Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004053.1 Hibiscus syriacus cultivar Beakdansim tig00008865_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: 100158
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Found at i:3609 original size:45 final size:46
Alignment explanation
Indices: 3521--3611 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
3511 TTGAAAAATC
* * *
3521 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTACATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
3567 CTGAGTACATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTACATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
3612 TTCGATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 22 0.52
46 20 0.48
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (46 bp):
CTGAGTACATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:3656 original size:20 final size:20
Alignment explanation
Indices: 3631--3668 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3621 TAAAAAATTA
3631 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
3651 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
3669 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:10295 original size:22 final size:21
Alignment explanation
Indices: 10253--10292 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10243 GAGTTTATTT
*
10253 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
10274 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
10293 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:12365 original size:45 final size:46
Alignment explanation
Indices: 12277--12367 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 46
12267 TTGAAAAAGC
*
12277 CTGAGTGCATCGATGCATGGGCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGGCTTGTGCATCGATGCATAAAATGCA
12323 CTGAGTGCATCGATGCAT-GG-TATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGGCT-TGTGCATCGATGCATAAAATGCA
12368 TTCGATGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
44 1 0.02
45 24 0.56
46 18 0.42
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGGCTTGTGCATCGATGCATAAAATGCA
Found at i:19023 original size:2 final size:2
Alignment explanation
Indices: 19016--19050 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
19006 GATATTGTTC
*
19016 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19051 CAAAGGGAAA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:23245 original size:23 final size:23
Alignment explanation
Indices: 23219--23279 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
23209 TTCATATAAA
*
23219 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
*
23242 TGCACCGTAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
23265 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
23280 TATAATAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:23466 original size:103 final size:103
Alignment explanation
Indices: 23295--23615 Score: 597
Period size: 103 Copynumber: 3.1 Consensus size: 103
23285 TAATGTCCAT
* * *
23295 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
23360 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
23398 AAGAACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
23463 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
23501 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
23566 GACTTCACACATGTTCCAAAGAATACATTTATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
23604 AAGGACCACATA
1 AAGGACCACATA
23616 GACCCTCGAC
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:29235 original size:21 final size:21
Alignment explanation
Indices: 29211--29255 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
29201 TTTTGTTCGT
* * *
29211 TTGAAGGGGTACCGGTTCCTC
1 TTGAAGGGGCACCGATTCCCC
*
29232 TTGAATGGGCACCGATTCCCC
1 TTGAAGGGGCACCGATTCCCC
29253 TTG
1 TTG
29256 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.29
Consensus pattern (21 bp):
TTGAAGGGGCACCGATTCCCC
Found at i:35134 original size:34 final size:34
Alignment explanation
Indices: 35090--35162 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
35080 TTCAAGTTAA
*
35090 AAATTCCAAAACACTTCAATTACATTCTAAACCC
1 AAATTCCAAAACACTTCAATTACATTCCAAACCC
* * * *
35124 AAATTTCAAAATACTTCAATTATATTCCAAACCT
1 AAATTCCAAAACACTTCAATTACATTCCAAACCC
35158 AAATT
1 AAATT
35163 AAAGTATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (34 bp):
AAATTCCAAAACACTTCAATTACATTCCAAACCC
Found at i:36235 original size:18 final size:17
Alignment explanation
Indices: 36195--36236 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
36185 ACAAAATACA
36195 ACATTCCCAGTAATCTT
1 ACATTCCCAGTAATCTT
*
36212 --ATTCCCTGGTAATCTT
1 ACATTCCC-AGTAATCTT
36228 ACATTCCCA
1 ACATTCCCA
36237 CTAGAGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 6
0.71 0.07 0.21
Matches are distributed among these distances:
15 6 0.30
16 8 0.40
18 6 0.30
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.36
Consensus pattern (17 bp):
ACATTCCCAGTAATCTT
Found at i:36483 original size:20 final size:20
Alignment explanation
Indices: 36458--36502 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
36448 GTCATCCAAT
36458 TTTTTAAACCCCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
*
36478 TTTTTAAACCCCATACCGGA
1 TTTTTAAACCCCAGACCGGA
36498 TTTTT
1 TTTTT
36503 TTCCGGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.36
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCGGA
Found at i:36725 original size:20 final size:20
Alignment explanation
Indices: 36700--36764 Score: 121
Period size: 20 Copynumber: 3.2 Consensus size: 20
36690 TGCACCTCTA
36700 ATTCCCACTGGTAATCTTAC
1 ATTCCCACTGGTAATCTTAC
36720 ATTCCCACTGGTAATCTTAC
1 ATTCCCACTGGTAATCTTAC
*
36740 ATTCCCACTGGTAATTTTAC
1 ATTCCCACTGGTAATCTTAC
36760 ATTCC
1 ATTCC
36765 GTGAACCAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.25, C:0.29, G:0.09, T:0.37
Consensus pattern (20 bp):
ATTCCCACTGGTAATCTTAC
Found at i:40499 original size:21 final size:20
Alignment explanation
Indices: 40475--40539 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
40465 ATTTTGTTAG
40475 TATTTTATTTAATTA-TTA-
1 TATTTTATTTAATTATTTAT
*
40493 TA--TTATTTAATTTTTTTAT
1 TATTTTATTTAA-TTATTTAT
40512 TATTTTATTTAATTATTTTAT
1 TATTTTATTTAATTA-TTTAT
*
40533 TTTTTTA
1 TATTTTA
40540 CAGTTATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 8 0.21
17 2 0.05
18 5 0.13
19 2 0.05
20 2 0.05
21 19 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTTATTTAATTATTTAT
Found at i:40509 original size:29 final size:29
Alignment explanation
Indices: 40477--40539 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
40467 TTTGTTAGTA
40477 TTTTATT-TAATTA-TTATATTATTTAATTT
1 TTTTATTAT-ATTATTTA-ATTATTTAATTT
* *
40506 TTTTATTATTTTATTTAATTATTTTATTT
1 TTTTATTATATTATTTAATTATTTAATTT
40535 TTTTA
1 TTTTA
40540 CAGTTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTTATTATATTATTTAATTATTTAATTT
Found at i:40527 original size:16 final size:16
Alignment explanation
Indices: 40475--40534 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
40465 ATTTTGTTAG
40475 TATTTTATTTAATTAT
1 TATTTTATTTAATTAT
*
40491 TATATTATTTAATT-T
1 TATTTTATTTAATTAT
* *
40506 TTTTATTATTTTATTTAAT
1 TATT-TTA-TTTAATT-AT
40525 TATTTTATTT
1 TATTTTATTT
40535 TTTTACAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 3 0.09
16 16 0.46
17 9 0.26
18 3 0.09
19 4 0.11
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTATTTAATTAT
Found at i:40817 original size:27 final size:27
Alignment explanation
Indices: 40787--40846 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
40777 TTATAACTGC
*
40787 AAAA-AAAATAATTAAATTAAATAATAA
1 AAAATAAAATAA-TAAAATAAATAATAA
* * *
40814 AAAATTAAATAATAAAATAATTAATAC
1 AAAATAAAATAATAAAATAAATAATAA
40841 AAAATA
1 AAAATA
40847 TGATTAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (27 bp):
AAAATAAAATAATAAAATAAATAATAA
Found at i:40832 original size:20 final size:21
Alignment explanation
Indices: 40787--40833 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
40777 TTATAACTGC
40787 AAAA-AAAATAATTAAATTAA
1 AAAATAAAATAATTAAATTAA
*
40807 ATAATAAAA-AATTAAA-TAA
1 AAAATAAAATAATTAAATTAA
40826 TAAAATAA
1 -AAAATAA
40834 TTAATACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.13
20 16 0.70
21 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATAAAATAATTAAATTAA
Found at i:40839 original size:15 final size:15
Alignment explanation
Indices: 40800--40837 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
40790 AAAAATAATT
40800 AAATTAAATAATAAA
1 AAATTAAATAATAAA
40815 AAATTAAATAATAAA
1 AAATTAAATAATAAA
40830 ATAATTAA
1 A-AATTAA
40838 TACAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAATAAA
Found at i:41307 original size:11 final size:11
Alignment explanation
Indices: 41291--41316 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
41281 TCAATTTTTT
41291 GGTGTTGTGGA
1 GGTGTTGTGGA
41302 GGTGTTGTGGA
1 GGTGTTGTGGA
41313 GGTG
1 GGTG
41317 CTCTAACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.58, T:0.35
Consensus pattern (11 bp):
GGTGTTGTGGA
Found at i:43746 original size:2 final size:2
Alignment explanation
Indices: 43741--43771 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43731 TTTATTTTAT
43741 TA TA TA 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 TA TA TA T
43772 TAAAATTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55579 original size:20 final size:20
Alignment explanation
Indices: 55550--55592 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
55540 ATTTCACCAC
*
55550 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
55570 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
55590 ATG
1 ATG
55593 GGCTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:56426 original size:302 final size:303
Alignment explanation
Indices: 55854--56458 Score: 1077
Period size: 302 Copynumber: 2.0 Consensus size: 303
55844 CTTTGAACCA
* *
55854 TTTTTAAGTGGAGGTGAAAGCGACGCCTTCGTGAGAATTTATTCTCCACATAGGCCTAGTAAGTA
1 TTTTCAAGTGGAGGTGAAAGCGACGCCTTCGTGAGAATTTATTCTCCACATAGGCCTAGCAAGTA
*
55919 ACCTTCGGGATTCATATACCTTATGTCTTCGTGTGAATTTATTCACCGCACCGACATAAGGGAAT
66 ACCTTCGGGATTCATATACCTTATGTCTTCGTGTGAATTTATTCACCGCACAGACATAAGGGAAT
*
55984 GTATCCTCTCGAGTTTAACTTAGTCCACATGAGCTTCTAAAAGGCTTAGGACTAAGGGTATGGCA
131 GCATCCTCTCGAGTTTAACTTAGTCCACATGAGCTTCTAAAAGGCTTAGGACTAAGGGTATGGCA
*
56049 AGCCCAAGGGGGTACCAGAAAGGAGAACTCAGGTACCTTCTTTAGAACCTAAACCGGGAGACTAC
196 AGCCCAAGGGGGCACCAGAAAGGAGAACTCAGGTACCTTCTTTAGAACCTAAACCGGGAGACTAC
*
56114 AAGGAATTAGAGCCCACCCCAAAACCTTATTTCAAACCCTAGG
261 AAGGAATTAGAGCCCACCCCAAAACCTCATTTCAAACCCTAGG
*
56157 TTTTCAAGTGGAGGTGAAA-CGACGTCTTCGTGAGAATTTATTCTCCACATAGGCCTAGCAAGTA
1 TTTTCAAGTGGAGGTGAAAGCGACGCCTTCGTGAGAATTTATTCTCCACATAGGCCTAGCAAGTA
56221 ACCTTCGGGATTCATATACCTTATGTCTTCGTGTGAATTTATTCACCGCACAGACATAAGGGAAT
66 ACCTTCGGGATTCATATACCTTATGTCTTCGTGTGAATTTATTCACCGCACAGACATAAGGGAAT
* *
56286 GCATCCTCTCGAGTTTAACTTAGTCCACATGAGCTTCTAATAGGCTTAGGACTAAGGGTCTGGCA
131 GCATCCTCTCGAGTTTAACTTAGTCCACATGAGCTTCTAAAAGGCTTAGGACTAAGGGTATGGCA
* * *
56351 AGCCCAAGGGGGCACCAGCAAGGAGAACTCGGGTACCTTCTTTAGAAGCTAAACCGGGAGACTAC
196 AGCCCAAGGGGGCACCAGAAAGGAGAACTCAGGTACCTTCTTTAGAACCTAAACCGGGAGACTAC
* *
56416 AAGGAATTAGAGCCCACTCCAAAACCTCATTTCAATCCCTAGG
261 AAGGAATTAGAGCCCACCCCAAAACCTCATTTCAAACCCTAGG
56459 ATGCTTTGAG
Statistics
Matches: 288, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
302 270 0.94
303 18 0.06
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (303 bp):
TTTTCAAGTGGAGGTGAAAGCGACGCCTTCGTGAGAATTTATTCTCCACATAGGCCTAGCAAGTA
ACCTTCGGGATTCATATACCTTATGTCTTCGTGTGAATTTATTCACCGCACAGACATAAGGGAAT
GCATCCTCTCGAGTTTAACTTAGTCCACATGAGCTTCTAAAAGGCTTAGGACTAAGGGTATGGCA
AGCCCAAGGGGGCACCAGAAAGGAGAACTCAGGTACCTTCTTTAGAACCTAAACCGGGAGACTAC
AAGGAATTAGAGCCCACCCCAAAACCTCATTTCAAACCCTAGG
Found at i:57113 original size:12 final size:12
Alignment explanation
Indices: 57096--57132 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
57086 TATTATTAAC
57096 TGCTACAGTAAT
1 TGCTACAGTAAT
* *
57108 TGCTACATTAAC
1 TGCTACAGTAAT
57120 TGCTACAGTAAT
1 TGCTACAGTAAT
57132 T
1 T
57133 TCAGCCAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (12 bp):
TGCTACAGTAAT
Found at i:57576 original size:45 final size:44
Alignment explanation
Indices: 57520--57734 Score: 261
Period size: 45 Copynumber: 4.8 Consensus size: 44
57510 TATAAAATTT
* * *
57520 CTTATCATTTATCCTATAAGCTCGTAAGCTTATTCTACCAATATA
1 CTTACCATTTAT-CTATAAGCTCGTAAGCTTATTTTACCAATACA
* *
57565 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTA-TCTATAAGCTCGTAAGCTTATTTTACCAATACA
* *
57610 CTTACCATTTATTTCATAAGTTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTTATCT-ATAAGCTCGTAAGCTTATTTTACCAATACA
* *
57655 CTTACCATTTATTTCATAAGCTCGTAAGCATATTTTACCAATACA
1 CTTACCATTTATCT-ATAAGCTCGTAAGCTTATTTTACCAATACA
** * *
57700 CTTGTCA-TTATTCTATAAGCTCATAAACTTATTTT
1 CTTACCATTTA-TCTATAAGCTCGTAAGCTTATTTT
57735 CATGTTTACC
Statistics
Matches: 152, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
44 22 0.14
45 129 0.85
46 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (44 bp):
CTTACCATTTATCTATAAGCTCGTAAGCTTATTTTACCAATACA
Found at i:64513 original size:85 final size:85
Alignment explanation
Indices: 64060--64488 Score: 554
Period size: 85 Copynumber: 5.0 Consensus size: 85
64050 TACAATATAG
* * * * *
64060 CTCAAGGCGAGAAGGGCTATTTGTCAACAAAAAACCTTCGAGTTCGATTACATTCAACTCAAAGG
1 CTCAAGGTGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGG
* * *
64125 CAAATCAAATATACATCATAA
65 CATATCAAATTTACAGCATAA
*
64146 CTCAAGGTGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTATATTCAGCTCAAAGG
1 CTCAAGGTGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGG
64211 CATATCAAATTTACAGCATAA
65 CATATCAAATTTACAGCATAA
* * *
64232 CTCAAGGCGAGAAGGGTTATCTGTCAGCAAAGACCTTCGAGTTCGATTACATTCAGCTTAAAGGC
1 CTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
* * *
64297 ACT-TTAAATTCACAGCTTAA
66 A-TATCAAATTTACAGCATAA
* * * * ** *
64317 CCCAAGGCGAGAAGGGTTATCTATCAATAAAGACCTTTAAGTTTGATTACATTCAGCTCAAAGGC
1 CTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
* * * *
64382 ACATCAAATTCACAGCTTAG
66 ATATCAAATTTACAGCATAA
* *
64402 CTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTTCATTCAGCTCAAGGGC
1 CTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
* *
64467 ATGTCAAATTTACAACATAA
66 ATATCAAATTTACAGCATAA
64487 CT
1 CT
64489 TAAGTTAAGA
Statistics
Matches: 299, Mismatches: 42, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
85 195 0.65
86 104 0.35
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (85 bp):
CTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
ATATCAAATTTACAGCATAA
Found at i:64558 original size:170 final size:169
Alignment explanation
Indices: 64056--64545 Score: 538
Period size: 170 Copynumber: 2.9 Consensus size: 169
64046 CTATTACAAT
* * * *
64056 ATAGCTCAAGGCGAGAAGGGCTATTTGTCAACAAAAAACCTTCGAGTTCGATTACATTCAACTCA
1 ATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCA
* * * * *
64121 AAGGCAAATCAAATATACATCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAAGACCTTCG
65 AAGGC-ATTCAAATTTACAACATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAACA-TTTCG
* * * *
64186 AGTTCGATTATATTCAGCTCAAAGGCATATCAAATTTACAGC
128 TGTTCGATTACATTCAGCTCAAAGGCACATCAAATTCACAGC
* * *
64228 ATAACTCAAGGCGAGAAGGGTTATCTGTCAGCAAAGACCTTCGAGTTCGATTACATTCAGCTTAA
1 ATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAA
* * * * * * * * * *
64293 AGGCACTTTAAATTCACAGCTTAACCCAAGGCGAGAAGGGTTATCTATCAATAAAGACCTTTAAG
66 AGGCA-TTCAAATTTACAACATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAA-ACATTT-CG
64358 T-TT-GATTACATTCAGCTCAAAGGCACATCAAATTCACAGC
128 TGTTCGATTACATTCAGCTCAAAGGCACATCAAATTCACAGC
* * *
64398 TTAGCTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTTCATTCAGCTCAA
1 ATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAA
* * * * ** *
64463 GGGCATGTCAAATTTACAACATAACTTAAGTTAAGAAAAGCTATCTGTC-A-AAAACAATTGTCG
66 AGGCAT-TCAAATTTACAACATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAAC-ATT-TCG
*
64526 TGTTCGATTCCATTCAGCTC
128 TGTTCGATTACATTCAGCTC
64546 GATGACACAT
Statistics
Matches: 262, Mismatches: 48, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
167 2 0.01
168 7 0.03
169 5 0.02
170 141 0.54
171 77 0.29
172 30 0.11
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (169 bp):
ATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAA
AGGCATTCAAATTTACAACATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAACATTTCGTGT
TCGATTACATTCAGCTCAAAGGCACATCAAATTCACAGC
Found at i:65307 original size:24 final size:24
Alignment explanation
Indices: 65262--65307 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
65252 TTTTCGTCTG
* * * *
65262 TATTTTTATTTATTTATTTTATTT
1 TATTTATATATATATATATTATTT
65286 TATTTATATATATATATATTAT
1 TATTTATATATATATATATTAT
65308 ATAATTTGCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TATTTATATATATATATATTATTT
Found at i:65374 original size:37 final size:36
Alignment explanation
Indices: 65333--65420 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
65323 TTTTTTAAAT
* *
65333 ATATATAATATATAGTTTTTGAAAGCATTTTGGAAAC
1 ATATATAATATATAGTTCTT-AAAACATTTTGGAAAC
* *
65370 ATATATATTACATAGTTCTTAAAACATTTTGGAAAC
1 ATATATAATATATAGTTCTTAAAACATTTTGGAAAC
65406 ATATATATATATATA
1 ATATATA-ATATATA
65421 TATATATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
36 22 0.50
37 22 0.50
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (36 bp):
ATATATAATATATAGTTCTTAAAACATTTTGGAAAC
Found at i:65413 original size:2 final size:2
Alignment explanation
Indices: 65406--65436 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
65396 TTTTGGAAAC
65406 AT 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 A
65437 GTTTTTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65453 original size:91 final size:86
Alignment explanation
Indices: 65330--65514 Score: 244
Period size: 91 Copynumber: 2.1 Consensus size: 86
65320 TGATTTTTTA
* * *
65330 AATATATATAATATATAGTTTTTGAAAGCATTTTGGAAACATATATATTACATAGTTCTTAAAAC
1 AATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATAATACATAGTTCTTAAAAC
65395 ATTTTGGAAACATATATATATAT
66 ATTTT-G-AACATATATATATAT
* * * * *
65418 ATATATATATATATATATAGTTTTTATAAAACATTTTGAAAACTTGTATAATATATAGTTTTTAA
1 A-ATATATATA-ATATATAGTTTTT-GAAAACATTTTGAAAACATATATAATACATAGTTCTTAA
*
65483 AACATTTTGAATATATATATATAT
63 AACATTTTGAACATATATATATAT
65507 AATATATA
1 AATATATA
65515 GTTTTTAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
88 8 0.09
89 24 0.28
90 14 0.16
91 39 0.46
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (86 bp):
AATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATAATACATAGTTCTTAAAAC
ATTTTGAACATATATATATAT
Found at i:65545 original size:32 final size:33
Alignment explanation
Indices: 65503--65688 Score: 137
Period size: 32 Copynumber: 5.4 Consensus size: 33
65493 ATATATATAT
* *
65503 ATATAATATATAGTTTTTAAAACATTTTGAAAA
1 ATATTATATATAGTTTTGAAAACATTTTGAAAA
*
65536 AT-TTATATATAGTTTTGAAATCATTTTGAAAA
1 ATATTATATATAGTTTTGAAAACATTTTGAAAA
* *
65568 TTTATATAATATATAGTTTTAAAAAAAGCATTTTGAAAAA
1 ---ATATTATATATAGTTTT--GAAAA-CATTTTG-AAAA
*
65608 ATATATAATATATTA-TTTTTAAAACATTTTGAAAA
1 ATAT-T-ATATA-TAGTTTTGAAAACATTTTGAAAA
* * **
65643 CTATATAATATATAG-TTTGAAAACTTTTTTTAAA
1 --ATATTATATATAGTTTTGAAAACATTTTGAAAA
65677 AT-TATATATATA
1 ATAT-TATATATA
65689 ATATATAGTT
Statistics
Matches: 124, Mismatches: 14, Indels: 31
0.73 0.08 0.18
Matches are distributed among these distances:
31 1 0.01
32 36 0.29
33 2 0.02
34 17 0.14
35 11 0.09
36 20 0.16
37 12 0.10
38 3 0.02
39 16 0.13
40 6 0.05
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (33 bp):
ATATTATATATAGTTTTGAAAACATTTTGAAAA
Found at i:65694 original size:39 final size:39
Alignment explanation
Indices: 65644--65723 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 39
65634 TTTTGAAAAC
*
65644 TATATAATATATAGTTTGAAA-ACTTTTTTTAAAATTATA
1 TATATAATATATAGTTTGAAATA-TTTTTTTAAAAATATA
*
65683 TATATAATATATAGTTTTAAATTATTTTTTTAAAAATATA
1 TATATAATATATAGTTTGAAA-TATTTTTTTAAAAATATA
65723 T
1 T
65724 TATTATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 20 0.54
40 16 0.43
41 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (39 bp):
TATATAATATATAGTTTGAAATATTTTTTTAAAAATATA
Found at i:66971 original size:36 final size:36
Alignment explanation
Indices: 66931--67024 Score: 88
Period size: 36 Copynumber: 2.6 Consensus size: 36
66921 ACTATTTTTC
*
66931 TTTTCTGATTTATTTAATATTTT-TTAATTTTT-TAAT
1 TTTTCTCATTTATTTAATATTTTATT-ATTTTTCT-AT
* *
66967 TTTTC-CCTTTGATTTATTATTTTATTATTTTTCCTAT
1 TTTTCTCATTT-ATTTAATATTTTATTATTTTT-CTAT
*
67004 TTTT-TTATTTATTTAATATTT
1 TTTTCTCATTTATTTAATATTT
67025 ATTTTTATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
35 3 0.06
36 32 0.68
37 11 0.23
38 1 0.02
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (36 bp):
TTTTCTCATTTATTTAATATTTTATTATTTTTCTAT
Found at i:67606 original size:138 final size:138
Alignment explanation
Indices: 67429--67692 Score: 404
Period size: 138 Copynumber: 1.9 Consensus size: 138
67419 AAATTTGTTC
*
67429 GGTTCGGTTAATAATTTTCAAATTAATTCGGTTATGTTAATAATTTTCAAAAAAAATTTGGTTCG
1 GGTTCGGTTAATAATTTTCAAATTAATTCGGTTAGGTTAATAATTTTCAAAAAAAATTTGGTTCG
* * * * *
67494 ATCAACTGAACCGAATTAACTGAATTTTTTCTTCGATTAATTCGGTTAATAA-TTTAAAAAATTC
66 ATCAACTAAACCAAATTAACT-AAATTTTGCTTCGATTAATTCAGTTAATAATTTTAAAAAATTC
67558 GGTTAATTA
130 GGTTAATTA
* * * * *
67567 GGTTCGGTTAATAATTTTTAAATTAATTTGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCG
1 GGTTCGGTTAATAATTTTCAAATTAATTCGGTTAGGTTAATAATTTTCAAAAAAAATTTGGTTCG
*
67632 ATTAACTAAACCAAATTAACTAAATTTTGCTTCGATTAATTCAGTTAATAATTTTAAAAAA
66 ATCAACTAAACCAAATTAACTAAATTTTGCTTCGATTAATTCAGTTAATAATTTTAAAAAA
67693 AATTATTAAT
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
137 27 0.24
138 86 0.76
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (138 bp):
GGTTCGGTTAATAATTTTCAAATTAATTCGGTTAGGTTAATAATTTTCAAAAAAAATTTGGTTCG
ATCAACTAAACCAAATTAACTAAATTTTGCTTCGATTAATTCAGTTAATAATTTTAAAAAATTCG
GTTAATTA
Found at i:67629 original size:30 final size:29
Alignment explanation
Indices: 67562--67636 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
67552 AAATTCGGTT
* * *
67562 AATTAGGTTCGGTTAATAATTTTTAAATT
1 AATTTGGTTCGGTTAATAATTTTCAAATA
67591 AATTTGGTTCGGTTAATAATTTTCAAATA
1 AATTTGGTTCGGTTAATAATTTTCAAATA
*
67620 AATTTTGGTTCGATTAA
1 AA-TTTGGTTCGGTTAA
67637 CTAAACCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 28 0.68
30 13 0.32
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (29 bp):
AATTTGGTTCGGTTAATAATTTTCAAATA
Found at i:67914 original size:16 final size:17
Alignment explanation
Indices: 67895--67933 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
67885 AAAACAATTT
67895 ATAATTAATTTAAAT-A
1 ATAATTAATTTAAATAA
**
67911 ATAATTTGTTTAAATAA
1 ATAATTAATTTAAATAA
67928 ATAATT
1 ATAATT
67934 TGTTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATAATTAATTTAAATAA
Found at i:67932 original size:17 final size:16
Alignment explanation
Indices: 67903--67940 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
67893 TTATAATTAA
67903 TTTAAATAATAATTTG
1 TTTAAATAATAATTTG
67919 TTTAAATAAATAATTTG
1 TTTAAAT-AATAATTTG
67936 TTTAA
1 TTTAA
67941 TATTTTATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
TTTAAATAATAATTTG
Found at i:69781 original size:35 final size:35
Alignment explanation
Indices: 69735--69809 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
69725 AAAATACTTT
*
69735 AATTTAGGGTTTA-GAATGTAATTAAAGTATTTTGA
1 AATTTAGGGTTTATG-ATGTAATTAAAGCATTTTGA
* *
69770 AATTTAGGGTTTATGATGTAATTGAAGCATTTTGG
1 AATTTAGGGTTTATGATGTAATTAAAGCATTTTGA
69805 AATTT
1 AATTT
69810 TGAACATGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 35 0.97
36 1 0.03
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.44
Consensus pattern (35 bp):
AATTTAGGGTTTATGATGTAATTAAAGCATTTTGA
Found at i:75981 original size:25 final size:25
Alignment explanation
Indices: 75953--76002 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
75943 TTTAGCACCA
75953 TATCACTACATGTTTATGCTCCAGT
1 TATCACTACATGTTTATGCTCCAGT
* *
75978 TATCACTATATGTTTATGCTTCAGT
1 TATCACTACATGTTTATGCTCCAGT
76003 ACCCCTGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (25 bp):
TATCACTACATGTTTATGCTCCAGT
Found at i:78495 original size:18 final size:18
Alignment explanation
Indices: 78459--78507 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
78449 AATTTGAATT
*
78459 TTAAAAACATTTAACAAACA
1 TTAAAAA-A-TTAAAAAACA
78479 TTAAAAAATTAAAAAACA
1 TTAAAAAATTAAAAAACA
*
78497 TTACAAAATTA
1 TTAAAAAATTA
78508 CATAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 19 0.70
19 1 0.04
20 7 0.26
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (18 bp):
TTAAAAAATTAAAAAACA
Found at i:78948 original size:21 final size:21
Alignment explanation
Indices: 78924--78994 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
78914 GGTATCATAA
78924 AACCCTGTGGGCTAGGAATGT
1 AACCCTGTGGGCTAGGAATGT
* * * *
78945 AACCTTGCGGGCTGGGTATGT
1 AACCCTGTGGGCTAGGAATGT
*
78966 ACCCCGTGTGGGCTAGGAATGT
1 AACCC-TGTGGGCTAGGAATGT
78988 AACCCTG
1 AACCCTG
78995 CGGTGGTTGC
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 22 0.56
22 17 0.44
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.24
Consensus pattern (21 bp):
AACCCTGTGGGCTAGGAATGT
Found at i:79039 original size:42 final size:41
Alignment explanation
Indices: 78989--79075 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
78979 TAGGAATGTA
* * *
78989 ACCCTGCGGTGGTTGCATATGAA-TTGTTGGGCTGGGCATAT
1 ACCCTGCGGAGGTGGCATATGAACTAG-TGGGCTGGGCATAT
* *
79030 ACCCATGCGGAGGTGGCATCTGAACTAGTGGGCTGGGCATGT
1 ACCC-TGCGGAGGTGGCATATGAACTAGTGGGCTGGGCATAT
79072 ACCC
1 ACCC
79076 CTTTGGCCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 4 0.10
42 33 0.85
43 2 0.05
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.25
Consensus pattern (41 bp):
ACCCTGCGGAGGTGGCATATGAACTAGTGGGCTGGGCATAT
Found at i:80376 original size:59 final size:59
Alignment explanation
Indices: 80278--80805 Score: 819
Period size: 59 Copynumber: 9.0 Consensus size: 59
80268 TTCCATACGT
* ** *
80278 AAATTCATACACTTAATATGATTTCCTT-CTCATTTTAGCACACTTAGTGCTCTATCTAG
1 AAATTCATACATTTAATATGATTTCCTTAC-CATTTTAGCACACAAAGTGCTCTATCTGG
* * * * * * * *
80337 AAA-TCTATACACTTACTATGATTTCCTTATCATTTTAGCACCCGAAGTGCCCTGTCTGC
1 AAATTC-ATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
80396 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
1 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
* *
80455 AAATTCTTACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATTTGG
1 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
*
80514 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACAC-AAGTGCTCTATCTGA
1 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
* * *
80572 AAATTCATACACTTAATATGATTTCCTTATCATTTTAGCTCACAAAGTGCTCTATCTGG
1 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
80631 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
1 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
*
80690 AAATTCATACATTTAATATGATTTCTTTACCATTTTAGCACACAAAGTGCTCTATCTGG
1 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
* * *
80749 AAATTCATACACTTAATATGATTTCCTTATCATTTTAGCACACAAAGTTCTCTATCT
1 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCT
80806 AGTAATCACC
Statistics
Matches: 431, Mismatches: 34, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
58 55 0.13
59 374 0.87
60 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (59 bp):
AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
Found at i:80690 original size:235 final size:236
Alignment explanation
Indices: 80278--80812 Score: 871
Period size: 235 Copynumber: 2.3 Consensus size: 236
80268 TTCCATACGT
**
80278 AAATTCATACACTTAATATGATTTCCTT-CTCATTTTAGCACACTTAGTGCTCTATCTAGAAATC
1 AAATTCATACACTTAATATGATTTCCTTAC-CATTTTAGCACACAAAGTGCTCTATCTAGAAATC
* * * *
80342 TATACACTTACTATGATTTCCTTATCATTTTAGCACCCGAAGTGCCCTGTCTGCAAATTCATACA
65 TATACACTTAATATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGCAAATTCATACA
*
80407 TTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGGAAATTCTTACATTTAAT
130 TTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGGAAATTCATACATTTAAT
*
80472 ATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATTTGG
195 ATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
*
80514 AAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACAC-AAGTGCTCTATCT-GAAAAT-
1 AAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTAG-AAATC
* * *
80576 TCATACACTTAATATGATTTCCTTATCATTTTAGCTCACAAAGTGCTCTATCTGGAAATTCATAC
65 T-ATACACTTAATATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGCAAATTCATAC
80641 ATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGGAAATTCATACATTTAA
129 ATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGGAAATTCATACATTTAA
*
80706 TATGATTTCTTTACCATTTTAGCACACAAAGTGCTCTATCTGG
194 TATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
* * *
80749 AAATTCATACACTTAATATGATTTCCTTATCATTTTAGCACACAAAGTTCTCTATCTAGTAATC
1 AAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTAGAAATC
80813 ACCATACATA
Statistics
Matches: 277, Mismatches: 16, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
234 2 0.01
235 218 0.79
236 55 0.20
237 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (236 bp):
AAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTAGAAATCT
ATACACTTAATATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGCAAATTCATACAT
TTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGGAAATTCATACATTTAATA
TGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATCTGG
Found at i:81199 original size:19 final size:19
Alignment explanation
Indices: 81162--81209 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
81152 TTCTATACTA
* **
81162 TGGTACCGATACCCCTTTT
1 TGGTATCGATACCAATTTT
81181 TGGTATCGATACCAATTTT
1 TGGTATCGATACCAATTTT
*
81200 AGGT-TCGATA
1 TGGTATCGATA
81210 TTGTCTGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (19 bp):
TGGTATCGATACCAATTTT
Found at i:81252 original size:17 final size:19
Alignment explanation
Indices: 81215--81288 Score: 62
Period size: 22 Copynumber: 3.7 Consensus size: 19
81205 CGATATTGTC
81215 TGGTATCGATACCTTTACCA
1 TGGTATCGATACC-TTACCA
* *
81235 TGGTATCGATACTACCATACTA
1 TGGTATCG--A-TACCTTACCA
81257 TGGTATCGATACCCCTTACCA
1 TGGTATCGATA--CCTTACCA
81278 --GTATCGATACC
1 TGGTATCGATACC
81289 AAAAATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
17 2 0.04
19 11 0.24
20 9 0.20
21 6 0.13
22 13 0.29
23 4 0.09
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (19 bp):
TGGTATCGATACCTTACCA
Found at i:81285 original size:95 final size:95
Alignment explanation
Indices: 81122--81362 Score: 256
Period size: 95 Copynumber: 2.5 Consensus size: 95
81112 AAGCTCAATA
* * * * * * ****
81122 GTATCGATACCACTACCCTGGTACCGATACTTCTATACTATGGTACCGATACCCCTTTTTGGTAT
1 GTATCGATACCATTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCTTACCAGTAT
*** *
81187 CGATACCAATTTTAGGTTCGATATTGTC-TG
66 CGATACCAAAAATAGATTCGATATT-TCTTG
*
81217 GTATCGATACCTTTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCTTACCAGTAT
1 GTATCGATACCATTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCTTACCAGTAT
* *
81282 CGATACCAAAAATATATTCGATGTTTCTTG
66 CGATACCAAAAATAGATTCGATATTTCTTG
* *
81312 GTATCGATATCCCTTATCATGGTATCGATACTACC-T-C-ATCGGTATCGATAC
1 GTATCGATA-CCATTACCATGGTATCGATACTACCATACTAT-GGTATCGATAC
81363 TGTTTGAATC
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
93 2 0.02
94 14 0.11
95 85 0.69
96 23 0.19
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (95 bp):
GTATCGATACCATTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCTTACCAGTAT
CGATACCAAAAATAGATTCGATATTTCTTG
Found at i:85883 original size:59 final size:59
Alignment explanation
Indices: 85791--86737 Score: 1375
Period size: 59 Copynumber: 16.1 Consensus size: 59
85781 ATTTTCCATA
* *
85791 TGGAAATTCATACACTTAATATGATTTCCTT-CTCATTTTAGCACACTTAA-TGCTCTAAC
1 TGGAAATTCATACACTTAATATGATTTCCTTAC-CATTTTAGCACAC-AAAGTGCTCTATC
** * * **
85850 TGGAAAACCATACACTTAGTATGATTT-CTTTCTCATTTTAGCACACTTAGTGCTCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTAC-CATTTTAGCACACAAAGTGCTCTATC
* * * * * *
85909 TGGAAATTCATACACTTAGTATTATTTCATTATCATTTTAGCACCCGAAGTGC-CATATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTC-TATC
* ** *
85968 TGGAAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACTTAGTGCTCTATT
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
* * ** * * *
86027 TGGAAATCCATACACTTAGTATGATTTCCTTATTATTTTAGCACACGAAGTAC-CATCTC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTC-TATC
* ** *
86086 TGGAAATTCATACATTTAATATGATTTTGTTACCATTTTAGCACA-AGAAGTGCCCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACA-AAGTGCTCTATC
* * *
86145 TGGAAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACAAAAAGTGCTTTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
* * * *
86204 TGGAAATTCATACATTTAATATGATTTCCATACCATTTTAGCAGACAAAGTTCTCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
*
86263 TGGAAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
*
86322 TGGAAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
*
86381 TGGAAATTCATACACTTAATATGATTTCCTTATCATTTTAGCACACAAAGTGCTCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
*
86440 TGGAAATTCATACACTTAATATGGTTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
* *
86499 TAGAAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
* *
86558 TGGAAATTCATACACTTAATATGATTTCCTTATCATTTTAGCACACAAAATGCTCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
* *
86617 TGGAAATTCATACATTTAATATGATTTCCTTACCATTTTAGCACACAATGTGCTCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
*
86676 TGGAAATTCATACACTTAATATGATTTCCTTATCATTTTAGCACACAAAGTGCTCTATC
1 TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
86735 TGG
1 TGG
86738 TAATCACCAT
Statistics
Matches: 806, Mismatches: 73, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
58 7 0.01
59 794 0.99
60 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (59 bp):
TGGAAATTCATACACTTAATATGATTTCCTTACCATTTTAGCACACAAAGTGCTCTATC
Found at i:87245 original size:95 final size:95
Alignment explanation
Indices: 87049--87250 Score: 244
Period size: 95 Copynumber: 2.1 Consensus size: 95
87039 TTAAGCTCAA
* ** * * ***
87049 TAGTATTGATACCACTACCATGGTACCGATACTTCTATACTATGGTACCGATACCCCTTTTTGGT
1 TAGTATCGATACCTTTACCATGGTACCGATACTACCATACTATGGTACCGATACCCCTTAAGGGT
*** * *
87114 ATCGATACCAATTTTAGGTTTGATATTGTC
66 ATCGATACCAAAAATAGATTCGATATTGTC
*
87144 TAGTATCGATACCTTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCTTAAGGGT
1 TAGTATCGATACCTTTACCATGGTACCGATACTACCATACTATGGTACCGATACCCCTTAAGGGT
*
87209 ATCGATACCAAAAATAGATTCGATGTT-TC
66 ATCGATACCAAAAATAGATTCGATATTGTC
*
87238 TTGGTATCGATAC
1 -TAGTATCGATAC
87251 TACCTCATCG
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 2 0.02
95 88 0.98
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (95 bp):
TAGTATCGATACCTTTACCATGGTACCGATACTACCATACTATGGTACCGATACCCCTTAAGGGT
ATCGATACCAAAAATAGATTCGATATTGTC
Found at i:89095 original size:54 final size:54
Alignment explanation
Indices: 89024--90225 Score: 1582
Period size: 54 Copynumber: 22.3 Consensus size: 54
89014 ATAAGTTATT
* * *
89024 TGGGGTGCACACCTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * *
89078 TGGGTTACACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * * *
89132 TGGGTTGCACACTTAGTGTCGATACTGTCCTTCATAAACAAATTATGAATTATG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * *
89186 TGGGTTGCACACTTATTATCGATACGGTCGTTCATAAACTTATTATGAATTCTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
*
89240 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-TCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCT-G
* * * *
89294 TGGGTTGTACACTTACTGCCGATACGGTCGTTCATAAACATATTATGAATTCCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * *
89348 TGGGTTGCGCACTTAGT-TCTGATACGGTCGTTCATGAACA-ATTATGAATTCCG
1 TGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATAAACATATTATGAATTCTG
* * * * *
89401 TGGGTTGCACACTTAGTGTCAATATGGTCATTCATAAACTTATTATGAATT-TCA
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCT-G
* * * * * *
89455 TGGGTTGCACACTTAGTGTCAATACGATCCTTCATAAACTTATTAAGAATTCCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * * * * *
89509 TGTGTTGCACAGTTAGTATCGATACGGTCGTTTATAAACTTATTATGAATTATG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* ** * * *
89563 TGAGTTGCACACTTAGTCCCGACACGGTCATTCATAAACATATTATGAATTATG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * *
89617 TGGGTTGCACACTTAGTGCCGATACGGTTGTTCATAAACAT-TCTATGAATTATG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATAT-TATGAATTCTG
* * *
89671 TGGGTTGCATACTTAGTGTCGATACAGTTGTTCATAAACATATTATGAATT-TCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCT-G
*
89725 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* *
89779 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
*
89833 TGGGTTGCACACTTAGTG-CTGATACGGTCATTCATAAACATATTATGAATTCTG
1 TGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATAAACATATTATGAATTCTG
* * * * * * **
89887 TGGGTTGCACACTTAGTGCCAATACGGTTGTTCATAAACTTGTTATAAATTCCC
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* *
89941 TGGGTTGCACACTTAGT-TCCATACGGTCGTTCATAAACATATTATGAATT-TCA
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCT-G
**
89994 TGGGTTGCACACTTAGTGTCGATACGACCGTTCATAAACATATTATGAATT-TCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCT-G
* *
90048 TGGGTTGCACACTT-GTGTCAATACGGTCGTTCATAAACTTATTATGAATTCTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* *
90101 TGGGTTGCACACTTAGTGTCAATACGGTCGTTCATAAACATATTATGAATTATG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * *
90155 TGGGTTGAACACTTAGTGTCGATACGGTCGTTAATAAACATATTACGAATT-TCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCT-G
90209 TGGGTTGCACACTTAGT
1 TGGGTTGCACACTTAGT
90226 ATTGATAGTA
Statistics
Matches: 1021, Mismatches: 109, Indels: 36
0.88 0.09 0.03
Matches are distributed among these distances:
53 141 0.14
54 877 0.86
55 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
Found at i:89253 original size:27 final size:27
Alignment explanation
Indices: 89173--89254 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
89163 TCATAAACAA
*
89173 ATTATGAATTATGTGGGTTGCACACTT
1 ATTATGAATTCTGTGGGTTGCACACTT
* * * *
89200 ATTATCG-ATACGGT-CGTT-CATAAACTT
1 ATTAT-GAATTCTGTGGGTTGC--ACACTT
89227 ATTATGAATTCTGTGGGTTGCACACTT
1 ATTATGAATTCTGTGGGTTGCACACTT
89254 A
1 A
89255 GTGCCGATAC
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 30 0.75
28 4 0.10
29 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTATGAATTCTGTGGGTTGCACACTT
Found at i:91306 original size:20 final size:21
Alignment explanation
Indices: 91263--91306 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
91253 AAACTAACTT
** *
91263 ACATCCATAAATCTCCTTATA
1 ACATCCATAAATCTCCAAAGA
91284 ACATCCAT-AATCTCCAAAGA
1 ACATCCATAAATCTCCAAAGA
91304 ACA
1 ACA
91307 CTAAAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.25
Consensus pattern (21 bp):
ACATCCATAAATCTCCAAAGA
Found at i:96285 original size:54 final size:54
Alignment explanation
Indices: 96222--96670 Score: 684
Period size: 54 Copynumber: 8.3 Consensus size: 54
96212 ATAAGTTCTT
* * * * * * *
96222 TGGGGTGCACACGTAGTGCCGATACAGTTGTTCATAAACTTATTATGAATTCCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCG
96276 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCG
* * * *
96330 TGGGTTGTACACTTAGTGTCGATAAGGTCGTTCATAAACTTGTTATGAATTTCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCG
*
96384 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCG
*
96438 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCG
* * *
96492 TAGGTTGCACACTTAGTGTCGATACAGTCGTTCATGAACATATTATGAATTTCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCG
* * *
96546 TAGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTACG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCG
* * *
96600 TGGGTTGTACACTTAGTG-CTGATACGGTTGTTCATAAACATATTATGAATTCCG
1 TGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATAAACATATTATGAATTTCG
96654 TGGGTTGCACACTTAGT
1 TGGGTTGCACACTTAGT
96671 TCCGATAGTA
Statistics
Matches: 362, Mismatches: 32, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
53 1 0.00
54 361 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTCG
Found at i:99419 original size:22 final size:20
Alignment explanation
Indices: 99362--99410 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
99352 ATTAATTAAT
*
99362 AAATATAAATATATATAATAA
1 AAATATAAATAT-TTTAATAA
*
99383 ATATATAAATATTTTAATAA
1 AAATATAAATATTTTAATAA
99403 AAATATAA
1 AAATATAA
99411 CATTATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATAAATATTTTAATAA
Found at i:99473 original size:20 final size:18
Alignment explanation
Indices: 99429--99476 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
99419 TTAAATAATT
*
99429 ATTTAAAAGAATATAACA
1 ATTTAAAAGAAAATAACA
99447 ACTTTTAAAAGAAAATATACTA
1 A--TTTAAAAGAAAATA-AC-A
99469 ATTTAAAA
1 ATTTAAAA
99477 ATAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
20 20 0.80
21 2 0.08
22 2 0.08
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.31
Consensus pattern (18 bp):
ATTTAAAAGAAAATAACA
Done.