Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000999.1 Hibiscus syriacus cultivar Beakdansim tig00001999_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: 59672
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Found at i:402 original size:82 final size:82
Alignment explanation
Indices: 249--421 Score: 233
Period size: 82 Copynumber: 2.1 Consensus size: 82
239 GATTTAAGAT
* * *
249 TTAGAGTTTAGGGTTTATGGTTTGAAGTTATGTGATAGGATTTAAGGTTTATAGTTTGGGTTTAG
1 TTAGAGTTTAGAGTTTAAGATTTGAAGTTATGTGATAGGATTTAAGGTTTATAGTTTGGGTTTAG
* *
314 TGTTTATATATTAGGGG
66 GGTTTATATATTAGAGG
* * *
331 TTAGAGTTTAGAGTTTAAGATTT-AAGGTTTATGTGATATGATTTAAGGTTTTTAGTTT-TGTTT
1 TTAGAGTTTAGAGTTTAAGATTTGAA-G-TTATGTGATAGGATTTAAGGTTTATAGTTTGGGTTT
*
394 AGGGTTTATATATTAGAGT
64 AGGGTTTATATATTAGAGG
413 TTAGAGTTT
1 TTAGAGTTT
422 TTGTGTATGA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
81 2 0.03
82 50 0.62
83 28 0.35
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.49
Consensus pattern (82 bp):
TTAGAGTTTAGAGTTTAAGATTTGAAGTTATGTGATAGGATTTAAGGTTTATAGTTTGGGTTTAG
GGTTTATATATTAGAGG
Found at i:4181 original size:17 final size:17
Alignment explanation
Indices: 4159--4212 Score: 99
Period size: 17 Copynumber: 3.2 Consensus size: 17
4149 TTTGTAGGTT
*
4159 GAGTTCGAGCTTAAATC
1 GAGTTCGAGCTTGAATC
4176 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
4193 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
4210 GAG
1 GAG
4213 CTCAATTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:4231 original size:34 final size:35
Alignment explanation
Indices: 4193--4285 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 35
4183 AGCTTGAATC
* * *
4193 GAGTTCGAGCTTGAATCGAGCTC-AATTCAAGTTT
1 GAGTTCGAGCTTGAATCGAGCTCAAAATCAAGCTA
* * *
4227 GAGTTCGAGCTTGACTCGAGTTCAAAATCGAGCTA
1 GAGTTCGAGCTTGAATCGAGCTCAAAATCAAGCTA
*
4262 GAGTCTCGAGCTTCAATCGAGCTC
1 GAGT-TCGAGCTTGAATCGAGCTC
4286 TTGAATTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
34 21 0.44
35 11 0.23
36 16 0.33
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (35 bp):
GAGTTCGAGCTTGAATCGAGCTCAAAATCAAGCTA
Found at i:12442 original size:1 final size:1
Alignment explanation
Indices: 12436--12497 Score: 61
Period size: 1 Copynumber: 62.0 Consensus size: 1
12426 GAAAACAATG
* * * * * * *
12436 AAAAAAATAAAAAACAAAAAAACAAAAAAAACAAAAAAGAACAAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12498 GGAGGGTTCA
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.89, C:0.06, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:12454 original size:15 final size:14
Alignment explanation
Indices: 12436--12497 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 14
12426 GAAAACAATG
*
12436 AAAAAAATAAAAAA
1 AAAAAAAGAAAAAA
*
12450 CAAAAAAACAAAAAAA
1 -AAAAAAA-GAAAAAA
12466 ACAAAAAAGAACAAAA
1 A-AAAAAAGAA-AAAA
12482 AAAAAAAGAAAAAA
1 AAAAAAAGAAAAAA
12496 AA
1 AA
12498 GGAGGGTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.14
15 19 0.45
16 17 0.40
ACGTcount: A:0.89, C:0.06, G:0.03, T:0.02
Consensus pattern (14 bp):
AAAAAAAGAAAAAA
Found at i:12466 original size:27 final size:26
Alignment explanation
Indices: 12427--12497 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
12417 CTTGAAGATG
* *
12427 AAAACAATGAAAAAAATAAAAAACAAA
1 AAAACAA-AAAAAAAAAAAAAAACAAA
*
12454 AAAACAAAAAAAACAAAAAAGAACAAA
1 AAAACAAAAAAAA-AAAAAAAAACAAA
*
12481 AAAA-AAAAGAAAAAAAA
1 AAAACAAAAAAAAAAAAA
12498 GGAGGGTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 5 0.13
26 12 0.31
27 22 0.56
ACGTcount: A:0.86, C:0.07, G:0.04, T:0.03
Consensus pattern (26 bp):
AAAACAAAAAAAAAAAAAAAAACAAA
Found at i:13847 original size:51 final size:51
Alignment explanation
Indices: 13785--14345 Score: 582
Period size: 51 Copynumber: 10.8 Consensus size: 51
13775 TGAAGAGGAA
* *
13785 GAAGATATTCGAGTTCTATACTTTCTGAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
* *
13836 GAAGATGTTCGAGTTCCATA-TTCCCT-AGAGAAAGAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCTATACTT-CCTGA-AGAAAGAGGGAGCGAACCCGTTT
* * * *
13887 GAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACACGTTT
1 GAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
* *
13938 GAAGAAGATGTCCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAACCCGTTT
1 ---GAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
* * * *
13992 GAAGAAGATGTCTGAGTTCCATACTCCCT-AGAGAAAGAGGAAGCGAACCCGTTT
1 GAAGATG-T-TC-GAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTT
* * *
14046 GAAGATGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGT
1 GAAGATGTTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTT
* * * *
14097 GAAGTTATTGGAGTTCTATACTTCTTGAAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
*
14148 GAAGAAGATGTCCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
1 ---GAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
* ** * * * * *
14202 AAAGAT-TTAAAAGTTCCATACTCCCT-AGAGAAAGAAGGAGTGAGCCCGTTT
1 GAAGATGTT-CGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTT
* * *
14253 GAAGATTTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTT
1 GAAGATGTTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTT
*
14304 GAAGAATGTTCGAG-TCTTATAC-TCTCTGAAGAAATAGGGAGC
1 GAAG-ATGTTCGAGTTC-TATACTTC-CTGAAGAAAGAGGGAGC
14346 AGACATGATT
Statistics
Matches: 432, Mismatches: 56, Indels: 43
0.81 0.11 0.08
Matches are distributed among these distances:
50 5 0.01
51 256 0.59
52 35 0.08
53 4 0.01
54 132 0.31
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (51 bp):
GAAGATGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
Found at i:14149 original size:210 final size:206
Alignment explanation
Indices: 13813--14307 Score: 828
Period size: 210 Copynumber: 2.4 Consensus size: 206
13803 TACTTTCTGA
*
13813 AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATATTCCCTAGAGAAAGAGGGAGCG
1 AGAAAGA-GGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCG
13878 AACCCGTGTGAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACACGTTTGAAGA
65 AACCCGTGTGAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACACGTTTGAAGA
***
13943 AGATGTCCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATGTCTGAG
130 AGATGTCCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAACCCGTTT--A-AAGATGTAAAAG
14008 TTCCATACTCCCTAG
192 TTCCATACTCCCTAG
14023 AGAAAGAGGAAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCG
1 AGAAAGAGG-AGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCG
* *
14088 AACCCGTGTGAAGTTATTGGAGTTCTATACTTCTTGAAGAAAGAGGGAGCGAACCCGTTTGAAGA
65 AACCCGTGTGAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACACGTTTGAAGA
* *
14153 AGATGTCCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTAAAGATTTAAAAGTTC
130 AGATGTCCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAACCCGTTTAAAGATGTAAAAGTTC
14218 CATACTCCCTAG
195 CATACTCCCTAG
* * *
14230 AGAAAGAAGGAGTGAGCCCGTTTGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCG
1 AGAAAG-AGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCG
*
14295 AACCCGTTTGAAG
65 AACCCGTGTGAAG
14308 AATGTTCGAG
Statistics
Matches: 271, Mismatches: 12, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
207 93 0.34
208 4 0.01
209 2 0.01
210 172 0.63
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (206 bp):
AGAAAGAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGA
ACCCGTGTGAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACACGTTTGAAGAA
GATGTCCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAACCCGTTTAAAGATGTAAAAGTTCC
ATACTCCCTAG
Found at i:14186 original size:156 final size:156
Alignment explanation
Indices: 13785--14309 Score: 656
Period size: 156 Copynumber: 3.4 Consensus size: 156
13775 TGAAGAGGAA
* *
13785 GAAG-ATATTCGAGTTCTATACTTTCTGAAGAAAGAGGGAGCGAACCCGTTT---GAAGATGTTC
1 GAAGAATATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
* * * * *
13846 GAGTTCCATA-TTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGTTATTGGAGTTCTATACTT
66 GAGTTCCATACTT-CCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAT-TTAGAGTTCCATACTC
*
13910 CCT-GAAGAAAGAGGGAGCGAACACGTTT
129 CCTAG-AGAAAGAGGGAGCGAACCCGTTT
* *
13938 GAAGAAGATGTCCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATGT
1 GAAGAATAT-T-CGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
* * * *
14003 CTGAGTTCCATACTCCCTAGAGAAAGAGGAAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACT
64 CCGAGTTCCATACTTCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAT-TTAGAGTTCCATACT
*
14068 CCCTAGAGAAAGAGGGAGCGAACCCGTGT
128 CCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * *
14097 GAAG-TTATTGGAGTTCTATACTTCTTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
1 GAAGAATATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
* * *
14161 GAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTAAAGATTTAAAAGTTCCATACTC
66 GAGTTCCATACTTCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGATTT-AGAGTTCCATACTC
* * *
14225 CCTAGAGAAAGAAGGAGTGAGCCCGTTT
129 CCTAGAGAAAGAGGGAGCGAACCCGTTT
* * *
14253 GAAG-ATTTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAGAA
1 GAAGAATATTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAA
14310 TGTTCGAGTC
Statistics
Matches: 324, Mismatches: 37, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
153 4 0.01
154 3 0.01
155 5 0.02
156 217 0.67
157 1 0.00
158 2 0.01
159 90 0.28
160 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (156 bp):
GAAGAATATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
GAGTTCCATACTTCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATTTAGAGTTCCATACTCCC
TAGAGAAAGAGGGAGCGAACCCGTTT
Found at i:14375 original size:55 final size:55
Alignment explanation
Indices: 14302--14416 Score: 185
Period size: 55 Copynumber: 2.1 Consensus size: 55
14292 GCGAACCCGT
* * *
14302 TTGAAGAATGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACATGATTG
1 TTGAAGAATGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACATGATGG
* *
14357 TTGAAGACTGTTCGAGTCTCATACTCTCTGAAGGAATAGAGAGCAGACATGATGG
1 TTGAAGAATGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACATGATGG
14412 TTGAA
1 TTGAA
14417 AATTCTTCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (55 bp):
TTGAAGAATGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACATGATGG
Found at i:14434 original size:55 final size:55
Alignment explanation
Indices: 14316--14436 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 55
14306 AGAATGTTCG
* * * * * *
14316 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACATGATTGTTGAAGACTGTTCG
1 AGTCTCATACTCTCTGAAGAAATAGAGAGCAGACATGATGGTTGAAAACTCTTCA
* *
14371 AGTCTCATACTCTCTGAAGGAATAGAGAGCAGACATGATGGTTGAAAATTCTTCA
1 AGTCTCATACTCTCTGAAGAAATAGAGAGCAGACATGATGGTTGAAAACTCTTCA
*
14426 AGTTTCATACT
1 AGTCTCATACT
14437 TCCTAAAGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (55 bp):
AGTCTCATACTCTCTGAAGAAATAGAGAGCAGACATGATGGTTGAAAACTCTTCA
Found at i:14700 original size:2 final size:2
Alignment explanation
Indices: 14693--14746 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
14683 AATTATTAAC
14693 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14735 AT AT AT AT AT AT
1 AT AT AT AT AT AT
14747 GCATTAAGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15412 original size:13 final size:13
Alignment explanation
Indices: 15394--15419 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15384 TACCCATCAT
15394 CAACAAAAAAAGA
1 CAACAAAAAAAGA
15407 CAACAAAAAAAGA
1 CAACAAAAAAAGA
15420 ACCGAGAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (13 bp):
CAACAAAAAAAGA
Found at i:17603 original size:32 final size:32
Alignment explanation
Indices: 17567--17631 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
17557 ATAAAAAATT
*
17567 TAATTCGAGTTTGATTCAATATTTAATGACTA
1 TAATTCGAGTTCGATTCAATATTTAATGACTA
17599 TAATTCGAGTTCGATTCAATATTTAATGACTA
1 TAATTCGAGTTCGATTCAATATTTAATGACTA
17631 T
1 T
17632 CAAACATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (32 bp):
TAATTCGAGTTCGATTCAATATTTAATGACTA
Found at i:18380 original size:32 final size:33
Alignment explanation
Indices: 18344--18419 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
18334 ACAATCATGG
* *
18344 GGACAATCAGGAGAAGGT-ATGGGTATGGTGTT
1 GGACAATCAGGAGAAAGTCATGGGTATGGTATT
*
18376 GGACAATCAGGAGAAAGTCTTGGGTATGGTATT
1 GGACAATCAGGAGAAAGTCATGGGTATGGTATT
18409 GGACAATCAGG
1 GGACAATCAGG
18420 GGGACAGTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 17 0.43
33 23 0.57
ACGTcount: A:0.30, C:0.09, G:0.37, T:0.24
Consensus pattern (33 bp):
GGACAATCAGGAGAAAGTCATGGGTATGGTATT
Found at i:18431 original size:45 final size:45
Alignment explanation
Indices: 18376--18702 Score: 258
Period size: 45 Copynumber: 7.3 Consensus size: 45
18366 GTATGGTGTT
* *
18376 GGACAATCAGGAGAAAGTCTTGGGTATGGTATTGGACAATCAGGG
1 GGACAATCAGGAGAAAGTCTTGGGTACGGCATTGGACAATCAGGG
* * *
18421 GGACAGTCAGGAGAAAGTATCGGGTACGGCATTGG-CGAATCAGGG
1 GGACAATCAGGAGAAAGTCTTGGGTACGGCATTGGAC-AATCAGGG
* * ** * * *
18466 GGACAATCAGGA-AATA-ACATTGGATACAACATTGGGCAATCAAGA
1 GGACAATCAGGAGAA-AGTC-TTGGGTACGGCATTGGACAATCAGGG
* * ** * * *
18511 GGACAATCAGGA-AATA-ACATTGGATACAACATTGGGCAATCAAGT
1 GGACAATCAGGAGAA-AGTC-TTGGGTACGGCATTGGACAATCAGGG
*
18556 GGACAATCAGGAGAAAGTCTTGGGTATGGCATTGGACAATCAGGAG
1 GGACAATCAGGAGAAAGTCTTGGGTACGGCATTGGACAATCAGG-G
* * * * *
18602 GG-CAGTCAGAAGAAAGTATTGGGTACGACATTGGGCAATCAGGG
1 GGACAATCAGGAGAAAGTCTTGGGTACGGCATTGGACAATCAGGG
* *
18646 GGACAGA-CAAGA-AATAG-CATTGGGTACGGCATCGGACAATCAGGG
1 GGACA-ATCAGGAGAA-AGTC-TTGGGTACGGCATTGGACAATCAGGG
*
18691 GGTCAATCAGGA
1 GGACAATCAGGA
18703 AACAATGTTT
Statistics
Matches: 232, Mismatches: 38, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
44 9 0.04
45 217 0.94
46 6 0.03
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.18
Consensus pattern (45 bp):
GGACAATCAGGAGAAAGTCTTGGGTACGGCATTGGACAATCAGGG
Found at i:18623 original size:135 final size:135
Alignment explanation
Indices: 18406--18702 Score: 325
Period size: 135 Copynumber: 2.2 Consensus size: 135
18396 TGGGTATGGT
* *
18406 ATTGGACAATCAGGGGGACAGTCAGGAGAAAGTATCGGGTACGGCATTGGCGAATCAGGGGGACA
1 ATTGGACAATCAAGGGGACAATCAGGAGAAAGTATCGGGTACGGCATTGGCGAATCAGGGGGACA
*
18471 ATCAGGAAATAACATTGGATACAACATTGGGCAATCAAGAGGACA-ATCAGGAAATAACATTGGA
66 ATCAGGAAATAACATTGGATACAACATTGGGCAATCAAGAGGACAGA-CAAGAAATAACATTGGA
18535 TACAAC
130 TACAAC
* * * * *
18541 ATTGGGCAATCAAGTGGACAATCAGGAGAAAGTCTTGGGTATGGCATTGGAC-AATCAGGAGGG-
1 ATTGGACAATCAAGGGGACAATCAGGAGAAAGTATCGGGTACGGCATTGG-CGAATCAGG-GGGA
* * * * * * *
18604 CAGTCA-GAAGA-AAGTATTGGGTACGACATTGGGCAATCAGGGGGACAGACAAGAAATAGCATT
64 CAATCAGGAA-ATAA-CATTGGATACAACATTGGGCAATCAAGAGGACAGACAAGAAATAACATT
* **
18667 GGGTACGGC
127 GGATACAAC
* * *
18676 ATCGGACAATCAGGGGGTCAATCAGGA
1 ATTGGACAATCAAGGGGACAATCAGGA
18703 AACAATGTTT
Statistics
Matches: 134, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
134 5 0.04
135 124 0.93
136 5 0.04
ACGTcount: A:0.36, C:0.15, G:0.32, T:0.18
Consensus pattern (135 bp):
ATTGGACAATCAAGGGGACAATCAGGAGAAAGTATCGGGTACGGCATTGGCGAATCAGGGGGACA
ATCAGGAAATAACATTGGATACAACATTGGGCAATCAAGAGGACAGACAAGAAATAACATTGGAT
ACAAC
Found at i:18700 original size:180 final size:180
Alignment explanation
Indices: 18375--18704 Score: 486
Period size: 180 Copynumber: 1.8 Consensus size: 180
18365 GGTATGGTGT
* *
18375 TGGACAATCAGGAGAAAGTCTTGGGTATGGTATTGGACAATCAGGGGGACAGTCAGGAGAAAGTA
1 TGGACAATCAGGAGAAAGTCTTGGGTATGGCATTGGACAATCAGGGGGACAGTCAGAAGAAAGTA
* * * *
18440 TCGGGTACGGCATTGGCGAATCAGGGGGACAATCAGGAAATAACATTGGATACAACATTGGGCAA
66 TCGGGTACGACATTGGCGAATCAGGGGGACAATCAAGAAATAACATTGGATACAACATCGGACAA
18505 TCAAGAGGACAATCAGGAAATAACATTGGATACAACATTGGGCAATCAAG
131 TCAAGAGGACAATCAGGAAATAACATTGGATACAACATTGGGCAATCAAG
18555 TGGACAATCAGGAGAAAGTCTTGGGTATGGCATTGGACAATCAGGAGGG-CAGTCAGAAGAAAGT
1 TGGACAATCAGGAGAAAGTCTTGGGTATGGCATTGGACAATCAGG-GGGACAGTCAGAAGAAAGT
* * * **
18619 ATTGGGTACGACATTGG-GCAATCAGGGGGACAGA-CAAGAAATAGCATTGGGTACGGCATCGGA
65 ATCGGGTACGACATTGGCG-AATCAGGGGGACA-ATCAAGAAATAACATTGGATACAACATCGGA
* * *
18682 CAATCAGGGGGTCAATCAGGAAA
128 CAATCAAGAGGACAATCAGGAAA
18705 CAATGTTTGA
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
179 1 0.01
180 128 0.96
181 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.18
Consensus pattern (180 bp):
TGGACAATCAGGAGAAAGTCTTGGGTATGGCATTGGACAATCAGGGGGACAGTCAGAAGAAAGTA
TCGGGTACGACATTGGCGAATCAGGGGGACAATCAAGAAATAACATTGGATACAACATCGGACAA
TCAAGAGGACAATCAGGAAATAACATTGGATACAACATTGGGCAATCAAG
Found at i:19687 original size:21 final size:19
Alignment explanation
Indices: 19646--19684 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
19636 CAAAAAATTG
19646 ATGTTTTAGCTAAATAATA
1 ATGTTTTAGCTAAATAATA
19665 ATGTTTTAGCTAAA-AATA
1 ATGTTTTAGCTAAATAATA
19683 AT
1 AT
19685 AATATTTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (19 bp):
ATGTTTTAGCTAAATAATA
Found at i:22900 original size:45 final size:45
Alignment explanation
Indices: 22848--23171 Score: 229
Period size: 45 Copynumber: 7.3 Consensus size: 45
22838 GGAGAAGGTG
* *
22848 TTGGGTATGGTATCGGACAATCGGGAGGTCAATCAGGAAATAGTA
1 TTGGATATGGTATTGGACAATCGGGAGGTCAATCAGGAAATAGTA
* * * *
22893 TTGGGTATGGTGTCGGACAATCGGGAGGCCAATCAGGAAATAGTA
1 TTGGATATGGTATTGGACAATCGGGAGGTCAATCAGGAAATAGTA
* * * * ** *
22938 TTGGGTATGG-AGTAGGACAATCGGGAGGTCAGTCAAGAAACGGCGA
1 TTGGATATGGTA-TTGGACAATCGGGAGGTCAATCAGGAAATAG-TA
* * * * *
22984 -TGGATATGGTATTGG--AATTGGCAGCG-GAGA--AGGAGAA-GGTG
1 TTGGATATGGTATTGGACAATCGGGAG-GTCA-ATCAGGA-AATAGTA
* *
23025 TTGGATATGGTGTTGGACAA-CGAGG-GGTCAATCAAGAAATAGTA
1 TTGGATATGGTATTGGACAATCG-GGAGGTCAATCAGGAAATAGTA
* ** * *
23069 TTGGATATGGTGTTGGACAATAAAGG-GGTCAGTCGGGAAATAGTA
1 TTGGATATGGTATTGGACAAT-CGGGAGGTCAATCAGGAAATAGTA
* * * * **
23114 TTGGGTATGGTGTTGGACAATCGAGAGGTCAATCAGGAAATGGCG
1 TTGGATATGGTATTGGACAATCGGGAGGTCAATCAGGAAATAGTA
23159 TTGGATATGGTAT
1 TTGGATATGGTAT
23172 CGGAATTGGC
Statistics
Matches: 220, Mismatches: 42, Indels: 34
0.74 0.14 0.11
Matches are distributed among these distances:
42 21 0.10
43 15 0.07
44 30 0.14
45 152 0.69
46 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.36, T:0.24
Consensus pattern (45 bp):
TTGGATATGGTATTGGACAATCGGGAGGTCAATCAGGAAATAGTA
Found at i:23089 original size:176 final size:177
Alignment explanation
Indices: 22738--23240 Score: 607
Period size: 176 Copynumber: 2.8 Consensus size: 177
22728 GGAAAATTAG
* * * * * * * *
22738 GGGGTCAATCAGGAAATAATATTAGATATGGTGTTGGACAATCGGGGGGGGTCAGGCACGAAACA
1 GGGGCCAATCAGGAAATAGTATTGGGTATGGTGTTGGACAATC--GGGAGGTCAGTCAAGAAACG
* * * *
22803 ACGTTTGATATGGTATTGGAATTGACAATGGAGATGGAGAAGGTGTTGGGTATGGTATCGGACAA
64 GCGTTGGATATGGTATTGGAATTGGCAATGGAGATGGAGAAGGTGTTGGGTATGGTATTGGACAA
* * **
22868 TCGGGAGGTCAATCAGGAAATAGTATTGGGTATGGTGTCGGACAAT-CG
129 TCGGGAGGTCAATCAAGAAATAGTATTGGATATGGTGTCGGACAATAAA
* *
22916 GGAGGCCAATCAGGAAATAGTATTGGGTATGGAGTAGGACAATCGGGAGGTCAGTCAAGAAACGG
1 GG-GGCCAATCAGGAAATAGTATTGGGTATGGTGTTGGACAATCGGGAGGTCAGTCAAGAAACGG
* ** * * *
22981 CGATGGATATGGTATTGGAATTGGCAGCGGAGAAGGAGAAGGTGTTGGATATGGTGTTGGACAA-
65 CGTTGGATATGGTATTGGAATTGGCAATGGAGATGGAGAAGGTGTTGGGTATGGTATTGGACAAT
*
23045 CGAGG-GGTCAATCAAGAAATAGTATTGGATATGGTGTTGGACAATAAA
130 CG-GGAGGTCAATCAAGAAATAGTATTGGATATGGTGTCGGACAATAAA
* * * * * * *
23093 GGGGTCAGTCGGGAAATAGTATTGGGTATGGTGTTGGACAATCGAGAGGTCAATCAGGAAATGGC
1 GGGGCCAATCAGGAAATAGTATTGGGTATGGTGTTGGACAATCGGGAGGTCAGTCAAGAAACGGC
* * *
23158 GTTGGATATGGTATCGGAATTGGCAATGGAGATGGAGAAGGTTTTGGGTATGGCATTGGACAATC
66 GTTGGATATGGTATTGGAATTGGCAATGGAGATGGAGAAGGTGTTGGGTATGGTATTGGACAATC
* * *
23223 AGGAGGTCAGTCAGGAAA
131 GGGAGGTCAATCAAGAAA
23241 CAACTTTGGA
Statistics
Matches: 274, Mismatches: 46, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
176 149 0.54
177 88 0.32
178 2 0.01
179 35 0.13
ACGTcount: A:0.30, C:0.10, G:0.36, T:0.24
Consensus pattern (177 bp):
GGGGCCAATCAGGAAATAGTATTGGGTATGGTGTTGGACAATCGGGAGGTCAGTCAAGAAACGGC
GTTGGATATGGTATTGGAATTGGCAATGGAGATGGAGAAGGTGTTGGGTATGGTATTGGACAATC
GGGAGGTCAATCAAGAAATAGTATTGGATATGGTGTCGGACAATAAA
Found at i:23326 original size:87 final size:87
Alignment explanation
Indices: 23159--23327 Score: 198
Period size: 87 Copynumber: 1.9 Consensus size: 87
23149 GGAAATGGCG
* * * * * *
23159 TTGGATATGGTATCGGAATTGGCAATGGAGATGGAGAAGGTTTTGGGTATGGCATTGGACAATCA
1 TTGGATATGGCATCGGAATTGGCAATGGAAATGGAGAAGGTATTAGATATGGCATTGGACAAACA
*
23224 GGAGGTCAGTCAGGAAACAACT
66 GGAGGACAGTCAGGAAACAACT
* * *
23246 TTGGATATGGCATTGGAGTTGGCAATGGAAATGGA-AAGGGTATTAGATATGGCGTTGGACAAAC
1 TTGGATATGGCATCGGAATTGGCAATGGAAATGGAGAA-GGTATTAGATATGGCATTGGACAAAC
* *
23310 AATG-GGACAGTTAGGAAA
65 -AGGAGGACAGTCAGGAAA
23328 TAATATCGGA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
86 2 0.03
87 64 0.94
88 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.34, T:0.25
Consensus pattern (87 bp):
TTGGATATGGCATCGGAATTGGCAATGGAAATGGAGAAGGTATTAGATATGGCATTGGACAAACA
GGAGGACAGTCAGGAAACAACT
Found at i:24774 original size:37 final size:36
Alignment explanation
Indices: 24715--24834 Score: 163
Period size: 35 Copynumber: 3.3 Consensus size: 36
24705 ATCCCATTAT
* *
24715 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
* *
24750 CTATTTTTCAAAGAAACATTTACCAAACTTCGAAAAC
1 C-ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
24787 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAT
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
24822 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
24835 TTGGTTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
35 34 0.45
36 8 0.11
37 33 0.44
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
Found at i:29401 original size:37 final size:36
Alignment explanation
Indices: 29342--29461 Score: 163
Period size: 35 Copynumber: 3.3 Consensus size: 36
29332 ATCCCATTAT
* *
29342 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
* *
29377 CTATTTTTCAAAGAAACATTTACCAAAATTTGAAAAC
1 C-ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
29414 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAT
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
29449 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
29462 TTGGTTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
35 34 0.45
36 8 0.11
37 33 0.44
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
Found at i:34132 original size:19 final size:20
Alignment explanation
Indices: 34093--34144 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
34083 GAAAACCCTT
34093 TGAAAATACATGATTTTTTAA
1 TGAAAATACATGA-TTTTTAA
*
34114 TGAAAATATATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
34133 TGAAGATACATG
1 TGAAAATACATG
34145 CTCTTGTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
21 12 0.43
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:37328 original size:5 final size:5
Alignment explanation
Indices: 37320--37346 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
37310 TTGAAATTTC
37320 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
37347 TGTACTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:37389 original size:9 final size:9
Alignment explanation
Indices: 37375--37406 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
37365 TAGGAGTCCT
37375 TTTTTTTTC
1 TTTTTTTTC
37384 TTTTTTTTC
1 TTTTTTTTC
37393 TTTTTTTTC
1 TTTTTTTTC
37402 TTTTT
1 TTTTT
37407 GTTGCAGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:40159 original size:22 final size:22
Alignment explanation
Indices: 40128--40185 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
40118 ACTATACTGT
*
40128 ATGAATAGTACCGTGAATAGTA
1 ATGAACAGTACCGTGAATAGTA
* * *
40150 ATGATCAGTACTGTGAATATTA
1 ATGAACAGTACCGTGAATAGTA
40172 ATGAACAGTACCGT
1 ATGAACAGTACCGT
40186 AAACAGTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (22 bp):
ATGAACAGTACCGTGAATAGTA
Found at i:40858 original size:32 final size:32
Alignment explanation
Indices: 40784--40936 Score: 186
Period size: 32 Copynumber: 4.8 Consensus size: 32
40774 GAATGACCTA
* *
40784 TCCATATGTCCCAAAAGACAAAGGTAAT--TG
1 TCCATATGTCCCTAAAGACATAGGTAATCCTG
* *
40814 TCCATATATCCCTAAAGACATCGGTAATCCTG
1 TCCATATGTCCCTAAAGACATAGGTAATCCTG
40846 TCCATATGTCCCTAAAGACATAGGTAATCCTG
1 TCCATATGTCCCTAAAGACATAGGTAATCCTG
* * **
40878 TCCATATAT-CCTGAAAGATATAGGTAATATTG
1 TCCATATGTCCCT-AAAGACATAGGTAATCCTG
* *
40910 TCCATATGTCCCGAAAGACATAAGTAA
1 TCCATATGTCCCTAAAGACATAGGTAA
40937 CTCTCGACTC
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
30 24 0.23
31 3 0.03
32 76 0.72
33 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (32 bp):
TCCATATGTCCCTAAAGACATAGGTAATCCTG
Found at i:45940 original size:21 final size:21
Alignment explanation
Indices: 45916--45960 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
45906 AAATTATACA
* *
45916 TTTAGTATCTAAACTATCAGT
1 TTTAGTACCTAAACTATCAAT
*
45937 TTTAGTACCTAAACTTTCAAT
1 TTTAGTACCTAAACTATCAAT
45958 TTT
1 TTT
45961 TTTTCAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (21 bp):
TTTAGTACCTAAACTATCAAT
Found at i:53438 original size:6 final size:6
Alignment explanation
Indices: 53424--53479 Score: 85
Period size: 6 Copynumber: 9.3 Consensus size: 6
53414 AATGACACAT
* * *
53424 TTTGTA TTTGCA TTTGTA TTTACA TTTGCA TTTGCA TTTGCA TTTGCA
1 TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA
53472 TTTGCA TT
1 TTTGCA TT
53480 CCATGTATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.18, C:0.12, G:0.14, T:0.55
Consensus pattern (6 bp):
TTTGCA
Found at i:58396 original size:13 final size:13
Alignment explanation
Indices: 58378--58402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58368 TGAAGCAAAT
58378 CCATCAGTAAGTG
1 CCATCAGTAAGTG
58391 CCATCAGTAAGT
1 CCATCAGTAAGT
58403 CTTCGAGCAT
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:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:58448 original size:40 final size:40
Alignment explanation
Indices: 58392--58656 Score: 162
Period size: 42 Copynumber: 6.2 Consensus size: 40
58382 CAGTAAGTGC
58392 CATCAGTAAGTC-TTCGAGCATGATGATGAATCCTTCGGGT
1 CATCA-TAAGTCTTTCGAGCATGATGATGAATCCTTCGGGT
* *
58432 CATCATAAGTCTTTCGAGCTTGATGATTAAATCCTTCGGGT
1 CATCATAAGTCTTTCGAGCATGATGA-TGAATCCTTCGGGT
* ** * * * *
58473 AATTGTAAGTCTTCACAGAAG-A-GTAGTGAAGCAAATCCATCAGTAAGT
1 CATCATAAGTCTT-TC-G-AGCATG-A-TGATG--AATCCTTC-G--GGT
*
58521 ACCATCAGTAAGTCTTTCGAGCATGATGATGAACTCCTTCGGGC
1 --CATCA-TAAGTCTTTCGAGCATGATGATGAA-TCCTTCGGGT
* * * *
58565 CATCAGTAATTCTTTCAACCATGATGATTAAATCCTTCGGGT
1 CATCA-TAAGTCTTTCGAGCATGATGA-TGAATCCTTCGGGT
* *
58607 CATTTATAAGTCTTTCGAGCAAGAT-AT-AAGTCCTTCGGGT
1 CA-TCATAAGTCTTTCGAGCATGATGATGAA-TCCTTCGGGT
58647 CATCCATAAG
1 CAT-CATAAG
58657 ACCTTCGGGT
Statistics
Matches: 173, Mismatches: 30, Indels: 44
0.70 0.12 0.18
Matches are distributed among these distances:
39 9 0.05
40 36 0.21
41 24 0.14
42 52 0.30
43 7 0.04
44 6 0.03
45 7 0.04
46 4 0.02
47 5 0.03
48 8 0.05
49 3 0.02
50 4 0.02
51 8 0.05
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (40 bp):
CATCATAAGTCTTTCGAGCATGATGATGAATCCTTCGGGT
Found at i:58517 original size:131 final size:132
Alignment explanation
Indices: 58215--58620 Score: 586
Period size: 132 Copynumber: 3.1 Consensus size: 132
58205 AAATCCATAT
* * * * *
58215 TAAGTCTTCACTGAAGAGTAGTGAAGAAAATCCATCAGTAAGTACCATCAGTAATTTTTGGAGCA
1 TAAGTCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGTACCATCAGTAAGTCTTCGAGCA
* **
58280 TGATGATGAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGATTAAAT--TTTTGGTAA
66 TGATGATGAACTCCTTCGGGC-ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAA
58343 TTCG
130 TT-G
* *
58347 AAAGTCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGTGCCATCAGTAAGTCTTCGAGCA
1 TAAGTCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGTACCATCAGTAAGTCTTCGAGCA
*
58412 TGATGATGAA-TCCTTCGGGTCATCA-TAAGTCTTTCGAGCTTGATGATTAAATCCTTCGGGTAA
66 TGATGATGAACTCCTTCGGG-CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAA
58475 TTG
130 TTG
58478 TAAGTCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGTACCATCAGTAAGTCTTTCGAGC
1 TAAGTCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGTACCATCAGTAAGTC-TTCGAGC
* * *
58543 ATGATGATGAACTCCTTCGGGCCATCAGTAATTCTTTCAACCATGATGATTAAATCCTTCGGGTC
65 ATGATGATGAACTCCTTCGGG-CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT-
* *
58608 ATTTA
128 AATTG
58613 TAAGTCTT
1 TAAGTCTT
58621 TCGAGCAAGA
Statistics
Matches: 248, Mismatches: 19, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
130 26 0.10
131 69 0.28
132 96 0.39
133 14 0.06
134 32 0.13
135 11 0.04
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (132 bp):
TAAGTCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGTACCATCAGTAAGTCTTCGAGCA
TGATGATGAACTCCTTCGGGCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAAT
TG
Found at i:58527 original size:13 final size:13
Alignment explanation
Indices: 58509--58533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58499 TGAAGCAAAT
58509 CCATCAGTAAGTA
1 CCATCAGTAAGTA
58522 CCATCAGTAAGT
1 CCATCAGTAAGT
58534 CTTTCGAGCA
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:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTA
Found at i:59293 original size:52 final size:53
Alignment explanation
Indices: 59160--59672 Score: 596
Period size: 53 Copynumber: 9.8 Consensus size: 53
59150 AGAATCACAC
*
59160 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * ***
59213 CAGAAGATTGTTTGAGTTCTACTCCCTGAAGCAAGAGAGAGTGAACAATTA-G
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
59265 CAGTAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGT-TG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * *
59317 CAGAAGATTATTCAAGTTCTACT-CCTGAAGCAAGAGGGAGTGAACCCGCT-GG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCG-TAGG
* * * *
59369 CAGAATATTGTTTGAGTTCTACTCCCTGAAGAAAAAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * * * * *
59422 TAGGAGATTGTTCGAGTTCTACTCCTTGAAGTAAGAGGGATCGAACCCATAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* **
59475 CAGAAGATTGTTCGAGTTCTACT-CTTGAAGCAAGAAAGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * *
59527 CAAAAGATTGTTCGAGTTAC-ACTCCATGAAGCAAGAGAGAGTGAACCCGTAGG
1 CAGAAGATTGTTCGAGTT-CTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * *
59580 CAGAAGATTGTTCGATTTTTACT-CCTGAAGCAAGATGGAGAG-ACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * *
59631 -AAAAGATTGTTCGAGTTTTACTCCTTGAAG-AAGGAGGGAGCG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAA-GAGGGAGCG
Statistics
Matches: 391, Mismatches: 60, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
50 22 0.06
51 46 0.12
52 145 0.37
53 178 0.46
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:59539 original size:105 final size:106
Alignment explanation
Indices: 59160--59670 Score: 596
Period size: 105 Copynumber: 4.9 Consensus size: 106
59150 AGAATCACAC
* *
59160 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAAGGAGCGAACCCGTAGGCAGAAGATTGTT
* * * * *
59225 TGAGTTCTACTCCCTGAAGCAAGAGAGAGTGAA-CAATTAG
66 CGAGTTCTACTCCTTGAAGCAAGAGGGAGTGAACCCATAAG
* * * *
59265 CAGTAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGT-TGCAGAAGATTATT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAAGGAGCGAACCCGTAGGCAGAAGATTGTT
* * *
59329 CAAGTTCTACTCC-TGAAGCAAGAGGGAGTGAACCCGCT-GG
66 CGAGTTCTACTCCTTGAAGCAAGAGGGAGTGAACCC-ATAAG
* * * * *
59369 CAGAATATTGTTTGAGTTCTACTCCCTGAAG-AAAAAGGGAGCGAACCCGTAGGTAGGAGATTGT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAA-GGAGCGAACCCGTAGGCAGAAGATTGT
*
59433 TCGAGTTCTACTCCTTGAAGTAAGAGGGA-TCGAACCCATAAG
65 TCGAGTTCTACTCCTTGAAGCAAGAGGGAGT-GAACCCATAAG
* * *
59475 CAGAAGATTGTTCGAGTTCTACT-CTTGAAGCAAGAAAGAGCGAACCCGTAGGCAAAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAAGGAGCGAACCCGTAGGCAGAAGATTGTT
* * * *
59539 CGAGTTAC-ACTCCATGAAGCAAGAGAGAGTGAACCCGTAGG
66 CGAGTT-CTACTCCTTGAAGCAAGAGGGAGTGAACCCATAAG
* * * * *
59580 CAGAAGATTGTTCGATTTTTACT-CCTGAAGCAAGATGGAGAG-ACCCGTAGG-AAAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAAGGAGCGAACCCGTAGGCAGAAGATTGTT
*
59642 CGAGTTTTACTCCTTGAAG-AAGGAGGGAG
66 CGAGTTCTACTCCTTGAAGCAA-GAGGGAG
59671 CG
Statistics
Matches: 349, Mismatches: 45, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
102 2 0.01
103 54 0.15
104 75 0.21
105 171 0.49
106 47 0.13
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (106 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAAGGAGCGAACCCGTAGGCAGAAGATTGTT
CGAGTTCTACTCCTTGAAGCAAGAGGGAGTGAACCCATAAG
Done.