Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006865.1 Hibiscus syriacus cultivar Beakdansim tig00017464_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: 189683
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:1382 original size:14 final size:14
Alignment explanation
Indices: 1363--1389 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1353 GATCAGAACT
1363 TCAAGATTCCAGAA
1 TCAAGATTCCAGAA
1377 TCAAGATTCCAGA
1 TCAAGATTCCAGA
1390 CATGCAACCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (14 bp):
TCAAGATTCCAGAA
Found at i:1830 original size:43 final size:43
Alignment explanation
Indices: 1754--1835 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
1744 ATGAAGTGGC
* ** * *
1754 CATCCGCGATTTCAACTCCATGACGGAGGATATCGTACCCACA
1 CATCCACGATTTCAACTCCACAACAGAGAATATCGTACCCACA
*
1797 CATCCACGATTTCAACTCCACAATAGAGAATATCGTACC
1 CATCCACGATTTCAACTCCACAACAGAGAATATCGTACC
1836 ATTTGAGTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.22
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACAACAGAGAATATCGTACCCACA
Found at i:2072 original size:110 final size:110
Alignment explanation
Indices: 1874--2077 Score: 282
Period size: 110 Copynumber: 1.9 Consensus size: 110
1864 GCTTCCTAGT
* * * * *
1874 TTCAGAGTCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACATCACAATCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAGCACAAGCTCAACTTCA
* * *
1939 CAATGAAGGGGTGACTGATTGTCAACAAATAACTTTTCAGTTTCA
66 CAACGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCA
* * *
1984 TTCAGAGTCAATTTTAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTTAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAGCACAAGCTCAACTTCA
** *
2049 CGGCGAAGGGGCGACTGGCTGTCAACAAA
66 CAACGAAGGGGCGACTGACTGTCAACAAA
2078 CAATTTCCCA
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
110 80 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (110 bp):
TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAGCACAAGCTCAACTTCA
CAACGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCA
Found at i:2090 original size:110 final size:108
Alignment explanation
Indices: 1874--2112 Score: 277
Period size: 110 Copynumber: 2.2 Consensus size: 108
1864 GCTTCCTAGT
* * * * * *
1874 TTCAGAGTCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACATCACAATCTCAACTTCA
1 TTCAGAGTCAATTTTAACTTCACAACGAAGGATATTAGACTCAAGACAGCACAAGCTCAACTTCA
* * * * *
1939 CAATGAAGGGGTGACTGATTGTCAACAAATAACTTTTCAGTTTC
66 CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTCCAG-TTC
* *
1983 ATTCAGAGTCAATTTTAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTTAACTTC
1 -TTCAGAGTCAATTTTAACTTCACAACGAAGGATATTAGACTCAAGACAGCACAAGCTCAACTTC
** *
2048 ACGGCGAAGGGGCGACTGGCTGTCAACAAACAA-TTTCCCAGTTC
65 ACAACGAAGGGGCGACTGACTGTCAACAAACAACTTT-CCAGTTC
*
2092 --CAGAGCCAATTTTAACTTCAC
1 TTCAGAGTCAATTTTAACTTCAC
2113 GGCGGAGGAT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
106 20 0.18
109 6 0.05
110 85 0.77
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (108 bp):
TTCAGAGTCAATTTTAACTTCACAACGAAGGATATTAGACTCAAGACAGCACAAGCTCAACTTCA
CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTCCAGTTC
Found at i:2892 original size:2 final size:2
Alignment explanation
Indices: 2879--2940 Score: 65
Period size: 2 Copynumber: 32.0 Consensus size: 2
2869 TATAACCGAA
* * * * *
2879 AT AT AC AT AT AT AT TT TT AT AT TT TT AT AT -T 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
2920 AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
2941 TATTTTATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:2913 original size:13 final size:13
Alignment explanation
Indices: 2885--2940 Score: 71
Period size: 13 Copynumber: 4.5 Consensus size: 13
2875 CGAAATATAC
*
2885 ATATATAT-TTTT
1 ATATATATATATT
* *
2897 ATATTTTTATATT
1 ATATATATATATT
2910 ATATATATATATT
1 ATATATATATATT
2923 ATATATATATA-T
1 ATATATATATATT
2935 ATATAT
1 ATATAT
2941 TATTTTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
12 13 0.34
13 25 0.66
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATATATATATT
Found at i:2931 original size:19 final size:19
Alignment explanation
Indices: 2885--2943 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
2875 CGAAATATAC
* *
2885 ATATATATTTTTATAT-TT
1 ATATATATATATATATATT
*
2903 TTATATTATATATATATATT
1 ATATA-TATATATATATATT
2923 ATATATATATATATATATT
1 ATATATATATATATATATT
2942 AT
1 AT
2944 TTTATTAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.11
19 25 0.71
20 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATATATATATATATATT
Found at i:4326 original size:27 final size:28
Alignment explanation
Indices: 4296--4362 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
4286 TTTTCATTTT
* *
4296 TTACTATTTTTTATTCTTT-TGCCTTTA
1 TTACTATTTATTATTATTTATGCCTTTA
**
4323 TTACTA-TTATTATTATTTATGTTTTTA
1 TTACTATTTATTATTATTTATGCCTTTA
4350 TTACTA-TTATTAT
1 TTACTATTTATTAT
4363 ATGTTATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 10 0.29
27 25 0.71
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (28 bp):
TTACTATTTATTATTATTTATGCCTTTA
Found at i:4357 original size:21 final size:22
Alignment explanation
Indices: 4327--4367 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4317 CCTTTATTAC
*
4327 TATTATTATTATT-TATGTTTT
1 TATTACTATTATTATATGTTTT
4348 TATTACTATTATTATATGTT
1 TATTACTATTATTATATGTT
4368 ATATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (22 bp):
TATTACTATTATTATATGTTTT
Found at i:5146 original size:4 final size:4
Alignment explanation
Indices: 5137--5163 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
5127 AAATGCGTGT
5137 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
5164 CATAGATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:5552 original size:29 final size:30
Alignment explanation
Indices: 5506--5564 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
5496 TTTTTTCAAC
* *
5506 TTTGATATTTGTTGTAAACGTA-GTATAGA
1 TTTGATATTTCTTGTAAACCTATGTATAGA
* *
5535 TTTGATTTTTCTTTTAAACCTATGTATAGA
1 TTTGATATTTCTTGTAAACCTATGTATAGA
5565 GCCATTATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TTTGATATTTCTTGTAAACCTATGTATAGA
Found at i:8526 original size:2 final size:2
Alignment explanation
Indices: 8519--8580 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
8509 ATTTTATTAA
8519 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
8561 CT CT CT CT CT CT TT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT
8581 TCCTACTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:9634 original size:53 final size:53
Alignment explanation
Indices: 9554--9661 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
9544 AGCATTTCGC
*
9554 ATTTCTCCATGTTCTTCCTTTTATTAAAGCTTAAAACACTATATTTTATATTG
1 ATTTCTCCATGTTCTTCCTTTTATTAAAGCTTAAAACACTATATTTTACATTG
* *
9607 ATTTCTCTATGTTTTTCCTTTTATTAAAGCTTAAAACACTATATTTTACATTG
1 ATTTCTCCATGTTCTTCCTTTTATTAAAGCTTAAAACACTATATTTTACATTG
9660 AT
1 AT
9662 ACATGCAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.50
Consensus pattern (53 bp):
ATTTCTCCATGTTCTTCCTTTTATTAAAGCTTAAAACACTATATTTTACATTG
Found at i:10330 original size:21 final size:21
Alignment explanation
Indices: 10301--10342 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
10291 ATAGTTCACC
10301 CTTTA-TTTTAAATAATTTAT
1 CTTTATTTTTAAATAATTTAT
*
10321 CTTTAATTTTTAACTAATTTAT
1 CTTT-ATTTTTAAATAATTTAT
10343 AATTATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 1 0.05
22 14 0.74
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
CTTTATTTTTAAATAATTTAT
Found at i:13654 original size:31 final size:32
Alignment explanation
Indices: 13607--13666 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
13597 AAAAAGAGCA
13607 AACAGAAAAATAAATGCT-GAAATTTAAAAAG
1 AACAGAAAAATAAATGCTAGAAATTTAAAAAG
* *
13638 AACATAAATATAAATGCTAGAAATTTAAA
1 AACAGAAAAATAAATGCTAGAAATTTAAA
13667 GGACAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.23
Consensus pattern (32 bp):
AACAGAAAAATAAATGCTAGAAATTTAAAAAG
Found at i:13773 original size:19 final size:17
Alignment explanation
Indices: 13738--13787 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
13728 GCATAAATGT
* *
13738 AAAGGACAAAAACTAAA
1 AAAGGAAAAAAAATAAA
*
13755 GAATGGAAATAAAAATAAA
1 -AAAGGAAA-AAAAATAAA
13774 AAAGGAAAAAAAAT
1 AAAGGAAAAAAAAT
13788 GTAAATAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.22
18 13 0.48
19 8 0.30
ACGTcount: A:0.72, C:0.04, G:0.14, T:0.10
Consensus pattern (17 bp):
AAAGGAAAAAAAATAAA
Found at i:23244 original size:2 final size:2
Alignment explanation
Indices: 23239--23294 Score: 64
Period size: 2 Copynumber: 28.5 Consensus size: 2
23229 TATATAACTA
*
23239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23279 A- AT AT ACT AT AGT AT A
1 AT AT AT A-T AT A-T AT A
23295 AATAAATAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
1 3 0.06
2 41 0.85
3 4 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:23401 original size:21 final size:21
Alignment explanation
Indices: 23373--23480 Score: 55
Period size: 21 Copynumber: 5.1 Consensus size: 21
23363 TTTACATAAG
23373 AAAA-ATATATACAATAGAAT
1 AAAATATATATACAATAGAAT
* * *
23393 AAAATATATAAAGAA-CGAA-
1 AAAATATATATACAATAGAAT
*
23412 AAAATATATATA-AGTA-ATAT
1 AAAATATATATACAATAGA-AT
* * *
23432 ATATATATATATATATATATATAT
1 A-AAATATATATACA-ATAGA-AT
* *
23456 AAAATATAATATACTATAGTAT
1 AAAATAT-ATATACAATAGAAT
23478 AAA
1 AAA
23481 TAAATAAATA
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
18 2 0.03
19 12 0.18
20 8 0.12
21 18 0.27
22 6 0.09
23 10 0.15
24 10 0.15
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (21 bp):
AAAATATATATACAATAGAAT
Found at i:23420 original size:2 final size:2
Alignment explanation
Indices: 23415--23478 Score: 64
Period size: 2 Copynumber: 32.5 Consensus size: 2
23405 GAACGAAAAA
23415 AT AT AT AT A- AGT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
23456 A- AA AT AT A- AT AT ACT AT AGT AT A
1 AT AT AT AT AT AT AT A-T AT A-T AT A
23479 AATAAATAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 14
0.78 0.01 0.20
Matches are distributed among these distances:
1 4 0.07
2 45 0.83
3 5 0.09
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (2 bp):
AT
Found at i:23436 original size:191 final size:180
Alignment explanation
Indices: 23169--23537 Score: 560
Period size: 191 Copynumber: 2.0 Consensus size: 180
23159 CATATATTAA
*
23169 AAATCTACATAAGAAAAATATATGCAATAGAATAAAATATATAAAGAACGAAAAAAAAAATATAT
1 AAATCTACATAAGAAAAATATATACAATAGAATAAAATATATAAAGAACGAAAAAAAAAATATAT
23234 AACTAATATATATATATATATATATATATATATAAAATATAATATAATATACTATAGTATAAATA
66 -AC-AATATATATATATATATATATATATATAT---A-A-AATATAATATACTATAGTATAAATA
23299 AATAAAGAAAGAAAGAAAAAGAAAAAAATATAGTATATTATAACAATGTATATATACGTAT
124 AAT----AAAGAAAGAAAAAGAAAAAAATATAGTATATTATAACAATGTATATATACGTAT
* * *
23360 AAATTTACATAAGAAAAATATATACAATAGAATAAAATATATAAAGAACGAAAAAATATATATA-
1 AAATCTACATAAGAAAAATATATACAATAGAATAAAATATATAAAGAACGAAAAAAAAAATATAT
*
23424 AGTAATATATATATATATATATATATATATATAAAATATAATATACTATAGTATAAATAAATAAA
66 A-CAATATATATATATATATATATATATATATAAAATATAATATACTATAGTATAAATAAATAAA
* *
23489 TAAAGAAAAAGAAAAAAATATATTATATTATAACAATGTATATATACGT
130 GAAAGAAAAAGAAAAAAATATAGTATATTATAACAATGTATATATACGT
23538 GTATATATAG
Statistics
Matches: 170, Mismatches: 7, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
180 50 0.29
184 28 0.16
185 1 0.01
186 1 0.01
189 30 0.18
191 60 0.35
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (180 bp):
AAATCTACATAAGAAAAATATATACAATAGAATAAAATATATAAAGAACGAAAAAAAAAATATAT
ACAATATATATATATATATATATATATATATAAAATATAATATACTATAGTATAAATAAATAAAG
AAAGAAAAAGAAAAAAATATAGTATATTATAACAATGTATATATACGTAT
Found at i:25314 original size:105 final size:105
Alignment explanation
Indices: 25146--25590 Score: 716
Period size: 105 Copynumber: 4.3 Consensus size: 105
25136 TGTTCCGAGG
**
25146 CCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
* * *
25211 AGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGTCTGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGT
*
25251 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
25316 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGT
25356 CCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATT--G---TCG---GTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAACCAG
*
25409 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGT
*
25450 CCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
25515 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGT
*
25555 CCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
25591 GGTAAGACCT
Statistics
Matches: 316, Mismatches: 11, Indels: 26
0.90 0.03 0.07
Matches are distributed among these distances:
94 82 0.26
96 1 0.00
97 1 0.00
98 6 0.02
99 1 0.00
100 1 0.00
101 6 0.02
102 1 0.00
103 1 0.00
105 216 0.68
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (105 bp):
CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGT
Found at i:25381 original size:43 final size:43
Alignment explanation
Indices: 25320--25475 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 43
25310 ACCAGCGGTC
25320 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATAT
* * * ** ***
25363 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTCGGTTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTTGCG---TTGTCGG--GA-GTCCA-ATAT
*
25413 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATAT
* *
25457 CCTCCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
25476 ATTGGCTCTG
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
43 39 0.45
44 1 0.01
45 3 0.03
46 9 0.10
48 8 0.09
49 3 0.03
50 1 0.01
51 22 0.26
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATAT
Found at i:25423 original size:199 final size:198
Alignment explanation
Indices: 25180--25585 Score: 740
Period size: 199 Copynumber: 2.0 Consensus size: 198
25170 AAATTGGCTC
**
25180 TGAAATTGAGAAATGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGTC
1 TGAAATTGAGAAATGTCGGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGTC
* *
25245 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAATGTTTGTTGACA
66 TGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACA
25310 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGA
131 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGA
25375 AGT
196 AGT
* * *
25378 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAA-TGTCGGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGT
25443 CTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
65 CTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
25508 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
130 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
25573 AAGT
195 AAGT
25577 TGAAATTGA
1 TGAAATTGA
25586 CTCTGGGTAA
Statistics
Matches: 199, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
198 12 0.06
199 187 0.94
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (198 bp):
TGAAATTGAGAAATGTCGGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGTC
TGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGA
AGT
Found at i:25426 original size:51 final size:51
Alignment explanation
Indices: 25284--25432 Score: 136
Period size: 43 Copynumber: 3.1 Consensus size: 51
25274 GAAATTGGCT
**
25284 TTGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
1 TTGAAATTGAGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* * ** *** *
25334 TTGAACTTGCG---TTGTCGG--GA-GTCCA-ATAT-CCTTCGTTGTGAAG
1 TTGAAATTGAGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
25377 TTGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
1 TTGAAATTGAGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
25428 TTGAA
1 TTGAA
25433 CTTGCGTTGT
Statistics
Matches: 72, Mismatches: 18, Indels: 17
0.67 0.17 0.16
Matches are distributed among these distances:
43 22 0.31
44 1 0.01
45 3 0.04
46 9 0.12
48 6 0.08
49 3 0.04
50 10 0.14
51 18 0.25
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (51 bp):
TTGAAATTGAGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
Found at i:25449 original size:94 final size:93
Alignment explanation
Indices: 25284--25584 Score: 433
Period size: 94 Copynumber: 3.1 Consensus size: 93
25274 GAAATTGGCT
* *
25284 TTGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 TTGAAATTGGGAAATTG-TGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
25348 TCGGGAGTCCAATATCCTTCGTTGTGAAG
65 TCGGGAGTCCAATATCCTTCGTTGTGAAG
25377 TTGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 TTGAAATTGGGAAATTGT-GGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
25442 TCTGGAGTCCAATATCCTCCGTTGTGAAG
65 TCGGGAGTCCAATATCCTTCGTTGTGAAG
25471 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGG----GAAATT--G---TG---GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
25536 AACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAG
54 AACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAG
25576 TTGAAATTG
1 TTGAAATTG
25585 ACTCTGGGTA
Statistics
Matches: 188, Mismatches: 6, Indels: 16
0.90 0.03 0.08
Matches are distributed among these distances:
93 14 0.07
94 84 0.45
98 6 0.03
100 1 0.01
102 1 0.01
103 1 0.01
105 81 0.43
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (93 bp):
TTGAAATTGGGAAATTGTGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CGGGAGTCCAATATCCTTCGTTGTGAAG
Found at i:37045 original size:2 final size:2
Alignment explanation
Indices: 37040--37090 Score: 61
Period size: 2 Copynumber: 25.5 Consensus size: 2
37030 CGAAAAAAAA
*
37040 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37080 ACT AT AGT AT A
1 A-T AT A-T AT A
37091 AATAAATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
1 2 0.05
2 37 0.86
3 4 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:37055 original size:8 final size:8
Alignment explanation
Indices: 37042--37110 Score: 52
Period size: 8 Copynumber: 8.4 Consensus size: 8
37032 AAAAAAAAAT
37042 ATATATAA
1 ATATATAA
37050 ATATAT--
1 ATATATAA
*
37056 ATATATAT
1 ATATATAA
37064 ATATATAA
1 ATATATAA
*
37072 TATAATATACT
1 -AT-ATATA-A
37083 ATAGTATAA
1 ATA-TATAA
*
37092 ATAAATAA
1 ATATATAA
*
37100 ATAAATAA
1 ATATATAA
37108 ATA
1 ATA
37111 AAGAAAAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
6 6 0.12
8 28 0.55
9 6 0.12
10 11 0.22
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (8 bp):
ATATATAA
Found at i:37057 original size:12 final size:12
Alignment explanation
Indices: 37040--37106 Score: 62
Period size: 12 Copynumber: 5.1 Consensus size: 12
37030 CGAAAAAAAA
37040 ATATATATAAAT
1 ATATATATAAAT
37052 ATATATATATATAT
1 ATATATATA-A-AT
37066 ATATAATATAATAT
1 ATAT-ATATAA-AT
37080 ACTATAGTATAAAT
1 A-TATA-TATAAAT
* *
37094 AAATAAATAAAT
1 ATATATATAAAT
37106 A
1 A
37107 AATAAAGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
12 16 0.33
13 4 0.08
14 15 0.31
15 13 0.27
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (12 bp):
ATATATATAAAT
Found at i:37097 original size:4 final size:4
Alignment explanation
Indices: 37088--37112 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
37078 ATACTATAGT
37088 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
37113 GAAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:37232 original size:2 final size:2
Alignment explanation
Indices: 37227--37277 Score: 70
Period size: 2 Copynumber: 25.5 Consensus size: 2
37217 TATATAAGTA
37227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37267 ACT AT AGT AT A
1 A-T AT A-T AT A
37278 AATAAATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.04
2 39 0.87
3 4 0.09
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:37277 original size:187 final size:178
Alignment explanation
Indices: 36984--37349 Score: 574
Period size: 187 Copynumber: 2.0 Consensus size: 178
36974 CATATATTAA
*
36984 AAATCTACATAAGAAAAATATATGCAATAGAATAAATATATAAGAACGAAAAAAAAATATATATA
1 AAATCTACATAAGAAAAATATATACAATAGAATAAATATATAAGAACGAAAAAAAAATATATATA
37049 AATATATATATATATATATATAATATAATATACTATAGTATAAATAAATAAATAAATAAATAAA-
66 AATATATATATATATATATATAATATAATATACTATAGTATAAATAAATAAATAAATAAATAAAT
* *
37113 GAA-AAAGAAAAAAATATAGTATATTATAACAATGTATATATACGTAT
131 AAAGAAAAAAAAAAATATAGTATATTATAACAATGTATATATACGTAT
*
37160 AAATTTACATAAGAAAAATATATACAATAGAATAAAATATATAAAGAACGAAAAAAATATATAAG
1 AAATCTACATAAGAAAAATATATACAATAGAAT-AAATATAT-AAGAACG--AAAAA-A-A-AA-
37225 TAATATATATATATATATATATATATATATATAATATAATATACTATAGTATAAATAAATAAATA
58 T-ATATATA-A-ATATATATATATATATATATAATATAATATACTATAGTATAAATAAATAAATA
*
37290 AATAAATAAATAAAGAAAAAAAAAAATATATTATATTATAACAATGTATATATACGTAT
120 AATAAATAAATAAAGAAAAAAAAAAATATAGTATATTATAACAATGTATATATACGTAT
37349 A
1 A
37350 TATATAGTGA
Statistics
Matches: 172, Mismatches: 5, Indels: 13
0.91 0.03 0.07
Matches are distributed among these distances:
176 31 0.18
177 8 0.05
178 7 0.04
180 5 0.03
181 1 0.01
182 1 0.01
183 2 0.01
184 1 0.01
185 7 0.04
186 1 0.01
187 63 0.37
188 2 0.01
189 43 0.25
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (178 bp):
AAATCTACATAAGAAAAATATATACAATAGAATAAATATATAAGAACGAAAAAAAAATATATATA
AATATATATATATATATATATAATATAATATACTATAGTATAAATAAATAAATAAATAAATAAAT
AAAGAAAAAAAAAAATATAGTATATTATAACAATGTATATATACGTAT
Found at i:37284 original size:4 final size:4
Alignment explanation
Indices: 37275--37317 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
37265 ATACTATAGT
* * *
37275 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AGAA AAAA AAAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
37318 TATTATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (4 bp):
ATAA
Found at i:38803 original size:15 final size:15
Alignment explanation
Indices: 38785--38829 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
38775 TAATAAGGTT
38785 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
38800 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
38815 ATTTATTATAAAATA
1 ATTTATTATAAAATA
38830 TGGATTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:38881 original size:54 final size:54
Alignment explanation
Indices: 38815--39374 Score: 660
Period size: 54 Copynumber: 10.8 Consensus size: 54
38805 TTTTAAAATA
* *
38815 ATTTATTATAAAATATGGATTGATTTATTTTAAATAATTTATTAGCATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
38869 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
38923 ATTTATTTTAAAATATGAATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
38971 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
39025 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
39079 ATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTA
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
*
39127 ATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
** * * * ** * * *
39175 ATTTATTTT-AAATAATCTATT-AGTATGAATTGATTTATTTTA-AAATATGGATTG
1 ATTTATTTTAAAAT-ATGGATTGA-T-TTATTTTAAATAATTTATTAGTATGGATTG
39229 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
*
39283 ATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
39331 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
39375 TTGTAGTTGT
Statistics
Matches: 445, Mismatches: 31, Indels: 60
0.83 0.06 0.11
Matches are distributed among these distances:
47 5 0.01
48 152 0.34
49 8 0.02
50 10 0.02
51 1 0.00
52 10 0.02
53 16 0.04
54 235 0.53
55 8 0.02
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:38890 original size:22 final size:22
Alignment explanation
Indices: 38865--39004 Score: 82
Period size: 22 Copynumber: 5.7 Consensus size: 22
38855 ATTAGCATGG
38865 ATTGATTTATTTTAAAATATGA
1 ATTGATTTATTTTAAAATATGA
*
38887 ATTGATTTATTTTAAATAATTTATTA
1 ATTGATTTATTTT-AA-AA--TATGA
* *
38913 GTATGAATTGATTTATTTTAAAATATGA
1 AT-TG-ATTTA-TT---TTAAAATATGA
*** *
38941 ATTGATTTATTATTGTAGTTGTATGG
1 ATTGATTTA-T-TT-TA-AAATATGA
*
38967 ATTGATTTATTTTAAAATATGG
1 ATTGATTTATTTTAAAATATGA
38989 ATTGATTTATTTTAAA
1 ATTGATTTATTTTAAA
39005 TAATTTATTA
Statistics
Matches: 92, Mismatches: 13, Indels: 26
0.70 0.10 0.20
Matches are distributed among these distances:
22 34 0.37
23 4 0.04
24 5 0.05
25 3 0.03
26 24 0.26
27 5 0.05
28 9 0.10
29 2 0.02
30 2 0.02
31 2 0.02
32 2 0.02
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
ATTGATTTATTTTAAAATATGA
Found at i:39033 original size:156 final size:150
Alignment explanation
Indices: 38861--39374 Score: 696
Period size: 156 Copynumber: 3.3 Consensus size: 150
38851 ATTTATTAGC
* *
38861 ATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATT
1 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
*
38926 TATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGAT
66 TATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGAT
*
38991 TGATTTATTTTAAATAATTTA-TTAGT
131 TGATTTA--TT--AT--TGTAGTT-GT
39017 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
1 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
*
39082 TATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTAATTTATTTTAAAATATGGAT
66 TATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGAT
39147 TGATTTATTATTGTAGTTGT
131 TGATTTATTATTGTAGTTGT
** * * * ** * * *
39167 ATGGATTGATTTATTTT-AAATAATCTATT-AGTATGAATTGATTTATTTTA-AAATATGGATTG
1 ATGGATTGATTTATTTTAAAAT-ATGGATTGA-T-TTATTTTAAATAATTTATTAGTATGGATTG
*
39229 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTA
63 ATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTA
39293 AAATATGGATTGATTTATTATTGTAGTTGT
121 AAATATGGATTGATTTATTATTGTAGTTGT
39323 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
39375 TTGTAGTTGT
Statistics
Matches: 318, Mismatches: 26, Indels: 28
0.85 0.07 0.08
Matches are distributed among these distances:
149 5 0.02
150 65 0.20
151 13 0.04
152 4 0.01
154 4 0.01
155 13 0.04
156 209 0.66
157 5 0.02
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (150 bp):
ATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
TATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAATATGGAT
TGATTTATTATTGTAGTTGT
Found at i:39041 original size:22 final size:22
Alignment explanation
Indices: 39016--39155 Score: 91
Period size: 22 Copynumber: 5.7 Consensus size: 22
39006 AATTTATTAG
39016 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
39038 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
39062 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
***
39092 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
*
39118 TATGGATTAATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
39140 TATGGATTGATTTATT
1 TATGGATTGATTTATT
39156 ATTGTAGTTG
Statistics
Matches: 91, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
22 33 0.36
23 4 0.04
24 5 0.05
25 3 0.03
26 25 0.27
27 3 0.03
28 10 0.11
29 2 0.02
30 2 0.02
31 2 0.02
32 2 0.02
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:39173 original size:22 final size:22
Alignment explanation
Indices: 39100--39173 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
39090 AATATGGATT
39100 GATTTATTATTGTAGTTGTATG
1 GATTTATTATTGTAGTTGTATG
* * * * *
39122 GATTAATTTATTTTAAAATATGGATT
1 GATTTA-TTATTGT--AGT-TGTATG
39148 GATTTATTATTGTAGTTGTATG
1 GATTTATTATTGTAGTTGTATG
39170 GATT
1 GATT
39174 GATTTATTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
22 13 0.34
23 8 0.21
25 8 0.21
26 9 0.24
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (22 bp):
GATTTATTATTGTAGTTGTATG
Found at i:39228 original size:22 final size:22
Alignment explanation
Indices: 39198--39364 Score: 145
Period size: 22 Copynumber: 7.0 Consensus size: 22
39188 AATCTATTAG
*
39198 TATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
39220 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
39242 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
39266 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
***
39296 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
39322 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
39344 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
39365 TAATTTATTA
Statistics
Matches: 119, Mismatches: 13, Indels: 26
0.75 0.08 0.16
Matches are distributed among these distances:
22 60 0.50
23 4 0.03
24 5 0.04
25 3 0.03
26 26 0.22
27 3 0.03
28 10 0.08
29 2 0.02
30 2 0.02
31 2 0.02
32 2 0.02
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:39276 original size:76 final size:76
Alignment explanation
Indices: 39070--39311 Score: 327
Period size: 76 Copynumber: 3.2 Consensus size: 76
39060 AATTTATTAG
* *
39070 TATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTAA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATCTA-TTAGTATGGATTGA
39128 TTTATTTTAAAA
65 TTTATTTTAAAA
*** *
39140 TATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATCTATTAGTATGAAT
1 TATGGATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATCTATTAGTATGGAT
39205 TGATTTATTTTAAAA
62 TGATTTATTTTAAAA
*
39220 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATCTATTAGTATGGATTGAT
39285 TTATTTTAAAA
66 TTATTTTAAAA
39296 TATGGATTGATTTATT
1 TATGGATTGATTTATT
39312 ATTGTAGTTG
Statistics
Matches: 150, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
70 14 0.09
71 1 0.01
72 2 0.01
73 2 0.01
74 14 0.09
76 70 0.47
77 2 0.01
78 4 0.03
79 3 0.02
80 38 0.25
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (76 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATCTATTAGTATGGATTGAT
TTATTTTAAAA
Found at i:39424 original size:31 final size:31
Alignment explanation
Indices: 39389--39447 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
39379 AGTTGTATGG
* *
39389 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGAAAAACTAAA
*
39420 ATTATTTGAATCTCAGTATTGAAAAACT
1 ATTATTTAAATCTCAGTATTGAAAAACT
39448 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGAAAAACTAAA
Found at i:39710 original size:30 final size:30
Alignment explanation
Indices: 39657--39714 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
39647 ACTGATTTCG
**
39657 ATTCGGGTCAACCATTAGGTTTTCAGGTTA
1 ATTCGGGTCAACCATTAAATTTTCAGGTTA
**
39687 ATTCGGGTCAACTTTTAAATTTTCAGGT
1 ATTCGGGTCAACCATTAAATTTTCAGGT
39715 CAACCTTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (30 bp):
ATTCGGGTCAACCATTAAATTTTCAGGTTA
Found at i:52038 original size:17 final size:17
Alignment explanation
Indices: 52016--52056 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
52006 ATGAACCAAT
*
52016 TCTAGAACATGTTTGGC
1 TCTAGAACATGTTTGCC
52033 TCTAGAACATGTTTGCC
1 TCTAGAACATGTTTGCC
52050 TCTAGAA
1 TCTAGAA
52057 TTTGACGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (17 bp):
TCTAGAACATGTTTGCC
Found at i:55766 original size:23 final size:23
Alignment explanation
Indices: 55740--55787 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
55730 ATAAAGTACA
*
55740 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
55763 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
55786 AT
1 AT
55788 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:56298 original size:23 final size:23
Alignment explanation
Indices: 56263--56335 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
56253 ATACTTTACA
56263 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
* *
56286 ATATAAACGCTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
*
56309 ATATAAGCACTACCTATTACATC
1 ATATAAGCACTACCTATTACATT
56332 ATAT
1 ATAT
56336 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATT
Found at i:56787 original size:23 final size:23
Alignment explanation
Indices: 56752--56824 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
56742 ATACTTTACA
*
56752 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
56775 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
56798 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
56821 ATAT
1 ATAT
56825 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:57201 original size:490 final size:489
Alignment explanation
Indices: 55861--58655 Score: 4928
Period size: 489 Copynumber: 5.7 Consensus size: 489
55851 TTATAATATG
* * *
55861 TTGAAATTGTCTATATTTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCTATA-CTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
*
55926 TTCA-ATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
* * *
55990 TAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
56055 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
56120 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* * *
56185 CAAAAGATAACCTTAAATTAATATTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAATGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
56250 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
*
56315 GCACTACCTATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
* *
56350 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATATAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
56415 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
56480 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
56545 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
56610 CCGTAACGTAAAAAATAAATCATTGGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
* * * * *
56675 AAAAGATAATCTTAAATTAATGTTTTCTATAGTGAAAAGAGTATGAACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
56740 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
56805 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
56839 TTGAAAGTGTCTATACTTTTTATAAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCTATACTTTTTAT-AAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
56904 TTCATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
56969 CAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATA
130 C-AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATA
*
57034 TTAACCAAAGATAATAATAAATATGTAATATATATATTTATTGTTTTTAATTTAATAATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
57099 TACCGTAACGTAAAAAATAAATCATTAGACGCCTAT-ATTACTAAATTAATATCTTAAAACTTAC
259 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
57163 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAAGGACACTTTTATAAAAAGG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
57228 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
389 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
*
57293 AGCGCTACCTATTACATCATATTTTTACATATTATA
454 AGCGCTACCTATTACATCATATTTTTACCTATTATA
57329 TTGAAAGTGTCTATACTTTTTAT-AAAA--AT-GATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
57390 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TC-ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
57455 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAAAAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
57520 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
57585 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
57650 C--AAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
57713 TAGATACTTTACAATATAAGCACAACCTATTACATTATATAAACGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
57778 GCGCTACCTATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
57813 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
57878 TCA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTAAAATATTAATTTAATAATTTCATTTGCAC
66 TCATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
57942 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
58007 AACCAAAGATAATAATAAATATGTAATATATATATGTTTATTGTTTTTAATTTAATAATAATATA
196 AACCAAAGATAATAATAAATATGT-A-ATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* *
58072 TACCGTAACGTAAAAAATATATCATTAGACGCTTATAATTACTAAATTAATATCTTAAAACTCAC
259 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* **
58137 TC--AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAATCGG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
58200 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
389 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
58265 AGCGCTACCTATTACATCATATTTTTACCTATTATA
454 AGCGCTACCTATTACATCATATTTTTACCTATTATA
58301 TTGAAAGTGTCTATACTTTTTATAAAAAAGATCTATACTTTTTATAAAAAGGATCGATACTTTTT
1 TTGAAAGTGTCTATACTTTTTAT-----A-A---A-A------AT------GATCGATACTTTTT
58366 TTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATAT
44 TTAAAGTTATGTAATTTATGTTTC-ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATAT
58431 TAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
108 TAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
58496 TAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGT
173 TAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGT
* *
58561 TTTTAATTTAATAATAATATATACCGTAATGTAAAAAATAAATCATTGGACGCCTATAATTACTA
238 TTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
58626 AATTAATATCTTAAAACTCACTCAAAAGAT
303 AATTAATATCTTAAAACTCACTCAAAAGAT
58656 GTACATACCT
Statistics
Matches: 2216, Mismatches: 53, Indels: 51
0.96 0.02 0.02
Matches are distributed among these distances:
484 181 0.08
485 200 0.09
486 242 0.11
487 4 0.00
488 371 0.17
489 442 0.20
490 313 0.14
491 162 0.07
493 1 0.00
494 1 0.00
497 1 0.00
498 1 0.00
504 2 0.00
510 139 0.06
511 2 0.00
512 154 0.07
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.42
Consensus pattern (489 bp):
TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:57277 original size:23 final size:23
Alignment explanation
Indices: 57242--57314 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
57232 ATACTTTACA
*
57242 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
57265 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
57288 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
57311 ATAT
1 ATAT
57315 TTTTACATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:57751 original size:21 final size:23
Alignment explanation
Indices: 57726--57798 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
57716 ATACTTTACA
* *
57726 ATATAAGCACAACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
57749 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
57772 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
57795 ATAT
1 ATAT
57799 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:58249 original size:23 final size:23
Alignment explanation
Indices: 58214--58286 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
58204 ATACTTTACA
*
58214 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
58237 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
58260 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
58283 ATAT
1 ATAT
58287 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:58336 original size:22 final size:22
Alignment explanation
Indices: 58310--58370 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
58300 ATTGAAAGTG
58310 TCTATACTTTTTATAAAAAAGA
1 TCTATACTTTTTATAAAAAAGA
*
58332 TCTATACTTTTTATAAAAAGGA
1 TCTATACTTTTTATAAAAAAGA
* *
58354 TCGATACTTTTTTTAAA
1 TCTATACTTTTTATAAA
58371 GTTATGTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (22 bp):
TCTATACTTTTTATAAAAAAGA
Found at i:61547 original size:183 final size:183
Alignment explanation
Indices: 61153--62271 Score: 1833
Period size: 183 Copynumber: 6.1 Consensus size: 183
61143 TACTTAAAAT
*
61153 TACCGACACAATATTAAAAAGTGTCGATATAAGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
61218 TTTATACCGATTATATTACAAAATTATCTATTACATTATAATTAT-GGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
61282 CGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
61335 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * *
61400 TTTATACCGGTTATATTACAAAATTATCTATTATATTATAATTCTGGGTTCCGATGTATAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* *
61465 CGAAACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* * *
61518 TACCGACATAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
61583 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTAGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
61648 CGACACTTTTTGACAATGTATCGATACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
** * *
61701 TTTCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGATCATAAAACAGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
61766 TTTATACCGGTTATATTACAAAATTATC---TACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* * * *
61828 CGACAATTTTTTA-AATGGTATGGACATATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
61881 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
61946 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
62011 CGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
62064 TTCCGACACAATATTAAAAAGTGACGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
62129 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAA
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG---TGTAAA
* *
62194 --TCGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAG
128 TGTCGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
62248 TACAGACATAATATTAAAAAGTGT
1 TACCGACACAATATTAAAAAGTGT
62272 GAAAACTTTG
Statistics
Matches: 874, Mismatches: 51, Indels: 22
0.92 0.05 0.02
Matches are distributed among these distances:
179 3 0.00
180 165 0.19
182 109 0.12
183 519 0.59
184 74 0.08
186 4 0.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
CGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:61971 original size:363 final size:363
Alignment explanation
Indices: 61153--62271 Score: 1888
Period size: 363 Copynumber: 3.1 Consensus size: 363
61143 TACTTAAAAT
* *
61153 TACCGACACAATATTAAAAAGTGTCGATATAAGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATA
*
61218 TTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGTTCCGATGTGTAAATGTC
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGTTCCGATGTGTAAATGTC
*
61283 GACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
131 GACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTTCCGACACAATA
61348 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTA
196 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTA
*
61413 TATTACAAAATTATCTATTATATTATAATTCTGGGTTCCGATGTATAAATGTCGA-AACTTTTTT
261 TATTACAAAATTATC--TTACATTATAATTCTGGGTTCCGATGTATAAATGTCGACAA-TTTTTT
61477 AAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
323 AAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
61518 TACCGACATAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAA-TCGGTAT
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACT-GGTAT
*
61582 ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTAGGTTCCGATGTGTAAATG
65 ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTAT-GGTTCCGATGTGTAAATG
* *
61647 TCGACACTTTTTGACAATGTATCGATACATTTTTCTTCCAATCTGGACATAAAGTTTCGACACAA
129 TCGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTTCCGACACAA
* *
61712 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGATCATAAAACAGGTATATTTATACCGGT
194 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
*
61777 TATATTACAAAATTATC-TACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACAATTTTTTA
259 TATATTACAAAATTATCTTACATTATAATTCTGGGTTCCGATGTATAAATGTCGACAATTTTTTA
* *
61841 AATGGTATGGACATATTTTTCTTCCAATCTGGACATAAAG
324 AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
61881 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATA
61946 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTAT-GGTTCCGATGTGTAAATGT
62011 CGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTTCCGACACAAT
130 CGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTTCCGACACAAT
*
62076 ATTAAAAAGTGACGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
195 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
* * * *
62141 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAA--TCGACACTTT
260 ATATTACAAAATTATC--TTACATTATAATTCTGGGTTCCGATG---TATAAATGTCGACAATTT
*
62204 TTTAAATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAG
320 TTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
62248 TACAGACATAATATTAAAAAGTGT
1 TACCGACACAATATTAAAAAGTGT
62272 GAAAACTTTG
Statistics
Matches: 711, Mismatches: 33, Indels: 18
0.93 0.04 0.02
Matches are distributed among these distances:
363 346 0.49
364 3 0.00
365 103 0.14
366 184 0.26
367 71 0.10
369 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (363 bp):
TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGTTCCGATGTGTAAATGTC
GACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTTCCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTA
TATTACAAAATTATCTTACATTATAATTCTGGGTTCCGATGTATAAATGTCGACAATTTTTTAAA
TGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:63582 original size:12 final size:12
Alignment explanation
Indices: 63485--63590 Score: 122
Period size: 12 Copynumber: 8.8 Consensus size: 12
63475 GTTTGGATCA
* *
63485 TCATCATCATCA
1 TCATCGTCATCT
* *
63497 TCATCATCATCA
1 TCATCGTCATCT
* *
63509 TCGTCATCATCT
1 TCATCGTCATCT
*
63521 TCATCGTCAGCT
1 TCATCGTCATCT
*
63533 TCATCGTCATCA
1 TCATCGTCATCT
63545 TCATCGTCATCT
1 TCATCGTCATCT
63557 TCATCGTCATCT
1 TCATCGTCATCT
*
63569 TCATCGTCAGCT
1 TCATCGTCATCT
*
63581 TCATCTTCAT
1 TCATCGTCAT
63591 TGACCGCTTG
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 83 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.38
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:63590 original size:6 final size:6
Alignment explanation
Indices: 63481--63573 Score: 96
Period size: 6 Copynumber: 15.5 Consensus size: 6
63471 ACTTGTTTGG
* * *
63481 ATCATC ATCATC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * * * *
63529 AGCTTC ATCGTC ATCATC ATCGTC ATCTTC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATC
63574 GTCAGCTTCA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:65397 original size:200 final size:200
Alignment explanation
Indices: 65054--66230 Score: 2011
Period size: 200 Copynumber: 5.9 Consensus size: 200
65044 TTTAAATTAG
* * * *
65054 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCA-ATTCTCTCATAAAACCGGT
1 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATT-TAGA-CATATTCTCTCATAAAACCGGT
* *
65116 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTTTACTTTTGGTTTTCGATGTTTATG
63 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
*
65181 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGG
128 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
65246 ACCAAAAA
193 ACCAAAAA
* * *
65254 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACCTATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
65319 ATTGTACCGGTTAGATTGAAAATTTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* * * *
65384 TCGACACTTTTTATATATGGATCAACACTTTACGGTTGCACCATGTTTGCCATTAATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
65449 AAAAA
196 AAAAA
65454 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
65519 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
65584 TCGACATTTTTTATATATGGATCGACAC-TTATGGTTGCACCCTGTTGGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
65648 AAAAA
196 AAAAA
*
65653 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTACA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
65718 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
65783 TCGACACTTTTTTATATATGGATCGACTCTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
131 TCGACAC-TTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
65848 CAAAAA
195 CAAAAA
* * *
65854 TATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACATATTCTCTTATAAAAGCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
65919 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGTTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* * *
65984 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACA
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
66049 AAAAA
196 AAAAA
* *
66054 TATCGACACAAACTAAAAAAGTGACGACACATTATTTAGACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
66119 CTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66184 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
66231 GTCCATATTG
Statistics
Matches: 925, Mismatches: 47, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
199 173 0.19
200 573 0.62
201 179 0.19
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
AAAAA
Found at i:66360 original size:18 final size:18
Alignment explanation
Indices: 66337--66396 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
66327 TCTCATTCAT
*
66337 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
66355 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
66374 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
66393 AATT
1 AATT
66397 TACCCTACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
18 6 0.16
19 31 0.84
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.35
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:66373 original size:19 final size:19
Alignment explanation
Indices: 66349--66396 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
66339 TTATATTCAC
66349 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
66368 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
66387 ATACAAAATT
1 ATACAAAATT
66397 TACCCTACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:68230 original size:33 final size:33
Alignment explanation
Indices: 68193--68261 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
68183 TATCTTAATA
*
68193 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* * *
68226 TCACCCCTCAACACCTCTACTTCTTTCACTACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
68259 TCA
1 TCA
68262 TCTATTTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:68317 original size:21 final size:21
Alignment explanation
Indices: 68292--68356 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
68282 CCCCTTATGC
* *
68292 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
68313 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
68334 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
68355 CT
1 CT
68357 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:70605 original size:17 final size:18
Alignment explanation
Indices: 70583--70625 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
70573 ATATATCCGG
70583 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
70600 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
70620 TATCAT
1 TATCAT
70626 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:70643 original size:20 final size:19
Alignment explanation
Indices: 70588--70634 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
70578 TCCGGTATCA
70588 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
70607 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
70628 TTTTACC
1 TTTTACC
70635 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:70998 original size:182 final size:181
Alignment explanation
Indices: 70555--71026 Score: 687
Period size: 182 Copynumber: 2.6 Consensus size: 181
70545 AGTACTTACA
* * *
70555 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACTGGTTT
* * *
70620 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATA-TTTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
70684 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 AGGAGCTAAAACTGCATCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
70735 AAAGTATCGACACTTTCAATATATCTGGTAACGTTTTACCGGTTTTATCATTTTGTTA-TCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACT-GGTT
* *
70799 TTATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
** *
70864 TAGGATTTAAAACTGCATCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 TAGGAGCTAAAACTGCATCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * **
70917 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACTGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACTGGTTT
* * *
70982 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
71027 AATTTGGATC
Statistics
Matches: 260, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
180 95 0.37
181 68 0.26
182 96 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACTGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCATCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:71028 original size:181 final size:180
Alignment explanation
Indices: 70555--71028 Score: 680
Period size: 180 Copynumber: 2.6 Consensus size: 180
70545 AGTACTTACA
* * *
70555 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACTGGTTT
* ** *
70620 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATTTTTTTTAAAGTATCGACACATTATA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACACATTATA
* *
70685 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 GGAGCTAAAACTGCATCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
70735 AAAGTATCGACACTTTCAATATATCTGGTAACGTTTTACCGGTTTTATCATTTTGTTA-TCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACT-GGTT
* *
70799 TTATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACA-TTTTTAAAAGTATCGACACATTA
** *
70864 TAGGATTTAAAACTGCATCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
129 TAGGAGCTAAAACTGCATCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * **
70917 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACTGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACTGGTTT
* * *
70982 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAA
71029 TTTGGATCGA
Statistics
Matches: 261, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
180 95 0.36
181 74 0.28
182 91 0.35
183 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACTGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACACATTATA
GGAGCTAAAACTGCATCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:71835 original size:15 final size:16
Alignment explanation
Indices: 71805--71838 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
71795 ATATTTTATA
71805 ATAAATAATATTAGAT
1 ATAAATAATATTAGAT
*
71821 ATAATTAAT-TTAGAT
1 ATAAATAATATTAGAT
71836 ATA
1 ATA
71839 TTATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
ATAAATAATATTAGAT
Found at i:78028 original size:23 final size:23
Alignment explanation
Indices: 77968--78020 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
77958 TATGGAACTA
77968 CGGTGCAATTCTACGCGGCACTT
1 CGGTGCAATTCTACGCGGCACTT
* *
77991 CGGTACAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTT
*
78014 CTGTGCA
1 CGGTGCA
78021 TTTATACGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (23 bp):
CGGTGCAATTCTACGCGGCACTT
Found at i:81461 original size:52 final size:52
Alignment explanation
Indices: 81383--81499 Score: 216
Period size: 52 Copynumber: 2.2 Consensus size: 52
81373 CATACCCATG
* *
81383 GTGCATCGGTGCATCAGTGTAAAATTCAAATATTTTGACCGTTGGACCCTTA
1 GTGCATCGGTGCATCAGTGTAAAATTCAAATATTTTAACCATTGGACCCTTA
81435 GTGCATCGGTGCATCAGTGTAAAATTCAAATATTTTAACCATTGGACCCTTA
1 GTGCATCGGTGCATCAGTGTAAAATTCAAATATTTTAACCATTGGACCCTTA
81487 GTGCATCGGTGCA
1 GTGCATCGGTGCA
81500 CTAAGAGTGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (52 bp):
GTGCATCGGTGCATCAGTGTAAAATTCAAATATTTTAACCATTGGACCCTTA
Found at i:81540 original size:18 final size:17
Alignment explanation
Indices: 81486--81534 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
81476 TTGGACCCTT
* *
81486 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
81504 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
81522 AGTGCATTCGATG
1 AGTGCA-TCGATG
81535 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:81639 original size:65 final size:64
Alignment explanation
Indices: 81506--81715 Score: 192
Period size: 65 Copynumber: 3.2 Consensus size: 64
81496 TGCACTAAGA
* * *
81506 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAACCAGAGTGCATCGATGCATGTCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAACCACAGTGCATCGATGCATGTATG
* ** * *
81570 GTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAA-ATGCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAACCACAGTGCATCGATGCAT-GTA
81634 T-
63 TG
* * * ** * ** *
81635 GTGCATCGATGCATGAAATGCATTCTATG-TTGAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAA-CCACAGTGCATCGATGCATGTA-T
81699 G
64 G
*
81700 ATGCATCGATGCATCA
1 GTGCATCGATGCATCA
81716 CTCTGAAAAA
Statistics
Matches: 116, Mismatches: 23, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 6 0.05
64 42 0.36
65 61 0.53
66 6 0.05
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAACCACAGTGCATCGATGCATGTATG
Found at i:83898 original size:16 final size:16
Alignment explanation
Indices: 83872--83913 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
83862 GCCAATATCC
83872 TTTTTCTTCTTC-TCT
1 TTTTTCTTCTTCTTCT
83887 TTTTTCTATCTTCTTCT
1 TTTTTCT-TCTTCTTCT
83904 TTTTT-TTCTT
1 TTTTTCTTCTT
83914 TGAAGCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 11 0.44
16 6 0.24
17 8 0.32
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTTCTTCTTCT
Found at i:83900 original size:19 final size:19
Alignment explanation
Indices: 83876--83912 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
83866 ATATCCTTTT
83876 TCTTCTTCTCTTTTTTCTA
1 TCTTCTTCTCTTTTTTCTA
*
83895 TCTTCTTCTTTTTTTTCT
1 TCTTCTTCTCTTTTTTCT
83913 TTGAAGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCTTCTCTTTTTTCTA
Found at i:85409 original size:65 final size:65
Alignment explanation
Indices: 85276--85435 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
85266 TGGACCCTTA
* * * *
85276 GTGCATCGGTGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATATCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATATATG
* * * *
85340 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCAT-ATA
85404 T-
64 TG
*
85405 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
85436 CAATTTAATT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 27 0.32
65 52 0.62
66 5 0.06
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATATATG
Found at i:85475 original size:65 final size:64
Alignment explanation
Indices: 85276--85485 Score: 193
Period size: 65 Copynumber: 3.2 Consensus size: 64
85266 TGGACCCTTA
* * *
85276 GTGCATCGGTGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGCAT--AT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGAT
*
85337 CT
63 AT
*
85339 GGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGG-T
1 -GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGAT
85403 AT
63 AT
* **
85405 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGGAT
85468 -T
63 AT
*
85469 GATGCATCGGTGCATCA
1 G-TGCATCGATGCATCA
85486 CTCTGAAAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 21
0.79 0.07 0.13
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 49 0.40
65 62 0.50
66 6 0.05
67 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGATAT
Found at i:86550 original size:21 final size:21
Alignment explanation
Indices: 86526--86569 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
86516 GAGCTGGAGG
* *
86526 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
86547 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
86568 AG
1 AG
86570 CTCCTGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:92048 original size:22 final size:21
Alignment explanation
Indices: 92006--92045 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
91996 GAGTTTATTT
*
92006 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
92027 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
92046 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:94314 original size:52 final size:52
Alignment explanation
Indices: 94236--94352 Score: 225
Period size: 52 Copynumber: 2.2 Consensus size: 52
94226 CATACCCATG
94236 GTGCATCGGTGCATCAGTGTAAAATTCAAATATTTTGACCGTTGGACCCTTA
1 GTGCATCGGTGCATCAGTGTAAAATTCAAATATTTTGACCGTTGGACCCTTA
*
94288 GTGCATCGGTGCATCAGTTTAAAATTCAAATATTTTGACCGTTGGACCCTTA
1 GTGCATCGGTGCATCAGTGTAAAATTCAAATATTTTGACCGTTGGACCCTTA
94340 GTGCATCGGTGCA
1 GTGCATCGGTGCA
94353 CTAAGAGTGC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (52 bp):
GTGCATCGGTGCATCAGTGTAAAATTCAAATATTTTGACCGTTGGACCCTTA
Found at i:94393 original size:18 final size:17
Alignment explanation
Indices: 94339--94387 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
94329 TTGGACCCTT
* *
94339 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
94357 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
94375 AGTGCATTCGATG
1 AGTGCA-TCGATG
94388 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:94492 original size:65 final size:65
Alignment explanation
Indices: 94359--94518 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
94349 TGCACTAAGA
* * *
94359 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATACCCAGAGTGCATCGATGCATGTCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCCACAGTGCATCGATGCATGTATG
* * * *
94423 GTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATACCCACAGTGCATCGATGCAT-GTA
94487 T-
64 TG
*
94488 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
94519 GAATTTAATT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 27 0.32
65 51 0.61
66 6 0.07
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCCACAGTGCATCGATGCATGTATG
Found at i:96617 original size:28 final size:26
Alignment explanation
Indices: 96565--96617 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 26
96555 ACAGGATCAT
* **
96565 TCTTTTTTTTCGATTCATGTTTCTTC
1 TCTTTTTTTTAGATTCATGAATCTTC
96591 TCTTTTTCTTTAGATGTCATGAATCTT
1 TCTTTTT-TTTAGAT-TCATGAATCTT
96618 TTGAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 7 0.32
27 6 0.27
28 9 0.41
ACGTcount: A:0.13, C:0.17, G:0.09, T:0.60
Consensus pattern (26 bp):
TCTTTTTTTTAGATTCATGAATCTTC
Found at i:96746 original size:18 final size:16
Alignment explanation
Indices: 96722--96765 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
96712 TGCCAACATC
96722 CTTTTTCTTCTTCTTCT
1 CTTTTT-TTCTTCTTCT
96739 C-TTTTTTCTATCTTCT
1 CTTTTTTTCT-TCTTCT
96755 CTTTTTTTCTT
1 CTTTTTTTCTT
96766 TGAAGCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.16
16 12 0.48
17 9 0.36
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (16 bp):
CTTTTTTTCTTCTTCT
Found at i:97425 original size:94 final size:94
Alignment explanation
Indices: 97324--97511 Score: 376
Period size: 94 Copynumber: 2.0 Consensus size: 94
97314 TAATTTGCAC
97324 CATTGAAGTATGAGGGTCTTGTAATGGATTAAGAATCTTCAATATTGTAGGAGCCAGAAATTGAA
1 CATTGAAGTATGAGGGTCTTGTAATGGATTAAGAATCTTCAATATTGTAGGAGCCAGAAATTGAA
97389 GCCATATTTATTCGGTTGATTGAATAAAT
66 GCCATATTTATTCGGTTGATTGAATAAAT
97418 CATTGAAGTATGAGGGTCTTGTAATGGATTAAGAATCTTCAATATTGTAGGAGCCAGAAATTGAA
1 CATTGAAGTATGAGGGTCTTGTAATGGATTAAGAATCTTCAATATTGTAGGAGCCAGAAATTGAA
97483 GCCATATTTATTCGGTTGATTGAATAAAT
66 GCCATATTTATTCGGTTGATTGAATAAAT
97512 TGATAGAGCT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (94 bp):
CATTGAAGTATGAGGGTCTTGTAATGGATTAAGAATCTTCAATATTGTAGGAGCCAGAAATTGAA
GCCATATTTATTCGGTTGATTGAATAAAT
Found at i:101526 original size:15 final size:15
Alignment explanation
Indices: 101506--101535 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
101496 CTCTCTCATA
101506 AGTCATGATATCACC
1 AGTCATGATATCACC
101521 AGTCATGATATCACC
1 AGTCATGATATCACC
101536 CAAAACTTTC
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:0.13, T:0.27
Consensus pattern (15 bp):
AGTCATGATATCACC
Found at i:110944 original size:47 final size:47
Alignment explanation
Indices: 110890--110985 Score: 149
Period size: 47 Copynumber: 2.0 Consensus size: 47
110880 ATGAAAAAAC
*
110890 AACCAAAGAACCGAAAAATATGCC-AAAAACATAAGAAAACATGCCAT
1 AACCAAAGAACCG-AAAACATGCCAAAAAACATAAGAAAACATGCCAT
* *
110937 AACCAAAGAACCGAAAACATGCCAAAAAACATAAGAAATCGTGCCAT
1 AACCAAAGAACCGAAAACATGCCAAAAAACATAAGAAAACATGCCAT
110984 AA
1 AA
110986 AGGCAGATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 9 0.20
47 36 0.80
ACGTcount: A:0.56, C:0.22, G:0.11, T:0.10
Consensus pattern (47 bp):
AACCAAAGAACCGAAAACATGCCAAAAAACATAAGAAAACATGCCAT
Found at i:111303 original size:19 final size:18
Alignment explanation
Indices: 111279--111344 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
111269 ATATTATTGA
111279 ATTATTAATAGTGAATAAT
1 ATTATTAATAGT-AATAAT
*
111298 ATTATT-AT-GTATTAAT
1 ATTATTAATAGTAATAAT
111314 ATTAATATAATAGTCTAATAAT
1 ATT-AT-TAATAG--TAATAAT
111336 ATT-TTAATA
1 ATTATTAATA
111345 ACAATACTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
16 8 0.21
17 4 0.10
18 3 0.08
19 13 0.33
20 2 0.05
22 9 0.23
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (18 bp):
ATTATTAATAGTAATAAT
Found at i:111400 original size:26 final size:26
Alignment explanation
Indices: 111366--111432 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
111356 AATATATTTT
*
111366 TAATAATTTTTAA-AAGATAATATAATA
1 TAATTATTTTTAATAA-ATAAT-TAATA
*
111393 T-CTTA-TTTTAATAAATAATTAATA
1 TAATTATTTTTAATAAATAATTAATA
*
111417 TAATTATTTTTTATAA
1 TAATTATTTTTAATAA
111433 GAATAGAGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 6 0.18
25 14 0.42
26 12 0.36
27 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
TAATTATTTTTAATAAATAATTAATA
Found at i:114655 original size:158 final size:159
Alignment explanation
Indices: 114368--114688 Score: 585
Period size: 158 Copynumber: 2.0 Consensus size: 159
114358 ATTTCCTCCT
114368 CTGTAAATTCTTCTCTAAACACAGAATCTGCTCCAATGAAATATTGGAAAAAATCAACTTTAAGT
1 CTGTAAATTCTTCTCTAAACACAGAATCTGCTCCAATGAAATATTGGAAAAAATCAACTTTAAGT
114433 CTTCCACTTCCAAGGTAAACTGATCATTAAAAGATTTTAAAGAAGTGATCTTGACAGTGGCCTTA
66 CTTCCACTTCCAAGGTAAACTGATCATTAAAAGATTTTAAAGAAGTGATCTTGACAGTGGCCTTA
*
114498 ATAAC-ACGAGTCTTGGAT-ACATTTTCC
131 ATAACAACGAGTCTTGGATAACATTTCCC
114525 CTGTAAATTCTTTCTCTAAACACAGAATCTGCTCCAATGAAATATTGGAAAAAATCAACTTTAAG
1 CTGTAAATTC-TTCTCTAAACACAGAATCTGCTCCAATGAAATATTGGAAAAAATCAACTTTAAG
114590 TCTTCCACTTCCAAGGTAAACTGATCATTAAAAGA-TTTAAAGAAGTGATCTTTGACAGTGGCCT
65 TCTTCCACTTCCAAGGTAAACTGATCATTAAAAGATTTTAAAGAAGTGATC-TTGACAGTGGCCT
114654 TAATAACAGACGAGTCTTGGATAACATTTCCC
129 TAATAACA-ACGAGTCTTGGATAACATTTCCC
114686 CTG
1 CTG
114689 ATATTTAGTG
Statistics
Matches: 158, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
157 25 0.16
158 109 0.69
160 13 0.08
161 11 0.07
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (159 bp):
CTGTAAATTCTTCTCTAAACACAGAATCTGCTCCAATGAAATATTGGAAAAAATCAACTTTAAGT
CTTCCACTTCCAAGGTAAACTGATCATTAAAAGATTTTAAAGAAGTGATCTTGACAGTGGCCTTA
ATAACAACGAGTCTTGGATAACATTTCCC
Found at i:116886 original size:157 final size:158
Alignment explanation
Indices: 116599--116908 Score: 532
Period size: 157 Copynumber: 2.0 Consensus size: 158
116589 AAACTGATAT
* * *
116599 TGTAACACCCATAACCCGTATAATTATTCCTATACAGATTATAGATGTCACCTGAATTTCTAAAA
1 TGTAACACCCATAACCCATATAATTATACCTATACAAATTATAGATGTCACCTGAATTTCTAAAA
*
116664 CCTTTTCCAATTCAAAAGTGATTTAAAATTTATTTTCTTAAAGTATCAAATGATATTATAAAAAT
66 CCATTTCCAATTCAAAAGTGATTTAAAATTTATTTTCTTAAAGTATCAAATGATATTATAAAAAT
116729 ATCATATCATATGAATTATGTTTATAAA
131 ATCATATCATATGAATTATGTTTATAAA
* *
116757 TGTAACACCTATAACCCATATAATTATACCTATACAAATTATAGATGTCACTTGAATTTCT-AAA
1 TGTAACACCCATAACCCATATAATTATACCTATACAAATTATAGATGTCACCTGAATTTCTAAAA
* * *
116821 CCATTTCCAATTCAAAAGTGATTTAAATTTTATTTTTTTAAAGTATCAAATGGTATTATAAAAAT
66 CCATTTCCAATTCAAAAGTGATTTAAAATTTATTTTCTTAAAGTATCAAATGATATTATAAAAAT
116886 ATCATATCATATGAATTATGTTT
131 ATCATATCATATGAATTATGTTT
116909 CGTTATAACA
Statistics
Matches: 143, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
157 87 0.61
158 56 0.39
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (158 bp):
TGTAACACCCATAACCCATATAATTATACCTATACAAATTATAGATGTCACCTGAATTTCTAAAA
CCATTTCCAATTCAAAAGTGATTTAAAATTTATTTTCTTAAAGTATCAAATGATATTATAAAAAT
ATCATATCATATGAATTATGTTTATAAA
Found at i:117455 original size:45 final size:45
Alignment explanation
Indices: 117392--117530 Score: 210
Period size: 45 Copynumber: 3.1 Consensus size: 45
117382 GCATATCCAA
* *
117392 TATTTTACC-ATATACTTACCATTTATTTTATAAGCTCATAAGCT
1 TATTTTACCAATATACTTACCATTTATTTCATAAGCTCGTAAGCT
* *
117436 TATTTTACCAATATACTTACCATTTATCTCATAAGCTCGTAAACT
1 TATTTTACCAATATACTTACCATTTATTTCATAAGCTCGTAAGCT
* *
117481 TATTTTATCAATATACTTGCCA-TTATTTCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACCATTTATTTCATAAGCTCGTAAGCT
117525 TATTTT
1 TATTTT
117531 CATGGTTATC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 35 0.41
45 51 0.59
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.45
Consensus pattern (45 bp):
TATTTTACCAATATACTTACCATTTATTTCATAAGCTCGTAAGCT
Found at i:119822 original size:7 final size:7
Alignment explanation
Indices: 119810--119835 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
119800 CACTCCCTGA
119810 CTTCTTC
1 CTTCTTC
119817 CTTCTTC
1 CTTCTTC
119824 CTTCTTC
1 CTTCTTC
119831 CTTCT
1 CTTCT
119836 CAGACATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
CTTCTTC
Found at i:121859 original size:253 final size:253
Alignment explanation
Indices: 121411--121915 Score: 1001
Period size: 253 Copynumber: 2.0 Consensus size: 253
121401 AATTGTTTTC
121411 AGTCAAACAAACCAACCCTAAGTATGAACCATACAAACTGTAAAGAAAGAGCCCCCAGATCATAT
1 AGTCAAACAAACCAACCCTAAGTATGAACCATACAAACTGTAAAGAAAGAGCCCCCAGATCATAT
121476 TAAGCTTTGGCAAACACACTTCATCTTATTGATAATTTTTTATGCATATTTTCACTCCAAGCAAG
66 TAAGCTTTGGCAAACACACTTCATCTTATTGATAATTTTTTATGCATATTTTCACTCCAAGCAAG
121541 TAGCATAATAAATGAGATCAAAGCCTTCCTTTCATTGTTTGGACTCTTTCCCCATGGATATAACC
131 TAGCATAATAAATGAGATCAAAGCCTTCCTTTCATTGTTTGGACTCTTTCCCCATGGATATAACC
*
121606 ATTCAAAGTGGAATCATGTATCTTTCCTTTGTATTCTTATGATCTTATTGTTTTATGA
196 AATCAAAGTGGAATCATGTATCTTTCCTTTGTATTCTTATGATCTTATTGTTTTATGA
121664 AGTCAAACAAACCAACCCTAAGTATGAACCATACAAACTGTAAAGAAAGAGCCCCCAGATCATAT
1 AGTCAAACAAACCAACCCTAAGTATGAACCATACAAACTGTAAAGAAAGAGCCCCCAGATCATAT
121729 TAAGCTTTGGCAAACACACTTCATCTTATTGATAATTTTTTATGCATATTTTCACTCCAAGCAAG
66 TAAGCTTTGGCAAACACACTTCATCTTATTGATAATTTTTTATGCATATTTTCACTCCAAGCAAG
121794 TAGCATAATAAATGAGATCAAAGCCTTCCTTTCATTGTTTGGACTCTTTCCCCATGGATATAACC
131 TAGCATAATAAATGAGATCAAAGCCTTCCTTTCATTGTTTGGACTCTTTCCCCATGGATATAACC
121859 AATCAAAGTGGAATCATGTATCTTTCCTTTGTATTCTTATGATCTTATTGTTTTATG
196 AATCAAAGTGGAATCATGTATCTTTCCTTTGTATTCTTATGATCTTATTGTTTTATG
121916 CTTTTCTATC
Statistics
Matches: 251, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
253 251 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.34
Consensus pattern (253 bp):
AGTCAAACAAACCAACCCTAAGTATGAACCATACAAACTGTAAAGAAAGAGCCCCCAGATCATAT
TAAGCTTTGGCAAACACACTTCATCTTATTGATAATTTTTTATGCATATTTTCACTCCAAGCAAG
TAGCATAATAAATGAGATCAAAGCCTTCCTTTCATTGTTTGGACTCTTTCCCCATGGATATAACC
AATCAAAGTGGAATCATGTATCTTTCCTTTGTATTCTTATGATCTTATTGTTTTATGA
Found at i:123547 original size:123 final size:122
Alignment explanation
Indices: 123387--123619 Score: 306
Period size: 123 Copynumber: 1.9 Consensus size: 122
123377 TGATCTTAAT
** ** * * *
123387 TTACGAAGGGGAGCACTTCCACCCTCAACTCACGGTGCAGAAGAACATGGCTCCTGCTGAAGGGT
1 TTACGAAAAGGAGCACCACCACCCTCAACTCACGGTGCAGAAGAACACGACTCCTGCGGAAGGGT
* * ** * * *
123452 GTCCTGTGAGGAAACATGAGGTGCGAGCCACGGATGAGTTGTCTATGTCCACCATAAC
66 G-CCCGTGAGGAAACACGAGAAGCGAGCCACAGATGAATCGTCTATGTCCACCATAAC
*
123510 TTACGAAAAGGAGCACCACCACCCTCAAC-CAATGGTGCAGAAGAACACGACTCCTGCGGAAGGG
1 TTACGAAAAGGAGCACCACCACCCTCAACTC-ACGGTGCAGAAGAACACGACTCCTGCGGAAGGG
123574 TGCCCGTGAGGAAACACGAGAAGCGAGCCACAGATGAATCGTCTAT
65 TGCCCGTGAGGAAACACGAGAAGCGAGCCACAGATGAATCGTCTAT
123620 ATCGATTGTA
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
122 38 0.40
123 56 0.60
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.17
Consensus pattern (122 bp):
TTACGAAAAGGAGCACCACCACCCTCAACTCACGGTGCAGAAGAACACGACTCCTGCGGAAGGGT
GCCCGTGAGGAAACACGAGAAGCGAGCCACAGATGAATCGTCTATGTCCACCATAAC
Found at i:127136 original size:20 final size:20
Alignment explanation
Indices: 127113--127243 Score: 140
Period size: 20 Copynumber: 6.5 Consensus size: 20
127103 GAATATGTAA
127113 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
127133 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
*
127153 AATCGCAACACGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
**
127174 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
* * *
127194 AATCGCAACGTGATTTTGACA
1 -ATCGCAACGCGATTCTGACT
127215 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
127235 ATCGCAACG
1 ATCGCAACG
127244 AGATAATACA
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.04
20 55 0.61
21 27 0.30
22 4 0.04
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:127159 original size:41 final size:41
Alignment explanation
Indices: 127112--127227 Score: 196
Period size: 41 Copynumber: 2.8 Consensus size: 41
127102 CGAATATGTA
127112 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
*
127153 AATCGCAACACGATTCTGACTATCGCAACGCGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
* * *
127194 AATCGCAACGTGATTTTGACAATCGCAACGCGAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGAT
127228 TCTGACTATC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (41 bp):
AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
Found at i:127179 original size:61 final size:61
Alignment explanation
Indices: 127133--127262 Score: 181
Period size: 61 Copynumber: 2.1 Consensus size: 61
127123 GATTCTGACT
127133 ATCGCAACGCGATAAT-ACATAATCGCAACACGATTCTGACTATCGCAACGCGATAATACATA
1 ATCGCAACGCGATAATGAC--AATCGCAACACGATTCTGACTATCGCAACGCGATAATACATA
* ** * * *
127195 ATCGCAACGTGATTTTGACAATCGCAACGCGATTCTGACTATCGCAACGAGATAATACAAA
1 ATCGCAACGCGATAATGACAATCGCAACACGATTCTGACTATCGCAACGCGATAATACATA
127256 ATCGCAA
1 ATCGCAA
127263 TACGATTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 46 0.75
62 13 0.21
63 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.22
Consensus pattern (61 bp):
ATCGCAACGCGATAATGACAATCGCAACACGATTCTGACTATCGCAACGCGATAATACATA
Found at i:127270 original size:61 final size:61
Alignment explanation
Indices: 127153--127271 Score: 184
Period size: 61 Copynumber: 2.0 Consensus size: 61
127143 GATAATACAT
* * **
127153 AATCGCAACACGATTCTGACTATCGCAACGCGATAATACATAATCGCAACGTGATTTTGAC
1 AATCGCAACACGATTCTGACTATCGCAACGAGATAATACAAAATCGCAACACGATTTTGAC
* *
127214 AATCGCAACGCGATTCTGACTATCGCAACGAGATAATACAAAATCGCAATACGATTTT
1 AATCGCAACACGATTCTGACTATCGCAACGAGATAATACAAAATCGCAACACGATTTT
127272 CAAAGCGCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (61 bp):
AATCGCAACACGATTCTGACTATCGCAACGAGATAATACAAAATCGCAACACGATTTTGAC
Found at i:127438 original size:22 final size:22
Alignment explanation
Indices: 127413--127482 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
127403 CTACGGCGAC
*
127413 ATCCGTCCCCATCTCCGACGAA
1 ATCCATCCCCATCTCCGACGAA
*
127435 ATCCATCCCCATCTCCGAGGAA
1 ATCCATCCCCATCTCCGACGAA
* *
127457 ATCCATCCCCATCTCTGGCGAA
1 ATCCATCCCCATCTCCGACGAA
127479 ATCC
1 ATCC
127483 GTCTATCTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.24, C:0.43, G:0.13, T:0.20
Consensus pattern (22 bp):
ATCCATCCCCATCTCCGACGAA
Found at i:127885 original size:20 final size:20
Alignment explanation
Indices: 127860--127978 Score: 95
Period size: 20 Copynumber: 6.1 Consensus size: 20
127850 AAAATCGCAA
*
127860 CGATAGTCAAATTCGCGTTG
1 CGATAGTCAATTTCGCGTTG
*
127880 CGATAGT-AATTTTCGTGTT-
1 CGATAGTCAA-TTTCGCGTTG
*
127899 -GATAGT-AATTTTCGTGTTG
1 CGATAGTCAA-TTTCGCGTTG
** *
127918 CGATTTTC-ATTTCTCGTTG
1 CGATAGTCAATTTCGCGTTG
* *
127937 CGATAGTCAAATTCACGTTG
1 CGATAGTCAATTTCGCGTTG
* *
127957 CGATAGTCATTTTCGTGTTG
1 CGATAGTCAATTTCGCGTTG
127977 CG
1 CG
127979 CTTTTAAGTT
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
18 18 0.22
19 16 0.20
20 46 0.57
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (20 bp):
CGATAGTCAATTTCGCGTTG
Found at i:129922 original size:20 final size:20
Alignment explanation
Indices: 129899--129947 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
129889 CGAAATTTAA
129899 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
129919 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
129939 ATCACAACG
1 ATCGCAACG
129948 GGATAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:130088 original size:20 final size:20
Alignment explanation
Indices: 130063--130131 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
130053 GTGATTATCT
*
130063 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
*
130083 CGTTGCGATATTC-ATTTCTG
1 CGTTGCGATAGTCAATTTC-G
* *
130103 CGTTGTGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
*
130123 TGTTGCGAT
1 CGTTGCGAT
130132 TTAAGTTTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.10
20 32 0.80
21 4 0.10
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:130142 original size:19 final size:20
Alignment explanation
Indices: 130118--130160 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
130108 TGATAGTCAT
130118 TTTCGTGTTGCGATTT-AAG
1 TTTCGTGTTGCGATTTCAAG
130137 TTTCGTGTTGCGATTTCAAG
1 TTTCGTGTTGCGATTTCAAG
130157 TTTC
1 TTTC
130161 AGAAACTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTCAAG
Found at i:130715 original size:21 final size:21
Alignment explanation
Indices: 130646--130719 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
130636 CATGTCATCA
* * *
130646 TTCAAGAGGCCTCTCCTATCG
1 TTCAAGAGGCCCCTCCCACCG
** *
130667 TTCAAGAGGCCCCTATCATCCC
1 TTCAAGAGGCCCCTCCCA-CCG
*
130689 TT-AAGAGTCCCCTCCCACCG
1 TTCAAGAGGCCCCTCCCACCG
130709 TTCAAGAGGCC
1 TTCAAGAGGCC
130720 TCTGTCATCT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 4 0.10
21 33 0.82
22 3 0.08
ACGTcount: A:0.22, C:0.38, G:0.18, T:0.23
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCG
Found at i:130737 original size:42 final size:41
Alignment explanation
Indices: 130638--130747 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 41
130628 CCGACTCACA
* * * *
130638 TGTCATCATTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCC
1 TGTCATCATT-AAGAGTCCCCTCCCACCGTTCAAGAGGCCCC
* * *
130680 TATCATCCCTTAAGAGTCCCCTCCCACCGTTCAAGAGGCCTC
1 TGTCAT-CATTAAGAGTCCCCTCCCACCGTTCAAGAGGCCCC
*
130722 TGTCATCTTTGAAGAGGT-CCCTCCCA
1 TGTCATCATT-AAGA-GTCCCCTCCCA
130748 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.05
42 48 0.86
43 5 0.09
ACGTcount: A:0.21, C:0.35, G:0.17, T:0.26
Consensus pattern (41 bp):
TGTCATCATTAAGAGTCCCCTCCCACCGTTCAAGAGGCCCC
Found at i:132165 original size:14 final size:14
Alignment explanation
Indices: 132146--132207 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
132136 TTGCTTGTTT
132146 AATTGATTTGTAAA
1 AATTGATTTGTAAA
132160 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
132174 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
132189 TATTGATGTGTAAA
1 AATTGATTTGTAAA
132203 TAATT
1 -AATT
132208 CTTATTTGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:132179 original size:28 final size:29
Alignment explanation
Indices: 132148--132202 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
132138 GCTTGTTTAA
*
132148 TTGATTTG-TAAAAATTGATTTGTAAAAG
1 TTGATTTGTTAAAAATTGATGTGTAAAAG
* *
132176 TTGATTTGTTTAATATTGATGTGTAAA
1 TTGATTTGTTAAAAATTGATGTGTAAA
132203 TAATTCTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (29 bp):
TTGATTTGTTAAAAATTGATGTGTAAAAG
Found at i:132331 original size:20 final size:20
Alignment explanation
Indices: 132306--132359 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
132296 AGGTACACTT
*
132306 TCGCAACGCTAAA-CTAAAAA
1 TCGCAACGCGAAAGC-AAAAA
* *
132326 TCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCAAAAA
132346 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
132360 TCAATTTGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAGCAAAAA
Found at i:132429 original size:20 final size:20
Alignment explanation
Indices: 132402--132490 Score: 106
Period size: 20 Copynumber: 4.5 Consensus size: 20
132392 GTGATTTTCT
* *
132402 CGTTGCGATAGTCGAATACC
1 CGTTGCGATAGTCAAATACA
* *
132422 CATTGCGATAATCAAATACA
1 CGTTGCGATAGTCAAATACA
* *
132442 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATACA
* *
132462 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATACA
132482 CGTTGCGAT
1 CGTTGCGAT
132491 TTTTTCGTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATACA
Found at i:132493 original size:94 final size:94
Alignment explanation
Indices: 132353--132552 Score: 240
Period size: 94 Copynumber: 2.1 Consensus size: 94
132343 AAATCGCAAC
* * * * * *
132353 GCGAAAGTC-AATTTGCGTTGCGATAGTCTAATACGCTTTGTGATTTTCTCGTTGCGATAGTCGA
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCGTTGCGATAGTCAA
132417 ATACCCATTGCGATAATCAAATACACGTT
66 ATACCCATTGCGATAATCAAATACACGTT
* * *
132446 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTTCGTTGCGTTAGTCAA
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCGTTGCGATAGTCAA
*** * * **
132511 ATTTGCGTTGCGATAATCAAATTCGGGTT
66 ATACCCATTGCGATAATCAAATACACGTT
*
132540 GCGATATTCAAAT
1 GCGATAGTCAAAT
132553 GAATGTGTAA
Statistics
Matches: 89, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
93 8 0.09
94 81 0.91
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (94 bp):
GCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCGTTGCGATAGTCAA
ATACCCATTGCGATAATCAAATACACGTT
Found at i:132521 original size:20 final size:20
Alignment explanation
Indices: 132496--132552 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
132486 GCGATTTTTT
* *
132496 CGTTGCGTTAGTCAAATTTG
1 CGTTGCGATAGTCAAATTCG
*
132516 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
132536 GGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
132553 GAATGTGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:132524 original size:54 final size:54
Alignment explanation
Indices: 132442--132544 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
132432 ATCAAATACA
*
132442 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATTTTTT
* * *
132496 CGTTGCGTTAGTCAAATTTGCGTTGCGATAATCAAATTCGGGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGAT
132545 ATTCAAATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATTTTTT
Found at i:132738 original size:12 final size:12
Alignment explanation
Indices: 132723--132753 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
132713 AAGCCGGTTG
*
132723 TGATTGGGATTT
1 TGATTGCGATTT
132735 TGATTGCGATTT
1 TGATTGCGATTT
132747 TGATTGC
1 TGATTGC
132754 CTTTTTCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.06, G:0.29, T:0.48
Consensus pattern (12 bp):
TGATTGCGATTT
Found at i:134823 original size:3 final size:3
Alignment explanation
Indices: 134815--134847 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
134805 CTTTGGGGAT
134815 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
134848 AGGGTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:135056 original size:24 final size:24
Alignment explanation
Indices: 135022--135075 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
135012 CTGAAACATC
135022 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
135046 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
135070 ATCAAA
1 ATCAAA
135076 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:135919 original size:20 final size:20
Alignment explanation
Indices: 135894--135962 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
135884 TTGAAATTCA
* *
135894 GTGTTGTGACAGTCAGAATC
1 GTGTTGCGACAGTCAAAATC
*
135914 GTGTTGCGATAGTCAAAATC
1 GTGTTGCGACAGTCAAAATC
* * * * *
135934 GCGTTACGATAATCAGAATC
1 GTGTTGCGACAGTCAAAATC
*
135954 GCGTTGCGA
1 GTGTTGCGA
135963 TTATGTATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
GTGTTGCGACAGTCAAAATC
Found at i:135977 original size:21 final size:21
Alignment explanation
Indices: 135904--136046 Score: 127
Period size: 20 Copynumber: 7.0 Consensus size: 21
135894 GTGTTGTGAC
* *
135904 AGTCAGAATCGTGTTGCGA-T
1 AGTCATAATCGCGTTGCGATT
* *
135924 AGTCAAAATCGCGTTACGA-T
1 AGTCATAATCGCGTTGCGATT
* *
135944 AATCAGAATCGCGTTGCGATT
1 AGTCATAATCGCGTTGCGATT
*
135965 ATGT-ATTATCGCGTTGCGA-T
1 A-GTCATAATCGCGTTGCGATT
* *
135985 AGTCAAAATCGCGTTGTGATT
1 AGTCATAATCGCGTTGCGATT
*
136006 ATGT-ATTATCGCGTTGCGA-T
1 A-GTCATAATCGCGTTGCGATT
*
136026 AGTCAGAATCGCGTTGCGATT
1 AGTCATAATCGCGTTGCGATT
136047 TACATATTCG
Statistics
Matches: 99, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.04
20 62 0.63
21 30 0.30
22 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (21 bp):
AGTCATAATCGCGTTGCGATT
Found at i:135995 original size:41 final size:41
Alignment explanation
Indices: 135904--136046 Score: 200
Period size: 41 Copynumber: 3.5 Consensus size: 41
135894 GTGTTGTGAC
* ** *
135904 AGTCAGAATCGTGTTGCGA-TA-GTCAAAATCGCGTTACGAT
1 AGTCAGAATCGCGTTGCGATTATGT-ATTATCGCGTTGCGAT
*
135944 AATCAGAATCGCGTTGCGATTATGTATTATCGCGTTGCGAT
1 AGTCAGAATCGCGTTGCGATTATGTATTATCGCGTTGCGAT
* *
135985 AGTCAAAATCGCGTTGTGATTATGTATTATCGCGTTGCGAT
1 AGTCAGAATCGCGTTGCGATTATGTATTATCGCGTTGCGAT
136026 AGTCAGAATCGCGTTGCGATT
1 AGTCAGAATCGCGTTGCGATT
136047 TACATATTCG
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
40 17 0.19
41 72 0.79
42 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
AGTCAGAATCGCGTTGCGATTATGTATTATCGCGTTGCGAT
Found at i:136037 original size:61 final size:61
Alignment explanation
Indices: 135904--136045 Score: 171
Period size: 61 Copynumber: 2.3 Consensus size: 61
135894 GTGTTGTGAC
*
135904 AGTCAGAATCGTGTTGCGATAGTCAAAATCGCGTTACGATAATCAGAATCGCGTTGCGATT
1 AGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATAATCAGAATCGCGTTGCGATT
** ** * * **
135965 ATGT-ATTATCGCGTTGCGATAGTCAAAATCGCGTTGTGATTATGTATTATCGCGTTGCGA-T
1 A-GTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATAAT-CAGAATCGCGTTGCGATT
136026 AGTCAGAATCGCGTTGCGAT
1 AGTCAGAATCGCGTTGCGAT
136046 TTACATATTC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
60 2 0.03
61 50 0.75
62 15 0.22
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (61 bp):
AGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATAATCAGAATCGCGTTGCGATT
Found at i:136173 original size:20 final size:19
Alignment explanation
Indices: 136150--136195 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
136140 GGAAACTAAT
* *
136150 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
136170 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
136189 TTGCGAT
1 TTGCGAT
136196 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:136185 original size:19 final size:19
Alignment explanation
Indices: 136161--136197 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
136151 TGCGATACTG
*
136161 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
136180 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
136198 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:146284 original size:30 final size:29
Alignment explanation
Indices: 146217--146410 Score: 128
Period size: 30 Copynumber: 6.5 Consensus size: 29
146207 TTTATTTGTA
*
146217 ATTACTTTAAGTCCTTTAAGTTTCTAT-TTTT
1 ATTA-TTTTAGTCCTTTAAGTTT-T-TGTTTT
* *
146248 GTTATTTTAGTCTTTTAAGTTTTTGTTTT
1 ATTATTTTAGTCCTTTAAGTTTTTGTTTT
* * *
146277 ATATATTTTAGCCCTTAAAGTTTCTGTTAATT
1 AT-TATTTTAGTCCTTTAAGTTTTTGTT--TT
*
146309 ATT-GTTTAGTCCTTTAA-TTTTTGTTTCT
1 ATTATTTTAGTCCTTTAAGTTTTTGTTT-T
* * **
146337 -TCTAATTTAGCCCTTTAAAATTTTGTTTT
1 AT-TATTTTAGTCCTTTAAGTTTTTGTTTT
* * *
146366 ATTTATTTTAGTCC-TTAAGATTCTATTTT
1 A-TTATTTTAGTCCTTTAAGTTTTTGTTTT
*
146395 TTTCATTTTAGTCCTT
1 ATT-ATTTTAGTCCTT
146411 GAGGTTTCTA
Statistics
Matches: 130, Mismatches: 21, Indels: 25
0.74 0.12 0.14
Matches are distributed among these distances:
27 2 0.02
28 5 0.04
29 48 0.37
30 66 0.51
31 5 0.04
32 4 0.03
ACGTcount: A:0.21, C:0.11, G:0.09, T:0.59
Consensus pattern (29 bp):
ATTATTTTAGTCCTTTAAGTTTTTGTTTT
Found at i:146376 original size:59 final size:60
Alignment explanation
Indices: 146249--146381 Score: 150
Period size: 59 Copynumber: 2.2 Consensus size: 60
146239 TCTATTTTTG
* * *
146249 TTATTTTAGTCTTTTAAGTTTTTGTTTTATATATTTTAGCCCTTAAAGTTTCTGTTAATTA
1 TTATTTTAGTCCTTTAAGTTTTTGTTTTATATAATTTAGCCCTTAAAATTTCTGTT-ATTA
* *
146310 TT-GTTTAGTCCTTTAA-TTTTTGTTTCT-TCTAATTTAGCCCTTTAAAATTT-TGTT-TTA
1 TTATTTTAGTCCTTTAAGTTTTTGTTT-TATATAATTTAGCCC-TTAAAATTTCTGTTATTA
146367 TTTATTTTAGTCCTT
1 -TTATTTTAGTCCTT
146382 AAGATTCTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
57 3 0.05
58 2 0.03
59 34 0.55
60 21 0.34
61 2 0.03
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60
Consensus pattern (60 bp):
TTATTTTAGTCCTTTAAGTTTTTGTTTTATATAATTTAGCCCTTAAAATTTCTGTTATTA
Done.