Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000835.1 Hibiscus syriacus cultivar Beakdansim tig00001616_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: 113730
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:4433 original size:45 final size:40
Alignment explanation
Indices: 4363--4515 Score: 122
Period size: 45 Copynumber: 3.7 Consensus size: 40
4353 ATAAAATAAT
* *
4363 AATGCATGTGGATGCATTAGTGGCATGAAAGGATGCCACAGCTG
1 AATGCATATGG-TGCATTATTGGCAT-AAAGGATGCCA-AG-TG
* *
4407 AACTGCATATAGGTGCATTATCGGCAT-AA--TTG--AA-T-
1 AA-TGCATAT-GGTGCATTATTGGCATAAAGGATGCCAAGTG
4442 AATGCATATGGTGCATTATTGGCATGAAAGGATGCCATAGTTG
1 AATGCATATGGTGCATTATTGGCAT-AAAGGATGCCA-AG-TG
4485 AAATGCATATGGGTGCATTATTGGCATAAAG
1 -AATGCATAT-GGTGCATTATTGGCATAAAG
4516 AATAATGCAT
Statistics
Matches: 89, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
33 15 0.17
34 7 0.08
35 4 0.04
36 1 0.01
37 2 0.02
38 1 0.01
39 2 0.02
40 1 0.01
41 2 0.02
42 1 0.01
43 2 0.02
44 15 0.17
45 34 0.38
46 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (40 bp):
AATGCATATGGTGCATTATTGGCATAAAGGATGCCAAGTG
Found at i:4492 original size:78 final size:77
Alignment explanation
Indices: 4351--4558 Score: 263
Period size: 78 Copynumber: 2.6 Consensus size: 77
4341 AATTAAATCA
* * * * *
4351 GCATAAAATAATAATGCATGTGGATGCATTAGTGGCATGAAAGGATGCCACAGCTGAACTGCATA
1 GCAT-AAAGAATAATGCATATGG-TGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATA
4416 TAGGTGCATTATCG
64 TAGGTGCATTATCG
* *
4430 GCATAATTGAATAATGCATATGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGCATAT
1 GCATAA-AGAATAATGCATATGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATAT
* *
4495 GGGTGCATTATTG
65 AGGTGCATTATCG
* * * *
4508 GCATAAAGAATAATGCATATGGGTCCATTATTGGCATAAAATGATGTCATA
1 GCATAAAGAATAATGCATAT-GGTGCATTATTGGCATGAAAGGATGCCATA
4559 AATAAAATGT
Statistics
Matches: 113, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
77 13 0.12
78 83 0.73
79 17 0.15
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (77 bp):
GCATAAAGAATAATGCATATGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATA
GGTGCATTATCG
Found at i:6294 original size:64 final size:64
Alignment explanation
Indices: 6186--6362 Score: 228
Period size: 64 Copynumber: 2.8 Consensus size: 64
6176 TAATGAAGGT
* * ** * **
6186 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGCATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTAGCATTATTAATGGG
* ** **
6250 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTAGCATTATTAATGGG
* *
6314 ATGCATCGATGCACTACTTATACATCGATGCATGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGT
6363 CTTTATTTTA
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 97 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTAGCATTATTAATGGG
Found at i:6404 original size:64 final size:64
Alignment explanation
Indices: 6186--6410 Score: 197
Period size: 64 Copynumber: 3.5 Consensus size: 64
6176 TAATGAAGGT
* ** ** * ** *** *
6186 ATGCATCGATGCACTA-CTGATGCATCGGTGCATAAAAGGTATTCGATGTAGCATTATTGCTGGG
1 ATGCATCGATGCACTACCT-ATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
* *
6250 ATGCATCGATGCACT-CCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACC-TATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
* * ** *
6314 ATGCATCGATGCACTACTTATACATCGATGCATGAATTGCATTCGATGTCTTTATT-TTAAA-AG
1 ATGCATCGATGCACTACCTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAAAGAG
* *
6377 AGTGCATCGATGCACTACCAATGCATCGGTGCAC
1 A-TGCATCGATGCACTACCTATGCATCGATGCAC
6411 ATTCAAACAA
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
63 2 0.01
64 125 0.93
65 7 0.05
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
Found at i:10486 original size:45 final size:42
Alignment explanation
Indices: 10416--10569 Score: 121
Period size: 45 Copynumber: 3.7 Consensus size: 42
10406 ATAAAATAAT
* *
10416 AATGCATGTGGATGCATTAGT-GGCATGAAAGGATGCCACAGCTG
1 AATGCATATGGGTGCATTA-TCGGCATGAAAGGATGCCA-AG-TG
*
10460 AACTGCATATGGGTGCATTATCGGCAT--AA--TTG--AA-T-
1 AA-TGCATATGGGTGCATTATCGGCATGAAAGGATGCCAAGTG
*
10495 AATGCATAT-GGTGCATTATTGGCATGAAAGGATGCCATAGTTG
1 AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCA-AG-TG
* *
10538 AAATGTATATGGGTGCATTATCGGCATTAAAG
1 -AATGCATATGGGTGCATTATCGGCATGAAAG
10570 AATAATGCAT
Statistics
Matches: 88, Mismatches: 8, Indels: 27
0.72 0.07 0.22
Matches are distributed among these distances:
33 15 0.17
34 7 0.08
35 4 0.05
36 1 0.01
37 2 0.02
38 1 0.01
39 2 0.02
40 1 0.01
41 2 0.02
42 1 0.01
43 2 0.02
44 11 0.12
45 39 0.44
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (42 bp):
AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAAGTG
Found at i:10548 original size:78 final size:78
Alignment explanation
Indices: 10413--10612 Score: 267
Period size: 78 Copynumber: 2.5 Consensus size: 78
10403 AACATAAAAT
* * * *
10413 AATAATGCATGTGGATGCATTAGTGGCATGAAAGGATGCCACAGCTGAACTGCATATGGGTGCAT
1 AATAATGCATATGG-TGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCAT
*
10478 TATCGGCA-TAATTG
65 TATCGGCATTAA-AG
* *
10492 AATAATGCATATGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGGTGCATT
1 AATAATGCATATGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATT
10557 ATCGGCATTAAAG
66 ATCGGCATTAAAG
* * * *
10570 AATAATGCATATGGGTTCATTATTGGCATAAAATGATGTCATA
1 AATAATGCATAT-GGTGCATTATTGGCATGAAAGGATGCCATA
10613 AATAAAATGT
Statistics
Matches: 108, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
78 66 0.61
79 42 0.39
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (78 bp):
AATAATGCATATGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATT
ATCGGCATTAAAG
Found at i:11168 original size:2 final size:2
Alignment explanation
Indices: 11161--11194 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11151 GAAAGGATGT
11161 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
11195 CATCAATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24746 original size:18 final size:18
Alignment explanation
Indices: 24717--24754 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
24707 TTAAGTAAAA
24717 TTTTAAATTTTTTATCCTT
1 TTTTAAATTTTTTAT-CTT
24736 TTTTAAA-TTTTTATCTT
1 TTTTAAATTTTTTATCTT
24753 TT
1 TT
24755 ATATTTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 7 0.37
19 7 0.37
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTAAATTTTTTATCTT
Found at i:28373 original size:16 final size:15
Alignment explanation
Indices: 28349--28389 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
28339 AACAAATACT
*
28349 AAAAATAAATATAAA
1 AAAAATAAAAATAAA
28364 AAAAACTAAAAATAAA
1 AAAAA-TAAAAATAAA
28380 ATAAAATAAA
1 A-AAAATAAA
28390 CGAGAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 14 0.61
17 4 0.17
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATAAAAATAAA
Found at i:28374 original size:22 final size:22
Alignment explanation
Indices: 28331--28390 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
28321 ACTGTGAAAT
*
28331 TAAATATAAACAAATACTAAAAA
1 TAAATATAAA-AAAAACTAAAAA
28354 TAAATATAAAAAAAACTAAAAA
1 TAAATATAAAAAAAACTAAAAA
*
28376 TAAA-ATAAAATAAAC
1 TAAATATAAAAAAAAC
28391 GAGAAGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.29
22 15 0.43
23 10 0.29
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAATATAAAAAAAACTAAAAA
Found at i:28457 original size:21 final size:23
Alignment explanation
Indices: 28420--28475 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
28410 TAGTAATGAT
**
28420 AATAATAATAAGGGGAA-A-ATA
1 AATAATAATAAAAGGAATATATA
28441 AATAATAATAAAAGGAATATATA
1 AATAATAATAAAAGGAATATATA
*
28464 TATATATAATAA
1 AATA-ATAATAA
28476 TAGGGACAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.52
22 1 0.03
23 6 0.21
24 7 0.24
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (23 bp):
AATAATAATAAAAGGAATATATA
Found at i:28618 original size:18 final size:19
Alignment explanation
Indices: 28572--28618 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
28562 ATATTAGGTA
28572 AAAATCAAAATGAAAAAAAG
1 AAAA-CAAAATGAAAAAAAG
28592 AAGAA-AAAAT-AAAAAAAG
1 AA-AACAAAATGAAAAAAAG
28610 AAAACAAAA
1 AAAACAAAA
28619 ACAGTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 14 0.56
19 5 0.20
20 2 0.08
21 2 0.08
ACGTcount: A:0.81, C:0.04, G:0.09, T:0.06
Consensus pattern (19 bp):
AAAACAAAATGAAAAAAAG
Found at i:29844 original size:20 final size:21
Alignment explanation
Indices: 29821--29886 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 21
29811 CCTGGGAAAA
29821 AATAAAAAATAAATTAATAA-
1 AATAAAAAATAAATTAATAAT
*
29841 AAT--AAAATAAAATAA-AAT
1 AATAAAAAATAAATTAATAAT
*
29859 CATATAAAAATAAATATAATAAT
1 AATA-AAAAATAAAT-TAATAAT
29882 AATAA
1 AATAA
29887 TAATAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 2 0.06
18 13 0.36
20 3 0.08
21 8 0.22
22 4 0.11
23 6 0.17
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AATAAAAAATAAATTAATAAT
Found at i:29882 original size:3 final size:3
Alignment explanation
Indices: 29835--29894 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
29825 AAAAATAAAT
* *
29835 TAA TAA -AA TAA -AA TAA -AA TAA -AA TCA T-A TAA AAA TAA -ATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
29875 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
29895 TTTTGTTACT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
2 11 0.23
3 35 0.74
4 1 0.02
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:29883 original size:6 final size:5
Alignment explanation
Indices: 29836--29894 Score: 55
Period size: 5 Copynumber: 10.8 Consensus size: 5
29826 AAAATAAATT
* *
29836 AATAA AATAA AATAA AATAA AATCA TATAAA AATAA ATATAA TAATAA
1 AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA A-ATAA -AATAA
29884 TAATAA TAATA
1 -AATAA -AATA
29895 TTTTGTTACT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
5 24 0.51
6 22 0.47
7 1 0.02
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (5 bp):
AATAA
Found at i:30545 original size:86 final size:86
Alignment explanation
Indices: 30207--30777 Score: 609
Period size: 86 Copynumber: 6.7 Consensus size: 86
30197 ATGTGTCATC
* *** * * *
30207 GAGCTGAATGGAATCGAACTCGACA-GT-TTTT-TTGACAGATAGTTTTTCTTGACTTAAGCTAT
1 GAGCTGAATGTAATCGAACTCGA-AGGTCTTTTGTTGACAGATAGCCCTTCTTGCCTTGAGTTAT
** * * * *
30269 ATTGTGAATTTGACATGCCCTT
65 GCTATAAATTTGATATGCCTTT
* * *
30291 GAGCTGAATGGAATCGAACTCGAAGGT-ATTTGTTGACAGATAGCTCTTCTTGCCTTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTTGCCTTGAGTTATG
30355 CTATAAATTTGATATGCCTTT
66 CTATAAATTTGATATGCCTTT
* * * * * *
30376 GAACTGAATGTAATCGAACTCGAAGGTC-TTTGCTGACATATAACCCTTCTCGCCTTGAGTTATA
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTTGCCTTGAGTTATG
*
30440 CTGTAAATTTGATATGCCTTT
66 CTATAAATTTGATATGCCTTT
* * * * *
30461 AAGCTGAATGTAATCAAACTCAAAGGTCTTTTGTTGACGGATAGCCCTTCTTGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTTGCCTTGAGTTATG
* *
30526 CTGTAAATTTGATGTGCCTTT
66 CTATAAATTTGATATGCCTTT
* * * * * * * *
30547 GAGGTGAATGTAATCGAACTTGAAGGTTTTTTATTGGCATATAAG-CTTTCTCGCCTTGAGTTAT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGAT-AGCCCTTCTTGCCTTGAGTTAT
*
30611 GCTATGAATTTGATATGCCTTT
65 GCTATAAATTTGATATGCCTTT
* * *
30633 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTT-TTCACCTTGAGTTAT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTT-GCCTTGAGTTAT
*
30697 GCTATGAATTTGATATGCCTTT
65 GCTATAAATTTGATATGCCTTT
* * * * * * *
30719 GAGGTGACTGTAATCGAACTCGATGGTC-TTGGTTGGCAGATATCCCGTCTTGCCTTGAG
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTTGCCTTGAG
30778 CTATACTGCC
Statistics
Matches: 414, Mismatches: 65, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
83 1 0.00
84 28 0.07
85 167 0.40
86 216 0.52
87 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (86 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTTGCCTTGAGTTATG
CTATAAATTTGATATGCCTTT
Found at i:32016 original size:84 final size:83
Alignment explanation
Indices: 31923--32150 Score: 242
Period size: 95 Copynumber: 2.6 Consensus size: 83
31913 GGCTAGCTGG
*
31923 ATCCATAAAGCCGAGGCGTTTAACCAATTGCTTTAGAGGGGCAACTCAATATTATAATCACCTTT
1 ATCCATAAAGCC-AGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAATATTATAATCACCTTT
* * *
31988 ATTAGGCTAGTTGAATCTT
65 ATCAGGATAGATGAATCTT
* *
32007 ATCCATAAAGCCAAGGCATTTAACCAATTGCTTTAGAGTGACAACTTAAGCTTTATTGTATATTA
1 ATCCATAAAGCC-AGGCGTTTAACCAATTGCTTTAGAGGGACAAC-T---C---A----ATATTA
32072 TAATCACCTTTATCAGGATAGATGAATCTT
54 TAATCACCTTTATCAGGATAGATGAATCTT
* *
32102 ATCCATAAAGTCAGG-GTGCTTAACCAATTGCTTTAGAGGGACAGCTCAA
1 ATCCATAAAGCCAGGCGT--TTAACCAATTGCTTTAGAGGGACAACTCAA
32151 GCTTTATTGT
Statistics
Matches: 120, Mismatches: 11, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
84 42 0.35
85 1 0.01
88 2 0.02
91 2 0.02
93 1 0.01
94 4 0.03
95 68 0.57
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (83 bp):
ATCCATAAAGCCAGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAATATTATAATCACCTTTA
TCAGGATAGATGAATCTT
Found at i:32134 original size:95 final size:95
Alignment explanation
Indices: 31971--32171 Score: 294
Period size: 95 Copynumber: 2.1 Consensus size: 95
31961 GGGCAACTCA
* * * *
31971 ATATTATAATCACCTTTATTAGGCTAGTTGAATCTTATCCATAAAGCCAAGGCATTTAACCAATT
1 ATATTATAATCACCTTTATCAGGATAGATGAATCTTATCCATAAAGCCAAGGCACTTAACCAATT
* *
32036 GCTTTAGAGTGACAACTTAAGCTTTATTGT
66 GCTTTAGAGGGACAACTCAAGCTTTATTGT
* * **
32066 ATATTATAATCACCTTTATCAGGATAGATGAATCTTATCCATAAAGTCAGGGTGCTTAACCAATT
1 ATATTATAATCACCTTTATCAGGATAGATGAATCTTATCCATAAAGCCAAGGCACTTAACCAATT
*
32131 GCTTTAGAGGGACAGCTCAAGCTTTATTGT
66 GCTTTAGAGGGACAACTCAAGCTTTATTGT
32161 ATATATATAAT
1 ATAT-TATAAT
32172 ATTATAACCT
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 88 0.94
96 6 0.06
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (95 bp):
ATATTATAATCACCTTTATCAGGATAGATGAATCTTATCCATAAAGCCAAGGCACTTAACCAATT
GCTTTAGAGGGACAACTCAAGCTTTATTGT
Found at i:36078 original size:5 final size:5
Alignment explanation
Indices: 36068--36092 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36058 CAAAAAAACT
36068 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
36093 TGAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:36083 original size:18 final size:18
Alignment explanation
Indices: 36047--36088 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36037 ATAAAAAGTT
36047 ACTAAAAAATACAAAAAA
1 ACTAAAAAATACAAAAAA
*
36065 ACTATAAAATA-AAATAAA
1 ACTAAAAAATACAAA-AAA
36083 A-TAAAA
1 ACTAAAA
36089 TAAATGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (18 bp):
ACTAAAAAATACAAAAAA
Found at i:36381 original size:19 final size:19
Alignment explanation
Indices: 36357--36409 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
36347 ACCAACAAAA
36357 TCGCAATGCGATCTCTAAT
1 TCGCAATGCGATCTCTAAT
36376 TCGCAATGCGATCTCTAAT
1 TCGCAATGCGATCTCTAAT
*
36395 TCGCATTGCGATCTC
1 TCGCAATGCGATCTC
36410 CACTATCGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (19 bp):
TCGCAATGCGATCTCTAAT
Found at i:36486 original size:21 final size:21
Alignment explanation
Indices: 36460--36592 Score: 117
Period size: 21 Copynumber: 6.4 Consensus size: 21
36450 CTACAGTTGT
36460 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGATAGTTGAAAATCG
36481 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGATAGTTGAAAATCG
** * ** **
36502 CAATGCGAT-TTTCCATTTCG
1 CGTTGCGATAGTTGAAAATCG
36522 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGATAGTTGAAAATCG
*** * ** **
36543 CAACGCGAT-TTTCCATTTCG
1 CGTTGCGATAGTTGAAAATCG
36563 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGATAGTTGAAAATCG
36584 CGTTGCGAT
1 CGTTGCGAT
36593 TTTCCATTTC
Statistics
Matches: 80, Mismatches: 30, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
20 25 0.31
21 55 0.69
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (21 bp):
CGTTGCGATAGTTGAAAATCG
Found at i:36528 original size:20 final size:20
Alignment explanation
Indices: 36505--36612 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
36495 AAAATCGCAA
36505 TGCGATTTTCCATTTCGCGT
1 TGCGATTTTCCATTTCGCGT
* ** ** **
36525 TGCGATAGTTGAAAATCGCAA
1 TGCGAT-TTTCCATTTCGCGT
*
36546 CGCGATTTTCCATTTCGCGT
1 TGCGATTTTCCATTTCGCGT
* ** **
36566 TGCGATAGTTGAAAATCGCGT
1 TGCGAT-TTTCCATTTCGCGT
36587 TGCGATTTTCCATTTCGCGT
1 TGCGATTTTCCATTTCGCGT
36607 TGCGAT
1 TGCGAT
36613 AGTCTACAGT
Statistics
Matches: 60, Mismatches: 26, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
20 33 0.55
21 27 0.45
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (20 bp):
TGCGATTTTCCATTTCGCGT
Found at i:36528 original size:41 final size:41
Alignment explanation
Indices: 36478--36615 Score: 249
Period size: 41 Copynumber: 3.4 Consensus size: 41
36468 TAGTTGAAAA
36478 TCGCGTTGCGATAGTTGAAAATCGCAATGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCAATGCGATTTTCCATT
*
36519 TCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCAATGCGATTTTCCATT
**
36560 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCAATGCGATTTTCCATT
36601 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
36616 CTACAGTTGT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (41 bp):
TCGCGTTGCGATAGTTGAAAATCGCAATGCGATTTTCCATT
Found at i:36632 original size:22 final size:22
Alignment explanation
Indices: 36604--36656 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
36594 TTCCATTTCG
36604 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
36626 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
36648 CGTTGCGAT
1 CGTTGCGAT
36657 TTTCCAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:36779 original size:6 final size:6
Alignment explanation
Indices: 36768--36804 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
36758 GACACGTATT
36768 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
36805 GACGAGACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:36811 original size:5 final size:5
Alignment explanation
Indices: 36801--36847 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
36791 GACCACGACC
36801 ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACG-G ACG
1 ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACG
36848 GCGGCGGCGG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.38, C:0.21, G:0.40, T:0.00
Consensus pattern (5 bp):
ACGAG
Found at i:37367 original size:6 final size:5
Alignment explanation
Indices: 37327--37366 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
37317 GCCGTCCGTC
*
37327 TCGGG TCAGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG
37367 TACGTGTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 21 0.66
6 11 0.34
ACGTcount: A:0.03, C:0.20, G:0.53, T:0.25
Consensus pattern (5 bp):
TCGGG
Found at i:37491 original size:22 final size:22
Alignment explanation
Indices: 37464--37516 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
37454 AATTTGGAAA
37464 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
37486 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
37508 ATCGCAACG
1 ATCGCAACG
37517 CGAAATGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:37554 original size:41 final size:41
Alignment explanation
Indices: 37505--37605 Score: 166
Period size: 41 Copynumber: 2.5 Consensus size: 41
37495 ACAACTGTAG
* **
37505 ACTATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAAGCGCAATGCGATTTTCA
37546 ACTATCGCAACGCGAAATGGAAAAGCGCAATGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAAGCGCAATGCGATTTTCA
*
37587 ATTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
37606 CAACGCGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAAGCGCAATGCGATTTTCA
Found at i:37560 original size:21 final size:20
Alignment explanation
Indices: 37536--37601 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 20
37526 AAATCGCGTT
37536 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAA-TATCGCAAC
** ** * * *
37557 GCGAAATGGAAAAGCGCAAT
1 GCGATTTTCAATATCGCAAC
37577 GCGATTTTCAATTATCGCAAC
1 GCGATTTTCAA-TATCGCAAC
37598 GCGA
1 GCGA
37602 AATGCAACGC
Statistics
Matches: 30, Mismatches: 14, Indels: 2
0.65 0.30 0.04
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (20 bp):
GCGATTTTCAATATCGCAAC
Found at i:37817 original size:27 final size:26
Alignment explanation
Indices: 37760--37817 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
37750 AAATATTAGG
* *
37760 TAAAAATCAAAATGAAAAAAAGAAGA
1 TAAAAATCAAAAAGAAAAAAAGAACA
* * *
37786 AAAAAATTAAAAAGAAAACAAAGTACA
1 TAAAAATCAAAAAGAAAA-AAAGAACA
37813 TAAAA
1 TAAAA
37818 TATAGTATTG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (26 bp):
TAAAAATCAAAAAGAAAAAAAGAACA
Found at i:37860 original size:3 final size:3
Alignment explanation
Indices: 37852--37886 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
37842 AAAAGGAAAA
*
37852 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37887 ATATATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:37894 original size:2 final size:2
Alignment explanation
Indices: 37887--37918 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
37877 ATAATAATAA
37887 AT AT AT AT -T 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 A
37919 GAATGGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41227 original size:4 final size:4
Alignment explanation
Indices: 41218--41242 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
41208 TGTTCAACTG
41218 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
41243 ACATGCATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:42740 original size:14 final size:14
Alignment explanation
Indices: 42709--42747 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
42699 GTGTTCAAAG
* *
42709 ATATAAATAAATAA
1 ATATATATATATAA
*
42723 ATATATATATATAC
1 ATATATATATATAA
42737 ATATATATATA
1 ATATATATATA
42748 AAGAAAAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATATATATATAA
Found at i:47039 original size:29 final size:29
Alignment explanation
Indices: 47007--47077 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
46997 CAAATCGAAA
*
47007 CAAGATGGGGATACAATCCCATACATAAT
1 CAAGATGGGGATACAATCCCATACAGAAT
* * ** *
47036 CAAGATGAGTATTTAATCCCATATAGAAT
1 CAAGATGGGGATACAATCCCATACAGAAT
*
47065 CAGGATGGGGATA
1 CAAGATGGGGATA
47078 TTGACAACTT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (29 bp):
CAAGATGGGGATACAATCCCATACAGAAT
Found at i:51553 original size:21 final size:21
Alignment explanation
Indices: 51524--51573 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
51514 GTCGAGGGTT
* * *
51524 TTATTTGGTCCTTCGGGATAA
1 TTATGTGGTCATTCGGGACAA
*
51545 TTATGTGGTTATTCGGGACAA
1 TTATGTGGTCATTCGGGACAA
*
51566 ATATGTGG
1 TTATGTGG
51574 CACTTCCGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.10, G:0.28, T:0.40
Consensus pattern (21 bp):
TTATGTGGTCATTCGGGACAA
Found at i:51594 original size:23 final size:23
Alignment explanation
Indices: 51567--51676 Score: 111
Period size: 23 Copynumber: 4.9 Consensus size: 23
51557 TCGGGACAAA
51567 TATGTGGCACTTCCGTGCAAACT
1 TATGTGGCACTTCCGTGCAAACT
*
51590 TATGTGGCACTTTCGTGCAAACT
1 TATGTGGCACTTCCGTGCAAACT
* * *
51613 TATGTGGCACTTCGGTACAAACC
1 TATGTGGCACTTCCGTGCAAACT
* *
51636 TATTTGGTC-CTT-CG-GGACAA-T
1 TATGTGG-CACTTCCGTGCA-AACT
*
51657 TATGTGGCACTTCGGTGCAA
1 TATGTGGCACTTCCGTGCAA
51677 TTTACAAGCT
Statistics
Matches: 69, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
20 1 0.01
21 10 0.14
22 5 0.07
23 52 0.75
24 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (23 bp):
TATGTGGCACTTCCGTGCAAACT
Found at i:51620 original size:46 final size:44
Alignment explanation
Indices: 51546--51676 Score: 131
Period size: 44 Copynumber: 2.9 Consensus size: 44
51536 TCGGGATAAT
** * * * *
51546 TATGTGGTTATTCGGGACAAATATGTGGCACTTCCGTGCAAACT
1 TATGTGGTCCTTCGGCACAATTATGTGGCACTTCGGTGCAAACC
*
51590 TATGTGG-CACTTTCGTGCA-AACTTATGTGGCACTTCGGTACAAACC
1 TATGTGGTC-C-TTCG-GCACAA-TTATGTGGCACTTCGGTGCAAACC
* *
51636 TATTTGGTCCTTCGGGACAATTATGTGGCACTTCGGTGCAA
1 TATGTGGTCCTTCGGCACAATTATGTGGCACTTCGGTGCAA
51677 TTTACAAGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
44 29 0.41
45 12 0.17
46 29 0.41
47 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (44 bp):
TATGTGGTCCTTCGGCACAATTATGTGGCACTTCGGTGCAAACC
Found at i:53159 original size:72 final size:72
Alignment explanation
Indices: 53070--53208 Score: 242
Period size: 72 Copynumber: 1.9 Consensus size: 72
53060 GAATAGTTTG
*
53070 TGGAGAGTTTAAACCCTAGACTGAAAGAGTTGTTATTAACACTTAACCTCTCTTCATTTCAAGAG
1 TGGAGAGTTTAAACCCTAGACTGAAAGAGATGTTATTAACACTTAACCTCTCTTCATTTCAAGAG
53135 GTATTTA
66 GTATTTA
** *
53142 TGGAGAGTTTACGCCCTAGACTGAAAGAGATGTTATTAGCACTTAACCTCTCTTCATTTCAAGAG
1 TGGAGAGTTTAAACCCTAGACTGAAAGAGATGTTATTAACACTTAACCTCTCTTCATTTCAAGAG
53207 GT
66 GT
53209 CGTGAATAGA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (72 bp):
TGGAGAGTTTAAACCCTAGACTGAAAGAGATGTTATTAACACTTAACCTCTCTTCATTTCAAGAG
GTATTTA
Found at i:59061 original size:12 final size:12
Alignment explanation
Indices: 59041--59072 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
59031 TTTTGGGACT
59041 TTAAAATGAAGC
1 TTAAAATGAAGC
*
59053 TTAAGATGAAGC
1 TTAAAATGAAGC
59065 TTAAAATG
1 TTAAAATG
59073 GTTTCTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (12 bp):
TTAAAATGAAGC
Found at i:62854 original size:175 final size:175
Alignment explanation
Indices: 62563--62883 Score: 554
Period size: 175 Copynumber: 1.8 Consensus size: 175
62553 CCTAAATGTC
* * *
62563 AATGGGGGCTCTCCTTCAACGTTCTTCTAGCTCCTTTTTTTCTTCTATCAACCCTGGTTCTTTCT
1 AATGGGGGCTCTCCTTCAACGTTCTTCGAGCACATTTTTTTCTTCTATCAACCCTGGTTCTTTCT
62628 CAGGCCAGGTATAGTTGAAATTTTTACTTTTTTATTTCCATAATCATGTTCAATTCATTGTGGGT
66 CAGGCCAGGTATAGTTGAAATTTTTACTTTTTTATTTCCATAATCATGTTCAATTCATTGTGGGT
62693 AAAGCTAGGCCACCCCTAATCTTAGTTTTGACGTTCGCGAACGGT
131 AAAGCTAGGCCACCCCTAATCTTAGTTTTGACGTTCGCGAACGGT
* * *
62738 AATGGGGGCTCTCCTTCAACGTTCTTCGAGCACATTTTTTTCTTCTCTCAACTCTGTTTCTTTCT
1 AATGGGGGCTCTCCTTCAACGTTCTTCGAGCACATTTTTTTCTTCTATCAACCCTGGTTCTTTCT
*
62803 CAGGCCAGGTATAGTTTG-AATTTTTACTTTTTTATTTCCATAATCATGTTCAATTTATTGTGGG
66 CAGGCCAGGTATAG-TTGAAATTTTTACTTTTTTATTTCCATAATCATGTTCAATTCATTGTGGG
*
62867 TAAAGCTAGGTCACCCC
130 TAAAGCTAGGCCACCCC
62884 CTTTTTGTGC
Statistics
Matches: 137, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
175 134 0.98
176 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (175 bp):
AATGGGGGCTCTCCTTCAACGTTCTTCGAGCACATTTTTTTCTTCTATCAACCCTGGTTCTTTCT
CAGGCCAGGTATAGTTGAAATTTTTACTTTTTTATTTCCATAATCATGTTCAATTCATTGTGGGT
AAAGCTAGGCCACCCCTAATCTTAGTTTTGACGTTCGCGAACGGT
Found at i:64701 original size:20 final size:20
Alignment explanation
Indices: 64678--64719 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
64668 GCAGGAAAAA
*
64678 GAAAATAAAGTAAAAGAAAT
1 GAAAATAAAGAAAAAGAAAT
* *
64698 GAAAATCAAGAAAAATAAAT
1 GAAAATAAAGAAAAAGAAAT
64718 GA
1 GA
64720 TTTTGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAAATAAAGAAAAAGAAAT
Found at i:64944 original size:45 final size:45
Alignment explanation
Indices: 64853--64945 Score: 105
Period size: 45 Copynumber: 2.1 Consensus size: 45
64843 ATTTGTAGTG
* ** ** *
64853 AAAATGGCACTATATAACATGATCTTTTGAGGCTTTTGGGATAAA
1 AAAATGGCACTATATAACATGACCTTTTGAGGCGCTTGAAAAAAA
* * *
64898 AAAATGTCACTATATACCATGACCTTTTGTGGCGCTTGAAAAAAA
1 AAAATGGCACTATATAACATGACCTTTTGAGGCGCTTGAAAAAAA
64943 AAA
1 AAA
64946 GACACTATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (45 bp):
AAAATGGCACTATATAACATGACCTTTTGAGGCGCTTGAAAAAAA
Found at i:65019 original size:43 final size:42
Alignment explanation
Indices: 64958--65062 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 42
64948 CACTATTTGG
* *
64958 CATGATTTTTGTGGCGTTTGTA-AGAAAAGCGCCGCTATATAA
1 CATGATTTTTGCGGCGTTTG-AGAGAAAAACGCCGCTATATAA
* *
65000 CATGATATTTTGCGACGTTTGAGAGAAAAACGCCGTTATATAA
1 CATGAT-TTTTGCGGCGTTTGAGAGAAAAACGCCGCTATATAA
*
65043 CATGACCTTTTGCGGCGTTT
1 CATGA-TTTTTGCGGCGTTT
65063 TATGTTCACA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 7 0.13
43 47 0.87
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (42 bp):
CATGATTTTTGCGGCGTTTGAGAGAAAAACGCCGCTATATAA
Found at i:76037 original size:38 final size:38
Alignment explanation
Indices: 75986--76061 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
75976 GTAATCAAAT
75986 ACTCAATATAAACAAAATAAATTTACAAAAATTAAAAA
1 ACTCAATATAAACAAAATAAATTTACAAAAATTAAAAA
76024 ACTCAATATAAACAAAATAAATTTACAAAAATTAAAAA
1 ACTCAATATAAACAAAATAAATTTACAAAAATTAAAAA
76062 CACATAAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.24
Consensus pattern (38 bp):
ACTCAATATAAACAAAATAAATTTACAAAAATTAAAAA
Found at i:78578 original size:22 final size:21
Alignment explanation
Indices: 78544--78593 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
78534 ATAAGTATTT
78544 AAAAA-ATTAAATAAAAATACC
1 AAAAACATTAAATAAAAA-ACC
* *
78565 AAAAACATTTAATAAAAAACT
1 AAAAACATTAAATAAAAAACC
78586 AAAAACAT
1 AAAAACAT
78594 CCCCACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAACATTAAATAAAAAACC
Found at i:81303 original size:15 final size:15
Alignment explanation
Indices: 81283--81316 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
81273 AATTCATTTT
81283 CAAACATATAGATTA
1 CAAACATATAGATTA
*
81298 CAAACATATGGATTA
1 CAAACATATAGATTA
81313 CAAA
1 CAAA
81317 AGCGATCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.24
Consensus pattern (15 bp):
CAAACATATAGATTA
Found at i:81483 original size:40 final size:40
Alignment explanation
Indices: 81428--81507 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
81418 ATTCCAATCG
**
81428 ATGGAAGTGGAACCATTGGAACATATTTAATATTATCCTC
1 ATGGAAGTGGAACCATCAGAACATATTTAATATTATCCTC
81468 ATGGAAGTGGAACCATCAGAACATATTTAATATTATCCTC
1 ATGGAAGTGGAACCATCAGAACATATTTAATATTATCCTC
81508 TTATACATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (40 bp):
ATGGAAGTGGAACCATCAGAACATATTTAATATTATCCTC
Found at i:82847 original size:15 final size:15
Alignment explanation
Indices: 82827--82880 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
82817 TATCCGATCC
*
82827 TATCCGAATAATACA
1 TATCCGAATAACACA
82842 TATCCGAATAACACA
1 TATCCGAATAACACA
*
82857 TA-CTCGAATACCACA
1 TATC-CGAATAACACA
*
82872 TATTCGAAT
1 TATCCGAAT
82881 TCCAATATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.03
15 33 0.97
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (15 bp):
TATCCGAATAACACA
Found at i:89262 original size:20 final size:20
Alignment explanation
Indices: 89237--89289 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
89227 CGTTTATTCG
**
89237 GTATGGAGACCAGTTTTTCA
1 GTATGGAGACCAGTCCTTCA
* *
89257 GTATGGAGACTAGTCCTTCG
1 GTATGGAGACCAGTCCTTCA
*
89277 GTATAGAGACCAG
1 GTATGGAGACCAG
89290 ACAGTCTCGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
GTATGGAGACCAGTCCTTCA
Found at i:90906 original size:29 final size:30
Alignment explanation
Indices: 90873--90936 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
90863 TATTTTCACC
*
90873 CTAAAATTTTATAAACTT-AAATTC-ATCCT
1 CTAAAATTTTATAAA-TTCAAATTCGATCAT
90902 CTAAAATTTTATAAATTCAAATTCGATCAT
1 CTAAAATTTTATAAATTCAAATTCGATCAT
90932 CTAAA
1 CTAAA
90937 CATAAAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 2 0.06
29 21 0.66
30 9 0.28
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (30 bp):
CTAAAATTTTATAAATTCAAATTCGATCAT
Found at i:93734 original size:21 final size:21
Alignment explanation
Indices: 93710--93781 Score: 135
Period size: 21 Copynumber: 3.4 Consensus size: 21
93700 TGAACCTTCT
93710 AGTGGAATATCCAATTTCTTG
1 AGTGGAATATCCAATTTCTTG
93731 AGTGGAATATCCAATTTCTTG
1 AGTGGAATATCCAATTTCTTG
*
93752 AGTGGAATATCCAATTTCTTA
1 AGTGGAATATCCAATTTCTTG
93773 AGTGGAATA
1 AGTGGAATA
93782 GCTCTCACAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (21 bp):
AGTGGAATATCCAATTTCTTG
Found at i:96286 original size:2 final size:2
Alignment explanation
Indices: 96276--96370 Score: 55
Period size: 2 Copynumber: 50.5 Consensus size: 2
96266 AATTGAAAAA
*
96276 AT AT A- AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
96314 -T AT AT AT AA ACT AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
96354 -T AT AA ACT AT AT AT AT A
1 AT AT AT A-T AT AT AT AT A
96371 AATTATATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 24
0.69 0.09 0.23
Matches are distributed among these distances:
1 9 0.12
2 60 0.83
3 3 0.04
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:96307 original size:24 final size:25
Alignment explanation
Indices: 96275--96370 Score: 76
Period size: 24 Copynumber: 4.0 Consensus size: 25
96265 AAATTGAAAA
96275 AATATAATATATA-TATATATATAT
1 AATATAATATATACTATATATATAT
* *
96299 AATATAATATAAAAT-TATATATA-
1 AATATAATATATACTATATATATAT
* * *
96322 AACTAT-ATTTATATTATAAACTATAT
1 AA-TATAATATATACTATATA-TATAT
* *
96348 AAT-TATTATAAACTATATATATA
1 AATATAATATATACTATATATATA
96371 AATTATATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
23 8 0.14
24 31 0.55
25 15 0.27
26 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (25 bp):
AATATAATATATACTATATATATAT
Found at i:96341 original size:18 final size:18
Alignment explanation
Indices: 96313--96468 Score: 86
Period size: 18 Copynumber: 8.3 Consensus size: 18
96303 TAATATAAAA
96313 TTATA-TATAAACTATAT
1 TTATATTATAAACTATAT
96330 TTATATTATAAACTATA-
1 TTATATTATAAACTATAT
*
96347 TAATTATTATAAACTATAT
1 TTA-TATTATAAACTATAT
* * * *
96366 ATATAAATTATATTTA-TGTGAA
1 -T-TATATTATA--AACTAT-AT
*
96388 CTATATATATAAACTATGTAT
1 TTATAT-TATAAACTA--TAT
* *
96409 ATAAAATTATAAACTATAT
1 -TTATATTATAAACTATAT
96428 TTATATTATAAACTATA-
1 TTATATTATAAACTATAT
* *
96445 TAATTATTATAAGCTATAT
1 TTA-TATTATAAACTATAT
*
96464 ATATA
1 TTATA
96469 AATTATGTTT
Statistics
Matches: 104, Mismatches: 20, Indels: 29
0.68 0.13 0.19
Matches are distributed among these distances:
17 9 0.09
18 55 0.53
19 5 0.05
20 12 0.12
21 17 0.16
22 6 0.06
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (18 bp):
TTATATTATAAACTATAT
Found at i:96348 original size:49 final size:49
Alignment explanation
Indices: 96314--96480 Score: 171
Period size: 49 Copynumber: 3.4 Consensus size: 49
96304 AATATAAAAT
*
96314 TATATATAAACTATATTTATATTATAAACTATATAATTATTATAAACTA
1 TATATATAAACTATATTTATATTATAAACTATATAATTATTATAAAATA
* * * * * *
96363 TATATATAAATTATATTTATGTGAACTATA-TATATAAACTATGTATATAA-A
1 TATATATAAACTATATTTATAT-TA-TAAACTATAT-AATTAT-TATAAAATA
**
96414 -AT-TATAAACTATATTTATATTATAAACTATATAATTATTATAAGCTA
1 TATATATAAACTATATTTATATTATAAACTATATAATTATTATAAAATA
* *
96461 TATATATAAATTATGTTTAT
1 TATATATAAACTATATTTAT
96481 GTGGACTACA
Statistics
Matches: 93, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
46 4 0.04
47 9 0.10
48 8 0.09
49 50 0.54
50 8 0.09
51 9 0.10
52 5 0.05
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (49 bp):
TATATATAAACTATATTTATATTATAAACTATATAATTATTATAAAATA
Found at i:96437 original size:98 final size:98
Alignment explanation
Indices: 96318--96511 Score: 352
Period size: 98 Copynumber: 2.0 Consensus size: 98
96308 TAAAATTATA
96318 TATAAACTATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTAT
1 TATAAACTATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTAT
*
96383 GTGAACTATATATATAAACTATGTATATAAAAT
66 GTGAACTACATATATAAACTATGTATATAAAAT
* *
96416 TATAAACTATATTTATATTATAAACTATATAATTATTATAAGCTATATATATAAATTATGTTTAT
1 TATAAACTATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTAT
*
96481 GTGGACTACATATATAAACTATGTATATAAA
66 GTGAACTACATATATAAACTATGTATATAAA
96512 CTATATATGT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (98 bp):
TATAAACTATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTAT
GTGAACTACATATATAAACTATGTATATAAAAT
Found at i:96524 original size:15 final size:13
Alignment explanation
Indices: 96288--96531 Score: 103
Period size: 13 Copynumber: 18.3 Consensus size: 13
96278 ATAATATATA
96288 TATATATATATAA-
1 TATATATATA-AAC
*
96301 TATA-ATATAAAA
1 TATATATATAAAC
96313 T-TATATATAAAC
1 TATATATATAAAC
* *
96325 TATAT-T-TATAT
1 TATATATATAAAC
*
96336 TATAAACTATATAA-
1 TATATA-TATA-AAC
96350 T-TAT-TATAAAC
1 TATATATATAAAC
*
96361 TATATATATAAAT
1 TATATATATAAAC
* *
96374 TATATTTATGTGAAC
1 TATA--TATATAAAC
96389 TATATATATAAAC
1 TATATATATAAAC
* *
96402 TATGTATATAAAA
1 TATATATATAAAC
* *
96415 T-TATAAACTATA-
1 TATATATA-TAAAC
*
96427 TTTATATTATAAAC
1 TATATA-TATAAAC
96441 TATATAATTATTATAAGC
1 TATAT-A-TA-TA-AA-C
*
96459 TATATATATAAAT
1 TATATATATAAAC
* * **
96472 TATGTTTATGTGGAC
1 TA--TATATATAAAC
*
96487 TACATATATAAAC
1 TATATATATAAAC
*
96500 TATGTATATAAAC
1 TATATATATAAAC
96513 TATATATGTATAAAC
1 TATATA--TATAAAC
96528 TATA
1 TATA
96532 AAAAGTATAT
Statistics
Matches: 173, Mismatches: 34, Indels: 46
0.68 0.13 0.18
Matches are distributed among these distances:
10 2 0.01
11 16 0.09
12 23 0.13
13 73 0.42
14 10 0.06
15 36 0.21
16 4 0.02
17 3 0.02
18 6 0.03
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:96570 original size:18 final size:18
Alignment explanation
Indices: 96521--96560 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
96511 ACTATATATG
96521 TATAAACTATAAAAAGTA
1 TATAAACTATAAAAAGTA
96539 TATAAACTATAAAAAGTA
1 TATAAACTATAAAAAGTA
96557 TATA
1 TATA
96561 CTTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (18 bp):
TATAAACTATAAAAAGTA
Found at i:96614 original size:18 final size:18
Alignment explanation
Indices: 96521--96614 Score: 63
Period size: 18 Copynumber: 5.2 Consensus size: 18
96511 ACTATATATG
*
96521 TATAAACTATA-AAAAGTA
1 TATATACTATATAAAA-TA
* *
96539 TATAAACTATA-AAAA-G
1 TATATACTATATAAAATA
*
96555 TATATACTTTATAAAATA
1 TATATACTATATAAAATA
*
96573 T-TAT-TTATATTAATATAGTA
1 TATATACTATA-TAA-A-A-TA
96593 TATATACTATATAAAATA
1 TATATACTATATAAAATA
96611 TATA
1 TATA
96615 GTTTATATGT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
16 12 0.20
17 10 0.16
18 23 0.38
19 2 0.03
20 4 0.07
21 6 0.10
22 4 0.07
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.39
Consensus pattern (18 bp):
TATATACTATATAAAATA
Found at i:96651 original size:54 final size:54
Alignment explanation
Indices: 96535--96652 Score: 166
Period size: 54 Copynumber: 2.2 Consensus size: 54
96525 AACTATAAAA
* *
96535 AGTATATAAACTATAAAAAGTATATACTTTATAAAATATTATTTATATTAATAT
1 AGTATATATACTATAAAAAGTATATACTTTATAAAATATAATTTATATTAATAT
* ***
96589 AGTATATATACTATATAAAA-TATATAGTTTATATGTTATAATTTATATTAATAT
1 AGTATATATACTATA-AAAAGTATATACTTTATAAAATATAATTTATATTAATAT
96643 AGTATATATA
1 AGTATATATA
96653 TATGTATGCA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 53 0.93
55 4 0.07
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (54 bp):
AGTATATATACTATAAAAAGTATATACTTTATAAAATATAATTTATATTAATAT
Found at i:96776 original size:2 final size:2
Alignment explanation
Indices: 96771--96816 Score: 65
Period size: 2 Copynumber: 22.0 Consensus size: 2
96761 TTATATAGTT
*
96771 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTT TA TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
96815 TA
1 TA
96817 CATGGTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 37 0.93
3 3 0.08
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96824 original size:20 final size:19
Alignment explanation
Indices: 96765--96834 Score: 69
Period size: 20 Copynumber: 3.9 Consensus size: 19
96755 TTTACTTTAT
96765 ATAGTTTATATATATAT--
1 ATAGTTTATATATATATAC
*
96782 ATA---TATATATATATAT
1 ATAGTTTATATATATATAC
96798 ATAGTTTATATATACTATAC
1 ATAGTTTATATATA-TATAC
* *
96818 ATGGTTTATACATATAT
1 ATAGTTTATATATATAT
96835 TAGGGTTTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 11 0.25
16 3 0.07
17 3 0.07
19 11 0.25
20 16 0.36
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (19 bp):
ATAGTTTATATATATATAC
Found at i:97169 original size:19 final size:19
Alignment explanation
Indices: 97133--97206 Score: 107
Period size: 19 Copynumber: 3.9 Consensus size: 19
97123 AAATTTTCTA
97133 TTCCCTCTAAATTTCTCAAT
1 TTCCCTCTAAA-TTCTCAAT
97153 TTCCCTCTAAATTCTCAAT
1 TTCCCTCTAAATTCTCAAT
*
97172 TTCCCTCTAAATTCCCAAT
1 TTCCCTCTAAATTCTCAAT
*
97191 TT--CTCTATATTCTCAA
1 TTCCCTCTAAATTCTCAA
97207 AATTTCCTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.24
19 28 0.55
20 11 0.22
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (19 bp):
TTCCCTCTAAATTCTCAAT
Found at i:97213 original size:38 final size:38
Alignment explanation
Indices: 97133--97206 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 38
97123 AAATTTTCTA
*
97133 TTCCCTCTAAATTTCTCAATTTCCCTCTAAATTCTCAAT
1 TTCCCTCTAAATTTCCCAATTT-CCTCTAAATTCTCAAT
*
97172 TTCCCTCTAAA-TTCCCAATTT-CTCTATATTCTCAA
1 TTCCCTCTAAATTTCCCAATTTCCTCTAAATTCTCAA
97207 AATTTCCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 13 0.39
38 9 0.27
39 11 0.33
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (38 bp):
TTCCCTCTAAATTTCCCAATTTCCTCTAAATTCTCAAT
Found at i:97320 original size:12 final size:12
Alignment explanation
Indices: 97297--97336 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
97287 CTCACTTTGA
97297 ATAATATATATAT
1 ATAA-ATATATAT
* *
97310 ATAAGTATATAC
1 ATAAATATATAT
97322 ATAAATATATAT
1 ATAAATATATAT
97334 ATA
1 ATA
97337 TAATTAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (12 bp):
ATAAATATATAT
Found at i:98142 original size:20 final size:20
Alignment explanation
Indices: 98117--98173 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
98107 TCCTATTCCA
98117 TGGTAATCTTACATTCCCAC
1 TGGTAATCTTACATTCCCAC
*
98137 TGGTAATCTTATATTCCCAC
1 TGGTAATCTTACATTCCCAC
*
98157 TGGTAATCTTCCATTCC
1 TGGTAATCTTACATTCC
98174 GTGAACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.39
Consensus pattern (20 bp):
TGGTAATCTTACATTCCCAC
Found at i:98392 original size:2 final size:2
Alignment explanation
Indices: 98385--98455 Score: 117
Period size: 2 Copynumber: 35.5 Consensus size: 2
98375 TATGTTTAAT
98385 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
*
98427 TA TA TA TA TG TA TA TA CT- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA T
98456 TATTTAAAGT
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 63 0.97
3 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:98570 original size:27 final size:27
Alignment explanation
Indices: 98536--98598 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
98526 GGGAATTTAG
* *
98536 AGGGAAATTAGGAAATTTTGAGA-ATAT
1 AGGGAAATT-GGAAATTTAGAGAGAAAT
*
98563 AGGGAAATTGGGAATTTAGAGAGAAAT
1 AGGGAAATTGGAAATTTAGAGAGAAAT
*
98590 TGGGAAATT
1 AGGGAAATT
98599 TAGAGGGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (27 bp):
AGGGAAATTGGAAATTTAGAGAGAAAT
Found at i:98588 original size:19 final size:20
Alignment explanation
Indices: 98566--98603 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
98556 AGAATATAGG
98566 GAAATTGGG-AATTTAGAGA
1 GAAATTGGGAAATTTAGAGA
98585 GAAATTGGGAAATTTAGAG
1 GAAATTGGGAAATTTAGAG
98604 GGAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (20 bp):
GAAATTGGGAAATTTAGAGA
Found at i:98617 original size:46 final size:47
Alignment explanation
Indices: 98522--98623 Score: 120
Period size: 46 Copynumber: 2.2 Consensus size: 47
98512 TTTTGATTTT
* * **
98522 ATTTGGGAATTTAGAGGGAAATTAGGAAATTTTGAGAATATAGGGAA
1 ATTTGGGAATTTAGAGAGAAATTAGGAAATTTAGAGAATATAGAAAA
*
98569 A-TTGGGAATTTAGAGAGAAATTGGGAAATTTAGAGGGAATA-A-AAAA
1 ATTTGGGAATTTAGAGAGAAATTAGGAAATTTAGA--GAATATAGAAAA
98615 ATTTGGGAA
1 ATTTGGGAA
98624 GTTGGCACCA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
46 33 0.70
47 9 0.19
48 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.27
Consensus pattern (47 bp):
ATTTGGGAATTTAGAGAGAAATTAGGAAATTTAGAGAATATAGAAAA
Found at i:99314 original size:16 final size:16
Alignment explanation
Indices: 99293--99351 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
99283 TTTACAGGTC
99293 AGGTTAAAAACAAGTT
1 AGGTTAAAAACAAGTT
99309 AGGTTAAAAACAAGTT
1 AGGTTAAAAACAAGTT
*
99325 AGGTTAAAAACATGTT
1 AGGTTAAAAACAAGTT
*
99341 AGGTTGAAAAC
1 AGGTTAAAAAC
99352 TGGTCGGGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (16 bp):
AGGTTAAAAACAAGTT
Done.