Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004292.1 Hibiscus syriacus cultivar Beakdansim tig00009418_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: 125648
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Found at i:5280 original size:29 final size:30
Alignment explanation
Indices: 5235--5298 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
5225 GATCAGATTT
*
5235 TTTTTGTATTGATTTTTAATGAACTGCATA
1 TTTTGGTATTGATTTTTAATGAACTGCATA
5265 TTTTGGTATTGATTTTTAATGAACTGCATA
1 TTTTGGTATTGATTTTTAATGAACTGCATA
5295 TTTT
1 TTTT
5299 CATAAATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (30 bp):
TTTTGGTATTGATTTTTAATGAACTGCATA
Found at i:6284 original size:162 final size:161
Alignment explanation
Indices: 6013--6340 Score: 487
Period size: 162 Copynumber: 2.0 Consensus size: 161
6003 ACATACAAAA
* * *
6013 CACA-CTCCAAACGTGCTACTCTAATTGTACTAAACATGCACAAATTCTAAAAACCTTAGATGTA
1 CACATCTCCAAACGTGCTACTCTAATTGTAATAAAAATGCACAAATTATAAAAACCTTAGATGTA
* * * * * *
6077 TATATACAAGTGTACATACATTAAACCCTATACGAGAAATATGTATCGCACAAATCTTATAAACT
66 TACAAACAAGTCTACATACATTAAACACTAGACGAGAAATATGTATCGCACAAAACTTATAAACT
6142 ATTGAGCTAAACTAATCATTTGGGTAAATTT
131 ATTGAGCTAAACTAATCATTTGGGTAAATTT
* * *
6173 CCACATCTCCAAACGTGCTACTCTAATTGTAATAAAAATGCACAAATTATAAAGATCTTAGGTGT
1 -CACATCTCCAAACGTGCTACTCTAATTGTAATAAAAATGCACAAATTATAAAAACCTTAGATGT
*
6238 ATACAAACAATTCTACATACATTAAACACTAGACGAGAAATATGTATCGCACAAAACTTATAAAC
65 ATACAAACAAGTCTACATACATTAAACACTAGACGAGAAATATGTATCGCACAAAACTTATAAAC
* * * *
6303 TATTGAGCTAAATTAGTCTTTTTGGTAAATTT
130 TATTGAGCTAAACTAATCATTTGGGTAAATTT
6335 CACATC
1 CACATC
6341 ATTTTTCTAT
Statistics
Matches: 149, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
161 10 0.07
162 139 0.93
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (161 bp):
CACATCTCCAAACGTGCTACTCTAATTGTAATAAAAATGCACAAATTATAAAAACCTTAGATGTA
TACAAACAAGTCTACATACATTAAACACTAGACGAGAAATATGTATCGCACAAAACTTATAAACT
ATTGAGCTAAACTAATCATTTGGGTAAATTT
Found at i:7209 original size:15 final size:15
Alignment explanation
Indices: 7189--7221 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
7179 GTAATGCGTT
7189 TAGGCATATATGTCC
1 TAGGCATATATGTCC
7204 TAGGCATATATGTCC
1 TAGGCATATATGTCC
7219 TAG
1 TAG
7222 CCCAATTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (15 bp):
TAGGCATATATGTCC
Found at i:8248 original size:42 final size:41
Alignment explanation
Indices: 8174--8266 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 41
8164 TGCCAAAATG
** * *
8174 GTATCGATACTGAAAGGGAGTATCAGTACCATAGTGTA-ATA
1 GTATCGATACTGAAAGAAAGTATCAGTACCATAATATAGA-A
* *
8215 GTATCGATACTGAGAGAAAGGTATCGGTACCATAATATAGAA
1 GTATCGATACTGAAAGAAA-GTATCAGTACCATAATATAGAA
8257 GTATCGATAC
1 GTATCGATAC
8267 CATGGTAGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 16 0.36
42 27 0.61
43 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (41 bp):
GTATCGATACTGAAAGAAAGTATCAGTACCATAATATAGAA
Found at i:8941 original size:17 final size:18
Alignment explanation
Indices: 8907--8942 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8897 GAATGCATAA
*
8907 AGGGTACGGATAACCCTT
1 AGGGTACCGATAACCCTT
8925 AGGGTACCGAT-ACCCTT
1 AGGGTACCGATAACCCTT
8942 A
1 A
8943 TGCATAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (18 bp):
AGGGTACCGATAACCCTT
Found at i:9060 original size:95 final size:96
Alignment explanation
Indices: 8950--9135 Score: 347
Period size: 96 Copynumber: 1.9 Consensus size: 96
8940 TTATGCATAG
*
8950 AGGTATCGATACCTAG-CCCAAAGGTACCGATACCCCTTATGTTGATTTTGGCTCCGAGAAAAAC
1 AGGTATCGATACCTAGCCCCAAAGGTACCGATACCCCTTATATTGATTTTGGCTCCGAGAAAAAC
9014 AGATTGCCCAATGGGTACCGATACCCCTTAT
66 AGATTGCCCAATGGGTACCGATACCCCTTAT
*
9045 AGGTATCGATACCTAGCCCCAAAGGTACCGATACCCCTTATATTGATTTTGGCTCCGAGAAAAAT
1 AGGTATCGATACCTAGCCCCAAAGGTACCGATACCCCTTATATTGATTTTGGCTCCGAGAAAAAC
9110 AGATTGCCCAATGGGTACCGATACCC
66 AGATTGCCCAATGGGTACCGATACCC
9136 TTAGTCTAAT
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 16 0.18
96 72 0.82
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (96 bp):
AGGTATCGATACCTAGCCCCAAAGGTACCGATACCCCTTATATTGATTTTGGCTCCGAGAAAAAC
AGATTGCCCAATGGGTACCGATACCCCTTAT
Found at i:10571 original size:18 final size:18
Alignment explanation
Indices: 10548--10590 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10538 GTAAACCTCG
*
10548 AGAAGAAGGAC-GAGACAA
1 AGAAGAA-GACGGAGAAAA
10566 AGAAGAAGACGGAGAAAA
1 AGAAGAAGACGGAGAAAA
10584 AGAAGAA
1 AGAAGAA
10591 TGTTGGAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.60, C:0.07, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAGAAGACGGAGAAAA
Found at i:14969 original size:21 final size:21
Alignment explanation
Indices: 14868--14969 Score: 66
Period size: 21 Copynumber: 4.8 Consensus size: 21
14858 GTGCTCAAGG
* * * *
14868 TATCGATACCCCATAAACATG
1 TATCGATACCCCTTGAACGTA
14889 TATCGATACCCCCTTG--C-TA
1 TATCGATA-CCCCTTGAACGTA
** * *
14908 GGTATCGATACTACTTCAACGTG
1 --TATCGATACCCCTTGAACGTA
14931 TATCGATACCCTCTTTGAACGTA
1 TATCGATACCC-C-TTGAACGTA
14954 TATCGATACCCCTTGA
1 TATCGATACCCCTTGA
14970 TGGGTACCGA
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
19 1 0.02
20 5 0.08
21 29 0.47
22 8 0.13
23 19 0.31
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (21 bp):
TATCGATACCCCTTGAACGTA
Found at i:17629 original size:21 final size:21
Alignment explanation
Indices: 17605--17652 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
17595 TAGAGGTATT
17605 GATACCTAGCCCAAAGGTACC
1 GATACCTAGCCCAAAGGTACC
17626 GATACCTAGCCCAAAGGTACC
1 GATACCTAGCCCAAAGGTACC
17647 GATACC
1 GATACC
17653 CCTTATGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.19, T:0.15
Consensus pattern (21 bp):
GATACCTAGCCCAAAGGTACC
Found at i:18987 original size:46 final size:46
Alignment explanation
Indices: 18505--18980 Score: 763
Period size: 46 Copynumber: 10.2 Consensus size: 46
18495 AAACAAATTA
* * *
18505 ATAAATGAATTGCATAAAAGGATGCATTAAGGCATGAAAGGATTCC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* *
18551 GTAAATGAAATGCATGAAAGGATGTATTAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* *
18597 ATAAATAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* * *
18643 ATAAATGAAATACATGAAAGGATGCATTAAGGAATGAAAGTATGCC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
18689 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* *
18735 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGTATGTC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
**
18781 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTT
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
18827 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* *
18873 ATAAGTGAAATGCATGAAAGGATGCCATAATAAAATGCATGAAAGGATGCC
1 ATAAATGAAATGCATGAAAGGATG-CAT--T--AAGGCATGAAAGGATGCC
18924 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
18970 ATAAATGAAAT
1 ATAAATGAAAT
18981 TAATGAATAA
Statistics
Matches: 398, Mismatches: 27, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
46 350 0.88
47 3 0.01
48 1 0.00
49 1 0.00
50 3 0.01
51 40 0.10
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (46 bp):
ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
Found at i:19390 original size:15 final size:16
Alignment explanation
Indices: 19370--19402 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19360 TGATTATAAC
19370 TAAAATAG-CCAAAAT
1 TAAAATAGTCCAAAAT
*
19385 TAAAATAGTCCTAAAT
1 TAAAATAGTCCAAAAT
19401 TA
1 TA
19403 CTATTACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (16 bp):
TAAAATAGTCCAAAAT
Found at i:19903 original size:12 final size:12
Alignment explanation
Indices: 19873--19906 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
19863 ACTTTGCTTA
19873 ACTTTCATATTC
1 ACTTTCATATTC
*
19885 ACTTTTCATATTT
1 AC-TTTCATATTC
19898 ACTTTCATA
1 ACTTTCATA
19907 GTCCAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (12 bp):
ACTTTCATATTC
Found at i:33331 original size:8 final size:8
Alignment explanation
Indices: 33320--33350 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
33310 TCTTTTTCTT
33320 TTCTTTTC
1 TTCTTTTC
33328 TTCTTTTC
1 TTCTTTTC
33336 TTCTTTTC
1 TTCTTTTC
33344 TTCTTTT
1 TTCTTTT
33351 TGTCTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TTCTTTTC
Found at i:33344 original size:13 final size:12
Alignment explanation
Indices: 33307--33368 Score: 60
Period size: 13 Copynumber: 5.2 Consensus size: 12
33297 CTTTTTGAAC
33307 TTCTCTTTTTCTT
1 TTCT-TTTTTCTT
33320 TTCTTTTCTTCTT
1 TTCTTTT-TTCTT
33333 TTCTTCTTTTC--
1 TTCTT-TTTTCTT
33344 TTCTTTTTGTC-T
1 TTCTTTTT-TCTT
33356 TTCTTTTTT-TT
1 TTCTTTTTTCTT
33367 TT
1 TT
33369 TGCAGTCCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
10 3 0.07
11 11 0.25
12 11 0.25
13 17 0.39
14 2 0.05
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (12 bp):
TTCTTTTTTCTT
Found at i:33356 original size:16 final size:15
Alignment explanation
Indices: 33318--33366 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
33308 TCTCTTTTTC
33318 TTTTCTTTTCTTCTT
1 TTTTCTTTTCTTCTT
33333 TTCTTCTTTTCTTCTT
1 TT-TTCTTTTCTTCTT
33349 TTTGTC-TTTCTT-TT
1 TTT-TCTTTTCTTCTT
33363 TTTT
1 TTTT
33367 TTTGCAGTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 9 0.28
16 17 0.53
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTCTTCTT
Found at i:38389 original size:21 final size:21
Alignment explanation
Indices: 38352--38391 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38342 TCATTTTTCA
*
38352 ATTTTGAAATATCTTTCTTGT
1 ATTTTGAAATATATTTCTTGT
38373 ATTTTGAAA-ATAATTTCTT
1 ATTTTGAAATAT-ATTTCTT
38392 ATAATCTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTTTGAAATATATTTCTTGT
Found at i:41911 original size:16 final size:16
Alignment explanation
Indices: 41892--41925 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41882 CAATATACGA
41892 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
41908 ATAAATTTATATTTAT
1 ATAAAAATATATTTAT
41924 AT
1 AT
41926 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:42003 original size:14 final size:16
Alignment explanation
Indices: 41967--42003 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
41957 TATTAATGTA
41967 TGAATCATTTATATTTT
1 TGAAT-ATTTATATTTT
41984 TGAATATTT-TATTTT
1 TGAATATTTATATTTT
41999 T-AATA
1 TGAATA
42004 AGAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TGAATATTTATATTTT
Found at i:42674 original size:130 final size:130
Alignment explanation
Indices: 42470--42714 Score: 427
Period size: 130 Copynumber: 1.9 Consensus size: 130
42460 AATTTTCTTC
* *
42470 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
42535 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* *
42600 TAATTAGGTGGTGACATGTGTCACCAATAACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
42665 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATT
42715 AATTATATAA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:43166 original size:35 final size:35
Alignment explanation
Indices: 43116--43191 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
43106 AATTGAATTG
* *
43116 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
43151 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
43186 AATTGA
1 AATTGA
43192 GGATTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:54322 original size:90 final size:91
Alignment explanation
Indices: 54167--54344 Score: 259
Period size: 90 Copynumber: 2.0 Consensus size: 91
54157 AAAAGATGAG
* * * *
54167 AACATAGATACTAAGCTCAATGCAACGGACATGGAATAATCATTGATGCATATCAGTTGGCTTGT
1 AACATAGATACTAAGATCAATGCAACAGACACGGAATAATCATTAATGCATATCAGTTGGCTTGT
* *
54232 CATGGATTGGAGAATTAATACCAAAC
66 CATCGATTGGAGAATCAATACCAAAC
* * * *
54258 AACATATATACTAAGATCAATGCATCAGCCACGTAAT-ATCATTAATGCATATCAGTTGGCTTGT
1 AACATAGATACTAAGATCAATGCAACAGACACGGAATAATCATTAATGCATATCAGTTGGCTTGT
54322 CATCGATTGGAGAATCAATACCA
66 CATCGATTGGAGAATCAATACCA
54345 TGGCTGCTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 47 0.61
91 30 0.39
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (91 bp):
AACATAGATACTAAGATCAATGCAACAGACACGGAATAATCATTAATGCATATCAGTTGGCTTGT
CATCGATTGGAGAATCAATACCAAAC
Found at i:56426 original size:23 final size:21
Alignment explanation
Indices: 56386--56443 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
56376 TATGTTATCA
56386 ATTAAATTTTAATATATAATT
1 ATTAAATTTTAATATATAATT
*
56407 ATTAAATTAATTAATTTATAA--
1 ATTAAATT--TTAATATATAATT
*
56428 ATAAAATTTTAA-ATAT
1 ATTAAATTTTAATATAT
56444 TAACGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 3 0.09
19 4 0.12
21 15 0.47
23 10 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAAATTTTAATATATAATT
Found at i:57384 original size:12 final size:12
Alignment explanation
Indices: 57367--57404 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
57357 TCTCATCCTT
57367 TTTATATTATTA
1 TTTATATTATTA
*
57379 TTTATATTAATA
1 TTTATATTATTA
57391 -TTATAATTATTA
1 TTTAT-ATTATTA
57403 TT
1 TT
57405 AATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 4 0.18
12 17 0.77
13 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:57393 original size:18 final size:18
Alignment explanation
Indices: 57370--57408 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
57360 CATCCTTTTT
*
57370 ATATTATTATT-TATATTA
1 ATATTATAATTAT-TATTA
57388 ATATTATAATTATTATTA
1 ATATTATAATTATTATTA
57406 ATA
1 ATA
57409 AATAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATTATAATTATTATTA
Found at i:58970 original size:12 final size:11
Alignment explanation
Indices: 58953--58986 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
58943 TTTTGTGTTA
58953 TTTTAATAATAT
1 TTTTAA-AATAT
58965 TTTTAAAATAT
1 TTTTAAAATAT
58976 TTATTAAAATA
1 TT-TTAAAATA
58987 ACATAGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:64096 original size:54 final size:54
Alignment explanation
Indices: 64033--64141 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
64023 CAGTGACAAG
*
64033 AAATCTGGGCAGAAGCCACAGGAAATAATAAATGTGTTATCAAATATTTTACGA
1 AAATCTGGGCAGAAGCCACAAGAAATAATAAATGTGTTATCAAATATTTTACGA
* * * * * *
64087 AAATCTGGGCAGAAGCTACAAGAAATGATGAATGTGTTGTCAATTGTTTTACGA
1 AAATCTGGGCAGAAGCCACAAGAAATAATAAATGTGTTATCAAATATTTTACGA
64141 A
1 A
64142 CCAATGATCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (54 bp):
AAATCTGGGCAGAAGCCACAAGAAATAATAAATGTGTTATCAAATATTTTACGA
Found at i:65402 original size:136 final size:136
Alignment explanation
Indices: 64880--65503 Score: 853
Period size: 136 Copynumber: 4.6 Consensus size: 136
64870 GGAAACAAAA
*
64880 ATCCTTAGATAATC-GACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGG
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGG
*
64944 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAAATCCTAATCACGAAGGAG-
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAAATCCTCATCACGAAGGAGT
65008 CTGCATC
131 C-GCATC
* * * * *
65015 ATTCTTAGATAACCAGACGTCCTCATCACCAAGGAACAGGGTTATCTCAAATATATTAAAGATGG
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGG
* * * *
65080 CCAGATGTCCTCATCACGAAGAAAAAAATGTCATCTACCAATCAGAACTCCTCATCACAAAGGAG
66 CCAGATGTCCTCATCACGAAG-GAACAATGTCATCTACCAATCAGAAATCCTCATCACGAAGGAG
**
65145 TCGTGTC
130 TCGCATC
*
65152 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTA--TCAAATATCTTAAAGATGG
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGG
* * *
65215 CCAGATGTCCTCATCACGAAGGAATAATGCCATCTACCAATCAGAAATCCTCGTCACGAAGGAGT
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAAATCCTCATCACGAAGGAGT
*
65280 TGCATC
131 CGCATC
* * ** *
65286 ATCCTTAGATAACCAGAAGTCCTTATCAAAAAGGAACCGCGTTATCTCAAATATCTTAAAGATGG
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGG
* * * * * **
65351 CCAGATGTCCTCATCACGAAGGAACAATATCATCTACCAATAATAACTCCTCATCATGAATAAGT
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAAATCCTCATCACGAAGGAGT
*
65416 CGCGTC
131 CGCATC
* * * *
65422 ATCTTTAGATAACCAGATGTCCTCATCACGAAGAAACCGTGTTATCTCAAATAT-TCTAACGATG
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCT-TAAAGATG
**
65486 GTTAGATGTCCTCATCAC
65 GCCAGATGTCCTCATCAC
65504 AAATGGATCG
Statistics
Matches: 427, Mismatches: 56, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
134 79 0.19
135 52 0.12
136 215 0.50
137 80 0.19
138 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (136 bp):
ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGG
CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAAATCCTCATCACGAAGGAGT
CGCATC
Found at i:65519 original size:53 final size:52
Alignment explanation
Indices: 65434--65718 Score: 383
Period size: 53 Copynumber: 5.4 Consensus size: 52
65424 CTTTAGATAA
* *
65434 CCAGATGTCCTCATCACGAAGAAACCGTGTTATCTCAAATAT-TCTAACGATGG
1 CCAGATGTCCTCATCACGAAG-GACCGTGTTATCTCAAATATCT-TAAAGATGG
** * * * *
65487 TTAGATGTCCTCATCACAAATGGATCGCGTTATCTCAAATATCCTAAAGATGG
1 CCAGATGTCCTCATCACGAA-GGACCGTGTTATCTCAAATATCTTAAAGATGG
* *
65540 CCAGATGTCCTCATCACGAAGGAATCGTGTTATCTCAAATATCTTAAAGATGA
1 CCAGATGTCCTCATCACGAAGG-ACCGTGTTATCTCAAATATCTTAAAGATGG
* *
65593 TCAGATGTGCTCATCACGAAGGACCCGTGTTATCTCAAATATCTTAAAGATGG
1 CCAGATGTCCTCATCACGAAGGA-CCGTGTTATCTCAAATATCTTAAAGATGG
*
65646 CCAGATGTCCTCATCACGAAGGAACTGTGTTATCTCAAATATCTTAAAGATGG
1 CCAGATGTCCTCATCACGAAGG-ACCGTGTTATCTCAAATATCTTAAAGATGG
*
65699 CCAGATATCCTCATCACGAA
1 CCAGATGTCCTCATCACGAA
65719 AGAACAATGT
Statistics
Matches: 205, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
52 3 0.01
53 200 0.98
54 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (52 bp):
CCAGATGTCCTCATCACGAAGGACCGTGTTATCTCAAATATCTTAAAGATGG
Found at i:65890 original size:136 final size:136
Alignment explanation
Indices: 65646--66141 Score: 715
Period size: 136 Copynumber: 3.6 Consensus size: 136
65636 TTAAAGATGG
* * *
65646 CCAGATGTCCTCATCACGAAGGAACTGTGTTATCTCAAATATCTTAAAGATGGCCAGATATCCTC
1 CCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGGCCAGATGTCCTC
*
65711 ATCACGAAAGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAG-CTGCGTCATCCT
66 ATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGTC-GCGTCATCCT
65775 TAGATAA
130 TAGATAA
* * *
65782 CCAGACGCCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGGCCAGATGTTCTT
1 CCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGGCCAGATGTCCTC
* * * * *
65847 ATCATGAAGGAACAATGTCAACAACCAATCAGAACTCCTCATCACGAAGGAGTCACATCATCCTT
66 ATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGCGTCATCCTT
65912 AGATAA
131 AGATAA
* * *
65918 CCAGACGTCCTCATCACGAAAGAACTGTGTTATCTCAAATATCTTAAATATGGCCAGATGTCCTC
1 CCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGGCCAGATGTCCTC
* *
65983 ATCACGAAGGAACAATGTCATCTACCAATCAAAACTCCTCATCACGAAGGAGTCGTGTCATCCTT
66 ATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGCGTCATCCTT
66048 AGATAA
131 AGATAA
* * * * ** * * * *
66054 CTAGACGTCCTTATCAAGAAGGAACCGTGTTATCACTATTTATCTCTAAACATGACCAAATATCC
1 CCAGACGTCCTCATCACGAAGGAACCGTGTTATCTC-AAATATCT-TAAAGATGGCCAGATGTCC
66119 TCATCACGAAGGAACAATGTCAT
64 TCATCACGAAGGAACAATGTCAT
66142 ACACCAGTTT
Statistics
Matches: 320, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
136 275 0.86
137 7 0.02
138 38 0.12
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (136 bp):
CCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTAAAGATGGCCAGATGTCCTC
ATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGCGTCATCCTT
AGATAA
Found at i:66317 original size:12 final size:12
Alignment explanation
Indices: 66300--66337 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
66290 TCTCGTTCTT
66300 TTTATATTATTA
1 TTTATATTATTA
66312 TTTATATTATTA
1 TTTATATTATTA
66324 -TTATAATTATTA
1 TTTAT-ATTATTA
66336 TT
1 TT
66338 AATAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 4 0.17
12 19 0.79
13 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:66370 original size:18 final size:20
Alignment explanation
Indices: 66326--66371 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
66316 TATTATTATT
66326 ATAATTATTATTAATAAATA
1 ATAATTATTATTAATAAATA
66346 ATAAATT-TTATT-A-AAATA
1 AT-AATTATTATTAATAAATA
66364 ACTAATTA
1 A-TAATTA
66372 AAAACAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
18 10 0.43
19 2 0.09
20 7 0.30
21 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATTATTATTAATAAATA
Found at i:72048 original size:22 final size:23
Alignment explanation
Indices: 71992--72050 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
71982 ATATCTAGAG
*
71992 TTAATTAAGTATATATATTTTAA
1 TTAATTAAATATATATATTTTAA
* *
72015 -TAATCCTGAATATTTA-ATTTTAA
1 TTAAT--TAAATATATATATTTTAA
72038 TTAATTAAATATA
1 TTAATTAAATATA
72051 GATTTAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
22 10 0.36
23 7 0.25
24 11 0.39
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
TTAATTAAATATATATATTTTAA
Found at i:72139 original size:90 final size:90
Alignment explanation
Indices: 72025--72202 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
72015 TAATCCTGAA
* * * * *
72025 TATTTAATTTTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
72090 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
72115 TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
* *
72180 TAGGTTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
72203 GTATGTTAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (90 bp):
TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:78034 original size:2 final size:2
Alignment explanation
Indices: 78021--78071 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
78011 GTGACGATGT
*
78021 TA TA TT 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
78063 TA TA TA TA T
1 TA TA TA TA T
78072 CATTTATATC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:79217 original size:30 final size:29
Alignment explanation
Indices: 79172--79234 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
79162 AGAAGGGATT
79172 AAAATAGAATAATAAAAAATT-AAGGGACC
1 AAAATAGAATAATAAAAAATTGAA-GGACC
* *
79201 AAAATATAATTAATAAAAACTTGAAGGACC
1 AAAATAGAA-TAATAAAAAATTGAAGGACC
79231 AAAA
1 AAAA
79235 AATAGAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 8 0.27
30 20 0.67
31 2 0.07
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.19
Consensus pattern (29 bp):
AAAATAGAATAATAAAAAATTGAAGGACC
Found at i:79248 original size:30 final size:29
Alignment explanation
Indices: 79172--79255 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 29
79162 AGAAGGGATT
79172 AAAATAGAATAATAAAAAATTAAGGGACCAA
1 AAAATAG-A-AATAAAAAATTAAGGGACCAA
* *
79203 AATATA-ATTAATAAAAACTTGAA-GGACCAA
1 AAAATAGA--AATAAAAAATT-AAGGGACCAA
79233 AAAATAGAAATTAAAAAGATTAA
1 AAAATAGAAA-TAAAAA-ATTAA
79256 AATATCAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
29 3 0.07
30 31 0.70
31 10 0.23
ACGTcount: A:0.63, C:0.06, G:0.11, T:0.20
Consensus pattern (29 bp):
AAAATAGAAATAAAAAATTAAGGGACCAA
Found at i:79300 original size:31 final size:31
Alignment explanation
Indices: 79231--79327 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 31
79221 TTGAAGGACC
* * *
79231 AAAAAATAGAAA-TTAAAAAGATTAAAATA-T
1 AAAAAATAGAAACTT-AAAGGACTAAAATAGA
* *
79261 CAAAAATAGAAACTTAAGGGACTAAAATAGA
1 AAAAAATAGAAACTTAAAGGACTAAAATAGA
* *
79292 AAAAAATAGAAATTTAAAGGACTGAAATAGA
1 AAAAAATAGAAACTTAAAGGACTAAAATAGA
79323 AAAAA
1 AAAAA
79328 CCAAAAATTG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
30 22 0.39
31 34 0.61
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (31 bp):
AAAAAATAGAAACTTAAAGGACTAAAATAGA
Found at i:79336 original size:31 final size:31
Alignment explanation
Indices: 79274--79351 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
79264 AAATAGAAAC
* * *
79274 TTAAGGGACTAAAATAGAAAAAAATAGAAAT
1 TTAAAGGACTAAAATAGAAAAAAACAAAAAT
* *
79305 TTAAAGGACTGAAATAGAAAAAACCAAAAA-
1 TTAAAGGACTAAAATAGAAAAAAACAAAAAT
**
79335 TTGGAGGACTAAAATAG
1 TTAAAGGACTAAAATAG
79352 CAATAATAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 14 0.36
31 25 0.64
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (31 bp):
TTAAAGGACTAAAATAGAAAAAAACAAAAAT
Found at i:80707 original size:3 final size:3
Alignment explanation
Indices: 80699--80765 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
80689 ATTAAAAATA
* * *
80699 AAT AAT AAT AAT AAT AGT AAT AGT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
80747 ATAT AAT AA- ATT AAT AAT A
1 A-AT AAT AAT AAT AAT AAT A
80766 TTTTTTTGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 1 0.02
3 50 0.93
4 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:81116 original size:43 final size:44
Alignment explanation
Indices: 81061--81382 Score: 159
Period size: 43 Copynumber: 7.4 Consensus size: 44
81051 GATAACACGG
81061 TTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGAC
1 TTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGAC
* * * * * * *
81105 TTCC-ACGTGATGAGGAGGTCTGG---TCGATGGATGACAC-AG
1 TTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGAC
* * ** * *
81144 TTCCTACGTGATGAGGACAACATGCCATCTTTAGGGATGATAACACGA-
1 TTCCTACGTGATGAGGACGACAGGTTATC--TAAGG-T--TGACACGAC
* * *
81192 TTCCTACATGATGAGGACGACATGTTATCTAAGGTTGACACAAC
1 TTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGAC
* * * * * *
81236 -TCCTACGTGATGAGGAGGTCTGGTTGA--T--GGATGAAAC-AG
1 TTCCTACGTGATGAGGACGACAGGTT-ATCTAAGGTTGACACGAC
* * * * ** * * *
81275 TTCTTATGTGATGAGGACGGCATGCCATCTTTAAGGACGATAACAGGA-
1 TTCCTACGTGATGAGGACGACAGGTTATC--TAA-G--GTTGACACGAC
81323 TTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGAC
1 TTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGAC
*
81367 TT-CTATGTGATGAGGA
1 TTCCTACGTGATGAGGA
81383 GGTCTGGTCA
Statistics
Matches: 202, Mismatches: 52, Indels: 49
0.67 0.17 0.16
Matches are distributed among these distances:
39 7 0.03
40 49 0.24
42 1 0.00
43 65 0.32
44 7 0.03
45 5 0.02
46 8 0.04
48 58 0.29
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (44 bp):
TTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGAC
Found at i:81158 original size:131 final size:131
Alignment explanation
Indices: 80978--81443 Score: 643
Period size: 131 Copynumber: 3.6 Consensus size: 131
80968 CATGGCTCCT
* * * * * ** *
80978 ACGTGATTAGGAGATTTGGTCGATGGATGACACGGTTCCTACGTGATGAGGATGGTAGGCCATCT
1 ACGTGATGAGGAGGTCTGGTCGATGGATGACACAGTTCCTACGTGATGAGGACGACATGCCATCT
81043 TTAGGGATGATAACACGGTTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGACTTC
66 TTAGGGATGATAACACGGTTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGACTTC
81108 C
131 C
*
81109 ACGTGATGAGGAGGTCTGGTCGATGGATGACACAGTTCCTACGTGATGAGGACAACATGCCATCT
1 ACGTGATGAGGAGGTCTGGTCGATGGATGACACAGTTCCTACGTGATGAGGACGACATGCCATCT
* * * *
81174 TTAGGGATGATAACACGATTCCTACATGATGAGGACGACATGTTATCTAAGGTTGACACAAC-TC
66 TTAGGGATGATAACACGGTTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGACTTC
81238 C
131 C
* * * * *
81239 TACGTGATGAGGAGGTCTGGTTGATGGATGAAACAGTTCTTATGTGATGAGGACGGCATGCCATC
1 -ACGTGATGAGGAGGTCTGGTCGATGGATGACACAGTTCCTACGTGATGAGGACGACATGCCATC
* *
81304 TTTAAGGACGATAACA-GGATTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGACT
65 TTTAGGGATGATAACACGG-TTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGACT
*
81368 TCT
129 TCC
* * * *
81371 ATGTGATGAGGAGGTCTGGTCAGA-GGATGACACAGTTCCTAC-TCGATGAGGATGATATACCAT
1 ACGTGATGAGGAGGTCTGGTC-GATGGATGACACAGTTCCTACGT-GATGAGGACGACATGCCAT
81434 CTTTAGGGAT
64 CTTTAGGGAT
81444 AATGGTTTCA
Statistics
Matches: 293, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
130 5 0.02
131 284 0.97
132 4 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (131 bp):
ACGTGATGAGGAGGTCTGGTCGATGGATGACACAGTTCCTACGTGATGAGGACGACATGCCATCT
TTAGGGATGATAACACGGTTCCTACGTGATGAGGACGACAGGTTATCTAAGGTTGACACGACTTC
C
Found at i:81565 original size:32 final size:32
Alignment explanation
Indices: 81514--81597 Score: 125
Period size: 32 Copynumber: 2.7 Consensus size: 32
81504 ATAAAATTCG
* *
81514 TTTCAAGGGAAA-TGACTCAAAGATGGTTTTA
1 TTTCAAGAGAAACAGACTCAAAGATGGTTTTA
* *
81545 TTTCAAGAGAAACAGACTCAAAGATGTTTTTG
1 TTTCAAGAGAAACAGACTCAAAGATGGTTTTA
81577 TTTCAAGAGAAACAGACTCAA
1 TTTCAAGAGAAACAGACTCAA
81598 TGATTTTGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
31 11 0.23
32 37 0.77
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (32 bp):
TTTCAAGAGAAACAGACTCAAAGATGGTTTTA
Found at i:81738 original size:65 final size:65
Alignment explanation
Indices: 81612--81769 Score: 230
Period size: 65 Copynumber: 2.4 Consensus size: 65
81602 TTTGTTTGTT
* * * *
81612 TTGTTTCAAGGGAAACAAACGCAAAGGTTTTTTTCCACAAGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGAGAAACAAACTCAAAGATTTTTTTCCAAAAGAAACTGTCTCAAGAGAGACAAAAC
81677 TTTGTTTCCAA-AGAAACAAACTCAAAGATTTTTTT-CAAAAGAAACTGTCTCAAGAGAGACAAA
1 -TTGTTT-CAAGAGAAACAAACTCAAAGATTTTTTTCCAAAAGAAACTGTCTCAAGAGAGACAAA
81740 AC
64 AC
* *
81742 TTGTTTCAAGAGAAACAATCTCACAGAT
1 TTGTTTCAAGAGAAACAAACTCAAAGAT
81770 GGGTGTTTCA
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
63 3 0.04
64 22 0.26
65 29 0.35
66 27 0.32
67 3 0.04
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACAAACTCAAAGATTTTTTTCCAAAAGAAACTGTCTCAAGAGAGACAAAAC
Found at i:81751 original size:21 final size:20
Alignment explanation
Indices: 81718--81759 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
81708 TTTTCAAAAG
*
81718 AAACTGTCTCAAGAGAGACA
1 AAACTGTCTCAAGAGAAACA
*
81738 AAACTTGTTTCAAGAGAAACA
1 AAAC-TGTCTCAAGAGAAACA
81759 A
1 A
81760 TCTCACAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (20 bp):
AAACTGTCTCAAGAGAAACA
Found at i:82009 original size:36 final size:36
Alignment explanation
Indices: 81949--82019 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
81939 AAAGGAAAAA
** * *
81949 TGTCTCAAGCGAGATGAAATTTGTTTTGAAAGAAAT
1 TGTCTCAAGCGAGACAAAAGTTGTTTCGAAAGAAAT
* *
81985 TGTCTCAAGTGAGACAAAAGTTGTTTCGAGAGAAA
1 TGTCTCAAGCGAGACAAAAGTTGTTTCGAAAGAAA
82020 CAACATCAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.30
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAAGTTGTTTCGAAAGAAAT
Found at i:82145 original size:32 final size:32
Alignment explanation
Indices: 82104--82183 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
82094 CTTCAGGATA
82104 TTGAATCCCTAAAGATACCTCAACATTCGATG
1 TTGAATCCCTAAAGATACCTCAACATTCGATG
82136 TTGAATCCCTAAAGATACCTCAACATTCGATG
1 TTGAATCCCTAAAGATACCTCAACATTCGATG
82168 TTGAATCTCC-AAAGAT
1 TTGAATC-CCTAAAGAT
82184 GCCCCATTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 45 0.96
33 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (32 bp):
TTGAATCCCTAAAGATACCTCAACATTCGATG
Found at i:83273 original size:13 final size:12
Alignment explanation
Indices: 83241--83293 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
83231 TCTTGTCTTC
* *
83241 TTTTCTTCGCTT
1 TTTTCTTTGTTT
83253 TTTTCTTTGTTT
1 TTTTCTTTGTTT
83265 TGTTTCTTTGCTTCT
1 T-TTTCTTTG-TT-T
83280 TTTCTCTTTGTTT
1 TTT-TCTTTGTTT
83293 T
1 T
83294 CTCTTTGCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
12 11 0.31
13 10 0.29
14 6 0.17
15 8 0.23
ACGTcount: A:0.00, C:0.17, G:0.09, T:0.74
Consensus pattern (12 bp):
TTTTCTTTGTTT
Found at i:83298 original size:26 final size:28
Alignment explanation
Indices: 83250--83303 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
83240 CTTTTCTTCG
* *
83250 CTTTTTTCTTTGTTTTGTTTCTTTGCTT
1 CTTTTCTCTTTGTTTTGTCTCTTTGCTT
83278 CTTTTCTCTTTG-TTT-TCTCTTTGCTT
1 CTTTTCTCTTTGTTTTGTCTCTTTGCTT
83304 TGATTTGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.42
27 3 0.12
28 11 0.46
ACGTcount: A:0.00, C:0.19, G:0.09, T:0.72
Consensus pattern (28 bp):
CTTTTCTCTTTGTTTTGTCTCTTTGCTT
Found at i:84556 original size:20 final size:20
Alignment explanation
Indices: 84531--84585 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
84521 CTGATTCAAT
84531 CAGTATCGATACCATTGATG
1 CAGTATCGATACCATTGATG
*
84551 CAGTATCGACACCATTGATG
1 CAGTATCGATACCATTGATG
84571 CAGTATCGATACCAT
1 CAGTATCGATACCAT
84586 GGTAAGGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (20 bp):
CAGTATCGATACCATTGATG
Found at i:84686 original size:22 final size:20
Alignment explanation
Indices: 84647--84702 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
84637 CCGTAAGGAG
* *
84647 GTATCGATACCTTAGTAAAGTA
1 GTATCGATACCATGGT-AAG-A
* *
84669 TTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGA
84689 GTATCGATACCATG
1 GTATCGATACCATG
84703 AAACATCGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 3 0.10
22 13 0.45
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (20 bp):
GTATCGATACCATGGTAAGA
Found at i:84747 original size:95 final size:96
Alignment explanation
Indices: 84574--84757 Score: 275
Period size: 95 Copynumber: 1.9 Consensus size: 96
84564 ATTGATGCAG
* *
84574 TATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAATCTAATTTTGGTATTGATACC
1 TATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGATACC
* *
84639 GTAAGGAGGTATCGATACCTTAGTAAAGTAT
66 GTAAGGAGATATCGATACCCTAGTAAAGTAT
*
84670 TATCGATACCATGGTAAGGGTATCGATACCATG-AAACATCGAACCTAATTTTGGTATCGATACC
1 TATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGATACC
*
84734 AGGT-AGG-GATATCGGTACCCTAGT
66 --GTAAGGAGATATCGATACCCTAGT
84758 GTAGAAGTAT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
95 43 0.54
96 35 0.44
97 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (96 bp):
TATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGATACC
GTAAGGAGATATCGATACCCTAGTAAAGTAT
Found at i:85077 original size:14 final size:14
Alignment explanation
Indices: 85058--85084 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85048 TTAGATGAAA
85058 ATGAATTATTTAAT
1 ATGAATTATTTAAT
85072 ATGAATTATTTAA
1 ATGAATTATTTAA
85085 ATGCTAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATGAATTATTTAAT
Found at i:85277 original size:45 final size:45
Alignment explanation
Indices: 85227--85549 Score: 425
Period size: 45 Copynumber: 7.2 Consensus size: 45
85217 GAAATGATGA
*
85227 TATAGTTGAAATGTATATGGGTACATTATCAACATAAAAGTATAC
1 TATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATAC
* * * * *
85272 GATAGTTGGAATGTATATAGATACATTATCAACA-AAAAGGTATGC
1 TATAGTTGAAATGTATATGGGTACATTATCAACAGAAAA-GTATAC
* * *
85317 TATAGTTGAAAT-TCATATGGGTGCATTATCAACAGAAAAATATGC
1 TATAGTTGAAATGT-ATATGGGTACATTATCAACAGAAAAGTATAC
* * * *
85362 TATAGTTGAAATGCATATGGGTGCATTATCAGCAGAAAAGTATGC
1 TATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATAC
*
85407 TAGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATAC
1 TATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATAC
85452 TATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATAC
1 TATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATAC
* * * * * **
85497 TATAGTTGAAATGCATATGGGTGCATTTTCAACATAAAAATATGT
1 TATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATAC
85542 TATAGTTG
1 TATAGTTG
85550 TACAAAATGG
Statistics
Matches: 247, Mismatches: 27, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
44 5 0.02
45 238 0.96
46 4 0.02
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (45 bp):
TATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATAC
Found at i:89605 original size:59 final size:59
Alignment explanation
Indices: 89542--89662 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 59
89532 AAATATAATT
* *
89542 AACAAAAACTTGAA-GGACTAAAACACAAAAATAGAAATGAAAAAGATTAAAATAGCAAA
1 AACAAAAACGT-AAGGGACTAAAACACAAAAATAGAAATGAAAAAGATTAAAATAACAAA
* * ** * *
89601 AACAAAAACGTAAGGGACTAAAATAGAAAAATAGAAATTTAAAGGATTGAAATAACAAA
1 AACAAAAACGTAAGGGACTAAAACACAAAAATAGAAATGAAAAAGATTAAAATAACAAA
89660 AAC
1 AAC
89663 TGAAAATCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 2 0.04
59 51 0.96
ACGTcount: A:0.63, C:0.09, G:0.13, T:0.15
Consensus pattern (59 bp):
AACAAAAACGTAAGGGACTAAAACACAAAAATAGAAATGAAAAAGATTAAAATAACAAA
Found at i:89678 original size:59 final size:58
Alignment explanation
Indices: 89554--89705 Score: 153
Period size: 59 Copynumber: 2.6 Consensus size: 58
89544 CAAAAACTTG
* * ** * *
89554 AAGGACTAAAACACAAAAATAGAAATGAAAAAGATTAAAATAGCAAAAACAAAAACGTA
1 AAGGACTAAAATAGAAAAATAGAAATTTAAAGGATTAAAATAACAAAAACAAAAACG-A
* * *
89613 AGGGACTAAAATAGAAAAATAGAAATTTAAAGGATTGAAATAACAAAAACTGAAAATC-A
1 AAGGACTAAAATAGAAAAATAGAAATTTAAAGGATTAAAATAACAAAAAC--AAAAACGA
* * *
89672 AAGGACTAAAATAGCAATAATAAAAAGTTAAAGG
1 AAGGACTAAAATAG-AAAAATAGAAATTTAAAGG
89706 GCTAAATTAG
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
59 56 0.73
60 16 0.21
61 5 0.06
ACGTcount: A:0.62, C:0.08, G:0.14, T:0.16
Consensus pattern (58 bp):
AAGGACTAAAATAGAAAAATAGAAATTTAAAGGATTAAAATAACAAAAACAAAAACGA
Found at i:89684 original size:30 final size:30
Alignment explanation
Indices: 89554--89711 Score: 78
Period size: 30 Copynumber: 5.3 Consensus size: 30
89544 CAAAAACTTG
* *
89554 AAGGACTAAAA-CACAAAAATAG-AAATGAA
1 AAGGACTAAAATAACAAAAATAGAAAAT-CA
* * * *
89583 AAAGATTAAAATAGCAAAAACA-AAAA-CGTA
1 AAGGACTAAAATAACAAAAATAGAAAATC--A
* * * *
89613 AGGGACTAAAAT-AGAAAAATAGAAATTTA
1 AAGGACTAAAATAACAAAAATAGAAAATCA
* *
89642 AAGGATTGAAATAACAAAAACT-GAAAATCA
1 AAGGACTAAAATAACAAAAA-TAGAAAATCA
* * *
89672 AAGGACTAAAATAGCAATAATA-AAAAGTTA
1 AAGGACTAAAATAACAAAAATAGAAAA-TCA
*
89702 AAGGGCTAAA
1 AAGGACTAAA
89712 TTAGTATTAC
Statistics
Matches: 93, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
29 30 0.32
30 62 0.67
31 1 0.01
ACGTcount: A:0.61, C:0.08, G:0.15, T:0.16
Consensus pattern (30 bp):
AAGGACTAAAATAACAAAAATAGAAAATCA
Found at i:89745 original size:28 final size:28
Alignment explanation
Indices: 89701--89758 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
89691 ATAAAAAGTT
89701 AAAGGGCTAAATTAGT-ATTACATAAACTA
1 AAAGGGCTAAATTAGTAATTACA-AAA-TA
89730 AAAGGGCTAAA-TAGTAATTACAAAATA
1 AAAGGGCTAAATTAGTAATTACAAAATA
89757 AA
1 AA
89759 CCAGAACCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 4 0.14
28 7 0.25
29 17 0.61
ACGTcount: A:0.53, C:0.09, G:0.14, T:0.24
Consensus pattern (28 bp):
AAAGGGCTAAATTAGTAATTACAAAATA
Found at i:91102 original size:3 final size:3
Alignment explanation
Indices: 91094--91138 Score: 54
Period size: 3 Copynumber: 13.7 Consensus size: 3
91084 AATTGTAAAT
91094 TAA TAA TAA TAA TAA TAA TATA TAA TATA TAA TAGA TTAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TA-A -TAA TAA TA
91139 TTTTTTATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 28 0.74
4 8 0.21
5 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:91316 original size:7 final size:7
Alignment explanation
Indices: 91304--91337 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
91294 TCTCTCTAGG
91304 CTTTATA
1 CTTTATA
91311 CTTTATA
1 CTTTATA
91318 CTTTATA
1 CTTTATA
91325 CTTTATA
1 CTTTATA
91332 CTTTAT
1 CTTTAT
91338 CATAACACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (7 bp):
CTTTATA
Found at i:92319 original size:23 final size:24
Alignment explanation
Indices: 92293--92337 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
92283 ATTAAGTATA
* *
92293 ATAACATATTAGGTAGC-TCTTAT
1 ATAACATAATAGCTAGCGTCTTAT
92316 ATAACATAATAGCTAGCGTCTT
1 ATAACATAATAGCTAGCGTCTT
92338 TTTAAGCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (24 bp):
ATAACATAATAGCTAGCGTCTTAT
Found at i:92368 original size:224 final size:223
Alignment explanation
Indices: 92092--92707 Score: 853
Period size: 225 Copynumber: 2.7 Consensus size: 223
92082 AACATATTAG
* *
92092 ATAACGTAATAGGTAGTGCCTTTTTAAGCTGATGGTGCTTTGGAAATCCGACGATAAAAAATAGG
1 ATAACGTAATAGGTAGCG-CTTTTTAAGCTGATGGGGCTTTGGAAATCCGACGATAAAAAATAGG
* *
92157 TTAATTACTTATTTTGTTATTAGTATTATCAACATATTAGATAACGCCTAAAATGTTACCAAAGT
65 TTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGT
* * * **
92222 TTAAGCTAATAGAGCCCTAGAAATCCGACGATAACATAACTGATTTCTTACTGTAAACATTATTA
130 TTAAGCTGATAGAGCCTTAGAAATCCGACGATAACATAACCGATTAATTACTGTAAACATTATTA
*
92287 AGTATAATAACATATTAGGTAGC-TCTTAT
195 AGCATAATAACATATTAGGTAGCGT-TTAT
* * *
92316 ATAACATAATAGCTAGCGTCTTTTTAAGCTGATGGGGCTTTGGAAATCCGACGATAACAAAATAT
1 ATAACGTAATAGGTAGCG-CTTTTTAAGCTGATGGGGCTTTGGAAATCCGACGATAA-AAAATAG
* * *
92381 GTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAATGCCTATAATGTTGCCAAAG
64 GTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAG
*
92446 TTTAAGCTGACAGAGCCTTAGAAATCCGACGATAACATAACCGATTAATTACTGTAAACATTATT
129 TTTAAGCTGATAGAGCCTTAGAAATCCGACGATAACATAACCGATTAATTACTGTAAACATTATT
92511 AAGCATAATAACATATTAGGTAGCGTTTAT
194 AAGCATAATAACATATTAGGTAGCGTTTAT
* * * * * *
92541 ATAACGTAATAGGTATCGCATTATTAAAGCAGATAGGGCCTTT-TAAATCCGATGAT-AAAAATA
1 ATAACGTAATAGGTAGCGC-TT-TTTAAGCTGAT-GGGGCTTTGGAAATCCGACGATAAAAAATA
* * *
92604 GGTTAATTACTTAATTTGTTATTAGTATGATCAACATATTAGGTAACGCCT-AAATGCTAACAAA
63 GGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAA
* * * * **
92668 ATTTAAGTTGATGGAGCCTTAGGAATTTGACGATAACATA
128 GTTTAAGCTGATAGAGCCTTAGAAATCCGACGATAACATA
92708 TATGGTTAAT
Statistics
Matches: 347, Mismatches: 40, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
223 42 0.12
224 107 0.31
225 170 0.49
226 21 0.06
227 7 0.02
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (223 bp):
ATAACGTAATAGGTAGCGCTTTTTAAGCTGATGGGGCTTTGGAAATCCGACGATAAAAAATAGGT
TAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTT
TAAGCTGATAGAGCCTTAGAAATCCGACGATAACATAACCGATTAATTACTGTAAACATTATTAA
GCATAATAACATATTAGGTAGCGTTTAT
Found at i:92527 original size:108 final size:107
Alignment explanation
Indices: 92338--92532 Score: 216
Period size: 108 Copynumber: 1.8 Consensus size: 107
92328 CTAGCGTCTT
* * * * * * ***
92338 TTTAAGCTGATGGGGCTTTGGAAATCCGACGATAACAAAATATG-TTAATTACT-TAATTTGTTA
1 TTTAAGCTGATAGAGCCTTAGAAATCCGACGATAACATAA-CTGATTAATTACTGTAA-ACATTA
*
92401 TT-AGTATTATCAACATATTAGGTAATGCCTATAATGTTGCCAAAG
64 TTAAGTATAAT-AACATATTAGGTAA-GCCTATAATGTTGCCAAAG
* *
92446 TTTAAGCTGACAGAGCCTTAGAAATCCGACGATAACATAACCGATTAATTACTGTAAACATTATT
1 TTTAAGCTGATAGAGCCTTAGAAATCCGACGATAACATAACTGATTAATTACTGTAAACATTATT
*
92511 AAGCATAATAACATATTAGGTA
66 AAGTATAATAACATATTAGGTA
92533 GCGTTTATAT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
107 1 0.01
108 61 0.86
109 9 0.13
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (107 bp):
TTTAAGCTGATAGAGCCTTAGAAATCCGACGATAACATAACTGATTAATTACTGTAAACATTATT
AAGTATAATAACATATTAGGTAAGCCTATAATGTTGCCAAAG
Found at i:92830 original size:2 final size:2
Alignment explanation
Indices: 92823--92852 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
92813 TAAGTATGGA
92823 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
92853 GTTGATACAT
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:93145 original size:2 final size:2
Alignment explanation
Indices: 93100--93129 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
93090 TAATTATGGA
93100 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
93130 GCATATATCG
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:95532 original size:19 final size:19
Alignment explanation
Indices: 95503--95543 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
95493 TTTAACTTGT
95503 TATATTGTCAT-GTATCGA
1 TATATTGTCATAGTATCGA
95521 TATATGTGTCATAGGTATCGA
1 TATAT-TGTCATA-GTATCGA
95542 TA
1 TA
95544 CTTCCTACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 6 0.30
21 9 0.45
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (19 bp):
TATATTGTCATAGTATCGA
Found at i:96723 original size:75 final size:75
Alignment explanation
Indices: 96593--96779 Score: 279
Period size: 75 Copynumber: 2.5 Consensus size: 75
96583 TAAGTAGGGA
*
96593 GGTACCGATACCCCTCATAGGGTGTACCGATACCCCTATGCCAATTTTTGGCTCCGAGAAAAACA
1 GGTACCGATACCCCTCATA-GG-GTACCGATACCCCTATGCAAATTTTTGGCTCCGAGAAAAACA
*
96658 GATTGCCCAATG
64 GAATGCCCAATG
**
96670 GGTGTCGATACCCCTCATAGGGTACCGATACCCCTATGCAAATTTTTGGCTCCGAGAAAAACAGA
1 GGTACCGATACCCCTCATAGGGTACCGATACCCCTATGCAAATTTTTGGCTCCGAGAAAAACAGA
*
96735 ATGCCCTATG
66 ATGCCCAATG
*
96745 GGTACCGATACCCCT--TAGAGGTACTGATACCCCTA
1 GGTACCGATACCCCTCATAG-GGTACCGATACCCCTA
96780 GTTATTTAAC
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
73 3 0.03
74 15 0.15
75 64 0.63
76 2 0.02
77 17 0.17
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (75 bp):
GGTACCGATACCCCTCATAGGGTACCGATACCCCTATGCAAATTTTTGGCTCCGAGAAAAACAGA
ATGCCCAATG
Found at i:98024 original size:3 final size:3
Alignment explanation
Indices: 98016--98096 Score: 117
Period size: 3 Copynumber: 27.0 Consensus size: 3
98006 ATTGATTTAT
* * *
98016 TTA TTA TTA TTA TAA TTA TAA TTA TTA TTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
98064 TAA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
98097 ATTAAATATA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:98033 original size:9 final size:9
Alignment explanation
Indices: 98016--98122 Score: 110
Period size: 9 Copynumber: 11.7 Consensus size: 9
98006 ATTGATTTAT
*
98016 TTATTATTA
1 TTATAATTA
98025 TTATAATTA
1 TTATAATTA
* *
98034 TAATTATTA
1 TTATAATTA
*
98043 TTATTATTA
1 TTATAATTA
98052 TTATAATTA
1 TTATAATTA
98061 TTATAATTA
1 TTATAATTA
98070 TTATAATTA
1 TTATAATTA
*
98079 TTATTATTA
1 TTATAATTA
*
98088 TTATTATTAA
1 TTATAATT-A
98098 TTA-AATATA
1 TTATAAT-TA
98107 TTA-AATATA
1 TTATAAT-TA
98116 TATATAA
1 T-TATAA
98123 ATAATAATAA
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
9 78 0.90
10 7 0.08
11 2 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTATAATTA
Found at i:98484 original size:18 final size:18
Alignment explanation
Indices: 98461--98509 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
98451 AAAAAAAAGG
*
98461 AGAGACAGAGAGATACAC
1 AGAGACAGAGAGACACAC
98479 AGAGACAGAGAGACACAC
1 AGAGACAGAGAGACACAC
*
98497 AGAGACAAAGAGA
1 AGAGACAGAGAGA
98510 GACAGAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.53, C:0.16, G:0.29, T:0.02
Consensus pattern (18 bp):
AGAGACAGAGAGACACAC
Found at i:103520 original size:15 final size:15
Alignment explanation
Indices: 103500--103531 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
103490 TCAATACATT
103500 TTTTGCATACATACA
1 TTTTGCATACATACA
*
103515 TTTTGCATACATTCA
1 TTTTGCATACATACA
103530 TT
1 TT
103532 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:110872 original size:7 final size:7
Alignment explanation
Indices: 110860--110927 Score: 84
Period size: 7 Copynumber: 9.1 Consensus size: 7
110850 TGAAGAGAAA
110860 AAAAAAG
1 AAAAAAG
110867 AAAAAAG
1 AAAAAAG
110874 AAAGAAAAG
1 -AA-AAAAG
110883 AAAAAAG
1 AAAAAAG
110890 AAAAGAA-
1 AAAA-AAG
110897 AAAAAGAG
1 AAAAA-AG
110905 AAAAAAG
1 AAAAAAG
110912 CAAAAAAG
1 -AAAAAAG
110920 AAAAAAG
1 AAAAAAG
110927 A
1 A
110928 GGGGTCAAGG
Statistics
Matches: 55, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
6 1 0.02
7 31 0.56
8 18 0.33
9 5 0.09
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:110872 original size:12 final size:12
Alignment explanation
Indices: 110852--110910 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
110842 ATTATGCTTG
*
110852 AAGAGAAAAAAA
1 AAGAAAAAAAAA
*
110864 AAG-AAAAAAGA
1 AAGAAAAAAAAA
*
110875 AAGAAAAGAAAA
1 AAGAAAAAAAAA
110887 AAGAAAAGAAAAA
1 AAGAAAA-AAAAA
110900 AAGAGAAAAAA
1 AAGA-AAAAAA
110911 GCAAAAAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 9 0.23
12 16 0.41
13 11 0.28
14 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:110881 original size:17 final size:17
Alignment explanation
Indices: 110855--110927 Score: 71
Period size: 17 Copynumber: 4.2 Consensus size: 17
110845 ATGCTTGAAG
*
110855 AGAAAAAAAAAGAAAAA
1 AGAAAGAAAAAGAAAAA
110872 AGAAAG-AAAAGAAAAA
1 AGAAAGAAAAAGAAAAA
110888 AGAAAAGAAAAA-AAGAGAA
1 AG-AAAGAAAAAGAA-A-AA
110907 A-AAAGCAAAAAAGAAAAA
1 AGAAAG--AAAAAGAAAAA
110925 AGA
1 AGA
110928 GGGGTCAAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
16 12 0.26
17 15 0.32
18 8 0.17
19 10 0.21
20 2 0.04
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAAGAAAAA
Found at i:110883 original size:16 final size:15
Alignment explanation
Indices: 110859--110925 Score: 84
Period size: 16 Copynumber: 4.4 Consensus size: 15
110849 TTGAAGAGAA
110859 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
110874 AAAGAAAAGAAAAAAG
1 AAA-AAAAGAAAAAAG
*
110890 -AAAAGA-AAAAAAG
1 AAAAAAAGAAAAAAG
110903 AGAAAAAAGCAAAAAAG
1 A-AAAAAAG-AAAAAAG
110920 AAAAAA
1 AAAAAA
110926 GAGGGGTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
13 7 0.16
14 3 0.07
15 10 0.22
16 17 0.38
17 8 0.18
ACGTcount: A:0.84, C:0.01, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:110898 original size:38 final size:37
Alignment explanation
Indices: 110855--110927 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 37
110845 ATGCTTGAAG
110855 AGAAAAAAAAAGAAAAAAGAAAGAAAAGAAAAAAGAAA
1 AGAAAAAAAAAGAAAAAAGAAA-AAAAGAAAAAAGAAA
* *
110893 AGAAAAAAAGAGAAAAAAGCAAAAAAGAAAAAAGA
1 AGAAAAAAAAAGAAAAAAGAAAAAAAGAAAAAAGA
110928 GGGGTCAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
37 13 0.39
38 20 0.61
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (37 bp):
AGAAAAAAAAAGAAAAAAGAAAAAAAGAAAAAAGAAA
Found at i:111953 original size:95 final size:95
Alignment explanation
Indices: 111790--111979 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
111780 ATAAGCTTCA
*
111790 AGAGCCTTACAGATCTTTTCTGTCAATTTGGCACTTCCTGTACATGTTTATAAACAGTTCAACTT
1 AGAGCCTTACAGATCCTTTCTGTCAATTTGGCACTTCCTGTACATGTTTATAAACAGTTCAACTT
111855 TGTTCTTGGATCCCATGAAGGCCATCATTT
66 TGTTCTTGGATCCCATGAAGGCCATCATTT
111885 AGAGCCTTACAGATCCTTTCTGTCAATTTGGCACTTCCTGTACATGTTTATAAACAGTTCAACTT
1 AGAGCCTTACAGATCCTTTCTGTCAATTTGGCACTTCCTGTACATGTTTATAAACAGTTCAACTT
111950 TGTTCTTGGATCCCATGAAGGCCATCATTT
66 TGTTCTTGGATCCCATGAAGGCCATCATTT
111980 CTTTGTCAAT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (95 bp):
AGAGCCTTACAGATCCTTTCTGTCAATTTGGCACTTCCTGTACATGTTTATAAACAGTTCAACTT
TGTTCTTGGATCCCATGAAGGCCATCATTT
Found at i:112300 original size:83 final size:83
Alignment explanation
Indices: 112163--112340 Score: 329
Period size: 83 Copynumber: 2.1 Consensus size: 83
112153 AACAAATGCC
112163 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
112228 ATTGAATTTGAAAGATAA
66 ATTGAATTTGAAAGATAA
*
112246 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
112311 ATTGAATTTGAAAGATGA
66 ATTGAATTTGAAAGATAA
*
112329 ATTTGCTCATAG
1 ATGTGCTCATAG
112341 TAGAAATAAG
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 91 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.38
Consensus pattern (83 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
ATTGAATTTGAAAGATAA
Found at i:112505 original size:115 final size:114
Alignment explanation
Indices: 112303--112558 Score: 433
Period size: 115 Copynumber: 2.2 Consensus size: 114
112293 GGTTTGGTAA
*
112303 AACCAATCATTGAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTTCATAGCATCT
1 AACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTTCATAGCATCT
112368 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAG
66 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATA-GAAACCACAG
112418 AACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGAC-TCAATAGCATC
1 AACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTTC-ATAGCATC
* * *
112482 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAG
65 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATAGAAACCACAG
* *
112532 AACCAATCATTGGAATTAAAAGATGAA
1 AACCAATCATTGGATTTGAAAGATGAA
112559 CTGCATGATC
Statistics
Matches: 134, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
114 35 0.26
115 99 0.74
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (114 bp):
AACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTTCATAGCATCT
TCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATAGAAACCACAG
Found at i:113501 original size:96 final size:96
Alignment explanation
Indices: 113337--113534 Score: 324
Period size: 96 Copynumber: 2.1 Consensus size: 96
113327 TTCATAATGA
* * **
113337 GAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGTCAGGTAGAGTT
1 GAAGAATTTGTTCAACATTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGGTAGAGTT
* * *
113402 CATAATGAGAAGAACTCGTCATCTGAAGAAT
66 CATAATAAGAAGAACTCATCATCTGAAGAAG
*
113433 GAAGAATTTGTTCAACATTTTGTTTAAATTCATCATTTGATGGATCAGCATTACCAGGTAGAGTT
1 GAAGAATTTGTTCAACATTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGGTAGAGTT
113498 CATAATAAGAAGAACTCATCATCTGAAGAAG
66 CATAATAAGAAGAACTCATCATCTGAAGAAG
113529 GAAGAA
1 GAAGAA
113535 GAAGTTCATA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.33
Consensus pattern (96 bp):
GAAGAATTTGTTCAACATTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGGTAGAGTT
CATAATAAGAAGAACTCATCATCTGAAGAAG
Found at i:113610 original size:212 final size:213
Alignment explanation
Indices: 113243--113864 Score: 778
Period size: 212 Copynumber: 2.9 Consensus size: 213
113233 TTAGCAAAGA
**
113243 TTTAAATCCATCATTCAATGGATCAGCATTACCAGGTAGAGTTCATAATAAGAAGAACTCGTCAT
1 TTTAAATCCATCATTTGATGGATCAGCATTACCAGGTAGAGTTCATAATAAGAAGAACTC-TCAT
* *
113308 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAAT-TCATCA
65 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT-ATCA
* * ***
113372 TTTGATGGATTAACATTGT-CAGGTAGAGTTCATAATGAGAAGAACTCGTC-ATCTGAAG-AAT-
129 CTTGATGGATTAA-ATT-TCCAGGTAGAGTTCATAATGAGAAGAACTCATCAAGAAGAAGTAATA
113433 GAAGAATTTGTTCAACATTTTG
192 GAAGAATTTGTTCAACATTTTG
*
113455 TTTAAATTCATCATTTGATGGATCAGCATTACCAGGTAGAGTTCATAATAAGAAGAACTCATCAT
1 TTTAAATCCATCATTTGATGGATCAGCATTACCAGGTAGAGTTCATAATAAGAAGAACTC-TCAT
113520 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCAC
65 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCAC
113585 TTGATGGATTATAATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGT
130 TTGATGGATTA-AATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATC------AAGAAGAAG-
*
113650 TCATAATGAGAAGAATTTGTTCAACTTTTTG
187 ---TAAT-AGAAGAATTTGTTCAACATTTTG
* * * * * * *
113681 CTCAAATCCATCACTTGATGGGTCAGCTTTTCCA-G-AGGAGTTCATAATGAGAAGAA--CTCAT
1 TTTAAATCCATCATTTGATGGATCAGCATTACCAGGTA-GAGTTCATAATAAGAAGAACTCTCAT
* *
113742 CTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTCGCTCAAATCTATCAC
65 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCAC
* *
113807 TTGATGGATTAAAATTTCCAGAG-AAAGTTCATAATAAGAAGAACTCATCTGAAGAAGA
130 TTGATGGATT-AAATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATC--AAGAAGA
113865 GGAAGTTCAT
Statistics
Matches: 364, Mismatches: 26, Indels: 34
0.86 0.06 0.08
Matches are distributed among these distances:
211 1 0.00
212 165 0.45
213 2 0.01
218 7 0.02
219 5 0.01
222 110 0.30
223 3 0.01
224 4 0.01
225 19 0.05
226 48 0.13
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (213 bp):
TTTAAATCCATCATTTGATGGATCAGCATTACCAGGTAGAGTTCATAATAAGAAGAACTCTCATC
TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACT
TGATGGATTAAATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCAAGAAGAAGTAATAGAAG
AATTTGTTCAACATTTTG
Found at i:113784 original size:222 final size:223
Alignment explanation
Indices: 113433--113884 Score: 687
Period size: 222 Copynumber: 2.0 Consensus size: 223
113423 TCTGAAGAAT
* * * *
113433 GAAGAATTTGTTCAACATTTTGTTTAAATTCATCATTTGATGGATCAGCATTACCAGGTAGAGTT
1 GAAGAATTTGTTCAACATTTTGCTCAAATCCATCACTTGATGGATCAGCATTACCAGG-AGAGTT
113498 CATAATAAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
65 CATAATAAGAAGAAC-CATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* * * *
113563 ACCTTTTGCTCAAATCTATCACTTGATGGATTATAATTTCCAG-GTAGAGTTCATAATGAGAAGA
129 ACCTTTCGCTCAAATCTATCACTTGATGGATTAAAATTTCCAGAG-AAAGTTCATAATAAGAAGA
*
113627 ACTCATCTGAAGAAAGAAGAAGTTCATAATGA
193 ACTCATCTGAAG-AAGAAGAAGTTCATAATAA
* * * *
113659 GAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGGTCAGCTTTTCCA-GAGGAGTT
1 GAAGAATTTGTTCAACATTTTGCTCAAATCCATCACTTGATGGATCAGCATTACCAGGA-GAGTT
* *
113723 CATAATGAGAAGAA-C-TCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
65 CATAATAAGAAGAACCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
113786 CCTTTCGCTCAAATCTATCACTTGATGGATTAAAATTTCCAGAGAAAGTTCATAATAAGAAGAAC
130 CCTTTCGCTCAAATCTATCACTTGATGGATTAAAATTTCCAGAGAAAGTTCATAATAAGAAGAAC
*
113851 TCATCTGAAGAAGAGGAAGTTCATAATAA
195 TCATCTGAAGAAGAAGAAGTTCATAATAA
113880 GAAGA
1 GAAGA
113885 GCTTATTCAA
Statistics
Matches: 208, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
221 22 0.11
222 116 0.56
223 2 0.01
224 1 0.00
225 19 0.09
226 48 0.23
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (223 bp):
GAAGAATTTGTTCAACATTTTGCTCAAATCCATCACTTGATGGATCAGCATTACCAGGAGAGTTC
ATAATAAGAAGAACCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
CTTTCGCTCAAATCTATCACTTGATGGATTAAAATTTCCAGAGAAAGTTCATAATAAGAAGAACT
CATCTGAAGAAGAAGAAGTTCATAATAA
Found at i:113796 original size:112 final size:110
Alignment explanation
Indices: 113433--113901 Score: 586
Period size: 116 Copynumber: 4.2 Consensus size: 110
113423 TCTGAAGAAT
* * * * * * *
113433 GAAGAATTTGTTCAACATTTTGTTTAAATTCATCATTTGATGGATCAGCATTACCAGGTAGAGTT
1 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGAATTTCCAGG-AGAGTT
113498 CATAATAAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
65 CATAATAAGAAGAA--C-TCATCTGAAGAA-G-AGAAGAAGTTCATAATGA
* * *
113549 GAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATGGATTATAATTTCCAGGTAGAGTT
1 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGAATTTCCAGG-AGAGTT
*
113614 CATAATGAGAAGAACTCATCTGAAGAA-AGAAGAAGTTCATAATGA
65 CATAATAAGAAGAACTCATCTGAAGAAGAGAAGAAGTTCATAATGA
* * **
113659 GAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGGTCAGCTTTTCCA-GAGGAGTT
1 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGAATTTCCAGGA-GAGTT
*
113723 CATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGA
65 CATAATAAGAAGAACTCATCTGAAGAA-GA-GAAGAAGTTCATAATGA
* * * * *
113771 GAAGAATTTGTTCAACCTTTCGCTCAAATCTATCACTTGATGGATTAAAATTTCCAGAGAAAGTT
1 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGAATTTCCAG-GAGAGTT
*
113836 CATAATAAGAAGAACTCATCTGAAGAAGAG--GAAGTTCATAATAA
65 CATAATAAGAAGAACTCATCTGAAGAAGAGAAGAAGTTCATAATGA
** *
113880 GAAGAGCTTATTCAACCTTTTG
1 GAAGAATTTGTTCAACCTTTTG
113902 ACTCTGTCAC
Statistics
Matches: 314, Mismatches: 33, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
108 1 0.00
109 64 0.20
110 67 0.21
111 2 0.01
112 67 0.21
113 42 0.13
114 3 0.01
116 68 0.22
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (110 bp):
GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGAATTTCCAGGAGAGTTC
ATAATAAGAAGAACTCATCTGAAGAAGAGAAGAAGTTCATAATGA
Found at i:114140 original size:3 final size:3
Alignment explanation
Indices: 114132--114206 Score: 105
Period size: 3 Copynumber: 25.0 Consensus size: 3
114122 ATTGATTTAT
* * * *
114132 TTA TTA TTA TTA TAA TTA TAA TTA TTA TTA TTA TTA TAA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
114180 ATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
114207 AATATATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:114142 original size:18 final size:17
Alignment explanation
Indices: 114121--114206 Score: 67
Period size: 15 Copynumber: 5.3 Consensus size: 17
114111 TTTTTACCCA
114121 TATTGATTTATTTATTAT
1 TATT-ATTTATTTATTAT
* *
114139 TATTA--TAATTATAAT
1 TATTATTTATTTATTAT
114154 TATTA-TTA-TTATTAT
1 TATTATTTATTTATTAT
* **
114169 AATTATTATAAATATTAT
1 TATTATT-TATTTATTAT
114187 TATTA-TTA-TTATTAT
1 TATTATTTATTTATTAT
114202 TATTA
1 TATTA
114207 AATATATTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
15 34 0.60
16 5 0.09
17 4 0.07
18 14 0.25
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (17 bp):
TATTATTTATTTATTAT
Found at i:114214 original size:12 final size:14
Alignment explanation
Indices: 114139--114215 Score: 72
Period size: 15 Copynumber: 5.6 Consensus size: 14
114129 TATTTATTAT
*
114139 TATTATAATTATAA
1 TATTATTATTATAA
114153 TTATTATTATTAT--
1 -TATTATTATTATAA
*
114166 TATAATTATTATAAA
1 TATTATTATTAT-AA
*
114181 TATTATTATTATTAT
1 TATTATTATTA-TAA
114196 TATTATTATTA-AA
1 TATTATTATTATAA
114209 TA-TATTA
1 TATTATTA
114216 AATATATATA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
12 16 0.30
13 3 0.06
15 33 0.62
16 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATTATTATAA
Found at i:121124 original size:13 final size:13
Alignment explanation
Indices: 121101--121138 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
121091 GAAACTACAT
121101 ATTGATTTTCAAAC
1 ATTG-TTTTCAAAC
121115 ATTGTTTTC-AAC
1 ATTGTTTTCAAAC
*
121127 ATAGTTTTCAAA
1 ATTGTTTTCAAA
121139 ATTTTCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 7 0.32
14 4 0.18
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (13 bp):
ATTGTTTTCAAAC
Found at i:122604 original size:13 final size:14
Alignment explanation
Indices: 122574--122612 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
122564 ATTTTGAATA
122574 TTTGGATTTGTTTGT
1 TTTGGATTTG-TTGT
122589 TTTGGATTTG-TGT
1 TTTGGATTTGTTGT
122602 TTTGGAATTTG
1 TTTGG-ATTTG
122613 GATGTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 10 0.43
ACGTcount: A:0.10, C:0.00, G:0.28, T:0.62
Consensus pattern (14 bp):
TTTGGATTTGTTGT
Done.