Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 30 of 279
Found at i:9959885 original size:79 final size:82
Alignment explanation
Indices: 9959774--9959958 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
9959764 GCTACTCGTT
* *
9959774 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
9959837 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
9959854 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
9959917 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
9959934 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
9959959 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:9959958 original size:40 final size:40
Alignment explanation
Indices: 9959755--9959958 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
9959745 CGGAATTTAA
** *
9959755 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
9959795 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
9959835 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
9959874 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
9959914 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
9959954 CCGGA
1 CCGGA
9959959 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:9967817 original size:40 final size:40
Alignment explanation
Indices: 9967771--9967962 Score: 262
Period size: 40 Copynumber: 4.8 Consensus size: 40
9967761 TATAACCACA
* * * * *
9967771 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
* *
9967811 CGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
*
9967851 CGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
*
9967891 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
*
9967931 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATC
9967963 TCATTCAAAT
Statistics
Matches: 143, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
40 139 0.97
41 4 0.03
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
Found at i:9972109 original size:20 final size:20
Alignment explanation
Indices: 9972084--9972131 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
9972074 GATTCTGATA
9972084 TACATGATATGTAAGATATG
1 TACATGATATGTAAGATATG
*
9972104 TACATGATATGTATGATATG
1 TACATGATATGTAAGATATG
*
9972124 CACATGAT
1 TACATGAT
9972132 GTATTCATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (20 bp):
TACATGATATGTAAGATATG
Found at i:9972114 original size:11 final size:11
Alignment explanation
Indices: 9972084--9972131 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 11
9972074 GATTCTGATA
9972084 TACATGATATG
1 TACATGATATG
9972095 TA-A-GATATG
1 TACATGATATG
9972104 TACATGATATG
1 TACATGATATG
9972115 T--ATGATATG
1 TACATGATATG
*
9972124 CACATGAT
1 TACATGAT
9972132 GTATTCATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 16 0.50
10 2 0.06
11 14 0.44
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (11 bp):
TACATGATATG
Found at i:9972238 original size:25 final size:25
Alignment explanation
Indices: 9972178--9972261 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
9972168 AAGAAGTGCA
* *
9972178 AAAAGGGCTTTTGCCCCAATTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
9972203 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
9972229 AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
9972252 AAAAGAGGCT
1 AAAAG-GGCT
9972262 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 9 0.17
24 13 0.25
25 8 0.15
26 23 0.43
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:9976244 original size:46 final size:45
Alignment explanation
Indices: 9976132--9976260 Score: 197
Period size: 45 Copynumber: 2.8 Consensus size: 45
9976122 TACTGCTACT
*
9976132 GTTACCGATTCGACACTTTGTGTGTCGAATATTGTTACTGTTATC
1 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATC
*
9976177 GTTACCGATTCAGCACTTTGTGTGTCGAATATTGTTACTGTTA-C
1 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATC
* *
9976221 AGGTTACCGATTCGGTACTTTGTGTGTCGGATATTGTTAC
1 --GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
9976261 CGTACTGCTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
44 1 0.01
45 41 0.53
46 35 0.45
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.41
Consensus pattern (45 bp):
GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATC
Found at i:9976336 original size:51 final size:52
Alignment explanation
Indices: 9976263--9976379 Score: 146
Period size: 51 Copynumber: 2.2 Consensus size: 52
9976253 ATTGTTACCG
* * * *
9976263 TACTGCTACTGTTCCGGATTTGTTCCGAAGAGGTACTC-CGTACCTTACTGT
1 TACTGTTACTGTTCCAGATTTGTTCCGAAGAGGTACTCGCGTACCGTACTGC
* * *
9976314 TACTGTTACTGTTCCAGATTTGTTCCGATGGGGTACTCTGTGTACCGTACTGC
1 TACTGTTACTGTTCCAGATTTGTTCCGAAGAGGTACTC-GCGTACCGTACTGC
*
9976367 TATTGTTACTGTT
1 TACTGTTACTGTT
9976380 ACTATTCCGG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 34 0.61
53 22 0.39
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (52 bp):
TACTGTTACTGTTCCAGATTTGTTCCGAAGAGGTACTCGCGTACCGTACTGC
Found at i:9976738 original size:18 final size:19
Alignment explanation
Indices: 9976715--9976753 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
9976705 TGGAATTAAG
*
9976715 AATTGAAATGTGA-ATTGA
1 AATTGAAATATGAGATTGA
*
9976733 AATTGAGATATGAGATTGA
1 AATTGAAATATGAGATTGA
9976752 AA
1 AA
9976754 GCTTGAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AATTGAAATATGAGATTGA
Found at i:9978941 original size:684 final size:684
Alignment explanation
Indices: 9977634--9979002 Score: 2738
Period size: 684 Copynumber: 2.0 Consensus size: 684
9977624 AGATTATTCT
9977634 ATAGATCATTCAGATTACGTAATGTCATGGTTAAAGAAAAAGTTAACATCGGCTAGTCGACTTAT
1 ATAGATCATTCAGATTACGTAATGTCATGGTTAAAGAAAAAGTTAACATCGGCTAGTCGACTTAT
9977699 TCATATATGATGTCTGAAGTATGTGTTTGGTGAAATTTTTCCCGAATTGGTTTTCGTTAGTGAAT
66 TCATATATGATGTCTGAAGTATGTGTTTGGTGAAATTTTTCCCGAATTGGTTTTCGTTAGTGAAT
9977764 GGAATGATGCGAGGTTCATGATGACAGAATTAGTCAGAAAAATGATAATTAAGTAGTAAAGATGT
131 GGAATGATGCGAGGTTCATGATGACAGAATTAGTCAGAAAAATGATAATTAAGTAGTAAAGATGT
9977829 CTGTGTATGATAGTTACAGTTGAAACGAATATGATCATTTTTTCTGGGTATTCTATATATTCTTT
196 CTGTGTATGATAGTTACAGTTGAAACGAATATGATCATTTTTTCTGGGTATTCTATATATTCTTT
9977894 TATCCTCAGAGATATGTGTGTGGTTGTTCAGTCTCTGGTGGAGTTCTGATGTTTTGAGAATGCTA
261 TATCCTCAGAGATATGTGTGTGGTTGTTCAGTCTCTGGTGGAGTTCTGATGTTTTGAGAATGCTA
9977959 GTTAATTGTGATGTTAGATGAAAGCCCTATTAGTCTGGTCCGTTTATGATCGTCATTTCTTCATC
326 GTTAATTGTGATGTTAGATGAAAGCCCTATTAGTCTGGTCCGTTTATGATCGTCATTTCTTCATC
9978024 TTTTTGGAATTCTATTTTAATATGTTGGAAATGAAGTTAATGGTATGTGAGACTATTCTTATGTT
391 TTTTTGGAATTCTATTTTAATATGTTGGAAATGAAGTTAATGGTATGTGAGACTATTCTTATGTT
9978089 TCTACTGATTATGATTTTGTTTTATACATGCGGGAAATATATTATCTCTGTTATGATGGAAGTCC
456 TCTACTGATTATGATTTTGTTTTATACATGCGGGAAATATATTATCTCTGTTATGATGGAAGTCC
9978154 AGAGTCGGTAAGCAGTGTCTTTCTTCTGGCTTTCTTTGAGAAATTATCAAGATCTTTATTATCTT
521 AGAGTCGGTAAGCAGTGTCTTTCTTCTGGCTTTCTTTGAGAAATTATCAAGATCTTTATTATCTT
9978219 CTTGTGAGTTAGATATACTAGTGATTGCACGAGCGTTACATAATATTTTTGAGTTCATGTTCAGA
586 CTTGTGAGTTAGATATACTAGTGATTGCACGAGCGTTACATAATATTTTTGAGTTCATGTTCAGA
9978284 TGTCTATTTGTTAGCAAGTAAGCTGAACATTAAC
651 TGTCTATTTGTTAGCAAGTAAGCTGAACATTAAC
9978318 ATAGATCATTCAGATTACGTAATGTCATGGTTAAAGAAAAAGTTAACATCGGCTAGTCGACTTAT
1 ATAGATCATTCAGATTACGTAATGTCATGGTTAAAGAAAAAGTTAACATCGGCTAGTCGACTTAT
9978383 TCATATATGATGTCTGAAGTATGTGTTTGGTGAAATTTTTCCCGAATTGGTTTTCGTTAGTGAAT
66 TCATATATGATGTCTGAAGTATGTGTTTGGTGAAATTTTTCCCGAATTGGTTTTCGTTAGTGAAT
9978448 GGAATGATGCGAGGTTCATGATGACAGAATTAGTCAGAAAAATGATAATTAAGTAGTAAAGATGT
131 GGAATGATGCGAGGTTCATGATGACAGAATTAGTCAGAAAAATGATAATTAAGTAGTAAAGATGT
9978513 CTGTGTATGATAGTTACAGTTGAAACGAATATGATCATTTTTTCTGGGTATTCTATATATTCTTT
196 CTGTGTATGATAGTTACAGTTGAAACGAATATGATCATTTTTTCTGGGTATTCTATATATTCTTT
9978578 TATCCTCAGAGATATGTGTGTGGTTGTTCAGTCTCTGGTGGAGTTCTGATGTTTTGAGAATGCTA
261 TATCCTCAGAGATATGTGTGTGGTTGTTCAGTCTCTGGTGGAGTTCTGATGTTTTGAGAATGCTA
9978643 GTTAATTGTGATGTTAGATGAAAGCCCTATTAGTCTGGTCCGTTTATGATCGTCATTTCTTCATC
326 GTTAATTGTGATGTTAGATGAAAGCCCTATTAGTCTGGTCCGTTTATGATCGTCATTTCTTCATC
9978708 TTTTTGGAATTCTATTTTAATATGTTGGAAATGAAGTTAATGGTATGTGAGACTATTCTTATGTT
391 TTTTTGGAATTCTATTTTAATATGTTGGAAATGAAGTTAATGGTATGTGAGACTATTCTTATGTT
9978773 TCTACTGATTATGATTTTGTTTTATACATGCGGGAAATATATTATCTCTGTTATGATGGAAGTCC
456 TCTACTGATTATGATTTTGTTTTATACATGCGGGAAATATATTATCTCTGTTATGATGGAAGTCC
9978838 AGAGTCGGTAAGCAGTGTCTTTCTTCTGGCTTTCTTTGAGAAATTATCAAGATCTTTATTATCTT
521 AGAGTCGGTAAGCAGTGTCTTTCTTCTGGCTTTCTTTGAGAAATTATCAAGATCTTTATTATCTT
9978903 CTTGTGAGTTAGATATACTAGTGATTGCACGAGCGTTACATAATATTTTTGAGTTCATGTTCAGA
586 CTTGTGAGTTAGATATACTAGTGATTGCACGAGCGTTACATAATATTTTTGAGTTCATGTTCAGA
9978968 TGTCTATTTGTTAGCAAGTAAGCTGAACATTAAC
651 TGTCTATTTGTTAGCAAGTAAGCTGAACATTAAC
9979002 A
1 A
9979003 ACATTTAGGA
Statistics
Matches: 685, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
684 685 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (684 bp):
ATAGATCATTCAGATTACGTAATGTCATGGTTAAAGAAAAAGTTAACATCGGCTAGTCGACTTAT
TCATATATGATGTCTGAAGTATGTGTTTGGTGAAATTTTTCCCGAATTGGTTTTCGTTAGTGAAT
GGAATGATGCGAGGTTCATGATGACAGAATTAGTCAGAAAAATGATAATTAAGTAGTAAAGATGT
CTGTGTATGATAGTTACAGTTGAAACGAATATGATCATTTTTTCTGGGTATTCTATATATTCTTT
TATCCTCAGAGATATGTGTGTGGTTGTTCAGTCTCTGGTGGAGTTCTGATGTTTTGAGAATGCTA
GTTAATTGTGATGTTAGATGAAAGCCCTATTAGTCTGGTCCGTTTATGATCGTCATTTCTTCATC
TTTTTGGAATTCTATTTTAATATGTTGGAAATGAAGTTAATGGTATGTGAGACTATTCTTATGTT
TCTACTGATTATGATTTTGTTTTATACATGCGGGAAATATATTATCTCTGTTATGATGGAAGTCC
AGAGTCGGTAAGCAGTGTCTTTCTTCTGGCTTTCTTTGAGAAATTATCAAGATCTTTATTATCTT
CTTGTGAGTTAGATATACTAGTGATTGCACGAGCGTTACATAATATTTTTGAGTTCATGTTCAGA
TGTCTATTTGTTAGCAAGTAAGCTGAACATTAAC
Found at i:9979813 original size:639 final size:639
Alignment explanation
Indices: 9978595--9979871 Score: 2536
Period size: 639 Copynumber: 2.0 Consensus size: 639
9978585 AGAGATATGT
9978595 GTGTGGTTGTTCAGTCTCTGGTGGAGTTCTGATGTTTTGAGAATGCTAGTTAATTGTGATGTTAG
1 GTGTGGTTGTTCAGTCTCTGGTGGAGTTCTGATGTTTTGAGAATGCTAGTTAATTGTGATGTTAG
9978660 ATGAAAGCCCTATTAGTCTGGTCCGTTTATGATCGTCATTTCTTCATCTTTTTGGAATTCTATTT
66 ATGAAAGCCCTATTAGTCTGGTCCGTTTATGATCGTCATTTCTTCATCTTTTTGGAATTCTATTT
9978725 TAATATGTTGGAAATGAAGTTAATGGTATGTGAGACTATTCTTATGTTTCTACTGATTATGATTT
131 TAATATGTTGGAAATGAAGTTAATGGTATGTGAGACTATTCTTATGTTTCTACTGATTATGATTT
9978790 TGTTTTATACATGCGGGAAATATATTATCTCTGTTATGATGGAAGTCCAGAGTCGGTAAGCAGTG
196 TGTTTTATACATGCGGGAAATATATTATCTCTGTTATGATGGAAGTCCAGAGTCGGTAAGCAGTG
9978855 TCTTTCTTCTGGCTTTCTTTGAGAAATTATCAAGATCTTTATTATCTTCTTGTGAGTTAGATATA
261 TCTTTCTTCTGGCTTTCTTTGAGAAATTATCAAGATCTTTATTATCTTCTTGTGAGTTAGATATA
9978920 CTAGTGATTGCACGAGCGTTACATAATATTTTTGAGTTCATGTTCAGATGTCTATTTGTTAGCAA
326 CTAGTGATTGCACGAGCGTTACATAATATTTTTGAGTTCATGTTCAGATGTCTATTTGTTAGCAA
9978985 GTAAGCTGAACATTAACAACATTTAGGATTATTGCAGTCAATGATAATACTAGTGTGTTATGAGA
391 GTAAGCTGAACATTAACAACATTTAGGATTATTGCAGTCAATGATAATACTAGTGTGTTATGAGA
9979050 TAGAATGACTATAGATTTCGAATTGGGATTGTCATTAACATCGGAAAGGAAAATGTTATTCAGTT
456 TAGAATGACTATAGATTTCGAATTGGGATTGTCATTAACATCGGAAAGGAAAATGTTATTCAGTT
9979115 TATGGTTGTTCATTTGACAAAGAAAGATCTGTATGATCATTTCAGTAGGTACAGAGTTTTCATTT
521 TATGGTTGTTCATTTGACAAAGAAAGATCTGTATGATCATTTCAGTAGGTACAGAGTTTTCATTT
*
9979180 GACAGATCAGCTGAGTATATGTGTCCCTGAGAGGATAATTTAGAATTTTGACAA
586 GACAGATCAGCTGAGTATATGTATCCCTGAGAGGATAATTTAGAATTTTGACAA
9979234 GTGTGGTTGTTCAGTCTCTGGTGGAGTTCTGATGTTTTGAGAATGCTAGTTAATTGTGATGTTAG
1 GTGTGGTTGTTCAGTCTCTGGTGGAGTTCTGATGTTTTGAGAATGCTAGTTAATTGTGATGTTAG
9979299 ATGAAAGCCCTATTAGTCTGGTCCGTTTATGATCGTCATTTCTTCATCTTTTTGGAATTCTATTT
66 ATGAAAGCCCTATTAGTCTGGTCCGTTTATGATCGTCATTTCTTCATCTTTTTGGAATTCTATTT
9979364 TAATATGTTGGAAATGAAGTTAATGGTATGTGAGACTATTCTTATGTTTCTACTGATTATGATTT
131 TAATATGTTGGAAATGAAGTTAATGGTATGTGAGACTATTCTTATGTTTCTACTGATTATGATTT
9979429 TGTTTTATACATGCGGGAAATATATTATCTCTGTTATGATGGAAGTCCAGAGTCGGTAAGCAGTG
196 TGTTTTATACATGCGGGAAATATATTATCTCTGTTATGATGGAAGTCCAGAGTCGGTAAGCAGTG
9979494 TCTTTCTTCTGGCTTTCTTTGAGAAATTATCAAGATCTTTATTATCTTCTTGTGAGTTAGATATA
261 TCTTTCTTCTGGCTTTCTTTGAGAAATTATCAAGATCTTTATTATCTTCTTGTGAGTTAGATATA
9979559 CTAGTGATTGCACGAGCGTTACATAATATTTTTGAGTTCATGTTCAGATGTCTATTTGTTAGCAA
326 CTAGTGATTGCACGAGCGTTACATAATATTTTTGAGTTCATGTTCAGATGTCTATTTGTTAGCAA
9979624 GTAAGCTGAACATTAACAACATTTAGGATTATTGCAGTCAATGATAATACTAGTGTGTTATGAGA
391 GTAAGCTGAACATTAACAACATTTAGGATTATTGCAGTCAATGATAATACTAGTGTGTTATGAGA
9979689 TAGAATGACTATAGATTTCGAATTGGGATTGTCATTAACATCGGAAAGGAAAATGTTATTCAGTT
456 TAGAATGACTATAGATTTCGAATTGGGATTGTCATTAACATCGGAAAGGAAAATGTTATTCAGTT
9979754 TATGGTTGTTCATTTGACAAAGAAAGATCTGTATGATCATTTCAGTAGGTACAGAGTTTTCATTT
521 TATGGTTGTTCATTTGACAAAGAAAGATCTGTATGATCATTTCAGTAGGTACAGAGTTTTCATTT
*
9979819 GACAGATCAGCTGAGTATATGTATCCCTGAGAGGGTAATTTAGAATTTTGACA
586 GACAGATCAGCTGAGTATATGTATCCCTGAGAGGATAATTTAGAATTTTGACA
9979872 GTATGTTCCA
Statistics
Matches: 636, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
639 636 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (639 bp):
GTGTGGTTGTTCAGTCTCTGGTGGAGTTCTGATGTTTTGAGAATGCTAGTTAATTGTGATGTTAG
ATGAAAGCCCTATTAGTCTGGTCCGTTTATGATCGTCATTTCTTCATCTTTTTGGAATTCTATTT
TAATATGTTGGAAATGAAGTTAATGGTATGTGAGACTATTCTTATGTTTCTACTGATTATGATTT
TGTTTTATACATGCGGGAAATATATTATCTCTGTTATGATGGAAGTCCAGAGTCGGTAAGCAGTG
TCTTTCTTCTGGCTTTCTTTGAGAAATTATCAAGATCTTTATTATCTTCTTGTGAGTTAGATATA
CTAGTGATTGCACGAGCGTTACATAATATTTTTGAGTTCATGTTCAGATGTCTATTTGTTAGCAA
GTAAGCTGAACATTAACAACATTTAGGATTATTGCAGTCAATGATAATACTAGTGTGTTATGAGA
TAGAATGACTATAGATTTCGAATTGGGATTGTCATTAACATCGGAAAGGAAAATGTTATTCAGTT
TATGGTTGTTCATTTGACAAAGAAAGATCTGTATGATCATTTCAGTAGGTACAGAGTTTTCATTT
GACAGATCAGCTGAGTATATGTATCCCTGAGAGGATAATTTAGAATTTTGACAA
Found at i:9988598 original size:24 final size:24
Alignment explanation
Indices: 9988531--9988677 Score: 197
Period size: 24 Copynumber: 6.0 Consensus size: 24
9988521 GCTTTATCAT
* *
9988531 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
9988556 ATAACTGGGGGGCAAAAGCCCTTTTG
1 ATAACT--GGGGCATAAGCCCTTTTG
9988582 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
9988606 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
9988630 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
9988654 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
9988678 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
24 84 0.76
25 6 0.05
26 14 0.13
27 6 0.05
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:9995668 original size:13 final size:13
Alignment explanation
Indices: 9995652--9995679 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9995642 TCATAGCATC
9995652 ATATCATTACCAT
1 ATATCATTACCAT
9995665 ATATCATTACCAT
1 ATATCATTACCAT
9995678 AT
1 AT
9995680 TTTTGCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATCATTACCAT
Found at i:9996906 original size:24 final size:24
Alignment explanation
Indices: 9996855--9997022 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
9996845 GCTTTATCAT
*
9996855 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
9996880 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
9996904 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
9996928 ATAACTGGGGCATAAGCCCTGTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* * * *
9996952 ACAACTAGAGCATAACCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
9996976 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
9997000 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
9997023 GCACTTCCTC
Statistics
Matches: 127, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
24 115 0.91
25 12 0.09
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:9997093 original size:16 final size:16
Alignment explanation
Indices: 9997072--9997123 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
9997062 TTATGAATAC
9997072 ATCATGTGCATATCAT
1 ATCATGTGCATATCAT
9997088 ATCATGTGCATATCAT
1 ATCATGTGCATATCAT
*
9997104 A-CATGT-CATGTGCAT
1 ATCATGTGCATAT-CAT
9997119 ATCAT
1 ATCAT
9997124 ACATACCATG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 4 0.12
15 9 0.27
16 20 0.61
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (16 bp):
ATCATGTGCATATCAT
Found at i:9997134 original size:20 final size:18
Alignment explanation
Indices: 9997068--9997127 Score: 88
Period size: 20 Copynumber: 3.3 Consensus size: 18
9997058 GCATTTATGA
9997068 ATACATCATGTGCATATC
1 ATACATCATGTGCATATC
9997086 AT--ATCATGTGCATATC
1 ATACATCATGTGCATATC
9997102 ATACATGTCATGTGCATATC
1 ATACA--TCATGTGCATATC
9997122 ATACAT
1 ATACAT
9997128 ACCATGTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
16 16 0.42
18 4 0.11
20 18 0.47
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (18 bp):
ATACATCATGTGCATATC
Found at i:10020084 original size:46 final size:46
Alignment explanation
Indices: 10019907--10020088 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
10019897 TTTGACATGA
* * * * * *
10019907 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
10019953 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10019999 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10020045 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10020089 AGAGCACACT
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.03
46 120 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:10023830 original size:760 final size:758
Alignment explanation
Indices: 10022760--10024140 Score: 2347
Period size: 760 Copynumber: 1.8 Consensus size: 758
10022750 GGTTATTACA
* *
10022760 GAGCATGAGATATTAATAAACTTATTTTAGCATTTAAACAAGTTCAAACAACTCTCATAGTAAAC
1 GAGCATGAGACATTAATAAACTTATTTTAGCAGTTAAACAAGTTCAAACAACTCTCATAGTAAAC
10022825 TGTCCATCTACGTCACAGTTGCTAAAAAAATCATATCTTGAGTTACGAAACTTGAAATCAAATTC
66 TGTCCATCTACGTCACAGTTGCTAAAAAAATCATATCTTGAGTTACGAAACTTGAAATCAAATTC
* *
10022890 TGTAAATTTTTCCTAAAACTAGACTCATATATCTACTTAATAATATTTTTCTAGAATTTTTGGTC
131 TATAAAATTTTCCTAAAACTAGACTCA-ATA-CTACTTAATAATATTTTTCTAGAATTTTTGGTC
* * *
10022955 AAGTCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTTGACTACTCTAACCCC
194 AAGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTATTTCAGGGTTAGACTACTCTAACCCC
10023020 TTCGCACTACGAATCAAATTTATTCCTGTATAGAGATACAATGACTATGCCATTTGTTTCTATTA
259 TTCGCACTACGAATCAAATTTATTCCTGTATAGAGATACAATGACTATGCCATTTGTTTCTATTA
* * * * *
10023085 AATAGACTCAATAAGGAATCCATATATATGAAGTGTGAGTCCTAATTATTTTTACACAATTTATG
324 AATAAACTCAATAAGGAATCCATACATATAAAGTATGAGTCCTAATTATTTTTACACAATTTAGG
*
10023150 GTGAATTTCTAAAGTCCGAACAGGGGATCCAAAAATTGCTCTGACCCTGTTTCACCAAAAAGTAA
389 GTGAATTTCTAAAGTCAGAACAGGGGATCCAAAAATTGCTCTGACCCTGTTTCACCAAAAAGTAA
*
10023215 ATATCTCATAAAATACAAATCATTTACTTAATTTTCTTTTTACATATGAAAATAGATTCATTAAG
454 ATATCTCATAAAATACAAATCATTTACTTAA--TT-TTTTTACACATGAAAATAGATTCATTAAG
* *
10023280 CTTCACTTCCATATTTTATTAATCATCTAATTATATTTCTACAATTTTTAGTGATTTTTCAAATT
516 CTTCACTTCCATATTTTATTAATCATCTAATTATATTTCTAAAATTTTTAATGATTTTTCAAATT
10023345 CACATCATTGCTGCTATATGACACTATTTTATAGCCAATTATTTTTACACTATCACAATATATAT
581 CACATCATTGCTGC-ATATGACACTATTTTATAGCCAATTATTTTTACACTATCACAATATATAT
10023410 ATGGCATGTATAGCCAAACCCGTACATATGCAACGTTAGTCTGAGAATTGACTAAACCGTAGCTC
645 ATGGCATGTATAGCCAAACCCGTACATATGCAACGTTAGTCTGAGAATTGACTAAACCGTAGCTC
10023475 TGATACCACTAAATGTAATGCCCCCTTACCCGAGACCGTCGCCGGAGTC
710 TGATACCACTAAATGTAATGCCCCCTTACCCGAGACCGTCGCCGGAGTC
* *
10023524 GAGCATGAGACATTACTAAACTTATTTTAGCAGTTAAACAAGTTCAAACAATTCT-AGTAGTAAA
1 GAGCATGAGACATTAATAAACTTATTTTAGCAGTTAAACAAGTTCAAACAACTCTCA-TAGTAAA
**
10023588 CTGTCCATCTACGTCACAGTTGCTAAAAAAATCATATCTTGAGTTACGAAACTTGAAATCCTATT
65 CTGTCCATCTACGTCACAGTTGCTAAAAAAATCATATCTTGAGTTACGAAACTTGAAATCAAATT
*
10023653 CTATAAAATTTTCCTAAAACTAGACTC-ATA-TACTTAATAATATTTTTCTAGAATTTTTTGTCA
130 CTATAAAATTTTCCTAAAACTAGACTCAATACTACTTAATAATATTTTTCTAGAATTTTTGGTCA
* * *
10023716 AGCCAATTAGTACAGTTTATTAGTTAAATTCTCTCTTATTTCAGGGTTCAG-CTACTCTGACCCC
195 AGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTATTTCAGGGTT-AGACTACTCTAACCCC
* * *
10023780 TTCGCACTATGAATCAAATTTATTCTTGTATAGAGATCCAATGACTATGCCATTTGTTTCTATTA
259 TTCGCACTACGAATCAAATTTATTCCTGTATAGAGATACAATGACTATGCCATTTGTTTCTATTA
10023845 AATAAACTCAATAAGGAATCCATACATATAAAGTATGAGTCCTAATTATTTTTACACAATTTAGG
324 AATAAACTCAATAAGGAATCCATACATATAAAGTATGAGTCCTAATTATTTTTACACAATTTAGG
* * *
10023910 GTGAATTTCTAAAGTCAGAACAGGGGATCTAAAAATTGCTCTGACCCTGTTTCGCCAAAACGTAA
389 GTGAATTTCTAAAGTCAGAACAGGGGATCCAAAAATTGCTCTGACCCTGTTTCACCAAAAAGTAA
*
10023975 ATATCTCATAAAATACAAATCGTTTACTTAATTTTTTTACACATGAAAATAGATTCATTAAGCTT
454 ATATCTCATAAAATACAAATCATTTACTTAATTTTTTTACACATGAAAATAGATTCATTAAGCTT
*
10024040 CACTTCCATATTTTATTCATCATCTAATTATATTTCTAAAATTTTTAATGATTTTTCAAATTCAC
519 CACTTCCATATTTTATTAATCATCTAATTATATTTCTAAAATTTTTAATGATTTTTCAAATTCAC
* * *
10024105 GTCATTGCTGCGTATGACACTGTTTTATAGCCAATT
584 ATCATTGCTGCATATGACACTATTTTATAGCCAATT
10024141 TCACCATTTT
Statistics
Matches: 580, Mismatches: 35, Indels: 12
0.93 0.06 0.02
Matches are distributed among these distances:
756 23 0.04
757 103 0.18
758 2 0.00
760 301 0.52
761 1 0.00
762 3 0.01
763 1 0.00
764 146 0.25
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (758 bp):
GAGCATGAGACATTAATAAACTTATTTTAGCAGTTAAACAAGTTCAAACAACTCTCATAGTAAAC
TGTCCATCTACGTCACAGTTGCTAAAAAAATCATATCTTGAGTTACGAAACTTGAAATCAAATTC
TATAAAATTTTCCTAAAACTAGACTCAATACTACTTAATAATATTTTTCTAGAATTTTTGGTCAA
GCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTATTTCAGGGTTAGACTACTCTAACCCCTT
CGCACTACGAATCAAATTTATTCCTGTATAGAGATACAATGACTATGCCATTTGTTTCTATTAAA
TAAACTCAATAAGGAATCCATACATATAAAGTATGAGTCCTAATTATTTTTACACAATTTAGGGT
GAATTTCTAAAGTCAGAACAGGGGATCCAAAAATTGCTCTGACCCTGTTTCACCAAAAAGTAAAT
ATCTCATAAAATACAAATCATTTACTTAATTTTTTTACACATGAAAATAGATTCATTAAGCTTCA
CTTCCATATTTTATTAATCATCTAATTATATTTCTAAAATTTTTAATGATTTTTCAAATTCACAT
CATTGCTGCATATGACACTATTTTATAGCCAATTATTTTTACACTATCACAATATATATATGGCA
TGTATAGCCAAACCCGTACATATGCAACGTTAGTCTGAGAATTGACTAAACCGTAGCTCTGATAC
CACTAAATGTAATGCCCCCTTACCCGAGACCGTCGCCGGAGTC
Found at i:10027439 original size:56 final size:56
Alignment explanation
Indices: 10027379--10027489 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
10027369 ACCATGGCAT
*
10027379 CGATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTCTAATATGTTGGCATCGATATGTGATTC
*
10027435 CGATATATGTGTGCGAGTAAGACCACGTCTAGTATGTTGGCATCGATATGTGATT
1 CGATATATGTGTGCGAGTAAGACCACGTCTAATATGTTGGCATCGATATGTGATT
10027490 ACATGTAAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTCTAATATGTTGGCATCGATATGTGATTC
Found at i:10027760 original size:10 final size:10
Alignment explanation
Indices: 10027745--10027769 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10027735 GGCCACATGT
10027745 TATGTATAAG
1 TATGTATAAG
10027755 TATGTATAAG
1 TATGTATAAG
10027765 TATGT
1 TATGT
10027770 GATATTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (10 bp):
TATGTATAAG
Found at i:10037071 original size:28 final size:31
Alignment explanation
Indices: 10037036--10037092 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
10037026 GAATTTGAGT
10037036 AATTAGGG-CT-AAAT-TGAAA-AAATAATA
1 AATTAGGGACTAAAATGTGAAATAAATAATA
10037063 AATTGAGGGACTAAAATGTGAAATAAATAA
1 AATT-AGGGACTAAAATGTGAAATAAATAA
10037093 AGTGTAGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 4 0.16
28 4 0.16
29 2 0.08
30 4 0.16
31 5 0.20
32 6 0.24
ACGTcount: A:0.54, C:0.04, G:0.18, T:0.25
Consensus pattern (31 bp):
AATTAGGGACTAAAATGTGAAATAAATAATA
Found at i:10037433 original size:16 final size:16
Alignment explanation
Indices: 10037414--10037446 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10037404 ATTTCAATTT
10037414 ATGTATATTATAAATG
1 ATGTATATTATAAATG
10037430 ATGTATATTATAAATG
1 ATGTATATTATAAATG
10037446 A
1 A
10037447 CGAATTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
ATGTATATTATAAATG
Found at i:10037695 original size:56 final size:56
Alignment explanation
Indices: 10037632--10037742 Score: 177
Period size: 56 Copynumber: 2.0 Consensus size: 56
10037622 ACCATGGCAT
* *
10037632 CGATATATGTGTGCAAGTAAGACCATGTTTAATACATTGGCATCGATATGTGATTC
1 CGATATATGTGTGCAAGTAAGACCACGTCTAATACATTGGCATCGATATGTGATTC
* * *
10037688 CGATATATGTGTGCGAGTAAGGCCACGTCTAGTACATTGGCATCGATATGTGATT
1 CGATATATGTGTGCAAGTAAGACCACGTCTAATACATTGGCATCGATATGTGATT
10037743 ACATGTTAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCAAGTAAGACCACGTCTAATACATTGGCATCGATATGTGATTC
Found at i:10040509 original size:22 final size:20
Alignment explanation
Indices: 10040472--10040515 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
10040462 TACCGATCAT
*
10040472 TTTACAACATATAGCATACA
1 TTTACAACATAAAGCATACA
*
10040492 TTTATCAAGCATAAAGCATTCA
1 TTTA-CAA-CATAAAGCATACA
10040514 TT
1 TT
10040516 CACATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 3 0.15
22 13 0.65
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (20 bp):
TTTACAACATAAAGCATACA
Found at i:10041897 original size:28 final size:28
Alignment explanation
Indices: 10041866--10041960 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
10041856 CAATGCCTCA
* *
10041866 CACACTAAGTGCCATATTCAATATCTCG
1 CACACTAAGTGCCACATTCGATATCTCG
* * *
10041894 CACACTAAGGGCCACACTT-GGTATCTCA
1 CACACTAAGTGCCACA-TTCGATATCTCG
* *
10041922 CACACTAAGTGCCACACTCGATATCTTG
1 CACACTAAGTGCCACATTCGATATCTCG
10041950 CACACTAAGTG
1 CACACTAAGTG
10041961 TCGTACATAG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 1 0.02
28 52 0.95
29 2 0.04
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.24
Consensus pattern (28 bp):
CACACTAAGTGCCACATTCGATATCTCG
Found at i:10042035 original size:40 final size:40
Alignment explanation
Indices: 10041949--10042043 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
10041939 TCGATATCTT
* * * *
10041949 GCACACTAAGTGTCGTACATAGCTGAAGCTATCTGAAATT
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTGAAATC
* *
10041989 GCACACTAAGTGCCATATATAGCCGAAGCTATTTTG-AATC
1 GCACACTAAGTGCCATACATAGCCGAAGCTA-TCTGAAATC
*
10042029 GTACACTAAGTGCCA
1 GCACACTAAGTGCCA
10042044 CAAATAGCTG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 44 0.94
41 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCGAAGCTATCTGAAATC
Found at i:10045541 original size:27 final size:26
Alignment explanation
Indices: 10045511--10045616 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 26
10045501 GGCTGCTAGA
*
10045511 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAG-CACCAGAT
*
10045538 ACAGATAATCGTGGCAGAGCCCCAGA-
1 ACAGATAAT-GTGGCAGAGCACCAGAT
10045564 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAG-CACCAGAT
*
10045592 -CAGATAATTGTGGCATAGCTACCAG
1 ACAGATAA-TGTGGCAGAGC-ACCAG
10045617 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
26 18 0.26
27 43 0.62
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
ACAGATAATGTGGCAGAGCACCAGAT
Found at i:10053361 original size:27 final size:26
Alignment explanation
Indices: 10053306--10053416 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
10053296 AGCATGACTG
*
10053306 CCAGAACAGATAATGTGACAGAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
10053332 CCAGTACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
10053359 CCAGAACAGATATATGTGGCGGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
10053386 CTAGATCAAATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
10053413 CCAG
1 CCAG
10053417 GACGCTTCCA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 14 0.19
27 56 0.78
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:10056395 original size:16 final size:18
Alignment explanation
Indices: 10056364--10056401 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
10056354 TTTGTGGTAT
10056364 TTTTAAATAGCATTTATC
1 TTTTAAATAGCATTTATC
10056382 TTTTAAA-A-CATTTATC
1 TTTTAAATAGCATTTATC
10056398 TTTT
1 TTTT
10056402 TGAAAACCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.60
17 1 0.05
18 7 0.35
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTAAATAGCATTTATC
Found at i:10057362 original size:29 final size:28
Alignment explanation
Indices: 10057279--10057390 Score: 102
Period size: 29 Copynumber: 3.9 Consensus size: 28
10057269 AGGTGAAAAT
*
10057279 TAAATGTGAGTTGGGCCTAATGGGCCATA
1 TAAATGTGAATTGGGCCT-ATGGGCCATA
* * *
10057308 TTAATATGAATTGAGG-CTAGTAGGCCATA
1 TAAATGTGAATTG-GGCCTA-TGGGCCATA
10057337 TAAATGTGAATTGGGCCTGATGGGCCATA
1 TAAATGTGAATTGGGCCT-ATGGGCCATA
* * *
10057366 TAACTGAG-ATTGGGCCAAGTGGGCC
1 TAAATGTGAATTGGGCCTA-TGGGCC
10057391 CTATGCATGT
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
27 1 0.01
28 17 0.25
29 47 0.69
30 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
TAAATGTGAATTGGGCCTATGGGCCATA
Found at i:10059580 original size:28 final size:28
Alignment explanation
Indices: 10059540--10059595 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10059530 TTGCGTTAGG
*
10059540 TTTGAGGATGGACTTAGAGATAGCCTCA
1 TTTGACGATGGACTTAGAGATAGCCTCA
10059568 TTTGACGATGGACTTAGAGATAGCCTCA
1 TTTGACGATGGACTTAGAGATAGCCTCA
10059596 GGGTGTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
TTTGACGATGGACTTAGAGATAGCCTCA
Found at i:10064691 original size:24 final size:24
Alignment explanation
Indices: 10064641--10064691 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
10064631 ATTAATCGGC
* *
10064641 AAAAGCCGAAATGCCAAAAAGGAA
1 AAAAGCCGAAACGCCAAAAAGCAA
* * *
10064665 AAAAGCTGAAACGCCGAAAAGCCA
1 AAAAGCCGAAACGCCAAAAAGCAA
10064689 AAA
1 AAA
10064692 GTTGTTCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.20, G:0.20, T:0.04
Consensus pattern (24 bp):
AAAAGCCGAAACGCCAAAAAGCAA
Found at i:10064873 original size:29 final size:30
Alignment explanation
Indices: 10064841--10064918 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 30
10064831 ATGTGATTGG
*
10064841 GGCCTAATAGGCCATATGAATATGA-ATTA
1 GGCCTAATGGGCCATATGAATATGAGATTA
* *
10064870 GGCCTGATGGGCCATAT-AA-ATGAGATTG
1 GGCCTAATGGGCCATATGAATATGAGATTA
*
10064898 GGCCAAATGGGCCATATGAAT
1 GGCCTAATGGGCCATATGAAT
10064919 GTATGTAGGG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 4 0.10
28 20 0.49
29 17 0.41
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.24
Consensus pattern (30 bp):
GGCCTAATGGGCCATATGAATATGAGATTA
Found at i:10065205 original size:26 final size:27
Alignment explanation
Indices: 10065176--10065229 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
10065166 AACCGTATTA
* * *
10065176 AAGGG-AAAAATTACCGAAATGCCCCT
1 AAGGGCAAAAATGACCAAAATACCCCT
*
10065202 AAGGGCGAAAATGACCAAAATACCCCT
1 AAGGGCAAAAATGACCAAAATACCCCT
10065229 A
1 A
10065230 GGTGTTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.44, C:0.24, G:0.19, T:0.13
Consensus pattern (27 bp):
AAGGGCAAAAATGACCAAAATACCCCT
Found at i:10066283 original size:26 final size:26
Alignment explanation
Indices: 10066251--10066303 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10066241 CATGCTTAAC
10066251 ACAATCA-TACATCACATAGGGACATA
1 ACAATCATTACATCACATAGGG-CATA
**
10066277 ACAATCATTTTATCACATAGGGCATA
1 ACAATCATTACATCACATAGGGCATA
10066303 A
1 A
10066304 TAGCCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (26 bp):
ACAATCATTACATCACATAGGGCATA
Found at i:10066311 original size:26 final size:27
Alignment explanation
Indices: 10066261--10066317 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
10066251 ACAATCATAC
*
10066261 ATCACATAGGGACATAACAATCATTTT
1 ATCACATAGGGACATAACAACCATTTT
* *
10066288 ATCACATAGGG-CATAATAGCCATTTT
1 ATCACATAGGGACATAACAACCATTTT
10066314 ATCA
1 ATCA
10066318 GTTAGGGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (27 bp):
ATCACATAGGGACATAACAACCATTTT
Found at i:10066451 original size:45 final size:45
Alignment explanation
Indices: 10066386--10066473 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
10066376 CCCGTGCAAC
*
10066386 CTTAACAGTCAAACAGTAAAAATGGACCCACAGCCCATAATACAG
1 CTTAACAGTCAAACAATAAAAATGGACCCACAGCCCATAATACAG
10066431 CTTAACAGTCAAACAATAAAAATGGACCCACAGCCCATAATAC
1 CTTAACAGTCAAACAATAAAAATGGACCCACAGCCCATAATAC
10066474 GGGCCCATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.16
Consensus pattern (45 bp):
CTTAACAGTCAAACAATAAAAATGGACCCACAGCCCATAATACAG
Found at i:10071171 original size:21 final size:21
Alignment explanation
Indices: 10071147--10071188 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10071137 ACAATGAATC
*
10071147 CGGCTTCTGAGATGGATCAAT
1 CGGCTTCCGAGATGGATCAAT
10071168 CGGCTTCCGAGATGGATCAAT
1 CGGCTTCCGAGATGGATCAAT
10071189 TGATTTCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
CGGCTTCCGAGATGGATCAAT
Found at i:10075476 original size:26 final size:27
Alignment explanation
Indices: 10075431--10075485 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
10075421 ACAATCATAC
10075431 ATCACATAGGGGCATAATAGTAATTTT
1 ATCACATAGGGGCATAATAGTAATTTT
*
10075458 ATCACATA-GGGCATAATAGTCATTTT
1 ATCACATAGGGGCATAATAGTAATTTT
10075484 AT
1 AT
10075486 TAGTTAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (27 bp):
ATCACATAGGGGCATAATAGTAATTTT
Found at i:10077967 original size:29 final size:29
Alignment explanation
Indices: 10077896--10078006 Score: 143
Period size: 29 Copynumber: 3.9 Consensus size: 29
10077886 CACAAACCTG
* * *
10077896 TATATGGCCCATTAGACCC-AATTATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
10077924 CACATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
10077953 TCTATGGCCCTTTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
10077982 TATGTGGCCCATTAGGCCCAAATCA
1 TATATGGCCCATTAGGCCCAAATCA
10078007 TGTTATATTC
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 16 0.23
29 54 0.77
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:10083279 original size:41 final size:40
Alignment explanation
Indices: 10083222--10083298 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
10083212 AATGAGAACA
* *
10083222 CGTGTAAGAACATGTCTGGGACATTGACATCGCATATGATT
1 CGTGTAAGAACATGTCTAGGACAGTGACATCG-ATATGATT
* * *
10083263 CGTGTAAGACCTTGTCTAGGACAGTGGCATCGATAT
1 CGTGTAAGAACATGTCTAGGACAGTGACATCGATAT
10083299 TTAATAGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 4 0.13
41 27 0.87
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (40 bp):
CGTGTAAGAACATGTCTAGGACAGTGACATCGATATGATT
Found at i:10086937 original size:39 final size:40
Alignment explanation
Indices: 10086892--10087063 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
10086882 GCTCCTCGTT
* * *
10086892 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
10086932 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
10086971 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
10087011 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
10087051 CAAATGCCTTCGG
1 CAAATGCCTTCGG
10087064 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:10086992 original size:40 final size:39
Alignment explanation
Indices: 10086894--10087116 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
10086884 TCCTCGTTCA
* * * *
10086894 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
10086933 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
10086972 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
10087012 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
10087052 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
10087093 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10087117 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:10087076 original size:80 final size:79
Alignment explanation
Indices: 10086892--10087116 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
10086882 GCTCCTCGTT
* * * * *
10086892 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
10086956 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
10086971 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
10087036 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
10087051 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
10087115 GA
63 GA
10087117 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:10087125 original size:41 final size:41
Alignment explanation
Indices: 10087048--10087125 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
10087038 TTTGTATCTC
* * *
10087048 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
10087089 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
10087126 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:10091267 original size:20 final size:18
Alignment explanation
Indices: 10091242--10091289 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
10091232 TAGGTAGTTC
*
10091242 TGGGCCATGTTGGGCCTAGA
1 TGGGCCATG-TGGGCCCA-A
*
10091262 TGGGCCGTGTGGGCCCAA
1 TGGGCCATGTGGGCCCAA
10091280 TGGGCTCATG
1 TGGGC-CATG
10091290 GGCCCCACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 10 0.42
20 8 0.33
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (18 bp):
TGGGCCATGTGGGCCCAA
Found at i:10092175 original size:23 final size:23
Alignment explanation
Indices: 10092149--10092207 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
10092139 GTATATATAC
10092149 TAGCAGCTTTGCTGCGTTACTAT
1 TAGCAGCTTTGCTGCGTTACTAT
10092172 TAGCAGCTTTGCTGCGTTACTAT
1 TAGCAGCTTTGCTGCGTTACTAT
* *
10092195 TAGTAGCTATGCT
1 TAGCAGCTTTGCT
10092208 ACGATATTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (23 bp):
TAGCAGCTTTGCTGCGTTACTAT
Found at i:10103337 original size:55 final size:55
Alignment explanation
Indices: 10103198--10103339 Score: 149
Period size: 55 Copynumber: 2.6 Consensus size: 55
10103188 AAGGTCCACG
* * ** * *
10103198 CCCGTGTTATTTTGGCAGGTTCACCCACGGCTTCTTGGCACGGGCGTGTCGCACG
1 CCCGTGTTATTTTGGCAAGTTCGCCCACGGCTTCAAGGCACGGGCATGTCGCACA
* * * ** * * *
10103253 CCAGTGTTAATTTGACAAGTTCGGTCACGGTTTCAAGGCACGGGCATGTTGTACA
1 CCCGTGTTATTTTGGCAAGTTCGCCCACGGCTTCAAGGCACGGGCATGTCGCACA
*
10103308 CCCGTGTTGTTTTGGCAAGTTCGCCCACGGCT
1 CCCGTGTTATTTTGGCAAGTTCGCCCACGGCT
10103340 ATGTCACACA
Statistics
Matches: 66, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (55 bp):
CCCGTGTTATTTTGGCAAGTTCGCCCACGGCTTCAAGGCACGGGCATGTCGCACA
Found at i:10105201 original size:39 final size:40
Alignment explanation
Indices: 10105156--10105327 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
10105146 GCTCCTCGTT
* * *
10105156 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
10105196 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
10105235 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
10105275 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
10105315 CAAATGCCTTCGG
1 CAAATGCCTTCGG
10105328 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:10105256 original size:40 final size:39
Alignment explanation
Indices: 10105158--10105380 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
10105148 TCCTCGTTCA
* * * *
10105158 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
10105197 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
10105236 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
10105276 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
10105316 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
10105357 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10105381 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:10105340 original size:80 final size:79
Alignment explanation
Indices: 10105156--10105380 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
10105146 GCTCCTCGTT
* * * * *
10105156 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
10105220 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
10105235 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
10105300 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
10105315 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
10105379 GA
63 GA
10105381 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:10105389 original size:41 final size:41
Alignment explanation
Indices: 10105312--10105389 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
10105302 TTTGTATCTC
* * *
10105312 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
10105353 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
10105390 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:10110710 original size:42 final size:42
Alignment explanation
Indices: 10110582--10110737 Score: 127
Period size: 42 Copynumber: 3.6 Consensus size: 42
10110572 TAAGATGCCA
*
10110582 ATGCCATATCCTAGATATGGTCTTACATGG-GATCACATATATCG
1 ATGCCATATCCTAGACATGGTCTTACA-GGAGATCA-A-ATATCG
* * * * * ***
10110626 ATGTCGATAGCCCAG-CTATGGTCTTACACGATATCTCGTATCG
1 ATG-CCATATCCTAGAC-ATGGTCTTACAGGAGATCAAATATCG
*
10110669 ATGCCATGTCCTAGACATGGTCTTACAGGAGATCAAATATCG
1 ATGCCATATCCTAGACATGGTCTTACAGGAGATCAAATATCG
* * * *
10110711 ATGTCATATCCAAGATATGGTTTTACA
1 ATGCCATATCCTAGACATGGTCTTACA
10110738 CGAAATCACA
Statistics
Matches: 85, Mismatches: 23, Indels: 10
0.72 0.19 0.08
Matches are distributed among these distances:
42 50 0.59
43 9 0.11
44 4 0.05
45 22 0.26
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCTAGACATGGTCTTACAGGAGATCAAATATCG
Found at i:10112999 original size:15 final size:15
Alignment explanation
Indices: 10112975--10113004 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10112965 CTAATGTATT
10112975 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
10112990 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
10113005 ACAAGTGTTG
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:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:10114645 original size:24 final size:24
Alignment explanation
Indices: 10114618--10114666 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
10114608 ATATATTTTT
*
10114618 AGTATGGATCATGGATATTATATA
1 AGTATGAATCATGGATATTATATA
* *
10114642 AGTATGAATTATGTATATTATATA
1 AGTATGAATCATGGATATTATATA
10114666 A
1 A
10114667 AATAAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (24 bp):
AGTATGAATCATGGATATTATATA
Found at i:10134166 original size:26 final size:26
Alignment explanation
Indices: 10134134--10134185 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10134124 CTTTAATTAC
10134134 TAATTTACTAAACTAACCTTATTAAT
1 TAATTTACTAAACTAACCTTATTAAT
10134160 TAATTTACTAAACTAACCTTATTAAT
1 TAATTTACTAAACTAACCTTATTAAT
10134186 ATAACTTAAA
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:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (26 bp):
TAATTTACTAAACTAACCTTATTAAT
Found at i:10136122 original size:31 final size:31
Alignment explanation
Indices: 10136084--10136147 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
10136074 CCTTTTCATA
10136084 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
10136115 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
10136146 TT
1 TT
10136148 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:10136392 original size:24 final size:24
Alignment explanation
Indices: 10136341--10136482 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
10136331 GCTTTATCAT
*
10136341 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
10136366 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10136390 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10136413 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10136437 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
10136460 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
10136483 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
23 45 0.41
24 53 0.48
25 12 0.11
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:10136416 original size:23 final size:23
Alignment explanation
Indices: 10136362--10136481 Score: 204
Period size: 23 Copynumber: 5.1 Consensus size: 23
10136352 CCTAGCCTCT
*
10136362 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10136385 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
10136409 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10136432 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
10136456 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10136479 TTT
1 TTT
10136482 TTCACTTCCT
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
23 48 0.52
24 45 0.48
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:10136416 original size:47 final size:47
Alignment explanation
Indices: 10136362--10136482 Score: 224
Period size: 47 Copynumber: 2.6 Consensus size: 47
10136352 CCTAGCCTCT
*
10136362 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
10136409 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
10136456 TTTAATAACTAGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
10136483 TCACTTCCTC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:10136578 original size:20 final size:20
Alignment explanation
Indices: 10136528--10136578 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
10136518 GCATTTATGA
10136528 ATACA-ACG-TGTGCATATC
1 ATACATACGATGTGCATATC
10136546 ATACATATC-ATGTGCATATC
1 ATACATA-CGATGTGCATATC
10136566 ATACATACGATGT
1 ATACATACGATGT
10136579 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.17
19 2 0.07
20 22 0.76
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (20 bp):
ATACATACGATGTGCATATC
Found at i:10136647 original size:25 final size:25
Alignment explanation
Indices: 10136615--10136662 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10136605 ATACATAAAC
* * *
10136615 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAAAGGTCATTTTTA
10136640 CCTAGGGGCAAAAAGGTCATTTT
1 CCTAGGGGCAAAAAGGTCATTTT
10136663 CACGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAAAGGTCATTTTTA
Found at i:10147579 original size:31 final size:31
Alignment explanation
Indices: 10147541--10147604 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
10147531 CCTTTTCATA
10147541 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
10147572 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
10147603 TT
1 TT
10147605 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:10147849 original size:24 final size:24
Alignment explanation
Indices: 10147798--10147939 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
10147788 GCTTTATCAT
*
10147798 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
10147823 ATAACTGGGACAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10147847 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
10147870 ATAACTGAGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10147894 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
10147917 ATAACCGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
10147940 TCACTTCCTC
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
23 44 0.42
24 50 0.47
25 12 0.11
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:10147873 original size:23 final size:23
Alignment explanation
Indices: 10147819--10147938 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
10147809 CCTAGCCTCT
* *
10147819 TTTAATAACTGGGACAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10147842 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
10147866 TTTAATAACTGAGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10147889 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
10147913 TTTAATAACCGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10147936 TTT
1 TTT
10147939 TTCACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 47 0.52
24 43 0.48
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:10147873 original size:47 final size:46
Alignment explanation
Indices: 10147819--10147939 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 46
10147809 CCTAGCCTCT
*
10147819 TTTAATAACTGGGACAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGG-CATAAGCCCTTTTAATAACTGGGGCATAAGCCC
10147866 TTTAATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTG-GGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
10147913 TTTAATAACCGGGGCATAAGCCCTTTT
1 TTTAATAA-CTGGGCATAAGCCCTTTT
10147940 TCACTTCCTC
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
47 66 0.94
48 4 0.06
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:10148016 original size:20 final size:20
Alignment explanation
Indices: 10147991--10148055 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
10147981 ATGAATACAG
10147991 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
10148011 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
10148031 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
10148051 CATGT
1 CATGT
10148056 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:10148022 original size:11 final size:11
Alignment explanation
Indices: 10147991--10148044 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
10147981 ATGAATACAG
10147991 CATGTGCATAT
1 CATGTGCATAT
*
10148002 CA--TACATAT
1 CATGTGCATAT
10148011 CATGTGCATAT
1 CATGTGCATAT
* *
10148022 CA--TACATGT
1 CATGTGCATAT
10148031 CATGTGCATAT
1 CATGTGCATAT
10148042 CAT
1 CAT
10148045 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:10153777 original size:18 final size:19
Alignment explanation
Indices: 10153749--10153784 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10153739 TAATTCGCTG
*
10153749 CACATAAAACAAACACAAA
1 CACATAAAACAAAAACAAA
10153768 CACA-AAAACAAAAACAA
1 CACATAAAACAAAAACAA
10153785 CCAAACACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.72, C:0.25, G:0.00, T:0.03
Consensus pattern (19 bp):
CACATAAAACAAAAACAAA
Found at i:10154951 original size:5 final size:5
Alignment explanation
Indices: 10154941--10154972 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10154931 TTGTGTGTTC
10154941 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
10154973 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:10154955 original size:9 final size:9
Alignment explanation
Indices: 10154941--10154971 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
10154931 TTGTGTGTTC
10154941 TTTATTTTA
1 TTTATTTTA
10154950 TTTATTTTA
1 TTTATTTTA
10154959 TTTTATTTTA
1 -TTTATTTTA
10154969 TTT
1 TTT
10154972 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:10159377 original size:5 final size:5
Alignment explanation
Indices: 10159367--10159398 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10159357 TTGTGTGTTC
10159367 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
10159399 TCACAAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:10159381 original size:9 final size:9
Alignment explanation
Indices: 10159367--10159397 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
10159357 TTGTGTGTTC
10159367 TTTATTTTA
1 TTTATTTTA
10159376 TTTATTTTA
1 TTTATTTTA
10159385 TTTTATTTTA
1 -TTTATTTTA
10159395 TTT
1 TTT
10159398 TTCACAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:10163286 original size:12 final size:12
Alignment explanation
Indices: 10163269--10163295 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10163259 ACAAGTTTGG
10163269 CACGGCCTAGCA
1 CACGGCCTAGCA
10163281 CACGGCCTAGCA
1 CACGGCCTAGCA
10163293 CAC
1 CAC
10163296 ATGCGTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.44, G:0.22, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:10165805 original size:17 final size:17
Alignment explanation
Indices: 10165773--10165806 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10165763 AGATTATAAT
*
10165773 ACAACAATTTGAATATA
1 ACAACAATTAGAATATA
*
10165790 ACAACAATTAGCATATA
1 ACAACAATTAGAATATA
10165807 TTAGCTAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (17 bp):
ACAACAATTAGAATATA
Found at i:10166635 original size:29 final size:28
Alignment explanation
Indices: 10166602--10166657 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
10166592 TTTTTCATTT
* *
10166602 ATTTCATATTTTAACCCCTAAATTTACAC
1 ATTTCACAATTTAACCCCT-AATTTACAC
*
10166631 ATTTCACAATTTAGCCCCTAATTTACA
1 ATTTCACAATTTAACCCCTAATTTACA
10166658 TTTTTACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (28 bp):
ATTTCACAATTTAACCCCTAATTTACAC
Found at i:10172125 original size:12 final size:12
Alignment explanation
Indices: 10172100--10172140 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
10172090 TAAAAACGTT
10172100 AAAA-ATATAGA
1 AAAATATATAGA
*
10172111 AAAATATATATA
1 AAAATATATAGA
10172123 AAAATAT-T-GA
1 AAAATATATAGA
10172133 AAAATATA
1 AAAATATA
10172141 AATTTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 8 0.31
11 5 0.19
12 13 0.50
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (12 bp):
AAAATATATAGA
Found at i:10172126 original size:22 final size:22
Alignment explanation
Indices: 10172099--10172140 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10172089 ATAAAAACGT
10172099 TAAAAATATAGAAAAATATATA
1 TAAAAATATAGAAAAATATATA
*
10172121 TAAAAATATTGAAAAATATA
1 TAAAAATATAGAAAAATATA
10172141 AATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (22 bp):
TAAAAATATAGAAAAATATATA
Found at i:10172142 original size:49 final size:45
Alignment explanation
Indices: 10172074--10172193 Score: 114
Period size: 49 Copynumber: 2.4 Consensus size: 45
10172064 GAAAAAAGAT
* *
10172074 AAAATATTAAAATAAATAAAAACGTTAAAAATATAGAAAAATATATATA
1 AAAATATTAAAA-ATATAAAAA--TTAAAAATATAGAAAAAAATAT-TA
* *
10172123 AAAATATTGAAAAATATAAATTTAATTAAAAATTTAGAAAAAAATGTTA
1 AAAATATT-AAAAATATAAA---AATTAAAAATATAGAAAAAAATATTA
10172172 AAAATATTAAAAAATTATAAAA
1 AAAATATT-AAAAA-TATAAAA
10172194 TAGAAAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
47 1 0.02
49 29 0.48
50 29 0.48
52 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (45 bp):
AAAATATTAAAAATATAAAAATTAAAAATATAGAAAAAAATATTA
Found at i:10172161 original size:50 final size:50
Alignment explanation
Indices: 10172098--10172192 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
10172088 AATAAAAACG
* *
10172098 TTAAAAATATAGAAAAATATATATAAAAATATTGAAAAA-TATAAATTTAA
1 TTAAAAATATAGAAAAAAATAT-TAAAAATATTAAAAAATTATAAATTTAA
* *
10172148 TTAAAAATTTAGAAAAAAATGTTAAAAATATTAAAAAATTATAAA
1 TTAAAAATATAGAAAAAAATATTAAAAATATTAAAAAATTATAAA
10172193 ATAGAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 15 0.38
50 25 0.62
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (50 bp):
TTAAAAATATAGAAAAAAATATTAAAAATATTAAAAAATTATAAATTTAA
Found at i:10172185 original size:22 final size:22
Alignment explanation
Indices: 10172086--10172185 Score: 60
Period size: 22 Copynumber: 4.3 Consensus size: 22
10172076 AATATTAAAA
* *
10172086 TAAATAAAAACGTTAAAAATA-
1 TAAAAAAAAATGTTAAAAATAT
* * *
10172107 TAGAAAAATATATATAAAAATAT
1 TAAAAAAAAATGT-TAAAAATAT
*
10172130 TGAAAAATATAAAT-TTAATTAAAAATT
1 T-AAAAA-A-AAATGTTAA--AAATA-T
*
10172157 TAGAAAAAAATGTTAAAAATAT
1 TAAAAAAAAATGTTAAAAATAT
10172179 TAAAAAA
1 TAAAAAA
10172186 TTATAAAATA
Statistics
Matches: 59, Mismatches: 11, Indels: 17
0.68 0.13 0.20
Matches are distributed among these distances:
21 8 0.14
22 15 0.25
23 5 0.08
24 11 0.19
25 7 0.12
26 11 0.19
27 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (22 bp):
TAAAAAAAAATGTTAAAAATAT
Found at i:10172663 original size:10 final size:10
Alignment explanation
Indices: 10172648--10172749 Score: 52
Period size: 10 Copynumber: 10.4 Consensus size: 10
10172638 TATAAATATT
10172648 TTTTCTATAA
1 TTTTCTATAA
10172658 TTTTCTATAA
1 TTTTCTATAA
*
10172668 TTTT-AATAA
1 TTTTCTATAA
* *
10172677 TTTTTTTATAT
1 -TTTTCTATAA
* **
10172688 TTTTATATTT
1 TTTTCTATAA
*
10172698 TTTTCTAAAAA
1 TTTTCT-ATAA
*
10172709 TTTT-AATAAA
1 TTTTCTAT-AA
*
10172719 TTTTCTATAC
1 TTTTCTATAA
10172729 TTTTC-A-AA
1 TTTTCTATAA
*
10172737 TTTTTTAT-A
1 TTTTCTATAA
10172746 TTTT
1 TTTT
10172750 TATTCATTTT
Statistics
Matches: 70, Mismatches: 15, Indels: 15
0.70 0.15 0.15
Matches are distributed among these distances:
8 5 0.07
9 12 0.17
10 43 0.61
11 10 0.14
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTCTATAA
Found at i:10172688 original size:41 final size:41
Alignment explanation
Indices: 10172647--10172732 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
10172637 ATATAAATAT
* * * *
10172647 TTTTTCTATAATTTTCT-ATAATTTTAATAATTTTTTTATA
1 TTTTTATATAATTTTCTAAAAATTTTAATAAATTTTCTATA
**
10172687 TTTTTATATTTTTTTCTAAAAATTTTAATAAATTTTCTATA
1 TTTTTATATAATTTTCTAAAAATTTTAATAAATTTTCTATA
*
10172728 CTTTT
1 TTTTT
10172733 CAAATTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 14 0.37
41 24 0.63
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (41 bp):
TTTTTATATAATTTTCTAAAAATTTTAATAAATTTTCTATA
Found at i:10172741 original size:41 final size:40
Alignment explanation
Indices: 10172658--10172742 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
10172648 TTTTCTATAA
* * * * *
10172658 TTTTCTATAATTTTAATAATTTTTTTATATTTTTATATTT
1 TTTTCTAAAATTTTAATAAATTTTCTATATTTTCATAATT
10172698 TTTTCTAAAAATTTTAATAAATTTTCTATACTTTTCA-AATT
1 TTTTCT-AAAATTTTAATAAATTTTCTATA-TTTTCATAATT
10172739 TTTT
1 TTTT
10172743 ATATTTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
40 6 0.16
41 27 0.71
42 5 0.13
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTCTAAAATTTTAATAAATTTTCTATATTTTCATAATT
Found at i:10172750 original size:18 final size:18
Alignment explanation
Indices: 10172716--10172749 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10172706 AAATTTTAAT
10172716 AAATTTTCTATACTTTTC
1 AAATTTTCTATACTTTTC
*
10172734 AAATTTTTTATA-TTTT
1 AAATTTTCTATACTTTT
10172750 TATTCATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (18 bp):
AAATTTTCTATACTTTTC
Found at i:10172759 original size:17 final size:17
Alignment explanation
Indices: 10172739--10172776 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
10172729 TTTTCAAATT
10172739 TTTTATATTTTTAT-TCA
1 TTTTA-ATTTTTATATCA
*
10172756 TTTTAATTTTTTTATCA
1 TTTTAATTTTTATATCA
10172773 TTTT
1 TTTT
10172777 CCTCCACGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTAATTTTTATATCA
Found at i:10172759 original size:18 final size:17
Alignment explanation
Indices: 10172738--10172776 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
10172728 CTTTTCAAAT
*
10172738 TTTTTATATTTTTATTCA
1 TTTTAATATTTTTA-TCA
*
10172756 TTTTAATTTTTTTATCA
1 TTTTAATATTTTTATCA
10172773 TTTT
1 TTTT
10172777 CCTCCACGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTAATATTTTTATCA
Found at i:10172992 original size:16 final size:17
Alignment explanation
Indices: 10172967--10173008 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
10172957 TTTAATAAAA
*
10172967 AATTTCTATTT-TTTAT
1 AATTTTTATTTATTTAT
10172983 AATTTTTATTTAATTTAT
1 AATTTTTATTT-ATTTAT
10173001 ATATTTTT
1 A-ATTTTT
10173009 TATTATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
18 6 0.27
19 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
AATTTTTATTTATTTAT
Found at i:10177188 original size:27 final size:26
Alignment explanation
Indices: 10177158--10177212 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
10177148 TTAAACTAAA
*
10177158 AATTATTAGAAAATATATAAAAATA-AT
1 AATTATTA-AAAA-ATAAAAAAATATAT
*
10177185 AATTTTTAAAAAATAAAAAAATATAT
1 AATTATTAAAAAATAAAAAAATATAT
10177211 AA
1 AA
10177213 ATGTGTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.40
26 8 0.32
27 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
AATTATTAAAAAATAAAAAAATATAT
Found at i:10178010 original size:20 final size:21
Alignment explanation
Indices: 10177976--10178029 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
10177966 TGATGATATT
*
10177976 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
10177997 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
10178017 TTTTATTATTTTA
1 TTATATTATTTTA
10178030 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:10178033 original size:3 final size:3
Alignment explanation
Indices: 10178015--10178063 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
10178005 TTTAATGAGA
*
10178015 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
10178060 TAT T
1 TAT T
10178064 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:10178035 original size:11 final size:11
Alignment explanation
Indices: 10178019--10178057 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
10178009 ATGAGATATT
10178019 TTATTATTTTA
1 TTATTATTTTA
*
10178030 TTATTATTTCA
1 TTATTATTTTA
10178041 TTATTATTTTA
1 TTATTATTTTA
10178052 TTATTA
1 TTATTA
10178058 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:10178043 original size:19 final size:19
Alignment explanation
Indices: 10178015--10178056 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10178005 TTTAATGAGA
*
10178015 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
10178034 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
10178053 TATT
1 TATT
10178057 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:10193513 original size:12 final size:12
Alignment explanation
Indices: 10193496--10193522 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10193486 GTTTCAGGTG
10193496 TAATGCAATTAC
1 TAATGCAATTAC
10193508 TAATGCAATTAC
1 TAATGCAATTAC
10193520 TAA
1 TAA
10193523 GTAGTTAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (12 bp):
TAATGCAATTAC
Found at i:10194822 original size:23 final size:23
Alignment explanation
Indices: 10194794--10194838 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10194784 AATCACTTTA
* *
10194794 ATATTATATTTAATCTAATATTT
1 ATATTAGATTAAATCTAATATTT
*
10194817 ATATTAGATTAAATTTAATATT
1 ATATTAGATTAAATCTAATATT
10194839 AATCTTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
ATATTAGATTAAATCTAATATTT
Found at i:10199091 original size:21 final size:21
Alignment explanation
Indices: 10199066--10199109 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
10199056 CATACCGAGA
10199066 CCAGTTCAACCAGTTTTTGGG
1 CCAGTTCAACCAGTTTTTGGG
10199087 CCAGTTCAACCAGTTTTTGGG
1 CCAGTTCAACCAGTTTTTGGG
10199108 CC
1 CC
10199110 TTAGTCTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (21 bp):
CCAGTTCAACCAGTTTTTGGG
Found at i:10200443 original size:15 final size:15
Alignment explanation
Indices: 10200422--10200468 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
10200412 TATGCATGAA
10200422 AAATATAAAAGATAT
1 AAATATAAAAGATAT
*
10200437 GAATATAAAAGATAT
1 AAATATAAAAGATAT
* *
10200452 AAATACAAAAGACAT
1 AAATATAAAAGATAT
10200467 AA
1 AA
10200469 TAGTGAAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.66, C:0.04, G:0.09, T:0.21
Consensus pattern (15 bp):
AAATATAAAAGATAT
Found at i:10202868 original size:43 final size:45
Alignment explanation
Indices: 10202789--10202918 Score: 135
Period size: 44 Copynumber: 3.0 Consensus size: 45
10202779 GTCTAAACTC
* * *
10202789 ATTCACCGGCATT-TCGCCTGCTAGGCTTGAAACCCGATATCA-T
1 ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATT
*
10202832 -TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATT
1 ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAT-ATCATT
* * * *
10202876 ATTCACCAGC-TTAAAGCTTGCTAGGCTCAAAGCCCGAATATCA
1 ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCG-ATATCA
10202919 CCATTATAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
42 12 0.17
43 22 0.31
44 27 0.38
45 11 0.15
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (45 bp):
ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATT
Found at i:10203100 original size:28 final size:28
Alignment explanation
Indices: 10203044--10203107 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
10203034 TTTGCACACG
* *
10203044 AAGTGTCATTCTCAATATCTCGCACACT
1 AAGTGCCATTCTCAATATCTCGCAAACT
* *
10203072 AAGTGCCATTCTCAATATTTCGTAAACT
1 AAGTGCCATTCTCAATATCTCGCAAACT
10203100 AAGTGCCA
1 AAGTGCCA
10203108 CATTTTGTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (28 bp):
AAGTGCCATTCTCAATATCTCGCAAACT
Found at i:10206774 original size:15 final size:16
Alignment explanation
Indices: 10206754--10206783 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10206744 CTATAAAGAT
10206754 TATACATT-TCATATA
1 TATACATTCTCATATA
10206769 TATACATTCTCATAT
1 TATACATTCTCATAT
10206784 CTCATACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:10223491 original size:42 final size:42
Alignment explanation
Indices: 10223432--10223518 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
10223422 ACTATTCCGA
10223432 TTGATGAATAAAATATATTCTCTTTTTGCTCTCCCATTTTCT
1 TTGATGAATAAAATATATTCTCTTTTTGCTCTCCCATTTTCT
10223474 TTGATGAATAAAATATATTCTCTTTTTGCTCTCCCATTTTCT
1 TTGATGAATAAAATATATTCTCTTTTTGCTCTCCCATTTTCT
10223516 TTG
1 TTG
10223519 TCCTTTACTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (42 bp):
TTGATGAATAAAATATATTCTCTTTTTGCTCTCCCATTTTCT
Found at i:10242188 original size:81 final size:81
Alignment explanation
Indices: 10242070--10242230 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
10242060 AATTTTTTAG
*
10242070 TCACTTCGGTTCAGGTCAATTTCATGTTTGGATCAATTTTATGTTGGGGTCATTCCAAGTTTAGG
1 TCACTTCGGTTCAGGTCAATTTCATGTTTGGATCAATTTTATGTTGGGGTCATTCCAAGTTCAGG
10242135 TTATTTTGGGTTTGAT
66 TTATTTTGGGTTTGAT
10242151 TCACTTCGGTTCAGGTCAATTTCATGTTTGGATCAATTTTATGTTGGGGTCATTCCAAGTTCAGG
1 TCACTTCGGTTCAGGTCAATTTCATGTTTGGATCAATTTTATGTTGGGGTCATTCCAAGTTCAGG
10242216 TTATTTTGGGTTTGA
66 TTATTTTGGGTTTGA
10242231 GTCATTCAGG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.19, C:0.13, G:0.24, T:0.45
Consensus pattern (81 bp):
TCACTTCGGTTCAGGTCAATTTCATGTTTGGATCAATTTTATGTTGGGGTCATTCCAAGTTCAGG
TTATTTTGGGTTTGAT
Found at i:10245659 original size:95 final size:95
Alignment explanation
Indices: 10245470--10245657 Score: 369
Period size: 95 Copynumber: 2.0 Consensus size: 95
10245460 CGTTGGTTGC
10245470 CTGTATGGTCGACTTGCACAATGTTGGAACCTTTAATGCTGATACGGGATTTTAAAGCCGGTTAT
1 CTGTATGGTCGACTTGCACAATGTTGGAACCTTTAATGCTGATACGGGATTTTAAAGCCGGTTAT
10245535 TTAAATGAGTTGGAAAAAATGTTAGAAAAG
66 TTAAATGAGTTGGAAAAAATGTTAGAAAAG
10245565 CTGTATGGTCGACTTGCACAATGTTGGAACCTTTAATGCTGATACGGGA-TTTAAAGCCGGTTAT
1 CTGTATGGTCGACTTGCACAATGTTGGAACCTTTAATGCTGATACGGGATTTTAAAGCCGGTTAT
10245629 TTAAATGAGTTGGAAAAAATGTTAGAAAA
66 TTAAATGAGTTGGAAAAAATGTTAGAAAA
10245658 AGTTTTACCC
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 44 0.47
95 49 0.53
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (95 bp):
CTGTATGGTCGACTTGCACAATGTTGGAACCTTTAATGCTGATACGGGATTTTAAAGCCGGTTAT
TTAAATGAGTTGGAAAAAATGTTAGAAAAG
Found at i:10245691 original size:95 final size:94
Alignment explanation
Indices: 10245479--10245657 Score: 306
Period size: 94 Copynumber: 1.9 Consensus size: 94
10245469 CCTGTATGGT
10245479 CGACTTGCACAATGTTGGAACCTTTAATGCTGATACGGGATTTTAAAGCCGGTTATTTAAATGAG
1 CGAC-TGCACAATGTTGGAACCTTTAATGCTGATACGGGATTTTAAAGCCGGTTATTTAAATGAG
***
10245544 TTGGAAAAAATGTTAGAAAAGCTGTATGGT
65 TTGGAAAAAATGTTAGAAAAGCTGTATACC
10245574 CGACTTGCACAATGTTGGAACCTTTAATGCTGATACGGGA-TTTAAAGCCGGTTATTTAAATGAG
1 CGAC-TGCACAATGTTGGAACCTTTAATGCTGATACGGGATTTTAAAGCCGGTTATTTAAATGAG
10245638 TTGGAAAAAATGTTAGAAAA
65 TTGGAAAAAATGTTAGAAAA
10245658 AGTTTTACCC
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 44 0.52
95 40 0.48
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (94 bp):
CGACTGCACAATGTTGGAACCTTTAATGCTGATACGGGATTTTAAAGCCGGTTATTTAAATGAGT
TGGAAAAAATGTTAGAAAAGCTGTATACC
Found at i:10246994 original size:57 final size:58
Alignment explanation
Indices: 10246900--10247033 Score: 171
Period size: 58 Copynumber: 2.3 Consensus size: 58
10246890 TTTAATTCAT
* * * * *
10246900 TAATAATTATATTAAGAATTTTATTAAATTATATATTA-TTTTATTAAATTATATTTAG
1 TAATAATCATATTAA-AATATGATTAAATTATATATTATTTTTATTAAAATATATTTAA
* * *
10246958 TAATAATCATGTTAAAATATGATTAAATTATTTATTATTTTTATTAAAATATTTTTAA
1 TAATAATCATATTAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTAA
*
10247016 TAATAATCTTATTAAAAT
1 TAATAATCATATTAAAAT
10247034 TTAATAATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 19 0.29
58 46 0.71
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (58 bp):
TAATAATCATATTAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTAA
Found at i:10247234 original size:12 final size:11
Alignment explanation
Indices: 10247170--10247235 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 11
10247160 AATAATAATT
10247170 TTATATTAAAA
1 TTATATTAAAA
10247181 TTATTATT-AAA
1 TTA-TATTAAAA
10247192 -TATTATTAATAA
1 TTA-TATTAA-AA
10247204 TTATATTAATAA
1 TTATATTAA-AA
10247216 TGT-TATTAAAA
1 T-TATATTAAAA
10247227 TATATATTA
1 T-TATATTA
10247236 TTTTATTAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
10 7 0.15
11 11 0.23
12 27 0.56
13 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (11 bp):
TTATATTAAAA
Found at i:10247489 original size:44 final size:46
Alignment explanation
Indices: 10247419--10247508 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
10247409 ATTACAACAT
10247419 CATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
***
10247463 CATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
10247509 TATTACAGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 24 0.59
45 2 0.05
46 15 0.37
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
Found at i:10247515 original size:16 final size:16
Alignment explanation
Indices: 10247494--10247548 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
10247484 TGAATTACTG
*
10247494 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCA
10247510 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* * *
10247526 ATTATAGCCCTATTCC
1 ATTACAGCTCTATTCA
10247542 ATTACAG
1 ATTACAG
10247549 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:10265558 original size:23 final size:22
Alignment explanation
Indices: 10265521--10265563 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
10265511 TGATCATGCC
10265521 AATGCAATATTTCAGAAAACGA
1 AATGCAATATTTCAGAAAACGA
*
10265543 AATGCAGATTTTTCAGAAAAC
1 AATGCA-ATATTTCAGAAAAC
10265564 CTTCTTTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (22 bp):
AATGCAATATTTCAGAAAACGA
Found at i:10273126 original size:44 final size:47
Alignment explanation
Indices: 10272831--10273138 Score: 189
Period size: 47 Copynumber: 6.6 Consensus size: 47
10272821 ATTTGTGCGT
* * * **
10272831 CAGTGTAAGACATGTCTAGGACATGCTTCGG-C-CACATTATGA-GAAC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGTCTCACA-GA-GATGTGC
* * * *
10272877 CAGTGTAAGCCCATGTCTGGGACATGGTATCGG-CATC-CAGACGA-GGGT
1 CAGTGTAAG-ACATGTCTGGGACAT-GCATCGGTC-TCACAGA-GATGTGC
* * * * * *
10272925 TAGTGTAAGACATGTCTGGAACATGCATCAGCCAT-ACTA-TGAT-AGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGTC-TCAC-AGAGATGTGC
*
10272971 CAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACACAGAGATGAGTGC
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTCTCACAGAGAT--GTGC
*
10273019 CAGTGTAAGACATGTCTGGGACATGCATCGGTCTCGACAGAGAT-AGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGTCTC-ACAGAGATGTGC
* * * *
10273066 CAGTGTAAGACGTGTCTGGGTCACGCATCGG-CT-A-AGAGTTGTGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGTCTCACAGAGATGTGC
*
10273110 TAGTGTAAGACATGTCTGGGACATGCATC
1 CAGTGTAAGACATGTCTGGGACATGCATC
10273139 ATGTAACGCC
Statistics
Matches: 209, Mismatches: 33, Indels: 42
0.74 0.12 0.15
Matches are distributed among these distances:
43 5 0.02
44 29 0.14
45 5 0.02
46 33 0.16
47 89 0.43
48 36 0.17
49 3 0.01
50 9 0.04
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (47 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGTCTCACAGAGATGTGC
Found at i:10273131 original size:91 final size:94
Alignment explanation
Indices: 10272832--10273139 Score: 281
Period size: 94 Copynumber: 3.3 Consensus size: 94
10272822 TTTGTGCGTC
* * * * * * * * *
10272832 AGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGAACCAGTGTAAGCCCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAGACTAAGATAGCCAGTGTAAGACCATGTCTGG
* * * * * * *
10272897 GACATGGTATCGGCATC-CAGACGAGGGTT
66 GACATCGCATCGACA-CAGAGATGAGTGCT
* * *
10272926 AGTGTAAGACATGTCTGGAACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAGACTAAGATAGCCAGTGTAAGACCATGTCTGG
* *
10272991 GACATGGCATCGACACAGAGATGAGTGCC
66 GACATCGCATCGACACAGAGATGAGTGCT
* *
10273020 AGTGTAAGACATGTCTGGGACATGCATCGGTCTC-GAC-AGAGATAGCCAGTGTAAGA-CGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-CAGACTA-AGATAGCCAGTGTAAGACCATGTC
* * *
10273082 TGGGTCA-CGCATCGGCTA-AGAG-T-TGTGCT
63 TGGGACATCGCATCGAC-ACAGAGATGAGTGCT
10273111 AGTGTAAGACATGTCTGGGACATGCATCA
1 AGTGTAAGACATGTCTGGGACATGCATCA
10273140 TGTAACGCCC
Statistics
Matches: 182, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
91 32 0.18
92 1 0.01
93 12 0.07
94 117 0.64
95 19 0.10
96 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCAGACTAAGATAGCCAGTGTAAGACCATGTCTGG
GACATCGCATCGACACAGAGATGAGTGCT
Found at i:10274523 original size:27 final size:26
Alignment explanation
Indices: 10274485--10274536 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
10274475 CTCGCTGCAA
*
10274485 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
10274512 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
10274537 GCAGCATCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:10281516 original size:47 final size:47
Alignment explanation
Indices: 10281447--10281589 Score: 214
Period size: 47 Copynumber: 3.0 Consensus size: 47
10281437 NNNNNNNNNN
10281447 ATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCAC
1 ATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCAC
* * *
10281494 ATTGGCCATTCGGTCTTATCACACAAATGCATGTTCACATTCATCAC
1 ATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCAC
* * * **
10281541 ATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCAC
1 ATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCAC
10281588 AT
1 AT
10281590 AAAATCCTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.34
Consensus pattern (47 bp):
ATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCAC
Found at i:10290905 original size:37 final size:37
Alignment explanation
Indices: 10290855--10290929 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
10290845 ATCGAGTATG
10290855 AAAGAGAATTTGTGAGATTAAGTAAATATGCTCAAGA
1 AAAGAGAATTTGTGAGATTAAGTAAATATGCTCAAGA
10290892 AAAGAGAATTTGTGAGATTAAGTAAATATGCTCAAGA
1 AAAGAGAATTTGTGAGATTAAGTAAATATGCTCAAGA
10290929 A
1 A
10290930 TGTGTCTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.27
Consensus pattern (37 bp):
AAAGAGAATTTGTGAGATTAAGTAAATATGCTCAAGA
Found at i:10292528 original size:27 final size:27
Alignment explanation
Indices: 10292490--10292547 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
10292480 TGGTGAGGAG
10292490 TGAAGTATTTAATGTCCCAAAAAGATT
1 TGAAGTATTTAATGTCCCAAAAAGATT
*
10292517 TGAAGTATTTAATGTCCCAAAAATATT
1 TGAAGTATTTAATGTCCCAAAAAGATT
10292544 TGAA
1 TGAA
10292548 TTTATGACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (27 bp):
TGAAGTATTTAATGTCCCAAAAAGATT
Found at i:10293914 original size:48 final size:48
Alignment explanation
Indices: 10293857--10294041 Score: 316
Period size: 48 Copynumber: 3.9 Consensus size: 48
10293847 GTAACCGTGC
*
10293857 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATATGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTGT
* * *
10293905 AAGACCATGTTTGGGACACGGCATCGGCATTGTTATGTGAGCCAGTAT
1 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTGT
10293953 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTGT
* *
10294001 AAGACCATGTCTGGGACATGGCATCGACATTGCTATGTGAG
1 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAG
10294042 TTTGGGACAT
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 128 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (48 bp):
AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTGT
Found at i:10294048 original size:32 final size:32
Alignment explanation
Indices: 10294012--10294073 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
10294002 AGACCATGTC
*
10294012 TGGGACATGGCATCGACATTGCTATGTGAGTT
1 TGGGACATGACATCGACATTGCTATGTGAGTT
* *
10294044 TGGGACATGACATCGGCATTGTTATGTGAG
1 TGGGACATGACATCGACATTGCTATGTGAG
10294074 CCAGTGTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.31
Consensus pattern (32 bp):
TGGGACATGACATCGACATTGCTATGTGAGTT
Found at i:10296888 original size:36 final size:37
Alignment explanation
Indices: 10296836--10296969 Score: 110
Period size: 37 Copynumber: 3.6 Consensus size: 37
10296826 AATTGACGAA
* * * *
10296836 TAAGACCATGGTTGGACCATGGCAAAGT-GTGGA-ATG
1 TAAGACCATAGCTGGACTATGGCAAAGTAAT-GACATG
**
10296872 TAAGACCATAGCTGGACTATGGCATCGTAATGACATG
1 TAAGACCATAGCTGGACTATGGCAAAGTAATGACATG
* ** * ****
10296909 TAAGACCATAGCTGGGCTATGGCATTGTGATTTTGTG
1 TAAGACCATAGCTGGACTATGGCAAAGTAATGACATG
*
10296946 TAAGACCATAGTTGGACTATGGCA
1 TAAGACCATAGCTGGACTATGGCA
10296970 TCAAGTAAAC
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
36 25 0.31
37 56 0.69
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (37 bp):
TAAGACCATAGCTGGACTATGGCAAAGTAATGACATG
Found at i:10296916 original size:37 final size:37
Alignment explanation
Indices: 10296869--10296971 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 37
10296859 AAAGTGTGGA
10296869 ATGTAAGACCATAGCTGGACTATGGCATCGTAATGAC
1 ATGTAAGACCATAGCTGGACTATGGCATCGTAATGAC
* * * ***
10296906 ATGTAAGACCATAGCTGGGCTATGGCATTGTGATTTT
1 ATGTAAGACCATAGCTGGACTATGGCATCGTAATGAC
* *
10296943 GTGTAAGACCATAGTTGGACTATGGCATC
1 ATGTAAGACCATAGCTGGACTATGGCATC
10296972 AAGTAAACGA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (37 bp):
ATGTAAGACCATAGCTGGACTATGGCATCGTAATGAC
Found at i:10299401 original size:30 final size:30
Alignment explanation
Indices: 10299365--10299424 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
10299355 TTTTACGAGC
* *
10299365 TTAGGGGGAAAAGTGTAATTATGATAAAAT
1 TTAGGGGCAAAAATGTAATTATGATAAAAT
*
10299395 TTAGGGGCAAAAATGTAATTTTGATAAAAT
1 TTAGGGGCAAAAATGTAATTATGATAAAAT
10299425 ATGACATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.02, G:0.23, T:0.32
Consensus pattern (30 bp):
TTAGGGGCAAAAATGTAATTATGATAAAAT
Done.