Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001394.1 Kokia drynarioides strain JFW-HI SEQ_112879, 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: 40499
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Warning! 28 characters in sequence are not A, C, G, or T
Found at i:168 original size:28 final size:29
Alignment explanation
Indices: 110--172 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
100 TCGAATTTTC
*
110 CCAAAATTACCATTTTTGCCATCGAGAAT
1 CCAAAATTACCATTTTTGCCACCGAGAAT
* * * *
139 CCAAAATTATCA-TTTTGCCCCCGGGTAT
1 CCAAAATTACCATTTTTGCCACCGAGAAT
167 CCAAAA
1 CCAAAA
173 AGTCTCATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 18 0.62
29 11 0.38
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (29 bp):
CCAAAATTACCATTTTTGCCACCGAGAAT
Found at i:5090 original size:20 final size:19
Alignment explanation
Indices: 5067--5138 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
5057 AAATTACAAA
5067 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
* * *
5086 CAAAAGTTCTAGATAATTTT
1 -AAAAATTCAAAATAATTTT
*
5106 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
5125 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
5139 TTATATATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 4 0.10
19 17 0.40
20 21 0.50
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:5136 original size:27 final size:27
Alignment explanation
Indices: 5104--5166 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
5094 CTAGATAATT
*
5104 TTTAAAATTCA-AAATATTTATAAAAA
1 TTTAAAATTCATAAATATTTAAAAAAA
* * *
5130 TTCTAAAATTTATATATTTTTAAAAAAA
1 TT-TAAAATTCATAAATATTTAAAAAAA
5158 TTTAAAATT
1 TTTAAAATT
5167 TTCAAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 2 0.06
27 15 0.48
28 14 0.45
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
TTTAAAATTCATAAATATTTAAAAAAA
Found at i:5145 original size:20 final size:19
Alignment explanation
Indices: 5067--5143 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 19
5057 AAATTACAAA
5067 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
* * *
5086 CAAAAGTTCTAGATAATTT-T
1 -AAAAATTCAAAAT-ATTTAT
*
5106 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
5125 AAAAATTCTAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
5143 A
1 A
5144 TATTTTTAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 11 0.23
19 20 0.43
20 16 0.34
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:5157 original size:20 final size:19
Alignment explanation
Indices: 5134--5184 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
5124 TAAAAATTCT
* *
5134 AAAATTTATATATTTTTAAA
1 AAAATTTA-AAATTTTCAAA
5154 AAAATTTAAAATTTTC-AA
1 AAAATTTAAAATTTTCAAA
5172 AAAATTCTAAAAT
1 AAAATT-TAAAAT
5185 ATATATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.29
19 12 0.43
20 8 0.29
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTTAAAATTTTCAAA
Found at i:5167 original size:19 final size:19
Alignment explanation
Indices: 5134--5204 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 19
5124 TAAAAATTCT
*
5134 AAAATTTATATATTTTTAAA
1 AAAATTTA-AAATTTTTAAA
*
5154 AAAATTTAAAA-TTTTCAA
1 AAAATTTAAAATTTTTAAA
*
5172 AAAATTCTAAAATATATATAAA
1 AAAATT-TAAAAT-T-TTTAAA
*
5194 GAAATTTAAAA
1 AAAATTTAAAA
5205 AATTAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 12 0.29
19 7 0.17
20 8 0.19
21 6 0.14
22 9 0.21
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (19 bp):
AAAATTTAAAATTTTTAAA
Found at i:5201 original size:40 final size:40
Alignment explanation
Indices: 5150--5225 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
5140 TATATATTTT
**
5150 TAAAAAAATTTAAAATTTTCAAAAA-ATTCTAAAATATATA
1 TAAAAAAATTTAAAAAATT-AAAAATATTCTAAAATATATA
*
5190 TAAAGAAATTTAAAAAATTAAAAATATTCTAAAATA
1 TAAAAAAATTTAAAAAATTAAAAATATTCTAAAATA
5226 ATAATTTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 5 0.16
40 27 0.84
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (40 bp):
TAAAAAAATTTAAAAAATTAAAAATATTCTAAAATATATA
Found at i:6543 original size:30 final size:30
Alignment explanation
Indices: 6507--6565 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
6497 TTTATAGATT
6507 TTATATATAAAATAAAAAGACAAAATAATA
1 TTATATATAAAATAAAAAGACAAAATAATA
* *
6537 TTATATATATAATAAAAAGATAAAATAAT
1 TTATATATAAAATAAAAAGACAAAATAAT
6566 GTAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (30 bp):
TTATATATAAAATAAAAAGACAAAATAATA
Found at i:15287 original size:22 final size:22
Alignment explanation
Indices: 15262--15304 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
15252 GAATAACAAA
15262 AGAA-AAAAAACTAAAGCCTAAG
1 AGAAGAAAAAACTAAA-CCTAAG
*
15284 AGAAGAAATAACTAAACCTAA
1 AGAAGAAAAAACTAAACCTAA
15305 ATTACAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.63, C:0.14, G:0.12, T:0.12
Consensus pattern (22 bp):
AGAAGAAAAAACTAAACCTAAG
Found at i:19155 original size:15 final size:16
Alignment explanation
Indices: 19135--19164 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19125 TTAGTACATC
19135 CCTTTCCTTT-CTTTT
1 CCTTTCCTTTACTTTT
19150 CCTTTCCTTTACTTT
1 CCTTTCCTTTACTTT
19165 ATTTTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.63
Consensus pattern (16 bp):
CCTTTCCTTTACTTTT
Found at i:19186 original size:10 final size:10
Alignment explanation
Indices: 19157--19187 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
19147 TTTCCTTTCC
19157 TTTACTTTAT
1 TTTACTTTAT
19167 TTTACTTTAT
1 TTTACTTTAT
19177 TTTACTTTAT
1 TTTACTTTAT
19187 T
1 T
19188 GTTTTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTACTTTAT
Found at i:23496 original size:4 final size:4
Alignment explanation
Indices: 23489--23514 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
23479 TATAAGCACG
23489 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
23515 TATATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:23609 original size:48 final size:47
Alignment explanation
Indices: 23557--23676 Score: 129
Period size: 48 Copynumber: 2.5 Consensus size: 47
23547 TTTAGCTTTG
*
23557 TTTATATACATACGTAAGTATATATATATA-TACATTTTTTATTTTATT-
1 TTTATATACATACGTAA-TATATATATA-AGTACA-TTTTGATTTTATTA
* * * * *
23605 TTTATATATATGCGTATCTATATATATAAGTATATTTTGATTTTTTTA
1 TTTATATACATACGTA-ATATATATATAAGTACATTTTGATTTTATTA
23653 TTTATATACATACGT-ATATATATA
1 TTTATATACATACGTAATATATATA
23677 CATCTTGATT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
46 8 0.13
47 12 0.20
48 40 0.67
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (47 bp):
TTTATATACATACGTAATATATATATAAGTACATTTTGATTTTATTA
Found at i:24434 original size:30 final size:30
Alignment explanation
Indices: 24398--24688 Score: 262
Period size: 30 Copynumber: 9.7 Consensus size: 30
24388 CTAATGTTTT
* * *
24398 CAAAATTACCTTTTGACCCTTAAACTTCTC
1 CAAAATTACATTTTAACCCTAAAACTTCTC
* * ** *
24428 CAAAATTTCATTTTAA-CATCGAATTTCTC
1 CAAAATTACATTTTAACCCTAAAACTTCTC
* * * *
24457 CAAAATCACATTTTGACCCTAAAAATTTATC
1 CAAAATTACATTTTAACCCT-AAAACTTCTC
* *
24488 CAAAATTACATTTTGACCCTCAAACTTCTC
1 CAAAATTACATTTTAACCCTAAAACTTCTC
* *
24518 CAAAATTACATTTTAACCCTCAAATTTCTC
1 CAAAATTACATTTTAACCCTAAAACTTCTC
* * *
24548 TAAAATCACATTTTAACCCCAAAAACTT-TC
1 CAAAATTACATTTTAA-CCCTAAAACTTCTC
* *
24578 CTAAAATCATATTTTAACCCTAAAACTTCTC
1 C-AAAATTACATTTTAACCCTAAAACTTCTC
* * * * * * *
24609 TAAAATCATATTTTGACCCTTATATTTCTC
1 CAAAATTACATTTTAACCCTAAAACTTCTC
* *
24639 CAAAATTGCATTTTAACCCTTAAACTTCTC
1 CAAAATTACATTTTAACCCTAAAACTTCTC
*
24669 CAAAATTATATTTTAACCCT
1 CAAAATTACATTTTAACCCT
24689 CGAACTCTCT
Statistics
Matches: 214, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
29 22 0.10
30 142 0.66
31 50 0.23
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.37
Consensus pattern (30 bp):
CAAAATTACATTTTAACCCTAAAACTTCTC
Found at i:24592 original size:91 final size:91
Alignment explanation
Indices: 24398--24694 Score: 321
Period size: 91 Copynumber: 3.3 Consensus size: 91
24388 CTAATGTTTT
** * * * * *
24398 CAAAATTACCTTTTGACCCTTAAACTTCTCCAAAATTTCATTTTAA-CATCGAATTTCTCCAAAA
1 CAAAATTATATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCTCAAATTTCTCCAAAA
* * *
24462 TCACATTTTGACCCTAAAAATTTATC
66 TCACATTTTAACCCCAAAAACTTATC
* * *
24488 CAAAATTACATTTTGACCCTCAAACTTCTCCAAAATTACATTTTAACCCTCAAATTTCTCTAAAA
1 CAAAATTATATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCTCAAATTTCTCCAAAA
24553 TCACATTTTAACCCCAAAAACTT-TC
66 TCACATTTTAACCCCAAAAACTTATC
* * * * * * * *
24578 CTAAAATCATATTTTAACCCTAAAACTTCTCTAAAATCATATTTTGACCCTTATATTTCTCCAAA
1 C-AAAATTATATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCTCAAATTTCTCCAAA
** ** *
24643 ATTGCATTTTAA-CCCTTAAACTTCTC
65 ATCACATTTTAACCCCAAAAACTTATC
*
24669 CAAAATTATATTTTAACCCTCGAACT
1 CAAAATTATATTTTAACCCTCAAACT
24695 CTCTGAAACT
Statistics
Matches: 177, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
90 77 0.44
91 100 0.56
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (91 bp):
CAAAATTATATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCTCAAATTTCTCCAAAA
TCACATTTTAACCCCAAAAACTTATC
Found at i:24838 original size:15 final size:15
Alignment explanation
Indices: 24811--24852 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
24801 AGATTCGTAA
24811 TTCGTAT-TTTATTT
1 TTCGTATATTTATTT
*
24825 TTCTTATATTTA-TT
1 TTCGTATATTTATTT
24839 TTCGTATATTTATT
1 TTCGTATATTTATT
24853 CATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (15 bp):
TTCGTATATTTATTT
Found at i:29284 original size:11 final size:11
Alignment explanation
Indices: 29268--29325 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
29258 GGATTCAATG
29268 AAGAAAGAAAA
1 AAGAAAGAAAA
*
29279 AAGAAAAAAAA
1 AAGAAAGAAAA
29290 AAG-AA-AAAA
1 AAGAAAGAAAA
29299 AAGAAAG-AAA
1 AAGAAAGAAAA
29309 AAG-AAGAAAA
1 AAGAAAGAAAA
29319 AGAGAAA
1 A-AGAAA
29326 AAAGTAGAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
9 10 0.24
10 14 0.34
11 15 0.37
12 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:29289 original size:9 final size:9
Alignment explanation
Indices: 29271--29354 Score: 80
Period size: 9 Copynumber: 8.9 Consensus size: 9
29261 TTCAATGAAG
29271 AAAGAAAAA
1 AAAGAAAAA
29280 AGAA-AAAAA
1 A-AAGAAAAA
29289 AAAGAAAAA
1 AAAGAAAAA
29298 AAAGAAAGAA
1 AAAGAAA-AA
29308 AAAGAAGAAA
1 AAAGAA-AAA
29318 AAGAGAAAAA
1 AA-AGAAAAA
* *
29328 AGTAGAGAAA
1 A-AAGAAAAA
**
29338 AGGGAAAAA
1 AAAGAAAAA
29347 AAAGAAAA
1 AAAGAAAA
29355 GGAGAGGTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
8 2 0.03
9 30 0.48
10 25 0.40
11 5 0.08
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:29299 original size:19 final size:19
Alignment explanation
Indices: 29271--29328 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 19
29261 TTCAATGAAG
29271 AAAG-AAAAAAGAAAAAAA
1 AAAGAAAAAAAGAAAAAAA
29289 AAAGAAAAAAAAGAAAGAAAA
1 AAAG-AAAAAAAGAAA-AAAA
*
29310 AGAAGAAAAAGAGAAAAAA
1 A-AAGAAAAAAAGAAAAAA
29329 GTAGAGAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 4 0.11
20 13 0.37
21 15 0.43
22 3 0.09
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAAAGAAAAAAA
Found at i:29312 original size:30 final size:31
Alignment explanation
Indices: 29268--29353 Score: 56
Period size: 30 Copynumber: 2.8 Consensus size: 31
29258 GGATTCAATG
*
29268 AAGAAAGAAAAAAG-AAAAAAA-AAAGAAAA
1 AAGAAAAAAAAAAGAAAAAAAAGAAAGAAAA
*
29297 AA-AAGAAAGAAAAAGAAGAAAAAG--AGAAAA
1 AAGAA-AAA-AAAAAGAAAAAAAAGAAAGAAAA
* * **
29327 AAGTAGAGAAAAGGGAAAAAAAAGAAA
1 AAG-AAAAAAAAAAGAAAAAAAAGAAA
29354 AGGAGAGGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
28 2 0.05
29 4 0.10
30 26 0.62
31 8 0.19
32 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (31 bp):
AAGAAAAAAAAAAGAAAAAAAAGAAAGAAAA
Found at i:29338 original size:19 final size:18
Alignment explanation
Indices: 29286--29359 Score: 78
Period size: 19 Copynumber: 4.1 Consensus size: 18
29276 AAAAAGAAAA
* *
29286 AAAAAAGAAAAAAAAGAA
1 AAAAAAGAAGAAAAAGAG
29304 AGAAAAAGAAGAAAAAGAG
1 A-AAAAAGAAGAAAAAGAG
* *
29323 AAAAAAGTAGAGAAAAGGG
1 AAAAAAGAAGA-AAAAGAG
*
29342 AAAAAA-AAGAAAAGGAG
1 AAAAAAGAAGAAAAAGAG
29359 A
1 A
29360 GGTCGAGGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.13
18 13 0.28
19 28 0.60
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (18 bp):
AAAAAAGAAGAAAAAGAG
Found at i:30351 original size:50 final size:50
Alignment explanation
Indices: 30308--31074 Score: 326
Period size: 50 Copynumber: 15.5 Consensus size: 50
30298 TACCTTAAAT
*
30308 GATGTGAAGGGAAAGGTTGAGGCCGCAATTACGAAC-CTAGTACCTAAGAA
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACTC-AGTACCTAAGAA
* * * * *
30358 GATGTGATA-GGAAAAGTTGAGGTCGTAATGGCGAACTCGGTACCTAAGAA
1 GATGTGA-AGGGAAAGGTTGAGGCCGCAATGACGAACTCAGTACCTAAGAA
* ** * * * * *
30408 GATGTGATGGGAAAGGTTGAGGATGCAA-CAGTGAACCCAATACC-ATGAA
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGA-CGAACTCAGTACCTAAGAA
* * * ** ** *
30457 GATGTAAAGGGAAAAGTTAAGGCTACAATGGTGAACTCGGTACCTAAGAA
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACTCAGTACCTAAGAA
* * * *
30507 GATGTGATGGGAAAGGTTGAGGCCGTAATGGCGAAC-CTAGTACC-ATGAA
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACTC-AGTACCTAAGAA
* * ** * * * * *
30556 GA-GATGAAGGGAAAGATTGAGGTCGTGACGATGAATTCGGTACCTTAGAA
1 GATG-TGAAGGGAAAGGTTGAGGCCGCAATGACGAACTCAGTACCTAAGAA
* * * ** * *
30606 GATGTGATGGGAAAGGTTGAGGCCACAACGGTGAAC-CCGATACC-ACGAA
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACTCAG-TACCTAAGAA
** * * * * *
30655 GATACGAAGGGAAAGGTTAAGGCCGTAA-CA-GTAAACCCGGTACCTAAGAA
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGACG--AACTCAGTACCTAAGAA
* * * * * *
30705 GATATGATGGGAAAGGTTGAGGACGTAACGACGAAC-CTAGTACC-AGGAA
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACTC-AGTACCTAAGAA
* * * *
30754 GA-GATGAAGGG-AAGGATTAAGG--TCAA-GACGGTGAA-TCCGGTACCTTAGAA
1 GATG-TGAAGGGAAAGG-TTGAGGCCGCAATGAC---GAACT-CAGTACCTAAGAA
* * * ** * * *
30804 GATGTGATGGGAAAGGTTTAGGCCACAATGGTGAACCCGGTACC-ATGAA
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACTCAGTACCTAAGAA
* * ** * ** *
30853 GATATGAAGGGAAAGGTTGAGGTCATAACGGTGAACTCGGTACCTAAGAA
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACTCAGTACCTAAGAA
* * * * *
30903 GATGTGATGGGAAAGGTTGAGGTCGTAACGACGAACCCAGTACCATTAAG-A
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACTCAGTACC--TAAGAA
** * * *
30954 GA--TGAAGGG-AAGGATTGAGGCCGTGATGACGAA-TCCGGTAACTTAGAA
1 GATGTGAAGGGAAAGG-TTGAGGCCGCAATGACGAACT-CAGTACCTAAGAA
* * * * ** * *
31002 GGTGTGATGGGAAAGGTTGAGGCCGTAACGGTGAACCCAGTACC-ATGAA
1 GATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACTCAGTACCTAAGAA
* *
31051 GATATGACGGGAAAGGTTGAGGCC
1 GATGTGAAGGGAAAGGTTGAGGCC
31075 ACAACGATGA
Statistics
Matches: 542, Mismatches: 132, Indels: 87
0.71 0.17 0.11
Matches are distributed among these distances:
46 3 0.01
47 6 0.01
48 11 0.02
49 223 0.41
50 274 0.51
51 16 0.03
52 8 0.01
53 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.19
Consensus pattern (50 bp):
GATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACTCAGTACCTAAGAA
Found at i:30501 original size:99 final size:99
Alignment explanation
Indices: 30285--31086 Score: 630
Period size: 99 Copynumber: 8.1 Consensus size: 99
30275 TGAGGCTGCG
* * * **** *
30285 ACGGTGAATTCGGTACCTTAA-ATGATGTGAAGGGAAAGGTTGAGGCCGCAATTACGAACCTAGT
1 ACGGTGAACTCGGTACC-TAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGT
* * *
30349 ACCTAAGAAGATGTGATA-GGAAAAGTTGAGG-T-CGTA
65 ACC-ATGAAGATGTGA-AGGGAAAGGTTAAGGCTAC--A
* * ** * *
30385 ATGGCGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGATGCAACAGTGAACCCAATA
1 ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGTA
* *
30450 CCATGAAGATGTAAAGGGAAAAGTTAAGGCTACA
66 CCATGAAGATGTGAAGGGAAAGGTTAAGGCTACA
* * * * *
30484 ATGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAATGGCGAACCTAGTA
1 ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGTA
* * *
30549 CCATGAAGA-GATGAAGGGAAAGATTGAGG-T-CGTG
66 CCATGAAGATG-TGAAGGGAAAGGTTAAGGCTAC--A
* * * *
30583 ACGATGAATTCGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCACAACGGTGAACCC-GAT
1 ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCAG-T
* ** ***
30647 ACCACGAAGATACGAAGGGAAAGGTTAAGGCCGTA
65 ACCATGAAGATGTGAAGGGAAAGGTTAAGGCTACA
* * * * * * ** *
30682 ACAGTAAACCCGGTACCTAAGAAGATATGATGGGAAAGGTTGAGGACGTAACGACGAACCTAGTA
1 ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGTA
*
30747 CCAGGAAGA-GATGAAGGG-AAGGATTAAGG-T-CAA
66 CCATGAAGATG-TGAAGGGAAAGG-TTAAGGCTAC-A
* * * * *
30780 GACGGTGAA-TCCGGTACCTTAGAAGATGTGATGGGAAAGGTTTAGGCCACAATGGTGAACCCGG
1 -ACGGTGAACT-CGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCAG
* * *
30844 TACCATGAAGATATGAAGGGAAAGGTTGAGG-TCATA
64 TACCATGAAGATGTGAAGGGAAAGGTTAAGGCT-ACA
* * **
30880 ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACGACGAACCCAGTA
1 ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGTA
* * ****
30945 CCATTAAGA-GATGAAGGG-AAGGATTGAGGCCGTG
66 CCATGAAGATG-TGAAGGGAAAGG-TTAAGGCTACA
* ** * * * *
30979 ATGACGAA-TCCGGTAACTTAGAAGGTGTGATGGGAAAGGTTGAGGCCGTAACGGTGAACCCAGT
1 ACGGTGAACT-CGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGT
* * * *
31043 ACCATGAAGATATGACGGGAAAGGTTGAGGCCACA
65 ACCATGAAGATGTGAAGGGAAAGGTTAAGGCTACA
*
31078 ACGATGAAC
1 ACGGTGAAC
31087 CTAGCACCTT
Statistics
Matches: 559, Mismatches: 114, Indels: 58
0.76 0.16 0.08
Matches are distributed among these distances:
97 1 0.00
98 14 0.03
99 481 0.86
100 62 0.11
101 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.19
Consensus pattern (99 bp):
ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGTA
CCATGAAGATGTGAAGGGAAAGGTTAAGGCTACA
Found at i:30642 original size:198 final size:198
Alignment explanation
Indices: 30285--31073 Score: 949
Period size: 198 Copynumber: 4.0 Consensus size: 198
30275 TGAGGCTGCG
* * * * **
30285 ACGGTGAATTCGGTACCTTAA-ATGATGTGAAGGGAAAGGTTGAGGCCGCAATTACGAACCTAGT
1 ACGGTGAACTCGGTACC-TAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGACGAACCTAGT
* * * * * *
30349 ACCTAAGAAGATG-TGATAGGAAAAG-TTGAGGTCGTAATGGCGAA-CTCGGTACCTAAGAAGAT
65 ACC-ATGAAGA-GATGA-AGGGAAAGATTGAGGTCGTGACGACGAATC-CGGTACCTTAGAAGAT
*** * * * *
30411 GTGATGGGAAAGGTTGAGGATGCAACAGTGAACCCAATACCATGAAGATGTAAAGGGAAAAGTTA
126 GTGATGGGAAAGGTTGAGGCCACAACGGTGAACCCAATACCATGAAGATATGAAGGGAAAGGTTA
*
30476 AGGCTACA
191 AGGCTATA
* * *
30484 ATGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAATGGCGAACCTAGTA
1 ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGACGAACCTAGTA
* *
30549 CCATGAAGAGATGAAGGGAAAGATTGAGGTCGTGACGATGAATTCGGTACCTTAGAAGATGTGAT
66 CCATGAAGAGATGAAGGGAAAGATTGAGGTCGTGACGACGAATCCGGTACCTTAGAAGATGTGAT
* * * *
30614 GGGAAAGGTTGAGGCCACAACGGTGAACCCGATACCACGAAGATACGAAGGGAAAGGTTAAGGCC
131 GGGAAAGGTTGAGGCCACAACGGTGAACCCAATACCATGAAGATATGAAGGGAAAGGTTAAGGCT
*
30679 GTA
196 ATA
* * * * *
30682 ACAGTAAACCCGGTACCTAAGAAGATATGATGGGAAAGGTTGAGGACGTAACGACGAACCTAGTA
1 ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGACGAACCTAGTA
* * * ** **
30747 CCAGGAAGAGATGAAGGGAAGGATTAAGGTCAAGACGGTGAATCCGGTACCTTAGAAGATGTGAT
66 CCATGAAGAGATGAAGGGAAAGATTGAGGTCGTGACGACGAATCCGGTACCTTAGAAGATGTGAT
* * ** *
30812 GGGAAAGGTTTAGGCCACAATGGTGAACCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGG-T
131 GGGAAAGGTTGAGGCCACAACGGTGAACCCAATACCATGAAGATATGAAGGGAAAGGTTAAGGCT
30876 CATA
196 -ATA
* *
30880 ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACGACGAACCCAGTA
1 ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGACGAACCTAGTA
* * * * * *
30945 CCATTAAGAGATGAAGGGAAGGATTGAGGCCGTGATGACGAATCCGGTAACTTAGAAGGTGTGAT
66 CCATGAAGAGATGAAGGGAAAGATTGAGGTCGTGACGACGAATCCGGTACCTTAGAAGATGTGAT
** * * *
31010 GGGAAAGGTTGAGGCCGTAACGGTGAACCCAGTACCATGAAGATATGACGGGAAAGGTTGAGGC
131 GGGAAAGGTTGAGGCCACAACGGTGAACCCAATACCATGAAGATATGAAGGGAAAGGTTAAGGC
31074 CACAACGATG
Statistics
Matches: 510, Mismatches: 74, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
197 8 0.02
198 446 0.87
199 56 0.11
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.19
Consensus pattern (198 bp):
ACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGACGAACCTAGTA
CCATGAAGAGATGAAGGGAAAGATTGAGGTCGTGACGACGAATCCGGTACCTTAGAAGATGTGAT
GGGAAAGGTTGAGGCCACAACGGTGAACCCAATACCATGAAGATATGAAGGGAAAGGTTAAGGCT
ATA
Found at i:30807 original size:297 final size:296
Alignment explanation
Indices: 30389--31086 Score: 795
Period size: 297 Copynumber: 2.4 Consensus size: 296
30379 GTCGTAATGG
* * * *
30389 CGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGATGCAAC-AGTGAACCCAATACCA
1 CGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGACGTAACGA-TGAACCCAGTACCA
* *
30453 TGAAGATG-TAAAGGGAAAAGTTAAGGCTACAATGGTGAACTCGGTACCTAAGAAGATGTGATGG
65 TGAAGA-GATGAAGGGAAAAGTTAAGGCTACAACGGTGAACTCGGTACCTAAGAAGATGTGATGG
** * *
30517 GAAAGGTTGAGGCCGTAATGGCGAACCTAGTACCATGAAGAGATGAAGGGAAAGATTGAGGTCGT
129 GAAAGGTTGAGGCCACAATGGCGAACCCAGTACCATGAAGAGATGAAGGGAAAGATTGAGGTCAT
* * * **
30582 GACGATGAATTCGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCACAACGGTGAACCC-GA
194 AACGATGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCACAACGACGAACCCAG-
*
30646 TACCACGAAGATACGAAGGGAAAGG-TTAAGGCCGT-A-A
258 TACCACGAAGAGACGAAGGG-AAGGATTAAGGCCGTGAGA
* * *
30683 CAGTAAACCCGGTACCTAAGAAGATATGATGGGAAAGGTTGAGGACGTAACGACGAACCTAGTAC
1 C-G--AACCCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGACGTAACGATGAACCCAGTAC
* * *
30748 CAGGAAGAGATGAAGGG-AAGGATTAAGG-T-CAAGACGGTGAA-TCCGGTACCTTAGAAGATGT
63 CATGAAGAGATGAAGGGAAAAG-TTAAGGCTAC-A-ACGGTGAACT-CGGTACCTAAGAAGATGT
* * * * *
30809 GATGGGAAAGGTTTAGGCCACAATGGTGAACCCGGTACCATGAAGATATGAAGGGAAAGGTTGAG
124 GATGGGAAAGGTTGAGGCCACAATGGCGAACCCAGTACCATGAAGAGATGAAGGGAAAGATTGAG
* * **
30874 GTCATAACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACGACGAAC
189 GTCATAACGATGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCACAACGACGAAC
** * *
30939 CCAGTACCATTAAGAGATGAAGGGAAGGATTGAGGCCGTGATGA
254 CCAGTACCACGAAGAGACGAAGGGAAGGATTAAGGCCGTGA-GA
* * * * * *
30983 CGAATCCGGTAACTTAGAAGGTGTGATGGGAAAGGTTGAGGCCGTAACGGTGAACCCAGTACCAT
1 CGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGACGTAACGATGAACCCAGTACCAT
* * * * * *
31048 GAAGATATGACGGGAAAGGTTGAGGCCACAACGATGAAC
66 GAAGAGATGAAGGGAAAAGTTAAGGCTACAACGGTGAAC
31087 CTAGCACCTT
Statistics
Matches: 336, Mismatches: 50, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
294 1 0.00
295 2 0.01
296 11 0.03
297 310 0.92
298 8 0.02
299 2 0.01
300 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.18
Consensus pattern (296 bp):
CGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGACGTAACGATGAACCCAGTACCAT
GAAGAGATGAAGGGAAAAGTTAAGGCTACAACGGTGAACTCGGTACCTAAGAAGATGTGATGGGA
AAGGTTGAGGCCACAATGGCGAACCCAGTACCATGAAGAGATGAAGGGAAAGATTGAGGTCATAA
CGATGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCACAACGACGAACCCAGTAC
CACGAAGAGACGAAGGGAAGGATTAAGGCCGTGAGA
Found at i:31465 original size:39 final size:39
Alignment explanation
Indices: 31413--31960 Score: 201
Period size: 39 Copynumber: 14.1 Consensus size: 39
31403 CAGTCATCCG
*
31413 ATCTTTTAACCCGAGCCTGAGGCAGATCACCATTAGCCA
1 ATCTTTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
* * * * *
31452 ATCTCTTACCCCGAGCATG-GGTAAATCACCATCAGCCA
1 ATCTTTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
* * * * *
31490 ATCTCTTACCTCGAGCCAG-GAGCAGATTGTAGCCATT---CG
1 ATCTTTTACCCCGAGCCTGAG-GCAGA-T-CA-CCATTAGCCA
* * * * *
31529 ATCTTTTACCCCGAGTCTGGGGTAGATCACCATCAGTCA
1 ATCTTTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
* * *
31568 ATCTCTTACCCCAAGCCT-AGGGCAGATTGCAACCATT---CG
1 ATCTTTTACCCCGAGCCTGA-GGCAGA-T-C-ACCATTAGCCA
* * * * *
31607 ATCTTTTACCCTGAG-CTCGGGGTAGATCACCATGAGCTA
1 ATCTTTTACCCCGAGCCT-GAGGCAGATCACCATTAGCCA
* * * *
31646 ATCTTTTACCCCAAG-CTTAGGGTAGATTACAGCCATT---CG
1 ATCTTTTACCCCGAGCCTGA-GGCAGA-T-CA-CCATTAGCCA
* *
31685 ATCTTTTACCCCAAGCCTG-GTGCAGATCACCATCAGCCA
1 ATCTTTTACCCCGAGCCTGAG-GCAGATCACCATTAGCCA
* * * *
31724 ATCTCTTACCCCGAGTCT-AGGGTAGATTGCAGCCATT---CG
1 ATCTTTTACCCCGAGCCTGA-GGCAGA-T-CA-CCATTAGCCA
* * * ** *
31763 ATCTTTTACCCCGAGCTTGGGGCATATCAATATTAGCTA
1 ATCTTTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
* * * *
31802 ATCTCTTACCTCGAGCCTGAGGCAAATTGCAGCCATT---CG
1 ATCTTTTACCCCGAGCCTGAGGCAGA-T-CA-CCATTAGCCA
* *
31841 ATCTTTTACCTCGAGCCT-AGGGCAGATCACCATCAGCCA
1 ATCTTTTACCCCGAGCCTGA-GGCAGATCACCATTAGCCA
* ** * * * *
31880 ATCTCTTACCCCGAGCCT-AGGGCAGATTGCAATCATCCG
1 ATCTTTTACCCCGAGCCTGA-GGCAGATCACCATTAGCCA
* * * *
31919 ATCTTTTACCCCGAGCTTGGGGCATATCACCATCAG-CA
1 ATCTTTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
31957 ATCT
1 ATCT
31961 CCTACCTTGA
Statistics
Matches: 373, Mismatches: 93, Indels: 87
0.67 0.17 0.16
Matches are distributed among these distances:
36 20 0.05
37 8 0.02
38 47 0.13
39 261 0.70
40 9 0.02
41 8 0.02
42 20 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (39 bp):
ATCTTTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
Found at i:31571 original size:78 final size:75
Alignment explanation
Indices: 31452--32006 Score: 554
Period size: 78 Copynumber: 7.1 Consensus size: 75
31442 CCATTAGCCA
* * * *
31452 ATCTCTTACCCCGAGCAT-GGGTAAATCACCATCAGCCAATCTCTTACCTCGAGCCAGGAGCAGA
1 ATCTTTTACCCCGAGC-TGGGGCAGATCACCATCAG-CAATCTCTTACCCCGAGCCAGG-GCAGA
*
31516 TTGTAGCCATTCG
63 TTGCAGCCATTCG
* *
31529 ATCTTTTACCCCGAGTCTGGGGTAGATCACCATCAGTCAATCTCTTACCCCAAGCCTAGGGCAGA
1 ATCTTTTACCCCGAG-CTGGGGCAGATCACCATCAG-CAATCTCTTACCCCGAGCC-AGGGCAGA
*
31594 TTGCAACCATTCG
63 TTGCAGCCATTCG
* * * * * * *
31607 ATCTTTTACCCTGAGCTCGGGGTAGATCACCATGAGCTAATCTTTTACCCCAAGCTTAGGGTAGA
1 ATCTTTTACCCCGAGCT-GGGGCAGATCACCATCAGC-AATCTCTTACCCCGAGC-CAGGGCAGA
*
31672 TTACAGCCATTCG
63 TTGCAGCCATTCG
* * * *
31685 ATCTTTTACCCCAAGCCTGGTGCAGATCACCATCAGCCAATCTCTTACCCCGAGTCTAGGGTAGA
1 ATCTTTTACCCCGAG-CTGGGGCAGATCACCATCAG-CAATCTCTTACCCCGAG-CCAGGGCAGA
31750 TTGCAGCCATTCG
63 TTGCAGCCATTCG
* ** * * * *
31763 ATCTTTTACCCCGAGCTTGGGGCATATCAATATTAGCTAATCTCTTACCTCGAGCCTGAGGCAAA
1 ATCTTTTACCCCGAGC-TGGGGCAGATCACCATCAGC-AATCTCTTACCCCGAGCCAG-GGCAGA
31828 TTGCAGCCATTCG
63 TTGCAGCCATTCG
* *
31841 ATCTTTTACCTCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGA
1 ATCTTTTACCCCGAG-CTGGGGCAGATCACCATCAG-CAATCTCTTACCCCGAGCC-AGGGCAGA
** *
31906 TTGCAATCATCCG
63 TTGCAGCCATTCG
* * ** ** *
31919 ATCTTTTACCCCGAGCTTGGGGCATATCACCATCAGCAATCTCCTACCTTGAGCTTGGAGCATAT
1 ATCTTTTACCCCGAGC-TGGGGCAGATCACCATCAGCAATCTCTTACCCCGAGCCAGG-GCAGAT
* *
31984 TGCAGTCATCCG
64 TGCAGCCATTCG
31996 ATCTTTTACCC
1 ATCTTTTACCC
32007 GGAACCTAAG
Statistics
Matches: 406, Mismatches: 55, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
76 2 0.00
77 65 0.16
78 329 0.81
79 10 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (75 bp):
ATCTTTTACCCCGAGCTGGGGCAGATCACCATCAGCAATCTCTTACCCCGAGCCAGGGCAGATTG
CAGCCATTCG
Found at i:31686 original size:156 final size:156
Alignment explanation
Indices: 31452--31966 Score: 624
Period size: 156 Copynumber: 3.3 Consensus size: 156
31442 CCATTAGCCA
* * * * * * * * *
31452 ATCTCTTACCCCGAGCAT-GGGTAAATCACCATCAGCCAATCTCTTACCTCGAGCCAG-GAGCAG
1 ATCTTTTACCCCGAGCTTGGGGCATATCACCATCAGCTAATCTCTTACCCCAAGCCTGAG-GCAA
** * * *
31515 ATTGTAGCCATTCGATCTTTTACCCCGAGTCTGGGGTAGATCACCATCAGTCAATCTCTTACCCC
65 ATTACAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCC
*
31580 AAGCCTAGGGCAGATTGCAACCATTCG
130 GAGCCTAGGGCAGATTGCAACCATTCG
* * * * * * * * *
31607 ATCTTTTACCCTGAGCTCGGGGTAGATCACCATGAGCTAATCTTTTACCCCAAG-CTTAGGGTAG
1 ATCTTTTACCCCGAGCTTGGGGCATATCACCATCAGCTAATCTCTTACCCCAAGCCTGA-GGCAA
* *
31671 ATTACAGCCATTCGATCTTTTACCCCAAGCCTGGTGCAGATCACCATCAGCCAATCTCTTACCCC
65 ATTACAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCC
* * *
31736 GAGTCTAGGGTAGATTGCAGCCATTCG
130 GAGCCTAGGGCAGATTGCAACCATTCG
** * * *
31763 ATCTTTTACCCCGAGCTTGGGGCATATCAATATTAGCTAATCTCTTACCTCGAGCCTGAGGCAAA
1 ATCTTTTACCCCGAGCTTGGGGCATATCACCATCAGCTAATCTCTTACCCCAAGCCTGAGGCAAA
* * *
31828 TTGCAGCCATTCGATCTTTTACCTCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCG
66 TTACAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCG
* *
31893 AGCCTAGGGCAGATTGCAATCATCCG
131 AGCCTAGGGCAGATTGCAACCATTCG
*
31919 ATCTTTTACCCCGAGCTTGGGGCATATCACCATCAGC-AATCTCCTACC
1 ATCTTTTACCCCGAGCTTGGGGCATATCACCATCAGCTAATCTCTTACC
31967 TTGAGCTTGG
Statistics
Matches: 305, Mismatches: 51, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
155 25 0.08
156 276 0.90
157 4 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (156 bp):
ATCTTTTACCCCGAGCTTGGGGCATATCACCATCAGCTAATCTCTTACCCCAAGCCTGAGGCAAA
TTACAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCG
AGCCTAGGGCAGATTGCAACCATTCG
Found at i:32103 original size:155 final size:155
Alignment explanation
Indices: 31452--32103 Score: 463
Period size: 156 Copynumber: 4.2 Consensus size: 155
31442 CCATTAGCCA
* * * * * * *
31452 ATCTCTTACCCCGAGCA-TGGGTAAATCACCATCAGCCAATCTCTTACCTCGAGCCAG-GAGCAG
1 ATCTCTTACCCCGACCACGGGGCAGATCACCATCAG-CAATCTCCTACCTCGAGCCTGAG-GCAA
* * * ** ** * *
31515 ATTGTAGCCATTCGATCTTTTACCCCGAGTCTGGGGTAGATCACCATCAGTCAATCTCTTACCCC
64 ATTGCAGCCATCCGATCTTTTACCTCGAACCTAAGGCAGATCACCATCAGCCAATCTCTTACCCC
* * **
31580 AAGCCTAGGGCAGATTGCAACCATTCG
129 GAGCCTAGGGCAGATTACAACCACCCG
* * * * * * ** * * * * *
31607 ATCTTTTACCCTGAGCTCGGGGTAGATCACCATGAGCTAATCTTTTACCCCAAG-CTTAGGGTAG
1 ATCTCTTACCCCGACCACGGGGCAGATCACCATCAGC-AATCTCCTACCTCGAGCCTGA-GGCAA
* * * *
31671 ATTACAGCCATTCGATCTTTTACC-CCAAGCCT-GGTGCAGATCACCATCAGCCAATCTCTTACC
64 ATTGCAGCCATCCGATCTTTTACCTCGAA-CCTAAG-GCAGATCACCATCAGCCAATCTCTTACC
* * * * **
31734 CCGAGTCTAGGGTAGATTGCAGCCATTCG
127 CCGAGCCTAGGGCAGATTACAACCACCCG
* * ** * ** * *
31763 ATCTTTTACCCCGAGCTTGGGGCATATCAATATTAGCTAATCTCTTACCTCGAGCCTGAGGCAAA
1 ATCTCTTACCCCGACCACGGGGCAGATCACCATCAGC-AATCTCCTACCTCGAGCCTGAGGCAAA
* * *
31828 TTGCAGCCATTCGATCTTTTACCTCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCG
65 TTGCAGCCATCCGATCTTTTACCTCGAACCTAAGGCAGATCACCATCAGCCAATCTCTTACCCCG
* * *
31893 AGCCTAGGGCAGATTGCAATCATCCG
130 AGCCTAGGGCAGATTACAACCACCCG
* * ** * * * *
31919 ATCTTTTACCCCGAGCTTGGGGCATATCACCATCAGCAATCTCCTACCTTGAGCTTG-GAGCATA
1 ATCTCTTACCCCGACCACGGGGCAGATCACCATCAGCAATCTCCTACCTCGAGCCTGAG-GCAAA
* * * * ** * *
31983 TTGCAGTCATCCGATCTTTTACC-CGGAACCTAAGGTAGATCACTATTAGTTAATCTTTTACCCT
65 TTGCAGCCATCCGATCTTTTACCTC-GAACCTAAGGCAGATCACCATCAGCCAATCTCTTACCCC
* * *
32047 GAGCCTTGGGCAGATTATAGCCACCCG
129 GAGCCTAGGGCAGATTACAACCACCCG
* *
32074 ATCTCTTACCCGGACCACGTGGCAGATCAC
1 ATCTCTTACCCCGACCACGGGGCAGATCAC
32104 AACCATCTAA
Statistics
Matches: 411, Mismatches: 75, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
154 2 0.00
155 136 0.33
156 265 0.64
157 8 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (155 bp):
ATCTCTTACCCCGACCACGGGGCAGATCACCATCAGCAATCTCCTACCTCGAGCCTGAGGCAAAT
TGCAGCCATCCGATCTTTTACCTCGAACCTAAGGCAGATCACCATCAGCCAATCTCTTACCCCGA
GCCTAGGGCAGATTACAACCACCCG
Found at i:32754 original size:16 final size:16
Alignment explanation
Indices: 32711--32755 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
32701 GTTTCTAACA
32711 GCCACCACCCACCCACTT
1 GCCACCA-CCA-CCACTT
* *
32729 GCCTCTACCACCACTT
1 GCCACCACCACCACTT
32745 GCCACCACCAC
1 GCCACCACCAC
32756 GTGATCACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 15 0.65
17 3 0.13
18 5 0.22
ACGTcount: A:0.22, C:0.58, G:0.07, T:0.13
Consensus pattern (16 bp):
GCCACCACCACCACTT
Found at i:33811 original size:30 final size:31
Alignment explanation
Indices: 33776--34093 Score: 331
Period size: 30 Copynumber: 10.7 Consensus size: 31
33766 CGCAAATGTT
* *
33776 TCCAAAATTACATTTTGACCCTTAAACTTTC
1 TCCAAAATTACATTTTAACCCTAAAACTTTC
* *
33807 -CCAAAATTATATTTTGACCC-AAAAC-TTC
1 TCCAAAATTACATTTTAACCCTAAAACTTTC
* *
33835 -CCAAAATCACATTTTGACCCTAAAAC-TTC
1 TCCAAAATTACATTTTAACCCTAAAACTTTC
* *
33864 TCCAAAATTACATTTTGACCCTCAAA-TTTC
1 TCCAAAATTACATTTTAACCCTAAAACTTTC
* * * *
33894 TCTAAAATCACATTTTAACCCCAAAAATTTC
1 TCCAAAATTACATTTTAACCCTAAAACTTTC
* * *
33925 TCCAAAGTTACATTTTAACCTTCAAAC-TTC
1 TCCAAAATTACATTTTAACCCTAAAACTTTC
* * *
33955 TCTAAAATTACATTTCAACCCTCAAA-TTTC
1 TCCAAAATTACATTTTAACCCTAAAACTTTC
** *
33985 TAAAAAATCACATTTTAACCCTAAAACTTTC
1 TCCAAAATTACATTTTAACCCTAAAACTTTC
34016 T--AAAATTACATTTTAACCCCT-AAA-TTTC
1 TCCAAAATTACATTTTAA-CCCTAAAACTTTC
*
34044 TCCAAAATTACATTTTAACCCTTAAAC-TTC
1 TCCAAAATTACATTTTAACCCTAAAACTTTC
34074 TCC-AAATTACATTTTAACCC
1 TCCAAAATTACATTTTAACCC
34094 CCAAACTCTC
Statistics
Matches: 248, Mismatches: 28, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
28 26 0.10
29 50 0.20
30 143 0.58
31 29 0.12
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (31 bp):
TCCAAAATTACATTTTAACCCTAAAACTTTC
Found at i:34012 original size:60 final size:59
Alignment explanation
Indices: 33779--34094 Score: 336
Period size: 59 Copynumber: 5.3 Consensus size: 59
33769 AAATGTTTCC
* * * * *
33779 AAAATTACATTTTGACCCTTAAACTTTC-CCAAAATTATATTTTGACCC-AAAACTTC-CC
1 AAAATTACATTTTAACCC-CAAA-TTTCTCCAAAATTACATTTTAACCCTAAAACTTCTCT
* * * * * * *
33837 AAAATCACATTTTGACCCTAAAACTTCTCCAAAATTACATTTTGACCCTCAAATTTCTCT
1 AAAATTACATTTTAACCC-CAAATTTCTCCAAAATTACATTTTAACCCTAAAACTTCTCT
* * * *
33897 AAAATCACATTTTAACCCCAAAAATTTCTCCAAAGTTACATTTTAACCTTCAAACTTCTCT
1 AAAATTACATTTTAACCCC--AAATTTCTCCAAAATTACATTTTAACCCTAAAACTTCTCT
* ** *
33958 AAAATTACATTTCAACCCTCAAATTTCTAAAAAATCACATTTTAACCCTAAAACTT-TCT
1 AAAATTACATTTTAACCC-CAAATTTCTCCAAAATTACATTTTAACCCTAAAACTTCTCT
*
34017 AAAATTACATTTTAACCCCTAAATTTCTCCAAAATTACATTTTAACCCTTAAACTTCTC-
1 AAAATTACATTTTAACCCC-AAATTTCTCCAAAATTACATTTTAACCCTAAAACTTCTCT
*
34076 CAAATTACATTTTAACCCC
1 AAAATTACATTTTAACCCC
34095 CAAACTCTCT
Statistics
Matches: 222, Mismatches: 28, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
57 3 0.01
58 41 0.18
59 76 0.34
60 50 0.23
61 51 0.23
62 1 0.00
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.35
Consensus pattern (59 bp):
AAAATTACATTTTAACCCCAAATTTCTCCAAAATTACATTTTAACCCTAAAACTTCTCT
Found at i:34254 original size:16 final size:16
Alignment explanation
Indices: 34216--34265 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
34206 TAGATTTGTG
34216 ATTCGTAT-TTTATT-
1 ATTCGTATATTTATTC
* *
34230 TTTCTTATATTTATTC
1 ATTCGTATATTTATTC
* *
34246 ATTCGTATAATTGTTC
1 ATTCGTATATTTATTC
34262 ATTC
1 ATTC
34266 TTTGACTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 16 0.57
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (16 bp):
ATTCGTATATTTATTC
Found at i:39322 original size:2 final size:2
Alignment explanation
Indices: 39317--39342 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39307 TATATATATA
39317 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
39343 AGTATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:39918 original size:2 final size:2
Alignment explanation
Indices: 39911--39935 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39901 TTTGTATGTG
39911 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
39936 TTGAAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.