTTTTCTAG
TCCTCAAAGAGCAGGACCTTCCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCC
Found at i:936764 original size:211 final size:213
Alignment explanation
Indices: 936440--936846 Score: 599
Period size: 211 Copynumber: 1.9 Consensus size: 213
936430 GGCACTTTTC
*
936440 TAGTCCTCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGT
1 TAGTCCTCAAAGAGTAGGACGCCTT---CTTTCAAAGCCCACACAAGTTGGGGGCACTTTTCAGT
* * * ** * * *
936505 CTTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCACTTTTCAGTCCTC
63 CCTCAAAGAGCAGGACGCCTTCCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* *
936570 AAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAG
128 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAG
936634 GACGCTCCCTCCTTTCACCCTT
192 GACGCTCCCTCCTTTCACCCTT
936656 TAGTCCTCAAAGAGTAGGACGCC-T-TTT-AAAGCCCACACAAGTTGGGGGCACTTTTCTAGTCC
1 TAGTCCTCAAAGAGTAGGACGCCTTCTTTCAAAGCCCACACAAGTTGGGGGCACTTTTC-AGTCC
*
936718 TCAAAGAGCAGGACGCCTTCACCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCA
65 TCAAAGAGCAGGACGCCTTC-CCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
* *
936782 AAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGA
129 AAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA
936847 TGCTTTCTTT
Statistics
Matches: 174, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
210 28 0.16
211 115 0.66
212 7 0.04
215 1 0.01
216 23 0.13
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (213 bp):
TAGTCCTCAAAGAGTAGGACGCCTTCTTTCAAAGCCCACACAAGTTGGGGGCACTTTTCAGTCCT
CAAAGAGCAGGACGCCTTCCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
GAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACG
CTCCCTCCTTTCACCCTT
Found at i:936823 original size:55 final size:55
Alignment explanation
Indices: 936652--936963 Score: 340
Period size: 55 Copynumber: 5.5 Consensus size: 55
936642 CTCCTTTCAC
* * *
936652 CCTTT-AGTCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGGGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
936706 CTTTTCTAGTCCTCAAAGAGCAGGACGCCTTCACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCA
*
936768 CCTTTCAGTCTTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
936823 CCTTTCAGTCTTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGC---C--TTT-CAAAGCCCACACAAGTTGGTGGCA
* * **
936884 CTTTTCAGTCCTCAAAGAGCAGGACTCCTTTTGAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
936939 -CTTCCTGGTCCTCAAAGAGTAGGAC
1 CCTTTC-AGTCCTCAAAGAGCAGGAC
936964 ACACTTCTTT
Statistics
Matches: 222, Mismatches: 21, Indels: 29
0.82 0.08 0.11
Matches are distributed among these distances:
54 7 0.03
55 92 0.41
56 22 0.10
58 2 0.01
60 3 0.01
61 64 0.29
62 32 0.14
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:936899 original size:116 final size:117
Alignment explanation
Indices: 936652--936963 Score: 425
Period size: 116 Copynumber: 2.7 Consensus size: 117
936642 CTCCTTTCAC
* * *
936652 CCTTT-AGTCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTTTCTAGT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGT
936716 CCTCAAAGAGCAGGACGCCTTCACCTTTCAAAGCCCACACAAGTTGGTGGCA
66 CCTCAAAGAGCAGGACGCCTTCACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
936768 CCTTTCAGTCTTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGT
* * * ** * *
936832 CTTCAAAGAGCAGGATGCTTTC-TTTTTGCAAATCCCACACTAGTTGGTGGCA
66 CCTCAAAGAGCAGGACGCCTTCACCTTT-CAAAGCCCACACAAGTTGGTGGCA
* * * * *
936884 CTTTTCAGTCCTCAAAGAGCAGGACTCCTTTTGAAGCCCACACAAGTTGGTGGCA-CTTCCTGGT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGT
*
936948 CCTCAAAGAGTAGGAC
66 CCTCAAAGAGCAGGAC
936964 ACACTTCTTT
Statistics
Matches: 171, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
115 7 0.04
116 114 0.67
117 50 0.29
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (117 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGT
CCTCAAAGAGCAGGACGCCTTCACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:937896 original size:18 final size:17
Alignment explanation
Indices: 937863--937910 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
937853 AAAAGATTAA
* * *
937863 AAATAATAATATTCAAT
1 AAATAATAAAAATCAAG
937880 ATAATAATAAAAATCAAG
1 A-AATAATAAAAATCAAG
*
937898 AAATAAAAAAAAT
1 AAATAATAAAAAT
937911 TCAAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (17 bp):
AAATAATAAAAATCAAG
Found at i:938010 original size:21 final size:20
Alignment explanation
Indices: 937985--938152 Score: 98
Period size: 14 Copynumber: 9.5 Consensus size: 20
937975 TGGAATGATG
937985 GGCATGGAATAAAAAAATGAA
1 GGCATGGAAT-AAAAAATGAA
*
938006 GGCATGGAAT----GATG--
1 GGCATGGAATAAAAAATGAA
938020 GGCATGGAATAAAAAAATGAA
1 GGCATGGAAT-AAAAAATGAA
*
938041 GGCATGGAAT----GATG--
1 GGCATGGAATAAAAAATGAA
938055 GGCATGGAATATAAAAATGAA
1 GGCATGGAATA-AAAAATGAA
*
938076 GGCATGGAAT----GATG--
1 GGCATGGAATAAAAAATGAA
938090 GGCAT-GAATAAAAAATGAA
1 GGCATGGAATAAAAAATGAA
*
938109 GGCATGGAAT----GAT--A
1 GGCATGGAATAAAAAATGAA
938123 GGCATGGAATAAAAAATGAA
1 GGCATGGAATAAAAAATGAA
938143 GGCATGGAAT
1 GGCATGGAAT
938153 GATGGGCAAA
Statistics
Matches: 112, Mismatches: 8, Indels: 55
0.64 0.05 0.31
Matches are distributed among these distances:
13 4 0.04
14 36 0.32
16 11 0.10
17 3 0.03
18 2 0.02
19 11 0.10
20 15 0.13
21 30 0.27
ACGTcount: A:0.46, C:0.06, G:0.30, T:0.18
Consensus pattern (20 bp):
GGCATGGAATAAAAAATGAA
Found at i:938011 original size:35 final size:35
Alignment explanation
Indices: 937969--938160 Score: 345
Period size: 35 Copynumber: 5.6 Consensus size: 35
937959 AAAAGAAAAC
937969 AAGGCATGGAATGATGGGCATGGAATAAAAAAATG
1 AAGGCATGGAATGATGGGCATGGAATAAAAAAATG
938004 AAGGCATGGAATGATGGGCATGGAATAAAAAAATG
1 AAGGCATGGAATGATGGGCATGGAATAAAAAAATG
*
938039 AAGGCATGGAATGATGGGCATGGAATATAAAAATG
1 AAGGCATGGAATGATGGGCATGGAATAAAAAAATG
938074 AAGGCATGGAATGATGGGCAT-GAAT-AAAAAATG
1 AAGGCATGGAATGATGGGCATGGAATAAAAAAATG
*
938107 AAGGCATGGAATGATAGGCATGGAAT-AAAAAATG
1 AAGGCATGGAATGATGGGCATGGAATAAAAAAATG
938141 AAGGCATGGAATGATGGGCA
1 AAGGCATGGAATGATGGGCA
938161 AAAAAATGAA
Statistics
Matches: 152, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
33 27 0.18
34 35 0.23
35 90 0.59
ACGTcount: A:0.44, C:0.06, G:0.32, T:0.18
Consensus pattern (35 bp):
AAGGCATGGAATGATGGGCATGGAATAAAAAAATG
Found at i:939327 original size:79 final size:79
Alignment explanation
Indices: 939213--939633 Score: 583
Period size: 79 Copynumber: 5.3 Consensus size: 79
939203 GTTAAGTTTC
* * * * * * *
939213 TCAAATTTTCACAATCGGGGATATTCCAACCCCGTTGTTTCCGCGGGGATACTCCAACTCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATT
939278 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
939292 TTAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATT
939357 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
939371 TCAATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATT
939436 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
939450 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATT
** *
939515 TTAGCTCCAAAACA
66 TTATTTCTAAAACA
* * * *
939529 CCAATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTC-ATGGGGATACTCCAACCCCGGC
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCCC-GA
** *
939593 CCTTATTTCTAAAGCA
64 TTTTATTTCTAAAACA
** *
939609 TCAATTTTTTTTAATCGAGGATACT
1 TCAATTTTTCATAATCGGGGATACT
939634 TTAACCCCAA
Statistics
Matches: 302, Mismatches: 38, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
78 1 0.00
79 271 0.90
80 30 0.10
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATT
TTATTTCTAAAACA
Found at i:941209 original size:18 final size:20
Alignment explanation
Indices: 941186--941222 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
941176 ACTTTGATTC
941186 TTTAAAAA-AA-GAAAAAAA
1 TTTAAAAACAATGAAAAAAA
941204 TTTAAAAACAATGAAAAAA
1 TTTAAAAACAATGAAAAAA
941223 TAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (20 bp):
TTTAAAAACAATGAAAAAAA
Found at i:942205 original size:14 final size:14
Alignment explanation
Indices: 942186--942212 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
942176 TTTTTTGGAA
942186 AAAAAAAGGAAGAG
1 AAAAAAAGGAAGAG
942200 AAAAAAAGGAAGA
1 AAAAAAAGGAAGA
942213 ATGGATGGCT
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAAAAAGGAAGAG
Found at i:946200 original size:20 final size:20
Alignment explanation
Indices: 946175--946241 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
946165 TTTCAACAAT
946175 TTGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
946195 TTGTATCGATAC----AA--
1 TTGTATCGATACATAAAATG
946209 -TGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
946228 TTGTATCGATACAT
1 TTGTATCGATACAT
946242 TATATCGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 25 0.62
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATAAAATG
Found at i:946214 original size:13 final size:13
Alignment explanation
Indices: 946196--946220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
946186 CATAAAATGT
946196 TGTATCGATACAA
1 TGTATCGATACAA
946209 TGTATCGATACA
1 TGTATCGATACA
946221 TAAAATGTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:946218 original size:33 final size:33
Alignment explanation
Indices: 946176--946275 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
946166 TTCAACAATT
946176 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*
946209 TGTATCGATACATAAAATGTTGTATCGATACAT
1 TGTATCGATACATAAAATGTTGTATCGATACAA
* *** *
946242 TATATCGATACATACTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
946275 T
1 T
946276 TTAAGCTACT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:946336 original size:13 final size:13
Alignment explanation
Indices: 946318--946353 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
946308 TACTCAAATG
946318 TATCGATACATTA
1 TATCGATACATTA
946331 TATCGATACATTA
1 TATCGATACATTA
946344 TATCGATACA
1 TATCGATACA
946354 CTGATCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:946422 original size:52 final size:52
Alignment explanation
Indices: 946362--946486 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
946352 CACTGATCTT
*
946362 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
946414 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
946466 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
946487 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:947166 original size:24 final size:24
Alignment explanation
Indices: 947131--947186 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
947121 GTTTGGTATA
*
947131 TTTTCTGTACTTTGACACTTTTAT
1 TTTTCTGCACTTTGACACTTTTAT
947155 TTTTCTGCACTTTGACACTTTTAT
1 TTTTCTGCACTTTGACACTTTTAT
947179 TTTTCTGC
1 TTTTCTGC
947187 TTATATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.14, C:0.20, G:0.09, T:0.57
Consensus pattern (24 bp):
TTTTCTGCACTTTGACACTTTTAT
Found at i:950424 original size:16 final size:15
Alignment explanation
Indices: 950403--950433 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
950393 TCGATACATC
950403 ACTGTTCATCACTGTT
1 ACTGTTCAT-ACTGTT
950419 ACTGTTCATACTGTT
1 ACTGTTCATACTGTT
950434 CACGTATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (15 bp):
ACTGTTCATACTGTT
Found at i:952356 original size:20 final size:20
Alignment explanation
Indices: 952331--952368 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
952321 TAATATTTTG
952331 AATTTTTT-ATTGAAGAGTCA
1 AATTTTTTCA-TGAAGAGTCA
952351 AATTTTTTCATGAAGAGT
1 AATTTTTTCATGAAGAGT
952369 TCAGTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (20 bp):
AATTTTTTCATGAAGAGTCA
Found at i:952427 original size:22 final size:21
Alignment explanation
Indices: 952402--952450 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
952392 ATATATATAT
*
952402 ATATAAATATAATAAATTGTAC
1 ATATAAA-ATAATAAAATGTAC
* *
952424 ATATCACAATAATAAAATGTAT
1 ATAT-AAAATAATAAAATGTAC
952446 ATATA
1 ATATA
952451 TAACTTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.87
23 2 0.09
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (21 bp):
ATATAAAATAATAAAATGTAC
Found at i:952689 original size:52 final size:51
Alignment explanation
Indices: 952598--952853 Score: 201
Period size: 48 Copynumber: 5.3 Consensus size: 51
952588 CTAAATACAT
** * * *
952598 ATATAAAATA-TTTTAAATATT-TTATTTTTATATAGTAATTTAGGATTTA
1 ATATAAAATATTTTTATTTTTTATTATTTTTAAATAGTAATTAAGGATTTA
* *
952647 CTCTAAAATATTTTTAATTTTTTATTATTTTTAAATAGTAATTCAA-GATTTA
1 ATATAAAATATTTTT-ATTTTTTATTATTTTTAAATAGTAATT-AAGGATTTA
* * *
952699 ATATAAAATA-TTTT-TTATTT-TCATTTTTAAATAGTAATTAAGTATTTA
1 ATATAAAATATTTTTATTTTTTATTATTTTTAAATAGTAATTAAGGATTTA
*
952747 ATATAAAATA----TA--TTTTATT-TTTTTAAATAGTAATTTAAAG-TTTAA
1 ATATAAAATATTTTTATTTTTTATTATTTTTAAATAGTAA-TTAAGGATTT-A
* *
952792 ATATAAAATATTTTTAGTTTTTTA--A-TTTT-AATAATAATCTGA-G-TTTA
1 ATATAAAATATTTTTA-TTTTTTATTATTTTTAAATAGTAAT-TAAGGATTTA
952839 ATATAAAATATTTTT
1 ATATAAAATATTTTT
952854 TAGTAGAGAA
Statistics
Matches: 171, Mismatches: 18, Indels: 38
0.75 0.08 0.17
Matches are distributed among these distances:
44 20 0.12
45 17 0.10
47 18 0.11
48 38 0.22
49 24 0.14
50 8 0.05
51 8 0.05
52 37 0.22
53 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (51 bp):
ATATAAAATATTTTTATTTTTTATTATTTTTAAATAGTAATTAAGGATTTA
Found at i:952839 original size:92 final size:92
Alignment explanation
Indices: 952666--952855 Score: 237
Period size: 92 Copynumber: 2.1 Consensus size: 92
952656 ATTTTTAATT
* *
952666 TTTTATTATTTTTAAATAGTAATTCAAGATTTAATATAAAATATTTTTTATTTTCATTTTTAAAT
1 TTTTATTATTTTTAAATAGTAATTAAAGATTTAATATAAAATATTTTTTATTTTCAATTTTAAAT
*
952731 AGTAATTAAGTATTTAATATAAAATATA
66 AATAATTAAG-ATTTAATATAAAATATA
*
952759 TTTTATT-TTTTTAAATAGTAATTTAAAG-TTTAAATATAAAATA-TTTTTAGTTTTTTAATTTT
1 TTTTATTATTTTTAAATAGTAA-TTAAAGATTT-AATATAAAATATTTTTTA--TTTTCAATTTT
* *
952821 -AATAATAATCTGAG-TTTAATATAAAATATT
62 AAATAATAAT-TAAGATTTAATATAAAATATA
952851 TTTTA
1 TTTTA
952856 GTAGAGAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
92 43 0.50
93 31 0.36
94 12 0.14
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (92 bp):
TTTTATTATTTTTAAATAGTAATTAAAGATTTAATATAAAATATTTTTTATTTTCAATTTTAAAT
AATAATTAAGATTTAATATAAAATATA
Found at i:956340 original size:152 final size:152
Alignment explanation
Indices: 956061--956363 Score: 466
Period size: 152 Copynumber: 2.0 Consensus size: 152
956051 GTGAGGTAAG
* * * * *
956061 ACAAGCTTTGCTATTTCTACATACATTTTGTTCTTAGTTGAAGTAGTTAGCGGTCTTAAGTTGTG
1 ACAAGCTTTGCTATTTCTACATAAATTTGGTTCTCAGTAGAAGTAGTTAACGGTCTTAAGTTGTG
*
956126 TTATCTCACAATGATTAAGCTTGCAGTTTCTTGTGGCCTTATATTCAAGTTGACCTATTATCAGT
66 TTATCTCACAATGATTAAGCTTGCAGTTTCTTGTGGCCTTATATTCAAGTTGACCTACTATCAGT
956191 GGGCATTTT-GGTTGGATATTTA
131 GGG-ATTTTAGGTTGGATATTTA
* *
956213 ACAAGCTTTGCTATTTCTATC-TAAATTTGGTTCTCAGTAGATGTAGTTAATGGTCTTAAGTTGT
1 ACAAGCTTTGCTATTTCTA-CATAAATTTGGTTCTCAGTAGAAGTAGTTAACGGTCTTAAGTTGT
* * *
956277 GTTATCTCACAATGGTTAAGCTTGCAGTTTCTTGTGGCCTTATATTCAAGTTGATCTGCTATCAG
65 GTTATCTCACAATGATTAAGCTTGCAGTTTCTTGTGGCCTTATATTCAAGTTGACCTACTATCAG
*
956342 TGGGTTTTTAGGTTGGATATTT
130 TGGGATTTTAGGTTGGATATTT
956364 TTGTTGCCCT
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
151 4 0.03
152 132 0.96
153 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (152 bp):
ACAAGCTTTGCTATTTCTACATAAATTTGGTTCTCAGTAGAAGTAGTTAACGGTCTTAAGTTGTG
TTATCTCACAATGATTAAGCTTGCAGTTTCTTGTGGCCTTATATTCAAGTTGACCTACTATCAGT
GGGATTTTAGGTTGGATATTTA
Found at i:962289 original size:16 final size:17
Alignment explanation
Indices: 962270--962303 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
962260 CCAAAAACAG
*
962270 AAAAGAAAAAAA-GTAA
1 AAAAAAAAAAAAGGTAA
962286 AAAAAAAAAAAAGGTAA
1 AAAAAAAAAAAAGGTAA
962303 A
1 A
962304 TCACGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAAAAGGTAA
Found at i:962295 original size:17 final size:17
Alignment explanation
Indices: 962270--962303 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
962260 CCAAAAACAG
*
962270 AAAAGAAAAAAAGTAAA
1 AAAAAAAAAAAAGTAAA
*
962287 AAAAAAAAAAAGGTAAA
1 AAAAAAAAAAAAGTAAA
962304 TCACGAAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAAAAGTAAA
Found at i:967696 original size:13 final size:13
Alignment explanation
Indices: 967678--967702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
967668 TACAGTGGTC
967678 ATGTATCGATACA
1 ATGTATCGATACA
967691 ATGTATCGATAC
1 ATGTATCGATAC
967703 TGTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:967720 original size:33 final size:32
Alignment explanation
Indices: 967661--967723 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
967651 ATCTTTGCAA
*
967661 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
967693 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
967724 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:971184 original size:62 final size:62
Alignment explanation
Indices: 971100--971225 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
971090 TCAAATGCCA
* * *
971100 CGAGATGGTGTTTGGGAAAATAACTCAAATCGGTCCATAATCAAAAACAGGAGACAACATCG
1 CGAGATGGTGTTCGGGAAAATAACTCAAATCGGTCCATAATAAAAAACAGGAGACAAAATCG
971162 CGAGATGGTGTTCGGGAAAATAACTCAAATCGGTCCATAATAAAAAACAGGAGACAAAATCG
1 CGAGATGGTGTTCGGGAAAATAACTCAAATCGGTCCATAATAAAAAACAGGAGACAAAATCG
971224 CG
1 CG
971226 CTATCTCACT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.18
Consensus pattern (62 bp):
CGAGATGGTGTTCGGGAAAATAACTCAAATCGGTCCATAATAAAAAACAGGAGACAAAATCG
Found at i:973665 original size:12 final size:12
Alignment explanation
Indices: 973625--973666 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
973615 TTGATGTTTT
973625 TGGCTGAG-ATG
1 TGGCTGAGAATG
973636 TGGCTG-GAATTG
1 TGGCTGAGAA-TG
973648 TGGCTGAGAATG
1 TGGCTGAGAATG
*
973660 TAGCTGA
1 TGGCTGA
973667 AAGCAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 1 0.04
11 7 0.26
12 16 0.59
13 3 0.11
ACGTcount: A:0.21, C:0.10, G:0.40, T:0.29
Consensus pattern (12 bp):
TGGCTGAGAATG
Found at i:974138 original size:52 final size:52
Alignment explanation
Indices: 974059--974157 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
974049 ATTTAACTAG
* *
974059 ATGTATCGATATATTGAAGAATATATCGATACATTTAGGTCAAAAACTCAGA
1 ATGTATCGATACAATGAAGAATATATCGATACATTTAGGTCAAAAACTCAGA
* * *
974111 ATGTATCGATACAATGAATAATGTATCGATACATTTGGGTCAAAAAC
1 ATGTATCGATACAATGAAGAATATATCGATACATTTAGGTCAAAAAC
974158 CCAAAATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACAATGAAGAATATATCGATACATTTAGGTCAAAAACTCAGA
Found at i:974309 original size:21 final size:19
Alignment explanation
Indices: 974260--974309 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
974250 AATGGTCCTG
*
974260 TATCGATACATTCATTTTG
1 TATCGATACATTCATTTTA
*
974279 TATTGATACATTCACTTCTTA
1 TATCGATACATTCA-TT-TTA
974300 TATCGATACA
1 TATCGATACA
974310 AATTATAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 13 0.50
20 2 0.08
21 11 0.42
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (19 bp):
TATCGATACATTCATTTTA
Found at i:974779 original size:20 final size:20
Alignment explanation
Indices: 974754--974809 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
974744 TCTGGAAAGG
974754 AAATGTATCGATACATAAGT
1 AAATGTATCGATACATAAGT
* ***
974774 AAATGTATCGATACGTGCTT
1 AAATGTATCGATACATAAGT
974794 AAATGTATCGATACAT
1 AAATGTATCGATACAT
974810 TTCTCATTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (20 bp):
AAATGTATCGATACATAAGT
Found at i:978728 original size:19 final size:18
Alignment explanation
Indices: 978704--978766 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
978694 ATCGATATAA
978704 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
978723 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
978736 TGTATCAATACATAAGTTT
1 TGTATCGATACATAAG-TT
978755 TGTATCGATACA
1 TGTATCGATACA
978767 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:978731 original size:32 final size:32
Alignment explanation
Indices: 978690--978779 Score: 144
Period size: 32 Copynumber: 2.8 Consensus size: 32
978680 TTTCAACAAT
*
978690 TTGTATCGATATAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* *
978722 TTGTATCGATACAATGTATCAATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
978754 TTGTATCGATACAATGTATCGCTACA
1 TTGTATCGATACAATGTATCGATACA
978780 AAGCTACTGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:992740 original size:14 final size:13
Alignment explanation
Indices: 992721--992751 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
992711 CATCATCCGT
*
992721 AAAAAAAAAAGCA
1 AAAAAAAAAAACA
992734 AAAAAAAAAAACA
1 AAAAAAAAAAACA
992747 AAAAA
1 AAAAA
992752 CAACAAAAAA
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:0.90, C:0.06, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:994221 original size:28 final size:29
Alignment explanation
Indices: 994181--994306 Score: 150
Period size: 28 Copynumber: 4.4 Consensus size: 29
994171 CACCCTGTCG
994181 AAAGCCCACAAGTCAGTGGCAACC-TTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTTCA
* *
994209 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC-TTTCA
* *
994239 GAAGCCCACAAGTCAGTGGC-ACCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC-TTTCA
**
994268 AAAGCCCACAAACCAGTGGCAACCTTT-A
1 AAAGCCCACAAGTCAGTGGCAACCTTTCA
*
994296 AAAGTCCACAA
1 AAAGCCCACAA
994307 CTCCGTAGCA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
28 33 0.38
29 28 0.33
30 25 0.29
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCAACCTTTCA
Found at i:994273 original size:29 final size:30
Alignment explanation
Indices: 994181--994294 Score: 162
Period size: 30 Copynumber: 3.9 Consensus size: 30
994171 CACCCTGTCG
*
994181 AAAGCCCACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCC
*
994209 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCC
*
994239 GAAGCCCACAAGTCAGTGGC-ACCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCC
**
994268 AAAGCCCACAAACCAGTGGCAACCTTT
1 AAAGCCCACAAGTCAGTGGCAACCTTT
994295 AAAAGTCCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
28 23 0.30
29 25 0.33
30 28 0.37
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.18
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCAACCTTTTCC
Found at i:994386 original size:68 final size:69
Alignment explanation
Indices: 994297--994530 Score: 294
Period size: 68 Copynumber: 3.4 Consensus size: 69
994287 CAACCTTTAA
*
994297 AAGTCCACAACTCCGTAGCACCTTTTTTCTTTTTAAAGCCCACAACTCTGTGGCATTC-TTTTCC
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCTGTGGCATTCTTTTTCC
*
994361 TTCT
66 TTTT
* *
994365 AAGTCCATAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTGTGGCATTCTTTTTCC
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCTGTGGCATTCTTTTTCC
994430 TTTTT
66 -TTTT
* * ** * ** *
994435 AAAGCCCATAACTCAATGGCA-CTCTTTTTCCTTTT-AAGCCCACAACTCCATGGCACTCTTTTT
1 -AAGTCCACAACTCCGTGGCACCT-TTTTTCTTTTTAAAGCCCACAACTCTGTGGCATTCTTTTT
994498 CCTTTT
64 CCTTTT
* *
994504 AAGTCCACAACTCGGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT
994531 AAGCCCACAA
Statistics
Matches: 144, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
68 75 0.52
69 11 0.08
70 32 0.22
71 26 0.18
ACGTcount: A:0.21, C:0.31, G:0.11, T:0.37
Consensus pattern (69 bp):
AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCTGTGGCATTCTTTTTCC
TTTT
Found at i:994482 original size:34 final size:35
Alignment explanation
Indices: 994290--994530 Score: 242
Period size: 34 Copynumber: 7.0 Consensus size: 35
994280 CCAGTGGCAA
* * *
994290 CCTTTAAAAGTCCACAACTCCGTAGCAC-CTTTTTT
1 CCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTT
* * *
994325 CTTTTTAAAGCCCACAACTCTGTGGCATTC-TTTT
1 CCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
994359 CCTTCT-AAGTCCATAACTCCGTGGCAC-CTTTCTT
1 CCTTTTAAAGCCCACAACTCCGTGGCACTCTTT-TT
* * *
994393 CTTTTTAAAGCCCACAACTCTGTGGCATTCTTTTT
1 CCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
* **
994428 CCTTTTTAAAGCCCATAACTCAATGGCACTCTTTTT
1 CC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
994464 CCTTTT-AAGCCCACAACTCCATGGCACTCTTTTT
1 CCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
994498 CCTTTT-AAGTCCACAACTCGGTGGCACCCTTTT
1 CCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
994531 AAGCCCACAA
Statistics
Matches: 171, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
32 1 0.01
33 19 0.11
34 69 0.40
35 46 0.27
36 36 0.21
ACGTcount: A:0.21, C:0.31, G:0.11, T:0.37
Consensus pattern (35 bp):
CCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:994528 original size:27 final size:27
Alignment explanation
Indices: 994498--994584 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
994488 CACTCTTTTT
* *
994498 CCTTTTAAGTCCACAACTCGGTGGCAC
1 CCTTTTAAGCCCACAACTCAGTGGCAC
*
994525 CCTTTTAAGCCCACAAGTCAGTGGCACC
1 CCTTTTAAGCCCACAACTCAGTGGCA-C
* * *
994553 CCTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTT-TAAGCCCACAACTCAGTGGCAC
994581 CCTT
1 CCTT
994585 CAAAAGCACA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
27 23 0.43
28 10 0.19
29 20 0.38
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.23
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCAGTGGCAC
Found at i:994530 original size:104 final size:103
Alignment explanation
Indices: 994290--994530 Score: 288
Period size: 104 Copynumber: 2.3 Consensus size: 103
994280 CCAGTGGCAA
* * * ** *
994290 CCTTTAAAAGTCCACAACTCCGTAGCACCTTTTTTCTTTTTAAAGCCCACAACTCTGTGGCATTC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTTAAAGCCCACAACTCAATGGCACTC
* * *
994355 TTTTCCTTCTAAGTCCATAACTCCGTGGCACCTTTCTT
66 TTTTCCTTCTAAGCCCACAACTCCATGGCACCTTTCTT
* * * * *
994393 CTTTTTAAAGCCCACAACTCTGTGGCATTCTTTTTCCTTTTTAAAGCCCATAACTCAATGGCACT
1 CCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTTTAAAGCCCACAACTCAATGGCACT
*
994458 CTTTTTCCTTTTAAGCCCACAACTCCATGGCACTCTTT-TT
65 C-TTTTCCTTCTAAGCCCACAACTCCATGGCAC-CTTTCTT
* *
994498 CCTTTT-AAGTCCACAACTCGGTGGCACCCTTTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTT
994531 AAGCCCACAA
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
103 27 0.23
104 50 0.43
105 34 0.30
106 4 0.03
ACGTcount: A:0.21, C:0.31, G:0.11, T:0.37
Consensus pattern (103 bp):
CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTTAAAGCCCACAACTCAATGGCACTC
TTTTCCTTCTAAGCCCACAACTCCATGGCACCTTTCTT
Found at i:994568 original size:29 final size:29
Alignment explanation
Indices: 994508--994625 Score: 113
Period size: 29 Copynumber: 4.2 Consensus size: 29
994498 CCTTTTAAGT
* * *
994508 CCACAACTCGGTGGCACCCTTT--TAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAAGC
994535 CCACAAGTCAGTGGCACCCCTTTC-AAAGC
1 CCACAAGTCAGTGGCA-CCCTTTCAAAAGC
*
994564 CCACAAGTCAGTGGCAACC-TTCAAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAAGC
* *
994592 ACACAAGT-TGAT-GCAACCCTTTCAAAAGC
1 CCACAAGTCAG-TGGC-ACCCTTTCAAAAGC
994621 CCACA
1 CCACA
994626 CAAGTTGATG
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
27 20 0.26
28 24 0.31
29 33 0.43
ACGTcount: A:0.31, C:0.35, G:0.16, T:0.18
Consensus pattern (29 bp):
CCACAAGTCAGTGGCACCCTTTCAAAAGC
Found at i:994607 original size:27 final size:30
Alignment explanation
Indices: 994552--994635 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 30
994542 TCAGTGGCAC
*
994552 CCCTTTC-AAAGCC-CACAAG-TCAGTGGCAA
1 CCCTTTCAAAAGCCACACAAGTTGA-T-GCAA
994581 -CC-TTCAAAAG-CACACAAGTTGATGCAA
1 CCCTTTCAAAAGCCACACAAGTTGATGCAA
994608 CCCTTTCAAAAGCCCACACAAGTTGATG
1 CCCTTTCAAAAG-CCACACAAGTTGATG
994636 GCGTCTTCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
27 8 0.17
28 15 0.32
29 10 0.21
31 14 0.30
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.19
Consensus pattern (30 bp):
CCCTTTCAAAAGCCACACAAGTTGATGCAA
Found at i:994845 original size:39 final size:39
Alignment explanation
Indices: 994802--994954 Score: 126
Period size: 39 Copynumber: 3.7 Consensus size: 39
994792 GACCAATGTT
*
994802 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCATAAGTCCAATATC
* * ** *
994841 GCTGGCTTTGAATCGGCGTATTGGCACCTTATCTTTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGG---C--A----TAAGTCCAATATC
* *
994889 GCTGGCCTTGAATCAGCACATCGGCACAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCATAAGTCCAATATC
* * *
994928 GATGGCCGTGAATCAGCATATTGGCAT
1 GCTGGCCTTGAATCAGCACATTGGCAT
994955 CTTTATCACT
Statistics
Matches: 87, Mismatches: 18, Indels: 18
0.71 0.15 0.15
Matches are distributed among these distances:
39 53 0.61
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
48 30 0.34
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (39 bp):
GCTGGCCTTGAATCAGCACATTGGCATAAGTCCAATATC
Found at i:994895 original size:87 final size:88
Alignment explanation
Indices: 994748--994953 Score: 288
Period size: 87 Copynumber: 2.4 Consensus size: 88
994738 TTGAAGTTTG
* *
994748 ATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAGACCAATGTTGCTGGCCTTGA
1 ATATCGATGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAGACCAATGTCGCTGGCCTTGA
* *
994813 ATCAGCACATTGGCATAAGCCCA
66 ATCAGCACATCGGCACAAGCCCA
* * * * ** *
994836 ATATCGCTGGCTTTGAATCGGCGTATTGGCACC-TTATCTTTAAGTCCAATGTCGCTGGCCTTGA
1 ATATCGATGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAGACCAATGTCGCTGGCCTTGA
*
994900 ATCAGCACATCGGCACAAGTCCA
66 ATCAGCACATCGGCACAAGCCCA
*
994923 ATATCGATGGCCGTGAATCAGCATATTGGCA
1 ATATCGATGGCCTTGAATCAGCATATTGGCA
994954 TCTTTATCAC
Statistics
Matches: 102, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 73 0.72
88 29 0.28
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (88 bp):
ATATCGATGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAGACCAATGTCGCTGGCCTTGA
ATCAGCACATCGGCACAAGCCCA
Found at i:995761 original size:19 final size:18
Alignment explanation
Indices: 995737--995832 Score: 102
Period size: 19 Copynumber: 5.7 Consensus size: 18
995727 ATCGATATAA
995737 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
995756 TGTATCGATACAT---TT
1 TGTATCGATACATAAGTT
995771 TGTATCGA-AC--AA---
1 TGTATCGATACATAAGTT
995783 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
995802 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
995821 TGTATCGATACA
1 TGTATCGATACA
995833 ATGTATCGCT
Statistics
Matches: 67, Mismatches: 0, Indels: 20
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.12
13 2 0.03
14 2 0.03
15 11 0.16
16 1 0.01
19 42 0.63
20 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:995790 original size:46 final size:49
Alignment explanation
Indices: 995722--995845 Score: 191
Period size: 46 Copynumber: 2.6 Consensus size: 49
995712 ATTTCAACAA
*
995722 TTTGTATCGATATAATGTATCGATACATAAGTGTTGTATCGATAC-A-T
1 TTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAAGT
995769 TTTGTATCGA-ACAATGTATCGATACATAAGTGTTGTATCGATACATAAGT
1 TTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATAC--AAGT
*
995819 TTTGTATCGATACAATGTATCGCTACA
1 TTTGTATCGATACAATGTATCGATACA
995846 AAGCTACTGC
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
46 33 0.47
47 10 0.14
49 1 0.01
50 11 0.16
51 15 0.21
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (49 bp):
TTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAAGT
Found at i:999343 original size:52 final size:52
Alignment explanation
Indices: 999216--999556 Score: 317
Period size: 53 Copynumber: 6.5 Consensus size: 52
999206 TATGACACTA
* ** * * *
999216 GACTTAATGATGATAAAGGTGCCAAGGTGCTGATTTAAAGCTAGCAATATTTG
1 GACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATA-TTG
* * * * * *
999269 GAGTTAAAGATGA-GAAGAGTGCCATTGTGTTTATTCAAGGCCAGCAATATTG
1 GACTTAAAGATGATAAAG-GTGCCAATATGCTGATTCAAGGCCAGCAATATTG
* * ** *
999321 GACTTAAAAATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGTGATATTT
1 GACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTG
* * * ** * *
999373 GACTTAAAGATGATAAGGGTGCCAATATGCTGATTTAAAGACCAGTGACATTA
1 GACTTAAAGATGATAAAGGTGCCAATATGCTGA-TTCAAGGCCAGCAATATTG
* * ** * * ** *
999426 GACTTAAAGATGATAAGGGTGCCAATGTAATGATTTAAGGCTAGCAGCATTA
1 GACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTG
*
999478 GACTTAAAGATGATAAAAGGTGCCAATATGTTGATTCAAGGCCAGCAATATTG
1 GACTTAAAGATGAT-AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTG
999531 GACTTAAAGATGAT-AAGAGTGCCAAT
1 GACTTAAAGATGATAAAG-GTGCCAAT
999557 GTACGATTCA
Statistics
Matches: 237, Mismatches: 46, Indels: 11
0.81 0.16 0.04
Matches are distributed among these distances:
51 3 0.01
52 109 0.46
53 125 0.53
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (52 bp):
GACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTG
Found at i:999559 original size:105 final size:105
Alignment explanation
Indices: 999216--999564 Score: 366
Period size: 105 Copynumber: 3.3 Consensus size: 105
999206 TATGACACTA
* * * * * * *
999216 GACTTAATGATGATAAAGGTGCCAAGGTGCTGATTTAAAGCTAGCAATATTTGGAGTTAAAGATG
1 GACTTAAAGATGATAAAGGTGCCAATGTACTGATTTAAGGCTAGCAGTA-TTAGACTTAAAGATG
* * * * *
999281 AGAAGA-GTGCCATTGTGTTTATTCAAGGCCAGCAATATTG
65 ATAAAAGGTGCCAATATGTTGATTCAAGGCCAGCAATATTG
* * * * * *
999321 GACTTAAAAATGATAAAGGTGCCAATATGCTGATTCAAGGCTAG-TGATATTTGACTTAAAGATG
1 GACTTAAAGATGATAAAGGTGCCAATGTACTGATTTAAGGCTAGCAG-TATTAGACTTAAAGATG
* * * * ** * *
999385 AT-AAGGGTGCCAATATGCTGATTTAAAGACCAGTGACATTA
65 ATAAAAGGTGCCAATATGTTGA-TTCAAGGCCAGCAATATTG
* * *
999426 GACTTAAAGATGATAAGGGTGCCAATGTAATGATTTAAGGCTAGCAGCATTAGACTTAAAGATGA
1 GACTTAAAGATGATAAAGGTGCCAATGTACTGATTTAAGGCTAGCAGTATTAGACTTAAAGATGA
999491 TAAAAGGTGCCAATATGTTGATTCAAGGCCAGCAATATTG
66 TAAAAGGTGCCAATATGTTGATTCAAGGCCAGCAATATTG
999531 GACTTAAAGATGAT-AAGAGTGCCAATGTAC-GATT
1 GACTTAAAGATGATAAAG-GTGCCAATGTACTGATT
999565 CAATGCCAAC
Statistics
Matches: 196, Mismatches: 42, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
103 1 0.01
104 31 0.16
105 146 0.74
106 18 0.09
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (105 bp):
GACTTAAAGATGATAAAGGTGCCAATGTACTGATTTAAGGCTAGCAGTATTAGACTTAAAGATGA
TAAAAGGTGCCAATATGTTGATTCAAGGCCAGCAATATTG
Found at i:999834 original size:32 final size:32
Alignment explanation
Indices: 999720--999883 Score: 197
Period size: 33 Copynumber: 5.1 Consensus size: 32
999710 TCGTGCAGAC
*
999720 TTTGAGAAAGGATGCCACCAACTTGTGTGGGCT
1 TTTGA-AAAGGTTGCCACCAACTTGTGTGGGCT
** *
999753 TTTGAGAAAGGAAGCCACCGACTTGTGTGGGC-
1 TTTGA-AAAGGTTGCCACCAACTTGTGTGGGCT
* *
999785 TTTGAAAGGGTTCCCACCAACTTGTGTGGGCT
1 TTTGAAAAGGTTGCCACCAACTTGTGTGGGCT
* *
999817 TTTGAAAAAGTTGCCACCAACTTGTGTGAGCT
1 TTTGAAAAGGTTGCCACCAACTTGTGTGGGCT
*
999849 TTTGAAAAGGGTTGCCA-CAGACTTTTGTGGGCT
1 TTTGAAAA-GGTTGCCACCA-ACTTGTGTGGGCT
999882 TT
1 TT
999884 GTAAATGGTG
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
31 21 0.18
32 43 0.38
33 50 0.44
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (32 bp):
TTTGAAAAGGTTGCCACCAACTTGTGTGGGCT
Found at i:999899 original size:31 final size:33
Alignment explanation
Indices: 999732--999905 Score: 159
Period size: 32 Copynumber: 5.4 Consensus size: 33
999722 TGAGAAAGGA
*
999732 TGCCACCA-ACTTGTGTGGGCTTTTGAGAAA-GGA
1 TGCCA-CAGACTTGTGTGGGCTTTTGA-AAAGGGT
* *
999765 AGCCACCGACTTGTGTGGGC-TTTG-AAAGGGT
1 TGCCACAGACTTGTGTGGGCTTTTGAAAAGGGT
* *
999796 TCCCACCA-ACTTGTGTGGGCTTTTGAAAA-AGT
1 TGCCA-CAGACTTGTGTGGGCTTTTGAAAAGGGT
*
999828 TGCCACCA-ACTTGTGTGAGCTTTTGAAAAGGGT
1 TGCCA-CAGACTTGTGTGGGCTTTTGAAAAGGGT
* * *
999861 TGCCACAGACTTTTGTGGGC-TTTGTAAATGG-
1 TGCCACAGACTTGTGTGGGCTTTTGAAAAGGGT
*
999892 TGCCACAGAGTTGT
1 TGCCACAGACTTGT
999906 AAACTTTAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
30 3 0.03
31 29 0.25
32 50 0.42
33 36 0.31
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (33 bp):
TGCCACAGACTTGTGTGGGCTTTTGAAAAGGGT
Found at i:999965 original size:29 final size:29
Alignment explanation
Indices: 999890--999981 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 29
999880 CTTTGTAAAT
* ** *
999890 GGTGCCACAGAGTTGTAAACTTTAAAAGAA
1 GGTGCCACAAAGTTGTGGACTTTAAAAG-G
*
999920 GGTTCCACAAAGTTGTGGACTTTAAAAGG
1 GGTGCCACAAAGTTGTGGACTTTAAAAGG
*
999949 GGTGCTACAAAGTTGTGGACTTTAAAAGG
1 GGTGCCACAAAGTTGTGGACTTTAAAAGG
999978 GGTG
1 GGTG
999982 TCACTGAGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 31 0.56
30 24 0.44
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (29 bp):
GGTGCCACAAAGTTGTGGACTTTAAAAGG
Found at i:1000426 original size:52 final size:52
Alignment explanation
Indices: 1000370--1000587 Score: 188
Period size: 52 Copynumber: 4.2 Consensus size: 52
1000360 GAGCTGGATT
* *
1000370 TTAAAGATGATAAAGGTACCAACATGCTGAT-TCAAGGCCAGCAACATTGGAC
1 TTAAAGATGAGAAAGGTACCAACATGCTGATCT-AAGGCCAGCAACATTAGAC
* * * * *
1000422 TTAAAGATGACAAAGATGCCAACATGCTGATCTAAGGCTAGCGACATTAGAC
1 TTAAAGATGAGAAAGGTACCAACATGCTGATCTAAGGCCAGCAACATTAGAC
* * * * ** * * *
1000474 TTAAAGATGAGCAATGTGCTAATGTG-TCAATCCAAGGCCAGCGACATTAGAC
1 TTAAAGATGAGAAAGGTACCAACATGCT-GATCTAAGGCCAGCAACATTAGAC
* * ** * * *
1000526 TTAATGGTGAGAAAGGTACCAATGTGCCGATCTAAGGCCAGCAATATTGGAC
1 TTAAAGATGAGAAAGGTACCAACATGCTGATCTAAGGCCAGCAACATTAGAC
*
1000578 TTAGAGATGA
1 TTAAAGATGA
1000588 CAATTTTTGA
Statistics
Matches: 132, Mismatches: 31, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
51 1 0.01
52 130 0.98
53 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (52 bp):
TTAAAGATGAGAAAGGTACCAACATGCTGATCTAAGGCCAGCAACATTAGAC
Found at i:1000521 original size:104 final size:103
Alignment explanation
Indices: 1000402--1000591 Score: 236
Period size: 104 Copynumber: 1.8 Consensus size: 103
1000392 CATGCTGATT
* * * * *
1000402 CAAGGCCAGCAACATTGGACTTAAAGATGACAAAGATGCCAACATGCTGATCTAAGGCTAGCGAC
1 CAAGGCCAGCAACATTAGACTTAAAGATGACAAAGATACCAACATGCCGATCTAAGGCCAGCAAC
1000467 ATTAGACTTAAAGATGAGCAATGTGCTAATGTGTCAATC
66 ATTAGACTTAAAGATGA-CAATGTGCTAATGTGTCAATC
* * * * * ** *
1000506 CAAGGCCAGCGACATTAGACTTAATGGTGAGAAAGGTACCAATGTGCCGATCTAAGGCCAGCAAT
1 CAAGGCCAGCAACATTAGACTTAAAGATGACAAAGATACCAACATGCCGATCTAAGGCCAGCAAC
* *
1000571 ATTGGACTTAGAGATGACAAT
66 ATTAGACTTAAAGATGACAAT
1000592 TTTTGACAAG
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
103 4 0.06
104 67 0.94
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (103 bp):
CAAGGCCAGCAACATTAGACTTAAAGATGACAAAGATACCAACATGCCGATCTAAGGCCAGCAAC
ATTAGACTTAAAGATGACAATGTGCTAATGTGTCAATC
Found at i:1001904 original size:24 final size:23
Alignment explanation
Indices: 1001877--1001934 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
1001867 TTTTTTATTT
1001877 TTTTTATTTTG-ATTGGTTTCTTTG
1 TTTTTATTTTGTATTGG-TT-TTTG
** *
1001901 TTTTGGTTTTGTTTTGGTTTTTG
1 TTTTTATTTTGTATTGGTTTTTG
1001924 TTTTTCATTTT
1 TTTTT-ATTTT
1001935 TTTTATAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
23 8 0.30
24 15 0.56
25 4 0.15
ACGTcount: A:0.05, C:0.03, G:0.17, T:0.74
Consensus pattern (23 bp):
TTTTTATTTTGTATTGGTTTTTG
Found at i:1001913 original size:11 final size:12
Alignment explanation
Indices: 1001897--1001927 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
1001887 GATTGGTTTC
1001897 TTTGTTTTGG-T
1 TTTGTTTTGGTT
1001908 TTTGTTTTGGTT
1 TTTGTTTTGGTT
1001920 TTTGTTTT
1 TTTGTTTT
1001928 TCATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (12 bp):
TTTGTTTTGGTT
Found at i:1011489 original size:20 final size:20
Alignment explanation
Indices: 1011466--1011540 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
1011456 AAGTACCCAG
*
1011466 ATGTATCGATAGATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1011486 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1011506 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1011526 ATGTATCAATACATT
1 ATGTATCGATACATT
1011541 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1011849 original size:16 final size:16
Alignment explanation
Indices: 1011830--1011861 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1011820 CCACCAACCT
1011830 ATCCCATTATCAACAA
1 ATCCCATTATCAACAA
1011846 ATCCCATTATCAACAA
1 ATCCCATTATCAACAA
1011862 CAACATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (16 bp):
ATCCCATTATCAACAA
Found at i:1015456 original size:20 final size:22
Alignment explanation
Indices: 1015411--1015467 Score: 84
Period size: 20 Copynumber: 2.7 Consensus size: 22
1015401 CATAAGTAAA
1015411 TGTATCGATACATT-TACTATT
1 TGTATCGATACATTATACTATT
*
1015432 TGTATCAATACATTAT-CTA-T
1 TGTATCGATACATTATACTATT
1015452 TGTATCGATACATTAT
1 TGTATCGATACATTAT
1015468 GGGTTTCTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 16 0.48
21 16 0.48
22 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.46
Consensus pattern (22 bp):
TGTATCGATACATTATACTATT
Found at i:1022698 original size:22 final size:23
Alignment explanation
Indices: 1022673--1022729 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
1022663 GTCGATGATG
*
1022673 GCTGCTGTTGTTGGT-GTTGGTT
1 GCTGCTGTTGTTGATAGTTGGTT
* *
1022695 GCTG-TGGCTGCT-ATAGTTGGTT
1 GCTGCT-GTTGTTGATAGTTGGTT
1022717 GCTGCTGTTGTTG
1 GCTGCTGTTGTTG
1022730 CCACCATTGG
Statistics
Matches: 26, Mismatches: 5, Indels: 7
0.68 0.13 0.18
Matches are distributed among these distances:
21 2 0.08
22 23 0.88
23 1 0.04
ACGTcount: A:0.04, C:0.12, G:0.39, T:0.46
Consensus pattern (23 bp):
GCTGCTGTTGTTGATAGTTGGTT
Found at i:1023061 original size:38 final size:39
Alignment explanation
Indices: 1023006--1023095 Score: 114
Period size: 38 Copynumber: 2.3 Consensus size: 39
1022996 TGTTTGATTG
* *
1023006 CTTTTGCCATTTCTTTCTTATTGCAGCAGC-T-GTTACTT
1 CTTTTTCCATTT-TTTCTTATTGCAACAGCTTAGTTACTT
1023044 ACTTTTTCCATTTTTTCTTATTGCAACAGCTTAGTTACTT
1 -CTTTTTCCATTTTTTCTTATTGCAACAGCTTAGTTACTT
*
1023084 -TTTATCCATTTT
1 CTTTTTCCATTTT
1023096 CCTTCAGCTG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
38 27 0.59
39 12 0.26
40 7 0.15
ACGTcount: A:0.17, C:0.21, G:0.09, T:0.53
Consensus pattern (39 bp):
CTTTTTCCATTTTTTCTTATTGCAACAGCTTAGTTACTT
Found at i:1023123 original size:22 final size:22
Alignment explanation
Indices: 1023093--1023138 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1023083 TTTTATCCAT
*
1023093 TTTCCTTCAGCTGCTAATGCCA
1 TTTCCTTCAACTGCTAATGCCA
* *
1023115 TTTCTTTCAACTGCTGATGCCA
1 TTTCCTTCAACTGCTAATGCCA
1023137 TT
1 TT
1023139 ACTCTCTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.17, C:0.28, G:0.13, T:0.41
Consensus pattern (22 bp):
TTTCCTTCAACTGCTAATGCCA
Found at i:1023148 original size:25 final size:23
Alignment explanation
Indices: 1023093--1023148 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
1023083 TTTTATCCAT
*
1023093 TTTC-CTTCAGCTGCTAATGCCA
1 TTTCTCTTCAACTGCTAATGCCA
*
1023115 TTTCT-TTCAACTGCTGATGCCA
1 TTTCTCTTCAACTGCTAATGCCA
1023137 TTACTCTCTTCA
1 TT--TCTCTTCA
1023149 GCATTTAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 21 0.75
24 3 0.11
25 4 0.14
ACGTcount: A:0.18, C:0.30, G:0.11, T:0.41
Consensus pattern (23 bp):
TTTCTCTTCAACTGCTAATGCCA
Found at i:1023205 original size:21 final size:17
Alignment explanation
Indices: 1023155--1023199 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
1023145 TTCAGCATTT
1023155 AAGCTTTCATGAAATTA
1 AAGCTTTCATGAAATTA
1023172 AAGCTTTCATGAAATTA
1 AAGCTTTCATGAAATTA
1023189 AAGCTTTCATG
1 AAGCTTTCATG
1023200 CATGAATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (17 bp):
AAGCTTTCATGAAATTA
Found at i:1023318 original size:3 final size:3
Alignment explanation
Indices: 1023310--1023369 Score: 58
Period size: 3 Copynumber: 21.7 Consensus size: 3
1023300 GACCTTCCTT
* * *
1023310 TTA TTA TTA TTA TTA TT- TTA TTA CTA -TA TTT TTA TT- TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1023355 TT- TT- TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
1023370 TTTTAAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
2 9 0.19
3 39 0.81
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1023332 original size:14 final size:14
Alignment explanation
Indices: 1023313--1023371 Score: 68
Period size: 14 Copynumber: 4.1 Consensus size: 14
1023303 CTTCCTTTTA
1023313 TTATTATTATTATT
1 TTATTATTATTATT
*
1023327 TTATTACTA-TATTT
1 TTATTATTATTA-TT
1023341 TTATTTAATTATTATT
1 TTA-TT-ATTATTATT
1023357 TT-TTATTATTATT
1 TTATTATTATTATT
1023370 TT
1 TT
1023372 TTAAATAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 13 0.33
14 15 0.38
15 2 0.05
16 7 0.18
17 2 0.05
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTATTATTATT
Found at i:1023354 original size:30 final size:31
Alignment explanation
Indices: 1023308--1023372 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 31
1023298 TTGACCTTCC
*
1023308 TTTTATTATTATTATTATTTTATTACTA-TAT
1 TTTTATTATAATTATTATTTT-TTACTATTAT
*
1023339 TTTTATT-TAATTATTATTTTTTATTATTAT
1 TTTTATTATAATTATTATTTTTTACTATTAT
1023369 TTTT
1 TTTT
1023373 TAAATAACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 5 0.16
30 19 0.61
31 7 0.23
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (31 bp):
TTTTATTATAATTATTATTTTTTACTATTAT
Found at i:1023366 original size:13 final size:13
Alignment explanation
Indices: 1023316--1023374 Score: 66
Period size: 13 Copynumber: 4.2 Consensus size: 13
1023306 CCTTTTATTA
1023316 TTATTATTATTTT
1 TTATTATTATTTT
1023329 ATTACTATATT-TTTAT
1 -TTA-T-TATTATTT-T
1023345 TTAATTATTATTTT
1 TT-ATTATTATTTT
1023359 TTATTATTATTTT
1 TTATTATTATTTT
1023372 TTA
1 TTA
1023375 AATAACTCGA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
13 14 0.35
14 10 0.25
15 10 0.25
16 6 0.15
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:1023372 original size:14 final size:14
Alignment explanation
Indices: 1023308--1023373 Score: 62
Period size: 14 Copynumber: 4.4 Consensus size: 14
1023298 TTGACCTTCC
*
1023308 TTTTATTATTATTA
1 TTTTTTTATTATTA
*
1023322 TTATTTTATTACTATA
1 TTTTTTTATTA-T-TA
1023338 TTTTTATTTAATTATTA
1 -TTTT-TTT-ATTATTA
1023355 -TTTTTTATTATTA
1 TTTTTTTATTATTA
1023368 TTTTTT
1 TTTTTT
1023374 AAATAACTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
13 7 0.16
14 17 0.40
15 4 0.09
16 2 0.05
17 5 0.12
18 4 0.09
19 4 0.09
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTTTATTATTA
Found at i:1027023 original size:167 final size:163
Alignment explanation
Indices: 1026664--1027217 Score: 435
Period size: 167 Copynumber: 3.3 Consensus size: 163
1026654 GGGTTTTCTT
* * *
1026664 CTTCGTAAATTTTTTCGGGAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTGGT
1 CTTCATAAATTTTTT-GGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATA-T-GT
* * * * * * * * * *
1026729 -ATTTAATTCATAGTAAATCAGTTCTCAAAAATTCATTTATTTTCATAAATTTTTGAATTTTTTT
63 CATTTAATTCACATTAAATTAGTTTTGAAAATTTAATTCATTTTCATGAGTTTTTG-ATTTTTTT
* * * *
1026793 CCTTT-AAATTCTTATTTTCT-AAAATATGGTA-TTTTCTA
127 -CTTTGAAATCCCT-TTTTCTGAAAA-ACGG-AGTTTCCTA
* ** * *
1026831 CTTCGTAAATTGTTTTGAAGGGATTTTTCTTGGTTTTTAATTTTTAATATTCATAAAATATCATC
1 CTTCATAAATT-TTTTGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATAT-GTC
*
1026896 ATTTAATTCACATTAAATTAGTTTTGAAAATTTAATTCATTTTCATGAGTTATTGATTTTTTTCT
64 ATTTAATTCACATTAAATTAGTTTTGAAAATTTAATTCATTTTCATGAGTTTTTGATTTTTTTCT
*
1026961 TTGAAATCCCCTTTTTCTTGAAAAACAGAGTTTCCTA
129 TTGAAAT-CCCTTTTTC-TGAAAAACGGAGTTTCCTA
* ** *
1026998 -TTCTATAAATATTTTTGGGGGGA-TTTTCTTTGGTCTAAAATTTTTAAAATGT-ATCTAACA-A
1 CTTC-ATAAAT-TTTTTGGGGGGATTTTTC-TTGGTTTTTAATTTTTAAAAT-TCA--TAAAATA
** * * * *
1027059 TGTCATGGAATTC-CTGTTAAATTATTTTTGAAAATTTAATTCATTTTGATGAGTTTTTGATTTC
60 TGTCATTTAATTCAC-ATTAAATTAGTTTTGAAAATTTAATTCATTTTCATGAGTTTTTGATTTT
* * * *
1027123 TTTCCTTGAAATGCCCTGTTTCTGAAATACGGAGTTTTCTA
124 TTTCTTTGAAAT-CCCTTTTTCTGAAAAACGGAGTTTCCTA
* * * * * **
1027164 CTCCGT-AATTGTTTTCGGGAGGACTTTTCTCGGTTTAAAATTTTTAAAATTCAT
1 CTTCATAAATT-TTTT-GGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCAT
1027218 CTAATATTGT
Statistics
Matches: 318, Mismatches: 50, Indels: 41
0.78 0.12 0.10
Matches are distributed among these distances:
164 2 0.01
165 12 0.04
166 72 0.23
167 216 0.68
168 12 0.04
169 4 0.01
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (163 bp):
CTTCATAAATTTTTTGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATGTCAT
TTAATTCACATTAAATTAGTTTTGAAAATTTAATTCATTTTCATGAGTTTTTGATTTTTTTCTTT
GAAATCCCTTTTTCTGAAAAACGGAGTTTCCTA
Found at i:1027446 original size:14 final size:16
Alignment explanation
Indices: 1027427--1027465 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
1027417 TTTTATCTTA
1027427 ATTTTTA-AATTT-TT
1 ATTTTTATAATTTATT
1027441 ATTTTTATAATTTAATT
1 ATTTTTATAATTT-ATT
1027458 ATTTTTAT
1 ATTTTTAT
1027466 TGATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
17 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTTATAATTTATT
Found at i:1028818 original size:33 final size:33
Alignment explanation
Indices: 1028780--1028846 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
1028770 GTTACAAGCT
*
1028780 ATGTATCGATACATT-TCAGCATGTATCGATACA
1 ATGTATCGATACATTAT-ACCATGTATCGATACA
1028813 ATGTATCGATACATTATACCATGTATCGATACA
1 ATGTATCGATACATTATACCATGTATCGATACA
1028846 A
1 A
1028847 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACATTATACCATGTATCGATACA
Found at i:1028831 original size:20 final size:20
Alignment explanation
Indices: 1028808--1028845 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1028798 GCATGTATCG
1028808 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
1028828 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
1028846 AATAGTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:1028844 original size:13 final size:13
Alignment explanation
Indices: 1028800--1028825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1028790 ACATTTCAGC
1028800 ATGTATCGATACA
1 ATGTATCGATACA
1028813 ATGTATCGATACA
1 ATGTATCGATACA
1028826 TTATACCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1029507 original size:22 final size:22
Alignment explanation
Indices: 1029481--1029532 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
1029471 TTCTCTTTAA
*
1029481 AATTTCTCCCCCTTGATCAAAG
1 AATTTCTCCCCCTTAATCAAAG
* *
1029503 CATTTCTCCCCCTTAATCAAGG
1 AATTTCTCCCCCTTAATCAAAG
1029525 AATTTCTC
1 AATTTCTC
1029533 AAAAACATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.33, G:0.08, T:0.35
Consensus pattern (22 bp):
AATTTCTCCCCCTTAATCAAAG
Found at i:1029594 original size:40 final size:40
Alignment explanation
Indices: 1029539--1029619 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
1029529 TCTCAAAAAC
* *
1029539 ATTTCTCCCCCTTTAAGCGGTTATCTTCCCCTATATTAAA
1 ATTTCTCCCCCTTTAAGCGGTTATCTCCCCCTATATGAAA
*
1029579 ATTTCTCCCCCTTTAAGTGGTTATCTCCCCCTATATGAAA
1 ATTTCTCCCCCTTTAAGCGGTTATCTCCCCCTATATGAAA
1029619 A
1 A
1029620 AATTTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.38
Consensus pattern (40 bp):
ATTTCTCCCCCTTTAAGCGGTTATCTCCCCCTATATGAAA
Found at i:1037691 original size:33 final size:33
Alignment explanation
Indices: 1037654--1037716 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
1037644 GTTACAAGCT
* * *
1037654 ATGTATTGATACATTTTAGCATGTATCGATGCA
1 ATGTATCGATACATTGTACCATGTATCGATGCA
1037687 ATGTATCGATACATTGTACCATGTATCGAT
1 ATGTATCGATACATTGTACCATGTATCGAT
1037717 ACATATAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATGCA
Found at i:1037793 original size:19 final size:19
Alignment explanation
Indices: 1037749--1037821 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
1037739 CTGCCAATCT
* **
1037749 CATGTATCAATACAACTGTC
1 CATGTATCGATACAA-TGAA
1037769 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1037788 CATGTATCGATACAATGCAA
1 CATGTATCGATACAATG-AA
*
1037808 TATGTATCGATACA
1 CATGTATCGATACA
1037822 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.40
20 29 0.60
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1039929 original size:34 final size:33
Alignment explanation
Indices: 1039865--1039934 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
1039855 CTATCACTAT
*
1039865 TTGTATCGATACATGGGACAATGTATCGATACA
1 TTGTATCAATACATGGGACAATGTATCGATACA
1039898 TTGTATCAATACATGAGGA-AACTGTATCGATACA
1 TTGTATCAATACATG-GGACAA-TGTATCGATACA
1039932 TTG
1 TTG
1039935 CTTGTAATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (33 bp):
TTGTATCAATACATGGGACAATGTATCGATACA
Found at i:1040535 original size:34 final size:33
Alignment explanation
Indices: 1040468--1040535 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
1040458 TTCAACGATT
*
1040468 TGTATCGATACATAAAGTGTTGTCTCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
** *
1040501 TGTATCGATACATATTTGTTTTGTATCGATACAA
1 TGTATCGATACATA-AAGTGTTGTATCGATACAA
1040535 T
1 T
1040536 TTAAGTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1040594 original size:13 final size:13
Alignment explanation
Indices: 1040576--1040601 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1040566 ATTACTCAAA
1040576 TGTATCGATACAT
1 TGTATCGATACAT
1040589 TGTATCGATACAT
1 TGTATCGATACAT
1040602 GTAGGCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1040667 original size:52 final size:52
Alignment explanation
Indices: 1040589--1040713 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
1040579 ATCGATACAT
* *
1040589 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1040641 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1040693 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1040714 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1047711 original size:16 final size:16
Alignment explanation
Indices: 1047690--1047721 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1047680 AAAAAAAAGT
1047690 CAAAAAACAAACAAAA
1 CAAAAAACAAACAAAA
*
1047706 CAAAAAACACACAAAA
1 CAAAAAACAAACAAAA
1047722 AAGTGCAAAG
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:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAAAAACAAACAAAA
Found at i:1049078 original size:34 final size:33
Alignment explanation
Indices: 1049031--1050070 Score: 747
Period size: 34 Copynumber: 32.4 Consensus size: 33
1049021 GTGGCAATCT
**
1049031 CTTCTAAGCCCACAACTCTATGGCACTCTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCAC-CTTTTTC
*
1049065 CTTCTAAGTCCACAACTCCGTGGCACC-----C
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
* *
1049093 GTT-TAAGCCCACAACTCCGTGACACTCTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCAC-CTTTTTC
*
1049126 CTTCTAAGCCCACAACTCTGTGGCACTCTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCAC-CTTTTTC
* * * * *
1049160 CTTCTAAGTCCACGACCCCGTGGCATCTTGTTC
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
* *
1049193 CTTCAAAGTCCACAACTCCGTGGCACCTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
* *
1049226 TTTTTAAAGCCCACAACTCCGTGGCACC-TTTTC
1 CTTCT-AAGCCCACAACTCCGTGGCACCTTTTTC
* * *
1049259 CTTTTCAAAGCCCACAACTTCATGGCACTCTTTTTCC
1 C--TTCTAAGCCCACAACTCCGTGGCAC-CTTTTT-C
* * * * *
1049296 CTTTTTAAGTCCACGACCCCGTGGCACCTTGTTC
1 C-TTCTAAGCCCACAACTCCGTGGCACCTTTTTC
* * * *
1049330 TTTTCAAAGTCCACAACTCCGTGGCACCTTCTT-
1 -CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
* *
1049363 -TTCAAAGTCCACAACTCCGTGGCACCTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
* * * * **
1049395 TTTCAAAGTCCACAACTTCGTGGCACCTCCTT-
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
* *
1049427 -TTCAAAGCCCACAACTACGTGGCA-CTCTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCACCT-TTTTC
* *
1049459 CTTTTAAGCCCACAACTCCGTAGCACC-----C
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
*
1049487 GTT-TAAGCCCACAACTCCGTGGCACTCTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCAC-CTTTTTC
*
1049520 CTTCTAAGCCCACAACTCCGTGGCACCTTCTT-
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
*
1049552 -TTCAAAGCCCACAACTCCGTGGCACCCTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCA-CCTTTTTC
* * * * * *
1049585 TTTTTAAGTCCACGACTCTGTGGCA-C-TCTT-
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
* *
1049615 -TTCAAAGCCCACAACTACGTGGCA-CTCTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCACCT-TTTTC
*
1049647 CTTTTAAGCCCACAACTCCGTGGCACC-----C
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
*
1049675 GTT-TAAGCCCACAACTCCGTGGCACC-----C
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
*
1049702 GTT-TAAGCCCACAACTCCGTGGCACTCTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCAC-CTTTTTC
*
1049735 CTTCTAAGCCCACAACTCCGTGGCACCTTCTT-
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
*
1049767 -TTCAAAGCCCACAACTCCGTGGCACCCTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCA-CCTTTTTC
* * * *
1049800 TTTTTAAGTCCACGACTCCGTGGCA--TTCTTT-
1 CTTCTAAGCCCACAACTCCGTGGCACCTT-TTTC
*
1049831 -TT-AAAGCCCACAACTCCGTGGCA-C-----C
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
* * * *
1049856 CTTTTAAGTCCACGACTCCTTGGCACCCTTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCA-CC-TTTTTC
*
1049891 CTT-TAAAGCCCACAACTACGTGGCA-CTCTTTTC
1 CTTCT-AAGCCCACAACTCCGTGGCACCT-TTTTC
* * * *
1049924 CTTTTAAGTCCACAACTCTGTGGCACC---AT-
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
*
1049953 -TT-TAAGCCCACAACTCCGTGGCATCTTTTTC
1 CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
* * *
1049984 CTTTTTAAAGCCCATAACTCCGTGGCACTCTTTTCC
1 C-TTCT-AAGCCCACAACTCCGTGGCAC-CTTTTTC
* *
1050020 CTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC
1 CTTCTAAGCCCACAACTCCGTGGCAC-CTTTTT-C
1050055 CTTCTCAAAGCCCACA
1 CTTCT--AAGCCCACA
1050071 CAAGTCGGTG
Statistics
Matches: 819, Mismatches: 113, Indels: 145
0.76 0.10 0.13
Matches are distributed among these distances:
26 2 0.00
27 127 0.16
28 14 0.02
29 38 0.05
30 6 0.01
31 108 0.13
32 17 0.02
33 158 0.19
34 253 0.31
35 56 0.07
36 30 0.04
37 10 0.01
ACGTcount: A:0.20, C:0.36, G:0.13, T:0.31
Consensus pattern (33 bp):
CTTCTAAGCCCACAACTCCGTGGCACCTTTTTC
Found at i:1049499 original size:27 final size:27
Alignment explanation
Indices: 1049340--1049975 Score: 309
Period size: 27 Copynumber: 20.6 Consensus size: 27
1049330 TTTTCAAAGT
*
1049340 CCACAACTCCGTGGCACCTTCTTTTCAAAGT
1 CCACAACTCCGTGGCACC--CTTTT--AAGC
* *
1049371 CCACAACTCCGTGGCACCTTTTTCTTTCAAAGT
1 CCACAACTCCGTGGCACC-----CTTT-TAAGC
*
1049404 CCACAACTTCGTGGCACCTCCTTTTCAAAGC
1 CCACAACTCCGTGGCA-C-CCTTTT--AAGC
*
1049435 CCACAACTACGTGGCACTCTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCA--C----CCTTTTAAGC
* *
1049468 CCACAACTCCGTAGCACCCGTTTAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGC
*
1049495 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
1049529 CCACAACTCCGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACC--CTTTT--AAGC
*
1049560 CCACAACTCCGTGGCACCCTTTTTCTTTTTAAGT
1 CCACAACTCCGTGGCA-CC-----C-TTTTAAGC
* * *
1049594 CCACGACTCTGTGGCACTCTTTTCAAAGC
1 CCACAACTCCGTGGCACCCTTTT--AAGC
*
1049623 CCACAACTACGTGGCACTCTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCA--C----CCTTTTAAGC
*
1049656 CCACAACTCCGTGGCACCCGTTTAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGC
*
1049683 CCACAACTCCGTGGCACCCGTTTAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGC
*
1049710 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
1049744 CCACAACTCCGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACC--CTTTT--AAGC
*
1049775 CCACAACTCCGTGGCACCCTTTTTCTTTTTAAGT
1 CCACAACTCCGTGGCA-CC-----C-TTTTAAGC
* * *
1049809 CCACGACTCCGTGGCATTCTTTTTAAAGC
1 CCACAACTCCGTGGCA-CCCTTTT-AAGC
*
1049838 CCACAACTCCGTGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGC
* *
1049865 CCACGACTCCTTGGCACCCTTTTTTCCTTTAAAGC
1 CCACAACTCCGTGGCACCC-----T--TTT-AAGC
* *
1049900 CCACAACTACGTGGCACTCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCA--C----CCTTTTAAGC
* *
1049933 CCACAACTCTGTGGCACCATTTTAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGC
1049960 CCACAACTCCGTGGCA
1 CCACAACTCCGTGGCA
1049976 TCTTTTTCCT
Statistics
Matches: 489, Mismatches: 49, Indels: 138
0.72 0.07 0.20
Matches are distributed among these distances:
27 125 0.26
28 10 0.02
29 44 0.09
30 4 0.01
31 80 0.16
32 8 0.02
33 74 0.15
34 97 0.20
35 35 0.07
36 9 0.02
37 1 0.00
41 2 0.00
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (27 bp):
CCACAACTCCGTGGCACCCTTTTAAGC
Found at i:1049710 original size:215 final size:215
Alignment explanation
Indices: 1049035--1050051 Score: 871
Period size: 215 Copynumber: 4.6 Consensus size: 215
1049025 CAATCTCTTC
* * *
1049035 TAAGCCCACAACTCTATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC--CGTTT-
1 TAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTC
* * * * * *
1049097 -AAGCCCACAACTCCGTGACACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACTCTTTTTCC
66 AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACTC---TT--
* * * * ** *
1049161 TTCTAAGTCCACGACCCCGTGGCA-TCTTGTTCCTTCAAAGTCCACAACTCCGTGGCACCTTTTT
126 TTCAAAGCCCACAACTCCGTGGCACTCTT-TTCCTTTTAAGCCCACAACTCCGTGGCACC-----
*
1049225 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTCCTTT
185 C-TTTT-AAGCCCACAACTCCGTGGCA-C----CCGTT
* * * * *
1049263 TCAAAGCCCACAACTTCATGGCACTCTTTTTCCCTTTTTAAGTCCACGACCCCGTGGCACCTTGT
1 T--AAGCCCACAACTCCATGGCACTCTTTTT-CC-TTCTAAGCCCACAACTCCGTGGCACC---T
* *
1049328 TCTTTTCAAAGTCCACAACTCCGTGGCA-CC---TTCTTTTCAAAGTCCACAACTCCGTGGCACC
59 TCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTTTCTTTT-TAAGTCCACAACTCCGTGGCA-C
* * * *
1049389 TTTTTCTTTCAAAGTCCACAACTTCGTGGCAC-C---TCCTTTTCAAAGCCCACAACTACGTGGC
122 --TCT-TTTCAAAGCCCACAACTCCGTGGCACTCTTTTCCTTTT--AAGCCCACAACTCCGTGGC
*
1049450 ACTCTTTTCCTTTTAAGCCCACAACTCCGTAGCACCCGTT
182 A--C----CCTTTTAAGCCCACAACTCCGTGGCACCCGTT
*
1049490 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTC
1 TAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTC
* *
1049555 AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACGACTCTGTGGCACTCTTTTCAA
66 AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACTCTTTTCAA
* *
1049620 AGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCGTTTAAGCCC
131 AGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCC
1049685 ACAACTCCGTGGCACCCGTT
196 ACAACTCCGTGGCACCCGTT
*
1049705 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTC
1 TAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTC
* * *
1049770 AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACGACTCCGTGGCATTCTTTTTAA
66 AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACTCTTTTCAA
* * *
1049835 AGCCCACAACTCCGTGGCA--C----CCTTTTAAGTCCACGACTCCTTGGCACCCTTTTTTCCTT
131 AGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCC-----T--TT
* *
1049894 TAAAGCCCACAACTACGTGGCACTCTTTTCCTTT
189 T-AAGCCCACAACTCCGTGGCA--C----CCGTT
* ** * *
1049928 TAAGTCCACAACTCTGTGGCAC-C---AT--TT-TAAGCCCACAACTCCGTGGCATCTTTTTCCT
1 TAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCA-C--CTT-CT
* * * * *
1049986 TTTTAAAGCCCATAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCGTGGCACTCTTT
62 TTTCAAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACTCTTT
1050051 T
127 T
1050052 TCCCTTCTCA
Statistics
Matches: 676, Mismatches: 62, Indels: 110
0.80 0.07 0.13
Matches are distributed among these distances:
209 26 0.04
213 1 0.00
215 175 0.26
216 24 0.04
217 22 0.03
219 29 0.04
220 92 0.14
221 21 0.03
222 2 0.00
223 71 0.11
224 9 0.01
225 26 0.04
227 5 0.01
228 1 0.00
230 26 0.04
231 8 0.01
232 42 0.06
233 22 0.03
234 1 0.00
235 27 0.04
236 19 0.03
237 6 0.01
238 1 0.00
239 20 0.03
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.31
Consensus pattern (215 bp):
TAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTC
AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACTCTTTTCAA
AGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCC
ACAACTCCGTGGCACCCGTT
Found at i:1049957 original size:95 final size:94
Alignment explanation
Indices: 1049036--1050051 Score: 822
Period size: 95 Copynumber: 10.6 Consensus size: 94
1049026 AATCTCTTCT
** * * *
1049036 AAGCCCACAACTCTATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCGTTTAAGC
1 AAGCCCACAACTCCGTGGCACTC-TTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGC
* *
1049101 CCACAACTCCGTGACACTCTTTTTCCTTCT-
65 CCACAACTCCGTGGCACCCTTTTTCCTT-TA
* * * * *
1049131 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACGACCCCGTGGCATCTTGTTCCTT
1 AAGCCCACAACTCCGTGGCACTC-TTTTCCTTTTAAGCCCACAACTCCGTGGCA-C-----CCTT
** * *
1049196 CAAAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTTA
59 TTAAGCCCACAACTCCGTGGCACCCTTTTTC-CTTTA
* *
1049232 AAGCCCACAACTCCGTGGCAC-CTTTTCCTTTTCAAAGCCCACAACTTCATGGCACTCTTTTTCC
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTT--AAGCCCACAACTCCGTGGCA--------CC
* * * * *
1049296 CTTTTTAAGTCCACGACCCCGTGGCA-CCTTGTTCTTTTCA
56 C-TTTTAAGCCCACAACTCCGTGGCACCCTTTTTCCTTT-A
* *
1049336 AAGTCCACAACTCCGTGGCAC-C--TT-CTTTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTT--AAGCCCACAACTCCGTGGCACC-----CTT
* * * *
1049397 TCAAAGTCCACAACTTCGTGGCACCTCCTTTT-C---A
59 T-TAAGCCCACAACTCCGTGGCACC-CTTTTTCCTTTA
* * *
1049431 AAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTAGCACCCGTTTAAGCC
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCC
*
1049496 CACAACTCCGTGGCACTCTTTTTCCTTCT-
66 CACAACTCCGTGGCACCCTTTTTCCTT-TA
1049525 AAGCCCACAACTCCGTGGCAC-C--TT-CTTTTCAAAGCCCACAACTCCGTGGCACCCTTTTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTT--AAGCCCACAACTCCGTGGCA-CC-----C-
* * * *
1049586 TTTTAAGTCCACGACTCTGTGGCACTC-TTTT-C---A
57 TTTTAAGCCCACAACTCCGTGGCACCCTTTTTCCTTTA
* *
1049619 AAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCGTTTAAGCC
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCC
*
1049684 CACAACTCCGTGGCA-CC-----CGTTT-
66 CACAACTCCGTGGCACCCTTTTTCCTTTA
*
1049706 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACTC-TTTTCCTTTTAAGCCCACAACTCCGTGGCACC--CTTTT--
* *
1049771 AAGCCCACAACTCCGTGGCACCCTTTTTCTTTTT
61 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTA
* * * * *
1049805 AAGTCCACGACTCCGTGGCA-T-TCTT--TTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTC
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCC
* *
1049866 CACGACTCCTTGGCACCCTTTTTTCCTTTA
66 CACAACTCCGTGGCACCC-TTTTTCCTTTA
* * * *
1049896 AAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCATTTTAAGCC
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCC
*
1049961 CACAACTCCGTGGCA-TCTTTTTCCTTTTTA
66 CACAACTCCGTGGCACCCTTTTTCC--TTTA
* * *
1049991 AAGCCCATAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCGTGGCACTCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTT-CCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
1050052 TCCCTTCTCA
Statistics
Matches: 760, Mismatches: 87, Indels: 147
0.76 0.09 0.15
Matches are distributed among these distances:
87 22 0.03
88 32 0.04
89 20 0.03
90 35 0.05
91 48 0.06
92 48 0.06
93 17 0.02
94 65 0.09
95 147 0.19
96 55 0.07
97 26 0.03
98 35 0.05
99 56 0.07
100 13 0.02
101 82 0.11
102 2 0.00
103 6 0.01
104 49 0.06
108 2 0.00
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.31
Consensus pattern (94 bp):
AAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCC
CACAACTCCGTGGCACCCTTTTTCCTTTA
Found at i:1050098 original size:33 final size:34
Alignment explanation
Indices: 1050056--1050124 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
1050046 TCTTTTTCCC
*
1050056 TTCTCAAAGCCCACACAAGTCGGTGGCAACCTTT
1 TTCTCAAAGCCCACACAAGTCGGTGGCAACCCTT
1050090 TTCT-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 TTCTCAAAGCCCACACAAGTCGGTGGCAACCCTT
1050123 TT
1 TT
1050125 AACTCCAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 30 0.88
34 4 0.12
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (34 bp):
TTCTCAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:1050200 original size:52 final size:49
Alignment explanation
Indices: 1050122--1050543 Score: 378
Period size: 52 Copynumber: 8.8 Consensus size: 49
1050112 TGGCAACCCT
*
1050122 TTTAACTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--TTT-CATC
* *
1050174 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAAC--TC--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC-ACTTTCATC
* * * * **
1050220 ---AAATCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCCTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATC
* * * * *
1050266 TTTTAAGCCCAATGTCGCTGGCCTTGAATCACCACATTGGCA----C--C
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATC
* *
1050310 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTT--TCATC
* * * *
1050362 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTTGTACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATC
* * *
1050411 TTTAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGG------CATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATC
1050454 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-TTT-CATC
* * *
1050506 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
1050544 ACATCCTTTT
Statistics
Matches: 307, Mismatches: 36, Indels: 54
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.01
43 107 0.35
44 3 0.01
46 3 0.01
48 1 0.00
49 40 0.13
50 32 0.10
51 2 0.01
52 115 0.37
53 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATC
Found at i:1050242 original size:43 final size:43
Alignment explanation
Indices: 1050177--1050497 Score: 192
Period size: 43 Copynumber: 7.0 Consensus size: 43
1050167 TTCCATCTTT
* * * *
1050177 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAACTCC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTCC
* * *
1050220 AAATCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCCTCATC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCA-CCTC--C
* * * * **
1050266 TTTTAAGCCCAATGTCGCTGGCCTTGAATCACCACATTGGCACCTTT
1 ----AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTCC
*
1050313 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCATC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCA-C--C-TC--C
* * * *
1050362 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTTGTACCTTCATC
1 ---AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACC-TC--C
* * * * * **
1050411 TTTAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTT
1 ---AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTCC
* * *
1050457 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCT
1050498 TTTCCATCTT
Statistics
Matches: 222, Mismatches: 40, Indels: 32
0.76 0.14 0.11
Matches are distributed among these distances:
43 102 0.46
44 4 0.02
46 2 0.01
47 1 0.00
48 1 0.00
49 45 0.20
50 31 0.14
51 1 0.00
52 35 0.16
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (43 bp):
AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTCC
Found at i:1050296 original size:93 final size:93
Alignment explanation
Indices: 1050128--1050394 Score: 365
Period size: 93 Copynumber: 2.8 Consensus size: 93
1050118 CCCTTTTAAC
* * * *
1050128 TCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATC-TTTAAGTCCAATGTAGCT
1 TCCAATATCGCTAGCCTTGAATCAGCATATTGGCAC--CTT-CATCTTTTAAGTCCAATGTCGCT
1050192 GGCCTTGAATCAGCACATTGGCAACTCCAAA
63 GGCCTTGAATCAGCACATTGGCAACTCCAAA
* * *
1050223 TCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATGTCGCTGGC
1 TCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTTAAGTCCAATGTCGCTGGC
* * ** *
1050288 CTTGAATCACCACATTGGCACCTTTAAG
66 CTTGAATCAGCACATTGGCAACTCCAAA
*
1050316 TCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAGTCCAATATCGCTG
1 TCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATC-T-TTTAAGTCCAATGTCGCTG
1050381 GCCTTGAATCAGCA
64 GCCTTGAATCAGCA
1050395 TATTTGTACC
Statistics
Matches: 152, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
92 4 0.03
93 84 0.55
94 1 0.01
95 63 0.41
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (93 bp):
TCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTTAAGTCCAATGTCGCTGGC
CTTGAATCAGCACATTGGCAACTCCAAA
Found at i:1050456 original size:188 final size:182
Alignment explanation
Indices: 1050122--1050499 Score: 418
Period size: 188 Copynumber: 2.0 Consensus size: 182
1050112 TGGCAACCCT
* * *
1050122 TTTAACTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTCCAATG
1 TTTAACTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACATTATCCATCTTTAAGTCCAATA
* * * *
1050187 TAGCTGGCCTTGAATCAGCACATTGGCAACTCCAAATCTAATATCGCTAGCCTTGAATCAGCATA
66 TAGCTGGCCTTGAATCAGCACATTGGCAACTCCAAACCCAATATAGCTAGCCTTGAATCAGCACA
* *
1050252 TTGGCACCCTCATCTTTTAAGCCCAATGTCGCTGGCCTTGAATCACCACATTGGCACC
131 TTGG----C-CATC-TTTAAGCCCAATATAGCTGGCCTTGAATCACCACATTGGCACC
* * *
1050310 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCAT-CATCTTTAAGTCCAAT
1 TTTAACTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACATT-ATCCATCTTTAAGTCCAAT
* * * * * * * *
1050374 ATCGCTGGCCTTGAATCAGCATATTTGTACCTTCATCTTTAAGCCCAATGTAGCTGGCCTTGAAT
65 ATAGCTGGCCTTGAATCAGCACATTGGCAAC-TC--C---AAACCCAATATAGCTAGCCTTGAAT
* * *
1050439 CAGCACATTGG-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
124 CAGCACATTGGCCATCTTTAAGCCCAATATAGCTGGCCTTGAATCACCACATTGGCACC
1050497 TTT
1 TTT
1050500 TCCATCTTTA
Statistics
Matches: 160, Mismatches: 23, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
187 41 0.26
188 86 0.54
189 3 0.02
191 1 0.01
194 29 0.18
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (182 bp):
TTTAACTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACATTATCCATCTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCACATTGGCAACTCCAAACCCAATATAGCTAGCCTTGAATCAGCACA
TTGGCCATCTTTAAGCCCAATATAGCTGGCCTTGAATCACCACATTGGCACC
Found at i:1050457 original size:144 final size:145
Alignment explanation
Indices: 1050226--1050543 Score: 487
Period size: 144 Copynumber: 2.2 Consensus size: 145
1050216 CTCCAAATCT
* *
1050226 AATATCGCTAGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATGTCGCTGGCCTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATGTAGCTGGCCTT
*
1050291 GAATCACCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTC
66 GAATCACCACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTT-
1050356 AT-CATCTTTAAGTCC
130 ATCCATCTTTAAGTCC
* * *
1050371 AATATCGCTGGCCTTGAATCAGCATATTTGTACCTTCATC-TTTAAGCCCAATGTAGCTGGCCTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATGTAGCTGGCCTT
* * * *
1050435 GAATCAGCACATTGGCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
66 GAATCACCACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTA
*
1050500 TCCATCTTTAAGTTC
131 TCCATCTTTAAGTCC
* * *
1050515 AATGTAGCTGGCCTTGAATCAGCACATTG
1 AATATCGCTGGCCTTGAATCAGCATATTG
1050544 ACATCCTTTT
Statistics
Matches: 157, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
143 1 0.01
144 120 0.76
145 36 0.23
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (145 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATGTAGCTGGCCTT
GAATCACCACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTA
TCCATCTTTAAGTCC
Found at i:1050473 original size:92 final size:94
Alignment explanation
Indices: 1050358--1050548 Score: 305
Period size: 92 Copynumber: 2.0 Consensus size: 94
1050348 GCACCTTCAT
* * *
1050358 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTTGTACC-TT-CATCTTTAAGCCCA
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCATCTTTAAGCCCA
*
1050421 ATGTAGCTGGCCTTGAATCAGCACATTGG
66 ATGTAGCTGGCCTTGAATCAGCACATTGA
**
1050450 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCATCTTTAAGCCC
1050515 AATGTAGCTGGCCTTGAATCAGCACATTGA
65 AATGTAGCTGGCCTTGAATCAGCACATTGA
1050545 CATC
1 CATC
1050549 CTTTTTCTCA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
92 44 0.49
94 2 0.02
95 44 0.49
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (94 bp):
CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCATCTTTAAGCCCA
ATGTAGCTGGCCTTGAATCAGCACATTGA
Found at i:1050590 original size:55 final size:51
Alignment explanation
Indices: 1050450--1050574 Score: 169
Period size: 52 Copynumber: 2.3 Consensus size: 51
1050440 AGCACATTGG
* *
1050450 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
1 CATCTTTAAGT-CAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTC
*
1050502 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTC
1 CATCTTTAAG-TCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC
1050556 TCATCTTTAAGCTCAATAT
1 -CATCTTTAAG-TCAATAT
1050575 CATTGGCCAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
52 40 0.62
53 3 0.05
54 5 0.08
55 16 0.25
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (51 bp):
CATCTTTAAGTCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTC
Found at i:1051282 original size:10 final size:10
Alignment explanation
Indices: 1051267--1051302 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
1051257 TCTCTTCGAC
1051267 AATTTTCTGA
1 AATTTTCTGA
1051277 AATTTTC-GA
1 AATTTTCTGA
1051286 CAATTTTCTGA
1 -AATTTTCTGA
1051297 AATTTT
1 AATTTT
1051303 TTAGTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 20 0.83
11 2 0.08
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (10 bp):
AATTTTCTGA
Found at i:1051312 original size:20 final size:20
Alignment explanation
Indices: 1051261--1051302 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1051251 CAAATATCTC
1051261 TTCGACAATTTTCTGAAATT
1 TTCGACAATTTTCTGAAATT
1051281 TTCGACAATTTTCTGAAATT
1 TTCGACAATTTTCTGAAATT
1051301 TT
1 TT
1051303 TTAGTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (20 bp):
TTCGACAATTTTCTGAAATT
Done.