Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold493
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: 141506
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.31
Warning! 8881 characters in sequence are not A, C, G, or T
Found at i:2642 original size:276 final size:276
Alignment explanation
Indices: 2149--2702 Score: 1027
Period size: 276 Copynumber: 2.0 Consensus size: 276
2139 CCATACAAAA
*
2149 TTCAACCACAATTTGTCATAACATATCATTTCCAATAGGCATTAGCATTGCTAAAATCATGCATT
1 TTCAACCACAATTTGTCATAACATATAATTTCCAATAGGCATTAGCATTGCTAAAATCATGCATT
*
2214 ATAAAGGTTTCAAGCTAAAACTAACATTTCAAGTTAACATATACAAAACACCATGTACATGTCAC
66 ATAAAGGTTTCAAGCTAAAACTAAAATTTCAAGTTAACATATACAAAACACCATGTACATGTCAC
*
2279 AAAATCATACTTAAAGTGTTTGAAAAGCTATTGATTCAAAAATAGGACGGAGTGCGCTTCCGGAA
131 AAAATCATACTTAAAGTGTTTGAAAAGCTATTGATTCAAAAATAGGACGGAGTACGCTTCCGGAA
*
2344 GATCCTCTTGACACATTCCACAAAGTGACAATCTACAAGGAAATGGAGGCAACATGATAAGCATA
196 GATCCTCTTGACACATTCCACAAAGTGACAATCTACAAGGAAATGGAGGCAACAGGATAAGCATA
2409 TTGAACGCTTAGCAAG
261 TTGAACGCTTAGCAAG
*
2425 TTCAACCACAATTTGTCATAATATATAATTTCCAATAGGCATTAGCATTGCTAAAATCATGCATT
1 TTCAACCACAATTTGTCATAACATATAATTTCCAATAGGCATTAGCATTGCTAAAATCATGCATT
2490 ATAAAGGTTTCAAGCTAAAACTAAAATTTCAAGTTAACATATACAAAACACCATGTACATGTCAC
66 ATAAAGGTTTCAAGCTAAAACTAAAATTTCAAGTTAACATATACAAAACACCATGTACATGTCAC
*
2555 AAAATCATACTTAAAGTGTTTGAAAAGCTATTGATTCAAAAATAGGATGGAGTACGCTTCCGGAA
131 AAAATCATACTTAAAGTGTTTGAAAAGCTATTGATTCAAAAATAGGACGGAGTACGCTTCCGGAA
* *
2620 GATCCTCTTGACACATTCCACAAAGTGACAATCTACAAGGAAATGGAGGTAACAGGGTAAGCATA
196 GATCCTCTTGACACATTCCACAAAGTGACAATCTACAAGGAAATGGAGGCAACAGGATAAGCATA
*
2685 TTGAATGCTTAGCAAG
261 TTGAACGCTTAGCAAG
2701 TT
1 TT
2703 TATAGACATT
Statistics
Matches: 269, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
276 269 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (276 bp):
TTCAACCACAATTTGTCATAACATATAATTTCCAATAGGCATTAGCATTGCTAAAATCATGCATT
ATAAAGGTTTCAAGCTAAAACTAAAATTTCAAGTTAACATATACAAAACACCATGTACATGTCAC
AAAATCATACTTAAAGTGTTTGAAAAGCTATTGATTCAAAAATAGGACGGAGTACGCTTCCGGAA
GATCCTCTTGACACATTCCACAAAGTGACAATCTACAAGGAAATGGAGGCAACAGGATAAGCATA
TTGAACGCTTAGCAAG
Found at i:4124 original size:15 final size:15
Alignment explanation
Indices: 4106--4136 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4096 ATTAATCAAC
4106 ATTTATTTAATTAAA
1 ATTTATTTAATTAAA
*
4121 ATTTATTTAGTTAAA
1 ATTTATTTAATTAAA
4136 A
1 A
4137 ATTAATGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTTATTTAATTAAA
Found at i:4734 original size:21 final size:21
Alignment explanation
Indices: 4710--4752 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4700 AGAAGGGTTA
4710 GATGGCCGTCAAGGATTATTT
1 GATGGCCGTCAAGGATTATTT
4731 GATGGCCGTCAAGGATTATTT
1 GATGGCCGTCAAGGATTATTT
4752 G
1 G
4753 GCCAAGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (21 bp):
GATGGCCGTCAAGGATTATTT
Found at i:10102 original size:32 final size:32
Alignment explanation
Indices: 10065--10133 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
10055 GCCCATTTTT
10065 AAAATAAACATTAAAAAAGTATTTTAAAAATA
1 AAAATAAACATTAAAAAAGTATTTTAAAAATA
* * ** *
10097 AAAATATATATTTTAAAAGTATTTTAAAATTA
1 AAAATAAACATTAAAAAAGTATTTTAAAAATA
10129 AAAAT
1 AAAAT
10134 TAAAAAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (32 bp):
AAAATAAACATTAAAAAAGTATTTTAAAAATA
Found at i:18724 original size:3 final size:3
Alignment explanation
Indices: 18684--18711 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18674 TTATATTAGT
18684 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18712 ACTTAAATAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20381 original size:43 final size:43
Alignment explanation
Indices: 20319--20416 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
20309 TTGTAACTTC
* *
20319 AGGGAGATAAGATTGGTTTCTTCTGTCTACTCCACTACTGCTT
1 AGGGAGATAAGATTAGTTTCTTCTGTCTACTCCACTACAGCTT
* **
20362 AGGGAGATAGGATTAGTTTCTTCTGTCTGGTCCACTACAGCTT
1 AGGGAGATAAGATTAGTTTCTTCTGTCTACTCCACTACAGCTT
20405 AGGGAGATAAGA
1 AGGGAGATAAGA
20417 CTTGATGCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
AGGGAGATAAGATTAGTTTCTTCTGTCTACTCCACTACAGCTT
Found at i:20447 original size:40 final size:40
Alignment explanation
Indices: 20387--20619 Score: 234
Period size: 40 Copynumber: 5.8 Consensus size: 40
20377 GTTTCTTCTG
* * *
20387 TCTGGTCCACTACAGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAA
* * ** * *
20427 TCTGCTCCACTATTGTTTAGGGAGATAAGGTTTACAATCTTCAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTT--GA--TGCAA
* * * * * * ***
20471 CCTACTCCACTGCTGCTCAAGGAGATAGGA-TTGATTTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAA
*
20510 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAA
*
20550 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAA
*
20590 TCTGCTCCACTATTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
20620 TCTACAATCT
Statistics
Matches: 154, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
39 26 0.17
40 100 0.65
41 1 0.01
42 1 0.01
43 2 0.01
44 24 0.16
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAA
Found at i:20658 original size:44 final size:44
Alignment explanation
Indices: 20594--21959 Score: 621
Period size: 44 Copynumber: 31.5 Consensus size: 44
20584 ATGCGATCTG
* * *
20594 CTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * ***** * * *
20638 CTCCACTACTGCTCAAGGAGATAGGA-CTGGTGGCTTAAATCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * *
20681 CTTCACTACTGCTT-AGGAAGATAAGATTCT-CCGTCTTCGATCTA
1 CTCCACTACTGCTTAAGG-AGATAAGA-TCTACCATCTTCAACCTA
* * * *
20725 CTCCACTACTGCTTAGGGAAATAAGATCTACCATCTTTAACCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * ***** * * *
20769 CTCCACTACTGCTTAGGGAGCTAGGA-CTGGGGGCTTAAATCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* ** * *
20812 CTTCACTACTGCTT-AGGAAGATCGGA-CTACCATCTTCGACCTG
1 CTCCACTACTGCTTAAGG-AGATAAGATCTACCATCTTCAACCTA
* * * ***** * * *
20855 CTCCACTACTGCTTAGGGAGCTAGGA-CTGGGGGCTTAAATCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* ** * *
20898 CTTCACTACTGCTT-AGGAAGATCGGA-CTACCATCTTCGACCTG
1 CTCCACTACTGCTTAAGG-AGATAAGATCTACCATCTTCAACCTA
* * * ***** * * *
20941 CTCCACTACTGCTTAGGGAGCTAGGA-CTGGGGGCTTAAATCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* ** * *
20984 CTTCACTACTGCTT-AGGAAGATCGGA-CTACCATCTTCGACCTG
1 CTCCACTACTGCTTAAGG-AGATAAGATCTACCATCTTCAACCTA
* * * ***** * * *
21027 CTCCACTACTGCTTAGGGAGCTAGGA-CTGGGGGCTTAAATCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * * * *
21070 CTTCACTACTGCTT-AGGAAGATAAGAT-TCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAAGG-AGATAAGATCT-ACCATCTTCAACCTA
* * *
21114 CTCCACTACTGCTTATGGAGATAAGATCTACCATCTTTAACCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * * *
21158 CTCCACTACTGTTTAGGGAGATAGGA-CTACCATCTTCGACCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * * *
21201 CTCCACTACTGCTTAGGGAGATAGGA-CTA--ATGGCTTAAATCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCAT--CTTCAACCTA
* * * * * *
21244 CTTCACTACTGCTT-AGGAAGATAAGAT-TCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAAGG-AGATAAGATCT-ACCATCTTCAACCTA
* * * *
21288 CTCCAATACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * *
21332 CTCCACTACTGCTTAGGGAGATAGGA-CTACCATCTTCGACCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * **** * *
21375 CTCCACTACTACTTAGGGAGATAGGA-CTAGTGGCTTAAATCTA
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * * * * * *
21418 CTTCACTACTGC-TCAGGAAGATAAAAT-TCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAAGG-AGATAAGATCT-ACCATCTTCAACCTA
* * ** *
21462 CTTCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * * *
21506 CTCCACTACTGCTTAGGGAGATAGGA--T-CCATCTTCGACTTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * * *
21547 CTCCACTACTGCTTAGGGAGATAGGA-C-A--ATGGCTTAAATCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCAT--CTTCAACCTA
* * * * * *
21589 CTTCACTACTGCTT-AGGAAGATAAGAT-TCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAAGG-AGATAAGATCT-ACCATCTTCAACCTA
* * ** *
21633 CTCCACTACTGCTTAGGGAGATAAGATATACCATCTTTGACCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * ** *
21677 CTCCACTACTGCTTAGGGAGATAAGATATACCATCTTTGACCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * *
21721 CTCCACTACTGCTTAGGGAGATAAGATATACCATCTTCGACCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* *** * * * *
21765 CTCCACTACTGCTTAAGGAGATAGGA-CTGGTAGCTTAAATCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
* * * *
21808 CTTCACTACTGCTT-AGGAAGATAAGAT-TCACCGTCTTCAATCTG
1 CTCCACTACTGCTTAAGG-AGATAAGATCT-ACCATCTTCAACCTA
** *
21852 CTCCACTACTGC-TAAGGGAGATAAGATCTACCATCTTTGACCTG
1 CTCCACTACTGCTTAA-GGAGATAAGATCTACCATCTTCAACCTA
* * * *
21896 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
*
21940 CTCCACTACTGCTTAGGGAG
1 CTCCACTACTGCTTAAGGAG
21960 GCAAGGCTTG
Statistics
Matches: 1041, Mismatches: 232, Indels: 98
0.76 0.17 0.07
Matches are distributed among these distances:
40 2 0.00
41 42 0.04
42 46 0.04
43 397 0.38
44 530 0.51
45 22 0.02
46 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAAGGAGATAAGATCTACCATCTTCAACCTA
Found at i:20750 original size:131 final size:131
Alignment explanation
Indices: 20348--21959 Score: 1236
Period size: 131 Copynumber: 12.5 Consensus size: 131
20338 CTTCTGTCTA
*** *** * *
20348 CTCCACTACTGCTTAGGGAGATAGGAT-TAGTTTCTTCTGTCTGGTCCACTACAGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
* * * *** * * * * ** * *
20412 TAAGACT--TG-ATGCGATCTGCTCCACTATTGTTTAGGGAGATAAGGTTTACAATCTTCAACCT
66 TAGGACTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATCT
*
20474 A
131 G
* * * * * * *
20475 CTCCACTGCTGCTCAAGGAGATAGGAT-T--GAT-TT-TATCTGCTCCACTACTACTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
* * * ** * * *
20535 TAAGACT--TG-ATGCAATCTGCTCCACTACTGCTTAGGGAGATAAGA-CT--TG-ATGCGATCT
66 TAGGACTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATCT
20593 G
131 G
* * * * * *
20594 CTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
*** * * *
20659 TAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCT-CCGTCTTCGATC
66 TAGGACTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTACCGTCTTCGATC
*
20723 TA
130 TG
* * * *
20725 CTCCACTACTGCTTAGGGAAATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGC
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
*** * * * ** * *
20790 TAGGACTGGGGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATCGGA-CTACCATCTTCGACCT
66 TAGGACTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATCT
20854 G
131 G
* ***** * * * *
20855 CTCCACTACTGCTTAGGGAGCTAGGA-CTGGGGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
* * ** * * * *** * **
20919 TCGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGCTAGGA-CTGGGGGCTTAAATCT
66 TAGGACTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATCT
20983 G
131 G
* * * * *
20984 CTTCACTACTGCTTAGGAAGATCGGA-CTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGC
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
*** * * * *
21048 TAGGACTGGGGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGATC
66 TAGGACTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCGTCTTCGATC
21112 TG
130 TG
* * * *
21114 CTCCACTACTGCTTATGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGTTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
* ** * * ** * **
21179 TAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAATGGCTTAAATCT
66 TAGGACTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATCT
21243 G
131 G
* * * * * * * *
21244 CTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTCCAATACTGCTTAGGGAG
1 CTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTCAACCTGCTCCACTACTGCTTAGGGAG
* * * * * * *
21308 ATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTACCATCTTCGAC
65 ATAGGA-CTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGAT
21372 CTG
129 CTG
* **** * * * * * *
21375 CTCCACTACTACTTAGGGAGATAGGA-CTAGTGGCTTAAATCTACTTCACTACTGCTCAGGAAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
** * * ** * * * *
21439 TAAAATTCGCCGTCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACC
66 TAGGACT-ACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATC
21504 TG
130 TG
* *
21506 CTCCACTACTGCTTAGGGAGATAGGA--T-CCATCTTCGACTTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
** * * * *
21568 TAGGAC-AATGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGATC
66 TAGGACTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCGTCTTCGATC
21631 TG
130 TG
* * **
21633 CTCCACTACTGCTTAGGGAGATAAGATATACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
* * * ** * * * *
21698 TAAGATATACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAAGATATACCATCTTCGACC
66 TAGGA-CTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATC
21763 TG
130 TG
* *** * * * * *
21765 CTCCACTACTGCTTAAGGAGATAGGA-CTGGTAGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
* * * * * * *
21829 TAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTAAGGGAGATAAGATCTACCATCTTTGACC
66 TAGGACT-ACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATC
21894 TG
130 TG
*
21896 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAG
21960 GCAAGGCTTG
Statistics
Matches: 1185, Mismatches: 269, Indels: 57
0.78 0.18 0.04
Matches are distributed among these distances:
119 27 0.02
120 1 0.00
122 3 0.00
123 66 0.06
124 29 0.02
125 1 0.00
126 3 0.00
127 127 0.11
129 190 0.16
130 234 0.20
131 406 0.34
132 97 0.08
133 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (131 bp):
CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTGCTCCACTACTGCTTAGGGAGA
TAGGACTACCGTCTTAAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATCT
G
Found at i:20858 original size:86 final size:86
Alignment explanation
Indices: 20728--21921 Score: 1156
Period size: 86 Copynumber: 13.8 Consensus size: 86
20718 CGATCTACTC
** *
20728 CACTACTGCTTAGGGAA-ATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGCTA
1 CACTACTGCTTA-GGAAGATAAGA-CTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATA
* *
20792 GGACTGGGGGCTTAAATCTGCTT
64 GGACTAGCGGCTTAAATCTGCTT
** *
20815 CACTACTGCTTAGGAAGATCGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGCTAGG
1 CACTACTGCTTAGGAAGATAAGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGG
* *
20880 ACTGGGGGCTTAAATCTGCTT
66 ACTAGCGGCTTAAATCTGCTT
** *
20901 CACTACTGCTTAGGAAGATCGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGCTAGG
1 CACTACTGCTTAGGAAGATAAGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGG
* *
20966 ACTGGGGGCTTAAATCTGCTT
66 ACTAGCGGCTTAAATCTGCTT
** *
20987 CACTACTGCTTAGGAAGATCGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGCTAGG
1 CACTACTGCTTAGGAAGATAAGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGG
* *
21052 ACTGGGGGCTTAAATCTGCTT
66 ACTAGCGGCTTAAATCTGCTT
* * * * * *
21073 CACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTATGGAGATAA
1 CACTACTGCTTAGGAAGATAAGACT-ACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAG
* ** * * *
21138 GATCTACCATCTTTAACCTGCTC
65 GA-CTAGCGGCTTAAATCTGCTT
* * *
21161 CACTACTGTTTAGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGG
1 CACTACTGCTTAGGAAGATAAGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGG
**
21226 ACTAATGGCTTAAATCTGCTT
66 ACTAGCGGCTTAAATCTGCTT
* * * * * *
21247 CACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCAATACTGCTTAGGGAGATAA
1 CACTACTGCTTAGGAAGATAAGACT-ACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAG
* ** * * *
21312 GATCTACCATCTTTAACCTGCTC
65 GA-CTAGCGGCTTAAATCTGCTT
* * *
21335 CACTACTGCTTAGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTACTTAGGGAGATAGG
1 CACTACTGCTTAGGAAGATAAGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGG
* *
21400 ACTAGTGGCTTAAATCTACTT
66 ACTAGCGGCTTAAATCTGCTT
* * * * * * * *
21421 CACTACTGCTCAGGAAGATAAAATTCGCCGTCTTCGATCTGCTTCACTACTGCTTAGGGAGATAA
1 CACTACTGCTTAGGAAGATAAGACT-ACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAG
* ** ** * *
21486 GATCTACCATCTTTGACCTGCTC
65 GA-CTAGCGGCTTAAATCTGCTT
* * *
21509 CACTACTGCTTAGGGAGATAGGA-T-CCATCTTCGACTTGCTCCACTACTGCTTAGGGAGATAGG
1 CACTACTGCTTAGGAAGATAAGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGG
**
21572 AC-AATGGCTTAAATCTGCTT
66 ACTAGCGGCTTAAATCTGCTT
* * * * *
21592 CACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 CACTACTGCTTAGGAAGATAAGACT-ACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAG
* * ** ** * *
21657 GATATACCATCTTTGACCTGCTC
65 GA-CTAGCGGCTTAAATCTGCTT
* * * *
21680 CACTACTGCTTAGGGAGATAAGATATACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAA
1 CACTACTGCTTAGGAAGATAAGA-CTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAG
* * ** ** * *
21745 GATATACCATCTTCGACCTGCTC
65 GA-CTAGCGGCTTAAATCTGCTT
* *** * ** * * * *
21768 CACTACTGCTTAAGG-AGATAGGACTGGTAGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAA
1 CACTACTGCTT-AGGAAGATAAGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAG
* * * * *
21832 GATTCACCGTCTTCAATCTGCTC
65 GACT-AGCGGCTTAAATCTGCTT
* * *
21855 CACTACTGCTAAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAG
1 CACTACTGCTTAGGAAGATAAGA-CTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAG
21920 GA
65 GA
21922 TCTACCATCT
Statistics
Matches: 934, Mismatches: 156, Indels: 33
0.83 0.14 0.03
Matches are distributed among these distances:
83 31 0.03
84 2 0.00
85 35 0.04
86 365 0.39
87 259 0.28
88 238 0.25
89 4 0.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (86 bp):
CACTACTGCTTAGGAAGATAAGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGG
ACTAGCGGCTTAAATCTGCTT
Found at i:20869 original size:174 final size:174
Alignment explanation
Indices: 20424--21956 Score: 1548
Period size: 174 Copynumber: 8.9 Consensus size: 174
20414 AGACTTGATG
* * * * * * * * *
20424 CGATCTGCTCCACTATTGTTTAGGGAGATAAGGTTTACAATCTTCAACCTACTCCACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTT
* ** * * * * * * *
20489 AAGGAGATAGGA-T-TGAT-TT-TATCTGCTCCACTACTACTTAGGGAGATAAGACT---TGATG
66 AGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGGCTT
* * * * *
20547 CAATCTGCTCCACTACTGCTTAGGGAGATAAGACTT----G-ATG
131 AAATCTGCTTCACTACTGCTTAGGAAGATAAGA-TTCGCCGTCTT
* * * * *
20587 CGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTT
* ***** ** * * * * *
20652 AAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCT-CCGTC
66 AGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGA--CTACCGGC
** * * * *
20716 TTCGATCTACTCCACTACTGCTTAGGGAA-ATAAGA-TCTACCATCTT
129 TTAAATCTGCTTCACTACTGCTTA-GGAAGATAAGATTC-GCCGTCTT
** * * * ***** * * *
20762 TAACCTGCTCCACTACTGCTTAGGGAGCTAGGA-CTGGGGGCTTAAATCTGCTTCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTT
* * * ***
20826 AGGAAGATCGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGCTAGGACTGGGGGCTT
66 AGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGGCTT
** * * *
20891 AAATCTGCTTCACTACTGCTTAGGAAGATCGGACT-ACCATCTT
131 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
* * * ***** * * *
20934 CGACCTGCTCCACTACTGCTTAGGGAGCTAGGA-CTGGGGGCTTAAATCTGCTTCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTT
* * * ***
20998 AGGAAGATCGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGCTAGGACTGGGGGCTT
66 AGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGGCTT
21063 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
131 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
* *
21107 CGATCTGCTCCACTACTGCTTATGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGTTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTT
**
21172 AGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTAATGGCTT
66 AGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGGCTT
21237 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
131 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
*
21281 CGATCTGCTCCAATACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTT
* **
21346 AGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTACTTAGGGAGATAGGACTAGTGGCTT
66 AGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGGCTT
* * *
21411 AAATCTACTTCACTACTGCTCAGGAAGATAAAATTCGCCGTCTT
131 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
* *
21455 CGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTT
* **
21520 AGGGAGATAGGA-T-CCATCTTCGACTTGCTCCACTACTGCTTAGGGAGATAGGAC-AATGGCTT
66 AGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGGCTT
21582 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
131 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
* *
21626 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATATACCATCTTTGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTT
* * * * * **
21691 AGGGAGATAAGATATACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAAGATATACCATC
66 AGGGAGATAGGA-CTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTACCGGC
** * * * * * **
21756 TTCGACCTGCTCCACTACTGCTTAAGG-AGATAGGACTGGTAG-CTT
129 TTAAATCTGCTTCACTACTGCTT-AGGAAGATAAGATTCGCCGTCTT
** * * * * *
21801 AAATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTCAATCTGCTCCACTACTGCT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTTAACCTGCTCCACTACTGCT
* * * **
21865 AAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCAT
65 TAGGGAGATAGGA-CTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTACCGG
** * *
21930 CTTCGACCTGCTCCACTACTGCTTAGG
128 CTTAAATCTGCTTCACTACTGCTTAGG
21957 GAGGCAAGGC
Statistics
Matches: 1206, Mismatches: 137, Indels: 43
0.87 0.10 0.03
Matches are distributed among these distances:
163 73 0.06
164 1 0.00
166 2 0.00
167 28 0.02
169 3 0.00
171 149 0.12
172 215 0.18
173 63 0.05
174 468 0.39
175 170 0.14
176 31 0.03
177 3 0.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (174 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTT
AGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCGGCTT
AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
Found at i:22270 original size:129 final size:129
Alignment explanation
Indices: 22019--22457 Score: 704
Period size: 129 Copynumber: 3.4 Consensus size: 129
22009 ATCTGCTATA
* * * * * * * *
22019 TTCAGTCTGCTCCGCTGCAAACTCAGAGA-AGTCAGACATGATACGATCTACTCTACTGTAACTT
1 TTCAATCTGCTCCGCTGTAATCTCAGGGAGA-TAAGACCTGATACGATCTACTTTACTGAAACTT
* ** *
22083 CAGAGAGATAAGATAATTTATTTTAATCTGCTCC-CTTGTAATCTC-AGTGAGATAGGATTACTA
65 CAGAGAGATAATATCTTTTATTTTAATCCGCTCCAC-TGTAATCTCAAG-GAGATAGGATTACTA
22146 GC
128 GC
* *
22148 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTTTACTGAAACTTC
1 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTTTACTGAAACTTC
22213 AGAGAGATAATATCTTTTATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGC
66 AGAGAGATAATATCTTTTATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGC
22277 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTTTACTGAAACTTC
1 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTTTACTGAAACTTC
22342 AGAGAGATAATATCTTTTATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGC
66 AGAGAGATAATATCTTTTATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGC
22406 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACT
1 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACT
22458 NNNNNNNNNN
Statistics
Matches: 291, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
129 287 0.99
130 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (129 bp):
TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTTTACTGAAACTTC
AGAGAGATAATATCTTTTATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGC
Found at i:22295 original size:44 final size:44
Alignment explanation
Indices: 22107--22441 Score: 167
Period size: 44 Copynumber: 7.8 Consensus size: 44
22097 AATTTATTTT
*
22107 AATCTGCTCC-CTTGTAATCTC-AGTGAGATAGGATTACTAGCTTC
1 AATCTGCTCCAC-TGTAATCTCAAG-GAGATAAGATTACTAGCTTC
* * * * *
22151 AATCTACTCCACTGTAATCTCAGGGAGATAAGA--CCT-GATAC
1 AATCTGCTCCACTGTAATCTCAAGGAGATAAGATTACTAGCTTC
* * ** * * ** * *
22192 GATCTACTTTACTG-AAACTTC-AGAGAGATAATATCTTTTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAAG-GAGATAAGAT-TACTAGCTTC
* *
22236 AATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAAGGAGATAAGATTACTAGCTTC
* * * * *
22280 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA--CCT-GATAC
1 AATCTGCTCCACTGTAATCTCAAGGAGATAAGATTACTAGCTTC
* * ** * * ** * *
22321 GATCTACTTTACTG-AAACTTC-AGAGAGATAATATCTTTTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAAG-GAGATAAGAT-TACTAGCTTC
* *
22365 AATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAAGGAGATAAGATTACTAGCTTC
* *
22409 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
1 AATCTGCTCCACTGTAATCTCAAGGAGATAAGA
22442 CCTGATACGA
Statistics
Matches: 206, Mismatches: 65, Indels: 40
0.66 0.21 0.13
Matches are distributed among these distances:
40 8 0.04
41 46 0.22
42 4 0.02
43 6 0.03
44 130 0.63
45 12 0.06
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAAGGAGATAAGATTACTAGCTTC
Found at i:24341 original size:13 final size:13
Alignment explanation
Indices: 24325--24359 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
24315 CACTTTGACC
24325 TTTCC-TTTTCTTT
1 TTTCCTTTTTC-TT
24338 TTTCCTTTTTCTT
1 TTTCCTTTTTCTT
24351 TTTCCTTTT
1 TTTCCTTTT
24360 ATTCTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCCTTTTTCTT
Found at i:24478 original size:22 final size:22
Alignment explanation
Indices: 24453--24507 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
24443 TTCTTTCTTC
**
24453 TTTTTG-TTTTTTTTTTTTGAT
1 TTTTTGATTTTTTTACTTTGAT
24474 TTTTTGATTTTTTTACTTTGA-
1 TTTTTGATTTTTTTACTTTGAT
24495 -TTTTGATTTTTTT
1 TTTTTGATTTTTTT
24508 TCTTCCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 13 0.42
21 6 0.19
22 12 0.39
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.80
Consensus pattern (22 bp):
TTTTTGATTTTTTTACTTTGAT
Found at i:24508 original size:22 final size:19
Alignment explanation
Indices: 24454--24508 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 19
24444 TCTTTCTTCT
24454 TTTTGTTTTTTTTTTTTGA
1 TTTTGTTTTTTTTTTTTGA
24473 TTTT-TTGATTTTTTTACTTTGA
1 TTTTGTT--TTTTTTT--TTTGA
*
24495 TTTTGATTTTTTTT
1 TTTTGTTTTTTTTT
24509 CTTCCATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 2 0.07
19 4 0.13
20 7 0.23
21 7 0.23
22 9 0.30
23 1 0.03
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.80
Consensus pattern (19 bp):
TTTTGTTTTTTTTTTTTGA
Found at i:24517 original size:20 final size:20
Alignment explanation
Indices: 24475--24518 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
24465 TTTTTTGATT
**
24475 TTTTGATTTTTTTACTTTGA
1 TTTTGATTTTTTTACTTCCA
*
24495 TTTTGATTTTTTTTCTTCCA
1 TTTTGATTTTTTTACTTCCA
24515 TTTT
1 TTTT
24519 TGATCTGAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.09, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTTGATTTTTTTACTTCCA
Found at i:29024 original size:18 final size:17
Alignment explanation
Indices: 29001--29057 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 17
28991 ATAATATTAG
* *
29001 TAATAATAATGATAACAC
1 TAATAATAATAATAA-AA
29019 TAATAATAATAATAAAA
1 TAATAATAATAATAAAA
* *
29036 TAATAATAA-ACTTAAA
1 TAATAATAATAATAAAA
29052 TAATAA
1 TAATAA
29058 AAGTGCTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 11 0.31
17 10 0.29
18 14 0.40
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (17 bp):
TAATAATAATAATAAAA
Found at i:29057 original size:3 final size:3
Alignment explanation
Indices: 28991--29044 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
28981 TTATATTAGT
* * * * *
28991 ATA ATA TTA GTA ATA ATA ATG ATA ACA CTA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
29038 ATA ATA A
1 ATA ATA A
29045 ACTTAAATAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:31645 original size:14 final size:14
Alignment explanation
Indices: 31623--31657 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
31613 TTTATAAATT
*
31623 AAATT-TTTTTTAG
1 AAATTATTTTGTAG
31636 AAATTATTTTGTAG
1 AAATTATTTTGTAG
31650 AAATTATT
1 AAATTATT
31658 AGTTAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (14 bp):
AAATTATTTTGTAG
Found at i:32390 original size:40 final size:41
Alignment explanation
Indices: 32239--32410 Score: 213
Period size: 41 Copynumber: 4.2 Consensus size: 41
32229 TAAAAAAGCT
* * *
32239 GCTAAAGCCCCGAGCATTAGCGGCGCTTCTTGAAAAACG-C
1 GCTAAAGCCTCGAGCATTAGCGGCGCTTTTTCAAAAACGTC
* *
32279 TGCTAAAGCCTCGAGCATTAGCGGCGCTCTTTCAAAAACGCC
1 -GCTAAAGCCTCGAGCATTAGCGGCGCTTTTTCAAAAACGTC
* *
32321 GCTAAATCC-CGAGCATTAGCGGCGCTTTTTCAAAATCGTC
1 GCTAAAGCCTCGAGCATTAGCGGCGCTTTTTCAAAAACGTC
* * * * *
32361 GCTAAATCCTCGAGCATTAGCGCCGTTTTTTTATAAACGTC
1 GCTAAAGCCTCGAGCATTAGCGGCGCTTTTTCAAAAACGTC
32402 GCTAAAGCC
1 GCTAAAGCC
32411 CCGAAAGATC
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 37 0.32
41 77 0.67
42 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCTAAAGCCTCGAGCATTAGCGGCGCTTTTTCAAAAACGTC
Found at i:32541 original size:40 final size:40
Alignment explanation
Indices: 32494--32609 Score: 205
Period size: 40 Copynumber: 2.9 Consensus size: 40
32484 CATTTTTAGG
32494 AAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTATGT
1 AAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTATGT
* *
32534 AAAGCGCCCCTAATGCTCGATCTTTAGCAGCGTTTTATGT
1 AAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTATGT
*
32574 AAAGCGCCGCTAATGCTCGATTTTTAGCGGCGTTTT
1 AAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTT
32610 TTATTCAAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTATGT
Found at i:43325 original size:65 final size:65
Alignment explanation
Indices: 43221--43344 Score: 248
Period size: 65 Copynumber: 1.9 Consensus size: 65
43211 TCGGGATTAC
43221 CAGTCTAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACGACTAT
1 CAGTCTAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACGACTAT
43286 CAGTCTAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTAC
1 CAGTCTAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTAC
43345 CAGTCCAGGC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (65 bp):
CAGTCTAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACGACTAT
Found at i:54968 original size:13 final size:13
Alignment explanation
Indices: 54935--54980 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
54925 ATCCTATCTT
*
54935 AACATCAAGCTTTA
1 AACATCAAGC-ATA
54949 AAC-TCAAGCATA
1 AACATCAAGCATA
54961 AACATCAAG-A-A
1 AACATCAAGCATA
54972 AACATCAAG
1 AACATCAAG
54981 AAAGCTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 10 0.33
12 6 0.20
13 11 0.37
14 3 0.10
ACGTcount: A:0.52, C:0.22, G:0.09, T:0.17
Consensus pattern (13 bp):
AACATCAAGCATA
Found at i:54976 original size:11 final size:11
Alignment explanation
Indices: 54960--54993 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
54950 ACTCAAGCAT
54960 AAACATCAAGA
1 AAACATCAAGA
54971 AAACATCAAGA
1 AAACATCAAGA
* *
54982 AAGCTTCAAGA
1 AAACATCAAGA
54993 A
1 A
54994 CAATCATGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.59, C:0.18, G:0.12, T:0.12
Consensus pattern (11 bp):
AAACATCAAGA
Found at i:56864 original size:11 final size:11
Alignment explanation
Indices: 56848--56894 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
56838 TTTTTATTCT
*
56848 ATTAGTTTTAG
1 ATTAGTATTAG
56859 ATTAGTATTAG
1 ATTAGTATTAG
*
56870 -TTAG-ATTAT
1 ATTAGTATTAG
56879 ATTAGTATTAG
1 ATTAGTATTAG
56890 -TTAGT
1 ATTAGT
56895 GATCCCAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 4 0.13
10 13 0.42
11 14 0.45
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:56873 original size:15 final size:14
Alignment explanation
Indices: 56855--56884 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
56845 TCTATTAGTT
56855 TTAGATTAGTATTAG
1 TTAGATTA-TATTAG
56870 TTAGATTATATTAG
1 TTAGATTATATTAG
56884 T
1 T
56885 ATTAGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (14 bp):
TTAGATTATATTAG
Found at i:59113 original size:24 final size:24
Alignment explanation
Indices: 59086--59131 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
59076 ATAGAGTAAA
*
59086 CTTACATAAAGCTTAATAAGTTCG
1 CTTACAAAAAGCTTAATAAGTTCG
59110 CTTACAAAAAGCTTAATAAGTT
1 CTTACAAAAAGCTTAATAAGTT
59132 TGTAATAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (24 bp):
CTTACAAAAAGCTTAATAAGTTCG
Found at i:61326 original size:19 final size:19
Alignment explanation
Indices: 61302--61349 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
61292 AATCTTCAAG
61302 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
61321 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
61340 GATATGCAAT
1 GATATGCAAT
61350 NNNNNNNNNN
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:66188 original size:111 final size:111
Alignment explanation
Indices: 65994--66215 Score: 426
Period size: 111 Copynumber: 2.0 Consensus size: 111
65984 CACATATTGG
65994 GTTTTAGGTAATTTGGCTTATCAATTGACCTTTGTGTTCTTAATCCTCCATGCCAATTGAATTAC
1 GTTTTAGGTAATTTGGCTTATCAATTGACCTTTGTGTTCTTAATCCTCCATGCCAATTGAATTAC
66059 ATGTACCTTAGTTTTTTTTTTTTTTTTTTTTTTAAAAAAAATCATT
66 ATGTACCTTAGTTTTTTTTTTTTTTTTTTTTTTAAAAAAAATCATT
66105 GTTTTAGGTAATTTGGCTTATCAATTGACCTTTGTGTTCTTAATCCTCCATGCCAATTGAATTAC
1 GTTTTAGGTAATTTGGCTTATCAATTGACCTTTGTGTTCTTAATCCTCCATGCCAATTGAATTAC
* *
66170 ATGTACCTTAGTTTTTTTTTTTTTTTTTTTTTTAAGAAAAGTCATT
66 ATGTACCTTAGTTTTTTTTTTTTTTTTTTTTTTAAAAAAAATCATT
66216 ATGTTGGATG
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.51
Consensus pattern (111 bp):
GTTTTAGGTAATTTGGCTTATCAATTGACCTTTGTGTTCTTAATCCTCCATGCCAATTGAATTAC
ATGTACCTTAGTTTTTTTTTTTTTTTTTTTTTTAAAAAAAATCATT
Found at i:67581 original size:21 final size:21
Alignment explanation
Indices: 67555--67594 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
67545 AATATTCATC
67555 TTCTTGACCTTGTAAGACCTT
1 TTCTTGACCTTGTAAGACCTT
67576 TTCTTGACCTTGTAAGACC
1 TTCTTGACCTTGTAAGACC
67595 CAGTCCAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCTTGACCTTGTAAGACCTT
Found at i:72312 original size:34 final size:32
Alignment explanation
Indices: 72224--72326 Score: 82
Period size: 34 Copynumber: 3.1 Consensus size: 32
72214 CATGACATAC
* *
72224 TATAACAGATTAGTACAGTAG-TATTAACATGTT
1 TATAACAGA-TA-TACAGTAGCGATTAACATGCT
* *
72257 TATAACAAGTATATACGGTAGCGATTATCATGCT
1 TATAAC-AG-ATATACAGTAGCGATTAACATGCT
* * *
72291 TATAACAGATCATAGCAGTAGCAATAAACTTGCT
1 TATAACAGAT-ATA-CAGTAGCGATTAACATGCT
72325 TA
1 TA
72327 ACATGTATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
32 2 0.04
33 18 0.32
34 35 0.62
35 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (32 bp):
TATAACAGATATACAGTAGCGATTAACATGCT
Found at i:74155 original size:7 final size:7
Alignment explanation
Indices: 74143--74232 Score: 83
Period size: 7 Copynumber: 12.9 Consensus size: 7
74133 TAAATAAGGT
74143 TTAGGGG
1 TTAGGGG
74150 TTAGGGG
1 TTAGGGG
*
74157 TTAGGGC
1 TTAGGGG
74164 TTAGGGG
1 TTAGGGG
*
74171 TTAGAGG
1 TTAGGGG
* *
74178 TCATGGG
1 TTAGGGG
**
74185 TTAAGGAT
1 TT-AGGGG
*
74193 TTAGGGT
1 TTAGGGG
74200 TTA-GGG
1 TTAGGGG
*
74206 TTAAGGG
1 TTAGGGG
*
74213 TTAAGGG
1 TTAGGGG
74220 TTAGGGG
1 TTAGGGG
74227 TTAGGG
1 TTAGGG
74233 ATTGGGTTAT
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
6 5 0.07
7 59 0.87
8 4 0.06
ACGTcount: A:0.20, C:0.02, G:0.47, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:74489 original size:21 final size:21
Alignment explanation
Indices: 74436--74489 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
74426 TAAAGATTAT
74436 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
74457 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
74478 TAATTTAAAATT
1 TAATTTAAAATT
74490 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:74508 original size:21 final size:21
Alignment explanation
Indices: 74484--74530 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
74474 ATAATAATTT
**
74484 AAAATTGTAAAAATTGTAAAA
1 AAAATTGTAAAAATTACAAAA
*
74505 AAAATTGTCAAAATTACAAAA
1 AAAATTGTAAAAATTACAAAA
74526 AAAAT
1 AAAAT
74531 GAAAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (21 bp):
AAAATTGTAAAAATTACAAAA
Found at i:74554 original size:20 final size:21
Alignment explanation
Indices: 74524--74568 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
74514 AAAATTACAA
74524 AAAAAATGAAAATAAAAAAA-T
1 AAAAAATG-AAATAAAAAAACT
74545 AAAAAA-GAAATAAAAAAACT
1 AAAAAATGAAATAAAAAAACT
74565 AAAA
1 AAAA
74569 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.48
20 6 0.26
21 6 0.26
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.11
Consensus pattern (21 bp):
AAAAAATGAAATAAAAAAACT
Found at i:75418 original size:198 final size:198
Alignment explanation
Indices: 75080--75461 Score: 631
Period size: 198 Copynumber: 1.9 Consensus size: 198
75070 AAACGGCTCC
*
75080 AGGAAAACAGCTCCGTTTTCTTATTTAACTTTAGTGGCGCTTTTAGTAAACGCCGCAAAATGGTT
1 AGGAAAACAGCTCCATTTTCTTATTTAACTTTAGTGGCGCTTTTAGTAAACGCCGCAAAATGGTT
* * *
75145 TTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCCATGAGTTTTAGTTAACTAATCGGGA
66 TTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGGGA
*
75210 AATGACAGCGTTTGATCATATTACTAGTGGCGCTGGTATATAAACGCCGCAAATTACAGAAATTG
131 AACGACAGCGTTTGATCATATTACTAGTGGCGCTGGTATATAAACGCCGCAAATTACAGAAATTG
75275 TTG
196 TTG
* * *
75278 AGGAAAACGGCTTCATTTTCTTATTT-ACTTTTAGTGGCGCTTTTAGTAAACGCCGCAAAATTGT
1 AGGAAAACAGCTCCATTTTCTTATTTAAC-TTTAGTGGCGCTTTTAGTAAACGCCGCAAAATGGT
* *
75342 TTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTTGAGTTAACTGATTGGG
65 TTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGGG
* * *
75407 AAACGACAGCGTTTGGTCATATTACTAGTGGCGCTTGTATATAAACGCTGCAAAT
130 AAACGACAGCGTTTGATCATATTACTAGTGGCGCTGGTATATAAACGCCGCAAAT
75462 GGGTTAATTA
Statistics
Matches: 170, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
197 2 0.01
198 168 0.99
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (198 bp):
AGGAAAACAGCTCCATTTTCTTATTTAACTTTAGTGGCGCTTTTAGTAAACGCCGCAAAATGGTT
TTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGGGA
AACGACAGCGTTTGATCATATTACTAGTGGCGCTGGTATATAAACGCCGCAAATTACAGAAATTG
TTG
Found at i:83045 original size:43 final size:43
Alignment explanation
Indices: 82998--83364 Score: 604
Period size: 42 Copynumber: 8.6 Consensus size: 43
82988 GTTTGTGAAG
*
82998 TAAGCGCCG-TGAAAGAACACT-A-CTTTTAGCGGTGTTTTTTTCC
1 TAAGCGCCGCT-AAAGAACA-TGATCTTTT-GCGGCGTTTTTTTCC
83041 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCC
* *
83084 TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTT-C
1 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCC
* *
83126 TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCC
83169 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTT-C
1 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCC
83211 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTT-C
1 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCC
83253 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCC
*
83296 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCC
83338 TAAGCGCCGCTAAAGAACATGATCTTT
1 TAAGCGCCGCTAAAGAACATGATCTTT
83365 AGCNNGTTAG
Statistics
Matches: 311, Mismatches: 8, Indels: 11
0.94 0.02 0.03
Matches are distributed among these distances:
42 160 0.51
43 145 0.47
44 6 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCC
Found at i:83162 original size:85 final size:86
Alignment explanation
Indices: 82998--83367 Score: 601
Period size: 85 Copynumber: 4.3 Consensus size: 86
82988 GTTTGTGAAG
*
82998 TAAGCGCCG-TGAAAGAACACT-A-CTTTTAGCGGTGTTTTTTTCCTAAGCGCCGCTAAAGAACA
1 TAAGCGCCGCT-AAAGAACA-TGATC-TTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACA
*
83060 TGATCTTTTGCGGCGTTTTTTTCC
63 TGATCTTTAGCGGCGTTTTTTTCC
*
83084 TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTT-CTAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGA
*
83148 TCTTTAGCAGCGTTTTTTTCC
66 TCTTTAGCGGCGTTTTTTTCC
*
83169 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTT-CTAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGA
*
83233 TCTTTTGCGGCGTTTTTTT-C
66 TCTTTAGCGGCGTTTTTTTCC
*
83253 TAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGA
83318 TCTTTAGCGGCG-TTTTTTCC
66 TCTTTAGCGGCGTTTTTTTCC
83338 TAAGCGCCGCTAAAGAACATGATCTTTAGC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGC
83368 NNGTTAGCGA
Statistics
Matches: 269, Mismatches: 10, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
84 48 0.18
85 186 0.69
86 33 0.12
87 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (86 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGA
TCTTTAGCGGCGTTTTTTTCC
Found at i:84835 original size:151 final size:150
Alignment explanation
Indices: 84541--84988 Score: 808
Period size: 151 Copynumber: 3.0 Consensus size: 150
84531 CTAGACAAAT
* * *
84541 CTTAATAAATAATTTTATATCAAAATCAAA-ATCAAATATGTAAATTTTTGGCATAATGATAAAT
1 CTTAATAAATAATTTTAAATGAAAATCAAATATCTAATATGTAAATTTTTGGCATAATGATAAAT
* *
84605 TTAGCCTTTAAAATTTACATCTTTTTTTCAATTTGCCCCTATTATTATTATTTAGCTAAATTGGA
66 TTAGCCTTTAAAATTTACATCTTTTTTTCAATTTTCCCCTATTATTATTTTTTAGCTAAATTGGA
84670 CCCTTAACCTTTTAAAAAAC
131 CCCTTAACCTTTTAAAAAAC
84690 CTTAATAAATAATTTTAAATGAAAATCAAATATCTAATATGTAAATTTTTGGCATAATGATAAAT
1 CTTAATAAATAATTTTAAATGAAAATCAAATATCTAATATGTAAATTTTTGGCATAATGATAAAT
*
84755 TCAGCCTTTAAAATTTACATCTTTTTTTTCAATTTTCCCCTATTATTATTTTTTAGCTAAATTGG
66 TTAGCCTTTAAAATTTACATC-TTTTTTTCAATTTTCCCCTATTATTATTTTTTAGCTAAATTGG
84820 ACCCTTAACCTTTTAAAAAAC
130 ACCCTTAACCTTTTAAAAAAC
84841 CTTAATAAATAATTTTAAATGAAAATCAAATATCTAATATGTAAATTTTTGGCATAATGATAAAT
1 CTTAATAAATAATTTTAAATGAAAATCAAATATCTAATATGTAAATTTTTGGCATAATGATAAAT
* *
84906 TTAGCCTTTAAATTTTACATCTTTTTTTCAGTTTTCCCCTATTATTATTTTTTAGCTAAATTGGA
66 TTAGCCTTTAAAATTTACATCTTTTTTTCAATTTTCCCCTATTATTATTTTTTAGCTAAATTGGA
84971 CCCTTAACCTTTTAAAAA
131 CCCTTAACCTTTTAAAAA
84989 TAGTTGAATT
Statistics
Matches: 288, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
149 28 0.10
150 114 0.40
151 146 0.51
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (150 bp):
CTTAATAAATAATTTTAAATGAAAATCAAATATCTAATATGTAAATTTTTGGCATAATGATAAAT
TTAGCCTTTAAAATTTACATCTTTTTTTCAATTTTCCCCTATTATTATTTTTTAGCTAAATTGGA
CCCTTAACCTTTTAAAAAAC
Found at i:85809 original size:22 final size:22
Alignment explanation
Indices: 85754--85812 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
85744 TGGACATGCA
*
85754 TAATTATTTTTG-TAAATTTTAT
1 TAATTA-TTTTGAAAAATTTTAT
* *
85776 TGAA-AATATTGAAAAATTTTAT
1 T-AATTATTTTGAAAAATTTTAT
85798 TAATTATTTTGAAAA
1 TAATTATTTTGAAAA
85813 TTTATAAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
21 6 0.21
22 21 0.72
23 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (22 bp):
TAATTATTTTGAAAAATTTTAT
Found at i:86454 original size:40 final size:40
Alignment explanation
Indices: 86399--86479 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
86389 AAATCTGCCT
86399 AAGTTAGTCTTACTCTCGAAAATGAGAATTCACAAAGGAA
1 AAGTTAGTCTTACTCTCGAAAATGAGAATTCACAAAGGAA
86439 AAGTTAGTCTTACTCTCGAAAATGAGAATTCACAAAGGAA
1 AAGTTAGTCTTACTCTCGAAAATGAGAATTCACAAAGGAA
86479 A
1 A
86480 TTCTCTAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (40 bp):
AAGTTAGTCTTACTCTCGAAAATGAGAATTCACAAAGGAA
Found at i:89049 original size:40 final size:42
Alignment explanation
Indices: 89003--89088 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 42
88993 AATTCATTAC
* * * * *
89003 TTCAGTAATTTCATAGTTTAATGCAGTACA-C-ATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACATCAAAAACAATA
*
89043 TTCAGTAACTTCACAATTCAATTCAGTACATCAAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACATCAAAAACAATA
89085 TTCA
1 TTCA
89089 ATATTCCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 25 0.66
41 1 0.03
42 12 0.32
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (42 bp):
TTCAGTAACTTCACAATTCAATGCAGTACATCAAAAACAATA
Found at i:93227 original size:22 final size:22
Alignment explanation
Indices: 93179--93227 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
93169 GGTACACTTG
93179 TAATAAAAATAAATATATTCTT
1 TAATAAAAATAAATATATTCTT
* * *
93201 AAATAATAAGTAAA-ATATTTTT
1 TAATAA-AAATAAATATATTCTT
93223 TAATA
1 TAATA
93228 TATTATTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATAAAAATAAATATATTCTT
Found at i:93318 original size:11 final size:11
Alignment explanation
Indices: 93286--93318 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
93276 AAAACAAAAG
93286 AAAAAGAAACA
1 AAAAAGAAACA
93297 AAAGAAG-AACA
1 AAA-AAGAAACA
93308 AAAAAGAAACA
1 AAAAAGAAACA
93319 GAGAAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.15
11 14 0.70
12 3 0.15
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAGAAACA
Found at i:95286 original size:32 final size:32
Alignment explanation
Indices: 95243--95308 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
95233 TGATCTATCG
*
95243 TAATATGGGAATTAACTATTACTACTTAGACT
1 TAATATAGGAATTAACTATTACTACTTAGACT
*
95275 TAATATAGGAATTAACTATTACTACTTAGTCT
1 TAATATAGGAATTAACTATTACTACTTAGACT
95307 TA
1 TA
95309 TTTTTATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (32 bp):
TAATATAGGAATTAACTATTACTACTTAGACT
Found at i:100460 original size:610 final size:610
Alignment explanation
Indices: 99301--100521 Score: 2426
Period size: 610 Copynumber: 2.0 Consensus size: 610
99291 TATGTAATAT
99301 AAATTATGTAATAAATAAAAATATTAAAAATAGGTTAAGTCAAACTCAAGCTTGAAATGTTAGAG
1 AAATTATGTAATAAATAAAAATATTAAAAATAGGTTAAGTCAAACTCAAGCTTGAAATGTTAGAG
99366 TTTAAAATATTAAATTTTTAGGTCTAACATTTTAATGCAATAATCGATAAGGAATTTGTACAAAT
66 TTTAAAATATTAAATTTTTAGGTCTAACATTTTAATGCAATAATCGATAAGGAATTTGTACAAAT
99431 AACTTAATCTTTGACCAAATCCTAACAAGATAATTATTTGGTCCATAGCTAATAAACTCTAAATA
131 AACTTAATCTTTGACCAAATCCTAACAAGATAATTATTTGGTCCATAGCTAATAAACTCTAAATA
99496 CTCCATAAACATACCTCATAATTATGAGTTGAACTTTGAACTTGAATAGGTACCAAGTAATCTAA
196 CTCCATAAACATACCTCATAATTATGAGTTGAACTTTGAACTTGAATAGGTACCAAGTAATCTAA
99561 TATATATAAACTATGGTTTTGTTTGACAATTTACTAATAATTGATAATTGATTGTTAATTATAGT
261 TATATATAAACTATGGTTTTGTTTGACAATTTACTAATAATTGATAATTGATTGTTAATTATAGT
99626 GGTTGGTTTAATCAACTGATTCTATTAACTACTTATTTAAAAGTGTTTGGTAAAACTTAGCTGAT
326 GGTTGGTTTAATCAACTGATTCTATTAACTACTTATTTAAAAGTGTTTGGTAAAACTTAGCTGAT
99691 AACTAGTAAGTGTAAAATGGCAGATAAGGGCACTTTAGTCTTTATTGGGTGAAATTATTTAAATA
391 AACTAGTAAGTGTAAAATGGCAGATAAGGGCACTTTAGTCTTTATTGGGTGAAATTATTTAAATA
99756 AAACACTATTACCAAAAATATTAAAACATTTATTATGAAAATTAATTAATGAATATTTTTAAAAT
456 AAACACTATTACCAAAAATATTAAAACATTTATTATGAAAATTAATTAATGAATATTTTTAAAAT
99821 TTTAAATAAATAATTTTTTAAGTTCCTTATTTGTAAATATTAACCTTGTGGGGTTTGATAAATAT
521 TTTAAATAAATAATTTTTTAAGTTCCTTATTTGTAAATATTAACCTTGTGGGGTTTGATAAATAT
99886 TAATAGTGTATCAATATAATTGTAA
586 TAATAGTGTATCAATATAATTGTAA
99911 AAATTATGTAATAAATAAAAATATTAAAAATAGGTTAAGTCAAACTCAAGCTTGAAATGTTAGAG
1 AAATTATGTAATAAATAAAAATATTAAAAATAGGTTAAGTCAAACTCAAGCTTGAAATGTTAGAG
99976 TTTAAAATATTAAATTTTTAGGTCTAACATTTTAATGCAATAATCGATAAGGAATTTGTACAAAT
66 TTTAAAATATTAAATTTTTAGGTCTAACATTTTAATGCAATAATCGATAAGGAATTTGTACAAAT
100041 AACTTAATCTTTGACCAAATCCTAACAAGATAATTATTTGGTCCATAGCTAATAAACTCTAAATA
131 AACTTAATCTTTGACCAAATCCTAACAAGATAATTATTTGGTCCATAGCTAATAAACTCTAAATA
100106 CTCCATAAACATACCTCATAATTATGAGTTGAACTTTGAACTTGAATAGGTACCAAGTAATCTAA
196 CTCCATAAACATACCTCATAATTATGAGTTGAACTTTGAACTTGAATAGGTACCAAGTAATCTAA
100171 TATATATAAACTATGGTTTTGTTTGACAATTTACTAATAATTGATAATTGATTGTTAATTATAGT
261 TATATATAAACTATGGTTTTGTTTGACAATTTACTAATAATTGATAATTGATTGTTAATTATAGT
100236 GGTTGGTTTAATCAACTGATTCTATTAACTACTTATTTAAAAGTGTTTGGTAAAACTTAGCTGAT
326 GGTTGGTTTAATCAACTGATTCTATTAACTACTTATTTAAAAGTGTTTGGTAAAACTTAGCTGAT
100301 AACTAGTAAGTGTAAAATGGCAGATAAGGGCACTTTAGTCTTTATTGGGTGAAATTATTTAAATA
391 AACTAGTAAGTGTAAAATGGCAGATAAGGGCACTTTAGTCTTTATTGGGTGAAATTATTTAAATA
100366 AAACACTATTACCAAAAATATTAAAACATTTATTATGAAAATTAATTAATGAAATATTTTT-AAA
456 AAACACTATTACCAAAAATATTAAAACATTTATTATGAAAATTAATTAATG-AATATTTTTAAAA
100430 TTTTAAATAAATAATTTTTTAAGTTCCTTATTTGTAAATATTAACCTTGTGGGGTTTGATAAATA
520 TTTTAAATAAATAATTTTTTAAGTTCCTTATTTGTAAATATTAACCTTGTGGGGTTTGATAAATA
100495 TTAATAGTGTATCAATATAATTGTAA
585 TTAATAGTGTATCAATATAATTGTAA
100521 A
1 A
100522 TTACATTCTT
Statistics
Matches: 610, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
610 601 0.99
611 9 0.01
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (610 bp):
AAATTATGTAATAAATAAAAATATTAAAAATAGGTTAAGTCAAACTCAAGCTTGAAATGTTAGAG
TTTAAAATATTAAATTTTTAGGTCTAACATTTTAATGCAATAATCGATAAGGAATTTGTACAAAT
AACTTAATCTTTGACCAAATCCTAACAAGATAATTATTTGGTCCATAGCTAATAAACTCTAAATA
CTCCATAAACATACCTCATAATTATGAGTTGAACTTTGAACTTGAATAGGTACCAAGTAATCTAA
TATATATAAACTATGGTTTTGTTTGACAATTTACTAATAATTGATAATTGATTGTTAATTATAGT
GGTTGGTTTAATCAACTGATTCTATTAACTACTTATTTAAAAGTGTTTGGTAAAACTTAGCTGAT
AACTAGTAAGTGTAAAATGGCAGATAAGGGCACTTTAGTCTTTATTGGGTGAAATTATTTAAATA
AAACACTATTACCAAAAATATTAAAACATTTATTATGAAAATTAATTAATGAATATTTTTAAAAT
TTTAAATAAATAATTTTTTAAGTTCCTTATTTGTAAATATTAACCTTGTGGGGTTTGATAAATAT
TAATAGTGTATCAATATAATTGTAA
Found at i:108432 original size:150 final size:150
Alignment explanation
Indices: 108259--108569 Score: 606
Period size: 150 Copynumber: 2.1 Consensus size: 150
108249 GATGTATAAA
108259 AAAATTATAATTCAATTTTGATTACTTTAAAAAAATTTTAAATGCGCCTCCGACTAGCTTGTATT
1 AAAATTATAA-TCAATTTTGATTACTTTAAAAAAATTTTAAATGCGCCTCCGACTAGCTTGTATT
108324 GGGTACAAACTTTTGATATTTTAAAATAACTTTTAATTTTTCTTTTATCTTAATCATTTAATTTT
65 GGGTACAAACTTTTGATATTTTAAAATAACTTTTAATTTTTCTTTTATCTTAATCATTTAATTTT
108389 TTAATAATTACATTCAAAATT
130 TTAATAATTACATTCAAAATT
108410 AAAATTATAATCAATTTTGATTACTTTAAAAAAATTTTAAATGCGCCTCCGACTAGCTTGTATTG
1 AAAATTATAATCAATTTTGATTACTTTAAAAAAATTTTAAATGCGCCTCCGACTAGCTTGTATTG
108475 GGTACAAACTTTTGATATTTTAAAATAACTTTTAATTTTTCTTTTATCTTAATCATTTAATTTTT
66 GGTACAAACTTTTGATATTTTAAAATAACTTTTAATTTTTCTTTTATCTTAATCATTTAATTTTT
108540 TAATAATTACATTCAAAATT
131 TAATAATTACATTCAAAATT
108560 AAAA-TATAAT
1 AAAATTATAAT
108570 TATTAAATTT
Statistics
Matches: 160, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
149 6 0.04
150 144 0.90
151 10 0.06
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (150 bp):
AAAATTATAATCAATTTTGATTACTTTAAAAAAATTTTAAATGCGCCTCCGACTAGCTTGTATTG
GGTACAAACTTTTGATATTTTAAAATAACTTTTAATTTTTCTTTTATCTTAATCATTTAATTTTT
TAATAATTACATTCAAAATT
Found at i:111628 original size:35 final size:36
Alignment explanation
Indices: 111581--111657 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
111571 ATTGTCATTG
* *
111581 TCAATAATTTCAATATTCAACAAGCTTAAAACATAA
1 TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
*
111617 T-AATAAATTCAATATCCAACAAGGTTAAAACATAA
1 TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
111652 TCAATA
1 TCAATA
111658 TCTAACAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 32 0.86
36 5 0.14
ACGTcount: A:0.52, C:0.16, G:0.04, T:0.29
Consensus pattern (36 bp):
TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
Found at i:122791 original size:11 final size:12
Alignment explanation
Indices: 122770--122794 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
122760 CGGCACCACC
122770 TTTTAATTTTTT
1 TTTTAATTTTTT
122782 TTTTAATTTTTT
1 TTTTAATTTTTT
122794 T
1 T
122795 CGTGTCAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTAATTTTTT
Found at i:123303 original size:204 final size:204
Alignment explanation
Indices: 122852--123368 Score: 794
Period size: 204 Copynumber: 2.5 Consensus size: 204
122842 TTGGTGGTGG
*
122852 CGTATACTGATAGCTTCATCTGACACGAAAAAAGT-AAAAAAATTTAACAAAAGGTGGTGCTGAC
1 CGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAATTT-A-AAAAGGTGGTGCTGGC
* *
122916 CATTGTCAGGCCATCACCAAATTTTTTTTTTACTTTTTTCGTATACTGATAGCTTCATCTGACAC
64 CATTGCCAGGCCACCACCAAA-TTTTTTTTTACTTTTTTCGTATACTGATAGCTTCATCTGACAC
* * * * *
122981 GAAAAAAGTAAAAAAATTTAACAAAAGGTGGTGCTGACCATTGTCAGGCCATCACCAAATTTTTT
128 GAAAAAAATAAAAAAACTTAACAAAAGGTGGTGCTGACCATTGCCAGACCACCACCAAATTTTTT
123046 TTTTACTTTTTT
193 TTTTACTTTTTT
*
123058 CGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAAATTAAAAAGGTGGTGCTGGCCA
1 CGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAATTTAAAAAGGTGGTGCTGGCCA
*
123123 TTACCAGGCCACCACCAAATTTTTTTTTACTTTTTTCGTATACT-ATAGCTTCATCTGACACGAA
66 TTGCCAGGCCACCACCAAATTTTTTTTTACTTTTTTCGTATACTGATAGCTTCATCTGACACGAA
123187 AAAAATAAAAAAAAAACTT-A-AAAAGGTGGTGCTGGA-CATTGCCAGACCACCACC-AATTTTT
131 AAAAAT---AAAAAAACTTAACAAAAGGTGGTGCT-GACCATTGCCAGACCACCACCAAATTTTT
123248 TTTTTACTTTTTT
192 TTTTTACTTTTTT
* *
123261 CGTATATTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAAATTTAAAAAGGTGGTGCCGGCC
1 CGTATACTGATAGCTTCATCTGACACGAAAAAAGT-AAAAAAAATTTAAAAAGGTGGTGCTGGCC
*
123326 ATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTCTCGTAT
65 ATTGCCAGGCCACCACCAAATTTTTTTTTACTTTTT-TCGTAT
123369 TCTGGTACTG
Statistics
Matches: 289, Mismatches: 15, Indels: 15
0.91 0.05 0.05
Matches are distributed among these distances:
203 79 0.27
204 114 0.39
205 42 0.15
206 45 0.16
207 9 0.03
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (204 bp):
CGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAATTTAAAAAGGTGGTGCTGGCCA
TTGCCAGGCCACCACCAAATTTTTTTTTACTTTTTTCGTATACTGATAGCTTCATCTGACACGAA
AAAAATAAAAAAACTTAACAAAAGGTGGTGCTGACCATTGCCAGACCACCACCAAATTTTTTTTT
TACTTTTTT
Found at i:123388 original size:103 final size:102
Alignment explanation
Indices: 122852--123368 Score: 794
Period size: 103 Copynumber: 5.0 Consensus size: 102
122842 TTGGTGGTGG
*
122852 CGTATACTGATAGCTTCATCTGACACGAAAAAAGT--AAAAAAATTTAACAAAAGGTGGTGCTGA
1 CGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAAATTT-A-AAAAGGTGGTGCTGG
* *
122915 CCATTGTCAGGCCATCACCAAATTTTTTTTTTACTTTTTT
64 CCATTGCCAGGCCACCACC-AATTTTTTTTTTACTTTTTT
*
122955 CGTATACTGATAGCTTCATCTGACACGAAAAAAGT--AAAAAAATTTAACAAAAGGTGGTGCTGA
1 CGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAAATTT-A-AAAAGGTGGTGCTGG
* *
123018 CCATTGTCAGGCCATCACCAAATTTTTTTTTTACTTTTTT
64 CCATTGCCAGGCCACCACC-AATTTTTTTTTTACTTTTTT
123058 CGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAAA-TTAAAAAGGTGGTGCTGGCC
1 CGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAAATTTAAAAAGGTGGTGCTGGCC
* *
123122 ATTACCAGGCCACCACCAAATTTTTTTTTACTTTTTT
66 ATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTT
* * *
123159 CGTATACT-ATAGCTTCATCTGACACGAAAAAAATAAAAAAAAAACTTAAAAAGGTGGTGCTGGA
1 CGTATACTGATAGCTTCATCTGACACGAAAAAAGT-AAAAAAAAATTTAAAAAGGTGGTGCTGGC
*
123223 CATTGCCAGACCACCACCAATTTTTTTTTTACTTTTTT
65 CATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTT
* *
123261 CGTATATTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAAATTTAAAAAGGTGGTGCCGGCC
1 CGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAAATTTAAAAAGGTGGTGCTGGCC
123326 ATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTCT
66 ATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTT-T
123364 CGTAT
1 CGTAT
123369 TCTGGTACTG
Statistics
Matches: 392, Mismatches: 16, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
100 25 0.06
101 36 0.09
102 152 0.39
103 170 0.43
104 2 0.01
105 7 0.02
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (102 bp):
CGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAAAAAATTTAAAAAGGTGGTGCTGGCC
ATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTT
Found at i:124056 original size:21 final size:21
Alignment explanation
Indices: 124031--124070 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
124021 TATTTTTTAC
*
124031 TTAAAAATATATTTATTAAAT
1 TTAAAAATAAATTTATTAAAT
**
124052 TTAAATTTAAATTTATTAA
1 TTAAAAATAAATTTATTAA
124071 TAAAGGTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAAAATAAATTTATTAAAT
Found at i:125617 original size:29 final size:28
Alignment explanation
Indices: 125567--125633 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
125557 TTAAAATACA
* *
125567 ATAAATTATTAAAATTTCAAAAAGAATA-T
1 ATAAAATATTAAAATGTCAAAAA-AA-AGT
125596 ATAAAATATTAAAATGGT-AAAAAAAAGT
1 ATAAAATATTAAAAT-GTCAAAAAAAAGT
125624 A-AAAATATTA
1 ATAAAATATTA
125634 TCAAACTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 10 0.29
28 4 0.12
29 19 0.56
30 1 0.03
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (28 bp):
ATAAAATATTAAAATGTCAAAAAAAAGT
Found at i:134064 original size:21 final size:22
Alignment explanation
Indices: 134022--134068 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
134012 AAAAAAAACG
* *
134022 TAAAATCAGTCTAAAGTTTCAA
1 TAAAATCAGTCCAAAATTTCAA
134044 TAAAATC-GTCCAAAATTTCAA
1 TAAAATCAGTCCAAAATTTCAA
134065 TAAA
1 TAAA
134069 CAATAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (22 bp):
TAAAATCAGTCCAAAATTTCAA
Found at i:135181 original size:16 final size:14
Alignment explanation
Indices: 135156--135193 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
135146 TTATAAAACC
135156 TTAT-TTATAAATGT
1 TTATATTATAAAT-T
135170 TATATATTATAAATT
1 T-TATATTATAAATT
135185 TTATATTAT
1 TTATATTAT
135194 TTTTTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 5 0.23
16 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TTATATTATAAATT
Found at i:135283 original size:94 final size:95
Alignment explanation
Indices: 135175--135364 Score: 364
Period size: 94 Copynumber: 2.0 Consensus size: 95
135165 AATGTTATAT
135175 ATTATAAATTTTATATTATTTTTTACTTAATTTACATATTATAAAAAGATATATAATTTAACCTA
1 ATTATAAA-TTTATATTATTTTTTACTTAATTTACATATTATAAAAAGATATATAATTTAACCTA
135240 AGTTTTTCTTCAAATTATAAGGTCAATATTA
65 AGTTTTTCTTCAAATTATAAGGTCAATATTA
135271 ATTATAAA-TTATATTATTTTTTACTTAATTTACATATTATAAAAAGATATATAATTTAACCTAA
1 ATTATAAATTTATATTATTTTTTACTTAATTTACATATTATAAAAAGATATATAATTTAACCTAA
135335 GTTTTTCTTCAAATTATAAGGTCAATATTA
66 GTTTTTCTTCAAATTATAAGGTCAATATTA
135365 TGAGATATGA
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
94 86 0.91
96 8 0.09
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.47
Consensus pattern (95 bp):
ATTATAAATTTATATTATTTTTTACTTAATTTACATATTATAAAAAGATATATAATTTAACCTAA
GTTTTTCTTCAAATTATAAGGTCAATATTA
Found at i:139796 original size:41 final size:40
Alignment explanation
Indices: 139751--139840 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
139741 AGCGGCACTT
**
139751 TTAGCGGCGTTTGGACAAAAAACGCCACTAGTA-ATCGAGCA
1 TTAGCGGCGTTT-GACAAAAAACGCC-CTAAAATATCGAGCA
* * * *
139792 TTAGCGGCATTTTACGAAAAACGCCGTAAAATATCGAGCA
1 TTAGCGGCGTTTGACAAAAAACGCCCTAAAATATCGAGCA
139832 TTAGCGGCG
1 TTAGCGGCG
139841 CTACATAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.07
40 27 0.66
41 11 0.27
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGTTTGACAAAAAACGCCCTAAAATATCGAGCA
Found at i:140176 original size:114 final size:111
Alignment explanation
Indices: 139878--140225 Score: 471
Period size: 113 Copynumber: 3.1 Consensus size: 111
139868 AGCATTAACA
*
139878 GCGTTTTACAAAAAGCGCCGCAATAGAGTCACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTAC-AAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* * * *
139943 ATTAGTTGCGGTTATTTCCAAGCGCCGCTAAAACTCCGTTCTACAGTG
65 ATTAGTGGCGGTT-TTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
* * *
139991 GCGTTTTATACAAAGCGCCGCAATGGAGTAATACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACA-AAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* *
140056 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
65 ATTAGTGGCGGTTTT-CCCAAGCGCCGCTAATACTCCGTTCTACAGCG
* * * *
140104 GCGTTTTACAAAATGCGTCGCAAATACAGTAACACAGAACGACGCCGTTTTCGTATATTTTGGAA
1 GCGTTTTACAAAA-GCGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
* * *
140169 CACTAGTGGCGGTATTTTCCCAAACGCCGCTAATAATCCGTTCTACAGCG
64 CATTAGTGGCGG--TTTTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
140219 GCGTTTT
1 GCGTTTT
140226 GCGTTAAGCG
Statistics
Matches: 207, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
112 6 0.03
113 113 0.55
114 49 0.24
115 35 0.17
116 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (111 bp):
GCGTTTTACAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACA
TTAGTGGCGGTTTTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
Found at i:140846 original size:41 final size:41
Alignment explanation
Indices: 140801--140893 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
140791 TATGGAGAAT
* * *
140801 CGCCGCTAATGT-TCCGGTCTATAGCGGCATTTGTGTAACAG
1 CGCCGCTAAT-TCTCCGGTCTATAGCAGCATTTGTGTAAAAA
* * *
140842 CGCCGGTAATTCTTCGGTCTATAGCAGCGTTTGTGTAAAAA
1 CGCCGCTAATTCTCCGGTCTATAGCAGCATTTGTGTAAAAA
140883 CGCCGCTAATT
1 CGCCGCTAATT
140894 AGAAAATCTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 1 0.02
41 43 0.98
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (41 bp):
CGCCGCTAATTCTCCGGTCTATAGCAGCATTTGTGTAAAAA
Done.