Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 107 of 175
Found at i:34071005 original size:99 final size:100
Alignment explanation
Indices: 34070834--34071188 Score: 570
Period size: 100 Copynumber: 3.6 Consensus size: 100
34070824 CTATTCGTGC
* *
34070834 CCTCAATC-TTTTAATTGCAATGTCGAGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTATTCCA
1 CCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTATTCCA
** *
34070898 CTGCACCGCTTGAGAAGTAAGATTCGCCGTTGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* *
34070933 CCTCAATC-TTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCA
1 CCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTATTCCA
34070997 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
*
34071032 CCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCA
1 CCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTATTCCA
* **
34071097 CTACACCGCCAGGGAAGTAAGATTCATCGTTGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * *
34071132 CTTCAATCTTTTTAATTGCAATATCGGGGAAGCGAGATTCACCGTTGTAGCCTCAAT
1 CCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAAT
34071189 ATTTTAATTA
Statistics
Matches: 240, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
99 102 0.43
100 138 0.57
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (100 bp):
CCTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTATTCCA
CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
Found at i:34071248 original size:149 final size:150
Alignment explanation
Indices: 34071006--34071331 Score: 474
Period size: 149 Copynumber: 2.2 Consensus size: 150
34070996 ACTGCACCGC
* * * * *
34071006 CAGGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATT
1 CAGGGAAGCAAGATTCACCGTTGTAGCCTCAATCATTTTAATTACAATGTCGGGGAAGCAAGATT
* * * * *
34071071 CACCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCATCGTTGTGGCTTC
66 CACCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCACCATTGTGGCCTA
34071136 AATCTTTTTAATTGCAATAT
131 AATCTTTTTAATTGCAATAT
* *
34071156 CGGGGAAGCGAGATTCACCGTTGTAGCCTCAAT-ATTTTAATTACAATGTCGGGGAAGCAAGATT
1 CAGGGAAGCAAGATTCACCGTTGTAGCCTCAATCATTTTAATTACAATGTCGGGGAAGCAAGATT
** * * **
34071220 CATTGTTGTAGCTTCAATCTGTTCCACTACACCGCCTGAGAAGTAAGATTTGCCATTGTGGCCTA
66 CACCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCACCATTGTGGCCTA
*
34071285 AATCTTTTTAATTGCAATGT
131 AATCTTTTTAATTGCAATAT
34071305 CAGGGAAGCAAGATTCACCGTTGTAGC
1 CAGGGAAGCAAGATTCACCGTTGTAGC
34071332 TTCGATCTGC
Statistics
Matches: 155, Mismatches: 21, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
149 127 0.82
150 28 0.18
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (150 bp):
CAGGGAAGCAAGATTCACCGTTGTAGCCTCAATCATTTTAATTACAATGTCGGGGAAGCAAGATT
CACCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCACCATTGTGGCCTA
AATCTTTTTAATTGCAATAT
Found at i:34071269 original size:99 final size:99
Alignment explanation
Indices: 34071166--34071471 Score: 369
Period size: 99 Copynumber: 3.1 Consensus size: 99
34071156 CGGGGAAGCG
* * **
34071166 AGATTCACCGTTGTAGCCTCAATATTTTAATTACAATGTCGGGGAAGCAAGATTCATTGTTGTAG
1 AGATTCACCGTTGTGGCCTCAATATTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
* * *
34071231 CTTCAATCTGTTCCACTACACCGCCTGAGAAGTA
66 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTA
** * * * *
34071265 AGATTTGCCATTGTGGCCTAAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTTGTA
1 AGATTCACCGTTGTGGCCTCAAT-ATTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTA
* * *
34071330 GCTTCGATCTGCTCCACTGCACCGCCAGGGAAATA
65 GCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTA
** * * * * * *
34071365 AGATTTGCTGTTGTGGCCTCAATCTTTTAATTGCAATGTCGAGGAAGCCAGATTCGCCATTGTAG
1 AGATTCACCGTTGTGGCCTCAATATTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
* *
34071430 CTTCAATCTATTCCACTGCACCACCAGGGAAGTA
66 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTA
34071464 AGATTCAC
1 AGATTCAC
34071472 TGTCTTCGAT
Statistics
Matches: 174, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
99 89 0.51
100 85 0.49
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (99 bp):
AGATTCACCGTTGTGGCCTCAATATTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTA
Found at i:34071320 original size:100 final size:98
Alignment explanation
Indices: 34071176--34071468 Score: 370
Period size: 100 Copynumber: 2.9 Consensus size: 98
34071166 AGATTCACCG
* * * * **
34071176 TTGTAGCCTCAATATTTTAATTACAATGTCGGGGAAGCAAGATTCATTGTTGTAGCTTCAATCTG
1 TTGTGGCCTAAATCTTTTAATTGCAATGTC-GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTG
* * *
34071241 TTCCACTACACCGCCTGAGAAGTAAGATTTGCCA
65 TTCCACTGCACCGCCAGGGAAGTAAGATTTGCCA
*
34071275 TTGTGGCCTAAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCGATCT
1 TTGTGGCCTAAATC-TTTTAATTGCAATGTC-GGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
* * **
34071340 GCTCCACTGCACCGCCAGGGAAATAAGATTTGCTG
64 GTTCCACTGCACCGCCAGGGAAGTAAGATTTGCCA
* * * * *
34071375 TTGTGGCCTCAATCTTTTAATTGCAATGTCGAGGAAGCCAGATTCGCCATTGTAGCTTCAATCTA
1 TTGTGGCCTAAATCTTTTAATTGCAATGTCG-GGAAGCAAGATTCACCGTTGTAGCTTCAATCTG
*
34071440 TTCCACTGCACCACCAGGGAAGTAAGATT
65 TTCCACTGCACCGCCAGGGAAGTAAGATT
34071469 CACTGTCTTC
Statistics
Matches: 168, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
98 1 0.01
99 81 0.48
100 86 0.51
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (98 bp):
TTGTGGCCTAAATCTTTTAATTGCAATGTCGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGT
TCCACTGCACCGCCAGGGAAGTAAGATTTGCCA
Found at i:34071320 original size:249 final size:248
Alignment explanation
Indices: 34070917--34071436 Score: 765
Period size: 249 Copynumber: 2.1 Consensus size: 248
34070907 TTGAGAAGTA
* * * * *
34070917 AGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAG
1 AGATTCGCCGTTGTAGCCTCAATATTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTGTAG
* * * *
34070982 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAA
66 CTTCAATCTGTTCCACTACACCGCCAGAGAAGTAAGATTCGCCATTGTGGCCTAAATCTTTTTAA
* *
34071047 TTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGGGA
131 TTGCAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTACTCCACTACACCGCCAGGGA
* * * *
34071112 AGTAAGA-TT-CATCGTTGTGGCTTCAATCTTTTTAATTGCAATATCGGGGAAGCG
196 AATAAGATTTGC-T-GTTGTGGCCTCAATC-TTTTAATTGCAATATCGAGGAAGCC
* **
34071166 AGATTCACCGTTGTAGCCTCAATATTTTAATTACAATGTCGGGGAAGCAAGATTCATTGTTGTAG
1 AGATTCGCCGTTGTAGCCTCAATATTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTGTAG
* *
34071231 CTTCAATCTGTTCCACTACACCGCCTGAGAAGTAAGATTTGCCATTGTGGCCTAAATCTTTTTAA
66 CTTCAATCTGTTCCACTACACCGCCAGAGAAGTAAGATTCGCCATTGTGGCCTAAATCTTTTTAA
* * *
34071296 TTGCAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCGATCTGCTCCACTGCACCGCCAGGGA
131 TTGCAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTACTCCACTACACCGCCAGGGA
*
34071361 AATAAGATTTGCTGTTGTGGCCTCAATCTTTTAATTGCAATGTCGAGGAAGCC
196 AATAAGATTTGCTGTTGTGGCCTCAATCTTTTAATTGCAATATCGAGGAAGCC
* *
34071414 AGATTCGCCATTGTAGCTTCAAT
1 AGATTCGCCGTTGTAGCCTCAAT
34071437 CTATTCCACT
Statistics
Matches: 242, Mismatches: 27, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
248 42 0.17
249 196 0.81
250 3 0.01
251 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (248 bp):
AGATTCGCCGTTGTAGCCTCAATATTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTGTAG
CTTCAATCTGTTCCACTACACCGCCAGAGAAGTAAGATTCGCCATTGTGGCCTAAATCTTTTTAA
TTGCAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTACTCCACTACACCGCCAGGGA
AATAAGATTTGCTGTTGTGGCCTCAATCTTTTAATTGCAATATCGAGGAAGCC
Found at i:34071674 original size:132 final size:132
Alignment explanation
Indices: 34071456--34071933 Score: 676
Period size: 132 Copynumber: 3.6 Consensus size: 132
34071446 TGCACCACCA
** * * *
34071456 GGGAAG-TAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATTTACAACC
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATC
* ** * *
34071520 TTCGACCTACTCTGCTATTGCTTAGGGAGATAGAACTGGTGGTTTAAATCTGCTTC-CCTACTA-
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCTGCTTCTCC-ACTAT
34071583 CATT
130 C-TT
* * * *
34071587 GGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTATTGCTTAGGGAGACA-AGATCTGCAAT
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATCTACAAT
*
34071651 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATTGGTGGTTTAAATCTGCTTCTCCACTAT
65 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCTGCTTCTCCACTAT
34071716 CTT
130 CTT
* *
34071719 GGGAAGGTAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATC
* * ** *
34071784 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCTGCTTCTCCACTATC
34071849 TT
131 TT
* *
34071851 GGGAAGATAATATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTAAAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATC
*
34071916 TTCAATCTACTCCACTAC
66 TTCAACCTACTCCACTAC
34071934 AAATCAAAGA
Statistics
Matches: 313, Mismatches: 29, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
131 6 0.02
132 303 0.97
133 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATC
TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCTGCTTCTCCACTATC
TT
Found at i:34071797 original size:44 final size:44
Alignment explanation
Indices: 34071617--34071933 Score: 124
Period size: 44 Copynumber: 7.2 Consensus size: 44
34071607 CTTTGATCTG
*
34071617 CTCCACTATTGCTTAGGGAGACA-AGATCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGA-ATCTGCAATCTTCAACCTA
* * *** * *
34071661 CTCCACTACTGCTTAGGGAGATAGGAT-TGGTGGT-TTAAATCTGCTT
1 CTCCACTACTGCTTAGGGAGACAGAATCT-GCAATCTTCAA-C--CTA
* * * * * *
34071707 CTCCACTA-T-CTT-GGGAAGGTA-AGATTC-ACCATCTTCGATCTG
1 CTCCACTACTGCTTAGGG-A-G-ACAGAATCTGCAATCTTCAACCTA
34071749 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
* * * * * *
34071793 CTCCACTGCTGCTCAGGGAGATAGGA-CT--AATGGCTTAAATCTGCTT
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAAT--CTTCAA-C--CTA
* * * * * * *
34071839 CTCCACTA-T-CTT-GGGA-AGATAATATTCACCATCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCA--ATCTTCAACCTA
** *
34071881 CTCCACTACTGCTTAGGGAGACAGAATCTAAAATCTTCAATCTA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
34071925 CTCCACTAC
1 CTCCACTAC
34071934 AAATCAAAGA
Statistics
Matches: 197, Mismatches: 47, Indels: 58
0.65 0.16 0.19
Matches are distributed among these distances:
41 3 0.02
42 24 0.12
43 28 0.14
44 92 0.47
45 21 0.11
46 27 0.14
47 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
Found at i:34073214 original size:9 final size:9
Alignment explanation
Indices: 34073200--34073235 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
34073190 CACCTTGGCC
34073200 TCTTTTTTT
1 TCTTTTTTT
*
34073209 TCTTTTTCT
1 TCTTTTTTT
34073218 TCTTTTTTT
1 TCTTTTTTT
34073227 TCTCTTTTT
1 TCT-TTTTT
34073236 CCTTCTCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:34073225 original size:20 final size:21
Alignment explanation
Indices: 34073202--34073241 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
34073192 CCTTGGCCTC
34073202 TTTTTTT-TCTTTTT-CTTCT
1 TTTTTTTCTCTTTTTCCTTCT
34073221 TTTTTTTCTCTTTTTCCTTCT
1 TTTTTTTCTCTTTTTCCTTCT
34073242 CTCTTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTCTTTTTCCTTCT
Found at i:34073241 original size:12 final size:11
Alignment explanation
Indices: 34073199--34073243 Score: 53
Period size: 10 Copynumber: 4.4 Consensus size: 11
34073189 TCACCTTGGC
34073199 CTCTTTTT-TT
1 CTCTTTTTCTT
34073209 -TCTTTTTCTT
1 CTCTTTTTCTT
34073219 CT-TTTTT-TT
1 CTCTTTTTCTT
34073228 CTCTTTTTCCTT
1 CTCTTTTT-CTT
34073240 CTCT
1 CTCT
34073244 CTTTGTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 11 0.37
10 12 0.40
11 1 0.03
12 6 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
CTCTTTTTCTT
Found at i:34077114 original size:109 final size:109
Alignment explanation
Indices: 34076919--34077561 Score: 1038
Period size: 109 Copynumber: 5.9 Consensus size: 109
34076909 TGGATTAAGA
* * * ** * *
34076919 TTTAAGAGGATATTCGGCTATTTGGTCCAACGAG--AAATCGAAACCCAGCGTATTAGAGCAAGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
34076982 TTTCTCGAGTTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATGTTGAAATT
* * * * * * *
34077026 TTTGAAAGGATATTTAGCTATTTGGTCGAGCGAGAAAAACCAAAACCCAACACATTAGGGCACGC
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
34077091 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAAT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATGTTGAAATT
* * *
34077135 TTTAAAAGGATATTTGGTTATTTGTTCGAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
34077200 TCTCTCGAATTTCCAAACGCAAAACATTGCCTTATGTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATGTTGAAATT
*
34077244 TTTAAAAGGATATTTGGCTATTTGGTCGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
34077309 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATGTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATGTTGAAATT
34077353 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
34077418 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATGTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATGTTGAAATT
* *
34077462 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCATGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
34077527 TTTCTCGAATTTCCAAATGCAAAACATTGCCTTAT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTAT
34077562 TGAAAAAACA
Statistics
Matches: 498, Mismatches: 36, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
107 28 0.06
109 470 0.94
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATGTTGAAATT
Found at i:34081748 original size:6 final size:6
Alignment explanation
Indices: 34081737--34081771 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
34081727 AAGATAAACC
34081737 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAA
34081772 TTATTTCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:34085751 original size:17 final size:17
Alignment explanation
Indices: 34085729--34085788 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
34085719 GTTCCAAAGT
34085729 TTTTCCAAATTTTTAAG
1 TTTTCCAAATTTTTAAG
34085746 TTTTCCAAA--TTTAA-
1 TTTTCCAAATTTTTAAG
*
34085760 TTTT-TAAATTATTTAAG
1 TTTTCCAAATT-TTTAAG
*
34085777 TTTTCAAAATTT
1 TTTTCCAAATTT
34085789 AATCTCATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
13 3 0.08
14 4 0.11
15 5 0.14
16 5 0.14
17 14 0.39
18 5 0.14
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTTCCAAATTTTTAAG
Found at i:34088670 original size:21 final size:21
Alignment explanation
Indices: 34088630--34088670 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34088620 CCTCACATTC
*
34088630 TGAACCTTGAACCTTAAACCA
1 TGAACCTTGAACCCTAAACCA
* *
34088651 TGAACTTTGAACCCTGAACC
1 TGAACCTTGAACCCTAAACC
34088671 CCAAGTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.24
Consensus pattern (21 bp):
TGAACCTTGAACCCTAAACCA
Found at i:34089195 original size:35 final size:35
Alignment explanation
Indices: 34089139--34089235 Score: 113
Period size: 35 Copynumber: 2.8 Consensus size: 35
34089129 CCCAAACCCC
*
34089139 AAACTCCAAACCTCAAACCTTGAACCTAGAATCTA
1 AAACCCCAAACCTCAAACCTTGAACCTAGAATCTA
* * * *
34089174 AAACCCCAACCCTCAAACCTTGAGCCTTGAATCTT
1 AAACCCCAAACCTCAAACCTTGAACCTAGAATCTA
* * * *
34089209 GAACCTCAAACCTCACACCCTGAACCT
1 AAACCCCAAACCTCAAACCTTGAACCT
34089236 TCCTTGAACC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.36, C:0.37, G:0.07, T:0.20
Consensus pattern (35 bp):
AAACCCCAAACCTCAAACCTTGAACCTAGAATCTA
Found at i:34089889 original size:7 final size:7
Alignment explanation
Indices: 34089877--34089926 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
34089867 CTAAATCTCA
34089877 AACCTTG
1 AACCTTG
34089884 AACCTTG
1 AACCTTG
**
34089891 AACCAAG
1 AACCTTG
34089898 AACCTTG
1 AACCTTG
*
34089905 AACC-TC
1 AACCTTG
34089911 AACCCTTG
1 AA-CCTTG
34089919 AACCTTG
1 AACCTTG
34089926 A
1 A
34089927 GCCCTAAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 3 0.09
7 29 0.83
8 3 0.09
ACGTcount: A:0.34, C:0.32, G:0.12, T:0.22
Consensus pattern (7 bp):
AACCTTG
Found at i:34089940 original size:35 final size:35
Alignment explanation
Indices: 34089873--34089951 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
34089863 TATTCTAAAT
34089873 CTCAAACCTTGAACCTTGAACCAAGAACCTTGAAC
1 CTCAAACCTTGAACCTTGAACCAAGAACCTTGAAC
* * * *
34089908 CTCAACCCTTGAACCTTGAGCCCTA-AATCTTGAAC
1 CTCAAACCTTGAACCTTGA-ACCAAGAACCTTGAAC
34089943 CTCAAACCT
1 CTCAAACCT
34089952 CACACCCAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 35 0.92
36 3 0.08
ACGTcount: A:0.33, C:0.34, G:0.10, T:0.23
Consensus pattern (35 bp):
CTCAAACCTTGAACCTTGAACCAAGAACCTTGAAC
Found at i:34090499 original size:93 final size:94
Alignment explanation
Indices: 34090319--34090503 Score: 284
Period size: 93 Copynumber: 2.0 Consensus size: 94
34090309 TAAAATTATG
* * *
34090319 TGTAAATAACATGGAAAATTTTGCTGATATGTCATTAAATAATTTGAAAGGGACCATAGGTGATG
1 TGTAAATAACATGGAAAATTTTGCTGAAATGTCATTAAATAATTGGAAAGAGACCATAGGTGATG
34090384 TGGTGGGAAGGATACATAAAATAATTTCT
66 TGGTGGGAAGGATACATAAAATAATTTCT
*
34090413 TGTAAGTAA-ATGGAAAATTTTGCTGAAATGTCATTAAATAATTGGAAAGAGACCAT-GGATGAT
1 TGTAAATAACATGGAAAATTTTGCTGAAATGTCATTAAATAATTGGAAAGAGACCATAGG-TGAT
* * *
34090476 GTGGTGGGAAGGGTCCATCAAATAATTT
65 GTGGTGGGAAGGATACATAAAATAATTT
34090504 TTCAGATTGA
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
92 2 0.02
93 73 0.88
94 8 0.10
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (94 bp):
TGTAAATAACATGGAAAATTTTGCTGAAATGTCATTAAATAATTGGAAAGAGACCATAGGTGATG
TGGTGGGAAGGATACATAAAATAATTTCT
Found at i:34091136 original size:15 final size:15
Alignment explanation
Indices: 34091111--34091145 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
34091101 GACTCTATTT
*
34091111 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
34091125 TAATTAATATTAAGA
1 TAATTAATATTAAGA
34091140 TAATTA
1 TAATTA
34091146 TTAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:34091161 original size:18 final size:18
Alignment explanation
Indices: 34091140--34091181 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
34091130 AATATTAAGA
34091140 TAATTATTA-AATATTATT
1 TAATT-TTAGAATATTATT
* *
34091158 TAATTTTAGGATTTTATT
1 TAATTTTAGAATATTATT
34091176 TAATTT
1 TAATTT
34091182 ATCTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TAATTTTAGAATATTATT
Found at i:34096147 original size:19 final size:19
Alignment explanation
Indices: 34096123--34096178 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
34096113 TTATTTAACC
34096123 TTTAATTAAACATAATTAA
1 TTTAATTAAACATAATTAA
* *
34096142 TTTAATTAACCTTAA-TAA
1 TTTAATTAAACATAATTAA
*
34096160 TTAAAATATAAACATAATT
1 TT-TAAT-TAAACATAATT
34096179 TACATTAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.17
19 16 0.55
20 7 0.24
21 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTAATTAAACATAATTAA
Found at i:34099996 original size:27 final size:27
Alignment explanation
Indices: 34099962--34100017 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
34099952 TAGAATGATG
34099962 ATATGAGTTTTGTTTTGAAATGCTTAT
1 ATATGAGTTTTGTTTTGAAATGCTTAT
34099989 ATATGAGTTTTGTTTTGAAATGCTTAT
1 ATATGAGTTTTGTTTTGAAATGCTTAT
34100016 AT
1 AT
34100018 GTTGTTGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.52
Consensus pattern (27 bp):
ATATGAGTTTTGTTTTGAAATGCTTAT
Found at i:34105360 original size:22 final size:22
Alignment explanation
Indices: 34105334--34105375 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34105324 CCCAAAATAA
34105334 AAACCCACAAA-CCACGAACCAC
1 AAACCCACAAATCCAC-AACCAC
*
34105356 AAACCCCCAAATCCACAACC
1 AAACCCACAAATCCACAACC
34105376 CCAACTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.48, C:0.48, G:0.02, T:0.02
Consensus pattern (22 bp):
AAACCCACAAATCCACAACCAC
Found at i:34105862 original size:14 final size:15
Alignment explanation
Indices: 34105843--34105871 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34105833 ATTAAAAGCT
34105843 AGATAAA-GTAAATA
1 AGATAAATGTAAATA
34105857 AGATAAATGTAAATA
1 AGATAAATGTAAATA
34105872 GACGACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (15 bp):
AGATAAATGTAAATA
Found at i:34106247 original size:16 final size:16
Alignment explanation
Indices: 34106226--34106282 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
34106216 TTTGGTTCGC
*
34106226 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
34106242 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
34106258 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
34106274 TGTAATGGA
1 TGTAATGGA
34106283 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:34106433 original size:27 final size:27
Alignment explanation
Indices: 34106401--34106454 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
34106391 AAAACTAAAA
34106401 TGACTAGAATACCCTTAGCAGAAATTT
1 TGACTAGAATACCCTTAGCAGAAATTT
34106428 TGACTAGAATACCCTTAGCAGAAATTT
1 TGACTAGAATACCCTTAGCAGAAATTT
34106455 GTTTTGGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (27 bp):
TGACTAGAATACCCTTAGCAGAAATTT
Found at i:34106576 original size:18 final size:17
Alignment explanation
Indices: 34106555--34106589 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34106545 TTATTATTAA
*
34106555 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
34106573 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
34106590 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:34106721 original size:154 final size:156
Alignment explanation
Indices: 34106442--34106755 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
34106432 TAGAATACCC
34106442 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
34106507 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
34106572 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAAAAA
* *
34106599 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
34106662 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
34106727 ATATAATTTAATAAAATTCTTAAAAA
131 ATATAATTTAATAAAATTCTTAAAAA
34106753 TTA
1 TTA
34106756 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 92 0.60
155 1 0.01
157 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAAAAA
Found at i:34106726 original size:16 final size:16
Alignment explanation
Indices: 34106689--34106730 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
34106679 TTAATCATAT
*
34106689 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
34106705 TT-AAATATATTATAA
1 TTAAAATATATTATAA
34106720 TTAAAATATAT
1 TTAAAATATAT
34106731 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:34106737 original size:14 final size:15
Alignment explanation
Indices: 34106698--34106739 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34106688 TTTAAACATA
*
34106698 ATTATTATTAAATAT
1 ATTATAATTAAATAT
34106713 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
34106727 A-TATAATTTAATA
1 ATTATAATTAAATA
34106740 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:34106826 original size:120 final size:121
Alignment explanation
Indices: 34106687--34106983 Score: 453
Period size: 120 Copynumber: 2.5 Consensus size: 121
34106677 ATTTAATCAT
*
34106687 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-A
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
34106751 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 AA-TAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
34106809 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
34106872 AATAAAATTCTTCTATGAATTTACTCAAATCATAATATGTGATACTATAAAAGAAA
66 AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
34106928 ATTTCAA-ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATT
34106984 TAAAATTACT
Statistics
Matches: 164, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
119 24 0.15
120 129 0.79
121 10 0.06
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (121 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:34106857 original size:14 final size:15
Alignment explanation
Indices: 34106808--34106859 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
34106798 GTAAAATATA
34106808 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
34106823 TATTAAATATATTAT
1 AATTAAATATATTAT
34106838 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
34106851 AATTTAATA
1 AATTAAATA
34106860 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:34106874 original size:44 final size:43
Alignment explanation
Indices: 34106785--34106875 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
34106775 CTCAAATCAT
* * *
34106785 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
34106828 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
34106872 AATA
1 AATA
34106876 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:34106964 original size:15 final size:15
Alignment explanation
Indices: 34106944--34106982 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
34106934 AATAATTAAT
34106944 ATTAAATATGATTTA
1 ATTAAATATGATTTA
34106959 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
34106976 ATAAAAT
1 ATTAAAT
34106983 TTAAAATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:34106969 original size:17 final size:17
Alignment explanation
Indices: 34106949--34106982 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34106939 TTAATATTAA
*
34106949 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
34106966 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
34106983 TTAAAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:34107095 original size:92 final size:92
Alignment explanation
Indices: 34107015--34107208 Score: 277
Period size: 92 Copynumber: 2.1 Consensus size: 92
34107005 GATTATAGTT
* * *
34107015 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
34107078 ATAAAATTCTTGATAATAAAATTTTCTTA
64 ATAAAATTCTTAATAATAAAATTTACTTA
* *
34107107 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
34107172 AAAATTCTTAATAATAAAATGTT-CTTA
66 AAAATTCTTAATAATAAAAT-TTACTTA
34107199 TATGAATTTA
1 TATGAATTTA
34107209 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
92 87 0.94
93 6 0.06
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATTTACTTA
Found at i:34108623 original size:11 final size:11
Alignment explanation
Indices: 34108609--34108635 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34108599 CAAAATCAAT
34108609 ACAAAAGTTTC
1 ACAAAAGTTTC
34108620 ACAAAAGTTTC
1 ACAAAAGTTTC
34108631 ACAAA
1 ACAAA
34108636 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:34110895 original size:15 final size:15
Alignment explanation
Indices: 34110875--34110905 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34110865 ATATTATGTA
34110875 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
34110890 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
34110905 T
1 T
34110906 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:34114267 original size:29 final size:29
Alignment explanation
Indices: 34114211--34114268 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
34114201 GTGTTTTTTA
**
34114211 GCCCATTCCGATAAATAATATTTTAAATG
1 GCCCATTCCGATAAATAATATTGGAAATG
*
34114240 GCCCATTTCCG-TAAATACTATTGGAAATG
1 GCCCA-TTCCGATAAATAATATTGGAAATG
34114269 ATTTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (29 bp):
GCCCATTCCGATAAATAATATTGGAAATG
Found at i:34127177 original size:21 final size:22
Alignment explanation
Indices: 34127151--34127191 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
34127141 GTTGTCAAGT
34127151 AAAATTAATA-ATTTTAATGTA
1 AAAATTAATAGATTTTAATGTA
*
34127172 AAAATTAATAGGTTTTAATG
1 AAAATTAATAGATTTTAATG
34127192 CACAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (22 bp):
AAAATTAATAGATTTTAATGTA
Found at i:34127576 original size:26 final size:27
Alignment explanation
Indices: 34127523--34127585 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
34127513 ATAAAAAATA
*
34127523 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTATTT
34127550 ACCAAAATATTATAA-ATTTTTTATTT
1 ACCAAAATATTATAACATTTTTTATTT
34127576 ACCAAAATAT
1 ACCAAAATAT
34127586 ACCAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 20 0.57
27 15 0.43
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (27 bp):
ACCAAAATATTATAACATTTTTTATTT
Found at i:34128264 original size:18 final size:18
Alignment explanation
Indices: 34128243--34128295 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
34128233 ATTAATAGCT
*
34128243 CTATTTTAATTTAATAAA
1 CTATTCTAATTTAATAAA
*
34128261 CTATTCTCATTTAATAAA
1 CTATTCTAATTTAATAAA
34128279 C---TCTAATTTAATAAA
1 CTATTCTAATTTAATAAA
34128294 CT
1 CT
34128296 CTATTTTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 14 0.45
18 17 0.55
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (18 bp):
CTATTCTAATTTAATAAA
Found at i:34128289 original size:15 final size:15
Alignment explanation
Indices: 34128249--34128298 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
34128239 AGCTCTATTT
34128249 TAATTTAATAAACTATTC
1 TAATTTAATAAAC---TC
*
34128267 TCATTTAATAAACTC
1 TAATTTAATAAACTC
34128282 TAATTTAATAAACTC
1 TAATTTAATAAACTC
34128297 TA
1 TA
34128299 TTTTGGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 18 0.60
18 12 0.40
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATTTAATAAACTC
Found at i:34128332 original size:23 final size:23
Alignment explanation
Indices: 34128306--34128422 Score: 56
Period size: 19 Copynumber: 5.2 Consensus size: 23
34128296 CTATTTTGGT
34128306 AATTTGATGAGAAGAGTTTATTA
1 AATTTGATGAGAAGAGTTTATTA
*
34128329 AA-TT-A--AAATAGAG-TTATTAA
1 AATTTGATGAGA-AGAGTTTATT-A
*
34128349 GTAATTTGATGAGAATAGTTTATTA
1 --AATTTGATGAGAAGAGTTTATTA
*
34128374 AA-TT-A--AAATAGAG-TTATTAA
1 AATTTGATGAGA-AGAGTTTATT-A
*
34128394 GTAATTTGATGAGAATAGTTTATTA
1 --AATTTGATGAGAAGAGTTTATTA
34128419 AATT
1 AATT
34128423 AAAATAGAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 36
0.62 0.06 0.32
Matches are distributed among these distances:
19 14 0.20
20 9 0.13
21 2 0.03
22 8 0.12
23 12 0.17
24 2 0.03
25 8 0.12
26 14 0.20
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (23 bp):
AATTTGATGAGAAGAGTTTATTA
Found at i:34128369 original size:45 final size:45
Alignment explanation
Indices: 34128304--34128475 Score: 268
Period size: 45 Copynumber: 4.0 Consensus size: 45
34128294 CTCTATTTTG
*
34128304 GTAATTTGATGAGAAGAGTTTATTAAATTAAAATAGAGTTATTAA
1 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
34128349 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
1 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
34128394 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATT-A
1 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
* *
34128438 CT--TCT--T--GAATAGTTTATTAAATTAAAATAGAGTTATTA
1 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTA
34128476 CTTAATTAGA
Statistics
Matches: 123, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
38 31 0.25
40 1 0.01
42 2 0.02
44 2 0.02
45 87 0.71
ACGTcount: A:0.43, C:0.01, G:0.15, T:0.41
Consensus pattern (45 bp):
GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
Found at i:34128372 original size:26 final size:26
Alignment explanation
Indices: 34128342--34128419 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
34128332 TAAAATAGAG
34128342 TTATTAAGTAATTTGATGAGAATAGT
1 TTATTAAGTAATTTGATGAGAATAGT
*
34128368 TTATT-A--AA-TT-A--A-AATAGAG
1 TTATTAAGTAATTTGATGAGAATAG-T
34128387 TTATTAAGTAATTTGATGAGAATAGT
1 TTATTAAGTAATTTGATGAGAATAGT
34128413 TTATTAA
1 TTATTAA
34128420 ATTAAAATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 18
0.67 0.03 0.30
Matches are distributed among these distances:
18 5 0.12
19 6 0.15
20 1 0.02
21 1 0.02
22 4 0.10
23 4 0.10
24 1 0.02
25 1 0.02
26 13 0.32
27 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (26 bp):
TTATTAAGTAATTTGATGAGAATAGT
Found at i:34128449 original size:38 final size:38
Alignment explanation
Indices: 34128406--34128478 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
34128396 AATTTGATGA
34128406 GAATAGTTTATTAAATTAAAATAGAGTTATTACTTCTT
1 GAATAGTTTATTAAATTAAAATAGAGTTATTACTTCTT
34128444 GAATAGTTTATTAAATTAAAATAGAGTTATTACTT
1 GAATAGTTTATTAAATTAAAATAGAGTTATTACTT
34128479 AATTAGAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (38 bp):
GAATAGTTTATTAAATTAAAATAGAGTTATTACTTCTT
Found at i:34128466 original size:18 final size:18
Alignment explanation
Indices: 34128407--34128467 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
34128397 ATTTGATGAG
34128407 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
* ** **
34128425 AATAGAGTTATTACTTCTTG
1 AATAG-TTTATTAAAT-TAA
34128445 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
34128463 AATAG
1 AATAG
34128468 AGTTATTACT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
18 11 0.35
19 14 0.45
20 6 0.19
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (18 bp):
AATAGTTTATTAAATTAA
Found at i:34128480 original size:18 final size:18
Alignment explanation
Indices: 34128421--34128480 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
34128411 GTTTATTAAA
34128421 TTAAAATAGAGTTATTAC
1 TTAAAATAGAGTTATTAC
** * *
34128439 TTCTTGAATAG-TTTATTAAA
1 -T-TAAAATAGAGTTATT-AC
34128459 TTAAAATAGAGTTATTAC
1 TTAAAATAGAGTTATTAC
34128477 TTAA
1 TTAA
34128481 TTAGAATTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 7
0.67 0.18 0.16
Matches are distributed among these distances:
18 11 0.37
19 12 0.40
20 7 0.23
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (18 bp):
TTAAAATAGAGTTATTAC
Found at i:34129129 original size:17 final size:17
Alignment explanation
Indices: 34129097--34129128 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34129087 GGTGCCACCA
34129097 CAGGTTTTTTATTTTTG
1 CAGGTTTTTTATTTTTG
34129114 CAGG-TTTTTATTTTT
1 CAGGTTTTTTATTTTT
34129129 TTTGGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.06, G:0.16, T:0.66
Consensus pattern (17 bp):
CAGGTTTTTTATTTTTG
Found at i:34133815 original size:24 final size:24
Alignment explanation
Indices: 34133764--34133817 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
34133754 GCAATCACAT
* * *
34133764 CAACATTAGCTAGTGCAGTTGTCT
1 CAACTTTAGCTAGTGCAGTTGGCA
* *
34133788 CAACTTTAGCTTGTGCATTTGGCA
1 CAACTTTAGCTAGTGCAGTTGGCA
34133812 CAACTT
1 CAACTT
34133818 CAGTTGATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (24 bp):
CAACTTTAGCTAGTGCAGTTGGCA
Found at i:34148143 original size:13 final size:13
Alignment explanation
Indices: 34148125--34148149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34148115 TTTCATTTAG
34148125 CATTTCAAATGTT
1 CATTTCAAATGTT
34148138 CATTTCAAATGT
1 CATTTCAAATGT
34148150 CCCTTTTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
CATTTCAAATGTT
Found at i:34148225 original size:54 final size:52
Alignment explanation
Indices: 34148160--34148288 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 52
34148150 CCCTTTTTAC
*
34148160 ATAACT-ATTCATATCAACATTTTGTATAAAC-ACTTTATATAACTATTTTCCAT
1 ATAACTGATTCATATCAACATTTTGTA-AAACTACTTTATATAACCA-TTT-CAT
* * * *
34148213 ATAACTGATTCATATGATCATTTTGTACATCTACTTTATATAACCATTTCAT
1 ATAACTGATTCATATCAACATTTTGTAAAACTACTTTATATAACCATTTCAT
* * *
34148265 ATAACCGTTTCATATTATACATTT
1 ATAACTGATTCATATCA-ACATTT
34148289 AACACACAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
52 17 0.27
53 16 0.25
54 31 0.48
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (52 bp):
ATAACTGATTCATATCAACATTTTGTAAAACTACTTTATATAACCATTTCAT
Found at i:34148268 original size:13 final size:13
Alignment explanation
Indices: 34148250--34148279 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34148240 CATCTACTTT
34148250 ATATAACCATTTC
1 ATATAACCATTTC
*
34148263 ATATAACCGTTTC
1 ATATAACCATTTC
34148276 ATAT
1 ATAT
34148280 TATACATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (13 bp):
ATATAACCATTTC
Found at i:34158088 original size:37 final size:37
Alignment explanation
Indices: 34158038--34158114 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
34158028 TATAGTACGA
34158038 AAGTAAAATAAGAGATAATTTTAAGGTTTCTTAAACT
1 AAGTAAAATAAGAGATAATTTTAAGGTTTCTTAAACT
34158075 AAGTAAAATAAGAGATAATTTTAAGGTTTCTTAAACT
1 AAGTAAAATAAGAGATAATTTTAAGGTTTCTTAAACT
34158112 AAG
1 AAG
34158115 GAAATAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (37 bp):
AAGTAAAATAAGAGATAATTTTAAGGTTTCTTAAACT
Found at i:34161183 original size:16 final size:16
Alignment explanation
Indices: 34161162--34161193 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34161152 ATTTTGTTGC
*
34161162 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
34161178 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
34161194 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:34161392 original size:46 final size:43
Alignment explanation
Indices: 34161317--34161415 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
34161307 AATAATAACA
*
34161317 GATACCCGGTGGATTCAGCACACAACAACCACCCTTTGTAATCAAT
1 GATA-CCGGTGGATTCAGCACACAACAACCA-CC-TTATAATCAAT
* * *
34161363 GATATCCGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGT-GGATTCAGCACACAACAACCACCTTATAATCAAT
34161407 GATACCGGT
1 GATACCGGT
34161416 TCACATAGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 5 0.11
44 13 0.28
45 2 0.04
46 24 0.51
47 3 0.06
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAACAACCACCTTATAATCAAT
Found at i:34161482 original size:51 final size:50
Alignment explanation
Indices: 34161421--34161611 Score: 201
Period size: 51 Copynumber: 3.8 Consensus size: 50
34161411 CCGGTTCACA
* *
34161421 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCAATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAGTAC-CG
* * * *
34161472 TATTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGG
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCAGTACCG
* * * *
34161522 ATAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-T-TCTAGTACTCG
1 -TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCAGTAC-CG
*
34161573 TAGTAGCCTACACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
34161612 TTCACTTTCA
Statistics
Matches: 114, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
49 4 0.04
50 39 0.34
51 68 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAGTACCG
Found at i:34167759 original size:102 final size:102
Alignment explanation
Indices: 34167623--34167818 Score: 304
Period size: 102 Copynumber: 1.9 Consensus size: 102
34167613 ATTTTTTCAG
* * *
34167623 AAAATATTTAATATTTCACAACTCAACATGTTCACTGTGACCGAAT-GATTTATTTTTATTTTCA
1 AAAATATTTAATATTTCACAACTCAACATATTCACTATGACCGAATGGA-TTATTTTCATTTTCA
34167687 GGGTTCAAAACAGCTTAAAAACATAAACTCATTTCCAA
65 GGGTTCAAAACAGCTTAAAAACATAAACTCATTTCCAA
* ***
34167725 AAAATATTTAGTATTTCACAACTCAACATATTCACTATGGTTGAATGGATTATTTTCATTTTCAG
1 AAAATATTTAATATTTCACAACTCAACATATTCACTATGACCGAATGGATTATTTTCATTTTCAG
*
34167790 GGTTCAAAATAGCTTAAAAACATAAACTC
66 GGTTCAAAACAGCTTAAAAACATAAACTC
34167819 GTTCTTTCAA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
102 83 0.98
103 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (102 bp):
AAAATATTTAATATTTCACAACTCAACATATTCACTATGACCGAATGGATTATTTTCATTTTCAG
GGTTCAAAACAGCTTAAAAACATAAACTCATTTCCAA
Found at i:34174075 original size:12 final size:11
Alignment explanation
Indices: 34174058--34174092 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
34174048 AACAAATCCT
34174058 CTCTCATATTTC
1 CTCTCA-ATTTC
34174070 CTCTCAA-TTC
1 CTCTCAATTTC
34174080 CTCTCAATTTC
1 CTCTCAATTTC
34174091 CT
1 CT
34174093 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:34174105 original size:22 final size:22
Alignment explanation
Indices: 34174075--34174127 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
34174065 ATTTCCTCTC
34174075 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
*
34174098 AATTCTCTCAATTTCTTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
34174120 AATTCTCT
1 AATTCTCT
34174128 TATATCCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:34175319 original size:7 final size:7
Alignment explanation
Indices: 34175309--34175333 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34175299 ATTCGATTGA
34175309 TATTTAG
1 TATTTAG
34175316 TATTTAG
1 TATTTAG
34175323 TATTTAG
1 TATTTAG
34175330 TATT
1 TATT
34175334 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:34176525 original size:26 final size:26
Alignment explanation
Indices: 34176475--34176544 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
34176465 TATTTTGATA
34176475 TTATTTGATGTAAT-AAAATAGAAGT
1 TTATTTGATGTAATAAAAATAGAAGT
*
34176500 TTATATGATGTAATAAAAATAGAAGT
1 TTATTTGATGTAATAAAAATAGAAGT
*
34176526 TTATTTGATGCAATAAAAA
1 TTATTTGATGTAATAAAAA
34176545 CCCTAACCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 13 0.32
26 28 0.68
ACGTcount: A:0.47, C:0.01, G:0.14, T:0.37
Consensus pattern (26 bp):
TTATTTGATGTAATAAAAATAGAAGT
Found at i:34176591 original size:23 final size:23
Alignment explanation
Indices: 34176539--34176625 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 23
34176529 TTTGATGCAA
*
34176539 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
*** *
34176562 CCTAAACCCTAACCTAAATTAAT
1 TAAAAACCCTAACCTAATTTAAT
34176585 TAAAAACACTAACCCTAACCTAATTTAAT
1 T---AA-A--AACCCTAACCTAATTTAAT
34176614 TAAAAACCCTAA
1 TAAAAACCCTAA
34176626 ACCCTAACCT
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
23 26 0.53
25 1 0.02
26 2 0.04
27 1 0.02
29 19 0.39
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:34176599 original size:29 final size:29
Alignment explanation
Indices: 34176559--34177355 Score: 381
Period size: 29 Copynumber: 31.6 Consensus size: 29
34176549 AACCTAATTT
*
34176559 AACCCTAAACCCTAACCTAAATTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
*
34176589 AACACTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
**
34176618 AACCCTAAACCCTAACCTTAACCTAATTTAATTA
1 AACCCT-AACCCTAACC-TAATTTAA-TTAA--A
34176652 AA----AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
34176677 AACCCT-A----AACC---CTTAATTGAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34176698 AACCCTAACTCTAACCTAATTTAATT--A
1 AACCCTAACCCTAACCTAATTTAATTAAA
34176725 AA----AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
34176750 AACCCTAGCCCTAATCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
34176779 AACCCTAA-CC---CC----TTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
34176800 AACCCTAACCCTAACCTAATTTAATT--A
1 AACCCTAACCCTAACCTAATTTAATTAAA
34176827 AA----AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34176852 AGCCCTAA-CC---CC----TTAACTTAAA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
*
34176874 AACCCTAACCTTAACCTAATTTAATT--A
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34176901 AA----AACCCTAACCTAATTTAATTGAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34176926 AACCCT-A-----ACCTAATTTAATTGAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34176949 AACCCT-A----AACC---CTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
34176970 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
34176999 AATCCTAACCCTAATCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34177028 AACCCT-A----AACC---CTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34177049 AACCCTA------ACCTAATTTAATTGAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34177072 AACCCT-A-----ACCTAATTTAATTAGA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34177095 AACCCT-A-----ACCTAATTTAATCAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
34177118 AACCTTAACCCCAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34177147 AACCCT-A----AACC---CTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
34177168 AACCCTAACCCTAACCTAATTTAATT---
1 AACCCTAACCCTAACCTAATTTAATTAAA
34177194 AA----AACCCTAACCTAA-TTAACTT-AA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
*
34177218 AACCCTAA-CCT----T-A---ACTTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34177238 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
34177267 AACCCTAACCCT----T-A---ACTTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
34177288 AACCCTAACCTTAACCTAAATTAATT--A
1 AACCCTAACCCTAACCTAATTTAATTAAA
34177315 AA----AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
34177340 AA-CCTAACCCTAACCT
1 AACCCTAACCCTAACCT
34177356 TAACGTAATG
Statistics
Matches: 610, Mismatches: 47, Indels: 222
0.69 0.05 0.25
Matches are distributed among these distances:
19 2 0.00
20 14 0.02
21 102 0.17
22 33 0.05
23 155 0.25
24 18 0.03
25 22 0.04
26 18 0.03
27 19 0.03
28 27 0.04
29 168 0.28
30 19 0.03
31 6 0.01
32 4 0.01
34 3 0.00
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:34176633 original size:36 final size:36
Alignment explanation
Indices: 34176588--34176661 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
34176578 AATTAATTAA
34176588 AAACACTAACCCTAACCTAATTTAATTAAAAACCCT
1 AAACACTAACCCTAACCTAATTTAATTAAAAACCCT
* *
34176624 AAACCCTAACCTTAACCTAATTTAATTAAAAACCCT
1 AAACACTAACCCTAACCTAATTTAATTAAAAACCCT
34176660 AA
1 AA
34176662 CCTAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (36 bp):
AAACACTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:34176657 original size:23 final size:23
Alignment explanation
Indices: 34176631--34177348 Score: 496
Period size: 23 Copynumber: 29.4 Consensus size: 23
34176621 CCTAAACCCT
*
34176631 AACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
34176654 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
34176677 AACCCTAAACCCTTAATTGAA--AACCCT
1 AACCCT-AA-CC-TAATTTAATTAA---A
*
34176704 AACTCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
34176727 AACCCTAACCTAATTTAATTAAAA
1 AACCCTAACCTAATTTAATT-AAA
*
34176751 ACCCTAGCCCTAATCTAATTTAATTAAA
1 A----A-CCCTAACCTAATTTAATTAAA
34176779 AACCCTAACCCCTTAA-TTAA--AAA
1 AACCCTAA--CC-TAATTTAATTAAA
34176802 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
34176829 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
34176852 AGCCCTAACCCCTTAACTTAA--AAA
1 AACCCTAA--CC-TAATTTAATTAAA
*
34176876 CCCTAACCTTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
*
34176903 AACCCTAACCTAATTTAATTGAA
1 AACCCTAACCTAATTTAATTAAA
*
34176926 AACCCTAACCTAATTTAATTGAA
1 AACCCTAACCTAATTTAATTAAA
34176949 AACCCTAAACCCTTAA-TTAA--AAA
1 AACCCT-AA-CC-TAATTTAATTAAA
34176972 CCCTAACCCTAACCTAATTTAATTAAAAA
1 ----AACCCTAACCTAATTTAATT--AAA
*
34177001 TCCTAACCCTAATCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
*
34177028 AACCCTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
*
34177049 AACCCTAACCTAATTTAATTGAA
1 AACCCTAACCTAATTTAATTAAA
*
34177072 AACCCTAACCTAATTTAATTAGA
1 AACCCTAACCTAATTTAATTAAA
*
34177095 AACCCTAACCTAATTTAATCAAAAA
1 AACCCTAACCTAATTTAAT--TAAA
*
34177120 CCTTAACCCCAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
34177147 AACCCTAAACCCTTAA-TTAA--AAA
1 AACCCT-AA-CC-TAATTTAATTAAA
34177170 CCCTAACCCTAACCTAATTTAATT-AA
1 ----AACCCTAACCTAATTTAATTAAA
34177196 AACCCTAACCTAA-TTAACTT-AA
1 AACCCTAACCTAATTTAA-TTAAA
*
34177218 AACCCTAACCTTAACTTAA--AAA
1 AACCCTAACC-TAATTTAATTAAA
*
34177240 CCCTAACCTTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
*
34177267 AACCCTAACC---CTTAACTTAAA
1 AACCCTAACCTAATTTAA-TTAAA
34177288 AACCCTAACCTTAACCTAAATTAATTAAA
1 AACCCTAACC-TAA--T---TTAATTAAA
34177317 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
34177340 AA-CCTAACC
1 AACCCTAACC
34177349 CTAACCTTAA
Statistics
Matches: 575, Mismatches: 35, Indels: 171
0.74 0.04 0.22
Matches are distributed among these distances:
20 8 0.01
21 34 0.06
22 36 0.06
23 223 0.39
24 39 0.07
25 57 0.10
26 45 0.08
27 40 0.07
28 14 0.02
29 75 0.13
30 4 0.01
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:34176694 original size:21 final size:22
Alignment explanation
Indices: 34176645--34176705 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
34176635 TTAACCTAAT
*
34176645 TTAATTAAAAACCCT-AACCTAAT
1 TTAATTAAAAACCCTAAACC--AC
34176668 TTAATTAAAAACCCTAAACC-C
1 TTAATTAAAAACCCTAAACCAC
*
34176689 TTAATTGAAAACCCTAA
1 TTAATTAAAAACCCTAA
34176706 CTCTAACCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.46
23 15 0.43
24 4 0.11
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.28
Consensus pattern (22 bp):
TTAATTAAAAACCCTAAACCAC
Found at i:34176713 original size:73 final size:72
Alignment explanation
Indices: 34176624--34177348 Score: 425
Period size: 73 Copynumber: 9.9 Consensus size: 72
34176614 TAAAAACCCT
34176624 AAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACC-
1 AAACCCTAACC-TAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AACCA
* *
34176688 CTTAATTGA
64 TTTAATTAA
34176697 AAACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCCT
1 AAACCCTAAC-CTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATT-AAAA----A-CCCT
*
34176762 AATCTAATTTAATTAA
59 AA-C-CATTTAATTAA
34176778 AAACCCTAACC---CCTTAA-TTAA--AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
1 AAACCCTAACCTAACC-TAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAACCCTAA
34176837 CCTAATTTAATTAA
61 CC--ATTTAATTAA
* * *
34176851 AAGCCCTAACC---CCTTAACTTAA--AAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAA
1 AAACCCTAACCTAACC-TAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAACCCTAA
*
34176911 CCTAATTTAATTGA
61 CC--ATTTAATTAA
*
34176925 AAA--C---CCTAACCTAATTTAATTGAAAACCCTAAACCCTTAA-TTAA--AAACCCTAACCCT
1 AAACCCTAACCTAACCTAATTTAATTAAAAACCCT-AA-CC-TAATTTAATTAAA----AACCCT
34176982 AACCTAATTTAATTAA
59 AACC--ATTTAATTAA
* * *
34176998 AAATCCTAACCCTAATCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACCCTAACCT
1 AAACCCTAA-CCTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAATTAAAAACCCTAACC-
*
34177060 AATTTAATTGA
63 -ATTTAATTAA
* * *
34177071 AAA--C---CCTAACCTAATTTAATTAGAAACCCTAACCTAATTTAATCAAAAACCTTAACCCCA
1 AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAT--TAAA----AACCCTA
34177131 ACCTAATTTAATTAA
60 ACC--ATTTAATTAA
*
34177146 AAACCCTAAACC---CTTAA-TTAA--AAACCCTAACCCTAACCTAATTTAATT-AAAACCCTAA
1 AAACCCT-AACCTAACCTAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAACCCTAA
*
34177204 CCTAATTAACTT-A
61 CC-ATTTAA-TTAA
* ***** * *
34177217 AAACCCTAACCTTAACTTAA---AAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACC-C
1 AAACCCTAACC-TAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCAT
34177278 TTAACTTAA
65 TTAA-TTAA
*
34177287 AAACCCTAACCTTAACCTAAATTAATTAAAAACCCTAACCTAATTTAATTAAAAA-CCTAACC
1 AAACCCTAACC-TAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACC
34177349 CTAACCTTAA
Statistics
Matches: 543, Mismatches: 39, Indels: 141
0.75 0.05 0.20
Matches are distributed among these distances:
66 4 0.01
67 24 0.04
69 22 0.04
70 45 0.08
71 42 0.08
72 27 0.05
73 156 0.29
74 67 0.12
75 33 0.06
76 2 0.00
77 14 0.03
78 16 0.03
79 71 0.13
80 1 0.00
81 19 0.03
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (72 bp):
AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCATT
TAATTAA
Found at i:34176718 original size:50 final size:50
Alignment explanation
Indices: 34176654--34177355 Score: 357
Period size: 50 Copynumber: 14.2 Consensus size: 50
34176644 TTTAATTAAA
*
34176654 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTGAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCT
* *
34176704 AACTCTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACCCT
* * *
34176756 AGCCCTAATCTAATTTAATTAAAAACCCTAACCCCTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCT
* *
34176806 AACCCTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAATTAAAAGCCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACCCT
* *****
34176858 AA-CC---CC----TTAACTTAAAAACCCT-AA-CCTTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAA-TTAAAAACCCTAAACCCTTAA-TTAA---AAACCCT
* * *
34176903 AACCCTAACCTAATTTAATTGAAAACCCT-AACCTAATTTAATTGAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACCCT
* *
34176955 AAACCCT----TAA-TTAA--AAACCCTAACCCT-AACCTAATTTAATTAAAAATCCT
1 -AACCCTAACCTAATTTAATTAAA----AACCCTAAACC---CTTAATTAAAAACCCT
*
34177005 AACCCTAATCTAATTTAATTAAAAACCCTAAACCCTTAATT--AAA----
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCT
* ** **
34177049 AACCCTAACCTAATTTAATTGAAAACCCT-AA-CC-TAATTTAATTA--GA
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACCCT
* * * *
34177095 AACCCTAACCTAATTTAATCAAAAACCTTAACCCCAACCTAATTTAATTAAA----
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-ACC--CTTAA-TTAA--AAACCCT
* * * ****
34177147 AACCCTAAACC---CTTAATTAAAAACCCT-AACCC-TAACCTAATTTAATTAA
1 AACCCT-AACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAA--AAACCCT
34177196 AACCCTAACCTAA-TTAACTT-AAAACCCT-AA-CCTTAACTTAAAAACCCT
1 AACCCTAACCTAATTTAA-TTAAAAACCCTAAACCCTTAA-TTAAAAACCCT
*
34177244 AACCTTAACCTAATTTAATTAAAAACCCT-AACCCTTAACTTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACCCT
* * *
34177294 AACCTTAACCTAAATTAATTAAAAACCCT-AACCTAATTTAATTAAAAA-CCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACCCT
34177345 AACCCTAACCT
1 AACCCTAACCT
34177356 TAACGTAATG
Statistics
Matches: 526, Mismatches: 60, Indels: 131
0.73 0.08 0.18
Matches are distributed among these distances:
41 7 0.01
42 7 0.01
43 2 0.00
44 33 0.06
45 27 0.05
46 31 0.06
47 1 0.00
48 31 0.06
49 42 0.08
50 187 0.36
51 18 0.03
52 97 0.18
53 29 0.06
54 5 0.01
55 2 0.00
56 7 0.01
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (50 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCT
Found at i:34176792 original size:102 final size:102
Alignment explanation
Indices: 34176654--34177355 Score: 520
Period size: 102 Copynumber: 7.1 Consensus size: 102
34176644 TTTAATTAAA
* * *
34176654 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTGAAAACCCTAACTCTAACCTAATT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCCTTAATTAAAAACCCTAACCCTAACCTAATT
34176719 TAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
66 TAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
* *
34176756 AGCCCTAATCTAATTTAATTAAAAACCCTAACCCCTTAATTAAAAACCCTAACCCTAACCTAATT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCCTTAATTAAAAACCCTAACCCTAACCTAATT
*
34176821 TAATTAAAAACCCTAACCTAATTTAATTAAAAGCCCT
66 TAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
34176858 AA-CC---CC----TTAACTTAAAAACCCTAACCTTAACC-TAATTTAATTAAA----AACCCTA
1 AACCCTAACCTAATTTAA-TTAAAAACCCTAACC----CCTTAA-TTAA--AAACCCTAACCCTA
* *
34176910 ACCTAATTTAATTGAAAACCCTAACCTAATTTAATTGAAAACCCT
58 ACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
** *
34176955 AAACCCT----TAA-TTAA--AAACCCTAACCCTAACCTAATTTAATTAAAAATCCTAACCCTAA
1 -AACCCTAACCTAATTTAATTAAA----AACCCTAACC--CCTTAATTAAAAACCCTAACCCTAA
* *
34177013 TCTAATTTAATTAAAAACCCTAAACC---CTTAATT--AAA----
59 CCTAATTTAATTAAAAACCCT-AACCTAATTTAATTAAAAACCCT
* ** * **
34177049 AACCCTAACCTAATTTAATTGAAAACCCTAACCTAATTTAATTAGAAACCCTAA-CCTAATTTAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACC--CCTTAATTAAAAACCCTAACCCTAACCTAA
* *
34177113 -TCAA--AAACCTTAACCCCAACCTAATTTAATTAAAAACCCT
64 TTTAATTAAA----AACCCTAACCTAATTTAATTAAAAACCCT
* * *
34177153 -A----AACC---CTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAA----AACCCTAACC
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCC---CTTAA-TTAA-AAACCCTAACCCTAACC
34177206 TAA-TTAACTT-AAAACCCTAACC----TTAACTTAAAAACCCT
61 TAATTTAA-TTAAAAACCCTAACCTAATTTAA-TTAAAAACCCT
* * *
34177244 AACCTTAACCTAATTTAATTAAAAACCCTAA-CCCTTAACTTAAAAACCCTAACCTTAACCTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCCTTAA-TTAAAAACCCTAACCCTAACCTAAT
34177308 TTAATTAAAAACCCTAACCTAATTTAATTAAAAA-CCT
65 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
34177345 AACCCTAACCT
1 AACCCTAACCT
34177356 TAACGTAATG
Statistics
Matches: 487, Mismatches: 41, Indels: 145
0.72 0.06 0.22
Matches are distributed among these distances:
90 4 0.01
91 11 0.02
92 4 0.01
93 6 0.01
94 18 0.04
95 38 0.08
96 67 0.14
97 55 0.11
98 46 0.09
99 47 0.10
100 16 0.03
101 25 0.05
102 141 0.29
103 9 0.02
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (102 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCCCTTAATTAAAAACCCTAACCCTAACCTAATT
TAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:34176796 original size:21 final size:21
Alignment explanation
Indices: 34176770--34176810 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
34176760 CTAATCTAAT
34176770 TTAATTAAAAACCCTAACCCC
1 TTAATTAAAAACCCTAACCCC
34176791 TTAATTAAAAACCCTAACCC
1 TTAATTAAAAACCCTAACCC
34176811 TAACCTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (21 bp):
TTAATTAAAAACCCTAACCCC
Found at i:34177163 original size:21 final size:20
Alignment explanation
Indices: 34177138--34177301 Score: 91
Period size: 21 Copynumber: 7.2 Consensus size: 20
34177128 CCAACCTAAT
34177138 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
34177159 TTAATTAAAAACCCTAACCC
1 TTAATTAAAAACCCTAACCC
*
34177179 TAACCTAATTTAATTAAAACCCTAACCTAA
1 T----TAA-TT-A--AAAACCCTAACC--C
34177209 TTAACTT-AAAACCCTAA-CC
1 TTAA-TTAAAAACCCTAACCC
34177228 TTAACTTAAAAACCCTAACCTTAACC
1 TTAA-TTAAAAACCCTAA-C----CC
34177254 TAATTTAATTAAAAACCCTAACCC
1 ----TTAATTAAAAACCCTAACCC
34177278 TTAACTTAAAAACCCTAA-CC
1 TTAA-TTAAAAACCCTAACCC
34177298 TTAA
1 TTAA
34177302 CCTAAATTAA
Statistics
Matches: 118, Mismatches: 3, Indels: 45
0.71 0.02 0.27
Matches are distributed among these distances:
19 7 0.06
20 26 0.22
21 29 0.25
22 10 0.08
24 5 0.04
25 2 0.02
26 8 0.07
28 13 0.11
29 13 0.11
30 5 0.04
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (20 bp):
TTAATTAAAAACCCTAACCC
Found at i:34177302 original size:20 final size:20
Alignment explanation
Indices: 34177194--34177307 Score: 95
Period size: 20 Copynumber: 5.1 Consensus size: 20
34177184 TAATTTAATT
34177194 AAAACCCTAACCTAATTAACTT-
1 AAAACCCTAACC---TTAACTTA
34177216 AAAACCCTAACCTTAACTTA
1 AAAACCCTAACCTTAACTTA
34177236 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAA-C--------TTA
34177265 AAAACCCTAACCCTTAACTTA
1 AAAACCCTAA-CCTTAACTTA
*
34177286 AAAACCCTAACCTTAACCTA
1 AAAACCCTAACCTTAACTTA
34177306 AA
1 AA
34177308 TTAATTAAAA
Statistics
Matches: 80, Mismatches: 1, Indels: 24
0.76 0.01 0.23
Matches are distributed among these distances:
19 7 0.09
20 27 0.34
21 14 0.17
22 12 0.15
29 14 0.17
30 6 0.08
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAACCCTAACCTTAACTTA
Found at i:34180791 original size:126 final size:125
Alignment explanation
Indices: 34180488--34180839 Score: 537
Period size: 126 Copynumber: 2.8 Consensus size: 125
34180478 CCCAAACATG
* * *
34180488 CTACTGTAACAAAAGCGCGTCCACGAGGACGCGATTTAACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
34180553 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* * *
34180612 CTACTGTAGCAAAAGCACG-CTGACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGACGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * *
34180676 CTAGAAGTGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-AATTATTTCTTACATGAC
* * *
34180738 CTACTATAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
34180803 TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
34180840 CTCGAAATTA
Statistics
Matches: 206, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
123 1 0.00
124 90 0.44
125 6 0.03
126 108 0.52
127 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:34181942 original size:26 final size:27
Alignment explanation
Indices: 34181891--34181942 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
34181881 TTATCACTTT
* *
34181891 ATTTTAAGATTTTACTTAATTGAATTA
1 ATTTTAAGATTTTACTAAATTAAATTA
34181918 ATTTTAAG-TTTTA-TAATATTAAATT
1 ATTTTAAGATTTTACTAA-ATTAAATT
34181943 TAATGAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 2 0.09
26 12 0.55
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (27 bp):
ATTTTAAGATTTTACTAAATTAAATTA
Found at i:34185309 original size:24 final size:24
Alignment explanation
Indices: 34185282--34185431 Score: 167
Period size: 24 Copynumber: 6.2 Consensus size: 24
34185272 TAGCCCGGCT
**
34185282 TTTGGTGCGGCAAGCACCCCTGCG
1 TTTGGTGCCACAAGCACCCCTGCG
* * * *
34185306 TTTGGCGCCTCAAGCACTCCAG-G
1 TTTGGTGCCACAAGCACCCCTGCG
34185329 TTTCGGTGCCACAAGCACCCCTGCG
1 TTT-GGTGCCACAAGCACCCCTGCG
* * *
34185354 TTTGGTGCCTCAAGTACCCCTGCT
1 TTTGGTGCCACAAGCACCCCTGCG
*
34185378 TTTGGTGCCACAAGCACCCCCGCG
1 TTTGGTGCCACAAGCACCCCTGCG
* * *
34185402 TTTGGTGCCACGAGCACCCCCGCA
1 TTTGGTGCCACAAGCACCCCTGCG
34185426 TTTGGT
1 TTTGGT
34185432 TCAACTGGAA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
23 4 0.04
24 98 0.92
25 4 0.04
ACGTcount: A:0.15, C:0.36, G:0.26, T:0.23
Consensus pattern (24 bp):
TTTGGTGCCACAAGCACCCCTGCG
Found at i:34185409 original size:72 final size:72
Alignment explanation
Indices: 34185282--34185431 Score: 185
Period size: 72 Copynumber: 2.1 Consensus size: 72
34185272 TAGCCCGGCT
* * *
34185282 TTTGGTGCGGCAAGCACCCCTGCGTTTGGCGCCTCAAGCACTCCAGGTTTCGGTGCCACAAGCAC
1 TTTGGTGCCGCAAGCACCCCTGCGTTTGGCGCCACAAGCACCCCAGGTTTCGGTGCCACAAGCAC
* *
34185347 CCCTGCG
66 CCCCGCA
* * * * * *
34185354 TTTGGTGCCTCAAGTACCCCTGCTTTTGGTGCCACAAGCACCCCCGCGTTT-GGTGCCACGAGCA
1 TTTGGTGCCGCAAGCACCCCTGCGTTTGGCGCCACAAGCACCCCAG-GTTTCGGTGCCACAAGCA
34185418 CCCCCGCA
65 CCCCCGCA
34185426 TTTGGT
1 TTTGGT
34185432 TCAACTGGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
72 62 0.94
73 4 0.06
ACGTcount: A:0.15, C:0.36, G:0.26, T:0.23
Consensus pattern (72 bp):
TTTGGTGCCGCAAGCACCCCTGCGTTTGGCGCCACAAGCACCCCAGGTTTCGGTGCCACAAGCAC
CCCCGCA
Found at i:34185571 original size:24 final size:23
Alignment explanation
Indices: 34185531--34185613 Score: 57
Period size: 24 Copynumber: 3.6 Consensus size: 23
34185521 ATCAAGCTCA
*
34185531 CCTGCATTTGGCA-CTTCCACAACT
1 CCTGCTTTTGG-AGCTT-CACAACT
*
34185555 CCTGCTTTTGGAGCTT--CAAGT
1 CCTGCTTTTGGAGCTTCACAACT
* * *
34185576 TCTGCTTTTGGGGGTTCA-AGCACT
1 CCTGCTTTTGGAGCTTCACA--ACT
34185600 CCTGCTTTTGGAGC
1 CCTGCTTTTGGAGC
34185614 ATCTTCTACT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
21 17 0.38
22 1 0.02
23 1 0.02
24 26 0.58
ACGTcount: A:0.14, C:0.28, G:0.23, T:0.35
Consensus pattern (23 bp):
CCTGCTTTTGGAGCTTCACAACT
Found at i:34185582 original size:21 final size:22
Alignment explanation
Indices: 34185553--34185613 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
34185543 ACTTCCACAA
34185553 CTCCTGCTTTTGGAGCTTCAAG
1 CTCCTGCTTTTGGAGCTTCAAG
* * *
34185575 -TTCTGCTTTTGGGGGTTCAAG
1 CTCCTGCTTTTGGAGCTTCAAG
34185596 CACTCCTGCTTTTGGAGC
1 --CTCCTGCTTTTGGAGC
34185614 ATCTTCTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 18 0.60
24 12 0.40
ACGTcount: A:0.11, C:0.25, G:0.26, T:0.38
Consensus pattern (22 bp):
CTCCTGCTTTTGGAGCTTCAAG
Found at i:34189499 original size:27 final size:27
Alignment explanation
Indices: 34189417--34189507 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 27
34189407 TAGGCCTGCC
* *
34189417 TATATTTTTAAATT-TTTTGAATATTTA
1 TATATTTTTAATTTATTTTAAAT-TTTA
34189444 TATTATTTTTAATTTAGTATTTAATAATTTTA
1 TA-TATTTTTAATTTA-T-TTT-A-AATTTTA
*
34189476 TATATTTTTCATTTATTTTAAATTTTA
1 TATATTTTTAATTTATTTTAAATTTTA
*
34189503 AATAT
1 TATAT
34189508 AGGCAATTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
27 13 0.24
28 12 0.22
29 3 0.06
30 2 0.04
31 15 0.28
32 6 0.11
33 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (27 bp):
TATATTTTTAATTTATTTTAAATTTTA
Found at i:34192644 original size:15 final size:15
Alignment explanation
Indices: 34192624--34192675 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
34192614 ACTACAAAAC
34192624 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
34192639 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
34192658 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
34192673 ATT
1 ATT
34192676 AAAATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:34192733 original size:15 final size:16
Alignment explanation
Indices: 34192713--34192743 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34192703 AATAAAATTA
34192713 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
34192728 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
34192744 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:34192794 original size:22 final size:22
Alignment explanation
Indices: 34192768--34192811 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
34192758 ATATTAAATA
34192768 ATTTATTAAAATAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
* *
34192790 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
34192812 TATATGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTATTAAAATAATAATTTAT
Found at i:34192809 original size:72 final size:76
Alignment explanation
Indices: 34192653--34192814 Score: 174
Period size: 72 Copynumber: 2.2 Consensus size: 76
34192643 ATAATTGTAA
* * * *
34192653 TAAATATTTATTATTAAAATATTAAAATTGAATATTTTCAATAATATGTGAATAAAATTATTTAA
1 TAAA-ATTTATTATTAAAATATTAAAATTGAATATATTAAATAATATATGAATAAAATAATTTAA
*
34192718 AATTATTATTTT
65 AATTATTATTAT
* * *
34192730 TAAAATTTATTATT-AAA-A-TAAAATTGAA-ATATTAAATAATTTATTAA-AATAATAATTTAT
1 TAAAATTTATTATTAAAATATTAAAATTGAATATATTAAATAATATATGAATAA-AATAATTTAA
*
34192790 ATTTATTA-TAT
65 AATTATTATTAT
34192801 TAATAATTTATTAT
1 TAA-AATTTATTAT
34192815 ATGACTAAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
71 7 0.09
72 39 0.53
73 10 0.14
74 1 0.01
75 3 0.04
76 10 0.14
77 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (76 bp):
TAAAATTTATTATTAAAATATTAAAATTGAATATATTAAATAATATATGAATAAAATAATTTAAA
ATTATTATTAT
Found at i:34193857 original size:228 final size:225
Alignment explanation
Indices: 34193448--34194149 Score: 609
Period size: 228 Copynumber: 3.1 Consensus size: 225
34193438 CAGTAAAACA
* * * *
34193448 AGTATTAGCGGCGTTTACTA-AAAGTGCCGCAAAATATGACAACCAAAACGCAGAGTTTGGTCTA
1 AGTATTAGCGGCGCTT-CTAGTAAGTGCCGCAAGATATGAC-ACCAAAACGCAGAGTTTGGTCTT
* * * *
34193512 GATGTATATTAGGATTAGTGGCGCTTACAGAAAAACGCCGCTAAAG-AGTACTATTAGCGGCGCG
64 GACGTATATTA-GATTAGTGGCGCTTTC-GAGAAACGCCGCTAAAGTA-TACTATTAGCGGCGCT
**** * ** * * *** *
34193576 CAAGTAGAAGCGCCGCTATATACCTTAATCA-AAACTCAGCGTTTTGGTCTTGATGTATAATATA
126 TTCTTAGAAGCGCCGCAATATATATTAA-CAGAAACGCTGCGTTTAAATCTTGATGTATAATAGA
* * *
34193640 ATTACTGGCGCTT-ATAATACAA-CACCGCTAAA-TAT
190 ATTACTGGCG-TTCACAAGA-AATCACCGCTAAACCAT
* *
34193675 CAGTATTAGCGGCGCTTCTAGTTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTAT
1 -AGTATTAGCGGCGCTTCTAG-TAAGTGCCGCAAGATATG-ACACCAAAACGCAGAGTTTGGTCT
* *
34193740 TGAGGTATATTAGATGTAGTGGCGCTTTCTG-GAAACGCCGCAAAAGTATACTATTAGCGGCGCT
63 TGACGTATATTAGAT-TAGTGGCGCTTTC-GAGAAACGCCGCTAAAGTATACTATTAGCGGCGCT
* * * *
34193804 TTCTTAGAAGCGCCGCAATATATATTAACAGAAACGCTGCGTTTAAATCTTGATATATACTGGAG
126 TTCTTAGAAGCGCCGCAATATATATTAACAGAAACGCTGCGTTTAAATCTTGATGTATAATAGAA
* * * *
34193869 TTAGTGGCGTTCACGAGAAATCGCCGTTAAACCAT
191 TTACTGGCGTTCACAAGAAATCACCGCTAAACCAT
* * * * *
34193904 ATTATTAGCGGCGCTTGCTAAG-AAGTGCCGCAAGATAT-ATTAACCTAAACGCTA-CGTTTAGA
1 AGTATTAGCGGCGCTT-CT-AGTAAGTGCCGCAAGATATGA--CACCAAAACGC-AGAGTTT-GG
* * *
34193966 TCTTGACGTATACTGGAATTAGTGGCG-TTTACGAGAAATCGCCGCTAAA-TCATATTATTAGCG
60 TCTTGACGTATATTAG-ATTAGTGGCGCTTT-CGAGAAA-CGCCGCTAAAGT-ATACTATTAGCG
* * * *
34194029 GCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAACGTTGCGTTTAAATCTTGATGTATAC
121 GCGCTTTCTTAGAAGCGCCGCAATATATATTAACAGAAACGCTGCGTTTAAATCTTGATGTATAA
* * * * * *
34194094 TGGAATTAGTGGCGTTCACGAGAAATCGCCGTTAAATCAT
186 TAGAATTACTGGCGTTCACAAGAAATCACCGCTAAACCAT
* *
34194134 ATTATTAGCGACGCTT
1 AGTATTAGCGGCGCTT
34194150 ATTTGTTAGC
Statistics
Matches: 399, Mismatches: 55, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
226 1 0.00
227 9 0.02
228 157 0.39
229 92 0.23
230 140 0.35
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (225 bp):
AGTATTAGCGGCGCTTCTAGTAAGTGCCGCAAGATATGACACCAAAACGCAGAGTTTGGTCTTGA
CGTATATTAGATTAGTGGCGCTTTCGAGAAACGCCGCTAAAGTATACTATTAGCGGCGCTTTCTT
AGAAGCGCCGCAATATATATTAACAGAAACGCTGCGTTTAAATCTTGATGTATAATAGAATTACT
GGCGTTCACAAGAAATCACCGCTAAACCAT
Found at i:34193917 original size:115 final size:115
Alignment explanation
Indices: 34193791--34194149 Score: 574
Period size: 115 Copynumber: 3.1 Consensus size: 115
34193781 AAAAGTATAC
* *
34193791 TATTAGCGGCGCTTTCTTAGAAGCGCCGCAATATATATTAACAGAAACGCTGCGTTTAAATCTTG
1 TATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTG
* * *
34193856 ATATATACTGGAGTTAGTGGCGTTCACGAGAAATCGCCGTTAAACCATAT
66 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGTTAAATCATAT
* * * * * *
34193906 TATTAGCGGCGCTTGCTAAGAAGTGCCGCAAGATATATTAACCTAAACGCTACGTTTAGATCTTG
1 TATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTG
* * *
34193971 ACGTATACTGGAATTAGTGGCGTTTACGAGAAATCGCCGCTAAATCATAT
66 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGTTAAATCATAT
*
34194021 TATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAACGTTGCGTTTAAATCTTG
1 TATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTG
34194086 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGTTAAATCATAT
66 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGTTAAATCATAT
*
34194136 TATTAGCGACGCTT
1 TATTAGCGGCGCTT
34194150 ATTTGTTAGC
Statistics
Matches: 219, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
115 219 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (115 bp):
TATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTG
ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGTTAAATCATAT
Found at i:34194527 original size:7 final size:7
Alignment explanation
Indices: 34194512--34194566 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
34194502 GGGTTATGGT
*
34194512 GTTTTGG
1 GTTTAGG
34194519 GTTTAGG
1 GTTTAGG
34194526 GTTTAGG
1 GTTTAGG
*
34194533 AGTTTGGG
1 -GTTTAGG
* *
34194541 GTGTAAG
1 GTTTAGG
34194548 GTTTAGG
1 GTTTAGG
*
34194555 GTTTGGG
1 GTTTAGG
34194562 GTTTA
1 GTTTA
34194567 AACTGCTTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:34194537 original size:22 final size:21
Alignment explanation
Indices: 34194512--34194567 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
34194502 GGGTTATGGT
* *
34194512 GTTTTGGGTTTAGGGTTTAGG
1 GTTTGGGGTTTAAGGTTTAGG
*
34194533 AGTTTGGGGTGTAAGGTTTAGG
1 -GTTTGGGGTTTAAGGTTTAGG
34194555 GTTTGGGGTTTAA
1 GTTTGGGGTTTAA
34194568 ACTGCTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (21 bp):
GTTTGGGGTTTAAGGTTTAGG
Found at i:34195771 original size:45 final size:45
Alignment explanation
Indices: 34195722--34195812 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
34195712 TGTTGTGTCC
* **
34195722 TTCTTGCCCAATTTCTTGAATTCCCAAATCTGTAAATCGCCTCCT
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCCT
* * *
34195767 TTCTTGCCTAATTTCTTGAAATCCGAAATCCCTAAATTGCCTCCT
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCCT
34195812 T
1 T
34195813 CCTCCTTTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.38
Consensus pattern (45 bp):
TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCCT
Found at i:34197966 original size:78 final size:78
Alignment explanation
Indices: 34197840--34197984 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 78
34197830 GACCACATTT
* * *
34197840 GAGGTTCAAAGGAAATATGAAGAACTTCACCAACAACTTAAAGCAGATGCGGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTACACCAACAACTTAAAGAAGATGCGGCAGCGAGAGAAGC
34197905 AGCGATAGAAACA
66 AGCGATAGAAACA
* * * *
34197918 GAGGTTCAAAAGAAATATGAAGAACTACAGCTACGACTTCAAA-AAGATGCGGCATCGAGAGAAG
1 GAGGTTCAAAAGAAATATGAAGAACTACACCAACAACTT-AAAGAAGATGCGGCAGCGAGAGAAG
34197982 CAG
65 CAG
34197985 AGCAAAACAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 56 0.95
79 3 0.05
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (78 bp):
GAGGTTCAAAAGAAATATGAAGAACTACACCAACAACTTAAAGAAGATGCGGCAGCGAGAGAAGC
AGCGATAGAAACA
Found at i:34198370 original size:43 final size:42
Alignment explanation
Indices: 34198323--34198409 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 42
34198313 CATATCAAAC
*
34198323 AGTGGCGTTTGTGAAATAAGCGCCGCTAAAGAACA-CTACTTTT
1 AGTGGCGTTTGTG-AACAAGCGCCGCTAAAGAACATC-ACTTTT
* *
34198366 AGTGGCGTTTTTGAACAAGCGCCGCTATAGAACATCACTTTT
1 AGTGGCGTTTGTGAACAAGCGCCGCTAAAGAACATCACTTTT
34198408 AG
1 AG
34198410 AGGCATTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 27 0.68
43 13 0.32
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (42 bp):
AGTGGCGTTTGTGAACAAGCGCCGCTAAAGAACATCACTTTT
Found at i:34198398 original size:42 final size:43
Alignment explanation
Indices: 34198323--34198460 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 43
34198313 CATATCAAAC
* *
34198323 AGTGGCGTTTGTGAAATAAGCGCCGCTAAAGAACA-CTACTTTT
1 AGTGGCGTTTTTGAAACAAGCGCCGCTAAAGAACATC-ACTTTT
*
34198366 AGTGGCGTTTTTG-AACAAGCGCCGCTATAGAACATCACTTTT
1 AGTGGCGTTTTTGAAACAAGCGCCGCTAAAGAACATCACTTTT
* * *** *
34198408 AGAGGCATTTTCTTCCA-AAGCGCCGCTAAAGAACATGA-TCTTT
1 AGTGGCGTTTT-TGAAACAAGCGCCGCTAAAGAACATCACT-TTT
*
34198451 AGCGGCGTTT
1 AGTGGCGTTT
34198461 ATTTCCTTAG
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
42 35 0.44
43 44 0.55
44 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (43 bp):
AGTGGCGTTTTTGAAACAAGCGCCGCTAAAGAACATCACTTTT
Found at i:34198441 original size:43 final size:42
Alignment explanation
Indices: 34198382--34198693 Score: 369
Period size: 43 Copynumber: 7.3 Consensus size: 42
34198372 GTTTTTGAAC
* * * * *
34198382 AAGCGCCGCTATAGAACATCA-CTTTTAGAGGCATTT-TCTTCCA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTAT-TT-CT
34198425 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTT-CT
* *
34198468 TAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCT
* * *
34198510 AACCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCT
* * *
34198552 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTA-TTTCT
* * *
34198595 TAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCT
* *
34198637 AAGCGCCGCTAAAGAACATGATCTTTAGGGGC-TTTTTTTCTGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC--T
*
34198680 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
34198694 TTTGCGACGT
Statistics
Matches: 241, Mismatches: 23, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
41 8 0.03
42 109 0.45
43 122 0.51
44 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCT
Found at i:34198452 original size:85 final size:84
Alignment explanation
Indices: 34198339--34198693 Score: 341
Period size: 85 Copynumber: 4.2 Consensus size: 84
34198329 GTTTGTGAAA
* ** *
34198339 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCGTTT-TTGAAC-AAGCGCCGCTATAGAACA
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTATT-TTCTAAGCGCCGCTAAAGAACA
*
34198400 TCA-CTTTTAGAGGCATTT-TCTTCC
63 T-ATC-TTTAGAGGCGTTTAT-TT-C
* * * *
34198424 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCACCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTTCTAAGCGCCGCTAAAGAACAT-A
*
34198489 TCTTTAGCGGCGTTTATTTC
65 TCTTTAGAGGCGTTTATTTC
* * * *
34198509 TAACCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTA-TTTCTAAGCGCCGCTAAAGAACATGG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTTCTAAGCGCCGCTAAAGAACAT-A
* *
34198573 TCTTTAGTGGCGTTTATTTTT
65 TCTTTAGAGGCGTTTA-TTTC
* *
34198594 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTT-TTTTCTAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTTCTAAGCGCCGCTAAAGAACAT-A
* *
34198658 TCTTTAGGGGC-TTTTTTTC
65 TCTTTAGAGGCGTTTATTTC
*
34198677 TGTAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
34198694 TTTGCGACGT
Statistics
Matches: 229, Mismatches: 31, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
83 3 0.01
84 41 0.18
85 150 0.66
86 33 0.14
87 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTTCTAAGCGCCGCTAAAGAACATAT
CTTTAGAGGCGTTTATTTC
Found at i:34198535 original size:42 final size:42
Alignment explanation
Indices: 34198339--34198693 Score: 373
Period size: 42 Copynumber: 8.4 Consensus size: 42
34198329 GTTTGTGAAA
* *
34198339 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCGTTT-TTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTATT--TC
* * * *
34198382 -AAGCGCCGCTATAGAACATCA-CTTTTAGAGGCATTT-TCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTAT-TT-C
*
34198424 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTT-C
* *
34198467 TTAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
* * *
34198509 TAACCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
* * *
34198551 TAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTA-TTTC
* * *
34198594 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
* *
34198636 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGC-TTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
*
34198677 TGTAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
34198694 TTTGCGACGT
Statistics
Matches: 276, Mismatches: 27, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
41 9 0.03
42 142 0.51
43 123 0.45
44 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
Found at i:34198604 original size:127 final size:127
Alignment explanation
Indices: 34198425--34198693 Score: 405
Period size: 127 Copynumber: 2.1 Consensus size: 127
34198415 TTTTCTTCCA
34198425 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCACCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCACCGCTAAAGAACATGAT
* * *
34198490 CTTTAGCGGCGTTTATTTCTAACCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTC-T
66 CTTTAGCGGCATTTATTTCTAACCGCCGCTAAAGAACATGATCTTTAGGGGC-TTTATTTCGT
* * ** *
34198552 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTTTTTAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCACCGCTAAAGAACATGAT
* * *
34198617 CTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGGGGCTTTTTTTCTGT
66 CTTTAGCGGCATTTATTTCTAACCGCCGCTAAAGAACATGATCTTTAGGGGCTTTATTTC-GT
*
34198680 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
34198694 TTTGCGACGT
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
126 7 0.05
127 107 0.84
128 14 0.11
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (127 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCACCGCTAAAGAACATGAT
CTTTAGCGGCATTTATTTCTAACCGCCGCTAAAGAACATGATCTTTAGGGGCTTTATTTCGT
Found at i:34204394 original size:65 final size:65
Alignment explanation
Indices: 34204315--34204437 Score: 210
Period size: 65 Copynumber: 1.9 Consensus size: 65
34204305 AAAATAATAA
*
34204315 ATAATTTATTAAGAAATTAAAAATAAGACTATAAATATATATGTAAAAAATATTTAAATGTATAT
1 ATAATTTATCAAGAAATTAAAAATAAGACTATAAATATATATGTAAAAAATATTTAAATGTATAT
* * *
34204380 ATAATTTATCAAGAAATTAAAAATTAGATTATAAATATATATGTGAAAAATATTTAAA
1 ATAATTTATCAAGAAATTAAAAATAAGACTATAAATATATATGTAAAAAATATTTAAA
34204438 AACATCGATA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.37
Consensus pattern (65 bp):
ATAATTTATCAAGAAATTAAAAATAAGACTATAAATATATATGTAAAAAATATTTAAATGTATAT
Found at i:34204925 original size:29 final size:29
Alignment explanation
Indices: 34204904--34204963 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
34204894 TTATTTATAT
34204904 TTAATAATATAATAAATTATTAATTTAAA
1 TTAATAATATAATAAATTATTAATTTAAA
* * *
34204933 TTATTATTTTAATAAATTATTTAATATTAAA
1 TTAATAATATAATAAATTA-TTAAT-TTAAA
34204964 ATTTTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.62
30 5 0.19
31 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TTAATAATATAATAAATTATTAATTTAAA
Found at i:34204948 original size:16 final size:15
Alignment explanation
Indices: 34204908--34204953 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
34204898 TTATATTTAA
34204908 TAATATAATAAATTAT
1 TAAT-TAATAAATTAT
34204924 TAATT--TAAATTAT
1 TAATTAATAAATTAT
*
34204937 TATTTTAATAAATTAT
1 TA-ATTAATAAATTAT
34204953 T
1 T
34204954 TAATATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
15 1 0.04
16 13 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTAATAAATTAT
Found at i:34204983 original size:18 final size:18
Alignment explanation
Indices: 34204962--34205003 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
34204952 TTTAATATTA
*
34204962 AAATTTTATATAAATAAT
1 AAATTTTACATAAATAAT
*
34204980 AAA-TTTACATTAATAAT
1 AAATTTTACATAAATAAT
34204997 -AATTTTA
1 AAATTTTA
34205004 AAATTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 16 0.76
18 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTTTACATAAATAAT
Found at i:34207064 original size:17 final size:18
Alignment explanation
Indices: 34207039--34207079 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
34207029 GGCATTAACC
*
34207039 TTATCAAAGAT-CAAACA
1 TTATAAAAGATACAAACA
*
34207056 TTATAAAAGATACAACCA
1 TTATAAAAGATACAAACA
34207074 -TATAAA
1 TTATAAA
34207080 CTTCTAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (18 bp):
TTATAAAAGATACAAACA
Found at i:34214520 original size:41 final size:41
Alignment explanation
Indices: 34214310--34214507 Score: 220
Period size: 41 Copynumber: 4.8 Consensus size: 41
34214300 ATTTAAACAG
* * * ** *
34214310 ATTCACTGGCACTTCA-CCTGATAGACTTATAGTCTAATTCC
1 ATTCACCGGCACTT-AGCCTGCTAGACGTATAGTCCGATTCA
* * * *
34214351 GTTCACCGGCACTTAGCCTGCTAGGCCTATAG-CCTGATTTA
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-GATTCA
* * * *
34214392 GTTCACCGGCACTTAGCCTGCTGGACATATAATCCGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCA
* *
34214433 ATTCACCGGCACTTAGCCTTCTGGACGTATAGTCCGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCA
34214474 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
34214508 TGAACAATTT
Statistics
Matches: 134, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.01
41 130 0.97
42 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCA
Found at i:34219796 original size:19 final size:19
Alignment explanation
Indices: 34219774--34219816 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
34219764 TTTGAATATT
* *
34219774 AAAAAAGTG-GAAAAATAG
1 AAAAAAATGAGAAAAAAAG
*
34219792 AAAAATATGAGAAAAAAAG
1 AAAAAAATGAGAAAAAAAG
34219811 AAAAAA
1 AAAAAA
34219817 GATTCTGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.09
Consensus pattern (19 bp):
AAAAAAATGAGAAAAAAAG
Found at i:34225642 original size:42 final size:41
Alignment explanation
Indices: 34225568--34225759 Score: 201
Period size: 42 Copynumber: 4.6 Consensus size: 41
34225558 CTAGCACCAC
** *
34225568 AGTGCATCATTGGATAAACCGAAG-GAAATATACTGGCACATA
1 AGTGCATCATCAGCTAAA-CGAAGCG-AATATACTGGCACATA
* *
34225610 AGTGCATCATCAGAC-AAGTCGAGGC-AATTATACTGGCACATA
1 AGTGCATCATCAG-CTAA-ACGAAGCGAA-TATACTGGCACATA
* *
34225652 AGTGCATCATTAGCTAAAACAAAGCGAATATACTGGCACATA
1 AGTGCATCATCAGCT-AAACGAAGCGAATATACTGGCACATA
* * *
34225694 AGTTCATCATCAGCTAAACTGAAGCGAATATATTGGTACATA
1 AGTGCATCATCAGCTAAAC-GAAGCGAATATACTGGCACATA
34225736 AGTGCATCATCAGCTAAACTGAAG
1 AGTGCATCATCAGCTAAAC-GAAG
34225760 TATAAAGCCG
Statistics
Matches: 127, Mismatches: 15, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
41 7 0.06
42 116 0.91
43 4 0.03
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (41 bp):
AGTGCATCATCAGCTAAACGAAGCGAATATACTGGCACATA
Found at i:34229454 original size:8 final size:8
Alignment explanation
Indices: 34229441--34229473 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
34229431 AAATTTAACA
34229441 AAGAAAAG
1 AAGAAAAG
34229449 AAGAAAA-
1 AAGAAAAG
*
34229456 AAGTAAAG
1 AAGAAAAG
34229464 AAGAAAAG
1 AAGAAAAG
34229472 AA
1 AA
34229474 AAAGATAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (8 bp):
AAGAAAAG
Found at i:34229463 original size:15 final size:15
Alignment explanation
Indices: 34229440--34229470 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34229430 CAAATTTAAC
34229440 AAAGAAAAGAAGAAA
1 AAAGAAAAGAAGAAA
*
34229455 AAAGTAAAGAAGAAA
1 AAAGAAAAGAAGAAA
34229470 A
1 A
34229471 GAAAAAGATA
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:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAAGAAAAGAAGAAA
Found at i:34240594 original size:15 final size:15
Alignment explanation
Indices: 34240574--34240602 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34240564 ATGCTTCACA
34240574 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
34240589 CACCGTGTTATCAA
1 CACCGTGTTATCAA
34240603 GCAACAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:34242938 original size:20 final size:21
Alignment explanation
Indices: 34242909--34242948 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
34242899 TTTAAAATTA
34242909 ATTTTCCAGAATATT-TTTAT
1 ATTTTCCAGAATATTGTTTAT
* *
34242929 ATTTTTCAGATTATTGTTTA
1 ATTTTCCAGAATATTGTTTA
34242949 ATCGATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTTTCCAGAATATTGTTTAT
Found at i:34244700 original size:62 final size:59
Alignment explanation
Indices: 34244627--34244743 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 59
34244617 AGTGATTATC
* * * * *
34244627 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTAAATCTAATATTTATC-T-TA-ATAAACATTATATTAATTTAATAAGAT
*
34244689 TTAATATTAAATTAAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCTTAATAAACATTATATTAATTTAATA
34244744 CTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
60 2 0.04
61 1 0.02
62 26 0.53
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTAAATCTAATATTTATCTTAATAAACATTATATTAATTTAATAAGAT
Found at i:34244726 original size:21 final size:20
Alignment explanation
Indices: 34244701--34244743 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
34244691 AATATTAAAT
* *
34244701 TAAATCTAATATTTATCTTAA
1 TAAATATAATATTAAT-TTAA
*
34244722 TAAATATTATATTAATTTAA
1 TAAATATAATATTAATTTAA
34244742 TA
1 TA
34244744 CTAAAGTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAATATAATATTAATTTAA
Found at i:34249245 original size:17 final size:17
Alignment explanation
Indices: 34249223--34249256 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34249213 CACTAACATG
* *
34249223 AAAATGTAATGACAATA
1 AAAATGCAATCACAATA
34249240 AAAATGCAATCACAATA
1 AAAATGCAATCACAATA
34249257 TATATTTATC
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:0.59, C:0.12, G:0.09, T:0.21
Consensus pattern (17 bp):
AAAATGCAATCACAATA
Found at i:34249720 original size:18 final size:17
Alignment explanation
Indices: 34249688--34249723 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
34249678 CTTCTTTTTC
34249688 CTTCTTATTTTCAGCAA
1 CTTCTTATTTTCAGCAA
*
34249705 CTTCTTCTTCTTCAGCAA
1 CTTCTTATT-TTCAGCAA
34249723 C
1 C
34249724 AACTTCCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (17 bp):
CTTCTTATTTTCAGCAA
Found at i:34249728 original size:21 final size:21
Alignment explanation
Indices: 34249702--34249755 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
34249692 TTATTTTCAG
*
34249702 CAACTTCTTCTTCTTCAGCAA
1 CAACTTCTTCTTCTGCAGCAA
* * *
34249723 CAACTTCCTCTTCTGCAGGAG
1 CAACTTCTTCTTCTGCAGCAA
34249744 CAACTTTCTTCT
1 CAAC-TTCTTCT
34249756 CAACAACAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.37
Consensus pattern (21 bp):
CAACTTCTTCTTCTGCAGCAA
Found at i:34249729 original size:18 final size:18
Alignment explanation
Indices: 34249697--34249735 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
34249687 CCTTCTTATT
** *
34249697 TTCAGCAACTTCTTCTTC
1 TTCAGCAACAACTTCCTC
34249715 TTCAGCAACAACTTCCTC
1 TTCAGCAACAACTTCCTC
34249733 TTC
1 TTC
34249736 TGCAGGAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (18 bp):
TTCAGCAACAACTTCCTC
Found at i:34255875 original size:21 final size:21
Alignment explanation
Indices: 34255851--34255890 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34255841 TGTGGATGCA
34255851 TCTGAT-TGTGTTGATTGTACT
1 TCTGATAT-TGTTGATTGTACT
*
34255872 TCTGCTATTGTTGATTGTA
1 TCTGATATTGTTGATTGTA
34255891 GTTCCCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.15, C:0.10, G:0.23, T:0.53
Consensus pattern (21 bp):
TCTGATATTGTTGATTGTACT
Found at i:34264582 original size:41 final size:40
Alignment explanation
Indices: 34264520--34264664 Score: 146
Period size: 41 Copynumber: 3.5 Consensus size: 40
34264510 GGTTTTGAAT
* *
34264520 CTAGCAGGCTTCGAGCTAGTGTATGAAATCAGGCCTTCAGC
1 CTAGCAGGCTTCGTGC-AGTGTATGAAATCAGGCCTTAAGC
* *
34264561 CTAGCAAGCTTCGTGTCAGTGTATGGAATCAGGCCTTAAGC
1 CTAGCAGGCTTCGTG-CAGTGTATGAAATCAGGCCTTAAGC
* * * * **
34264602 CTATCAGGCTTTGTGCCGGTGTATGAAATCAGACCTTGGGC
1 CTAGCAGGCTTCGTG-CAGTGTATGAAATCAGGCCTTAAGC
* *
34264643 GTAGTAGGCTTCGTGCCAGTGT
1 CTAGCAGGCTTCGTG-CAGTGT
34264665 TGTGAATCAG
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 84 0.99
42 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTCGTGCAGTGTATGAAATCAGGCCTTAAGC
Found at i:34268448 original size:13 final size:13
Alignment explanation
Indices: 34268426--34268467 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
34268416 TGAGTTTGGG
* *
34268426 GTTTAAGGTTTGA
1 GTTTAGGGTTTTA
34268439 GTTTAGGGTTTTA
1 GTTTAGGGTTTTA
*
34268452 G-CTAGGGTTTTA
1 GTTTAGGGTTTTA
34268464 GTTT
1 GTTT
34268468 CGAAATTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (13 bp):
GTTTAGGGTTTTA
Found at i:34268650 original size:21 final size:20
Alignment explanation
Indices: 34268598--34268650 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
34268588 CCCAAAATAT
**
34268598 GGTTTAGGTTTATGGTTTAG
1 GGTTTAGGTTTAAAGTTTAG
*
34268618 GGTTTACAGTTTAAAGTTTAG
1 GGTTTA-GGTTTAAAGTTTAG
*
34268639 AGTTTTAGGTTT
1 -GGTTTAGGTTT
34268651 GGGGTTTAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 6 0.23
21 15 0.58
22 5 0.19
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (20 bp):
GGTTTAGGTTTAAAGTTTAG
Found at i:34269269 original size:115 final size:115
Alignment explanation
Indices: 34269118--34269356 Score: 372
Period size: 115 Copynumber: 2.1 Consensus size: 115
34269108 GGCGCTTCAG
* *** * *
34269118 AAAAACGCCGCTAAAGGTCATATATTACCGACGTTTTGTGAAGAAACGCCGCAAATTTCCTTTAA
1 AAAAACGCCGCTAAAAGTCATATATTACCGACGTTTTACAAAGAAACGCCACAAATTGCCTTTAA
34269183 CTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATT-T
66 CTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
* **
34269232 AAAAAACGCCGCTAAAAGTGATATATTACCGGTGTTTTACAAAGAAACGCCACAAATTGCCTTTA
1 -AAAAACGCCGCTAAAAGTCATATATTACCGACGTTTTACAAAGAAACGCCACAAATTGCCTTTA
*
34269297 ATTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
65 ACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
34269348 AAAAACGCC
1 AAAAACGCC
34269357 ACAAATTCGC
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
115 112 0.99
116 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (115 bp):
AAAAACGCCGCTAAAAGTCATATATTACCGACGTTTTACAAAGAAACGCCACAAATTGCCTTTAA
CTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
Done.