Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015250.1 Kokia drynarioides strain JFW-HI SEQ_130295, whole genome shotgun sequence
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: 371457
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 332 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:259 original size:24 final size:24
Alignment explanation
Indices: 221--278 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
211 GTGGCTTTTA
*
221 TTTTTTA-TGTTTTTCCCCTTCTTT
1 TTTTTTATTGTTTCT-CCCTTCTTT
*
245 GTTTTTTATTGTTTCTGCCTTCTTT
1 -TTTTTTATTGTTTCTCCCTTCTTT
*
270 TCTTTTATT
1 TTTTTTATT
279 TGGTTTGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 8 0.28
25 15 0.52
26 6 0.21
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.71
Consensus pattern (24 bp):
TTTTTTATTGTTTCTCCCTTCTTT
Found at i:2310 original size:2 final size:2
Alignment explanation
Indices: 2303--2331 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2293 TTAAACCCTA
2303 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2332 TGGAGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3141 original size:12 final size:12
Alignment explanation
Indices: 3124--3155 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
3114 CTTATTACAT
3124 ATTTTAACCAGA
1 ATTTTAACCAGA
3136 ATTTTAACCAGA
1 ATTTTAACCAGA
3148 ATTTTAAC
1 ATTTTAAC
3156 ATCATTACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (12 bp):
ATTTTAACCAGA
Found at i:5284 original size:23 final size:23
Alignment explanation
Indices: 5252--5401 Score: 80
Period size: 23 Copynumber: 6.4 Consensus size: 23
5242 ACGCTAGCGC
5252 GCTTACTGTTTCGCA-CTTCGTGT
1 GCTTACTGTTTCGCACCTT-GTGT
*
5275 GCTTATTGTTTCGCACCTTGTGT
1 GCTTACTGTTTCGCACCTTGTGT
* ** *
5298 GCCTACTGATTT-GC-GTTATGTGC
1 GCTTACTG-TTTCGCACCT-TGTGT
*
5321 GCTTACTGATT-GCA-CTATGTGT
1 GCTTACTGTTTCGCACCT-TGTGT
* * *
5343 GCCTACTGAATT-GCA-TTGTGTGT
1 GCTTACTG-TTTCGCACCT-TGTGT
*
5366 GCTTACTGTTTCCCCAGCACTTGTGT
1 GCTTACTGTTT-CGCA-C-CTTGTGT
5392 GCTTACTGTT
1 GCTTACTGTT
5402 AAGTACTTCG
Statistics
Matches: 100, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
22 20 0.20
23 56 0.56
24 8 0.08
26 15 0.15
27 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.42
Consensus pattern (23 bp):
GCTTACTGTTTCGCACCTTGTGT
Found at i:5339 original size:22 final size:23
Alignment explanation
Indices: 5293--5373 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 23
5283 TTTCGCACCT
* * **
5293 TGTGTGCCTACTGATTTGCGTTA
1 TGTGTGCTTACTGAATTGCACTA
*
5316 TGTGCGCTTACTG-ATTGCACTA
1 TGTGTGCTTACTGAATTGCACTA
* * *
5338 TGTGTGCCTACTGAATTGCATTG
1 TGTGTGCTTACTGAATTGCACTA
5361 TGTGTGCTTACTG
1 TGTGTGCTTACTG
5374 TTTCCCCAGC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
22 17 0.36
23 30 0.64
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.41
Consensus pattern (23 bp):
TGTGTGCTTACTGAATTGCACTA
Found at i:6855 original size:20 final size:21
Alignment explanation
Indices: 6820--6861 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6810 GCTTTGTGAA
* *
6820 AGTTTTGTATAAAAAAACATT
1 AGTTTTGTAAAAAAAAAAATT
6841 AGTTTTG-AAAAAAAAAAATT
1 AGTTTTGTAAAAAAAAAAATT
6861 A
1 A
6862 ACTCATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (21 bp):
AGTTTTGTAAAAAAAAAAATT
Found at i:10167 original size:31 final size:30
Alignment explanation
Indices: 10132--10215 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 30
10122 ATATTTGGAG
10132 TTTAACTAAAACTTTTAAAAATTTT-ATAGGA
1 TTTAA-TAAAA-TTTTAAAAATTTTGATAGGA
* *
10163 TTTAATGAGAATGTTAAAAATTTTTGATAGGA
1 TTTAAT-AAAATTTTAAAAA-TTTTGATAGGA
10195 -TTAATTAAAATTTTCAAAAAT
1 TTTAA-TAAAATTTT-AAAAAT
10216 GATAAAGGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
30 9 0.20
31 23 0.52
32 12 0.27
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.42
Consensus pattern (30 bp):
TTTAATAAAATTTTAAAAATTTTGATAGGA
Found at i:11580 original size:33 final size:33
Alignment explanation
Indices: 11538--11604 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
11528 AGAAGGAAGT
11538 TAGCTGCTGGCTCTGTGAAAACAACCTCACGCG
1 TAGCTGCTGGCTCTGTGAAAACAACCTCACGCG
*
11571 TAGCTGCTGGCTCTGTGAAAACAACCTCATGCG
1 TAGCTGCTGGCTCTGTGAAAACAACCTCACGCG
11604 T
1 T
11605 TGCCTTCCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (33 bp):
TAGCTGCTGGCTCTGTGAAAACAACCTCACGCG
Found at i:28465 original size:18 final size:16
Alignment explanation
Indices: 28433--28495 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
28423 GATAAAATTG
28433 AAAAAGAAAGAAAATA
1 AAAAAGAAAGAAAATA
28449 AAAAAGCAAAGGAAAAT-
1 AAAAAG-AAA-GAAAATA
* *
28466 ATAAAGAAA-AAATTGA
1 AAAAAGAAAGAAAAT-A
*
28482 AAAAATAAAGAAAA
1 AAAAAGAAAGAAAA
28496 GGAAGCGCGT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
14 4 0.11
16 16 0.43
17 11 0.30
18 6 0.16
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.10
Consensus pattern (16 bp):
AAAAAGAAAGAAAATA
Found at i:30365 original size:21 final size:17
Alignment explanation
Indices: 30328--30377 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
30318 TCATTTAAAA
30328 TATAAT-AAAATATAATTT
1 TATAATAAAAATATAA--T
30346 TATAATAAAAATATAGAAT
1 TATAATAAAAATAT--AAT
30365 TAT-ATAAAAATAT
1 TATAATAAAAATAT
30378 TAATATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 16 0.55
19 11 0.38
21 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TATAATAAAAATATAAT
Found at i:30385 original size:19 final size:19
Alignment explanation
Indices: 30328--30385 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
30318 TCATTTAAAA
*
30328 TATAAT-AAAATATAATTT
1 TATAATAAAAATATAATAT
30346 TATAATAAAAATATAGA-AT
1 TATAATAAAAATATA-ATAT
30365 TAT-ATAAAAATATTAATAT
1 TATAATAAAAATA-TAATAT
30384 TA
1 TA
30386 ATATTTGAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 16 0.46
19 18 0.51
20 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAATAAAAATATAATAT
Found at i:37252 original size:3 final size:3
Alignment explanation
Indices: 37244--37281 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
37234 AGAATCCTTT
37244 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37282 TTAATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:41566 original size:21 final size:22
Alignment explanation
Indices: 41505--41566 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
41495 TTAAGGTTAA
41505 TAATATATATTAAGAACAATAATG
1 TAATATATATTAA-AA-AATAATG
* * * *
41529 TAATTTATAATATAAAAT-ATT
1 TAATATATATTAAAAAATAATG
41550 TAATATATATTAAAAAA
1 TAATATATATTAAAAAA
41567 ATAAAGTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 16 0.52
22 3 0.10
23 2 0.06
24 10 0.32
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (22 bp):
TAATATATATTAAAAAATAATG
Found at i:46145 original size:15 final size:15
Alignment explanation
Indices: 46125--46158 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
46115 TTAGTTATCG
*
46125 TCTTCGTCTTCATCA
1 TCTTCGTCATCATCA
*
46140 TCTTCGTCATCTTCA
1 TCTTCGTCATCATCA
46155 TCTT
1 TCTT
46159 TTCCCTGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.32, G:0.06, T:0.50
Consensus pattern (15 bp):
TCTTCGTCATCATCA
Found at i:52017 original size:18 final size:17
Alignment explanation
Indices: 51977--52011 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
51967 AACATTTTCC
51977 TTTAATTAAATTAGAAAT
1 TTTAATT-AATTAGAAAT
51995 TTTAATTAATTA-AAAT
1 TTTAATTAATTAGAAAT
52011 T
1 T
52012 ATTTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAATTAATTAGAAAT
Found at i:57949 original size:8 final size:9
Alignment explanation
Indices: 57933--58133 Score: 59
Period size: 10 Copynumber: 21.2 Consensus size: 9
57923 TTTTAATACG
57933 ATAATTTTT
1 ATAATTTTT
57942 ATAATTTTT
1 ATAATTTTT
* *
57951 TTACGAATTTT
1 ATA--ATTTTT
*
57962 AT-ATTTCT
1 ATAATTTTT
*
57970 ATATTTTCTT
1 ATAATTT-TT
*
57980 ATGA-TTTT
1 ATAATTTTT
57988 ATAATTTTTT
1 ATAA-TTTTT
57998 ATAATTTTTT
1 ATAA-TTTTT
* *
58008 CTATATTTCT
1 ATA-ATTTTT
**
58018 ATATATTCCT
1 ATA-ATTTTT
*
58028 ATAAATTTT
1 ATAATTTTT
58037 ATAATATTTT
1 ATAAT-TTTT
* *
58047 TTATTTTTT
1 ATAATTTTT
*
58056 CT-ATTTTT
1 ATAATTTTT
*
58064 AATAAATTTT
1 -ATAATTTTT
58074 A-AATATTTT
1 ATAAT-TTTT
* *
58083 CTATTTTTTT
1 ATA-ATTTTT
* *
58093 ATTAAAATTTA
1 A-T-AATTTTT
*
58104 ATAACTTTT
1 ATAATTTTT
*
58113 ATAAATTTT
1 ATAATTTTT
*
58122 ATTGATTTTT
1 A-TAATTTTT
58132 AT
1 AT
58134 TTTTATCATT
Statistics
Matches: 140, Mismatches: 36, Indels: 32
0.67 0.17 0.15
Matches are distributed among these distances:
8 18 0.13
9 49 0.35
10 59 0.42
11 13 0.09
12 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:57990 original size:18 final size:17
Alignment explanation
Indices: 57958--58005 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 17
57948 TTTTTACGAA
57958 TTTTATATTTCTAT-ATT
1 TTTTATATTT-TATAATT
57975 TTCTTATGATTTTATAATT
1 TT-TTAT-ATTTTATAATT
57994 TTTTATAATTTT
1 TTTTAT-ATTTT
58006 TTCTATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 16 0.59
19 9 0.33
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTATAATT
Found at i:57994 original size:27 final size:29
Alignment explanation
Indices: 57933--58005 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
57923 TTTTAATACG
* *
57933 ATAATTTTTATAATTTTTTTACGAATTTT
1 ATAATTTCTATAATTTTCTTACGAATTTT
*
57962 AT-ATTTCTAT-ATTTTCTTATG-ATTTT
1 ATAATTTCTATAATTTTCTTACGAATTTT
*
57988 ATAATTTTTTATAATTTT
1 ATAA-TTTCTATAATTTT
58006 TTCTATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 7 0.19
27 10 0.27
28 13 0.35
29 7 0.19
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (29 bp):
ATAATTTCTATAATTTTCTTACGAATTTT
Found at i:58015 original size:40 final size:41
Alignment explanation
Indices: 57965--58091 Score: 114
Period size: 40 Copynumber: 3.3 Consensus size: 41
57955 GAATTTTATA
* *
57965 TTTCTATATTTTCT-TATGATT-TTATAATTTTTTATAAT-TT
1 TTTCTATATTTTCTATAT-ATTCCTATAA-ATTTTATAATATT
58005 TTTCTATA-TTTCTATATATTCCTATAAATTTTATAATATT
1 TTTCTATATTTTCTATATATTCCTATAAATTTTATAATATT
*
58045 TTT-TATTTTTTCTAT-T-TT--TAATAAATTTTA-AATA-T
1 TTTCTATATTTTCTATATATTCCT-ATAAATTTTATAATATT
*
58080 TTTCTATTTTTT
1 TTTCTATATTTT
58092 TATTAAAATT
Statistics
Matches: 78, Mismatches: 3, Indels: 16
0.80 0.03 0.16
Matches are distributed among these distances:
35 4 0.05
36 13 0.17
37 10 0.13
38 2 0.03
39 21 0.27
40 28 0.36
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (41 bp):
TTTCTATATTTTCTATATATTCCTATAAATTTTATAATATT
Found at i:58053 original size:48 final size:48
Alignment explanation
Indices: 57961--58059 Score: 139
Period size: 48 Copynumber: 2.1 Consensus size: 48
57951 TTACGAATTT
* * *
57961 TATATTTCTATATTTTCTTATGATTTTATAATTTTTTATAATTTTTTC
1 TATATTTCTATATATTCCTATAATTTTATAATTTTTTATAATTTTTTC
58009 TATATTTCTATATATTCCTATAAATTTTATAATATTTTT-T-ATTTTTTC
1 TATATTTCTATATATTCCTAT-AATTTTATAAT-TTTTTATAATTTTTTC
58057 TAT
1 TAT
58060 TTTTAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
48 30 0.65
49 11 0.24
50 5 0.11
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (48 bp):
TATATTTCTATATATTCCTATAATTTTATAATTTTTTATAATTTTTTC
Found at i:60088 original size:23 final size:23
Alignment explanation
Indices: 59960--60079 Score: 120
Period size: 23 Copynumber: 5.1 Consensus size: 23
59950 GAACACTAGC
*
59960 GTGCTCTCT-ATTTAGCAC-GTCT
1 GTGCTCTCTGA-TTAGCACTGTGT
*
59982 CGTGCTCTCTGTTATTAGCACGGTGT
1 -GTGCTCTCTG--ATTAGCACTGTGT
*
60008 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTGTGT
*
60031 GTGCTCTCTGATTAGTACAT-TGT
1 GTGCTCTCTGATTAGCAC-TGTGT
* *
60054 GTACTCTCTGTTTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTGTGT
60077 GTG
1 GTG
60080 TTATCTGTTA
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
22 1 0.01
23 60 0.72
24 1 0.01
25 17 0.20
26 4 0.05
ACGTcount: A:0.13, C:0.22, G:0.23, T:0.42
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTGTGT
Found at i:66718 original size:51 final size:50
Alignment explanation
Indices: 66619--66723 Score: 115
Period size: 51 Copynumber: 2.1 Consensus size: 50
66609 ATCAAGACCG
* * * *
66619 AATTGACATAACGTGTAAATATTGTAGTCTAAATTTATTAAATTAAAATCA
1 AATTGACAAAACGTGTAAACATTGTAGGCTAAATTTATT-AATTAAAATAA
*
66670 AATTGACAAAATGTGTAAACATTG-AGGGCTAAATTTATT-ATTACAAAATAA
1 AATTGACAAAACGTGTAAACATTGTA-GGCTAAATTTATTAATT--AAAATAA
66721 AAT
1 AAT
66724 ATATATAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
49 3 0.07
50 1 0.02
51 42 0.91
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (50 bp):
AATTGACAAAACGTGTAAACATTGTAGGCTAAATTTATTAATTAAAATAA
Found at i:70761 original size:16 final size:15
Alignment explanation
Indices: 70728--70765 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
70718 AATGCCCAAA
70728 ATAAATTATAAAAAT
1 ATAAATTATAAAAAT
70743 ATAAA-TATAAAAAAGT
1 ATAAATTAT-AAAAA-T
70759 ATAAATT
1 ATAAATT
70766 TAACTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.15
15 10 0.50
16 6 0.30
17 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
ATAAATTATAAAAAT
Found at i:77198 original size:23 final size:24
Alignment explanation
Indices: 77132--77282 Score: 97
Period size: 23 Copynumber: 6.4 Consensus size: 24
77122 ACGCTAGCGC
77132 GCTTACTG-TTCAGCAC-TGTGTGT
1 GCTTACTGTTTC-GCACATGTGTGT
*
77155 GCTTACTGTTTCGCAC-TTTGTGT
1 GCTTACTGTTTCGCACATGTGTGT
*
77178 GCTTACTGTTTCGCACAT-TGTAT
1 GCTTACTGTTTCGCACATGTGTGT
* * *
77201 G-TCTACTGATTT-GCGC-TATGTGC
1 GCT-TACTG-TTTCGCACATGTGTGT
* *
77224 GCATACTGGATT-GCA-ATGTGTGT
1 GCTTACT-GTTTCGCACATGTGTGT
*
77247 GCTTACTGTTTCCCCAGCACT-TGTGT
1 GCTTACTGTTT-CGCA-CA-TGTGTGT
77273 GCTTACTGTT
1 GCTTACTGTT
77283 AAGTACTTCG
Statistics
Matches: 102, Mismatches: 13, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
22 5 0.05
23 70 0.69
24 10 0.10
26 16 0.16
27 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.23, T:0.41
Consensus pattern (24 bp):
GCTTACTGTTTCGCACATGTGTGT
Found at i:80420 original size:8 final size:8
Alignment explanation
Indices: 80407--80433 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
80397 GTTATTCCAC
80407 TTTTAAAA
1 TTTTAAAA
80415 TTTTAAAA
1 TTTTAAAA
80423 TTTTAAAA
1 TTTTAAAA
80431 TTT
1 TTT
80434 CAATTATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTTAAAA
Found at i:81601 original size:8 final size:8
Alignment explanation
Indices: 81579--81612 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
81569 CAACTGGATA
*
81579 TTTCTCTT
1 TTTCTTTT
81587 TTT-TTTT
1 TTTCTTTT
81594 TTTCTTTT
1 TTTCTTTT
81602 TTTCTTTT
1 TTTCTTTT
81610 TTT
1 TTT
81613 ACGTTACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTCTTTT
Found at i:81603 original size:15 final size:16
Alignment explanation
Indices: 81579--81612 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
81569 CAACTGGATA
81579 TTTCTCTTTTT-TTTT
1 TTTCTCTTTTTCTTTT
*
81594 TTTCTTTTTTTCTTTT
1 TTTCTCTTTTTCTTTT
81610 TTT
1 TTT
81613 ACGTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTCTCTTTTTCTTTT
Found at i:85070 original size:3 final size:3
Alignment explanation
Indices: 85062--85092 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
85052 CGAACATTAC
*
85062 AGA AGA AGA AGA AGA AGA AGG AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
85093 ACAGGACCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:85546 original size:12 final size:12
Alignment explanation
Indices: 85525--85559 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
85515 TCCCTACCAA
85525 GACCAAGACCGT
1 GACCAAGACCGT
*
85537 GACCATGACCGT
1 GACCAAGACCGT
*
85549 GACCACGACCG
1 GACCAAGACCG
85560 ACCCTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.37, G:0.26, T:0.09
Consensus pattern (12 bp):
GACCAAGACCGT
Found at i:87669 original size:63 final size:63
Alignment explanation
Indices: 87587--87886 Score: 247
Period size: 63 Copynumber: 4.9 Consensus size: 63
87577 TGAAGTGCAG
* * * *
87587 GCTCCTGTTGAGGAATCGCGGAAGGTCCCGGTGCTGTTATGTTGTAATGTATGGTAAGAGGTT
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCCGGTGCTGCTATGCTGTAATGTATGGTCAGAGGTT
* * * * ** * *
87650 GGTCCTGTTGAGGAGTCGCGGAAGGTCCTGATGCTGCTACGCTGTAATGCGTGGCCTGAGGTT
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCCGGTGCTGCTATGCTGTAATGTATGGTCAGAGGTT
* * * * *
87713 GTTCCTGTTGAGGAGTTGCTGAAGGTCCCAGTGCTGCTATACTGTAATGTATGGTCAGAGGTT
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCCGGTGCTGCTATGCTGTAATGTATGGTCAGAGGTT
* * * * * * *
87776 GCT-CTGGTTGAGGAG-CTGTGGAAGGTGCC-G-G-AGCTACGCTGTAATGTATGGACTGCGGTT
1 GCTCCT-GTTGAGGAGTC-GCGGAAGGTCCCGGTGCTGCTATGCTGTAATGTATGGTCAGAGGTT
* * * * * * *
87836 GCTCGTGTTGATGAGTCACTGAAGGACCC---GCTGCTATACTGTAATGAATGG
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCCGGTGCTGCTATGCTGTAATGTATGG
87887 CCCGAGGTCG
Statistics
Matches: 186, Mismatches: 46, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
59 1 0.01
60 57 0.31
61 3 0.02
62 3 0.02
63 122 0.66
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.29
Consensus pattern (63 bp):
GCTCCTGTTGAGGAGTCGCGGAAGGTCCCGGTGCTGCTATGCTGTAATGTATGGTCAGAGGTT
Found at i:89839 original size:21 final size:20
Alignment explanation
Indices: 89815--89853 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
89805 ACAAACCCAT
* *
89815 TAATTAAATAGAATCAAAACA
1 TAATAAAATAAAAT-AAAACA
89836 TAATAAAATAAAATAAAA
1 TAATAAAATAAAATAAAA
89854 TTTTACCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (20 bp):
TAATAAAATAAAATAAAACA
Found at i:97113 original size:63 final size:63
Alignment explanation
Indices: 97014--97144 Score: 228
Period size: 63 Copynumber: 2.1 Consensus size: 63
97004 GTGCCTCCCA
97014 TTGAGGAGTCACAGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGTTGCTCCT-G
1 TTGAGGAGTCACAGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGTTGCT-CTGG
* *
97077 TTGAGGAGTCGCAGAAGGTCCTGGTGCTGCTATACTGTAATGTATGGTAAGAGGTTGCTCTGG
1 TTGAGGAGTCACAGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGTTGCTCTGG
97140 TTGAG
1 TTGAG
97145 CAACAGAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 2 0.03
63 63 0.97
ACGTcount: A:0.21, C:0.15, G:0.34, T:0.30
Consensus pattern (63 bp):
TTGAGGAGTCACAGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGTTGCTCTGG
Found at i:97248 original size:60 final size:59
Alignment explanation
Indices: 97014--97238 Score: 195
Period size: 63 Copynumber: 3.7 Consensus size: 59
97004 GTGCCTCCCA
* * *
97014 TTGAGGAGTCACAGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGTTGCTCCTG
1 TTGAGGAGT-GCAGAAGGTCCC---GCTGCTATACTGTAATGTACGGCAAGAGGTTGCTCCTG
* * *
97077 TTGAGGAGTCGCAGAAGGTCCTGGTGCTGCTATACTGTAATGTATGGTAAGAGGTTGCT-CTGG
1 TTGAGGAGT-GCAGAAGGTCC---CGCTGCTATACTGTAATGTACGGCAAGAGGTTGCTCCT-G
* * ** * ** **
97140 TTGAGCA--ACAGAAAATCCCGATGCTACGCTGTAATGTACGGCCTGAGGTTGCTCCTG
1 TTGAGGAGTGCAGAAGGTCCCGCTGCTATACTGTAATGTACGGCAAGAGGTTGCTCCTG
*
97197 TTGAGGAGTTGCTGAAGGTCCCGCTGCTATACTGTAATGTAC
1 TTGAGGAG-TGCAGAAGGTCCCGCTGCTATACTGTAATGTAC
97239 AGCCCGAGGT
Statistics
Matches: 132, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
57 34 0.26
58 2 0.02
60 33 0.25
62 2 0.02
63 61 0.46
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (59 bp):
TTGAGGAGTGCAGAAGGTCCCGCTGCTATACTGTAATGTACGGCAAGAGGTTGCTCCTG
Found at i:100110 original size:31 final size:29
Alignment explanation
Indices: 100075--100155 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
100065 AATATCAAAA
100075 TTATACATGAATTTTAATTTAATGTGTAATT
1 TTATACATGAATTTTAATTT--TGTGTAATT
* * *
100106 TTATACATGTACTTTGATTTTGTGTAATT
1 TTATACATGAATTTTAATTTTGTGTAATT
100135 TTATACATGAAATTTTAATTT
1 TTATACATG-AATTTTAATTT
100156 GATCAAATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 18 0.42
30 8 0.19
31 17 0.40
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.53
Consensus pattern (29 bp):
TTATACATGAATTTTAATTTTGTGTAATT
Found at i:106850 original size:5 final size:5
Alignment explanation
Indices: 106840--106867 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
106830 ATGTTGGGTT
106840 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
106868 GAAGGTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:113855 original size:16 final size:18
Alignment explanation
Indices: 113834--113867 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
113824 TGACACCTAT
113834 GTATTTT-TTTA-ATACG
1 GTATTTTATTTATATACG
113850 GTATTTTATTTATATACG
1 GTATTTTATTTATATACG
113868 AAAATACGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (18 bp):
GTATTTTATTTATATACG
Found at i:114032 original size:60 final size:59
Alignment explanation
Indices: 113893--114302 Score: 409
Period size: 60 Copynumber: 6.9 Consensus size: 59
113883 TAAAAAAAAA
* * * *
113893 TTTG-GGTGTTGGCCATGCAATGACCGATACCCTTTTTTTGTTAGAT-AAAAAA-TACAATTTT
1 TTTGTGGTGTTGGCCATGCAATGGCCGACACCC-CTTTTT-TCAGATAAAAAAATTA-AA--TT
* * * * * * * *
113954 TTTTTTGTGTTGGCCATACAATGGCCGACACCTCTATTTATCTGATACAAAAATCAAATT
1 TTTGTGGTGTTGGCCATGCAATGGCCGACACCCCT-TTTTTCAGATAAAAAAATTAAATT
* * * * * * *
114014 TTTGTGGTGTTGGCCATACAATAGTCAACACCCCTATTTATCTGATAAAAAAATCAAATT
1 TTTGTGGTGTTGGCCATGCAATGGCCGACACCCCT-TTTTTCAGATAAAAAAATTAAATT
* **
114074 TTTGTGGTGTTGGCCATGCAATGACCGACACCCCCTTTTTTCAGATAAAAAAATTGCATT
1 TTTGTGGTGTTGGCCATGCAATGGCCGACA-CCCCTTTTTTCAGATAAAAAAATTAAATT
*
114134 TTT-TGGTGTTGGCCATGCAATGGCCGACATCCCTTTTTTCAGATAAAAAAATTTTAAATT
1 TTTGTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAA--TTAAATT
* ** * * *
114194 TTTTTGGTGTTGATCATGCAACGGTCGACACCCCTTTTTTCAGATAAAAAAATTACATT
1 TTTGTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATTAAATT
*
114253 TTTG-GGTGTTGGCCATGCAATGGCCAACACTCCC-TTTTTCAGATAAAAAA
1 TTTGTGGTGTTGGCCATGCAATGGCCGACAC-CCCTTTTTTCAGATAAAAAA
114303 TTTTCAAAAT
Statistics
Matches: 295, Mismatches: 45, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
58 58 0.20
59 37 0.13
60 110 0.37
61 56 0.19
62 33 0.11
63 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (59 bp):
TTTGTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATTAAATT
Found at i:114096 original size:120 final size:118
Alignment explanation
Indices: 113893--114322 Score: 422
Period size: 119 Copynumber: 3.6 Consensus size: 118
113883 TAAAAAAAAA
* * * * * * *
113893 TTTG-GGTGTTGGCCATGCAATGACCGATACCCTTTTTTTGTTAGAT-AAAAAATACAATTTTTT
1 TTTGTGGTGTTGGCCATGCAATGGCCAACACCC--CTTTT-TCAGATAAAAAAATTCAA-ATTTT
* * * * * * * * *
113956 TTTTGTGTTGGCCATACAATGGCCGACACCTCTATTTATCTGATACAAAAATCAAATT
62 TGTGGTGTTGGCCATGCAATGGCCGACACCCCT-TTTTTCAGATAAAAAAATTACATT
* * * *
114014 TTTGTGGTGTTGGCCATACAATAGTCAACACCCCTATTTATCTGATAAAAAAA-TCAAATTTTTG
1 TTTGTGGTGTTGGCCATGCAATGGCCAACACCCCT-TTT-TCAGATAAAAAAATTCAAATTTTTG
* *
114078 TGGTGTTGGCCATGCAATGACCGACACCCCCTTTTTTCAGATAAAAAAATTGCATT
64 TGGTGTTGGCCATGCAATGGCCGACA-CCCCTTTTTTCAGATAAAAAAATTACATT
* * * *
114134 TTT-TGGTGTTGGCCATGCAATGGCCGACATCCCTTTTTTCAGATAAAAAAATTTTAAATTTTTT
1 TTTGTGGTGTTGGCCATGCAATGGCCAACA-CCCCTTTTTCAGATAAAAAAA-TTCAAATTTTTG
** * *
114198 TGGTGTTGATCATGCAACGGTCGACACCCCTTTTTTCAGATAAAAAAATTACATT
64 TGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATTACATT
*
114253 TTTG-GGTGTTGGCCATGCAATGGCCAACACTCCCTTTTTCAGATAAAAAATTTTCAAAATTTTT
1 TTTGTGGTGTTGGCCATGCAATGGCCAACAC-CCCTTTTTCAGATAAAAAA-ATTC-AAATTTTT
114317 -TGGTGT
63 GTGGTGT
114323 CGGTTCAGAT
Statistics
Matches: 257, Mismatches: 41, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
118 13 0.05
119 106 0.41
120 92 0.36
121 18 0.07
122 28 0.11
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (118 bp):
TTTGTGGTGTTGGCCATGCAATGGCCAACACCCCTTTTTCAGATAAAAAAATTCAAATTTTTGTG
GTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATTACATT
Found at i:114253 original size:119 final size:119
Alignment explanation
Indices: 113952--114322 Score: 435
Period size: 119 Copynumber: 3.1 Consensus size: 119
113942 AAATACAATT
* * * * * * * *
113952 TTTTTTTTGTGTTGGCCATACAATGGCCGACACCTCTATTTATCTGATACAAAAATCAAATTTTT
1 TTTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCT-TTTTTCAGATAAAAAAATTACATTTTT
* * * * * * *
114017 GTGGTGTTGGCCATACAATAGTCAACACCCCTATTTATCTGATAAAAAAA--TCAAA
65 -TGGTGTTGGCCATGCAATGGCCAACATCCCT-TTTTTCAGATAAAAAAATTTTAAA
* * *
114072 TTTTTGTGGTGTTGGCCATGCAATGACCGACACCCCCTTTTTTCAGATAAAAAAATTGCATTTTT
1 TTTTTTTGGTGTTGGCCATGCAATGGCCGACA-CCCCTTTTTTCAGATAAAAAAATTACATTTTT
*
114137 TGGTGTTGGCCATGCAATGGCCGACATCCCTTTTTTCAGATAAAAAAATTTTAAA
65 TGGTGTTGGCCATGCAATGGCCAACATCCCTTTTTTCAGATAAAAAAATTTTAAA
** * * *
114192 TTTTTTTGGTGTTGATCATGCAACGGTCGACACCCCTTTTTTCAGATAAAAAAATTACATTTTTG
1 TTTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATTACATTTTTT
114257 GGTGTTGGCCATGCAATGGCCAACACTCCC-TTTTTCAGAT-AAAAAATTTTCAAA
66 GGTGTTGGCCATGCAATGGCCAACA-TCCCTTTTTTCAGATAAAAAAATTTT-AAA
*
114311 ATTTTTTGGTGT
1 TTTTTTTGGTGT
114323 CGGTTCAGAT
Statistics
Matches: 217, Mismatches: 29, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
118 25 0.12
119 105 0.48
120 83 0.38
121 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (119 bp):
TTTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATTACATTTTTT
GGTGTTGGCCATGCAATGGCCAACATCCCTTTTTTCAGATAAAAAAATTTTAAA
Found at i:114404 original size:88 final size:89
Alignment explanation
Indices: 114232--114412 Score: 233
Period size: 88 Copynumber: 2.0 Consensus size: 89
114222 CACCCCTTTT
114232 TTCAGATAAAAAAATTACATTTTTGGGTGTTGGCCATGCAATGGCCAACACTCCCTTTTTCAGAT
1 TTCAGATAAAAAAATTACATTTTTGGGTGTT---C-TGCAATGGCCAACACTCCCTTTTTCAGAT
**
114297 AAAAAATTTTCAAAATTTTTTGGTGTCGG
62 AAAAAAACTTCAAAATTTTTT-GTGTCGG
* *
114326 TTCAGATAAAAAAATTACATTTTTTGGTG-T-TGCAATGGCCGACAC-CCCTTTTCTCAGATAAA
1 TTCAGATAAAAAAATTACATTTTTGGGTGTTCTGCAATGGCCAACACTCCCTTTT-TCAGATAAA
**
114388 AAAACTTCAATTTTTTTTGTGTCGG
65 AAAACTTCAAAATTTTTTGTGTCGG
114413 CCATACAATG
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
87 14 0.17
88 37 0.46
93 1 0.01
94 28 0.35
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (89 bp):
TTCAGATAAAAAAATTACATTTTTGGGTGTTCTGCAATGGCCAACACTCCCTTTTTCAGATAAAA
AAACTTCAAAATTTTTTGTGTCGG
Found at i:114558 original size:106 final size:106
Alignment explanation
Indices: 114355--114568 Score: 272
Period size: 107 Copynumber: 2.0 Consensus size: 106
114345 TTTTTTGGTG
114355 TTGCAATGGCCGACACCCCTTTTCTCAGATAAAAAAACTTCAATTTTTTTTGTGTCGGCCATACA
1 TTGCAATGGCCGACACCCCTTTTCTCAGATAAAAAAACTTCAATTTTTTTTGTGTCGGCCATACA
*
114420 ATGACCGACACCCCCATTTCTCAGATAGAAAAATTTCAAATTT
66 ATGACCGACACCCCCATTTATCAGATAGAAAAA-TT-AAATTT
* ** * *
114463 TTGC-ATGGCCGACACCCCTTTTTTCAGATAAAAAAA-TTGTATTTTTTTTGTGTTGGCCATGCA
1 TTGCAATGGCCGACACCCCTTTTCTCAGATAAAAAAACTTCAATTTTTTTTGTGTCGGCCATACA
* ** ** *
114526 ATGGCCGACACCTCCTTTTTATTTGGTA-AAAAATTAAATTT
66 ATGACCGACACC-CCCATTTATCAGATAGAAAAATTAAATTT
114567 TT
1 TT
114569 TAGTATTGGC
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
104 8 0.09
105 2 0.02
106 39 0.42
107 40 0.43
108 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (106 bp):
TTGCAATGGCCGACACCCCTTTTCTCAGATAAAAAAACTTCAATTTTTTTTGTGTCGGCCATACA
ATGACCGACACCCCCATTTATCAGATAGAAAAATTAAATTT
Found at i:115461 original size:30 final size:30
Alignment explanation
Indices: 115404--115494 Score: 121
Period size: 30 Copynumber: 3.1 Consensus size: 30
115394 TAATAATTAG
*
115404 AATATACAGGAAATTAGAAA-AAAATTTAA
1 AATATACAGGAAATTAGAAATTAAATTTAA
*
115433 TATATACAGGAAATTAGAAATTAAATTTAA
1 AATATACAGGAAATTAGAAATTAAATTTAA
* * * *
115463 AATAAAAACGAAATTACAAATTAAATTTAA
1 AATATACAGGAAATTAGAAATTAAATTTAA
115493 AA
1 AA
115495 AGTAAACGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 19 0.35
30 35 0.65
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.27
Consensus pattern (30 bp):
AATATACAGGAAATTAGAAATTAAATTTAA
Found at i:117763 original size:22 final size:22
Alignment explanation
Indices: 117714--117769 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
117704 TTGAGGTGTT
* *
117714 GGTGAGCTGGAATTTCAGTTTT
1 GGTGAGCTGGAATATCAGTTTA
* *
117736 GCTGAGCTGGAATATCGGTTTA
1 GGTGAGCTGGAATATCAGTTTA
*
117758 GGTGAGTTGGAA
1 GGTGAGCTGGAA
117770 ATTGGATGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.21, C:0.09, G:0.36, T:0.34
Consensus pattern (22 bp):
GGTGAGCTGGAATATCAGTTTA
Found at i:117890 original size:17 final size:17
Alignment explanation
Indices: 117864--117897 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
117854 ATAAATTTAA
*
117864 AATATGATAAAAATTGT
1 AATATAATAAAAATTGT
*
117881 AATATAATAATAATTGT
1 AATATAATAAAAATTGT
117898 TGATTTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
AATATAATAAAAATTGT
Found at i:118280 original size:85 final size:84
Alignment explanation
Indices: 117868--118844 Score: 1392
Period size: 85 Copynumber: 11.5 Consensus size: 84
117858 ATTTAAAATA
* *
117868 TGATAAAAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATGTATT
1 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGTATT
117933 GTCAAAT-AACACATTATT
66 GTCAAATCAACACATTATT
117951 TGAT-AAAATTGTAATATAATAATAATATTTTTTATTTAAATATTTAAAATTAATAAATAATGTA
1 TGATAAAAATTGTAATATAATAAT-A-ATTTTTTATTTAAATATTTAAAATTAATAAATAATGTA
*
118015 TTGTCAAATCAACACATTATA
64 TTGTCAAATCAACACATTATT
* *
118036 TGATAAAAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATGTATT
1 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGTATT
*
118101 GTCAAATCAACATATTATT
66 GTCAAATCAACACATTATT
* * * *
118120 TAATAAAAATTGTAATATAATAATAATATTTTTTATTTAAATATTTAAATTTAGTAAATAATTTA
1 TGATAAAAATTGTAATATAATAAT-A-ATTTTTTATTTAAATATTTAAAATTAATAAATAATGTA
*
118185 TTGTCAAATCAACATATTATT
64 TTGTCAAATCAACACATTATT
* *
118206 TGATAAAAAATTGTAATATAATAATAATTGTTAATTTAAATATTTAAAATTAATAAATAATGTAT
1 TGAT-AAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGTAT
118271 TGTCAAATCAACACATTATT
65 TGTCAAATCAACACATTATT
* * * * *
118291 TGATAAAAATTGTAATCTAATAATAA-TATTT-TTTAAATATTTAAATTTAGTAAATAATATATT
1 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGTATT
118354 GTCAAATCAACACATTATT
66 GTCAAATCAACACATTATT
* * *
118373 TGATAAAAATTGTAATATAATAATAATAATCTTTTTATTTAAATATTTAAATTTAGTAAATAATA
1 TGATAAAAATTGT-A-AT-ATAATAATAAT-TTTTTATTTAAATATTTAAAATTAATAAATAATG
118438 TATTGTCAAATCAACACATTATT
62 TATTGTCAAATCAACACATTATT
* *
118461 TGATAAAAATTGTAATATAATATTAATCTTTTTTATTTAAATATTTAAAATTAATAAATAATGTG
1 TGATAAAAATTGTAATATAATAATAA--TTTTTTATTTAAATATTTAAAATTAATAAATAATGTA
*
118526 TTGTCAATTCAACACATTATT
64 TTGTCAAATCAACACATTATT
*
118547 TGATAAAAATTGTAATATAATAATAATATTTTTATTTAAATATTTAAAATTAATAAATAATATAT
1 TGATAAAAATTGTAATATAATAATAAT-TTTTTATTTAAATATTTAAAATTAATAAATAATGTAT
* *
118612 TGTCAATTCAACAGATTATT
65 TGTCAAATCAACACATTATT
* * * *
118632 TGATAAAAATTGTAATATAATAATAATATATTTT-TTAAAATATTTAAATTTAGTAAATAATATA
1 TGATAAAAATTGTAATATAATAATAAT-T-TTTTATTTAAATATTTAAAATTAATAAATAATGTA
118696 TTGTCAAATCAACACATTATT
64 TTGTCAAATCAACACATTATT
* * *
118717 TGATAAAAATTGTAATATAATAATAA-TTTATACTTTAAATA-TGAAAATTTGATAAATAATGTA
1 TGATAAAAATTGTAATATAATAATAATTTTTTA-TTTAAATATTTAAAA-TTAATAAATAATGTA
* **
118780 TTGTCAAATGAACACAACATT
64 TTGTCAAATCAACACATTATT
*
118801 TGATATAAATTGTAATATAATAATAATCTTTTTTTATTTAAATA
1 TGATAAAAATTGTAATATAATAATAA---TTTTTTATTTAAATA
118845 AAGTTGAATT
Statistics
Matches: 815, Mismatches: 55, Indels: 44
0.89 0.06 0.05
Matches are distributed among these distances:
82 83 0.10
83 14 0.02
84 209 0.26
85 246 0.30
86 160 0.20
87 34 0.04
88 69 0.08
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (84 bp):
TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGTATT
GTCAAATCAACACATTATT
Found at i:118495 original size:341 final size:336
Alignment explanation
Indices: 117868--118844 Score: 1485
Period size: 341 Copynumber: 2.9 Consensus size: 336
117858 ATTTAAAATA
*
117868 TGATAAAAATTGTAATATAATAATAATTGTTGATTTAAATATTTAAAATTAATAAATAATGTATT
1 TGATAAAAATTGTAATATAATAATAATTGTTAATTTAAATATTTAAAATTAATAAATAATGTATT
117933 GTCAAAT-AACACATTATTTGAT-AAAATTGTAATATAATAATAATATTTTTTATTTAAATATTT
66 GTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATA---TTT-TTTAAATATTT
* * * *
117996 AAAATTAATAAATAATGTATTGTCAAATCAACACATTATATGATAAAAATTGTAATATAATAATA
127 AAATTTAGTAAATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATA
* * * * * *
118061 ATTGTTGATTTAAATATTTAAAATTAATAAATAATGTATTGTCAAATCAACATATTATTTAATAA
192 ATTTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATAA
* * * *
118126 AAATTGTAATATAATAATAATATTTTTTATTTAAATATTTAAATTTAGTAAATAATTTATTGTCA
257 AAATTGTAATATAATAATAATCTTTTTTATTTAAATATTTAAAATTAATAAATAATGTATTGTCA
*
118191 AATCAACATATTATT
322 AATCAACACATTATT
118206 TGATAAAAAATTGTAATATAATAATAATTGTTAATTTAAATATTTAAAATTAATAAATAATGTAT
1 TGAT-AAAAATTGTAATATAATAATAATTGTTAATTTAAATATTTAAAATTAATAAATAATGTAT
*
118271 TGTCAAATCAACACATTATTTGATAAAAATTGTAATCTAATAATAATATTTTTTAAATATTTAAA
65 TGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATATTTTTTAAATATTTAAA
118336 TTTAGTAAATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATA
130 TTTAGTAAATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGT-A-AT-ATAATAATA
*
118401 ATCTTTTTATTTAAATATTTAAATTTAGTAAATAATATATTGTCAAATCAACACATTATTTGATA
192 AT-TTTTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATA
* *
118466 AAAATTGTAATATAATATTAATCTTTTTTATTTAAATATTTAAAATTAATAAATAATGTGTTGTC
256 AAAATTGTAATATAATAATAATCTTTTTTATTTAAATATTTAAAATTAATAAATAATGTATTGTC
*
118531 AATTCAACACATTATT
321 AAATCAACACATTATT
* * *
118547 TGATAAAAATTGTAATATAATAATAATATTTTTATTTAAATATTTAAAATTAATAAATAATATAT
1 TGATAAAAATTGTAATATAATAATAAT-TGTTAATTTAAATATTTAAAATTAATAAATAATGTAT
* *
118612 TGTCAATTCAACAGATTATTTGATAAAAATTGTAATATAATAATAATATATTTTTTAAAATATTT
65 TGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAAT-A-ATATTTTTT-AAATATTT
118677 AAATTTAGTAAATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATA
127 AAATTTAGTAAATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATA
* ** * **
118742 A-TTTATACTTTAAATATGAAAATTT-GATAAATAATGTATTGTCAAATGAACACAACATTTGAT
192 ATTTTTTA-TTTAAATATTTAAATTTAG-TAAATAATGTATTGTCAAATCAACACATTATTTGAT
*
118805 ATAAATTGTAATATAATAATAATCTTTTTTTATTTAAATA
255 AAAAATTGTAATATAATAATAATC-TTTTTTATTTAAATA
118845 AAGTTGAATT
Statistics
Matches: 589, Mismatches: 36, Indels: 25
0.91 0.06 0.04
Matches are distributed among these distances:
337 60 0.10
338 8 0.01
339 75 0.13
340 118 0.20
341 254 0.43
342 3 0.01
343 10 0.02
344 61 0.10
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (336 bp):
TGATAAAAATTGTAATATAATAATAATTGTTAATTTAAATATTTAAAATTAATAAATAATGTATT
GTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATATTTTTTAAATATTTAAAT
TTAGTAAATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATTT
TTTATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAAT
TGTAATATAATAATAATCTTTTTTATTTAAATATTTAAAATTAATAAATAATGTATTGTCAAATC
AACACATTATT
Found at i:119016 original size:29 final size:28
Alignment explanation
Indices: 118958--119016 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
118948 AAACATGTTC
**
118958 ATTAATTTTCAAATTAATTTCAACTTAA
1 ATTAATTTTCAAATTAATTTCAACACAA
**
118986 ATTAATTTTTCAAATTAATTTTTACACAA
1 ATTAA-TTTTCAAATTAATTTCAACACAA
119015 AT
1 AT
119017 ATTCTTCGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTAATTTTCAAATTAATTTCAACACAA
Found at i:121745 original size:22 final size:23
Alignment explanation
Indices: 121707--121765 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
121697 CACCTCGTGT
*
121707 GCCTACTGATTTGCGCTATGTGC
1 GCCTACTGAATTGCGCTATGTGC
* *
121730 GCCTACT-AATTGCGCTGTGTGT
1 GCCTACTGAATTGCGCTATGTGC
*
121752 GCCTACTGGATTGC
1 GCCTACTGAATTGC
121766 ACTGTGTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.14, C:0.25, G:0.27, T:0.34
Consensus pattern (23 bp):
GCCTACTGAATTGCGCTATGTGC
Found at i:121770 original size:23 final size:22
Alignment explanation
Indices: 121673--121781 Score: 94
Period size: 23 Copynumber: 4.8 Consensus size: 22
121663 TTACTGTTCA
*
121673 GCACTGTGTGTGCTTACTG-TT
1 GCACTGTGTGTGCCTACTGATT
**
121694 GCACACCTCGTGTGCCTACTGATTT
1 GCAC-TGT-GTGTGCCTACTGA-TT
* * * *
121719 GCGCTATGTGCGCCTACTAATT
1 GCACTGTGTGTGCCTACTGATT
*
121741 GCGCTGTGTGTGCCTACTGGATT
1 GCACTGTGTGTGCCTACT-GATT
*
121764 GCACTGTGTGTGCTTACT
1 GCACTGTGTGTGCCTACT
121782 ATTAAGTACT
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
21 4 0.06
22 19 0.27
23 41 0.59
24 1 0.01
25 5 0.07
ACGTcount: A:0.13, C:0.25, G:0.27, T:0.36
Consensus pattern (22 bp):
GCACTGTGTGTGCCTACTGATT
Found at i:124552 original size:23 final size:23
Alignment explanation
Indices: 124451--124554 Score: 111
Period size: 23 Copynumber: 4.4 Consensus size: 23
124441 ACACTAGCGC
*
124451 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
*
124474 GCTCTCTGTTATTAGCACTTTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
* * * *
124499 GCTCTCTGATTAGTATTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
124522 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
124545 GCTCTCTGTT
1 GCTCTCTGTT
124555 GCCCAGCACT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
23 47 0.70
24 1 0.01
25 17 0.25
26 2 0.03
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.46
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:124571 original size:71 final size:69
Alignment explanation
Indices: 124452--124601 Score: 196
Period size: 71 Copynumber: 2.1 Consensus size: 69
124442 CACTAGCGCG
** * *
124452 CTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTTTGTGTGCTCTCTGATTAGTATTT
1 CTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTACCAGCACTTTATGTGCTCTCT-ATTAGTACTT
124517 TGTGTA
65 TG-GTA
* *
124523 CTCTCTGTTTAGCACTGTGT-GTGCTCTCTGTTGCCCAGCAC-TTATGTGCTCTCTATTAGTACT
1 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGTT-ACCAGCACTTTATGTGCTCTCTATTAGTACT
124586 TTGGTA
64 TTGGTA
124592 CTCTCTGTTT
1 CTCTCTGTTT
124602 GTTCCGTATA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
69 13 0.18
70 11 0.15
71 39 0.55
72 8 0.11
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (69 bp):
CTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTACCAGCACTTTATGTGCTCTCTATTAGTACTTT
GGTA
Found at i:127953 original size:61 final size:61
Alignment explanation
Indices: 127816--128285 Score: 419
Period size: 61 Copynumber: 7.8 Consensus size: 61
127806 AGAGAAAGTT
* * * * * ** * *
127816 GGTGTTGGTCATTACATGGTCAACACCAAAAAATTT--AA-TTTTTTACCAAATAAAAAAGG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTGA-GAAAAGGG
* * *
127875 GGTGTCGACCATTGCATGACCAACACCAAAAAATTTGAAATTTTTTTATCTGAGAAAAGAG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTGAGAAAAGGG
* * * * * *
127936 AGCGTCGGCAATTGCATGGCCAACACAAAAAAAAATTGAAA-TTTTTTATTTGAGAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACAC-CAAAAAATTTGAAATTTTTTTATCTGAGAAAAGGG
***
127997 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCTGA-AAAAAAA
1 GGTGTCGGCCATTGCATGGCCAACACC-AAAAAATTTGAAATTTTTTTATCTGAGAAAAGGG
* * * *
128058 GGTGTCGGCTATTGCATGGCCAACACCAAAAAA--TGTAATTTTTTTATTTGAAAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTGAGAAAAGGG
* * ** * * *
128117 GGTGTCGACCATTGCATGGCTAACATAAAAAAAAATTAAAAATTTTTTATCTGAGAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACA-CCAAAAAATTTGAAATTTTTTTATCTGAGAAAAGGG
* * ** *
128179 GGTGTCGACCATTGAATGGCCAACACCCCAAAATTTG--ATTTTTTTA--TGAGATAAATAGG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTGAGA-AAA-GGG
* * *
128238 GGTGTCAGCCATTGTATGGTCAACACCCAAAAAA-TTG--ATTTTTTTATC
1 GGTGTCGGCCATTGCATGGCCAACA-CCAAAAAATTTGAAATTTTTTTATC
128286 AGATTAAAGG
Statistics
Matches: 334, Mismatches: 62, Indels: 28
0.79 0.15 0.07
Matches are distributed among these distances:
57 5 0.01
58 19 0.06
59 99 0.30
60 18 0.05
61 117 0.35
62 76 0.23
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (61 bp):
GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTGAGAAAAGGG
Found at i:128000 original size:122 final size:119
Alignment explanation
Indices: 127867--128285 Score: 429
Period size: 120 Copynumber: 3.5 Consensus size: 119
127857 TTTACCAAAT
*
127867 AAAAAA-GGGGTGTCGACCATTGCATGACCAACACCAAAAAATTTGAAATTTTTTTATCTGAGAA
1 AAAAAAGGGGGTGTCGACCATTGCATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTGAGAA
*
127931 AAGAGAGCGTCGGCAATTGCATGGCCAACACAAAAAAAAAT-TGAAATTTTTTATTTG
66 AAGAG-GTGTCGGCAATTGCATGGCCAACAC--AAAAAAATGT-AAATTTTTTATTTG
* * *
127988 AGAAAAGGGGGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCTGAAA
1 AAAAAAGGGGGTGTCGACCATTGCATGGCCAACACC-AAAAAATTTGAAATTTTTTTATCTGAGA
* * * *
128053 AAAAAGGTGTCGGCTATTGCATGGCCAACACCAAAAAATGTAATTTTTTTATTTG
65 AAAGAGGTGTCGGCAATTGCATGGCCAACACAAAAAAATGTAAATTTTTTATTTG
* ** * * *
128108 AAAAAAGGGGGTGTCGACCATTGCATGGCTAACATAAAAAAAAATTAAAAATTTTTTATCTGAGA
1 AAAAAAGGGGGTGTCGACCATTGCATGGCCAACA-CCAAAAAATTTGAAATTTTTTTATCTGAGA
* * * * *** * * * **
128173 AAAGGGGGTGTCGACCATTGAATGGCCAACACCCCAAAATTTGATTTTTTTATGAG
65 AAA-GAGGTGTCGGCAATTGCATGGCCAACACAAAAAAATGTAAATTTTTTATTTG
* * *
128229 ATAAATA-GGGGTGTC-AGCCATTGTATGGTCAACACCCAAAAAA-TTG--ATTTTTTTATC
1 A-AAAAAGGGGGTGTCGA-CCATTGCATGGCCAACA-CCAAAAAATTTGAAATTTTTTTATC
128286 AGATTAAAGG
Statistics
Matches: 253, Mismatches: 38, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
118 10 0.04
120 81 0.32
121 76 0.30
122 54 0.21
123 32 0.13
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (119 bp):
AAAAAAGGGGGTGTCGACCATTGCATGGCCAACACCAAAAAATTTGAAATTTTTTTATCTGAGAA
AAGAGGTGTCGGCAATTGCATGGCCAACACAAAAAAATGTAAATTTTTTATTTG
Found at i:128240 original size:121 final size:118
Alignment explanation
Indices: 127868--128285 Score: 425
Period size: 121 Copynumber: 3.5 Consensus size: 118
127858 TTACCAAATA
* *
127868 AAAAAGGGGTGTCGACCATTGCATGACCAACACCAAAAAATTTGAAATTTTTTTATCTGAGAAAA
1 AAAAAGGGGTGTCGACCATTGCATGGCCAACACAAAAAAATTTGAAATTTTTTTATCTGAGAAAA
* * * * *
127933 GAGAGCGTCGGCAATTGCATGGCCAACACAAAAAAAAATTGAAATTTTTTATTTGAG
66 GAGGGTGTCGGCAATTGCATGGCCAACAC-CAAAAAATTTG--ATTTTTT-TATGAG
* *
127990 AAAAGGGGGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCTGA-AAA
1 AAAAAGGGGTGTCGACCATTGCATGGCCAACA-CAAAAAAATTTGAAATTTTTTTATCTGAGAAA
* * * * *
128054 AAAAGGTGTCGGCTATTGCATGGCCAACACCAAAAAATGTAATTTTTTTATTTGA-
65 AGAGGGTGTCGGCAATTGCATGGCCAACACCAAAAAATTTGATTTTTTTA--TGAG
* * * * *
128109 AAAAAGGGGGTGTCGACCATTGCATGGCTAACATAAAAAAAAATTAAAAATTTTTTATCTGAGAA
1 AAAAA-GGGGTGTCGACCATTGCATGGCCAACA-CAAAAAAATTTGAAATTTTTTTATCTGAGAA
* * * * **
128174 AAGGGGGTGTCGACCATTGAATGGCCAACACCCCAAAATTTGATTTTTTTATGAG
64 AAGAGGGTGTCGGCAATTGCATGGCCAACACCAAAAAATTTGATTTTTTTATGAG
* * *
128229 ATAAATAGGGGTGTC-AGCCATTGTATGGTCAACACCCAAAAAA-TTG--ATTTTTTTATC
1 A-AAA-AGGGGTGTCGA-CCATTGCATGGCCAACA-CAAAAAAATTTGAAATTTTTTTATC
128286 AGATTAAAGG
Statistics
Matches: 247, Mismatches: 40, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
118 11 0.04
119 14 0.06
120 56 0.23
121 81 0.33
122 58 0.23
123 27 0.11
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (118 bp):
AAAAAGGGGTGTCGACCATTGCATGGCCAACACAAAAAAATTTGAAATTTTTTTATCTGAGAAAA
GAGGGTGTCGGCAATTGCATGGCCAACACCAAAAAATTTGATTTTTTTATGAG
Found at i:129383 original size:26 final size:26
Alignment explanation
Indices: 129327--129376 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
129317 ATCTCTTTCC
*
129327 TTTTCCTTTTTATTTATTTTTCTTGT
1 TTTTCCTTTTTATTTATTTTACTTGT
*
129353 TTTTCCTCTTTTA-TTCTTTTACTT
1 TTTTCCT-TTTTATTTATTTTACTT
129377 TTGTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.08, C:0.16, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTCCTTTTTATTTATTTTACTTGT
Found at i:129668 original size:24 final size:24
Alignment explanation
Indices: 129636--129681 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
129626 ATAAATTATT
*
129636 AAAAAATA-TATTTTTTTGAAAAAG
1 AAAAAATATTAATTTTTT-AAAAAG
*
129660 AAAATATATTAATTTTTTAAAA
1 AAAAAATATTAATTTTTTAAAA
129682 TTGCTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
AAAAAATATTAATTTTTTAAAAAG
Found at i:131834 original size:22 final size:23
Alignment explanation
Indices: 131809--131852 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
131799 AAAATCACAT
* *
131809 TTAATTT-TTATATTATTTTTTA
1 TTAATTTATTACATAATTTTTTA
131831 TTAATTTATTACATAATTTTTT
1 TTAATTTATTACATAATTTTTT
131853 TATACACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TTAATTTATTACATAATTTTTTA
Found at i:137388 original size:12 final size:12
Alignment explanation
Indices: 137370--137413 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
137360 ACCCCATTTT
137370 ATTTTTATTATA
1 ATTTTTATTATA
*
137382 CTTTTTATT-TA
1 ATTTTTATTATA
*
137393 TTTATTTATTATA
1 ATT-TTTATTATA
137406 ATTTTTAT
1 ATTTTTAT
137414 AAATATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 4 0.15
12 19 0.70
13 4 0.15
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTTATTATA
Found at i:137459 original size:67 final size:67
Alignment explanation
Indices: 137386--137532 Score: 204
Period size: 67 Copynumber: 2.2 Consensus size: 67
137376 ATTATACTTT
* ** *
137386 TTATTTATTTATTTATTATAATTTTTATAAATATAAATAAATATAAAATAATATTAATTTTATTT
1 TTATTTATTTATTTATTATAATATGAATAAAGATAAATAAATATAAAATAATATTAATTTTATTT
137451 TA
66 TA
** * * * *
137453 TTATTTATTTATTTATTATTGTATGAATATAGATAAATAAATGTGAAATAATATTAATTTTGTTT
1 TTATTTATTTATTTATTATAATATGAATAAAGATAAATAAATATAAAATAATATTAATTTTATTT
137518 TA
66 TA
137520 TTATTTATTTATT
1 TTATTTATTTATT
137533 ATAAATAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (67 bp):
TTATTTATTTATTTATTATAATATGAATAAAGATAAATAAATATAAAATAATATTAATTTTATTT
TA
Found at i:142579 original size:8 final size:9
Alignment explanation
Indices: 142568--142617 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
142558 CAAAAAATTA
142568 AAAAAAG-G
1 AAAAAAGAG
142576 AAAAAAGAG
1 AAAAAAGAG
142585 AAAAAGAGAG
1 AAAAA-AGAG
142595 AAAGAAA-AG
1 AAA-AAAGAG
*
142604 GAAAAAGAAG
1 AAAAAAG-AG
142614 AAAA
1 AAAA
142618 GAAAAAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 10 0.29
9 10 0.29
10 13 0.37
11 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:142609 original size:21 final size:20
Alignment explanation
Indices: 142578--142630 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
142568 AAAAAAGGAA
142578 AAAAGAGAAAAAG-AGAGAAAG
1 AAAA-AGAAAAAGAAGA-AAAG
*
142599 AAAAGGAAAAAGAAGAAAAG
1 AAAAAGAAAAAGAAGAAAAG
142619 AAAAAGAAAAAG
1 AAAAAGAAAAAG
142631 GGGAGGTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAGAAGAAAAG
Found at i:142612 original size:26 final size:27
Alignment explanation
Indices: 142578--142628 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
142568 AAAAAAGGAA
*
142578 AAAAGAGAA-AAAGAGAGAAAGAAAAGG
1 AAAAGAGAAGAAA-AGAAAAAGAAAAGG
142605 AAAA-AGAAGAAAAGAAAAAGAAAA
1 AAAAGAGAAGAAAAGAAAAAGAAAA
142629 AGGGGAGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (27 bp):
AAAAGAGAAGAAAAGAAAAAGAAAAGG
Found at i:142623 original size:6 final size:6
Alignment explanation
Indices: 142578--142630 Score: 52
Period size: 6 Copynumber: 8.0 Consensus size: 6
142568 AAAAAAGGAA
*
142578 AAAAGAG AAAAAG AGAGAAAG AAAAGG AAAAAG AAGAAAAG AAAAAG AAAAAG
1 AAAA-AG AAAAAG A-A-AAAG AAAAAG AAAAAG -A-AAAAG AAAAAG AAAAAG
142631 GGGAGGTCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 22 0.55
7 8 0.20
8 10 0.25
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:143624 original size:50 final size:50
Alignment explanation
Indices: 143537--143727 Score: 177
Period size: 50 Copynumber: 3.8 Consensus size: 50
143527 TGATAGAATA
* * * *
143537 ACAAATCTT-TGACTCTTAAAGTTGTAGAGGCGTAGATTGAAACTGCAATG
1 ACAAATCTTAT-ACACTTAAAGCTGTAGAGGAGCAGATTGAAACTGCAATG
* * * * **
143587 ACAAATCTCATACACTTAAAGCTGTGGAGGTGCAGATTGAAACCGCAGCG
1 ACAAATCTTATACACTTAAAGCTGTAGAGGAGCAGATTGAAACTGCAATG
** * * * * *
143637 ACAAATCTTATACACTTAAATTTGTAGAGGGGCGGAATGAAGCTGTAATG
1 ACAAATCTTATACACTTAAAGCTGTAGAGGAGCAGATTGAAACTGCAATG
* * * *
143687 GCAAATCTTATTCACTTAAAGCTTTAGAGGAGAAGATTGAA
1 ACAAATCTTATACACTTAAAGCTGTAGAGGAGCAGATTGAA
143728 GTCACAAGGA
Statistics
Matches: 110, Mismatches: 30, Indels: 2
0.77 0.21 0.01
Matches are distributed among these distances:
50 109 0.99
51 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
ACAAATCTTATACACTTAAAGCTGTAGAGGAGCAGATTGAAACTGCAATG
Found at i:143724 original size:100 final size:100
Alignment explanation
Indices: 143537--143727 Score: 231
Period size: 100 Copynumber: 1.9 Consensus size: 100
143527 TGATAGAATA
* * *
143537 ACAAATCTTTGACTCTTAAAGTTGTAGAGGCGTAGATTGAAACTGCAATGACAAATCTCATACAC
1 ACAAATCTTTGACACTTAAAGTTGTAGAGGCGCAGAATGAAACTGCAATGACAAATCTCATACAC
* * *
143602 TTAAAGCTGTGGAGGTGCAGATTGAAACCGCAGCG
66 TTAAAGCTGTAGAGGAGAAGATTGAAACCGCAGCG
* * * * * * * *
143637 ACAAATCTTAT-ACACTTAAATTTGTAGAGGGGCGGAATGAAGCTGTAATGGCAAATCTTATTCA
1 ACAAATCTT-TGACACTTAAAGTTGTAGAGGCGCAGAATGAAACTGCAATGACAAATCTCATACA
*
143701 CTTAAAGCTTTAGAGGAGAAGATTGAA
65 CTTAAAGCTGTAGAGGAGAAGATTGAA
143728 GTCACAAGGA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
100 74 0.99
101 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (100 bp):
ACAAATCTTTGACACTTAAAGTTGTAGAGGCGCAGAATGAAACTGCAATGACAAATCTCATACAC
TTAAAGCTGTAGAGGAGAAGATTGAAACCGCAGCG
Found at i:143924 original size:80 final size:80
Alignment explanation
Indices: 143785--144316 Score: 742
Period size: 80 Copynumber: 6.6 Consensus size: 80
143775 TACAACCTCC
* * * *
143785 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAAACCATCCGATCTTTTACCCCAATCATGTGAC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
143850 AGATTGAAGAAATCT
66 AGATTGAAGAAATCT
* * * *
143865 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGATCATCCAATCTTTTATCCCGATCATGGGGT
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
143930 AGATTGAAGAAAT-T
66 AGATTGAAGAAATCT
* * * * * * *
143944 CAATCTTTTATCCTAACTAAAGGGCAAGATTAAAAACCATTCGATCTTTTACCTCGATCATGGGG
1 -AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGG
*
144009 CAGATTGAAGAAATCC
65 CAGATTGAAGAAATCT
* * * * *
144025 AATCTTTTACCCTAACCAGAGGGTAAGATTGAAGATCATCTGATCTTTTACCCCAATCATGAGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
144090 AGATTGAAGAAATCT
66 AGATTGAAGAAATCT
* *
144105 AATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATTCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
* * *
144170 AGATTAAAAAAATCG
66 AGATTGAAGAAATCT
* * * * *
144185 ACTCTTTTACCCTAACCAGAGAGCAAGATTGAAGACCATCCAATCTTTTACCCCGATTATGAAGG
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATG-GGG
*
144250 CAGATTGAAGAAATTT
65 CAGATTGAAGAAATCT
*
144266 AATCTTTTACCCTAACCAGAGGGCAAGATTAAAGACCATCCGATCTTTTAC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTAC
144317 ACCAAAAGGC
Statistics
Matches: 391, Mismatches: 58, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
79 1 0.00
80 329 0.84
81 61 0.16
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (80 bp):
AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
AGATTGAAGAAATCT
Found at i:144414 original size:80 final size:80
Alignment explanation
Indices: 144317--144714 Score: 532
Period size: 80 Copynumber: 5.0 Consensus size: 80
144307 GATCTTTTAC
* * * * *
144317 ACCAAAAGGCAATATTGAAGATCATCCGATCCTTTACCCTAATCATGGGCCAGATTGAAGAAATC
1 ACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCTGATCATGGGGCAGATTGAAGAAATC
144382 AAATCTTTTACCCTA
66 AAATCTTTTACCCTA
* * ** * *
144397 ACCAGAGGGCAAGATTGAAGACCATGTGATCTTTTA-TCTCGATCATGGGGCAGATTGAAAAAAT
1 ACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCT-GATCATGGGGCAGATTGAAGAAAT
*
144461 CCAATCTTTTACCCTA
65 CAAATCTTTTACCCTA
*
144477 ACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATC
1 ACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCTGATCATGGGGCAGATTGAAGAAATC
*
144542 CAATCTTTTACCCTA
66 AAATCTTTTACCCTA
* * **
144557 ACTAAAGGGTAAGATTGAAGATCATTTGATCTTTTACCCTGATCATGGGGCAGATTGAAGAAATC
1 ACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCTGATCATGGGGCAGATTGAAGAAAT-
144622 CAAA-CTTTTACCCTA
65 CAAATCTTTTACCCTA
* * * * * *
144637 ACTAAAAGGCAAGATTGAAGACCATCCAATCTTTTACCCCGATTATGGGGCAGATTGAAGAAATT
1 ACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCTGATCATGGGGCAGATTGAAGAAA-T
144702 C-AATCTTTTACCC
65 CAAATCTTTTACCC
144715 CGATTATGGG
Statistics
Matches: 280, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
79 4 0.01
80 271 0.97
81 5 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (80 bp):
ACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCTGATCATGGGGCAGATTGAAGAAATC
AAATCTTTTACCCTA
Found at i:144524 original size:160 final size:159
Alignment explanation
Indices: 144317--144714 Score: 591
Period size: 160 Copynumber: 2.5 Consensus size: 159
144307 GATCTTTTAC
* * ** *
144317 ACCAAAAGGCAATATTGAAGATCATCCGATCCTTTACCCTAATCATGGGCCAGATTGAAGAAATC
1 ACCAAAAGGCAAGATTGAAGATCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATC
* *
144382 AAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATGTGATCTTTTA-TCTCGATCATGGG
66 -AATCTTTTACCCTAACCAAAGGGCAAGATTGAAGACCATGTGATCTTTTACCCT-GATCATGGG
*
144446 GCAGATTGAAAAAATCCAATCTTTTACCCTA
129 GCAGATTGAAAAAATCCAAACTTTTACCCTA
*
144477 ACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATC
1 ACCAAAAGGCAAGATTGAAGATCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAAT-
* * * *
144542 CAATCTTTTACCCTAACTAAAGGGTAAGATTGAAGATCATTTGATCTTTTACCCTGATCATGGGG
65 CAATCTTTTACCCTAACCAAAGGGCAAGATTGAAGACCATGTGATCTTTTACCCTGATCATGGGG
*
144607 CAGATTGAAGAAATCCAAACTTTTACCCTA
130 CAGATTGAAAAAATCCAAACTTTTACCCTA
* * * *
144637 ACTAAAAGGCAAGATTGAAGACCATCCAATCTTTTACCCCGATTATGGGGCAGATTGAAGAAATT
1 ACCAAAAGGCAAGATTGAAGATCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAA-T
144702 CAATCTTTTACCC
65 CAATCTTTTACCC
144715 CGATTATGGG
Statistics
Matches: 216, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
160 212 0.98
161 4 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (159 bp):
ACCAAAAGGCAAGATTGAAGATCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATC
AATCTTTTACCCTAACCAAAGGGCAAGATTGAAGACCATGTGATCTTTTACCCTGATCATGGGGC
AGATTGAAAAAATCCAAACTTTTACCCTA
Found at i:144774 original size:438 final size:440
Alignment explanation
Indices: 143827--144783 Score: 1353
Period size: 438 Copynumber: 2.2 Consensus size: 440
143817 AAACCATCCG
* * * *
143827 ATCTTTTACCCCAATCATGTGACAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAAG
1 ATCTTTTACCCCAATCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAAG
* * * ** *
143892 ATTGAAGATCATCCAATCTTTTATCCCGATCATGGGGTAGATTGAAGAAATTCAATCTTTTATCC
66 ATTGAAGATCATCCGATCCTTTATCCCAATCATGGGCCAGATTGAAGAAATTCAATCTTTTACCC
* *
143957 TAACTAAAGGGCAAGATTAAAAACCATTCGATCTTTTACCTCGATCATGGGGCAGATTGAAGAAA
131 TAACCAAAGGGCAAGATTAAAAACCATTCGATCTTTTACCTCGATCATGGGGCAGATTGAAAAAA
* * *
144022 TCCAATCTTTTACCCTAACCAGAGGGTAAGATTGAAGATCATCTGATCTTTTACCCCAATCATGA
196 TCCAATCTTTTACCCTAACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCCAATCATGA
* *
144087 GGCAGATTGAAGAAATCTAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATTCGATCTT
261 GGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATTCGATCTT
* ** * *
144152 TTACCCCGATCATGGGGCAGATTAAAAAAATCGACTCTTTTACCCTAACCAGAGAGCAAGATTGA
326 TTACCCCGATCATGGGGCAGATTAAAAAAATCCAAACTTTTACCCTAACAAAAGAGCAAGATTGA
*
144217 AGACCATCCAATCTTTTACCCCGATTATGAAGGCAGATTGAAGAAATTTA
391 AGACCATCCAATCTTTTACCCCGATTATGAAGGCAGATTGAAGAAATTCA
* * * * *
144267 ATCTTTTACCCTAACCA-GAGGGCAAGATTAAAGACCATCCGATCTTTTACACC-AA--A-A-GG
1 ATCTTTTACCCCAATCATG-GGGC-AGATTGAAG-CAATCCAATCTTTTAC-CCTAACCAGAGGG
*
144326 CAATATTGAAGATCATCCGATCCTTTA-CCCTAATCATGGGCCAGATTGAAGAAA-TCAAATCTT
62 CAAGATTGAAGATCATCCGATCCTTTATCCC-AATCATGGGCCAGATTGAAGAAATTC-AATCTT
* * * *
144389 TTACCCTAACCAGAGGGCAAGATTGAAGACCATGT-GATCTTTTATCTCGATCATGGGGCAGATT
125 TTACCCTAACCAAAGGGCAAGATTAAAAACCAT-TCGATCTTTTACCTCGATCATGGGGCAGATT
*
144453 GAAAAAATCCAATCTTTTACCCTAACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCCG
189 GAAAAAATCCAATCTTTTACCCTAACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCCA
* * *
144518 ATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAAAGGGTAAGATTGAAGATCATT
254 ATCATGAGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATT
* * * *
144583 TGATCTTTTACCCTGATCATGGGGCAGATTGAAGAAATCCAAACTTTTACCCTAACTAAAAG-GC
319 CGATCTTTTACCCCGATCATGGGGCAGATTAAAAAAATCCAAACTTTTACCCTAAC-AAAAGAGC
*
144647 AAGATTGAAGACCATCCAATCTTTTACCCCGATTATG-GGGCAGATTGAAGAAATTCA
383 AAGATTGAAGACCATCCAATCTTTTACCCCGATTATGAAGGCAGATTGAAGAAATTCA
* *
144704 ATCTTTTACCCCGATTATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGC-AG
1 ATCTTTTACCCCAATCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAAG
*
144768 ATTGAAGACCATCCGA
66 ATTGAAGATCATCCGA
144784 CAGATTGAAA
Statistics
Matches: 452, Mismatches: 51, Indels: 30
0.85 0.10 0.06
Matches are distributed among these distances:
434 2 0.00
435 16 0.04
436 8 0.02
437 41 0.09
438 334 0.74
439 9 0.02
440 18 0.04
441 8 0.02
442 14 0.03
443 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (440 bp):
ATCTTTTACCCCAATCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAAG
ATTGAAGATCATCCGATCCTTTATCCCAATCATGGGCCAGATTGAAGAAATTCAATCTTTTACCC
TAACCAAAGGGCAAGATTAAAAACCATTCGATCTTTTACCTCGATCATGGGGCAGATTGAAAAAA
TCCAATCTTTTACCCTAACCAAAGGGCAAGATTGAAGATCATCCGATCTTTTACCCCAATCATGA
GGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATTCGATCTT
TTACCCCGATCATGGGGCAGATTAAAAAAATCCAAACTTTTACCCTAACAAAAGAGCAAGATTGA
AGACCATCCAATCTTTTACCCCGATTATGAAGGCAGATTGAAGAAATTCA
Found at i:151886 original size:24 final size:24
Alignment explanation
Indices: 151833--151887 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
151823 TAAAAATTTG
* *
151833 ACTGAAATAAATAAATAGAATTGA
1 ACTGAAACAAATAAACAGAATTGA
* * *
151857 ATTGAAACAAATAAACAGAGTTTA
1 ACTGAAACAAATAAACAGAATTGA
151881 ACTGAAA
1 ACTGAAA
151888 GATTATTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (24 bp):
ACTGAAACAAATAAACAGAATTGA
Found at i:152449 original size:19 final size:20
Alignment explanation
Indices: 152415--152464 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
152405 TTTCCATTCC
* *
152415 AACAATCATCACAAGC-AAA
1 AACAATCCTCAGAAGCGAAA
*
152434 AACAATTCTCAGAAGCGAAA
1 AACAATCCTCAGAAGCGAAA
*
152454 CACAATCCTCA
1 AACAATCCTCA
152465 AATAAAGCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.50, C:0.28, G:0.08, T:0.14
Consensus pattern (20 bp):
AACAATCCTCAGAAGCGAAA
Found at i:158232 original size:29 final size:28
Alignment explanation
Indices: 158174--158233 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
158164 TAGTAATTTT
* * *
158174 ATAATCACTTTTTGTTTTTCTAAATTAA
1 ATAATCACTTTTTGTTTATATAAACTAA
158202 ATAATCACTTTTTGTTTATATATAACTAA
1 ATAATCACTTTTTGTTTATATA-AACTAA
158231 ATA
1 ATA
158234 GTATGTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (28 bp):
ATAATCACTTTTTGTTTATATAAACTAA
Found at i:159327 original size:15 final size:15
Alignment explanation
Indices: 159287--159340 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
159277 CAAAACATTT
159287 AAAA-AATATA-TAA
1 AAAATAATATATTAA
159300 AATACATAA-ATATTAA
1 AA-A-ATAATATATTAA
*
159316 AAAATAATATATTTA
1 AAAATAATATATTAA
*
159331 AAATTAATAT
1 AAAATAATAT
159341 TAAATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 2 0.06
14 5 0.15
15 20 0.59
16 7 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAATATATTAA
Found at i:162234 original size:18 final size:18
Alignment explanation
Indices: 162193--162236 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
162183 CGCAACCGTG
*
162193 ATAGGGAACGCGATCGAG
1 ATAGGGAACGCGATCGAC
* * *
162211 ACAGGGATCGGGATCGAC
1 ATAGGGAACGCGATCGAC
162229 ATAGGGAA
1 ATAGGGAA
162237 GACAAAGACA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.39, T:0.11
Consensus pattern (18 bp):
ATAGGGAACGCGATCGAC
Found at i:176154 original size:36 final size:33
Alignment explanation
Indices: 176067--176152 Score: 145
Period size: 33 Copynumber: 2.6 Consensus size: 33
176057 CAAGAGCTCC
176067 AGGTGGTGGCGGAGGTGGTGCTCCTCCTCCAGA
1 AGGTGGTGGCGGAGGTGGTGCTCCTCCTCCAGA
*
176100 AGGTGGTGGCGGAGGTGGTGCTCCTCCTCCAGG
1 AGGTGGTGGCGGAGGTGGTGCTCCTCCTCCAGA
* *
176133 AGGTGGTGGTGGCGGTGGTG
1 AGGTGGTGGCGGAGGTGGTG
176153 GTCCAACTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.09, C:0.20, G:0.49, T:0.22
Consensus pattern (33 bp):
AGGTGGTGGCGGAGGTGGTGCTCCTCCTCCAGA
Found at i:176163 original size:33 final size:33
Alignment explanation
Indices: 176067--176202 Score: 143
Period size: 33 Copynumber: 4.2 Consensus size: 33
176057 CAAGAGCTCC
* *
176067 AGGTGGTGGCGGAGGTGGTGCTCCTCCTCCAGA
1 AGGTGGTGGCGGAGGTGGTGCTCCTACTCCAGG
*
176100 AGGTGGTGGCGGAGGTGGTGCTCCTCCTCCAGG
1 AGGTGGTGGCGGAGGTGGTGCTCCTACTCCAGG
* * * * *
176133 AGGTGGTGGTGGCGGTGGTGGTCCAACTCCAAG
1 AGGTGGTGGCGGAGGTGGTGCTCCTACTCCAGG
* * * *
176166 AGGCGGCGGTGGAGGTGGTG---GTACTCCAGG
1 AGGTGGTGGCGGAGGTGGTGCTCCTACTCCAGG
176196 AGGTGGT
1 AGGTGGT
176203 TCTCCAACAG
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.14
33 76 0.86
ACGTcount: A:0.12, C:0.20, G:0.47, T:0.21
Consensus pattern (33 bp):
AGGTGGTGGCGGAGGTGGTGCTCCTACTCCAGG
Found at i:176638 original size:81 final size:81
Alignment explanation
Indices: 176542--176705 Score: 231
Period size: 81 Copynumber: 2.0 Consensus size: 81
176532 CATCAATGGG
* * * * *
176542 GGAGGAGGTGGGGTGCTGGATATTGTTAGGGG-TGGTGGAGATGGAGGAGGTGGGGCACTAGTCG
1 GGAGGACGTAGGGTGCTAGATATTGAT-GGGGATGGTGGAGATGGAGGAGGTGGGGCACTAGTCA
176606 TCAAAGTGGCTAGTGAA
65 TCAAAGTGGCTAGTGAA
*
176623 GGAGGACGTAGGGTGCTAGATATTGATGGGGATGGTGGAGATGGAGGAGTTGGGGCACTAGTCAT
1 GGAGGACGTAGGGTGCTAGATATTGATGGGGATGGTGGAGATGGAGGAGGTGGGGCACTAGTCAT
* * *
176688 CGAAGTGGTTGGTGAA
66 CAAAGTGGCTAGTGAA
176704 GG
1 GG
176706 TGAAGGAGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 4 0.05
81 69 0.95
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.23
Consensus pattern (81 bp):
GGAGGACGTAGGGTGCTAGATATTGATGGGGATGGTGGAGATGGAGGAGGTGGGGCACTAGTCAT
CAAAGTGGCTAGTGAA
Found at i:176696 original size:198 final size:195
Alignment explanation
Indices: 176453--176844 Score: 545
Period size: 198 Copynumber: 2.0 Consensus size: 195
176443 GTAGACACCA
* * *
176453 ATGGGGGTGGTGGAGATGGAGGTGGGGCACTAGTTGAAAAAGTGGTTGATGAAGGTGAAGGAGGA
1 ATGGGGATGGTGGAGATGGAGGTGGGGCACTAGTTCAAAAAGTGGTTGATGAAGGTGAAGGAGAA
* * *
176518 AGTGAAGCACTAGACATCAATGGGGGAGGAGGTGGGGTGCTGGATATTG-TTAGGGGTGGTGGAG
66 AGTGAAGCACTAGACATCAATGGGGGAGGAGGTGCGGTGCTAGATATTGATGA-GGGTGGTGGAG
* *
176582 ATGGAGGAGGTGGGGCACTAGTCGTCAAAGTGGCTAGTGAAGGAGGACGTAGGGTGCTAGATATT
130 ATGGAGGAGGTGAGGCACTAGTCATCAAAGTGGCTAGTGAAGGAGGACGTAGGGTGCTAGATATT
176647 G
195 G
** *
176648 ATGGGGATGGTGGAGATGGAGGAGTTGGGGCACTAG-TCATCGAAGTGGTTGGTGAAGGTGAAGG
1 ATGGGGATGGTGGAGATGGA-G-G-TGGGGCACTAGTTCA-AAAAGTGGTTGATGAAGGTGAAGG
* *
176712 AGAAATTGAAGCACTAGACATCGATGGGGGAGGAGGTGCGGTGCTAGATATTGATGAGGGTGGTG
62 AGAAAGTGAAGCACTAGACATCAATGGGGGAGGAGGTGCGGTGCTAGATATTGATGAGGGTGGTG
* * * * * * *
176777 GAGATGGGGGAGGTGAGGTACTAGTCATCGAAGTGGTTGGTGAAGGAGGAGGTGGGGTGCTAGAT
127 GAGATGGAGGAGGTGAGGCACTAGTCATCAAAGTGGCTAGTGAAGGAGGACGTAGGGTGCTAGAT
176842 ATT
192 ATT
176845 NNNNNNNNNN
Statistics
Matches: 172, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
195 19 0.11
196 1 0.01
197 3 0.02
198 147 0.85
199 2 0.01
ACGTcount: A:0.25, C:0.07, G:0.46, T:0.22
Consensus pattern (195 bp):
ATGGGGATGGTGGAGATGGAGGTGGGGCACTAGTTCAAAAAGTGGTTGATGAAGGTGAAGGAGAA
AGTGAAGCACTAGACATCAATGGGGGAGGAGGTGCGGTGCTAGATATTGATGAGGGTGGTGGAGA
TGGAGGAGGTGAGGCACTAGTCATCAAAGTGGCTAGTGAAGGAGGACGTAGGGTGCTAGATATTG
Found at i:176701 original size:42 final size:42
Alignment explanation
Indices: 176574--176701 Score: 97
Period size: 42 Copynumber: 3.1 Consensus size: 42
176564 TTGTTAGGGG
* * * *
176574 TGGTGGAGATGGAGGAGGTGGGGCACTAGTCGTCAAAGTGGC
1 TGGTGGAGATGGAGGAGTTGGGGCACTAGTCATCGAAGTGGA
* * * * *
176616 TAGT-GA-A-GGAGGACGTAGGGTG--CTAGAT-ATTGATGGGGA
1 TGGTGGAGATGGAGGA-GTTGGG-GCACTAG-TCATCGAAGTGGA
*
176655 TGGTGGAGATGGAGGAGTTGGGGCACTAGTCATCGAAGTGGT
1 TGGTGGAGATGGAGGAGTTGGGGCACTAGTCATCGAAGTGGA
176697 TGGTG
1 TGGTG
176702 AAGGTGAAGG
Statistics
Matches: 62, Mismatches: 15, Indels: 18
0.65 0.16 0.19
Matches are distributed among these distances:
39 18 0.29
40 9 0.15
41 10 0.16
42 25 0.40
ACGTcount: A:0.23, C:0.09, G:0.46, T:0.23
Consensus pattern (42 bp):
TGGTGGAGATGGAGGAGTTGGGGCACTAGTCATCGAAGTGGA
Found at i:177345 original size:216 final size:216
Alignment explanation
Indices: 176949--177398 Score: 566
Period size: 216 Copynumber: 2.1 Consensus size: 216
176939 GTAGAGATGG
* * * * *
176949 AGGAGGTAGGGCATTAGTTATCAAAGTGGTTGGTGAAGGTGAAGGAGGAATTGAAGCACTAGACA
1 AGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGTGAAGGTGAAAGAGGAAGTGAAGAACTAGACA
* *
177014 TCGATAGGGGAAGAGGTTGGATTCTAGATATTGATGGAGGTGGTGGAGACGAAAGAGGTGGGGCA
66 CCGATAGGGGAAGAGGTGGGATTCTAGATATTGATGGAGGTGGTGGAGACGAAAGAGGTGGGGCA
*** * * *
177079 CTAGTCATTGCGGAGAGCGGTGAAGGTGAAGGAGGAAGTGGGGAAGTAGACATCAAT-GTGGGAG
131 CTAGTCATCAAGGAGAGCGGTGAAGGTGAAGAAGGAAGCGGGGAAGTAGACATCAATAG-GGCAG
* *
177143 GTGGAGATGGTAGTGGATGTGA
195 GTGGAGATGGTAGTAGAAGTGA
* * *
177165 AGGAGGTGGGGCACTAGTCATCAAAGTGGTTGGTGAAGGTGAAAGAGGAAGTGGAGAACTAGATA
1 AGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGTGAAGGTGAAAGAGGAAGTGAAGAACTAGACA
* * * *
177230 CCGAT-GGGGGAGAAGGTGGGGTGT-TAGATATTGATAGG-GGTGGTGGAGATGAAGGAGGTGGG
66 CCGATAGGGGAAG-AGGTGGGAT-TCTAGATATTGAT-GGAGGTGGTGGAGACGAAAGAGGTGGG
** * * * *
177292 GCACTAGTTGTCAAGGAGGGTGGTGAAGGTGGAGAAGGAAGCGGGGCAGTAGACATCAATAGGGC
128 GCACTAGTCATCAAGGAGAGCGGTGAAGGTGAAGAAGGAAGCGGGGAAGTAGACATCAATAGGGC
*
177357 AGGTGGAGATGGTGGTAGAAGTGA
193 AGGTGGAGATGGTAGTAGAAGTGA
*
177381 AGGAGGTAGAGCACTAGT
1 AGGAGGTAGGGCACTAGT
177399 AACCAAAAAA
Statistics
Matches: 199, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
215 6 0.03
216 189 0.95
217 4 0.02
ACGTcount: A:0.29, C:0.07, G:0.44, T:0.20
Consensus pattern (216 bp):
AGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGTGAAGGTGAAAGAGGAAGTGAAGAACTAGACA
CCGATAGGGGAAGAGGTGGGATTCTAGATATTGATGGAGGTGGTGGAGACGAAAGAGGTGGGGCA
CTAGTCATCAAGGAGAGCGGTGAAGGTGAAGAAGGAAGCGGGGAAGTAGACATCAATAGGGCAGG
TGGAGATGGTAGTAGAAGTGA
Found at i:177531 original size:84 final size:84
Alignment explanation
Indices: 177404--177637 Score: 193
Period size: 84 Copynumber: 2.8 Consensus size: 84
177394 CTAGTAACCA
* * * * ** * * *
177404 AAAAAGGTGGTGAAGGTGGAGAAAGTGGGGCACTAGATGTTGAT-GGGAGTTGTGGAGCTGGAGG
1 AAAAGGGTGGTGAAGGTGGAGGAAGTGGAGCACTACACATTGATAAGG-GTGGTGGAGATGGAGG
* * *
177468 AGATGGGGCAATATTAGTCG
65 AGACGAGGCAATAGTAGTCG
* * * *
177488 AAGAGGGTGGTGAAGGTGGAGGATGTGGAGTACTACACATTGATAAGGGTGGTGGAGATGGAGTA
1 AAAAGGGTGGTGAAGGTGGAGGAAGTGGAGCACTACACATTGATAAGGGTGGTGGAGATGGAGGA
* *
177553 GACGAGGCAGTAGTAGTTG
66 GACGAGGCAATAGTAGTCG
* * * * * ** * *
177572 AAAAGGGTGGAGAGGGTGGAGGAAGGGGGGCAATAGTCATTGA-AGAGGGTGGTGAAGGTGGAGG
1 AAAAGGGTGGTGAAGGTGGAGGAAGTGGAGCACTACACATTGATA-AGGGTGGTGGAGATGGAGG
177636 AG
65 AG
177638 GAAGTGGGGA
Statistics
Matches: 117, Mismatches: 31, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
83 1 0.01
84 114 0.97
85 2 0.02
ACGTcount: A:0.29, C:0.05, G:0.47, T:0.19
Consensus pattern (84 bp):
AAAAGGGTGGTGAAGGTGGAGGAAGTGGAGCACTACACATTGATAAGGGTGGTGGAGATGGAGGA
GACGAGGCAATAGTAGTCG
Found at i:177660 original size:45 final size:45
Alignment explanation
Indices: 177589--177674 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
177579 TGGAGAGGGT
*
177589 GGAGGAAGGGGGGCAATAGTCATTGAAGAGGGTGGTGAAGGTGGA
1 GGAGGAAGGGGGGCAATAATCATTGAAGAGGGTGGTGAAGGTGGA
* * *
177634 GGAGGAAGTGGGG-AAGTAATCGTTGAAGAGGTTGGTGAAGG
1 GGAGGAAGGGGGGCAA-TAATCATTGAAGAGGGTGGTGAAGG
177675 CGAAGAAGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.29, C:0.03, G:0.50, T:0.17
Consensus pattern (45 bp):
GGAGGAAGGGGGGCAATAATCATTGAAGAGGGTGGTGAAGGTGGA
Found at i:197116 original size:22 final size:21
Alignment explanation
Indices: 197077--197117 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
197067 AATTTTAATT
*
197077 ATCTACTACTCCCTCGTCAGA
1 ATCTACTACTCCCACGTCAGA
*
197098 ATCTACTCCTTCCCACGTCA
1 ATCTACTAC-TCCCACGTCA
197118 TTTCTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.22, C:0.41, G:0.07, T:0.29
Consensus pattern (21 bp):
ATCTACTACTCCCACGTCAGA
Found at i:197809 original size:15 final size:16
Alignment explanation
Indices: 197784--197825 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
197774 TTTTATATTT
*
197784 TAAAATATAAAT-CAA
1 TAAAATTTAAATACAA
* *
197799 TGAAATTTAAATATAA
1 TAAAATTTAAATACAA
197815 TAAAATTTAAA
1 TAAAATTTAAA
197826 CCTAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAATTTAAATACAA
Found at i:214773 original size:2 final size:2
Alignment explanation
Indices: 214766--214794 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
214756 ACTTCAAACG
214766 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
214795 TTCCCCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:222821 original size:14 final size:13
Alignment explanation
Indices: 222786--222845 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
222776 ATTTCGTATA
222786 AAAAAG-TAAAATT
1 AAAAAGTTAAAA-T
222799 AAAAA-TTAAAACT
1 AAAAAGTTAAAA-T
222812 AAAAAGTTAAAAT
1 AAAAAGTTAAAAT
*
222825 AGAAAAGCT-AAAT
1 A-AAAAGTTAAAAT
222838 -AAAAGTTA
1 AAAAAGTTA
222846 GTACATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
11 6 0.15
13 22 0.55
14 12 0.30
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (13 bp):
AAAAAGTTAAAAT
Found at i:231549 original size:45 final size:45
Alignment explanation
Indices: 231499--231591 Score: 170
Period size: 46 Copynumber: 2.1 Consensus size: 45
231489 ATTGAAAAAG
231499 AAGGGATAAAAGTG-TTTTTTTTTTTTTTGTATGTGTGTTTCTTC
1 AAGGGATAAAAGTGTTTTTTTTTTTTTTTGTATGTGTGTTTCTTC
231543 NAAGGGATAAAAGTGTTTTTTTTTTTTTTTGTATGTGTGTTTCTTC
1 -AAGGGATAAAAGTGTTTTTTTTTTTTTTTGTATGTGTGTTTCTTC
231589 AAG
1 AAG
231592 TCACACGCAG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 17 0.36
46 30 0.64
ACGTcount: A:0.19, C:0.04, G:0.20, T:0.55
Consensus pattern (45 bp):
AAGGGATAAAAGTGTTTTTTTTTTTTTTTGTATGTGTGTTTCTTC
Found at i:236346 original size:2 final size:2
Alignment explanation
Indices: 236339--236369 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
236329 TTTGATTTAA
236339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
236370 ATTTTAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:236450 original size:29 final size:31
Alignment explanation
Indices: 236398--236459 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 31
236388 TAATACACAT
* *
236398 TTAAAAAAATAATTATTCGATTTATTTTTATA
1 TTAAAAAAATAATAATTC-ATTTATATTTATA
236430 TTAAAAAAAT-ATAATT-ATTTATATTTATA
1 TTAAAAAAATAATAATTCATTTATATTTATA
236459 T
1 T
236460 AAATCAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.46
31 5 0.18
32 10 0.36
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (31 bp):
TTAAAAAAATAATAATTCATTTATATTTATA
Found at i:237682 original size:6 final size:6
Alignment explanation
Indices: 237673--237735 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
237663 GTGAAGACCC
* * * * * *
237673 TGAGGA TGAGGA TGAGGA CGAGGA TGACGA CGACGA CGACGA TGATGGA
1 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGA-GGA
237722 -GAGGA TGAGGA TGA
1 TGAGGA TGAGGA TGA
237736 AGAGGATGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
5 3 0.06
6 44 0.90
7 2 0.04
ACGTcount: A:0.33, C:0.10, G:0.44, T:0.13
Consensus pattern (6 bp):
TGAGGA
Found at i:237775 original size:21 final size:21
Alignment explanation
Indices: 237749--237794 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
237739 GGATGTTGAA
237749 GAAGAAGAAAATGAAGACGAG
1 GAAGAAGAAAATGAAGACGAG
* *
237770 GAAGAAGAAGATGAAGATGAG
1 GAAGAAGAAAATGAAGACGAG
237791 GAAG
1 GAAG
237795 CACTGCAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.37, T:0.07
Consensus pattern (21 bp):
GAAGAAGAAAATGAAGACGAG
Found at i:239219 original size:33 final size:31
Alignment explanation
Indices: 239174--239236 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
239164 ACCTATATAA
* *
239174 TTTTTTTATTATTTAATTATGAAAAGTTACT
1 TTTTTTTATTATTAAATTATGAAAAATTACT
*
239205 TTTTATTTAGTTATTAAATTCTGAAAAATTAC
1 TTTT-TTTA-TTATTAAATTATGAAAAATTAC
239237 AAAATGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 4 0.15
32 4 0.15
33 19 0.70
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (31 bp):
TTTTTTTATTATTAAATTATGAAAAATTACT
Found at i:240462 original size:3 final size:3
Alignment explanation
Indices: 240454--240478 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
240444 AATTTAATAT
240454 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
240479 AAGTTTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:260074 original size:77 final size:77
Alignment explanation
Indices: 259984--260139 Score: 285
Period size: 77 Copynumber: 2.0 Consensus size: 77
259974 TTTAATAATC
*
259984 AAATCAATCATTGAATCGATCAAACCATTTATTCCCGATTCAATCGGTTTGATTAATTCAACTAC
1 AAATCAATCATTGAATCGATCAAACCATTTATTCCCGATTCAATCGGTTTGATTAATTAAACTAC
260049 TAAACCAACAAT
66 TAAACCAACAAT
* *
260061 AAATCAATCATTGAATCGGTCAAACCATTTATTTCCGATTCAATCGGTTTGATTAATTAAACTAC
1 AAATCAATCATTGAATCGATCAAACCATTTATTCCCGATTCAATCGGTTTGATTAATTAAACTAC
260126 TAAACCAACAAT
66 TAAACCAACAAT
260138 AA
1 AA
260140 TTAAATTCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (77 bp):
AAATCAATCATTGAATCGATCAAACCATTTATTCCCGATTCAATCGGTTTGATTAATTAAACTAC
TAAACCAACAAT
Found at i:261075 original size:32 final size:32
Alignment explanation
Indices: 261015--261086 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
261005 TTTAATGGCT
** **
261015 AGTGACCAAAAAAAGAAAATTTTGAATAGTTG
1 AGTGACCAAAAAAAGAAAAAGTCAAATAGTTG
* *
261047 GGTGAGCAAAAAAAGAAAAAGTCAAATAGTTG
1 AGTGACCAAAAAAAGAAAAAGTCAAATAGTTG
261079 AGTGACCA
1 AGTGACCA
261087 TTTTGTAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.08, G:0.22, T:0.19
Consensus pattern (32 bp):
AGTGACCAAAAAAAGAAAAAGTCAAATAGTTG
Found at i:261114 original size:29 final size:29
Alignment explanation
Indices: 261072--261144 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
261062 AAAAAGTCAA
*
261072 ATAGTTGAGTGACCATTTTGTAACTTTTC
1 ATAGTTGAGTGACCATTTTATAACTTTTC
* *
261101 ATAGTTGTGTGACCATTTTATAATTTTTC
1 ATAGTTGAGTGACCATTTTATAACTTTTC
261130 ATAGTT-AGATGACCA
1 ATAGTTGAG-TGACCA
261145 AAAAAAGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (29 bp):
ATAGTTGAGTGACCATTTTATAACTTTTC
Found at i:262318 original size:24 final size:26
Alignment explanation
Indices: 262282--262329 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
262272 AGAGAAATGT
262282 AAATGTGATATATGA-A-ATTATGAG
1 AAATGTGATATATGAGAGATTATGAG
262306 AAATGATGA-ATATGAGAGATTATG
1 AAATG-TGATATATGAGAGATTATG
262330 CCCATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGTGATATATGAGAGATTATGAG
Found at i:262421 original size:25 final size:23
Alignment explanation
Indices: 262393--262539 Score: 168
Period size: 23 Copynumber: 6.3 Consensus size: 23
262383 CACTAGCGCG
* * *
262393 CTCTTTGATTAGTACTTTATGTA
1 CTCTCTGATTAGCACTTTGTGTA
* * *
262416 CTCTCTATTATTAGCACTGTGTGTG
1 CTCTC--TGATTAGCACTTTGTGTA
* *
262441 CTCTCTGATTAGCATTTTGTGTG
1 CTCTCTGATTAGCACTTTGTGTA
*
262464 CTCTCTGATTAGCATTTTGTGTA
1 CTCTCTGATTAGCACTTTGTGTA
*
262487 CTCTCTGTTTAGCACTTTGTGTA
1 CTCTCTGATTAGCACTTTGTGTA
* *
262510 CTCTCTGTTTAGCACTTTGTGTG
1 CTCTCTGATTAGCACTTTGTGTA
262533 CTCTCTG
1 CTCTCTG
262540 TTGCCCAGCA
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
23 91 0.83
25 18 0.17
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (23 bp):
CTCTCTGATTAGCACTTTGTGTA
Found at i:262540 original size:23 final size:23
Alignment explanation
Indices: 262426--262589 Score: 179
Period size: 23 Copynumber: 7.1 Consensus size: 23
262416 CTCTCTATTA
* *
262426 TTAGCACTGTGTGTGCTCTCTGA
1 TTAGCACTTTGTGTGCTCTCTGT
* *
262449 TTAGCATTTTGTGTGCTCTCTGA
1 TTAGCACTTTGTGTGCTCTCTGT
* *
262472 TTAGCATTTTGTGTACTCTCTGT
1 TTAGCACTTTGTGTGCTCTCTGT
*
262495 TTAGCACTTTGTGTACTCTCTGT
1 TTAGCACTTTGTGTGCTCTCTGT
262518 TTAGCACTTTGTGTGCTCTCTGT
1 TTAGCACTTTGTGTGCTCTCTGT
* *
262541 TGCCCAGCAC-TTATGTGCTCTCTGT
1 T---TAGCACTTTGTGTGCTCTCTGT
* * *
262566 TTAGTACTTCG-GTACTCTCTGT
1 TTAGCACTTTGTGTGCTCTCTGT
262588 TT
1 TT
262590 GTTCCGTTTA
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
22 16 0.13
23 88 0.71
25 15 0.12
26 5 0.04
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (23 bp):
TTAGCACTTTGTGTGCTCTCTGT
Found at i:262540 original size:46 final size:46
Alignment explanation
Indices: 262392--262589 Score: 177
Period size: 46 Copynumber: 4.2 Consensus size: 46
262382 ACACTAGCGC
* * * * * *
262392 GCTCTTTGATTAGTACTTTATGTACTCTCTATTATTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTTTGTGTACTCTCT-GT-TTAGCACTTTGTGT
* * * * *
262440 GCTCTCTGATTAGCATTTTGTGTGCTCTCTGATTAGCATTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGTACTCTCTGTTTAGCACTTTGTGT
*
262486 ACTCTCTGTTTAGCACTTTGTGTACTCTCTGTTTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGTACTCTCTGTTTAGCACTTTGTGT
* * *
262532 GCTCTCTGTTGCCCAGCACTTATGTG--CTCTCTGTTTAGTACTTCG-GT
1 GCTCTCTGTT---TAGCACTT-TGTGTACTCTCTGTTTAGCACTTTGTGT
*
262579 ACTCTCTGTTT
1 GCTCTCTGTTT
262590 GTTCCGTTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
46 61 0.49
47 11 0.09
48 42 0.34
49 7 0.06
50 4 0.03
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (46 bp):
GCTCTCTGTTTAGCACTTTGTGTACTCTCTGTTTAGCACTTTGTGT
Found at i:267227 original size:25 final size:24
Alignment explanation
Indices: 267190--267236 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
267180 TGAAATATAA
* *
267190 AAATTAAATATCAAATTTAAAACG
1 AAATTAAACATCAAAATTAAAACG
267214 AAATATAAACATCAAAATTAAAA
1 AAAT-TAAACATCAAAATTAAAA
267237 ATCAACTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (24 bp):
AAATTAAACATCAAAATTAAAACG
Found at i:267240 original size:13 final size:13
Alignment explanation
Indices: 267173--267241 Score: 52
Period size: 13 Copynumber: 5.3 Consensus size: 13
267163 TTAAATTATT
*
267173 TCAAAATTGAAATA
1 TCAAAATT-AAAAA
* *
267187 TAAAAATTAAATA
1 TCAAAATTAAAAA
*
267200 TC-AAATTTAAAA
1 TCAAAATTAAAAA
* *
267212 -CGAAATATAAACA
1 TCAAAAT-TAAAAA
267225 TCAAAATTAAAAA
1 TCAAAATTAAAAA
267238 TCAA
1 TCAA
267242 CTATCCTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
11 1 0.02
12 12 0.27
13 19 0.43
14 12 0.27
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.26
Consensus pattern (13 bp):
TCAAAATTAAAAA
Found at i:281126 original size:23 final size:25
Alignment explanation
Indices: 281081--281126 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
281071 ATTAAAATAT
* *
281081 TTTTTTTTCATTTTTTCCATCTCCA
1 TTTTTCTTCATTTCTTCCATCTCCA
281106 TTTTTCTTC-TTTCTTCC-TCTC
1 TTTTTCTTCATTTCTTCCATCTC
281127 TTTCCCTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTTCTTCATTTCTTCCATCTCCA
Found at i:282286 original size:56 final size:56
Alignment explanation
Indices: 282219--282325 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 56
282209 GAACTAAAGC
282219 GAAAATGAGTGTTTGAAAAGAGAGAAAGTTTAAGAAAATCTGGAAAAATAACGAGA
1 GAAAATGAGTGTTTGAAAAGAGAGAAAGTTTAAGAAAATCTGGAAAAATAACGAGA
* *
282275 GAAAATGAGTGTTTGAAAAGAGAGAAAGTTTGAGAAAATTTGGAAAAATAA
1 GAAAATGAGTGTTTGAAAAGAGAGAAAGTTTAAGAAAATCTGGAAAAATAA
282326 TTAAAAGGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.51, C:0.02, G:0.25, T:0.21
Consensus pattern (56 bp):
GAAAATGAGTGTTTGAAAAGAGAGAAAGTTTAAGAAAATCTGGAAAAATAACGAGA
Found at i:283081 original size:17 final size:17
Alignment explanation
Indices: 283059--283155 Score: 131
Period size: 17 Copynumber: 5.6 Consensus size: 17
283049 CCATACTCTC
* *
283059 TTTAAATTTGTTTAAAA
1 TTTAAATTTATTTTAAA
283076 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
283093 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
283110 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
283127 TTTAAAATTATTTTCAAA
1 TTTAAATTTATTTT-AAA
283145 TTTAAAATTTA
1 TTT-AAATTTA
283156 AAATAAAACC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
17 59 0.84
18 5 0.07
19 6 0.09
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:283084 original size:6 final size:6
Alignment explanation
Indices: 283073--283157 Score: 79
Period size: 6 Copynumber: 14.5 Consensus size: 6
283063 AATTTGTTTA
* *
283073 AAATTT AAATTT -ATTTT AAATTT AAATTT -ATTTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * *
283119 -AATTT AAGTTT AAAATT -ATTTT CAAATTT AAAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT -AAATTT -AAATTT AAA
283158 ATAAAACCCA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
5 16 0.25
6 37 0.59
7 10 0.16
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (6 bp):
AAATTT
Found at i:283090 original size:11 final size:11
Alignment explanation
Indices: 283076--283148 Score: 50
Period size: 11 Copynumber: 6.9 Consensus size: 11
283066 TTGTTTAAAA
283076 TTTAAATTTAT
1 TTTAAATTTAT
283087 TTT-AA---AT
1 TTTAAATTTAT
283094 -TTAAATTTAT
1 TTTAAATTTAT
*
283104 TTTAAATTTAAA
1 TTTAAATTT-AT
*
283116 TTT-AATTTAAG
1 TTTAAATTT-AT
*
283127 TTTAAAATTAT
1 TTTAAATTTAT
283138 TTTCAAATTTA
1 TTT-AAATTTA
283149 AAATTTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
6 2 0.04
7 4 0.08
10 4 0.08
11 25 0.51
12 14 0.29
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:285053 original size:29 final size:28
Alignment explanation
Indices: 285005--285198 Score: 153
Period size: 28 Copynumber: 6.7 Consensus size: 28
284995 TATTACCTCC
*
285005 AAAAATCCCATTTTTGACCCCGAACCTTCTA
1 AAAAATACCA-TTTT-ACCCCGAACCTTC-A
*
285036 AAAAATACCATTTTACCCCCGAA-CTTCC
1 AAAAATACCATTTTA-CCCCGAACCTTCA
* *
285064 AAAAATCCCATTTTTGA-CCCGTACCTTCTA
1 AAAAATACCA-TTTT-ACCCCGAACCTTC-A
* * * *
285094 AAAATTACCATTTTACCCCTAAACTTCC
1 AAAAATACCATTTTACCCCGAACCTTCA
285122 AAAAAT-CCATTTTTGACCCCGAACCTTTCA
1 AAAAATACCA-TTTT-ACCCCGAACC-TTCA
* *
285152 AAAATTACCATTTTACCCTCGAA-CTTCC
1 AAAAATACCATTTTACCC-CGAACCTTCA
* *
285180 AAAACTACCATTTTGCCCC
1 AAAAATACCATTTTACCCC
285199 CGTGCATCCG
Statistics
Matches: 133, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
27 4 0.03
28 43 0.32
29 38 0.29
30 36 0.27
31 12 0.09
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAAATACCATTTTACCCCGAACCTTCA
Found at i:285109 original size:58 final size:59
Alignment explanation
Indices: 285002--285193 Score: 291
Period size: 58 Copynumber: 3.3 Consensus size: 59
284992 TTTTATTACC
*
285002 TCCAAAAATCCCATTTTTGACCCCGAACCTTCTAAAAAATACCATTTTACCCCCGAACT
1 TCCAAAAATCCCATTTTTGACCCCGAACCTTCTAAAAATTACCATTTTACCCCCGAACT
* **
285061 TCCAAAAATCCCATTTTTGA-CCCGTACCTTCTAAAAATTACCATTTTACCCCTAAACT
1 TCCAAAAATCCCATTTTTGACCCCGAACCTTCTAAAAATTACCATTTTACCCCCGAACT
*
285119 TCCAAAAAT-CCATTTTTGACCCCGAACCTT-TCAAAAATTACCATTTTACCCTCGAACT
1 TCCAAAAATCCCATTTTTGACCCCGAACCTTCT-AAAAATTACCATTTTACCCCCGAACT
* *
285177 TCCAAAACTACCATTTT
1 TCCAAAAATCCCATTTT
285194 GCCCCCGTGC
Statistics
Matches: 121, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
57 11 0.09
58 83 0.69
59 27 0.22
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.31
Consensus pattern (59 bp):
TCCAAAAATCCCATTTTTGACCCCGAACCTTCTAAAAATTACCATTTTACCCCCGAACT
Found at i:298837 original size:18 final size:18
Alignment explanation
Indices: 298812--298854 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
298802 CGTCGAGCCC
*
298812 GAACCAGAACCCGAAGCA
1 GAACCAGAACCCGAACCA
* *
298830 GCACCAGAACCGGAACCA
1 GAACCAGAACCCGAACCA
298848 GAACCAG
1 GAACCAG
298855 CTCTGGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.35, G:0.23, T:0.00
Consensus pattern (18 bp):
GAACCAGAACCCGAACCA
Found at i:298851 original size:6 final size:6
Alignment explanation
Indices: 298812--298854 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
298802 CGTCGAGCCC
* * * *
298812 GAACCA GAACCC GAAGCA GCACCA GAACCG GAACCA GAACCA G
1 GAACCA GAACCA GAACCA GAACCA GAACCA GAACCA GAACCA G
298855 CTCTGGTTGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.42, C:0.35, G:0.23, T:0.00
Consensus pattern (6 bp):
GAACCA
Found at i:311077 original size:51 final size:51
Alignment explanation
Indices: 310900--311079 Score: 222
Period size: 51 Copynumber: 3.5 Consensus size: 51
310890 CCGTGTAGAA
* * ** * * *
310900 ATTCATATACTCACGACAACACTGAGTCATCAGACCTTTAAT-TCGTCA-TGG
1 ATTCATTTACTCACAATGACACTTAGTCATCGGACCTTTAATCT-GT-AGAGG
*
310951 ATTCATTTACTCACAATGACAC-TAATCATCGGACCTTTAATCTGTAGAGG
1 ATTCATTTACTCACAATGACACTTAGTCATCGGACCTTTAATCTGTAGAGG
* *
311001 ATTCGTTTACTCACGATGACACTTAGTCATCGGACCTTTAATCTGTAGAGG
1 ATTCATTTACTCACAATGACACTTAGTCATCGGACCTTTAATCTGTAGAGG
*
311052 ATTCATTTACTCACAATGACTCTTAGTC
1 ATTCATTTACTCACAATGACACTTAGTC
311080 GTCGAACTCT
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 40 0.36
51 71 0.63
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (51 bp):
ATTCATTTACTCACAATGACACTTAGTCATCGGACCTTTAATCTGTAGAGG
Found at i:316868 original size:21 final size:21
Alignment explanation
Indices: 316844--316897 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
316834 CTTGTACTAG
316844 TTCTACCGATACAAGTATAAT
1 TTCTACCGATACAAGTATAAT
*
316865 TTCTACCAATACAAGTATAAT
1 TTCTACCGATACAAGTATAAT
316886 TTCTACCGATAC
1 TTCTACCGATAC
316898 TAAAAATTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (21 bp):
TTCTACCGATACAAGTATAAT
Found at i:317743 original size:17 final size:20
Alignment explanation
Indices: 317721--317763 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
317711 AGGATCAAAT
317721 AGAAGA-CAAAG-G-AAAAG
1 AGAAGAGCAAAGAGTAAAAG
*
317738 AGAAGAGCAAAGAGTGAAAG
1 AGAAGAGCAAAGAGTAAAAG
317758 AGAAGA
1 AGAAGA
317764 AAATCAACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 1 0.05
20 10 0.45
ACGTcount: A:0.60, C:0.05, G:0.33, T:0.02
Consensus pattern (20 bp):
AGAAGAGCAAAGAGTAAAAG
Found at i:318737 original size:23 final size:23
Alignment explanation
Indices: 318612--318784 Score: 147
Period size: 23 Copynumber: 7.5 Consensus size: 23
318602 ACACTAACGC
* *
318612 GCTCTCTGTTTAGCAC-GTCTCAT
1 GCTCTCTGTTTAGCACTGTGT-GT
* *
318635 GCTCTCTGTTATTAGCATTGTGTGG
1 GCTCTCTG-T-TTAGCACTGTGTGT
* *
318660 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* *
318683 GCTCTCTGATTAGTACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
318706 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* *
318729 GCTCTCTGTTGCCAGCACT-TATGT
1 GCTCTCTGTT--TAGCACTGTGTGT
* *
318753 GCTCTCTG-TTAGTACTTTG-GT
1 GCTCTCTGTTTAGCACTGTGTGT
*
318774 ACTCTCTGTTT
1 GCTCTCTGTTT
318785 GTTCCGTATA
Statistics
Matches: 123, Mismatches: 20, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
21 14 0.11
22 3 0.02
23 70 0.57
24 13 0.11
25 20 0.16
26 3 0.02
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:320103 original size:62 final size:60
Alignment explanation
Indices: 320000--320175 Score: 174
Period size: 51 Copynumber: 3.0 Consensus size: 60
319990 CTCACGATAA
* * * *
320000 CACTGAGTCATCGGACCTTTATTTCGTCA-TGGATTCATTTACTCACAATGACACTAGTCAT
1 CACTTAGTCATCGGACCTTTAATCCGT-AGAGGATTCATTTACTCAC-ATGACACTAGTCAT
* **
320061 GACATTAGTCATCGGACCTTTAATCCGTAGAGGATTTGTTTACT--CATG--A-T-G--A-
1 CAC-TTAGTCATCGGACCTTTAATCCGTAGAGGATTCATTTACTCACATGACACTAGTCAT
320113 CACTTAGTCATCGGACCTTTAATCCGTAGAGGATTCATTTACTCACGATGACACTTAGTCAT
1 CACTTAGTCATCGGACCTTTAATCCGTAGAGGATTCATTTACTCAC-ATGACAC-TAGTCAT
320175 C
1 C
320176 GGACTCTTTC
Statistics
Matches: 92, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
51 38 0.41
52 2 0.02
53 2 0.02
54 3 0.03
55 1 0.01
56 2 0.02
57 1 0.01
58 1 0.01
59 4 0.04
60 1 0.01
61 4 0.04
62 33 0.36
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (60 bp):
CACTTAGTCATCGGACCTTTAATCCGTAGAGGATTCATTTACTCACATGACACTAGTCAT
Found at i:320129 original size:51 final size:51
Alignment explanation
Indices: 320059--320184 Score: 209
Period size: 51 Copynumber: 2.5 Consensus size: 51
320049 GACACTAGTC
** *
320059 ATGACA-TTAGTCATCGGACCTTTAATCCGTAGAGGATTTGTTTACTCATG
1 ATGACACTTAGTCATCGGACCTTTAATCCGTAGAGGATTCATTTACTCACG
320109 ATGACACTTAGTCATCGGACCTTTAATCCGTAGAGGATTCATTTACTCACG
1 ATGACACTTAGTCATCGGACCTTTAATCCGTAGAGGATTCATTTACTCACG
320160 ATGACACTTAGTCATCGGACTCTTT
1 ATGACACTTAGTCATCGGAC-CTTT
320185 CGTTTATAGC
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 6 0.08
51 61 0.86
52 4 0.06
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (51 bp):
ATGACACTTAGTCATCGGACCTTTAATCCGTAGAGGATTCATTTACTCACG
Found at i:324386 original size:22 final size:24
Alignment explanation
Indices: 324361--324405 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
324351 CAATCGAGTA
*
324361 CCCAAAGCTTC-ATGT-AATCTTT
1 CCCAAAACTTCGATGTAAATCTTT
324383 CCCAAAACTTCGATGTAAATCTT
1 CCCAAAACTTCGATGTAAATCTT
324406 GGATCTCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (24 bp):
CCCAAAACTTCGATGTAAATCTTT
Found at i:329098 original size:23 final size:23
Alignment explanation
Indices: 328999--329125 Score: 98
Period size: 23 Copynumber: 5.4 Consensus size: 23
328989 CGAAGTACTT
328999 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
* *
329025 AACAATAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * *
329047 ATCAGTAGGCGCACAAAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * *
329069 AATCAGTAGGCACACAAGGTGTGA
1 AA-CAGTAAGCACACAAAGTGCGA
329093 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
329116 AACAATAAGC
1 AACAGTAAGC
329126 GCGCTAGCAT
Statistics
Matches: 81, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
22 18 0.22
23 42 0.52
24 3 0.04
26 13 0.16
27 5 0.06
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:342355 original size:2 final size:2
Alignment explanation
Indices: 342348--342372 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
342338 TGTGTTCTTT
342348 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
342373 TTTAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.