Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003747.1 Hibiscus syriacus cultivar Beakdansim tig00008019_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: 108156
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:972 original size:30 final size:30
Alignment explanation
Indices: 936--996 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
926 CACGACAAAC
*
936 AACAGTGATGCTGATATTTGACTTTTATAT
1 AACAGTGAAGCTGATATTTGACTTTTATAT
966 AACAGTGAAGCTGATATTTGACTTTTATAT
1 AACAGTGAAGCTGATATTTGACTTTTATAT
996 A
1 A
997 CCAATAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (30 bp):
AACAGTGAAGCTGATATTTGACTTTTATAT
Found at i:5950 original size:5 final size:5
Alignment explanation
Indices: 5936--5966 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
5926 CTTCTAAACT
*
5936 CGGTC TGGTC CGGTC CGGTC CGGTC CGGTC C
1 CGGTC CGGTC CGGTC CGGTC CGGTC CGGTC C
5967 TAACTCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.39, G:0.39, T:0.23
Consensus pattern (5 bp):
CGGTC
Found at i:9481 original size:2 final size:2
Alignment explanation
Indices: 9476--9504 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9466 ATATATATAT
9476 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9505 ATTAAAATCA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11333 original size:2 final size:2
Alignment explanation
Indices: 11326--11351 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11316 AAAGCCAAGA
11326 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
11352 GGATAAACGT
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:11500 original size:4 final size:4
Alignment explanation
Indices: 11493--11526 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
11483 GTGAGAGAGA
11493 ACAT ACAT ACAT ACAT ACAT ACAT ACAT AACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT -ACAT A
11527 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:16327 original size:26 final size:26
Alignment explanation
Indices: 16291--16343 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
16281 ATATATTCAA
16291 TATATGTTCTAAATACCCTCAACTAT
1 TATATGTTCTAAATACCCTCAACTAT
16317 TATATGTTCTAAATACCCTCAACTAT
1 TATATGTTCTAAATACCCTCAACTAT
16343 T
1 T
16344 TGACAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (26 bp):
TATATGTTCTAAATACCCTCAACTAT
Found at i:22026 original size:29 final size:29
Alignment explanation
Indices: 21984--22040 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
21974 AGTGTTGGGC
21984 GTAGGTCGCCATGC-CTTCCGGGCGACCTT
1 GTAGGTCGCCATGCAC-TCCGGGCGACCTT
22013 GTAGGTCGCCATGCACTCCGGGCGACCT
1 GTAGGTCGCCATGCACTCCGGGCGACCT
22041 ACCCTTGCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.12, C:0.35, G:0.32, T:0.21
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCGGGCGACCTT
Found at i:23651 original size:53 final size:53
Alignment explanation
Indices: 23593--23707 Score: 140
Period size: 53 Copynumber: 2.2 Consensus size: 53
23583 AGTATAAATA
** * * *
23593 AAATTTCAAGATGAACATTGTCCGTAAAATAAGTAACTAATCGGAGAAAACTT
1 AAATTTCAAGATGAACATCATCAGTAAAATAAATAACTAATCGAAGAAAACTT
* * * * *
23646 AAATTTTAAGATGGATATCATTAGTAAAATAAATAACTAATCGAAGAAAATTT
1 AAATTTCAAGATGAACATCATCAGTAAAATAAATAACTAATCGAAGAAAACTT
23699 AAATTTCAA
1 AAATTTCAA
23708 TATAAACACG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.30
Consensus pattern (53 bp):
AAATTTCAAGATGAACATCATCAGTAAAATAAATAACTAATCGAAGAAAACTT
Found at i:30420 original size:23 final size:23
Alignment explanation
Indices: 30394--30505 Score: 102
Period size: 23 Copynumber: 4.8 Consensus size: 23
30384 ATTGTTCGCA
30394 AACATATTCGCTTAATGTTTATG
1 AACATATTCGCTTAATGTTTATG
*
30417 AACATGTTCGCTTAATGTTTATG
1 AACATATTCGCTTAATGTTTATG
* * * *
30440 AACATGTTCGTTTATATATTTTTG
1 AACATATTCGCTTA-ATGTTTATG
* *
30464 AACA-AGTTC-ATTCAGTGTTTATG
1 AACATA-TTCGCTT-AATGTTTATG
* *
30487 AACATATTTGTTTAATGTT
1 AACATATTCGCTTAATGTT
30506 AGTATATAGT
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
23 54 0.75
24 18 0.25
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (23 bp):
AACATATTCGCTTAATGTTTATG
Found at i:38304 original size:36 final size:36
Alignment explanation
Indices: 38256--38338 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
38246 TGTCTCTTCA
*
38256 TGATGATGGTGGTGCTCAGCCT-TGGAGTGCTCCTCAG
1 TGATGATGGTGGTGCTC-GCCTGTGGAGTGCCCCTC-G
* *
38293 -GATGATGGTGGTGTTCTCCTGTGGAGTGCCCCTCG
1 TGATGATGGTGGTGCTCGCCTGTGGAGTGCCCCTCG
38328 TGATGATGGTG
1 TGATGATGGTG
38339 TGCGGTAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
35 4 0.10
36 37 0.90
ACGTcount: A:0.12, C:0.19, G:0.37, T:0.31
Consensus pattern (36 bp):
TGATGATGGTGGTGCTCGCCTGTGGAGTGCCCCTCG
Found at i:38383 original size:6 final size:6
Alignment explanation
Indices: 38376--38434 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
38366 ATCACTATGG
* * * *
38376 CCATGG CCATGG CCATGA TCATGA CCATGA CCATGA TCATGA CCATGA
1 CCATGA CCATGA CCATGA CCATGA CCATGA CCATGA CCATGA CCATGA
38424 CCATGA CCATG
1 CCATGA CCATG
38435 TCCCAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (6 bp):
CCATGA
Found at i:40115 original size:2 final size:2
Alignment explanation
Indices: 40032--40099 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
40022 AGGGAGCTGT
40032 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
40074 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
40100 CATCTGTGTG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:41311 original size:21 final size:21
Alignment explanation
Indices: 41267--41321 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
41257 ATAATTAGAA
*
41267 TAAATTA-TATTTTTAATATC
1 TAAATTATTAATTTTAATATC
* * *
41287 TAAATTATTAGTTTTAGTATT
1 TAAATTATTAATTTTAATATC
41308 TAAATT-TTAATTTT
1 TAAATTATTAATTTT
41322 TTTCAAAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
TAAATTATTAATTTTAATATC
Found at i:43437 original size:18 final size:19
Alignment explanation
Indices: 43402--43438 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
43392 CACGAAATGT
43402 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
43422 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
43439 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:45914 original size:3 final size:3
Alignment explanation
Indices: 45906--46054 Score: 217
Period size: 3 Copynumber: 49.7 Consensus size: 3
45896 TTTTTATCCA
* *
45906 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
45954 TAA TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
46002 TAC TAT TAC TAT TAT TAT TAT TAT TAT TAC TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46050 TAT TA
1 TAT TA
46055 AATATATATT
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 128 1.00
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:51177 original size:35 final size:35
Alignment explanation
Indices: 51131--51202 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
51121 CCCGAGATTA
*
51131 TAGCTGTTGATATCTGTGCGTAGCTTGTAATGGTT
1 TAGCTGTTGATATCTGTACGTAGCTTGTAATGGTT
51166 TAGCTGTTGATATCTGTACGTAGCTTGTAATGGTT
1 TAGCTGTTGATATCTGTACGTAGCTTGTAATGGTT
51201 TA
1 TA
51203 CGATCATGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.43
Consensus pattern (35 bp):
TAGCTGTTGATATCTGTACGTAGCTTGTAATGGTT
Found at i:52815 original size:21 final size:21
Alignment explanation
Indices: 52786--52859 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
52776 ACGTTGCATT
*
52786 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** ** **
52807 TCGTGTTGCG-TTTTTTCATT
1 TCGCGTTGCGATAGTTGAAAA
52827 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
52848 TCGCGTTGCGAT
1 TCGCGTTGCGAT
52860 TTTCCATTTC
Statistics
Matches: 37, Mismatches: 15, Indels: 2
0.69 0.28 0.04
Matches are distributed among these distances:
20 13 0.35
21 24 0.65
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:52836 original size:20 final size:20
Alignment explanation
Indices: 52811--52902 Score: 103
Period size: 20 Copynumber: 4.5 Consensus size: 20
52801 TGAAAATCGT
* *
52811 GTTGCGTTTTTTCATTTCGC
1 GTTGCGATTTTCCATTTCGC
* ** **
52831 GTTGCGATAGTTGAAAATCGC
1 GTTGCGAT-TTTCCATTTCGC
*
52852 GTTGCGATTTTCCATTTCGT
1 GTTGCGATTTTCCATTTCGC
52872 GTTGCGATTTTCCATTTCGC
1 GTTGCGATTTTCCATTTCGC
52892 GTTGCGATTTT
1 GTTGCGATTTT
52903 TCAAATTCGT
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 43 0.74
21 15 0.26
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.46
Consensus pattern (20 bp):
GTTGCGATTTTCCATTTCGC
Found at i:52836 original size:41 final size:41
Alignment explanation
Indices: 52782--52879 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
52772 ATTCACGTTG
* * * *
52782 CATTTCGCATTGCGATAGTTGAAAATCGTGTTGCGTTTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
52823 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
52864 CATTTCGTGTTGCGAT
1 CATTTCGCGTTGCGAT
52880 TTTCCATTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.41
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:52987 original size:6 final size:6
Alignment explanation
Indices: 52976--53000 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52966 CAGACGTATT
52976 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
53001 GACGAGACGG
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:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:53194 original size:25 final size:25
Alignment explanation
Indices: 53166--53222 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
53156 GAATATTCAG
53166 GAAACAATTAACAATCATGCACCTT
1 GAAACAATTAACAATCATGCACCTT
53191 GAAACAATTAACAATCATGCACCTT
1 GAAACAATTAACAATCATGCACCTT
*
53216 AAAACAA
1 GAAACAA
53223 CTGAATCAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (25 bp):
GAAACAATTAACAATCATGCACCTT
Found at i:53534 original size:6 final size:6
Alignment explanation
Indices: 53523--53570 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
53513 GTCTCGTCTC
53523 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
53571 AAAATTCTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GTCGTG
Found at i:54907 original size:3 final size:3
Alignment explanation
Indices: 54901--54959 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
54891 TAATTTTTTT
* * * *
54901 TTA TTA TTA TTT TTG TT- TTA TTA TTA TTA TTT TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
54948 TTA TTA TTA TTA
1 TTA TTA TTA TTA
54960 AATAAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:64088 original size:83 final size:83
Alignment explanation
Indices: 63949--64289 Score: 592
Period size: 83 Copynumber: 4.1 Consensus size: 83
63939 AAATGACATA
63949 TGCTCATAGCATATTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATATTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
64014 GAATTTGAAAGATGAATG
66 GAATTTGAAAGATGAATG
64032 TGCTCATAGCATATTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATATTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
*
64097 GAATTTGAGAGATGAATG
66 GAATTTGAAAGATGAATG
* * *
64115 TGCTCATAGCGTCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATATTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
*
64180 GAATTTGAGAGATGAATG
66 GAATTTGAAAGATGAATG
* * *
64198 TGCTCATAGCGTCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATATTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
* *
64263 GAATTTAAAAGATGAATT
66 GAATTTGAAAGATGAATG
64281 TGCTCATAG
1 TGCTCATAG
64290 TAAAAATAAG
Statistics
Matches: 251, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 251 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
TGCTCATAGCATATTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
GAATTTGAAAGATGAATG
Found at i:67777 original size:76 final size:76
Alignment explanation
Indices: 67685--68585 Score: 1633
Period size: 76 Copynumber: 11.9 Consensus size: 76
67675 CTATTTCTCA
*
67685 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
67750 AGCCTTAGGGT
66 AGCCTTAGGGT
*
67761 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
*
67826 AGCCTTCGGGT
66 AGCCTTAGGGT
* *
67837 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGATCATTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
67902 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
67913 CATCTGTAAGTCCTTCAGTGCATGATGCTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
67978 AGCCTTAGGGT
66 AGCCTTAGGGT
67989 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
*
68054 AACCTTAGGGT
66 AGCCTTAGGGT
*
68065 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
**
68130 AGCCTTCTGGT
66 AGCCTTAGGGT
*
68141 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
68206 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
68217 CATCTGTAAGTCCTTCAGTGCATGATGCTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
68282 AGCCTTAGGGT
66 AGCCTTAGGGT
68293 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
*
68358 AGCCTTCGGGT
66 AGCCTTAGGGT
68369 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
*
68434 AGCCTTCGGGT
66 AGCCTTAGGGT
68445 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
* *
68510 AACCTTCGGGT
66 AGCCTTAGGGT
68521 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAT-TTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
68585 A
66 A
68586 CCCTCGGGGT
Statistics
Matches: 798, Mismatches: 27, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
75 17 0.02
76 781 0.98
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:68754 original size:3 final size:3
Alignment explanation
Indices: 68748--68806 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
68738 AATTTTTTTT
* * * *
68748 TTA TTA TTA TTT TTG TT- TTA TTA TTA TTA TTT TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
68795 TTA TTA TTA TTA
1 TTA TTA TTA TTA
68807 AATAAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:74710 original size:22 final size:22
Alignment explanation
Indices: 74685--74741 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
74675 ATATATATTT
*
74685 ATAAAAATATATATTTTATTAA
1 ATAAAAATATATATTTAATTAA
*
74707 ATAAAAATA-AGAATTTAATTAA
1 ATAAAAATATA-TATTTAATTAA
74729 A-AAATAATATATA
1 ATAAA-AATATATA
74742 AAAGAGTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.14
22 24 0.83
23 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
ATAAAAATATATATTTAATTAA
Found at i:75461 original size:19 final size:19
Alignment explanation
Indices: 75437--75474 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
75427 CATATACTCA
75437 CCATGCAGACGAGCCATAC
1 CCATGCAGACGAGCCATAC
75456 CCATGCAGACGAGCCATAC
1 CCATGCAGACGAGCCATAC
75475 AAGCCATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.37, G:0.21, T:0.11
Consensus pattern (19 bp):
CCATGCAGACGAGCCATAC
Found at i:75533 original size:32 final size:32
Alignment explanation
Indices: 75489--75559 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
75479 CATATACTCA
* *
75489 CCATGCAGACGAGCCAGCCAACGGAGAGGTCG
1 CCATGCAAACGAGCCAGCCAACAGAGAGGTCG
*
75521 CCATGCAAACGAGCCAGCCAATAGAGAGGTCG
1 CCATGCAAACGAGCCAGCCAACAGAGAGGTCG
75553 CCATGCA
1 CCATGCA
75560 GTCTGGGCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.31, C:0.31, G:0.30, T:0.08
Consensus pattern (32 bp):
CCATGCAAACGAGCCAGCCAACAGAGAGGTCG
Found at i:75650 original size:29 final size:29
Alignment explanation
Indices: 75547--75641 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
75537 GCCAATAGAG
* **
75547 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
75576 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
75605 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
75634 AGGTCGCC
1 AGGTCGCC
75642 CCGGCGTCCA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:75740 original size:49 final size:49
Alignment explanation
Indices: 75668--75782 Score: 177
Period size: 49 Copynumber: 2.4 Consensus size: 49
75658 CCCGAGACCA
75668 TGCATG-C-ACATGCA-GCCAAATAACTTCACGTGCTCCTGCT-CCCGC
1 TGCATGCCTACATGCATGCCAAATAACTTCACGTGCTCCTGCTCCCCGC
*
75713 TGCATGCCTGCATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAA-ATAACTTCACGTGCTCCTGCTCCCCGC
75763 TGCATGCCTACA-GCATGCCA
1 TGCATGCCTACATGCATGCCA
75783 TGTGATCCTA
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
45 6 0.10
46 1 0.02
47 6 0.10
48 5 0.08
49 29 0.46
50 16 0.25
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (49 bp):
TGCATGCCTACATGCATGCCAAATAACTTCACGTGCTCCTGCTCCCCGC
Found at i:76015 original size:16 final size:18
Alignment explanation
Indices: 75994--76032 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
75984 GGAGATAAGG
*
75994 TAAATTTGTTTA-TATT-
1 TAAATTAGTTTATTATTA
76010 TAAATTAGTTTATTATTA
1 TAAATTAGTTTATTATTA
76028 TAAAT
1 TAAAT
76033 GTTAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAAATTAGTTTATTATTA
Found at i:76176 original size:46 final size:48
Alignment explanation
Indices: 76137--76227 Score: 127
Period size: 46 Copynumber: 1.9 Consensus size: 48
76127 TTATATAGTT
76137 AAAAA-TAATTAATTAGTTTGTT-TT-GTT-AATAGTTAGTTATATAAA
1 AAAAATTAATTAATTAGTTT-TTGTTAGTTAAATAGTTAGTTATATAAA
*
76182 AAAAATTATTTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTAATTAATTAGTTTTTGTTAGTTAAATAGTT-AGTTATAT
76228 TTGTTTGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
45 7 0.17
46 15 0.38
47 3 0.08
48 7 0.17
49 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (48 bp):
AAAAATTAATTAATTAGTTTTTGTTAGTTAAATAGTTAGTTATATAAA
Found at i:76271 original size:12 final size:12
Alignment explanation
Indices: 76254--76306 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
76244 TATATAAAAA
76254 ATTAGTTAGTTT
1 ATTAGTTAGTTT
76266 ATTAGTTAGTTTT
1 ATTAGTTAG-TTT
*
76279 AGTTAGTAAGTTT
1 A-TTAGTTAGTTT
*
76292 ATTAG-TAGTAT
1 ATTAGTTAGTTT
76303 ATTA
1 ATTA
76307 TAATGAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 8 0.22
12 13 0.36
13 8 0.22
14 7 0.19
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (12 bp):
ATTAGTTAGTTT
Found at i:76323 original size:32 final size:33
Alignment explanation
Indices: 76287--76363 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
76277 TTAGTTAGTA
*
76287 AGTTTATTAGTAG-TATA-TTATAATGAAAAAAT
1 AGTTTATTAGTAGTTATAGTTAT-ATAAAAAAAT
*
76319 AGTTTATTAGTTAGTTTTAGTTATATAAAAAAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAAAAT
*
76353 ATTTTATTAGT
1 AGTTTATTAGT
76364 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.26
33 4 0.10
34 21 0.54
35 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAAAAT
Found at i:76436 original size:16 final size:16
Alignment explanation
Indices: 76404--76450 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
76394 TTTAAAAAGT
*
76404 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
76420 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
76436 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
76451 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:76445 original size:15 final size:14
Alignment explanation
Indices: 76425--76455 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
76415 GTTTATTAGT
76425 TTATTATATTATAAG
1 TTATTATATTA-AAG
76440 TTATTATATTAAAG
1 TTATTATATTAAAG
76454 TT
1 TT
76456 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:78624 original size:17 final size:17
Alignment explanation
Indices: 78602--78634 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
78592 CAATGATGTT
78602 TAGTATCAAATAATTAC
1 TAGTATCAAATAATTAC
78619 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
78635 GTATTAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:78638 original size:14 final size:14
Alignment explanation
Indices: 78601--78651 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
78591 ACAATGATGT
78601 TTAGTATCAAATAA
1 TTAGTATCAAATAA
78615 TTACTAGTATCAAATAA
1 -T--TAGTATCAAATAA
* *
78632 TTAGTATTAAATCA
1 TTAGTATCAAATAA
78646 TTAGTA
1 TTAGTA
78652 ATAATTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 17 0.53
15 1 0.03
16 1 0.03
17 13 0.41
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (14 bp):
TTAGTATCAAATAA
Found at i:78653 original size:21 final size:21
Alignment explanation
Indices: 78629--78672 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
78619 TAGTATCAAA
* *
78629 TAATTAGTATTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
*
78650 TAATAATTAGTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
78671 TA
1 TA
78673 TCAAATCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (21 bp):
TAATAAGTAGTAAATCATTAG
Found at i:78671 original size:11 final size:11
Alignment explanation
Indices: 78639--78672 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
78629 TAATTAGTAT
78639 TAAATCATTAG
1 TAAATCATTAG
*
78650 T-AATAATTAG
1 TAAATCATTAG
78660 TAAATCATTAG
1 TAAATCATTAG
78671 TA
1 TA
78673 TCAAATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (11 bp):
TAAATCATTAG
Found at i:78680 original size:14 final size:13
Alignment explanation
Indices: 78619--78683 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 13
78609 AAATAATTAC
*
78619 TAGTATCAAATAAT
1 TAGTAT-AAATCAT
78633 TAGTATTAAATCAT
1 TAGTA-TAAATCAT
*
78647 TAG--T-AATAAT
1 TAGTATAAATCAT
78657 TAG--TAAATCAT
1 TAGTATAAATCAT
78668 TAGTATCAAATCAT
1 TAGTAT-AAATCAT
78682 TA
1 TA
78684 AATATTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 9 0.21
11 9 0.21
13 1 0.02
14 23 0.53
15 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TAGTATAAATCAT
Found at i:78787 original size:13 final size:12
Alignment explanation
Indices: 78769--78861 Score: 68
Period size: 11 Copynumber: 7.9 Consensus size: 12
78759 TTAGTATTCT
78769 ATAATTATTAGTA
1 ATAATTATTA-TA
78782 ATAATTATTA-A
1 ATAATTATTATA
*
78793 ATCATTATTATAA
1 ATAATTATTAT-A
*
78806 ATAATTACTA-A
1 ATAATTATTATA
* *
78817 ATAA-CATAATA
1 ATAATTATTATA
* *
78828 ATTATTA-TAAA
1 ATAATTATTATA
*
78839 ATCATTATTATA
1 ATAATTATTATA
*
78851 ATGATTATTAT
1 ATAATTATTAT
78862 CAAATCATTA
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
10 2 0.03
11 27 0.44
12 14 0.23
13 19 0.31
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (12 bp):
ATAATTATTATA
Found at i:78799 original size:24 final size:23
Alignment explanation
Indices: 78772--78860 Score: 90
Period size: 23 Copynumber: 3.8 Consensus size: 23
78762 GTATTCTATA
78772 ATTATTAGTAATAATTATTAAATC
1 ATTATTA-TAATAATTATTAAATC
*
78796 ATTATTATAAATAATTACTAAAT-
1 ATTATTAT-AATAATTATTAAATC
** * * *
78819 AACATAATAATTATTATAAAATC
1 ATTATTATAATAATTATTAAATC
*
78842 ATTATTATAATGATTATTA
1 ATTATTATAATAATTATTA
78861 TCAAATCATT
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
22 11 0.22
23 20 0.39
24 20 0.39
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTATTATAATAATTATTAAATC
Found at i:78847 original size:14 final size:13
Alignment explanation
Indices: 78828--79040 Score: 82
Period size: 12 Copynumber: 15.2 Consensus size: 13
78818 TAACATAATA
78828 ATTATTATAAAATC
1 ATTATTAT-AAATC
*
78842 ATTATTAT-AATG
1 ATTATTATAAATC
78854 ATTATTATCAAATC
1 ATTATTAT-AAATC
78868 ATTACTAAATCATCAAATC
1 ATTA-T---T-AT-AAATC
*
78887 ATTAAATATTTAAATC
1 ATT--AT-TATAAATC
78903 ATTA-T-TAAATC
1 ATTATTATAAATC
* *
78914 ATTTTTAT-AATG
1 ATTATTATAAATC
78926 ATTATTACTAAATC
1 ATTATTA-TAAATC
* *
78940 ATTACTAT-AATG
1 ATTATTATAAATC
78952 ATTATTATCAAATC
1 ATTATTAT-AAATC
78966 ATTACTAAATCATCAAATC
1 ATTA-T---T-AT-AAATC
*
78985 ATTAAATATTTAAATC
1 ATT--AT-TATAAATC
79001 ATTA-T-TAAATC
1 ATTATTATAAATC
* *
79012 ATTTTTAT-AATG
1 ATTATTATAAATC
79024 ATTATTACTAAATC
1 ATTATTA-TAAATC
79038 ATT
1 ATT
79041 GTTCATTGTT
Statistics
Matches: 157, Mismatches: 16, Indels: 52
0.70 0.07 0.23
Matches are distributed among these distances:
11 18 0.11
12 43 0.27
13 5 0.03
14 39 0.25
15 2 0.01
16 16 0.10
17 2 0.01
18 6 0.04
19 22 0.14
20 2 0.01
21 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTATTATAAATC
Found at i:78852 original size:26 final size:25
Alignment explanation
Indices: 78822--79040 Score: 115
Period size: 26 Copynumber: 8.9 Consensus size: 25
78812 ACTAAATAAC
*
78822 ATAATAATTATTATAAAATCATTATT
1 ATAATGATTATTAT-AAATCATTATT
*
78848 ATAATGATTATTATCAAATCATTACT
1 ATAATGATTATTAT-AAATCATTATT
* * *
78874 A-AATCATCAAATCATTAAAT-A-T-TT
1 ATAATGAT--TATTA-TAAATCATTATT
* *
78898 A-AATCATTA-T-TAAATCATTTTT
1 ATAATGATTATTATAAATCATTATT
*
78920 ATAATGATTATTACTAAATCATTACT
1 ATAATGATTATTA-TAAATCATTATT
*
78946 ATAATGATTATTATCAAATCATTACT
1 ATAATGATTATTAT-AAATCATTATT
* * *
78972 A-AATCATCAAATCATTAAAT-A-T-TT
1 ATAATGAT--TATTA-TAAATCATTATT
* *
78996 A-AATCATTA-T-TAAATCATTTTT
1 ATAATGATTATTATAAATCATTATT
79018 ATAATGATTATTACTAAATCATT
1 ATAATGATTATTA-TAAATCATT
79041 GTTCATTGTT
Statistics
Matches: 153, Mismatches: 19, Indels: 42
0.71 0.09 0.20
Matches are distributed among these distances:
19 10 0.07
20 2 0.01
21 2 0.01
22 8 0.05
23 14 0.09
24 18 0.12
25 13 0.08
26 70 0.46
27 14 0.09
28 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (25 bp):
ATAATGATTATTATAAATCATTATT
Found at i:78991 original size:98 final size:98
Alignment explanation
Indices: 78822--79040 Score: 404
Period size: 98 Copynumber: 2.2 Consensus size: 98
78812 ACTAAATAAC
* *
78822 ATAATAATTATTA-TAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
1 ATAATGATTATTACT-AAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
78886 CATTAAATATTTAAATCATTATTAAATCATTTTT
65 CATTAAATATTTAAATCATTATTAAATCATTTTT
78920 ATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
1 ATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
78985 ATTAAATATTTAAATCATTATTAAATCATTTTT
66 ATTAAATATTTAAATCATTATTAAATCATTTTT
79018 ATAATGATTATTACTAAATCATT
1 ATAATGATTATTACTAAATCATT
79041 GTTCATTGTT
Statistics
Matches: 118, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
98 117 0.99
99 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (98 bp):
ATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
ATTAAATATTTAAATCATTATTAAATCATTTTT
Found at i:79048 original size:7 final size:7
Alignment explanation
Indices: 79036--79062 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
79026 TATTACTAAA
79036 TCATTGT
1 TCATTGT
79043 TCATTGT
1 TCATTGT
79050 TCATTGT
1 TCATTGT
79057 TCATTG
1 TCATTG
79063 AACCAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (7 bp):
TCATTGT
Found at i:79154 original size:14 final size:14
Alignment explanation
Indices: 79135--79182 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
79125 TTCAAGTCGT
79135 AAATCATTACTATC
1 AAATCATTACTATC
79149 AAATCATTAC--T-
1 AAATCATTACTATC
*
79160 AAATCATTAATATC
1 AAATCATTACTATC
79174 AAATCATTA
1 AAATCATTA
79183 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:79216 original size:48 final size:49
Alignment explanation
Indices: 79154--79505 Score: 193
Period size: 60 Copynumber: 6.3 Consensus size: 49
79144 CTATCAAATC
*
79154 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATT
1 ATTACT-AATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
* *
79203 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
* * *
79252 ATTACTAATCATTACTAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATT
1 ATTACTAATCATTA--ATATCA--A--ATC--AT--TA-AAAATTAATAATAAATTCATT
*
79312 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATC---A-T---T-A--A-TATCAAATCATTAAAAATTAATAATAAATTCATT
* * *
79372 ATTACTAATCATTACTAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATT
1 ATTACTAATCATTA--ATATCA--A--ATC--AT--TA-AAAATTAATAATAAATTCATT
*
79432 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATC---A-T---T-A--A-TATCAAATCATTAAAAATTAATAATAAATTCATT
79492 ATTACTAATCATTA
1 ATTACTAATCATTA
79506 CTAAATCATT
Statistics
Matches: 249, Mismatches: 15, Indels: 75
0.73 0.04 0.22
Matches are distributed among these distances:
48 36 0.14
49 23 0.09
51 8 0.03
52 4 0.02
53 4 0.02
55 6 0.02
56 2 0.01
57 6 0.02
59 4 0.02
60 120 0.48
61 4 0.02
63 6 0.02
64 2 0.01
65 6 0.02
67 4 0.02
68 6 0.02
69 8 0.03
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (49 bp):
ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
Found at i:79278 original size:60 final size:60
Alignment explanation
Indices: 79203--79632 Score: 769
Period size: 60 Copynumber: 7.2 Consensus size: 60
79193 ATAAATTATT
79203 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
79262 ATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
79322 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
79382 ATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
79442 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
79502 ATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
*
79562 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATCATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
79622 ATTACTAAATC
1 ATTACTAAATC
79633 TTATAAATAC
Statistics
Matches: 357, Mismatches: 7, Indels: 13
0.95 0.02 0.03
Matches are distributed among these distances:
59 12 0.03
60 339 0.95
61 6 0.02
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:82717 original size:28 final size:28
Alignment explanation
Indices: 82686--82739 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
82676 ATAATCTAAT
*
82686 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
82714 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
82740 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:82746 original size:28 final size:28
Alignment explanation
Indices: 82682--82746 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
82672 TTATATAATC
*
82682 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
82710 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
82738 TAATTTATA
1 TAATATATA
82747 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:82749 original size:21 final size:21
Alignment explanation
Indices: 82716--82764 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
82706 TTAATATAAT
82716 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
82737 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
82758 ATTAACT
1 A-TAACT
82765 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:83401 original size:20 final size:20
Alignment explanation
Indices: 83376--83492 Score: 82
Period size: 20 Copynumber: 5.8 Consensus size: 20
83366 TTTGGCGAGC
83376 TGGGCGTGCATGGAGGT-CGT
1 TGGGCGTGCATGGAGGTGC-T
** *
83396 TGGGCGTGCATGGCCGTGCA
1 TGGGCGTGCATGGAGGTGCT
* * *
83416 TGGAG-GT-CGTTGGACGTGCC
1 TGG-GCGTGC-ATGGAGGTGCT
*
83436 TGGGCATGCATGGAGGT-CGT
1 TGGGCGTGCATGGAGGTGC-T
*
83456 TGGGCGTGCATGG-GCGTGCA
1 TGGGCGTGCATGGAG-GTGCT
83476 TGGGCGTGCATGGAGGT
1 TGGGCGTGCATGGAGGT
83493 CGTGGGGTAG
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.05
20 67 0.88
21 5 0.07
ACGTcount: A:0.11, C:0.18, G:0.48, T:0.23
Consensus pattern (20 bp):
TGGGCGTGCATGGAGGTGCT
Found at i:83416 original size:30 final size:30
Alignment explanation
Indices: 83376--83478 Score: 170
Period size: 30 Copynumber: 3.4 Consensus size: 30
83366 TTTGGCGAGC
83376 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
* * *
83406 TGGCCGTGCATGGAGGTCGTTGGACGTGCC
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
*
83436 TGGGCATGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
83466 TGGGCGTGCATGG
1 TGGGCGTGCATGG
83479 GCGTGCATGG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.11, C:0.18, G:0.48, T:0.23
Consensus pattern (30 bp):
TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
Found at i:83471 original size:10 final size:10
Alignment explanation
Indices: 83456--83488 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
83446 TGGAGGTCGT
83456 TGGGCGTGCA
1 TGGGCGTGCA
83466 TGGGCGTGCA
1 TGGGCGTGCA
83476 TGGGCGTGCA
1 TGGGCGTGCA
83486 TGG
1 TGG
83489 AGGTCGTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.09, C:0.18, G:0.52, T:0.21
Consensus pattern (10 bp):
TGGGCGTGCA
Found at i:83543 original size:29 final size:29
Alignment explanation
Indices: 83502--83613 Score: 215
Period size: 29 Copynumber: 3.9 Consensus size: 29
83492 TCGTGGGGTA
*
83502 GGTCGCAGGGCGTGCATGGCGACCTGGTT
1 GGTCGCCGGGCGTGCATGGCGACCTGGTT
83531 GGTCGCCGGGCGTGCATGGCGACCTGGTT
1 GGTCGCCGGGCGTGCATGGCGACCTGGTT
83560 GGTCGCCGGGCGTGCATGGCGACCTGGTT
1 GGTCGCCGGGCGTGCATGGCGACCTGGTT
83589 GGTCGCCGGGCGTGCATGGCGACCT
1 GGTCGCCGGGCGTGCATGGCGACCT
83614 ACCCCGGTAC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 82 1.00
ACGTcount: A:0.08, C:0.28, G:0.45, T:0.20
Consensus pattern (29 bp):
GGTCGCCGGGCGTGCATGGCGACCTGGTT
Found at i:88689 original size:26 final size:26
Alignment explanation
Indices: 88659--88710 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
88649 ATACGTAATG
*
88659 GGGTAAGGGGAGGTAGGGTAATAGGC
1 GGGTAAGGGGAGGTAGGGCAATAGGC
88685 GGGTAAGGGGAGGTAGGGCAATAGGC
1 GGGTAAGGGGAGGTAGGGCAATAGGC
88711 TGCCCCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.06, G:0.54, T:0.13
Consensus pattern (26 bp):
GGGTAAGGGGAGGTAGGGCAATAGGC
Found at i:91257 original size:126 final size:126
Alignment explanation
Indices: 91032--91291 Score: 502
Period size: 126 Copynumber: 2.1 Consensus size: 126
91022 TATAATAGTT
91032 ATGAACATGCATACATGGTAATTATTATGATACATAGATAAGGTATATATGTGAATAGATTTAAA
1 ATGAACATGCATACATGGTAATTATTATGATACATAGATAAGGTATATATGTGAATAGATTTAAA
91097 TGCACATGTGATATGATAAGTGATATGAGCTATGTGATCACAAGAGAAATGACATGAGCAC
66 TGCACATGTGATATGATAAGTGATATGAGCTATGTGATCACAAGAGAAATGACATGAGCAC
91158 ATGAACATGCATACATGGTAATTATTATGATACATAGATAAGGTATATATGTGAATAGATTTAAA
1 ATGAACATGCATACATGGTAATTATTATGATACATAGATAAGGTATATATGTGAATAGATTTAAA
* *
91223 TGCATATGTGATATGATAAGTGATATGAGCTATGTGATCACAAGAGAAATGACATGAGCAT
66 TGCACATGTGATATGATAAGTGATATGAGCTATGTGATCACAAGAGAAATGACATGAGCAC
91284 ATGAACAT
1 ATGAACAT
91292 ATGAAACATA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 132 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (126 bp):
ATGAACATGCATACATGGTAATTATTATGATACATAGATAAGGTATATATGTGAATAGATTTAAA
TGCACATGTGATATGATAAGTGATATGAGCTATGTGATCACAAGAGAAATGACATGAGCAC
Found at i:92001 original size:21 final size:22
Alignment explanation
Indices: 91958--92002 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
91948 TACGGAAATA
* *
91958 CTGTAGCAGGGGTATCGATACC
1 CTGTAGCAGGGGAATCAATACC
91980 CTGTAGCA-GGGAATCAATACC
1 CTGTAGCAGGGGAATCAATACC
92001 CT
1 CT
92003 TTTTGTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCAATACC
Found at i:92066 original size:25 final size:25
Alignment explanation
Indices: 92032--92080 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
92022 TAACATTTTG
*
92032 GGTACTGTAGCAGGTTTCTGTTCAC
1 GGTACTGTAGCAGGTTGCTGTTCAC
92057 GGTACTGTAGCAGGTTGCTGTTCA
1 GGTACTGTAGCAGGTTGCTGTTCA
92081 TAACGTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.16, C:0.18, G:0.31, T:0.35
Consensus pattern (25 bp):
GGTACTGTAGCAGGTTGCTGTTCAC
Found at i:95908 original size:26 final size:27
Alignment explanation
Indices: 95879--95930 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
95869 TCGTGTTAGA
*
95879 CTGTTAAAG-AACATGCACGTGTATTG
1 CTGTTAAAGAAACATGCACATGTATTG
*
95905 CTGTTAAAGAAATATGCACATGTATT
1 CTGTTAAAGAAACATGCACATGTATT
95931 AAGCAGTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (27 bp):
CTGTTAAAGAAACATGCACATGTATTG
Found at i:97571 original size:36 final size:36
Alignment explanation
Indices: 97524--97736 Score: 304
Period size: 36 Copynumber: 5.9 Consensus size: 36
97514 TGAATAAGAA
**
97524 GAACGAAAGGAAGCATCAACACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
*
97560 GAACGAAAGGAAGCATCGGCACTTTCGATTC-AAGAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAG-T
97596 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* * * * *
97632 GAATGGAAGGAAGCATCCGTACTTTCGATTC-AAGAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAG-T
97668 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* *
97704 GAACGGAAGGAAGCATCCGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAA
97737 TTGTTCATCT
Statistics
Matches: 157, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
35 6 0.04
36 145 0.92
37 6 0.04
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (36 bp):
GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
Found at i:97642 original size:72 final size:72
Alignment explanation
Indices: 97519--97736 Score: 382
Period size: 72 Copynumber: 3.0 Consensus size: 72
97509 GAAGGTGAAT
** * *
97519 AAGAAGAACGAAAGGAAGCATCAACACTTTCGATTCAAAGTGAACGAAAGGAAGCATCGGCACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
97584 TCGATTC
66 TCGATTC
* *
97591 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAATGGAAGGAAGCATCCGTACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
97656 TCGATTC
66 TCGATTC
97663 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
97728 TCGATTC
66 TCGATTC
97735 AA
1 AA
97737 TTGTTCATCT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 138 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
TCGATTC
Found at i:97815 original size:25 final size:26
Alignment explanation
Indices: 97787--97835 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
97777 AATGTTAGAC
*
97787 TGTTAAAG-AACATGCACGTGTATGT
1 TGTTAAAGAAACATGCACATGTATGT
*
97812 TGTTAAAGAAATATGCACATGTAT
1 TGTTAAAGAAACATGCACATGTAT
97836 TAAGCAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (26 bp):
TGTTAAAGAAACATGCACATGTATGT
Found at i:98844 original size:47 final size:46
Alignment explanation
Indices: 98765--98863 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 46
98755 AAATTACGCA
* *
98765 TTTAATACATAAACTATCAGTTATGGTATGTTTTAGTACTTAACACG
1 TTTAATACATAAACTATCAGTTATGGTATGTTTTAATACCTAA-ACG
** * * * *
98812 TTTAATATTTAAACTATCAGTTTTTGTTTGTTTTAATACCTAAACT
1 TTTAATACATAAACTATCAGTTATGGTATGTTTTAATACCTAAACG
98858 TTTAAT
1 TTTAAT
98864 TTTTTCAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 8 0.18
47 36 0.82
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.47
Consensus pattern (46 bp):
TTTAATACATAAACTATCAGTTATGGTATGTTTTAATACCTAAACG
Found at i:99540 original size:21 final size:21
Alignment explanation
Indices: 99510--99564 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
99500 CGATTACATA
*
99510 TTCGCATTGCGATACTCCAAG
1 TTCGCGTTGCGATACTCCAAG
* *
99531 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATACTCCAAG
99552 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
99565 TTTCCAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (21 bp):
TTCGCGTTGCGATACTCCAAG
Found at i:99576 original size:21 final size:21
Alignment explanation
Indices: 99509--99577 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
99499 GCGATTACAT
*
99509 ATTCGCATTGCGATACTCCAA
1 ATTCGCGTTGCGATACTCCAA
* * *
99530 GTTCGCGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATACTCCAA
* **
99551 GTTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATACTCCAA
99572 ATTCGC
1 ATTCGC
99578 AACGCGAACT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (21 bp):
ATTCGCGTTGCGATACTCCAA
Found at i:100071 original size:42 final size:42
Alignment explanation
Indices: 99574--100060 Score: 863
Period size: 42 Copynumber: 11.7 Consensus size: 42
99564 TTTTCCAAAT
99574 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
*
99616 TCGCAACGTGAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
99658 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
99700 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
99742 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
*
99784 TCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
* * *
99826 TCGCAACGCGAACTTGGACTATCGCAATGAATTGGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
*
99868 TCGCAACGCAAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
* *
99910 TCGCAACGCAAACTTCGACTATCGCAACGAACTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
* *
99952 TCGCAATGCG-ACTTGGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
99993 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGG-A-AAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
100033 TCGCAACGCGAACTTCGACTATCGCAAC
1 TCGCAACGCGAACTTCGACTATCGCAAC
100061 ACGAACTTGG
Statistics
Matches: 426, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
40 31 0.07
41 39 0.09
42 356 0.84
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
Found at i:100653 original size:135 final size:135
Alignment explanation
Indices: 100418--100684 Score: 500
Period size: 135 Copynumber: 2.0 Consensus size: 135
100408 TCCAATTCCG
* *
100418 CCACTTTTCCATGTTTGGTTCAAGTTTTCCAAGGGAATTGGAATCCCTCATGGATTCAACTTTCC
1 CCACTTTTCCATGTTTGGTTCAAGTTTTCCAAGGGAATTAGAATCCCTCATGGATTCAACTTCCC
100483 ATCAAATGAGGGAAAGTGAATTTCATCCATTCTATGATGGAATTCAATTCCCTTATTGGACGGAA
66 ATCAAATGAGGGAAAGTGAATTTCATCCATTCTATGATGGAATTCAATTCCCTTATTGGACGGAA
100548 TTCTA
131 TTCTA
100553 CCAC-TTTCTCATGTTTGGTTCAAGTTTTCCAAGGGAATTAGAATCCCTCATGGATTCAACTTCC
1 CCACTTTTC-CATGTTTGGTTCAAGTTTTCCAAGGGAATTAGAATCCCTCATGGATTCAACTTCC
100617 CATCAAATGAGGGAAAGTGAATTTCATCCATTCTATGATGGAATTCAATTCCCTTATTGGACGGA
65 CATCAAATGAGGGAAAGTGAATTTCATCCATTCTATGATGGAATTCAATTCCCTTATTGGACGGA
100682 ATT
130 ATT
100685 GAAATTTAAC
Statistics
Matches: 129, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
134 4 0.03
135 125 0.97
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (135 bp):
CCACTTTTCCATGTTTGGTTCAAGTTTTCCAAGGGAATTAGAATCCCTCATGGATTCAACTTCCC
ATCAAATGAGGGAAAGTGAATTTCATCCATTCTATGATGGAATTCAATTCCCTTATTGGACGGAA
TTCTA
Found at i:101143 original size:224 final size:224
Alignment explanation
Indices: 100813--101276 Score: 684
Period size: 224 Copynumber: 2.1 Consensus size: 224
100803 ACTTTATTTT
* * * *
100813 GGTCGGGTTGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTTCGGGTTTAGGGTGA
1 GGTCGGGTCGGGTCGGTTTTTTTAAGTGTAATATTCGAGTCGAGTCGAGTTCGGGTTTAGGGTGA
* *
100878 AAAATACTCGACCCGAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCC
66 AAAATACCCGACCCAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAAT-ATACCC
* *
100943 CTCTATATATAAATTTTTTCAATTATGTCACTGTTTTTATTGAATAAAAATAAAAATTTTATTAT
130 CTCTATATATAAATTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAAT-AAAATTTTATTAT
101008 TTC-GG-GTCGGGTTTCTAATTCATATATTCG
194 TTCGGGAGTCGGGTTTCTAATTCATAT-TTCG
*
101038 GGTCGGGTCGGGTCGG-TTTTTTAAGTGTAATATTCGAGTCGGGTCGAGTTCGGGTTTAGGGTGA
1 GGTCGGGTCGGGTCGGTTTTTTTAAGTGTAATATTCGAGTCGAGTCGAGTTCGGGTTTAGGGTGA
101102 AAAATACCCGACCCAAAAAATATATAATTTTACC-TATATATTTAGGAATAATTACAATATACCC
66 AAAATACCCGACCC-AAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATATACCC
* * * * ***
101166 TTTTCTATATATATTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATATTTTTTTATTATT
130 CTCTATATATAAATTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAAAATTTTATTATT
101231 TCGGGTCAAGTCGGGTTTCTAATTCATATTTCG
195 TCGGG---AGTCGGGTTTCTAATTCATATTTCG
*
101264 GGTTGGGTCGGGT
1 GGTCGGGTCGGGT
101277 GAAACTTTAT
Statistics
Matches: 216, Mismatches: 17, Indels: 11
0.89 0.07 0.05
Matches are distributed among these distances:
222 13 0.06
223 53 0.25
224 81 0.38
225 33 0.15
226 16 0.07
227 20 0.09
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (224 bp):
GGTCGGGTCGGGTCGGTTTTTTTAAGTGTAATATTCGAGTCGAGTCGAGTTCGGGTTTAGGGTGA
AAAATACCCGACCCAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATATACCCC
TCTATATATAAATTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAAAATTTTATTATTT
CGGGAGTCGGGTTTCTAATTCATATTTCG
Found at i:103398 original size:88 final size:88
Alignment explanation
Indices: 103300--103460 Score: 225
Period size: 88 Copynumber: 1.8 Consensus size: 88
103290 ACGCTCTCAA
* * * * * *
103300 CAGTTTTTTGATGTGGAAAATACACTACAACGGCTCTATTGA-CTCAATATAATTTCTAACGTTT
1 CAGTTTTTTGAAGTGAAAAACACACTACAACGGCTCTATTAATCTCAATATAATTTCCAAAG-TT
103364 AGAATTCATACCCTACACTCCGAG
65 AGAATTCATACCCTACACTCCGAG
* * *
103388 CAGTTTTTTGAAGTGAAAAACACATTACAACGGCTCTATTAATTTCAATATGATTTCCAAAGTTA
1 CAGTTTTTTGAAGTGAAAAACACACTACAACGGCTCTATTAATCTCAATATAATTTCCAAAGTTA
103453 GAATTCAT
66 GAATTCAT
103461 CCAAAGAGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
88 48 0.76
89 15 0.24
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (88 bp):
CAGTTTTTTGAAGTGAAAAACACACTACAACGGCTCTATTAATCTCAATATAATTTCCAAAGTTA
GAATTCATACCCTACACTCCGAG
Done.