Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 132 of 172
Found at i:38000405 original size:18 final size:17
Alignment explanation
Indices: 38000378--38000411 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
38000368 AATTTAAAAT
*
38000378 TATAATTATTATATTTAC
1 TATAAATATT-TATTTAC
38000396 TATAAATATTTATTTA
1 TATAAATATTTATTTA
38000412 ATAATATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TATAAATATTTATTTAC
Found at i:38005295 original size:12 final size:12
Alignment explanation
Indices: 38005280--38005304 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38005270 CTTTGAAGAT
38005280 TATTTTGACCAC
1 TATTTTGACCAC
38005292 TATTTTGACCAC
1 TATTTTGACCAC
38005304 T
1 T
38005305 TCTTTCTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (12 bp):
TATTTTGACCAC
Found at i:38009545 original size:26 final size:24
Alignment explanation
Indices: 38009489--38009537 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
38009479 ATGATTTTTG
*
38009489 AAGATAATTTATTCAAAATACTTC
1 AAGATAATTTATTCAAAAGACTTC
38009513 AAGATAATTTATTCGAAAAAGACTT
1 AAGATAATTTATTC--AAAAGACTT
38009538 GTAGATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.64
26 8 0.36
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (24 bp):
AAGATAATTTATTCAAAAGACTTC
Found at i:38010391 original size:11 final size:10
Alignment explanation
Indices: 38010375--38010419 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
38010365 CGTATTTACA
38010375 TTTTATGTTAT
1 TTTTA-GTTAT
* *
38010386 TTTTATTTGT
1 TTTTAGTTAT
38010396 TTTTAGTTAAT
1 TTTTAGTT-AT
38010407 TTTTAGTTAT
1 TTTTAGTTAT
38010417 TTT
1 TTT
38010420 GAGTAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 15 0.52
11 14 0.48
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (10 bp):
TTTTAGTTAT
Found at i:38010419 original size:21 final size:21
Alignment explanation
Indices: 38010375--38010419 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
38010365 CGTATTTACA
* *
38010375 TTTTATGTTATTTTTATTTGT
1 TTTTATGTTATTTTTAGTTAT
38010396 TTTTA-GTTAATTTTTAGTTAT
1 TTTTATGTT-ATTTTTAGTTAT
38010417 TTT
1 TTT
38010420 GAGTAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (21 bp):
TTTTATGTTATTTTTAGTTAT
Found at i:38012529 original size:21 final size:20
Alignment explanation
Indices: 38012499--38012540 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
38012489 TCAATCATGT
38012499 CAATTCCCTGTCATTCACTAA
1 CAATTCCCTGTCATTCA-TAA
*
38012520 CAATTTCCTGTCATTCATAA
1 CAATTCCCTGTCATTCATAA
38012540 C
1 C
38012541 TTCTATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.29, C:0.31, G:0.05, T:0.36
Consensus pattern (20 bp):
CAATTCCCTGTCATTCATAA
Found at i:38012773 original size:21 final size:21
Alignment explanation
Indices: 38012711--38012782 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
38012701 AATACACCAG
*
38012711 CAGAAGCTC-GAA-AGTTGAA
1 CAGAAGCTCATAAGAGTTGAA
* *
38012730 CAGAAGCTCATAAGAGCTAAA
1 CAGAAGCTCATAAGAGTTGAA
* *
38012751 CAAAAACTCATAAGAGTTGAA
1 CAGAAGCTCATAAGAGTTGAA
38012772 CAGAAGCTCAT
1 CAGAAGCTCAT
38012783 GAAAACTGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 9 0.21
20 2 0.05
21 31 0.74
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.17
Consensus pattern (21 bp):
CAGAAGCTCATAAGAGTTGAA
Found at i:38013661 original size:17 final size:17
Alignment explanation
Indices: 38013618--38013662 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
38013608 TATTAATTAT
*
38013618 TTATTCTATTGTTGGAA
1 TTATACTATTGTTGGAA
*
38013635 TTGA-ATTATTGTTGGAA
1 TT-ATACTATTGTTGGAA
38013652 TTATACTATTG
1 TTATACTATTG
38013663 AGTTGGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.51
Consensus pattern (17 bp):
TTATACTATTGTTGGAA
Found at i:38013828 original size:21 final size:21
Alignment explanation
Indices: 38013799--38013910 Score: 95
Period size: 21 Copynumber: 5.4 Consensus size: 21
38013789 TTGTGTTTTA
38013799 CTTTCTGTTCAGCTCTTATGAG
1 CTTT-TGTTCAGCTCTTATGAG
*
38013821 CTTTTGTTCAACTCTTATGAG
1 CTTTTGTTCAGCTCTTATGAG
* *
38013842 -TTTCTGTTTAGCTATTATGAG
1 CTTT-TGTTCAGCTCTTATGAG
* * *
38013863 CTTTTATTCAACT-TT-CGAG
1 CTTTTGTTCAGCTCTTATGAG
* * *
38013882 CTTCTGTTAAGCTCTTACGAG
1 CTTTTGTTCAGCTCTTATGAG
*
38013903 CTTCTGTT
1 CTTTTGTT
38013911 GGCGTATTCA
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.16
20 7 0.09
21 48 0.65
22 7 0.09
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (21 bp):
CTTTTGTTCAGCTCTTATGAG
Found at i:38013904 original size:40 final size:42
Alignment explanation
Indices: 38013801--38013905 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
38013791 GTGTTTTACT
* * * *
38013801 TTCTGTTCAGCTCTTATGAGCTTTTGTTCAACTCTTATGAGT
1 TTCTGTTAAGCTCTTATGAGCTTTTATTCAACTCTTACGAGC
* *
38013843 TTCTGTTTAGCTATTATGAGCTTTTATTCAACT-TT-CGAGC
1 TTCTGTTAAGCTCTTATGAGCTTTTATTCAACTCTTACGAGC
*
38013883 TTCTGTTAAGCTCTTACGAGCTT
1 TTCTGTTAAGCTCTTATGAGCTT
38013906 CTGTTGGCGT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 23 0.42
41 2 0.04
42 30 0.55
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (42 bp):
TTCTGTTAAGCTCTTATGAGCTTTTATTCAACTCTTACGAGC
Found at i:38017077 original size:68 final size:68
Alignment explanation
Indices: 38016990--38017121 Score: 264
Period size: 68 Copynumber: 1.9 Consensus size: 68
38016980 GGCACATGCC
38016990 CTAGACTGTATCTAACTAAATTATGTTGATTATCTGTATGCATGTTTTCTGTGGGGATTACACAG
1 CTAGACTGTATCTAACTAAATTATGTTGATTATCTGTATGCATGTTTTCTGTGGGGATTACACAG
38017055 GCA
66 GCA
38017058 CTAGACTGTATCTAACTAAATTATGTTGATTATCTGTATGCATGTTTTCTGTGGGGATTACACA
1 CTAGACTGTATCTAACTAAATTATGTTGATTATCTGTATGCATGTTTTCTGTGGGGATTACACA
38017122 CTGAGTTTGC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (68 bp):
CTAGACTGTATCTAACTAAATTATGTTGATTATCTGTATGCATGTTTTCTGTGGGGATTACACAG
GCA
Found at i:38020443 original size:18 final size:19
Alignment explanation
Indices: 38020404--38020440 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38020394 ACGTGAACTT
*
38020404 TAATTTTCTATTTTAAAAA
1 TAATTTCCTATTTTAAAAA
*
38020423 TAATTTCCTCTTTTAAAA
1 TAATTTCCTATTTTAAAA
38020441 TAAAATAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATTTCCTATTTTAAAAA
Found at i:38025563 original size:46 final size:46
Alignment explanation
Indices: 38025510--38025603 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
38025500 GTGATATGAA
* ** * *
38025510 CAAAATATGTTTAACTTGATTTATTAGAAAGTGTAAGAATAGTGGG
1 CAAAATATGTTTAACTCGAGATATTACAAAATGTAAGAATAGTGGG
* *
38025556 CAAAATATGTTTAACTCGAGATATTACAAAATGTAAGATTAGTTGG
1 CAAAATATGTTTAACTCGAGATATTACAAAATGTAAGAATAGTGGG
38025602 CA
1 CA
38025604 CACTATTGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (46 bp):
CAAAATATGTTTAACTCGAGATATTACAAAATGTAAGAATAGTGGG
Found at i:38027367 original size:3 final size:3
Alignment explanation
Indices: 38027359--38027392 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
38027349 TGCGTAAGGG
38027359 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
38027393 AGAAAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:38032754 original size:74 final size:75
Alignment explanation
Indices: 38032637--38032802 Score: 174
Period size: 74 Copynumber: 2.2 Consensus size: 75
38032627 ACTTGTTTAG
* * * * * *
38032637 GTTAAACCTACACGATAAATATCAATTGCTTATCCAAGCTAATCAT-GAACAATAGTGTCT-GAT
1 GTTAAACCTACACAACAAACATCAATTGCTTATCCAAGATAATCATAAAACAATAGTGCCTAG-T
*
38032700 TACTCGTTTGA
65 TACTCATTTGA
* * * * *
38032711 GTTAAACCTACACAACAAGCATCAATTGCTTGTTCGAGATAATCATAAAATAATAGTGCCTAGTT
1 GTTAAACCTACACAACAAACATCAATTGCTTATCCAAGATAATCATAAAACAATAGTGCCTAGTT
* *
38032776 ACTTATTTGG
66 ACTCATTTGA
*
38032786 GTTAAACATACACAACA
1 GTTAAACCTACACAACA
38032803 TATAGCCTGG
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
74 38 0.51
75 36 0.48
76 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (75 bp):
GTTAAACCTACACAACAAACATCAATTGCTTATCCAAGATAATCATAAAACAATAGTGCCTAGTT
ACTCATTTGA
Found at i:38033014 original size:22 final size:22
Alignment explanation
Indices: 38032945--38033007 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 22
38032935 AGTTTATCTG
*
38032945 CACCA-TTGAGTGGTTTATCCA
1 CACCATTTGAGTGTTTTATCCA
* *
38032966 CACCGTTTGAGAAGCTTTTATCCA
1 CACCATTTGAG-TG-TTTTATCCA
38032990 CACCATTTGAGTGTTTTA
1 CACCATTTGAGTGTTTTA
38033008 ACTACACTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 4 0.12
22 10 0.29
23 2 0.06
24 18 0.53
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (22 bp):
CACCATTTGAGTGTTTTATCCA
Found at i:38034229 original size:3 final size:3
Alignment explanation
Indices: 38034221--38034249 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
38034211 CTTATAATTT
38034221 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
38034250 CAAACCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:38034505 original size:5 final size:5
Alignment explanation
Indices: 38034495--38034522 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
38034485 AAATGTTAAT
38034495 AAAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAA
38034523 CGTGTCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:38034897 original size:145 final size:146
Alignment explanation
Indices: 38034721--38035015 Score: 328
Period size: 150 Copynumber: 2.0 Consensus size: 146
38034711 AAATAATTAG
* ** * * * *
38034721 ATAAAAATATTAAATAATTAATTTATCCATTTAATTTGACTTTAA-TAATTT-TTATTTAGTTAT
1 ATAAAAAAATTAAATAATTAAGCTATCCATTTAATTTGACTTAAACAAATTTATTAATTAATTAT
* * * *
38034784 AAATTACCTATATTATCAATAACCATTTGTTAAGTTAATATTTTT-AATTTTTTTATGTTTAAGA
66 AAATTAACTATATTATCAATAACCATATGTTAAGTTAATATTTTTGAA--ATTTTATGTTTAAAA
* *
38034848 TAAATAGTTAATCAGATA
129 TAAACAATTAATCAGATA
*
38034866 ATAAAAAAATTAAA-AAGTTAAGCTATTCATTTAATTTGACTTAAACCAAATTTCAATTAATTAA
1 ATAAAAAAATTAAATAA-TTAAGCTATCCATTTAATTTGACTTAAA-CAAATTT--ATTAATTAA
* * * * *
38034930 TTATATATTAACTATATTATCTATAACTATATGTTAATTTAATGTTTTTGAAATTTTATGTTTAA
62 TTATAAATTAACTATATTATCAATAACCATATGTTAAGTTAATATTTTTGAAATTTTATGTTTAA
*
38034995 AATAAACAATTAATTAGATA
127 AATAAACAATTAATCAGATA
38035015 A
1 A
38035016 ACATAAATGG
Statistics
Matches: 123, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
144 2 0.02
145 37 0.30
147 5 0.04
149 29 0.24
150 48 0.39
151 2 0.02
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.45
Consensus pattern (146 bp):
ATAAAAAAATTAAATAATTAAGCTATCCATTTAATTTGACTTAAACAAATTTATTAATTAATTAT
AAATTAACTATATTATCAATAACCATATGTTAAGTTAATATTTTTGAAATTTTATGTTTAAAATA
AACAATTAATCAGATA
Found at i:38040750 original size:37 final size:36
Alignment explanation
Indices: 38040704--38040775 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 36
38040694 GTTCGGAGTC
* * *
38040704 TGTCATTTTTTGCCTGGGACAATTTCTTTCTGGCTG
1 TGTCATTTTTTGCCTGAGACAATGTCTCTCTGGCTG
*
38040740 TGTCATTTTTTTTCCTGAGACAATGTCTCTCTGGCT
1 TGTCA-TTTTTTGCCTGAGACAATGTCTCTCTGGCT
38040776 CAGTGCAGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 5 0.16
37 26 0.84
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.47
Consensus pattern (36 bp):
TGTCATTTTTTGCCTGAGACAATGTCTCTCTGGCTG
Found at i:38044982 original size:21 final size:21
Alignment explanation
Indices: 38044956--38045000 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 21
38044946 AATTTAAAAA
38044956 AAAAAAAGATAGTTGGGTGA-C
1 AAAAAAA-ATAGTTGGGTGATC
38044977 AAAAAAAATAGTTGGGTGATC
1 AAAAAAAATAGTTGGGTGATC
38044998 AAA
1 AAA
38045001 TTAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.51, C:0.04, G:0.24, T:0.20
Consensus pattern (21 bp):
AAAAAAAATAGTTGGGTGATC
Found at i:38049772 original size:21 final size:19
Alignment explanation
Indices: 38049729--38049782 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
38049719 CAAATAAAGC
38049729 TTATATGTGATGTGATATG
1 TTATATGTGATGTGATATG
38049748 -TATATGATG-TGTTGATATG
1 TTATATG-TGATG-TGATATG
*
38049767 ATTATATGTTATGTGA
1 -TTATATGTGATGTGA
38049783 GAATGTCAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 4 0.14
21 8 0.28
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (19 bp):
TTATATGTGATGTGATATG
Found at i:38056718 original size:16 final size:16
Alignment explanation
Indices: 38056685--38056718 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38056675 ATTATTATCC
*
38056685 TTCTTTCATTTATGTT
1 TTCTTTCATTTATATT
*
38056701 TTCTTTCATTTTTATT
1 TTCTTTCATTTATATT
38056717 TT
1 TT
38056719 TATTATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.74
Consensus pattern (16 bp):
TTCTTTCATTTATATT
Found at i:38056731 original size:17 final size:17
Alignment explanation
Indices: 38056711--38056743 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
38056701 TTCTTTCATT
38056711 TTTATTT-TTATTATTTA
1 TTTATTTATT-TTATTTA
38056728 TTTATTTATTTTATTT
1 TTTATTTATTTTATTT
38056744 TTCTTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTATTTTATTTA
Found at i:38057920 original size:106 final size:109
Alignment explanation
Indices: 38057721--38057922 Score: 302
Period size: 106 Copynumber: 1.9 Consensus size: 109
38057711 TTCTAAAAAT
*
38057721 AAATAAGGAAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 AAATAAAGAAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA-
*
38057786 TTTTTCTCGTTCAACCAAATTGCTAAATATCCTTTCAAAAATTTCA
65 -TTTTCTCGTTCAACCAAATTGCCAAATATCCTTTCAAAAATTTCA
* * * *
38057832 AAATAAAGCAATGTTTTGCGTTT-GGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA-
1 AAATAAAGAAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
*
38057894 TTTCTCGTTTAACCAAATTGCCAAATATC
66 TTTCTCGTTCAACCAAATTGCCAAATATC
38057923 TTCTTGAATT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
106 27 0.32
109 25 0.30
110 11 0.13
111 21 0.25
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (109 bp):
AAATAAAGAAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
TTTCTCGTTCAACCAAATTGCCAAATATCCTTTCAAAAATTTCA
Found at i:38058669 original size:17 final size:15
Alignment explanation
Indices: 38058627--38058671 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 15
38058617 TCAAAATCTA
38058627 AATTTATAATTGAAT
1 AATTTATAATTGAAT
38058642 AATTATAATAATTGATAT
1 AATT-T-ATAATTGA-AT
38058660 AATTTGATAATT
1 AATTT-ATAATT
38058672 CTAGGGTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 4 0.15
16 1 0.04
17 15 0.58
18 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
AATTTATAATTGAAT
Found at i:38059355 original size:23 final size:21
Alignment explanation
Indices: 38059341--38059405 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 21
38059331 AAACAACAAT
38059341 AAAATAGCACCAAAAACAACTCC
1 AAAATAGCACCAAAAACAA--CC
* *
38059364 AAAACATCACC-AAAACAACC
1 AAAATAGCACCAAAAACAACC
*
38059384 AAAATAGCACAAAAAACAACC
1 AAAATAGCACCAAAAACAACC
38059405 A
1 A
38059406 GCAAAATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.28
21 10 0.28
22 7 0.19
23 9 0.25
ACGTcount: A:0.62, C:0.29, G:0.03, T:0.06
Consensus pattern (21 bp):
AAAATAGCACCAAAAACAACC
Found at i:38059358 original size:20 final size:21
Alignment explanation
Indices: 38059329--38059403 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 21
38059319 AAATAATATT
38059329 AAAAACAACAATAAAATAGCACC
1 AAAAACAAC--TAAAATAGCACC
* *
38059352 AAAAACAACTCCAAAACATCACC
1 AAAAACAACT--AAAATAGCACC
* *
38059375 -AAAACAACCAAAATAGCACA
1 AAAAACAACTAAAATAGCACC
38059395 AAAAACAAC
1 AAAAACAAC
38059404 CAGCAAAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 8 0.19
21 9 0.21
22 8 0.19
23 18 0.42
ACGTcount: A:0.64, C:0.27, G:0.03, T:0.07
Consensus pattern (21 bp):
AAAAACAACTAAAATAGCACC
Found at i:38062596 original size:24 final size:24
Alignment explanation
Indices: 38062569--38062630 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
38062559 CGTTCAACAA
38062569 CATAGGTTCGTATACTTCATATAG
1 CATAGGTTCGTATACTTCATATAG
*
38062593 CATAGGTTCGCATACTTCATATAG
1 CATAGGTTCGTATACTTCATATAG
38062617 CATAGGTTCGTATA
1 CATAGGTTCGTATA
38062631 ACAGCATAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (24 bp):
CATAGGTTCGTATACTTCATATAG
Found at i:38064948 original size:10 final size:9
Alignment explanation
Indices: 38064929--38065018 Score: 56
Period size: 10 Copynumber: 9.0 Consensus size: 9
38064919 AAAATTTACA
38064929 TTTTATAAAT
1 TTTTA-AAAT
38064939 TTTTACAAAT
1 TTTTA-AAAT
*
38064949 TTTT-AATT
1 TTTTAAAAT
38064957 TTTTAACAATT
1 TTTTAA-AA-T
38064968 TTTTAAAACT
1 TTTTAAAA-T
*
38064978 TTTTAAATAAA
1 TTTT-AA-AAT
*
38064989 ATTTAAAAT
1 TTTTAAAAT
38064998 TTATTAACTAAT
1 TT-TTAA--AAT
38065010 TTTTAAAAT
1 TTTTAAAAT
38065019 GCTTTTTCAT
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
8 7 0.11
9 7 0.11
10 27 0.42
11 16 0.25
12 7 0.11
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:38064961 original size:18 final size:19
Alignment explanation
Indices: 38064928--38065016 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 19
38064918 CAAAATTTAC
38064928 ATTTTATAAATTTTT-ACAA
1 ATTTT-TAAATTTTTAACAA
*
38064947 ATTTTTAATTTTTTAACAA
1 ATTTTTAAATTTTTAACAA
* *
38064966 TTTTTTAAAACTTTTTAAATAA
1 ATTTTT-AAA-TTTTT-AACAA
* * *
38064988 AATTTAAAATTTATTAACTA
1 ATTTTTAAATTT-TTAACAA
38065008 ATTTTTAAA
1 ATTTTTAAA
38065017 ATGCTTTTTC
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 8 0.15
19 14 0.26
20 15 0.28
21 10 0.19
22 7 0.13
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTTAAATTTTTAACAA
Found at i:38065162 original size:20 final size:20
Alignment explanation
Indices: 38065125--38065204 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
38065115 GACAATCAAC
* *
38065125 TTGATCAATGTGCTATGTCA
1 TTGATCAATCTGCCATGTCA
*
38065145 TTGATGAATCTGCCATGTCA
1 TTGATCAATCTGCCATGTCA
* * *
38065165 -TGGTCAATGTGTCATGTCA
1 TTGATCAATCTGCCATGTCA
* * * *
38065184 TCGGTCAACCTACCATGTCA
1 TTGATCAATCTGCCATGTCA
38065204 T
1 T
38065205 CAATCACATG
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
19 15 0.32
20 32 0.68
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (20 bp):
TTGATCAATCTGCCATGTCA
Found at i:38068800 original size:6 final size:6
Alignment explanation
Indices: 38068789--38068819 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
38068779 CGCCACAGGT
*
38068789 AGACTG AGACTG AGACTG AGACTG GGACTG A
1 AGACTG AGACTG AGACTG AGACTG AGACTG A
38068820 TGACAGCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (6 bp):
AGACTG
Found at i:38069497 original size:246 final size:246
Alignment explanation
Indices: 38069063--38069559 Score: 985
Period size: 246 Copynumber: 2.0 Consensus size: 246
38069053 GTTTCAACGA
38069063 CTTTTTTATTACCTTATGGACCACGTCCTTGGAACGTAAGGATTGGGATTAACGTTCTTTTTTGG
1 CTTTTTTATTACCTTATGGACCACGTCCTTGGAACGTAAGGATTGGGATTAACGTTCTTTTTTGG
38069128 TAAATTACGGTACAAGTCACTTAACTATTCAATTTTATCTTTTTGGTCTTTGGCAATTATTACAA
66 TAAATTACGGTACAAGTCACTTAACTATTCAATTTTATCTTTTTGGTCTTTGGCAATTATTACAA
38069193 TTGGCATAATAACAACATTAACTCTCAACATCTATACATTGTGCCAATTTAGTCTTGATTCTAAA
131 TTGGCATAATAACAACATTAACTCTCAACATCTATACATTGTGCCAATTTAGTCTTGATTCTAAA
*
38069258 AAATCCAATCTTTAACATTTACACATTATGTAATTTAATTTTTTTTGTTTG
196 AAATCCAATCTTTAACATTTACACATTATGGAATTTAATTTTTTTTGTTTG
38069309 CTTTTTTATTACCTTATGGACCACGTCCTTGGAACGTAAGGATTGGGATTAACGTTCTTTTTTGG
1 CTTTTTTATTACCTTATGGACCACGTCCTTGGAACGTAAGGATTGGGATTAACGTTCTTTTTTGG
38069374 TAAATTACGGTACAAGTCACTTAACTATTCAATTTTATCTTTTTGGTCTTTGGCAATTATTACAA
66 TAAATTACGGTACAAGTCACTTAACTATTCAATTTTATCTTTTTGGTCTTTGGCAATTATTACAA
38069439 TTGGCATAATAACAACATTAACTCTCAACATCTATACATTGTGCCAATTTAGTCTTGATTCTAAA
131 TTGGCATAATAACAACATTAACTCTCAACATCTATACATTGTGCCAATTTAGTCTTGATTCTAAA
38069504 AAATCCAATCTTTAACATTTACACATTATGGAATTTAATTTTTTTTGTTTG
196 AAATCCAATCTTTAACATTTACACATTATGGAATTTAATTTTTTTTGTTTG
38069555 CTTTT
1 CTTTT
38069560 CTTTATAACT
Statistics
Matches: 250, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
246 250 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (246 bp):
CTTTTTTATTACCTTATGGACCACGTCCTTGGAACGTAAGGATTGGGATTAACGTTCTTTTTTGG
TAAATTACGGTACAAGTCACTTAACTATTCAATTTTATCTTTTTGGTCTTTGGCAATTATTACAA
TTGGCATAATAACAACATTAACTCTCAACATCTATACATTGTGCCAATTTAGTCTTGATTCTAAA
AAATCCAATCTTTAACATTTACACATTATGGAATTTAATTTTTTTTGTTTG
Found at i:38072426 original size:26 final size:25
Alignment explanation
Indices: 38072405--38072472 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 25
38072395 CTTAATATTT
*
38072405 AAGTAAATATATATAATATAATAATA
1 AAGTAAATATA-ATAAAATAATAATA
38072431 AAGTAAATATAATAAAATAAATAAGTA
1 AAGTAAATATAATAAAAT-AATAA-TA
38072458 AA-TGAAATA-AATAAA
1 AAGT-AAATATAATAAA
38072473 GAAAATAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
25 6 0.16
26 23 0.61
27 9 0.24
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (25 bp):
AAGTAAATATAATAAAATAATAATA
Found at i:38072443 original size:22 final size:22
Alignment explanation
Indices: 38072404--38072472 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
38072394 ACTTAATATT
*
38072404 TAAGTAAATATATATAATATAATAA
1 TAAGTAAATATA-ATAAAAT-A-AA
38072429 TAAAGTAAATATAATAAAATAAA
1 T-AAGTAAATATAATAAAATAAA
38072452 TAAGTAAATGA-AAT-AAATAAA
1 TAAGTAAAT-ATAATAAAATAAA
38072473 GAAAATAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 7 0.17
22 11 0.27
23 4 0.10
24 1 0.02
25 7 0.17
26 11 0.27
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (22 bp):
TAAGTAAATATAATAAAATAAA
Found at i:38072465 original size:5 final size:4
Alignment explanation
Indices: 38072408--38072472 Score: 51
Period size: 4 Copynumber: 15.0 Consensus size: 4
38072398 AATATTTAAG
* *
38072408 TAAA TATA TATAA TATAA T-AA TAAA GTAAA TATAA TAAAA TAAA TAAG
1 TAAA TAAA TA-AA TA-AA TAAA TAAA -TAAA TA-AA T-AAA TAAA TAAA
38072456 TAAA TGAAA TAAA TAAA
1 TAAA T-AAA TAAA TAAA
38072473 GAAAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.06
4 26 0.51
5 21 0.41
6 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:38072485 original size:12 final size:13
Alignment explanation
Indices: 38072427--38072487 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
38072417 ATAATATAAT
*
38072427 AATAAAGTAAATA
1 AATAAAGAAAATA
38072440 TAATAAA-ATAAATA
1 -AATAAAGA-AAATA
*
38072454 AGTAAATG-AAATA
1 AATAAA-GAAAATA
38072467 AATAAAGAAAATA
1 AATAAAGAAAATA
38072480 AA-AAAGAA
1 AATAAAGAA
38072488 TAGAAAGAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
12 7 0.17
13 22 0.55
14 11 0.28
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (13 bp):
AATAAAGAAAATA
Found at i:38073312 original size:16 final size:16
Alignment explanation
Indices: 38073282--38073321 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
38073272 ATATATTATG
*
38073282 AATATATGTGTAAATAT
1 AATAT-TGTGCAAATAT
38073299 AATATTGTGCAAATAT
1 AATATTGTGCAAATAT
*
38073315 GATATTG
1 AATATTG
38073322 GATATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (16 bp):
AATATTGTGCAAATAT
Found at i:38073552 original size:40 final size:40
Alignment explanation
Indices: 38073435--38073565 Score: 126
Period size: 40 Copynumber: 3.3 Consensus size: 40
38073425 ACTTCAAGTC
* *
38073435 GAGACACTAGGTGTCAATTTACTACTTCGGATTAGTTCGAT
1 GAGACACTAGGTGTCAATTTATTACTTCGGATTA-TCCGAT
* * * *
38073476 GAGGCACT-GTGTGCCAA--T-TTACTTCGGTTTAGCCGAT
1 GAGACACTAG-GTGTCAATTTATTACTTCGGATTATCCGAT
* **
38073513 GAGACACTGGGTGTCAATTTATTACTTCAAATTATCCGAT
1 GAGACACTAGGTGTCAATTTATTACTTCGGATTATCCGAT
*
38073553 GAGGCACTAGGTG
1 GAGACACTAGGTG
38073566 CCAAACTGGT
Statistics
Matches: 71, Mismatches: 14, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
37 17 0.24
38 12 0.17
39 2 0.03
40 27 0.38
41 13 0.18
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
GAGACACTAGGTGTCAATTTATTACTTCGGATTATCCGAT
Found at i:38075623 original size:26 final size:28
Alignment explanation
Indices: 38075581--38075643 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
38075571 TTTAAAATAC
* *
38075581 TTTTAAAATAAATTTTTTTATTTTTTAT
1 TTTTAAAATAAATTTTTTTAATGTTTAT
38075609 TTTTAAAAT-AA-TTTTTTAATGTTTAT
1 TTTTAAAATAAATTTTTTTAATGTTTAT
*
38075635 TTTAAAAAT
1 TTTTAAAAT
38075644 GGGCCGGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 21 0.66
27 2 0.06
28 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTAAAATAAATTTTTTTAATGTTTAT
Found at i:38077567 original size:24 final size:24
Alignment explanation
Indices: 38077535--38077617 Score: 107
Period size: 24 Copynumber: 3.4 Consensus size: 24
38077525 AGCCATGTAA
38077535 CGGGAAGCTCATAAGAGCCATAAT
1 CGGGAAGCTCATAAGAGCCATAAT
**
38077559 CGGGAAGCTCATGCGAGCCA-ACAT
1 CGGGAAGCTCATAAGAGCCATA-AT
38077583 CGGGAAGCTC-TAGAGAGCCATTAAT
1 CGGGAAGCTCATA-AGAGCCA-TAAT
38077608 CGGGAAGCTC
1 CGGGAAGCTC
38077618 CGGAGAACCA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
23 2 0.04
24 36 0.71
25 12 0.24
26 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.29, T:0.16
Consensus pattern (24 bp):
CGGGAAGCTCATAAGAGCCATAAT
Found at i:38077578 original size:49 final size:49
Alignment explanation
Indices: 38077506--38077659 Score: 141
Period size: 49 Copynumber: 3.1 Consensus size: 49
38077496 TAAGTGCATG
* * * **
38077506 TAATCGGAAAGCTCTTTCGAGCCATGTAACGGGAAGCTCATA-AGAGCCA-
1 TAATCGGGAAGCTCATGCGAGCCA-ACAACGGGAAGCTC-TAGAGAGCCAT
*
38077555 TAATCGGGAAGCTCATGCGAGCCAACATCGGGAAGCTCTAGAGAGCCAT
1 TAATCGGGAAGCTCATGCGAGCCAACAACGGGAAGCTCTAGAGAGCCAT
** * * * * * *
38077604 TAATCGGGAAGCTCCGGAGAACCAATTATCGAGAAGCTCAAGAGAGCCAT
1 TAATCGGGAAGCTCATGCGAGCCAA-CAACGGGAAGCTCTAGAGAGCCAT
38077654 TAATCG
1 TAATCG
38077660 AAATGCTCAT
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
47 2 0.02
48 18 0.20
49 42 0.47
50 27 0.30
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (49 bp):
TAATCGGGAAGCTCATGCGAGCCAACAACGGGAAGCTCTAGAGAGCCAT
Found at i:38077650 original size:50 final size:49
Alignment explanation
Indices: 38077538--38077659 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 49
38077528 CATGTAACGG
* * * *
38077538 GAAGCTCATA-AGAGCCA-TAATCGGGAAGCTCATGCGAGCCAACATCGG
1 GAAGCTCA-AGAGAGCCATTAATCGGGAAGCTCAGGAGAACCAACATCGA
* * *
38077586 GAAGCTCTAGAGAGCCATTAATCGGGAAGCTCCGGAGAACCAATTATCGA
1 GAAGCTCAAGAGAGCCATTAATCGGGAAGCTCAGGAGAACCAA-CATCGA
38077636 GAAGCTCAAGAGAGCCATTAATCG
1 GAAGCTCAAGAGAGCCATTAATCG
38077660 AAATGCTCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.02
48 14 0.22
49 21 0.33
50 27 0.43
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.16
Consensus pattern (49 bp):
GAAGCTCAAGAGAGCCATTAATCGGGAAGCTCAGGAGAACCAACATCGA
Found at i:38077660 original size:25 final size:25
Alignment explanation
Indices: 38077524--38077659 Score: 131
Period size: 25 Copynumber: 5.5 Consensus size: 25
38077514 AAGCTCTTTC
38077524 GAGCCATGTAA-CGGGAAGCTCATA-A
1 GAGCCAT-TAATCGGGAAGCTCA-AGA
* *
38077549 GAGCCA-TAATCGGGAAGCTCATGC
1 GAGCCATTAATCGGGAAGCTCAAGA
*
38077573 GAGCCA--ACATCGGGAAGCTCTAGA
1 GAGCCATTA-ATCGGGAAGCTCAAGA
**
38077597 GAGCCATTAATCGGGAAGCTCCGGA
1 GAGCCATTAATCGGGAAGCTCAAGA
* *
38077622 GAACCAATT-ATCGAGAAGCTCAAGA
1 GAGCC-ATTAATCGGGAAGCTCAAGA
38077647 GAGCCATTAATCG
1 GAGCCATTAATCG
38077660 AAATGCTCAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
23 4 0.04
24 39 0.42
25 45 0.49
26 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.27, T:0.16
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTCAAGA
Found at i:38077667 original size:25 final size:24
Alignment explanation
Indices: 38077587--38077668 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 24
38077577 CAACATCGGG
* *
38077587 AAGCTCTAGAGAGCCATTAATCGGG
1 AAGCTCAAGAGAGCCATTAATC-GA
** *
38077612 AAGCTCCGGAGAACCAATT-ATCGA
1 AAGCTCAAGAGAGCC-ATTAATCGA
38077636 GAAGCTCAAGAGAGCCATTAATCGA
1 -AAGCTCAAGAGAGCCATTAATCGA
38077661 AATGCTCA
1 AA-GCTCA
38077669 TGAAAGCTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
24 6 0.13
25 37 0.80
26 3 0.07
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (24 bp):
AAGCTCAAGAGAGCCATTAATCGA
Found at i:38079644 original size:22 final size:19
Alignment explanation
Indices: 38079601--38079637 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38079591 TTATTTGATC
38079601 TTTAAACCAACTCATATAA
1 TTTAAACCAACTCATATAA
*
38079620 TTTAATCCAACTCA-ATAA
1 TTTAAACCAACTCATATAA
38079638 ATAATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (19 bp):
TTTAAACCAACTCATATAA
Found at i:38079695 original size:9 final size:9
Alignment explanation
Indices: 38079667--38079716 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
38079657 AATATTATTT
38079667 ATTTAATTA
1 ATTTAATTA
*
38079676 ATTAAAATTA
1 ATT-TAATTA
38079686 ATTTAATTA
1 ATTTAATTA
**
38079695 ATTTTCTTA
1 ATTTAATTA
*
38079704 ATTAAATTA
1 ATTTAATTA
38079713 ATTT
1 ATTT
38079717 CACAGTTCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTTAATTA
Found at i:38082577 original size:12 final size:12
Alignment explanation
Indices: 38082560--38082586 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38082550 AGGCGTTGCT
38082560 GAAGATGAAGAG
1 GAAGATGAAGAG
38082572 GAAGATGAAGAG
1 GAAGATGAAGAG
38082584 GAA
1 GAA
38082587 AAGATGGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.41, T:0.07
Consensus pattern (12 bp):
GAAGATGAAGAG
Found at i:38085947 original size:21 final size:21
Alignment explanation
Indices: 38085921--38085963 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
38085911 GGTTCGCTGT
*
38085921 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
38085942 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
38085963 A
1 A
38085964 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:38085963 original size:16 final size:16
Alignment explanation
Indices: 38085944--38085976 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38085934 TGTATTGGAT
*
38085944 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
38085960 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
38085976 T
1 T
38085977 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:38086021 original size:45 final size:44
Alignment explanation
Indices: 38085955--38086049 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
38085945 GGATTAGAGG
* *
38085955 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
38086000 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
38086044 TGTAAT
1 TGTAAT
38086050 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:38086232 original size:18 final size:17
Alignment explanation
Indices: 38086211--38086245 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38086201 TTATTATTTA
*
38086211 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38086229 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38086246 GGTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38086239 original size:28 final size:27
Alignment explanation
Indices: 38086169--38086241 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
38086159 TTTATTATCA
*
38086169 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
38086197 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
38086224 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
38086242 AAATGGTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:38086358 original size:144 final size:147
Alignment explanation
Indices: 38086130--38086401 Score: 469
Period size: 144 Copynumber: 1.9 Consensus size: 147
38086120 ATGATTATTG
38086130 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
* *
38086195 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATGGTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGC
38086260 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
38086279 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
*
38086341 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTA
38086402 ATATTCTTAT
Statistics
Matches: 119, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
144 90 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:38086376 original size:18 final size:17
Alignment explanation
Indices: 38086355--38086389 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38086345 TTATTATTAA
*
38086355 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38086373 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38086390 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38090399 original size:6 final size:6
Alignment explanation
Indices: 38090366--38090390 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38090356 AATAAATATA
38090366 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
38090391 TAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:38090465 original size:26 final size:26
Alignment explanation
Indices: 38090405--38090463 Score: 93
Period size: 25 Copynumber: 2.3 Consensus size: 26
38090395 TTTAAAATAC
* *
38090405 TTTTAAAATAATTTTTTTATTTTTTA
1 TTTTAAAATAATTTTTTTAATGTTTA
38090431 TTTTAAAATAA-TTTTTTAATGTTTA
1 TTTTAAAATAATTTTTTTAATGTTTA
38090456 TTTTAAAA
1 TTTTAAAA
38090464 ATGGGCCGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 20 0.65
26 11 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTAAAATAATTTTTTTAATGTTTA
Found at i:38099002 original size:11 final size:11
Alignment explanation
Indices: 38098988--38099031 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
38098978 AGATAAATAT
38098988 TATTTTATTAA
1 TATTTTATTAA
*
38098999 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
38099012 TATTTTATTAT
1 TATTTTATTAA
38099023 TATTTTATT
1 TATTTTATT
38099032 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:38109275 original size:21 final size:21
Alignment explanation
Indices: 38109249--38109290 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
38109239 GGACTGAGAG
38109249 CTATTATGGGTATCATCTAAT
1 CTATTATGGGTATCATCTAAT
38109270 CTATTATGGGTATCATCTAAT
1 CTATTATGGGTATCATCTAAT
38109291 GTGGATGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
CTATTATGGGTATCATCTAAT
Found at i:38113872 original size:6 final size:6
Alignment explanation
Indices: 38113861--38113899 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
38113851 AGAAGGGTCC
38113861 GTGCAA GTGCAA GTGCAA GTGCAA GCT-CAA GTGCAA GTG
1 GTGCAA GTGCAA GTGCAA GTGCAA G-TGCAA GTGCAA GTG
38113900 GGTTAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.33, T:0.18
Consensus pattern (6 bp):
GTGCAA
Found at i:38117373 original size:92 final size:92
Alignment explanation
Indices: 38117251--38117436 Score: 372
Period size: 92 Copynumber: 2.0 Consensus size: 92
38117241 AGAAACAAGC
38117251 ATCACACACCCAACAATAGATCAGAAAGAACAAGAGAAAACCAACCTCAAAATCAGAAGCTTCCA
1 ATCACACACCCAACAATAGATCAGAAAGAACAAGAGAAAACCAACCTCAAAATCAGAAGCTTCCA
38117316 GTTTCAACATCTCTTCAACATCAGAAA
66 GTTTCAACATCTCTTCAACATCAGAAA
38117343 ATCACACACCCAACAATAGATCAGAAAGAACAAGAGAAAACCAACCTCAAAATCAGAAGCTTCCA
1 ATCACACACCCAACAATAGATCAGAAAGAACAAGAGAAAACCAACCTCAAAATCAGAAGCTTCCA
38117408 GTTTCAACATCTCTTCAACATCAGAAA
66 GTTTCAACATCTCTTCAACATCAGAAA
38117435 AT
1 AT
38117437 TCCTTTAAGG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.47, C:0.27, G:0.10, T:0.17
Consensus pattern (92 bp):
ATCACACACCCAACAATAGATCAGAAAGAACAAGAGAAAACCAACCTCAAAATCAGAAGCTTCCA
GTTTCAACATCTCTTCAACATCAGAAA
Found at i:38123793 original size:2 final size:2
Alignment explanation
Indices: 38123786--38123815 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
38123776 GGGCAAAGGG
38123786 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
38123816 AAAGATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:38125078 original size:22 final size:22
Alignment explanation
Indices: 38125053--38125094 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
38125043 ATCTATATCT
*
38125053 TTTTAATTTTAAATTTTAAATA
1 TTTTAATTTTAAATATTAAATA
* *
38125075 TTTTATTTTTAGATATTAAA
1 TTTTAATTTTAAATATTAAA
38125095 GACACCTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTAATTTTAAATATTAAATA
Found at i:38127843 original size:32 final size:33
Alignment explanation
Indices: 38127785--38127846 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
38127775 ACTGTAATTG
* *
38127785 TAAAAAGTTATAATTTTTTTAAACAATTTTGAT
1 TAAAAAGTTATAATATTTTAAAACAATTTTGAT
*
38127818 TAAAAA-TTTTAATATTTTAAAACAATTTT
1 TAAAAAGTTATAATATTTTAAAACAATTTT
38127847 ACAACTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (33 bp):
TAAAAAGTTATAATATTTTAAAACAATTTTGAT
Found at i:38137051 original size:21 final size:21
Alignment explanation
Indices: 38137024--38137085 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
38137014 ATAAGTGCTA
38137024 AACGGAAACCCATAAGGGTTG
1 AACGGAAACCCATAAGGGTTG
* * * *
38137045 AATGGAAGCTCAT-AGGAGCTG
1 AACGGAAACCCATAAGG-GTTG
*
38137066 AACGGAAACCCAGAAGGGTT
1 AACGGAAACCCATAAGGGTT
38137086 AAACAGAAGC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 3 0.10
21 24 0.80
22 3 0.10
ACGTcount: A:0.37, C:0.18, G:0.31, T:0.15
Consensus pattern (21 bp):
AACGGAAACCCATAAGGGTTG
Found at i:38137071 original size:42 final size:42
Alignment explanation
Indices: 38137020--38137142 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
38137010 GCACATAAGT
* *
38137020 GCTAAACGGAAACCCATAAGGGTTGAATGGAAGCTCATAGGA
1 GCTAAACGGAAACCCATAAGGGTTAAATGGAAGCTCATAGAA
* * ** *
38137062 GCTGAACGGAAACCCAGAAGGGTTAAACAGAAGCTCAAAGAA
1 GCTAAACGGAAACCCATAAGGGTTAAATGGAAGCTCATAGAA
* * * *
38137104 GCTAAACGAAAACCCATTAGGGTTAAATGAAAACTCATA
1 GCTAAACGGAAACCCATAAGGGTTAAATGGAAGCTCATA
38137143 TGAGTTAAAC
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.15
Consensus pattern (42 bp):
GCTAAACGGAAACCCATAAGGGTTAAATGGAAGCTCATAGAA
Found at i:38137152 original size:42 final size:42
Alignment explanation
Indices: 38137008--38137152 Score: 141
Period size: 42 Copynumber: 3.5 Consensus size: 42
38136998 GGCTATACAG
* * * *
38137008 AAGCACATAAGTGCTAAACGGAAACCCATAAGGGTTGAATGG
1 AAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAATGA
* * * *
38137050 AAGCTCATAGGAGCTGAACGGAAACCCAGAAGGGTTAAA-CA
1 AAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAATGA
* *
38137091 GAAGCTCA-AAGAAGCTAAACGAAAACCCATTAGGGTTAAATGA
1 -AAGCTCATAAG-AGCTAAACGGAAACCCATAAGGGTTAAATGA
* * *
38137134 AAACTCATATGAGTTAAAC
1 AAGCTCATAAGAGCTAAAC
38137153 AGAAGCTCGA
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.02
42 77 0.94
43 3 0.04
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
AAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAATGA
Found at i:38142588 original size:20 final size:20
Alignment explanation
Indices: 38142574--38142619 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
38142564 ATTAATTATT
38142574 TTTTAAAAATTTTAATATAG
1 TTTTAAAAATTTTAATATAG
*
38142594 TTTTAATAATTTT-ATA-A-
1 TTTTAAAAATTTTAATATAG
38142611 TTTTAAAAA
1 TTTTAAAAA
38142620 ATTAATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 1 0.04
19 3 0.12
20 12 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTTAAAAATTTTAATATAG
Found at i:38144746 original size:9 final size:9
Alignment explanation
Indices: 38144732--38144757 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
38144722 GAAGGGCGGA
38144732 GGCGGCAAT
1 GGCGGCAAT
38144741 GGCGGCAAT
1 GGCGGCAAT
38144750 GGCGGCAA
1 GGCGGCAA
38144758 CACCAGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.46, T:0.08
Consensus pattern (9 bp):
GGCGGCAAT
Found at i:38147614 original size:47 final size:48
Alignment explanation
Indices: 38147542--38147636 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 48
38147532 AAAAAACTAC
*
38147542 GTATTGAAAACTCACAAATGATATTTATGCATGGTGGGAGTCAACCTG
1 GTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCAACCTG
38147590 GTATTG-AAACCCACAAATGATATTTATGCATGGTGGGAGTCAACCTG
1 GTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCAACCTG
38147637 TTATCACAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 40 0.87
48 6 0.13
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (48 bp):
GTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCAACCTG
Found at i:38162789 original size:2 final size:2
Alignment explanation
Indices: 38162782--38162823 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
38162772 CATTGGTTTC
38162782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38162824 TAAAAAAGCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38165278 original size:13 final size:13
Alignment explanation
Indices: 38165260--38165286 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38165250 GATATGAGCC
38165260 TTCATTTATACTT
1 TTCATTTATACTT
38165273 TTCATTTATACTT
1 TTCATTTATACTT
38165286 T
1 T
38165287 CCAATAGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCATTTATACTT
Found at i:38168321 original size:139 final size:139
Alignment explanation
Indices: 38168071--38168351 Score: 535
Period size: 139 Copynumber: 2.0 Consensus size: 139
38168061 TCCGTTTAAT
* *
38168071 TAAAGCCCATGATTATTAGAGACAGAAGTATGGTAAATTTTGATGCTTCATGTCGTACAAAAGAC
1 TAAAGACCATGATTATTAGAGACAGAAGTATGGTAAATTTGGATGCTTCATGTCGTACAAAAGAC
38168136 GAGTAAGAAAGATAGCCCATTATAATAATGTCTGATATGATAGCATATGTTCTTTGTAAACCTAA
66 GAGTAAGAAAGATAGCCCATTATAATAATGTCTGATATGATAGCATATGTTCTTTGTAAACCTAA
*
38168201 GCTTCAAAG
131 GCTTAAAAG
38168210 TAAAGACCATGATTATTAGAGACAGAAGTATGGTAAATTTGGATGCTTCATGTCGTACAAAAGAC
1 TAAAGACCATGATTATTAGAGACAGAAGTATGGTAAATTTGGATGCTTCATGTCGTACAAAAGAC
38168275 GAGTAAGAAAGATAGCCCATTATAATAATGTCTGATATGATAGCATATGTTCTTTGTAAACCTAA
66 GAGTAAGAAAGATAGCCCATTATAATAATGTCTGATATGATAGCATATGTTCTTTGTAAACCTAA
38168340 GCTTAAAAG
131 GCTTAAAAG
38168349 TAA
1 TAA
38168352 TTTATAAGAA
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 139 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (139 bp):
TAAAGACCATGATTATTAGAGACAGAAGTATGGTAAATTTGGATGCTTCATGTCGTACAAAAGAC
GAGTAAGAAAGATAGCCCATTATAATAATGTCTGATATGATAGCATATGTTCTTTGTAAACCTAA
GCTTAAAAG
Found at i:38171784 original size:136 final size:136
Alignment explanation
Indices: 38171603--38171875 Score: 521
Period size: 136 Copynumber: 2.0 Consensus size: 136
38171593 ATTTTTTGGG
38171603 CGTTTGTGAAATCAAACCTAGCTCGCTTCATTACAATCGCGGAATAATTATAAATTACAG-AAAA
1 CGTTTGTGAAATCAAACCTAGCTCGCTTCATTACAATCGCGGAATAATTATAAATTACAGAAAAA
38171667 AAAATCAATAGAAAGTCGGGATGAAAGATTTTTTTCGCTTAAAATCATGTCGAGGCAGAGAATCA
66 AAAATCAATAGAAAGTCGGGATGAAAGA-TTTTTTCGCTTAAAATCATGTCGAGGCAGAGAATCA
38171732 AAAAACC
130 AAAAACC
38171739 CGTTTGTGAAATCAAACCTAGCTCGCTTCATTACAATCGCGGAATAATTATAAATTACAGAAAAA
1 CGTTTGTGAAATCAAACCTAGCTCGCTTCATTACAATCGCGGAATAATTATAAATTACAGAAAAA
*
38171804 AAAATCAATAGAAAGTCGGGATGAAAGATTTTTTCGCTTAAAATCATGTCGAGGCAGAGAATCAT
66 AAAATCAATAGAAAGTCGGGATGAAAGATTTTTTCGCTTAAAATCATGTCGAGGCAGAGAATCAA
38171869 AAAACC
131 AAAACC
38171875 C
1 C
38171876 CACACAAAAA
Statistics
Matches: 135, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
136 103 0.76
137 32 0.24
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (136 bp):
CGTTTGTGAAATCAAACCTAGCTCGCTTCATTACAATCGCGGAATAATTATAAATTACAGAAAAA
AAAATCAATAGAAAGTCGGGATGAAAGATTTTTTCGCTTAAAATCATGTCGAGGCAGAGAATCAA
AAAACC
Found at i:38175426 original size:53 final size:53
Alignment explanation
Indices: 38175363--38175468 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
38175353 TATTTATTAC
38175363 ATAATTAGTTTTAGAATAGATTTATACGACACCCCCAAAACATATGCATGTTA
1 ATAATTAGTTTTAGAATAGATTTATACGACACCCCCAAAACATATGCATGTTA
38175416 ATAATTAGTTTTAGAATAGATTTATACGACACCCCCAAAACATATGCATGTTA
1 ATAATTAGTTTTAGAATAGATTTATACGACACCCCCAAAACATATGCATGTTA
38175469 CAAACAAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (53 bp):
ATAATTAGTTTTAGAATAGATTTATACGACACCCCCAAAACATATGCATGTTA
Found at i:38175589 original size:13 final size:13
Alignment explanation
Indices: 38175571--38175595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38175561 ATTATTAATA
38175571 TTATTTTGTGTGT
1 TTATTTTGTGTGT
38175584 TTATTTTGTGTG
1 TTATTTTGTGTG
38175596 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:38177302 original size:41 final size:40
Alignment explanation
Indices: 38177245--38177345 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 40
38177235 GCTTAGAGCT
*
38177245 TAGCAGGCTTATTGCCGGTGAAACACTTCAAAAAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTC-AAAAAAATGTC
* * ** *
38177286 TAGCAGGCTTAATGCCGGTGAAATATTTCAACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAAAAAAATGTC
38177326 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
38177346 TACTGAATCA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.06
40 24 0.45
41 26 0.49
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (40 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAAAAAAATGTC
Found at i:38191421 original size:26 final size:25
Alignment explanation
Indices: 38191383--38191432 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
38191373 AATATTTAAA
*
38191383 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
38191409 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
38191433 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:38191445 original size:22 final size:22
Alignment explanation
Indices: 38191394--38191445 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
38191384 AGAGATATAG
38191394 ATATATATACATAATAAGATAT
1 ATATATATACATAATAAGATAT
* * ** *
38191416 AAAGATATTTATAATAAGGTAT
1 ATATATATACATAATAAGATAT
38191438 ATATATAT
1 ATATATAT
38191446 GTTTATGAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
ATATATATACATAATAAGATAT
Found at i:38192413 original size:20 final size:21
Alignment explanation
Indices: 38192388--38192426 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38192378 CAAAAGGAAG
*
38192388 AAAAAAAT-GAAGGGAAAAAT
1 AAAAAAATAAAAGGGAAAAAT
38192408 AAAAAAATAAAAGGGAAAA
1 AAAAAAATAAAAGGGAAAA
38192427 TAGAGTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (21 bp):
AAAAAAATAAAAGGGAAAAAT
Found at i:38193276 original size:132 final size:132
Alignment explanation
Indices: 38193110--38193448 Score: 547
Period size: 132 Copynumber: 2.6 Consensus size: 132
38193100 GGTTGGTGGT
* * * * *
38193110 TTAAATTTAC-TTTCCTACTATCTTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACT
1 TTAAATTTGCTTTTCC-ACTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACT
*
38193174 GCTTAGGGAT-ACAGAATCTACAATCTTTGACCTATTCCACTACTGCTTAGGGTGATAGGACCAA
65 GCTTAGGG-TGACAGAATCTACAATCTTTGACCTACTCCACTACTGCTTAGGGTGATAGGACCAA
38193238 TGGC
129 TGGC
38193242 TTAAATTTGCTTTTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTG
1 TTAAATTTGCTTTTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTG
* *
38193307 CTTAGGGTGACAGAATCTGCAATCTTTGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATG
66 CTTAGGGTGACAGAATCTACAATCTTTGACCTACTCCACTACTGCTTAGGGTGATAGGACCAATG
38193372 GC
131 GC
* * *
38193374 TTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTTACCATCTTCGATCTGCTCCACTACTG
1 TTAAATTTGCTTTTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTG
38193439 CTTAGGGTGA
66 CTTAGGGTGA
38193449 TAGGACTAAT
Statistics
Matches: 194, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
131 1 0.01
132 188 0.97
133 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (132 bp):
TTAAATTTGCTTTTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTG
CTTAGGGTGACAGAATCTACAATCTTTGACCTACTCCACTACTGCTTAGGGTGATAGGACCAATG
GC
Found at i:38193441 original size:88 final size:88
Alignment explanation
Indices: 38193340--38193533 Score: 334
Period size: 88 Copynumber: 2.2 Consensus size: 88
38193330 CTTTGACCTA
*
38193340 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGA
* *
38193405 TAAGATTTACCATCTTCGATCTG
66 TAAGATTCACCATCTTCGATCAG
*
38193428 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTACATATGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGA
* *
38193493 TAAGATTCACCGTCTTTGATCAG
66 TAAGATTCACCATCTTCGATCAG
38193516 CTCCACTACTGCTTAGGG
1 CTCCACTACTGCTTAGGG
38193534 ATACAGAATC
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 100 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (88 bp):
CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGA
TAAGATTCACCATCTTCGATCAG
Found at i:38193481 original size:220 final size:220
Alignment explanation
Indices: 38193209--38193888 Score: 1146
Period size: 220 Copynumber: 3.1 Consensus size: 220
38193199 TTTGACCTAT
* * *
38193209 TCCACTACTGCTTAGGGTGATAGGACCAATGGCTTAAATTTGCTTTTCCACTGTATTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGAT
38193274 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTTGACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTTGACCT
38193339 ACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAG
131 ACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAG
*
38193404 ATAAGATTTACCATCTTCGATCTGC
196 ATAAGATTCACCATCTTCGATCTGC
*
38193429 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTACATATGCTTCTCCACTGTATTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGAT
* * * * *
38193494 AAGATTCACCGTCTTTGATCAGCTCCACTACTGCTTAGGGAT-ACAGAATCTACAATTTTTGACC
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGG-TGACAGAATCTGCAATCTTTGACC
* *
38193558 TATTCCACTATTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAA
130 TACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAA
* * **
38193623 GATAAGATTCACCATCTTTGACCTAT
195 GATAAGATTCACCATCTTCGATCTGC
* * *
38193649 TCCACTACTGCTTAGAGTGATAGGACTAATGGTTTAAATCTGCTTCTCCACTGTATTGGGAAGAT
1 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGAT
*
38193714 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCGACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTTGACCT
38193779 ACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAG
131 ACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAG
*
38193844 ATAAGATTCACCATATTCGATCTGC
196 ATAAGATTCACCATCTTCGATCTGC
*
38193869 TCCACTACTGTTTAGGGTGA
1 TCCACTACTGCTTAGGGTGA
38193889 CAGAATCTGC
Statistics
Matches: 423, Mismatches: 35, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
219 1 0.00
220 421 1.00
221 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (220 bp):
TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGAT
AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTTGACCT
ACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAG
ATAAGATTCACCATCTTCGATCTGC
Found at i:38193700 original size:88 final size:88
Alignment explanation
Indices: 38193551--38193756 Score: 349
Period size: 88 Copynumber: 2.3 Consensus size: 88
38193541 ATCTACAATT
*
38193551 TTTGACCTATTCCACTATTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTA
1 TTTGACCTATTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTA
38193616 TTGGGAAGATAAGATTCACCATC
66 TTGGGAAGATAAGATTCACCATC
* *
38193639 TTTGACCTATTCCACTACTGCTTAGAGTGATAGGACTAATGGTTTAAATCTGCTTCTCCACTGTA
1 TTTGACCTATTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTA
38193704 TTGGGAAGATAAGATTCACCATC
66 TTGGGAAGATAAGATTCACCATC
* * **
38193727 TTCGATCTGCTCCACTACTGCTTAGGGTGA
1 TTTGACCTATTCCACTACTGCTTAGGGTGA
38193757 CAGAATCTGC
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 110 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (88 bp):
TTTGACCTATTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTA
TTGGGAAGATAAGATTCACCATC
Found at i:38193774 original size:44 final size:44
Alignment explanation
Indices: 38193724--38194064 Score: 187
Period size: 44 Copynumber: 7.8 Consensus size: 44
38193714 AAGATTCACC
*
38193724 ATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
* * * * *
38193768 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
* * * * * * * * * *
38193809 ATGGCTTAAATCTGCTTCTCCACTG-TATTGGGAAGATAAGATTC-ACC
1 AT--CTTCAATCTGCTCCACTACTGCT-TAGGG-TGA-CAGAATCTGCA
* * *
38193856 ATATTCGATCTGCTCCACTACTGTTTAGGGTGACAGAATCTGCA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
* * * *
38193900 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
* * * * * * ** * * * *
38193941 ATGGCTTAAATCTGCTTCTCCACTGTATTAAGAAGATAAGATTC-ACC
1 AT--CTTCAATCTGCTCCACTACTG-CTTAGGGTGA-CAGAATCTGCA
* *
38193988 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
* *
38194032 ATCTTCAACCTACTCCACTACTGCTTAGGGTGA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGTGA
38194065 TTGGACTAAT
Statistics
Matches: 211, Mismatches: 68, Indels: 36
0.67 0.22 0.11
Matches are distributed among these distances:
41 6 0.03
42 1 0.00
43 47 0.22
44 111 0.53
45 39 0.18
46 3 0.01
47 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
Found at i:38193785 original size:132 final size:132
Alignment explanation
Indices: 38193636--38194464 Score: 1383
Period size: 132 Copynumber: 6.3 Consensus size: 132
38193626 AAGATTCACC
* * * *
38193636 ATCTTTGACCTATTCCACTACTGCTTAGAGTGATAGGACTAATGGTTTAAATCTGCTTCTCCACT
1 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
38193701 GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTG
66 GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTG
38193766 CA
131 CA
38193768 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
1 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
* *
38193833 GTATTGGGAAGATAAGATTCACCATATTCGATCTGCTCCACTACTGTTTAGGGTGACAGAATCTG
66 GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTG
38193898 CA
131 CA
*
38193900 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
1 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
** *
38193965 GTATTAAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTG
66 GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTG
38194030 CA
131 CA
* * * *
38194032 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATTGGACTAATGGCTTACATATGCTTCTCCACT
1 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
* * * *
38194097 GTATTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTTCTTAGGGAT-ATAGAATCT
66 GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGG-TGACAGAATCT
*
38194161 ACA
130 GCA
* * *
38194164 ATTTTTGACCTATTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
1 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
38194229 GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTG
66 GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTG
38194294 CA
131 CA
*
38194296 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACT
1 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
* *
38194361 GTATTGGGAAGATAAGATTCACCATCTTC-AGTCTGCTCCACTACTGCTTAGGGTGATAGAATAT
66 GTATTGGGAAGATAAGATTCACCATCTTCGA-TCTGCTCCACTACTGCTTAGGGTGACAGAATCT
38194425 GCA
130 GCA
* *
38194428 ATCTTCAACCTACTCCACTACTGTTTAGGGTGATAGG
1 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGG
38194465 TTTGTGTCTT
Statistics
Matches: 651, Mismatches: 43, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 2 0.00
132 648 1.00
133 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (132 bp):
ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTG
CA
Found at i:38193786 original size:352 final size:350
Alignment explanation
Indices: 38193132--38194149 Score: 1235
Period size: 352 Copynumber: 2.9 Consensus size: 350
38193122 TCCTACTATC
38193132 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGATACAGAATCTACAA
1 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGATACAGAATCTACAA
* * *
38193197 TCTTTGACCTATTCCACTACTGCTTAGGGTGATAGGACCAATGGCTTAAATTTGCTTTTCCACTG
66 TCTTTGACCTATTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
38193262 TATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGC
131 TATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCT-C
* * * * * *
38193327 AATCTTTGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
195 AATCTTTAACCTACTCCACCACTGCTTAGGGAGATAAGACTAAT-GCTTAAATCTGCTCCACCAC
* * * * * *
38193392 TGTATTGGGAAGATAAGATTTACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGATAGGACTA
259 TGTATAGGGAAGACAAGATCTACAATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTA
*
38193457 ATGGCTTACATATGCTTCTCCACTGTA
324 ATGGCTTAAATATGCTTCTCCACTGTA
*
38193484 TTGGGAAGATAAGATTCACCGTCTTTGATCAGCTCCACTACTGCTTAGGGATACAGAATCTACAA
1 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGATACAGAATCTACAA
* *
38193549 TTTTTGACCTATTCCACTATTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTTGACCTATTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
* * ** * * *
38193614 TATTGGGAAGATAAGATTCACCATCTTTGACCTATTCCACTACTGCTTAGAGTGATAGGA-CT-A
131 TATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTCA
* * * * * * * **
38193677 ATGGTTTAAATCTGCTTCTCCACTG-TATTGGGAAGATAAGATTCACCAT-CTTCGATCTGCTCC
196 AT-CTTT-AACCTACTCCACCACTGCT-TAGGG-AGATAAGACT-A--ATGCTTAAATCTGCTCC
* * *
38193740 ACTACTGCT-TAGGG-TGAC-AGAATCTGCAATCTTCGACCTACTCCACTACTGCTTAGGGTGAT
254 ACCACTG-TATAGGGAAGACAAG-ATCTACAATCTTCGACCTACTCCACTACTGCTTAGGGTGAT
*
38193802 AGGACTAATGGCTTAAATCTGCTTCTCCACTGTA
317 AGGACTAATGGCTTAAATATGCTTCTCCACTGTA
* * * * *
38193836 TTGGGAAGATAAGATTCACCATATTCGATCTGCTCCACTACTGTTTAGGG-TGACAGAATCTGCA
1 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAT-ACAGAATCTACA
** *
38193900 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
65 ATCTTTGACCTATTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
** *
38193965 GTATTAAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTG
130 GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCT-
* * * ** * * * *
38194030 CAATCTTCAACCTACTCCACTACTGCTTAGGGTGATTGGACTAATGGCTTACATATGCTTCTCCA
194 CAATCTTTAACCTACTCCACCACTGCTTAGGGAGATAAGACTAAT-GCTTAAATCTGCTCCACCA
* * ** * * * *
38194095 CTGTATTGGGAAGATAAGAT-TCACCGTCTTTGATCTGCTCCACTACTTCTTAGGG
258 CTGTATAGGGAAGACAAGATCT-ACAATCTTCGACCTACTCCACTACTGCTTAGGG
38194150 ATATAGAATC
Statistics
Matches: 558, Mismatches: 88, Indels: 40
0.81 0.13 0.06
Matches are distributed among these distances:
349 5 0.01
350 5 0.01
351 41 0.07
352 457 0.82
353 41 0.07
354 4 0.01
355 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (350 bp):
TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGATACAGAATCTACAA
TCTTTGACCTATTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
TATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTCA
ATCTTTAACCTACTCCACCACTGCTTAGGGAGATAAGACTAATGCTTAAATCTGCTCCACCACTG
TATAGGGAAGACAAGATCTACAATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAAT
GGCTTAAATATGCTTCTCCACTGTA
Found at i:38193994 original size:220 final size:216
Alignment explanation
Indices: 38193209--38194020 Score: 761
Period size: 220 Copynumber: 3.7 Consensus size: 216
38193199 TTTGACCTAT
* * * ** * *
38193209 TCCACTACTGCTTAGGGTGATAGGACCAATGGCTTAAATTTGCTTTTCCACT-GTATTGGGAAGA
1 TCCACTACTGCTTAGGGTGATAGGACTAAT-GCTTCAA---CCTACTCCACTACTGTTGGGAAGA
* * * *
38193273 TAAGATTCACCAT-CTTCGATCTGCTCCACTACTGCTT-AG-GGTGACAGAATCTGCAATCTTTG
62 TAAGATTCA--ATGCTTAGATCTGCTCCACTACTGCTTAAGAGAT-A-AGAATCTACAATCTTCG
38193335 ACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGG
123 ACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGG
*
38193400 GAAGATAAGATTTACCATCTTCGATCTGC
188 GAAGATAAGATTCACCATCTTCGATCTGC
* * * *
38193429 TCCACTACTGCTTAGGGTGATAGGACTAATGGCTTACATATGCTTCTCCACT-GTATTGGGAAGA
1 TCCACTACTGCTTAGGGTGATAGGACTAAT-GCTT-CA-A-CCTACTCCACTACTGTTGGGAAGA
** * * * * *
38193493 TAAGATTCACCGTCTTTGATCAGCTCCACTACTGCTT-AGGGATACAGAATCTACAATTTTTGAC
62 TAAGATTCAATG-CTTAGATCTGCTCCACTACTGCTTAAGAGATA-AGAATCTACAATCTTCGAC
* *
38193557 CTATTCCACTATTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
125 CTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
* * **
38193622 AGATAAGATTCACCATCTTTGACCTAT
190 AGATAAGATTCACCATCTTCGATCTGC
* * * * * *
38193649 TCCACTACTGCTTAGAGTGATAGGACTAATGGTTTAAATCTGCTTCTCCACT-GTATTGGGAAGA
1 TCCACTACTGCTTAGGGTGATAGGACTAAT-GCTTCAA-C--CTACTCCACTACTGTTGGGAAGA
* * *
38193713 TAAGATTCACCAT-CTTCGATCTGCTCCACTACTGCTT-AG-GGTGACAGAATCTGCAATCTTCG
62 TAAGATTCA--ATGCTTAGATCTGCTCCACTACTGCTTAAGAGAT-A-AGAATCTACAATCTTCG
38193775 ACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGG
123 ACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGG
*
38193840 GAAGATAAGATTCACCATATTCGATCTGC
188 GAAGATAAGATTCACCATCTTCGATCTGC
* * * *
38193869 TCCACTACTGTTTAGGGTGACAGAATCTGCAAT-CTTCAACCTACTCCACTACTGCTTAGGG-TG
1 TCCACTACTGCTTAGGGTGATAGGA-CT--AATGCTTCAACCTACTCCACTACTG-TT-GGGAAG
* * * * * * * * *
38193932 ATAGGACT-AATGGCTTAAATCTGCTTCTCCACTGTATTAAGAAGATAAGATTC-ACCATCTTCG
61 ATAAGATTCAAT-GCTTAGATCTGCTCCACTACTG-CTTAAG-AGATAAGAATCTACAATCTTCG
* * *
38193995 ATCTGCTCCACTACTGCATAGGGTGA
123 ACCTACTCCACTACTGCTTAGGGTGA
38194021 CAGAATCTGC
Statistics
Matches: 509, Mismatches: 61, Indels: 44
0.83 0.10 0.07
Matches are distributed among these distances:
217 2 0.00
218 11 0.02
219 21 0.04
220 449 0.88
221 19 0.04
222 2 0.00
223 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (216 bp):
TCCACTACTGCTTAGGGTGATAGGACTAATGCTTCAACCTACTCCACTACTGTTGGGAAGATAAG
ATTCAATGCTTAGATCTGCTCCACTACTGCTTAAGAGATAAGAATCTACAATCTTCGACCTACTC
CACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAA
GATTCACCATCTTCGATCTGC
Found at i:38195906 original size:14 final size:15
Alignment explanation
Indices: 38195882--38195915 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
38195872 TGCCTCTCCA
38195882 TTTTTATTTTTCATT
1 TTTTTATTTTTCATT
38195897 TTTTTA-TTTTCATT
1 TTTTTATTTTTCATT
38195911 TTTTT
1 TTTTT
38195916 GACCCAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTATTTTTCATT
Found at i:38196729 original size:12 final size:12
Alignment explanation
Indices: 38196703--38196741 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
38196693 TGACCTCTCC
*
38196703 TTTTTCT-TTTC
1 TTTTTCTCTTTT
38196714 TTTTTCTCTTTT
1 TTTTTCTCTTTT
38196726 TTTTTCTCTTATT
1 TTTTTCTCTT-TT
38196739 TTT
1 TTT
38196742 GACTTTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 7 0.28
12 13 0.52
13 5 0.20
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTCTTTT
Found at i:38196747 original size:23 final size:23
Alignment explanation
Indices: 38196703--38196747 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
38196693 TGACCTCTCC
* * *
38196703 TTTTTCTTTTCTTTTTCTCTTTT
1 TTTTTCTCTTATTTTTCACTTTT
*
38196726 TTTTTCTCTTATTTTTGACTTT
1 TTTTTCTCTTATTTTTCACTTT
38196748 GATTGATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTCTCTTATTTTTCACTTTT
Found at i:38199457 original size:19 final size:19
Alignment explanation
Indices: 38199433--38199478 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
38199423 GTGAAAATTT
* *
38199433 AATGCATATG-ATGCAATG
1 AATGCAAATGTATGAAATG
38199451 CAATGCAAATGTATGAAATG
1 -AATGCAAATGTATGAAATG
38199471 AATGCAAA
1 AATGCAAA
38199479 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGTATGAAATG
Found at i:38201912 original size:26 final size:25
Alignment explanation
Indices: 38201874--38201923 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
38201864 AATATTTAAA
*
38201874 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
38201900 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
38201924 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:38201936 original size:22 final size:22
Alignment explanation
Indices: 38201885--38201936 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
38201875 AGAGATATAG
38201885 ATATATATACATAATAAGATAT
1 ATATATATACATAATAAGATAT
* * ** *
38201907 AAAGATATTTATAATAAGGTAT
1 ATATATATACATAATAAGATAT
38201929 ATATATAT
1 ATATATAT
38201937 GTTTATGAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
ATATATATACATAATAAGATAT
Found at i:38204548 original size:21 final size:20
Alignment explanation
Indices: 38204510--38204548 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38204500 ACATATACAA
*
38204510 AAACAACTTAAAACACTAGT
1 AAACAACTTAAAAAACTAGT
*
38204530 AAACCACTTGAAAAAACTA
1 AAACAACTT-AAAAAACTA
38204549 AAACACCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (20 bp):
AAACAACTTAAAAAACTAGT
Found at i:38209663 original size:18 final size:18
Alignment explanation
Indices: 38209627--38209662 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38209617 ATTAAAGGAG
*
38209627 GGAAGAAGAAAGGTAAAA
1 GGAAGAAGAAAGATAAAA
38209645 GGAAGAAGAAAAGATAAA
1 GGAAGAAG-AAAGATAAA
38209663 GTACTGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.06
Consensus pattern (18 bp):
GGAAGAAGAAAGATAAAA
Found at i:38214865 original size:8 final size:8
Alignment explanation
Indices: 38214854--38214878 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
38214844 TCTTTCATAA
38214854 TTTCACTT
1 TTTCACTT
38214862 TTTCACTT
1 TTTCACTT
38214870 TTTCACTT
1 TTTCACTT
38214878 T
1 T
38214879 CAATCACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTCACTT
Found at i:38214966 original size:23 final size:22
Alignment explanation
Indices: 38214923--38214966 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
38214913 TTCTAAGTCG
38214923 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
38214946 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
38214967 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:38215168 original size:51 final size:50
Alignment explanation
Indices: 38215110--38215287 Score: 241
Period size: 51 Copynumber: 3.5 Consensus size: 50
38215100 TGGGTTCACA
*
38215110 TAGTAGCCTGCACATAGTACTACACATGTGATCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGATCA-TACCATCCGGTACACG
* * * * *
38215161 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGATC-ATACCATCCGGTACACG
* * *
38215212 TAGTAGCCTGCACATAGTACTACACATGCGA-CCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGATCATACCA-TCCGGTACACG
38215262 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
38215288 CATGACCATC
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
49 2 0.02
50 36 0.32
51 72 0.65
52 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGATCATACCATCCGGTACACG
Found at i:38215316 original size:101 final size:100
Alignment explanation
Indices: 38215107--38215292 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 100
38215097 TATTGGGTTC
* *
38215107 ACATAGTAGCCTGCACATAGTACTACACATGTGATCATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGATCACTACCATCCGATACACGTAGTAGCCTGC
* *
38215172 ACATAGTACTACACACGTGATCGAAACTATCCGGT
66 ACATAGTACTACACACATGATCCAAACTATCCGGT
* *
38215207 ACGCATAGTAGCCTGCACATAGTACTACACATGCGA-C-CTATCATTCCGGTACACGTAGTAGCC
1 A--CATAGTAGCCTGCACATAGTACTACACATGCGATCACTACCA-TCCGATACACGTAGTAGCC
38215270 TGCACATAGTACTACACACATGA
63 TGCACATAGTACTACACACATGA
38215293 CCATCATTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
100 5 0.06
101 41 0.53
102 32 0.41
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (100 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGATCACTACCATCCGATACACGTAGTAGCCTGC
ACATAGTACTACACACATGATCCAAACTATCCGGT
Found at i:38220615 original size:9 final size:9
Alignment explanation
Indices: 38220603--38220628 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
38220593 GTTGTTGTTG
38220603 TTATTATTC
1 TTATTATTC
38220612 TTATTATTC
1 TTATTATTC
38220621 TTATTATT
1 TTATTATT
38220629 ATACGACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (9 bp):
TTATTATTC
Found at i:38225555 original size:11 final size:11
Alignment explanation
Indices: 38225539--38225563 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38225529 TTTTAAAAAT
38225539 AAAATATTTTA
1 AAAATATTTTA
38225550 AAAATATTTTA
1 AAAATATTTTA
38225561 AAA
1 AAA
38225564 TTAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:38225576 original size:26 final size:27
Alignment explanation
Indices: 38225527--38225582 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
38225517 ACTAAAATTT
**
38225527 TATTTTAAAAATAAAATATTTTAAAAA
1 TATTTTAAAAATAAAATAAATTAAAAA
*
38225554 TATTTTAAAATTAAAA-AAATTAAAAA
1 TATTTTAAAAATAAAATAAATTAAAAA
38225580 TAT
1 TAT
38225583 ATATTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
TATTTTAAAAATAAAATAAATTAAAAA
Found at i:38225937 original size:13 final size:14
Alignment explanation
Indices: 38225909--38225943 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
38225899 TAATAAAAAC
38225909 CCAAAATTAAACAGT
1 CCAAAATT-AACAGT
38225924 CCAAAATT-ACAGT
1 CCAAAATTAACAGT
38225937 CCAAAAT
1 CCAAAAT
38225944 GAAAGGCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.51, C:0.23, G:0.06, T:0.20
Consensus pattern (14 bp):
CCAAAATTAACAGT
Found at i:38229516 original size:21 final size:21
Alignment explanation
Indices: 38229492--38229531 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38229482 TACTGGGAAA
38229492 TGACCAAAATAAAAATAATTG
1 TGACCAAAATAAAAATAATTG
*
38229513 TGACCAAAATAGAAATAAT
1 TGACCAAAATAAAAATAAT
38229532 CAAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
TGACCAAAATAAAAATAATTG
Found at i:38232149 original size:15 final size:15
Alignment explanation
Indices: 38232118--38232152 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38232108 ATCATAATTT
*
38232118 TATATCTTAAGATTA
1 TATATCTTAAGACTA
*
38232133 TATATCTTAAGGCTA
1 TATATCTTAAGACTA
38232148 TATAT
1 TATAT
38232153 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (15 bp):
TATATCTTAAGACTA
Found at i:38232172 original size:2 final size:2
Alignment explanation
Indices: 38232167--38232192 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38232157 ATATATATAC
38232167 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
38232193 GAGGGACGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38235564 original size:10 final size:10
Alignment explanation
Indices: 38235549--38235599 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
38235539 TTCAAACACT
38235549 TATAATTAAA
1 TATAATTAAA
38235559 TATAA-TATAA
1 TATAATTA-AA
*
38235569 TATAATTATA
1 TATAATTAAA
* * *
38235579 TTTAAATACA
1 TATAATTAAA
38235589 TATAATTAAA
1 TATAATTAAA
38235599 T
1 T
38235600 CTTGATAAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (10 bp):
TATAATTAAA
Found at i:38235574 original size:20 final size:20
Alignment explanation
Indices: 38235549--38235599 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
38235539 TTCAAACACT
38235549 TATAATTAAATATAATATA-A
1 TATAATTAAATATAA-ATACA
* *
38235569 TATAATTATATTTAAATACA
1 TATAATTAAATATAAATACA
38235589 TATAATTAAAT
1 TATAATTAAAT
38235600 CTTGATAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAATTAAATATAAATACA
Found at i:38240559 original size:20 final size:21
Alignment explanation
Indices: 38240534--38240579 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
38240524 AATAAAAGCT
* *
38240534 ATAAATATTATT-AAATTTTA
1 ATAAATAATATTCAAATATTA
38240554 ATAAATAATATTCAAATATTA
1 ATAAATAATATTCAAATATTA
38240575 A-AAAT
1 ATAAAT
38240580 TAGAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAATAATATTCAAATATTA
Found at i:38240933 original size:17 final size:18
Alignment explanation
Indices: 38240903--38240936 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38240893 AAAAAATTCT
38240903 AATTTTTAATAAATTTTA
1 AATTTTTAATAAATTTTA
*
38240921 AATTTTTTA-AAATTTT
1 AATTTTTAATAAATTTT
38240937 TTCTTCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTTTAATAAATTTTA
Found at i:38241058 original size:86 final size:87
Alignment explanation
Indices: 38240962--38241132 Score: 231
Period size: 87 Copynumber: 2.0 Consensus size: 87
38240952 ATAAGAACAG
* *
38240962 GGGCTTAATTGC-TTTTTAAAAAAAATTTG-AGAGTCTTTTTGATGCATTTTGAAAGTT-AAAGT
1 GGGCTTAATTGCTTTTTTAAAAAAAATTTGAAG-GCCTTTTTGATGCATTTTAAAAGTTCAAA-T
*
38241024 ACTCAATTGAGTGGAAAAAAAGCA
64 ACTCAATTGAGTGAAAAAAAAGCA
** * *
38241048 GGGCTTAATTGCTTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATGTATTTTAAAAGTTCAAATAC
1 GGGCTTAATTGCTTTTTTAAAAAAAATTTGAAGGCCTTTTTGATGCATTTTAAAAGTTCAAATAC
*
38241113 TTAATTGAGTGAAAAAAAAG
66 TCAATTGAGTGAAAAAAAAG
38241133 AACGAACGAG
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 12 0.16
87 57 0.77
88 5 0.07
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (87 bp):
GGGCTTAATTGCTTTTTTAAAAAAAATTTGAAGGCCTTTTTGATGCATTTTAAAAGTTCAAATAC
TCAATTGAGTGAAAAAAAAGCA
Found at i:38243230 original size:23 final size:24
Alignment explanation
Indices: 38243189--38243233 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
38243179 TTGGTAATAT
*
38243189 CAAAAGTTGACTTCTTAGGGTTCC
1 CAAAAATTGACTTCTTAGGGTTCC
*
38243213 CAAAAATTGTCTT-TTAGGGTT
1 CAAAAATTGACTTCTTAGGGTT
38243234 TTGAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (24 bp):
CAAAAATTGACTTCTTAGGGTTCC
Found at i:38257244 original size:2 final size:2
Alignment explanation
Indices: 38257239--38257267 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
38257229 ATATATAAAT
38257239 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
38257268 AGTTTTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38262139 original size:19 final size:21
Alignment explanation
Indices: 38262115--38262161 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
38262105 ATAATTTGTT
* *
38262115 TTTCAAT-CATA-AAATTTGG
1 TTTCAATCCATAGAAAGTTGA
38262134 TTTCAATCCATAGAAAGTTGA
1 TTTCAATCCATAGAAAGTTGA
38262155 TTTCAAT
1 TTTCAAT
38262162 AAATTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 13 0.54
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (21 bp):
TTTCAATCCATAGAAAGTTGA
Found at i:38272095 original size:27 final size:27
Alignment explanation
Indices: 38272058--38272304 Score: 162
Period size: 27 Copynumber: 9.1 Consensus size: 27
38272048 AAAGGTTGTT
* * *
38272058 AAATGACCGAAATACCCTCGACGGGTA
1 AAATTACCGAAATACCCTCAAAGGGTA
* *
38272085 AAATTATCGAAATACCC-CTAATGGGTA
1 AAATTACCGAAATACCCTC-AAAGGGTA
**
38272112 AAATTACCGAAATACCCTCAAAAAGTA
1 AAATTACCGAAATACCCTCAAAGGGTA
*
38272139 AAATTACCGAAATA-CCTCCGAAGGGTA
1 AAATTACCGAAATACCCT-CAAAGGGTA
*
38272166 AAATTACTGAAATACCC-CTATAA-GGTA
1 AAATTACCGAAATACCCTC-A-AAGGGTA
** * *
38272193 AAATTACTAAAATACCCTTATAGGGTA
1 AAATTACCGAAATACCCTCAAAGGGTA
* * * * * * * *
38272220 GAATGAGCAAAATACCCTTATTAGTGCA
1 AAATTACCGAAATACCCTCA-AAGGGTA
* * *
38272248 AAATAACCAAAATACCCTCACAGGGTA
1 AAATTACCGAAATACCCTCAAAGGGTA
* * *
38272275 AAATGATCGAAATA-CCTCCATAGGGTA
1 AAATTACCGAAATACCCT-CAAAGGGTA
38272302 AAA
1 AAA
38272305 GAACCATAAT
Statistics
Matches: 177, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
26 9 0.05
27 142 0.80
28 26 0.15
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCAAAGGGTA
Found at i:38272198 original size:81 final size:81
Alignment explanation
Indices: 38272058--38272210 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 81
38272048 AAAGGTTGTT
* * *
38272058 AAATGACCGAAATACCCTCGACGGGTAAAATTATCGAAATACCCCTAATGGGTAAAATTACCGAA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCTAATAGGTAAAATTACCAAA
38272123 ATACCCTCAAAAAGTA
66 ATACCCTCAAAAAGTA
* *
38272139 AAATTACCGAAATA-CCTCCGAAGGGTAAAATTA-CTGAAATACCCCT-ATAAGGTAAAATTACT
1 AAATGACCGAAATACCCT-CGAAGGGTAAAATTATC-GAAATACCCCTAAT-AGGTAAAATTACC
38272201 AAAATACCCT
63 AAAATACCCT
38272211 TATAGGGTAG
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
80 6 0.09
81 58 0.91
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.22
Consensus pattern (81 bp):
AAATGACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCTAATAGGTAAAATTACCAAA
ATACCCTCAAAAAGTA
Found at i:38272218 original size:54 final size:53
Alignment explanation
Indices: 38272058--38272371 Score: 211
Period size: 54 Copynumber: 5.8 Consensus size: 53
38272048 AAAGGTTGTT
* ** * * *
38272058 AAATGACCGAAATACCCTCGA-CGGGTAAAATTATCGAAATACCCCTAATGGGTA
1 AAATGACCGAAATACCC-CTATAAGGTAAAATTACCAAAATACCCCCAA-GGGTA
* * * * *
38272112 AAATTACCGAAATA-CCCTCAAAAAGTAAAATTACCGAAATACCTCCGAAGGGTA
1 AAATGACCGAAATACCCCT-ATAAGGTAAAATTACCAAAATACC-CCCAAGGGTA
* * * **
38272166 AAATTACTGAAATACCCCTATAAGGTAAAATTACTAAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCTATAAGGTAAAATTACCAAAATACCCCCA-AGGGTA
* * * * * * * *
38272220 GAATGAGCAAAATACCCTTATTAGTGCAAAATAACCAAAATACCCTCACAGGGTA
1 AAATGACCGAAATACCCCTATAAG-GTAAAATTACCAAAATACCCCCA-AGGGTA
* * ** * *
38272275 AAATGATCGAAATACCTCC-ATAGGGTAAAAGAACCATAATACCCCCATAGGGTT
1 AAATGACCGAAATACC-CCTATAAGGTAAAATTACCAAAATACCCCCA-AGGGTA
* * * * *
38272329 AAATGGCCGAAATACTCCTGTAAGGTAAAATGACCATAATACC
1 AAATGACCGAAATACCCCTATAAGGTAAAATTACCAAAATACC
38272372 TCTGGAGGGT
Statistics
Matches: 207, Mismatches: 45, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
52 1 0.00
53 7 0.03
54 149 0.72
55 49 0.24
56 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (53 bp):
AAATGACCGAAATACCCCTATAAGGTAAAATTACCAAAATACCCCCAAGGGTA
Found at i:38272233 original size:81 final size:81
Alignment explanation
Indices: 38272058--38272237 Score: 195
Period size: 81 Copynumber: 2.2 Consensus size: 81
38272048 AAAGGTTGTT
* * * *
38272058 AAATGACCGAAATACCCTCGACGGGTAAAATTATCGAAATACCCCTAATGGGTAAAATTACCGAA
1 AAATGACCAAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCTAATAGGTAAAATTACCAAA
38272123 ATACCCTCAAAAAGTA
66 ATACCCTCAAAAAGTA
* * *
38272139 AAATTACCGAAATA-CCTCCGAAGGGTAAAATTA-CTGAAATACCCCT-ATAAGGTAAAATTACT
1 AAATGACCAAAATACCCT-CGAAGGGTAAAATTATC-GAAATACCCCTAAT-AGGTAAAATTACC
* * **
38272201 AAAATACCCTTATAGGGTA
63 AAAATACCCTCAAAAAGTA
* *
38272220 GAATGAGCAAAATACCCT
1 AAATGACCAAAATACCCT
38272238 TATTAGTGCA
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
80 6 0.07
81 73 0.89
82 3 0.04
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (81 bp):
AAATGACCAAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCTAATAGGTAAAATTACCAAA
ATACCCTCAAAAAGTA
Done.