Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008282.1 Hibiscus syriacus cultivar Beakdansim tig00110944_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: 1335609
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:2083 original size:15 final size:15
Alignment explanation
Indices: 2063--2092 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2053 GGACCCCTAC
2063 ATCCCGAAGGACTAT
1 ATCCCGAAGGACTAT
2078 ATCCCGAAGGACTAT
1 ATCCCGAAGGACTAT
2093 TATACCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (15 bp):
ATCCCGAAGGACTAT
Found at i:2238 original size:23 final size:26
Alignment explanation
Indices: 2201--2269 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
2191 TTCTCTATTG
2201 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
2225 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
2250 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
2270 AACATACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:2251 original size:12 final size:12
Alignment explanation
Indices: 2234--2269 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
2224 TATCATGTTC
2234 TCATATCACATG
1 TCATATCACATG
*
2246 TCATATCACATA
1 TCATATCACATG
2258 TCATATCACATG
1 TCATATCACATG
2270 AACATACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:2719 original size:63 final size:62
Alignment explanation
Indices: 2572--2791 Score: 226
Period size: 64 Copynumber: 3.5 Consensus size: 62
2562 TAATGAAGGT
* * ** * ** *
2572 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATTATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATG--TTATTATTAATAGG
* * ** *
2636 ATGCATCGATGCACTCCTTATGCATCAATGCACCAATTGCATTCGATGTTCATTATTAATTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTT-ATTATTAATAGG
* * *
2699 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTTTATTTTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTATTA--TTAATAGG
*
2762 AGTGCATCGATGCACTACTAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
2792 ACACCTTCAA
Statistics
Matches: 132, Mismatches: 20, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
62 5 0.04
63 57 0.43
64 70 0.53
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (62 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTATTATTAATAGG
Found at i:12660 original size:31 final size:30
Alignment explanation
Indices: 12622--12699 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 30
12612 TAAATTGCGC
12622 ATTTAGTATCTAAACTATCGGTTTTGATCCG
1 ATTTAGTA-CTAAACTATCGGTTTTGATCCG
12653 ATTTAGTACTTAAACTATCGGTTTTGATCCG
1 ATTTAGTAC-TAAACTATCGGTTTTGATCCG
12684 ATTTAGTACCTAAACT
1 ATTTAGTA-CTAAACT
12700 TTTAATTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
30 1 0.02
31 43 0.96
32 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (30 bp):
ATTTAGTACTAAACTATCGGTTTTGATCCG
Found at i:20718 original size:36 final size:35
Alignment explanation
Indices: 20640--20720 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 35
20630 GACAACCAAT
20640 TTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
1 TTTG-AAAAATGGTTTTCAAAGTTTGGTAAATG-TTC
* *
20677 TTTGAAAAATGGTTTTTCAAAGTTTGTTAGATG-TC
1 TTTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTC
20712 TATTGAAAA
1 T-TTGAAAA
20721 TGATAATGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
35 3 0.08
36 15 0.38
37 22 0.55
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (35 bp):
TTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTC
Found at i:21611 original size:16 final size:16
Alignment explanation
Indices: 21590--21620 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21580 TTCAATTTGT
21590 GGATGGCGGAAGGGGA
1 GGATGGCGGAAGGGGA
21606 GGATGGCGGAAGGGG
1 GGATGGCGGAAGGGG
21621 CATCAGTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.65, T:0.06
Consensus pattern (16 bp):
GGATGGCGGAAGGGGA
Found at i:34280 original size:36 final size:36
Alignment explanation
Indices: 34184--34482 Score: 409
Period size: 36 Copynumber: 8.1 Consensus size: 36
34174 CTGCTCTCTC
* * **
34184 TCAAGTTGAACGGAAGAAATCATCGGCACTTCCGAT
1 TCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
*
34220 TCAAGTCGAATCGGAACGGAAGGAGGCATCGACACTTCCGAT
1 TCAA---G--TC-GAACGGAAGGAGGCATCGGCACTTCCGAT
*
34262 TCAAGTCGAACGGAAGGAGGCATCGGTACTTCCGAT
1 TCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
* * * *
34298 TCAAGTCGAACAGAATGAGGCATCAGCACTTCCAAT
1 TCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
*
34334 TCAAGTCGAACGGAAGGAAGCATCGGCACTTCCGAT
1 TCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
* *
34370 TCAAGTCGAACGGAAGGAAGCATCGGCACTTCCTAT
1 TCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
*
34406 TCAAGTCGAACGGAAGGAAGCATCGGCACTTCCGAT
1 TCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
*
34442 TCAAGTCGAACGGAAGGAGGCATCGACACTTCCGAT
1 TCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
34478 TCAAG
1 TCAAG
34483 AAGCGCATCA
Statistics
Matches: 236, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
36 202 0.86
37 2 0.01
39 2 0.01
41 1 0.00
42 29 0.12
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.18
Consensus pattern (36 bp):
TCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
Found at i:35684 original size:3 final size:3
Alignment explanation
Indices: 35678--35802 Score: 169
Period size: 3 Copynumber: 41.0 Consensus size: 3
35668 TTCATTTAAA
** * * *
35678 ATT ATT ATT ATT AAA ATT ATT ATT ATT AGT ATT ATT ATT AGT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
35726 ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
*
35772 ATT ATT ATT AAT ATT ATAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
35803 TAATAAATAA
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
3 100 0.94
4 6 0.06
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:46786 original size:54 final size:54
Alignment explanation
Indices: 46700--46923 Score: 376
Period size: 54 Copynumber: 4.1 Consensus size: 54
46690 ACTTCAATAA
* * *
46700 TTACGAACATCTGAACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTT
1 TTACGAACATCTGAGCAGAAGCCACAGTAAAGGATGAATGTGTTGTCAAATGTT
46754 TTACGAACATCTGAGCAGAAGCCACAGTAAAGGATGAATGTGTTGTCAAATGTT
1 TTACGAACATCTGAGCAGAAGCCACAGTAAAGGATGAATGTGTTGTCAAATGTT
*
46808 TTACGAACATCTGAGCAGAAGCCACAGTAAAGAATGAATGTGTTGTCAAATGTT
1 TTACGAACATCTGAGCAGAAGCCACAGTAAAGGATGAATGTGTTGTCAAATGTT
* * * *
46862 TTATGAACATCTGAGCAGAAGCCACAGAAAAAGATGAATGTATTGTCAAATGTT
1 TTACGAACATCTGAGCAGAAGCCACAGTAAAGGATGAATGTGTTGTCAAATGTT
46916 TTACGAAC
1 TTACGAAC
46924 CAGTGATTAT
Statistics
Matches: 160, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 160 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (54 bp):
TTACGAACATCTGAGCAGAAGCCACAGTAAAGGATGAATGTGTTGTCAAATGTT
Found at i:48112 original size:76 final size:76
Alignment explanation
Indices: 47986--49308 Score: 2443
Period size: 76 Copynumber: 17.4 Consensus size: 76
47976 CTATTTCTCA
*
47986 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48051 AGCCTTCGGGT
66 AGCCTTCGGGT
*
48062 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
48127 ATCCTTCGGGT
66 AGCCTTCGGGT
48138 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48203 AGCCTTCGGGT
66 AGCCTTCGGGT
48214 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
48278 ATCCTTCGGGT
66 AGCCTTCGGGT
48289 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48354 AGCCTTCGGGT
66 AGCCTTCGGGT
48365 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
48430 ATCCTTCGGGT
66 AGCCTTCGGGT
48441 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48506 AGCCTTCGGGT
66 AGCCTTCGGGT
48517 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48582 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
48593 CATCTGTAAGTCCTCCAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48658 AGCCTTCGGGT
66 AGCCTTCGGGT
48669 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
48734 ATCCTTCGGGT
66 AGCCTTCGGGT
48745 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48809 AGCCTTCGGGT
66 AGCCTTCGGGT
48820 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48885 AGCCTTCGGGT
66 AGCCTTCGGGT
48896 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48961 AGCCTTCGGGT
66 AGCCTTCGGGT
48972 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
49037 AGCCTTCGGGT
66 AGCCTTCGGGT
* * *
49048 CATCTGTAAGTCCTCCAATGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* *
49113 AAACATTCGGGT
65 AAGCCTTCGGGT
*
49125 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
49190 AAACCTTCGGGT
65 AAGCCTTCGGGT
*
49202 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
49267 AAACCTTCGGGT
65 AAGCCTTCGGGT
*
49279 CATCTGTAATTCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
49309 TCATTTAAAA
Statistics
Matches: 1216, Mismatches: 28, Indels: 5
0.97 0.02 0.00
Matches are distributed among these distances:
75 148 0.12
76 881 0.72
77 187 0.15
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:48843 original size:455 final size:456
Alignment explanation
Indices: 47986--49308 Score: 2479
Period size: 455 Copynumber: 2.9 Consensus size: 456
47976 CTATTTCTCA
*
47986 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48051 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * * *
48116 GATGTTTTTAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTCCAATGCATGATGTTTCCAAAAAGCCTTC
48181 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
48246 -AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGC
261 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGC
48310 ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAG
326 ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAG
*
48375 TCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGG
391 TCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
48440 T
456 T
48441 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48506 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
48571 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTCCAATGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTCCAATGCATGATGTTTCCAAAAAGCCTTC
48636 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
48701 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGC
261 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGC
48766 ATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAG
326 ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAG
48830 TCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
391 TCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
48895 T
456 T
48896 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
48961 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
49026 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTCCAATGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTCCAATGCATGATGTTTCCAAAAAGCCTTC
* * * *
49091 GAGAGCTTTTTGATGTTTTCAAAAACATTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTC
196 GGGAGCTTTTTGATGTTTTC-AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
*
49156 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
260 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAATCCTTCGGGTCATCTGTAAGTCCTTCAGT
* *
49221 GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCAAAAACCTTCGGGTCATCTGT
324 GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAAGCCTTCGGGTCATCTGT
*
49286 AATTCCTTCAGTGCATGATGTTT
388 AAGTCCTTCAGTGCATGATGTTT
49309 TCATTTAAAA
Statistics
Matches: 849, Mismatches: 14, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
455 570 0.67
456 165 0.19
457 61 0.07
458 12 0.01
459 41 0.05
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (456 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTCCAATGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGC
ATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAG
TCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
T
Found at i:49326 original size:3 final size:3
Alignment explanation
Indices: 49318--49451 Score: 133
Period size: 3 Copynumber: 44.0 Consensus size: 3
49308 TTCATTTAAA
* * * *
49318 ATT ATT ATT ATT AGT ATT ATT ATT AGT ATT AGT ATT ATT ATT ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
49366 ATA ATA ATA ATT ATT ATT ATT ATA ATA ATA ATA ATA ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
49414 ATTT ATT ATT ATT ATT AAT ATT ATAT ATT ATT ATT ATT
1 A-TT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
49452 TAATAAATAA
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
3 111 0.95
4 6 0.05
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:58283 original size:20 final size:20
Alignment explanation
Indices: 58258--58310 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
58248 ATAGCATAGT
58258 GGTATTGATACCATGGTGAG
1 GGTATTGATACCATGGTGAG
58278 GGTATTGATACCATGGTGAG
1 GGTATTGATACCATGGTGAG
*
58298 GGTATCGATACCA
1 GGTATTGATACCA
58311 AACTACATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.28
Consensus pattern (20 bp):
GGTATTGATACCATGGTGAG
Found at i:58403 original size:20 final size:20
Alignment explanation
Indices: 58349--58403 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
58339 ATACTGGAAG
58349 GGGGTATCGATACCATAATA
1 GGGGTATCGATACCATAATA
* *
58369 GGGTAGTATCAATACCATAGTA
1 GGG--GTATCGATACCATAATA
58391 GGGGTATCGATAC
1 GGGGTATCGATAC
58404 TGAAGGGTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (20 bp):
GGGGTATCGATACCATAATA
Found at i:58895 original size:45 final size:45
Alignment explanation
Indices: 58853--59107 Score: 319
Period size: 45 Copynumber: 5.8 Consensus size: 45
58843 AGGATGCTAT
* *
58853 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAATATGCTAG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAG
* * * * *
58898 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATGTGCTAG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAG
* *
58943 AGTTGAAATG--TAT---T-CATTATCAACAGAAGAGCATACTAG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAG
*
58982 AGTTGAAATGTATATGGGTACATTGTCAACAGAAAAGTATACTATG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA-G
*
59028 -GTTGAAATGTATATGGGTACATTATCAACA-AAAAGTATACTAT
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAG
* * *
59071 AATTGAAATGCATATGGGTACATTATCACCAGAAAAG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAG
59108 ATGTTATAGT
Statistics
Matches: 185, Mismatches: 16, Indels: 18
0.84 0.07 0.08
Matches are distributed among these distances:
39 30 0.16
40 1 0.01
41 3 0.02
43 3 0.02
44 40 0.22
45 107 0.58
46 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (45 bp):
AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAG
Found at i:59011 original size:84 final size:87
Alignment explanation
Indices: 58814--59111 Score: 295
Period size: 84 Copynumber: 3.4 Consensus size: 87
58804 TGAAAATATT
* * * * *
58814 AATGCATATGGGTGCATTATTAGCATGAAAGGATG--CTATAGTTGAAATGTATATGGGTACATT
1 AATGCATATGGGTACATTATCAACA-GAAA-AATGTACTATGGTTGAAATG-ATAT--GTACATT
* *
58877 ATCAACAGAAAAATATGCTAGAGTTGA
61 ATCAACAGAAAAGTATACTAGAGTTGA
* *
58904 AATGCATATGGGTGCATTATCAACAGAAAAATGTGCTA-GAGTTGAAATG-TAT-T-CATTATCA
1 AATGCATATGGGTACATTATCAACAGAAAAATGTACTATG-GTTGAAATGATATGTACATTATCA
* *
58965 ACAGAAGAGCATACTAGAGTTGA
65 ACAGAAAAGTATACTAGAGTTGA
* * * *
58988 AATGTATATGGGTACATTGTCAACAGAAAAGTATACTATGGTTGAAATGTATATGGGTACATTAT
1 AATGCATATGGGTACATTATCAACAGAAAAATGTACTATGGTTGAAATG-ATAT--GTACATTAT
* *
59053 CAACA-AAAAGTATACTATAATTGA
63 CAACAGAAAAGTATACTAGAGTTGA
*
59077 AATGCATATGGGTACATTATCACCAGAAAAGATGT
1 AATGCATATGGGTACATTATCAACAGAAAA-ATGT
59112 TATAGTTTAA
Statistics
Matches: 174, Mismatches: 23, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
84 68 0.39
85 2 0.01
86 3 0.02
88 6 0.03
89 47 0.27
90 48 0.28
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (87 bp):
AATGCATATGGGTACATTATCAACAGAAAAATGTACTATGGTTGAAATGATATGTACATTATCAA
CAGAAAAGTATACTAGAGTTGA
Found at i:62268 original size:31 final size:31
Alignment explanation
Indices: 62233--62315 Score: 118
Period size: 31 Copynumber: 2.8 Consensus size: 31
62223 AAAATATAAG
62233 TTTTAAAAATTTACATTTTTAGTCCCTAAAC
1 TTTTAAAAATTTACATTTTTAGTCCCTAAAC
* *
62264 TTTTACAAATTTACATTTTGA-TCCCTAAAC
1 TTTTAAAAATTTACATTTTTAGTCCCTAAAC
*
62294 -TTTCAAAATTTAC-TTTTTAGTC
1 TTTTAAAAATTTACATTTTTAGTC
62316 ACCAATCCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 5 0.11
29 13 0.28
30 9 0.20
31 19 0.41
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.47
Consensus pattern (31 bp):
TTTTAAAAATTTACATTTTTAGTCCCTAAAC
Found at i:68994 original size:35 final size:36
Alignment explanation
Indices: 68945--69017 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 36
68935 ATAAGTTACT
* ** *
68945 CAAGGAGTATCGATAACTAAAGGGTAGTATTGATAC
1 CAAGGAGTACCGATAACTAAAGGCAAGTATCGATAC
* *
68981 CAAGG-GTACCGATACCTTAAGGCAAGTATCGATAC
1 CAAGGAGTACCGATAACTAAAGGCAAGTATCGATAC
69016 CA
1 CA
69018 TTTTGAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
35 26 0.84
36 5 0.16
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (36 bp):
CAAGGAGTACCGATAACTAAAGGCAAGTATCGATAC
Found at i:70549 original size:21 final size:21
Alignment explanation
Indices: 70516--70574 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
70506 TTGAGGGTTC
* * *
70516 TATGATGTTCTTCGGGATATA
1 TATGAGGTCCTTCGGGACATA
70537 TATGAGGTCCTTCGGGACATA
1 TATGAGGTCCTTCGGGACATA
* *
70558 TACGAGGTCATTCGGGA
1 TATGAGGTCCTTCGGGA
70575 AAAATTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (21 bp):
TATGAGGTCCTTCGGGACATA
Found at i:70841 original size:18 final size:18
Alignment explanation
Indices: 70798--70841 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
70788 TAAATGGGGC
70798 TAATGATAATAATATGGA
1 TAATGATAATAATATGGA
* * *
70816 TAACGATAATTATGTGGA
1 TAATGATAATAATATGGA
*
70834 TGATGATA
1 TAATGATA
70842 TATGTATATG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.34
Consensus pattern (18 bp):
TAATGATAATAATATGGA
Found at i:71825 original size:2 final size:2
Alignment explanation
Indices: 71818--71865 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
71808 TTATAAAACA
71818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71860 AT AT AT
1 AT AT AT
71866 TAAGTAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77450 original size:100 final size:100
Alignment explanation
Indices: 77344--77531 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
77334 CATGTTGATT
* *
77344 CATTTTAATCTAAATTATATTTCCTTATTAACTTGTTTTTAGTCACGTGCTTTTTATTTCCTTCT
1 CATTTTAATCTAAATTATATTTCCTTATTAACTTGTTTTCAGTCACGTGCTTTTTATTTCATTCT
*
77409 TATTTTTCATTTTGGTAACTTCCCGTAACTTCCTC
66 TATTTTGCATTTTGGTAACTTCCCGTAACTTCCTC
77444 CATTTTAATCTAAATTATATTTCCTTATTAACTTGTTTTCAGTCACGTGCTTTTTATTTCATTCT
1 CATTTTAATCTAAATTATATTTCCTTATTAACTTGTTTTCAGTCACGTGCTTTTTATTTCATTCT
77509 TATTTTGCATTTTGGTAACTTCC
66 TATTTTGCATTTTGGTAACTTCC
77532 TCCATTTTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.21, C:0.19, G:0.07, T:0.53
Consensus pattern (100 bp):
CATTTTAATCTAAATTATATTTCCTTATTAACTTGTTTTCAGTCACGTGCTTTTTATTTCATTCT
TATTTTGCATTTTGGTAACTTCCCGTAACTTCCTC
Found at i:97884 original size:13 final size:12
Alignment explanation
Indices: 97843--97885 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
97833 TCTAAATTTG
97843 ATTAAAATATAA
1 ATTAAAATATAA
**
97855 ATTTAACTTATAA
1 A-TTAAAATATAA
97868 ATTAAAATATGAA
1 ATTAAAATAT-AA
97881 ATTAA
1 ATTAA
97886 CCTTAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (12 bp):
ATTAAAATATAA
Found at i:98290 original size:61 final size:60
Alignment explanation
Indices: 98209--98344 Score: 177
Period size: 61 Copynumber: 2.3 Consensus size: 60
98199 AAGGGTTGTG
* * * * *
98209 TACACAAATGGTCCTCCAACTATAGGATATTGTTTTACTAACTTTTCTCGATTATTAGAAGT
1 TACA-AAATGATCCTCCAACTATAGGATATTATTTTACTAA-GTCTCTCGATTATTACAAGT
* *
98271 TATAAAATGATCCTCCAACTATAGGATATTATTTTATTAAGTCTCTCGATTATTACAAGT
1 TACAAAATGATCCTCCAACTATAGGATATTATTTTACTAAGTCTCTCGATTATTACAAGT
98331 TACAAAA--ATCCTCC
1 TACAAAATGATCCTCC
98345 GAGAGTGTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
58 7 0.11
60 23 0.35
61 33 0.50
62 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (60 bp):
TACAAAATGATCCTCCAACTATAGGATATTATTTTACTAAGTCTCTCGATTATTACAAGT
Found at i:101181 original size:30 final size:30
Alignment explanation
Indices: 101141--101264 Score: 116
Period size: 30 Copynumber: 4.3 Consensus size: 30
101131 TCATATCATA
* *
101141 TCATATCATAGCATGT-TACATTCACTTCAT
1 TCATTTCATAGCATGTAT-CATTCACTTAAT
* *
101171 TTATTTCATAGCATGTATCATTCATTTAAT
1 TCATTTCATAGCATGTATCATTCACTTAAT
* *
101201 TCATTTCGTAGCCTGTATCATTCACTT--T
1 TCATTTCATAGCATGTATCATTCACTTAAT
* *
101229 TCA-TTCATAGCATATA-CTATTCACTT-TT
1 TCATTTCATAGCATGTATC-ATTCACTTAAT
101257 TCATTTCA
1 TCATTTCA
101265 CAACCCAATG
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.01
27 18 0.23
28 8 0.10
29 4 0.05
30 47 0.59
31 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (30 bp):
TCATTTCATAGCATGTATCATTCACTTAAT
Found at i:101535 original size:49 final size:49
Alignment explanation
Indices: 101320--101604 Score: 279
Period size: 49 Copynumber: 5.8 Consensus size: 49
101310 GAGCATATAC
* * * * **
101320 ATAAGTAGCACCACCGTTACATAAGTAACGTCAGACATGCTAGGT-ACCATCG
1 ATAA-TAGCACCACCGTCACA-AAG--ACGTCAGACGTGCTAAGTCATCATTA
* * * * * * * * *
101372 ATAGTAACACCACCATCACACAGAAGTCAGACGTGCTAGGT-ACCGTTC
1 ATAATAGCACCACCGTCACAAAGACGTCAGACGTGCTAAGTCATCATTA
* * * *
101420 ATAATAGCACCACCGTCACACAGACGTCAGGCGTGCT-ATTTATCATTA
1 ATAATAGCACCACCGTCACAAAGACGTCAGACGTGCTAAGTCATCATTA
* * **
101468 ATAGTAGCACCACTGTCACAAAGACGTCAGATATGCTAAGTCATCATTA
1 ATAATAGCACCACCGTCACAAAGACGTCAGACGTGCTAAGTCATCATTA
* *
101517 ATAATAACACCACCGTCACAAAGACGTCAGACGTGCTAAATCATCATTA
1 ATAATAGCACCACCGTCACAAAGACGTCAGACGTGCTAAGTCATCATTA
*
101566 ATAGTAGCACCACCGTCACAAAGACGTCAGACGTGCTAA
1 ATAATAGCACCACCGTCACAAAGACGTCAGACGTGCTAA
101605 ATGCTCTACA
Statistics
Matches: 195, Mismatches: 36, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.01
48 87 0.45
49 89 0.46
50 2 0.01
51 13 0.07
52 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.21
Consensus pattern (49 bp):
ATAATAGCACCACCGTCACAAAGACGTCAGACGTGCTAAGTCATCATTA
Found at i:101606 original size:49 final size:48
Alignment explanation
Indices: 101323--101604 Score: 294
Period size: 48 Copynumber: 5.8 Consensus size: 48
101313 CATATACATA
* * * * **
101323 AGTAGCACCACCGTTACATAAGTAACGTCAGACATGCTAGGTACCATCGAT
1 AGTAGCACCACCGTCACA-AAG--ACGTCAGACGTGCTAAGTATCATTAAT
* * * * * * * *
101374 AGTAACACCACCATCACACAGAAGTCAGACGTGCTAGGTACCGTTCAT
1 AGTAGCACCACCGTCACAAAGACGTCAGACGTGCTAAGTATCATTAAT
* * * **
101422 AATAGCACCACCGTCACACAGACGTCAGGCGTGCTATTTATCATTAAT
1 AGTAGCACCACCGTCACAAAGACGTCAGACGTGCTAAGTATCATTAAT
* **
101470 AGTAGCACCACTGTCACAAAGACGTCAGATATGCTAAGTCATCATTAAT
1 AGTAGCACCACCGTCACAAAGACGTCAGACGTGCTAAGT-ATCATTAAT
* * *
101519 AATAACACCACCGTCACAAAGACGTCAGACGTGCTAAATCATCATTAAT
1 AGTAGCACCACCGTCACAAAGACGTCAGACGTGCTAAGT-ATCATTAAT
101568 AGTAGCACCACCGTCACAAAGACGTCAGACGTGCTAA
1 AGTAGCACCACCGTCACAAAGACGTCAGACGTGCTAA
101605 ATGCTCTACA
Statistics
Matches: 195, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
48 91 0.47
49 87 0.45
50 2 0.01
51 15 0.08
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (48 bp):
AGTAGCACCACCGTCACAAAGACGTCAGACGTGCTAAGTATCATTAAT
Found at i:103160 original size:20 final size:21
Alignment explanation
Indices: 103135--103173 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
103125 TGTTTAATGA
103135 AAAAT-ATATCAATTGTTAAC
1 AAAATAATATCAATTGTTAAC
103155 AAAATAATATCAATTGTTA
1 AAAATAATATCAATTGTTA
103174 CCAATTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAATAATATCAATTGTTAAC
Found at i:106348 original size:23 final size:23
Alignment explanation
Indices: 106318--106379 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
106308 TGCACTACAT
106318 GGTGCATCGATGCACTAGTGGCA
1 GGTGCATCGATGCACTAGTGGCA
106341 GGTGCATCGATGCACTAGTGGCA
1 GGTGCATCGATGCACTAGTGGCA
*
106364 GGTGCATGGATGCACT
1 GGTGCATCGATGCACT
106380 GCAGGGGTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.23
Consensus pattern (23 bp):
GGTGCATCGATGCACTAGTGGCA
Found at i:107224 original size:13 final size:13
Alignment explanation
Indices: 107206--107231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107196 ATAGTTGAAA
107206 AGTCTTCATATGC
1 AGTCTTCATATGC
107219 AGTCTTCATATGC
1 AGTCTTCATATGC
107232 GCATCTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
AGTCTTCATATGC
Found at i:111689 original size:18 final size:19
Alignment explanation
Indices: 111666--111704 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
111656 AAGGAATTAA
*
111666 ATAAAATTAA-ATTAAAAT
1 ATAAAATAAAGATTAAAAT
111684 ATAAAATAAAGGATTAAAAT
1 ATAAAATAAA-GATTAAAAT
111704 A
1 A
111705 AAAGATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAAATAAAGATTAAAAT
Found at i:111704 original size:36 final size:35
Alignment explanation
Indices: 111654--111724 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
111644 TTAATGGAAT
* *
111654 TAAAGGAATTAAATAAAATTAAATTAAAATATAAAA
1 TAAAGGAATTAAATAAAA-GAAATCAAAATATAAAA
*
111690 TAAAGG-ATTAAAATAAAAGATATCAAAATATAAAA
1 TAAAGGAATT-AAATAAAAGAAATCAAAATATAAAA
111725 CTCAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.25
Consensus pattern (35 bp):
TAAAGGAATTAAATAAAAGAAATCAAAATATAAAA
Found at i:112886 original size:3 final size:3
Alignment explanation
Indices: 112871--112916 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
112861 TAAATACACT
* *
112871 TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
112917 TTTTTTAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:113282 original size:91 final size:91
Alignment explanation
Indices: 113174--113345 Score: 274
Period size: 91 Copynumber: 1.9 Consensus size: 91
113164 GATAGATCGA
* *
113174 ACAAGCTCTTCTCATTATGAACTTCTTCT-TCCTCATTGGATGAGATCTTCTCATTATGAGCTCT
1 ACAAGCTCTTCTCATTATGAACTTATTCTCT-CTCATTGGATGAGATCTTCTCATTATGAACTCT
113238 CCATTGAAAATGTTGATGCGAAGTTGG
65 CCATTGAAAATGTTGATGCGAAGTTGG
* * *
113265 ACAAGTTCTTCTCATTATGAACTTATTCTCTCTCATTGGATGAGTTCTTCTTATTATGAACTCTC
1 ACAAGCTCTTCTCATTATGAACTTATTCTCTCTCATTGGATGAGATCTTCTCATTATGAACTCTC
*
113330 CATTGGAAATGTTGAT
66 CATTGAAAATGTTGAT
113346 CCATCTCTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
91 73 0.99
92 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (91 bp):
ACAAGCTCTTCTCATTATGAACTTATTCTCTCTCATTGGATGAGATCTTCTCATTATGAACTCTC
CATTGAAAATGTTGATGCGAAGTTGG
Found at i:114467 original size:14 final size:12
Alignment explanation
Indices: 114448--114496 Score: 62
Period size: 12 Copynumber: 3.8 Consensus size: 12
114438 TCTCAAACCC
114448 TCATTTTTCTCTTT
1 TCATTTTT-T-TTT
114462 TCATTTTTTTATT
1 TCATTTTTTT-TT
*
114475 TCTTTTTTTTTT
1 TCATTTTTTTTT
114487 TCATTTTTTT
1 TCATTTTTTT
114497 CATCTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 12 0.38
13 12 0.38
14 8 0.25
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (12 bp):
TCATTTTTTTTT
Found at i:114480 original size:9 final size:9
Alignment explanation
Indices: 114459--114520 Score: 62
Period size: 9 Copynumber: 7.3 Consensus size: 9
114449 CATTTTTCTC
114459 TTTTCATTT
1 TTTTCATTT
114468 TTTT-ATTT
1 TTTTCATTT
114476 CTTTT--TTT
1 -TTTTCATTT
114484 TTTTCATTT
1 TTTTCATTT
*
114493 TTTTCATCT
1 TTTTCATTT
114502 TTTT-ATTT
1 TTTTCATTT
*
114510 ATTTC-TTT
1 TTTTCATTT
114518 TTT
1 TTT
114521 CTTCAAGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
7 4 0.09
8 18 0.40
9 23 0.51
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTCATTT
Found at i:114487 original size:25 final size:25
Alignment explanation
Indices: 114459--114520 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
114449 CATTTTTCTC
114459 TTTTCATTTTTTT-ATTTCTTTTT-TT
1 TTTTCATTTTTTTCA--TCTTTTTATT
114484 TTTTCATTTTTTTCATCTTTTTATT
1 TTTTCATTTTTTTCATCTTTTTATT
114509 TATTTC-TTTTTT
1 T-TTTCATTTTTT
114521 CTTCAAGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 7 0.21
25 22 0.65
26 5 0.15
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTCATTTTTTTCATCTTTTTATT
Found at i:114498 original size:34 final size:36
Alignment explanation
Indices: 114459--114525 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 36
114449 CATTTTTCTC
* *
114459 TTTTCATTTTTTTATTTCTTT-TTTTTT-TTCATTT
1 TTTTCATCTTTTTATTTATTTCTTTTTTCTTCATTT
114493 TTTTCATCTTTTTATTTATTTCTTTTTTCTTCA
1 TTTTCATCTTTTTATTTATTTCTTTTTTCTTCA
114526 AGCATAGTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 19 0.66
35 6 0.21
36 4 0.14
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (36 bp):
TTTTCATCTTTTTATTTATTTCTTTTTTCTTCATTT
Found at i:114521 original size:24 final size:23
Alignment explanation
Indices: 114459--114521 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
114449 CATTTTTCTC
*
114459 TTTTCATTTTTTTATTTCTTTTTTT
1 TTTTCATTTTTTCA--TCTTTTTTT
114484 TTTTCATTTTTTTCATCTTTTTATT
1 TTTTCA-TTTTTTCATCTTTTT-TT
114509 TATTTC-TTTTTTC
1 T-TTTCATTTTTTC
114522 TTCAAGCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 14 0.41
25 9 0.26
26 11 0.32
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTCATTTTTTCATCTTTTTTT
Found at i:127085 original size:18 final size:19
Alignment explanation
Indices: 127062--127100 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
127052 AAGGAATTGA
*
127062 ATAAAATTAA-ATTAAAAT
1 ATAAAATAAAGATTAAAAT
127080 ATAAAATAAAGGATTAAAAT
1 ATAAAATAAA-GATTAAAAT
127100 A
1 A
127101 AAAGATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAAATAAAGATTAAAAT
Found at i:128283 original size:3 final size:3
Alignment explanation
Indices: 128268--128319 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
128258 TAAACACACT
* *
128268 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
128315 TAA TA
1 TAA TA
128320 TTTTTTAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:129244 original size:20 final size:20
Alignment explanation
Indices: 129219--129266 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
129209 TCATTTAATG
129219 TAAAATTATCAATTTACCCT
1 TAAAATTATCAATTTACCCT
*
129239 TAAAATTATCAATTTACCTT
1 TAAAATTATCAATTTACCCT
129259 TAAAATTA
1 TAAAATTA
129267 AATATCTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAATTATCAATTTACCCT
Found at i:140287 original size:23 final size:23
Alignment explanation
Indices: 140261--140307 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
140251 TTCGGGGGGG
140261 CCTTAGCCCCCTTAATTGACTTT
1 CCTTAGCCCCCTTAATTGACTTT
140284 CCTTAGCCCCCTTAATTGACTTT
1 CCTTAGCCCCCTTAATTGACTTT
140307 C
1 C
140308 AACAATCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.36, G:0.09, T:0.38
Consensus pattern (23 bp):
CCTTAGCCCCCTTAATTGACTTT
Found at i:142135 original size:16 final size:17
Alignment explanation
Indices: 142104--142138 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
142094 CGTATCGCTG
*
142104 ACAAAATTTTACTATTC
1 ACAAAATTTCACTATTC
142121 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
142137 AC
1 AC
142139 GTAAATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:142635 original size:22 final size:22
Alignment explanation
Indices: 142604--142664 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
142594 ATTCGGTGCC
142604 CCCCTTAATTGACTTTCCTTAA
1 CCCCTTAATTGACTTTCCTTAA
*
142626 CCTCTTAATTGACTTTCCTTAA
1 CCCCTTAATTGACTTTCCTTAA
142648 CCCCTTAATTGACTTTC
1 CCCCTTAATTGACTTTC
142665 AACAAGTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.43
Consensus pattern (22 bp):
CCCCTTAATTGACTTTCCTTAA
Found at i:144511 original size:17 final size:18
Alignment explanation
Indices: 144489--144529 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
144479 TCTGGTTTAT
144489 ATTTTAAGTAAAATA-GC
1 ATTTTAAGTAAAATATGC
144506 ATTTT-A-TAAAATATGC
1 ATTTTAAGTAAAATATGC
144522 A-TTTAAGT
1 ATTTTAAGT
144530 TTCACAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 10 0.48
16 5 0.24
17 6 0.29
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (18 bp):
ATTTTAAGTAAAATATGC
Found at i:144560 original size:2 final size:2
Alignment explanation
Indices: 144553--144577 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
144543 CACATTTACC
144553 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 A
144578 ATTCAGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:152938 original size:15 final size:15
Alignment explanation
Indices: 152918--153273 Score: 71
Period size: 15 Copynumber: 23.9 Consensus size: 15
152908 AATTAAAAAA
152918 ATAATATATATATAT
1 ATAATATATATATAT
152933 ATAATATA-AGT-T-T
1 ATAATATATA-TATAT
152946 AT-ATATA-ACTATAT
1 ATAATATATA-TATAT
*
152960 ATAAAACTATAT-TAT
1 ATAATA-TATATATAT
*
152975 ATAATAAACTATATA-
1 ATAATATA-TATATAT
*
152990 ATTAT-TATAAGCTATAT
1 ATAATATAT-A--TATAT
* *
153007 ATAA-ATTATGTTTAT
1 ATAATA-TATATATAT
*
153022 GTGAACTATATATATAT
1 AT-AA-TATATATATAT
* *
153039 ATAA-AAACTATGTAT
1 ATAATATA-TATATAT
*
153054 ATAA-ACTATATATGT
1 ATAATA-TATATATAT
*
153069 ATAA-A-CTATA-A-
1 ATAATATATATATAT
* *
153080 A-AAT-TATCTAGTTT
1 ATAATATATATA-TAT
* *
153094 ATAAAATATAATTTAT
1 ATAATATAT-ATATAT
*
153110 ATTAATATAT-TTTAT
1 A-TAATATATATATAT
*
153125 AAAATATATATATTAAT
1 ATAATATATATA-T-AT
*
153142 ATAGTATATATATAT
1 ATAATATATATATAT
*
153157 ATATATAAACTATATAT
1 ATA-ATATA-TATATAT
* *
153174 GTAA-ACTATATAAAAT
1 ATAATA-TATAT-ATAT
* * *
153190 ATACTTTATAAAT-T
1 ATAATATATATATAT
*
153204 ATAATTTATAT-TAAT
1 ATAATATATATAT-AT
* *
153219 ATAATATATGTATGT
1 ATAATATATATATAT
153234 ATAAT-TA-ATATA-
1 ATAATATATATATAT
* *
153246 AGTAATCTATAGA-AT
1 A-TAATATATATATAT
153261 AT-ATATATATATA
1 ATAATATATATATA
153274 GTTTAAAAAA
Statistics
Matches: 245, Mismatches: 52, Indels: 89
0.63 0.13 0.23
Matches are distributed among these distances:
10 2 0.01
11 4 0.02
12 8 0.03
13 24 0.10
14 35 0.14
15 90 0.37
16 37 0.15
17 41 0.17
18 4 0.02
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (15 bp):
ATAATATATATATAT
Found at i:152999 original size:18 final size:17
Alignment explanation
Indices: 152947--153007 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
152937 TATAAGTTTA
152947 TATATAACTATATATAAAAC
1 TATATAA-TAT-TAT-AAAC
* *
152967 TATATTATATAATAAAC
1 TATATAATATTATAAAC
*
152984 TATATAATTATTATAAGC
1 TATATAA-TATTATAAAC
153002 TATATA
1 TATATA
153008 TAAATTATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 10 0.29
18 16 0.46
19 3 0.09
20 6 0.17
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.41
Consensus pattern (17 bp):
TATATAATATTATAAAC
Found at i:153059 original size:13 final size:13
Alignment explanation
Indices: 153034--153185 Score: 80
Period size: 13 Copynumber: 11.5 Consensus size: 13
153024 GAACTATATA
*
153034 TATATATAAAAAC
1 TATATATATAAAC
*
153047 TATGTATATAAAC
1 TATATATATAAAC
153060 TATATATGTATAAAC
1 TATATA--TATAAAC
* * * *
153075 TATAAAAATTATC
1 TATATATATAAAC
*
153088 TAGT-T-TATAAAA
1 TA-TATATATAAAC
*
153100 TATAATTTATATTAA-
1 TAT-A--TATATAAAC
* *
153115 TATATTTTATAAAA
1 TATA-TATATAAAC
*
153129 TATATATATTAA-
1 TATATATATAAAC
*
153141 TATAGTATATATA-
1 TATA-TATATAAAC
153154 TATATATATAAAC
1 TATATATATAAAC
*
153167 TATATATGTAAAC
1 TATATATATAAAC
153180 TATATA
1 TATATA
153186 AAATATACTT
Statistics
Matches: 107, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
11 1 0.01
12 16 0.15
13 63 0.59
14 6 0.06
15 16 0.15
16 5 0.05
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:153124 original size:29 final size:26
Alignment explanation
Indices: 153091--153221 Score: 83
Period size: 26 Copynumber: 5.0 Consensus size: 26
153081 AATTATCTAG
153091 TTTATAAAATATAATTTATATTAATATAT
1 TTTATAAAATAT-A--TATATTAATATAT
*
153120 TTTATAAAATATATATATTAATATAG
1 TTTATAAAATATATATATTAATATAT
* * *
153146 TATAT-ATATATATATATAAACTATA-
1 TTTATAAAATATATATATTAA-TATAT
* * * *
153171 TATGTAAACTATATA-A--AATATAC
1 TTTATAAAATATATATATTAATATAT
*
153194 TTTATAAATTATAATTTATATTAATATA
1 TTTATAAA--AT-ATATATATTAATATA
153222 ATATATGTAT
Statistics
Matches: 82, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
22 4 0.05
23 8 0.10
25 19 0.23
26 31 0.38
27 1 0.01
28 1 0.01
29 18 0.22
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTATAAAATATATATATTAATATAT
Found at i:153133 original size:14 final size:14
Alignment explanation
Indices: 153091--153133 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
153081 AATTATCTAG
*
153091 TTTATAAAATATAA
1 TTTATAAAATATAT
*
153105 TTTATATTAATATAT
1 TTTATA-AAATATAT
153120 TTTATAAAATATAT
1 TTTATAAAATATAT
153134 ATATTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTATAAAATATAT
Found at i:153170 original size:19 final size:18
Alignment explanation
Indices: 153093--153173 Score: 59
Period size: 17 Copynumber: 4.7 Consensus size: 18
153083 TTATCTAGTT
*
153093 TATAAA-ATATA-ATTTA
1 TATAAATATATATATTAA
*
153109 TATTAATATAT-T-TT-A
1 TATAAATATATATATTAA
153124 TA-AAATATATATATTAA
1 TATAAATATATATATTAA
*
153141 TAT-AGTATATATATATATA
1 TATAAATATATATAT-TA-A
153160 TATAAACTATATAT
1 TATAAA-TATATAT
153174 GTAAACTATA
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
14 7 0.14
15 4 0.08
16 9 0.18
17 17 0.33
18 2 0.04
19 4 0.08
20 1 0.02
21 7 0.14
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (18 bp):
TATAAATATATATATTAA
Found at i:153185 original size:2 final size:2
Alignment explanation
Indices: 153128--153173 Score: 51
Period size: 2 Copynumber: 23.0 Consensus size: 2
153118 ATTTTATAAA
*
153128 AT AT AT AT AT -T A- AT AT AGT AT AT AT AT AT AT AT AT AA ACT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT
153170 AT AT
1 AT AT
153174 GTAAACTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
1 2 0.05
2 33 0.87
3 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:153303 original size:31 final size:30
Alignment explanation
Indices: 153268--153347 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 30
153258 AATATATATA
153268 TATATAGTTTAAAAAAACAATA-TGAATAAAC
1 TATATAGTTTAAAAAAACAA-AGT-AATAAAC
* * * *
153299 TATATACTTTAAAATATATAAAGTAATAAAG
1 TATATAGTTTAAAA-AAACAAAGTAATAAAC
*
153330 TATATAGTTTATAAAAAC
1 TATATAGTTTAAAAAAAC
153348 CCTAAACCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
30 2 0.05
31 32 0.82
32 5 0.13
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (30 bp):
TATATAGTTTAAAAAAACAAAGTAATAAAC
Found at i:153561 original size:24 final size:24
Alignment explanation
Indices: 153501--153561 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
153491 TAGTTAATAT
* *
153501 ATGTAACCTATAGTATATGTATAC
1 ATGTAAACTATATTATATGTATAC
153525 ATGTAAACTATATTATATGTATAC
1 ATGTAAACTATATTATATGTATAC
153549 ATGTAAACTATAT
1 ATGTAAACTATAT
153562 AAGTAACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (24 bp):
ATGTAAACTATATTATATGTATAC
Found at i:153608 original size:20 final size:20
Alignment explanation
Indices: 153580--153619 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
153570 TATAGTACAT
* *
153580 GTATGTATAAACTATGTATA
1 GTATATATAAACTATATATA
153600 GTATATATAAACTATATATA
1 GTATATATAAACTATATATA
153620 TACAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:153757 original size:28 final size:28
Alignment explanation
Indices: 153725--153791 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
153715 TAGTTTATAA
* * *
153725 AAACCTTAAACCCTAAATCTTAAATCAT
1 AAACCATAAACCCAAAATCATAAATCAT
* *
153753 AAACCATGAACCCAAAATCATAAATCTT
1 AAACCATAAACCCAAAATCATAAATCAT
153781 AAACCATAAAC
1 AAACCATAAAC
153792 ATTAAACCCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.51, C:0.25, G:0.01, T:0.22
Consensus pattern (28 bp):
AAACCATAAACCCAAAATCATAAATCAT
Found at i:153800 original size:35 final size:35
Alignment explanation
Indices: 153738--153805 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
153728 CCTTAAACCC
* *
153738 TAAATCTTAAATCATAAACCATGAACCCAAAATCA
1 TAAATCTTAAACCATAAACCATAAACCCAAAATCA
*
153773 TAAATCTTAAACCATAAA-CATTAAACCCTAAAT
1 TAAATCTTAAACCATAAACCA-TAAACCCAAAAT
153806 ATTATACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 2 0.07
35 27 0.93
ACGTcount: A:0.51, C:0.22, G:0.01, T:0.25
Consensus pattern (35 bp):
TAAATCTTAAACCATAAACCATAAACCCAAAATCA
Found at i:153897 original size:35 final size:36
Alignment explanation
Indices: 153827--153900 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
153817 ACAATAATTA
* *
153827 ATATATGTAACTTATAGTATATGTATATATGTAAACT
1 ATATATCTAACTTATAGTACATGTATATA-GTAAACT
*
153864 ATATATCTAACTTATAGTACATGTATGTA-TAAACT
1 ATATATCTAACTTATAGTACATGTATATAGTAAACT
153899 AT
1 AT
153901 GTATAGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 8 0.24
37 26 0.76
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (36 bp):
ATATATCTAACTTATAGTACATGTATATAGTAAACT
Found at i:154020 original size:22 final size:22
Alignment explanation
Indices: 153995--154097 Score: 90
Period size: 22 Copynumber: 4.8 Consensus size: 22
153985 TTTATAATCA
*
153995 ATAGTTTATATTAGTGTACTAT
1 ATAGTTTATATTAATGTACTAT
* * *
154017 ATAGTTTATACTTTAT-AAC-CT
1 ATAGTTTATA-TTAATGTACTAT
* *
154038 ATAG--TATA-TAATTTACAAACT
1 ATAGTTTATATTAATGTAC-TA-T
154059 ATAGTTTATATTAATGTACTAT
1 ATAGTTTATATTAATGTACTAT
154081 ATAGTTTATATTAATGT
1 ATAGTTTATATTAATGT
154098 TAATTATCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
17 3 0.05
18 2 0.03
19 4 0.06
21 10 0.16
22 30 0.47
23 8 0.12
24 7 0.11
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (22 bp):
ATAGTTTATATTAATGTACTAT
Found at i:154042 original size:21 final size:21
Alignment explanation
Indices: 154016--154068 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
154006 TAGTGTACTA
* * *
154016 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTACAAAC
*
154037 TATAGTATATAATTTACAAAC
1 TATAGTTTATAATTTACAAAC
154058 TATAGTTTATA
1 TATAGTTTATA
154069 TTAATGTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (21 bp):
TATAGTTTATAATTTACAAAC
Found at i:154048 original size:57 final size:61
Alignment explanation
Indices: 153975--154090 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 61
153965 AATATATATG
* *
153975 TAACCTATAGTTTATAA-T-C-A-ATAGTTTATATTAGTGTACTATATAGTTTATACTTTA
1 TAACCTATAGTATATAATTACAACATAGTTTATATTAATGTACTATATAGTTTATACTTTA
154032 TAACCTATAGTATATAATTTACAAACTATAGTTTATATTAATGTACTATATAGTTTATA
1 TAACCTATAGTATATAA-TTAC-AAC-ATAGTTTATATTAATGTACTATATAGTTTATA
154091 TTAATGTTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
57 16 0.32
59 1 0.02
60 1 0.02
62 1 0.02
64 31 0.62
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.46
Consensus pattern (61 bp):
TAACCTATAGTATATAATTACAACATAGTTTATATTAATGTACTATATAGTTTATACTTTA
Found at i:154160 original size:65 final size:64
Alignment explanation
Indices: 154087--154208 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 64
154077 CTATATAGTT
* * * *
154087 TATATTAATGTTAATTATCTTAACTATAATTTATATTAA-TATAGTATATAGTTTATAAACTTTA
1 TATATTAATATTAATTATATTAACTATAATTTATA--AACTATACTATATAATTTATAAACTTTA
154151 C
64 C
*
154152 TATATTAATATTAATTATATTAACTATAGTTTATAAACTATACTATATAATTTATAA
1 TATATTAATATTAATTATATTAACTATAATTTATAAACTATACTATATAATTTATAA
154209 CATATAGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
63 2 0.04
64 17 0.33
65 32 0.63
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (64 bp):
TATATTAATATTAATTATATTAACTATAATTTATAAACTATACTATATAATTTATAAACTTTAC
Found at i:154183 original size:43 final size:40
Alignment explanation
Indices: 154109--154221 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 40
154099 AATTATCTTA
* *
154109 ACTATAATTTATATTAATATAGTATATAGTTTATAAACTTT
1 ACTAT-ATTAATATTAATATAGTATATAGTTTATAAACTAT
*
154150 ACTATATTAATATTAATTATATTAACTATAGTTTATAAACTAT
1 ACTATATTAATATTAA-TATAGT-A-TATAGTTTATAAACTAT
*
154193 ACTATA-TAAT-TT-ATA-A-CATATAGTTTATA
1 ACTATATTAATATTAATATAGTATATAGTTTATA
154222 TTAATATTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
35 11 0.17
36 1 0.02
38 1 0.02
39 2 0.03
40 11 0.17
41 12 0.18
42 5 0.08
43 22 0.34
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (40 bp):
ACTATATTAATATTAATATAGTATATAGTTTATAAACTAT
Found at i:154251 original size:31 final size:30
Alignment explanation
Indices: 154152--154264 Score: 113
Period size: 31 Copynumber: 3.5 Consensus size: 30
154142 TAAACTTTAC
154152 TATATTAATATTAATTATATTAAC-TATAGTT
1 TATATTAATATTAATT-TA-TAACATATAGTT
*
154183 TATAAACTATACTATATAATTTATAACATATAGTT
1 TAT--A-T-TAATAT-TAATTTATAACATATAGTT
*
154218 TATATTAATATTAATGTTATAGAC-TATATTT
1 TATATTAATATTAAT-TTATA-ACATATAGTT
154249 TATATTAATATTAATT
1 TATATTAATATTAATT
154265 ACAAATTATA
Statistics
Matches: 71, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
30 5 0.07
31 34 0.48
32 3 0.04
33 2 0.03
34 5 0.07
35 17 0.24
36 5 0.07
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (30 bp):
TATATTAATATTAATTTATAACATATAGTT
Found at i:154274 original size:153 final size:146
Alignment explanation
Indices: 154023--154321 Score: 304
Period size: 153 Copynumber: 2.0 Consensus size: 146
154013 CTATATAGTT
* *
154023 TATACTTTATAACCTATAGTATATAATTTACAAACTATAGTTTATATTAATGTACTATATAGTTT
1 TATACTTTATAAACTATACTATATAATTTACAAACTATAGTTTATATTAA-GTACTATATAGTTT
* * * * * * *
154088 ATATTAATGTTAATTATCTTAACTATAATTTATATTAA-TATAGTATATAGTTTATA-AACTTTA
65 AGACTAATGTTAATTATATTAACTACAAATTATA--AACTATA-T-TATA-TTAATATAA-GTTA
154151 CTATATTAATATTAATTATATTAAC
124 --ATATTAATATTAATTATATTAAC
* * *
154176 TATAGTTTATAAACTATACTATATAATTTA-TAACATATAGTTTATATTAA-TATTA-AT-GTTA
1 TATACTTTATAAACTATACTATATAATTTACAAAC-TATAGTTTATATTAAGTACTATATAGTT-
* *
154237 TAGACTATATTTTATATTAATATTAATTACAAATTATAAACTATATTATATTAATATAAGTTAAT
64 TAGACTA-ATGTTA-ATT-ATATTAACTACAAATTATAAACTATATTATATTAATATAAGTTAAT
154302 ATTAATATTAATTATATTAA
126 ATTAATATTAATTATATTAA
154322 TATTAATTAT
Statistics
Matches: 125, Mismatches: 14, Indels: 20
0.79 0.09 0.13
Matches are distributed among these distances:
147 22 0.18
149 11 0.09
150 13 0.10
151 12 0.10
152 10 0.08
153 57 0.46
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (146 bp):
TATACTTTATAAACTATACTATATAATTTACAAACTATAGTTTATATTAAGTACTATATAGTTTA
GACTAATGTTAATTATATTAACTACAAATTATAAACTATATTATATTAATATAAGTTAATATTAA
TATTAATTATATTAAC
Found at i:154306 original size:6 final size:6
Alignment explanation
Indices: 154279--154394 Score: 61
Period size: 6 Copynumber: 19.3 Consensus size: 6
154269 ATTATAAACT
*
154279 ATATT- ATATTA ATA-TA A-GTTA ATATTA ATATT- A-ATT- ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
*
154321 ATATTA AT-TATA TTAATT- ATATTA ATATTA AT-TATA ATATATA ATTATTTTA
1 ATATTA ATAT-TA AT-ATTA ATATTA ATATTA ATAT-TA ATAT-TA A-TA--TTA
*
154373 ATATTA ATTATAA ATAGTTA AT
1 ATATTA A-TATTA ATA-TTA AT
154395 TAATAAAAAT
Statistics
Matches: 89, Mismatches: 6, Indels: 30
0.71 0.05 0.24
Matches are distributed among these distances:
4 4 0.04
5 20 0.22
6 41 0.46
7 15 0.17
8 5 0.06
9 3 0.03
10 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:154320 original size:9 final size:9
Alignment explanation
Indices: 154306--154346 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
154296 GTTAATATTA
154306 ATATTAATT
1 ATATTAATT
154315 ATATT-A--
1 ATATTAATT
154321 ATATTAATT
1 ATATTAATT
154330 ATATTAATT
1 ATATTAATT
154339 ATATTAAT
1 ATATTAAT
154347 ATTAATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 5 0.17
7 1 0.03
8 1 0.03
9 22 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATATTAATT
Found at i:154382 original size:15 final size:15
Alignment explanation
Indices: 154248--154396 Score: 113
Period size: 15 Copynumber: 10.2 Consensus size: 15
154238 AGACTATATT
154248 TTATATTAATATTAA
1 TTATATTAATATTAA
* * *
154263 TTACAAATTATAAACTATA
1 TT--ATATTA-ATATTA-A
154282 TTATATTAATA-TAA
1 TTATATTAATATTAA
154296 GTTAATATTAATATTAA
1 -TT-ATATTAATATTAA
154313 TTATATT-A-A-T-A
1 TTATATTAATATTAA
154324 TTA-ATT-ATATTAA
1 TTATATTAATATTAA
154337 TTATATTAATATTAA
1 TTATATTAATATTAA
*
154352 TTATAAT-ATA-TAA
1 TTATATTAATATTAA
*
154365 TTATTTTAATATTAA
1 TTATATTAATATTAA
154380 TTATA--AATAGTTAA
1 TTATATTAATA-TTAA
154394 TTA
1 TTA
154397 ATAAAAATTA
Statistics
Matches: 110, Mismatches: 9, Indels: 31
0.73 0.06 0.21
Matches are distributed among these distances:
10 4 0.04
11 5 0.05
12 2 0.02
13 17 0.15
14 18 0.16
15 31 0.28
16 13 0.12
17 13 0.12
18 4 0.04
19 3 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (15 bp):
TTATATTAATATTAA
Found at i:154397 original size:24 final size:25
Alignment explanation
Indices: 154310--154408 Score: 112
Period size: 24 Copynumber: 3.9 Consensus size: 25
154300 ATATTAATAT
*
154310 TAATTATATTAATATTAATTAT-AT
1 TAATTATATTAATATTAATTATAAA
154334 TAATTATATTAATATTAATTATAATATA
1 TAATTATATTAATATTAATTAT-A-A-A
*
154362 TAATTATTTTAATATTAATTATAAA
1 TAATTATATTAATATTAATTATAAA
* **
154387 TAGTTA-ATTAATAAAAATTATA
1 TAATTATATTAATATTAATTATA
154409 TAGTGATGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
24 35 0.54
25 6 0.09
26 1 0.02
27 2 0.03
28 21 0.32
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
TAATTATATTAATATTAATTATAAA
Found at i:154406 original size:52 final size:51
Alignment explanation
Indices: 154304--154408 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 51
154294 AAGTTAATAT
* **
154304 TAATATTAATTATATTAATATTAATTATATTAATTATATTAATATTAATTA
1 TAATATTAATTATATTAATATTAATTATAATAATTATATTAATAAAAATTA
* *
154355 TAATATATAATTATTTTAATATTAATTATAAATAGTTA-ATTAATAAAAATTA
1 TAATAT-TAATTATATTAATATTAATTAT-AATAATTATATTAATAAAAATTA
154407 TA
1 TA
154409 TAGTGATGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
51 6 0.13
52 35 0.74
53 6 0.13
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (51 bp):
TAATATTAATTATATTAATATTAATTATAATAATTATATTAATAAAAATTA
Found at i:154709 original size:21 final size:22
Alignment explanation
Indices: 154685--154728 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
154675 TCATCTGTGT
*
154685 TCTTCATTT-TCTTTGAAAAAA
1 TCTTCATTTATCTTTAAAAAAA
154706 TCTTCATTTGATCTTTAAAAAAA
1 TCTTCATTT-ATCTTTAAAAAAA
154729 CCAAATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (22 bp):
TCTTCATTTATCTTTAAAAAAA
Found at i:154787 original size:10 final size:10
Alignment explanation
Indices: 154772--154796 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
154762 CACACGAAAT
154772 TTCATCCTTG
1 TTCATCCTTG
154782 TTCATCCTTG
1 TTCATCCTTG
154792 TTCAT
1 TTCAT
154797 ACCAAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.28, G:0.08, T:0.52
Consensus pattern (10 bp):
TTCATCCTTG
Found at i:155166 original size:6 final size:6
Alignment explanation
Indices: 155143--155192 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
155133 CTAAAACCTA
* * * * *
155143 AACCCA AACCCA AACCCG AACCCG AATCTG AACCCG AATCCG AACCCG
1 AACCCG AACCCG AACCCG AACCCG AACCCG AACCCG AACCCG AACCCG
155191 AA
1 AA
155193 TCCAAAATCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.40, C:0.42, G:0.12, T:0.06
Consensus pattern (6 bp):
AACCCG
Found at i:155175 original size:12 final size:12
Alignment explanation
Indices: 155158--155195 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
155148 AAACCCAAAC
155158 CCGAACCCGAAT
1 CCGAACCCGAAT
*
155170 CTGAACCCGAAT
1 CCGAACCCGAAT
155182 CCGAACCCGAAT
1 CCGAACCCGAAT
155194 CC
1 CC
155196 AAAATCTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.32, C:0.42, G:0.16, T:0.11
Consensus pattern (12 bp):
CCGAACCCGAAT
Found at i:155176 original size:24 final size:24
Alignment explanation
Indices: 155149--155194 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
155139 CCTAAACCCA
155149 AACCCAAACCCGAACCCGAATCTG
1 AACCCAAACCCGAACCCGAATCTG
* *
155173 AACCCGAATCCGAACCCGAATC
1 AACCCAAACCCGAACCCGAATC
155195 CAAAATCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.41, G:0.13, T:0.09
Consensus pattern (24 bp):
AACCCAAACCCGAACCCGAATCTG
Found at i:157365 original size:330 final size:330
Alignment explanation
Indices: 156764--157427 Score: 1148
Period size: 330 Copynumber: 2.0 Consensus size: 330
156754 TCTTGAGCTT
* * *
156764 TTTTTATGAAATTACTACTTTGTTCTCTGGTTCTAAGTATCCCACTTCTAGCTTGTATTTGGCTA
1 TTTTTATGAAATTACTACTCTGTTATCTGGTTCTAAGTATCCCACTTCTAACTTGTATTTGGCTA
156829 CCGTTGTTGCAATTGAGAAATTGTTGTGTGATACTCATAATGATCCTTGTGAAGGTATTTCTACA
66 CCGTTGTTGCAATTGAGAAATTGTTGTGTGATACTCATAATGATCCTTGTGAAGGTATTTCTACA
*
156894 ATGGCAGGACCCATGCTTGAACTATATGAGAAATATTGGTCTGATCACTCTATGATTCTGTCTTT
131 ATGGCAGGACCCATGCTTGAACTATATGAGAAATATTGGTATGATCACTCTATGATTCTGTCTTT
*
156959 TGCTATTTTACTTGATCCTCGATATAAATTACAACTTAGTAAGGAGTTGTATAATGTTCTTTATG
196 TGCTATTTTACTTGATCCTCGATATAAATTACAACTTAGTAAGGAGTTGTACAATGTTCTTTATG
* * **
157024 TTGAGGATGAGGTTAAACGGAGGGTAAGTGTAACAACCCAATTATCGGGTCAGTAACCAAAATGT
261 TTGAGGATGAGGTTAAACAGAGGGTAAGTATAACAACCCAATTATCGGGTCAGTAACCAAAATAA
157089 AAGAC
326 AAGAC
157094 TTTTTATGAAATTACTACTCTGTTATCTGGTTCTAAGTATCCCACTTCTAACTTGTATTTGGCTA
1 TTTTTATGAAATTACTACTCTGTTATCTGGTTCTAAGTATCCCACTTCTAACTTGTATTTGGCTA
* *
157159 CCGTTGTTGCAATTGAGAAATTGTTGTGTGATGCTCATAATGATCCTTGTGAAGGTATTTCTGCA
66 CCGTTGTTGCAATTGAGAAATTGTTGTGTGATACTCATAATGATCCTTGTGAAGGTATTTCTACA
*
157224 ATGGCATGACCCATGCTTGAACTATATGAGAAATATTGGTATGATCACTCTATGATTCTGTCTTT
131 ATGGCAGGACCCATGCTTGAACTATATGAGAAATATTGGTATGATCACTCTATGATTCTGTCTTT
* * **
157289 TGCTATTTTACTTTATCCTCGATATAAATTACAATTTCTTAAGGAGTTGTACAATGTTCTTTATG
196 TGCTATTTTACTTGATCCTCGATATAAATTACAACTTAGTAAGGAGTTGTACAATGTTCTTTATG
* * **
157354 TTGAGGATGAGGTTCAACAGAGGGTAATTATAACAACCCAATTATCGGGTCAGTGGCCAAAATAA
261 TTGAGGATGAGGTTAAACAGAGGGTAAGTATAACAACCCAATTATCGGGTCAGTAACCAAAATAA
157419 AAGAC
326 AAGAC
157424 TTTT
1 TTTT
157428 AAACTTAGTG
Statistics
Matches: 314, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
330 314 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (330 bp):
TTTTTATGAAATTACTACTCTGTTATCTGGTTCTAAGTATCCCACTTCTAACTTGTATTTGGCTA
CCGTTGTTGCAATTGAGAAATTGTTGTGTGATACTCATAATGATCCTTGTGAAGGTATTTCTACA
ATGGCAGGACCCATGCTTGAACTATATGAGAAATATTGGTATGATCACTCTATGATTCTGTCTTT
TGCTATTTTACTTGATCCTCGATATAAATTACAACTTAGTAAGGAGTTGTACAATGTTCTTTATG
TTGAGGATGAGGTTAAACAGAGGGTAAGTATAACAACCCAATTATCGGGTCAGTAACCAAAATAA
AAGAC
Found at i:158199 original size:20 final size:21
Alignment explanation
Indices: 158147--158199 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
158137 CTGTTGATAT
*
158147 TGGTATCGATA-CTGTAAGGG
1 TGGTATCGATACCTGTAAGGA
*
158167 TAGTATCGATACCTG-AAGGA
1 TGGTATCGATACCTGTAAGGA
158187 TGGTATCGATACC
1 TGGTATCGATACC
158200 CTTAAAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (21 bp):
TGGTATCGATACCTGTAAGGA
Found at i:158311 original size:54 final size:54
Alignment explanation
Indices: 158183--158313 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 54
158173 CGATACCTGA
* * * *
158183 AGGATGGTATCGATACCCTTAAAACATCGAATGCCAGATTGGTATCGGTACCTTG
1 AGGA-GGTATCGATACCCTTGAAACATCGAATACCAGATTGGTATCAGTACCATG
* * *
158238 AGGAGGTATCGATACCCTTGAAACATCGAATATC-GTTTTGGTATCAGTGCCATG
1 AGGAGGTATCGATACCCTTGAAACATCGAATACCAG-ATTGGTATCAGTACCATG
158292 AGGAGGTATCGATACCCTTGAA
1 AGGAGGTATCGATACCCTTGAA
158314 GGGTGGTATC
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 63 0.93
55 4 0.06
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (54 bp):
AGGAGGTATCGATACCCTTGAAACATCGAATACCAGATTGGTATCAGTACCATG
Found at i:158726 original size:21 final size:21
Alignment explanation
Indices: 158700--158771 Score: 126
Period size: 21 Copynumber: 3.4 Consensus size: 21
158690 ATGTTATGGA
* *
158700 AATGTGAACCTTGAACAAGTG
1 AATGTGAACTTTGAACCAGTG
158721 AATGTGAACTTTGAACCAGTG
1 AATGTGAACTTTGAACCAGTG
158742 AATGTGAACTTTGAACCAGTG
1 AATGTGAACTTTGAACCAGTG
158763 AATGTGAAC
1 AATGTGAAC
158772 AAACTCTATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (21 bp):
AATGTGAACTTTGAACCAGTG
Found at i:158930 original size:21 final size:21
Alignment explanation
Indices: 158904--159005 Score: 109
Period size: 21 Copynumber: 4.8 Consensus size: 21
158894 GTCAAGGGTT
* *
158904 TTATGTGGTCATTCAGGATAA
1 TTATGTGGTCATTCGGGACAA
158925 TTATGTGGTCATTCGGGACAA
1 TTATGTGGTCATTCGGGACAA
** *
158946 AAATGTGG-CACTTCGGTACAAA
1 TTATGTGGTCA-TTCGGGAC-AA
158968 CTTATGTGGTCATTCGGGACAA
1 -TTATGTGGTCATTCGGGACAA
158990 TTATGTGG-CACTTCGG
1 TTATGTGGTCA-TTCGG
159006 TGCAAATTAC
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.06
21 45 0.66
22 4 0.06
23 13 0.19
24 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (21 bp):
TTATGTGGTCATTCGGGACAA
Found at i:158974 original size:44 final size:44
Alignment explanation
Indices: 158925--159011 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
158915 TTCAGGATAA
158925 TTATGTGGTCATTCGGGACAAAAATGTGGCACTTCGGTACAAAC
1 TTATGTGGTCATTCGGGACAAAAATGTGGCACTTCGGTACAAAC
** *
158969 TTATGTGGTCATTCGGGACAATTATGTGGCACTTCGGTGCAAA
1 TTATGTGGTCATTCGGGACAAAAATGTGGCACTTCGGTACAAA
159012 TTACGAGCTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
TTATGTGGTCATTCGGGACAAAAATGTGGCACTTCGGTACAAAC
Found at i:160970 original size:12 final size:11
Alignment explanation
Indices: 160942--160981 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
160932 TTGAATTGAC
160942 TCAAATGTTAT
1 TCAAATGTTAT
*
160953 TCAAATTTTAT
1 TCAAATGTTAT
160964 ATCAAATGTTAT
1 -TCAAATGTTAT
*
160976 TTAAAT
1 TCAAAT
160982 TATCATTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (11 bp):
TCAAATGTTAT
Found at i:161251 original size:14 final size:14
Alignment explanation
Indices: 161232--161278 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
161222 ATTTTTTCTT
161232 TATATAAATTAAAC
1 TATATAAATTAAAC
161246 TATAT-AATT----
1 TATATAAATTAAAC
161255 TATATAAATTAAAC
1 TATATAAATTAAAC
*
161269 TATATTAATT
1 TATATAAATT
161279 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:161257 original size:23 final size:24
Alignment explanation
Indices: 161230--161279 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
161220 TTATTTTTTC
161230 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
161253 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
161277 TTT
1 TTT
161280 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:162503 original size:19 final size:18
Alignment explanation
Indices: 162462--162505 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
162452 TTTAATATAA
*
162462 ATATAATATAATTTTAAT
1 ATATATTATAATTTTAAT
*
162480 A-ATATTATATTTTTAAT
1 ATATATTATAATTTTAAT
162497 ATTATATTA
1 A-TATATTA
162506 ATATACACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 15 0.68
18 1 0.05
19 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATATTATAATTTTAAT
Found at i:162507 original size:50 final size:48
Alignment explanation
Indices: 162394--162510 Score: 116
Period size: 50 Copynumber: 2.4 Consensus size: 48
162384 ATTTTATACA
* *
162394 TTTAATATTAAATTAATAT-TTTAATATAATTTTAAGAAAAATATTAATT
1 TTTAATATTATATTAATATATATAATATAATTTT-A-AAAAATATTAATT
* * *
162443 ATTAA-AATAT-TTAATATAAATATAATATAATTTT-AATAATATTATATT
1 TTTAATATTATATTAATAT--ATATAATATAATTTTAAAAAATATTA-ATT
162491 TTTAATATTATATTAATATA
1 TTTAATATTATATTAATATA
162511 CACTCAGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
47 16 0.29
48 11 0.20
49 8 0.15
50 20 0.36
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (48 bp):
TTTAATATTATATTAATATATATAATATAATTTTAAAAAATATTAATT
Found at i:162668 original size:19 final size:19
Alignment explanation
Indices: 162630--162675 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
162620 TAATAATGAG
*
162630 TAATATTAATTTATATATT
1 TAATATTAATTAATATATT
162649 TAATATTAATATAATA-ATT
1 TAATATTAAT-TAATATATT
*
162668 TAGTATTA
1 TAATATTA
162676 CGTTCATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATTAATTAATATATT
Found at i:162988 original size:29 final size:28
Alignment explanation
Indices: 162955--163062 Score: 117
Period size: 30 Copynumber: 3.6 Consensus size: 28
162945 CTCATAAAAT
162955 GTAATTCATTATACGTAAAATAATTTTAA
1 GTAATTCATT-TACGTAAAATAATTTTAA
*
162984 GTAATTCATCTTACGTAAAATAATTTTCAC
1 GTAATTCAT-TTACGTAAAATAATTTT-AA
* * *
163014 GTAATTCATTTCATGTAAAATAGTTATCAA
1 GTAATTCATTT-ACGTAAAATAATT-TTAA
*
163044 GTAATTCGTTTTACGTAAA
1 GTAATTC-ATTTACGTAAA
163063 TTATTTTCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
29 27 0.40
30 36 0.54
31 4 0.06
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (28 bp):
GTAATTCATTTACGTAAAATAATTTTAA
Found at i:163020 original size:30 final size:29
Alignment explanation
Indices: 162955--163070 Score: 128
Period size: 29 Copynumber: 3.9 Consensus size: 29
162945 CTCATAAAAT
162955 GTAATTCATTATACGTAAAATAATTTT-AA
1 GTAATTCATT-TACGTAAAATAATTTTCAA
*
162984 GTAATTCATCTTACGTAAAATAATTTTCAC
1 GTAATTCAT-TTACGTAAAATAATTTTCAA
* * *
163014 GTAATTCATTTCATGTAAAATAGTTATCAA
1 GTAATTCATTT-ACGTAAAATAATTTTCAA
* *
163044 GTAATTCGTTTTACGT-AAATTATTTTC
1 GTAATTC-ATTTACGTAAAATAATTTTC
163071 TAAAAAAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
29 35 0.48
30 35 0.48
31 3 0.04
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (29 bp):
GTAATTCATTTACGTAAAATAATTTTCAA
Found at i:163069 original size:59 final size:59
Alignment explanation
Indices: 162955--163070 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 59
162945 CTCATAAAAT
*
162955 GTAATTCATTATACGTAAAATAATTTTAAGTAATTCATCTTACGTAAAATAATTTTCAC
1 GTAATTCATTATACGTAAAATAATTTCAAGTAATTCATCTTACGTAAAATAATTTTCAC
* * * * *
163014 GTAATTCATT-TCATGTAAAATAGTTATCAAGTAATTCGTTTTACGT-AAATTATTTTC
1 GTAATTCATTAT-ACGTAAAATAATT-TCAAGTAATTCATCTTACGTAAAATAATTTTC
163071 TAAAAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 1 0.02
59 31 0.63
60 17 0.35
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (59 bp):
GTAATTCATTATACGTAAAATAATTTCAAGTAATTCATCTTACGTAAAATAATTTTCAC
Found at i:164129 original size:2 final size:2
Alignment explanation
Indices: 164118--164157 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
164108 AAAATATGTT
164118 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
164158 ATAATTTCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:166875 original size:12 final size:12
Alignment explanation
Indices: 166858--166884 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
166848 ATTTTACATT
166858 ATATATTTAGGA
1 ATATATTTAGGA
166870 ATATATTTAGGA
1 ATATATTTAGGA
166882 ATA
1 ATA
166885 ATTACAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (12 bp):
ATATATTTAGGA
Found at i:176477 original size:51 final size:51
Alignment explanation
Indices: 176399--176495 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
176389 TTATAAAAGG
*
176399 AATATTTCAATTTGGTTACTAATCCGGTATTGAGGATGTTACAAATTCCGA
1 AATATTTCAATTTGGTTACTAACCCGGTATTGAGGATGTTACAAATTCCGA
176450 AATATTTCAATTTGGTTACTAACCCGGTATTGAGGATGTTACAAAT
1 AATATTTCAATTTGGTTACTAACCCGGTATTGAGGATGTTACAAAT
176496 CTCCCCCCCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (51 bp):
AATATTTCAATTTGGTTACTAACCCGGTATTGAGGATGTTACAAATTCCGA
Found at i:176890 original size:22 final size:24
Alignment explanation
Indices: 176864--176915 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 24
176854 AATCAAAATC
176864 TTCTTATACAT-ATCATAT-CT-TT
1 TTCTTATA-ATGATCATATACTATT
*
176886 TTCTT-TAATGTTCATATACTATT
1 TTCTTATAATGATCATATACTATT
176909 TTCTTAT
1 TTCTTAT
176916 CATTTATACT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.08
21 8 0.32
22 7 0.28
23 7 0.28
24 1 0.04
ACGTcount: A:0.25, C:0.15, G:0.02, T:0.58
Consensus pattern (24 bp):
TTCTTATAATGATCATATACTATT
Found at i:179335 original size:23 final size:23
Alignment explanation
Indices: 179309--179363 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
179299 TAATGCACAA
179309 AAGTGCCATGTAGAATTACACCG
1 AAGTGCCATGTAGAATTACACCG
* ** *
179332 AAGTGTCGCGTAGAATTGCACCG
1 AAGTGCCATGTAGAATTACACCG
179355 AAGTGCCAT
1 AAGTGCCAT
179364 ATAAAATGTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (23 bp):
AAGTGCCATGTAGAATTACACCG
Found at i:184548 original size:23 final size:23
Alignment explanation
Indices: 184522--184582 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
184512 CTCGTATTAA
*
184522 TGCACCAAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
184545 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
184568 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
184583 TATAAAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:186258 original size:21 final size:21
Alignment explanation
Indices: 186228--186268 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
186218 GTTCATTTAT
186228 TTGAAAGTGCATCGATACACA
1 TTGAAAGTGCATCGATACACA
*
186249 TTGAATGTGCATCGATACAC
1 TTGAAAGTGCATCGATACAC
186269 TATGCCCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (21 bp):
TTGAAAGTGCATCGATACACA
Found at i:191688 original size:14 final size:14
Alignment explanation
Indices: 191656--191695 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
191646 AAAATATTAA
191656 AAAAATAAATAATTC
1 AAAAA-AAATAATTC
191671 -AAAAAAATAATTC
1 AAAAAAAATAATTC
*
191684 AAAAAAATTAAT
1 AAAAAAAATAAT
191696 GTAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAAAAAATAATTC
Found at i:191689 original size:12 final size:13
Alignment explanation
Indices: 191657--191691 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
191647 AAATATTAAA
191657 AAAATAAATAATTC
1 AAAA-AAATAATTC
191671 AAAAAAATAATTC
1 AAAAAAATAATTC
191684 AAAAAAAT
1 AAAAAAAT
191692 TAATGTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAAATAATTC
Found at i:193609 original size:18 final size:18
Alignment explanation
Indices: 193586--193622 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
193576 ATGCGATTCA
*
193586 TCGCATTCTGTTTGACGT
1 TCGCATTCTATTTGACGT
*
193604 TCGCATTGTATTTGACGT
1 TCGCATTCTATTTGACGT
193622 T
1 T
193623 AGGTTGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.46
Consensus pattern (18 bp):
TCGCATTCTATTTGACGT
Found at i:194813 original size:3 final size:3
Alignment explanation
Indices: 194805--194858 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
194795 CGAGACTATA
* * *
194805 TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT CA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
194851 TAT TAT TA
1 TAT TAT TA
194859 CAAAATAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:194830 original size:20 final size:20
Alignment explanation
Indices: 194805--194856 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
194795 CGAGACTATA
194805 TATTATTATTATATTACAAT
1 TATTATTATTATATTACAAT
* **
194825 TATTATTATCATATTATTAT
1 TATTATTATTATATTACAAT
194845 TATTATTATTAT
1 TATTATTATTAT
194857 TACAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATTATTATATTACAAT
Found at i:201830 original size:11 final size:11
Alignment explanation
Indices: 201814--201843 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
201804 AAAAAAGAAA
201814 AGAAGAAAAAG
1 AGAAGAAAAAG
201825 AGAAGAAAAAG
1 AGAAGAAAAAG
201836 AGAA-AAAA
1 AGAAGAAAA
201844 TGAAAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AGAAGAAAAAG
Found at i:201834 original size:28 final size:27
Alignment explanation
Indices: 201797--201850 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
201787 ATCCATCAGA
201797 AGAAGAAAAAAAAGAAAAGAA-GAAAAAG
1 AGAAG-AAAAAAAGAAAA-AATGAAAAAG
*
201825 AGAAGAAAAAGAGAAAAAATGAAAAA
1 AGAAGAAAAAAAGAAAAAATGAAAAA
201851 ATGAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 2 0.08
27 17 0.71
28 5 0.21
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (27 bp):
AGAAGAAAAAAAGAAAAAATGAAAAAG
Found at i:201851 original size:28 final size:28
Alignment explanation
Indices: 201797--201860 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
201787 ATCCATCAGA
201797 AGAAGAAAAAAAAGAAAAGAAGAAAAA-G
1 AGAAG-AAAAAAAGAAAAGAAGAAAAATG
*
201825 AGAAGAAAAAGAGAAAA-AATGAAAAAATG
1 AGAAGAAAAAAAGAAAAGAA-G-AAAAATG
201854 A-AAGAAA
1 AGAAGAAA
201861 TTGAATCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 2 0.06
27 12 0.38
28 16 0.50
29 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (28 bp):
AGAAGAAAAAAAGAAAAGAAGAAAAATG
Found at i:204068 original size:20 final size:20
Alignment explanation
Indices: 204045--204089 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
204035 TAAATCATCT
* *
204045 GGGTAATTTGTAAAACCTCC
1 GGGTAATCTGTAAAACCTCA
*
204065 GGGTCATCTGTAAAACCTCA
1 GGGTAATCTGTAAAACCTCA
204085 GGGTA
1 GGGTA
204090 GGAGTTTTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (20 bp):
GGGTAATCTGTAAAACCTCA
Found at i:204140 original size:118 final size:119
Alignment explanation
Indices: 203931--204205 Score: 437
Period size: 118 Copynumber: 2.3 Consensus size: 119
203921 TTTCCCACAG
* *
203931 ATTTGTAAAACCTCCAGGTCATCTGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATGAGAA
1 ATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAA
203996 AGCAATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCATCTGGGTA
66 AGCAATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCATCTGGGTA
204050 ATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGA-GTTTTCGCATGAAAATGAGAA
1 ATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAA
* * * * *
204114 AGCGATTTTCAATGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCTGGGTG
66 AGCAATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCATCTGGGTA
* * * *
204168 A-TTGTAAAACCTCTGGGTCATCTATAAATCCTCCGGGT
1 ATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGT
204206 GATTTGTAAA
Statistics
Matches: 145, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
117 33 0.23
118 71 0.49
119 41 0.28
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (119 bp):
ATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAA
AGCAATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCATCTGGGTA
Found at i:204200 original size:20 final size:20
Alignment explanation
Indices: 204153--204285 Score: 110
Period size: 20 Copynumber: 6.7 Consensus size: 20
204143 TCTAGAAAAT
* *
204153 TAAATCCTCTGGGTGAT-TG
1 TAAAACCTCTGGGTCATCTG
*
204172 TAAAACCTCTGGGTCATCTA
1 TAAAACCTCTGGGTCATCTG
* * * *
204192 TAAATCCTCCGGGTGATTTG
1 TAAAACCTCTGGGTCATCTG
*
204212 TAAAACCT-TCGGGTCATCTA
1 TAAAACCTCT-GGGTCATCTG
* * * *
204232 TAAATCCTCCGGGTAATTTG
1 TAAAACCTCTGGGTCATCTG
204252 TAAAACCT-TCGGGTCATCTG
1 TAAAACCTCT-GGGTCATCTG
*
204272 TAAAACCTATGGGT
1 TAAAACCTCTGGGT
204286 AGGATGTTTT
Statistics
Matches: 87, Mismatches: 22, Indels: 9
0.74 0.19 0.08
Matches are distributed among these distances:
19 15 0.17
20 71 0.82
21 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (20 bp):
TAAAACCTCTGGGTCATCTG
Found at i:204226 original size:40 final size:40
Alignment explanation
Indices: 204153--204275 Score: 196
Period size: 40 Copynumber: 3.1 Consensus size: 40
204143 TCTAGAAAAT
*
204153 TAAATCCTCTGGGTGA-TTGTAAAACC-TCTGGGTCATCTA
1 TAAATCCTCCGGGTGATTTGTAAAACCTTC-GGGTCATCTA
204192 TAAATCCTCCGGGTGATTTGTAAAACCTTCGGGTCATCTA
1 TAAATCCTCCGGGTGATTTGTAAAACCTTCGGGTCATCTA
* *
204232 TAAATCCTCCGGGTAATTTGTAAAACCTTCGGGTCATCTG
1 TAAATCCTCCGGGTGATTTGTAAAACCTTCGGGTCATCTA
204272 TAAA
1 TAAA
204276 ACCTATGGGT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
39 15 0.19
40 62 0.78
41 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (40 bp):
TAAATCCTCCGGGTGATTTGTAAAACCTTCGGGTCATCTA
Found at i:204440 original size:3 final size:3
Alignment explanation
Indices: 204432--204491 Score: 79
Period size: 3 Copynumber: 20.7 Consensus size: 3
204422 CGAGACTATA
* * *
204432 TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT CA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
204478 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
204492 CAAAATAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 3 0.06
3 46 0.94
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:204457 original size:20 final size:20
Alignment explanation
Indices: 204432--204488 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
204422 CGAGACTATA
204432 TATTATTATTATATTACAAT
1 TATTATTATTATATTACAAT
* **
204452 TATTATTATCATATTATTAT
1 TATTATTATTATATTACAAT
204472 TATTATTATTATTATTA
1 TATTATTATTA-TATTA
204489 TTACAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 27 0.84
21 5 0.16
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATTATTATATTACAAT
Found at i:207475 original size:16 final size:18
Alignment explanation
Indices: 207454--207499 Score: 69
Period size: 16 Copynumber: 2.7 Consensus size: 18
207444 TTTCAGATTA
207454 AGATTCCAATTCC-T-AC
1 AGATTCCAATTCCTTCAC
207470 AGATTCCAATTCCTTCAC
1 AGATTCCAATTCCTTCAC
*
207488 AGATACCAATTC
1 AGATTCCAATTC
207500 TCTCAGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 13 0.48
17 1 0.04
18 13 0.48
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (18 bp):
AGATTCCAATTCCTTCAC
Found at i:208323 original size:20 final size:20
Alignment explanation
Indices: 208295--208348 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
208285 ACACACCTGA
*
208295 AAAAGGAAATAAAAATAAAT
1 AAAATGAAATAAAAATAAAT
208315 AAAATGAAATAAAAATAAAT
1 AAAATGAAATAAAAATAAAT
*
208335 AAAATAAAATAAAA
1 AAAATGAAATAAAA
208349 TAATAGAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (20 bp):
AAAATGAAATAAAAATAAAT
Found at i:208348 original size:5 final size:5
Alignment explanation
Indices: 208301--208351 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
208291 CTGAAAAAGG
*
208301 AAATA AAA-A TAAATA AAATG AAATA AAA-A TAAATA AAATA AAATA AAATA
1 AAATA AAATA -AAATA AAATA AAATA AAATA -AAATA AAATA AAATA AAATA
208351 A
1 A
208352 TAGAAGTGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 2 0.05
5 36 0.90
6 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:210303 original size:2 final size:2
Alignment explanation
Indices: 210296--210360 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
210286 ATGAACTTCA
210296 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
210338 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
210361 ATAAGATAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:210738 original size:15 final size:14
Alignment explanation
Indices: 210716--210762 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
210706 AAAGTGAAAG
210716 TAGAGTAATTAAAT
1 TAGAGTAATTAAAT
210730 TAGGAGTAATTTAAAAGT
1 TA-GAGTAA-TT-AAA-T
210748 TA-AGTAATTAAAT
1 TAGAGTAATTAAAT
210761 TA
1 TA
210763 AAAAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 8 0.28
16 7 0.24
17 3 0.10
18 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (14 bp):
TAGAGTAATTAAAT
Found at i:211501 original size:41 final size:41
Alignment explanation
Indices: 211456--211537 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
211446 TATGAGAATG
211456 TTGCATTCTCAAAGGAATGAGACCTTAGTATGAAAAATTTA
1 TTGCATTCTCAAAGGAATGAGACCTTAGTATGAAAAATTTA
*
211497 TTGCATTCTCAAAGGAATGAGACCTTGGTATGAAAAATTTA
1 TTGCATTCTCAAAGGAATGAGACCTTAGTATGAAAAATTTA
211538 CTTATGAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (41 bp):
TTGCATTCTCAAAGGAATGAGACCTTAGTATGAAAAATTTA
Done.