Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003855.1 Hibiscus syriacus cultivar Beakdansim tig00008287_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: 151768
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:18104 original size:21 final size:21
Alignment explanation
Indices: 18067--18106 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18057 TCTGCTGAAA
**
18067 CTCCACCTGTTTTGGAGTATG
1 CTCCACCTGTTGCGGAGTATG
18088 CTCCACCTGTTGCGGAGTA
1 CTCCACCTGTTGCGGAGTA
18107 CTACTTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.25, T:0.33
Consensus pattern (21 bp):
CTCCACCTGTTGCGGAGTATG
Found at i:20740 original size:30 final size:30
Alignment explanation
Indices: 20700--20770 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
20690 TTTGCTATTG
20700 TTCCAGCTTTTCAACTGCTCTGCATGTGAT
1 TTCCAGCTTTTCAACTGCTCTGCATGTGAT
*
20730 TTCCATCTTTTCAACTGCTCTGCATGTGAT
1 TTCCAGCTTTTCAACTGCTCTGCATGTGAT
20760 TTCCAGCTTTT
1 TTCCAGCTTTT
20771 TCAATTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.15, C:0.27, G:0.14, T:0.44
Consensus pattern (30 bp):
TTCCAGCTTTTCAACTGCTCTGCATGTGAT
Found at i:24459 original size:27 final size:29
Alignment explanation
Indices: 24423--24488 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 29
24413 TTTTTTACTC
24423 AATTTAATTTCAAATTTAAAT-TTATAA-TA
1 AATTT-ATTTCAAA-TTAAATATTATAATTA
* *
24452 AA-TTATTTTAAATTACATATTATAATTA
1 AATTTATTTCAAATTAAATATTATAATTA
24480 AATTTATTT
1 AATTTATTT
24489 TTCTTATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 5 0.16
27 13 0.41
28 6 0.19
29 8 0.25
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
AATTTATTTCAAATTAAATATTATAATTA
Found at i:36931 original size:35 final size:35
Alignment explanation
Indices: 36891--36961 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
36881 AGAACGAAAC
*
36891 CTAAGAAAGGGATCGGGCCGGAATGATGATGAAGA
1 CTAAGAAAGGGATCGGGCCGGAATGAGGATGAAGA
36926 CTAAGAAAGGGATCGGGCCGGAATGAGGATGAAGA
1 CTAAGAAAGGGATCGGGCCGGAATGAGGATGAAGA
36961 C
1 C
36962 GAGTACTGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.13, G:0.38, T:0.13
Consensus pattern (35 bp):
CTAAGAAAGGGATCGGGCCGGAATGAGGATGAAGA
Found at i:40089 original size:16 final size:16
Alignment explanation
Indices: 40068--40128 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
40058 TAATAAATAA
40068 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
40084 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
*
40100 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
40116 ACAAACATAAACG
1 ACGAACATAAACG
40129 GACATAAACG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.59, C:0.23, G:0.10, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:40115 original size:26 final size:26
Alignment explanation
Indices: 40086--40136 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
40076 AAACGAACAC
*
40086 GAACATAAACA-AACACGAACATAAAT
1 GAACACAAACATAA-ACGAACATAAAT
*
40112 GAACACAAACATAAACGGACATAAA
1 GAACACAAACATAAACGAACATAAA
40137 CGTTGGAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.61, C:0.20, G:0.10, T:0.10
Consensus pattern (26 bp):
GAACACAAACATAAACGAACATAAAT
Found at i:40377 original size:12 final size:11
Alignment explanation
Indices: 40340--40385 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
40330 CTCGAGTTCA
40340 ATTCAAGCTCG
1 ATTCAAGCTCG
*
40351 ATTCAAGCCCG
1 ATTCAAGCTCG
*
40362 ATTCTGAGCTCG
1 ATTC-AAGCTCG
40374 ATTCAAGCTCG
1 ATTCAAGCTCG
40385 A
1 A
40386 CATTGCCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (11 bp):
ATTCAAGCTCG
Found at i:41271 original size:14 final size:14
Alignment explanation
Indices: 41253--41285 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
41243 GAATGAACAT
41253 AAACGAACATAACC
1 AAACGAACATAACC
*
41267 GAACGAACATAACC
1 AAACGAACATAACC
41281 AAACG
1 AAACG
41286 TTCACGAACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.27, G:0.12, T:0.06
Consensus pattern (14 bp):
AAACGAACATAACC
Found at i:46363 original size:25 final size:26
Alignment explanation
Indices: 46316--46374 Score: 111
Period size: 25 Copynumber: 2.3 Consensus size: 26
46306 GCTCCCCTAT
46316 GTTTCTATCCTTGGGTGAAGGAGATC
1 GTTTCTATCCTTGGGTGAAGGAGATC
46342 GTTTCTATCCTT-GGTGAAGGAGATC
1 GTTTCTATCCTTGGGTGAAGGAGATC
46367 GTTTCTAT
1 GTTTCTAT
46375 AATGGAAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 21 0.64
26 12 0.36
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.39
Consensus pattern (26 bp):
GTTTCTATCCTTGGGTGAAGGAGATC
Found at i:58084 original size:9 final size:9
Alignment explanation
Indices: 58070--58100 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
58060 AAAAAAACAC
58070 AAATTAAAT
1 AAATTAAAT
58079 AAATTAAAT
1 AAATTAAAT
58088 AAATTAAAAT
1 AAATT-AAAT
58098 AAA
1 AAA
58101 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAATTAAAT
Found at i:58125 original size:2 final size:2
Alignment explanation
Indices: 58118--58144 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58108 AATAAAAATA
58118 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 A
58145 CTCTAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58229 original size:38 final size:36
Alignment explanation
Indices: 58187--58344 Score: 165
Period size: 38 Copynumber: 4.1 Consensus size: 36
58177 TACTAAACTG
58187 TATATTAAAAATGTTTTCAAAAAACTATATTATATATA
1 TATATTAAAAATGTTTT--AAAAACTATATTATATATA
* *
58225 TATATATATTCAAAATGTTTTCAAAATCTATATAATATATA
1 TATAT-TA---AAAATGTTTT-AAAAACTATATTATATATA
* *
58266 TATTTTCAAAATGTTTTAAAAACTATA-TATTATATA
1 TATATTAAAAATGTTTTAAAAACTATATTA-TATATA
* *
58302 TATGTTTCAAAAATGTTTTAAAAACTATAATATATATA
1 TAT-ATT-AAAAATGTTTTAAAAACTATATTATATATA
58340 TATAT
1 TATAT
58345 ATATATATAT
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
35 1 0.01
36 18 0.17
37 14 0.14
38 34 0.33
39 4 0.04
40 1 0.01
41 21 0.20
42 10 0.10
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (36 bp):
TATATTAAAAATGTTTTAAAAACTATATTATATATA
Found at i:58244 original size:42 final size:40
Alignment explanation
Indices: 58187--58434 Score: 249
Period size: 42 Copynumber: 6.0 Consensus size: 40
58177 TACTAAACTG
*
58187 TATATTAAAAATGTTTTCAAAAAACTATATTATATATATATA
1 TATATTCAAAATGTTTT--AAAAACTATATTATATATATATA
*
58229 TATATTCAAAATGTTTTCAAAATCTATA-TA-ATATATATA
1 TATATTCAAAATGTTTT-AAAAACTATATTATATATATATA
58268 T-T-TTCAAAATGTTTTAAAAACTATA-TAT-TATATATA
1 TATATTCAAAATGTTTTAAAAACTATATTATATATATATA
*
58304 TGT-TTCAAAAATGTTTTAAAAACTATAATATATATATATATATATATATA
1 TATATTC-AAAATGTTTTAAAAAC---------TATAT-TATATATATATA
* *
58354 TATATTCAAAATGTTTTAAAAATTATATAATATATACATATA
1 TATATTCAAAATGTTTTAAAAACTATAT--TATATATATATA
*
58396 TATATTCAAAATGTTTTAAAAACTATATAATATATATAT
1 TATATTCAAAATGTTTTAAAAACTATATTATATATATAT
58435 TTTCAAAAAA
Statistics
Matches: 179, Mismatches: 10, Indels: 36
0.80 0.04 0.16
Matches are distributed among these distances:
36 20 0.11
37 17 0.09
38 17 0.09
39 10 0.06
40 11 0.06
41 14 0.08
42 55 0.31
47 4 0.02
49 3 0.02
50 25 0.14
51 3 0.02
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (40 bp):
TATATTCAAAATGTTTTAAAAACTATATTATATATATATA
Found at i:58257 original size:36 final size:35
Alignment explanation
Indices: 58217--58344 Score: 175
Period size: 37 Copynumber: 3.5 Consensus size: 35
58207 AAAACTATAT
*
58217 TATATATATATATATATTCAAAATGTTTTCAAAATC
1 TATATATATATATATATTCAAAATGTTTT-AAAAAC
*
58253 TATATAATATATATATTTTCAAAATGTTTTAAAAAC
1 TATAT-ATATATATATATTCAAAATGTTTTAAAAAC
*
58289 TATATATTATATATATGTTTCAAAAATGTTTTAAAAAC
1 TATATA-TATATATAT-ATTC-AAAATGTTTTAAAAAC
58327 TATAATATATATATATAT
1 TAT-ATATATATATATAT
58345 ATATATATAT
Statistics
Matches: 84, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
35 1 0.01
36 24 0.29
37 28 0.33
38 28 0.33
39 3 0.04
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (35 bp):
TATATATATATATATATTCAAAATGTTTTAAAAAC
Found at i:58338 original size:2 final size:2
Alignment explanation
Indices: 58327--58358 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
58317 TTTTAAAAAC
58327 TA TA -A 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 TA T
58359 TCAAAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58385 original size:52 final size:50
Alignment explanation
Indices: 58289--58434 Score: 168
Period size: 50 Copynumber: 3.1 Consensus size: 50
58279 TTTTAAAAAC
* *
58289 TATATAT-TATATATATGTTTCAAAAATGTTTTAAAAACTATAATATATA
1 TATATATATATATATATATTTCAAAAATGTTTTAAAAAATATAATATATA
58338 TATATATATATATATATATATTC-AAAATGTTTT--AAAA-AT--TATATA
1 TATATATATATATATATAT-TTCAAAAATGTTTTAAAAAATATAATATATA
*
58383 -ATATATACATATATATA-TTC-AAAATGTTTTAAAAACTATATAATATATA
1 TATATATATATATATATATTTCAAAAATGTTTTAAAAA--ATATAATATATA
58432 TAT
1 TAT
58435 TTTCAAAAAA
Statistics
Matches: 84, Mismatches: 3, Indels: 19
0.79 0.03 0.18
Matches are distributed among these distances:
42 13 0.15
44 19 0.23
45 6 0.07
46 1 0.01
47 4 0.05
48 3 0.04
49 13 0.15
50 22 0.26
51 3 0.04
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (50 bp):
TATATATATATATATATATTTCAAAAATGTTTTAAAAAATATAATATATA
Found at i:58444 original size:130 final size:125
Alignment explanation
Indices: 58212--58451 Score: 369
Period size: 130 Copynumber: 1.9 Consensus size: 125
58202 TTCAAAAAAC
*
58212 TATATTATATATATATATATATTCAAAATGTTTTCAAAATCTATATAATATATATATTTTCAAAA
1 TATATTATATATATATATATATTCAAAATGTTTTAAAAATCTATATAATATATATATTTTCAAAA
*
58277 TGTTTTAAAAACTATATATTATATATATGTTTCAAAAATG-TTTTAAAAACTATAATATA
66 TGTTTTAAAAACTATATAATATATATATGTTTCAAAAATGATTTTAAAAACTATAATATA
58336 TATATATATATATATATATATATTCAAAATGTTTTAAAAAT-TATATAATATATACATATATATA
1 TATAT-TATATATATATATATATTCAAAATGTTTTAAAAATCTATAT-A-ATAT--ATATAT-T-
58400 TTCAAAATGTTTTAAAAACTATATAATATATATAT-TTTCAAAAAATGATTTT
59 TTCAAAATGTTTTAAAAACTATATAATATATATATGTTTC-AAAAATGATTTT
58452 TTTTTAAATA
Statistics
Matches: 105, Mismatches: 2, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
124 10 0.10
125 35 0.33
126 4 0.04
128 6 0.06
129 5 0.05
130 41 0.39
131 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (125 bp):
TATATTATATATATATATATATTCAAAATGTTTTAAAAATCTATATAATATATATATTTTCAAAA
TGTTTTAAAAACTATATAATATATATATGTTTCAAAAATGATTTTAAAAACTATAATATA
Found at i:58466 original size:130 final size:124
Alignment explanation
Indices: 58212--58443 Score: 362
Period size: 125 Copynumber: 1.8 Consensus size: 124
58202 TTCAAAAAAC
*
58212 TATAT-TATATATATATATATATTCAAAATGTTTTCAAAATCTATATAATATATATATTTTCAAA
1 TATATATATATATATATATATATTCAAAATGTTTTAAAAATCTATATAATATATATATTTTCAAA
*
58276 ATGTTTTAAAAACTATATATTATATATATGTTTCAAAAATGTTTTAAAAACTATAATATA
66 ATGTTTTAAAAACTATATAATATATATATGTTTCAAAAATGTTTTAAAAAC-ATAATATA
58336 TATATATATATATATATATATATTCAAAATGTTTTAAAAAT-TATATAATATATACATATATATA
1 TATATATATATATATATATATATTCAAAATGTTTTAAAAATCTATAT-A-ATAT--ATATAT-T-
58400 TTCAAAATGTTTTAAAAACTATATAATATATATAT-TTTCAAAAA
60 TTCAAAATGTTTTAAAAACTATATAATATATATATGTTTCAAAAA
58444 ATGATTTTTT
Statistics
Matches: 99, Mismatches: 2, Indels: 9
0.90 0.02 0.08
Matches are distributed among these distances:
124 10 0.10
125 35 0.35
126 4 0.04
128 6 0.06
129 10 0.10
130 34 0.34
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (124 bp):
TATATATATATATATATATATATTCAAAATGTTTTAAAAATCTATATAATATATATATTTTCAAA
ATGTTTTAAAAACTATATAATATATATATGTTTCAAAAATGTTTTAAAAACATAATATA
Found at i:59577 original size:41 final size:40
Alignment explanation
Indices: 59499--59785 Score: 226
Period size: 41 Copynumber: 7.0 Consensus size: 40
59489 CGTTTGTTGT
* * *
59499 AAAAACGCTGCAATAGAGTTGACATATAGCGGCGTTTTTAC
1 AAAAACGCCGCAATAGA-TTAACATATAGTGGCGTTTTTAC
* *
59540 AACAAACGCTGTAATAGATTAACATATAGTGGCG-TTTTAGC
1 AA-AAACGCCGCAATAGATTAACATATAGTGGCGTTTTTA-C
* * * *
59581 CAAAACGCCGCAATAGATCGGTAA-AT-TAGCGACGTTTATACC
1 AAAAACGCCGCAATAGAT---TAACATATAGTGGCGTTTTTA-C
* *
59623 ACAAACGCCGCAATAGATTACACATATAGTGGCATTTATT-C
1 AAAAACGCCGCAATAGATTA-ACATATAGTGGCGTTT-TTAC
* ** * * *
59664 TTAAAACGCCGCAATATTTATAATAAATAGTGGCGTTTTTAG
1 -AAAAACGCCGCAATAGAT-TAACATATAGTGGCGTTTTTAC
*
59706 AAAAACGCCGCAATAGTGTTAATCA-ATAGTGGCGTTTTTAC
1 AAAAACGCCGCAATAG-ATTAA-CATATAGTGGCGTTTTTAC
*
59747 AAAAACGCCGCAATAGTTTTAATCA-ATAGTGGCGTTTTT
1 AAAAACGCCGCAATAG-ATTAA-CATATAGTGGCGTTTTT
59786 TTAACAAACA
Statistics
Matches: 201, Mismatches: 30, Indels: 30
0.77 0.11 0.11
Matches are distributed among these distances:
39 2 0.01
40 20 0.10
41 99 0.49
42 74 0.37
43 6 0.03
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (40 bp):
AAAAACGCCGCAATAGATTAACATATAGTGGCGTTTTTAC
Found at i:59714 original size:83 final size:82
Alignment explanation
Indices: 59625--59826 Score: 227
Period size: 82 Copynumber: 2.5 Consensus size: 82
59615 TTTATACCAC
*
59625 AAACGCCGCAATAG-ATTACA-CATATAGTGGCATTTATT-CTTAAAACGCCGCAATA-TTTATA
1 AAACGCCGCAATAGTATTA-ATCA-ATAGTGGCATTT-TTAC-AAAAACGCCGCAATAGTTT-TA
59686 ATAAATAGTGGCGTTTTTAGAA
61 ATAAATAGTGGCGTTTTTAGAA
* * *
59708 AAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTACAAAAACGCCGCAATAGTTTTAATCAA
1 AAACGCCGCAATAGTATTAATCAATAGTGGCATTTTTACAAAAACGCCGCAATAGTTTTAATAAA
**
59773 TAGTGGCGTTTTTTTAA
66 TAGTGGCGTTTTTAGAA
* *
59790 CAAACACCACAATA--ATGTAATCAATAGTGGCATTTTT
1 -AAACGCCGCAATAGTAT-TAATCAATAGTGGCATTTTT
59827 TTGTATAAAC
Statistics
Matches: 103, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
81 1 0.01
82 56 0.54
83 41 0.40
84 5 0.05
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (82 bp):
AAACGCCGCAATAGTATTAATCAATAGTGGCATTTTTACAAAAACGCCGCAATAGTTTTAATAAA
TAGTGGCGTTTTTAGAA
Found at i:59778 original size:82 final size:82
Alignment explanation
Indices: 59648--59826 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 82
59638 GATTACACAT
*
59648 ATAGTGGCATTTATT-CTTAAAACGCCGCAATATTTATAATAAATAGTGGCGTTTTTAGAA-AAA
1 ATAGTGGCATTT-TTAC-AAAAACGCCGCAATATTTATAATAAATAGTGGCGTTTTTAGAACAAA
* * *
59711 CGCCGCAATAGTGTTAATCA
64 CACCACAATAATG-TAATCA
* * **
59731 ATAGTGGCGTTTTTACAAAAACGCCGCAATAGTTT-TAATCAATAGTGGCGTTTTTTTAACAAAC
1 ATAGTGGCATTTTTACAAAAACGCCGCAATA-TTTATAATAAATAGTGGCGTTTTTAGAACAAAC
59795 ACCACAATAATGTAATCA
65 ACCACAATAATGTAATCA
59813 ATAGTGGCATTTTT
1 ATAGTGGCATTTTT
59827 TTGTATAAAC
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
82 56 0.67
83 28 0.33
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (82 bp):
ATAGTGGCATTTTTACAAAAACGCCGCAATATTTATAATAAATAGTGGCGTTTTTAGAACAAACA
CCACAATAATGTAATCA
Found at i:59811 original size:41 final size:40
Alignment explanation
Indices: 59625--59848 Score: 184
Period size: 41 Copynumber: 5.4 Consensus size: 40
59615 TTTATACCAC
* * *
59625 AAACGCCGCAATAGAT-TACA-CATATAGTGGCATTTATTCTTA
1 AAACGCCGCAATA-ATGTA-ATCA-ATAGTGGCGTTT-TTATAA
* * * *
59667 AAACGCCGCAATATTTATAATAAATAGTGGCGTTTTTAGAA
1 AAACGCCGCAATA-ATGTAATCAATAGTGGCGTTTTTATAA
* *
59708 AAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTACAA
1 AAACGCCGCAATAATG-TAATCAATAGTGGCGTTTTTATAA
* * *
59749 AAACGCCGCAATAGTTTTAATCAATAGTGGCGTTTTTTTAA
1 AAACGCCGCAATA-ATGTAATCAATAGTGGCGTTTTTATAA
* * * * *
59790 CAAACACCACAATAATGTAATCAATAGTGGCATTTTTTTGTAT
1 -AAACGCCGCAATAATGTAATCAATAGTGGC--GTTTTTATAA
59833 AAACGCCGCAA-AATGT
1 AAACGCCGCAATAATGT
59849 TAAATATATA
Statistics
Matches: 151, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
41 93 0.62
42 47 0.31
43 10 0.07
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (40 bp):
AAACGCCGCAATAATGTAATCAATAGTGGCGTTTTTATAA
Found at i:60459 original size:42 final size:42
Alignment explanation
Indices: 60395--60761 Score: 496
Period size: 42 Copynumber: 8.8 Consensus size: 42
60385 TTGTATCTAA
* * *
60395 AAACGCCGCTATAAACTC-TACTTTAGTGGCATTTTGAATGC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * * * * *
60436 AAACGCCTCTAAAGACACGTACTTTAGTAGCGTTTT-TATAT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
60477 AAACGCCGCTATAGACTAGTACTTTAGTGGCGTTTT-TATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
*
60518 AAACGCCGCTATAGACTCTTACTTTAGTGGCGTTTTGAATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
60560 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
** *
60602 AAACGCTACTA-ATGACTCGTACTTTAGTGGCGTTTT-TATAC
1 AAACGCCGCTATA-GACTCGTACTTTAGTGGCGTTTTGAATAC
*
60643 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATGC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
60685 AAACGTCGCTATAGACTCGTACTTTAGTGGCGTTTTTAATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
60727 AAAC-CCTGCTA-ATGACTCGTACTTTAGTGGCGTTT
1 AAACGCC-GCTATA-GACTCGTACTTTAGTGGCGTTT
60762 GTATTTACAA
Statistics
Matches: 289, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
41 124 0.43
42 165 0.57
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (42 bp):
AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
Found at i:60571 original size:83 final size:83
Alignment explanation
Indices: 60352--60778 Score: 501
Period size: 83 Copynumber: 5.1 Consensus size: 83
60342 TTGTATCTAG
* * * *
60352 AAACGCCACTATAGA-TC-TGACATTTTGTGGCGTTTGTATCTAAAAACGCCGCTATAAACTC-T
1 AAACGCCACTATAGACTCGT-AC-TTTAGTGGCGTTT-TA-ATACAAACGCCGCTATAGACTCGT
* *
60414 ACTTTAGTGGCATTTTGAATGC
62 ACTTTAGTGGCGTTTTGAATAC
* * * * * * *
60436 AAACGCCTCTAAAGACACGTACTTTAGTAGCGTTTTTATATAAACGCCGCTATAGACTAGTACTT
1 AAACGCCACTATAGACTCGTACTTTAGTGGCGTTTTAATACAAACGCCGCTATAGACTCGTACTT
*
60501 TAGTGGCGTTTT-TATAC
66 TAGTGGCGTTTTGAATAC
* *
60518 AAACGCCGCTATAGACTCTTACTTTAGTGGCGTTTTGAATACAAACGCCGCTATAGACTCGTACT
1 AAACGCCACTATAGACTCGTACTTTAGTGGCGTTTT-AATACAAACGCCGCTATAGACTCGTACT
60583 TTAGTGGCGTTTTGAATAC
65 TTAGTGGCGTTTTGAATAC
* *
60602 AAACGCTACTA-ATGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACT
1 AAACGCCACTATA-GACTCGTACTTTAGTGGCGTTTTAATACAAACGCCGCTATAGACTCGTACT
*
60666 TTAGTGGCGTTTTGAATGC
65 TTAGTGGCGTTTTGAATAC
* *
60685 AAACGTCGCTATAGACTCGTACTTTAGTGGCGTTTTTAATACAAAC-CCTGCTA-ATGACTCGTA
1 AAACGCCACTATAGACTCGTACTTTAGTGGCG-TTTTAATACAAACGCC-GCTATA-GACTCGTA
*
60748 CTTTAGTGGCG-TTTGTATTTAC
63 CTTTAGTGGCGTTTTG-A-ATAC
60770 AAACGCCAC
1 AAACGCCAC
60779 AATTTTACAG
Statistics
Matches: 296, Mismatches: 35, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
82 52 0.18
83 135 0.46
84 96 0.32
85 12 0.04
86 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (83 bp):
AAACGCCACTATAGACTCGTACTTTAGTGGCGTTTTAATACAAACGCCGCTATAGACTCGTACTT
TAGTGGCGTTTTGAATAC
Found at i:60659 original size:125 final size:123
Alignment explanation
Indices: 60395--60776 Score: 559
Period size: 125 Copynumber: 3.1 Consensus size: 123
60385 TTGTATCTAA
* * * * *
60395 AAACGCCGCTATAAACTCTACTTTAGTGGCATTTTGAATGCAAACGCCTCTAAAGACACGTACTT
1 AAACGCCGCTATAGACTCTACTTTAGTGGCGTTTTGAATGCAAACGCCGCTATAGACTCGTACTT
* * * * *
60460 TAGTAGCGTTTTTATATAAACGCCGCT-ATAGACTAGTACTTTAGTGGCGTTTTTATAC
66 TAGTGGCGTTTTAATACAAACGCTGCTAAT-GACTCGTACTTTAGTGGCGTTTTTATAC
*
60518 AAACGCCGCTATAGACTCTTACTTTAGTGGCGTTTTGAATACAAACGCCGCTATAGACTCGTACT
1 AAACGCCGCTATAGACTC-TACTTTAGTGGCGTTTTGAATGCAAACGCCGCTATAGACTCGTACT
*
60583 TTAGTGGCGTTTTGAATACAAACGCTACTAATGACTCGTACTTTAGTGGCGTTTTTATAC
65 TTAGTGGCGTTTT-AATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTTTATAC
*
60643 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATGCAAACGTCGCTATAGACTCGTACT
1 AAACGCCGCTATAGACTC-TACTTTAGTGGCGTTTTGAATGCAAACGCCGCTATAGACTCGTACT
* *
60708 TTAGTGGCGTTTTTAATACAAACCCTGCTAATGACTCGTACTTTAGTGGCGTTTGTATTTAC
65 TTAGTGGCG-TTTTAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTT-T-TATAC
60770 AAACGCC
1 AAACGCC
60777 ACAATTTTAC
Statistics
Matches: 235, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
123 17 0.07
124 53 0.23
125 147 0.63
126 7 0.03
127 11 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (123 bp):
AAACGCCGCTATAGACTCTACTTTAGTGGCGTTTTGAATGCAAACGCCGCTATAGACTCGTACTT
TAGTGGCGTTTTAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTTTATAC
Found at i:73094 original size:21 final size:21
Alignment explanation
Indices: 73070--73113 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
73060 CAGCCAGAGC
*
73070 AGCAGCGGAAGCAGAGAAAGA
1 AGCAGCGGAAGCACAGAAAGA
* *
73091 AGCAGCGGCAGCACAGAGAGA
1 AGCAGCGGAAGCACAGAAAGA
73112 AG
1 AG
73114 TAGCATATCA
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:0.43, C:0.18, G:0.39, T:0.00
Consensus pattern (21 bp):
AGCAGCGGAAGCACAGAAAGA
Found at i:73630 original size:43 final size:42
Alignment explanation
Indices: 73584--73959 Score: 294
Period size: 43 Copynumber: 8.5 Consensus size: 42
73574 ATCGTAAGAC
* * *
73584 ATCAACACCTACTGTGGCGTTTTAGCGAAAAACGCCGCTAAAC
1 ATCAACACCTATTGCGGCGTTTTA-CGAAAAACGCCGCTAAAT
*
73627 ATCATA-ACCTATTACGGCGTTTCGGCGTTTGT-CTGAAAAACGCTGCTAAAT
1 ATCA-ACACCTATT-----G---CGGCGTTT-TAC-GAAAAACGCCGCTAAAT
* ** * * *
73678 ATTAACACCTATTGCAACGTTTTTTATGATAAACGCCACTAAAT
1 ATCAACACCTATTGCGGCG--TTTTACGAAAAACGCCGCTAAAT
* *
73722 ATCAACACCTATTGCAGCGTTTGT-CTGAAAAACCCCGCTAAAT
1 ATCAACACCTATTGCGGCGTTT-TAC-GAAAAACGCCGCTAAAT
*
73765 ATCAACACCTATTGCAGCGTTTGT-CTGAAAAACGCCGCTAAAT
1 ATCAACACCTATTGCGGCGTTT-TAC-GAAAAACGCCGCTAAAT
* * * * * *
73808 ATCAACACCTATTGCGACATTTTTATGACAACCGTCGCTAAAT
1 ATCAACACCTATTGCGGC-GTTTTACGAAAAACGCCGCTAAAT
* * * *
73851 ATCAATACCTATTGTGGCGTTTTTATGACAAACGCCGCTAAAT
1 ATCAACACCTATTGCGGCG-TTTTACGAAAAACGCCGCTAAAT
73894 ATCAACACCTATTGCGGCGTTTGTCAC-AAAAACGCCGCTAAAT
1 ATCAACACCTATTGCGGCGTTT-T-ACGAAAAACGCCGCTAAAT
* *
73937 ATCAATACCTATTGCGGCATTTT
1 ATCAACACCTATTGCGGCGTTTT
73960 TTTGTGAAAA
Statistics
Matches: 274, Mismatches: 37, Indels: 45
0.77 0.10 0.13
Matches are distributed among these distances:
42 7 0.03
43 190 0.69
44 37 0.14
45 3 0.01
46 1 0.00
48 1 0.00
50 2 0.01
51 32 0.12
52 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATCAACACCTATTGCGGCGTTTTACGAAAAACGCCGCTAAAT
Found at i:73847 original size:86 final size:87
Alignment explanation
Indices: 73654--73960 Score: 336
Period size: 86 Copynumber: 3.6 Consensus size: 87
73644 CGTTTCGGCG
* * * * * * *
73654 TTTGTCTGAAAAACGCTGCTAAATATTAACACCTATTGCAACGTTTTTTATGATAAACGCCACTA
1 TTTGTATGAAAAACCCCGCTAAATATCAACACCTATTGCAGCG-TTTTTATGAAAAACGCCGCTA
*
73719 AATATCAACACCTATTGC-AGCG
65 AATATCAACACCTATTGCGAGCA
* * *
73741 TTTGTCTGAAAAACCCCGCTAAATATCAACACCTATTGCAGCGTTTGTCTGAAAAACGCCGCTAA
1 TTTGTATGAAAAACCCCGCTAAATATCAACACCTATTGCAGCGTTTTTATGAAAAACGCCGCTAA
73806 ATATCAACACCTATTGCGA-CA
66 ATATCAACACCTATTGCGAGCA
* * * * ** *
73827 TTTTTATG-ACAACCGTCGCTAAATATCAATACCTATTGTGGCGTTTTTATGACAAACGCCGCTA
1 TTTGTATGAAAAACC-CCGCTAAATATCAACACCTATTGCAGCGTTTTTATGAAAAACGCCGCTA
*
73891 AATATCAACACCTATTGCG-GCG
65 AATATCAACACCTATTGCGAGCA
* * * * *
73913 TTTGTCA-CAAAAACGCCGCTAAATATCAATACCTATTGCGGCATTTTT
1 TTTGT-ATGAAAAACCCCGCTAAATATCAACACCTATTGCAGCGTTTTT
73961 TTGTGAAAAA
Statistics
Matches: 188, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
85 5 0.03
86 138 0.73
87 45 0.24
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (87 bp):
TTTGTATGAAAAACCCCGCTAAATATCAACACCTATTGCAGCGTTTTTATGAAAAACGCCGCTAA
ATATCAACACCTATTGCGAGCA
Found at i:73895 original size:129 final size:129
Alignment explanation
Indices: 73651--73960 Score: 431
Period size: 129 Copynumber: 2.4 Consensus size: 129
73641 CGGCGTTTCG
* * * * *
73651 GCGTTTGTCTGAAAAACGCTGCTAAATATTAACACCTATTGCAACGTTTTTTATGATAAACGCCA
1 GCGTTTGTCTGAAAAACGCCGCTAAATATCAACACCTATTGCGAC-ATTTTTATGACAAACGCCA
*
73716 CTAAATATCAACACCTATTGCAGCGTTTGTCTGAAAAACCCCGCTAAATATCAACACCTATTGCA
65 CTAAATATCAACACCTATTGCAGCGTTTGTATGAAAAACCCCGCTAAATATCAACACCTATTGCA
* * *
73781 GCGTTTGTCTGAAAAACGCCGCTAAATATCAACACCTATTGCGACATTTTTATGACAACCGTCGC
1 GCGTTTGTCTGAAAAACGCCGCTAAATATCAACACCTATTGCGACATTTTTATGACAAACGCCAC
* ** * * * *
73846 TAAATATCAATACCTATTGTGGCGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTGCG
66 TAAATATCAACACCTATTGCAGCGTTTGTATGAAAAACCCCGCTAAATATCAACACCTATTGCA
** * *
73910 GCGTTTGTCACAAAAACGCCGCTAAATATCAATACCTATTGCGGCATTTTT
1 GCGTTTGTCTGAAAAACGCCGCTAAATATCAACACCTATTGCGACATTTTT
73961 TTGTGAAAAA
Statistics
Matches: 160, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
129 118 0.74
130 42 0.26
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (129 bp):
GCGTTTGTCTGAAAAACGCCGCTAAATATCAACACCTATTGCGACATTTTTATGACAAACGCCAC
TAAATATCAACACCTATTGCAGCGTTTGTATGAAAAACCCCGCTAAATATCAACACCTATTGCA
Found at i:76990 original size:24 final size:24
Alignment explanation
Indices: 76963--77014 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
76953 AATATTTTTT
**
76963 ATTTCAAATTTCATATAAAATATA
1 ATTTCAAACCTCATATAAAATATA
* * *
76987 ATTTTAAACCTGATATAAGATATA
1 ATTTCAAACCTCATATAAAATATA
77011 ATTT
1 ATTT
77015 TAAGAAATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (24 bp):
ATTTCAAACCTCATATAAAATATA
Found at i:77034 original size:25 final size:24
Alignment explanation
Indices: 76982--77035 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
76972 TTCATATAAA
** *
76982 ATATAATTTTAAACCTGATATAAG
1 ATATAATTTTAAAAATGATAAAAG
*
77006 ATATAATTTTAAGAAATGATAAAAT
1 ATATAATTTTAA-AAATGATAAAAG
77031 ATATA
1 ATATA
77036 CAGTGATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (24 bp):
ATATAATTTTAAAAATGATAAAAG
Found at i:77775 original size:20 final size:21
Alignment explanation
Indices: 77750--77842 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
77740 TTTTCCCAAT
*
77750 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
77770 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
77791 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
77811 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
77832 TCGCAATGCGA
1 TCGCAATGCGA
77843 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:77795 original size:41 final size:41
Alignment explanation
Indices: 77750--77842 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
77740 TTTTCCCAAT
77750 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
77791 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
77832 TCGCAATGCGA
1 TCGCAATGCGA
77843 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:77855 original size:41 final size:41
Alignment explanation
Indices: 77769--77903 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
77759 GAATAAGTAA
** *
77769 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
77810 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
77851 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
77892 TTCGCAACGCGA
1 ATCGCAACGCGA
77904 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:77856 original size:20 final size:20
Alignment explanation
Indices: 77831--77924 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
77821 AATTGGGAAA
*
77831 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
77851 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
77872 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
77892 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
77912 TTCGCAACGCGAT
1 ATCGCAACGCGAT
77925 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:78543 original size:20 final size:19
Alignment explanation
Indices: 78497--78662 Score: 127
Period size: 20 Copynumber: 9.1 Consensus size: 19
78487 GAAACCAAAA
*
78497 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
78516 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
78535 TCGCGGTTGCAATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
78555 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
78571 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
78588 TCGCGTTGTGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
**
78604 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
78621 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
78641 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
78661 TC
1 TC
78663 AACCAAAAGA
Statistics
Matches: 117, Mismatches: 17, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
14 17 0.15
15 1 0.01
16 6 0.05
17 6 0.05
18 1 0.01
19 38 0.32
20 47 0.40
21 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:78578 original size:39 final size:39
Alignment explanation
Indices: 78502--78578 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
78492 CAAAATCGCA
* * **
78502 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCAATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
78541 TTGCAATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCAATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
78579 ATAGTCATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 31 0.94
40 2 0.06
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.45
Consensus pattern (39 bp):
TTGCAATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:78592 original size:33 final size:33
Alignment explanation
Indices: 78550--78637 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 33
78540 GTTGCAATTT
* *
78550 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
* * *
78583 TCATTTCGCGTTGTGATTCTTTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
78616 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
78638 ATTATCTCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 34 0.72
34 13 0.28
ACGTcount: A:0.11, C:0.23, G:0.25, T:0.41
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:80723 original size:42 final size:42
Alignment explanation
Indices: 80663--80785 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
80653 GCCCGACTCG
* * *
80663 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
80705 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
80747 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
80786 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:80743 original size:21 final size:21
Alignment explanation
Indices: 80719--80785 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
80709 TCATTCCTCG
80719 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
80740 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
80761 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
80782 AGAG
1 AGAG
80786 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:82159 original size:14 final size:14
Alignment explanation
Indices: 82140--82175 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
82130 ATTGTTTAAT
82140 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
82154 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
82168 TGATTTGT
1 TGATTTGT
82176 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:82401 original size:33 final size:32
Alignment explanation
Indices: 82359--82485 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
82349 ATTAAATTCG
82359 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
82392 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
82425 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
82458 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
82486 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:82448 original size:66 final size:66
Alignment explanation
Indices: 82352--82484 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
82342 ACGCGAAATT
*
82352 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
82417 G
66 G
* *
82418 AAATTAGCGTTGTGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
82483 G
66 G
82484 A
1 A
82485 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:84789 original size:12 final size:12
Alignment explanation
Indices: 84772--84796 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84762 TCTTCGGGGA
84772 CTTTTTCTTCTT
1 CTTTTTCTTCTT
84784 CTTTTTCTTCTT
1 CTTTTTCTTCTT
84796 C
1 C
84797 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:85005 original size:24 final size:24
Alignment explanation
Indices: 84971--85024 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
84961 CTGAAACATC
* *
84971 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
84995 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
85019 ATCAAA
1 ATCAAA
85025 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:86105 original size:20 final size:20
Alignment explanation
Indices: 86080--86137 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
86070 ATTCATTTGA
86080 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
86100 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
86120 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
86138 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:86197 original size:19 final size:19
Alignment explanation
Indices: 86156--86290 Score: 182
Period size: 19 Copynumber: 7.6 Consensus size: 19
86146 GAAATGAAAA
86156 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
86172 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
86189 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
86208 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
86224 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
86241 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
86260 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
86279 TCGCGTTGCGAT
1 TCGCATTGCGAT
86291 AGTCTGTTTT
Statistics
Matches: 106, Mismatches: 3, Indels: 17
0.84 0.02 0.13
Matches are distributed among these distances:
14 21 0.20
16 6 0.06
17 6 0.06
19 73 0.69
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:86212 original size:52 final size:52
Alignment explanation
Indices: 86156--86275 Score: 231
Period size: 52 Copynumber: 2.3 Consensus size: 52
86146 GAAATGAAAA
86156 TCGCATTGCGATTTTCTCGTTGCAATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCAATTTTCATTTCGCATTGCGATTTTCATT
*
86208 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCAATTTTCATTTCGCATTGCGATTTTCATT
86260 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
86276 ATTTCGCGTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TCGCATTGCGATTTTCTCGTTGCAATTTTCATTTCGCATTGCGATTTTCATT
Found at i:86231 original size:33 final size:35
Alignment explanation
Indices: 86188--86290 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 35
86178 CAATTTTCAT
86188 TTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 TTCG-ATTGCGATTTTCATTTCGCATTGCGATTTTC
86224 -TCG-TTGCGATTTTCATTTCGCATTGCGATTTTC
1 TTCGATTGCGATTTTCATTTCGCATTGCGATTTTC
*
86257 ATTTCGCATTGCGATTTTCATTTCGCGTTGCGAT
1 --TTCG-ATTGCGATTTTCATTTCGCATTGCGAT
86291 AGTCTGTTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
33 30 0.49
35 3 0.05
36 3 0.05
38 25 0.41
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (35 bp):
TTCGATTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:88315 original size:20 final size:19
Alignment explanation
Indices: 88280--88346 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
88270 GAAACTTAAA
88280 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
88299 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
88319 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
88338 ATCGCAACG
1 ATCGCAACG
88347 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:88354 original size:14 final size:14
Alignment explanation
Indices: 88335--88392 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
88325 ATGCGAAATG
88335 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
88349 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
88365 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
88381 AAAATCGCAACG
1 AAAATCGCAACG
88393 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:88377 original size:32 final size:33
Alignment explanation
Indices: 88319--88397 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
88309 GGAAATGGCT
*
88319 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
88352 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
88384 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
88398 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:88426 original size:19 final size:18
Alignment explanation
Indices: 88404--88499 Score: 91
Period size: 19 Copynumber: 5.7 Consensus size: 18
88394 GAAACACAAA
88404 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
*
88423 TCGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
88439 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
* *
88455 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
88471 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
88488 TCGCATTGCGAT
1 TCGCATTGCGAT
88500 AGCCATTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
14 15 0.23
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.20
19 17 0.27
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:88447 original size:14 final size:14
Alignment explanation
Indices: 88428--88483 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
88418 TCATTTCGCA
88428 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
88442 TTGCGATTTCATTTCGCG
1 TTGCGATTT--TGT--CG
88460 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
88474 TTGCGATTTT
1 TTGCGATTTT
88484 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 21 0.58
16 4 0.11
18 11 0.31
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:88490 original size:33 final size:33
Alignment explanation
Indices: 88409--88499 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
88399 ACAAATCGCA
88409 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
88442 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
88474 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
88500 AGCCATTTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:88511 original size:20 final size:20
Alignment explanation
Indices: 88486--88527 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
88476 GCGATTTTCA
88486 TTTCGCATTGCGATAGCCAT
1 TTTCGCATTGCGATAGCCAT
* *
88506 TTTCGCGTTGCGATAGTCAT
1 TTTCGCATTGCGATAGCCAT
88526 TT
1 TT
88528 CGTGTTGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (20 bp):
TTTCGCATTGCGATAGCCAT
Found at i:88534 original size:19 final size:19
Alignment explanation
Indices: 88472--88537 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
88462 GCGATTTTGT
**
88472 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
88491 CATTGCGATAGCCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
88511 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
88530 TGTTGCGA
1 CGTTGCGA
88538 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:89035 original size:18 final size:18
Alignment explanation
Indices: 89009--89053 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
88999 GTCGATCAGA
* *
89009 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
89027 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
89045 TGATGGCTC
1 TGATGGCTC
89054 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:90425 original size:20 final size:20
Alignment explanation
Indices: 90382--90419 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90372 AATAGTTTCT
90382 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
90402 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
90420 GAGAAACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:90694 original size:22 final size:22
Alignment explanation
Indices: 90669--90712 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
90659 GATTTAGATA
90669 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
90691 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
90713 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:90993 original size:20 final size:20
Alignment explanation
Indices: 90880--90993 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
90870 CGCTTTGAAA
90880 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
90900 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
90920 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
90940 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
90961 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
90981 ATCGCATTGCGAT
1 ATCGCATTGCGAT
90994 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:91011 original size:21 final size:21
Alignment explanation
Indices: 90982--91074 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
90972 ATAGTAAGTA
90982 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
91003 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
91023 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
91044 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
91064 TCGCATTGCGA
1 TCGCATTGCGA
91075 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:91012 original size:41 final size:41
Alignment explanation
Indices: 90921--91055 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
90911 AAAGTCAGTA
* * * ** *
90921 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
90961 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
91003 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
91044 TCGCGTTGCGAT
1 TCGCGTTGCGAT
91056 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:91056 original size:41 final size:41
Alignment explanation
Indices: 90982--91074 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
90972 ATAGTAAGTA
90982 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
91023 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
91064 TCGCATTGCGA
1 TCGCATTGCGA
91075 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:92886 original size:24 final size:24
Alignment explanation
Indices: 92859--92910 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
92849 AATATTTGTT
**
92859 ATTTCAAATTTCATATAAAATATA
1 ATTTCAAACCTCATATAAAATATA
* * *
92883 ATTTTAAACCTGATATAAGATATA
1 ATTTCAAACCTCATATAAAATATA
92907 ATTT
1 ATTT
92911 TAAGAAATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (24 bp):
ATTTCAAACCTCATATAAAATATA
Found at i:92930 original size:25 final size:24
Alignment explanation
Indices: 92878--92931 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
92868 TTCATATAAA
** *
92878 ATATAATTTTAAACCTGATATAAG
1 ATATAATTTTAAAAATGATAAAAG
*
92902 ATATAATTTTAAGAAATGATAAAAT
1 ATATAATTTTAA-AAATGATAAAAG
92927 ATATA
1 ATATA
92932 CAGTGATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (24 bp):
ATATAATTTTAAAAATGATAAAAG
Found at i:93432 original size:16 final size:16
Alignment explanation
Indices: 93411--93454 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
93401 TTACCCGACC
* *
93411 TGTTTTCAACCTAACT
1 TGTTTTTAACCTAACA
*
93427 TGTTTTTAACCTCACA
1 TGTTTTTAACCTAACA
93443 TGTTTTTAACCT
1 TGTTTTTAACCT
93455 GATCTGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.48
Consensus pattern (16 bp):
TGTTTTTAACCTAACA
Found at i:93930 original size:20 final size:20
Alignment explanation
Indices: 93892--93940 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
93882 TTTATATTAG
*
93892 GGTTTAGGATTTAGTGTTTA
1 GGTTTAGGATTTAGGGTTTA
93912 TGGTTTAGGA-TTAGGGTTTA
1 -GGTTTAGGATTTAGGGTTTA
93932 GAGTTTAGG
1 G-GTTTAGG
93941 GTTTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 16 0.62
21 9 0.35
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (20 bp):
GGTTTAGGATTTAGGGTTTA
Found at i:93944 original size:7 final size:7
Alignment explanation
Indices: 93888--93944 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
93878 TCTATTTATA
93888 TTAGGGT
1 TTAGGGT
*
93895 TTAGGAT
1 TTAGGGT
*
93902 TTAGTGT
1 TTAGGGT
*
93909 TTATGGT
1 TTAGGGT
*
93916 TTA-GGA
1 TTAGGGT
93922 TTAGGGT
1 TTAGGGT
*
93929 TTAGAGT
1 TTAGGGT
93936 TTAGGGT
1 TTAGGGT
93943 TT
1 TT
93945 TTATAATTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
6 5 0.12
7 35 0.88
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:94031 original size:9 final size:9
Alignment explanation
Indices: 94017--94050 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
94007 AGTAATTTAC
94017 TTTATATAG
1 TTTATATAG
94026 TTTATATA-
1 TTTATATAG
*
94034 TATATATAG
1 TTTATATAG
94043 TTTATATA
1 TTTATATA
94051 TACTATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (9 bp):
TTTATATAG
Found at i:94068 original size:20 final size:18
Alignment explanation
Indices: 94019--94057 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
94009 TAATTTACTT
94019 TATATAGTTTATATATA-
1 TATATAGTTTATATATAC
94036 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
94054 TATA
1 TATA
94058 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:94709 original size:25 final size:24
Alignment explanation
Indices: 94667--94715 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
94657 TTGATCTAGC
* *
94667 TGGTTTATATATATATATATATATA
1 TGGTTTATACATACATAT-TATATA
94692 TGGTTTATACATACATATTATATA
1 TGGTTTATACATACATATTATATA
94716 AAATTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (24 bp):
TGGTTTATACATACATATTATATA
Found at i:95184 original size:2 final size:2
Alignment explanation
Indices: 95173--95340 Score: 86
Period size: 2 Copynumber: 86.0 Consensus size: 2
95163 ATAGTGTTTC
*
95173 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
95214 GA T- TA CT- TA TA T- TA GT- TA TA CA TA CA TA TA TA TA CTA TA
1 TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
95253 T- TA -A TA TA AA T- TA TA -A TT TA TA AA CTA TA T- TT 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
* * * * * *
95291 GTT TA TA CA TA TA TA GTT TA TA TA CA TA CA TA CA 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
95335 TA TA TA
1 TA TA TA
95341 AAATTAAAAG
Statistics
Matches: 123, Mismatches: 27, Indels: 32
0.68 0.15 0.18
Matches are distributed among these distances:
1 10 0.08
2 106 0.86
3 7 0.06
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:95568 original size:12 final size:12
Alignment explanation
Indices: 95551--95575 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95541 AAATTTTATA
95551 TTCCCTCTAAAT
1 TTCCCTCTAAAT
95563 TTCCCTCTAAAT
1 TTCCCTCTAAAT
95575 T
1 T
95576 CTCAATTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (12 bp):
TTCCCTCTAAAT
Found at i:95766 original size:15 final size:15
Alignment explanation
Indices: 95746--95881 Score: 104
Period size: 13 Copynumber: 9.1 Consensus size: 15
95736 ACATACTTTT
*
95746 TATAGTTTATACATA
1 TATAGTTTATATATA
*
95761 TATAG-TT-TACATA
1 TATAGTTTATATATA
95774 TATAG-TT-TATATA
1 TATAGTTTATATATA
* *
95787 TATAGTTCATATAAA
1 TATAGTTTATATATA
* *
95802 CATAATTTATATATA
1 TATAGTTTATATATA
*
95817 TATAGCTTATAATAATTA
1 TATAGTTTAT-AT-A-TA
95835 TATAGTTTATATATA
1 TATAGTTTATATATA
95850 TA-A-TTTATATATA
1 TATAGTTTATATATA
* *
95863 AACTTGTATTATATATA
1 TA-TAGT-TTATATATA
95880 TA
1 TA
95882 CTATATTTTT
Statistics
Matches: 98, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
13 34 0.35
14 4 0.04
15 32 0.33
16 4 0.04
17 13 0.13
18 11 0.11
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (15 bp):
TATAGTTTATATATA
Found at i:100851 original size:31 final size:31
Alignment explanation
Indices: 100813--100908 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
100803 GAATAGAAAG
100813 TTTGATTGACAACACTTCAATTGTTATGTGA
1 TTTGATTGACAACACTTCAATTGTTATGTGA
100844 TTTGATTGACAACACTTCAATTGTTATGTGA
1 TTTGATTGACAACACTTCAATTGTTATGTGA
* * *
100875 TTTGATTGACAACACTTAAATAGTTAAGTGA
1 TTTGATTGACAACACTTCAATTGTTATGTGA
100906 TTT
1 TTT
100909 AATTAATAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (31 bp):
TTTGATTGACAACACTTCAATTGTTATGTGA
Found at i:104425 original size:2 final size:2
Alignment explanation
Indices: 104418--104447 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
104408 TACTTGATTC
104418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104448 TATTTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107647 original size:32 final size:32
Alignment explanation
Indices: 107611--107683 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
107601 TTGATACATG
*
107611 TATTGATATGAGTATCAGTACT-CTAAGAACAA
1 TATTGATATGAGTATAAGTACTAC-AAGAACAA
*
107643 TATTGATATGGGTATAAGTACTACAAGAACAA
1 TATTGATATGAGTATAAGTACTACAAGAACAA
*
107675 TATCGATAT
1 TATTGATAT
107684 TGTCATCCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 36 0.97
33 1 0.03
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (32 bp):
TATTGATATGAGTATAAGTACTACAAGAACAA
Found at i:111311 original size:19 final size:19
Alignment explanation
Indices: 111265--111328 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
111255 GCATTTTCAG
* *
111265 AACTTTGAAGAAAGTTTTTA
1 AACTTTG-AGAAAATTTTGA
111285 AACTTTTGAGAAAATTTTGA
1 AAC-TTTGAGAAAATTTTGA
*
111305 AACTTTGATAAAACTTTTGA
1 AACTTTGAGAAAA-TTTTGA
111325 AACT
1 AACT
111329 CTTACTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
19 9 0.23
20 26 0.67
21 4 0.10
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (19 bp):
AACTTTGAGAAAATTTTGA
Found at i:111441 original size:21 final size:21
Alignment explanation
Indices: 111387--111441 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
111377 TTATGGGTGC
* **
111387 AAAGGTTCGAAACTTTTTGTA
1 AAAGTTTCGAAACTTTTAATA
*
111408 AAA-TTTTGAAACTTTTAATA
1 AAAGTTTCGAAACTTTTAATA
111428 AAAGTTTCGAAACT
1 AAAGTTTCGAAACT
111442 CCTACTAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (21 bp):
AAAGTTTCGAAACTTTTAATA
Found at i:116668 original size:24 final size:24
Alignment explanation
Indices: 116635--116687 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
116625 AGGCAGATAT
* *
116635 TCAGGGGTCTCGGAATGGTGCAGA
1 TCAGGGGTCTCAGAACGGTGCAGA
* *
116659 TCAGGTGTCTCAGAACGGTGCTGA
1 TCAGGGGTCTCAGAACGGTGCAGA
116683 TCAGG
1 TCAGG
116688 AGTCGGGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.23
Consensus pattern (24 bp):
TCAGGGGTCTCAGAACGGTGCAGA
Found at i:117939 original size:21 final size:20
Alignment explanation
Indices: 117897--117941 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
117887 TGAAGAAATG
*
117897 AGAGAAAAAATAAAAGCTAA
1 AGAGAAAAAATAAAAGATAA
* *
117917 AGAGAAAAAATTAAGGATGAA
1 AGAGAAAAAATAAAAGAT-AA
117938 AGAG
1 AGAG
117942 GAAAGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.64, C:0.02, G:0.22, T:0.11
Consensus pattern (20 bp):
AGAGAAAAAATAAAAGATAA
Found at i:133479 original size:6 final size:6
Alignment explanation
Indices: 133468--133512 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
133458 GGACTGTTCG
*
133468 AAAGAA AAAGAA AAAGAA AAA-AA GAAATGAA AAAGAA ATAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA -AAA-GAA AAAGAA AAAGAA AA
133513 CAAAACAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 2 0.06
6 27 0.79
7 3 0.09
8 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (6 bp):
AAAGAA
Found at i:133500 original size:11 final size:12
Alignment explanation
Indices: 133470--133512 Score: 52
Period size: 11 Copynumber: 3.5 Consensus size: 12
133460 ACTGTTCGAA
*
133470 AGAAAAAGAAAA
1 AGAAAAAGAAAT
133482 AGAAAAAAAGAAAT
1 AG--AAAAAGAAAT
133496 -GAAAAAGAAAT
1 AGAAAAAGAAAT
133507 AGAAAA
1 AGAAAA
133513 CAAAACAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 10 0.37
12 7 0.26
13 1 0.04
14 9 0.33
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (12 bp):
AGAAAAAGAAAT
Found at i:137721 original size:12 final size:12
Alignment explanation
Indices: 137704--137732 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
137694 CTGGCAAAGC
137704 TCTTCAGTCTCT
1 TCTTCAGTCTCT
137716 TCTTCAGTCTCT
1 TCTTCAGTCTCT
137728 TCTTC
1 TCTTC
137733 TTCATTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.34, G:0.07, T:0.52
Consensus pattern (12 bp):
TCTTCAGTCTCT
Found at i:140098 original size:64 final size:63
Alignment explanation
Indices: 140048--140259 Score: 230
Period size: 65 Copynumber: 3.3 Consensus size: 63
140038 CGGTGAACCA
140048 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCTGATGCATCGATGCATGG
** * ** *
140112 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGA-TGCATCGATGCATGG
* * * * *
140177 AGAGTGCATCGGTGCATGGAATGCATTCGATGTTT-AATTAAT-TCATTGATGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATAGC-CTGATGCATCGATGCATG
*
140240 T
63 G
*
140241 ACTGATGCATCGATGCATG
1 AGTG-TGCATCGATGCATG
140260 TACTGATGCA
Statistics
Matches: 123, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
63 2 0.02
64 58 0.47
65 63 0.51
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (63 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGATGCATCGATGCATGG
Found at i:140182 original size:19 final size:19
Alignment explanation
Indices: 140158--140208 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
140148 GAAAATATTC
140158 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
140177 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
140196 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
140209 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:140249 original size:12 final size:12
Alignment explanation
Indices: 140232--140270 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
140222 TTGATGCATC
140232 GATGCATGTACT
1 GATGCATGTACT
140244 GATGCA--T-C-
1 GATGCATGTACT
140252 GATGCATGTACT
1 GATGCATGTACT
140264 GATGCAT
1 GATGCAT
140271 CAGTGCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 6 0.26
9 1 0.04
10 2 0.09
11 1 0.04
12 13 0.57
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (12 bp):
GATGCATGTACT
Found at i:140279 original size:20 final size:20
Alignment explanation
Indices: 140223--140271 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
140213 ATTAATTCAT
140223 TGATGCATCGATGCATGTAC
1 TGATGCATCGATGCATGTAC
140243 TGATGCATCGATGCATGTAC
1 TGATGCATCGATGCATGTAC
140263 TGATGCATC
1 TGATGCATC
140272 AGTGCATGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (20 bp):
TGATGCATCGATGCATGTAC
Found at i:140470 original size:20 final size:21
Alignment explanation
Indices: 140447--140486 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
140437 GAATCGAATA
140447 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
140467 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
140487 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:148686 original size:64 final size:63
Alignment explanation
Indices: 148611--148772 Score: 209
Period size: 64 Copynumber: 2.5 Consensus size: 63
148601 TCGTGCACCA
* *
148611 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGGCATCGATGCATGG
** * **
148675 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGGCATCGATGCATGG
* *
148739 AGAGTGCATC-AGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGA-TGCATGAAATGCATTCGATGTT
148773 CAATTAATTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
63 3 0.04
64 77 0.92
65 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (63 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGGCATCGATGCATGG
Found at i:148793 original size:64 final size:64
Alignment explanation
Indices: 148614--148795 Score: 176
Period size: 64 Copynumber: 2.8 Consensus size: 64
148604 TGCACCAAGT
* * * * ***
148614 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAT-TCATGATGCATCGATGCATGGAGA
* *
148678 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGGCATCGATGCATGGAGA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAAAATATTCATGATGCATCGATGCATGGAGA
** *
148742 GTGCATC-AGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATTGATGCATCGA
1 GTGCATCGA-TGCATCAAATGCATTCGATGTTTCAAAAT-ATTCA-TGATGCATCGA
148796 CATGTACTGT
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
61 3 0.03
62 7 0.07
63 1 0.01
64 78 0.78
65 9 0.09
66 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATATTCATGATGCATCGATGCATGGAGA
Done.