Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005735.1 Hibiscus syriacus cultivar Beakdansim tig00013404_pilon, 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: 89503
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:328 original size:33 final size:34
Alignment explanation
Indices: 258--330 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
248 CCTTTTGTAA
* * *
258 AGGGAAAATGTTCTAGCTTATCCCATGTAAAAACT
1 AGGG-AAATGTTCTAGCTTAGCCCAGGAAAAAACT
*
293 AGGGAAATGTTCTAGTTTAGCCC-GGAAAAAACT
1 AGGGAAATGTTCTAGCTTAGCCCAGGAAAAAACT
326 AGGGA
1 AGGGA
331 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 13 0.38
34 17 0.50
35 4 0.12
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (34 bp):
AGGGAAATGTTCTAGCTTAGCCCAGGAAAAAACT
Found at i:1243 original size:16 final size:18
Alignment explanation
Indices: 1199--1246 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
1189 GGGCACCGAT
*
1199 GAGAAGAAAGAAAAACAA
1 GAGAATAAAGAAAAACAA
* *
1217 GAGAATGAAGAAAGA-AA
1 GAGAATAAAGAAAAACAA
1234 G-GAATAAAGAAAA
1 GAGAATAAAGAAAA
1247 TTTGAAGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 10 0.40
17 3 0.12
18 12 0.48
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (18 bp):
GAGAATAAAGAAAAACAA
Found at i:1410 original size:17 final size:19
Alignment explanation
Indices: 1374--1415 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
1364 ATTATGTTAA
1374 TGTTATTTTTATAAATTTT
1 TGTTATTTTTATAAATTTT
1393 TGTTATTTTTA-AAA-TTT
1 TGTTATTTTTATAAATTTT
1410 TGTTAT
1 TGTTAT
1416 GTTAATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 9 0.39
18 3 0.13
19 11 0.48
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (19 bp):
TGTTATTTTTATAAATTTT
Found at i:3310 original size:2 final size:2
Alignment explanation
Indices: 3303--3352 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
3293 TTTTTAACAC
*
3303 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3345 TA T- TA TA T
1 TA TA TA TA T
3353 TATGAAACAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4638 original size:19 final size:19
Alignment explanation
Indices: 4614--4651 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4604 ATTCCAAATA
4614 CAAAATAGGTACCGATACT
1 CAAAATAGGTACCGATACT
4633 CAAAATAGGTACCGATACT
1 CAAAATAGGTACCGATACT
4652 ACTTTGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (19 bp):
CAAAATAGGTACCGATACT
Found at i:7081 original size:3 final size:3
Alignment explanation
Indices: 7073--7134 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
7063 TGATTATTTA
* * *
7073 TTC TTC TTC CT- TTC TTC ATTC TTC TTT TTT TTC TTC ATTC TTC TT-
1 TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC -TTC TTC TTC
7118 TT- TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC
7135 ATTTCTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 5 0.10
3 40 0.78
4 6 0.12
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:7107 original size:19 final size:19
Alignment explanation
Indices: 7083--7145 Score: 92
Period size: 19 Copynumber: 3.2 Consensus size: 19
7073 TTCTTCTTCC
7083 TTTCTTCATTCTTCTTTTT
1 TTTCTTCATTCTTCTTTTT
7102 TTTCTTCATTCTTCTTTTT
1 TTTCTTCATTCTTCTTTTT
7121 TCTTCTTC-TTCTTCATTTCTT
1 T-TTCTTCATTCTTC-TTT-TT
7142 TTTC
1 TTTC
7146 CTTCTCCTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 26 0.63
20 12 0.29
21 3 0.07
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTCTTCATTCTTCTTTTT
Found at i:7115 original size:26 final size:26
Alignment explanation
Indices: 7073--7137 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
7063 TGATTATTTA
* *
7073 TTCTTCTTCCTTTCTTCATTCTTCTTT
1 TTCTTCTT-CATTCTTCATTCTTCTTC
* * *
7100 TTTTTCTTCATTCTTCTTTTTTCTTC
1 TTCTTCTTCATTCTTCATTCTTCTTC
7126 TTCTTCTTCATT
1 TTCTTCTTCATT
7138 TCTTTTTCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 25 0.78
27 7 0.22
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (26 bp):
TTCTTCTTCATTCTTCATTCTTCTTC
Found at i:7149 original size:24 final size:26
Alignment explanation
Indices: 7103--7150 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
7093 CTTCTTTTTT
*
7103 TTCTTCATTCTTCTTTTTTCTTCTTC
1 TTCTTCATTCTTCTTTTTCCTTCTTC
7129 TTCTTCA-T-TTCTTTTTCCTTCT
1 TTCTTCATTCTTCTTTTTCCTTCT
7151 CCTATTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 1 0.05
26 7 0.33
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (26 bp):
TTCTTCATTCTTCTTTTTCCTTCTTC
Found at i:11183 original size:18 final size:18
Alignment explanation
Indices: 11160--11194 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11150 TTCCATCCGG
*
11160 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
11178 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
11195 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:28361 original size:2 final size:2
Alignment explanation
Indices: 28354--28501 Score: 224
Period size: 2 Copynumber: 73.5 Consensus size: 2
28344 AGCTGAAAGA
* * * * *
28354 AT AT AT AT GT AT AT AC AT CAT CT AT CT AT AT AT AT AT AT AT CT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
*
28397 AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28439 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
28481 AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT A
28502 AAGAAGGGAG
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
2 129 0.98
3 2 0.02
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31823 original size:60 final size:59
Alignment explanation
Indices: 31710--31840 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 59
31700 TTTTAAATAT
* * **
31710 TTCAATTTCATCCCTAAATTATGACTATCATTCTAAATTAGTCCTTAAACTTTTGAACA
1 TTCAATTTCATCCCTAAACTATGACTATCATTCTAAATTAGGCCCCAAACTTTTGAACA
* *
31769 CTTCAATTTCATCTCC-AAACTATGACCT-TCATTCTAAATT-GGCCCCAAACCTTTTTAATA
1 -TTCAATTTCATC-CCTAAACTATGA-CTATCATTCTAAATTAGGCCCCAAA-CTTTTGAACA
31829 TTCTAATTTCAT
1 TTC-AATTTCAT
31841 ACCAAAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
59 9 0.15
60 48 0.79
61 4 0.07
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (59 bp):
TTCAATTTCATCCCTAAACTATGACTATCATTCTAAATTAGGCCCCAAACTTTTGAACA
Found at i:32292 original size:16 final size:16
Alignment explanation
Indices: 32271--32303 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32261 GGTGGTAGCG
*
32271 ATACCCCTCATAGGGT
1 ATACCCCACATAGGGT
32287 ATACCCCACATAGGGT
1 ATACCCCACATAGGGT
32303 A
1 A
32304 CCGATACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (16 bp):
ATACCCCACATAGGGT
Found at i:33853 original size:22 final size:21
Alignment explanation
Indices: 33802--33878 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
33792 TTGATTCATG
*
33802 GGGTATCGATACCTGTATGAATA
1 GGGTATCGATACC--TATGAAGA
33825 --GTATCGATACCATATGGAAG-
1 GGGTATCGATACC-TAT-GAAGA
*
33845 GGGTATCGATACCTATGAGGA
1 GGGTATCGATACCTATGAAGA
*
33866 GGGTATTGATACC
1 GGGTATCGATACC
33879 CGAGGAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
20 6 0.13
21 29 0.63
22 11 0.24
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (21 bp):
GGGTATCGATACCTATGAAGA
Found at i:33955 original size:20 final size:19
Alignment explanation
Indices: 33902--33952 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
33892 AGCAAATTTT
*
33902 GGTATCAGTACCTAGATAG
1 GGTATCGGTACCTAGATAG
33921 GGTATCGGTATCCTAG-TAG
1 GGTATCGGTA-CCTAGATAG
33940 AGGTATCGGTACC
1 -GGTATCGGTACC
33953 CTAAGGGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (19 bp):
GGTATCGGTACCTAGATAG
Found at i:35064 original size:31 final size:32
Alignment explanation
Indices: 35015--35097 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 32
35005 GTTACTTTTA
*
35015 TCATTCGGGAC--ATGGACAGTTTACCTATG-
1 TCATTCGGGACATATGGACAGGTTACCTATGT
35044 TCATTCGGGACATATGGACAGGTTACCTATGT
1 TCATTCGGGACATATGGACAGGTTACCTATGT
** *
35076 TC-TTCGAAACATATGGATAGGT
1 TCATTCGGGACATATGGACAGGT
35098 CATTCGGGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
29 11 0.23
31 34 0.72
32 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (32 bp):
TCATTCGGGACATATGGACAGGTTACCTATGT
Found at i:36331 original size:22 final size:20
Alignment explanation
Indices: 36306--36345 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
36296 CGCTGAATGT
36306 TGAACGGTTCAACATTCAGCGA
1 TGAACGGTTC--CATTCAGCGA
*
36328 TGAATGGTTCCATTCAGC
1 TGAACGGTTCCATTCAGC
36346 AGTAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (20 bp):
TGAACGGTTCCATTCAGCGA
Found at i:37821 original size:12 final size:13
Alignment explanation
Indices: 37790--37821 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37780 GGCCATCTCT
37790 TCTTCA-TCATCG
1 TCTTCATTCATCG
37802 TCTTCATTCATC-
1 TCTTCATTCATCG
37814 TCTTCATT
1 TCTTCATT
37822 TGAATCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.16, C:0.31, G:0.03, T:0.50
Consensus pattern (13 bp):
TCTTCATTCATCG
Found at i:47613 original size:174 final size:173
Alignment explanation
Indices: 47318--47653 Score: 606
Period size: 171 Copynumber: 1.9 Consensus size: 173
47308 ATTTAACTAT
47318 CTGAATTCAATCGAACTCTTAGATCTCAATAATCATTTATCTCAAATTTGAATCCTTTTACTATC
1 CTGAATTCAATCGAACTCTTAGATCTCAATAATCATTTATCTCAAATTTGAATCCTTTTACTATC
47383 ATATCTCTAAATATTTAATCGATACTATCTCTCTAATTATCGATTCTATTA-TTTTTTT-AATCA
66 ATATCTCTAAATATTTAATCGATACTATCTCTCTAATTATCGATTCTATTATTTTTTTTAAATCA
47446 TCCTAGCCCTCTACGCTGAGGATAGGATTTATAATGGAAAAAA
131 TCCTAGCCCTCTACGCTGAGGATAGGATTTATAATGGAAAAAA
47489 CTGAATTCAATCGAACTCTTAGATCTCAATAATCATTTATCTCAAATTTTATGAATCCTTTTACT
1 CTGAATTCAATCGAACTCTTAGATCTCAATAATCATTTATCTCAAA--TT-TGAATCCTTTTACT
47554 ATCATATCTCTAAATATTTAATCGATTACTATCTCTCTAATTATCGATTCT-TTATTTTTTTTTA
63 ATCATATCTCTAAATATTTAATCGA-TACTATCTCTCTAATTATCGATTCTATTA-TTTTTTTTA
47618 AATCATCCTAGCCCTCTACGCTGAGGATAGGATTTA
126 AATCATCCTAGCCCTCTACGCTGAGGATAGGATTTA
47654 AAAAAGAACT
Statistics
Matches: 158, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
171 46 0.29
173 2 0.01
174 42 0.27
175 25 0.16
176 7 0.04
177 36 0.23
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.41
Consensus pattern (173 bp):
CTGAATTCAATCGAACTCTTAGATCTCAATAATCATTTATCTCAAATTTGAATCCTTTTACTATC
ATATCTCTAAATATTTAATCGATACTATCTCTCTAATTATCGATTCTATTATTTTTTTTAAATCA
TCCTAGCCCTCTACGCTGAGGATAGGATTTATAATGGAAAAAA
Found at i:50738 original size:20 final size:21
Alignment explanation
Indices: 50715--50753 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
50705 TTCATTTTAA
50715 TTAATGATTGTGTG-TTTTGT
1 TTAATGATTGTGTGATTTTGT
*
50735 TTAATTATTGTGTGATTTT
1 TTAATGATTGTGTGATTTT
50754 TAAACACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.62
Consensus pattern (21 bp):
TTAATGATTGTGTGATTTTGT
Found at i:53788 original size:22 final size:22
Alignment explanation
Indices: 53755--53799 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
53745 CAAAATTACC
53755 AATATTTAAAACTAAACCTAAT
1 AATATTTAAAACTAAACCTAAT
53777 AATATATT-AAACTAAACCTAAT
1 AATAT-TTAAAACTAAACCTAAT
53799 A
1 A
53800 GCTGATCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (22 bp):
AATATTTAAAACTAAACCTAAT
Found at i:58331 original size:2 final size:2
Alignment explanation
Indices: 58321--58354 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
58311 CAAGCAAAAA
58321 AT AT A- 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 AT AT A
58355 GAATAAAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:60033 original size:23 final size:23
Alignment explanation
Indices: 60007--60067 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
59997 CTCATATAAA
*
60007 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
60030 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
60053 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
60068 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:60233 original size:77 final size:77
Alignment explanation
Indices: 60106--60254 Score: 298
Period size: 77 Copynumber: 1.9 Consensus size: 77
60096 CATTCCTTAA
60106 GAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
1 GAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
60171 TACATATGTCCT
66 TACATATGTCCT
60183 GAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
1 GAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
60248 TACATAT
66 TACATAT
60255 ATGTCCCGAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (77 bp):
GAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
TACATATGTCCT
Found at i:60362 original size:103 final size:103
Alignment explanation
Indices: 60183--60377 Score: 381
Period size: 103 Copynumber: 1.9 Consensus size: 103
60173 CATATGTCCT
60183 GAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
1 GAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
60248 TACATATATGTCCCGAAGGACCACATATCATTCCTTAA
66 TACATATATGTCCCGAAGGACCACATATCATTCCTTAA
60286 GAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
1 GAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
*
60351 TACATATATGTCCCGAATGACCACATA
66 TACATATATGTCCCGAAGGACCACATA
60378 GACTCTCGAC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 91 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
GAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
TACATATATGTCCCGAAGGACCACATATCATTCCTTAA
Found at i:60917 original size:15 final size:15
Alignment explanation
Indices: 60897--60926 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60887 ATAAACTTAC
60897 TCATATTCTCATATA
1 TCATATTCTCATATA
*
60912 TCATATTTTCATATA
1 TCATATTCTCATATA
60927 ATTTGTATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (15 bp):
TCATATTCTCATATA
Found at i:61487 original size:16 final size:16
Alignment explanation
Indices: 61466--61496 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61456 TGTAATACAG
*
61466 ATAATCACATATAATT
1 ATAATCACACATAATT
61482 ATAATCACACATAAT
1 ATAATCACACATAAT
61497 CATGTCTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATCACACATAATT
Found at i:62933 original size:80 final size:82
Alignment explanation
Indices: 62722--63626 Score: 860
Period size: 83 Copynumber: 11.0 Consensus size: 82
62712 ACCCTCAAAA
* *
62722 AAAGACATTCGAGTTCGATTACACTT-AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
1 AAAGACCTTCGAGTTCGATTACA-TTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCA
* *
62786 AGAAGAGCTATCTGCCAAC
65 AGAAGGGCTATCTGTC-AC
* * *
62805 AAAAGACCTTCGAGTTCGATTACGTTCAGCTCAAAGGAACATCATTTGCAGCATAGCTCAAGGCA
1 -AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCA
62870 AGAAGGGCTATCTG-C-C
65 AGAAGGGCTATCTGTCAC
* *
62886 AAAGACCTTCGAGTTCGATTCCATTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAA
*
62951 GAAGGGATATCTGTCAAC
66 GAAGGGCTATCTGTC-AC
* * * * * *
62969 AAAGACCTTCGAGTTCTATTACACTT-AGCTCAAATGCACATCATTTGCAACATAGTTTAAGGCA
1 AAAGACCTTCGAGTTCGATTACA-TTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCA
* *
63033 AGAAGGGATATCT-AC-C
65 AGAAGGGCTATCTGTCAC
* * * * * * *
63049 AAATACCTTCGAGTTCGATTACACTCAGCTAAAAGGTACATCATTTACAACATAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAA
*
63114 GAAGGGTTATCTGTCAAC
66 GAAGGGCTATCTGTC-AC
* * * * **
63132 AAAGACCTTTGAGTTCGATTACACTCAGTTCTAAGGCACATCATTTGTAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAA
*
63197 GAAGGGTTATCTG-C-C
66 GAAGGGCTATCTGTCAC
* *
63212 AAAGACCTTCGAGTTCGATTACACTT-AGCTCAAAGGCACATCATTTACA-CTATAACTAAAGGC
1 AAAGACCTTCGAGTTCGATTACA-TTCAGCTCAAAGGCACATCATTTACAGC-ATAGCTCAAGGC
* *
63275 GAGAAGGGTTATCTGTCATC
64 AAGAAGGGCTATCTGTCA-C
** * * * * * * * *
63295 AAATTCATTTGAGTTTGATTATATTCAACTCAAAGGCATATCAAATTTAAAGCATAACTCAAGGC
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATC--ATTTACAGCATAGCTCAAGGC
*
63360 --G-A--G-AATCTGTCATC
64 AAGAAGGGCTATCTGTCA-C
* *
63374 AAAGACCTTCGAGTTCGATTACATTCAGCTCAGAGGCATATCAAATTTACAGCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATC--ATTTACAGCATAGCTCAAGGC
*
63439 GAGAAGGGCTATCTGTCAAC
64 AAGAAGGGCTATCTGTC-AC
* * *
63459 AATGAAACCTTCAAGTTCGATTACATTCAGCTC-AAGG-ACATGTCAAATTTACAGCATAGCTTA
1 AA--AGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACA--TC--ATTTACAGCATAGCTCA
* ** *
63522 AAGTGAGAAGAGCTATCTGTCAC
60 AGGCAAGAAGGGCTATCTGTCAC
* * * * * *
63545 CAA-ACCTTTGAGTTCGATTACATTCAGTTC-ATGGACATATCAAATTTACAGCATAACTCAAGG
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGG-CACATC--ATTTACAGCATAGCTCAAGG
* *
63608 CGAGAAGGGCTATTTGTCA
63 CAAGAAGGGCTATCTGTCA
63627 ACAAGAATTT
Statistics
Matches: 700, Mismatches: 90, Indels: 63
0.82 0.11 0.07
Matches are distributed among these distances:
79 67 0.10
80 205 0.29
81 6 0.01
82 6 0.01
83 237 0.34
84 75 0.11
85 31 0.04
86 8 0.01
87 65 0.09
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (82 bp):
AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAA
GAAGGGCTATCTGTCAC
Found at i:63066 original size:163 final size:163
Alignment explanation
Indices: 62722--63630 Score: 899
Period size: 163 Copynumber: 5.5 Consensus size: 163
62712 ACCCTCAAAA
* *
62722 AAAGACATTCGAGTTCGATTACACTT-AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
1 AAAGACCTTCGAGTTCGATTACA-TTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCA
* * * *
62786 AGAAGAGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACGTTCAGCTCAAAGGAACATCATT
65 AGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATT
* *
62851 TGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
129 TGCAACATAGCTCAAGGCAAGAAGGGCTATCTACC
* *
62886 AAAGACCTTCGAGTTCGATTCCATTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAA
* * *
62951 GAAGGGATATCTGTCAACAAAGACCTTCGAGTTCTATTACACTT-AGCTCAAATGCACATCATTT
66 GAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACA-TTCAGCTCAAAGGCACATCATTT
* * *
63015 GCAACATAGTTTAAGGCAAGAAGGGATATCTACC
130 GCAACATAGCTCAAGGCAAGAAGGGCTATCTACC
* * * * * * *
63049 AAATACCTTCGAGTTCGATTACACTCAGCTAAAAGGTACATCATTTACAACATAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAA
* * * * *
63114 GAAGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACACTCAGTTCTAAGGCACATCATTTG
66 GAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTG
* * * *
63179 TAGCATAGCTCAAGGCAAGAAGGGTTATCTGCC
131 CAACATAGCTCAAGGCAAGAAGGGCTATCTACC
* *
63212 AAAGACCTTCGAGTTCGATTACACTT-AGCTCAAAGGCACATCATTTACA-CTATAACTAAAGGC
1 AAAGACCTTCGAGTTCGATTACA-TTCAGCTCAAAGGCACATCATTTACAGC-ATAGCTCAAGGC
* * * ** * * * * * *
63275 GAGAAGGGTTATCTGTCATCAAATTCATTTGAGTTTGATTATATTCAACTCAAAGGCATATCAAA
64 AAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATC--A
* * * * * *
63340 TTT-AAAGCATAACTCAAGGCGAGAA--TCTGTC-ATC
127 TTTGCAA-CATAGCTCAAGGCAAGAAGGGCTATCTACC
* *
63374 AAAGACCTTCGAGTTCGATTACATTCAGCTCAGAGGCATATCAAATTTACAGCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATC--ATTTACAGCATAGCTCAAGGC
* * *
63439 GAGAAGGGCTATCTGTCAACAATGAAACCTTCAAGTTCGATTACATTCAGCTC-AAGG-ACATGT
64 AAGAAGGGCTATCTGTCAACAA--AGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACA--T
* * * * ** *
63502 CAAATTTACAGCATAGCTTAAAGTGAGAAGAGCTATCTGTCACC
125 C--ATTTGCAACATAGCTCAAGGCAAGAAGGGCTATC--T-ACC
* * * * *
63546 -AA-ACCTTTGAGTTCGATTACATTCAGTTC-ATGGACATATCAAATTTACAGCATAACTCAAGG
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGG-CACATC--ATTTACAGCATAGCTCAAGG
* *
63608 CGAGAAGGGCTATTTGTCAACAA
63 CAAGAAGGGCTATCTGTCAACAA
63631 GAATTTCCAA
Statistics
Matches: 629, Mismatches: 92, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
161 2 0.00
162 40 0.06
163 316 0.50
164 118 0.19
165 25 0.04
166 43 0.07
167 1 0.00
168 4 0.01
169 2 0.00
170 74 0.12
171 2 0.00
172 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (163 bp):
AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAA
GAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTG
CAACATAGCTCAAGGCAAGAAGGGCTATCTACC
Found at i:64305 original size:20 final size:20
Alignment explanation
Indices: 64282--64319 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64272 GACTATCGTA
64282 AATAGTGACCGACGGTGGTG
1 AATAGTGACCGACGGTGGTG
* *
64302 AATAGTGATCGATGGTGG
1 AATAGTGACCGACGGTGG
64320 CAGCGCACGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.39, T:0.24
Consensus pattern (20 bp):
AATAGTGACCGACGGTGGTG
Found at i:64782 original size:21 final size:23
Alignment explanation
Indices: 64747--64789 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
64737 TTCATTTTAA
64747 TTAATTATTTTGTGTG-TTTTTGT
1 TTAATTA-TTTGTGTGATTTTTGT
64770 TTAATTA-TTGTGTGATTTTT
1 TTAATTATTTGTGTGATTTTT
64790 AAACACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.67
Consensus pattern (23 bp):
TTAATTATTTGTGTGATTTTTGT
Found at i:65985 original size:16 final size:16
Alignment explanation
Indices: 65964--65998 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
65954 TTATATTTTC
65964 AAAAATAATATTATTG
1 AAAAATAATATTATTG
65980 AAAAATAATATTATTG
1 AAAAATAATATTATTG
65996 AAA
1 AAA
65999 GACGACGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
AAAAATAATATTATTG
Found at i:68912 original size:17 final size:17
Alignment explanation
Indices: 68887--68928 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
68877 ATGAGCTACA
*
68887 TTAACTTTATTTTTCCT
1 TTAAGTTTATTTTTCCT
68904 TTAAGTTTATTTTTCCT
1 TTAAGTTTATTTTTCCT
68921 TTAAGTTT
1 TTAAGTTT
68929 GACACTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (17 bp):
TTAAGTTTATTTTTCCT
Found at i:69127 original size:2 final size:2
Alignment explanation
Indices: 69120--69166 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
69110 TTAACATTTC
69120 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
69162 TA TA T
1 TA TA T
69167 TTAGTTATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:69249 original size:3 final size:3
Alignment explanation
Indices: 69224--69302 Score: 53
Period size: 3 Copynumber: 27.3 Consensus size: 3
69214 TTTTTCTTAC
* *
69224 TAT TA- TAT TA- TAT TAT T-T T-T TAT TAT TAT TTT TGT CT-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* *
69265 TAT TAT TAT T-G TAT AATT TAT TAT TAT TAT TAT ATAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT T
69303 CTATACATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 10 0.16
3 46 0.74
4 6 0.10
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:69252 original size:18 final size:18
Alignment explanation
Indices: 69242--69276 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
69232 TATATTATTT
69242 TTTATTATTATTTTTGTC
1 TTTATTATTATTTTTGTC
*
69260 TTTATTATTATTATTGT
1 TTTATTATTATTTTTGT
69277 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTATTATTATTTTTGTC
Found at i:69284 original size:21 final size:21
Alignment explanation
Indices: 69224--69300 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
69214 TTTTTCTTAC
* *
69224 TATTA-TATTATATTATTTTT
1 TATTATTATTATATAATTTAT
* **
69244 TATTATTATT-TTTGTCTTTAT
1 TATTATTATTATAT-AATTTAT
*
69265 TATTATTATTGTATAATTTAT
1 TATTATTATTATATAATTTAT
69286 TATTATTATTATATA
1 TATTATTATTATATA
69301 TTCTATACAT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
20 7 0.15
21 38 0.81
22 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (21 bp):
TATTATTATTATATAATTTAT
Found at i:69398 original size:18 final size:18
Alignment explanation
Indices: 69376--69436 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
69366 TTGTATTTCC
*
69376 TTTTTCTTTA-TTTCATT
1 TTTTTATTTACTTTCATT
*
69393 TGTTTTTTTTACTTTC-TT
1 T-TTTTATTTACTTTCATT
*
69411 TATTTTATTTATTTTCATT
1 T-TTTTATTTACTTTCATT
69430 TTTTTAT
1 TTTTTAT
69437 CTAACACGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.03
18 29 0.78
19 7 0.19
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTTATTTACTTTCATT
Found at i:72960 original size:53 final size:53
Alignment explanation
Indices: 72880--72988 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
72870 GACCAGATTG
72880 GCAGACAAAACTCGGGACTCCATCCAAGAGATAACACAAAATTCATTCATGTT
1 GCAGACAAAACTCGGGACTCCATCCAAGAGATAACACAAAATTCATTCATGTT
72933 GCAGACAAAAAC-CGGGACTCCATCCAAGAGATAACACAAAATTCATTCATGTT
1 GCAGAC-AAAACTCGGGACTCCATCCAAGAGATAACACAAAATTCATTCATGTT
72986 GCA
1 GCA
72989 TGCATCTTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 50 0.91
54 5 0.09
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (53 bp):
GCAGACAAAACTCGGGACTCCATCCAAGAGATAACACAAAATTCATTCATGTT
Found at i:73731 original size:165 final size:164
Alignment explanation
Indices: 73450--74647 Score: 940
Period size: 165 Copynumber: 7.2 Consensus size: 164
73440 TTTTTTTCTG
* * * * * * *
73450 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTGTCTG---CC-AGAGA-CTCTCGAGTTGGATTACA
1 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTCACCAAAAGACCT-TTGAGTTCGACTACA
* * * *
73510 CTCAGCTTCGAGGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-C
65 CTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACC
* ** * *
73574 TCTCGAGTTCGATTATACTCAGCTTCGAGGGCACATCA
129 T-TCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCA
* * * * * * **
73612 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTTCGACTATGC
1 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTCACCAAAAGACCTTTGAGTTCGACTACAC
* * *
73677 TCAGCTCCAAGGCATATCATTTGTAGCATAACTTAAGTCGAGAAGGTTTATCTGCCAACCAAAGA
66 TCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG----CCAAAGA
* *
73742 CCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATTA
127 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* * * *** *
73780 TTTGCAGCATAGCTTAAGTCGATAAGGGTTATCTG---CC-AAAGATCCCCCGAGTTCGATTACA
1 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTCACCAAAAGA-CCTTTGAGTTCGACTACA
* * *
73841 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAT
65 CTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-A--AA-
73906 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
125 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* * *** * *
73946 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CTAAAGACCCCCGACTTCGATTACAC
1 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTCACCAAAAGACCTTTGAGTTCGACTACAC
* * * * * * * * * *
74007 TCAGCTTCGAGGGCATATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAATA
66 TCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---CCAAAGA
* *
74072 CCTTCGATTTCGACTACGCTCAGCTCCAAGGCATATCA
127 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* * * * * * * * *
74110 TTTGCAGCACAACTTAAGTCTAGAAGGG-TCGTCTGCCAACAAAATACCTTTGAGTTTGACTACG
1 TTTGCAGCATAGCTTAAGTCAAGAAGGGCT-ATCTGTCACCAAAAGACCTTTGAGTTCGACTACA
* * * * *
74174 CTCAGCTCCAAGACGCATCATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
65 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCT
* * * *
74239 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCA
130 TCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCA
** * * * * * *
74275 TTTGCAATATAGCTCAAGGCAAGAAGGGCTAT-TTTCCAACAAAAGACTTTTGAGTTCGACTACG
1 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGT-CACCAAAAGACCTTTGAGTTCGACTACA
* * * * * *
74339 TTCAACTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTATAAGGGTTATCTGGCAACAAAGA
65 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-GC--CAAAGA
* * * * * *
74404 CCTTCGAGTTTGATTACACTCAGCTCAAAGGTACAACA
127 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* * * * *
74442 TTTGTAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACC-AAATA-CTTTCAAGTTCGATTAC
1 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTC-ACCAAAAGACCTTT-GAGTTCGACTAC
* * * * * ** *
74505 ACTCAGCTTCAGATGCATATCATTTGCAGCATAACTCAAGGT-TAGAAAAGTTATATGCCAACCA
64 ACTCAGCTCCA-AGGCACATCATTTGCAGCATAACTTAA-GTCGAGAAGGGTTATCTG----CCA
* *
74569 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAGGGCACATCA
123 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* * * *
74611 TTTACAGCATAGCTCAAGGCAAGAAGGGCTATATGTC
1 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTC
74648 GATAAAATTG
Statistics
Matches: 838, Mismatches: 158, Indels: 73
0.78 0.15 0.07
Matches are distributed among these distances:
162 31 0.04
163 2 0.00
164 98 0.12
165 236 0.28
166 145 0.17
167 101 0.12
168 129 0.15
169 93 0.11
170 2 0.00
171 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (164 bp):
TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTCACCAAAAGACCTTTGAGTTCGACTACAC
TCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTT
CGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
Found at i:74181 original size:248 final size:246
Alignment explanation
Indices: 73450--74638 Score: 1204
Period size: 248 Copynumber: 4.8 Consensus size: 246
73440 TTTTTTTCTG
* * * *
73450 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTGTCTGCCAGAGACTCTCGAGTTGGATTACACTCAG
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
* * *
73515 CTTCGAGGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG--CCAAAGA-CTCT
66 CTTCGAGGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCACCAAAGACCT-T
* ** * *
73577 CGAGTTCGATTATACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
130 CGAGTTCGACTACGCTCAGC-TCCAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTT
* * * * *
73642 ATCTGTCACCAAAAGACCTTTGAGTTCGACTATGCTCAGCTCCAAGGCATATCA
194 ATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* * * * * *
73696 TTTGTAGCATAACTTAAGTCGAGAAGGTTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCCTCGAGTTCGATTACAC
* * * * * * *
73761 TCAGC-TCCAAGACACATTATTTGCAGCATAGCTTAAGTCGATAAGGGTTATCTG--CCAAAGAT
62 TCAGCTTCGAGGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCACCAAAGA-
** * * * * * *
73823 CCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAG
126 CCTTCGAGTTCGACTACGCTCAGC-TCCAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAG
* *
73888 GGTTATCTTCCAACCAATGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
190 GGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* * * *
73946 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCCCCGACTTCGATTACACTCAG
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
* * * * * * *
74011 CTTCGAGGGCATATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAATACCTT
66 CTTCGAGGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTG-CACCAAAGACCTT
* * * * * * **
74076 CGATTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTCG
130 CGAGTTCGACTACGCTCAGCTCCAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTA
* * * * *
74141 TCTGCCAACAAAATACCTTTGAGTTTGACTACGCTCAGCTCCAAGACGCATCA
195 TCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
*
74194 TTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
** * * * * * *
74259 CTTCGAGGGCACATCATTTGCAATATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAGACTT
66 CTTCGAGGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGTTA-TCTGC-ACCAAAGACCT
* * * * *
74324 TTGAGTTCGACTACGTTCAACTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTATAAGGGTT
129 TCGAGTTCGACTACGCTCAGCTCCAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTT
* * * * * * *
74389 ATCTGGCAACAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGTACAACA
194 ATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* * * * ** *
74442 TTTGTAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACCAAATACTTTCAAGTTCGATTACAC
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCCTCGAGTTCGATTACAC
* * * ** ** *
74507 TCAGCTTC-AGATGCATATCATTTGCAGCATAACTCAAGGTTAGAAAAGTTATATGCCAACCAAA
62 TCAGCTTCGAG-GGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTG-C-ACCAAA
* * * *
74571 GACCTTTGAGTTCGACTACGCTCAGCTCCAGGGCACATCATTTACAGCATAGCTCAAGGCAAGAA
124 GACCTTCGAGTTCGACTACGCTCAGCTCCAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAA
74636 GGG
189 GGG
74639 CTATATGTCG
Statistics
Matches: 785, Mismatches: 138, Indels: 34
0.82 0.14 0.04
Matches are distributed among these distances:
246 56 0.07
247 37 0.05
248 249 0.32
249 143 0.18
250 167 0.21
251 6 0.01
252 127 0.16
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (246 bp):
TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
CTTCGAGGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCACCAAAGACCTTC
GAGTTCGACTACGCTCAGCTCCAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTAT
CTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
Found at i:74645 original size:84 final size:84
Alignment explanation
Indices: 73450--74621 Score: 983
Period size: 84 Copynumber: 14.1 Consensus size: 84
73440 TTTTTTTCTG
* * * * * *
73450 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTGTCTG----CCAGAGA-CTCTCGAGTTGGATTACA
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCT-TCGAGTTCGACTACG
* *
73510 CTCAGCTTCGAGGGCACATCA
65 CTCAGC-TCCAAGGCACATCA
* * * **
73531 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGA-CTCTCGAGTTCGATTATA
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCT-TCGAGTTCGACTACG
* *
73591 CTCAGCTTCGAGGGCACATCA
65 CTCAGC-TCCAAGGCACATCA
* * * * * * *
73612 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTTGAGTTCGACTATG
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACG
*
73676 CTCAGCTCCAAGGCATATCA
65 CTCAGCTCCAAGGCACATCA
* *
73696 TTTGTAGCATAACTTAAGTCGAGAAGGTTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* *
73761 TCAGCTCCAAGACACATTA
66 TCAGCTCCAAGGCACATCA
* * ** * *
73780 TTTGCAGCATAGCTTAAGTCGATAAGGGTTATCTG----CCAAAGATCCCCCGAGTTCGATTACA
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGA-CCTTCGAGTTCGACTACG
* *
73841 CTCAGCTTCGAGGGCACATCA
65 CTCAGC-TCCAAGGCACATCA
* *
73862 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAATGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
73927 TCAGCTCCAAGGCACATCA
66 TCAGCTCCAAGGCACATCA
* * * ** * * *
73946 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CTAAAGACCCCCGACTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* * *
74007 TCAGCTTCGAGGGCATATCA
66 TCAGC-TCCAAGGCACATCA
* * * * * * * * *
74027 TTTACAGTATAACTCAAGGCTAGAAGGGTTATTTGTC-ACCAAATACCTTCGATTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
*
74091 TCAGCTCCAAGGCATATCA
66 TCAGCTCCAAGGCACATCA
* * ** * * * *
74110 TTTGCAGCACAACTTAAGTCTAGAAGGGTCGTCTGCCAACAAAATACCTTTGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* *
74175 TCAGCTCCAAGACGCATCA
66 TCAGCTCCAAGGCACATCA
* * * * *
74194 TTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCCTCGAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* *
74255 TCAGCTTCGAGGGCACATCA
66 TCAGC-TCCAAGGCACATCA
** * * * * * * * * * * *
74275 TTTGCAATATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAGACTTTTGAGTTCGACTACGT
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
*
74340 TCAACTCCAAGGCACATCA
66 TCAGCTCCAAGGCACATCA
* * * * * * * *
74359 TTTGCAGCATAACTCAAGGCTATAAGGGTTATCTGGCAA-CAAAGACCTTCGAGTTTGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* * *
74423 TCAGCTCAAAGGTACAACA
66 TCAGCTCCAAGGCACATCA
* * * * * * * * *
74442 TTTGTAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACCAAATACTTTCAAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* * *
74507 TCAGCTTCAGATGCATATCA
66 TCAGCTCCA-AGGCACATCA
* * ** * *
74527 TTTGCAGCATAACTCAAGGT-TAGAAAAGTTATATGCCAACCAAAGACCTTTGAGTTCGACTACG
1 TTTGCAGCATAACTTAA-GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
74591 CTCAGCTCCAGGGCACATCA
65 CTCAGCTCCAAGGCACATCA
*
74611 TTTACAGCATA
1 TTTGCAGCATA
74622 GCTCAAGGCA
Statistics
Matches: 878, Mismatches: 188, Indels: 47
0.79 0.17 0.04
Matches are distributed among these distances:
80 55 0.06
81 201 0.23
82 42 0.05
83 104 0.12
84 335 0.38
85 131 0.15
86 10 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (84 bp):
TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATCA
Found at i:76166 original size:18 final size:18
Alignment explanation
Indices: 76142--76190 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
76132 ATTATACTAT
* *
76142 TTTTATTATTATT-TTTG
1 TTTTATTATTATTGTATA
76159 TCTTTATTATTATTGTATA
1 T-TTTATTATTATTGTATA
76178 TTTTATTATTATT
1 TTTTATTATTATT
76191 ATTATATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 1 0.04
18 24 0.86
19 3 0.11
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (18 bp):
TTTTATTATTATTGTATA
Found at i:76285 original size:18 final size:18
Alignment explanation
Indices: 76236--76321 Score: 79
Period size: 17 Copynumber: 4.7 Consensus size: 18
76226 CATATGCATA
*
76236 TTTA-TTTCGTTTATTTT
1 TTTACTTTCATTTATTTT
* *
76253 TTTATCTTTGTATTTCCTTTT
1 TTTA-CTTT-CATTT-ATTTT
76274 TTTA-TTTCATTTATTTT
1 TTTACTTTCATTTATTTT
76291 TTTACTTTC-TTTATTTT
1 TTTACTTTCATTTATTTT
*
76308 ATTTATTTTCATTT
1 -TTTACTTTCATTT
76322 TTTATCTAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
17 20 0.36
18 16 0.29
19 9 0.16
20 3 0.05
21 8 0.14
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTACTTTCATTTATTTT
Found at i:76324 original size:17 final size:16
Alignment explanation
Indices: 76270--76326 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 16
76260 TTGTATTTCC
76270 TTTT-TTTATTTCATT
1 TTTTATTTATTTCATT
* *
76285 TATTTTTTTACTTTCTTT
1 T-TTTATTTA-TTTCATT
76303 ATTTTATTTATTTTCATT
1 -TTTTATTTA-TTTCATT
76321 TTTTAT
1 TTTTAT
76327 CTAACATGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 1 0.03
16 3 0.09
17 10 0.29
18 19 0.56
19 1 0.03
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATTTATTTCATT
Found at i:78519 original size:2 final size:2
Alignment explanation
Indices: 78475--78507 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
78465 TTTTTTTTCA
*
78475 AT AT AT AT AT AT AT AT AT GT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78508 TAATTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:79910 original size:28 final size:28
Alignment explanation
Indices: 79857--79911 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
79847 GTCCGTTTAC
* * * *
79857 ATTATATTGTCGAGTCAGTGCTTGAAAT
1 ATTATATCGTCAAGTCAGTACCTGAAAT
79885 ATTATATCGTCAAGTCAGTACCTGAAA
1 ATTATATCGTCAAGTCAGTACCTGAAA
79912 GCAATGACGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (28 bp):
ATTATATCGTCAAGTCAGTACCTGAAAT
Found at i:80197 original size:3 final size:3
Alignment explanation
Indices: 80189--80237 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
80179 CTTCATCCAA
80189 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
80237 A
1 A
80238 ACTTTTAGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:81325 original size:2 final size:2
Alignment explanation
Indices: 81318--81347 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
81308 AATTAAATTA
81318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81348 TGTAAGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82176 original size:23 final size:23
Alignment explanation
Indices: 82150--82194 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
82140 AGATTTTTTA
*
82150 AAAATATATTAAGAATTAAATTG
1 AAAATATAATAAGAATTAAATTG
* *
82173 AAAATTTAATAATAATTAAATT
1 AAAATATAATAAGAATTAAATT
82195 AAATGAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
AAAATATAATAAGAATTAAATTG
Found at i:83783 original size:16 final size:16
Alignment explanation
Indices: 83762--83810 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 16
83752 ACTGACCCGA
83762 GTCCCTTATTTCGTGT
1 GTCCCTTATTTCGTGT
83778 GTCCCTTATTTTGACGTGT
1 GTCCCTTA-TTT--CGTGT
83797 GTCCCTTATTTCGT
1 GTCCCTTATTTCGT
83811 TGGCCTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 3 0.10
19 13 0.43
ACGTcount: A:0.08, C:0.24, G:0.18, T:0.49
Consensus pattern (16 bp):
GTCCCTTATTTCGTGT
Found at i:84348 original size:85 final size:85
Alignment explanation
Indices: 84205--84375 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
84195 AGGCACCTTT
84205 GCCAAGGTTTATTACGGTAAAAACTTGTCAACCCAAGAAAGTGTAGCCATCAAAGTTATCAACAA
1 GCCAAGGTTTATTACGGTAAAAACTTGTCAACCCAAGAAAGTGTAGCCATCAAAGTTATCAACAA
84270 AGAGCAAGTGAAGAAAGAAG
66 AGAGCAAGTGAAGAAAGAAG
84290 GCCAAGGTTTATTACGGTAAAAACTTGTCAACCCAAGAAAGTGTAGCCATCAAAGTTATCAACAA
1 GCCAAGGTTTATTACGGTAAAAACTTGTCAACCCAAGAAAGTGTAGCCATCAAAGTTATCAACAA
84355 AGAGCAAGTGAAGAAAGAAG
66 AGAGCAAGTGAAGAAAGAAG
84375 G
1 G
84376 TTTGATGGAG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (85 bp):
GCCAAGGTTTATTACGGTAAAAACTTGTCAACCCAAGAAAGTGTAGCCATCAAAGTTATCAACAA
AGAGCAAGTGAAGAAAGAAG
Found at i:86310 original size:16 final size:17
Alignment explanation
Indices: 86289--86321 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
86279 ATATTAAAAT
*
86289 TTGAATCTTA-AATTTA
1 TTGAATATTATAATTTA
86305 TTGAATATTATAATTTA
1 TTGAATATTATAATTTA
86322 AAGGGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (17 bp):
TTGAATATTATAATTTA
Found at i:89456 original size:26 final size:25
Alignment explanation
Indices: 89412--89463 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
89402 TATATTCATT
89412 TTTATTTTTTTTTATTTTCAGTTTC
1 TTTATTTTTTTTTATTTTCAGTTTC
*
89437 TTTACTTTTATTTTTA-TTTCGGTTTC
1 TTTA-TTTT-TTTTTATTTTCAGTTTC
89463 T
1 T
89464 ATTTCTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 14 0.58
27 6 0.25
ACGTcount: A:0.12, C:0.10, G:0.06, T:0.73
Consensus pattern (25 bp):
TTTATTTTTTTTTATTTTCAGTTTC
Done.