Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007093.1 Hibiscus syriacus cultivar Beakdansim tig00018521_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: 109554
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:213 original size:19 final size:20
Alignment explanation
Indices: 189--228 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
179 ATTAAAATAT
*
189 TTTGTATAATCGAT-GATTA
1 TTTGTATAAGCGATGGATTA
208 TTTGTATAAGCGATGGATTA
1 TTTGTATAAGCGATGGATTA
228 T
1 T
229 ATATATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (20 bp):
TTTGTATAAGCGATGGATTA
Found at i:235 original size:20 final size:19
Alignment explanation
Indices: 193--235 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
183 AAATATTTTG
* * *
193 TATAATCGATGATTATTTG
1 TATAAGCGATGATTATATA
212 TATAAGCGATGGATTATATA
1 TATAAGCGAT-GATTATATA
232 TATA
1 TATA
236 TCATGATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (19 bp):
TATAAGCGATGATTATATA
Found at i:558 original size:8 final size:8
Alignment explanation
Indices: 541--577 Score: 65
Period size: 8 Copynumber: 4.5 Consensus size: 8
531 TTAAAGCATT
541 TTTTTAAAA
1 TTTTT-AAA
550 TTTTTAAA
1 TTTTTAAA
558 TTTTTAAA
1 TTTTTAAA
566 TTTTTAAA
1 TTTTTAAA
574 TTTT
1 TTTT
578 GTTATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 23 0.82
9 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTTAAA
Found at i:1085 original size:2 final size:2
Alignment explanation
Indices: 1078--1104 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1068 ATGCCTCCCA
1078 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 A
1105 ATAAGGTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3720 original size:19 final size:22
Alignment explanation
Indices: 3674--3720 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
3664 CTATACGGTA
*
3674 TGAACAATACCATGATCAGTGC
1 TGAACAATACCATGAACAGTGC
3696 TGAACAATA-CATGAACA-TG-
1 TGAACAATACCATGAACAGTGC
3715 TGAACA
1 TGAACA
3721 GTGTACCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 7 0.29
22 9 0.38
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (22 bp):
TGAACAATACCATGAACAGTGC
Found at i:3792 original size:20 final size:21
Alignment explanation
Indices: 3760--3802 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
3750 AATATAATTT
3760 GTGTATCGATGCACTGCTACA
1 GTGTATCGATGCACTGCTACA
3781 GTGTAT-GATGCACTGCTACA
1 GTGTATCGATGCACTGCTACA
3801 GT
1 GT
3803 ACTTTCGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (21 bp):
GTGTATCGATGCACTGCTACA
Found at i:4495 original size:20 final size:21
Alignment explanation
Indices: 4463--4502 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4453 AGGTAAATGG
4463 TCCATATGTCCCGAAAAACAA
1 TCCATATGTCCCGAAAAACAA
*
4484 TCCATA-GTCCCGAAGAACA
1 TCCATATGTCCCGAAAAACA
4503 TAGGTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.40, C:0.30, G:0.12, T:0.17
Consensus pattern (21 bp):
TCCATATGTCCCGAAAAACAA
Found at i:4497 original size:51 final size:51
Alignment explanation
Indices: 4433--4533 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
4423 GAATGATCAG
* * **
4433 TCCATAATTCCGAAGAACCTAGGTAAATGGTCCATATGTCCCGAAAAACAA
1 TCCATAATCCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAAAACAA
* * *
4484 TCCATAGTCCCGAAGAACATAGGTAAACAGTTCATATGTCCCGAAGAACA
1 TCCATAATCCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAAAACA
4534 TAGGTAAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.21
Consensus pattern (51 bp):
TCCATAATCCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAAAACAA
Found at i:4525 original size:31 final size:29
Alignment explanation
Indices: 4486--4567 Score: 116
Period size: 27 Copynumber: 2.9 Consensus size: 29
4476 AAAAACAATC
4486 CATA-GTCCCGAAGAACATAGGTAAACAG
1 CATATGTCCCGAAGAACATAGGTAAACAG
*
4514 TTCATATGTCCCGAAGAACATAGGTAAATAG
1 --CATATGTCCCGAAGAACATAGGTAAACAG
4545 --TATGTCCCGAAGAACATAGGTAA
1 CATATGTCCCGAAGAACATAGGTAA
4568 CCCTCGACCC
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
27 23 0.46
30 4 0.08
31 23 0.46
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (29 bp):
CATATGTCCCGAAGAACATAGGTAAACAG
Found at i:15783 original size:2 final size:2
Alignment explanation
Indices: 15776--15802 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15766 AATAAATCTG
15776 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 T
15803 TACGATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31120 original size:17 final size:17
Alignment explanation
Indices: 31098--31130 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31088 TGCAATTAGT
31098 ATTGAATGAAAAAATAA
1 ATTGAATGAAAAAATAA
31115 ATTGAATGAAAAAATA
1 ATTGAATGAAAAAATA
31131 GCTCACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
ATTGAATGAAAAAATAA
Found at i:45273 original size:33 final size:33
Alignment explanation
Indices: 45234--45301 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
45224 TAAATTGTTA
45234 ACACCGATTAAAAAATTTCGAACCAATCAAAAC
1 ACACCGATTAAAAAATTTCGAACCAATCAAAAC
45267 ACACCGATTAAAAAATTTCGAACCAATCAAAAC
1 ACACCGATTAAAAAATTTCGAACCAATCAAAAC
45300 AC
1 AC
45302 GTTACATTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.51, C:0.25, G:0.06, T:0.18
Consensus pattern (33 bp):
ACACCGATTAAAAAATTTCGAACCAATCAAAAC
Found at i:50627 original size:24 final size:24
Alignment explanation
Indices: 50595--50644 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
50585 GTCCCCAACA
50595 CCCAACACAGGTCGCCATGCACTC
1 CCCAACACAGGTCGCCATGCACTC
*
50619 CCCAACACATGTCGCCATGCACTC
1 CCCAACACAGGTCGCCATGCACTC
50643 CC
1 CC
50645 AGCGACCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.48, G:0.14, T:0.14
Consensus pattern (24 bp):
CCCAACACAGGTCGCCATGCACTC
Found at i:50929 original size:29 final size:29
Alignment explanation
Indices: 50880--50962 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
50870 TAATGGCCAT
* * *
50880 AGGTCGCCGGGACTGCTTGGCGACCTACA
1 AGGTCGCTGGGAGTGCATGGCGACCTACA
***
50909 AGGTCGCTGGGAGTGCATGGCGACCTTGT
1 AGGTCGCTGGGAGTGCATGGCGACCTACA
*
50938 AGGTCGTTGGGAG-GCATGGCGACCT
1 AGGTCGCTGGGAGTGCATGGCGACCT
50963 GTGTTGGGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 12 0.26
29 35 0.74
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (29 bp):
AGGTCGCTGGGAGTGCATGGCGACCTACA
Found at i:51010 original size:32 final size:31
Alignment explanation
Indices: 50917--51022 Score: 130
Period size: 32 Copynumber: 3.4 Consensus size: 31
50907 CAAGGTCGCT
*
50917 GGGAGTGCATGGCGACCT-TG-TAGGTCGTT-
1 GGGAGTGCATGGCGACCTGTGTTGGGT-GTTG
50946 GGGAG-GCATGGCGACCTGTGTTGGGGTGTTG
1 GGGAGTGCATGGCGACCTGTGTT-GGGTGTTG
50977 GGGACGTGCATGGCGACCTGTGTTGGGTGTTG
1 GGGA-GTGCATGGCGACCTGTGTTGGGTGTTG
*
51009 GGGACATGCATGGC
1 GGGA-GTGCATGGC
51023 ACATGCAGAC
Statistics
Matches: 69, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
28 12 0.17
29 7 0.10
30 4 0.06
31 7 0.10
32 22 0.32
33 17 0.25
ACGTcount: A:0.12, C:0.16, G:0.46, T:0.25
Consensus pattern (31 bp):
GGGAGTGCATGGCGACCTGTGTTGGGTGTTG
Found at i:59263 original size:225 final size:224
Alignment explanation
Indices: 58918--59340 Score: 640
Period size: 225 Copynumber: 1.9 Consensus size: 224
58908 TCGGGTCGGG
58918 TCGGGTCGGGGTCGGGTTCGGGTTTAGAGTGAAAAAAATCGGACCGACCCGAATATATATATATA
1 TCGGGTCGGGGTCGGGTTCGGGTTTAGAGTGAAAAAAATCGGACCGACCCGAATATATATATATA
* * * *
58983 ATTTAGGTCGGATTAAGTCATTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGG
66 ATTTAGGTCGGAATAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGAG
* *
59048 TC-GGATTGAATTTCTAATTCATATATTCGGGTCGGGTTGGATGAAACTTTATTTTGTTCGGGTA
131 TCAGG-TCGAATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTA
59112 GGGTCGGGTCGGGTTTTTTAAGTGTGATAT
195 GGGTCGGGTCGGGTTTTTTAAGTGTGATAT
* *
59142 TCGGGTC-GGGTCGGGTTCGGGTTTAGGGT-AAAAAAATCGGATCGACCCGAA-A-ATATATATA
1 TCGGGTCGGGGTCGGGTTCGGGTTTAGAGTGAAAAAAATCGGACCGACCCGAATATATATATATA
* * *
59203 ATTCGGGTCGGGTCGGAATAAGTCACTATTTTTCTTAAATAAAAATATTTTTTTATTATTTCGGG
66 ATT----T-AGGTCGGAATAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGGG
*
59268 TCGAGTCAGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCG
126 TCGAGTCAGGTCGAATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCG
*
59333 GGTCGGGT
191 GGTAGGGT
59341 TCAGGTTTAG
Statistics
Matches: 180, Mismatches: 13, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
220 12 0.07
221 1 0.01
222 21 0.12
223 21 0.12
224 8 0.04
225 115 0.64
226 2 0.01
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.37
Consensus pattern (224 bp):
TCGGGTCGGGGTCGGGTTCGGGTTTAGAGTGAAAAAAATCGGACCGACCCGAATATATATATATA
ATTTAGGTCGGAATAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGAG
TCAGGTCGAATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTAG
GGTCGGGTCGGGTTTTTTAAGTGTGATAT
Found at i:59387 original size:184 final size:183
Alignment explanation
Indices: 59147--59524 Score: 630
Period size: 184 Copynumber: 2.1 Consensus size: 183
59137 GATATTCGGG
* * * *
59147 TCGGGTCGGGTTCGGGTTTAGGGTAAAAAAATCGGATCGACCCGAAAATATATATAATTCGGGTC
1 TCGGGTCGGGTTCAGGTTTAGGGTAAAAAAACCGGACCGACCCGAAAATATATATAAATCGGGTC
* * *
59212 GGGTCGGAATAAGTCACTATTTTTCTTAAATAAAAATATTTTTTTATTATTTCGGGTCGAGTCAG
66 GGGTCGGAATAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGAGTCAG
59277 GTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGT
131 GTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGT
59330 TCGGGTCGGGTTCAGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAAATCGGGT
1 TCGGGTCGGGTTCAGGTTTAGGGT-AAAAAAACCGGACCGACCCGAAAATATATATAAATCGGGT
* * * *
59395 CGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCG
65 CGGGTCGGAATAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGAGTCA
* *
59460 GGTTGGATTTCTAATTTATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGT
130 GGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGT
59514 TCGGGTCGGGT
1 TCGGGTCGGGT
59525 CGGGTTTTTT
Statistics
Matches: 181, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
183 23 0.13
184 158 0.87
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (183 bp):
TCGGGTCGGGTTCAGGTTTAGGGTAAAAAAACCGGACCGACCCGAAAATATATATAAATCGGGTC
GGGTCGGAATAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGAGTCAG
GTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGT
Found at i:59646 original size:214 final size:215
Alignment explanation
Indices: 59344--59775 Score: 733
Period size: 214 Copynumber: 2.0 Consensus size: 215
59334 GTCGGGTTCA
*
59344 GGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAAATCGGGTCGGGTCGGATTAAG
1 GGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAATATATATAAATCGGGTCGGGTCGGATTAAG
*
59409 TCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCGGGTTGGATTTCTAA
66 TCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCGGGTCGGATTTCTAA
* *
59474 TTTATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGT
131 TTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTAGGGTCGGGTTTTTTAAGT
* *
59539 GTGATA-CTTGGGTCGTGTCG
196 GTGATATC-CGGGTCGAGTCG
* * *
59559 GGTTTAGGGT-AAAAAAATCAGATCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAG
1 GGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAATATATATAAATCGGGTCGGGTCGGATTAAG
* * *
59623 TCACTGTTTTTCTTAAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAA
66 TCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCGGGTCGGATTTCTAA
59688 TTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTAGGGTCGGGTTTTTTAAGT
131 TTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTAGGGTCGGGTTTTTTAAGT
59753 GTGATATCCGGGTCGAGTCG
196 GTGATATCCGGGTCGAGTCG
59773 GGT
1 GGT
59776 CGGGTTTTTT
Statistics
Matches: 204, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
214 193 0.95
215 11 0.05
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (215 bp):
GGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAATATATATAAATCGGGTCGGGTCGGATTAAG
TCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCGGGTCGGATTTCTAA
TTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTAGGGTCGGGTTTTTTAAGT
GTGATATCCGGGTCGAGTCG
Found at i:59693 original size:398 final size:399
Alignment explanation
Indices: 58926--59738 Score: 1314
Period size: 398 Copynumber: 2.0 Consensus size: 399
58916 GGTCGGGTCG
* * * *
58926 GGGTCGGGTTCGGGTTTAGAGTGAAAAAAATCGGACCGACCCGAATATATATATATAATTTAGGT
1 GGGTCGGGTTCAGGTTTAGAGTGAAAAAAACCGGACCGACCCGAAAATATATATATAATTCAGGT
* *
58991 CGGATTAAGTCATTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTG
66 CGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCGGATTG
*
59056 AATTTCTAATTCATATATTCGGGTCGGGTTGGATGAAACTTTATTTTGTTCGGGTAGGGTCGGGT
131 AATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTC--G--GGGTCGGGT
*
59121 CGGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTAAAAAAATCGGATCG
192 CGGGTTTTTTAAGTGTGATATTCGGGTC-GGT--GGTTCGGGTTTAGGGTAAAAAAATCAGATCG
59186 ACCCGAAAATATATATAATTCGGGTCGGGTCGGAATAAGTCACTATTTTTCTTAAATAAAAATAT
254 ACCCGAAAATATATATAATTCGGGTCGGGTCGGAATAAGTCACTATTTTTCTTAAATAAAAATAT
59251 TTTTTTATTATTTCGGGTCGAGTCAGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATG
319 TTTTTTATTATTTCGGGTCGAGTCAGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATG
59316 AAACTTTATTTTGTTC
384 AAACTTTATTTTGTTC
*
59332 GGGTCGGGTTCAGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATA-AATCGGGTC
1 GGGTCGGGTTCAGGTTTAGAGTGAAAAAAACCGGACCGACCCGAAAATATATATATAAT----TC
*
59396 GGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCGG
62 AGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCGG
* * *
59461 GTTGGATTTCTAATTTATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTC-GGGTCGGGT
127 ATTGAATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGGTCGGGT
59525 CGGGTTTTTTAAGTGTGATACTT-GGGTC-GT-G-TCGGGTTTAGGGTAAAAAAATCAGATCGAC
192 CGGGTTTTTTAAGTGTGATA-TTCGGGTCGGTGGTTCGGGTTTAGGGTAAAAAAATCAGATCGAC
* *
59586 CCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTCTTAAATAAAAATATTT
256 CCGAAAATATATATAATTCGGGTCGGGTCGGAATAAGTCACTATTTTTCTTAAATAAAAATATTT
* *
59651 TTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAA
321 TTTTATTATTTCGGGTCGAGTCAGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAA
59716 ACTTTATTTTGTTC
386 ACTTTATTTTGTTC
*
59730 GGGTAGGGT
1 GGGTCGGGT
59739 CGGGTTTTTT
Statistics
Matches: 384, Mismatches: 18, Indels: 18
0.91 0.04 0.04
Matches are distributed among these distances:
398 177 0.46
399 1 0.00
402 2 0.01
404 34 0.09
405 5 0.01
406 51 0.13
409 114 0.30
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (399 bp):
GGGTCGGGTTCAGGTTTAGAGTGAAAAAAACCGGACCGACCCGAAAATATATATATAATTCAGGT
CGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCGGATTG
AATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGGTCGGGTCGGG
TTTTTTAAGTGTGATATTCGGGTCGGTGGTTCGGGTTTAGGGTAAAAAAATCAGATCGACCCGAA
AATATATATAATTCGGGTCGGGTCGGAATAAGTCACTATTTTTCTTAAATAAAAATATTTTTTTA
TTATTTCGGGTCGAGTCAGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTT
ATTTTGTTC
Found at i:59811 original size:38 final size:37
Alignment explanation
Indices: 59728--59813 Score: 118
Period size: 38 Copynumber: 2.3 Consensus size: 37
59718 TTTATTTTGT
* * *
59728 TCGGGTAGGGTCGGGTTTTTTAAGTGTGATATCCGGG
1 TCGGGTCGGGTCGGGTTTTTTAAGTGTAATATCCGAG
* *
59765 TCGAGTCGGGTCGGGTTTTTTTAAGTGTAATATTCGAG
1 TCGGGTCGGGTCGGG-TTTTTTAAGTGTAATATCCGAG
59803 TCGGGTCGGGT
1 TCGGGTCGGGT
59814 TTAGGGTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 13 0.31
38 29 0.69
ACGTcount: A:0.14, C:0.12, G:0.38, T:0.36
Consensus pattern (37 bp):
TCGGGTCGGGTCGGGTTTTTTAAGTGTAATATCCGAG
Found at i:60017 original size:254 final size:252
Alignment explanation
Indices: 59518--60285 Score: 1221
Period size: 254 Copynumber: 3.0 Consensus size: 252
59508 TTTTGTTCGG
* *
59518 GTCGGGTCGGGTTTTTTAAGTGTGATACTT-GGGTCGTGTCGGGTTTAGGGT-AAAAAAATCAGA
1 GTCGGGTCGGGTTTTTTAAGTGTAATA-TTCGGGTCGGGTCGGGTTTAGGGTGAAAAAAATCAGA
59581 TCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTCTTAAATAAAAA
65 TCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTCTTAAATAAAAA
59646 TATTTTTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGG
130 TATTTTTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGG
59711 ATGAAACTTTATTTTGTTCGGGTAGGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGA
195 ATGAAACTTTATTTTGTTCGGGTAGGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGA
*
59769 GTCGGGTCGGGTTTTTTTAAGTGTAATATTCGAGTCGGGTCGGGTTTAGGGTGAAAAAAATCAGA
1 GTCGGGTCGGG-TTTTTTAAGTGTAATATTCGGGTCGGGTCGGGTTTAGGGTGAAAAAAATCAGA
59834 TCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTCTTAAATAAAAA
65 TCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTCTTAAATAAAAA
59899 TATTTTTTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCG
130 TA-TTTTTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCG
59964 GATGAAACTTTATTTTGTTCGGGTAGGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGA
194 GATGAAACTTTATTTTGTTCGGGTAGGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGA
*
60023 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGTGTCGGGTCGGGTCGGGTTTAGGGTG-AA
1 GTCGGGTCGGGTTTTTTAAGTGT-A-A------T-AT-TCGGGTCGGGTCGGGTTTAGGGTGAAA
* * *
60087 AAAATCAGACCGACCCAAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATT
56 AAAATCAGATCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTCTT
** * *
60152 AAATAAAAATATTTTTTTATTA-TT----TCAAGTCGGATCGAATTTCTAATTCATATATTCGGG
121 AAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGG
* * *
60212 TCGGGTCGGATGAAACTTTATTTTGTTCAGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTC
186 TCGGGTCGGATGAAACTTTATTTTGTTCGGGTAGGGTCGGGTTTTTTAAGTGTGATATCCGGGTC
60277 -A
251 GA
60278 GGTCGGGT
1 -GTCGGGT
60286 TCCGGTTTAG
Statistics
Matches: 487, Mismatches: 15, Indels: 25
0.92 0.03 0.05
Matches are distributed among these distances:
251 13 0.03
252 34 0.07
253 91 0.19
254 133 0.27
255 2 0.00
256 101 0.21
260 2 0.00
261 12 0.02
262 76 0.16
263 23 0.05
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (252 bp):
GTCGGGTCGGGTTTTTTAAGTGTAATATTCGGGTCGGGTCGGGTTTAGGGTGAAAAAAATCAGAT
CGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTCTTAAATAAAAAT
ATTTTTTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGA
TGAAACTTTATTTTGTTCGGGTAGGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGA
Found at i:60029 original size:42 final size:41
Alignment explanation
Indices: 59982--60078 Score: 130
Period size: 37 Copynumber: 2.4 Consensus size: 41
59972 TTTATTTTGT
59982 TCGGGTAGGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGAG
1 TCGGGT-GGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGAG
* *
60024 TC----GGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGTG
1 TCGGGTGGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGAG
60061 TCGGGTCGGGTCGGGTTT
1 TCGGGT-GGGTCGGGTTT
60079 AGGGTGAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
37 35 0.73
42 13 0.27
ACGTcount: A:0.10, C:0.12, G:0.41, T:0.36
Consensus pattern (41 bp):
TCGGGTGGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGAG
Found at i:60033 original size:37 final size:37
Alignment explanation
Indices: 59989--60071 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
59979 TGTTCGGGTA
59989 GGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGAGTC
1 GGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGAGTC
* *
60026 GGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGTGTC
1 GGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGAGTC
60063 GGGTCGGGT
1 GGGTCGGGT
60072 CGGGTTTAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.11, C:0.12, G:0.41, T:0.36
Consensus pattern (37 bp):
GGGTCGGGTTTTTTAAGTGTGATATCCGGGTCGAGTC
Found at i:60425 original size:17 final size:17
Alignment explanation
Indices: 60383--60430 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
60373 CTCTATATAT
*
60383 AATTTTTTTAATTAAATC
1 AATTTTTTT-ATTAAATA
* *
60401 AATGTTTTTATTGAATA
1 AATTTTTTTATTAAATA
60418 AATTTTTTTATTA
1 AATTTTTTTATTA
60431 TTATTTTGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (17 bp):
AATTTTTTTATTAAATA
Found at i:62297 original size:26 final size:26
Alignment explanation
Indices: 62251--62306 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
62241 TTATAATATT
*
62251 TAATAGAAAACGTTTGAATCACAC-AA
1 TAATAGAAAACGTTAGAATCAC-CTAA
*
62277 TAATCGAAAACGCTTAG-ATCACCTAA
1 TAATAGAAAACG-TTAGAATCACCTAA
62303 TAAT
1 TAAT
62307 TTTTAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 22 0.85
27 3 0.12
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (26 bp):
TAATAGAAAACGTTAGAATCACCTAA
Found at i:64212 original size:26 final size:26
Alignment explanation
Indices: 64182--64233 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
64172 GTAATTAAAG
64182 GGAATGTTGATCTTGTTCTTTAAAAC
1 GGAATGTTGATCTTGTTCTTTAAAAC
64208 GGAATGTTGATCTTGTTCTTTAAAAC
1 GGAATGTTGATCTTGTTCTTTAAAAC
64234 TTCTGAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (26 bp):
GGAATGTTGATCTTGTTCTTTAAAAC
Found at i:69633 original size:14 final size:14
Alignment explanation
Indices: 69610--69645 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
69600 GTGTCACGTC
69610 TTTC-ATTATTACT
1 TTTCTATTATTACT
69623 TTTCTATTATTACT
1 TTTCTATTATTACT
*
69637 TGTCTATTA
1 TTTCTATTA
69646 GCCTTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.22, C:0.14, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTCTATTATTACT
Found at i:69822 original size:23 final size:23
Alignment explanation
Indices: 69796--69840 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
69786 ATTATATTAT
*
69796 ATTTATTT-AATATTTAATTATTG
1 ATTT-TTTAAATATTCAATTATTG
69819 ATTTTTTAAATATTCAATTATT
1 ATTTTTTAAATATTCAATTATT
69841 TTATCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTTTTAAATATTCAATTATTG
Found at i:70182 original size:8 final size:8
Alignment explanation
Indices: 70131--70187 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
70121 TCTACTACAT
70131 CTCTCAAA
1 CTCTCAAA
70139 CTTCTCAAA
1 C-TCTCAAA
*
70148 C-CGTCTAA
1 CTC-TCAAA
*
70156 CTCTCAAT
1 CTCTCAAA
* *
70164 CTTTGAAA
1 CTCTCAAA
70172 CTCTCAAA
1 CTCTCAAA
70180 CTCTCAAA
1 CTCTCAAA
70188 ATGATGTGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
7 1 0.03
8 28 0.74
9 9 0.24
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (8 bp):
CTCTCAAA
Found at i:72404 original size:20 final size:20
Alignment explanation
Indices: 72379--72430 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
72369 TTATATGTCA
72379 TTGGATCTCTAAGTTGAGAG
1 TTGGATCTCTAAGTTGAGAG
72399 TTGGATCTCTAAGTTGAGAG
1 TTGGATCTCTAAGTTGAGAG
72419 TTGGATCTCTAA
1 TTGGATCTCTAA
72431 ATTTATCGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.37
Consensus pattern (20 bp):
TTGGATCTCTAAGTTGAGAG
Found at i:72713 original size:2 final size:2
Alignment explanation
Indices: 72708--72738 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
72698 ATATAACTGT
72708 TA 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 TA T
72739 GTAATTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72831 original size:22 final size:21
Alignment explanation
Indices: 72777--72831 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
72767 ATTTATCAAA
* *
72777 TAAATTTAAATTTGATTTTGT
1 TAAATTTAAATTTGATTATAT
*
72798 TAAATTTAAAATTTTATTATAT
1 TAAATTT-AAATTTGATTATAT
72820 TCAAATTTAAAT
1 T-AAATTTAAAT
72832 AATTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.24
22 16 0.55
23 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (21 bp):
TAAATTTAAATTTGATTATAT
Found at i:84939 original size:53 final size:53
Alignment explanation
Indices: 84865--84971 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
84855 TTTTTTACCA
*
84865 GTTAGATACTTAGAGCTCAATGAAATTAAGTGCGTTTGTTATTTCAGTTTTTT
1 GTTAGATACATAGAGCTCAATGAAATTAAGTGCGTTTGTTATTTCAGTTTTTT
84918 GTTAGATACATAGAGCTCAATGAAATTAAGTGCGTTTGTTATTTCAGTTTTTT
1 GTTAGATACATAGAGCTCAATGAAATTAAGTGCGTTTGTTATTTCAGTTTTTT
84971 G
1 G
84972 CAGAATATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (53 bp):
GTTAGATACATAGAGCTCAATGAAATTAAGTGCGTTTGTTATTTCAGTTTTTT
Found at i:88591 original size:17 final size:17
Alignment explanation
Indices: 88557--88590 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
88547 GTCCCCCTTA
88557 TCAATCTTATATATTTT
1 TCAATCTTATATATTTT
88574 TCAAT-TTATATATTTT
1 TCAATCTTATATATTTT
88590 T
1 T
88591 TATTAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (17 bp):
TCAATCTTATATATTTT
Found at i:88646 original size:35 final size:35
Alignment explanation
Indices: 88576--88646 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
88566 TATATTTTTC
** **
88576 AATTTATATATTTTTTATTAAATTTAAATTTATAA
1 AATTTATATATTTTTTACAAAATTTAAATAGATAA
88611 AATTTATATAATTTTTTACAAAATTTAAA-AGATAA
1 AATTTATAT-ATTTTTTACAAAATTTAAATAGATAA
88646 A
1 A
88647 TCAGTGGAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 14 0.45
36 17 0.55
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (35 bp):
AATTTATATATTTTTTACAAAATTTAAATAGATAA
Found at i:89479 original size:16 final size:17
Alignment explanation
Indices: 89444--89488 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
89434 TATGGGATGA
89444 AAAAATAGTATTATTGT
1 AAAAATAGTATTATTGT
89461 AAAAAT-GTAATTATT-T
1 AAAAATAGT-ATTATTGT
*
89477 AAAAATAATATT
1 AAAAATAGTATT
89489 TTACTACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
AAAAATAGTATTATTGT
Found at i:89516 original size:13 final size:14
Alignment explanation
Indices: 89498--89526 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
89488 TTTACTACCA
89498 TAATATTAT-TTTT
1 TAATATTATATTTT
89511 TAATATTATATTTT
1 TAATATTATATTTT
89525 TA
1 TA
89527 GATAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAATATTATATTTT
Found at i:103441 original size:15 final size:15
Alignment explanation
Indices: 103417--103450 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
103407 CCGTAGGACC
103417 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
103432 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
103447 ACTA
1 ACTA
103451 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:103577 original size:29 final size:29
Alignment explanation
Indices: 103535--103615 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
103525 TTCCATATGT
103535 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
103563 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
103592 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
103616 ATATCACATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 7 0.14
29 39 0.76
30 5 0.10
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:104061 original size:64 final size:63
Alignment explanation
Indices: 103992--104148 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 63
103982 TAATGAAGGT
**
103992 ATGCATCGATGCACTACTTGTGCTTCGATGCA-TAAAATGCATTCGA-TGTTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCTTCGATGCACT-AAATGCATTCGATTGTTTTATT-TTAA-AA
104055 G
63 G
* * * *
104056 ATGCATCGATGCA-TGCCTTATG-TATCGATGCACTAATTGCATTCGATTTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCT-TCGATGCACTAAATGCATTCGATTGTTTTATTTTAAAAG
*
104119 AGTGCATCGATGCACTACTTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCTTCGAT
104149 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
63 4 0.05
64 63 0.82
65 10 0.13
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCTTCGATGCACTAAATGCATTCGATTGTTTTATTTTAAAAG
Found at i:104974 original size:14 final size:14
Alignment explanation
Indices: 104955--104981 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
104945 ATAATTCGAG
104955 TTGACTCGAATAAC
1 TTGACTCGAATAAC
104969 TTGACTCGAATAA
1 TTGACTCGAATAA
104982 GAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (14 bp):
TTGACTCGAATAAC
Found at i:105204 original size:7 final size:7
Alignment explanation
Indices: 105192--105221 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
105182 GAATAGCTGA
*
105192 TAAACCC
1 TAAACCT
105199 TAAACCT
1 TAAACCT
105206 TAAACCT
1 TAAACCT
105213 TAAACCT
1 TAAACCT
105220 TA
1 TA
105222 TCCCTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAACCT
Found at i:108658 original size:14 final size:14
Alignment explanation
Indices: 108639--108666 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
108629 CTGATAACCC
108639 GTCACAAGTGGTTA
1 GTCACAAGTGGTTA
108653 GTCACAAGTGGTTA
1 GTCACAAGTGGTTA
108667 AACCTGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (14 bp):
GTCACAAGTGGTTA
Done.