Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000872.1 Hibiscus syriacus cultivar Beakdansim tig00001686_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: 84192
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Found at i:3798 original size:2 final size:2
Alignment explanation
Indices: 3791--3826 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3781 CAACAAAAGA
3791 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
3827 TCATGTTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10670 original size:2 final size:2
Alignment explanation
Indices: 10663--10691 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10653 AAGAACAATA
10663 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 A
10692 CGCAGATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19344 original size:12 final size:13
Alignment explanation
Indices: 19324--19363 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 13
19314 CGGTTCAACC
19324 TAATTTTTTT-TT
1 TAATTTTTTTATT
19336 T-ATTTTTTTATT
1 TAATTTTTTTATT
19348 TAA--TTTTTATT
1 TAATTTTTTTATT
19359 TAATT
1 TAATT
19364 ATTTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 19 0.79
12 4 0.17
13 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TAATTTTTTTATT
Found at i:19354 original size:19 final size:19
Alignment explanation
Indices: 19332--19369 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19322 CCTAATTTTT
**
19332 TTTTTATTTTTTTATTTAA
1 TTTTTATTTAATTATTTAA
19351 TTTTTATTTAATTATTTAA
1 TTTTTATTTAATTATTTAA
19370 ATAATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTATTTAATTATTTAA
Found at i:20319 original size:7 final size:7
Alignment explanation
Indices: 20307--20332 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20297 ACTATTGAAA
20307 TTAAATT
1 TTAAATT
20314 TTAAATT
1 TTAAATT
20321 TTAAATT
1 TTAAATT
20328 TTAAA
1 TTAAA
20333 GATAATAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:24211 original size:21 final size:21
Alignment explanation
Indices: 24187--24252 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
24177 GCAAATTCGC
24187 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
24208 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
24228 TTTCCATTTCGCGTTGCGGTA
1 GTTGCATTTCGCGTTGCGATA
24249 GTTG
1 GTTG
24253 AAAATCGCAA
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.15, C:0.18, G:0.29, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:24268 original size:41 final size:41
Alignment explanation
Indices: 24191--24268 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
24181 ATTCGCGTTG
***
24191 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
*
24232 CATTTCGCGTTGCGGTAGTTGAAAATCGCAACGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGAT
24269 CTCCACTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
Found at i:24316 original size:22 final size:22
Alignment explanation
Indices: 24288--24355 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
24278 CGCAAATTCG
24288 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
24310 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
24329 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
24351 CGTTG
1 CGTTG
24356 TAATTTTCCA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 10 0.29
20 5 0.14
21 5 0.14
22 15 0.43
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:24333 original size:19 final size:19
Alignment explanation
Indices: 24309--24378 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
24299 TCTACAGTTG
24309 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * **
24328 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
**
24349 GTCGTTGTAATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
24369 TCGTTGCGAT
1 TCGTTGCGAT
24379 AGTCTACATG
Statistics
Matches: 36, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
19 18 0.50
20 5 0.14
21 5 0.14
22 8 0.22
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:24339 original size:41 final size:41
Alignment explanation
Indices: 24288--24386 Score: 180
Period size: 41 Copynumber: 2.4 Consensus size: 41
24278 CGCAAATTCG
*
24288 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCCAAATT
*
24329 CGTTGCGATAGTCTACAGTTGTCGTTGTAATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCCAAATT
24370 CGTTGCGATAGTCTACA
1 CGTTGCGATAGTCTACA
24387 TGTATTACCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCCAAATT
Found at i:24940 original size:6 final size:6
Alignment explanation
Indices: 24929--24958 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
24919 GGGTCGGGTC
24929 GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA
1 GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA
24959 ATACGTGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
GTGGTA
Found at i:25066 original size:19 final size:19
Alignment explanation
Indices: 25042--25107 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
25032 TTAACTATCA
25042 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
25061 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
25083 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
25102 CAACGA
1 CAACGA
25108 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:25084 original size:22 final size:22
Alignment explanation
Indices: 25057--25128 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
25047 AATTTGGAAA
25057 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
25079 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
25098 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
25120 ATCGCAACG
1 ATCGCAACG
25129 CGAAATGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:25092 original size:41 final size:41
Alignment explanation
Indices: 25035--25128 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
25025 TTTTTTTTTA
*
25035 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
25076 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
25117 ACTATCGCAACG
1 ACTATCGCAACG
25129 CGAAATGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:27272 original size:27 final size:24
Alignment explanation
Indices: 27219--27303 Score: 79
Period size: 27 Copynumber: 3.5 Consensus size: 24
27209 CGGTTTTTAA
27219 AAAAAAACCGGATTTTT--T-CGG-
1 AAAAAAACCGG-TTTTTAATCCGGT
**
27240 ATAAAAAACCGGTTTTTTGTCCGGTTT
1 A-AAAAAACCGGTTTTTAATCCGG--T
27267 GAAAAAAACCGGTTTTTAATCCGGT
1 -AAAAAAACCGGTTTTTAATCCGGT
27292 AAAAAAACCGGT
1 AAAAAAACCGGT
27304 CGTTCAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
21 6 0.11
22 10 0.19
23 1 0.02
24 15 0.28
25 1 0.02
27 20 0.37
28 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (24 bp):
AAAAAAACCGGTTTTTAATCCGGT
Found at i:27300 original size:24 final size:22
Alignment explanation
Indices: 27219--27303 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
27209 CGGTTTTTAA
27219 AAAAAAACCGGATTTTTT-CGG-
1 AAAAAAACCGG-TTTTTTCCGGT
27240 ATAAAAAACCGGTTTTTTGTCCGGTTT
1 A-AAAAAACCGG-TTTTT-TCCGG--T
27267 GAAAAAAACCGGTTTTTAATCCGGT
1 -AAAAAAACCGGTTTTT--TCCGGT
27292 AAAAAAACCGGT
1 AAAAAAACCGGT
27304 CGTTCAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
21 1 0.02
22 15 0.28
23 1 0.02
24 15 0.28
25 1 0.02
26 5 0.09
27 15 0.28
28 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (22 bp):
AAAAAAACCGGTTTTTTCCGGT
Found at i:32322 original size:2 final size:2
Alignment explanation
Indices: 32317--32344 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32307 TCTCTCTCTC
32317 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
32345 CCTCGTAATT
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):
TA
Found at i:33888 original size:11 final size:12
Alignment explanation
Indices: 33870--33902 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
33860 GGTCTACAAA
33870 AATATTATTAA-
1 AATATTATTAAT
*
33881 ATTATTATTAAT
1 AATATTATTAAT
33893 AATATTATTA
1 AATATTATTA
33903 TGTTTATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
AATATTATTAAT
Found at i:35592 original size:2 final size:2
Alignment explanation
Indices: 35585--35609 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35575 GTTTTAAAAT
35585 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35610 TGATTGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36148 original size:18 final size:18
Alignment explanation
Indices: 36121--36156 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36111 AGAATCACAG
*
36121 GAGTGACACTTGTATTAA
1 GAGTGACACTTATATTAA
*
36139 GAGTGTCACTTATATTAA
1 GAGTGACACTTATATTAA
36157 TTTTGGGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.36
Consensus pattern (18 bp):
GAGTGACACTTATATTAA
Found at i:38800 original size:60 final size:60
Alignment explanation
Indices: 38702--38838 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 60
38692 AAACTGGAAG
* **
38702 ATTCAAAAGTTTAGGGACTAGTTTAGAAAGAGACTCATAGTTTAGGGATTG-AATTAGAAT
1 ATTCAAAAGTTTAAGGACTAACTTAGAAAGAGACTCATAGTTTAGGGA-TGCAATTAGAAT
* * * * *
38762 GTTCAAAAGTTTAAGGACTAACTTAGAATA-AGAGTCATAGTTTGGGGATGCTATTATAAT
1 ATTCAAAAGTTTAAGGACTAACTTAGAA-AGAGACTCATAGTTTAGGGATGCAATTAGAAT
*
38822 ATTTAAAAGTTTAAGGA
1 ATTCAAAAGTTTAAGGA
38839 TCAATTTAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 2 0.03
60 62 0.95
61 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (60 bp):
ATTCAAAAGTTTAAGGACTAACTTAGAAAGAGACTCATAGTTTAGGGATGCAATTAGAAT
Found at i:52768 original size:18 final size:18
Alignment explanation
Indices: 52745--52780 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52735 AGAAGACTGT
52745 TTGTTTTTTAACGTCTGC
1 TTGTTTTTTAACGTCTGC
52763 TTGTTTTTTAACGTCTGC
1 TTGTTTTTTAACGTCTGC
52781 AGACTGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.56
Consensus pattern (18 bp):
TTGTTTTTTAACGTCTGC
Found at i:52870 original size:31 final size:31
Alignment explanation
Indices: 52834--52892 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
52824 AACTTAAAAG
* *
52834 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
52865 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
52893 ACATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:52971 original size:54 final size:55
Alignment explanation
Indices: 52907--53205 Score: 351
Period size: 54 Copynumber: 5.5 Consensus size: 55
52897 ACAACTACAA
52907 TAATAAATTATTTAAAATAAATCAAT-TAATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTAATATTTTAAAATAAATCAATCCATAC
** *
52961 TAATAAATTATTTAAAATAAATCAATCCATACA-ATTACAATAATAAATCAATCTATA-
1 TAATAAATTATTTAAAATAAATCAAT-C-TA-ATATTTTAA-AATAAATCAATCCATAC
** * ** * * * * * *
53018 TTTTAAAATAAATAAATCTATATAAAT-AAAT-TATTTAAAATAAATCAATCTATAA
1 TAATAAATTATTTAAA-ATAAATCAATCTAATAT-TTTAAAATAAATCAATCCATAC
**
53073 TAATAAATTATTTAAAATAAATCAATCT-ATATTTTAAAATAAATCAATTAATAC
1 TAATAAATTATTTAAAATAAATCAATCTAATATTTTAAAATAAATCAATCCATAC
53127 TAATAAATTATTTAAAATAAATCAATCT-ATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTAATATTTTAAAATAAATCAATCCATAC
53181 TAATAAATTATTTAAAATAAATCAA
1 TAATAAATTATTTAAAATAAATCAA
53206 ACTATATAAC
Statistics
Matches: 206, Mismatches: 28, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
54 149 0.72
55 16 0.08
57 18 0.09
58 23 0.11
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.37
Consensus pattern (55 bp):
TAATAAATTATTTAAAATAAATCAATCTAATATTTTAAAATAAATCAATCCATAC
Found at i:53056 original size:32 final size:33
Alignment explanation
Indices: 53019--53104 Score: 149
Period size: 32 Copynumber: 2.7 Consensus size: 33
53009 CAATCTATAT
*
53019 TTTAAAATAAATAAATCTATATA-AATAAATTA
1 TTTAAAATAAATCAATCTATATATAATAAATTA
53051 TTTAAAATAAATCAATCTATA-ATAATAAATTA
1 TTTAAAATAAATCAATCTATATATAATAAATTA
53083 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCTATAT
53105 TTTAAAATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
31 1 0.02
32 50 0.98
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (33 bp):
TTTAAAATAAATCAATCTATATATAATAAATTA
Found at i:53059 original size:134 final size:130
Alignment explanation
Indices: 52907--53579 Score: 631
Period size: 134 Copynumber: 5.0 Consensus size: 130
52897 ACAACTACAA
* * *
52907 TAATAAATTATTTAAAATAAATCAATTAATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATT-ATATATTAAAATAAATAAATCAAT-CT-AT--A-T-T
* * *
52972 TTAAAATAAATCAATCCATAC-AATTACA-A-T-AATAAATCAATCTATATTTTAAAATAAATAA
59 TTAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCA
*
53033 ATCTATA-
123 ATCCATAC
*
53040 TAAATAAATTATTTAAAATAAATCAATCTATAATAATAAATTATTTAAAATAAATCAATCTATAT
1 T-AATAAATTATTTAAAATAAATCAAT-TAT-ATATTAAA--A--T-AAATAAATCAATCTATAT
** *
53105 TTTAAAATAAATCAATTAATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAA
58 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAA
53170 TCAATCCATAC
120 TCAATCCATAC
* * *
53181 TAATAAATTATTTAAAATAAATCAAACTATATAACTACAAT-AATAAATCAATCTATATTTTAAA
1 TAATAAATTATTTAAAATAAATC-AATTATAT-ATTAAAATAAATAAATCAATCTATATTTTAAA
*
53245 ATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATA
64 ATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATC
*
53310 TATAC
126 CATAC
* * * * *
53315 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAAT-TATATATTAAAATAAATAAAT-C--AAT-CTATA-T-T
*
53380 TTAAAATAAATCAATCCATAC-AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATCA
59 TTAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCA
53441 ATCCATAC
123 ATCCATAC
* *
53449 TAATAAATTGTTTAAAATAAATCAATTCATACTAATAAATTATTAAAATAAATCAAT-TCATATT
1 TAATAAATTATTTAAAATAAATCAATT-ATA-TATTAAA--A-T-AAATAAATCAATCT-ATATT
* * *
53513 TTAACATAAATCAATCCATACTAATAAATTATT-TA-AAATAAAT---TATTTTAAAATAAATCA
59 TTAAAATAAATCAATCCATACTAATAAA-TATTAAATAAATCAATCCATATTTTAAAATAAATCA
53573 ATCCATA
123 ATCCATA
53580 TTTTATAATA
Statistics
Matches: 464, Mismatches: 38, Indels: 77
0.80 0.07 0.13
Matches are distributed among these distances:
132 24 0.05
133 32 0.07
134 240 0.52
135 26 0.06
136 9 0.02
137 5 0.01
138 10 0.02
139 15 0.03
140 100 0.22
141 3 0.01
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (130 bp):
TAATAAATTATTTAAAATAAATCAATTATATATTAAAATAAATAAATCAATCTATATTTTAAAAT
AAATCAATCCATACTAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:53093 original size:14 final size:15
Alignment explanation
Indices: 53027--53095 Score: 72
Period size: 14 Copynumber: 4.6 Consensus size: 15
53017 ATTTTAAAAT
*
53027 AAATAAATCTATAT-
1 AAATAAATCTATTTA
53041 AAATAAAT-TATTTA
1 AAATAAATCTATTTA
*
53055 AAATAAATCAATCTATA
1 AAATAAATCTAT-T-TA
53072 ATAATAAAT-TATTTA
1 A-AATAAATCTATTTA
53087 AAATAAATC
1 AAATAAATC
53096 AATCTATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
13 4 0.09
14 23 0.50
15 5 0.11
16 2 0.04
17 5 0.11
18 7 0.15
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATAAATCTATTTA
Found at i:53143 original size:32 final size:31
Alignment explanation
Indices: 53105--53394 Score: 151
Period size: 32 Copynumber: 10.5 Consensus size: 31
53095 CAATCTATAT
53105 TTTAAAATAAATCAATTAATACTAATAAATTA
1 TTTAAAATAAATCAA-TAATACTAATAAATTA
53137 TTTAAAATAAATC---AAT-CT-AT--A-T-
1 TTTAAAATAAATCAATAATACTAATAAATTA
*
53159 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-AATACTAATAAATTA
* *
53191 TTTAAAATAAATCAA-ACTA-T-AT-AACTA
1 TTTAAAATAAATCAATAATACTAATAAATTA
*
53218 --CAATAATAAATC---AAT-CT-AT--A-T-
1 TTTAA-AATAAATCAATAATACTAATAAATTA
*
53239 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-AATACTAATAAATTA
*
53271 TTTAAAATAAATC---AAT-C-CAT--A-T-
1 TTTAAAATAAATCAATAATACTAATAAATTA
53293 TTTAAAATAAATCAATATATACTAATAAATTA
1 TTTAAAATAAATCAATA-ATACTAATAAATTA
*
53325 TTTAAAATAAATC---AAT-C-CAT--A-T-
1 TTTAAAATAAATCAATAATACTAATAAATTA
* *
53347 TTTAAAATAAATCAATCCATAATAATAAATTA
1 TTTAAAATAAATCAAT-AATACTAATAAATTA
53379 TTTAAAATAAATCAAT
1 TTTAAAATAAATCAAT
53395 CCATACAACT
Statistics
Matches: 199, Mismatches: 15, Indels: 88
0.66 0.05 0.29
Matches are distributed among these distances:
22 48 0.24
23 6 0.03
24 8 0.04
25 3 0.02
26 22 0.11
27 13 0.07
28 17 0.09
29 2 0.01
30 6 0.03
31 4 0.02
32 70 0.35
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (31 bp):
TTTAAAATAAATCAATAATACTAATAAATTA
Found at i:53188 original size:22 final size:22
Alignment explanation
Indices: 53139--53187 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
53129 ATAAATTATT
* **
53139 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
53161 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
53184 TAAA
1 TAAA
53188 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:53245 original size:188 final size:188
Alignment explanation
Indices: 53051--53479 Score: 743
Period size: 188 Copynumber: 2.3 Consensus size: 188
53041 AAATAAATTA
* * *
53051 TTTAAAATAAATCAATCTATAATAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
53116 TCAAT-TAATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATA
66 TCAATAT-ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
* * * *
53180 CTAATAAATTATTTAAAATAAATCAAACTATATAACTACAATAATAAATCAATCTATAT
130 ATAATAAATTATTTAAAATAAATCAAACCATACAACTACAATAATAAATCAATCCATAT
53239 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
53304 TCAATATATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAA
66 TCAATATATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAA
*
53369 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
131 TAATAAATTATTTAAAATAAATCAAACCATACAACTACAATAATAAATCAATCCATAT
* *
53427 TTTAAAATAAATCAATCCATACTAATAAATTGTTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
53480 CTAATAAATT
Statistics
Matches: 229, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
188 228 1.00
189 1 0.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.35
Consensus pattern (188 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATATATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAA
TAATAAATTATTTAAAATAAATCAAACCATACAACTACAATAATAAATCAATCCATAT
Found at i:53287 original size:54 final size:54
Alignment explanation
Indices: 53222--53555 Score: 378
Period size: 54 Copynumber: 6.1 Consensus size: 54
53212 TAACTACAAT
53222 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* **
53276 AATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAA
1 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
53330 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAATAATAAATTATTTAA
1 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * ** **
53384 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAA--A--T-A
1 AATAAATCAAT-C-TA-TATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
* * *
53436 AATCAATCCATACTAATAAATTGTTTAAAATAAATCAATTCATACTAATAAATTA-TTAA
1 AATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
53495 AATAAATCAAT-TCATATTTTAACATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCT-ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
53549 AATAAAT
1 AATAAAT
53556 TATTTTAAAA
Statistics
Matches: 237, Mismatches: 28, Indels: 30
0.80 0.09 0.10
Matches are distributed among these distances:
51 1 0.00
52 12 0.05
53 32 0.14
54 140 0.59
55 11 0.05
56 1 0.00
57 13 0.05
58 17 0.07
59 10 0.04
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:53331 original size:220 final size:221
Alignment explanation
Indices: 52907--53555 Score: 706
Period size: 220 Copynumber: 2.9 Consensus size: 221
52897 ACAACTACAA
52907 TAATAAATTATTTAAAATAAATCAATTAATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATT-ATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* * *
52972 TTAAAATAAATCAATCCATACAATTACAATAATAAATCAATCTATATTTTAAAATAAATAAATCT
65 TTAAAATAAATCAATCCATATAATTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCC
* * * * * * * *
53037 ATA-TAAATAAATTATTTAAAATAAATCAATCTATA-ATAATAAATTATTTAAAATA-AATCAAT
130 ATACT-AATAAATTATTTAAAATAAATCAATCCATATTTTA-AAATAAATCAATATATACT-AAT
** *
53099 CTA-TATTTTAAAATAAATCAAT-TA-ATAC
192 AAATTA-TTTAAAATAAATCAATCCATATAC
53127 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAAT-TATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* * *
53192 TTAAAATAAATCAAACTATATAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCC
65 TTAAAATAAATCAATCCATATAATTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCC
53257 ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAA
130 ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAA
**
53322 TTATTTAAAATAAATCAATCCATATTT
195 TTATTTAAAATAAATCAATCCATATAC
* ** * * *
53349 TAAAATAAATCAATCCATAAT-AAT-AAAT-TA-TTTAAAATAAATCAATCCATAC-AACTACA-
1 T--AATAAAT-TATTTAAAATAAATCAATTATATTTTAAAATAAATCAATCCATACTAA-TAAAT
* * * *
53408 -A--T--AATAAATCAATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTGTTTAAAAT
62 TATTTAAAATAAATCAATCCATATAATTACAAT-AATAAATCAAT-CT-AT--A-T-TTTAAAAT
* * * **
53467 AAATCAATTCATACTAATAAATTA-TTAAAATAAATCAATTCATATTTTAACATAAATCAATCCA
120 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATA
53531 TACTAATAAATTATTTAAAATAAAT
185 TACTAATAAATTATTTAAAATAAAT
53556 TATTTTAAAA
Statistics
Matches: 374, Mismatches: 37, Indels: 37
0.83 0.08 0.08
Matches are distributed among these distances:
213 5 0.01
214 24 0.06
215 2 0.01
216 3 0.01
218 2 0.01
219 64 0.17
220 241 0.64
221 11 0.03
222 4 0.01
223 2 0.01
224 10 0.03
225 6 0.02
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (221 bp):
TAATAAATTATTTAAAATAAATCAATTATATTTTAAAATAAATCAATCCATACTAATAAATTATT
TAAAATAAATCAATCCATATAATTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCCA
TACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAAT
TATTTAAAATAAATCAATCCATATAC
Found at i:53351 original size:22 final size:22
Alignment explanation
Indices: 53325--53367 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
53315 TAATAAATTA
53325 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
53347 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
53368 ATAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:53376 original size:22 final size:22
Alignment explanation
Indices: 53327--53375 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
53317 ATAAATTATT
**
53327 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
53349 TAAAATAAATCAATCCATAATAA
1 TAAAATAAATCAATCCAT-ATAA
53372 TAAA
1 TAAA
53376 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:53395 original size:32 final size:32
Alignment explanation
Indices: 53347--53555 Score: 132
Period size: 32 Copynumber: 7.4 Consensus size: 32
53337 CAATCCATAT
53347 TTTAAAATAAATCAATCCATAATAATAAATTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* *
53379 TTTAAAATAAATCAATCCATACA-ACTACA--A
1 TTTAAAATAAATCAATCCATA-ATAATAAATTA
53409 --T--AATAAATCAATCC---AT-AT------
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* *
53427 TTTAAAATAAATCAATCCATACTAATAAATTG
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* *
53459 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
*
53491 -TTAAAATAAATC-A---AT--TCAT--A-T-
1 TTTAAAATAAATCAATCCATAATAATAAATTA
* *
53512 TTTAACATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATAATAATAAATTA
53544 TTTAAAATAAAT
1 TTTAAAATAAAT
53556 TATTTTAAAA
Statistics
Matches: 140, Mismatches: 10, Indels: 54
0.69 0.05 0.26
Matches are distributed among these distances:
20 1 0.01
22 27 0.19
23 2 0.01
25 4 0.03
26 17 0.12
27 2 0.01
28 4 0.03
30 3 0.02
31 13 0.09
32 66 0.47
33 1 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATAATAATAAATTA
Found at i:53456 original size:22 final size:23
Alignment explanation
Indices: 53381--53455 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
53371 ATAAATTATT
53381 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
53403 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
53429 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
53452 TAAA
1 TAAA
53456 TTGTTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:53516 original size:22 final size:22
Alignment explanation
Indices: 53491--53590 Score: 74
Period size: 22 Copynumber: 4.4 Consensus size: 22
53481 TAATAAATTA
*
53491 TTAAAATAAATCAATTCATATT
1 TTAAAATAAATCAATCCATATT
* *
53513 TTAACATAAATCAATCCATACTA
1 TTAAAATAAATCAATCCATA-TT
* * ** * **
53536 ATAAATTATTTAAAATAAATTATT
1 TTAAAATAAAT-CAATCCA-TATT
53560 TTAAAATAAATCAATCCATATT
1 TTAAAATAAATCAATCCATATT
*
53582 TTATAATAA
1 TTAAAATAA
53591 TTTATTTTAA
Statistics
Matches: 55, Mismatches: 20, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
22 30 0.55
23 11 0.20
24 12 0.22
25 2 0.04
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAATAAATCAATCCATATT
Found at i:53564 original size:15 final size:15
Alignment explanation
Indices: 53535--53682 Score: 181
Period size: 15 Copynumber: 9.5 Consensus size: 15
53525 AATCCATACT
53535 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
53549 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
53564 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
53586 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
53601 AATAAATTATTTTAT
1 AATAAATTATTTTAA
53616 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
53631 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
53646 AATAAATTATTTCAA
1 AATAAATTATTTTAA
53661 AATAAATTATTTTAA
1 AATAAATTATTTTAA
53676 AATAAAT
1 AATAAAT
53683 AACCTTATTA
Statistics
Matches: 116, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.08
15 90 0.78
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.09
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:56386 original size:105 final size:105
Alignment explanation
Indices: 56234--57218 Score: 1790
Period size: 105 Copynumber: 9.4 Consensus size: 105
56224 GTATTGTTCC
* *
56234 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGACATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
56299 CAGAGGTCCCTTCGTCGTGAAGTTGAACTTGAGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
56339 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
56404 CAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
56444 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
56509 CAGCGGTCCTTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
56549 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
56614 CAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
56654 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
56719 CAGCGGTTCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
56759 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
56824 CAGCGGTCCTTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
56864 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
56929 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
56969 GAGTCCAATATCCTTCGTTGGGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
57034 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
57074 GAGTCCAATAACCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
57139 CAGCGCTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
57179 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
57219 GGTAAAACCT
Statistics
Matches: 852, Mismatches: 28, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 852 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:71857 original size:22 final size:22
Alignment explanation
Indices: 71829--71873 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
71819 TTCACATGGC
71829 ATAAACCAAAAAGAAAAGAAGT
1 ATAAACCAAAAAGAAAAGAAGT
71851 ATAAACCAAAAAGAAAAGAAGT
1 ATAAACCAAAAAGAAAAGAAGT
71873 A
1 A
71874 GATAATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.69, C:0.09, G:0.13, T:0.09
Consensus pattern (22 bp):
ATAAACCAAAAAGAAAAGAAGT
Found at i:75199 original size:39 final size:39
Alignment explanation
Indices: 75145--75281 Score: 168
Period size: 39 Copynumber: 3.5 Consensus size: 39
75135 ACATGTTGGA
* *
75145 GCATCGAGAGCTGCAAGCCCGGGTGATGAGCATCCTGCT
1 GCATCGAGAGCTGCAAGTCCGGATGATGAGCATCCTGCT
* *
75184 GCATCGAGAGCTGCAAGTCCGGATGATGAGCATCCAGTT
1 GCATCGAGAGCTGCAAGTCCGGATGATGAGCATCCTGCT
* * * *
75223 ACATCGAGAGTTGCAAGTCTGGATGATGAGCATTCTGCT
1 GCATCGAGAGCTGCAAGTCCGGATGATGAGCATCCTGCT
* *
75262 GCGTCAAGAG-TGGCAAGTCC
1 GCATCGAGAGCT-GCAAGTCC
75282 TGCTTTGGTT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 1 0.01
39 82 0.99
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (39 bp):
GCATCGAGAGCTGCAAGTCCGGATGATGAGCATCCTGCT
Done.