Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001681.1 Hibiscus syriacus cultivar Beakdansim tig00003359_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: 140752
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:1070 original size:36 final size:35
Alignment explanation
Indices: 986--1089 Score: 129
Period size: 35 Copynumber: 2.9 Consensus size: 35
976 TTTTTTGTGT
* * *
986 TTCAAGAGAAACTGTCTCAAGAGGGACAAAATTAT
1 TTCAAAAGAAACTGTCTCAAGAGAGACAAAATTAG
*
1021 TTCAAAAGAAACTGTCT-TAGAGAGACAAAACTTAG
1 TTCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTAG
* *
1056 TTCTAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TTC-AAAAGAAACTGTCTCAAGAGAGACAAAATT
1090 TGTTTCAAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
34 11 0.19
35 22 0.37
36 16 0.27
37 10 0.17
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.23
Consensus pattern (35 bp):
TTCAAAAGAAACTGTCTCAAGAGAGACAAAATTAG
Found at i:1327 original size:36 final size:37
Alignment explanation
Indices: 1243--1327 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
1233 AAGGTTTATG
* * * **
1243 TTTCAGAGAAAACTATCTCAAGGGAGACAAAATTTTG
1 TTTCAAAGGAAACTATCTCAAGAGAGACAAAATTTAA
*
1280 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTAA
1 TTTCAAAGGAAACTATCTCAAGAGAGACAAAATTTAA
1316 TTTCAAAGGAAA
1 TTTCAAAGGAAA
1328 TGTTTTCAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 13 0.32
37 28 0.68
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.25
Consensus pattern (37 bp):
TTTCAAAGGAAACTATCTCAAGAGAGACAAAATTTAA
Found at i:1429 original size:101 final size:103
Alignment explanation
Indices: 1229--1451 Score: 335
Period size: 101 Copynumber: 2.2 Consensus size: 103
1219 AGGGAAAACG
* *
1229 TTTCAAGGTTTATGTTTC-AGAGAAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAAC
1 TTTCAATGTTTATGTTTCAACAGAAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAAC
* *
1293 TATCTCAAGAGAGACAAAATTAATTTCAAAGGAAATGT
66 TACCCCAAGAGAGACAAAATTAATTTCAAAGGAAATGT
* *
1331 TTTCAATGTTTATGTTTCAACAG-AAATTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAAC
1 TTTCAATGTTTATGTTTCAACAGAAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAAC
* * * *
1394 TACCCCAAGCGAGATAAAATTTATTTCAAGGGAAATGT
66 TACCCCAAGAGAGACAAAATTAATTTCAAAGGAAATGT
1432 TTTCAATGTTTATGTTTCAA
1 TTTCAATGTTTATGTTTCAA
1452 GGGAGACAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
101 69 0.63
102 38 0.35
103 3 0.03
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (103 bp):
TTTCAATGTTTATGTTTCAACAGAAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAAC
TACCCCAAGAGAGACAAAATTAATTTCAAAGGAAATGT
Found at i:1452 original size:86 final size:87
Alignment explanation
Indices: 1362--1539 Score: 313
Period size: 87 Copynumber: 2.1 Consensus size: 87
1352 AGAAATTGTC
*
1362 TCAAGGGAGACAAAATTT-GTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
1426 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
* * *
1448 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
1513 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
1535 TCAAG
1 TCAAG
1540 AGAAAAGTCT
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
86 18 0.21
87 69 0.79
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
AAATGTTTTCAATGTTTATGTT
Found at i:2040 original size:105 final size:106
Alignment explanation
Indices: 1789--2106 Score: 385
Period size: 105 Copynumber: 3.0 Consensus size: 106
1779 TGTTGTTCCA
* * * * * *
1789 AGTCCAATATCTCCTC-C-GTGAAGTTAAAATTGACTATGGAACTAAGAAATTGTTTGTTGAC-A
1 AGTCCAATATC-CTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGAGAAATTGTTTGTTGACAA
* * * *
1851 GCCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGGGCTG-CTCG
65 G-CAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGATGTCTCG
** *
1893 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAACTGTTTGTTGACAAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGAGAAATTGTTTGTTGACAAG
*
1958 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGATGTCTCG
66 CAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGATGTCTCG
* * * *
1999 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCT-TGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGAGAAATTGTTTGTTGACAAG
* * * *
2063 CAGCCATCCCTTCTTTGTGGAGTTGAACTTGTGTTGTCTCG
66 CAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGATGTCTCG
2104 AGT
1 AGT
2107 GGCACGATAT
Statistics
Matches: 186, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
103 3 0.02
104 12 0.06
105 131 0.70
106 40 0.22
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGAGAAATTGTTTGTTGACAAG
CAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGATGTCTCG
Found at i:2738 original size:32 final size:31
Alignment explanation
Indices: 2697--2777 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
2687 CCCAAAGATT
* *
2697 CCCCAATATTCGATGTTGAATCTAAAAAAACG
1 CCCCAATATTTGATGTT-AATCTAAAAAAACA
* * *
2729 CCCCAATATTTGATATTAA-ATAAAAAAATA
1 CCCCAATATTTGATGTTAATCTAAAAAAACA
*
2759 CCCCAACATTTGATGTTAA
1 CCCCAATATTTGATGTTAA
2778 ATCTTCAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 25 0.60
31 2 0.05
32 15 0.36
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (31 bp):
CCCCAATATTTGATGTTAATCTAAAAAAACA
Found at i:3808 original size:69 final size:69
Alignment explanation
Indices: 3693--3830 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
3683 TGTCTCTCTC
* *
3693 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGTTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTATGCTTGATCAATC
3758 TCAT
66 TCAT
* *
3762 TTGATGCTCTATGATCTTTGAGTGAAGTGATTCAGTGATTCGGAAATGATTATGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTATGCTTGATCAATC
3827 TCAT
66 TCAT
3831 AGTTTGAATC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTATGCTTGATCAATC
TCAT
Found at i:5196 original size:27 final size:24
Alignment explanation
Indices: 5166--5215 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
5156 CATGTTTATG
5166 AAAATGCTTAAAAATGAATGTAGATGC
1 AAAATGC--AAAAATGAATG-AGATGC
*
5193 AAAATGCAAAAATGCATGAGATG
1 AAAATGCAAAAATGAATGAGATG
5216 TTCGAGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 10 0.45
27 7 0.32
ACGTcount: A:0.50, C:0.08, G:0.20, T:0.22
Consensus pattern (24 bp):
AAAATGCAAAAATGAATGAGATGC
Found at i:7078 original size:23 final size:22
Alignment explanation
Indices: 7050--7167 Score: 77
Period size: 22 Copynumber: 5.4 Consensus size: 22
7040 AAGCAAAGAT
7050 AAAATAGTAAGTAAAAAAAATAA
1 AAAATA-TAAGTAAAAAAAATAA
*
7073 AAAATA-AAG-GAAAAAAATGAAA
1 AAAATATAAGTAAAAAAAAT--AA
* *
7095 AAAATATAAATAAAACAAATAA
1 AAAATATAAGTAAAAAAAATAA
*
7117 ATAAATA-AA-TAATAAAAATAA
1 A-AAATATAAGTAAAAAAAATAA
* * * *
7138 TATATATATA-TATAATAAATAA
1 AAAATATA-AGTAAAAAAAATAA
7160 AAAA-ATAA
1 AAAATATAA
7168 AAAATAGTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
20 13 0.17
21 17 0.23
22 25 0.33
23 13 0.17
24 7 0.09
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAATATAAGTAAAAAAAATAA
Found at i:7105 original size:15 final size:14
Alignment explanation
Indices: 7087--7166 Score: 53
Period size: 13 Copynumber: 5.9 Consensus size: 14
7077 TAAAGGAAAA
7087 AAATGAAAAAAATAT
1 AAAT-AAAAAAATAT
*
7102 AAATAAAACAA-AT
1 AAATAAAAAAATAT
*
7115 AAAT-AAATAA-AT
1 AAATAAAAAAATAT
7127 -AATAAAAATAATAT
1 AAATAAAAA-AATAT
* * * *
7141 ATATATATATA-AT
1 AAATAAAAAAATAT
7154 AAATAAAAAAATA
1 AAATAAAAAAATA
7167 AAAAATAGTA
Statistics
Matches: 49, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
11 3 0.06
12 10 0.20
13 17 0.35
14 10 0.20
15 9 0.18
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (14 bp):
AAATAAAAAAATAT
Found at i:7118 original size:4 final size:4
Alignment explanation
Indices: 7100--7173 Score: 60
Period size: 4 Copynumber: 17.8 Consensus size: 4
7090 TGAAAAAAAT
* * * *
7100 ATAA ATAAA ACAA ATAA ATAA ATAA ATAA TAAAA ATAA TATAT ATAT ATATA
1 ATAA AT-AA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA -ATAA ATAA ATA-A
*
7152 ATAA ATAA AAAA ATAA A-AA ATA
1 ATAA ATAA ATAA ATAA ATAA ATA
7174 GTATATTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
3 3 0.05
4 42 0.74
5 12 0.21
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:7118 original size:28 final size:28
Alignment explanation
Indices: 7063--7132 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
7053 ATAGTAAGTA
* **
7063 AAAAAAATAAAAAATAAAGGAAAAAAAT
1 AAAAAAATAATAAATAAAACAAAAAAAT
*
7091 GAAAAAAAT-ATAAATAAAACAAATAAAT
1 -AAAAAAATAATAAATAAAACAAAAAAAT
*
7119 AAATAAATAATAAA
1 AAAAAAATAATAAA
7133 AATAATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 7 0.20
28 20 0.57
29 8 0.23
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (28 bp):
AAAAAAATAATAAATAAAACAAAAAAAT
Found at i:7139 original size:24 final size:23
Alignment explanation
Indices: 7063--7173 Score: 81
Period size: 24 Copynumber: 4.9 Consensus size: 23
7053 ATAGTAAGTA
**
7063 AAAAAAATAAA-AAAT-AA-AGG
1 AAAAAAATAAATAAATAAATAAT
* *
7083 AAAAAAATGAAAAAAATATA-AAT
1 AAAAAAAT-AAATAAATAAATAAT
7106 AAAACAAATAAATAAATAAATAAT
1 AAAA-AAATAAATAAATAAATAAT
* * *
7130 AAAAATAATATATATATATATAAT
1 AAAAA-AATAAATAAATAAATAAT
7154 AAATAAAA-AAATAAA-AAATA
1 AAA-AAAATAAATAAATAAATA
7174 GTATATTATA
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
20 8 0.11
21 3 0.04
22 8 0.11
23 21 0.29
24 31 0.42
25 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.21
Consensus pattern (23 bp):
AAAAAAATAAATAAATAAATAAT
Found at i:7155 original size:39 final size:39
Alignment explanation
Indices: 7112--7222 Score: 135
Period size: 36 Copynumber: 3.0 Consensus size: 39
7102 AAATAAAACA
7112 AATAAATAAATAAATAATAAAAATAATATATATATATAT
1 AATAAATAAATAAATAATAAAAATAATATATATATATAT
* *
7151 AATAAATAAAAAAAT-A-AAAAATAGTATAT-TATATAT
1 AATAAATAAATAAATAATAAAAATAATATATATATATAT
* *
7187 AAT-AA-AACT-GATAATAAAAAATAATATATATATATA
1 AATAAATAAATAAATAAT-AAAAATAATATATATATATA
7223 ATCTAAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
33 2 0.03
34 3 0.05
35 2 0.03
36 22 0.35
37 18 0.29
38 1 0.02
39 14 0.23
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.32
Consensus pattern (39 bp):
AATAAATAAATAAATAATAAAAATAATATATATATATAT
Found at i:7158 original size:31 final size:31
Alignment explanation
Indices: 7120--7263 Score: 93
Period size: 31 Copynumber: 4.5 Consensus size: 31
7110 CAAATAAATA
7120 AATAAATAATAAAAATAATATATATATATAT
1 AATAAATAATAAAAATAATATATATATATAT
7151 AATAAATAA-AAAAATAAAAAATAGTATATTATATAT
1 AATAAATAATAAAAAT----AATA-TATA-TATATAT
* *
7187 AATAAAACTGATAATAAAAAATA-ATATATATAT
1 AAT-AAA-TAATAA-AAATAATATATATATATAT
* *
7220 -ATAATCTAA-AAAAATAA-AAATATATACTA-
1 AATAA-ATAATAAAAATAATATATATATA-TAT
*
7249 AAGTAAAAAATAAAA
1 AA-TAAATAATAAAA
7264 TACATAAAAT
Statistics
Matches: 90, Mismatches: 7, Indels: 32
0.70 0.05 0.25
Matches are distributed among these distances:
28 1 0.01
29 12 0.13
30 13 0.14
31 20 0.22
32 2 0.02
33 7 0.08
34 7 0.08
35 4 0.04
36 14 0.16
37 3 0.03
38 2 0.02
39 2 0.02
40 3 0.03
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (31 bp):
AATAAATAATAAAAATAATATATATATATAT
Found at i:7167 original size:36 final size:36
Alignment explanation
Indices: 7116--7245 Score: 123
Period size: 36 Copynumber: 3.8 Consensus size: 36
7106 AAAACAAATA
*
7116 AATAAAT-AAATAATAAAAATAATATATATATATAT
1 AATAAATAAAAAAATAAAAATAATATATATATATAT
*
7151 AATAAATAAAAAAATAAAAAATAGTATAT-TATATAT
1 AATAAATAAAAAAAT-AAAAATAATATATATATATAT
** *
7187 AATAAA-ACTGATAAT-AAAA-AATA-ATATATATAT
1 AATAAATA-AAAAAATAAAAATAATATATATATATAT
*
7220 -ATAATCTAAAAAAATAAAAAT-ATATA
1 AATAA-ATAAAAAAATAAAAATAATATA
7246 CTAAAGTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
32 6 0.08
33 14 0.18
34 12 0.16
35 9 0.12
36 23 0.30
37 12 0.16
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (36 bp):
AATAAATAAAAAAATAAAAATAATATATATATATAT
Found at i:7242 original size:25 final size:25
Alignment explanation
Indices: 7202--7282 Score: 85
Period size: 24 Copynumber: 3.2 Consensus size: 25
7192 AACTGATAAT
* *
7202 AAAAAATAATATATATATATAATCTA
1 AAAAAATAA-AAATATATATAATGTA
*
7228 AAAAAATAAAAATATATACTAAAGT-
1 AAAAAATAAAAATATATA-TAATGTA
* *
7253 AAAAAAT-AAAATACATAAAATGTA
1 AAAAAATAAAAATATATATAATGTA
7277 AAAAAA
1 AAAAAA
7283 AATATTACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.09
24 15 0.32
25 15 0.32
26 13 0.28
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAAAATAAAAATATATATAATGTA
Found at i:7255 original size:26 final size:24
Alignment explanation
Indices: 7201--7263 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
7191 AAACTGATAA
* *
7201 TAAAAAATAATATATATATATAATC
1 TAAAAAATAA-AAATATATATAAAC
*
7226 TAAAAAAATAAAAATATATACTAAAG
1 T-AAAAAATAAAAATATATA-TAAAC
7252 TAAAAAATAAAA
1 TAAAAAATAAAA
7264 TACATAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (24 bp):
TAAAAAATAAAAATATATATAAAC
Found at i:7256 original size:23 final size:21
Alignment explanation
Indices: 7230--7302 Score: 55
Period size: 24 Copynumber: 3.4 Consensus size: 21
7220 ATAATCTAAA
7230 AAAATAAAAATATATACTAAA-GT
1 AAAA-AAAAATATATA--AAATGT
*
7253 AAAAAATAAAATACATAAAATGT
1 -AAAAA-AAAATATATAAAATGT
*
7276 AAAAAAAAATAT-T-ACATG-
1 AAAAAAAAATATATAAAATGT
7294 AAAAAAAAA
1 AAAAAAAAA
7303 GAAAAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 9 0.20
19 4 0.09
20 1 0.02
21 6 0.14
22 8 0.18
23 3 0.07
24 13 0.30
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (21 bp):
AAAAAAAAATATATAAAATGT
Found at i:7257 original size:27 final size:26
Alignment explanation
Indices: 7202--7258 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
7192 AACTGATAAT
* *
7202 AAAAAATAATATATATATATAATCTA
1 AAAAAATAATAAATATATATAAACTA
*
7228 AAAAAATAA-AAATATATACTAAAGTA
1 AAAAAATAATAAATATATA-TAAACTA
7254 AAAAA
1 AAAAA
7259 TAAAATACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (26 bp):
AAAAAATAATAAATATATATAAACTA
Found at i:7291 original size:24 final size:23
Alignment explanation
Indices: 7230--7297 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 23
7220 ATAATCTAAA
7230 AAAATAAAAATATATAC-T-AAAGT
1 AAAA-AAAAATAT-TACATAAAAGT
7253 AAAAAATAAA-A-TACATAAAATGT
1 AAAAAA-AAATATTACATAAAA-GT
7276 AAAAAAAAATATTACATGAAAA
1 AAAAAAAAATATTACAT-AAAA
7298 AAAAAGAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 9 0.24
23 16 0.42
24 5 0.13
25 4 0.11
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAAAAAAATATTACATAAAAGT
Found at i:7833 original size:57 final size:57
Alignment explanation
Indices: 7745--7903 Score: 248
Period size: 57 Copynumber: 2.8 Consensus size: 57
7735 TATTGTTTAT
* *
7745 ATTGCAATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAA-TCGC
1 ATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAACT-GC
* *
7802 ATTGCGATAGTACTGTTTTCCTATATCGGTAATTAGCGTTGCGAATTTGAAAACTGC
1 ATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAACTGC
* *
7859 ATTGCGATAGTACTGTTTACCTATATCGGTAATTACCATTGCGAA
1 ATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAA
7904 ATCAAAATTC
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
57 93 0.99
58 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (57 bp):
ATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAACTGC
Found at i:8002 original size:21 final size:20
Alignment explanation
Indices: 7968--8008 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
7958 TATGAAAAAT
7968 AAATTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
*
7988 AAATTCCGTGTTGCGAATTTG
1 AAATT-CGCGTTGCGAATTTG
8009 GCTTATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (20 bp):
AAATTCGCGTTGCGAATTTG
Found at i:8104 original size:20 final size:20
Alignment explanation
Indices: 8079--8129 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
8069 GAAAATCGCG
8079 CGTTGCGATTTACATATT-A
1 CGTTGCGATTTACATATTCA
8098 TCGTTGCGATTTACATATTCA
1 -CGTTGCGATTTACATATTCA
*
8119 CATTGCGATTT
1 CGTTGCGATTT
8130 TGGAACCTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTACATATTCA
Found at i:8718 original size:29 final size:29
Alignment explanation
Indices: 8630--8760 Score: 151
Period size: 30 Copynumber: 4.4 Consensus size: 29
8620 CATATTCTAT
8630 TTAAAGGACTAAAATAG-AAAAACAAGGAAC
1 TTAAAGGACTAAAATAGCAAAAACAA--AAC
*
8660 TTAAAGGACTAAAATAGCAAAAATAGAAAC
1 TTAAAGGACTAAAATAGCAAAAACA-AAAC
*
8690 TTAAGGGACTAAAACTA-CAAAAACAAAAC
1 TTAAAGGACTAAAA-TAGCAAAAACAAAAC
* * *
8719 TTAAGGGACTTAAATAGAAAAAACAAAAAC
1 TTAAAGGACTAAAATAGCAAAAAC-AAAAC
8749 TT-AAGGACTAAA
1 TTAAAGGACTAAA
8761 CCACAAATAT
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.02
29 31 0.35
30 47 0.53
31 8 0.09
32 1 0.01
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (29 bp):
TTAAAGGACTAAAATAGCAAAAACAAAAC
Found at i:8728 original size:59 final size:58
Alignment explanation
Indices: 8633--8760 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 58
8623 ATTCTATTTA
* * * *
8633 AAGGACTAAAATAGAAAAACAAGGAACTTAAAGGACTAAAATAGCAAAAATAGAAACTT
1 AAGGACTAAAATACAAAAACAA-GAACTTAAAGGACTAAAATAGAAAAAACAAAAACTT
* *
8692 AAGGGACTAAAACTACAAAAACAA-AACTTAAGGGACTTAAATAGAAAAAACAAAAACTT
1 AA-GGACTAAAA-TACAAAAACAAGAACTTAAAGGACTAAAATAGAAAAAACAAAAACTT
8751 AAGGACTAAA
1 AAGGACTAAA
8761 CCACAAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
58 8 0.13
59 34 0.56
60 9 0.15
61 10 0.16
ACGTcount: A:0.59, C:0.12, G:0.14, T:0.15
Consensus pattern (58 bp):
AAGGACTAAAATACAAAAACAAGAACTTAAAGGACTAAAATAGAAAAAACAAAAACTT
Found at i:10774 original size:131 final size:129
Alignment explanation
Indices: 10491--10979 Score: 538
Period size: 131 Copynumber: 3.7 Consensus size: 129
10481 GTTATGGTCT
* * *
10491 TCTAAGGGTGACACAGCTCCTACGTGATGAAGAGATCTGGTCGGTGGATGACACGTCTCATACAT
1 TCTAAGGGTGACAC-GCTCCTACGTGATGAAGAGGTCTGGTCGGGGGATGACACGT-TCCTACAT
* * * * * *
10556 GATTAAGA-GTTCTG-CCATCTTTAGGAATGGTGATAACACGGTTTCTACGTGATGAGGATAGCT
64 GATGAGGATGAT-AGACCATCTTTAGG---GATGATAACACGGTTCCTACGTGATGAGGATAGCT
10619 GGTTA
125 GGTTA
* * * * *
10624 TCTATGGGTGACACGGCTCCTACGTGATGAGGAGGTCTAGTCGGTGGATGACACTGTTCCTACGT
1 TCTAAGGGTGACAC-GCTCCTACGTGATGAAGAGGTCTGGTCGGGGGATGACAC-GTTCCTACAT
* * * *
10689 GATGAGGATGATAGACGATCTTTAGGGATGATAACATGGTTCCTACGTGATGAGGATGGCTAGTT
64 GATGAGGATGATAGACCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGGATAGCTGGTT
10754 A
129 A
* * *
10755 TCTAAGGGTGACGCTGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGATTCCTACGT
1 TCTAAGGGTGACAC-GCTCCTACGTGATGAAGAGGTCTGGTCGGGGGATGACACG-TTCCTACAT
* * *
10820 GATAAGGATGATA-ACCCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGGACAACTGGT
64 GATGAGGATGATAGA-CCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGGATAGCTGGT
10884 TA
128 TA
* * * * * *
10886 TCTAAGGGTGACTCGACTCCTACGTGATGAAAAAGTATGGTCGGGGGATGACACGGTTTCTACAC
1 TCTAAGGGTGACACG-CTCCTACGTGATGAAGAGGTCTGGTCGGGGGATGACAC-GTTCCTACAT
10951 GATGAGGATGGCAT-G-CCATCTTTAGGGAT
64 GATGAGGAT-G-ATAGACCATCTTTAGGGAT
10980 AATGGTTTCA
Statistics
Matches: 308, Mismatches: 38, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
130 3 0.01
131 225 0.73
132 2 0.01
133 64 0.21
134 14 0.05
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (129 bp):
TCTAAGGGTGACACGCTCCTACGTGATGAAGAGGTCTGGTCGGGGGATGACACGTTCCTACATGA
TGAGGATGATAGACCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGGATAGCTGGTTA
Found at i:10974 original size:262 final size:262
Alignment explanation
Indices: 10491--10979 Score: 619
Period size: 262 Copynumber: 1.9 Consensus size: 262
10481 GTTATGGTCT
*
10491 TCTAAGGGTGACACAGCTCCTACGTGATGAAGAGATCTGGTCGGTGGATGACACGTCTCATACAT
1 TCTAAGGGTGACACAGCTCCTACGTGATGAAGAGATCTGGTCGGGGGATGACACGTCTCATACAT
* *** * * * *
10556 GATTAAGAGTTCTGCCATCTTTAGGAATGGTGATAACACGGTTTCTACGTGATGAGGATAGCTGG
66 GATTAAGAGATAACCCATCTTTAGG-A-GATGATAACACGGTTCCTACGTGATGAGGACAACTGG
* * ** * * * *
10621 TTATCTATGGGTGACACGGCTCCTACGTGATGAGGAGGTCTAGTCGGTGGATGACACTGTTCCTA
129 TTATCTAAGGGTGACACGACTCCTACGTGATGAAAAAGTATAGTCGGGGGATGACACGGTTCCTA
** *
10686 CGTGATGAGGATGATAGACGATCTTTAGGGATGATAACATGGTTCCTACGTGATGAGGATGGCTA
194 CACGATGAGGATGATAGACCATCTTTAGGGATGATAACATGGTTCCTACGTGATGAGGATGGCTA
10751 GTTA
259 GTTA
* * * * * *
10755 TCTAAGGGTGACGCTGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGAT-TCCTACG
1 TCTAAGGGTGACACAGCTCCTACGTGATGAAGAGATCTGGTCGGGGGATGACACG-TCTCATACA
10819 TGA-TAAGGATGATAACCCATCTTTAGG-GATGATAACACGGTTCCTACGTGATGAGGACAACTG
65 TGATTAA-GA-GATAACCCATCTTTAGGAGATGATAACACGGTTCCTACGTGATGAGGACAACTG
* * *
10882 GTTATCTAAGGGTGACTCGACTCCTACGTGATGAAAAAGTATGGTCGGGGGATGACACGGTTTCT
128 GTTATCTAAGGGTGACACGACTCCTACGTGATGAAAAAGTATAGTCGGGGGATGACACGGTTCCT
10947 ACACGATGAGGATGGCAT-G-CCATCTTTAGGGAT
193 ACACGATGAGGAT-G-ATAGACCATCTTTAGGGAT
10980 AATGGTTTCA
Statistics
Matches: 191, Mismatches: 29, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
262 110 0.58
263 5 0.03
264 62 0.32
265 14 0.07
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (262 bp):
TCTAAGGGTGACACAGCTCCTACGTGATGAAGAGATCTGGTCGGGGGATGACACGTCTCATACAT
GATTAAGAGATAACCCATCTTTAGGAGATGATAACACGGTTCCTACGTGATGAGGACAACTGGTT
ATCTAAGGGTGACACGACTCCTACGTGATGAAAAAGTATAGTCGGGGGATGACACGGTTCCTACA
CGATGAGGATGATAGACCATCTTTAGGGATGATAACATGGTTCCTACGTGATGAGGATGGCTAGT
TA
Found at i:13864 original size:2 final size:2
Alignment explanation
Indices: 13857--13881 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13847 ATTGTATACT
13857 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13882 TATGGGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18473 original size:60 final size:59
Alignment explanation
Indices: 18392--18506 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 59
18382 TTAAAGAACC
* * *
18392 AAAATAGCAAAACCATGAACTTAAAGGACTAAAATAGAAAAAATAGAAACTTAAGGGACT
1 AAAATAACAAAAACATGAACTTAAAGGAATAAAATAG-AAAAATAGAAACTTAAGGGACT
* * *
18452 AAAATAACAAAAACA-GAAACTTAAGGGAATAAAATTGCAAAATAGAAACTTAAGG
1 AAAATAACAAAAACATG-AACTTAAAGGAATAAAATAGAAAAATAGAAACTTAAGG
18507 ACTGAACCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 18 0.38
60 30 0.62
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (59 bp):
AAAATAACAAAAACATGAACTTAAAGGAATAAAATAGAAAAATAGAAACTTAAGGGACT
Found at i:18503 original size:29 final size:30
Alignment explanation
Indices: 18409--18506 Score: 119
Period size: 30 Copynumber: 3.3 Consensus size: 30
18399 CAAAACCATG
* *
18409 AACTTAAAGGACTAAAATAGA-AAAAATAGA
1 AACTTAAGGGAATAAAATA-ACAAAAATAGA
* *
18439 AACTTAAGGGACTAAAATAACAAAAACAGA
1 AACTTAAGGGAATAAAATAACAAAAATAGA
**
18469 AACTTAAGGGAATAAAATTGC-AAAATAGA
1 AACTTAAGGGAATAAAATAACAAAAATAGA
18498 AACTTAAGG
1 AACTTAAGG
18507 ACTGAACCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
29 17 0.28
30 44 0.72
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.17
Consensus pattern (30 bp):
AACTTAAGGGAATAAAATAACAAAAATAGA
Found at i:26548 original size:32 final size:32
Alignment explanation
Indices: 26493--26563 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
26483 GGTAGGCAGT
** *
26493 TGATTTTATTGAAGCACTGAATGGTAAGAAGC
1 TGATTTTATTGAAGCACCAAATGGCAAGAAGC
* *
26525 TGATTTTATTGAAGCACCAAATGGCAGGTAGC
1 TGATTTTATTGAAGCACCAAATGGCAAGAAGC
26557 TGATTTT
1 TGATTTT
26564 TGTTGAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (32 bp):
TGATTTTATTGAAGCACCAAATGGCAAGAAGC
Found at i:36206 original size:2 final size:2
Alignment explanation
Indices: 36199--36228 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
36189 ATTTAAACAA
*
36199 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36229 GATTAATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:36354 original size:14 final size:13
Alignment explanation
Indices: 36317--36368 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
36307 ATAAATATTA
36317 ATAAAATT-AAAT
1 ATAAAATTAAAAT
*
36329 AACAAAATTAAAAT
1 -ATAAAATTAAAAT
*
36343 GTAAAATATAAAAT
1 ATAAAAT-TAAAAT
36357 ATAAAATCTAAA
1 ATAAAAT-TAAA
36369 GGCCTTAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 12 0.38
14 20 0.62
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAAATTAAAAT
Found at i:37584 original size:3 final size:3
Alignment explanation
Indices: 37578--37656 Score: 95
Period size: 3 Copynumber: 26.0 Consensus size: 3
37568 TATTATTTTT
* *
37578 TAA TAA TAA TAT TAA TAA TAA TAA TATA TAA TAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
** * *
37624 TAA TAA TTT TAA AAA TCA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37657 CTATATGAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:45354 original size:18 final size:17
Alignment explanation
Indices: 45333--45375 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
45323 ATATATACAT
45333 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
45351 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
45368 ATAA-AATA
1 ATAATAATA
45376 TCCATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:45810 original size:37 final size:37
Alignment explanation
Indices: 45733--45833 Score: 121
Period size: 37 Copynumber: 2.7 Consensus size: 37
45723 GTACTTGTGG
* * * * * *
45733 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* *
45770 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
*
45807 ATCCTATTTTTAGAAGTTTGAATCCTA
1 ATCCTATTTTTAGGAGTTTGAATCCTA
45834 ATAGGACGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:46679 original size:105 final size:105
Alignment explanation
Indices: 46380--46905 Score: 749
Period size: 105 Copynumber: 5.0 Consensus size: 105
46370 GCATTGTTCC
* * * * * *
46380 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
* * * * * *
46445 TCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGATGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * **
46486 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTAACTCTG-AA-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
46546 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
46586 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
46651 CAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
46691 GAGTCCAATATTCTTCGTTGT-ATAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGA-AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAA
46755 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
46796 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
* * * * *
46861 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
46902 GAGT
1 GAGT
46906 GTCACGATAT
Statistics
Matches: 380, Mismatches: 32, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
100 80 0.21
101 1 0.00
102 4 0.01
103 4 0.01
104 5 0.01
105 201 0.53
106 85 0.22
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:47152 original size:36 final size:36
Alignment explanation
Indices: 47105--47180 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
47095 TGTTTGGAGA
* * *
47105 GAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
*
47141 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
47177 GAAA
1 GAAA
47181 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:47301 original size:105 final size:104
Alignment explanation
Indices: 47080--47398 Score: 518
Period size: 105 Copynumber: 3.1 Consensus size: 104
47070 TTCGTTAAAT
* ** *
47080 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
47142 AAACTATCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
47181 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
47246 AAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAG-AAAAAATTCATTTCAAGGGAAA
*
47286 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
47351 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
47390 TGTTTTCAA
1 TGTTTTCAA
47399 GAGAAACTGT
Statistics
Matches: 203, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
101 46 0.23
103 3 0.01
104 54 0.27
105 100 0.49
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:47355 original size:39 final size:39
Alignment explanation
Indices: 47301--47375 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
47291 TCAATGTTTA
*
47301 TGTTTCAAGAGAAACTATCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
47340 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
47376 AATTTCAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 29 0.91
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:47555 original size:36 final size:36
Alignment explanation
Indices: 47515--47628 Score: 102
Period size: 36 Copynumber: 3.2 Consensus size: 36
47505 CTTTCGAGTG
* *
47515 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ** * * * **
47551 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ***
47587 AAAACAGTCTCAAGTTAGACAAAGGATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
47623 AAAACA
1 AAAACA
47629 AATTTGAGTG
Statistics
Matches: 56, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:47608 original size:72 final size:74
Alignment explanation
Indices: 47469--47644 Score: 205
Period size: 72 Copynumber: 2.4 Consensus size: 74
47459 TAAAATCTTC
* ** * *
47469 TTAAAAAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGA
* *
47534 CAAATCTTGTT
64 CAAAGCATGTT
**
47545 TTAAGAAAAACAATCTTGAGTGAAATAAAT-CTTCTTTCGAG-AAAAACAGTCTCAAGTTAGACA
1 TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
*
47608 AAGGATGTT
66 AAGCATGTT
*
47617 TTAAGAAAAACAAAT-TTGAGTGAGATAA
1 TTAAGAAAAAC-AATCTTGAGTGAAATAA
47645 TCATCTGCAT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
72 47 0.53
73 14 0.16
75 4 0.05
76 23 0.26
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (74 bp):
TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
AAGCATGTT
Found at i:49093 original size:183 final size:183
Alignment explanation
Indices: 48785--49138 Score: 672
Period size: 183 Copynumber: 1.9 Consensus size: 183
48775 ATCAGGTTTA
48785 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
48850 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
48915 TCCTCTATAACCAATTGCCTTAATGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAATGGAATAGCTCAGCTTTAGAGGGACAAATC
* *
48968 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGTAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
49033 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTTATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
49098 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAATGGAATAGCTCAGCTTTA
49139 CGGATTTAAT
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 167 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAATGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:53319 original size:2 final size:2
Alignment explanation
Indices: 53314--53353 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
53304 AAAAGAAAAA
53314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53354 CAAAGTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53879 original size:18 final size:17
Alignment explanation
Indices: 53856--53898 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
53846 ATATATACAT
53856 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
53874 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
53891 ATAA-AATA
1 ATAATAATA
53899 TACATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:53906 original size:58 final size:54
Alignment explanation
Indices: 53778--53906 Score: 150
Period size: 58 Copynumber: 2.2 Consensus size: 54
53768 AATATTAAAG
* * *
53778 AAATATATATATATATATATATAATAATAAAATATAGTAAAAAAATAAATGAAA
1 AAATATATATATATATACATATAATAATAAAACATAATAAAAAAATAAATGAAA
53832 ATAATTTAATATATATATATACATATAATAATAATAACATGAATAATAAAAATAAATGAATA
1 A-AA--T-ATATATATATATACATATAATAATAA-AACAT-AATAA-AAAAATAAATGAA-A
*
53894 AAATATACATATA
1 AAATATATATATA
53907 ATAAATAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
54 1 0.02
55 2 0.03
57 1 0.02
58 33 0.52
59 5 0.08
60 4 0.06
61 15 0.24
62 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (54 bp):
AAATATATATATATATACATATAATAATAAAACATAATAAAAAAATAAATGAAA
Found at i:55715 original size:17 final size:19
Alignment explanation
Indices: 55676--55718 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
55666 AGGTAAGAAT
55676 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
55696 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
55713 ATGATA
1 ATGATA
55719 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:55746 original size:183 final size:181
Alignment explanation
Indices: 55271--55746 Score: 697
Period size: 182 Copynumber: 2.6 Consensus size: 181
55261 CGATCCAAAT
* *
55271 AAAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTAT-AGAAATGA
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAA-TATGATAAAACCGGTATCA-AAATGA
* * * * *
55335 TAAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACT
64 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACT
* *
55400 TCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTATCGATACTTTT
129 TCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTATCGATACTTTA
* *
55453 AAAAAATGTATCGATCCAAAACGATATACCATGTAAAAATATGATAAAACCGGT-TACAAAATGA
1 AAAAAATGTATCGATCCAAAACGATATAACAGGT-AAAATATGATAAAACCGGTAT-CAAAATGA
*
55517 TAAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACT
64 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACT
* ** * *
55581 TTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTA
129 TCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTATCGATACTTTA
*
55634 AAAAAATATATCGATCCACACAACGATATAACAGGTAAGAATATGATAAAACCGGTATCAAAATG
1 AAAAAATGTATCGATCCA-A-AACGATATAACAGGTAA-AATATGATAAAACCGGTATCAAAATG
*
55699 ATAAAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
63 ATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
55747 CGTAAGTACG
Statistics
Matches: 266, Mismatches: 21, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
181 81 0.30
182 96 0.36
183 88 0.33
184 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (181 bp):
AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTATCGATACTTTA
Found at i:57961 original size:21 final size:21
Alignment explanation
Indices: 57937--57980 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
57927 AAGACAATCA
57937 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
57958 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
57979 AG
1 AG
57981 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:58059 original size:33 final size:33
Alignment explanation
Indices: 58014--58079 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
58004 AAATAGATGG
*
58014 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* * *
58047 AGTGGTGTAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
58080 GGGGTGATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:59289 original size:4 final size:4
Alignment explanation
Indices: 59280--59304 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
59270 TAAGAGATTG
59280 GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT G
59305 AAAGGACATT
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:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:59908 original size:19 final size:19
Alignment explanation
Indices: 59884--59932 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
59874 AATGTAGGGT
59884 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
59903 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
59922 TATTTTTGTAT
1 TAATTTTGTAT
59933 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:60594 original size:198 final size:198
Alignment explanation
Indices: 60051--61018 Score: 1796
Period size: 198 Copynumber: 4.9 Consensus size: 198
60041 CAATATGGCC
*
60051 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
60116 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
60181 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
60246 TGGAA
194 TGGAA
*
60251 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCAAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
60316 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
60381 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
60446 GGAA
195 GGAA
60450 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
60514 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
60579 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
60644 GAA
196 GAA
60647 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
60712 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
60777 AATATGTCTAAATAATGTGTCGATACTTTTTAGTTGGTGTCGATATTTTTGTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
*
60842 AAA
196 GAA
* *
60845 AACAGGATGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
60910 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
60975 AATATGTCTAAATAATGTGTCGACAC-TTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
61019 CTAATTTAAA
Statistics
Matches: 752, Mismatches: 15, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
197 91 0.12
198 431 0.57
199 170 0.23
200 60 0.08
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
GAA
Found at i:62499 original size:12 final size:12
Alignment explanation
Indices: 62482--62564 Score: 85
Period size: 12 Copynumber: 6.9 Consensus size: 12
62472 GGTCGCAGAA
*
62482 GATGAAGCTGAC
1 GATGAAGATGAC
62494 GATGAAGATGAC
1 GATGAAGATGAC
*
62506 GATGATGATGAC
1 GATGAAGATGAC
*
62518 GATGAAGATGAT
1 GATGAAGATGAC
* * *
62530 GACGATGATGAT
1 GATGAAGATGAC
* *
62542 GATGATGATGAT
1 GATGAAGATGAC
*
62554 GATGATGATGA
1 GATGAAGATGA
62565 TGATCCAAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 64 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:62500 original size:18 final size:18
Alignment explanation
Indices: 62479--62564 Score: 73
Period size: 18 Copynumber: 4.8 Consensus size: 18
62469 AGCGGTCGCA
*
62479 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
62497 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
62515 GACGATGAAGATGATGAC
1 GAAGATGAAGATGACGAT
* * *
62533 GATGATGATGATGATGAT
1 GAAGATGAAGATGACGAT
* *
62551 GATGATGATGATGA
1 GAAGATGAAGATGA
62565 TGATCCAAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:62514 original size:3 final size:3
Alignment explanation
Indices: 62494--62568 Score: 105
Period size: 3 Copynumber: 25.0 Consensus size: 3
62484 TGAAGCTGAC
* * * * *
62494 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GAT GAT GAC GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
62542 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
62569 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.36, C:0.04, G:0.33, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:63792 original size:16 final size:16
Alignment explanation
Indices: 63760--63793 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63750 TATCCACAAC
* *
63760 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
63776 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
63792 AA
1 AA
63794 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:63888 original size:23 final size:23
Alignment explanation
Indices: 63857--63929 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
63847 ATAGGTAAAA
*
63857 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
63880 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
63903 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
63926 ATAT
1 ATAT
63930 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:64399 original size:18 final size:18
Alignment explanation
Indices: 64378--64414 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
64368 GTAATTAGAG
64378 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
64396 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
64414 T
1 T
64415 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:64422 original size:24 final size:24
Alignment explanation
Indices: 64370--64416 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
64360 TTTCATATGT
* *
64370 AATTAGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
64394 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
64417 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:64728 original size:39 final size:39
Alignment explanation
Indices: 64684--64770 Score: 149
Period size: 39 Copynumber: 2.2 Consensus size: 39
64674 TCCGATGCTC
*
64684 ATCAAAATCCAAAGT-TCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAA-TCTCATATGATGCCAAGCAAAAGGAA
64723 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
64762 ATCAAAATC
1 ATCAAAATC
64771 TACAACTTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 1 0.02
39 45 0.98
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
Found at i:65218 original size:23 final size:23
Alignment explanation
Indices: 65187--65259 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
65177 ATAGGTAAAA
*
65187 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
65210 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
65233 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
65256 ATAT
1 ATAT
65260 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:65647 original size:23 final size:23
Alignment explanation
Indices: 65616--65688 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
65606 ATAGGTAAAA
*
65616 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
65639 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
65662 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
65685 ATAT
1 ATAT
65689 TGTAAAATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:66077 original size:23 final size:23
Alignment explanation
Indices: 66046--66118 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
66036 ATAGGTAAAA
* *
66046 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGATT
* *
66069 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGATT
*
66092 ATATAATGTAATAGGTAGTGATT
1 ATATAATGTAATAGGTAGCGATT
66115 ATAT
1 ATAT
66119 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGATT
Found at i:66105 original size:430 final size:430
Alignment explanation
Indices: 64987--66368 Score: 2594
Period size: 430 Copynumber: 3.2 Consensus size: 430
64977 GTTAATGTTG
* * *
64987 TTAAATT-TAAATTCTAAATATTA-TTTAT-AAATATCAAAACAATCAAATAATTTTTTATGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
65049 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
65114 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
65179 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
65244 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
65309 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
65374 GTCTAATGATTTATTTTTTACGTTACGATATATA-TATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
65413 TTAAATTAAAAATTCTAAATAATATTTTA-AAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
65477 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
*
65542 AAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
65607 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
65672 ATAGGTAGTGGTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
65737 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
65802 TGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
65843 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
65908 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
65973 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
66038 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
66103 TAGGTAGTGATTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
* *
66168 GAAAAACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
66233 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
66273 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
66338 ATGAAATTATTAAATTAATATTGTAGGTGGA
66 ATGAAATTATTAAATTAATATTGTAGGTGGA
66369 CACTATTAAA
Statistics
Matches: 932, Mismatches: 18, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
426 7 0.01
427 14 0.02
428 84 0.09
429 306 0.33
430 438 0.47
431 83 0.09
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:71753 original size:30 final size:30
Alignment explanation
Indices: 71717--71778 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
71707 AACATCATAA
71717 AAGATCTTACGATAAAACAATAAATCAATC
1 AAGATCTTACGATAAAACAATAAATCAATC
* *
71747 AAGATCTTATGATAAAACAATAAATTAATC
1 AAGATCTTACGATAAAACAATAAATCAATC
71777 AA
1 AA
71779 TGCAAAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (30 bp):
AAGATCTTACGATAAAACAATAAATCAATC
Found at i:72831 original size:14 final size:14
Alignment explanation
Indices: 72804--72838 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
72794 ATAAAAATCA
72804 TAAATATATGTATT
1 TAAATATATGTATT
* *
72818 TAAATTTATTTATT
1 TAAATATATGTATT
72832 TAAATAT
1 TAAATAT
72839 TAATGTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (14 bp):
TAAATATATGTATT
Found at i:90759 original size:21 final size:20
Alignment explanation
Indices: 90685--90760 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
90675 TGCGATCGCT
* *
90685 AATTCGCAACGCGATTATTAC
1 AATTCGCAATGCGATT-TTCC
*
90706 TATT-GCAATGCGATTTTCC
1 AATTCGCAATGCGATTTTCC
**
90725 AATTTCGCGTTGCGATTTTCCC
1 AA-TTCGCAATGCGATTTT-CC
90747 AATTCGCAATGCGA
1 AATTCGCAATGCGA
90761 ATAAGTAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 4 0.09
20 12 0.27
21 24 0.55
22 4 0.09
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (20 bp):
AATTCGCAATGCGATTTTCC
Found at i:90822 original size:20 final size:20
Alignment explanation
Indices: 90799--90884 Score: 68
Period size: 21 Copynumber: 4.2 Consensus size: 20
90789 AATCGTAATA
*
90799 CGATATTGACTATCGCAACG
1 CGATAATGACTATCGCAACG
*
90819 CGATAAT-ACAAAATCGCAACG
1 CGATAATGAC--TATCGCAACG
* *
90840 CGATACTGACTTTCGCAACG
1 CGATAATGACTATCGCAACG
* *
90860 AGATAAT-ACATAATCGCAATG
1 CGATAATGAC-T-ATCGCAACG
90881 CGAT
1 CGAT
90885 TTTCAAAGCG
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
19 4 0.08
20 20 0.39
21 25 0.49
22 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (20 bp):
CGATAATGACTATCGCAACG
Found at i:90835 original size:21 final size:20
Alignment explanation
Indices: 90810--90884 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
90800 GATATTGACT
90810 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATAC-AA
* *
90831 ATCGCAACGCGATACTGAC-T
1 ATCGCAACGCGATAAT-ACAA
* *
90851 TTCGCAACGAGATAATACATA
1 ATCGCAACGCGATAATACA-A
*
90872 ATCGCAATGCGAT
1 ATCGCAACGCGAT
90885 TTTCAAAGCG
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.31
21 25 0.60
22 2 0.05
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGATAATACAA
Found at i:90844 original size:41 final size:41
Alignment explanation
Indices: 90799--90884 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
90789 AATCGTAATA
* *
90799 CGATATTGACTATCGCAACGCGATAATACAAAATCGCAACG
1 CGATACTGACTATCGCAACGAGATAATACAAAATCGCAACG
* * *
90840 CGATACTGACTTTCGCAACGAGATAATACATAATCGCAATG
1 CGATACTGACTATCGCAACGAGATAATACAAAATCGCAACG
90881 CGAT
1 CGAT
90885 TTTCAAAGCG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (41 bp):
CGATACTGACTATCGCAACGAGATAATACAAAATCGCAACG
Found at i:91396 original size:20 final size:20
Alignment explanation
Indices: 91357--91415 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
91347 TTTATTCTCT
* **
91357 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
91377 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* * *
91397 TGTTACGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
91416 AGAAACTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:91606 original size:25 final size:24
Alignment explanation
Indices: 91552--91606 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
91542 TGTTTATTAT
* *
91552 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
91576 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
91602 TGTTT
1 TGTTT
91607 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:92757 original size:18 final size:18
Alignment explanation
Indices: 92736--92783 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
92726 TCCACTTCGG
92736 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
92754 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
92772 GAGCCATCACCT
1 GAGCCATCACCT
92784 GATTGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:93373 original size:19 final size:20
Alignment explanation
Indices: 93319--93385 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
93309 TAGTTTACTT
* *
93319 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
93339 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
93359 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
93378 TCGCAACG
1 TCGCAACG
93386 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:93405 original size:33 final size:33
Alignment explanation
Indices: 93358--93449 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
93348 GGAAATGGCT
93358 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
93391 ATCGCAATGTGAAATGAAAATCGCAACGACCAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
93424 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
93450 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:93446 original size:19 final size:19
Alignment explanation
Indices: 93319--93454 Score: 67
Period size: 19 Copynumber: 7.6 Consensus size: 19
93309 TAGTTTACTT
* **
93319 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
93339 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
93359 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
93378 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
* *
93392 TCGCAATGTGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
**
93411 TCGCAA--CG--A-CCAAA
1 TCGCAACGCGAAATGAAAA
93425 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
93444 TCGCAATGCGA
1 TCGCAACGCGA
93455 TTTGTGTTTC
Statistics
Matches: 90, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 3 0.03
17 3 0.03
18 2 0.02
19 36 0.40
20 24 0.27
21 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.21, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:93487 original size:14 final size:14
Alignment explanation
Indices: 93468--93524 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
93458 GTGTTTCGCG
93468 TTGCGATTTTGTCA
1 TTGCGATTTTGTCA
*
93482 TTGCGATTTTCATTTCGCA
1 TTGCGA-TTT--TGT--CA
*
93501 TTGCGATTTTGTCG
1 TTGCGATTTTGTCA
93515 TTGCGATTTT
1 TTGCGATTTT
93525 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 17 0.49
15 3 0.09
16 2 0.06
17 2 0.06
18 3 0.09
19 8 0.23
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCA
Found at i:93498 original size:33 final size:33
Alignment explanation
Indices: 93461--93540 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
93451 GCGATTTGTG
*
93461 TTTCGCGTTGCGATTTTGTCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
*
93494 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
93527 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
93541 AGCTATTTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
Found at i:93504 original size:19 final size:19
Alignment explanation
Indices: 93480--93540 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
93470 GCGATTTTGT
93480 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
93499 CATTGCGA-TTT--TGTCG
1 CATTGCGATTTTCATTTCG
93515 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
93532 CATTGCGAT
1 CATTGCGAT
93541 AGCTATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 6 0.17
15 3 0.09
16 4 0.11
17 4 0.11
18 3 0.09
19 15 0.43
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:93559 original size:20 final size:20
Alignment explanation
Indices: 93525--93579 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
93515 TTGCGATTTT
*
93525 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
93544 TATTTCCGCGTTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
93564 CATTTCCGCGTTGCGA
1 CATTTCCGCGTTGCGA
93580 AAGTAAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:93980 original size:21 final size:20
Alignment explanation
Indices: 93954--94022 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
93944 CTGTCATCCC
93954 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
93975 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
93996 TCAAGAGTCCCCCCCACCGT
1 TCAAGAGTCCCCTCCATCGT
94016 TCAAGAG
1 TCAAGAG
94023 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
20 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.41, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:94034 original size:41 final size:42
Alignment explanation
Indices: 93944--94034 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 42
93934 CCCGACTCAC
* *
93944 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
93986 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
94027 CTGTCATC
1 CTGTCATC
94035 GTTGAAGAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 23 0.52
42 21 0.48
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.21
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:95476 original size:14 final size:14
Alignment explanation
Indices: 95442--95480 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
95432 TTGATTGTTT
95442 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
95456 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
95470 TGTTGATTTGT
1 AATTGATTTGT
95481 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:96351 original size:20 final size:20
Alignment explanation
Indices: 96265--96351 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
96255 GATTCTGTAT
*
96265 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
96285 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
96305 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
96326 TATCGCGTTGTGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
96346 TATCGC
1 TATCGC
96352 ATTACGATTT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.06
20 36 0.67
21 13 0.24
22 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:96441 original size:21 final size:22
Alignment explanation
Indices: 96389--96441 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
96379 ATTTACTTAT
96389 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
96410 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
96431 TCGCATTGCGA
1 TCGCATTGCGA
96442 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:98141 original size:21 final size:20
Alignment explanation
Indices: 98055--98212 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
98045 AAATGACCAA
**
98055 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
98074 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
98094 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
98114 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
98135 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
98156 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
98176 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
98197 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
98213 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:98205 original size:20 final size:20
Alignment explanation
Indices: 98180--98373 Score: 85
Period size: 20 Copynumber: 9.7 Consensus size: 20
98170 GATTTTCAAT
* *
98180 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
98200 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
98220 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
98240 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
98260 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
98280 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
98300 TATCGCAACGCGTATC-CATA
1 AATCGCAACGCG-AACACATA
** *
98320 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
98341 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
98361 AATCGCAACGCGA
1 AATCGCAACGCGA
98374 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:98225 original size:40 final size:39
Alignment explanation
Indices: 98180--98373 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
98170 GATTTTCAAT
* * *
98180 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATACGTAAATCGCAACGCGAAC-CATA
* * * *
98220 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATACGTAAATCGCAACGCG-AACCATA
** * * *
98260 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATACGTAAATCGCAACGCG-AACCATA
* * * ** *
98300 TATCGCAACGCGTATCCATAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATACGTAAATCGCAACGCGAA-CCAT-A
*
98341 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATACGTAAATCGCAACGCGA
98374 TATTTAAAGC
Statistics
Matches: 126, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 93 0.74
41 32 0.25
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATACGTAAATCGCAACGCGAACCATA
Found at i:98263 original size:60 final size:60
Alignment explanation
Indices: 98199--98372 Score: 240
Period size: 60 Copynumber: 2.9 Consensus size: 60
98189 GCGAATATGA
* * *
98199 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
* *** * *
98259 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCAT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
**
98319 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCG
98373 ATATTTAAAG
Statistics
Matches: 96, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 65 0.68
61 31 0.32
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
Found at i:98828 original size:33 final size:33
Alignment explanation
Indices: 98758--98842 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
98748 CACTTAGATT
* * ***
98758 TCATTTCGCGTTACGATTCTGTCGTTCCGATTT
1 TCATTTCGCGTTGCGATTCTCTCGTTCCGACAG
* *
98791 TCATTTCGCGTTGCTATTCTCTCGTTGCGACAG
1 TCATTTCGCGTTGCGATTCTCTCGTTCCGACAG
*
98824 TCATTCTCTCGTTGCGATT
1 TCATT-TCGCGTTGCGATT
98843 TTCATTTATC
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 31 0.74
34 11 0.26
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTTCCGACAG
Found at i:98986 original size:33 final size:33
Alignment explanation
Indices: 98941--99011 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
98931 AATACTAACT
* *
98941 TGAAAATTGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
98974 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
99007 TGAAA
1 TGAAA
99012 TATCATGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:100745 original size:14 final size:14
Alignment explanation
Indices: 100726--100761 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
100716 ATTGTTTAAT
100726 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
100740 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
100754 TGATTTGT
1 TGATTTGT
100762 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:100936 original size:20 final size:19
Alignment explanation
Indices: 100860--100950 Score: 120
Period size: 19 Copynumber: 5.0 Consensus size: 19
100850 TTGAAGGCAA
*
100860 AAATGAATATCGCAATGCG
1 AAATGAAAATCGCAATGCG
100879 AAATGAAAATCGCAA--CG
1 AAATGAAAATCGCAATGCG
*
100896 --A-GAGAATCGCAATGCG
1 AAATGAAAATCGCAATGCG
100912 AAATGAAAATCGCAATGCGG
1 AAATGAAAATCGCAATGC-G
100932 AAATGAAAATCGCAATGCG
1 AAATGAAAATCGCAATGCG
100951 TTTATAATTT
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 28 0.44
20 19 0.30
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.15
Consensus pattern (19 bp):
AAATGAAAATCGCAATGCG
Found at i:100999 original size:33 final size:33
Alignment explanation
Indices: 100957--101181 Score: 179
Period size: 33 Copynumber: 6.5 Consensus size: 33
100947 TGCGTTTATA
100957 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
100990 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT--ATCTCG--TTGCGATTTTC
* *
101028 ATTTCGTATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * *
101068 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
*
101099 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* *
101132 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTC
*
101166 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
101182 GTATTTTCCG
Statistics
Matches: 162, Mismatches: 16, Indels: 28
0.79 0.08 0.14
Matches are distributed among these distances:
31 9 0.06
32 5 0.03
33 51 0.31
34 31 0.19
35 3 0.02
36 5 0.03
37 2 0.01
38 41 0.25
39 6 0.04
40 9 0.06
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:101003 original size:19 final size:19
Alignment explanation
Indices: 100979--101181 Score: 238
Period size: 19 Copynumber: 11.4 Consensus size: 19
100969 GATTATCTCG
100979 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
100998 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
101017 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
101036 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
101055 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
101069 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
101088 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
101107 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
101121 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
101141 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
101155 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
101174 TTGCGATT
1 TTGCGATT
101182 GTATTTTCCG
Statistics
Matches: 158, Mismatches: 10, Indels: 32
0.79 0.05 0.16
Matches are distributed among these distances:
14 23 0.15
16 16 0.10
17 13 0.08
18 3 0.02
19 91 0.58
20 12 0.08
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:101019 original size:52 final size:54
Alignment explanation
Indices: 100957--101119 Score: 183
Period size: 52 Copynumber: 3.0 Consensus size: 54
100947 TGCGTTTATA
100957 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT-TC-C
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
*
101009 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * *
101068 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
101120 GTTGCGATTT
Statistics
Matches: 96, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
52 46 0.48
54 4 0.04
55 5 0.05
56 2 0.02
57 27 0.28
58 4 0.04
59 8 0.08
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (54 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:101120 original size:52 final size:52
Alignment explanation
Indices: 100979--101153 Score: 278
Period size: 52 Copynumber: 3.2 Consensus size: 52
100969 GATTATCTCG
* *
100979 TTGCGATTTTCATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCA
101036 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
101088 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
101141 TTGCGATTTTCAT
1 TTGCGATTTTCAT
101154 GTTGGGATTT
Statistics
Matches: 115, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
52 66 0.57
53 17 0.15
54 4 0.03
55 1 0.01
56 2 0.02
57 25 0.22
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:103306 original size:12 final size:12
Alignment explanation
Indices: 103289--103313 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103279 TCTTCGGGGA
103289 CTTTTTCTTCTT
1 CTTTTTCTTCTT
103301 CTTTTTCTTCTT
1 CTTTTTCTTCTT
103313 C
1 C
103314 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:103522 original size:24 final size:24
Alignment explanation
Indices: 103488--103534 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
103478 CTGAAACATC
103488 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
103512 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
103535 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:104236 original size:20 final size:20
Alignment explanation
Indices: 104227--104597 Score: 455
Period size: 20 Copynumber: 18.5 Consensus size: 20
104217 TATAGATTCT
*
104227 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
* * *
104247 CGTTGCGATTTACAGATTCT
1 CGTTGCGATTTACGGATACG
*
104267 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
104287 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
104307 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
104327 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
104347 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
104367 CATTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
104387 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACG
104407 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* * *
104427 CGTTGCGATTTTATGTATTA-T
1 CGTTGCGA-TTTACGGA-TACG
104448 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
104468 CGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATACG
* **
104488 CATTGCGATTTACCCATACG
1 CGTTGCGATTTACGGATACG
*
104508 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACG
104528 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
104548 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* ** *
104568 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATACG
104588 CGTTGCGATT
1 CGTTGCGATT
104598 ATTGAAAATC
Statistics
Matches: 308, Mismatches: 33, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 281 0.91
21 18 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:107400 original size:2 final size:2
Alignment explanation
Indices: 107393--107422 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
107383 TTTCTTGGAA
107393 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107423 GTTTTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107492 original size:38 final size:38
Alignment explanation
Indices: 107407--107550 Score: 166
Period size: 38 Copynumber: 3.7 Consensus size: 38
107397 ATATATATAT
* * *
107407 ATATATATATATTATAGTTTTTTAAAACATTTTGAAAAATA
1 ATATATA-ATA-TATAATTTTTAAAAACATTTTGAAAAA-C
107448 AGTATATAATATATAATTTTTGAAAAACATTTT-AAAAAC
1 A-TATATAATATATAATTTTT-AAAAACATTTTGAAAAAC
* *
107487 ATATATAATATATAATTTTT-AAAGCATTTTTGAAAACC
1 ATATATAATATATAATTTTTAAAAACA-TTTTGAAAAAC
107525 AATATATAATATATAATTTTTAAAAA
1 -ATATATAATATATAATTTTTAAAAA
107551 AACATTTTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
36 5 0.05
37 4 0.04
38 24 0.26
39 21 0.23
40 17 0.19
41 14 0.15
42 6 0.07
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (38 bp):
ATATATAATATATAATTTTTAAAAACATTTTGAAAAAC
Found at i:107498 original size:91 final size:88
Alignment explanation
Indices: 107319--107500 Score: 201
Period size: 89 Copynumber: 2.0 Consensus size: 88
107309 TTTTCGAAAC
* *
107319 TATATATATTTTATATTTTTGAAAATAATTTTAAAATATATATAATATATAATTTTAAAAACGGT
1 TATATATATATTATATTTTTGAAAATAATTTTAAAATATATATAATATATAATTTTAAAAAC-GA
** *
107384 TTCTTGGAAATATATATATATATA
65 TTCTTAAAAACATATATATATATA
* *
107408 TATATATATATTATAGTTTTTTAAAA-CATTTTGAAAAATAAGTATATAATATATAATTTTTGAA
1 TATATATATATTATA-TTTTTGAAAATAATTTT--AAAAT-A-TATATAATATATAA-TTTT-AA
107472 AAAC-ATT-TTAAAAACATATATA-ATATA
59 AAACGATTCTTAAAAACATATATATATATA
107499 TA
1 TA
107501 ATTTTTAAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
89 19 0.24
90 9 0.11
91 12 0.15
92 13 0.16
93 16 0.20
94 4 0.05
95 6 0.08
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (88 bp):
TATATATATATTATATTTTTGAAAATAATTTTAAAATATATATAATATATAATTTTAAAAACGAT
TCTTAAAAACATATATATATATA
Found at i:107537 original size:77 final size:81
Alignment explanation
Indices: 107407--107558 Score: 215
Period size: 77 Copynumber: 1.9 Consensus size: 81
107397 ATATATATAT
* * *
107407 ATATATATATATTATAGTTTTTTAAAACATTTTGAAAAATAAGTATATAATATATAATTTTT-GA
1 ATATATATATATTATAGATTTTTAAAACATTTTGAAAAACAAGTATATAATATATAATTTTTAAA
107471 AAAACATTTTAAAAAC
66 AAAACATTTTAAAAAC
* *
107487 ATATATA-ATA-TATA-ATTTTTAAAGCATTTTTGAAAACCAA-TATATAATATATAATTTTTAA
1 ATATATATATATTATAGATTTTTAAAACA-TTTTGAAAAACAAGTATATAATATATAATTTTTAA
107548 AAAAACATTTT
65 AAAAACATTTT
107559 TTTAAAAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
77 29 0.45
78 26 0.40
79 3 0.05
80 7 0.11
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.43
Consensus pattern (81 bp):
ATATATATATATTATAGATTTTTAAAACATTTTGAAAAACAAGTATATAATATATAATTTTTAAA
AAAACATTTTAAAAAC
Found at i:107705 original size:9 final size:10
Alignment explanation
Indices: 107680--107738 Score: 56
Period size: 9 Copynumber: 6.2 Consensus size: 10
107670 TAAAAATGTA
107680 TATTATATAGT
1 TATTATATA-T
*
107691 TTTTATAT-T
1 TATTATATAT
107700 TATTAT-TAT
1 TATTATATAT
107709 TATTAT-TAT
1 TATTATATAT
107718 TATT-TATTAT
1 TATTATA-TAT
107728 TATTAT-TAT
1 TATTATATAT
107737 TA
1 TA
107739 CTTTTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
8 2 0.05
9 25 0.60
10 7 0.17
11 8 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TATTATATAT
Found at i:107707 original size:3 final size:3
Alignment explanation
Indices: 107699--107738 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
107689 GTTTTTATAT
107699 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
107739 CTTTTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:107723 original size:22 final size:23
Alignment explanation
Indices: 107696--107753 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 23
107686 ATAGTTTTTA
107696 TATTTATTATTATTATTATTA-T
1 TATTTATTATTATTATTATTACT
107718 TATTTATTATTATTATTATTACT
1 TATTTATTATTATTATTATTACT
*
107741 TTTTTATT-TTATT
1 TATTTATTATTATT
107754 TTTTTCCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 26 0.76
23 8 0.24
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TATTTATTATTATTATTATTACT
Found at i:107724 original size:19 final size:20
Alignment explanation
Indices: 107702--107753 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
107692 TTTATATTTA
107702 TTATTATTATTATTATTA-T
1 TTATTATTATTATTATTACT
107721 TTATTATTATTATTATTACT
1 TTATTATTATTATTATTACT
*
107741 TTTTTATT-TTATT
1 TTATTATTATTATT
107754 TTTTTCCCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 23 0.74
20 8 0.26
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTATTATTATTATTACT
Found at i:109230 original size:11 final size:11
Alignment explanation
Indices: 109214--109253 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
109204 CTCGGTTTAT
109214 TTATTTTATTA
1 TTATTTTATTA
109225 TTA-TTTA-T-
1 TTATTTTATTA
109233 TTATTTTATTA
1 TTATTTTATTA
*
109244 TTTTTTTATT
1 TTATTTTATT
109254 TCCTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
8 3 0.12
9 5 0.20
10 5 0.20
11 12 0.48
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:109231 original size:19 final size:19
Alignment explanation
Indices: 109209--109245 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
109199 TTTATCTCGG
109209 TTTATTTATTTTATTATTA
1 TTTATTTATTTTATTATTA
109228 TTTATTTATTTTATTATT
1 TTTATTTATTTTATTATT
109246 TTTTTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTATTTTATTATTA
Found at i:113128 original size:95 final size:94
Alignment explanation
Indices: 112956--113151 Score: 277
Period size: 95 Copynumber: 2.1 Consensus size: 94
112946 TATAATATTA
* * *
112956 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATGGA
1 TATATATACAATAAAGCTTAAGATGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATCGA
* * *
113021 TAATATTTAGCTAGCCTAATAAAGGTAAT
66 TAAGATTCAGCTAACCTAATAAAGGTAAT
*
113050 TATACTATACAATAAAGCTTAAGATGTCCCTCTA-AGGCAATTGGTTAAACGCCCCGGCTTTATC
1 TATA-TATACAATAAAGCTTAAGATGTCCCTCTAGA-GCAATTGGTTAAACGCCCCAGCTTTATC
* **
113114 GATAAGATTCAGCTAACCTGATAAAGGTGTT
64 GATAAGATTCAGCTAACCTAATAAAGGTAAT
113145 TATATAT
1 TATATAT
113152 TGAGTTATCC
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
94 8 0.09
95 82 0.91
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (94 bp):
TATATATACAATAAAGCTTAAGATGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATCGA
TAAGATTCAGCTAACCTAATAAAGGTAAT
Found at i:114431 original size:84 final size:83
Alignment explanation
Indices: 114323--115313 Score: 721
Period size: 84 Copynumber: 11.9 Consensus size: 83
114313 TCAGTCAGCC
* * * *
114323 AAGACCTTCGATTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGTTAA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGTTAG
114388 AAGGGTTATCTGCCACTAA
66 AAGGGTTATCTGCCAC-AA
* * * * * * * * * *
114407 AAGACCTTCAAGTTTGACTACGCTCTGCTCCAAGGCATATCATTTGTAGCATAACTTAA-GTCGA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGT-TA
** *
114471 GAATAGTTATCTGCCAACCA
65 GAAGGGTTATCTGCC-ACAA
* * ** * * *
114491 AAGACCTTCGAGTTCGACTACGCTCAGCTGTAAGGCACATCATTTGTAGCATAGCTTAA-GTCGA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGT-TA
*
114555 GAAGGGCTATCTG-C-C-A
65 GAAGGGTTATCTGCCACAA
* * * * * * * * * *
114571 AAGACCCTCAAGTTTGATTACACTCAGCTTCGAGGGCATATCATTTGCAACATAACTTAA-GTCG
1 AAGACCTTCGAGTTCGATTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTCAAGGT-T
*
114635 AGAAGGGTTATCTGCCAACCA
64 AGAAGGGTTATCTGCC-ACAA
* ** * *
114656 AAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAA-GTCGA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGT-TA
*
114720 GAAGGGTTATCTACCA-AA
65 GAAGGGTTATCTGCCACAA
** * * * * * *
114738 GACCCACCCTCGAGTTCGATTACACTCAGCTTCGAGAGCACATCATTTACAGCATAACTCAAGGC
1 -A-AGACCTTCGAGTTCGATTACACTCAGCTCCAAG-GCACATCATTTGCAGCATAGCTCAAGGT
*
114803 TAGAAGGGTTATCTGTCACTAA
63 TAGAAGGGTTATCTGCCAC-AA
* * ** * * * *
114825 AAGACCTTCGAGTTCGACTACGCTCAGCTTAAAGGCACATCATTTGTAGTATAGCTTAA-GTCGA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGT-TA
* * *
114889 AAAGGGCTATCTGCCAACCA
65 GAAGGGTTATCTGCC-ACAA
* ** * * * *
114909 AAGACATTCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTTCAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTCAAGGTTA
*
114974 GAAGGGTTGTCTGCCA-ACA
65 GAAGGGTTATCTGCCACA-A
* * * ** * *
114993 AAGACCTTTGAGTTCGATTACACTTAGCT-CAACGGCACGTCATTTGTGGTATAGCTCAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTCAAGGTTA
*
115057 GAAGGGCTATCTG-C-C-A
65 GAAGGGTTATCTGCCACAA
* * * * * *
115073 AAGACCCTC--GTTCGATTACACTCAGCTTCGAGGACACATCATTTGTAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCCAAGG-CACATCATTTGCAGCATAGCTCAAGGTTA
*
115136 GAAGGGTTATATGCCA-ACA
65 GAAGGGTTATCTGCCACA-A
* * * * * *
115155 AAGACCTTTGAGTTCGATTACACTCAGCT-CAACGGCATATCATTTACGGTATAGCTCAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTCAAGGTTA
*
115219 GAAGGGCTATCTG-C-C-A
65 GAAGGGTTATCTGCCACAA
* * * * * *
115235 AATACCTTCGAGTTCGATTACACTCAGCT-CAGAGGCAAACCAAATTTACAGCATAACTCAAGGC
1 AAGACCTTCGAGTTCGATTACACTCAGCTCCA-AGGCACATC--ATTTGCAGCATAGCTCAAGGT
* *
115299 GAGAAGGGCTATCTG
63 TAGAAGGGTTATCTG
115314 TCAATAAAAT
Statistics
Matches: 734, Mismatches: 140, Indels: 68
0.78 0.15 0.07
Matches are distributed among these distances:
78 19 0.03
79 38 0.05
80 69 0.09
81 43 0.06
82 45 0.06
83 79 0.11
84 309 0.42
85 127 0.17
86 3 0.00
87 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
AAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGTTAG
AAGGGTTATCTGCCACAA
Found at i:115138 original size:162 final size:162
Alignment explanation
Indices: 114287--115313 Score: 970
Period size: 169 Copynumber: 6.2 Consensus size: 162
114277 AACTATCGGT
** * * * * * * * *
114287 AGCATAACTCAAGATGAGAAGGATTTTCAGTCAGCCAAGACCTTCGATTTCGACTACGCTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCT
* * * * * * *
114352 CCAAGGCACATCATTTGCAGCATAGCTCAAGGT-TAAAAGGGTTATCTGCCACTAAAAGACCTTC
66 -CAAGGCACATCATTTGTAGTATAGCTTAA-GTCGAGAAGGGCTATCTG-C-C--AAAGACCCTC
* * * * * * * *
114416 AAGTTTGACTACGCTCTGCTCCAAGG-CATATCATTTGT
125 -AGTTCGATTACACTCAGCTTCGAGGACACATCATTTGC
* * ** *
114454 AGCATAACTTAAGTCGAGAATAGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACACTCAGC
* *
114519 TGTAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGT
65 T-CAAGGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTC-AGT
* * *
114584 TTGATTACACTCAGCTTCGAGGGCATATCATTTGC
128 TCGATTACACTCAGCTTCGAGGACACATCATTTGC
* * * **
114619 AACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGTTCAGC
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACACTCAGC
* * * *
114684 TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTACCAAAGACCCACCCTC
65 T-CAAGGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAG----ACCCTC
*
114749 GAGTTCGATTACACTCAGCTTCGA-GAGCACATCATTTAC
125 -AGTTCGATTACACTCAGCTTCGAGGA-CACATCATTTGC
* * *
114788 AGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACTAAAAGACCTTCGAGTTCGACTACGCTCAG
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGCCAAC--AAAGACCTTCGAGTTCGACTACACTCAG
* * **
114852 CTTAAAGGCACATCATTTGTAGTATAGCTTAAGTCGAAAAGGGCTATCTGCCAACCAAAGACATT
64 C-TCAAGGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCT
* * *
114917 CGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTTC
124 C-AGTTCGATTACACTCAGCTTCGAGGACACATCATTTGC
* * * * *
114957 AGCATAACTCAAGGCTAGAAGGGTTGTCTGCCAACAAAGACCTTTGAGTTCGATTACACTTAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCT
* * * * *
115022 CAACGGCACGTCATTTGTGGTATAGCTCAAGGCTAGAAGGGCTATCTGCCAAAGACCCTC-GTTC
66 CAA-GGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAGTTC
*
115086 GATTACACTCAGCTTCGAGGACACATCATTTGT
130 GATTACACTCAGCTTCGAGGACACATCATTTGC
* * * *
115119 AGCATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAGACCTTTGAGTTCGATTACACTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCT
* *** * * * * *
115184 CAACGGCATATCATTTACGGTATAGCTCAAGGCTAGAAGGGCTATCTGCCAAATACCTTCGAGTT
66 CAA-GGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTC-AGTT
* * *
115249 CGATTACACTCAGC-TCAGAGGCAAACCA-AATTTAC
129 CGATTACACTCAGCTTC-GAGG-ACA-CATCATTTGC
*
115284 AGCATAACTCAAGGCGAGAAGGGCTATCTG
1 AGCATAACTCAAGGCGAGAAGGGTTATCTG
115314 TCAATAAAAT
Statistics
Matches: 745, Mismatches: 92, Indels: 48
0.84 0.10 0.05
Matches are distributed among these distances:
162 149 0.20
163 2 0.00
164 61 0.08
165 155 0.21
166 3 0.00
167 31 0.04
168 132 0.18
169 202 0.27
170 4 0.01
173 6 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (162 bp):
AGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCT
CAAGGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAGTTCG
ATTACACTCAGCTTCGAGGACACATCATTTGC
Found at i:116028 original size:2 final size:2
Alignment explanation
Indices: 116021--116073 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
116011 CGGTTTCTTG
116021 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
116063 TA TA T- TA TA TA
1 TA TA TA TA TA TA
116074 GTTTTTTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:116148 original size:110 final size:109
Alignment explanation
Indices: 115949--116150 Score: 257
Period size: 110 Copynumber: 1.8 Consensus size: 109
115939 TGTTCGAAAC
*
115949 TATATATATTATATAGTTTTTGAAAACATTTTTAAAATATATATAATATATAAGTTTGAAAACGG
1 TATATATATTATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAAGTTTGAAAAC-G
* ** * *
116014 TTTCTTGTATATATATATATATATATATATATATATATATATATA
65 ATTCTTAAAAACATATATATATATATATATATATATATATATATA
* * *
116059 TATATATATTATATAGTTTTTTAAAACGTTTTGAAAATAAGTATATAATATATAATTTTTGAAAG
1 TATATATATTATATAGTTTTTGAAAACATTTTGAAAAT-A-TATATAATATATAA-GTTTGAAA-
116124 AC-ATT-TTAAAAACATATATA-ATATATA
62 ACGATTCTTAAAAACATATATATATATATA
116151 ATTTTTAAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
110 42 0.53
111 12 0.15
112 16 0.20
113 7 0.09
114 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (109 bp):
TATATATATTATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAAGTTTGAAAACGA
TTCTTAAAAACATATATATATATATATATATATATATATATATA
Found at i:116181 original size:40 final size:38
Alignment explanation
Indices: 116060--116199 Score: 160
Period size: 38 Copynumber: 3.6 Consensus size: 38
116050 ATATATATAT
* * * *
116060 ATATATATTATATAGTTTTTTAAA-ACGTTTTGAAAATA
1 ATATATAATATATA-ATTTTTAAAGACATTTTGAAAACA
*
116098 AGTATATAATATATAATTTTTGAAAGACATTTTAAAAAC-
1 A-TATATAATATATAATTTTT-AAAGACATTTTGAAAACA
116137 ATATATAATATATAATTTTTAAAG-CATTTTTTGAAAACCA
1 ATATATAATATATAATTTTTAAAGACA--TTTTGAAAA-CA
116177 ATATATAATATATAATTTTTAAA
1 ATATATAATATATAATTTTTAAA
116200 AAAAAAACAT
Statistics
Matches: 89, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 33 0.37
39 17 0.19
40 33 0.37
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (38 bp):
ATATATAATATATAATTTTTAAAGACATTTTGAAAACA
Found at i:116295 original size:75 final size:76
Alignment explanation
Indices: 116164--116324 Score: 288
Period size: 75 Copynumber: 2.1 Consensus size: 76
116154 TTTAAAGCAT
116164 TTTTTGAAAACCAATATATAATATATAATTTTTAAAAAAAAAACATTTTTAAAAATTATATAGTT
1 TTTTTGAAAACCAATATATAATATATAATTTTTAAAAAAAAAACATTTTTAAAAATTATATAGTT
116229 ATAAAAAAGAA
66 ATAAAAAAGAA
***
116240 TTTTTGAAAACCAATATATAATATATAATTTTT-TTTAAAAAACATTTTTAAAAATTATATAGTT
1 TTTTTGAAAACCAATATATAATATATAATTTTTAAAAAAAAAACATTTTTAAAAATTATATAGTT
116304 ATAAAAAAGAA
66 ATAAAAAAGAA
116315 TTTTTGAAAA
1 TTTTTGAAAA
116325 TTATATAGTT
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
75 49 0.60
76 33 0.40
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (76 bp):
TTTTTGAAAACCAATATATAATATATAATTTTTAAAAAAAAAACATTTTTAAAAATTATATAGTT
ATAAAAAAGAA
Found at i:116318 original size:31 final size:32
Alignment explanation
Indices: 116275--116366 Score: 107
Period size: 31 Copynumber: 2.8 Consensus size: 32
116265 TAATTTTTTT
116275 TAAAAAA-CATTTTTAAAAATTATATAG-TTA
1 TAAAAAAGCATTTTTAAAAATTATATAGTTTA
* * *
116305 TAAAAAAGAATTTTTGAAAATTATATAGTTTTT
1 TAAAAAAGCATTTTTAAAAATTATATAG-TTTA
*
116338 TAAAAATTGCATTTTTAAAAATTTATATA
1 TAAAAA-AGCATTTTTAAAAA-TTATATA
116367 TAGTATATAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 7 0.14
31 18 0.35
33 8 0.16
34 11 0.22
35 7 0.14
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.43
Consensus pattern (32 bp):
TAAAAAAGCATTTTTAAAAATTATATAGTTTA
Done.