Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 110 of 182
Found at i:35741071 original size:62 final size:61
Alignment explanation
Indices: 35740948--35741070 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 61
35740938 GGATTATTAT
* * * *
35740948 TAAATAATAAATAATTTAATCATATTTAAATATAATTATTACCAAATATAATTTTAAAAAA
1 TAAATAATAAATAATTTAATAACATTTAAATATAATTATTACAAAATATAATTATAAAAAA
* * *
35741009 TAAA-AATATATAATTTAATAACATTATTAATATAATTATTATTAAAATATAATTAATAAAAA
1 TAAATAATAAATAATTTAATAACATT-TAAATATAATTATTA-CAAAATATAATT-ATAAAAA
35741071 TCATAACATA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 18 0.35
61 18 0.35
62 10 0.19
63 6 0.12
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (61 bp):
TAAATAATAAATAATTTAATAACATTTAAATATAATTATTACAAAATATAATTATAAAAAA
Found at i:35742243 original size:13 final size:13
Alignment explanation
Indices: 35742225--35742249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35742215 CCATATTAAA
35742225 AAATATCACAATC
1 AAATATCACAATC
35742238 AAATATCACAAT
1 AAATATCACAAT
35742250 GCATTTCATG
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:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATATCACAATC
Found at i:35747120 original size:26 final size:26
Alignment explanation
Indices: 35747091--35747142 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35747081 CTCAATGCCC
35747091 TTGAGACTTTTGCCACCAAAAACGAG
1 TTGAGACTTTTGCCACCAAAAACGAG
35747117 TTGAGACTTTTGCCACCAAAAACGAG
1 TTGAGACTTTTGCCACCAAAAACGAG
35747143 CCACCAACGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (26 bp):
TTGAGACTTTTGCCACCAAAAACGAG
Found at i:35749020 original size:17 final size:17
Alignment explanation
Indices: 35748971--35749021 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
35748961 AGTTTTTTTT
*
35748971 ATTATATTTAATTGTTA
1 ATTATATTTAATTATTA
*
35748988 A--ATGAATTAATATATTA
1 ATTAT-ATTTAAT-TATTA
35749005 ATTATATTTAATTATTA
1 ATTATATTTAATTATTA
35749022 GAATTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
15 2 0.07
16 6 0.22
17 11 0.41
18 6 0.22
19 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
ATTATATTTAATTATTA
Found at i:35749034 original size:19 final size:20
Alignment explanation
Indices: 35749012--35749060 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
35749002 TTAATTATAT
35749012 TTAATTATTAGAATTAAA-A
1 TTAATTATTAGAATTAAATA
* *
35749031 TTAATTATAATAATTAAATA
1 TTAATTATTAGAATTAAATA
*
35749051 TAAATTATTA
1 TTAATTATTA
35749061 AAAATTAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TTAATTATTAGAATTAAATA
Found at i:35750139 original size:20 final size:20
Alignment explanation
Indices: 35750114--35750152 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35750104 ACAATTTTAA
35750114 AATCAAGTCAAAATAATTTG
1 AATCAAGTCAAAATAATTTG
*
35750134 AATCAAGTCAAAATCATTT
1 AATCAAGTCAAAATAATTT
35750153 TAACACTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.31
Consensus pattern (20 bp):
AATCAAGTCAAAATAATTTG
Found at i:35756661 original size:21 final size:22
Alignment explanation
Indices: 35756631--35756672 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
35756621 ATTCACATGC
35756631 TTTCTTACTCATGCTTCTTTTG
1 TTTCTTACTCATGCTTCTTTTG
**
35756653 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGCTTCTTTT
35756673 TTTTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.10, C:0.21, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGCTTCTTTTG
Found at i:35758117 original size:20 final size:20
Alignment explanation
Indices: 35758089--35758140 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
35758079 CTGCAATTTG
*
35758089 TTATTGATACTGTTT-TAAAA
1 TTATAGATACT-TTTATAAAA
35758109 TTATAGATACTTTTATAAAA
1 TTATAGATACTTTTATAAAA
* *
35758129 ATATCGATACTT
1 TTATAGATACTT
35758141 GTGAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (20 bp):
TTATAGATACTTTTATAAAA
Found at i:35760377 original size:21 final size:20
Alignment explanation
Indices: 35760316--35760380 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
35760306 ATTTAATTTT
*
35760316 AAAATTATTTTAAACAAGTC
1 AAAATCATTTTAAACAAGTC
**
35760336 AAAATCATTTT-AACACTTC
1 AAAATCATTTTAAACAAGTC
**
35760355 AAAATGTTTTTCAAACAAGTC
1 AAAATCATTTT-AAACAAGTC
35760376 AAAAT
1 AAAAT
35760381 AGCTCCAGGC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 15 0.42
20 10 0.28
21 11 0.31
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAATCATTTTAAACAAGTC
Found at i:35762409 original size:25 final size:25
Alignment explanation
Indices: 35762369--35762499 Score: 147
Period size: 25 Copynumber: 5.2 Consensus size: 25
35762359 TGGTTCGGTG
*
35762369 GAGCAAATATTTTGTTTGGCTCGTAA
1 GAGC-AATATTCTGTTTGGCTCGTAA
*
35762395 AAGCAATATTCTGTTTGGCTCGTAA
1 GAGCAATATTCTGTTTGGCTCGTAA
* *
35762420 GAGCAATATTCTGTCTGGCTCATAA
1 GAGCAATATTCTGTTTGGCTCGTAA
** *
35762445 GAGTGATATTCTGTCTGGCTCGTAA
1 GAGCAATATTCTGTTTGGCTCGTAA
**
35762470 GAGTGATATTCT-TTCTGGGCTCGTAA
1 GAGCAATATTCTGTT-T-GGCTCGTAA
35762496 GAGC
1 GAGC
35762500 TAAAATTCCT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.01
25 77 0.83
26 15 0.16
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (25 bp):
GAGCAATATTCTGTTTGGCTCGTAA
Found at i:35775070 original size:16 final size:16
Alignment explanation
Indices: 35775045--35775077 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35775035 CTGGCATAAA
35775045 ACTCTAGAACTAGTTC
1 ACTCTAGAACTAGTTC
*
35775061 ACTCTCGAACTAGTTC
1 ACTCTAGAACTAGTTC
35775077 A
1 A
35775078 TCATCAAGAA
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:0.30, C:0.27, G:0.12, T:0.30
Consensus pattern (16 bp):
ACTCTAGAACTAGTTC
Found at i:35780500 original size:17 final size:16
Alignment explanation
Indices: 35780478--35780522 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
35780468 TGGCAATGTA
35780478 TTTCTTTTCTTTTCTAT
1 TTTCTTTTCTTTTCT-T
35780495 TTTCTTCTTC-TTTCTT
1 TTTCTT-TTCTTTTCTT
35780511 TTTC-TTTCTTTT
1 TTTCTTTTCTTTT
35780523 TGTGATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.12
15 4 0.15
16 5 0.19
17 11 0.42
18 3 0.12
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTTTTCTTTTCTT
Found at i:35781118 original size:17 final size:16
Alignment explanation
Indices: 35781080--35781133 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
35781070 TATAAGAATG
35781080 GAAATGCAACT-ACAATA
1 GAAATGC-ACTAACAA-A
*
35781097 CAAATGCACTAACAAA
1 GAAATGCACTAACAAA
*
35781113 TGAAATGCACTGACAAA
1 -GAAATGCACTAACAAA
35781130 GAAA
1 GAAA
35781134 AATGCAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.25
17 24 0.75
ACGTcount: A:0.54, C:0.19, G:0.13, T:0.15
Consensus pattern (16 bp):
GAAATGCACTAACAAA
Found at i:35781639 original size:21 final size:18
Alignment explanation
Indices: 35781606--35781644 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
35781596 ATTAGGTTCC
35781606 CCTTCTATTCCTTCATTCT
1 CCTTCTATTCCTTC-TTCT
35781625 CCTTCTCATTTCCTTCTTCT
1 CCTTCT-A-TTCCTTCTTCT
35781645 TTCTCTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.54
Consensus pattern (18 bp):
CCTTCTATTCCTTCTTCT
Found at i:35803509 original size:18 final size:17
Alignment explanation
Indices: 35803488--35803538 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
35803478 ACATTCGAAC
*
35803488 ATGTGGTTGCATCTGGTT
1 ATGTGATTGCATCTGG-T
*
35803506 ATGTGACTGCATCTTGGT
1 ATGTGATTGCATC-TGGT
35803524 ATGTGATTGCATCTG
1 ATGTGATTGCATCTG
35803539 ATCAGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 2 0.07
18 24 0.83
19 3 0.10
ACGTcount: A:0.16, C:0.14, G:0.29, T:0.41
Consensus pattern (17 bp):
ATGTGATTGCATCTGGT
Found at i:35809347 original size:589 final size:589
Alignment explanation
Indices: 35808231--35809411 Score: 2245
Period size: 589 Copynumber: 2.0 Consensus size: 589
35808221 ATCCCTACTC
35808231 GCATTGCTATAAGTTGGCGAGTTTGCATGGATTACTGTTGTAATAGCTCGATTTTCAGTGGTGTC
1 GCATTGCTATAAGTTGGCGAGTTTGCATGGATTACTGTTGTAATAGCTCGATTTTCAGTGGTGTC
* *
35808296 GGAAACAGTGGTTTCGGGACTACAAATCCGATGAGCCGAGTCATGAAATTATTAATTATTGAATA
66 AGAAACAGTGGTTTCGAGACTACAAATCCGATGAGCCGAGTCATGAAATTATTAATTATTGAATA
*
35808361 TTTATGATGTAATTAGTGACATATTAAATTTTGGTTAGGGAATGATACCGATTTGATAGTCAATT
131 TTTATGATGTAATTAGTGACATATTAAATTTTGGTTAGGGAATGATACCAATTTGATAGTCAATT
35808426 AAGTAAAAAGGATTAAATTGAAAGAGGTGCAAAAATAAAATTATTTTATTAAAAGGACTAAATAG
196 AAGTAAAAAGGATTAAATTGAAAGAGGTGCAAAAATAAAATTATTTTATTAAAAGGACTAAATAG
35808491 GGAAATTAGCCAATAGGGGTTGAGATACTGGAATATCATGGCATTTAGGTGTTAATGAGATGATT
261 GGAAATTAGCCAATAGGGGTTGAGATACTGGAATATCATGGCATTTAGGTGTTAATGAGATGATT
35808556 AATTAAAGCTAAAAGTGATTAAGTAAGCTTAATTAAGAAAGTTACAAAAATTACAAAATTACCAT
326 AATTAAAGCTAAAAGTGATTAAGTAAGCTTAATTAAGAAAGTTACAAAAATTACAAAATTACCAT
*
35808621 TACTATATAAATGAATTAAAAGAAAGAAAATTGGAAATTTTCATCTTATTTTCTCCTTTCTTCTT
391 TACTATATAAATGAATTAAAAGAAAGAAAATTGGAAAATTTCATCTTATTTTCTCCTTTCTTCTT
* *
35808686 CATCGACACGATTAAGGGGACAAAGAATTAGGGTTTTTCACTTTCAACTTTGAGCTTTGATTTGG
456 CATCGACACGACTAAGGGGACAAAGAATTAGGGTTTTCCACTTTCAACTTTGAGCTTTGATTTGG
* *
35808751 GTAAGCAAATGTTAACATTTTTTTATAATTTTTATGTTTTTGATTCCGTATCAGCTTAATCTAGC
521 GTAAGCAAATGTTAACATTCTTTTATAATTTTTATGTTTTTGATTCCGTATCAACTTAATCTAGC
35808816 TTAT
586 TTAT
35808820 GCATTGCTATAAGTTGGCGAGTTTGCATGGATTACTGTTGTAATAGCTCGATTTTCAGTGGTGTC
1 GCATTGCTATAAGTTGGCGAGTTTGCATGGATTACTGTTGTAATAGCTCGATTTTCAGTGGTGTC
* * *
35808885 AGAAATAGTGGTTTCGAGACTACAAATCTGATGAGTCGAGTCATGAAATTATTAATTATTGAATA
66 AGAAACAGTGGTTTCGAGACTACAAATCCGATGAGCCGAGTCATGAAATTATTAATTATTGAATA
35808950 TTTATGATGTAATTAGTGACATATTAAATTTTGGTTAGGGAATGATACCAATTTGATAGTCAATT
131 TTTATGATGTAATTAGTGACATATTAAATTTTGGTTAGGGAATGATACCAATTTGATAGTCAATT
*
35809015 AAGTAAAAAGGATTAAATTGAAAGAGGTGCAAAAATAAAATTATTTTATTAGAAGGACTAAATAG
196 AAGTAAAAAGGATTAAATTGAAAGAGGTGCAAAAATAAAATTATTTTATTAAAAGGACTAAATAG
35809080 GGAAATTAGCCAATAGGGGTTGAGATACTGGAATATCATGGCATTTAGGTGTTAATGAGATGATT
261 GGAAATTAGCCAATAGGGGTTGAGATACTGGAATATCATGGCATTTAGGTGTTAATGAGATGATT
35809145 AATTAAAGCTAAAAGTGATTAAGTAAGCTTAATTAAGAAAGTTACAAAAATTACAAAATTACCAT
326 AATTAAAGCTAAAAGTGATTAAGTAAGCTTAATTAAGAAAGTTACAAAAATTACAAAATTACCAT
35809210 TACTATATAAATGAATTAAAAGAAAGAAAATTGGAAAATTTCATCTTATTTTCTCCTTTCTTCTT
391 TACTATATAAATGAATTAAAAGAAAGAAAATTGGAAAATTTCATCTTATTTTCTCCTTTCTTCTT
35809275 CATCGACACGACTAAGGGGACAAAGAATTAGGGTTTTCCACTTTCAACTTTGAGCTTTGATTTGG
456 CATCGACACGACTAAGGGGACAAAGAATTAGGGTTTTCCACTTTCAACTTTGAGCTTTGATTTGG
*
35809340 GTAAGCAAATGTTAACATTCTTTTATAATTTTTATGTTTTTGATTCCTTATCAACTTAATCTAGC
521 GTAAGCAAATGTTAACATTCTTTTATAATTTTTATGTTTTTGATTCCGTATCAACTTAATCTAGC
35809405 TTAT
586 TTAT
35809409 GCA
1 GCA
35809412 AGGACTAATT
Statistics
Matches: 579, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
589 579 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (589 bp):
GCATTGCTATAAGTTGGCGAGTTTGCATGGATTACTGTTGTAATAGCTCGATTTTCAGTGGTGTC
AGAAACAGTGGTTTCGAGACTACAAATCCGATGAGCCGAGTCATGAAATTATTAATTATTGAATA
TTTATGATGTAATTAGTGACATATTAAATTTTGGTTAGGGAATGATACCAATTTGATAGTCAATT
AAGTAAAAAGGATTAAATTGAAAGAGGTGCAAAAATAAAATTATTTTATTAAAAGGACTAAATAG
GGAAATTAGCCAATAGGGGTTGAGATACTGGAATATCATGGCATTTAGGTGTTAATGAGATGATT
AATTAAAGCTAAAAGTGATTAAGTAAGCTTAATTAAGAAAGTTACAAAAATTACAAAATTACCAT
TACTATATAAATGAATTAAAAGAAAGAAAATTGGAAAATTTCATCTTATTTTCTCCTTTCTTCTT
CATCGACACGACTAAGGGGACAAAGAATTAGGGTTTTCCACTTTCAACTTTGAGCTTTGATTTGG
GTAAGCAAATGTTAACATTCTTTTATAATTTTTATGTTTTTGATTCCGTATCAACTTAATCTAGC
TTAT
Found at i:35829215 original size:20 final size:21
Alignment explanation
Indices: 35829177--35829216 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35829167 TAAACCAAGC
*
35829177 ATCACTGAGTTAGAAAATGCA
1 ATCACTAAGTTAGAAAATGCA
35829198 ATCACTAAGTTA-AAAATGC
1 ATCACTAAGTTAGAAAATGC
35829217 TAAAAATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (21 bp):
ATCACTAAGTTAGAAAATGCA
Found at i:35830661 original size:12 final size:12
Alignment explanation
Indices: 35830620--35830662 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
35830610 TCTGCTTTTC
*
35830620 TTTCTTCTTCTT
1 TTTCCTCTTCTT
*
35830632 TTTCCTCCTCTT
1 TTTCCTCTTCTT
* *
35830644 TGTCCTTTTCTT
1 TTTCCTCTTCTT
35830656 TTTCCTC
1 TTTCCTC
35830663 ATCTGTCTCC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTCCTCTTCTT
Found at i:35834543 original size:20 final size:20
Alignment explanation
Indices: 35834520--35834560 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35834510 TCGGTCAAAC
* *
35834520 TGAAGTTGTATCGATAGAAG
1 TGAAGTTCTACCGATAGAAG
*
35834540 TGAAGTTCTACCGGTAGAAG
1 TGAAGTTCTACCGATAGAAG
35834560 T
1 T
35834561 CCCAAGGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (20 bp):
TGAAGTTCTACCGATAGAAG
Found at i:35835011 original size:35 final size:32
Alignment explanation
Indices: 35834944--35835011 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 32
35834934 TTGAATAATT
* *
35834944 GCTCCCCCTAATAAATAACATTTTGAAATTAA
1 GCTCCCCCTAATAAAAAACATTTTCAAATTAA
*
35834976 GCTCCCCCTATATAAAAAAATCATTTTCAATTTAA
1 GCTCCCCCTA-AT-AAAAAA-CATTTTCAAATTAA
35835011 G
1 G
35835012 GCATAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 10 0.33
33 2 0.07
34 5 0.17
35 13 0.43
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (32 bp):
GCTCCCCCTAATAAAAAACATTTTCAAATTAA
Found at i:35837982 original size:6 final size:6
Alignment explanation
Indices: 35837971--35838019 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
35837961 TTTATAGCAA
* *
35837971 TTTTTC TTTTTC TTTTCTC TTTTCCC TTTTTC -TTTTC TTTTTC TCTTTC
1 TTTTTC TTTTTC TTTT-TC TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC
35838020 AACATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 5 0.13
6 21 0.55
7 12 0.32
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:35837993 original size:13 final size:14
Alignment explanation
Indices: 35837971--35838018 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 14
35837961 TTTATAGCAA
35837971 TTTT-TCTTTT-TC
1 TTTTCTCTTTTCTC
*
35837983 TTTTCTCTTTTCCC
1 TTTTCTCTTTTCTC
35837997 TTTT-TCTTTTCT-
1 TTTTCTCTTTTCTC
35838009 TTTTCTCTTT
1 TTTTCTCTTT
35838019 CAACATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 8 0.26
13 18 0.58
14 5 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTCTCTTTTCTC
Found at i:35838001 original size:20 final size:19
Alignment explanation
Indices: 35837976--35838018 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
35837966 AGCAATTTTT
35837976 CTTTTTCTTTTCTCTTTTCC
1 CTTTTTCTTTTCT-TTTTCC
*
35837996 CTTTTTCTTTTCTTTTTCT
1 CTTTTTCTTTTCTTTTTCC
35838015 CTTT
1 CTTT
35838019 CAACATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
CTTTTTCTTTTCTTTTTCC
Found at i:35838027 original size:26 final size:26
Alignment explanation
Indices: 35837972--35838027 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
35837962 TTATAGCAAT
* *
35837972 TTTTCTTTTTCTTTTCTCTTTTCCCT
1 TTTTCTTTTTCTTTTCTCTTTTCACA
35837998 TTTTC-TTTTCTTTT-TCTCTTTCAACA
1 TTTTCTTTTTCTTTTCTCT-TTTC-ACA
35838024 TTTT
1 TTTT
35838028 TTATGTGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 13 0.50
26 10 0.38
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTCTTTTTCTTTTCTCTTTTCACA
Found at i:35838388 original size:24 final size:23
Alignment explanation
Indices: 35838361--35838422 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
35838351 CACACTCATC
* *
35838361 CAATTCATATGTTAGCATCCCAAT
1 CAATTCAGAT-TTAACATCCCAAT
35838385 CAATTCAAGATTTAACATCCCAAT
1 CAATTC-AGATTTAACATCCCAAT
35838409 CAATTCAAGATTTA
1 CAATTC-AGATTTA
35838423 TGCATCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 32 0.91
25 3 0.09
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (23 bp):
CAATTCAGATTTAACATCCCAAT
Found at i:35843822 original size:15 final size:14
Alignment explanation
Indices: 35843798--35843828 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
35843788 GTGTTGTTTG
35843798 TTGTTATAACTCCC
1 TTGTTATAACTCCC
35843812 TTGTCTATAACTCCC
1 TTGT-TATAACTCCC
35843827 TT
1 TT
35843829 AGGTTGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.45
Consensus pattern (14 bp):
TTGTTATAACTCCC
Found at i:35848580 original size:20 final size:20
Alignment explanation
Indices: 35848526--35848595 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
35848516 TTCGTTGTTC
* * *
35848526 CGGTAGAAGCATACTTGTAT
1 CGGTAGAAGTAAAGTTGTAT
* *
35848546 CAGTAGAACTAAAGTTGTAT
1 CGGTAGAAGTAAAGTTGTAT
* *
35848566 CGGTAGAAGTGAAGTTCTA-
1 CGGTAGAAGTAAAGTTGTAT
35848585 CTGGTAGAAGT
1 C-GGTAGAAGT
35848596 CCCAGGGTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 1 0.03
20 39 0.98
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (20 bp):
CGGTAGAAGTAAAGTTGTAT
Found at i:35848820 original size:20 final size:20
Alignment explanation
Indices: 35848781--35848820 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35848771 AGTCTTCAAG
*
35848781 GTATCGGTAGAACTGTAGTT
1 GTATCGGTAGAACTGGAGTT
*
35848801 GTATCGGTAGAAGTGGAGTT
1 GTATCGGTAGAACTGGAGTT
35848821 CTACCTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.07, G:0.35, T:0.33
Consensus pattern (20 bp):
GTATCGGTAGAACTGGAGTT
Found at i:35851201 original size:26 final size:26
Alignment explanation
Indices: 35851165--35851226 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
35851155 ATTTTGCCCC
35851165 AAAATTTTAGTTAACCCGTTTAACAG
1 AAAATTTTAGTTAACCCGTTTAACAG
35851191 AAAATTTTAGTTAACCCGTTTAACAG
1 AAAATTTTAGTTAACCCGTTTAACAG
35851217 AAAATTTTAG
1 AAAATTTTAG
35851227 CCTCAAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.35
Consensus pattern (26 bp):
AAAATTTTAGTTAACCCGTTTAACAG
Found at i:35857751 original size:29 final size:28
Alignment explanation
Indices: 35857719--35857774 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
35857709 CCGATAACAT
*
35857719 ATCACAGAATAATATCACACAAACAAATC
1 ATCAAAGAATAATATCACACAAA-AAATC
* *
35857748 ATCAAAGAGTATTATCACACAAAAAAT
1 ATCAAAGAATAATATCACACAAAAAAT
35857775 GTAGCACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (28 bp):
ATCAAAGAATAATATCACACAAAAAATC
Found at i:35859125 original size:10 final size:10
Alignment explanation
Indices: 35859110--35859137 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
35859100 TTTAGTCCTT
35859110 AAATTTCCCA
1 AAATTTCCCA
35859120 AAATTTCCCA
1 AAATTTCCCA
35859130 AAATTTCC
1 AAATTTCC
35859138 AAATTAGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTTCCCA
Found at i:35860173 original size:12 final size:12
Alignment explanation
Indices: 35860133--35860180 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
35860123 GGTAGGATAA
*
35860133 CTGCATCTTTAT
1 CTGCATCTGTAT
** *
35860145 CTATATCCGTAT
1 CTGCATCTGTAT
*
35860157 GTGCATCTGTAT
1 CTGCATCTGTAT
35860169 CTGCATCTGTAT
1 CTGCATCTGTAT
35860181 ATGATCTGCT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (12 bp):
CTGCATCTGTAT
Found at i:35860180 original size:24 final size:24
Alignment explanation
Indices: 35860134--35860188 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
35860124 GTAGGATAAC
* * *
35860134 TGCATCTTTATCTATATCCGTATG
1 TGCATCTGTATCTACATCCGTATA
* *
35860158 TGCATCTGTATCTGCATCTGTATA
1 TGCATCTGTATCTACATCCGTATA
35860182 TG-ATCTG
1 TGCATCTG
35860189 CTGAGTATCT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (24 bp):
TGCATCTGTATCTACATCCGTATA
Found at i:35866337 original size:282 final size:282
Alignment explanation
Indices: 35865833--35867672 Score: 3043
Period size: 282 Copynumber: 6.6 Consensus size: 282
35865823 ATGAAGGCGA
** *
35865833 AGACTAATGCAGTGCTGCCAGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
1 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
35865898 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
66 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
35865963 TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
131 TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
*
35866028 CTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCTGGCTCAAGGAATGAA
196 CTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATGAA
35866093 TCATCAAAAGATACAAAAACTG
261 TCATCAAAAGATACAAAAACTG
35866115 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
1 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
*
35866180 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTTCCAGA
66 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
35866245 TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
131 TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
* *
35866310 TTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGTCTCAAGGAATGAA
196 CTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATGAA
35866375 TCATCAAAAGATACGAAAAA-TG
261 TCATCAAAAGATAC-AAAAACTG
*
35866397 AGACTAATGTGGTGCCGCCTGTTCTTGAAGCAAGATCAGCC---G--A---A----G----T--G
1 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
* *
35866444 CAACTTCATGAAGGGGTCGACATTGAGGAAGTAATTGTTCCAAGTATGATTGAGAAACTGCCAGA
66 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
*
35866509 TCTTGGAGATAACAAATCCAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
131 TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
*
35866574 CTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCACCACATTCTGCAGGCTCAAGGAATGAA
196 CTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATGAA
*
35866639 TCATCAAAAGATACGAAAACTG
261 TCATCAAAAGATACAAAAACTG
*
35866661 AGACTAATGTGGTGCTGCCTGTTGTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
1 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
*
35866726 CAACTTCATGAAGGAGTTGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
66 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
*
35866791 TCTTGGAGATAACAAATCCAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
131 TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
* *
35866856 CAGTTCGACAACTTCCGGAATCTAATCCAGCTGAGTCGCCACATTCTGCAGGCTCAAGGAATGAA
196 CTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATGAA
*
35866921 TCATCAAAAGATACGAAAACTG
261 TCATCAAAAGATACAAAAACTG
*
35866943 AGACTAATGTGGTGCTGCCTGTTGTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
1 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
35867008 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
66 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
35867073 TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
131 TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
*
35867138 CTTTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATGAA
196 CTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATGAA
*
35867203 TCATCAAAAGATACGAAAACTG
261 TCATCAAAAGATACAAAAACTG
* *
35867225 AGACTAATGTGGAGCTGCCTGTTGTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
1 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
35867290 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
66 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
* * ***
35867355 TCTTGGAGATAACAAATCAAAATTACCTGTTGTTGAGGCAAGATCTCTGGAGGATATAGGCAAAG
131 TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
* * * * * * * *
35867420 CTATTCAACAGCTTGCGAAACCTAAT-C--C--A---G-CACATTCTTCAAGCTCAAGGAATGAA
196 CTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATGAA
* * *
35867476 TCATCAAAAGATTCAAAGACCG
261 TCATCAAAAGATACAAAAACTG
* *
35867498 AGACTAATGCGGTGCTGCCAGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
1 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
* *
35867563 CAACTTCATGAAGGAGTTGACATTGGGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
66 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
* * * *
35867628 CCATGGAGATAACAAATCAAAATTACCTGTTGTCCAGGCAAGATC
131 TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATC
35867673 AGCAGAAGAT
Statistics
Matches: 1481, Mismatches: 57, Indels: 49
0.93 0.04 0.03
Matches are distributed among these distances:
263 4 0.00
264 244 0.16
266 1 0.00
267 1 0.00
269 1 0.00
270 1 0.00
272 1 0.00
273 207 0.14
274 2 0.00
276 1 0.00
277 2 0.00
279 2 0.00
280 1 0.00
281 1 0.00
282 1007 0.68
283 5 0.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (282 bp):
AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
TCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
CTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATGAA
TCATCAAAAGATACAAAAACTG
Found at i:35866929 original size:546 final size:551
Alignment explanation
Indices: 35865896--35867672 Score: 2830
Period size: 546 Copynumber: 3.2 Consensus size: 551
35865886 TTGGCTTTTA
35865896 AGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCA
1 AGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCA
35865961 GATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAA
66 GATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAA
*
35866026 AGCTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCTGGCTCAAGGAATG
131 AGCTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATG
* *
35866091 AATCATCAAAAGATACAAAAACTGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCC
196 AATCATCAAAAGATACGAAAACTGAGACTAATGTGGTGCTGCCTGTTGTTGAAGCAAGATCAGCC
35866156 GAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCC
261 GAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCC
*
35866221 GAGTATGATTGAGAAACTTCCAGATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAA
326 GAGTATGATTGAGAAACTGCCAGATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAA
**
35866286 GATCTCTGGAGGATATACATAAAGTTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCA
391 GATCTCTGGAGGATATACATAAAGCAGTTCGACAACTTCCGGAATCTAATCCAGCTGAG-CGCCA
* * *
35866351 CATTCTGCAGTCTCAAGGAATGAATCATCAAAAGATACGAAAAATGAGACTAATGTGGTGCCGCC
455 CATTCTGCAGGCTCAAGGAATGAATCATCAAAAGATACGAAAACTGAGACTAATGTGGTGCTGCC
35866416 TGTTCTTGAAGCAAGATCAGCC-G-A-A-G-T
520 TGTTCTTGAAGCAAGATCAGCCAGAATATGTT
* *
35866443 -GCAACTTCATGAAGGGGTCGACATTGAGGAAGTAATTGTTCCAAGTATGATTGAGAAACTGCCA
1 AGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCA
*
35866507 GATCTTGGAGATAACAAATCCAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAA
66 GATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAA
*
35866572 AGCTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCACCACATTCTGCAGGCTCAAGGAATG
131 AGCTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATG
35866637 AATCATCAAAAGATACGAAAACTGAGACTAATGTGGTGCTGCCTGTTGTTGAAGCAAGATCAGCC
196 AATCATCAAAAGATACGAAAACTGAGACTAATGTGGTGCTGCCTGTTGTTGAAGCAAGATCAGCC
*
35866702 GAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGAGTTGACATTGAGGAAGTAATTGTTCC
261 GAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCC
*
35866767 GAGTATGATTGAGAAACTGCCAGATCTTGGAGATAACAAATCCAAATTACCTATTGTCGAGGCAA
326 GAGTATGATTGAGAAACTGCCAGATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAA
35866832 GATCTCTGGAGGATATACATAAAGCAGTTCGACAACTTCCGGAATCTAATCCAGCTGAGTCGCCA
391 GATCTCTGGAGGATATACATAAAGCAGTTCGACAACTTCCGGAATCTAATCCAGCTGAG-CGCCA
35866897 CATTCTGCAGGCTCAAGGAATGAATCATCAAAAGATACGAAAACTGAGACTAATGTGGTGCTGCC
455 CATTCTGCAGGCTCAAGGAATGAATCATCAAAAGATACGAAAACTGAGACTAATGTGGTGCTGCC
*
35866962 TGTTGTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTT
520 TGTTCTTGAAGCAAGATCAGCC--AGA-A-T-A--T-G---TT
35867005 AAGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCC
1 -AGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCC
35867070 AGATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATA
65 AGATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATA
*
35867135 AAGCTTTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAAT
130 AAGCTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAAT
*
35867200 GAATCATCAAAAGATACGAAAACTGAGACTAATGTGGAGCTGCCTGTTGTTGAAGCAAGATCAGC
195 GAATCATCAAAAGATACGAAAACTGAGACTAATGTGGTGCTGCCTGTTGTTGAAGCAAGATCAGC
35867265 CGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTC
260 CGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTC
* *
35867330 CGAGTATGATTGAGAAACTGCCAGATCTTGGAGATAACAAATCAAAATTACCTGTTGTTGAGGCA
325 CGAGTATGATTGAGAAACTGCCAGATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCA
*** * * * * *
35867395 AGATCTCTGGAGGATATAGGCAAAGCTA-TTCAACAGCTTGCGAAACCTAAT-C--C--A--G-C
390 AGATCTCTGGAGGATATACATAAAGC-AGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCGCC
* * * * *
35867451 ACATTCTTCAAGCTCAAGGAATGAATCATCAAAAGATTC-AAAGACCGAGACTAATGCGGTGCTG
454 ACATTCTGCAGGCTCAAGGAATGAATCATCAAAAGATACGAAA-ACTGAGACTAATGTGGTGCTG
*
35867515 CCAGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTT
518 CCTGTTCTTGAAGCAAGATCAGCC--AGA-A-T-A--T-G---TT
* *
35867560 AAGCAACTTCATGAAGGAGTTGACATTGGGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCC
1 -AGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCC
* * * *
35867625 AGACCATGGAGATAACAAATCAAAATTACCTGTTGTCCAGGCAAGATC
65 AGATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATC
35867673 AGCAGAAGAT
Statistics
Matches: 1162, Mismatches: 48, Indels: 32
0.94 0.04 0.03
Matches are distributed among these distances:
546 524 0.45
549 1 0.00
551 1 0.00
554 4 0.00
555 206 0.18
556 1 0.00
558 1 0.00
559 1 0.00
561 1 0.00
562 1 0.00
563 1 0.00
564 419 0.36
565 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (551 bp):
AGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCA
GATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAAGATCTCTGGAGGATATACATAA
AGCTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTGCAGGCTCAAGGAATG
AATCATCAAAAGATACGAAAACTGAGACTAATGTGGTGCTGCCTGTTGTTGAAGCAAGATCAGCC
GAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCC
GAGTATGATTGAGAAACTGCCAGATCTTGGAGATAACAAATCAAAATTACCTATTGTCGAGGCAA
GATCTCTGGAGGATATACATAAAGCAGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCGCCAC
ATTCTGCAGGCTCAAGGAATGAATCATCAAAAGATACGAAAACTGAGACTAATGTGGTGCTGCCT
GTTCTTGAAGCAAGATCAGCCAGAATATGTT
Found at i:35867778 original size:138 final size:138
Alignment explanation
Indices: 35867527--35867810 Score: 451
Period size: 138 Copynumber: 2.1 Consensus size: 138
35867517 AGTTCTTGAA
* * * * *
35867527 GCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGAGTTGACATTGGGGA
1 GCAAGATCAGCAGAAGATATTGATTTGGCTTTCAAGCAACTGCATGAAGGAGCTGACATTGAGGA
*
35867592 AGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGACCATGGAGATAACAAATCAAAATTACCTG
66 AGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGACCATGGAAATAACAAATCAAAATTACCTG
35867657 TTGTCCAG
131 TTGTCCAG
**
35867665 GCAAGATCAGCAGAAGATATTGATTTGGCTTTCAAGCAACTGCATGAAGGAGCTGATGTTGAGGA
1 GCAAGATCAGCAGAAGATATTGATTTGGCTTTCAAGCAACTGCATGAAGGAGCTGACATTGAGGA
* * *
35867730 AGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGATCTTGGAAATAACAAATCACAATTACCTG
66 AGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGACCATGGAAATAACAAATCAAAATTACCTG
**
35867795 TTGTGGAG
131 TTGTCCAG
35867803 GCAAGATC
1 GCAAGATC
35867811 TCTGAAGGAA
Statistics
Matches: 133, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 133 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (138 bp):
GCAAGATCAGCAGAAGATATTGATTTGGCTTTCAAGCAACTGCATGAAGGAGCTGACATTGAGGA
AGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGACCATGGAAATAACAAATCAAAATTACCTG
TTGTCCAG
Found at i:35870334 original size:18 final size:19
Alignment explanation
Indices: 35870313--35870353 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
35870303 AATATTTTAT
35870313 TTTATTTTATAAT-TTCAG
1 TTTATTTTATAATATTCAG
*
35870331 TTTATTTTATAATATTTAG
1 TTTATTTTATAATATTCAG
35870350 TTTA
1 TTTA
35870354 AAGTATTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTATTTTATAATATTCAG
Found at i:35874609 original size:30 final size:31
Alignment explanation
Indices: 35874575--35874653 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
35874565 CTTAACAACC
*
35874575 AAGTGACTTAAAT-AAAACTTTTGAATAGTT
1 AAGTGACTTAAATGAAAACTTTCGAATAGTT
*
35874605 AAGTGGCTTAAATGAAAACTTTCGAATAGTT
1 AAGTGACTTAAATGAAAACTTTCGAATAGTT
* **
35874636 CAGTGACCAAAATGAAAA
1 AAGTGACTTAAATGAAAA
35874654 TTTAACCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 12 0.29
31 30 0.71
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.29
Consensus pattern (31 bp):
AAGTGACTTAAATGAAAACTTTCGAATAGTT
Found at i:35879942 original size:21 final size:21
Alignment explanation
Indices: 35879918--35879968 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
35879908 GAGACAATAT
35879918 TACCGATACAAGT-ATGACTTC
1 TACCGATACAAGTCATG-CTTC
*
35879939 TACCGA-AGCATGTCATGCTTC
1 TACCGATA-CAAGTCATGCTTC
35879960 TACCGATAC
1 TACCGATAC
35879969 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 21 0.81
22 4 0.15
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (21 bp):
TACCGATACAAGTCATGCTTC
Found at i:35880147 original size:21 final size:21
Alignment explanation
Indices: 35880123--35880162 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35880113 TACCCTGTAC
* *
35880123 TTCTACCGATACATGTATGAG
1 TTCTACCGAAACAAGTATGAG
35880144 TTCTACCGAAACAAGTATG
1 TTCTACCGAAACAAGTATG
35880163 CAAAGTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (21 bp):
TTCTACCGAAACAAGTATGAG
Found at i:35883193 original size:29 final size:29
Alignment explanation
Indices: 35883169--35883232 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
35883159 ATGTTTCCAA
* *
35883169 AATCTAAAGTCTCACATAAAAGTTTTCAG
1 AATCTAAAATCTCACAGAAAAGTTTTCAG
* *
35883198 AATCTAAAATTTCACAGAATAGTTTTCAG
1 AATCTAAAATCTCACAGAAAAGTTTTCAG
35883227 AATCTA
1 AATCTA
35883233 TAATATATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (29 bp):
AATCTAAAATCTCACAGAAAAGTTTTCAG
Found at i:35883247 original size:29 final size:28
Alignment explanation
Indices: 35883169--35883245 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
35883159 ATGTTTCCAA
* * *
35883169 AATCTAAAGTCTCACATAAAAGTTTTCAG
1 AATCTAAAATATCACA-AATAGTTTTCAG
*
35883198 AATCTAAAATTTCACAGAATAGTTTTCAG
1 AATCTAAAATATCACA-AATAGTTTTCAG
35883227 AATCTATAATATATCACAA
1 AATCTA-AA-ATATCACAA
35883246 TATTATATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 31 0.76
30 3 0.07
31 7 0.17
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (28 bp):
AATCTAAAATATCACAAATAGTTTTCAG
Found at i:35889978 original size:20 final size:20
Alignment explanation
Indices: 35889936--35889980 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
35889926 CCTGAGATAG
* *
35889936 AAAATTGAGCCTAAAAATAA
1 AAAATTGAGACTAAAAACAA
* *
35889956 AAAATTGAGACTAAGAACCA
1 AAAATTGAGACTAAAAACAA
35889976 AAAAT
1 AAAAT
35889981 CAAGATCGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.11, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAATTGAGACTAAAAACAA
Found at i:35890390 original size:17 final size:19
Alignment explanation
Indices: 35890345--35890392 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
35890335 AGTATTTTAT
35890345 TAATTT-ATATTAAAGTGA
1 TAATTTAATATTAAAGTGA
*
35890363 TTATCTTAATATTAAA-T-A
1 TAAT-TTAATATTAAAGTGA
35890381 TAATTTAATATT
1 TAATTTAATATT
35890393 TATCTTGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.31
18 7 0.27
19 3 0.12
20 8 0.31
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (19 bp):
TAATTTAATATTAAAGTGA
Found at i:35890431 original size:21 final size:21
Alignment explanation
Indices: 35890403--35890446 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35890393 TATCTTGTAG
**
35890403 ATAAATATGCTATT-AATTTA
1 ATAAATATAATATTAAATTTA
35890423 ATAAGATATAATATTAAATTTA
1 ATAA-ATATAATATTAAATTTA
35890445 AT
1 AT
35890447 CTAATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 8 0.40
22 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
ATAAATATAATATTAAATTTA
Found at i:35898056 original size:24 final size:24
Alignment explanation
Indices: 35898029--35898080 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
35898019 TAAATAATTT
35898029 TAAAATT-AAAAAAATTCAAACAAA
1 TAAAATTGAAAAAAATTCAAA-AAA
* *
35898053 TAAATTTGATAAAAATTCAAAAAA
1 TAAAATTGAAAAAAATTCAAAAAA
35898077 TAAA
1 TAAA
35898081 GTTAGCATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (24 bp):
TAAAATTGAAAAAAATTCAAAAAA
Found at i:35898544 original size:31 final size:31
Alignment explanation
Indices: 35898509--35898583 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
35898499 TGAACTTAAA
35898509 AATATAAAAATAAAATATTTTAATATAATTT
1 AATATAAAAATAAAATATTTTAATATAATTT
* * *
35898540 AATATAAAACTAAATTTTTTTAATATAATTT
1 AATATAAAAATAAAATATTTTAATATAATTT
35898571 AATATAAAAATAA
1 AATATAAAAATAA
35898584 TTATATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (31 bp):
AATATAAAAATAAAATATTTTAATATAATTT
Found at i:35899147 original size:20 final size:20
Alignment explanation
Indices: 35899118--35899179 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
35899108 TTTTTTTATG
*
35899118 AAAATCGTAAAAAATTATAA
1 AAAATTGTAAAAAATTATAA
***
35899138 AAAATTGTAAACTTTTAT-A
1 AAAATTGTAAAAAATTATAA
*
35899157 AAAATTATGAAAAAATTATAA
1 AAAATTGT-AAAAAATTATAA
35899178 AA
1 AA
35899180 TGCATAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
19 8 0.25
20 21 0.66
21 3 0.09
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAATTGTAAAAAATTATAA
Found at i:35899172 original size:11 final size:10
Alignment explanation
Indices: 35899125--35899179 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
35899115 ATGAAAATCG
35899125 TAAAAAATTA
1 TAAAAAATTA
*
35899135 TAAAAAATTG
1 TAAAAAATTA
***
35899145 TAAACTTTTA
1 TAAAAAATTA
35899155 T-AAAAATTA
1 TAAAAAATTA
35899164 TGAAAAAATTA
1 T-AAAAAATTA
35899175 TAAAA
1 TAAAA
35899180 TGCATAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 6 0.17
10 20 0.57
11 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:35899186 original size:29 final size:29
Alignment explanation
Indices: 35899127--35899190 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
35899117 GAAAATCGTA
* * **
35899127 AAAAATTATAAAAAATTGTAAACTTTTAT
1 AAAAATTATAAAAAATTATAAACATGCAT
35899156 AAAAATTATGAAAAAATTATAAA-ATGCAT
1 AAAAATTAT-AAAAAATTATAAACATGCAT
35899185 AAAAAT
1 AAAAAT
35899191 GTCATTTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAAATTATAAAAAATTATAAACATGCAT
Found at i:35899387 original size:19 final size:18
Alignment explanation
Indices: 35899363--35899433 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
35899353 GTACGATAAT
35899363 TTTTATAATATTTTACGAA
1 TTTTATAATATTTTACG-A
*
35899382 TTTTAT-ATTTATTTAC-A
1 TTTTATAATAT-TTTACGA
*
35899399 TTTTCATAATTTTCTTACGA
1 TTTT-ATAATATT-TTACGA
*
35899419 TTTTATAAAATTTTA
1 TTTTATAATATTTTA
35899434 TAATTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
17 5 0.11
18 9 0.20
19 25 0.57
20 5 0.11
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTATAATATTTTACGA
Found at i:35899531 original size:10 final size:10
Alignment explanation
Indices: 35899446--35899532 Score: 54
Period size: 10 Copynumber: 8.8 Consensus size: 10
35899436 ATTTTTTTTC
35899446 TAATTTTTAA
1 TAATTTTTAA
* *
35899456 TAAAATTTAAA
1 T-AATTTTTAA
35899467 TAA-TTTTAA
1 TAATTTTTAA
*
35899476 TAGTTTTTAA
1 TAATTTTTAA
**
35899486 TGAAAATTTAA
1 T-AATTTTTAA
35899497 TAATTTTT--
1 TAATTTTTAA
* *
35899505 TAACTTTTAT
1 TAATTTTTAA
**
35899515 TGTTTTTTAA
1 TAATTTTTAA
35899525 TAATTTTT
1 TAATTTTT
35899533 TGTCACATGT
Statistics
Matches: 56, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
8 7 0.12
9 7 0.12
10 27 0.48
11 15 0.27
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:35901592 original size:22 final size:21
Alignment explanation
Indices: 35901567--35901614 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
35901557 CAAATATTGA
*
35901567 TTAATAATAGGATAAATTAAGG
1 TTAATAAGAGGATAAATTAA-G
* * *
35901589 TTAAAAAGATGATTAATTAAG
1 TTAATAAGAGGATAAATTAAG
35901610 TTAAT
1 TTAAT
35901615 TATGAAAGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (21 bp):
TTAATAAGAGGATAAATTAAG
Found at i:35901704 original size:3 final size:3
Alignment explanation
Indices: 35901696--35901723 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
35901686 CACATTTTCT
35901696 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
35901724 CTACACGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:35902565 original size:41 final size:41
Alignment explanation
Indices: 35902422--35902698 Score: 299
Period size: 41 Copynumber: 6.7 Consensus size: 41
35902412 GGTGTATAAA
* * * *
35902422 AAGGAAGACTCA-GTCTCGAGTTGAGCATGAGA-AATTGTAT
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTA-TGAAT
* * * * *
35902462 AAATGGAATAATCATGTCTCGAAATGAGAATGAGATTTTGATTT
1 -AA-GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGA-AT
35902506 AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
*
35902547 ATGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
* * * *
35902588 AAGGAAGACTCATGTATCGAAATGAGAATGAGATTTTGATT
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
* * **
35902629 AAGGATGACTCATGTCTCGAGATGAGAATGAGAATATGGTT
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
* * *
35902670 AATGGAAGACTTATGACTCGA-AAGAGAAT
1 AA-GGAAGACTCATGTCTCGAGATGAGAAT
35902699 AAGGTTGTTT
Statistics
Matches: 201, Mismatches: 30, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
41 123 0.61
42 56 0.28
43 21 0.10
44 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.27
Consensus pattern (41 bp):
AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
Found at i:35902612 original size:124 final size:126
Alignment explanation
Indices: 35902424--35902698 Score: 364
Period size: 124 Copynumber: 2.2 Consensus size: 126
35902414 TGTATAAAAA
* * * * *
35902424 GGAAGACTCA-GTCTCGAGTTGAGCATGAGAAATTGTATAAATGGAATAATCATGTCTCGAAATG
1 GGAAGACTCATGTCTCGAGATGAGAATGAGAAATTGAATAAATGGAAGAATCATGTATCGAAATG
*
35902488 AGAATGAGATTTTGATTTAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT-AT
66 AGAATGAGATTTTGA-TTAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGAATAAT
* *
35902549 GGAAGACTCATGTCTCGAGATGAGAATGAG-ATTATGAAT-AA-GGAAGACTCATGTATCGAAAT
1 GGAAGACTCATGTCTCGAGATGAGAATGAGAAAT-TGAATAAATGGAAGAATCATGTATCGAAAT
* **
35902611 GAGAATGAGATTTTGATTAAGGATGACTCATGTCTCGAGATGAGAATGAGAATATGGTTAAT
65 GAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGAATAAT
* * *
35902673 GGAAGACTTATGACTCGA-AAGAGAAT
1 GGAAGACTCATGTCTCGAGATGAGAAT
35902699 AAGGTTGTTT
Statistics
Matches: 133, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
123 46 0.35
124 52 0.39
125 14 0.11
126 21 0.16
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.27
Consensus pattern (126 bp):
GGAAGACTCATGTCTCGAGATGAGAATGAGAAATTGAATAAATGGAAGAATCATGTATCGAAATG
AGAATGAGATTTTGATTAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGAATAAT
Found at i:35903283 original size:21 final size:21
Alignment explanation
Indices: 35903259--35903300 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35903249 TCGATAGTAC
* *
35903259 TTAGCATATTTGTATCGGTAG
1 TTAGAATACTTGTATCGGTAG
35903280 TTAGAATACTTGTATCGGTAG
1 TTAGAATACTTGTATCGGTAG
35903301 AAGTTACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (21 bp):
TTAGAATACTTGTATCGGTAG
Found at i:35908797 original size:22 final size:21
Alignment explanation
Indices: 35908772--35908819 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
35908762 CAAATATTGA
*
35908772 TTAATAATAGGATAAATTAAGG
1 TTAATAAGAGGATAAATTAA-G
* * *
35908794 TTAAAAAGATGATTAATTAAG
1 TTAATAAGAGGATAAATTAAG
35908815 TTAAT
1 TTAAT
35908820 TATGAAAGTC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (21 bp):
TTAATAAGAGGATAAATTAAG
Found at i:35908909 original size:3 final size:3
Alignment explanation
Indices: 35908901--35908942 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
35908891 CACATTTTCT
35908901 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
35908943 CTACACGGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:35909782 original size:41 final size:41
Alignment explanation
Indices: 35909686--35909910 Score: 297
Period size: 41 Copynumber: 5.4 Consensus size: 41
35909676 TTGTATAAAT
* * *
35909686 GGAAGACTCATGTCTTGAAATGAGAATGAGATTTTGATTTAA
1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGA-TTAA
*
35909728 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAA
1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATTAA
* * *
35909769 GGAAGAATTATGTCTCGAGATGAGAATGAGATTATGAATAA
1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATTAA
* * *
35909810 GGAAGACTCATGTCTCGAAATGAGAATGTGATTTTGATTAA
1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATTAA
* * *
35909851 GGATGACTCATGTCTCGAGATGAGAATGAGAATATGGTTAA
1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATTAA
* *
35909892 TGGAAGACTTATGACTCGA
1 -GGAAGACTCATGTCTCGA
35909911 AAGAGCTTAA
Statistics
Matches: 161, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 112 0.70
42 49 0.30
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.28
Consensus pattern (41 bp):
GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATTAA
Found at i:35909832 original size:124 final size:124
Alignment explanation
Indices: 35909686--35909910 Score: 362
Period size: 124 Copynumber: 1.8 Consensus size: 124
35909676 TTGTATAAAT
*
35909686 GGAAGACTCATGTCTTGAAATGAGAATGAGATTTTGATTTAAGGAAGACTCATGTCTCGAGATGA
1 GGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGA-TTAAGGAAGACTCATGTCTCGAGATGA
* *
35909751 GAATGAGATTATGAATAA-GGAAGAATTATGTCTCGAGATGAGAATGAGATTATGAATAA
65 GAATGAGAATATGAATAATGGAAGAATTATGACTCGAGATGAGAATGAGATTATGAATAA
* *
35909810 GGAAGACTCATGTCTCGAAATGAGAATGTGATTTTGATTAAGGATGACTCATGTCTCGAGATGAG
1 GGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCGAGATGAG
** *
35909875 AATGAGAATATGGTTAATGGAAGACTTATGACTCGA
66 AATGAGAATATGAATAATGGAAGAATTATGACTCGA
35909911 AAGAGCTTAA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
123 41 0.45
124 51 0.55
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.28
Consensus pattern (124 bp):
GGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCGAGATGAG
AATGAGAATATGAATAATGGAAGAATTATGACTCGAGATGAGAATGAGATTATGAATAA
Found at i:35921596 original size:24 final size:24
Alignment explanation
Indices: 35921560--35921621 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
35921550 TCACAAAGTC
* * * **
35921560 CACTATCATTATCATCATAGTTTG
1 CACTATTACTATCATCATAGCTCA
35921584 CACTATTACTATCATCATAGCTCA
1 CACTATTACTATCATCATAGCTCA
35921608 CACTATTACTATCA
1 CACTATTACTATCA
35921622 ATTTCTTCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (24 bp):
CACTATTACTATCATCATAGCTCA
Found at i:35925056 original size:35 final size:35
Alignment explanation
Indices: 35924974--35925058 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 35
35924964 CATGAGTGAG
* * *
35924974 TATACATATAATATA-TTATGTGCGTGAGCTTTAT
1 TATATATATAATATATTTATATGCATGAGCTTTAT
** * * *
35925008 CGTATGTAAAATATATTTATATGCATGGGCTTTAT
1 TATATATATAATATATTTATATGCATGAGCTTTAT
35925043 TATATATATAATATAT
1 TATATATATAATATAT
35925059 ACCTGACTTT
Statistics
Matches: 38, Mismatches: 12, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
34 10 0.26
35 28 0.74
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (35 bp):
TATATATATAATATATTTATATGCATGAGCTTTAT
Found at i:35926163 original size:17 final size:17
Alignment explanation
Indices: 35926080--35926163 Score: 71
Period size: 17 Copynumber: 4.9 Consensus size: 17
35926070 TTATGATAGA
*
35926080 GTATGAACTGTTATTTT
1 GTATGAACTGTTATTTG
* * *
35926097 GCATGAAATGTTATGTG
1 GTATGAACTGTTATTTG
* * *
35926114 TTATGAACTATTAATTG
1 GTATGAACTGTTATTTG
* *
35926131 GAATAAACT-TTCATTTG
1 GTATGAACTGTT-ATTTG
35926148 GTATGAACTGTTATTT
1 GTATGAACTGTTATTT
35926164 CATATGAACA
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
16 2 0.04
17 45 0.92
18 2 0.04
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (17 bp):
GTATGAACTGTTATTTG
Found at i:35927089 original size:28 final size:29
Alignment explanation
Indices: 35927057--35927111 Score: 103
Period size: 28 Copynumber: 1.9 Consensus size: 29
35927047 AAATAATATA
35927057 GATACAGTTACAGATACAAT-ATGTCATT
1 GATACAGTTACAGATACAATCATGTCATT
35927085 GATACAGTTACAGATACAATCATGTCA
1 GATACAGTTACAGATACAATCATGTCA
35927112 CAGATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (29 bp):
GATACAGTTACAGATACAATCATGTCATT
Found at i:35927820 original size:53 final size:53
Alignment explanation
Indices: 35927756--35927934 Score: 200
Period size: 53 Copynumber: 3.4 Consensus size: 53
35927746 CTCAAAACAA
* * * ** *
35927756 TATACATACACCCTAACACACACTCATGTGTCAGCTTATGTGCCCTAGAATAG
1 TATACACACACCCTGACACACACCCATGTGTCAGCCCATGTGCCCCAGAATAG
* * *
35927809 TATACACACACCATGACACACGCCCATGTGTCAGCCCGTGTGCCCCAGAATAG
1 TATACACACACCCTGACACACACCCATGTGTCAGCCCATGTGCCCCAGAATAG
*** *
35927862 TATACACACACCCTGACACATGTCCATGTGTCAGCCCATGTG-CCCA-AAGCAG
1 TATACACACACCCTGACACACACCCATGTGTCAGCCCATGTGCCCCAGAA-TAG
* *
35927914 TATACATACACCTTGACACAC
1 TATACACACACCCTGACACAC
35927935 GTCTGTGTGC
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
51 2 0.02
52 24 0.22
53 82 0.76
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (53 bp):
TATACACACACCCTGACACACACCCATGTGTCAGCCCATGTGCCCCAGAATAG
Found at i:35928007 original size:43 final size:42
Alignment explanation
Indices: 35927905--35928010 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
35927895 GCCCATGTGC
* **
35927905 CCAAAGCAGTATACATACAC-CTTGACACACGTCTGTGTGCCT
1 CCAAA-CAGTATACACACACACTTGACACACACCTGTGTGCCT
* * *
35927947 CCACATAGTATATACACACACTCTGACACACACCTGTGTGCCT
1 CCAAACAGTATACACACACACT-TGACACACACCTGTGTGCCT
*
35927990 CCAAACAATATACACACACAC
1 CCAAACAGTATACACACACAC
35928011 ACTTTGACAC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 11 0.21
42 6 0.12
43 35 0.67
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.21
Consensus pattern (42 bp):
CCAAACAGTATACACACACACTTGACACACACCTGTGTGCCT
Found at i:35928010 original size:45 final size:43
Alignment explanation
Indices: 35927927--35928022 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 43
35927917 ACATACACCT
** * *
35927927 TGACACACGTCTGTGTGCCTCCACATAGTATATACACACACTC
1 TGACACACACCTGTGTGCCTCCACATAGTACACACACACACTC
*
35927970 TGACACACACCTGTGTGCCTCCAAACAATA-TACACACACACACTT
1 TGACACACACCTGTGTGCCTCC--AC-ATAGTACACACACACACTC
35928015 TGACACAC
1 TGACACAC
35928023 GCCCATGTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
43 20 0.44
45 22 0.49
46 3 0.07
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.22
Consensus pattern (43 bp):
TGACACACACCTGTGTGCCTCCACATAGTACACACACACACTC
Found at i:35928021 original size:43 final size:44
Alignment explanation
Indices: 35927921--35928024 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 44
35927911 CAGTATACAT
* * *
35927921 ACACCTTGACACACGTCTGTGTGCCTCC--AC-ATAGTATATACAC
1 ACACTTTGACACACG-CTGTGTGCCTCCAAACAATA-TACACACAC
* *
35927964 ACACTCTGACACACACCTGTGTGCCTCCAAACAATATACACACAC
1 ACACTTTGACACAC-GCTGTGTGCCTCCAAACAATATACACACAC
35928009 ACACTTTGACACACGC
1 ACACTTTGACACACGC
35928025 CCATGTGCCA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
43 24 0.48
44 1 0.02
45 22 0.44
46 3 0.06
ACGTcount: A:0.32, C:0.36, G:0.12, T:0.21
Consensus pattern (44 bp):
ACACTTTGACACACGCTGTGTGCCTCCAAACAATATACACACAC
Found at i:35930512 original size:17 final size:18
Alignment explanation
Indices: 35930474--35930513 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
35930464 ACAAATACGC
35930474 TGACAAATAAAATGCAGA
1 TGACAAATAAAATGCAGA
*
35930492 -GACAATTAAAATGCA-A
1 TGACAAATAAAATGCAGA
35930508 TGACAA
1 TGACAA
35930514 CTATATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.17
Consensus pattern (18 bp):
TGACAAATAAAATGCAGA
Found at i:35938148 original size:9 final size:9
Alignment explanation
Indices: 35938116--35938181 Score: 60
Period size: 9 Copynumber: 7.0 Consensus size: 9
35938106 GTTGTATTAT
35938116 TTTTTTTGAA
1 TTTTTTTG-A
**
35938126 TTTTCTTTCT
1 TTTT-TTTGA
35938136 TTTTTTTGA
1 TTTTTTTGA
35938145 TTTTTTTGA
1 TTTTTTTGA
* **
35938154 GTTTCTTTCT
1 -TTTTTTTGA
35938164 TTTTTTTGA
1 TTTTTTTGA
35938173 TTTTTTTGA
1 TTTTTTTGA
35938182 ATGCTAATCT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
9 27 0.61
10 14 0.32
11 3 0.07
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.76
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:35938158 original size:28 final size:28
Alignment explanation
Indices: 35938116--35938181 Score: 114
Period size: 28 Copynumber: 2.3 Consensus size: 28
35938106 GTTGTATTAT
*
35938116 TTTTTTTGAATTTTCTTTCTTTTTTTTGA
1 TTTTTTTG-AGTTTCTTTCTTTTTTTTGA
35938145 TTTTTTTGAGTTTCTTTCTTTTTTTTGA
1 TTTTTTTGAGTTTCTTTCTTTTTTTTGA
35938173 TTTTTTTGA
1 TTTTTTTGA
35938182 ATGCTAATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 28 0.78
29 8 0.22
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.76
Consensus pattern (28 bp):
TTTTTTTGAGTTTCTTTCTTTTTTTTGA
Found at i:35939580 original size:15 final size:15
Alignment explanation
Indices: 35939533--35939585 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
35939523 TTCGCAAAGG
* *
35939533 GAGTGTTCACAACAT
1 GAGTGTTCGCGACAT
* *
35939548 CAGTGTTCGCG-CTGT
1 GAGTGTTCGCGAC-AT
35939563 GAGTGTTCGCGACAT
1 GAGTGTTCGCGACAT
35939578 GAGTGTTC
1 GAGTGTTC
35939586 TCAGTATCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (15 bp):
GAGTGTTCGCGACAT
Found at i:35944172 original size:18 final size:18
Alignment explanation
Indices: 35944151--35944203 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
35944141 GCATTCAAAC
*
35944151 ATGTGGTTGCATCTGATT
1 ATGTGATTGCATCTGATT
* * *
35944169 ATGTGACTGCATCTAAGT
1 ATGTGATTGCATCTGATT
35944187 ATGTGATTGCATCTGAT
1 ATGTGATTGCATCTGAT
35944204 CAGGCTGCAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.40
Consensus pattern (18 bp):
ATGTGATTGCATCTGATT
Found at i:35944179 original size:36 final size:36
Alignment explanation
Indices: 35944134--35944203 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
35944124 TACAGTCTGT
* *
35944134 TGTGGCTGCAT-TCAAACATGTGGTTGCATCTGATTA
1 TGTGACTGCATCT-AAACATGTGATTGCATCTGATTA
**
35944170 TGTGACTGCATCTAAGTATGTGATTGCATCTGAT
1 TGTGACTGCATCTAAACATGTGATTGCATCTGAT
35944204 CAGGCTGCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 28 0.97
37 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (36 bp):
TGTGACTGCATCTAAACATGTGATTGCATCTGATTA
Found at i:35944401 original size:28 final size:28
Alignment explanation
Indices: 35944369--35944427 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
35944359 TATGAGTTAC
35944369 CATATGAATTCCCTCAGATATTAGAATG
1 CATATGAATTCCCTCAGATATTAGAATG
35944397 CATATGAATTCCCTCAGATATTAGAATG
1 CATATGAATTCCCTCAGATATTAGAATG
35944425 CAT
1 CAT
35944428 TCTCAGCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (28 bp):
CATATGAATTCCCTCAGATATTAGAATG
Found at i:35953552 original size:15 final size:15
Alignment explanation
Indices: 35953527--35953569 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
35953517 CTTTTTCTTT
35953527 TTCCTTC-TCTTCTC
1 TTCCTTCTTCTTCTC
35953541 TTCCTTCTTCTTCTC
1 TTCCTTCTTCTTCTC
**
35953556 TTTTTTCTTCTTCT
1 TTCCTTCTTCTTCT
35953570 TAAATACCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TTCCTTCTTCTTCTC
Found at i:35954636 original size:29 final size:29
Alignment explanation
Indices: 35954594--35954650 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
35954584 ACTGATGTGG
35954594 TCAGTGCTTCATGGCACCAGACCTTCACA
1 TCAGTGCTTCATGGCACCAGACCTTCACA
*
35954623 TCAGTGCTTCATGGCACTAGACCTTCAC
1 TCAGTGCTTCATGGCACCAGACCTTCAC
35954651 GAACGAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (29 bp):
TCAGTGCTTCATGGCACCAGACCTTCACA
Found at i:35991511 original size:24 final size:24
Alignment explanation
Indices: 35991479--35991524 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
35991469 TCTAACACCT
*
35991479 GACCTGAACCCATTGACCGAACTC
1 GACCCGAACCCATTGACCGAACTC
* *
35991503 GACCCGAACTCGTTGACCGAAC
1 GACCCGAACCCATTGACCGAAC
35991525 CCAACCTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.37, G:0.20, T:0.15
Consensus pattern (24 bp):
GACCCGAACCCATTGACCGAACTC
Found at i:35991583 original size:7 final size:7
Alignment explanation
Indices: 35991573--35991630 Score: 73
Period size: 7 Copynumber: 8.4 Consensus size: 7
35991563 ACCATTAATT
35991573 GTTGACC
1 GTTGACC
35991580 GTTGACC
1 GTTGACC
*
35991587 -TTGACA
1 GTTGACC
35991593 GTTGACC
1 GTTGACC
*
35991600 GTTGACT
1 GTTGACC
*
35991607 ATTGACC
1 GTTGACC
*
35991614 ATTGACC
1 GTTGACC
35991621 GTTGACC
1 GTTGACC
35991628 GTT
1 GTT
35991631 AACAATTGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
6 5 0.11
7 39 0.89
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (7 bp):
GTTGACC
Found at i:35991586 original size:21 final size:21
Alignment explanation
Indices: 35991560--35991640 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
35991550 CCGTTTATCA
**
35991560 TTGACCATTAATTGTTGACCG
1 TTGACCATTAACAGTTGACCG
*
35991581 TTGACC-TTGACAGTTGACCG
1 TTGACCATTAACAGTTGACCG
* *
35991601 TTGACTATTGACCA-TTGACCG
1 TTGACCATT-AACAGTTGACCG
* *
35991622 TTGACCGTTAACAATTGAC
1 TTGACCATTAACAGTTGAC
35991641 TTTTTATGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 19 0.40
21 27 0.56
22 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (21 bp):
TTGACCATTAACAGTTGACCG
Found at i:35991611 original size:14 final size:13
Alignment explanation
Indices: 35991581--35991640 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 13
35991571 TTGTTGACCG
35991581 TTGACC-TTGACA
1 TTGACCGTTGACA
35991593 GTTGACCGTTGACTA
1 -TTGACCGTTGAC-A
* *
35991608 TTGACCATTGACCG
1 TTGACCGTTGA-CA
*
35991622 TTGACCGTTAACAA
1 TTGACCGTTGAC-A
35991636 TTGAC
1 TTGAC
35991641 TTTTTATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.18
14 29 0.76
15 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (13 bp):
TTGACCGTTGACA
Found at i:35992698 original size:5 final size:5
Alignment explanation
Indices: 35992688--35992729 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
35992678 TATTTATAGA
35992688 TTTAT TTTAT TTTAT TTTA- -TTAT TTTAT TATTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTT
35992730 GGGTTTCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.09
5 26 0.76
6 5 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:35992720 original size:11 final size:11
Alignment explanation
Indices: 35992688--35992727 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
35992678 TATTTATAGA
35992688 TTTATT-TTAT
1 TTTATTATTAT
35992698 TTTATTTTATTAT
1 TTTA--TTATTAT
35992711 TTTATTATTAT
1 TTTATTATTAT
35992722 TTTATT
1 TTTATT
35992728 TTGGGTTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.15
11 13 0.48
12 2 0.07
13 8 0.30
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:35999698 original size:17 final size:17
Alignment explanation
Indices: 35999653--35999701 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
35999643 ACTACAATGC
* * *
35999653 AAATGTGATAACAAGTA
1 AAATGTAATGACAATTA
* *
35999670 AAATGCAGTGACAATTA
1 AAATGTAATGACAATTA
35999687 AAATGTAATGACAAT
1 AAATGTAATGACAAT
35999702 AAGATAAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.24
Consensus pattern (17 bp):
AAATGTAATGACAATTA
Found at i:36003078 original size:18 final size:18
Alignment explanation
Indices: 36003057--36003091 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36003047 AAAGATATAT
*
36003057 TAATTAACAATAATATTA
1 TAATAAACAATAATATTA
*
36003075 TAATAAATAATAATATT
1 TAATAAACAATAATATT
36003092 TTATTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATAAACAATAATATTA
Found at i:36011701 original size:32 final size:32
Alignment explanation
Indices: 36011656--36011717 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
36011646 ATATTTATGC
* * *
36011656 CTTAAATTGAAAATGATTTTTACATAGGGGAG
1 CTTAAATTCAAAATGACTTTTACAAAGGGGAG
*
36011688 CTTAATTTCAAAATGACTTTTACAAAGGGG
1 CTTAAATTCAAAATGACTTTTACAAAGGGG
36011718 GAGAAATCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (32 bp):
CTTAAATTCAAAATGACTTTTACAAAGGGGAG
Found at i:36011904 original size:20 final size:20
Alignment explanation
Indices: 36011867--36011920 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
36011857 CTCCAATGAG
* * *
36011867 ACTTCTACCGGTAGAACTCC
1 ACTTCTACCGATACAACTAC
*
36011887 ACTTCTACCGATCCAACTAC
1 ACTTCTACCGATACAACTAC
* *
36011907 AATTCTATCGATAC
1 ACTTCTACCGATAC
36011921 CTTGAAGATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.28
Consensus pattern (20 bp):
ACTTCTACCGATACAACTAC
Found at i:36026633 original size:21 final size:21
Alignment explanation
Indices: 36026607--36026650 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
36026597 TCCACATGGT
36026607 TTGGGTATTAGG-TTGGTTCAA
1 TTGGGT-TTAGGTTTGGTTCAA
*
36026628 TTGGGTTTGGGTTTGGTTCAA
1 TTGGGTTTAGGTTTGGTTCAA
36026649 TT
1 TT
36026651 TCAAAAGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.14, C:0.05, G:0.34, T:0.48
Consensus pattern (21 bp):
TTGGGTTTAGGTTTGGTTCAA
Found at i:36033726 original size:20 final size:19
Alignment explanation
Indices: 36033693--36033731 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
36033683 AAAAGTTAAT
36033693 GGTCAACGTCAAAGTCAAC
1 GGTCAACGTCAAAGTCAAC
36033712 GGTCAACGATCAAAGTCAAC
1 GGTCAACG-TCAAAGTCAAC
36033732 ATTTAACGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (19 bp):
GGTCAACGTCAAAGTCAAC
Found at i:36035685 original size:153 final size:153
Alignment explanation
Indices: 36035407--36035713 Score: 560
Period size: 153 Copynumber: 2.0 Consensus size: 153
36035397 AGGACTTGAA
* * *
36035407 CTATCAAGATTAAGTTACATGTGTGATCGGTGTTTTTACGACACAACGATTATGCAAGTGTACAC
1 CTATCAAGATTAAGCTACATGTGTGATCGGTGTTTTTACAACACAACGATTATGCAAGCGTACAC
36035472 ATGTCAATGCAAGTATAGTTGATAGACAATTCTATCAGATATCGATCCCACGAGGAATGGGTTCT
66 ATGTCAATGCAAGTATAGTTGATAGACAATTCTATCAGATATCGATCCCACGAGGAATGGGTTCT
36035537 TGATGTCTAAATGTAGGAGCAAT
131 TGATGTCTAAATGTAGGAGCAAT
* *
36035560 CTATCAAGATTAAGCTACATGTGTGATCGGTGTTTTTACAATACAACGATTGTGCAAGCGTACAC
1 CTATCAAGATTAAGCTACATGTGTGATCGGTGTTTTTACAACACAACGATTATGCAAGCGTACAC
*
36035625 ATGTCAATGCAAGTATAGTTGGTAGACAATTCTATCAGATATCGATCCCACGAGGAATGGGTTCT
66 ATGTCAATGCAAGTATAGTTGATAGACAATTCTATCAGATATCGATCCCACGAGGAATGGGTTCT
36035690 TGATGTCTAAATGTAGGAGCAAT
131 TGATGTCTAAATGTAGGAGCAAT
36035713 C
1 C
36035714 GACATTGAAA
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
153 148 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (153 bp):
CTATCAAGATTAAGCTACATGTGTGATCGGTGTTTTTACAACACAACGATTATGCAAGCGTACAC
ATGTCAATGCAAGTATAGTTGATAGACAATTCTATCAGATATCGATCCCACGAGGAATGGGTTCT
TGATGTCTAAATGTAGGAGCAAT
Found at i:36038435 original size:12 final size:12
Alignment explanation
Indices: 36038418--36038467 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
36038408 CAGGTTCTAT
36038418 TTCTTCTTTCTC
1 TTCTTCTTTCTC
36038430 TTCTTCCTTTC-C
1 TTCTT-CTTTCTC
*
36038442 TTCTTCTTTTTC
1 TTCTTCTTTCTC
* *
36038454 TTCATCCTTCTC
1 TTCTTCTTTCTC
36038466 TT
1 TT
36038468 GATTACCTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 4 0.12
12 23 0.72
13 5 0.16
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTCTTTCTC
Found at i:36047694 original size:5 final size:5
Alignment explanation
Indices: 36047678--36047793 Score: 69
Period size: 5 Copynumber: 22.8 Consensus size: 5
36047668 TTTCAGAGTG
* * * * *
36047678 TATCA TAGCA TATCA TATTTCA TATCG GAGCA TATCT TA-CA T-T-A TATCA
1 TATCA TATCA TATCA TA--TCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * *
36047727 TATTTCA TATCA TATCA TATCA TAT-A TCTCG TATCA TATTA TATTA TATCTCA
1 TA--TCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TA--TCA
36047780 TATCA TATCA TATC
1 TATCA TATCA TATC
36047794 CAATCCTACC
Statistics
Matches: 85, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
3 2 0.02
4 6 0.07
5 63 0.74
7 14 0.16
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.43
Consensus pattern (5 bp):
TATCA
Found at i:36047728 original size:17 final size:18
Alignment explanation
Indices: 36047690--36047747 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 18
36047680 TCATAGCATA
**
36047690 TCATAT-TTCATATCGGA
1 TCATATCTTCATATCATA
*
36047707 GCATATCTTACAT-T-ATA
1 TCATATCTT-CATATCATA
36047724 TCATAT-TTCATATCATA
1 TCATATCTTCATATCATA
36047741 TCATATC
1 TCATATC
36047748 ATATATCTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
15 3 0.09
16 3 0.09
17 20 0.62
18 3 0.09
19 3 0.09
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (18 bp):
TCATATCTTCATATCATA
Found at i:36047746 original size:22 final size:22
Alignment explanation
Indices: 36047721--36047793 Score: 92
Period size: 22 Copynumber: 3.2 Consensus size: 22
36047711 ATCTTACATT
36047721 ATATCATATTTCATATCATATC
1 ATATCATATTTCATATCATATC
* *
36047743 ATATCATATATCTCGTATCATATT
1 ATATCATAT-T-TCATATCATATC
* *
36047767 ATATTATATCTCATATCATATC
1 ATATCATATTTCATATCATATC
36047789 ATATC
1 ATATC
36047794 CAATCCTACC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 23 0.55
23 1 0.02
24 18 0.43
ACGTcount: A:0.36, C:0.18, G:0.01, T:0.45
Consensus pattern (22 bp):
ATATCATATTTCATATCATATC
Found at i:36055487 original size:26 final size:26
Alignment explanation
Indices: 36055431--36055498 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
36055421 GGACCTGCTT
*
36055431 ATGCAGCGACAACTCTGAACATATTC
1 ATGCAGCGACAATTCTGAACATATTC
*
36055457 ATGCAGCGATAATTCTGAACA-AGTTTC
1 ATGCAGCGACAATTCTGAACATA--TTC
36055484 -TGCAGCG-CAATTCTG
1 ATGCAGCGACAATTCTG
36055499 GGTGCACTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.22
26 26 0.70
27 3 0.08
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (26 bp):
ATGCAGCGACAATTCTGAACATATTC
Found at i:36056587 original size:17 final size:17
Alignment explanation
Indices: 36056555--36056632 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
36056545 ATTAAATTAT
36056555 AATGACAAATGGAAATGC
1 AATGAC-AATGGAAATGC
* *
36056573 AATGACAATGCAAATAC
1 AATGACAATGGAAATGC
* ** *
36056590 AGTGACAATTAAAATGT
1 AATGACAATGGAAATGC
*
36056607 AATGACAATGGAAATGT
1 AATGACAATGGAAATGC
*
36056624 GATGACAAT
1 AATGACAAT
36056633 ACTTACTAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 43 0.88
18 6 0.12
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.22
Consensus pattern (17 bp):
AATGACAATGGAAATGC
Found at i:36067058 original size:21 final size:21
Alignment explanation
Indices: 36067032--36067072 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36067022 TTCGAAAGAT
* *
36067032 AAAAAGAGGAAGCACAAGGAC
1 AAAAAGAAGAAACACAAGGAC
36067053 AAAAAGAAGAAACACAAGGA
1 AAAAAGAAGAAACACAAGGA
36067073 GGAAGGAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.12, G:0.24, T:0.00
Consensus pattern (21 bp):
AAAAAGAAGAAACACAAGGAC
Found at i:36096121 original size:468 final size:467
Alignment explanation
Indices: 36095225--36096162 Score: 1662
Period size: 468 Copynumber: 2.0 Consensus size: 467
36095215 GTCCCAGAAT
* *
36095225 AGTAAGGTGGGTGACTTCTTACAAAAAATTGAGTCAAAATTTTAAATTGCCCTGGTACACACGGT
1 AGTAAGGTGGGTGACTTCTTACAAAAAATCGAGTCAAAATTTTAAATTGCCCAGGTACACACGGT
* *
36095290 CAACCACACCTGTGTGTGGCCTGCCCGTGTGGGACACATGATCGTTTCCCCTTGTTTCCCCTTAC
66 CAACCACACCGGTGTGTGGCCTGCCCGTGTGGGACACATGATCGTTTCCCCTTGTTTCCCCTCAC
36095355 AAACAGTCCTGCACAAAGCTTGGGGCCCGCCCACGGCCTGGACATACGACCGTGTAGCCCCTGAA
131 AAACAGTCCTGCACAAAGCTTGGGGCCCGCCCACGGCCTGGACATACGACCGTGTAGCCCCTGAA
* **
36095420 ACTTTGAAATTTTAGTTTTGCCTAACCCTTACTTATTTAATGCAAATCAATCCCTTATTAAGTTT
196 ACTTTGAAATTTTAGTTTTGCCTAACCCTTAATTATTTAACACAAATCAATCCCTTATTAAGTTT
*
36095485 TTAAAGGCATCTAGCAAACTAGATAATATAATTAGGTCACGGATTAGGAATAGGAAAGATAAATA
261 TTAAAGGCATCTAGCAAACTAGATAATATAATTAGGTCACAGATTAGGAATAGGAAAGATAAATA
*
36095550 CATGGATGAATGATTTTATGAACTATATGCTTATGATTGATCATATGAATTTGTGATTTATTCTA
326 CATGGATGAATGATTTTATGAACTATATGCTTATGATTGACCATATGAATTTGTGATTTATTCTA
*
36095615 TGATTTTATAGAAAAGCTCGTGATTGATGCTATGATATATGATATAATATGCTTGCATAAGAATG
391 TGATTTTATAGAAAAACTCGTGATTGATGCTATGATATATGATATAATATGCTTGCATAAGAATG
36095680 ATTATTCAAATC
456 ATTATTCAAATC
** * *
36095692 AGTAAGGTGGGTGACTTCTTATGAAAAATCGAGTTAAATTTTTAAATTGCCCAGGTACACACGGT
1 AGTAAGGTGGGTGACTTCTTACAAAAAATCGAGTCAAAATTTTAAATTGCCCAGGTACACACGGT
*
36095757 CAACCACACGGGTGTGTGGCCTGCCCGTGTGGGACACATGA-CAGTTTCCCCTTGTTTCCCCTCA
66 CAACCACACCGGTGTGTGGCCTGCCCGTGTGGGACACATGATC-GTTTCCCCTTGTTTCCCCTCA
* * *
36095821 CAAACAGTCCTGCACAAAGCTTGGGGCTCGCCCACGGCCTGTACATATGACCGTGTAGCCCCTGA
130 CAAACAGTCCTGCACAAAGCTTGGGGCCCGCCCACGGCCTGGACATACGACCGTGTAGCCCCTGA
36095886 AACTTTGAAATTTTAGTTTTGCCTAACCCTTTAATTATTTAACACAAATCAATCCCTTATTAAGT
195 AACTTTGAAATTTTAGTTTTGCCTAACCC-TTAATTATTTAACACAAATCAATCCCTTATTAAGT
*
36095951 TTTTAATGGCATCTAGCAAACTAGATAATATAATTAGGTCACAGATTAGGAATAGGAAAGATAAA
259 TTTTAAAGGCATCTAGCAAACTAGATAATATAATTAGGTCACAGATTAGGAATAGGAAAGATAAA
*
36096016 TACATGGATGAATGATTTTATGAACTATATGCTTATGATTGACCATATGAATTTGTGATTTGTTC
324 TACATGGATGAATGATTTTATGAACTATATGCTTATGATTGACCATATGAATTTGTGATTTATTC
*
36096081 TATGATTTTATAGAAAAACTCGTGATTGATGCTGTGATATATGATATAATATGCTTGCATAAGAA
389 TATGATTTTATAGAAAAACTCGTGATTGATGCTATGATATATGATATAATATGCTTGCATAAGAA
36096146 TGATTATTCAAATC
454 TGATTATTCAAATC
36096160 AGT
1 AGT
36096163 GAATGGTAAT
Statistics
Matches: 448, Mismatches: 21, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
466 1 0.00
467 209 0.47
468 238 0.53
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (467 bp):
AGTAAGGTGGGTGACTTCTTACAAAAAATCGAGTCAAAATTTTAAATTGCCCAGGTACACACGGT
CAACCACACCGGTGTGTGGCCTGCCCGTGTGGGACACATGATCGTTTCCCCTTGTTTCCCCTCAC
AAACAGTCCTGCACAAAGCTTGGGGCCCGCCCACGGCCTGGACATACGACCGTGTAGCCCCTGAA
ACTTTGAAATTTTAGTTTTGCCTAACCCTTAATTATTTAACACAAATCAATCCCTTATTAAGTTT
TTAAAGGCATCTAGCAAACTAGATAATATAATTAGGTCACAGATTAGGAATAGGAAAGATAAATA
CATGGATGAATGATTTTATGAACTATATGCTTATGATTGACCATATGAATTTGTGATTTATTCTA
TGATTTTATAGAAAAACTCGTGATTGATGCTATGATATATGATATAATATGCTTGCATAAGAATG
ATTATTCAAATC
Found at i:36097718 original size:31 final size:33
Alignment explanation
Indices: 36097676--36097741 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 33
36097666 ACTTACTTGA
*
36097676 TTGTTTTTTTAT-TA-TGAATGAATAGAAATTC
1 TTGTTTGTTTATATAGTGAATGAATAGAAATTC
*
36097707 TTGTTTGTTTATAATATGTGAATGAATTGAAATTC
1 TTGTTTGTTTAT-ATA-GTGAATGAATAGAAATTC
36097742 CTAAACTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 11 0.38
33 2 0.07
35 16 0.55
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (33 bp):
TTGTTTGTTTATATAGTGAATGAATAGAAATTC
Found at i:36100496 original size:3 final size:3
Alignment explanation
Indices: 36100434--36100483 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
36100424 CACAAACGAT
*
36100434 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36100482 TT
1 TT
36100484 CATCACTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:36103857 original size:15 final size:15
Alignment explanation
Indices: 36103837--36103866 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36103827 TTTAATACAG
36103837 TTTTAGCTTAGATTA
1 TTTTAGCTTAGATTA
*
36103852 TTTTAGTTTAGATTA
1 TTTTAGCTTAGATTA
36103867 ATATCATTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTTAGCTTAGATTA
Found at i:36110670 original size:15 final size:15
Alignment explanation
Indices: 36110650--36110679 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36110640 TTTAATATAG
36110650 TTTTAGCTTAGATTA
1 TTTTAGCTTAGATTA
*
36110665 TTTTAGTTTAGATTA
1 TTTTAGCTTAGATTA
36110680 ATACTTTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTTAGCTTAGATTA
Found at i:36110689 original size:13 final size:13
Alignment explanation
Indices: 36110671--36110695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36110661 ATTATTTTAG
36110671 TTTAGATTAATAC
1 TTTAGATTAATAC
36110684 TTTAGATTAATA
1 TTTAGATTAATA
36110696 TCATTCACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTAGATTAATAC
Found at i:36115787 original size:22 final size:22
Alignment explanation
Indices: 36115735--36115787 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
36115725 TTTAGGGATC
* *
36115735 AAAATTAAATTATAATTTTTAC
1 AAAATTAAAATATAATTTTTAA
* * *
36115757 AATAGTAAAATATATTTTTTAA
1 AAAATTAAAATATAATTTTTAA
36115779 AAAATTAAA
1 AAAATTAAA
36115788 TCAAAATTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAATTAAAATATAATTTTTAA
Found at i:36118574 original size:52 final size:53
Alignment explanation
Indices: 36118492--36118732 Score: 247
Period size: 52 Copynumber: 4.6 Consensus size: 53
36118482 TTCTCATTTA
* * * * *
36118492 ATACTCATGATGGCACAAAGTCATCAGACCTTA-AATCCATAAAAAGATCCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCATAAAAAGATTCAT
* * * * * *
36118544 ATGCTCACGATGACACATTGTCATCTGACCTCATAATCCGTAAAGA-ATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCATAAAAAGATTCAT
* * * ** * *
36118596 ATACTCATGTTGACACATAGTCGTTAGACCTCATAATCCAT-AAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCATAAAAAGATTCAT
* * *
36118648 ATACTCACGATGACACATAGTCATCGGACCTT-TAATCCGTAATAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCATAAAAAGATTCAT
*
36118700 ATAACTCACGATGACACAGAGTCATCGGACCTT
1 AT-ACTCACGATGACACATAGTCATCGGACCTT
36118733 TTTGCATTTA
Statistics
Matches: 156, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
51 9 0.06
52 108 0.69
53 39 0.25
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (53 bp):
ATACTCACGATGACACATAGTCATCGGACCTTATAATCCATAAAAAGATTCAT
Found at i:36118672 original size:104 final size:104
Alignment explanation
Indices: 36118492--36118731 Score: 295
Period size: 104 Copynumber: 2.3 Consensus size: 104
36118482 TTCTCATTTA
* * *
36118492 ATACTCATGATGGCACAAAGTCATCAGACCTTAAATCCATAAAAAGATCCATATGCTCACGATGA
1 ATACTCATGATGACACAAAGTCATCAGACCTCAAATCCATAAAAAGATCCATATACTCACGATGA
* *
36118557 CACATTGTCATCTGACCTCATAATCCGTAA-AGAATTCAT
66 CACATAGTCATCGGACCT-ATAATCCGTAATAGAATTCAT
* * * * * *
36118596 ATACTCATGTTGACACATAGTCGTTAGACCTCATAATCCAT-AAAGGATTCATATACTCACGATG
1 ATACTCATGATGACACAAAGTCATCAGACCTCA-AATCCATAAAAAGATCCATATACTCACGATG
* *
36118660 ACACATAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
65 ACACATAGTCATCGGACCTATAATCCGTAATAGAATTCAT
* * *
36118700 ATAACTCACGATGACACAGAGTCATCGGACCT
1 AT-ACTCATGATGACACAAAGTCATCAGACCT
36118732 TTTTGCATTT
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
103 10 0.09
104 74 0.65
105 30 0.26
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (104 bp):
ATACTCATGATGACACAAAGTCATCAGACCTCAAATCCATAAAAAGATCCATATACTCACGATGA
CACATAGTCATCGGACCTATAATCCGTAATAGAATTCAT
Found at i:36125885 original size:215 final size:211
Alignment explanation
Indices: 36125389--36125956 Score: 623
Period size: 215 Copynumber: 2.6 Consensus size: 211
36125379 TTGCATGTTA
* * * *
36125389 TTTTCTAAAATACATGAAATTTGTTTAAAGAATTTTAAGGCTATATTTTTTTATTTTAGGGAATT
1 TTTT-TAAAATACATG-AA-TTGTTTAAA-AAATTT-AGGCAATGTTCTTTTATTTTAGGGAATT
* * * *
36125454 CGA-AAAGTGGTGCCCTAACGTGTTGGGTACGATTTTTTTTCGAACCTAAATAATCGAATATCCT
61 CGAGAAA-TTGTGCCCTAACGTGTTGGGTACGATTTTTCTTCGAACCTAAATAATTGAGTATCCT
* * * * * *
36125518 ATT---TTGATAATCGTCATTTTTACTTGTAAATTACATGGACTTATCCATCTTTTGTAAAATAT
125 CTTAAATCGATAATCGTCAGTTTTA-TTCTAAATTACAT-GACTTATCCATCTTTTGCAAAACAT
* *
36125580 TTTTAAAAAAATAAAATGTATATC
188 TTTTAAAAAAATAAAATGCAAATC
* * * * * *
36125604 TTTTTTAAATATATAAATTGTTTCAAAAA-TAAGGCAATGCTCTTTTATTTTAGGGAATTCGAGA
1 TTTTTAAAATACATGAATTGTTTAAAAAATTTAGGCAATGTTCTTTTATTTTAGGGAATTCGAGA
* *
36125668 AATTGTGCCCTAACGTGTTGGGTACAATTTTTCTTGGAACCTAAATAATTGAGTATCCTCCTTAA
66 AATTGTGCCCTAACGTGTTGGGTACGATTTTTCTTCGAACCTAAATAATTGAGTATCCT-CTTAA
*
36125733 ATCGATAATTGTC-GTTTT-TTCTAAATTACAT-ACTTATCTATCCATCTTTTGCAAAACA-TTT
130 ATCGATAATCGTCAGTTTTATTCTAAATTACATGAC---T-TATCCATCTTTTGCAAAACATTTT
* **
36125794 TAACAAAATAAGTTGCAAATC
191 TAAAAAAATAAAATGCAAATC
*
36125815 GTTTTTAAAATACATGAATTGTTATAAAAAACTTTAGGCAATGTTCTTTTATTTTAGGGAATTTG
1 -TTTTTAAAATACATGAATTGTT-TAAAAAA-TTTAGGCAATGTTCTTTTATTTTAGGGAATTCG
* * *
36125880 AGAAATTATGCCCTAACGTGTTGGGTATGATTTTTCTTTGAACCTAAATAATTGAGTATCCTACT
63 AGAAATTGTGCCCTAACGTGTTGGGTACGATTTTTCTTCGAACCTAAATAATTGAGTATCCT-CT
36125945 TAAAATCGATAA
127 T-AAATCGATAA
36125957 GTGCTCAATG
Statistics
Matches: 299, Mismatches: 40, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
208 2 0.01
209 78 0.26
210 18 0.06
211 22 0.07
212 49 0.16
213 18 0.06
214 8 0.03
215 94 0.31
216 10 0.03
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (211 bp):
TTTTTAAAATACATGAATTGTTTAAAAAATTTAGGCAATGTTCTTTTATTTTAGGGAATTCGAGA
AATTGTGCCCTAACGTGTTGGGTACGATTTTTCTTCGAACCTAAATAATTGAGTATCCTCTTAAA
TCGATAATCGTCAGTTTTATTCTAAATTACATGACTTATCCATCTTTTGCAAAACATTTTTAAAA
AAATAAAATGCAAATC
Found at i:36132016 original size:52 final size:52
Alignment explanation
Indices: 36131878--36132056 Score: 189
Period size: 52 Copynumber: 3.4 Consensus size: 52
36131868 TAAAAGACTA
* *
36131878 AGGTCCGATGACTATGTGTCATCTTAGGTATATGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCTTAAGTATATGAATCCTTTACGGATTATG
* * * * * *
36131930 AGGTCTGATGCCTATGTGTCGTCGTGAGTATATGAATCCCTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCTTAAGTATATGAATCCTTTACGGATTATG
* * * * * ** *
36131982 AGGTCCGATGACTAT-TCATCATATTAAGTGTATGATTCCTTTAAGGAACAAG
1 AGGTCCGATGACTATGT-GTCATCTTAAGTATATGAATCCTTTACGGATTATG
*
36132034 AGGTCCAATGACTATGTGTCATC
1 AGGTCCGATGACTATGTGTCATC
36132057 GTGAGTATTA
Statistics
Matches: 100, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
51 1 0.01
52 98 0.98
53 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCTTAAGTATATGAATCCTTTACGGATTATG
Found at i:36139890 original size:42 final size:41
Alignment explanation
Indices: 36139843--36140435 Score: 425
Period size: 42 Copynumber: 14.7 Consensus size: 41
36139833 CCAAAGCTAC
*
36139843 CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAACACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACAT
* * *
36139885 CATCCAGTCTCTTACCTCGACCATGGGGCAGATTG-AA-A-
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACAT
** ** * *
36139923 CATCCAATCTCTTACCATGATCATGAAGCAAATTAAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACAT
* * * * *
36139965 CATCCAATCTCTTACCCTGACCGTGAGGCATATT-AAAGC--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA-CAT
* *
36140004 CATCCAATCTTTTA-CCCAATCATGGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACAT
* ** * * * *
36140045 CATCCAATCTTTTACCCCGGCCATGAGGTAAATTGAATC--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACAT
* *
36140084 CATCCAATCTCTTACCCCAATCATGGGGCAGATTCAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACAT
* ** * *** *
36140126 CATCTAATCTCTTACCTTGATCGTGTTACAGATTGAAGC--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACAT
*
36140165 CATCCAATCTCTTACCCCGATCATGGGGCAGATTCAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACAT
** * * ** * *
36140207 CATCCAATCTCTTACCCTAACCGTGCTGCAAATTG-AAGAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACAT
* * *
36140247 -ATCCAATCT-TATACCCCGATTATAGGGCAGATTG-AAGAT
1 CATCCAATCTCT-TACCCCGATCATGGGGCAGATTGAAACAT
* * * * *
36140286 ACATCCAAT-TCTTACCCCGACCTTGGGGCAAATTGGAGC--
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACAT
* *
36140325 CATCCAATCTCTTACCCTGATCATGGGGTAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACAT
* ** * * *
36140367 CATCCAATCTCTTGCCCTAACCATGGGACAGATTGAAGC--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACAT
*
36140406 CATCTAATCTCTTACCCCGATCATGGGGCA
1 CATCCAATCTCTTACCCCGATCATGGGGCA
36140436 TGTAACATCT
Statistics
Matches: 423, Mismatches: 103, Indels: 53
0.73 0.18 0.09
Matches are distributed among these distances:
38 49 0.12
39 150 0.35
40 29 0.07
41 32 0.08
42 163 0.39
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (41 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAACAT
Found at i:36140135 original size:81 final size:81
Alignment explanation
Indices: 36139842--36140435 Score: 644
Period size: 81 Copynumber: 7.4 Consensus size: 81
36139832 ACCAAAGCTA
* * *
36139842 CCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAACACATCATCCAGTCTCTTA-CCTCGAC
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCT-GAC
* *
36139906 CATGGGGCAGATTGAA-
65 CATGAGGCAAATTGAAG
* ** ** * *
36139922 ACATCCAATCTCTTACCATGATCATGAAGCAAATTAAAGACATCATCCAATCTCTTACCCTGACC
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACC
* * *
36139987 GTGAGGCATATTAAAG
66 ATGAGGCAAATTGAAG
* * * * *
36140003 CCATCCAATCTTTTA-CCCAATCATGGGGCAGATTGAAGACATCATCCAATCTTTTACCCCGGCC
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACC
* *
36140067 ATGAGGTAAATTGAAT
66 ATGAGGCAAATTGAAG
* * * * *
36140083 CCATCCAATCTCTTACCCCAATCATGGGGCAGATTCAAGACATCATCTAATCTCTTACCTTGATC
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACC
* *** *
36140148 GTGTTACAGATTGAAG
66 ATGAGGCAAATTGAAG
* *
36140164 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTCAAGACATCATCCAATCTCTTACCCTAACC
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACC
* **
36140229 GTGCTGCAAATTGAAG
66 ATGAGGCAAATTGAAG
** * * * *
36140245 ATATCCAATCT-TATACCCCGATTATAGGGCAGATTGAAGATA-CATCCAAT-TCTTACCCCGAC
1 CCATCCAATCTCT-TACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGAC
* * *
36140307 CTTGGGGCAAATTGGAG
65 CATGAGGCAAATTGAAG
* * * *
36140324 CCATCCAATCTCTTACCCTGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTGCCCTAACC
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACC
*
36140389 ATG-GGACAGATTGAAG
66 ATGAGG-CAAATTGAAG
*
36140405 CCATCTAATCTCTTACCCCGATCATGGGGCA
1 CCATCCAATCTCTTACCCCGATCATGGGGCA
36140436 TGTAACATCT
Statistics
Matches: 424, Mismatches: 82, Indels: 15
0.81 0.16 0.03
Matches are distributed among these distances:
79 56 0.13
80 146 0.34
81 222 0.52
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACC
ATGAGGCAAATTGAAG
Found at i:36140303 original size:241 final size:242
Alignment explanation
Indices: 36139842--36140435 Score: 771
Period size: 241 Copynumber: 2.5 Consensus size: 242
36139832 ACCAAAGCTA
* * *
36139842 CCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAACACATCATCCAGTCTCTTACCTCGACC
1 CCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCTTGACC
* * ** **
36139907 ATGGGGCAGATTGAA-ACATCCAATCTCTTACCATGATCATGAAGCAAATTAAAGACATCATCCA
66 ATGGGACAGATTGAAGCCATCCAATCTCTTACCCCGATCATGGGGCAAATTAAAGACATCATCCA
* * * * *
36139971 ATCTCTTACCCTGACCGTGAGGCATATTAAAGCCATCCAATCTTTTACCCAATCATGGGGCAGAT
131 ATCTCTTACCCTAACCGTGAGGCAAATTAAAGACATCCAATCTTATACCCAATCATAGGGCAGAT
* * * *
36140036 TGAAGACATCATCCAATCTTTTACCCCGGCCATGAGGTAAATTGAAT
196 TGAAGACATCATCCAATCTCTTACCCCGACCATGAGGCAAATTGAAG
* * *
36140083 CCATCCAATCTCTTACCCCAATCATGGGGCAGATTCAAGACATCATCTAATCTCTTACCTTGATC
1 CCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCTTGACC
* ** * *
36140148 GTGTTACAGATTGAAGCCATCCAATCTCTTACCCCGATCATGGGGCAGATTCAAGACATCATCCA
66 ATGGGACAGATTGAAGCCATCCAATCTCTTACCCCGATCATGGGGCAAATTAAAGACATCATCCA
** * * * *
36140213 ATCTCTTACCCTAACCGTGCTGCAAATTGAAGATATCCAATCTTATACCCCGATTATAGGGCAGA
131 ATCTCTTACCCTAACCGTGAGGCAAATTAAAGACATCCAATCTTATA-CCCAATCATAGGGCAGA
* * * *
36140278 TTGAAGATA-CATCCAAT-TCTTACCCCGACCTTGGGGCAAATTGGAG
195 TTGAAGACATCATCCAATCTCTTACCCCGACCATGAGGCAAATTGAAG
** * * * *
36140324 CCATCCAATCTCTTACCCTGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTGCCCTAACC
1 CCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCTTGACC
*
36140389 ATGGGACAGATTGAAGCCATCTAATCTCTTACCCCGATCATGGGGCA
66 ATGGGACAGATTGAAGCCATCCAATCTCTTACCCCGATCATGGGGCA
36140436 TGTAACATCT
Statistics
Matches: 302, Mismatches: 49, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
241 191 0.63
242 89 0.29
243 22 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (242 bp):
CCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCTTGACC
ATGGGACAGATTGAAGCCATCCAATCTCTTACCCCGATCATGGGGCAAATTAAAGACATCATCCA
ATCTCTTACCCTAACCGTGAGGCAAATTAAAGACATCCAATCTTATACCCAATCATAGGGCAGAT
TGAAGACATCATCCAATCTCTTACCCCGACCATGAGGCAAATTGAAG
Found at i:36141978 original size:158 final size:158
Alignment explanation
Indices: 36141690--36142002 Score: 468
Period size: 158 Copynumber: 2.0 Consensus size: 158
36141680 GTATTGGGGT
** *
36141690 TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTATTGATGGCTAAGATCCAGCATATGTTGCG
1 TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACAGATAGCTAAGATCCAGCATATGTTGCG
* * * * *
36141755 GATTCTCTACAGCTCGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAG
66 GATTCTCCACAACTCATGCGAGAAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAG
** *
36141820 CAGGCCCACTTCACAGCTTGTGTGAACA
131 CAAACCCACTTCACAGCTCGTGTGAACA
*
36141848 TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACAGATAGCTGAGATCC-GACATATGTT-C
1 TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACAGATAGCTAAGATCCAG-CATATGTTGC
*
36141911 TGGATTCTCCACAACTCATGCGAGAAGCATCGTGTAGCCTAACATCTTGACCCACAGCTCGTGTG
65 -GGATTCTCCACAACTCATGCGAGAAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTG
*
36141976 AGCAAACCCATTTCACAGCTCGTGTGA
129 AGCAAACCCACTTCACAGCTCGTGTGA
36142003 GCAATACCTG
Statistics
Matches: 139, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
157 2 0.01
158 137 0.99
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (158 bp):
TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACAGATAGCTAAGATCCAGCATATGTTGCG
GATTCTCCACAACTCATGCGAGAAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAG
CAAACCCACTTCACAGCTCGTGTGAACA
Found at i:36144674 original size:6 final size:6
Alignment explanation
Indices: 36144649--36144687 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
36144639 ACAATTCATA
* * *
36144649 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
36144688 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:36146484 original size:42 final size:42
Alignment explanation
Indices: 36146418--36146503 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
36146408 CAATTGTACT
* **
36146418 CTATCACTGTTCCAAATTCGATTCAAGCACGCAGATGTTACA
1 CTATCACTGTTCCAAATCCGATTCAAAAACGCAGATGTTACA
* * * * *
36146460 CTATTACTGTTCCAACTCCTATTCAAAAACGCGGATGTTGCA
1 CTATCACTGTTCCAAATCCGATTCAAAAACGCAGATGTTACA
36146502 CT
1 CT
36146504 GGGATTTCTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
CTATCACTGTTCCAAATCCGATTCAAAAACGCAGATGTTACA
Found at i:36152236 original size:158 final size:158
Alignment explanation
Indices: 36151948--36152237 Score: 429
Period size: 158 Copynumber: 1.8 Consensus size: 158
36151938 ATACTGGGAT
* * * **
36151948 TTACATGTTATATGGGTGCTGGTCTTAGATGTTCTATCGATGGCTAAGACCAGACATATGTTGTG
1 TTACATGTTATATGGGTACTGGTCTTAGATGTCCTACCGATGGCTAAGACCAGACATATGTTACG
* * * * * * *
36152013 GATTCTCCATAGCTCGTGTAAGCAGTATCGTGTATCCTAACATCTCGACCTACAGCTTGTATGAG
66 GATTCTCCATAGCTCGTGTAAGAAGCATCATGTAACCTAACATCTCAACCCACAGCTCGTATGAG
36152078 CAAGCCCACTTCACAGCTTGTGTGAGCA
131 CAAGCCCACTTCACAGCTTGTGTGAGCA
* *
36152106 TTACATGTTATATGGGTACTGGTCTTAGATGTCCTACCGATGGTTGAGATCC-GACATATGTTAC
1 TTACATGTTATATGGGTACTGGTCTTAGATGTCCTACCGATGGCTAAGA-CCAGACATATGTTAC
*
36152170 GGATTCTCCATAGCTCGTGTAAGAAGCATCATGTAACCTAACATCTCAACCCACAGCTCGTGTGA
65 GGATTCTCCATAGCTCGTGTAAGAAGCATCATGTAACCTAACATCTCAACCCACAGCTCGTATGA
36152235 GCA
130 GCA
36152238 CTACCTAATA
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
158 114 0.98
159 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (158 bp):
TTACATGTTATATGGGTACTGGTCTTAGATGTCCTACCGATGGCTAAGACCAGACATATGTTACG
GATTCTCCATAGCTCGTGTAAGAAGCATCATGTAACCTAACATCTCAACCCACAGCTCGTATGAG
CAAGCCCACTTCACAGCTTGTGTGAGCA
Found at i:36153397 original size:3 final size:3
Alignment explanation
Indices: 36153389--36153433 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
36153379 AAATACTCAA
* *
36153389 ATT ATT ATT ATC ATT ACT ATT ATT ATT ATT ATT AATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT AT
36153434 GGTTTCATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:36154281 original size:144 final size:145
Alignment explanation
Indices: 36153963--36154344 Score: 481
Period size: 144 Copynumber: 2.6 Consensus size: 145
36153953 AAAATCTGTT
*
36153963 TTTTAAAG-AAAAAG--TAATTTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAA
1 TTTTAAAGAAAAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAA
* ** * *
36154025 GTTTGGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAAAAAAAGAAAGTTTATATTTTTAAAAA
66 ATTTAAATTTTTAAGTAAAGTAGTGAATTTCATT-----AAAAAGAAAG-TTAGATTTTTAAAAA
*
36154090 TAAAAATCTGGTTTTTAGTTA
125 TAAAAATCTGGTTTTTAGTGA
*
36154111 TTTTAAAGAAAAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAA
1 TTTTAAAGAAAAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTT-AACTATTTCGAAATAAA
* * * *
36154176 AATTTAAATTTTTAATTAGAGTGGTGAATTTCATT-AAAA-AAA-TTAGATTTTTAAAAAATGAA
65 AATTTAAATTTTTAAGTAAAGTAGTGAATTTCATTAAAAAGAAAGTTAGATTTTT-AAAAATAAA
* *
36154238 AATTTGTTTTTTAGTGA
129 AATCTGGTTTTTAGTGA
36154255 TTTTAAAGAAAAAAGTTTAAATTTTTAAATAAAGTTTTGA-TTTTTTAACTATTTCGAAATAAAA
1 TTTTAAAGAAAAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAA
* ** *
36154319 GTTTTGATTTTGAAGTAAAGTAGTGA
66 ATTTAAATTTTTAAGTAAAGTAGTGA
36154345 TTTTGTTTTA
Statistics
Matches: 207, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
142 36 0.17
143 15 0.07
144 62 0.30
145 3 0.01
146 4 0.02
148 8 0.04
149 6 0.03
151 29 0.14
152 44 0.21
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (145 bp):
TTTTAAAGAAAAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAA
ATTTAAATTTTTAAGTAAAGTAGTGAATTTCATTAAAAAGAAAGTTAGATTTTTAAAAATAAAAA
TCTGGTTTTTAGTGA
Found at i:36155619 original size:230 final size:233
Alignment explanation
Indices: 36155203--36155670 Score: 708
Period size: 230 Copynumber: 2.0 Consensus size: 233
36155193 AAAATCATAA
36155203 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATACTTCTCTTAATTCATTAGTAACTT
1 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATACTTCTCTTAATTCATTAGTAA---
**
36155268 TTAGGTTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAGGTATTTTACTAGAATT
63 -TA-GTTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAACTATTTTACTAGAATT
* * *
36155333 ATTTAAGTATCTTTTAGAATTATCGTTAGAAGTAAAAATATCTATTTTAAGTTTTAAATTAGATA
126 ATTTAAGTATCCTTTAGAATTATCATTAGAAGTAAAAATATCTAATTTAAGTTTTAAATTAGATA
*
36155398 AGCTTGGTGAGCACGTCTTAGTCAAGTTACAAGTAAATCGGAG
191 AGCTTGGTGAACACGTCTTAGTCAAGTTACAAGTAAATCGGAG
* *
36155441 TAATGATAAAAGATCGAATACGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGT-A-A-
1 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATACTTCTCTTAATTCATTAGTAATAG
*
36155503 TTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAACTATTTTATTAGAATTATTTA
66 TTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAACTATTTTACTAGAATTATTTA
* ** * * * * *
36155568 GGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATATCTAATTTATGTTTTAAATTAGATAAGTTT
131 AGTATCCTTTAGAATTATCATTAGAAGTAAAAATATCTAATTTAAGTTTTAAATTAGATAAGCTT
*
36155633 GGTGAACACGTCTTAGTCAAGTTACAAGTAAATTGGAG
196 GGTGAACACGTCTTAGTCAAGTTACAAGTAAATCGGAG
36155671 GCATTTTTTA
Statistics
Matches: 212, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
230 152 0.72
232 1 0.00
237 1 0.00
238 58 0.27
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.41
Consensus pattern (233 bp):
TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATACTTCTCTTAATTCATTAGTAATAG
TTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAACTATTTTACTAGAATTATTTA
AGTATCCTTTAGAATTATCATTAGAAGTAAAAATATCTAATTTAAGTTTTAAATTAGATAAGCTT
GGTGAACACGTCTTAGTCAAGTTACAAGTAAATCGGAG
Found at i:36159157 original size:214 final size:220
Alignment explanation
Indices: 36158866--36159407 Score: 641
Period size: 221 Copynumber: 2.5 Consensus size: 220
36158856 AACAAATTTT
* * * * *
36158866 AGGCAATATTCTTTTATTTTAGGGAATTCGAAAAGTGGTGTCTTAACGTGTTGGGTACGATTTTT
1 AGGCAATGTTCTTTTATTTTAGGGAATTTGAAAAATTGTGTCTTAACGTGTTGGGTATGATTTTT
* * * * * *****
36158931 CTTTGAACCTAAATAATCGAATATCCTATTTAAAATTGATAATTGTCA-TTTTTACTTGTAA-AT
66 CTTTGAACCTAAATAATTGAGTATCCTACTTAAAATCGATAATTGCCATTTTTTAAAAAAAATAT
* * * * *
36158994 TACAT-G-GATTTATCCATCTTTTGCAAAATATTTTTAATAAAATAAAATGTATAT-TTTTTTTA
131 TACATAGTGATCTATCCATCTTTTGCAAAACA-TTTTAACAAAATAAAATGCATATCATTTTTTA
*
36159056 AATATATAAATTG-TTT-CAAAAATA
195 AATACATAAATTGTTTTACAAAAATA
* * * * * * *
36159080 AGGCAATGCTCTTTTATTTTAGGGAATTTAAAAAATTGTGCCCTAACATGTTTGGTATGATTTTC
1 AGGCAATGTTCTTTTATTTTAGGGAATTTGAAAAATTGTGTCTTAACGTGTTGGGTATGATTTTT
* *
36159145 CTTGGAACCTAAATAATTGAGTATCCTCCTT-AAATCGATAATTGCCATTTTTTTAAAAAAAATA
66 CTTTGAACCTAAATAATTGAGTATCCTACTTAAAATCGATAATTGCCA-TTTTTTAAAAAAAATA
* * **
36159209 TTACATAGTTATCTATCTATCTTTTGCAAAACATTTTAACAAAATAAGTTGCATATCATTTTTTA
130 TTACATAGTGATCTATCCATCTTTTGCAAAACATTTTAACAAAATAAAATGCATATCATTTTTTA
* * *
36159274 AATACATGAATTGTTTTAAGAAAAATT
195 AATACATAAATTGTTTT-ACAAAAATA
* * *
36159301 AGGCACTGTTATTTTATTTTAGGGAATTTGAAAAATTATGTCTTAACGTGTTGGGTATGATTTTT
1 AGGCAATGTTCTTTTATTTTAGGGAATTTGAAAAATTGTGTCTTAACGTGTTGGGTATGATTTTT
36159366 CTTTGAACCTAAATAATTGAGTATCCTACTTAAAATCGATAA
66 CTTTGAACCTAAATAATTGAGTATCCTACTTAAAATCGATAA
36159408 GTACTCAATG
Statistics
Matches: 269, Mismatches: 49, Indels: 12
0.82 0.15 0.04
Matches are distributed among these distances:
213 14 0.05
214 79 0.29
215 8 0.03
216 7 0.03
217 20 0.07
218 38 0.14
219 3 0.01
221 90 0.33
222 10 0.04
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (220 bp):
AGGCAATGTTCTTTTATTTTAGGGAATTTGAAAAATTGTGTCTTAACGTGTTGGGTATGATTTTT
CTTTGAACCTAAATAATTGAGTATCCTACTTAAAATCGATAATTGCCATTTTTTAAAAAAAATAT
TACATAGTGATCTATCCATCTTTTGCAAAACATTTTAACAAAATAAAATGCATATCATTTTTTAA
ATACATAAATTGTTTTACAAAAATA
Done.