Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007092.1 Hibiscus syriacus cultivar Beakdansim tig00018519_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: 126730
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1040 original size:3 final size:3
Alignment explanation
Indices: 1032--1081 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
1022 CCACTTTAAA
*
1032 ATT ATT ATT ATT ATT AAAT ATT ATT A-T ATT A-T ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1075 ATT ATT A
1 ATT ATT A
1082 ATAAATAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 6 0.15
3 33 0.80
4 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:1053 original size:16 final size:17
Alignment explanation
Indices: 1034--1084 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
1024 ACTTTAAAAT
1034 TATTATTATTATTA-AA
1 TATTATTATTATTATAA
*
1050 TATTATTA-TATTATAT
1 TATTATTATTATTATAA
1066 TATTA-TATTATTATTAA
1 TATTATTATTATTA-TAA
1083 TA
1 TA
1085 AATAATTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 7 0.23
16 19 0.63
17 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTATTATTATAA
Found at i:1055 original size:13 final size:12
Alignment explanation
Indices: 1032--1084 Score: 58
Period size: 11 Copynumber: 4.6 Consensus size: 12
1022 CCACTTTAAA
*
1032 ATTATTATTATT
1 ATTAATATTATT
1044 ATTAAATATTATT
1 ATT-AATATTATT
*
1057 A-TATTA-TATT
1 ATTAATATTATT
1067 ATT-ATATTATT
1 ATTAATATTATT
1078 ATTAATA
1 ATTAATA
1085 AATAATTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 7 0.21
11 11 0.32
12 7 0.21
13 9 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTAATATTATT
Found at i:1061 original size:18 final size:18
Alignment explanation
Indices: 1027--1082 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
1017 TTTTTCCACT
1027 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
1045 TTAAATATTATTA-TATTA
1 TTAAA-ATTATTATTATTA
**
1063 -TATTATTA-TATTATTA
1 TTAAAATTATTATTATTA
1079 TTAA
1 TTAA
1083 TAAATAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 2 0.06
16 9 0.28
17 4 0.12
18 10 0.31
19 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:2456 original size:2 final size:2
Alignment explanation
Indices: 2449--2474 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2439 TAGCTTAAGC
2449 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
2475 TAAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2789 original size:24 final size:25
Alignment explanation
Indices: 2740--2789 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
2730 TATAAAACCC
**
2740 TAAAAATATATTCTATTTAGTTTTA
1 TAAAAATATATTCTATTTAGAATTA
2765 TAAAAAT-TATT-TATTTAAGAATTA
1 TAAAAATATATTCTATTT-AGAATTA
2789 T
1 T
2790 TCAATTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 5 0.23
24 10 0.45
25 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (25 bp):
TAAAAATATATTCTATTTAGAATTA
Found at i:4097 original size:17 final size:17
Alignment explanation
Indices: 4075--4109 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4065 TAAAAAGTTT
4075 TATTATCAAGCAAACTA
1 TATTATCAAGCAAACTA
4092 TATTATCAAGCAAACTA
1 TATTATCAAGCAAACTA
4109 T
1 T
4110 GACGCAGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (17 bp):
TATTATCAAGCAAACTA
Found at i:5687 original size:26 final size:24
Alignment explanation
Indices: 5652--5703 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
5642 CATTCATTTT
5652 TTTTCATTACATTT-TCATTTTTATA
1 TTTTCATTACATTTGT-A-TTTTATA
*
5677 TTTTCATTTACGTTTGTATTTTATA
1 TTTTCA-TTACATTTGTATTTTATA
5702 TT
1 TT
5704 GCATCTTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 15 0.62
26 8 0.33
27 1 0.04
ACGTcount: A:0.21, C:0.10, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTCATTACATTTGTATTTTATA
Found at i:7949 original size:2 final size:2
Alignment explanation
Indices: 7944--7971 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7934 TATATGTTTA
7944 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
7972 CCTTTGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9680 original size:3 final size:3
Alignment explanation
Indices: 9672--9727 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
9662 CATTTTAAAA
* * * *
9672 TAT TAT TAT TAT TAT TAT TAT TAT TAT AAA TAT AAA TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9718 TAT TA- TAT TA
1 TAT TAT TAT TA
9728 ATAAATAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
2 6 0.14
3 36 0.86
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:11225 original size:24 final size:24
Alignment explanation
Indices: 11198--11247 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11188 TGGTGGTTGA
11198 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
11222 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
11246 TT
1 TT
11248 GGTTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:17642 original size:6 final size:6
Alignment explanation
Indices: 17631--17655 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17621 TAAGTTTCTC
17631 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
17656 CATTTTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:17990 original size:19 final size:21
Alignment explanation
Indices: 17953--17995 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
17943 TAACTTTTTC
*
17953 TTTTCTCTTTCTTTATTAA-T
1 TTTTCTCTTTCATTATTAACT
17973 TTTTCTCTTTCATT-TTAACT
1 TTTTCTCTTTCATTATTAACT
17993 TTT
1 TTT
17996 ACTTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTTCATTATTAACT
Found at i:21891 original size:13 final size:13
Alignment explanation
Indices: 21873--21898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21863 TCTAGACATT
21873 TTATTTTATTTTA
1 TTATTTTATTTTA
21886 TTATTTTATTTTA
1 TTATTTTATTTTA
21899 GTCATTGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:22241 original size:2 final size:2
Alignment explanation
Indices: 22234--22259 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22224 TAGCTTAGTC
22234 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
22260 TTGATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22276 original size:25 final size:23
Alignment explanation
Indices: 22248--22293 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
22238 ATATATATAT
22248 ATATATATATATTTGATTAAATAAA
1 ATATATATATATTT--TTAAATAAA
* *
22273 ATATGTATTTATTTTTAAATA
1 ATATATATATATTTTTAAATA
22294 TTAAGAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
25 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
ATATATATATATTTTTAAATAAA
Found at i:25357 original size:15 final size:15
Alignment explanation
Indices: 25337--25394 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
25327 GGGTATCGGG
25337 TACCGGGTACCCGAT
1 TACCGGGTACCCGAT
* *
25352 TACCGGGTGCCCGCAA
1 TACCGGGTACCCG-AT
*
25368 AATCCGGGTACCCGAT
1 TA-CCGGGTACCCGAT
*
25384 TACCAGGTACC
1 TACCGGGTACC
25395 TGTAACATCC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
15 20 0.59
16 4 0.12
17 10 0.29
ACGTcount: A:0.22, C:0.34, G:0.26, T:0.17
Consensus pattern (15 bp):
TACCGGGTACCCGAT
Found at i:25469 original size:15 final size:16
Alignment explanation
Indices: 25439--25486 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
25429 CGCCGATCCA
* *
25439 GAAATTCCGGGTACCC
1 GAAAATCCGAGTACCC
25455 GAAAAT-CGAGTACCC
1 GAAAATCCGAGTACCC
*
25470 GAAAATCCTAGTACCC
1 GAAAATCCGAGTACCC
25486 G
1 G
25487 GATTTGCACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (16 bp):
GAAAATCCGAGTACCC
Found at i:30419 original size:37 final size:36
Alignment explanation
Indices: 30377--30492 Score: 110
Period size: 36 Copynumber: 3.2 Consensus size: 36
30367 GTTTCTCTTG
30377 AAACAAAGGGTCATCTCGCTTAAGACAATTTTCTTAA
1 AAACAAA-GGTCATCTCGCTTAAGACAATTTTCTTAA
** * * *
30414 AAACAAATTTCGTCTCGCTTGAGACAGTTTTCTTAA
1 AAACAAAGGTCATCTCGCTTAAGACAATTTTCTTAA
** * *
30450 AAACAAATTTCGTCTCG-TTGGAGACAATTTTCCTT-A
1 AAACAAAGGTCATCTCGCTT-AAGACAATTTT-CTTAA
30486 AAACAAA
1 AAACAAA
30493 ATTAATCTCA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 2 0.03
36 59 0.83
37 10 0.14
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (36 bp):
AAACAAAGGTCATCTCGCTTAAGACAATTTTCTTAA
Found at i:30495 original size:37 final size:36
Alignment explanation
Indices: 30390--30492 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
30380 CAAAGGGTCA
*
30390 TCTCGCTTAAGACAATTTTCTTAAAAACAAATTTCG
1 TCTCGCTTGAGACAATTTTCTTAAAAACAAATTTCG
*
30426 TCTCGCTTGAGACAGTTTTCTTAAAAACAAATTTCG
1 TCTCGCTTGAGACAATTTTCTTAAAAACAAATTTCG
30462 TCTCG-TTGGAGACAATTTTCCTT-AAAACAAA
1 TCTCGCTT-GAGACAATTTT-CTTAAAAACAAA
30493 ATTAATCTCA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
35 2 0.03
36 57 0.92
37 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCGCTTGAGACAATTTTCTTAAAAACAAATTTCG
Found at i:30773 original size:75 final size:75
Alignment explanation
Indices: 30670--30810 Score: 212
Period size: 75 Copynumber: 1.9 Consensus size: 75
30660 TGAAACAGAA
* *
30670 GATTTGTCTCGCTTGAGACGGATTTTACTCGAAACAAGAAGATTT-ATTTCACTCAAGATTGTTT
1 GATTTGTCTCGCTTGAGACGGATTTTACTCGAAACAAG-ACATTTCATTTCAATCAAGATTGTTT
30734 TTCTTAAAAAC
65 TTCTTAAAAAC
* * * *
30745 GATTTGTCTCGCTTGAGATGGTTTTTACTTGAAAGAAGACATTTCATTTCAATCAAGATTGTTTT
1 GATTTGTCTCGCTTGAGACGGATTTTACTCGAAACAAGACATTTCATTTCAATCAAGATTGTTTT
30810 T
66 T
30811 AAATAAGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 5 0.08
75 54 0.92
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.40
Consensus pattern (75 bp):
GATTTGTCTCGCTTGAGACGGATTTTACTCGAAACAAGACATTTCATTTCAATCAAGATTGTTTT
TCTTAAAAAC
Found at i:30872 original size:39 final size:37
Alignment explanation
Indices: 30818--31213 Score: 264
Period size: 36 Copynumber: 10.6 Consensus size: 37
30808 TTTAAATAAG
*
30818 ATTTTATCTCACTTGAGATAGTTTCCCTCGAAACATAA
1 ATTTTATCTCACTTGAGATAGTTTCCCTTGAAACA-AA
*
30856 GATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-AA
1 -ATTTTATCTCACTTGAGATAGTTTCCCTTGAAACAAA
* * *
30893 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AA
1 ATTTTATCTCACTTGAGATAGTTTCCCTTGAAACAAA
* * *
30929 ATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACACAAA
1 ATTTTATCTCACTTGAGATAGTTTCCCTTG-AA-ACAAA
* * * *
30968 ACTTTTAGAACGTTTCCCTTGAAATGAATTTTGTCGCCCTTGAAAC-AA
1 A-TTTT---A--TCTCACTTGAGAT--A-GTT-T--CCCTTGAAACAAA
* * * * *
31016 ATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC-GA
1 ATTTTATCTCACTTGAGATAGTTTCCCTTGAAACAAA
* * *
31052 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AA
1 ATTTTATCTCACTTGAGATAGTTTCCCTTGAAACAAA
* * *
31088 ATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACACAG
1 ATTTTATCTCACTTGAGATAGTTTCCCTTGAAACA-AA
* *
31126 A----A-CT---TTGAAAAAGTTTCCCTTGAAAC-AA
1 ATTTTATCTCACTTGAGATAGTTTCCCTTGAAACAAA
* * *
31154 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AA
1 ATTTTATCTCACTTGAGATAGTTTCCCTTGAAACAAA
* *
31190 ATTTTGTCTCCCTTGAGATAGTTT
1 ATTTTATCTCACTTGAGATAGTTT
31214 ATCTAGAAAC
Statistics
Matches: 297, Mismatches: 35, Indels: 53
0.77 0.09 0.14
Matches are distributed among these distances:
28 2 0.01
30 20 0.07
33 4 0.01
36 180 0.61
37 4 0.01
38 5 0.02
39 37 0.12
40 5 0.02
42 9 0.03
45 11 0.04
47 5 0.02
48 5 0.02
49 3 0.01
50 2 0.01
51 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (37 bp):
ATTTTATCTCACTTGAGATAGTTTCCCTTGAAACAAA
Found at i:30942 original size:21 final size:21
Alignment explanation
Indices: 30880--30944 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
30870 TGAGATAGTT
30880 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* * *
30901 TCTCTTGAGAC--A----GTT
1 TCCCTTGAAACAAATTTTGTC
30916 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
30937 TCCCTTGA
1 TCCCTTGA
30945 GATAGTTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 11 0.34
17 1 0.03
19 1 0.03
21 19 0.59
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:31031 original size:21 final size:21
Alignment explanation
Indices: 30983--31023 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30973 TAGAACGTTT
**
30983 CCCTTGAAATGAATTTTGTCG
1 CCCTTGAAACAAATTTTGTCG
31004 CCCTTGAAACAAATTTTGTC
1 CCCTTGAAACAAATTTTGTC
31024 TCTCTTGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (21 bp):
CCCTTGAAACAAATTTTGTCG
Found at i:31055 original size:36 final size:36
Alignment explanation
Indices: 31004--31296 Score: 297
Period size: 36 Copynumber: 8.5 Consensus size: 36
30994 AATTTTGTCG
31004 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
1 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
* *
31040 CCCTTAAAACGAATTTTGTCTCTCTTGAGACAGTTT
1 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
* *
31076 CCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTT
1 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
* ** * *
31112 CCCTTGAAACACA----G-AACT-TTGAAAAAGTTT
1 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
31142 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
1 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
* *
31178 CCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTT
1 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
** * * **
31214 ATCTAGAAACACA-----TAACT-TTGAGAACA-TTT
1 CCCTTGAAACAAATTTTGTCTCTCTTGAG-ACAGTTT
* *
31244 CCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTT
1 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
* *
31280 CTCTTGAAACAAGTTTT
1 CCCTTGAAACAAATTTT
31297 TGAAACAGTT
Statistics
Matches: 205, Mismatches: 38, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
30 38 0.19
31 5 0.02
32 1 0.00
34 1 0.00
35 7 0.03
36 153 0.75
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (36 bp):
CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
Found at i:31161 original size:102 final size:103
Alignment explanation
Indices: 31035--31296 Score: 420
Period size: 102 Copynumber: 2.6 Consensus size: 103
31025 CTCTTGAGAC
*
31035 AGTTTCCCTTAAAACGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCC
1 AGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCC
* *
31100 TTGAGATAGTTTCCCTTGAAACACAGAACTTTGA-AAA
66 TTGAGATAGTTTACCTAGAAACACAGAACTTTGAGAAA
*
31137 AGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCC
1 AGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCC
* * *
31202 TTGAGATAGTTTATCTAGAAACACATAACTTTGAGAAC
66 TTGAGATAGTTTACCTAGAAACACAGAACTTTGAGAAA
* * *
31240 A-TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAGTTTT
1 AGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
31297 TGAAACAGTT
Statistics
Matches: 148, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
102 145 0.98
103 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (103 bp):
AGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCC
TTGAGATAGTTTACCTAGAAACACAGAACTTTGAGAAA
Found at i:31169 original size:159 final size:159
Alignment explanation
Indices: 30857--31161 Score: 502
Period size: 159 Copynumber: 1.9 Consensus size: 159
30847 GAAACATAAG
* *
30857 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 ATTTTATCTCGCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
* * * *
30922 GAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACACAAAACTTTTAGAACGTTTCCCT
66 GAAACAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACACAAAACTTTGAAAAAGTTTCCCT
**
30987 TGAAATGAATTTTGTCGCCCTTGAAACAA
131 TGAAACAAATTTTGTCGCCCTTGAAACAA
* * *
31016 ATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACGAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 ATTTTATCTCGCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
*
31081 GAAACAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACACAGAACTTTGAAAAAGTTTCCCT
66 GAAACAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACACAAAACTTTGAAAAAGTTTCCCT
31146 TGAAACAAATTTTGTC
131 TGAAACAAATTTTGTC
31162 TCTCTTGAGA
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
159 134 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (159 bp):
ATTTTATCTCGCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
GAAACAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACACAAAACTTTGAAAAAGTTTCCCT
TGAAACAAATTTTGTCGCCCTTGAAACAA
Found at i:31177 original size:66 final size:68
Alignment explanation
Indices: 31004--31189 Score: 243
Period size: 66 Copynumber: 2.7 Consensus size: 68
30994 AATTTTGTCG
* ** *
31004 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACGAATTTTGTCTCTCTTGAG
1 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AA---TGTAACTCTTGAA
*
31069 ACAGTTT
62 AAAGTTT
* *
31076 CCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACACA-G-AACT-TTGAAAAA
1 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-ATGTAACTCTTGAAAAA
31138 GTTT
65 GTTT
31142 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
1 CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
31190 ATTTTGTCTC
Statistics
Matches: 104, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
65 1 0.01
66 55 0.53
67 2 0.02
68 1 0.01
71 1 0.01
72 44 0.42
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (68 bp):
CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAATGTAACTCTTGAAAAAG
TTT
Found at i:31203 original size:21 final size:21
Alignment explanation
Indices: 31141--31205 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
31131 TGAAAAAGTT
31141 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* * *
31162 TCTCTTGAGAC--A----GTT
1 TCCCTTGAAACAAATTTTGTC
31177 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
31198 TCCCTTGA
1 TCCCTTGA
31206 GATAGTTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 11 0.34
17 1 0.03
19 1 0.03
21 19 0.59
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:31236 original size:66 final size:64
Alignment explanation
Indices: 31166--31334 Score: 207
Period size: 66 Copynumber: 2.6 Consensus size: 64
31156 TTTGTCTCTC
*
31166 TTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTATCTAGAAACACA-TAA
1 TTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTATCTAGAAACA-AGT--
31230 CT
63 CT
* * * *
31232 TTGAGAACA-TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAGTTT
1 TTGAG-ACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTATCTAGAAACAAGTCT
* * *
31296 TTGAAACAGTTTCTCTAGAAACAAAGTTTTGTCTCCCTT
1 TTGAGACAGTTTCCCTTGAAACAAA-TTTTGTCTCCCTT
31335 CAAATGGTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
63 3 0.03
64 18 0.20
65 14 0.16
66 52 0.58
67 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (64 bp):
TTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTATCTAGAAACAAGTCT
Found at i:31308 original size:28 final size:29
Alignment explanation
Indices: 31268--31325 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
31258 TTTGTCTCCC
* *
31268 TTGAGACAGTTTCTCTTGAAAC-AAGTTT
1 TTGAAACAGTTTCTCTAGAAACAAAGTTT
31296 TTGAAACAGTTTCTCTAGAAACAAAGTTT
1 TTGAAACAGTTTCTCTAGAAACAAAGTTT
31325 T
1 T
31326 GTCTCCCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (29 bp):
TTGAAACAGTTTCTCTAGAAACAAAGTTT
Found at i:31318 original size:15 final size:14
Alignment explanation
Indices: 31273--31318 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
31263 CTCCCTTGAG
31273 ACAGTTTCTCTTGAA
1 ACAGTTTCTC-TGAA
31288 ACAAGTTT-T-TGAA
1 AC-AGTTTCTCTGAA
31301 ACAGTTTCTCTAGAA
1 ACAGTTTCTCT-GAA
31316 ACA
1 ACA
31319 AAGTTTTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 5 0.19
13 7 0.26
14 1 0.04
15 9 0.33
16 5 0.19
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (14 bp):
ACAGTTTCTCTGAA
Found at i:31381 original size:36 final size:35
Alignment explanation
Indices: 31341--31454 Score: 86
Period size: 36 Copynumber: 3.1 Consensus size: 35
31331 CCTTCAAATG
*
31341 GTTTTTCTTAATACCAACTTTGTCTCGCTTGAGACA
1 GTTTTTCTTAA-ACCAACTTTATCTCGCTTGAGACA
* * * * * *
31377 GTTTTCCCTTGAAACAAAATGTATCTCACTTGAGA-T
1 GTTTT-TCTT-AAACCAACTTTATCTCGCTTGAGACA
* * *
31413 GTTTTTTCTTAAAACCTACTTTTTCTTGCTTGAGACA
1 G-TTTTTCTT-AAACCAACTTTATCTCGCTTGAGACA
31450 GTTTT
1 GTTTT
31455 CCCTTGAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
36 30 0.53
37 25 0.44
38 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (35 bp):
GTTTTTCTTAAACCAACTTTATCTCGCTTGAGACA
Found at i:31409 original size:37 final size:37
Alignment explanation
Indices: 31363--31487 Score: 99
Period size: 36 Copynumber: 3.3 Consensus size: 37
31353 ACCAACTTTG
*
31363 TCTCGCTTGAGACAGTTTTCCCTTGAAACAAAATGTA
1 TCTCACTTGAGACAGTTTTCCCTTGAAACAAAATGTA
* ** * ** * * *
31400 TCTCACTTGAGA-TGTTTTTTCTTAAAACCTACTTTT
1 TCTCACTTGAGACAGTTTTCCCTTGAAACAAAATGTA
** *
31436 TCTTGCTTGAGACAGTTTTCCCTTGAAACAAGAAATTGAA
1 TCTCACTTGAGACAGTTTTCCCTTGAAAC-A-AAA-TGTA
31476 TCTCACTTGAGA
1 TCTCACTTGAGA
31488 TGGTTTTTCT
Statistics
Matches: 60, Mismatches: 24, Indels: 5
0.67 0.27 0.06
Matches are distributed among these distances:
36 25 0.42
37 23 0.38
39 1 0.02
40 11 0.18
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (37 bp):
TCTCACTTGAGACAGTTTTCCCTTGAAACAAAATGTA
Found at i:31420 original size:73 final size:73
Alignment explanation
Indices: 31338--31576 Score: 343
Period size: 73 Copynumber: 3.2 Consensus size: 73
31328 CTCCCTTCAA
* * *
31338 ATGGTTTTTCTTAATACCAACTTTGTCTCGCTTGAGACAGTTTTCCCTTGAAACAAAATGTATCT
1 ATGGTTTTTCTTAAAACCTACTTTGTCTTGCTTGAGACAGTTTTCCCTTGAAACAAAATGTATCT
31403 CACTTGAG
66 CACTTGAG
* * *
31411 ATGTTTTTTCTTAAAACCTACTTTTTCTTGCTTGAGACAGTTTTCCCTTGAAACAAGAAATTGAA
1 ATGGTTTTTCTTAAAACCTACTTTGTCTTGCTTGAGACAGTTTTCCCTTGAAAC-A-AAA-TGTA
31476 TCTCACTTGAG
63 TCTCACTTGAG
* * * * * *
31487 ATGGTTTTTCTTAAAACCTACTTCGTTTTGCTTGAGATAATTTTCCTTTGAAACAAAATTTATCT
1 ATGGTTTTTCTTAAAACCTACTTTGTCTTGCTTGAGACAGTTTTCCCTTGAAACAAAATGTATCT
31552 CACTTGAG
66 CACTTGAG
31560 ATGGTTTTTCTTAAAAC
1 ATGGTTTTTCTTAAAAC
31577 TCTTGAGATA
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
73 79 0.53
74 4 0.03
75 4 0.03
76 61 0.41
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (73 bp):
ATGGTTTTTCTTAAAACCTACTTTGTCTTGCTTGAGACAGTTTTCCCTTGAAACAAAATGTATCT
CACTTGAG
Found at i:31633 original size:61 final size:61
Alignment explanation
Indices: 31517--31637 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
31507 CTTCGTTTTG
* * ** *
31517 CTTGAGATAATTTTCCTTTGAAACAAAATTTATCTCACTTGAGATGGTTTTTCTTAAAACT
1 CTTGAGATAATTTTCCTTCGAAACAAAATTTATCTCACTCGAGATGGCCTCTCTTAAAACT
*
31578 CTTGAGATAATTTTCCTTCGGAACAAAATTTATCTCACTCGAGA-GAGCCTCTCTTAAAAC
1 CTTGAGATAATTTTCCTTCGAAACAAAATTTATCTCACTCGAGATG-GCCTCTCTTAAAAC
31638 AAGTTTCTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 1 0.02
61 52 0.98
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (61 bp):
CTTGAGATAATTTTCCTTCGAAACAAAATTTATCTCACTCGAGATGGCCTCTCTTAAAACT
Found at i:32499 original size:3 final size:3
Alignment explanation
Indices: 32491--32541 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
32481 TATATTATAT
* * *
32491 TTA TTA TTA TTTA TTA -TA TTA TGA TTA TTA TTC TTA TTA TTA GTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32536 TTA TTA
1 TTA TTA
32542 ATAATATCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:32508 original size:24 final size:23
Alignment explanation
Indices: 32483--32530 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 23
32473 GATTAAAATA
32483 TATTATATT-T-ATTATTA-T-T
1 TATTATATTATGATTATTATTCT
32502 TATTATATTATGATTATTATTCT
1 TATTATATTATGATTATTATTCT
32525 TATTAT
1 TATTAT
32531 TAGTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.36
20 1 0.04
21 7 0.28
22 1 0.04
23 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TATTATATTATGATTATTATTCT
Found at i:32531 original size:21 final size:21
Alignment explanation
Indices: 32483--32541 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
32473 GATTAAAATA
32483 TATTATATT--TATTATTATT
1 TATTATATTAGTATTATTATT
32502 TATTATATTA-TGATTATTA-T
1 TATTATATTAGT-ATTATTATT
*
32522 TCTTATTATTAGTATTATTA
1 TATTA-TATTAGTATTATTA
32542 ATAATATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 9 0.26
20 6 0.17
21 19 0.54
22 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (21 bp):
TATTATATTAGTATTATTATT
Found at i:32537 original size:9 final size:8
Alignment explanation
Indices: 32481--32541 Score: 52
Period size: 9 Copynumber: 7.2 Consensus size: 8
32471 GGGATTAAAA
32481 TATATTAT
1 TATATTAT
*
32489 ATTTATTAT
1 -TATATTAT
32498 TAT-TTAT
1 TATATTAT
32505 TATATTAT
1 TATATTAT
*
32513 GATTATTAT
1 TA-TATTAT
*
32522 TCTTATTAT
1 T-ATATTAT
32531 TAGTATTAT
1 TA-TATTAT
32540 TA
1 TA
32542 ATAATATCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 7 0.17
8 7 0.17
9 28 0.67
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:37313 original size:21 final size:20
Alignment explanation
Indices: 37287--37333 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
37277 TAATTATTAA
*
37287 AATATTTAAAATATATTTATT
1 AATATTTAAAATA-ATATATT
*
37308 AATATTTATAATAATATATT
1 AATATTTAAAATAATATATT
37328 -ATATTT
1 AATATTT
37334 TTAATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
20 6 0.25
21 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTTAAAATAATATATT
Found at i:37330 original size:29 final size:28
Alignment explanation
Indices: 37298--37441 Score: 83
Period size: 29 Copynumber: 5.1 Consensus size: 28
37288 ATATTTAAAA
37298 TATATTTATTAATATTTATAATAATATAT
1 TATATTT-TTAATATTTATAATAATATAT
37327 TATATTTTTAATATTATATAA-AATAATCAAT
1 TATATTTTTAATATT-TATAATAAT-AT--AT
* *
37358 TATA-TTATAATA---AT-ATAAGATAT
1 TATATTTTTAATATTTATAATAATATAT
37381 TATA-TTTT--TATTT-TAATAATATAAT
1 TATATTTTTAATATTTATAATAATAT-AT
* *
37406 AAATTTTTTTATATATTTAATAATGAATAATAT
1 -TATATTTTTA-ATATTT-ATAAT-AAT-ATAT
37439 TAT
1 TAT
37442 TTATATATTT
Statistics
Matches: 89, Mismatches: 7, Indels: 35
0.68 0.05 0.27
Matches are distributed among these distances:
21 2 0.02
23 10 0.11
24 6 0.07
25 5 0.06
26 6 0.07
27 4 0.04
28 11 0.12
29 14 0.16
30 12 0.13
31 6 0.07
32 6 0.07
33 5 0.06
34 2 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
TATATTTTTAATATTTATAATAATATAT
Found at i:37333 original size:19 final size:20
Alignment explanation
Indices: 37287--37345 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
37277 TAATTATTAA
* *
37287 AATATTTAAAATATATTTATT
1 AATATTTATAATA-ATATATT
37308 AATATTTATAATAATATATT
1 AATATTTATAATAATATATT
* *
37328 -ATATTTTTAATATTATAT
1 AATATTTATAATAATATAT
37346 AAAATAATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.47
20 6 0.18
21 12 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATTTATAATAATATATT
Found at i:37360 original size:31 final size:29
Alignment explanation
Indices: 37298--37441 Score: 85
Period size: 28 Copynumber: 5.1 Consensus size: 29
37288 ATATTTAAAA
37298 TATATTTATTAATATTTATAATAATATAT
1 TATATTTATTAATATTTATAATAATATAT
37327 TATATTT-TTAATATTATATAA-AATA-AT
1 TATATTTATTAATATT-TATAATAATATAT
* * * *
37354 CA-ATTATATT-ATAATAAT-ATAAGATAT
1 TATATT-TATTAATATTTATAATAATATAT
*
37381 TATA-TT-TT--TATTT-TAATAATATAA
1 TATATTTATTAATATTTATAATAATATAT
* *
37405 TAAATTTTTTTATATATTTAATAATGAATAATAT
1 TATA-TTTATTA-ATATTT-ATAAT-AAT-ATAT
37439 TAT
1 TAT
37442 TTATATATTT
Statistics
Matches: 86, Mismatches: 12, Indels: 29
0.68 0.09 0.23
Matches are distributed among these distances:
23 1 0.01
24 13 0.15
25 3 0.03
26 11 0.13
27 14 0.16
28 15 0.17
29 12 0.14
30 5 0.06
32 4 0.05
33 3 0.03
34 5 0.06
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (29 bp):
TATATTTATTAATATTTATAATAATATAT
Found at i:37444 original size:28 final size:29
Alignment explanation
Indices: 37358--37459 Score: 93
Period size: 29 Copynumber: 3.5 Consensus size: 29
37348 AATAATCAAT
* * * *
37358 TATATTATAATAATATAAGATATTATATTTT
1 TATATT-TAATAATAGAATAAATT-TATTTA
* *
37389 TAT-TTTAATAATATAATAAATTTTTTTA
1 TATATTTAATAATAGAATAAATTTATTTA
37417 TATATTTAATAAT-GAAT-AATATTATTTA
1 TATATTTAATAATAGAATAAAT-TTATTTA
37445 TATATTTCAATAATA
1 TATATTT-AATAATA
37460 TTTTAGTAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
27 3 0.05
28 23 0.38
29 30 0.49
30 2 0.03
31 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (29 bp):
TATATTTAATAATAGAATAAATTTATTTA
Found at i:37702 original size:20 final size:20
Alignment explanation
Indices: 37624--37693 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
37614 TTTCCAGATG
37624 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
37644 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
37664 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
37684 TTTTCCAGAA
1 TTTTCCAGAA
37694 TTCAAATTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:37702 original size:40 final size:40
Alignment explanation
Indices: 37624--37702 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
37614 TTTCCAGATG
* **
37624 TTTTCCAGAAATGTAATTCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
*
37664 TTTTACAGAAATGTAATTCATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
37703 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:37712 original size:15 final size:15
Alignment explanation
Indices: 37676--37757 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
37666 TTACAGAAAT
**
37676 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
37691 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
37705 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
37720 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
37735 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
37750 GTAATTCA
1 GTAATTCA
37758 TTTTCTGGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:37728 original size:30 final size:30
Alignment explanation
Indices: 37676--37757 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
37666 TTACAGAAAT
37676 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
37705 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
**
37735 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
37758 TTTTCTGGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:37750 original size:45 final size:44
Alignment explanation
Indices: 37676--37762 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
37666 TTACAGAAAT
**
37676 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
37720 GTAATTCAAATTCCAGTAATTCAAATTCCAGTAATTCATTTTC
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTC
37763 TGGAAAACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
Found at i:38103 original size:117 final size:117
Alignment explanation
Indices: 37889--38103 Score: 288
Period size: 117 Copynumber: 1.8 Consensus size: 117
37879 AGGTGGGTAT
* * ** * * *
37889 ATATGTATTAATAATATAACTTTTTCGCATGTGACAAATACAAATAAAATTTCAGGATAGATATC
1 ATATGTATTAATAATAGAAATTTTTCGCATAAGACAAACACAAATAAAATTTCAAGATAGACATC
37954 ATCAGTAAAATAAACAACTAACCTAAAGAAATTATAATTTCATAGTGGAAGC
66 ATCAGTAAAATAAACAACTAACCTAAAGAAATTATAATTTCATAGTGGAAGC
* * * *
38006 ATATGTATTAATAATAGAAATTTTTCGTATAAGGCAGACATAAATAAAATTTCAAGATAGACATC
1 ATATGTATTAATAATAGAAATTTTTCGCATAAGACAAACACAAATAAAATTTCAAGATAGACATC
** *
38071 ATTTGTAAAATGAACAAACTAACCTAAA-AAATT
66 ATCAGTAAAATAAAC-AACTAACCTAAAGAAATT
38104 TCGGATTTTA
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
117 71 0.86
118 12 0.14
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (117 bp):
ATATGTATTAATAATAGAAATTTTTCGCATAAGACAAACACAAATAAAATTTCAAGATAGACATC
ATCAGTAAAATAAACAACTAACCTAAAGAAATTATAATTTCATAGTGGAAGC
Found at i:39384 original size:2 final size:2
Alignment explanation
Indices: 39363--39426 Score: 101
Period size: 2 Copynumber: 31.0 Consensus size: 2
39353 AATGATAATC
*
39363 AT AT ACT AT CAT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39407 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
39427 TAAAATAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 54 0.93
3 4 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:42920 original size:18 final size:18
Alignment explanation
Indices: 42893--42927 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42883 TTGCATTTGA
42893 TGTCCACATCTCCATTGG
1 TGTCCACATCTCCATTGG
* *
42911 TGTCCTCATCTCTATTG
1 TGTCCACATCTCCATTG
42928 CCGTTGATGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.31, G:0.14, T:0.40
Consensus pattern (18 bp):
TGTCCACATCTCCATTGG
Found at i:55361 original size:21 final size:21
Alignment explanation
Indices: 55313--55362 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
55303 TTCTCTAGTA
*
55313 TTGGGAGAAAGCTAGAATGAT
1 TTGGGATAAAGCTAGAATGAT
*
55334 TTGGGATAAAGGTAGAATGAT
1 TTGGGATAAAGCTAGAATGAT
55355 TTGGGATA
1 TTGGGATA
55363 GTTTTGAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.02, G:0.34, T:0.28
Consensus pattern (21 bp):
TTGGGATAAAGCTAGAATGAT
Found at i:57106 original size:30 final size:30
Alignment explanation
Indices: 57070--57132 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
57060 AAGGATGCAC
*
57070 GCACCGAATATGCATAATTTCAATGGGTTG
1 GCACCGAATATGCATAATTTCAATGGGCTG
*
57100 GCACCGAATGTGCATAATTTCAATGGGCTG
1 GCACCGAATATGCATAATTTCAATGGGCTG
57130 GCA
1 GCA
57133 ATTGTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (30 bp):
GCACCGAATATGCATAATTTCAATGGGCTG
Found at i:57548 original size:16 final size:16
Alignment explanation
Indices: 57527--57558 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57517 ACTATTCACA
*
57527 TGAATAGTGAATTTCG
1 TGAATAGTGAAATTCG
57543 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
57559 GTCGACGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (16 bp):
TGAATAGTGAAATTCG
Found at i:61786 original size:15 final size:15
Alignment explanation
Indices: 61766--61858 Score: 168
Period size: 15 Copynumber: 6.2 Consensus size: 15
61756 CGTAGGACTC
61766 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
61781 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
61796 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
61811 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
61826 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
61841 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
61856 CTA
1 CTA
61859 TTATACCCTC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 74 1.00
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.14
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:61989 original size:29 final size:29
Alignment explanation
Indices: 61943--62020 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
61933 TTTCATATGT
61943 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
61971 TCATGTAGCTCATGCCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
62000 TCATGTAGCTCATGTCATTTC
1 TCATGTAGCTCATGTCATTTC
62021 ATATCATGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 7 0.15
29 40 0.85
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:62049 original size:12 final size:12
Alignment explanation
Indices: 62032--62077 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
62022 TATCATGTTC
*
62032 TCATATCACAGG
1 TCATATCACAGA
*
62044 TCATATCACATA
1 TCATATCACAGA
*
62056 TCATATCACATA
1 TCATATCACAGA
*
62068 GCATATCACA
1 TCATATCACA
62078 TGAACATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (12 bp):
TCATATCACAGA
Found at i:62063 original size:24 final size:24
Alignment explanation
Indices: 62032--62078 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
62022 TATCATGTTC
*
62032 TCATATCACA-GGTCATATCACATA
1 TCATATCACATAG-CATATCACATA
62056 TCATATCACATAGCATATCACAT
1 TCATATCACATAGCATATCACAT
62079 GAACATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (24 bp):
TCATATCACATAGCATATCACATA
Found at i:62078 original size:12 final size:12
Alignment explanation
Indices: 62045--62078 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
62035 TATCACAGGT
*
62045 CATATCACATAT
1 CATATCACATAG
62057 CATATCACATAG
1 CATATCACATAG
62069 CATATCACAT
1 CATATCACAT
62079 GAACATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.29
Consensus pattern (12 bp):
CATATCACATAG
Found at i:62506 original size:64 final size:63
Alignment explanation
Indices: 62387--62545 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 63
62377 TAATGAAGGT
* * * * * ***
62387 ATGCATCGATGCACTACTGATGC-TCGGTGCATCAAGGTATTCGATGTAGTATTATTGTTGGG
1 ATGCATCGATGCACTCCTAATGCATCGATGCACCAAGGCATTCGATGTAGTATTATTAACGGG
* * *
62449 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAACGGG
1 ATGCATCGATGCACTCCTAATGCATCGATGCACCAA-GGCATTCGATGTAGT-ATTATTAACGGG
*
62513 ATGCATCGATGCACTACC-AATGCATCAATGCAC
1 ATGCATCGATGCACT-CCTAATGCATCGATGCAC
62546 ATTCATATAA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
62 21 0.26
63 11 0.14
64 47 0.58
65 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTAATGCATCGATGCACCAAGGCATTCGATGTAGTATTATTAACGGG
Found at i:63865 original size:30 final size:30
Alignment explanation
Indices: 63829--63891 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
63819 AAGGATGCAC
*
63829 GCACCGAATATGCATAATTTCAATGGGTTG
1 GCACCGAATATGCATAATTTCAATGGGCTG
*
63859 GCACCGAATGTGCATAATTTCAATGGGCTG
1 GCACCGAATATGCATAATTTCAATGGGCTG
63889 GCA
1 GCA
63892 ATTGTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (30 bp):
GCACCGAATATGCATAATTTCAATGGGCTG
Found at i:65136 original size:18 final size:18
Alignment explanation
Indices: 65110--65172 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
65100 TATATGAGGG
65110 AATTGGAATCTGTGAAGA
1 AATTGGAATCTGTGAAGA
* *
65128 AATTAGAATCTGTGAAGG
1 AATTGGAATCTGTGAAGA
*
65146 AATTGGAATCTGT-CAGA
1 AATTGGAATCTGTGAAGA
*
65163 AATTGAAATC
1 AATTGGAATC
65173 CAATTCTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
17 11 0.28
18 28 0.72
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (18 bp):
AATTGGAATCTGTGAAGA
Found at i:65774 original size:38 final size:36
Alignment explanation
Indices: 65721--65837 Score: 134
Period size: 33 Copynumber: 3.2 Consensus size: 36
65711 CCTAAACCCG
65721 ACCCGACCCGACCCGACCTGAATATCACACTTAAAAAA
1 ACCCGACCCGA-CCGACC-GAATATCACACTTAAAAAA
*
65759 ACCCGACCCG---GCCCGAATATCACACTTAAAAAA
1 ACCCGACCCGACCGACCGAATATCACACTTAAAAAA
* *
65792 ACCAGACCTGACTCGACCAGAATATCACACTT-AAAAA
1 ACCCGACCCGAC-CGACC-GAATATCACACTTAAAAAA
*
65829 ACCCAACCC
1 ACCCGACCC
65838 TACCCGAACA
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
33 27 0.40
34 3 0.04
37 14 0.21
38 23 0.34
ACGTcount: A:0.40, C:0.37, G:0.10, T:0.13
Consensus pattern (36 bp):
ACCCGACCCGACCGACCGAATATCACACTTAAAAAA
Found at i:74549 original size:3 final size:3
Alignment explanation
Indices: 74541--74639 Score: 108
Period size: 3 Copynumber: 32.3 Consensus size: 3
74531 TTTATTTAAA
* *
74541 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAAT ATT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
** * * * *
74587 ATT ATT AAA ATA ATA ATA ATT ATT ATT AAT ATT ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
74633 ATT ATT A
1 ATT ATT A
74640 AAAAATAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
3 79 0.94
4 5 0.06
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:74657 original size:49 final size:49
Alignment explanation
Indices: 74556--74648 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
74546 TATTATTATT
* *
74556 ATTATTATTATTATTAAATATTAGTATTATTATTATTAAAATAATAATA
1 ATTATTATTAATATTAAATATTAGTATTATTATTATAAAAATAATAATA
* *
74605 ATTATTATTAATATTATATATTATTATTATTATTA-AAAAATAAT
1 ATTATTATTAATATTAAATATTAGTATTATTATTATAAAAATAAT
74649 TACAAATTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 8 0.20
49 32 0.80
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (49 bp):
ATTATTATTAATATTAAATATTAGTATTATTATTATAAAAATAATAATA
Found at i:76012 original size:25 final size:25
Alignment explanation
Indices: 75984--76031 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
75974 CCTATTCTGG
75984 TATTT-TAATAAATAAATAAATATCT
1 TATTTATAA-AAATAAATAAATATCT
* *
76009 TATTTATAAAAATATATATATAT
1 TATTTATAAAAATAAATAAATAT
76032 ATTTACTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTTATAAAAATAAATAAATATCT
Found at i:76256 original size:2 final size:2
Alignment explanation
Indices: 76245--76287 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
76235 AATTTTAGTC
76245 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76286 AT
1 AT
76288 GAAAGATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:79385 original size:2 final size:2
Alignment explanation
Indices: 79378--79422 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
79368 ATTTTTATTT
79378 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
79420 TA T
1 TA T
79423 GCTAATGGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:79681 original size:41 final size:35
Alignment explanation
Indices: 79609--79733 Score: 110
Period size: 35 Copynumber: 3.4 Consensus size: 35
79599 TATTTATAAG
*
79609 ATATAGATTTTAAAACA-T-TTTAAAAACTATATATT
1 ATAT-GATTTTAAAACATTATTTGAAAA-TATATATT
* *
79644 ATATGATTTTGAAAACATTTTTTAGAAAGTATGTATATAAT
1 ATATGATTTT-AAAACATTATTT-GAAA--A--TATATATT
* * *
79685 ATATAATCTTAAAATATTATTTGAAAATATATATT
1 ATATGATTTTAAAACATTATTTGAAAATATATATT
79720 ATATGATTTTAAAA
1 ATATGATTTTAAAA
79734 ATACATTTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
34 6 0.08
35 29 0.40
36 1 0.01
37 4 0.05
38 3 0.04
39 4 0.05
40 11 0.15
41 15 0.21
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (35 bp):
ATATGATTTTAAAACATTATTTGAAAATATATATT
Found at i:79752 original size:35 final size:34
Alignment explanation
Indices: 79609--79753 Score: 89
Period size: 35 Copynumber: 4.0 Consensus size: 34
79599 TATTTATAAG
79609 ATATAGATTTT-AAA-ACATTTTAAAAACTATATATT
1 ATAT-GATTTTAAAATACATTTT-AAAAC-ATATATT
* *
79644 ATATGATTTTGAAA-ACATTTTTTAGAAAGTATGTATATAAT
1 ATATGATTTTAAAATACA--TTTTA-AAA-CA--TATAT--T
* * * * *
79685 ATATAATCTTAAAATATTATTTGAAAATATATATT
1 ATATGATTTTAAAATA-CATTTTAAAACATATATT
79720 ATATGATTTTAAAAATACATTTTAAAACATATAT
1 ATATGATTTT-AAAATACATTTTAAAACATATAT
79754 ATAATATATT
Statistics
Matches: 87, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
34 6 0.07
35 33 0.38
36 7 0.08
37 13 0.15
39 7 0.08
40 3 0.03
41 16 0.18
42 1 0.01
43 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (34 bp):
ATATGATTTTAAAATACATTTTAAAACATATATT
Found at i:79804 original size:20 final size:20
Alignment explanation
Indices: 79781--79825 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
79771 AAAATGTTCC
79781 TTTTTA-TTTTTATTTATTTA
1 TTTTTATTTTTTATTT-TTTA
*
79801 TTTTTATTTTTTATTTTTTC
1 TTTTTATTTTTTATTTTTTA
79821 TTTTT
1 TTTTT
79826 CAGGACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTATTTTTTATTTTTTA
Found at i:79819 original size:14 final size:13
Alignment explanation
Indices: 79781--79818 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
79771 AAAATGTTCC
79781 TTTTTATTTTTAT
1 TTTTTATTTTTAT
79794 TTATTTATTTTTAT
1 TT-TTTATTTTTAT
79808 TTTTTATTTTT
1 TTTTTATTTTT
79819 TCTTTTTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:79824 original size:14 final size:13
Alignment explanation
Indices: 79781--79825 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
79771 AAAATGTTCC
79781 TTTTTATTTTTATT
1 TTTTTATTTTT-TT
* *
79795 TATTTATTTTTAT
1 TTTTTATTTTTTT
79808 TTTTTATTTTTTCT
1 TTTTTATTTTTT-T
79822 TTTT
1 TTTT
79826 CAGGACCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTTT
Found at i:80374 original size:16 final size:16
Alignment explanation
Indices: 80353--80389 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
80343 CAGGAAACCA
80353 CACAGGAACGGTATAT
1 CACAGGAACGGTATAT
80369 CACAGGAACGGTATAT
1 CACAGGAACGGTATAT
80385 CACAG
1 CACAG
80390 AAACCATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (16 bp):
CACAGGAACGGTATAT
Found at i:81177 original size:10 final size:11
Alignment explanation
Indices: 81158--81186 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
81148 TTCTAATTTC
81158 ATTATTTTATT
1 ATTATTTTATT
81169 ATT-TTTTATT
1 ATTATTTTATT
81179 ATTATTTT
1 ATTATTTT
81187 TTCACTAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:81182 original size:13 final size:13
Alignment explanation
Indices: 81164--81188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81154 TTTCATTATT
81164 TTATTATTTTTTA
1 TTATTATTTTTTA
81177 TTATTATTTTTT
1 TTATTATTTTTT
81189 CACTAACCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:82183 original size:209 final size:209
Alignment explanation
Indices: 81823--82234 Score: 824
Period size: 209 Copynumber: 2.0 Consensus size: 209
81813 ACCTTTGATT
81823 ATTTTTGAAATAAATAGTTGTACTAACATTTTTTCAATGATTTCAGATTTTTGAAAAGTTTCCAT
1 ATTTTTGAAATAAATAGTTGTACTAACATTTTTTCAATGATTTCAGATTTTTGAAAAGTTTCCAT
81888 CTCTGTCTCTATACCCGAGCTCTGAACCCTTTTAAGTTGAGGTGAAAGCGACGCCTTCGTGTGAA
66 CTCTGTCTCTATACCCGAGCTCTGAACCCTTTTAAGTTGAGGTGAAAGCGACGCCTTCGTGTGAA
81953 TTTATTCACCGTGTAGCCTTCAGGATTCGTATACCCTATGTCTTCGTGTGAATTTATTCACCGTG
131 TTTATTCACCGTGTAGCCTTCAGGATTCGTATACCCTATGTCTTCGTGTGAATTTATTCACCGTG
82018 CGGGCATATTTTTG
196 CGGGCATATTTTTG
82032 ATTTTTGAAATAAATAGTTGTACTAACATTTTTTCAATGATTTCAGATTTTTGAAAAGTTTCCAT
1 ATTTTTGAAATAAATAGTTGTACTAACATTTTTTCAATGATTTCAGATTTTTGAAAAGTTTCCAT
82097 CTCTGTCTCTATACCCGAGCTCTGAACCCTTTTAAGTTGAGGTGAAAGCGACGCCTTCGTGTGAA
66 CTCTGTCTCTATACCCGAGCTCTGAACCCTTTTAAGTTGAGGTGAAAGCGACGCCTTCGTGTGAA
82162 TTTATTCACCGTGTAGCCTTCAGGATTCGTATACCCTATGTCTTCGTGTGAATTTATTCACCGTG
131 TTTATTCACCGTGTAGCCTTCAGGATTCGTATACCCTATGTCTTCGTGTGAATTTATTCACCGTG
82227 CGGGCATA
196 CGGGCATA
82235 AGGGAGTGTT
Statistics
Matches: 203, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
209 203 1.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (209 bp):
ATTTTTGAAATAAATAGTTGTACTAACATTTTTTCAATGATTTCAGATTTTTGAAAAGTTTCCAT
CTCTGTCTCTATACCCGAGCTCTGAACCCTTTTAAGTTGAGGTGAAAGCGACGCCTTCGTGTGAA
TTTATTCACCGTGTAGCCTTCAGGATTCGTATACCCTATGTCTTCGTGTGAATTTATTCACCGTG
CGGGCATATTTTTG
Found at i:82620 original size:17 final size:17
Alignment explanation
Indices: 82600--82632 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
82590 CTCACTAACC
*
82600 CTTTTATTTTTTGTTCT
1 CTTTTATTTTGTGTTCT
82617 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
82633 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:83274 original size:17 final size:18
Alignment explanation
Indices: 83241--83283 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
83231 ATTTATACAT
*
83241 TTTGCATTTTTTATTTTC
1 TTTGCATTTTGTATTTTC
83259 TTTGCATTTTGT-TTTTC
1 TTTGCATTTTGTATTTTC
83276 TTTGCATT
1 TTTGCATT
83284 CACATTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.09, C:0.12, G:0.09, T:0.70
Consensus pattern (18 bp):
TTTGCATTTTGTATTTTC
Found at i:86805 original size:84 final size:84
Alignment explanation
Indices: 86662--87692 Score: 1162
Period size: 84 Copynumber: 12.4 Consensus size: 84
86652 TTTAAGACAA
* * * * * *
86662 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
*
86727 GCTCAGCTCCAAGGCACAT
66 ACTCAGCTCCAAGGCACAT
* * *
86746 CGTTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTGCCAACCAAAGACCCCCGAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
* *
86811 ACTCAGCTTCAAGGGCATAT
66 ACTCAGCTCCAA-GGCACAT
* * * * * * * * * *
86831 CATTTACAGCATAACTCAAGGCTACAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
*
86895 GCTCAGCTCCAAGGCACAT
66 ACTCAGCTCCAAGGCACAT
* * *
86914 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CTA--AAAGACCCCCGAGTTCAATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
* *
86976 ACTCAGCTTCGAGAGCACAT
66 ACTCAGCTCCAAG-GCACAT
** * * * * * *
86996 CATTTGTGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTTGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
*
87061 GCTCAGCTCCAAGGCACAT
66 ACTCAGCTCCAAGGCACAT
*
87080 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A--AAAGACCCCCGAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
* * *
87142 ACTTAGCTTCGAGGGCACAT
66 ACTCAGC-TCCAAGGCACAT
* * * * * *
87162 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
*
87227 GCTCAGCTCCAAGGCACAT
66 ACTCAGCTCCAAGGCACAT
* * *
87246 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CTA--AAAGACCCCCGAGTTCAATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
* *
87308 ACTCAGCTTCGAGAGCACAT
66 ACTCAGCTCCAAG-GCACAT
** * * * * * *
87328 CATTTGTGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTTGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
*
87393 GCTCAGCTCCAAGGCACAT
66 ACTCAGCTCCAAGGCACAT
87412 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A--AAAGACCC-CTGAGTTCGATTA
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTC-GAGTTCGATTA
* *
87473 CACTCAGCTTCGAGGGCACAT
65 CACTCAGC-TCCAAGGCACAT
* * * * *
87494 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
* *
87559 GCTCAGCTCCAAGGCATAT
66 ACTCAGCTCCAAGGCACAT
**
87578 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCTTAAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
* *
87639 ACTCAGCTTCAAGGGCATAT
66 ACTCAGCTCCAA-GGCACAT
* * * *
87659 CATTTACAGCATAGCTCAAGGCAAGAAGGGCTAT
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
87693 TTGTCAATAA
Statistics
Matches: 790, Mismatches: 136, Indels: 45
0.81 0.14 0.05
Matches are distributed among these distances:
80 32 0.04
81 140 0.18
82 168 0.21
83 47 0.06
84 264 0.33
85 139 0.18
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (84 bp):
CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTCGATTAC
ACTCAGCTCCAAGGCACAT
Found at i:87101 original size:166 final size:166
Alignment explanation
Indices: 86662--87663 Score: 1648
Period size: 166 Copynumber: 6.0 Consensus size: 166
86652 TTTAAGACAA
86662 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
1 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
* *
86727 GCTCAGCTCCAAGGCACATCGTTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTGCCAACCAAA
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A--AAA
* *
86792 GACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCATAT
128 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * * * * * * * * *
86831 CATTTACAGCATAACTCAAGGCTACAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
*
86895 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAAGAC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGAC
* *
86960 CCCCGAGTTCAATTACACTCAGCTTCGAGAGCACAT
131 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* *
86996 CATTTGTGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTTGATTAC
1 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
87061 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGAC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGAC
*
87126 CCCCGAGTTCGATTACACTTAGCTTCGAGGGCACAT
131 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* *
87162 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
*
87227 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAAGAC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGAC
* *
87292 CCCCGAGTTCAATTACACTCAGCTTCGAGAGCACAT
131 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* *
87328 CATTTGTGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTTGATTAC
1 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
87393 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGAC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGAC
*
87458 CCCTGAGTTCGATTACACTCAGCTTCGAGGGCACAT
131 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
*
87494 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTAC
1 CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
*
87559 GCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-AAAGAC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGAC
*** * *
87623 CCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAT
131 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
87659 CATTT
1 CATTT
87664 ACAGCATAGC
Statistics
Matches: 775, Mismatches: 57, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
165 111 0.14
166 554 0.71
167 1 0.00
168 78 0.10
169 31 0.04
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (166 bp):
CATTTGCGGCATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGAC
CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
Found at i:88628 original size:20 final size:20
Alignment explanation
Indices: 88605--88649 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
88595 TAAATGTTCC
88605 TTTTTA-TTTTTATTTATTTA
1 TTTTTATTTTTTATTT-TTTA
*
88625 TTTTTATTTTTTATTTTTTC
1 TTTTTATTTTTTATTTTTTA
88645 TTTTT
1 TTTTT
88650 CAGGACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTATTTTTTATTTTTTA
Found at i:88643 original size:14 final size:13
Alignment explanation
Indices: 88605--88642 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
88595 TAAATGTTCC
88605 TTTTTATTTTTAT
1 TTTTTATTTTTAT
88618 TTATTTATTTTTAT
1 TT-TTTATTTTTAT
88632 TTTTTATTTTT
1 TTTTTATTTTT
88643 TCTTTTTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:88648 original size:14 final size:13
Alignment explanation
Indices: 88605--88649 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
88595 TAAATGTTCC
88605 TTTTTATTTTTATT
1 TTTTTATTTTT-TT
* *
88619 TATTTATTTTTAT
1 TTTTTATTTTTTT
88632 TTTTTATTTTTTCT
1 TTTTTATTTTTT-T
88646 TTTT
1 TTTT
88650 CAGGACCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTTT
Found at i:89967 original size:16 final size:16
Alignment explanation
Indices: 89948--89979 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89938 TCTAATTTCA
*
89948 TTATTTTTATTATTTT
1 TTATTATTATTATTTT
89964 TTATTATTATTATTTT
1 TTATTATTATTATTTT
89980 CACTAACCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTATTATTATTATTTT
Found at i:90957 original size:9 final size:8
Alignment explanation
Indices: 90932--90960 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
90922 TTCTTATGCG
90932 TTTTTG-T
1 TTTTTGTT
90939 TTTTTGTT
1 TTTTTGTT
90947 TTTTTGTT
1 TTTTTGTT
90955 TTTTTG
1 TTTTTG
90961 CAGAAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (8 bp):
TTTTTGTT
Found at i:96739 original size:21 final size:21
Alignment explanation
Indices: 96715--96780 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
96705 AACTTTGAAA
96715 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
96736 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
96750 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
96771 AAATGTTTTT
1 AAATGGTTTT
96781 TTGAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
19 4 0.11
20 4 0.11
21 14 0.40
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.47
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:96753 original size:35 final size:36
Alignment explanation
Indices: 96707--96814 Score: 146
Period size: 35 Copynumber: 2.9 Consensus size: 36
96697 TGGTAACCAA
96707 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
96744 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* ** *
96779 TTTTGAAAAATAATTTTTTCAAAGTTTGGTAGATGT
1 CTTTGAAAAAT--GGTTTTCAAAGTTTGGTAAATGT
96815 GTAGATGTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
35 34 0.53
36 5 0.08
37 5 0.08
38 20 0.31
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:97263 original size:16 final size:17
Alignment explanation
Indices: 97242--97273 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
97232 TTACTATTCA
97242 CGTGAATAGT-AAATTT
1 CGTGAATAGTGAAATTT
97258 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
97274 CGGTCGGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:101373 original size:21 final size:20
Alignment explanation
Indices: 101349--101413 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
101339 AACTTTGAAA
101349 AAATAGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
*
101370 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
101384 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
101405 AAATGTTTT
1 AAATGTTTT
101414 TTTGAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
19 4 0.11
20 9 0.26
21 9 0.26
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:101387 original size:35 final size:34
Alignment explanation
Indices: 101348--101458 Score: 150
Period size: 35 Copynumber: 3.1 Consensus size: 34
101338 CAACTTTGAA
101348 AAAATAGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATAGTTTTCAAAGTTTGGTAAATGTTT-TTTG
*
101383 AAAATGGTTTTCAAAGTTTGGTAAATGTTTTTTTG
1 AAAATAGTTTTCAAAGTTTGGTAAATG-TTTTTTG
* *
101418 AAAAATAGTTTTTTCAAAGTTTGGTAGATGTTTGTTG
1 -AAAATAG--TTTTCAAAGTTTGGTAAATGTTTTTTG
101455 AAAA
1 AAAA
101459 ATGATAATGG
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
35 30 0.44
36 13 0.19
37 6 0.09
38 19 0.28
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (34 bp):
AAAATAGTTTTCAAAGTTTGGTAAATGTTTTTTG
Found at i:103102 original size:15 final size:16
Alignment explanation
Indices: 103073--103102 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
103063 CCAAGATCCT
103073 GAACCAATACATGAAC
1 GAACCAATACATGAAC
103089 GAACCAAT-CATGAA
1 GAACCAATACATGAA
103103 AATAATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.23, G:0.13, T:0.13
Consensus pattern (16 bp):
GAACCAATACATGAAC
Found at i:106085 original size:38 final size:39
Alignment explanation
Indices: 106022--106113 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
106012 TGTTGGGGTT
* *
106022 AAATAATTTAAGTAAATTTAGAATTTAGAATGT-ATGGCG
1 AAATAATTTAAG-AAATTAAGAATTTAGAATGTAAGGGCG
*
106061 AAATAATTTAAGAAATTAAGAATTTAGAATGTAAGGGTG
1 AAATAATTTAAGAAATTAAGAATTTAGAATGTAAGGGCG
*
106100 AAATAATTTGAGAA
1 AAATAATTTAAGAA
106114 TAAAAAATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 19 0.40
39 29 0.60
ACGTcount: A:0.48, C:0.01, G:0.18, T:0.33
Consensus pattern (39 bp):
AAATAATTTAAGAAATTAAGAATTTAGAATGTAAGGGCG
Found at i:107884 original size:30 final size:30
Alignment explanation
Indices: 107820--107876 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
107810 AACCGGTAAA
*
107820 GAACCAGCTGAAAACTGGGAAAACCGGGGT
1 GAACCAGCTGAAAACCGGGAAAACCGGGGT
* *
107850 GAACCGGCTGAAAACCGGTAAAACCGG
1 GAACCAGCTGAAAACCGGGAAAACCGG
107877 TTTGAACCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.23, G:0.32, T:0.09
Consensus pattern (30 bp):
GAACCAGCTGAAAACCGGGAAAACCGGGGT
Found at i:108134 original size:24 final size:24
Alignment explanation
Indices: 108107--108164 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
108097 AATTAGAAGT
108107 TCAATTGAAGCATAAAATTTGAGC
1 TCAATTGAAGCATAAAATTTGAGC
* *
108131 TCAATTGAAGCCTAAAATTTGAGG
1 TCAATTGAAGCATAAAATTTGAGC
108155 TCAATTGAAG
1 TCAATTGAAG
108165 TGAAAGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (24 bp):
TCAATTGAAGCATAAAATTTGAGC
Found at i:109365 original size:17 final size:17
Alignment explanation
Indices: 109343--109375 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
109333 TATTTCTATT
109343 ATATTAA-AAATAAATAA
1 ATATTAATAAA-AAATAA
109360 ATATTAATAAAAAATA
1 ATATTAATAAAAAATA
109376 TGATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATATTAATAAAAAATAA
Found at i:114036 original size:24 final size:22
Alignment explanation
Indices: 114008--114053 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
113998 CCTAAATACT
*
114008 TATAAATATTGATAAAGATTAAAA
1 TATAAATA-AGATAAA-ATTAAAA
114032 TATAAATAAGATAAAATTAAAA
1 TATAAATAAGATAAAATTAAAA
114054 GATCGAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 6 0.29
24 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
TATAAATAAGATAAAATTAAAA
Found at i:114358 original size:17 final size:17
Alignment explanation
Indices: 114336--114369 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
114326 TAGAAGTCAT
114336 GTACGATGACCATTAGG
1 GTACGATGACCATTAGG
114353 GTACGATGACCATTAGG
1 GTACGATGACCATTAGG
114370 TTATCTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (17 bp):
GTACGATGACCATTAGG
Found at i:115824 original size:14 final size:14
Alignment explanation
Indices: 115805--115831 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
115795 CAAATAGGAT
115805 AAATAAAGGAAAAG
1 AAATAAAGGAAAAG
115819 AAATAAAGGAAAA
1 AAATAAAGGAAAA
115832 ATAAAATAAA
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:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (14 bp):
AAATAAAGGAAAAG
Found at i:116132 original size:2 final size:2
Alignment explanation
Indices: 116119--116153 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
116109 AATTATAGTC
*
116119 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116154 ATAACTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:116212 original size:34 final size:32
Alignment explanation
Indices: 116174--116237 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 32
116164 AACAAGGTAT
*
116174 AAAAAATAGTAATAATAAGTATTTAAATAAAATA
1 AAAAAATAGTAATAAT-AGTA-ATAAATAAAATA
116208 AAAAAATAGTAATAATAGTAATAAATAAAA
1 AAAAAATAGTAATAATAGTAATAAATAAAA
116238 AAGAAACAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 9 0.31
33 4 0.14
34 16 0.55
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (32 bp):
AAAAAATAGTAATAATAGTAATAAATAAAATA
Found at i:116338 original size:16 final size:16
Alignment explanation
Indices: 116316--116356 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
116306 ACATAAAACT
116316 AAAAATAACG-TATAA
1 AAAAATAACGATATAA
116331 ACAAAATAA-GATATAA
1 A-AAAATAACGATATAA
116347 AAATAATAAC
1 AAA-AATAAC
116357 AATAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAAATAACGATATAA
Found at i:118459 original size:106 final size:106
Alignment explanation
Indices: 118272--118530 Score: 401
Period size: 106 Copynumber: 2.4 Consensus size: 106
118262 TTGTTCCGAA
* * * * * * *
118272 TCCAATATCCTCCACCGTGAAGTTTAAATTGGCTATGGAACTGGGAAATTGTTTGTTGACAGTCA
1 TCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAGTCA
*
118337 GCCGCCTCTTCACTGTGAAGGTGAGCTTGTGCTGTCTTGAG
66 GCCGCCCCTTCACTGTGAAGGTGAGCTTGTGCTGTCTTGAG
* *
118378 TCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTAAAATTGGGAAATTATTTGTTGACAGTCA
1 TCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAGTCA
* *
118443 GCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAG
66 GCCGCCCCTTCACTGTGAAGGTGAGCTTGTGCTGTCTTGAG
*
118484 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
1 TCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
118531 GCCCCTTCGT
Statistics
Matches: 138, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 138 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (106 bp):
TCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAGTCA
GCCGCCCCTTCACTGTGAAGGTGAGCTTGTGCTGTCTTGAG
Found at i:119780 original size:13 final size:11
Alignment explanation
Indices: 119740--119774 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
119730 CCTAAACGTT
119740 TTTTCTTTTTG
1 TTTTCTTTTTG
119751 -TTT-TTTTTG
1 TTTTCTTTTTG
119760 TTTTCTTTTTG
1 TTTTCTTTTTG
119771 TTTT
1 TTTT
119775 TTCTTTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.86
Consensus pattern (11 bp):
TTTTCTTTTTG
Done.