Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006974.1 Hibiscus syriacus cultivar Beakdansim tig00017960_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: 366595
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1224 original size:3 final size:3
Alignment explanation
Indices: 1218--1267 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
1208 TAATAATTTT
* *
1218 TAA TAA TAA TATA TAA T-A TAA TAA TAA TATT TTA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
1264 TAA T
1 TAA T
1268 TTAAGTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.85
4 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:1226 original size:13 final size:14
Alignment explanation
Indices: 1208--1259 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 14
1198 TCTGGGATTG
1208 TAATAAT-TTTTAA
1 TAATAATATTTTAA
1221 TAATAATATATAATATAA
1 TAATAATAT-T--T-TAA
1239 TAATAATATTTT-A
1 TAATAATATTTTAA
1252 TAATAATA
1 TAATAATA
1260 ATAATAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 16 0.47
14 2 0.06
15 2 0.06
17 2 0.06
18 12 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAATAATATTTTAA
Found at i:1247 original size:16 final size:16
Alignment explanation
Indices: 1220--1267 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
1210 ATAATTTTTA
1220 ATAATAAT-ATATAAT
1 ATAATAATAATATAAT
**
1235 ATAATAATAATATTTT
1 ATAATAATAATATAAT
1251 ATAATAATAATAATAAT
1 ATAATAATAAT-ATAAT
1268 TTAAGTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 8 0.30
16 16 0.59
17 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATAATAATATAAT
Found at i:4389 original size:27 final size:24
Alignment explanation
Indices: 4338--4394 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
4328 CATCTATTAG
* *
4338 AGAAAAAAAAAGAAAAGAAGAAGA
1 AGAAAAAAAAAGAAAAAAAAAAGA
4362 AGAAGAAAAAATAGAAAAAAAAAGAGAA
1 AGAA-AAAAAA-AGAAAAAAAAA-AG-A
4390 AGAAA
1 AGAAA
4395 TTGAATCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 6 0.22
26 9 0.33
27 3 0.11
28 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (24 bp):
AGAAAAAAAAAGAAAAAAAAAAGA
Found at i:7689 original size:489 final size:490
Alignment explanation
Indices: 6771--7753 Score: 1797
Period size: 489 Copynumber: 2.0 Consensus size: 490
6761 AAGGATATAA
*
6771 TTCTGACAAGAGTTCCATAAATGAAACATTTCTTTTGAGACTTTAATGAAGCAAAGAATGCACAA
1 TTCTGACAAGAGTTCCATAAATGAAACATTTCTTTTGAGACTTTAATGAAGCAAAGAAGGCACAA
* * *
6836 ATATGTAAGTGGATTAGATGGTTCTTCACAAATGAAAGCTTGATAGCATAAGTTACTACTTTGAT
66 AGATGCAAGTGGATTAGATGGTTCTTCACAAATGAAAGCTTGATAGCATAAGTTACTACATTGAT
* * * *
6901 ATTTGAAGTAAAACCTTGGAAAGGAATAATCAGGTGGAAAAATACCAAGTTAGCCATTTTGAAGT
131 ATTTGAAGTAAAACCCTGGAAAGGAATAATCAAGTGGAAAAAGACCAACTTAGCCATTTTGAAGT
6966 CAAATGAAGATTAAATCGATATTCATGCATTCATAAGAACATCATTTGCATAAAAGATCATGCAT
196 CAAATGAAGATTAAATCGATATTCATGCATTCATAAGAACATCATTTGCATAAAAGATCATGCAT
7031 TACATTGATACATTTGATTGAATTTGCATAAATACATTTTTCACATGAAGATGCAAGGACAAAAT
261 TACATTGATACATTTGATTGAATTTGCATAAATACATTTTTCACATGAAGATGCAAGGACAAAAT
*
7096 ACCTTACAAATGGGAGGTAGAATCCAAATCCCAAATACAAGAAGTACGTTAGGAGAGGCAGACAT
326 ACCTTACAAATGGAAGGTAGAATCCAAATCCCAAATACAAGAAGTACGTTAGGAGAGGCAGACAT
* *
7161 CTGAAGAATAGATGAACACAATCCAGAGAGGAAGCATTATTTTGGAGCCTGTTA-CCAACCAACA
391 CTGAAGAATAGATGAACACAATCCAAAGAGGAAGCATTATTTTGGAGCATGTTACCCAACCAACA
*
7225 AGTTGTTTTGAAAATGATAGAACGATTTTCAAAGT
456 AGTTGTTTTGAAAATGAGAGAACGATTTTCAAAGT
*
7260 TTCTGACAAGAGTTCCATAAATGAAACATTTCTTTTGAGACTTTAATGAAGTAAAGAAGGCACAA
1 TTCTGACAAGAGTTCCATAAATGAAACATTTCTTTTGAGACTTTAATGAAGCAAAGAAGGCACAA
*
7325 AGATGCAAGTGGATTAGATGGTTCTTCACAAATGCAAGCTTGATAGCATAAGTTACTACATTGAT
66 AGATGCAAGTGGATTAGATGGTTCTTCACAAATGAAAGCTTGATAGCATAAGTTACTACATTGAT
*
7390 ATTTGAAGTAAAACCCTGGAAAGGAATGATCAAGTGGAAAAAGACCAACTTAGCCATTTTGAAGT
131 ATTTGAAGTAAAACCCTGGAAAGGAATAATCAAGTGGAAAAAGACCAACTTAGCCATTTTGAAGT
7455 CAAATGAAGATTAAATCGATATTCATGCATTCATAAGAACATCATTTGCATAAAAGATCATGCAT
196 CAAATGAAGATTAAATCGATATTCATGCATTCATAAGAACATCATTTGCATAAAAGATCATGCAT
* *
7520 TACATTGATACATTTGATTGCATTTGCATAAATACATTTTTCACATGAAGATGCAGGGACAAAAT
261 TACATTGATACATTTGATTGAATTTGCATAAATACATTTTTCACATGAAGATGCAAGGACAAAAT
7585 ACCTTACAAATGGAAGGTAGAATCCAAATCCCAAATACAAGAAGTACGTTAGGAGAGGCAGACAT
326 ACCTTACAAATGGAAGGTAGAATCCAAATCCCAAATACAAGAAGTACGTTAGGAGAGGCAGACAT
*
7650 CTGAAGAATAGATGAACACAATCCAAAGAGGAAGCATTATTTTGGGGCATGTTACCCAACCAACA
391 CTGAAGAATAGATGAACACAATCCAAAGAGGAAGCATTATTTTGGAGCATGTTACCCAACCAACA
7715 AGTTGTTTTGAAAATGAGAGAACGATTTTCAAAGT
456 AGTTGTTTTGAAAATGAGAGAACGATTTTCAAAGT
7750 TTCT
1 TTCT
7754 CATTTAATCT
Statistics
Matches: 475, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
489 427 0.90
490 48 0.10
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (490 bp):
TTCTGACAAGAGTTCCATAAATGAAACATTTCTTTTGAGACTTTAATGAAGCAAAGAAGGCACAA
AGATGCAAGTGGATTAGATGGTTCTTCACAAATGAAAGCTTGATAGCATAAGTTACTACATTGAT
ATTTGAAGTAAAACCCTGGAAAGGAATAATCAAGTGGAAAAAGACCAACTTAGCCATTTTGAAGT
CAAATGAAGATTAAATCGATATTCATGCATTCATAAGAACATCATTTGCATAAAAGATCATGCAT
TACATTGATACATTTGATTGAATTTGCATAAATACATTTTTCACATGAAGATGCAAGGACAAAAT
ACCTTACAAATGGAAGGTAGAATCCAAATCCCAAATACAAGAAGTACGTTAGGAGAGGCAGACAT
CTGAAGAATAGATGAACACAATCCAAAGAGGAAGCATTATTTTGGAGCATGTTACCCAACCAACA
AGTTGTTTTGAAAATGAGAGAACGATTTTCAAAGT
Found at i:7971 original size:20 final size:20
Alignment explanation
Indices: 7948--8001 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
7938 CGGTGATTTG
7948 TAAAACCTCCGGGTCATCTA
1 TAAAACCTCCGGGTCATCTA
* *
7968 TAAATCCTCCGGGTCATCTG
1 TAAAACCTCCGGGTCATCTA
*
7988 TAAAACCTCAGGGT
1 TAAAACCTCCGGGT
8002 ATGATGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (20 bp):
TAAAACCTCCGGGTCATCTA
Found at i:8058 original size:139 final size:137
Alignment explanation
Indices: 7829--8115 Score: 439
Period size: 139 Copynumber: 2.1 Consensus size: 137
7819 TCAACATATT
* * * *
7829 TATAAAACCTCTGGGTCATCTGTAAAGCCTCAGGGTAGGATGTTTTTATGAAAATGAGAAAGCGG
1 TATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCATGAAAATGAGAAAGCGA
* *
7894 TTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCTCGGTGATTTGTAAAACCTCCG
66 TTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCTCGGTAATTTGTAAAACCTCCG
7959 GGTCATC
131 GGTCATC
* * *
7966 TATAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTATGATGTTTTCGCATGAAAATGAGAAAGT
1 TATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTT--CATGAAAATGAGAAAGC
* * *
8031 GATTACTAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTTTGGGTAATTTGTAAAACCTC
64 GATTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCTCGGTAATTTGTAAAACCTC
8096 CGGGTCATC
129 CGGGTCATC
*
8105 TGTAAAACCTC
1 TATAAAACCTC
8116 AGAGTAGGAT
Statistics
Matches: 134, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
137 42 0.31
139 92 0.69
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (137 bp):
TATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCATGAAAATGAGAAAGCGA
TTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCTCGGTAATTTGTAAAACCTCCG
GGTCATC
Found at i:8100 original size:20 final size:20
Alignment explanation
Indices: 8077--8115 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8067 TAAATCCTTT
*
8077 GGGTAATTTGTAAAACCTCC
1 GGGTAATCTGTAAAACCTCC
*
8097 GGGTCATCTGTAAAACCTC
1 GGGTAATCTGTAAAACCTC
8116 AGAGTAGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (20 bp):
GGGTAATCTGTAAAACCTCC
Found at i:8215 original size:20 final size:20
Alignment explanation
Indices: 8187--8241 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
8177 TCAAGAAAAT
* * *
8187 TAAATCCTCCGGGTAATTTG
1 TAAAACCTCAGGGTAATCTG
* *
8207 TAAAACCTCTGGGTCATCTG
1 TAAAACCTCAGGGTAATCTG
8227 TAAAACCTCAGGGTA
1 TAAAACCTCAGGGTA
8242 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATCTG
Found at i:8314 original size:119 final size:119
Alignment explanation
Indices: 7948--8577 Score: 1019
Period size: 119 Copynumber: 5.3 Consensus size: 119
7938 CGGTGATTTG
* * * * * *
7948 TAAAACCTCCGGGTCATCTATAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTATGATGTTTTC
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
*
8013 GCATGAAAATGAGAAAGTGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
66 GCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
** * *
8067 TAAATCCTTTGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGAGTAGGATTTTTTT
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGA-TGTTTT
*
8132 CGCACGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
65 CGCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
*
8187 TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
*
8252 GCATGAAAATGAGAAAACGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
66 GCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
*
8306 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCA-CTTGTAAAACCTCAGGGTATGATGTTTT
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATC-TGTAAAACCTCAGGGTAGGATGTTTT
* *
8370 TGCATGAAAATGAGAAAGCGGTTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
65 CGCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
* * * *
8425 TAAATCCTCCGGGTAAATTGTAAATCCTCCGGGTCATCTGTAAAACCTCATGGTAAGATGTTTTC
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
* *
8490 GCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGATCAAGAAAAT
66 GCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
*
8544 TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGT
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGT
8578 AGGATGTTTT
Statistics
Matches: 473, Mismatches: 35, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
118 1 0.00
119 359 0.76
120 113 0.24
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (119 bp):
TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
GCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
Found at i:8334 original size:20 final size:20
Alignment explanation
Indices: 8306--8360 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
8296 TCAAGAAAAT
* *
8306 TAAATCCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAACTTG
*
8326 TAAAACCTCCGGGTCACTTG
1 TAAAACCTCCGGGTAACTTG
*
8346 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
8361 TGATGTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAACTTG
Found at i:8648 original size:100 final size:99
Alignment explanation
Indices: 8445--8677 Score: 342
Period size: 100 Copynumber: 2.3 Consensus size: 99
8435 GGGTAAATTG
* * *
8445 TAAATCCTCCGGGTCATCTGTAAAACCTCAT-GGTAAGATGTTTTCGCATGAAAATGAGAAAGCG
1 TAAATCCTCCGGGTAATTTGTAAAACCTC-TGGGTAAGATGTTTTCGCATGAAAACGAGAAAGCG
8509 ATTACCAAAGTTTCTCATTTAATGATCAAGAAAAT
65 ATTACCAAAGTTTCTCATTTAATGATCAAGAAAAT
*
8544 TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGTAGGATGTTTTCGCATGAAAAACGAGAAAGCG
1 TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGTAAGATGTTTTCGCATG-AAAACGAGAAAGCG
* ** *
8609 GTTTTCAAAGTTTCTCATTTAATGTTCAAGAAAAT
65 ATTACCAAAGTTTCTCATTTAATGATCAAGAAAAT
* * *
8644 TAAATCCTTCGAGTAATTTGTAAAACCTCCGGGT
1 TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGT
8678 CATTTATAAA
Statistics
Matches: 121, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
98 1 0.01
99 45 0.37
100 75 0.62
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (99 bp):
TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGTAAGATGTTTTCGCATGAAAACGAGAAAGCGA
TTACCAAAGTTTCTCATTTAATGATCAAGAAAAT
Found at i:8682 original size:20 final size:20
Alignment explanation
Indices: 8659--8771 Score: 138
Period size: 20 Copynumber: 5.7 Consensus size: 20
8649 CCTTCGAGTA
8659 ATTTGTAAAACCTCCGGGTC
1 ATTTGTAAAACCTCCGGGTC
* * *
8679 ATTTATAAATCCTCC-GGTG
1 ATTTGTAAAACCTCCGGGTC
8698 ATTTGTAAAACCTCCGGGTC
1 ATTTGTAAAACCTCCGGGTC
* * * *
8718 ATCTATAAATCCTCCGGGTA
1 ATTTGTAAAACCTCCGGGTC
*
8738 ATTTGTAAAACCTCCGAGTC
1 ATTTGTAAAACCTCCGGGTC
*
8758 ATCTGTAAAACCTC
1 ATTTGTAAAACCTC
8772 TGGTATGATG
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
19 16 0.21
20 60 0.79
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (20 bp):
ATTTGTAAAACCTCCGGGTC
Found at i:8753 original size:40 final size:40
Alignment explanation
Indices: 8644--8771 Score: 186
Period size: 40 Copynumber: 3.2 Consensus size: 40
8634 TCAAGAAAAT
* * *
8644 TAAATCCTTCGAGTAATTTGTAAAACCTCCGGGTCATTTA
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTA
*
8684 TAAATCCTCC-GGTGATTTGTAAAACCTCCGGGTCATCTA
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTA
* *
8723 TAAATCCTCCGGGTAATTTGTAAAACCTCCGAGTCATCTG
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTA
*
8763 TAAAACCTC
1 TAAATCCTC
8772 TGGTATGATG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 36 0.46
40 43 0.54
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (40 bp):
TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTA
Found at i:8928 original size:3 final size:3
Alignment explanation
Indices: 8920--9014 Score: 142
Period size: 3 Copynumber: 32.7 Consensus size: 3
8910 TGAGACTATA
* * *
8920 TAT TAT TAT TAT TA- TAT TAC AAT TA- TAT TAT CA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8965 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9013 TA
1 TA
9015 CATAAATCAA
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
2 5 0.06
3 78 0.94
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:11856 original size:24 final size:23
Alignment explanation
Indices: 11774--11855 Score: 110
Period size: 23 Copynumber: 3.5 Consensus size: 23
11764 TCTTATATGG
11774 CACTACGGTGCATTTCTACACGA
1 CACTACGGTGCATTTCTACACGA
11797 CACTACGGTGCATTTCTACACGA
1 CACTACGGTGCATTTCTACACGA
* * * *
11820 CACTTCGGTGCAAATTCTACATGG
1 CACTACGGTGC-ATTTCTACACGA
*
11844 CACTTCGGTGCA
1 CACTACGGTGCA
11856 ATTTATACGA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 34 0.63
24 20 0.37
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (23 bp):
CACTACGGTGCATTTCTACACGA
Found at i:15130 original size:18 final size:19
Alignment explanation
Indices: 15107--15142 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15097 TAAGGACTAA
*
15107 TATAAA-TATTTTAAAATT
1 TATAAATTAATTTAAAATT
15125 TATAAATTAATTTAAAAT
1 TATAAATTAATTTAAAAT
15143 AAAGATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAAATTAATTTAAAATT
Found at i:17839 original size:5 final size:5
Alignment explanation
Indices: 17829--17857 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
17819 TTTAATAAAT
17829 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
17858 TATGAATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:18482 original size:2 final size:2
Alignment explanation
Indices: 18475--18511 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18465 TAGGAATTAA
18475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18512 AGGAATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20005 original size:2 final size:2
Alignment explanation
Indices: 19998--20022 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19988 CAAAACTTTA
19998 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
20023 ATTTTTCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23183 original size:29 final size:29
Alignment explanation
Indices: 23131--23207 Score: 118
Period size: 29 Copynumber: 2.6 Consensus size: 29
23121 TTCGGTTCGG
* * *
23131 TTAATCGAACCAAATTTTATTTGAAAATTA
1 TTAACCGAACCGAA-TTAATTTGAAAATTA
23161 TTAACCGAACCGAATTAATTTGAAAATTA
1 TTAACCGAACCGAATTAATTTGAAAATTA
23190 TTAACCGAACCGAATTAA
1 TTAACCGAACCGAATTAA
23208 CCAAAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 32 0.73
30 12 0.27
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (29 bp):
TTAACCGAACCGAATTAATTTGAAAATTA
Found at i:23215 original size:29 final size:29
Alignment explanation
Indices: 23154--23215 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
23144 ATTTTATTTG
****
23154 AAAATTATTAACCGAACCGAATTAATTTG
1 AAAATTATTAACCGAACCGAATTAACCAA
23183 AAAATTATTAACCGAACCGAATTAACCAA
1 AAAATTATTAACCGAACCGAATTAACCAA
23212 AAAA
1 AAAA
23216 ATTTAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (29 bp):
AAAATTATTAACCGAACCGAATTAACCAA
Found at i:23324 original size:29 final size:29
Alignment explanation
Indices: 23267--23347 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 29
23257 AAACCGATTT
*
23267 TTATTAATC-GAACCAGAATTTATTTGAAAA
1 TTATTAA-CAGAACCA-AATTAATTTGAAAA
23297 TTATTAACTA-AACCAAATTAATTTGAAAA
1 TTATTAAC-AGAACCAAATTAATTTGAAAA
23326 TTATTAACAGAACCAAATTAAT
1 TTATTAACAGAACCAAATTAAT
23348 CATTTTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
28 1 0.02
29 34 0.72
30 12 0.26
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (29 bp):
TTATTAACAGAACCAAATTAATTTGAAAA
Found at i:23441 original size:30 final size:28
Alignment explanation
Indices: 23402--23469 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
23392 TTTGGTTCGG
* *
23402 TTAATCGAACAAAAATTTATTTGAAAATTA
1 TTAACCGAAC-AAAATTAATTT-AAAATTA
*
23432 TTAACCGAACCAAATTAATTTAAAATTA
1 TTAACCGAACAAAATTAATTTAAAATTA
23460 TTAACCGAAC
1 TTAACCGAAC
23470 CGAATAAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 17 0.49
29 9 0.26
30 9 0.26
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (28 bp):
TTAACCGAACAAAATTAATTTAAAATTA
Found at i:23461 original size:28 final size:29
Alignment explanation
Indices: 23414--23470 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
23404 AATCGAACAA
*
23414 AAATTTATTTGAAAATTATTAACCGAACC
1 AAATTAATTTGAAAATTATTAACCGAACC
23443 AAATTAATTT-AAAATTATTAACCGAACC
1 AAATTAATTTGAAAATTATTAACCGAACC
23471 GAATAAACCG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.33
Consensus pattern (29 bp):
AAATTAATTTGAAAATTATTAACCGAACC
Found at i:23592 original size:29 final size:29
Alignment explanation
Indices: 23550--23613 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
23540 ATCGAACAAA
* * *
23550 AATTTATTTAAAAATTATTAACCTAACCG
1 AATTAATTTAAAAATCATTAACCGAACCG
* *
23579 AATTAATTTGAAAATCATTAACCGAACCT
1 AATTAATTTAAAAATCATTAACCGAACCG
23608 AATTAA
1 AATTAA
23614 CTGATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (29 bp):
AATTAATTTAAAAATCATTAACCGAACCG
Found at i:23624 original size:267 final size:271
Alignment explanation
Indices: 23106--23747 Score: 766
Period size: 267 Copynumber: 2.4 Consensus size: 271
23096 ACGATTAAAG
* *
23106 AAAAAATTCAGTT-ATTTCGGTTCGGTTAATCGAACCAAATTTTATTTGAAAATTATTAACCGAA
1 AAAAAATTCGGTTAATTT-GGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAA
*
23170 CCGAATTAATTTGAAAATTATTAACCGAACCGAATTAACCAAAAAAATTTAAATTATTAACGAAT
65 CCGAATTAATTTGAAAATTATTAACCGAACCGAATAAACC--AAAAATTTAAATTATTAACGAAT
* * ** * * *
23235 TAATCAAAGCAAAGATTTGGTTAAACCGATTTTTATTAATCGAACCAGAATTTATTTGAAAATTA
128 TAATCAAAGCAAAAATTCGGTTAAACCGA-TTCGATTAATCGAACAAAAATTTATTTAAAAATTA
*
23300 TTAACTAAACCAAATTAATTTGAAAATTATTAACAGAACCAAATTAATCATTTTTTTTGAA-AAT
192 TTAACTAAACCAAATTAATTTGAAAATCATTAACAGAACCAAATTAATCATTTTTTTT-AATAAT
*
23364 T-T-ATTAATCGAAGC
256 TATAACTAATCGAAGC
* *
23378 -GAAAATTCGGTTAATTTGGTTCGGTTAATCGAACAAAAATTTATTTGAAAATTATTAACCGAAC
1 AAAAAATTCGGTTAATTTGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAAC
* * ** *
23442 CAAATTAATTT-AAAATTATTAACCGAACCGAATAAACC-GATTTTTTAATTATTAATCGAATTA
66 CGAATTAATTTGAAAATTATTAACCGAACCGAATAAACCAAAAATTTAAATTATTAA-CGAATTA
* * * *
23505 ATCAAAGTAAAAATTCGGTTAATTCTG-TTCGGTTAATCGAACAAAAATTTATTTAAAAATTATT
130 ATCAAAGCAAAAATTCGGTTAA-ACCGATTCGATTAATCGAACAAAAATTTATTTAAAAATTATT
* * * * *
23569 AACCT-AACCGAATTAATTTGAAAATCATTAACCGAACCTAATTAACTGA-TTTTTTTAATTATT
194 AA-CTAAACCAAATTAATTTGAAAATCATTAACAGAACCAAATTAA-TCATTTTTTTTAATAATT
23632 AATCGAACTAATCGAAGC
257 -AT--AACTAATCGAAGC
* ** * * * *
23650 AAAAAATT-GATTAATTCAGTTCGGTTAATTGAACCAAAATTTCTTTGAAAATTATTAATCAAAC
1 AAAAAATTCGGTTAATTTGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAAC
* *
23714 CGAATTAATTTGAAAATTAATAACCAAACCGAAT
66 CGAATTAATTTGAAAATTATTAACCGAACCGAAT
23748 TAACAAATTT
Statistics
Matches: 317, Mismatches: 40, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
266 2 0.01
267 92 0.29
268 30 0.09
269 3 0.01
270 26 0.08
271 65 0.21
272 73 0.23
273 26 0.08
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (271 bp):
AAAAAATTCGGTTAATTTGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAAC
CGAATTAATTTGAAAATTATTAACCGAACCGAATAAACCAAAAATTTAAATTATTAACGAATTAA
TCAAAGCAAAAATTCGGTTAAACCGATTCGATTAATCGAACAAAAATTTATTTAAAAATTATTAA
CTAAACCAAATTAATTTGAAAATCATTAACAGAACCAAATTAATCATTTTTTTTAATAATTATAA
CTAATCGAAGC
Found at i:23691 original size:137 final size:137
Alignment explanation
Indices: 23102--23760 Score: 696
Period size: 137 Copynumber: 4.8 Consensus size: 137
23092 ATTAACGATT
* * * *
23102 AAAG-AAAAAATTCAGTTATTTCGGTTCGGTTAATCGAACCAAATTTTATTTGAAAATTATTAAC
1 AAAGCAAAAAATT-GGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAAC
*** *
23166 CGAACCGAATTAATTTGAAAATTATTAACCGAACCGAATTAACCAAAAAAATTTAAATTATTAA-
65 CGAACCGAATTAATTTGAAAATTATTAACCGAACCGAATTAA-C-AAATTTTTTTAATTATTAAT
23230 CGAATTAATC
128 CGAATTAATC
* * ** * *** *
23240 AAAGCAAAGATTTGGTTAAACCGATTTTTATTAATCGAACCAGAATTTATTTGAAAATTATTAAC
1 AAAGCAAAAAATTGGTTAATTC-AGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAAC
** * * * * *
23305 TAAACCAAATTAATTTGAAAATTATTAACAGAACCAAATTAATC-ATTTTTTTTGAA-AATT--T
65 CGAACCGAATTAATTTGAAAATTATTAACCGAACCGAATTAA-CAAATTTTTTT-AATTATTAAT
23366 ---ATTAATC
128 CGAATTAATC
* * ** *
23373 GAAGC-GAAAATTCGGTTAATTTGGTTCGGTTAATCGAACAAAAATTTATTTGAAAATTATTAAC
1 AAAGCAAAAAATT-GGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAAC
* * **
23437 CGAACCAAATTAATTT-AAAATTATTAACCGAACCGAATAAACCGA-TTTTTTAATTATTAATCG
65 CGAACCGAATTAATTTGAAAATTATTAACCGAACCGAATTAACAAATTTTTTTAATTATTAATCG
23500 AATTAATC
130 AATTAATC
* * * *
23508 AAAG-TAAAAATTCGGTTAATTCTGTTCGGTTAATCGAACAAAAATTTATTTAAAAATTATTAAC
1 AAAGCAAAAAATT-GGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAAC
* * * **
23572 CTAACCGAATTAATTTGAAAATCATTAACCGAACCTAATTAACTGATTTTTTTAATTATTAATCG
65 CGAACCGAATTAATTTGAAAATTATTAACCGAACCGAATTAACAAATTTTTTTAATTATTAATCG
*
23637 AACTAATC
130 AATTAATC
* * * * *
23645 GAAGCAAAAAATTGATTAATTCAGTTCGGTTAATTGAACCAAAATTTCTTTGAAAATTATTAATC
1 AAAGCAAAAAATTGGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACC
* * *
23710 AAACCGAATTAATTTGAAAATTAATAACCAAACCGAATTAACAAATTTTTT
66 GAACCGAATTAATTTGAAAATTATTAACCGAACCGAATTAACAAATTTTTT
23761 CTTTAACCAT
Statistics
Matches: 430, Mismatches: 75, Indels: 33
0.80 0.14 0.06
Matches are distributed among these distances:
129 2 0.00
130 10 0.02
131 22 0.05
132 54 0.13
133 17 0.04
135 79 0.18
136 25 0.06
137 124 0.29
138 18 0.04
139 79 0.18
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (137 bp):
AAAGCAAAAAATTGGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACC
GAACCGAATTAATTTGAAAATTATTAACCGAACCGAATTAACAAATTTTTTTAATTATTAATCGA
ATTAATC
Found at i:23725 original size:29 final size:29
Alignment explanation
Indices: 23693--23750 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
23683 CCAAAATTTC
* *
23693 TTTGAAAATTATTAATCAAACCGAATTAA
1 TTTGAAAATTAATAACCAAACCGAATTAA
23722 TTTGAAAATTAATAACCAAACCGAATTAA
1 TTTGAAAATTAATAACCAAACCGAATTAA
23751 CAAATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (29 bp):
TTTGAAAATTAATAACCAAACCGAATTAA
Found at i:25726 original size:2 final size:2
Alignment explanation
Indices: 25719--25746 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25709 TTACATTTGA
25719 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
25747 TACTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29471 original size:23 final size:23
Alignment explanation
Indices: 29445--29493 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
29435 GTTGGATTCA
*
29445 GTTTGGGTTCCGAGTCGGGTTCG
1 GTTTGGGTTCCGAGTCGGGTCCG
* *
29468 GTTTGGGTTCTGAGTTGGGTCCG
1 GTTTGGGTTCCGAGTCGGGTCCG
29491 GTT
1 GTT
29494 ATATTTTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.04, C:0.14, G:0.43, T:0.39
Consensus pattern (23 bp):
GTTTGGGTTCCGAGTCGGGTCCG
Found at i:41120 original size:23 final size:23
Alignment explanation
Indices: 41056--41147 Score: 112
Period size: 23 Copynumber: 4.0 Consensus size: 23
41046 TCATTTAATA
* *
41056 AATAAACGAACATAAACTAACAC
1 AATAAATGAACATAAACGAACAC
** * * *
41079 GAACGAACGAATATAAACGGACAC
1 -AATAAATGAACATAAACGAACAC
41103 AATAAATGAACATAAACGAACAC
1 AATAAATGAACATAAACGAACAC
41126 AATAAATGAACATAAACGAACA
1 AATAAATGAACATAAACGAACA
41148 ACACAAACAC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
23 40 0.69
24 18 0.31
ACGTcount: A:0.59, C:0.18, G:0.11, T:0.12
Consensus pattern (23 bp):
AATAAATGAACATAAACGAACAC
Found at i:48248 original size:6 final size:6
Alignment explanation
Indices: 48237--48262 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48227 GTGTCTTTCT
48237 CCTCCA CCTCCA CCTCCA CCTCCA CC
1 CCTCCA CCTCCA CCTCCA CCTCCA CC
48263 AAGCTTAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.69, G:0.00, T:0.15
Consensus pattern (6 bp):
CCTCCA
Found at i:59642 original size:35 final size:35
Alignment explanation
Indices: 59603--59673 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
59593 AAAACTACCC
*
59603 CTTAACTATTCTTATTGTTCCAAATTGCAATCACA
1 CTTAACTATTCTTATTATTCCAAATTGCAATCACA
* *
59638 CTTAACTATTCTTATTATTCCGAATTGCAGTCACA
1 CTTAACTATTCTTATTATTCCAAATTGCAATCACA
59673 C
1 C
59674 GACTTATGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (35 bp):
CTTAACTATTCTTATTATTCCAAATTGCAATCACA
Found at i:61976 original size:32 final size:30
Alignment explanation
Indices: 61901--61976 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 30
61891 ACACAAAGAA
*
61901 AAGAAAACAGAAGGTTCAACAAATAATTAC
1 AAGAAAAAAGAAGGTTCAACAAATAATTAC
* *
61931 AAGAGCAGAAAGAAGTTTCAACAAATAAATTAC
1 AAGA--AAAAAGAAGGTTCAACAAAT-AATTAC
61964 AAGAAAATAAGAA
1 AAGAAAA-AAGAA
61977 ATTAACTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
30 4 0.11
31 2 0.05
32 22 0.58
33 10 0.26
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (30 bp):
AAGAAAAAAGAAGGTTCAACAAATAATTAC
Found at i:65056 original size:12 final size:12
Alignment explanation
Indices: 65039--65067 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
65029 AACACGAACC
65039 GAACATGAACAT
1 GAACATGAACAT
65051 GAACATGAACAT
1 GAACATGAACAT
65063 GAACA
1 GAACA
65068 CATTCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (12 bp):
GAACATGAACAT
Found at i:65129 original size:2 final size:2
Alignment explanation
Indices: 65122--65150 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
65112 AATTTTCGTC
65122 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
65151 TATGGTTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65271 original size:37 final size:35
Alignment explanation
Indices: 65172--65509 Score: 363
Period size: 37 Copynumber: 9.1 Consensus size: 35
65162 TTTTTAAATA
* *
65172 TTTTAAAAATATATAATATATAGTTTTTGAAAATAT
1 TTTTAAAAATATATATTATATAG-TTTTGAAAATTT
*
65208 TTTTAAAAATATATATTATATTGTTTTGAAAACTTT
1 TTTTAAAAATATATATTATATAGTTTTGAAAA-TTT
* * *
65244 TTTTAAGATATATATAATATATAGTTTTTAAAAACATTT
1 TTTTAA-AAATATATATTATATAG-TTTT-GAAA-ATTT
**
65283 TTAAAAAATATATATATTATATAGTTTTGAAAATTAGT
1 TTTTAAAA-ATATATATTATATAGTTTTGAAAATT--T
*
65321 TTTTAAAAATATATATTATATAGTTTTGAAGATTAGT
1 TTTTAAAAATATATATTATATAGTTTTGAAAATT--T
65358 TTTT-AAAATATATATTATATAGTTTTGAAAATTAGT
1 TTTTAAAAATATATATTATATAGTTTTGAAAATT--T
* *
65394 TATAAAAATATATATATTATATAGTTTTGAAAATTATT
1 TTTTAAAA-ATATATATTATATAGTTTTGAAAA-T-TT
*
65432 TTTTAAAAATATATATTATATGGTTTTGAAAATTATT
1 TTTTAAAAATATATATTATATAGTTTTGAAAA-T-TT
* * *
65469 TTTTAAAAACATATATTGTATAGTTTTTAAAATGTT
1 TTTTAAAAATATATATTATATAGTTTTGAAAAT-TT
65505 TTTTA
1 TTTTA
65510 TTGTATTTAT
Statistics
Matches: 264, Mismatches: 26, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
35 9 0.03
36 73 0.28
37 108 0.41
38 47 0.18
39 25 0.09
40 2 0.01
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (35 bp):
TTTTAAAAATATATATTATATAGTTTTGAAAATTT
Found at i:65418 original size:111 final size:109
Alignment explanation
Indices: 65175--65501 Score: 437
Period size: 111 Copynumber: 2.9 Consensus size: 109
65165 TTAAATATTT
*
65175 TAAAAATATATA-A-TATATAGTTTTTGAAAA-TATTTTTAAAAATATATATTATATTGTTTTGA
1 TAAAAATATATATATTATATAG-TTTTGAAAATTATTTTTAAAAATATATATTATATAGTTTTGA
* * * *
65237 AAACTT-TTTTTAAGATATATATAATATATAGTTTTTAAAAACATTTT
65 AAA-TTATTTTTAA-A-ATATATATTATATAGTTTTTAAAATCAGTTA
65284 TAAAAAATATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAATATATATTATATAGTTTTG
1 T-AAAAATATATATATTATATAGTTTTGAAAATTA-TTTTTAAAAATATATATTATATAGTTTTG
* * *
65349 AAGATTAGTTTTTAAAATATATATTATATAGTTTTGAAAATTAGTTA
64 AAAATTA-TTTTTAAAATATATATTATATAGTTTTTAAAATCAGTTA
*
65396 TAAAAATATATATATTATATAGTTTTGAAAATTATTTTTTAAAAATATATATTATATGGTTTTGA
1 TAAAAATATATATATTATATAGTTTTGAAAATTA-TTTTTAAAAATATATATTATATAGTTTTGA
* *
65461 AAATTATTTTTTAAAAACATATATTGTATAGTTTTTAAAAT
65 AAATTA-TTTTT-AAAATATATATTATATAGTTTTTAAAAT
65502 GTTTTTTATT
Statistics
Matches: 195, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
109 1 0.01
110 11 0.06
111 82 0.42
112 62 0.32
113 32 0.16
114 7 0.04
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (109 bp):
TAAAAATATATATATTATATAGTTTTGAAAATTATTTTTAAAAATATATATTATATAGTTTTGAA
AATTATTTTTAAAATATATATTATATAGTTTTTAAAATCAGTTA
Found at i:65522 original size:4 final size:4
Alignment explanation
Indices: 65506--65587 Score: 63
Period size: 4 Copynumber: 21.8 Consensus size: 4
65496 TAAAATGTTT
*
65506 TTTA TTGTA TTTA TTTA TTTA -TTA -TTA -TTA -TTA -TTA TTTTA TTTT
1 TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
*
65551 TTTA TTTTA TTT- TTTA TTTA -TTA CTTA -TTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
65588 CTTTTTTCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 14
0.81 0.02 0.16
Matches are distributed among these distances:
3 24 0.35
4 34 0.49
5 11 0.16
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:65532 original size:3 final size:3
Alignment explanation
Indices: 65524--65582 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
65514 ATTTATTTAT
*
65524 TTA TTA TTA TTA TTA TTA TT- TTA TT- TTT TTA TT- TTA TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65567 TTTA TTA CTTA TTA TT
1 -TTA TTA -TTA TTA TT
65583 TATTTCTTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
2 10 0.20
3 33 0.67
4 6 0.12
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (3 bp):
TTA
Found at i:65546 original size:24 final size:23
Alignment explanation
Indices: 65513--65587 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 23
65503 TTTTTTATTG
65513 TATTTATTTATTTATTATTATTAT
1 TATTT-TTTATTTATTATTATTAT
65537 TATTATTTTATTT-TT-TTATT-T
1 TATT-TTTTATTTATTATTATTAT
65558 TATTTTTTATTTATTACTTATTATT
1 TATTTTTTATTTATTA-TTATTA-T
65583 TATTT
1 TATTT
65588 CTTTTTTCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
20 8 0.18
21 7 0.16
22 5 0.11
23 7 0.16
24 11 0.24
25 7 0.16
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (23 bp):
TATTTTTTATTTATTATTATTAT
Found at i:65549 original size:32 final size:32
Alignment explanation
Indices: 65507--65592 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 32
65497 AAAATGTTTT
*
65507 TTATTGTATTTATTTA-TTTATTATTATTA-TTA
1 TTATTTTATTTATTTATTTTATT-TT-TTATTTA
*
65539 TTATTTTATTTTTTTATTTTATTTTTTATTTA
1 TTATTTTATTTATTTATTTTATTTTTTATTTA
*
65571 TTACTTATTATTTATTTCTTTT
1 TTA-TT-TTATTTATTTATTTT
65593 TTCTCGTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
31 3 0.07
32 22 0.48
33 8 0.17
34 13 0.28
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.74
Consensus pattern (32 bp):
TTATTTTATTTATTTATTTTATTTTTTATTTA
Found at i:65554 original size:28 final size:25
Alignment explanation
Indices: 65505--65569 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
65495 TTAAAATGTT
65505 TTTTATTGTATTTA-TTTATTTA-TTA
1 TTTTATT-T-TTTATTTTATTTATTTA
* *
65530 TTATTA-TTATTATTTTATTTTTTTA
1 TT-TTATTTTTTATTTTATTTATTTA
65555 TTTTATTTTTTATTT
1 TTTTATTTTTTATTT
65570 ATTACTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
23 3 0.09
24 11 0.33
25 16 0.48
26 3 0.09
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTATTTTTTATTTTATTTATTTA
Found at i:66810 original size:3 final size:3
Alignment explanation
Indices: 66802--66847 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
66792 TTTATATCAC
* *
66802 TAT TAT TAT TAT TATT TAT TAT TAT TAT T-T TAT TTT TAT TTT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66847 T
1 T
66848 TGTCTTTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TAT
Found at i:66822 original size:13 final size:13
Alignment explanation
Indices: 66804--66847 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
66794 TATATCACTA
66804 TTATTATTATTAT
1 TTATTATTATTAT
66817 TTATTATTATTATT
1 TTATTATTATTA-T
*
66831 TTATTTTTATT-T
1 TTATTATTATTAT
66843 TTATT
1 TTATT
66848 TGTCTTTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 6 0.21
13 12 0.41
14 11 0.38
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:66823 original size:27 final size:23
Alignment explanation
Indices: 66790--66847 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 23
66780 TTCCTTTGAT
66790 TTTTTATATCACTATTATTATTATTA
1 TTTTTAT-T-ACTATT-TTATTATTA
* *
66816 TTTATTATTATTATTTTATTTTTA
1 TTT-TTATTACTATTTTATTATTA
66840 TTTTTATT
1 TTTTTATT
66848 TGTCTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 5 0.17
24 11 0.38
25 5 0.17
26 4 0.14
27 4 0.14
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTTATTACTATTTTATTATTA
Found at i:66848 original size:6 final size:6
Alignment explanation
Indices: 66802--66866 Score: 60
Period size: 6 Copynumber: 10.8 Consensus size: 6
66792 TTTATATCAC
* * * *
66802 TATTAT TATTAT TATTTAT TATTAT TA-TTT TATTTT TATTTT TATTTG
1 TATTTT TATTTT TATTT-T TATTTT TATTTT TATTTT TATTTT TATTTT
* *
66850 TCTTTT CATTTT TATTT
1 TATTTT TATTTT TATTT
66867 ATTTATTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
5 4 0.08
6 39 0.81
7 5 0.10
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.74
Consensus pattern (6 bp):
TATTTT
Found at i:69555 original size:14 final size:14
Alignment explanation
Indices: 69538--69578 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
69528 GCCATAAGGC
69538 CATATCAATACAAG
1 CATATCAATACAAG
69552 CATATCAATACAAG
1 CATATCAATACAAG
69566 CATATCAATACAA
1 CATATCAATACAA
69579 AGTCATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (14 bp):
CATATCAATACAAG
Found at i:72477 original size:84 final size:83
Alignment explanation
Indices: 72202--73122 Score: 817
Period size: 84 Copynumber: 11.2 Consensus size: 83
72192 TTTAAGACAA
* * * ** *
72202 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCAACCAAAGATCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACG
*
72267 CTCAGCTCTAAGGCACAT
66 CTCAGCTCCAAGGCACAT
* * * * * * * **
72285 CATTTGTAGAATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCTCAAGTTCGATTATA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACG
** *
72347 CTCAGCTTTGAGGGCACAT
66 CTCAGC-TCCAAGGCACAT
* * * * *
72366 CATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTAC
*
72431 GCTCAGCTCCAAGGCATAT
65 GCTCAGCTCCAAGGCACAT
* **
72450 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTAC
72515 GCTCAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
** * * * * *
72534 CATTTGCAGCATAGTTTAAGTCGATAAGGGTTATC--TG-CCAAAGACCCTAGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACG
** *
72596 CTCAGCTTTGAGGGCACAT
66 CTCAGC-TCCAAGGCACAT
* * * * * **
72615 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCCCCAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACG
*
72680 CTCAGCTCCAAGGCATAT
66 CTCAGCTCCAAGGCACAT
* **
72698 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTAC
*
72763 GCTCAGCTCTAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * * * *
72782 CATTTGTAGCATAGCTTAAGTCAAGAAGGGCTATC--TG-CCAAAGACCCTCGAGTTTGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACG
* * * *
72844 CTCAACTTCGAGGGCAAAT
66 CTCAGC-TCCAAGGCACAT
** * * * * * * *
72863 CATTTATATCATAACTCAAGGCTAGAAGGGATATCTGTCACTAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGAC-CAAAGACCTTCGAGTTCGACTAC
* * * *
72928 TCTTAGCTCTAAGGCATAT
65 GCTCAGCTCCAAGGCACAT
* * * ** * *
72947 CATTTACAGCATAACTTAAGTCGATAAGGGTTATATGCT-AGTAAAGACCTTTGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTAC
*
73011 ACTCAGCT-CAACGGCACAT
65 GCTCAGCTCCAA-GGCACAT
** * * * * * *
73030 CATTTGTGGTATAACTCAAGGCTAGAAGGGCTATC--TG-CCATAGACCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACG
* *
73092 CTCAGCTCTAGGGCACAT
66 CTCAGCTCCAAGGCACAT
*
73110 CATTTACAGCATA
1 CATTTGCAGCATA
73123 GCCTAAGGCA
Statistics
Matches: 661, Mismatches: 157, Indels: 43
0.77 0.18 0.05
Matches are distributed among these distances:
80 121 0.18
81 109 0.16
82 2 0.00
83 128 0.19
84 250 0.38
85 51 0.08
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (83 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACAT
Found at i:72701 original size:248 final size:247
Alignment explanation
Indices: 72202--73122 Score: 1299
Period size: 248 Copynumber: 3.7 Consensus size: 247
72192 TTTAAGACAA
* ** * *
72202 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCAACCAAAGATCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
* *
72267 CTCAGCTCTAAGGCACATCATTTGTAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
* *
72332 TCA-AGTTCGATTATACTCAGCTTTGAGGGCACATCATTTACATCATAACTCAAGGCTAGAAGGG
131 T-AGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
*
72396 TTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
195 TTATCTGT-CCCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
72450 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTAC
* * * *
72515 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGTTTAAGTCGATAAGGGTTATCTGCCAAAGACC
65 GCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
72580 CTAGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
130 CTAGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
* *
72645 TTATATGTCCCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
195 TTATCTGTCCCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
72698 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTAC
* *
72763 GCTCAGCTCTAAGGCACATCATTTGTAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACC
65 GCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* * * * * * *
72828 CTCGAGTTTGATTACACTCAACTTCGAGGGCAAATCATTTATATCATAACTCAAGGCTAGAAGGG
130 CTAGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
* * * * *
72893 ATATCTGTCACTAAAAGACCTTCGAGTTCGACTACTCTTAGCTCTAAGGCATAT
195 TTATCTGTC-CCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
* * * * * ** * * *
72947 CATTTACAGCATAACTTAAGTCGATAAGGGTTATATGCTAGTAAAGACCTTTGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
* * * * * * *
73012 CTCAGCT-CAACGGCACATCATTTGTGGTATAACTCAAGGCTAGAAGGGCTATCTGCCATAGACC
66 CTCAGCTCCAA-GGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* * * * *
73076 TTCGAGTTCGACTACGCTCAGCTCT-AGGGCACATCATTTACAGCATA
130 CTAGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATA
73123 GCCTAAGGCA
Statistics
Matches: 605, Mismatches: 64, Indels: 9
0.89 0.09 0.01
Matches are distributed among these distances:
247 21 0.03
248 359 0.59
249 225 0.37
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (247 bp):
CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
TAGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
TATCTGTCCCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
Found at i:72811 original size:332 final size:328
Alignment explanation
Indices: 72202--73145 Score: 893
Period size: 332 Copynumber: 2.9 Consensus size: 328
72192 TTTAAGACAA
* * * * * * *
72202 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG-CAACCAAAGATCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGTC-ACAAAAGACCCTAGAGTTCGACTAC
* ** * * * * * *
72266 GCTCAGCTCTAAGGCACATCATTTGTAGAATAGCTTAAGTCGAGAAGGG--CTAT-CTGCCAAAG
65 ACTCAGCTCTAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATATGCTACCAAAG
* * * * ** * * * * *
72328 ACCCTCAAGTTCGATTATACTCAGCTTTGAGGGCACATCATTTACATCATAACTCAAGGCTAGAA
130 ACCTTCGAGTTCGACTACACTCAGC-TCAACGGCACATCATTTGCAGCATAACTCAAAGCGAGAA
* *
72393 GGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCA
194 GGGTTATC--TGACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCA
* * * * * * *
72458 GCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-
256 GCATAGCTTAAGTCAAGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGACTACACTCAACT
*
72522 TCCAAGGCACAT
317 TCCAAGGCAAAT
* ** * * * * *
72534 CATTTGCAGCATAGTTTAAGTCGATAAGGGTTATCTG-C-C-AAAGACCCTAGAGTTCGATTACA
1 CATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGTCACAAAAGACCCTAGAGTTCGACTACA
* * * *
72596 CTCAGCTTTGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATG-TCCCCAAA
66 CTCAGCTCT-AAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATATGCT-ACCAAA
* * * *
72660 GACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAATCGAGA
129 GACCTTCGAGTTCGACTACACTCAGCT-CAACGGCACATCATTTGCAGCATAACTCAAAGCGAGA
*
72724 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGT
193 AGGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGC
* * *
72789 AGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTTGATTACACTCAACTTCG
255 AGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAACTTCC
*
72854 AGGGCAAAT
320 AAGGCAAAT
* * * * *
72863 CATTTATATCATAACTCAAGGCTAGAAGGGATATCTGTCACTAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGTCAC-AAAAGACCCTAGAGTTCGACTAC
* * * * * * **
72928 TCTTAGCTCTAAGGCATATCATTTACAGCATAACTTAAGTCGATAAGGGTTATATGCTAGTAAAG
65 ACTCAGCTCTAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATATGCTACCAAAG
* * ** * * *
72993 ACCTTTGAGTTCGATTACACTCAGCTCAACGGCACATCATTTGTGGTATAACTCAAGGCTAGAAG
130 ACCTTCGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAACTCAAAGCGAGAAG
* * * *
73058 GGCTATCTG-CCATAGACCTTCGAGTTCGACTACGCTCAGCTCTAGGGCACATCATTTACAGCAT
195 GGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCAT
* * * *
73122 AGCCTAAGGCAAGAACGTCTATCT
260 AGCTTAAGTCAAGAAGGGCTATCT
73146 ATCAATAAAT
Statistics
Matches: 500, Mismatches: 96, Indels: 36
0.79 0.15 0.06
Matches are distributed among these distances:
328 97 0.19
329 62 0.12
330 35 0.07
331 4 0.01
332 245 0.49
333 57 0.11
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (328 bp):
CATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGTCACAAAAGACCCTAGAGTTCGACTACA
CTCAGCTCTAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATATGCTACCAAAGA
CCTTCGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAACTCAAAGCGAGAAGG
GTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATA
GCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAACTTCCAAGGCA
AAT
Found at i:73908 original size:113 final size:113
Alignment explanation
Indices: 73782--74069 Score: 375
Period size: 113 Copynumber: 2.5 Consensus size: 113
73772 TATTTTGAAA
* * * *
73782 ATATATAATATATAATTTTTGAAAA-CA-TTTTTAAAAATATATATTATATTGTTTTGAAAACTT
1 ATATATATTATAT-AGTTTTGAAAATTAGTTTTTAAAAATATATATTATATAGTTTTGAAAA-TT
* * * * *
73845 -TTTTTTTAAATATATATAATATATAGTTTTTAAAAACATTTTTAAAAAAC
64 AGTTTTTAAAATATATATAATATATAGTTTTGAAAAACAGTTAT-AAAAAC
*
73895 ATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAATATATATTATATAGTTTTGAAGATTAG
1 ATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAATATATATTATATAGTTTTGAAAATTAG
* ** *
73960 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAGTTATAAAAAT
66 TTTTTAAAATATATATAATATATAGTTTTGAAAAACAGTTATAAAAAC
* * *
74008 ATATATATTATATAGTTTTGAAAATTATTTTTTAAAAATATATATTGTATAGTTTTAAAAAT
1 ATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAATATATATTATATAGTTTTGAAAAT
74070 GTTATTTATT
Statistics
Matches: 154, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
112 10 0.06
113 78 0.51
114 66 0.43
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.48
Consensus pattern (113 bp):
ATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAATATATATTATATAGTTTTGAAAATTAG
TTTTTAAAATATATATAATATATAGTTTTGAAAAACAGTTATAAAAAC
Found at i:74069 original size:37 final size:37
Alignment explanation
Indices: 73711--74069 Score: 349
Period size: 38 Copynumber: 9.7 Consensus size: 37
73701 TTATATATAT
* *
73711 AAATATATATTATATAG-TTTG-AAATCA-TTTTGAA
1 AAATATATATTATATAGTTTTGAAAATTAGTTTTTAA
* * * * ** *
73745 AATTATACAATATATGGGTTTTTTAAA-TA--TTTTGA
1 AAATATATATTATAT-AGTTTTGAAAATTAGTTTTTAA
* * *
73780 AAATATATAATATATAATTTTTGAAAA-CA-TTTTTAA
1 AAATATATATTATAT-AGTTTTGAAAATTAGTTTTTAA
* **
73816 AAATATATATTATATTGTTTTGAAAACTTTTTTTTTAA
1 AAATATATATTATATAGTTTTGAAAA-TTAGTTTTTAA
* * * **
73854 ATATATATAATATATAGTTTTTAAAAACA-TTTTTAAAA
1 AAATATATATTATATAGTTTTGAAAATTAGTTTTT--AA
73892 AACATATATATTATATAGTTTTGAAAATTAGTTTTTAA
1 AA-ATATATATTATATAGTTTTGAAAATTAGTTTTTAA
*
73930 AAATATATATTATATAGTTTTGAAGATTAGTTTTTAA
1 AAATATATATTATATAGTTTTGAAAATTAGTTTTTAA
* *
73967 AATATATATATTATATAGTTTTGAAAATTAGTTATAAA
1 AA-ATATATATTATATAGTTTTGAAAATTAGTTTTTAA
*
74005 AATATATATATTATATAGTTTTGAAAATTATTTTTTAA
1 AA-ATATATATTATATAGTTTTGAAAATTAGTTTTTAA
* *
74043 AAATATATATTGTATAGTTTTAAAAAT
1 AAATATATATTATATAGTTTTGAAAAT
74070 GTTATTTATT
Statistics
Matches: 270, Mismatches: 43, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
34 12 0.04
35 35 0.13
36 28 0.10
37 62 0.23
38 105 0.39
39 23 0.09
40 5 0.02
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (37 bp):
AAATATATATTATATAGTTTTGAAAATTAGTTTTTAA
Found at i:74086 original size:9 final size:8
Alignment explanation
Indices: 74071--74160 Score: 51
Period size: 6 Copynumber: 12.1 Consensus size: 8
74061 TTTAAAAATG
74071 TTATTTAT
1 TTATTTAT
74079 TGTATTTAT
1 T-TATTTAT
74088 TTA-TTA-
1 TTATTTAT
74094 TTA-TTA-
1 TTATTTAT
74100 TTA-TTA-
1 TTATTTAT
74106 TTA-TTA-
1 TTATTTAT
74112 TTATTT-T
1 TTATTTAT
74119 ATTATTTACCT
1 -TTATTTA--T
74130 TT-TTTA-
1 TTATTTAT
74136 TTATTTAT
1 TTATTTAT
74144 TT-TATTAT
1 TTAT-TTAT
74152 TTATTTAT
1 TTATTTAT
74160 T
1 T
74161 ACTTATTATT
Statistics
Matches: 71, Mismatches: 0, Indels: 22
0.76 0.00 0.24
Matches are distributed among these distances:
6 23 0.32
7 10 0.14
8 22 0.31
9 13 0.18
10 2 0.03
11 1 0.01
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (8 bp):
TTATTTAT
Found at i:74096 original size:3 final size:3
Alignment explanation
Indices: 74088--74170 Score: 75
Period size: 3 Copynumber: 26.7 Consensus size: 3
74078 TTGTATTTAT
74088 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTTA CCTT- TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA --TTA TTA
74133 TTA TTA TTTA TT- TTA TTA TTTA TTTA TTA CTTA TTA TT
1 TTA TTA -TTA TTA TTA TTA -TTA -TTA TTA -TTA TTA TT
74171 TTTTTTCTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 16
0.81 0.01 0.18
Matches are distributed among these distances:
2 8 0.11
3 45 0.63
4 16 0.23
5 2 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:76255 original size:21 final size:21
Alignment explanation
Indices: 76229--76279 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
76219 GGATTTCAAT
76229 CTGATCCGGATCGGATAAAAA
1 CTGATCCGGATCGGATAAAAA
76250 CTGATCCGGATCGGATAAAAA
1 CTGATCCGGATCGGATAAAAA
*
76271 CCGATCCGG
1 CTGATCCGG
76280 TTTTTTCTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (21 bp):
CTGATCCGGATCGGATAAAAA
Found at i:76403 original size:17 final size:17
Alignment explanation
Indices: 76382--76452 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 17
76372 TTTCGGTTTG
76382 TAAAAAACCGGTTTTTA
1 TAAAAAACCGGTTTTTA
**
76399 -AAAAAAATGGATTTTTTCGGA
1 TAAAAAACCGG--TTTTT---A
*
76420 TAAAAAACCGGTTTTTT
1 TAAAAAACCGGTTTTTA
76437 TAAAAAACCGGTTTTT
1 TAAAAAACCGGTTTTT
76453 TATCCGGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
16 8 0.19
17 16 0.37
18 5 0.12
20 5 0.12
21 1 0.02
22 8 0.19
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (17 bp):
TAAAAAACCGGTTTTTA
Found at i:76454 original size:16 final size:17
Alignment explanation
Indices: 76420--76453 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
76410 TTTTTTCGGA
76420 TAAAAAACCGGTTTTTT
1 TAAAAAACCGGTTTTTT
76437 TAAAAAACCGGTTTTTT
1 TAAAAAACCGGTTTTTT
76454 ATCCGGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
TAAAAAACCGGTTTTTT
Found at i:76496 original size:24 final size:26
Alignment explanation
Indices: 76438--76499 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
76428 CGGTTTTTTT
*
76438 AAAAAACCGGTTTTTTATCCGGTTTGA
1 AAAAAACCGGTTTTTAATCCGG-TTGA
76465 AAAAAACCGGTTTTTAATCCGG-T-A
1 AAAAAACCGGTTTTTAATCCGGTTGA
76489 AAAAAACCGGT
1 AAAAAACCGGT
76500 CGTTCAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 12 0.35
25 1 0.03
27 21 0.62
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (26 bp):
AAAAAACCGGTTTTTAATCCGGTTGA
Found at i:95407 original size:14 final size:14
Alignment explanation
Indices: 95388--95416 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
95378 CATTGTGATT
95388 ATAATCATATGCTA
1 ATAATCATATGCTA
95402 ATAATCATATGCTA
1 ATAATCATATGCTA
95416 A
1 A
95417 GAAGAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
ATAATCATATGCTA
Found at i:96527 original size:31 final size:31
Alignment explanation
Indices: 96489--96550 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
96479 GTGTGTAAAG
96489 CATTAATGTTTTATTGATAATATTGTTATAA
1 CATTAATGTTTTATTGATAATATTGTTATAA
96520 CATTAATGTTTTATTGATAATATTGTTATAA
1 CATTAATGTTTTATTGATAATATTGTTATAA
96551 AAAATTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (31 bp):
CATTAATGTTTTATTGATAATATTGTTATAA
Found at i:97157 original size:2 final size:2
Alignment explanation
Indices: 97150--97181 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
97140 AAAATTCTTA
97150 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
97182 TCCTTAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102763 original size:20 final size:21
Alignment explanation
Indices: 102740--102784 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
102730 CATTATATGT
**
102740 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
102760 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
102781 ATAT
1 ATAT
102785 CACTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:103586 original size:3 final size:3
Alignment explanation
Indices: 103578--103683 Score: 160
Period size: 3 Copynumber: 35.7 Consensus size: 3
103568 TTAATATATT
*
103578 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
103625 TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
103673 TAA TAA TAA TA
1 TAA TAA TAA TA
103684 TGGATAAAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
2 2 0.02
3 92 0.98
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:104019 original size:119 final size:117
Alignment explanation
Indices: 103838--104475 Score: 1052
Period size: 119 Copynumber: 5.4 Consensus size: 117
103828 TTCTCCAGAT
* ** * * *
103838 GAGTTCTTCTCATTACGAACTTTCTGCTGGGGATG-ATGTTCCATCAAATGATGAATTCAAGCAA
1 GAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAA
*
103902 AAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
103955 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACT-TT-CTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCA
104020 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
64 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
104074 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACT-TT-CTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCA
104139 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
64 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* *
104193 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATG-ATGATCCATCAAATTGATGAATTCAAGC
1 GAGTTCTTCTCATTATGAACT-TT-CTCTGGAAAAGAATGATCCATC-AAGTGATGAATTCAAGC
104257 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
63 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* * *
104312 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGACCCATCAAGTGATGAATTTAAACAAA
1 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAA
*
104377 AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---
66 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
104426 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGTG
1 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGTG
104476 GATTTGAAAT
Statistics
Matches: 500, Mismatches: 16, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
114 49 0.10
117 95 0.19
118 29 0.06
119 327 0.65
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (117 bp):
GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAA
AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
Found at i:105190 original size:52 final size:52
Alignment explanation
Indices: 105112--106046 Score: 1725
Period size: 52 Copynumber: 18.0 Consensus size: 52
105102 CAATACTTGA
*
105112 TTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
*
105164 TTCTGTCCAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
*
105216 TTCTGTCCAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105268 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
* *
105320 TTCTGTTCAACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
* *
105372 TTCTGTCCAACTAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
*
105424 TCCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105476 TTCTGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105528 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105580 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105632 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105684 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105736 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105788 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105840 TTCTGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105892 TTCTGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
*
105944 TTCTGTCCAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
105996 TTCTGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 TTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
106047 AAGCACATTC
Statistics
Matches: 865, Mismatches: 13, Indels: 10
0.97 0.01 0.01
Matches are distributed among these distances:
51 2 0.00
52 860 0.99
53 3 0.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (52 bp):
TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
Found at i:107204 original size:7 final size:6
Alignment explanation
Indices: 107188--107272 Score: 72
Period size: 6 Copynumber: 14.5 Consensus size: 6
107178 ACCTTGACCC
* *
107188 TTTTCT TTTTCT ATTT-T TTTTCT TCTTC- TTTT-T TTTTC- TTTTCTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T
* *
107233 TTTTTT TCTTTCT TTTTCT TTTTC- TCTTCT TCTTTCT TTT
1 TTTTCT T-TTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTT
107273 CTTCAAGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
5 20 0.32
6 29 0.46
7 14 0.22
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:107206 original size:15 final size:13
Alignment explanation
Indices: 107188--107255 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 13
107178 ACCTTGACCC
*
107188 TTTTCTTTTTCTAT
1 TTTTTTTTTTCT-T
*
107202 TTTTTTTCTTCTT
1 TTTTTTTTTTCTT
*
107215 CTTTTTTTTTCTT
1 TTTTTTTTTTCTT
*
107228 TTCTTTTTTT-TT
1 TTTTTTTTTTCTT
* *
107240 CTTTCTTTTTCTT
1 TTTTTTTTTTCTT
107253 TTT
1 TTT
107256 CTCTTCTTCT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
12 9 0.21
13 24 0.56
14 10 0.23
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:107210 original size:17 final size:16
Alignment explanation
Indices: 107188--107272 Score: 93
Period size: 17 Copynumber: 5.1 Consensus size: 16
107178 ACCTTGACCC
107188 TTTTCTTTTTCTATTTT
1 TTTTCTTTTTCT-TTTT
*
107205 TTTTCTTCTTCTTTTT
1 TTTTCTTTTTCTTTTT
107221 TTTTC-TTTTCTTTTT
1 TTTTCTTTTTCTTTTT
107236 TTTTCTTTCTT-TTTCTT
1 TTTTCTTT-TTCTTT-TT
*
107253 TTTCTCTTCTTCTTTCTT
1 TTT-TCTTTTTCTTT-TT
107271 TT
1 TT
107273 CTTCAAGCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
15 14 0.23
16 14 0.23
17 20 0.33
18 12 0.20
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTT
Found at i:107218 original size:28 final size:27
Alignment explanation
Indices: 107187--107275 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 27
107177 CACCTTGACC
107187 CTTTTCTTTTTCTATTTTTTTTCTTCTT
1 CTTTTCTTTTTCT-TTTTTTTTCTTCTT
107215 CTTTT-TTTTTCTTTTCTTTTT-TT-TT
1 CTTTTCTTTTTCTTTT-TTTTTCTTCTT
*
107240 C-TTTCTTTTTCTTTTTCTCTTCTTCTTT
1 CTTTTCTTTTTCTTTTT-TTTTCTTC-TT
107268 CTTTTCTT
1 CTTTTCTT
107276 CAAGCATAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
24 4 0.08
25 16 0.30
26 7 0.13
27 12 0.23
28 8 0.15
29 6 0.11
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (27 bp):
CTTTTCTTTTTCTTTTTTTTTCTTCTT
Found at i:107260 original size:14 final size:14
Alignment explanation
Indices: 107188--107267 Score: 65
Period size: 14 Copynumber: 5.6 Consensus size: 14
107178 ACCTTGACCC
*
107188 TTTTCTTTTTCTAT
1 TTTTCTTTTTCTCT
107202 TTTT-TTTCTTCTTCT
1 TTTTCTTT-TTC-TCT
* *
107217 TTTTTTTTCTTTTCT
1 TTTTCTTT-TTCTCT
*
107232 TTTT-TTTTCTTTCT
1 TTTTCTTTT-TCTCT
107246 TTTTCTTTTTCTCT
1 TTTTCTTTTTCTCT
*
107260 TCTTCTTT
1 TTTTCTTT
107268 CTTTTCTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
13 4 0.07
14 30 0.53
15 17 0.30
16 6 0.11
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTTTTTCTCT
Found at i:117864 original size:13 final size:15
Alignment explanation
Indices: 117842--117878 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
117832 TTTGACAGAA
117842 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
117854 AAATAAAATACTTGC
1 AAATAAAATACTTGC
117869 AAATAAAATA
1 AAATAAAATA
117879 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:117917 original size:18 final size:17
Alignment explanation
Indices: 117869--117919 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
117859 AAATACTTGC
*
117869 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
117887 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
117905 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
117920 TTGAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:118642 original size:20 final size:21
Alignment explanation
Indices: 118619--118663 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
118609 CATTATATGT
**
118619 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
118639 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
118660 ATAT
1 ATAT
118664 CACTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:119597 original size:21 final size:21
Alignment explanation
Indices: 119549--119586 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
119539 ATTTTTTTTG
119549 TTTTGT-T-TCTGTCTCTTCT
1 TTTTGTCTCTCTGTCTCTTCT
119568 TTTTGTCTCTCTGTCTCTT
1 TTTTGTCTCTCTGTCTCTT
119587 TTCTTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.00, C:0.24, G:0.11, T:0.66
Consensus pattern (21 bp):
TTTTGTCTCTCTGTCTCTTCT
Found at i:119788 original size:21 final size:21
Alignment explanation
Indices: 119764--119805 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
119754 CCACCCACCT
119764 GAGA-AAAAGAAAAGAGACAGA
1 GAGACAAAA-AAAAGAGACAGA
*
119785 GAGACAAAAAGAAGAGACAGA
1 GAGACAAAAAAAAGAGACAGA
119806 AACAGAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.64, C:0.07, G:0.29, T:0.00
Consensus pattern (21 bp):
GAGACAAAAAAAAGAGACAGA
Found at i:119814 original size:21 final size:22
Alignment explanation
Indices: 119765--119814 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
119755 CACCCACCTG
* *
119765 AGAAAAAGAAAAGAGACAGAGAG
1 AGAAAAAG-AAAGAGACAGAAAC
*
119788 ACAAAAAG-AAGAGACAGAAAC
1 AGAAAAAGAAAGAGACAGAAAC
119809 AGAAAA
1 AGAAAA
119815 CAAAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.70
23 7 0.30
ACGTcount: A:0.68, C:0.08, G:0.24, T:0.00
Consensus pattern (22 bp):
AGAAAAAGAAAGAGACAGAAAC
Found at i:120772 original size:20 final size:21
Alignment explanation
Indices: 120731--120775 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
120721 TGTTTTAGTG
**
120731 ATATTTTTATTATATTGTTAA
1 ATATTTTTATTATATTCATAA
120752 ATATTTTTA-TATATTCATAA
1 ATATTTTTATTATATTCATAA
120772 ATAT
1 ATAT
120776 ACATATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATATTTTTATTATATTCATAA
Found at i:122391 original size:20 final size:20
Alignment explanation
Indices: 122368--122413 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
122358 AATTTGTAAA
122368 TCGCAACAC-AAAAGTCAAAT
1 TCGCAACACGAAAA-TCAAAT
* *
122388 TCGCAACGCGATAATCAAAT
1 TCGCAACACGAAAATCAAAT
122408 TCGCAA
1 TCGCAA
122414 TGCGAAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.43, C:0.26, G:0.13, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATCAAAT
Found at i:122970 original size:28 final size:28
Alignment explanation
Indices: 122938--122998 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
122928 CACAAAAATG
*
122938 AAAATCGCAACACCAAAATCACAACGCA
1 AAAATCGCAACACAAAAATCACAACGCA
**
122966 AAAATCGCAATGCAAAAATCACAACGCA
1 AAAATCGCAACACAAAAATCACAACGCA
122994 AAAAT
1 AAAAT
122999 GAAAATCGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.56, C:0.26, G:0.08, T:0.10
Consensus pattern (28 bp):
AAAATCGCAACACAAAAATCACAACGCA
Found at i:122982 original size:13 final size:14
Alignment explanation
Indices: 122938--122998 Score: 77
Period size: 14 Copynumber: 4.4 Consensus size: 14
122928 CACAAAAATG
* * *
122938 AAAATCGCAACACC
1 AAAATCACAACGCA
122952 AAAATCACAACGCA
1 AAAATCACAACGCA
* *
122966 AAAATCGCAATGCA
1 AAAATCACAACGCA
122980 AAAATCACAACGCA
1 AAAATCACAACGCA
122994 AAAAT
1 AAAAT
122999 GAAAATCGCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.56, C:0.26, G:0.08, T:0.10
Consensus pattern (14 bp):
AAAATCACAACGCA
Found at i:123008 original size:15 final size:14
Alignment explanation
Indices: 122952--123009 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
122942 TCGCAACACC
*
122952 AAAATCACAACGCA
1 AAAATCAAAACGCA
** *
122966 AAAATCGCAATGCA
1 AAAATCAAAACGCA
*
122980 AAAATCACAACGCA
1 AAAATCAAAACGCA
*
122994 AAAATGAAAATCGCA
1 AAAATCAAAA-CGCA
123009 A
1 A
123010 CGCGATTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 32 0.86
15 5 0.14
ACGTcount: A:0.57, C:0.22, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAATCAAAACGCA
Found at i:124987 original size:4 final size:4
Alignment explanation
Indices: 124978--125019 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
124968 TTTTTCGGCA
* * *
124978 TTAT TTAT TTAT TTAT TTAT TGAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
125020 TCAACGGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:125191 original size:21 final size:21
Alignment explanation
Indices: 125165--125243 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
125155 TACACCTATC
*
125165 ATCATTCAAGAGGCGCCTCCT
1 ATCATTCAAGAGGCCCCTCCT
125186 ATCATTCAAGAGGCCCCT-CT
1 ATCATTCAAGAGGCCCCTCCT
* *
125206 CATCA-TCAAAGAAGCCCCTCCC
1 -ATCATTC-AAGAGGCCCCTCCT
*
125228 A-CTGTTCAAGAGGCCC
1 ATC-ATTCAAGAGGCCC
125244 ATGTCATTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
20 5 0.10
21 40 0.83
22 3 0.06
ACGTcount: A:0.27, C:0.37, G:0.16, T:0.20
Consensus pattern (21 bp):
ATCATTCAAGAGGCCCCTCCT
Found at i:125226 original size:42 final size:42
Alignment explanation
Indices: 125163--125243 Score: 94
Period size: 42 Copynumber: 1.9 Consensus size: 42
125153 GATACACCTA
* * *
125163 TCATCATTCAAGAGGCGCCTCCTA-TCATTCAAGAGGCCCCTC
1 TCATCATTCAAGAAGCCCCTCCCACT-ATTCAAGAGGCCCCTC
*
125205 TCATCA-TCAAAGAAGCCCCTCCCACTGTTCAAGAGGCCC
1 TCATCATTC-AAGAAGCCCCTCCCACTATTCAAGAGGCCC
125244 ATGTCATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.06
42 30 0.91
43 1 0.03
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (42 bp):
TCATCATTCAAGAAGCCCCTCCCACTATTCAAGAGGCCCCTC
Found at i:126767 original size:66 final size:65
Alignment explanation
Indices: 126608--126782 Score: 239
Period size: 66 Copynumber: 2.6 Consensus size: 65
126598 TGGGGTACAC
126608 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTT-TTTAATTGATGAGGAAATAA
1 TTTTTTTGCTTGTTTAATTG-ATTTGT--A---AAAGTTGATTTGTTTAATTGATGAGGAAATAA
126671 GAATTA
60 GAATTA
* * *
126677 -TTTTTTGCTTGTTTAATTCATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATT
126741 A
65 A
126742 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
126783 GTTTTAAATT
Statistics
Matches: 98, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
63 11 0.11
64 5 0.05
65 19 0.19
66 40 0.41
67 4 0.04
68 19 0.19
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (65 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
Found at i:128255 original size:18 final size:18
Alignment explanation
Indices: 128232--128268 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
128222 CGAAATTTAT
128232 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
128250 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
128268 A
1 A
128269 CTCCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:129134 original size:18 final size:18
Alignment explanation
Indices: 129111--129151 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
129101 AGGTGAAGCC
129111 GATTTTGATTGAGATTTT
1 GATTTTGATTGAGATTTT
*
129129 GATTTTGATTGCGATTTT
1 GATTTTGATTGAGATTTT
129147 GATTT
1 GATTT
129152 CCTTTTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.56
Consensus pattern (18 bp):
GATTTTGATTGAGATTTT
Found at i:136510 original size:21 final size:21
Alignment explanation
Indices: 136484--136523 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
136474 CCCCCTTTGA
*
136484 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
136505 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
136524 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:140452 original size:24 final size:24
Alignment explanation
Indices: 140429--140547 Score: 136
Period size: 24 Copynumber: 5.0 Consensus size: 24
140419 AACATAAAAT
*
140429 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
140453 CAGGTCAAGTAAT-AGATCAGAATC
1 CAGGTCAAGT-ATCAGATCAGAATC
*
140477 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
140501 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
* * *
140525 CATGTCAAGTATCATATTAGAAT
1 CAGGTCAAGTATCAGATCAGAAT
140548 TCAAATCGAA
Statistics
Matches: 85, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
23 7 0.08
24 74 0.87
25 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:140563 original size:48 final size:47
Alignment explanation
Indices: 140432--140565 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 47
140422 ATAAAATCAG
* *
140432 GTCAAGTATCATATCAGAAATCAGGTCAAGTAAT-AGATCAGAATCCAA
1 GTCAAGTATCATATCAGAATTCAAGTCAA--AATCAGATCAGAATCCAA
* * * * *
140480 GTCAAGTATCAGATCAGAATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATTCAAGTCA-AAATCAGATCAGAATCCAA
* *
140528 GTCAAGTATCATATTAGAATTCAAATCGAAAATCAGAT
1 GTCAAGTATCATATCAGAATTCAAGTC-AAAATCAGAT
140566 AAAATATTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.03
48 67 0.94
49 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (47 bp):
GTCAAGTATCATATCAGAATTCAAGTCAAAATCAGATCAGAATCCAA
Found at i:145114 original size:24 final size:24
Alignment explanation
Indices: 145077--145130 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
145067 CCATCACATC
145077 ATCAAAATCCGAGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* * *
145101 ATCAAAGTCTGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
145125 ATCAAA
1 ATCAAA
145131 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:145144 original size:24 final size:24
Alignment explanation
Indices: 145095--145144 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
145085 CCGAGTATTA
* *
145095 ACCAAGATCAAAGTCTGAGTATTG
1 ACCAAGATCAAAGTCTGAATACTG
*
145119 ACCAAGATCAAA-TTTCGAATACTG
1 ACCAAGATCAAAGTCT-GAATACTG
145143 AC
1 AC
145145 TAGTACTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (24 bp):
ACCAAGATCAAAGTCTGAATACTG
Found at i:145277 original size:12 final size:12
Alignment explanation
Indices: 145256--145289 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
145246 GGTTGTGGGT
*
145256 TTTGAGATTGTG
1 TTTGATATTGTG
145268 TTTGATATTGTG
1 TTTGATATTGTG
145280 TTTGATATTG
1 TTTGATATTG
145290 GAAATGTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:145878 original size:14 final size:15
Alignment explanation
Indices: 145842--145879 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
145832 GAAATCATTG
145842 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
145857 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
145872 AAAAATTA
1 AAAAATTA
145880 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:146114 original size:40 final size:40
Alignment explanation
Indices: 146070--146160 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
146060 TTTGAAATTC
*
146070 CGCGTTGCGAATTTGACTTTTATGTTGCAAATTTGAC-TA-T
1 CGCGTTGCGAATTTGACTTCTATGTTGC-AATTT-ACATATT
* *
146110 CGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACATATT
1 CGCGTTGCGAATTTGACTTCTATGTTGCAATTTACATATT
146150 CGCGTTGCGAA
1 CGCGTTGCGAA
146161 ATTGGAAACT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 2 0.04
39 6 0.13
40 38 0.83
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.40
Consensus pattern (40 bp):
CGCGTTGCGAATTTGACTTCTATGTTGCAATTTACATATT
Found at i:146116 original size:20 final size:20
Alignment explanation
Indices: 146052--146160 Score: 82
Period size: 20 Copynumber: 5.4 Consensus size: 20
146042 TTAAATTAGT
*
146052 GTTGCGAATTTGA-AATTCCGC
1 GTTGCGAATTTGACTA-T-CGC
* ***
146073 GTTGCGAATTTGACTTTTAT
1 GTTGCGAATTTGACTATCGC
*
146093 GTTGCAAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
*
146113 GTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTATC-GC
146133 GTTGCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGAC-TA-TCGC
146153 GTTGCGAA
1 GTTGCGAA
146161 ATTGGAAACT
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
18 2 0.03
19 7 0.10
20 43 0.62
21 17 0.25
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGC
Found at i:147146 original size:18 final size:17
Alignment explanation
Indices: 147096--147146 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
147086 AGGATATATT
147096 TAAATG-ATTAAAAAATG
1 TAAATGCATT-AAAAATG
* *
147113 TAAAATACGTTAAAAATG
1 T-AAATGCATTAAAAATG
147131 TAAATGCATTATAAAA
1 TAAATGCATTA-AAAA
147147 GTTAACAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 9 0.33
18 16 0.59
19 2 0.07
ACGTcount: A:0.57, C:0.04, G:0.10, T:0.29
Consensus pattern (17 bp):
TAAATGCATTAAAAATG
Found at i:155453 original size:22 final size:22
Alignment explanation
Indices: 155425--155470 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
155415 TTAGCTTGTC
*
155425 TATGAATGTAATCAATCAACAT
1 TATGAATATAATCAATCAACAT
155447 TATGAATATAATCAATCAACAT
1 TATGAATATAATCAATCAACAT
155469 TA
1 TA
155471 GTAGAGATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (22 bp):
TATGAATATAATCAATCAACAT
Found at i:155679 original size:20 final size:20
Alignment explanation
Indices: 155654--155698 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
155644 GTCATCCAAT
* *
155654 TTTTTAAACCTCATACCGGA
1 TTTTTAAACCCCAGACCGGA
155674 TTTTTAAACCCCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
155694 TTTTT
1 TTTTT
155699 TTCCGGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCGGA
Found at i:156830 original size:19 final size:19
Alignment explanation
Indices: 156806--156861 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
156796 ATGACCAACA
*
156806 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
156825 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
156844 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
156862 CAGTATCGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.21
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:156938 original size:20 final size:20
Alignment explanation
Indices: 156887--156930 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
156877 GTTTTCAGAT
156887 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
156907 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
156927 TCGC
1 TCGC
156931 GTTGCGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:157550 original size:17 final size:16
Alignment explanation
Indices: 157528--157564 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
157518 TATTTTTCAG
157528 ATTTGTATTTTACTTTT
1 ATTTGTATTTTA-TTTT
157545 ATTTGTATTTTATTTT
1 ATTTGTATTTTATTTT
157561 ATTT
1 ATTT
157565 TTCGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (16 bp):
ATTTGTATTTTATTTT
Found at i:158825 original size:11 final size:13
Alignment explanation
Indices: 158788--158827 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
158778 TGTTTAATAA
158788 AATATA-TATATT
1 AATATATTATATT
*
158800 AATATATTATCTT
1 AATATATTATATT
158813 AA-A-ATTATATT
1 AATATATTATATT
158824 AATA
1 AATA
158828 AACTTAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATATTATATT
Found at i:159607 original size:20 final size:20
Alignment explanation
Indices: 159582--159630 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
159572 GCGATTATCT
159582 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
159602 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
159622 TGTTGCGAT
1 CGTTGCGAT
159631 TTTCATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:159636 original size:20 final size:20
Alignment explanation
Indices: 159598--159653 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
159588 GATAGTCAAA
* **
159598 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
159618 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
159638 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
159654 AAGTTTAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:161218 original size:20 final size:20
Alignment explanation
Indices: 161191--161273 Score: 87
Period size: 20 Copynumber: 4.1 Consensus size: 20
161181 TTATGGCAAC
161191 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
* *
161211 GAGATAGTCAGAATTGCGTT
1 GCGATAGTCAGAATCGCGTT
** *
161231 GCGATTATGT-ATTATCGTGTT
1 GCGA-TA-GTCAGAATCGCGTT
*
161252 GCGATAGTCAAAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
161272 GC
1 GC
161274 AAATATGGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.04
20 33 0.66
21 13 0.26
22 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:162443 original size:23 final size:24
Alignment explanation
Indices: 162385--162492 Score: 78
Period size: 24 Copynumber: 4.6 Consensus size: 24
162375 CTGCTCATAT
* * *
162385 AATTTGTACCGAAGTATCGTGTAG
1 AATTTGTCCCGAAGTACCATGTAG
*
162409 AATTTG-CACCGAAGTGCCATGTAG
1 AATTTGTC-CCGAAGTACCATGTAG
* ** *
162433 -ATTTGTCCCGAAGGACCACATAT
1 AATTTGTCCCGAAGTACCATGTAG
* * * *
162456 AATTTTTCCCAAAGGACCACGTAG
1 AATTTGTCCCGAAGTACCATGTAG
162480 AA-TTGTCCCGAAG
1 AATTTGTCCCGAAG
162493 GACCGCGTAG
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
23 25 0.38
24 41 0.62
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (24 bp):
AATTTGTCCCGAAGTACCATGTAG
Found at i:162465 original size:24 final size:24
Alignment explanation
Indices: 162433--162496 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
162423 TGCCATGTAG
*
162433 ATTTGTCCCGAAGGACCACATATA
1 ATTTGTCCCGAAGGACCACATAGA
* * *
162457 ATTTTTCCCAAAGGACCACGTAGA
1 ATTTGTCCCGAAGGACCACATAGA
162481 A-TTGTCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
162497 GCGTAGAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 13 0.38
24 21 0.62
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (24 bp):
ATTTGTCCCGAAGGACCACATAGA
Found at i:162493 original size:23 final size:23
Alignment explanation
Indices: 162429--162504 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
162419 GAAGTGCCAT
*
162429 GTAGATTTGTCCCGAAGGACCAC
1 GTAGAATTGTCCCGAAGGACCAC
* * * *
162452 ATATAATTTTTCCCAAAGGACCAC
1 GTAGAA-TTGTCCCGAAGGACCAC
*
162476 GTAGAATTGTCCCGAAGGACCGC
1 GTAGAATTGTCCCGAAGGACCAC
162499 GTAGAA
1 GTAGAA
162505 CCCTCGACTC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
23 23 0.55
24 19 0.45
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (23 bp):
GTAGAATTGTCCCGAAGGACCAC
Found at i:164072 original size:15 final size:15
Alignment explanation
Indices: 164046--164093 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
164036 TTCAAACATA
*
164046 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
164062 CGAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
164079 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
164094 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.04, T:0.12
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:166116 original size:20 final size:20
Alignment explanation
Indices: 166093--166130 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
166083 TTCCCCTGTG
*
166093 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
166113 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
166131 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:169976 original size:20 final size:20
Alignment explanation
Indices: 169934--169976 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
169924 TTATTTTCAT
* *
169934 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAAAATAA
169954 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
169974 TTT
1 TTT
169977 CTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:172476 original size:64 final size:64
Alignment explanation
Indices: 172359--172478 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 64
172349 TAGAATATTG
* * * **
172359 TCACATAGCATTATCAAATTTTATTATTTATTCACATTTAAACAATTTCTCATAGTATTTTGTT
1 TCACATAGCATTATCAAATTTTATCATTTAATCACATATAAACAACATCTCATAGTATTTTGTT
172423 TCACATAGCATTATTCAATATTTT-TCATTTAATCACATAT-AACATACAT-TCATAGT
1 TCACATAGCATTA-TCAA-ATTTTATCATTTAATCACATATAAACA-ACATCTCATAGT
172479 GATTCACATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
64 24 0.50
65 19 0.40
66 5 0.10
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.45
Consensus pattern (64 bp):
TCACATAGCATTATCAAATTTTATCATTTAATCACATATAAACAACATCTCATAGTATTTTGTT
Found at i:173136 original size:23 final size:23
Alignment explanation
Indices: 173110--173154 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
173100 GAATTCATCT
173110 ATTTCATTTCGAAAATTTACCTA
1 ATTTCATTTCGAAAATTTACCTA
173133 ATTTCATTTCGAAAATTTACCT
1 ATTTCATTTCGAAAATTTACCT
173155 CACTTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTTCATTTCGAAAATTTACCTA
Found at i:173161 original size:23 final size:23
Alignment explanation
Indices: 173112--173161 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
173102 ATTCATCTAT
*
173112 TTCATTTCGAAAATTTACCTAAT
1 TTCATTTCGAAAATTTACCTAAC
*
173135 TTCATTTCGAAAATTTACCTCAC
1 TTCATTTCGAAAATTTACCTAAC
173158 TTCA
1 TTCA
173162 CTTAAATCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (23 bp):
TTCATTTCGAAAATTTACCTAAC
Found at i:183814 original size:72 final size:72
Alignment explanation
Indices: 183693--183847 Score: 204
Period size: 72 Copynumber: 2.2 Consensus size: 72
183683 AACTCCTTCC
* * * * *
183693 AATTGATTTTGCCCAATATTTACATCTTCTAAATTTTTCAACTACCCAAAACTTGGAGGAAGAGT
1 AATTGATTTTGCCCAATATATACAACTTCTAAATTTTCCAACTACCCAAAACTTAGAGGAAAAGT
183758 ACCATTT
66 ACCATTT
* * ** *
183765 AATTGATTTT-CCCAAATATATAGAACTTCTAAATTTTCCAATTTTCCAAAATTTAGAGGAAAAG
1 AATTGATTTTGCCC-AATATATACAACTTCTAAATTTTCCAACTACCCAAAACTTAGAGGAAAAG
183829 TACCATTT
65 TACCATTT
183837 AATTGATTTTG
1 AATTGATTTTG
183848 GGAAACATCA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
71 3 0.04
72 68 0.96
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (72 bp):
AATTGATTTTGCCCAATATATACAACTTCTAAATTTTCCAACTACCCAAAACTTAGAGGAAAAGT
ACCATTT
Found at i:185826 original size:13 final size:13
Alignment explanation
Indices: 185808--185832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185798 TAATAATCTA
185808 AAATTAAAATTAT
1 AAATTAAAATTAT
185821 AAATTAAAATTA
1 AAATTAAAATTA
185833 CGAATTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTAAAATTAT
Found at i:185856 original size:20 final size:20
Alignment explanation
Indices: 185833--185876 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
185823 ATTAAAATTA
185833 CGAATTT-GAAAACTGAGTTG
1 CGAATTTAG-AAACTGAGTTG
*
185853 CGAATTTAGAAACTGTGTTG
1 CGAATTTAGAAACTGAGTTG
185873 CGAA
1 CGAA
185877 ATTGGAGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (20 bp):
CGAATTTAGAAACTGAGTTG
Done.