Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_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: 3152351
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 2 of 17
Found at i:208180 original size:32 final size:32
Alignment explanation
Indices: 208144--208216 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
208134 GTATATTGTC
*
208144 TGAATGTAAGATTAACTCTGATATGCATTATA
1 TGAATGCAAGATTAACTCTGATATGCATTATA
* * *
208176 TGAATACAAGATTAACTCTGGTATGCATTATT
1 TGAATGCAAGATTAACTCTGATATGCATTATA
208208 TGAATGCAA
1 TGAATGCAA
208217 TACTGATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (32 bp):
TGAATGCAAGATTAACTCTGATATGCATTATA
Found at i:211885 original size:22 final size:22
Alignment explanation
Indices: 211860--211906 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
211850 AATAACCAAC
*
211860 AAATTCACAACGCGGTTCTCCA
1 AAATTCACAACGCGATTCTCCA
* *
211882 AAA-TCGCAACGTGATTCTCCA
1 AAATTCACAACGCGATTCTCCA
211903 AAAT
1 AAAT
211907 CGCAACGTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (22 bp):
AAATTCACAACGCGATTCTCCA
Found at i:211891 original size:21 final size:21
Alignment explanation
Indices: 211867--211918 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
211857 AACAAATTCA
*
211867 CAACGCGGTTCTCCAAAATCG
1 CAACGTGGTTCTCCAAAATCG
*
211888 CAACGTGATTCTCCAAAATCG
1 CAACGTGGTTCTCCAAAATCG
211909 CAACGTGGTT
1 CAACGTGGTT
211919 TTTAAATTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (21 bp):
CAACGTGGTTCTCCAAAATCG
Found at i:212240 original size:38 final size:37
Alignment explanation
Indices: 212183--212259 Score: 109
Period size: 38 Copynumber: 2.1 Consensus size: 37
212173 TCTGGTAAAA
* *
212183 TTGGAGAAACGCGAATTTAGAGAATCGTGTTACGAAT
1 TTGGAGAAACACGAATTTAGAGAATCGCGTTACGAAT
* *
212220 TTGGAGAAAACACGAATTTAGATAATCGCGTTGCGAAT
1 TTGGAG-AAACACGAATTTAGAGAATCGCGTTACGAAT
212258 TT
1 TT
212260 AAAAACTGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 6 0.17
38 29 0.83
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (37 bp):
TTGGAGAAACACGAATTTAGAGAATCGCGTTACGAAT
Found at i:212508 original size:20 final size:21
Alignment explanation
Indices: 212436--212495 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
212426 AAAACAAAAT
212436 TCGCGTTGCGATTTTGGAGAA
1 TCGCGTTGCGATTTTGGAGAA
*
212457 TCACGTTGCGATTTTGGAGAA
1 TCGCGTTGCGATTTTGGAGAA
212478 TCGCGTTGCGATTTTGGA
1 TCGCGTTGCGATTTTGGA
212496 AACTGTGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.18, C:0.15, G:0.32, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATTTTGGAGAA
Found at i:215722 original size:11 final size:10
Alignment explanation
Indices: 215697--215725 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
215687 TATGAATACA
215697 TAAAAATATT
1 TAAAAATATT
215707 TAAAAATATT
1 TAAAAATATT
215717 TAAAAATAT
1 TAAAAATAT
215726 AAACAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAAATATT
Found at i:215733 original size:20 final size:20
Alignment explanation
Indices: 215697--215734 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
215687 TATGAATACA
*
215697 TAAAAATATTTAAAAATATT
1 TAAAAATATTAAAAAATATT
215717 TAAAAATA-TAAACAAATA
1 TAAAAATATTAAA-AAATA
215735 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAATATTAAAAAATATT
Found at i:217123 original size:3 final size:3
Alignment explanation
Indices: 217115--217160 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
217105 ATTTAATATT
*
217115 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
217161 TAATTAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:217615 original size:111 final size:112
Alignment explanation
Indices: 217470--217919 Score: 555
Period size: 111 Copynumber: 4.0 Consensus size: 112
217460 TCTCCTTCTG
* ** * *
217470 TGATAGAATT-ATGCAAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAG
1 TGAT-GAATTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
217534 ATGAGTTCTTCTCATTATGAAC-TTCTCTGAAAATG-TGATCCATCAA
65 ATGAGTTCTTCTCATTATGAACTTTCTCTGAAAATGCTGATCCATCAA
*
217580 TTGATGAATTCATGTAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 -TGATGAATTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
217645 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA-GCTGATCCATCTAA
65 ATGAGTTCTTCTCATTATGAACTTTCTCT-GAAAATGCTGATCCATC-AA
* *
217694 TGATGGATTGA-GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAG
1 TGATGAATTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAG
* ** *
217757 ATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGTAATGTTGATCCATCAA
65 AT---GAGTTCTTCTCATTATGAACT-TTCTCTGAAAATGCTGATCCATCAA
** * * *
217808 --ATGAATTCAAACAAAA-GTTGAACAA-ATTTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* *
217869 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATG-TCAATCCATCAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGAAAATGCT-GATCCATCAA
217916 TGAT
1 TGAT
217920 AGATTGAGTC
Statistics
Matches: 300, Mismatches: 22, Indels: 35
0.84 0.06 0.10
Matches are distributed among these distances:
107 3 0.01
108 38 0.13
110 7 0.02
111 107 0.36
112 75 0.25
113 28 0.09
114 7 0.02
115 33 0.11
116 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (112 bp):
TGATGAATTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTTTCTCTGAAAATGCTGATCCATCAA
Found at i:217877 original size:223 final size:220
Alignment explanation
Indices: 217482--217927 Score: 607
Period size: 223 Copynumber: 2.0 Consensus size: 220
217472 ATAGAATTAT
* * *
217482 GCAAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*** *
217547 ATTATGAACTTCTCTGAAAATGTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAGCT
66 ATTATGAACTTCTCTGAAAATGTGATCCATCAA-T-ATGAATTCAAACAAAAGGTTGAACAAGAT
217612 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
129 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
* *
217677 AAAG-CTGATCCATCTAATGATGGATTGA
194 AAAGTC-AATCCATC-AATGATAGATTGA
* *
217705 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGACGAGTTCT
1 GCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGAT---GAGTTCT
**
217769 TCTCATTATGAAC-TCTACCTGGTAATGTTGATCCATCAA-ATGAATTCAAACAAAA-GTTGAAC
62 TCTCATTATGAACTTCT--CTGAAAATG-TGATCCATCAATATGAATTCAAACAAAAGGTTGAAC
* *
217831 AA-ATTTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
124 AAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
*
217895 CTGGAAATGTCAATCCATCAATGATAGATTGA
189 CTGGAAAAGTCAATCCATCAATGATAGATTGA
217927 G
1 G
217928 TCTTTGCTAA
Statistics
Matches: 199, Mismatches: 16, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
222 14 0.07
223 121 0.61
224 10 0.05
225 16 0.08
226 20 0.10
227 7 0.04
228 11 0.06
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (220 bp):
GCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTCTCTGAAAATGTGATCCATCAATATGAATTCAAACAAAAGGTTGAACAAGATCT
TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
AGTCAATCCATCAATGATAGATTGA
Found at i:219016 original size:83 final size:83
Alignment explanation
Indices: 218651--219352 Score: 1283
Period size: 83 Copynumber: 8.5 Consensus size: 83
218641 GTTCTTACCA
* *
218651 AACCAGATCAAATAACTCAAAGAACACTTCTAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
218716 CAATGATT-GTTCTGTCC
66 CAATGATTGGTTCTGTCC
*
218733 AACCAGATCAGATAACTCAAAGAACAC-TCCAGAAGATGCTA-TGGCTAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
218796 CAATGATTGGTT-TGTCC
66 CAATGATTGGTTCTGTCC
218813 AACCAGATCAGATAACTCAAAG-A-ACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
218876 CAATGATT-GTTCTGTCC
66 CAATGATTGGTTCTGTCC
218893 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
*
218958 CAATGATTGGTTCTATCC
66 CAATGATTGGTTCTGTCC
218976 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
219041 CAATGATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
219059 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
* *
219124 CAATGATTAGTTCTATCC
66 CAATGATTGGTTCTGTCC
*
219142 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
219207 CAATGATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
*
219225 AACTAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
219290 CAATGATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
219308 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
219353 AGTCTCTTTC
Statistics
Matches: 599, Mismatches: 14, Indels: 13
0.96 0.02 0.02
Matches are distributed among these distances:
78 2 0.00
79 18 0.03
80 112 0.19
81 17 0.03
82 74 0.12
83 376 0.63
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
CAATGATTGGTTCTGTCC
Found at i:220494 original size:7 final size:7
Alignment explanation
Indices: 220482--220533 Score: 70
Period size: 7 Copynumber: 7.3 Consensus size: 7
220472 TTGACCCTCC
220482 TTTTCTT
1 TTTTCTT
220489 TTTTCTT
1 TTTTCTT
220496 TTTTCTTT
1 TTTTC-TT
220504 TTTTCTT
1 TTTTCTT
*
220511 TTAT-TT
1 TTTTCTT
220517 TTTTCTCT
1 TTTTCT-T
220525 TTTTCTT
1 TTTTCTT
220532 TT
1 TT
220534 CTTTCTTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
6 5 0.12
7 21 0.52
8 14 0.35
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:220505 original size:8 final size:8
Alignment explanation
Indices: 220482--220541 Score: 58
Period size: 8 Copynumber: 8.0 Consensus size: 8
220472 TTGACCCTCC
220482 TTTTC-TT
1 TTTTCTTT
220489 TTTTC-TT
1 TTTTCTTT
220496 TTTTCTTT
1 TTTTCTTT
220504 TTTTC---
1 TTTTCTTT
*
220509 TTTTATTT
1 TTTTCTTT
*
220517 TTTTCTCT
1 TTTTCTTT
220525 TTTTCTTT
1 TTTTCTTT
220533 TCTTTCTTT
1 T-TTTCTTT
220542 CTTCAAGCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.09
7 12 0.27
8 21 0.48
9 7 0.16
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTCTTT
Found at i:220507 original size:15 final size:15
Alignment explanation
Indices: 220482--220541 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 15
220472 TTGACCCTCC
220482 TTTTC-TTTTTTCTT
1 TTTTCTTTTTTTCTT
220496 TTTTCTTTTTTTC--
1 TTTTCTTTTTTTCTT
*
220509 TTTTATTTTTTTCTCT
1 TTTTCTTTTTTTCT-T
220525 TTTTCTTTTCTTTCTT
1 TTTTCTTTT-TTTCTT
220541 T
1 T
220542 CTTCAAGCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 12 0.31
14 5 0.13
15 7 0.18
16 10 0.26
17 5 0.13
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTTTTCTT
Found at i:220512 original size:21 final size:21
Alignment explanation
Indices: 220482--220544 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
220472 TTGACCCTCC
220482 TTTTCTTTTTTCTTTTTTCTTT
1 TTTTC-TTTTTCTTTTTTCTTT
*
220504 TTTTCTTTTAT-TTTTTTCTCT
1 TTTTCTTTT-TCTTTTTTCTTT
220525 TTTTC-TTTTCTTTCTTTCTT
1 TTTTCTTTTTCTTT-TTTCTT
220545 CAAGCATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 23 0.64
22 6 0.17
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTCTTTTTCTTTTTTCTTT
Found at i:233201 original size:3 final size:3
Alignment explanation
Indices: 233189--233240 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
233179 TTAATATATT
* *
233189 TAA T-A TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
233237 TAA T
1 TAA T
233241 TAATTAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:237217 original size:22 final size:22
Alignment explanation
Indices: 237190--237240 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
237180 TAAATGTTTA
*
237190 AATATTGAATTATTAAAATAAT
1 AATATTGAATTATTAAAAAAAT
* *
237212 ACTATTTAATTATTAAAAAAAT
1 AATATTGAATTATTAAAAAAAT
237234 AATATTG
1 AATATTG
237241 TTCATAATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (22 bp):
AATATTGAATTATTAAAAAAAT
Found at i:239713 original size:92 final size:91
Alignment explanation
Indices: 239556--239739 Score: 280
Period size: 92 Copynumber: 2.0 Consensus size: 91
239546 TCCTCAAACC
* * *
239556 CCCAAAACCAGCTTCAACAATGGCTACATGATCCACTAATCCCCCAATAATCCACCCGCTTCAGC
1 CCCAAAACCAGCTTCAACAATGGCTACATGATCCACTAATCCCCCAATAATCAACCCACCTCAGC
*
239621 TTTGGCTTACTCCATAGCAGCAATCGA
66 TTT-GCTTACTCCAAAGCAGCAATCGA
* * *
239648 CCCAAAACCAGCTTCAGCAATGGCTACATGATCCGCT-ATTCCCCAATAAATCAACCCACCTCAG
1 CCCAAAACCAGCTTCAACAATGGCTACATGATCCACTAATCCCCCAAT-AATCAACCCACCTCAG
239712 CTTTGCTTACTCCAAAGCAGCAATCGA
65 CTTTGCTTACTCCAAAGCAGCAATCGA
239739 C
1 C
239740 AATTAAAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
91 32 0.38
92 52 0.62
ACGTcount: A:0.31, C:0.36, G:0.12, T:0.21
Consensus pattern (91 bp):
CCCAAAACCAGCTTCAACAATGGCTACATGATCCACTAATCCCCCAATAATCAACCCACCTCAGC
TTTGCTTACTCCAAAGCAGCAATCGA
Found at i:245616 original size:18 final size:18
Alignment explanation
Indices: 245593--245636 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
245583 GGCAATTGGA
*
245593 CTAAGGAGGATAACTGGG
1 CTAAGGAGGACAACTGGG
*
245611 CTAAGGAGGACATCTGGG
1 CTAAGGAGGACAACTGGG
245629 CTGAAGGA
1 CT-AAGGA
245637 AGTTAGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.32, C:0.14, G:0.39, T:0.16
Consensus pattern (18 bp):
CTAAGGAGGACAACTGGG
Found at i:247627 original size:28 final size:28
Alignment explanation
Indices: 247586--247640 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
247576 TGTTATTGCC
* *
247586 TCAAACACTAGCTCTATGACATAATATT
1 TCAAACACTAGCTCGACGACATAATATT
*
247614 TCAAACACTGGCTCGACGACATAATAT
1 TCAAACACTAGCTCGACGACATAATAT
247641 AAGCGAACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (28 bp):
TCAAACACTAGCTCGACGACATAATATT
Found at i:249684 original size:25 final size:25
Alignment explanation
Indices: 249656--249706 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
249646 GTTGAGTTCG
* *
249656 ATTTCGAGTCGAGCTTCAAATTTTT
1 ATTTCAAGTCGAGCTTCAAACTTTT
* *
249681 ATTTCAAGTGGAGCTTGAAACTTTT
1 ATTTCAAGTCGAGCTTCAAACTTTT
249706 A
1 A
249707 AGCTCATGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (25 bp):
ATTTCAAGTCGAGCTTCAAACTTTT
Found at i:258840 original size:58 final size:56
Alignment explanation
Indices: 258717--258841 Score: 153
Period size: 58 Copynumber: 2.2 Consensus size: 56
258707 ATCAAATCCC
* * *
258717 AAAAATAATTAACTTATTATGTTTGTTTTGGTCCAAACCCAAAACATTAAAAGTAC
1 AAAAATAATTAACTTATTATGTCTGTTTTGATCCAAACCCAAAACATTAAAAGTAA
* * * *
258773 AAAATTAATTAACTTATTATTTGGTCTGTTTTGAT-CAAACCTAAAAGATTAAAATTAA
1 AAAAATAATTAACTTATTA--T-GTCTGTTTTGATCCAAACCCAAAACATTAAAAGTAA
258831 AAAAATAATTA
1 AAAAATAATTA
258842 TTTAAACATA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 18 0.31
58 30 0.52
59 10 0.17
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (56 bp):
AAAAATAATTAACTTATTATGTCTGTTTTGATCCAAACCCAAAACATTAAAAGTAA
Found at i:260338 original size:36 final size:36
Alignment explanation
Indices: 260297--260365 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
260287 AATTTCCTAG
* * *
260297 GATACCCATCATAGGACAGCCCAACATAGAAACTAA
1 GATACCCATCATACGAAAGCCCAAAATAGAAACTAA
* *
260333 GATACCCTTCGTACGAAAGCCCAAAATAGAAAC
1 GATACCCATCATACGAAAGCCCAAAATAGAAAC
260366 AAAGCATATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.43, C:0.28, G:0.14, T:0.14
Consensus pattern (36 bp):
GATACCCATCATACGAAAGCCCAAAATAGAAACTAA
Found at i:272085 original size:24 final size:24
Alignment explanation
Indices: 272049--272131 Score: 107
Period size: 24 Copynumber: 3.5 Consensus size: 24
272039 AAATATTTTA
272049 TCTGATTTCTGACTTGAATTCTGT
1 TCTGATTTCTGACTTGAATTCTGT
*
272073 TCTGA-TTCATGACCTGAATTCTGT
1 TCTGATTTC-TGACTTGAATTCTGT
*
272097 TCTGATTTCTGA-TCTGGATTCTGT
1 TCTGATTTCTGACT-TGAATTCTGT
*
272121 TCTGATATCTG
1 TCTGATTTCTG
272132 TTTTGATTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 3 0.06
24 46 0.88
25 3 0.06
ACGTcount: A:0.17, C:0.18, G:0.18, T:0.47
Consensus pattern (24 bp):
TCTGATTTCTGACTTGAATTCTGT
Found at i:272101 original size:12 final size:12
Alignment explanation
Indices: 272063--272143 Score: 67
Period size: 12 Copynumber: 6.8 Consensus size: 12
272053 ATTTCTGACT
272063 TGAATTCTGTTC
1 TGAATTCTGTTC
**
272075 TG-ATTCATGACC
1 TGAATTC-TGTTC
272087 TGAATTCTGTTC
1 TGAATTCTGTTC
* *
272099 TGATTTCTGATC
1 TGAATTCTGTTC
*
272111 TGGATTCTGTTC
1 TGAATTCTGTTC
*
272123 TG-ATATCTGTTT
1 TGAAT-TCTGTTC
*
272135 TGATTTCTG
1 TGAATTCTG
272144 ATATCTCCGT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
11 6 0.11
12 43 0.80
13 5 0.09
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:288909 original size:18 final size:20
Alignment explanation
Indices: 288883--288923 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
288873 TATATTATCA
*
288883 ATATTTTATCAA-A-AAAAT
1 ATATATTATCAATAGAAAAT
288901 ATATATTATCAATAGAAAAT
1 ATATATTATCAATAGAAAAT
288921 ATA
1 ATA
288924 AATAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 1 0.05
20 8 0.40
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (20 bp):
ATATATTATCAATAGAAAAT
Found at i:294174 original size:60 final size:60
Alignment explanation
Indices: 294077--294210 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
294067 GCATTATATG
* * * * * * * *
294077 TCCCCAACCTATAACCCTCATTTTGAATTGGTTCTTAAACTTTTGAATATTCCAATTTCA
1 TCCCCAAACTATGACCCTCATATTGAACTAGTCCTTAAACTTTTAAACATTCCAATTTCA
* *
294137 TCCCCAAACTATGACTCTCATATTGAACTAGTCCTTAAACTTTTAAACATTCTAATTTCA
1 TCCCCAAACTATGACCCTCATATTGAACTAGTCCTTAAACTTTTAAACATTCCAATTTCA
**
294197 TCCTTAAACTATGA
1 TCCCCAAACTATGA
294211 ACATTTTTCT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (60 bp):
TCCCCAAACTATGACCCTCATATTGAACTAGTCCTTAAACTTTTAAACATTCCAATTTCA
Found at i:297821 original size:16 final size:15
Alignment explanation
Indices: 297788--297841 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 15
297778 ACATAAATTA
*
297788 TTAATTTTAATCTATT
1 TTAATTTTAAT-TTTT
297804 TTAATATTTAATTTTT
1 TTAAT-TTTAATTTTT
297820 TTAATTTTTTTAATTTTT
1 TTAA---TTTTAATTTTT
297838 TTAA
1 TTAA
297842 AATCATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 12 0.36
17 6 0.18
18 14 0.42
19 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TTAATTTTAATTTTT
Found at i:297824 original size:9 final size:9
Alignment explanation
Indices: 297810--297841 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
297800 TATTTTAATA
297810 TTTAATTTT
1 TTTAATTTT
297819 TTTAATTTT
1 TTTAATTTT
297828 TTTAATTTT
1 TTTAATTTT
297837 TTTAA
1 TTTAA
297842 AATCATATTT
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:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTAATTTT
Found at i:297864 original size:34 final size:34
Alignment explanation
Indices: 297826--297893 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
297816 TTTTTTAATT
297826 TTTTTAATTT-TTTTAAAATCATATTTAAAATTTA
1 TTTTTAATTTATTTT-AAATCATATTTAAAATTTA
* *
297860 TTTTTTATTTATTTTAAATCTTATTTAAAATTTA
1 TTTTTAATTTATTTTAAATCATATTTAAAATTTA
297894 ACATTATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (34 bp):
TTTTTAATTTATTTTAAATCATATTTAAAATTTA
Found at i:297885 original size:12 final size:11
Alignment explanation
Indices: 297813--297893 Score: 55
Period size: 11 Copynumber: 7.5 Consensus size: 11
297803 TTTAATATTT
297813 AATTT-TTTT-
1 AATTTATTTTA
297822 AATTT-TTTT-
1 AATTTATTTTA
297831 AATTT-TTTTAA
1 AATTTATTTT-A
* *
297842 AATCATATTTAA
1 AAT-TTATTTTA
*
297854 AATTTATTTTT
1 AATTTATTTTA
*
297865 TATTTATTTTA
1 AATTTATTTTA
*
297876 AATCTTATTTAA
1 AAT-TTATTTTA
297888 AATTTA
1 AATTTA
297894 ACATTATGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
9 18 0.31
11 22 0.38
12 15 0.26
13 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:304078 original size:69 final size:69
Alignment explanation
Indices: 303974--304124 Score: 214
Period size: 69 Copynumber: 2.2 Consensus size: 69
303964 TTTATCCAAA
*
303974 ATAAATATGATTAGGTGATTGCGTGCGAGTCACTCTAATCCTTCGAGACTCCCGTACGAGTCATC
1 ATAAATATGATTAGGTGATTGCGTGCGAGTCACTCTAATCCTTCGAGACTCCCGTACGAGTCACC
304039 C-ATG
66 CGA-G
* ** * * * *
304043 ATAAATATGATTAGGTGCTTTTGTGCGAGTCACTCTAATCTTTCGGGACTCCTGTGCGAGTCACC
1 ATAAATATGATTAGGTGATTGCGTGCGAGTCACTCTAATCCTTCGAGACTCCCGTACGAGTCACC
304108 CGAG
66 CGAG
304112 ATAAATATGATTA
1 ATAAATATGATTA
304125 CCATCAAGTT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
69 72 0.99
70 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (69 bp):
ATAAATATGATTAGGTGATTGCGTGCGAGTCACTCTAATCCTTCGAGACTCCCGTACGAGTCACC
CGAG
Found at i:307669 original size:20 final size:22
Alignment explanation
Indices: 307629--307672 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
307619 ATACATTTTA
307629 TTAATTTTTAAACAATGTTATT
1 TTAATTTTTAAACAATGTTATT
*
307651 TTAATTTTTATA-AAT-TTATT
1 TTAATTTTTAAACAATGTTATT
307671 TT
1 TT
307673 TTTAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 3 0.14
22 11 0.52
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TTAATTTTTAAACAATGTTATT
Found at i:307674 original size:22 final size:22
Alignment explanation
Indices: 307614--307680 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
307604 AATTAAAAAA
**
307614 TATAAATACATTTTATTAATTTT
1 TATAAATTTATTTT-TTAATTTT
*
307637 TAAACAATGTTA--TTTTAATTTT
1 TATA-AAT-TTATTTTTTAATTTT
307659 TATAAATTTATTTTTTTAATTT
1 TATAAATTTA-TTTTTTAATTT
307681 AACTTGGGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
20 3 0.09
21 3 0.09
22 11 0.31
23 14 0.40
24 3 0.09
25 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (22 bp):
TATAAATTTATTTTTTAATTTT
Found at i:310230 original size:10 final size:10
Alignment explanation
Indices: 310217--310252 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
310207 AGGAAATGAG
310217 AATGAAGAGA
1 AATGAAGAGA
310227 AATGAAGAGA
1 AATGAAGAGA
310237 AATGAAG-GA
1 AATGAAGAGA
310246 AA-GAAGA
1 AATGAAGA
310253 AGATGAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 4 0.16
9 4 0.16
10 17 0.68
ACGTcount: A:0.61, C:0.00, G:0.31, T:0.08
Consensus pattern (10 bp):
AATGAAGAGA
Found at i:315971 original size:21 final size:21
Alignment explanation
Indices: 315945--316003 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
315935 ATTTACCGTG
315945 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGGCGCT
* *
315966 ATTGCGGCAGTCGCGGACGCT
1 ATTGCGGCCGTCGCGGGCGCT
315987 ATTGCGGCCGTCGCGGG
1 ATTGCGGCCGTCGCGGG
316004 TAACTCGGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.08, C:0.31, G:0.42, T:0.19
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGGCGCT
Found at i:324060 original size:11 final size:11
Alignment explanation
Indices: 324044--324068 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
324034 TTAATCGCGA
324044 AAATTAAAATT
1 AAATTAAAATT
324055 AAATTAAAATT
1 AAATTAAAATT
324066 AAA
1 AAA
324069 AAATCTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:325323 original size:13 final size:14
Alignment explanation
Indices: 325299--325344 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 14
325289 AAAACGAGTA
325299 AATAATAAATAAAT
1 AATAATAAATAAAT
325313 AATAA-AAATAAAT
1 AATAATAAATAAAT
325326 AATATATTATAATAAAT
1 AATA-A-TA-AATAAAT
325343 AA
1 AA
325345 ATAAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.43
14 6 0.21
16 1 0.04
17 9 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAAATAAAT
Found at i:325361 original size:30 final size:30
Alignment explanation
Indices: 325301--325366 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
325291 AACGAGTAAA
325301 TAATA-AATAAATAATAAAAATAAATAATA
1 TAATATAATAAATAATAAAAATAAATAATA
* *
325330 TATTATAATAAATAA-ATAAAATATACT-ATA
1 TAATATAATAAATAATA-AAAATA-AATAATA
325360 TAATATA
1 TAATATA
325367 TATATATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 5 0.16
30 24 0.77
31 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (30 bp):
TAATATAATAAATAATAAAAATAAATAATA
Found at i:325364 original size:21 final size:19
Alignment explanation
Indices: 325300--325374 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 19
325290 AAACGAGTAA
325300 ATAATAAATAAATA-ATA-
1 ATAATAAATAAATATATAT
*
325317 AAAATAAAT-AATATAT-T
1 ATAATAAATAAATATATAT
*
325334 ATAATAAATAAATA-AAAT
1 ATAATAAATAAATATATAT
* *
325352 ATACTATATAATATATATAT
1 ATAATAAATAA-ATATATAT
325372 ATA
1 ATA
325375 TTTAAAAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 4 0.09
17 19 0.41
18 14 0.30
19 3 0.07
20 6 0.13
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAATAAATAAATATATAT
Found at i:325429 original size:33 final size:33
Alignment explanation
Indices: 325362--325767 Score: 145
Period size: 34 Copynumber: 11.3 Consensus size: 33
325352 ATACTATATA
*
325362 ATATATATATATATTTAAAAAACTGTTTTAAAACT
1 ATATA-ATATATATTTAAAAAA-TATTTTAAAACT
* *
325397 ATATAATATATATTTCAAAAATATTTTTAAACT
1 ATATAATATATATTTAAAAAATATTTTAAAACT
* * *
325430 ATATATTATATTTTTATAAAAAGT-TTTCAAAACT
1 ATATAATATATATTTA-AAAAA-TATTTTAAAACT
* ** *
325464 ATATATTATATAGTTTTGGAAAATGA-TTTAAAA-A
1 ATATAATATATA--TTTAAAAAAT-ATTTTAAAACT
* * *
325498 ATATTATATAAGTTTTTCAAAAAATGTTTTTAAAACT
1 ATATAATAT-A-TATTT-AAAAAAT-ATTTTAAAACT
* * *
325535 ATATGTTATATAATTTTTCAAAAAATGTTTTTAAAACT
1 ATA--TAATAT-ATATTT-AAAAAAT-ATTTTAAAACT
* *
325573 ATATATTATATAAGTTTTTAAAAAATGTTTTAAAACCT
1 ATATA--ATAT-A-TATTTAAAAAATATTTTAAAA-CT
* ** *
325611 ATATATTATATAAGTTTTTCAAAATGTTTTAAAAACT
1 ATATAATATAT-A--TTTAAAAAATATTTT-AAAACT
* * ** *
325648 ATATATTAAATCAGTTTTCAAACTATTTTAAAAAACT
1 ATATAATATAT-A-TTTAAAAAATATTTT--AAAACT
*** *
325685 ATATATTATATGTATATTTTCCAAATGATTTCAAAACT
1 ATATA--ATA--TATATTTAAAAAAT-ATTTTAAAACT
* ** *
325723 ATATATTATATAATTTTTAAAATGA-TTTCAAACT
1 ATATAATATAT-ATTTAAAAAAT-ATTTTAAAACT
325757 ATATAATATAT
1 ATATAATATAT
325768 TATATATATA
Statistics
Matches: 301, Mismatches: 42, Indels: 57
0.75 0.10 0.14
Matches are distributed among these distances:
33 23 0.08
34 71 0.24
35 35 0.12
36 30 0.10
37 49 0.16
38 63 0.21
39 23 0.08
40 5 0.02
41 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (33 bp):
ATATAATATATATTTAAAAAATATTTTAAAACT
Found at i:325605 original size:37 final size:37
Alignment explanation
Indices: 325375--325767 Score: 319
Period size: 38 Copynumber: 10.9 Consensus size: 37
325365 TATATATATA
*
325375 TTTAAAAAACTGTTTTAAAACTATATAATATAT-A--T
1 TTTAAAAAA-TGTTTTAAAACTATATATTATATAAGTT
*
325410 TTCAAAAATAT-TTTT-AAACTATATA-T-TAT-A-TT
1 TTTAAAAA-ATGTTTTAAAACTATATATTATATAAGTT
325442 TTTATAAAAA-GTTTTCAAAACTATATATTATAT-AG-T
1 TTTA-AAAAATGTTTT-AAAACTATATATTATATAAGTT
** *
325478 TTTGGAAAATGATTTAAAA--A-ATATTATATAAGTT
1 TTTAAAAAATGTTTTAAAACTATATATTATATAAGTT
*
325512 TTTCAAAAAATGTTTTTAAAACTATATGTTATATAA-TT
1 TTT-AAAAAATG-TTTTAAAACTATATATTATATAAGTT
325550 TTTCAAAAAATGTTTTTAAAACTATATATTATATAAGTT
1 TTT-AAAAAATG-TTTTAAAACTATATATTATATAAGTT
325589 TTTAAAAAATGTTTTAAAACCTATATATTATATAAGTT
1 TTTAAAAAATGTTTTAAAA-CTATATATTATATAAGTT
* * *
325627 TTT-CAAAATGTTTTAAAAACTATATATTAAATCAGTT
1 TTTAAAAAATGTTTT-AAAACTATATATTATATAAGTT
* ** *
325664 TTCAAACTAT-TTTAAAAAACTATATATTATAT--GTAT
1 TTTAAAAAATGTTT-TAAAACTATATATTATATAAGT-T
*** *
325700 ATTTTCCAAATGATTTCAAAACTATATATTATATAA-TT
1 -TTTAAAAAATG-TTTTAAAACTATATATTATATAAGTT
* * *
325738 TTT--AAAATGATTTCAAACTATATAATATAT
1 TTTAAAAAATGTTTTAAAACTATATATTATAT
325768 TATATATATA
Statistics
Matches: 299, Mismatches: 31, Indels: 57
0.77 0.08 0.15
Matches are distributed among these distances:
31 4 0.01
32 19 0.06
33 17 0.06
34 35 0.12
35 30 0.10
36 21 0.07
37 62 0.21
38 92 0.31
39 19 0.06
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (37 bp):
TTTAAAAAATGTTTTAAAACTATATATTATATAAGTT
Found at i:325776 original size:75 final size:72
Alignment explanation
Indices: 325396--325774 Score: 264
Period size: 75 Copynumber: 5.2 Consensus size: 72
325386 GTTTTAAAAC
* * * *
325396 TATATAATATATATTTCAAAAATATTTT-TAAACTATATATTATAT--TTTTATAAAAAGTTTTC
1 TATAT-ATATAT-TTTC-AAAATGTTTTAAAAACTATATATTATATAATTTT-TAAAATGATTT-
325458 AAAACTATATAT
61 AAAACTATATAT
* ** * *
325470 TATATA-GT-TTTGGAAAATGATTT-AAAA--A-ATATTATATAAGTTTTTCAAAAAATGTTTTT
1 TATATATATATTTTCAAAATGTTTTAAAAACTATATATTATATAA-TTTTT---AAAATG-ATTT
*
325529 AAAACTATATGT
61 AAAACTATATAT
* *
325541 TATATA-AT-TTTTCAAAAAATGTTTTTAAAACTATATATTATATAAGTTTTTAAAAAATGTTTT
1 TATATATATATTTTC--AAAATGTTTTAAAAACTATATATTATATAA-TTTTT--AAAATGATTT
325604 AAAACCTATATAT
61 AAAA-CTATATAT
* * * *
325617 TATATA-AGT-TTTTCAAAATGTTTTAAAAACTATATATTAAATCAGTTTTCAAACT-ATTTTAA
1 TATATATA-TATTTTCAAAATGTTTTAAAAACTATATATTATAT-AATTTTTAAAATGA-TTT--
325679 AAAACTATATAT
61 AAAACTATATAT
* * * * *
325691 TATATGTATATTTTCCAAATGATTTCAAAACTATATATTATATAATTTTTAAAATGATTTCAAAC
1 TATATATATATTTTCAAAATGTTTTAAAAACTATATATTATATAATTTTTAAAATGATTTAAAAC
*
325756 TATATAA
66 TATATAT
325763 TATATTATATAT
1 TATA-TATATAT
325775 ATATACAAAT
Statistics
Matches: 252, Mismatches: 30, Indels: 47
0.77 0.09 0.14
Matches are distributed among these distances:
66 9 0.04
67 1 0.00
68 1 0.00
69 15 0.06
70 2 0.01
71 27 0.11
72 19 0.08
73 23 0.09
74 35 0.14
75 73 0.29
76 24 0.10
77 23 0.09
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (72 bp):
TATATATATATTTTCAAAATGTTTTAAAAACTATATATTATATAATTTTTAAAATGATTTAAAAC
TATATAT
Found at i:344869 original size:727 final size:716
Alignment explanation
Indices: 343424--344859 Score: 2463
Period size: 727 Copynumber: 2.0 Consensus size: 716
343414 AACTTGTAAA
* *
343424 ATCGCTTGTACCACTGCCTTGGAGATTACTTCAATCCGTATAACGATTTTTCTAATTTGCACACC
1 ATCGCTTGTACCACTGCCTTGGAGATTACTTCAATCCGTATAACGATGTTTCTAATTTACACACC
*
343489 ATCTCTTCTTTTTCAGCAACTTTGAATCCATCTGGCTGAGTCATGTAGATTTTCTCATCCAAGTC
66 ATCTCTTCTTTTTCAGCAACTTTGAATCCATCTGGCTGAGTCATGTAGATTTCCTCATCCAAGTC
343554 TCCATGTAAAAATGCAGTTTTTACATCCATCTGAACTAGTTCCAAATCCAACTGTGCTACCAAAG
131 TCCATGTAAAAATGCAGTTTTTACATCCATCTGAACTAGTTCCAAATCCAACTGTGCTACCAAAG
343619 CCAACAAAATTCTGATGGAGGAATATTTTACAACTGTAGAAAATACTTCATTATAATCAACTCCC
196 CCAACAAAATTCTGATGGAGGAATATTTTACAACTGTAGAAAATACTTCATTATAATCAACTCCC
*
343684 TCCGTTTGAGTGTAGCCTTTAGCCACTAATCTTGCTTTGTAGCGGATGTTATTCTTGTCACGAAA
261 TCCGTTTGAGCGTAGCCTTTAGCCACTAATCTTGCTTTGTAGCGGATGTTATTCTTGTCACGAAA
*
343749 TCCATCTTTCTTTGCATATACCCACTTGCACCCAATTGCCTTCTTTCCATTCGGAAGACTAGCTA
326 TCCATCTTTCTTTGCATATACCCACTTGCACCCAATTGCCTTCTTTCCATTCGAAAGACTAGCTA
* * *
343814 GTTTCCATGTCTGATTCTTTTGAAGGGATTGCATTTTTTCATTTATGGCGATCCTCCACTTTTTA
391 GTTTCCACGTCTGATTCTTTTGAAGGGATTGCATTTCTTCATTTATGGAGATCCTCCACTTTTTA
*
343879 TGTTCTCAACTTTGGACTGCTTCATTAAAAGTGGCAAGAATGTCATCAATTGCAATTGGTGTTGC
456 TGTTCTCAACTTTGGACTGCTTCATTAAAAGTGGCAAGAACGTCATCAATTGCAATTGGTGTTGC
* *
343944 AAAAAAGACCATATCAACATAACGAGCAGGTTGTCTAATGGTCCTCTTTTCCTTTCTGAGTGGAA
521 AAAAAAGACCATATCAACATAACGAGCAGGTTGTCTAATGGTCCTCTTTCCCTTTCTGAGTGCAA
**
344009 TTGATTCATGTTGTTGTGGAGGTTCTTGGGACTGAAACTCTTCTTCATCTGACTCTTCTTCTACC
586 TTGATTCATGTTGCCGTGGAGGTTCTTGGGACTG-AA-------T-ATC--ACTCTTCTTCTACC
*
344074 ATAGGAGAGTCAACATCAGTTTCTTTACTGGCTGGGTCAACTCTGCTTCCTTCAAACTCCACCTG
640 ATAGGAGAGTCAACATCAGTTTCTTTACTGACTGGGTCAACTCTGCTTCCTTCAAACTCCACCTG
344139 TTTGGGAGTTCC
705 TTTGGGAGTTCC
*
344151 ATCGCTTGTACCACTGCCTTGGAGATTGCTTCAATCCGTATAACGATGTTTCTAATTTACACACC
1 ATCGCTTGTACCACTGCCTTGGAGATTACTTCAATCCGTATAACGATGTTTCTAATTTACACACC
* *
344216 ATCTCTTCTTTTTCAGCAACTTTGATTCCATCTGGCTGAGTCATGTAGATTTCCTCATCTAAGTC
66 ATCTCTTCTTTTTCAGCAACTTTGAATCCATCTGGCTGAGTCATGTAGATTTCCTCATCCAAGTC
*
344281 TCCATGTAAAAATGTAGTTTTTACATCCATCTGAACTAGTTCCAAATCCAACTGTGCTACCAAAG
131 TCCATGTAAAAATGCAGTTTTTACATCCATCTGAACTAGTTCCAAATCCAACTGTGCTACCAAAG
* *
344346 CCAACAAAATTCTGATGGAGGAATGTTTTACAACTGTAGAAAATACTTTATTATAATCAACTCCC
196 CCAACAAAATTCTGATGGAGGAATATTTTACAACTGTAGAAAATACTTCATTATAATCAACTCCC
*
344411 TCCGTTTGAGCGTAGCCTTTAGCCA-TCAATCTTGCTTTGTAGCGGATGTTATTCTTGTCGCGAA
261 TCCGTTTGAGCGTAGCCTTTAGCCACT-AATCTTGCTTTGTAGCGGATGTTATTCTTGTCACGAA
*
344475 ATCCATCTTTCTTTGCATATACCCACTTGCACCCAATTGCCTTCTTTCCCTTCGAAAGACTAGCT
325 ATCCATCTTTCTTTGCATATACCCACTTGCACCCAATTGCCTTCTTTCCATTCGAAAGACTAGCT
344540 AGTTTCCACGTCTGATTCTTTTGAAGGGATTGCATTTCTTCATTTATGGAGATCCTCCACTTTTT
390 AGTTTCCACGTCTGATTCTTTTGAAGGGATTGCATTTCTTCATTTATGGAGATCCTCCACTTTTT
*
344605 ATGTT-TGAACTTTGGACTGCTTCATTAAAAGTGGCAAGAACGTCATCAATTGCAATTGGTGTTG
455 ATGTTCTCAACTTTGGACTGCTTCATTAAAAGTGGCAAGAACGTCATCAATTGCAATTGGTGTTG
* * *
344669 CAAAAGAGACCATATCAGCATAACGAGCATGTTGTCTAATGGTCCTCTTTCCCTTTCTGAGTGCA
520 CAAAAAAGACCATATCAACATAACGAGCAGGTTGTCTAATGGTCCTCTTTCCCTTTCTGAGTGCA
344734 ATTGATTCATGTTGCCGTGGAGGTTCTTGGGACTG-A-A-C-CTCTTCTTCTACCATAGGAGAGT
585 ATTGATTCATGTTGCCGTGGAGGTTCTTGGGACTGAATATCACTCTTCTTCTACCATAGGAGAGT
* *
344795 CAACATCAGTTTCTTTACTGACT-GGTCAATTCTGCTTCCTTCAAACTCCACCTATTTGGGAGTT
650 CAACATCAGTTTCTTTACTGACTGGGTCAACTCTGCTTCCTTCAAACTCCACCTGTTTGGGAGTT
344859 C
715 C
344860 GATCTGTTTG
Statistics
Matches: 680, Mismatches: 28, Indels: 19
0.94 0.04 0.03
Matches are distributed among these distances:
710 40 0.06
711 45 0.07
714 1 0.00
715 1 0.00
724 1 0.00
726 151 0.22
727 441 0.65
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (716 bp):
ATCGCTTGTACCACTGCCTTGGAGATTACTTCAATCCGTATAACGATGTTTCTAATTTACACACC
ATCTCTTCTTTTTCAGCAACTTTGAATCCATCTGGCTGAGTCATGTAGATTTCCTCATCCAAGTC
TCCATGTAAAAATGCAGTTTTTACATCCATCTGAACTAGTTCCAAATCCAACTGTGCTACCAAAG
CCAACAAAATTCTGATGGAGGAATATTTTACAACTGTAGAAAATACTTCATTATAATCAACTCCC
TCCGTTTGAGCGTAGCCTTTAGCCACTAATCTTGCTTTGTAGCGGATGTTATTCTTGTCACGAAA
TCCATCTTTCTTTGCATATACCCACTTGCACCCAATTGCCTTCTTTCCATTCGAAAGACTAGCTA
GTTTCCACGTCTGATTCTTTTGAAGGGATTGCATTTCTTCATTTATGGAGATCCTCCACTTTTTA
TGTTCTCAACTTTGGACTGCTTCATTAAAAGTGGCAAGAACGTCATCAATTGCAATTGGTGTTGC
AAAAAAGACCATATCAACATAACGAGCAGGTTGTCTAATGGTCCTCTTTCCCTTTCTGAGTGCAA
TTGATTCATGTTGCCGTGGAGGTTCTTGGGACTGAATATCACTCTTCTTCTACCATAGGAGAGTC
AACATCAGTTTCTTTACTGACTGGGTCAACTCTGCTTCCTTCAAACTCCACCTGTTTGGGAGTTC
C
Found at i:350875 original size:21 final size:22
Alignment explanation
Indices: 350849--350901 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
350839 TGAGATAGGT
350849 AGTATCGATACTCCTA-ATTAG
1 AGTATCGATACTCCTATATTAG
*
350870 AGTATCGATACTCTTATATTAG
1 AGTATCGATACTCCTATATTAG
* *
350892 GGTATTGATA
1 AGTATCGATA
350902 ATATTCCGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (22 bp):
AGTATCGATACTCCTATATTAG
Found at i:351021 original size:21 final size:21
Alignment explanation
Indices: 350995--351052 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
350985 CTCTTTCCTC
350995 AGTATCGATACTCCTAGCTAG
1 AGTATCGATACTCCTAGCTAG
351016 AGTATCGATACTCCTAGCTAG
1 AGTATCGATACTCCTAGCTAG
351037 AGTATCGATACTCCTA
1 AGTATCGATACTCCTA
351053 TACTAGGGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (21 bp):
AGTATCGATACTCCTAGCTAG
Found at i:351125 original size:167 final size:167
Alignment explanation
Indices: 350849--351177 Score: 505
Period size: 167 Copynumber: 2.0 Consensus size: 167
350839 TGAGATAGGT
* * * **
350849 AGTATCGATACTCCTAATTAGAGTATCGATACTCTTATATTAGGGTATTGATAATATTCCGAGTA
1 AGTATCGATACTCCTAACTAGAGTATCGATACTCCTATACTAGGGTATCAATAATATTCCGAGTA
350914 CTGATACCAAAATTTGCTTCAATGTTTTGAAAATTAACCTAGTATCAATACACTTACTGAGAGTA
66 CTGATACCAAAATTTGCTTCAATGTTTTGAAAATTAACCTAGTATCAATACACTTACTGAGAGTA
**
350979 TCAATACTCTTTCCTCAGTATCGATACTCCTAGCTAG
131 TCAATACTCTACCCTCAGTATCGATACTCCTAGCTAG
* * *
351016 AGTATCGATACTCCTAGCTAGAGTATCGATACTCCTATACTAGGGTATCAATGATATTCTGAGTA
1 AGTATCGATACTCCTAACTAGAGTATCGATACTCCTATACTAGGGTATCAATAATATTCCGAGTA
** * * *
351081 CTGATACCAAAATTTGCTTTGATGTTTTGAAAATTAACCTAGTATCGATACACTTGCTGATAGTA
66 CTGATACCAAAATTTGCTTCAATGTTTTGAAAATTAACCTAGTATCAATACACTTACTGAGAGTA
* *
351146 TCGATACTCTACCCTCAGTATTGATACTCCTA
131 TCAATACTCTACCCTCAGTATCGATACTCCTA
351178 TGTAAGGATG
Statistics
Matches: 145, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
167 145 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (167 bp):
AGTATCGATACTCCTAACTAGAGTATCGATACTCCTATACTAGGGTATCAATAATATTCCGAGTA
CTGATACCAAAATTTGCTTCAATGTTTTGAAAATTAACCTAGTATCAATACACTTACTGAGAGTA
TCAATACTCTACCCTCAGTATCGATACTCCTAGCTAG
Found at i:355454 original size:22 final size:22
Alignment explanation
Indices: 355404--355455 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
355394 CCATCGTATA
** *
355404 ACGAAAGTATCTTAACATTAAT
1 ACGAAAGTATCGCAACACTAAT
*
355426 ACTAAAGTATCGCAACACTAAT
1 ACGAAAGTATCGCAACACTAAT
*
355448 TCGAAAGT
1 ACGAAAGT
355456 TCATTTGCAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (22 bp):
ACGAAAGTATCGCAACACTAAT
Found at i:355940 original size:21 final size:21
Alignment explanation
Indices: 355908--355959 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
355898 ATTTAACATC
*
355908 AAAT-ACACCATATCCCTCAT
1 AAATCACAACATATCCCTCAT
*
355928 AAATCACAACATATCTCTCAT
1 AAATCACAACATATCCCTCAT
355949 AAATCACAACA
1 AAATCACAACA
355960 ATTTAATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATCACAACATATCCCTCAT
Found at i:365850 original size:32 final size:32
Alignment explanation
Indices: 365809--365871 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
365799 TATTGACCTT
* *
365809 ACTCGAAAATCGGTCGATCCAATATTGACAAA
1 ACTCAAAAATCGGTCAATCCAATATTGACAAA
* * *
365841 ACTCAAAAATTGTTCAATCTAATATTGACAA
1 ACTCAAAAATCGGTCAATCCAATATTGACAA
365872 GACCCGACCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (32 bp):
ACTCAAAAATCGGTCAATCCAATATTGACAAA
Found at i:366354 original size:21 final size:21
Alignment explanation
Indices: 366325--366371 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
366315 AGTCTGACTA
366325 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
366346 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
366367 TCGCA
1 TCGCA
366372 ATGCAAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:366392 original size:20 final size:20
Alignment explanation
Indices: 366367--366551 Score: 327
Period size: 20 Copynumber: 9.3 Consensus size: 20
366357 TTTTCCTAAT
*
366367 TCGCAATGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
366387 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
366407 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
366427 TCGCAATGCG-ATACGTAAA
1 TCGCAATGCGAATACGTAAA
366446 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
366466 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
366486 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
366506 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
366526 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
366546 TTGCAA
1 TCGCAA
366552 CGAGATTCTG
Statistics
Matches: 160, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
19 18 0.11
20 142 0.89
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:366491 original size:99 final size:100
Alignment explanation
Indices: 366367--366551 Score: 327
Period size: 99 Copynumber: 1.9 Consensus size: 100
366357 TTTTCCTAAT
* *
366367 TCGCAATGCAAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCA
1 TCGCAATGCAAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCA
366432 ATGCG-ATACGTAAATCGCAATGCGAATACGTAAA
66 ATGCGAATACGTAAATCGCAATGCGAATACGTAAA
*
366466 TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCA
1 TCGCAATGCAAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCA
*
366531 ATGCGAATACGTAAATTGCAA
66 ATGCGAATACGTAAATCGCAA
366552 CGAGATTCTG
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
99 67 0.83
100 14 0.17
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (100 bp):
TCGCAATGCAAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCA
ATGCGAATACGTAAATCGCAATGCGAATACGTAAA
Found at i:366571 original size:60 final size:59
Alignment explanation
Indices: 366378--366557 Score: 290
Period size: 59 Copynumber: 3.0 Consensus size: 59
366368 CGCAATGCAA
* * * *
366378 ATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCG
1 ATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGAG
366437 ATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGA-
1 ATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAA--CGAG
*
366497 ATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATTGCAACGAG
1 ATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGAG
366556 AT
1 AT
366558 TCTGACTATC
Statistics
Matches: 113, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
58 3 0.03
59 55 0.49
60 54 0.48
61 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (59 bp):
ATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGAG
Found at i:366573 original size:20 final size:20
Alignment explanation
Indices: 366548--366591 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
366538 TACGTAAATT
366548 GCAACGAGATTCTGACTATC
1 GCAACGAGATTCTGACTATC
366568 GCAACGAGATTCTGACTATC
1 GCAACGAGATTCTGACTATC
366588 GCAA
1 GCAA
366592 TACTGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (20 bp):
GCAACGAGATTCTGACTATC
Found at i:367483 original size:24 final size:24
Alignment explanation
Indices: 367432--367485 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
367422 GTATTCGAAA
* *
367432 TTTGACCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
367456 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
367480 TTTGAT
1 TTTGAT
367486 GATTTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:369943 original size:20 final size:21
Alignment explanation
Indices: 369918--369986 Score: 108
Period size: 20 Copynumber: 3.4 Consensus size: 21
369908 GAACGCGGAA
*
369918 ATCGCAACGC-AAATATGACT
1 ATCGCAACGCGGAATATGACT
369938 ATCGCAACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
369958 ATCGCAACGCGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
369978 ATCGCAACG
1 ATCGCAACG
369987 AGAGAATCGC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:369996 original size:34 final size:34
Alignment explanation
Indices: 369958--370053 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
369948 GGAATTGACT
* **
369958 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
369992 ATCGCAATGC-GAAATGAAAATCGCAACAAGTGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
370025 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCGGAAATGAAAATCGCAACG
370054 CGAATTTAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.54
34 25 0.46
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.14
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:370049 original size:20 final size:19
Alignment explanation
Indices: 369991--370057 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
369981 GCAACGAGAG
369991 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
370010 AATCGCAA--C-AAGTG--
1 AATCGCAATGCGAAATGAA
370024 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
370044 AATCGCAACGCGAA
1 AATCGCAATGCGAA
370058 TTTAGTTTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 8 0.21
16 5 0.13
17 1 0.03
18 4 0.10
19 10 0.26
20 11 0.28
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:370109 original size:14 final size:14
Alignment explanation
Indices: 370090--370143 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
370080 CATTTTCGCA
370090 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
370104 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
370121 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
370137 TTGCGAT
1 TTGCGAT
370144 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:370112 original size:34 final size:34
Alignment explanation
Indices: 370068--370163 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
370058 TTTAGTTTCG
*
370068 CGTTGTGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
370102 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** * *
370135 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
370164 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 31 0.55
34 25 0.45
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:371753 original size:21 final size:18
Alignment explanation
Indices: 371729--371773 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
371719 GAACGGTGGG
371729 AGGGGACTCTTGAGGGATGAT
1 AGGGGACTCTTGA---ATGAT
*
371750 AGGGGCCTCTTGAATGAT
1 AGGGGACTCTTGAATGAT
371768 AGGGGA
1 AGGGGA
371774 GGCCTATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.45
21 12 0.55
ACGTcount: A:0.24, C:0.11, G:0.42, T:0.22
Consensus pattern (18 bp):
AGGGGACTCTTGAATGAT
Found at i:372298 original size:20 final size:20
Alignment explanation
Indices: 372275--372362 Score: 104
Period size: 20 Copynumber: 4.4 Consensus size: 20
372265 GAAACTTAAA
372275 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
*
372295 ATCGCAACGCGAAAATGACT
1 ATCGCAACACGAAAATGACT
** **
372315 ATCGCAATGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
* **
372335 ATCGCAATACGAATTTGACT
1 ATCGCAACACGAAAATGACT
372355 ATCGCAAC
1 ATCGCAAC
372363 GAGAGAATCG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:372435 original size:20 final size:20
Alignment explanation
Indices: 372406--372584 Score: 143
Period size: 20 Copynumber: 9.6 Consensus size: 20
372396 GCGATTCTTT
**
372406 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCATTTTCG
* *
372426 CATTGGGATAGTCATTTTCA
1 CATTGCGATAGTCATTTTCG
372446 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
372466 CATTGCGATAGTCATTTTTG
1 CATTGCGATAGTCATTTTCG
* *
372486 CGTTACGAT--T--TTGTT--
1 CATTGCGATAGTCATT-TTCG
**
372501 -ATTGCGATTTTCA-TTTCG
1 CATTGCGATAGTCATTTTCG
*
372519 CATTGCGAT--TC--TCTCG
1 CATTGCGATAGTCATTTTCG
372535 --TTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
* *
372553 CGTTGCGATAGTCATTTCCG
1 CATTGCGATAGTCATTTTCG
372573 CATTGCGATAGT
1 CATTGCGATAGT
372585 AAACTATTCT
Statistics
Matches: 130, Mismatches: 15, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
14 13 0.10
16 11 0.08
17 5 0.04
18 5 0.04
19 8 0.06
20 88 0.68
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:372497 original size:34 final size:34
Alignment explanation
Indices: 372459--372561 Score: 102
Period size: 34 Copynumber: 3.1 Consensus size: 34
372449 TGCGATAGTC
* *
372459 ATTTTCGCATTGCGATAGTCATTTTTGCGTTACG
1 ATTTTCGCATTGCGATAGTCATTTTCGCGTTGCG
* ** *
372493 ATTTT-GTTATTGCGATTTTCA-TTTCGCATTGCG
1 ATTTTCG-CATTGCGATAGTCATTTTCGCGTTGCG
* * *
372526 ATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCG
1 ATTTTCGCATTGCGATAGTCATTTTCGCGTTGCG
372560 AT
1 AT
372562 AGTCATTTCC
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
33 24 0.45
34 29 0.55
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (34 bp):
ATTTTCGCATTGCGATAGTCATTTTCGCGTTGCG
Found at i:372580 original size:40 final size:39
Alignment explanation
Indices: 372370--372584 Score: 142
Period size: 40 Copynumber: 5.9 Consensus size: 39
372360 AACGAGAGAA
* **
372370 TCGCAATGCGATTTTCATTTCGCATTGCGAT--TC--TT
1 TCGCATTGCGATAGTCATTTCGCATTGCGATAGTCATTT
* *
372405 T--CATTGCGATAGTCAAATTCGCATTGGGATAGTCATTT
1 TCGCATTGCGATAGTC-ATTTCGCATTGCGATAGTCATTT
*
372443 TCACATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCA-TTTCGCATTGCGATAGTCATTT
* * * * **
372483 TTGCGTTACG--A-T--TTT-GTTATTGCGATTTTCA-TT
1 TCGCATTGCGATAGTCATTTCG-CATTGCGATAGTCATTT
*
372516 TCGCATTGCGAT--TC-TCTCG--TTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTTCGCATTGCGATAGTCATTT
*
372550 TCGCGTTGCGATAGTCATTTCCGCATTGCGATAGT
1 TCGCATTGCGATAGTCATTT-CGCATTGCGATAGT
372585 AAACTATTCT
Statistics
Matches: 138, Mismatches: 22, Indels: 35
0.71 0.11 0.18
Matches are distributed among these distances:
33 30 0.22
34 41 0.30
35 3 0.02
36 5 0.04
37 3 0.02
38 6 0.04
39 1 0.01
40 49 0.36
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (39 bp):
TCGCATTGCGATAGTCATTTCGCATTGCGATAGTCATTT
Found at i:374475 original size:20 final size:20
Alignment explanation
Indices: 374459--374548 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
374449 TCTGAAACTT
374459 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
374479 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
374499 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** *
374519 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
374538 AAAATCGCAAC
1 AAAATCGCAAC
374549 GATAGAATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 12 0.20
20 49 0.80
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:374942 original size:22 final size:22
Alignment explanation
Indices: 374885--374950 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
374875 TGACCGTGAA
* * *
374885 TGATTTCGCCGGAAATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
374907 TGATATAGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
*
374929 TGATTTCGTCGGAGATAGGGAC
1 TGATTTCGTCGGAGATGGGGAC
374951 GGATGTCGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.26, C:0.14, G:0.36, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:375177 original size:20 final size:20
Alignment explanation
Indices: 375154--375279 Score: 191
Period size: 20 Copynumber: 6.3 Consensus size: 20
375144 CAGATTGGCG
375154 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
375174 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
375194 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
375214 TTGCGA-TTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* ** *
375233 TTGCGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
375254 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
375274 TTGCGA
1 TTGCGA
375280 ATTAGGAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
19 18 0.19
20 62 0.66
21 14 0.15
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:375299 original size:21 final size:21
Alignment explanation
Indices: 375269--375321 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
375259 ATTTACGTAT
*
375269 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
*
375290 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
375311 TCGCAATGCGA
1 TCGCAATGCGA
375322 TAGTCAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:375644 original size:35 final size:35
Alignment explanation
Indices: 375597--375676 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
375587 AACATAATCA
*
375597 TCAATTATATTCTAAACC-CTAAATTCCAAAATACT
1 TCAATTACATTCTAAACCTC-AAATTCCAAAATACT
*
375632 TCAATTACATTCTAAACCTCAAATTCTAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
375667 TCAATTACAT
1 TCAATTACAT
375677 GCCTAACCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 41 0.98
36 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (35 bp):
TCAATTACATTCTAAACCTCAAATTCCAAAATACT
Found at i:375690 original size:35 final size:35
Alignment explanation
Indices: 375597--375692 Score: 122
Period size: 35 Copynumber: 2.7 Consensus size: 35
375587 AACATAATCA
* * *
375597 TCAATTATATTCTAAACCCTAAATTCCAAAATACT
1 TCAATTACATCCTAAACCCCAAATTCCAAAATACT
* * *
375632 TCAATTACATTCTAAACCTCAAATTCTAAAATACT
1 TCAATTACATCCTAAACCCCAAATTCCAAAATACT
375667 TCAATTACATGCCT-AACCCCAAATTC
1 TCAATTACAT-CCTAAACCCCAAATTC
375693 ATAATCCATT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 52 0.96
36 2 0.04
ACGTcount: A:0.41, C:0.26, G:0.01, T:0.32
Consensus pattern (35 bp):
TCAATTACATCCTAAACCCCAAATTCCAAAATACT
Found at i:376026 original size:147 final size:148
Alignment explanation
Indices: 375850--376138 Score: 517
Period size: 147 Copynumber: 2.0 Consensus size: 148
375840 TACTCAATTT
*
375850 AGTTTATAAAATAGTTGACTCGAAATTTTTTCAATTTGAGTTTATAAAATTTAAATCAAGTCGAA
1 AGTTTATAAAATAGTTGACTCAAAATTTTTTCAATTTGAGTTTATAAAATTTAAATCAAGTCGAA
* * **
375915 TTGAATTGAATTTTCGAGTTTATGTTTAAATTTAATTATAAATATTTATCATGTTATAATAATA-
66 TTGAATTAAATTTTCGAGTTTATGTTTAAATTTAATTATAAATATTTATAATACTATAATAATAT
375979 TTGATTCTAATTCAGTTC
131 TTGATTCTAATTCAGTTC
375997 AGTTTATAAAATAGTTGACTCAAAATTTTTTCAATTTGAGTTTATAAAATTTAAATCAAGTCGAA
1 AGTTTATAAAATAGTTGACTCAAAATTTTTTCAATTTGAGTTTATAAAATTTAAATCAAGTCGAA
*
376062 TTGAATTAAATTTTCGAGTTTATGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
66 TTGAATTAAATTTTCGAGTTTATGTTTAAATTTAATTATAAATATTTATAATACTATAATAATAT
376127 TTGATTCTAATT
131 TTGATTCTAATT
376139 TAAATAATTT
Statistics
Matches: 135, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
147 123 0.91
148 12 0.09
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (148 bp):
AGTTTATAAAATAGTTGACTCAAAATTTTTTCAATTTGAGTTTATAAAATTTAAATCAAGTCGAA
TTGAATTAAATTTTCGAGTTTATGTTTAAATTTAATTATAAATATTTATAATACTATAATAATAT
TTGATTCTAATTCAGTTC
Found at i:376674 original size:35 final size:35
Alignment explanation
Indices: 376635--376714 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
376625 GGGGTTGGGC
* * *
376635 ATGTAATTGAAGTATTTTGGAATTTGATG-TTTATA
1 ATGTAATTGAAGCATTTTGGAATTTG-GGATTTAGA
376670 ATGTAATTGAAGCATTTTGGAATTTGGGATTTAGA
1 ATGTAATTGAAGCATTTTGGAATTTGGGATTTAGA
376705 ATGTAATTGA
1 ATGTAATTGA
376715 TGACTGTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 1 0.02
35 40 0.98
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.44
Consensus pattern (35 bp):
ATGTAATTGAAGCATTTTGGAATTTGGGATTTAGA
Found at i:379920 original size:45 final size:45
Alignment explanation
Indices: 379856--379951 Score: 183
Period size: 45 Copynumber: 2.1 Consensus size: 45
379846 ATTTCACTAG
379856 AAGCATACAGACACAGATTATGCAGATCTTTAGTCAACAAAAAGT
1 AAGCATACAGACACAGATTATGCAGATCTTTAGTCAACAAAAAGT
379901 AAGCATACAGACACAGATTATGCAGATCTTTAGTCAACAAAAAGT
1 AAGCATACAGACACAGATTATGCAGATCTTTAGTCAACAAAAAGT
*
379946 CAGCAT
1 AAGCAT
379952 CTAGATATTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.22
Consensus pattern (45 bp):
AAGCATACAGACACAGATTATGCAGATCTTTAGTCAACAAAAAGT
Found at i:385964 original size:18 final size:20
Alignment explanation
Indices: 385923--385965 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
385913 TTGGTTCACA
* *
385923 GAATATAAGATTACCAGTGT
1 GAATAAAAGATTACCAGAGT
385943 GAATAAAAGATTACC-GAG-
1 GAATAAAAGATTACCAGAGT
385961 GAATA
1 GAATA
385966 GGATTACTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 2 0.10
20 14 0.67
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.23
Consensus pattern (20 bp):
GAATAAAAGATTACCAGAGT
Found at i:386884 original size:17 final size:19
Alignment explanation
Indices: 386858--386896 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
386848 GATTTTAATC
386858 AATTACAACAT-ATAAA-A
1 AATTACAACATAATAAATA
*
386875 AATTATAACATAATAAATA
1 AATTACAACATAATAAATA
386894 AAT
1 AAT
386897 ATTTAACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 5 0.26
19 4 0.21
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (19 bp):
AATTACAACATAATAAATA
Found at i:390783 original size:25 final size:27
Alignment explanation
Indices: 390734--390790 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 27
390724 ATAAAGACAC
*
390734 AAAAACGTATTATAAAAATATAAAAAT
1 AAAAACGTACTATAAAAATATAAAAAT
390761 AAAAA-GTACTATAAAAATA-AAAAAT
1 AAAAACGTACTATAAAAATATAAAAAT
390786 AAAAA
1 AAAAA
390791 ATTGTCAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 11 0.38
26 13 0.45
27 5 0.17
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (27 bp):
AAAAACGTACTATAAAAATATAAAAAT
Found at i:392572 original size:122 final size:122
Alignment explanation
Indices: 392355--392602 Score: 460
Period size: 122 Copynumber: 2.0 Consensus size: 122
392345 GCTCACAAGT
* * *
392355 TCAGTTCCCCATAAATAACCCTATTTTACTACTTGCATTCAACATATATAAGCATGATACAAGTA
1 TCAGTGCCCCATAAATAACCCTATTATACTACTTGCATTCAACATATAAAAGCATGATACAAGTA
392420 TAATAATGAACACATCATACACTAGAACACCAACAAGAGTAAGTATCATGGTGTAGC
66 TAATAATGAACACATCATACACTAGAACACCAACAAGAGTAAGTATCATGGTGTAGC
392477 TCAGTGCCCCATAAATAACCCTATTATACTACTTGCATTCAACATATAAAAGCATGATACAAGTA
1 TCAGTGCCCCATAAATAACCCTATTATACTACTTGCATTCAACATATAAAAGCATGATACAAGTA
*
392542 TAATAATGAACACATCATACACTAGAACACCAACTAGAGTAAGTATCATGGTGTAGC
66 TAATAATGAACACATCATACACTAGAACACCAACAAGAGTAAGTATCATGGTGTAGC
392599 TCAG
1 TCAG
392603 GTGTCACATA
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (122 bp):
TCAGTGCCCCATAAATAACCCTATTATACTACTTGCATTCAACATATAAAAGCATGATACAAGTA
TAATAATGAACACATCATACACTAGAACACCAACAAGAGTAAGTATCATGGTGTAGC
Found at i:400335 original size:21 final size:21
Alignment explanation
Indices: 400287--400341 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
400277 ATGTTTCTCG
* *
400287 AGTATCGATACCATTTGAACA
1 AGTATCGATACCCTTCGAACA
*
400308 A-TATCGATACCCTTCGAAGA
1 AGTATCGATACCCTTCGAACA
*
400328 AGTATCGAAACCCT
1 AGTATCGATACCCT
400342 CCTCAAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (21 bp):
AGTATCGATACCCTTCGAACA
Found at i:402454 original size:82 final size:82
Alignment explanation
Indices: 402328--402484 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 82
402318 ACCGACGCCA
** * *
402328 ACCATCTCCGACCACCACTACCCGTACTGAATGTCCACCCATCCATCGTCGATCAACCAATAATT
1 ACCATCTCCGACCACCACTACCCGTACCAAATGGCCACCCATCCATCATCGATCAACCAATAATT
402393 GGTCATCATTATCGACG
66 GGTCATCATTATCGACG
* * * *
402410 ACCATCTCCGACCACCACTATCGGTACCAAATGGCCACCCATCCATCATCGGTCATCCAATAATT
1 ACCATCTCCGACCACCACTACCCGTACCAAATGGCCACCCATCCATCATCGATCAACCAATAATT
402475 GGTCATCATT
66 GGTCATCATT
402485 CTTACCATCA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.28, C:0.36, G:0.12, T:0.24
Consensus pattern (82 bp):
ACCATCTCCGACCACCACTACCCGTACCAAATGGCCACCCATCCATCATCGATCAACCAATAATT
GGTCATCATTATCGACG
Found at i:402613 original size:23 final size:23
Alignment explanation
Indices: 402582--402629 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
402572 TGGCTCAAGT
*
402582 AATTAATATGGGTGAATTGATGC
1 AATTAATATGGGTGAATTAATGC
* *
402605 AATTGATATGGGTGAGTTAATGC
1 AATTAATATGGGTGAATTAATGC
402628 AA
1 AA
402630 CTGTTAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.33
Consensus pattern (23 bp):
AATTAATATGGGTGAATTAATGC
Found at i:402890 original size:19 final size:20
Alignment explanation
Indices: 402848--402890 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
402838 GAGGAGAGGA
*
402848 ATTTTCAAAGTTTTTGGTTT
1 ATTTTAAAAGTTTTTGGTTT
*
402868 -TTTTAAAAGTTTTT-TTTT
1 ATTTTAAAAGTTTTTGGTTT
402886 ATTTT
1 ATTTT
402891 TTGTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.67
Consensus pattern (20 bp):
ATTTTAAAAGTTTTTGGTTT
Found at i:403521 original size:4 final size:4
Alignment explanation
Indices: 403506--403549 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
403496 GCACGCGTAA
* * *
403506 ACAT ATAT ACAT ACAT ACAT ATAT ACAT ATAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
403550 GGGTTATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (4 bp):
ACAT
Found at i:403523 original size:8 final size:8
Alignment explanation
Indices: 403506--403549 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
403496 GCACGCGTAA
403506 ACATATAT
1 ACATATAT
*
403514 ACATACAT
1 ACATATAT
403522 ACATATAT
1 ACATATAT
403530 ACATATAT
1 ACATATAT
*
403538 ACATACAT
1 ACATATAT
403546 ACAT
1 ACAT
403550 GGGTTATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (8 bp):
ACATATAT
Found at i:410519 original size:185 final size:186
Alignment explanation
Indices: 410268--410647 Score: 500
Period size: 186 Copynumber: 2.0 Consensus size: 186
410258 ATTTTTTTAC
* *
410268 AATTTATTATTGTGAAAGAATATATTTGTTATAATTTTTATATTGAGAAATTTACATTTGTTATA
1 AATTTGTTATTGTAAAAGAATATATTTGTTATAATTTTTATATTGAGAAATTTACATTTGTTATA
**
410333 AATT-TTATTATGACTAAAT-AAATTTCTCAAAAGTTTTTATTTTGGGAAAATATTGTGACAAAA
66 AATTGTTATTATGACTAAATAAAATTT-TCAAAAGTTTTTATTTTGACAAAATATT-TGACAAAA
* * *
410396 TAATTTTGATATAA-CTTTTTACTTTGACTAATTTTAATATGTTATTACGACTAAATA
129 TAAATTTGATATAATCTTTTTACTTTGACTAAATTTAATATGGTATTACGACTAAATA
* * * *
410453 AATTTGTTATTGTAAAAGAATATATTT-TTCCTAATTTTTATGTTGAGAAA-TTATTATTTTTTA
1 AATTTGTTATTGTAAAAGAATATATTTGTT-ATAATTTTTATATTGAGAAATTTA-CATTTGTTA
* ****
410516 TAAATTGTTATTATGACTAAATAAAATTTTCAATAGTTTTTATTTTGACAAAATATTTTTTGAAA
64 TAAATTGTTATTATGACTAAATAAAATTTTCAAAAGTTTTTATTTTGACAAAATATTTGACAAAA
* * * **
410581 TAAATTTGATATAATTTTTTTATTTTGACTAAATTTAGTATGGTATTGTGACTAAATA
129 TAAATTTGATATAATCTTTTTACTTTGACTAAATTTAATATGGTATTACGACTAAATA
410639 AATTTGTTA
1 AATTTGTTA
410648 CAATTTATTA
Statistics
Matches: 169, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
184 5 0.03
185 73 0.43
186 85 0.50
187 6 0.04
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (186 bp):
AATTTGTTATTGTAAAAGAATATATTTGTTATAATTTTTATATTGAGAAATTTACATTTGTTATA
AATTGTTATTATGACTAAATAAAATTTTCAAAAGTTTTTATTTTGACAAAATATTTGACAAAATA
AATTTGATATAATCTTTTTACTTTGACTAAATTTAATATGGTATTACGACTAAATA
Found at i:410757 original size:196 final size:192
Alignment explanation
Indices: 410170--410847 Score: 686
Period size: 196 Copynumber: 3.5 Consensus size: 192
410160 AGTTGTGAAA
* * * * *
410170 AGTTTTTATTTTGAGAAAATATTGTAAGGAAAT-AATTTTACATAATTTTTTATTTTAACAAAAT
1 AGTTTTTATTTTGAGAAAATATTGTAATGAAATAAATTTGATATAATTTTTTATTTTGACTAAAT
* * *
410234 TTAATATGTTATTGTGACTAAATAATTTTTTTACAATTTATTATTGTGAAAGAATATATTTGTT-
66 TTAATATGTTATTATGACTAAATAAATTTGTTACAATTTATTA-TGTGAAA-AATATATTT-TTC
* * *
410298 ATAATTTTTATATTGAGAAATTTACATTTGTTATAAATT-TTATTATGACTAAATAAATTTCTCA
128 ATAATTTTTATATTGAGAAATTAATATTTGTTATAAATTGTTATTATGACTAAAT-AATTT-TCC
*
410362 AA
191 AT
* * ** * * * *
410364 AGTTTTTATTTTGGGAAAATATTGTGACAAAATAATTTTGATATAACTTTTTACTTTGACTAATT
1 AGTTTTTATTTTGAGAAAATATTGTAATGAAATAAATTTGATATAATTTTTTATTTTGACTAAAT
* * *
410429 TTAATATGTTATTACGACTAAATAAATTTGTT---ATTGTA--A----AAGAATATATTTTTCCT
66 TTAATATGTTATTATGACTAAATAAATTTGTTACAATT-TATTATGTGAAAAATATATTTTTCAT
* * * *
410485 AATTTTTATGTTGAGAAATTATTATTTTTTATAAATTGTTATTATGACTAAATAAAATTTTCAAT
130 AATTTTTATATTGAGAAATTAATATTTGTTATAAATTGTTATTATGACTAAAT--AATTTTCCAT
* **
410550 AGTTTTTATTTTGACAAAATATT-TTTTGAAATAAATTTGATATAATTTTTTTATTTTGACTAAA
1 AGTTTTTATTTTGAGAAAATATTGTAATGAAATAAATTTGATATAA-TTTTTTATTTTGACTAAA
* * *
410614 TTTAGTATGGTATTGTGACTAAATAAATTTGTTACAATTTATTACTGTGAAAAATATTATTTTTC
65 TTTAATATGTTATTATGACTAAATAAATTTGTTACAATTTATTA-TGTGAAAAATA-TATTTTTC
* * * * * *
410679 ATAAATTTTATATTAAGTAATTAATATGTGTTATTAATTGTTATTTTGACTAAATAATTTTTCCA
128 ATAATTTTTATATTGAGAAATTAATATTTGTTATAAATTGTTATTATGACTAAATAA-TTTTCCA
410744 T
192 T
* * * * *
410745 CA-TTTATTATTTTGAGAAACTATTGTGACT-AAATAAATCTGATATAATTTCTTATTTTGAATA
1 -AGTTT-TTATTTTGAGAAAATATTGT-AATGAAATAAATTTGATATAATTTTTTATTTTGACTA
* * *
410808 AATTTAATATATTATTATGATTAAAT-AATTTTTTACAATT
63 AATTTAATATGTTATTATGACTAAATAAATTTGTTACAATT
410848 AGATACAAAT
Statistics
Matches: 399, Mismatches: 63, Indels: 43
0.79 0.12 0.09
Matches are distributed among these distances:
184 2 0.01
185 59 0.15
186 86 0.22
187 6 0.02
188 2 0.01
189 3 0.01
190 1 0.00
191 1 0.00
192 3 0.01
193 2 0.01
194 31 0.08
195 80 0.20
196 105 0.26
197 17 0.04
198 1 0.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (192 bp):
AGTTTTTATTTTGAGAAAATATTGTAATGAAATAAATTTGATATAATTTTTTATTTTGACTAAAT
TTAATATGTTATTATGACTAAATAAATTTGTTACAATTTATTATGTGAAAAATATATTTTTCATA
ATTTTTATATTGAGAAATTAATATTTGTTATAAATTGTTATTATGACTAAATAATTTTCCAT
Found at i:410911 original size:142 final size:142
Alignment explanation
Indices: 410713--410979 Score: 369
Period size: 142 Copynumber: 1.9 Consensus size: 142
410703 TATGTGTTAT
* * * *
410713 TAATTGTTATTTTGACTAAATAATTTTTCCATCATTTATTATTTTGAGAAACTATTGTGACTAAA
1 TAATTGTTATTATGACT-AATAATTTTTCCATCAATTATTATTTTAAGAAAATATTGTGACTAAA
* * * *
410778 TAAATCTGATATAATTTCTTATTTTGAATAAATTTAATATATTATTATGATTAAATAATTTTTTA
65 TAAATCTGACATAATTCCTAATTTTGAATAAATTTAATATATTATTATGA-AAAATAATTTTTTA
410843 CAATTAGATACAAA
129 CAATTAGATACAAA
410857 TAATTGTTATTATGACT-ATAATTTTAT-CAT-AATTAGTTATTTTAAGAAAATATTGTGACTAA
1 TAATTGTTATTATGACTAATAATTTT-TCCATCAATTA-TTATTTTAAGAAAATATTGTGACTAA
* * * *
410919 ATAAATTTGACATAATTCCTAATTTTTATTAAATTTAATATGTTATTATGAAAAATAATTT
64 ATAAATCTGACATAATTCCTAATTTTGAATAAATTTAATATATTATTATGAAAAATAATTT
410980 AAATAAAAAA
Statistics
Matches: 109, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
141 13 0.12
142 79 0.72
143 1 0.01
144 16 0.15
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (142 bp):
TAATTGTTATTATGACTAATAATTTTTCCATCAATTATTATTTTAAGAAAATATTGTGACTAAAT
AAATCTGACATAATTCCTAATTTTGAATAAATTTAATATATTATTATGAAAAATAATTTTTTACA
ATTAGATACAAA
Found at i:414569 original size:18 final size:17
Alignment explanation
Indices: 414540--414578 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
414530 CAATAGTTTA
*
414540 TATAATTAAATAATACG
1 TATAATTAAATAAAACG
414557 TATAATATAAATAAAACG
1 TATAAT-TAAATAAAACG
414575 TATA
1 TATA
414579 CCGAATCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (17 bp):
TATAATTAAATAAAACG
Found at i:417049 original size:36 final size:37
Alignment explanation
Indices: 417001--417099 Score: 137
Period size: 36 Copynumber: 2.7 Consensus size: 37
416991 AAAGGTTGGT
417001 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT-G
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
* *
417037 TTTCAAGGGAAACTGTCTCAAGAGAGATAAAACTTAG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
* * * *
417074 TTCCAAAAGAAACTATCTCGAGAGAG
1 TTTCAAGAGAAACTGTCTCAAGAGAG
417100 GAAAACAGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 33 0.60
37 22 0.40
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (37 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
Found at i:417164 original size:21 final size:20
Alignment explanation
Indices: 417134--417203 Score: 53
Period size: 21 Copynumber: 3.6 Consensus size: 20
417124 TCAAGGGAAA
417134 TTGTCTCAAGAGAGACAAAAT
1 TTGT-TCAAGAGAGACAAAAT
417155 TTGATTCAAG-G-G---AAA-
1 TTG-TTCAAGAGAGACAAAAT
*
417170 CTGTCTCAAGAGAGACAAAAT
1 TTGT-TCAAGAGAGACAAAAT
417191 TTGTTTCAAGAGA
1 TTG-TTCAAGAGA
417204 AATTGTCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
14 1 0.03
15 7 0.18
16 4 0.11
17 1 0.03
19 1 0.03
20 4 0.11
21 18 0.47
22 2 0.05
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (20 bp):
TTGTTCAAGAGAGACAAAAT
Found at i:417175 original size:36 final size:36
Alignment explanation
Indices: 417118--417381 Score: 258
Period size: 36 Copynumber: 7.5 Consensus size: 36
417108 ATTCAAAGAT
* *
417118 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
417154 TTTGATTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
417190 TTTGTTTCAAGAGAAATTGTCTAAAGAGAGCCAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
417226 CTTAGTTCCAAAAGAAACTATCTCAAGGGAGACAAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* **
417263 TTTGTTTCAAG-GAAAACAGAT-TC-A-A-AG----TT
1 TTTGTTTCAAGAG-AAACTG-TCTCAAGAGAGACAAAA
* *
417292 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
417328 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
417364 TTTGTTTTAAGAGAAACT
1 TTTGTTTCAAGAGAAACT
417382 AGGCAAAACT
Statistics
Matches: 184, Mismatches: 32, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
28 1 0.01
29 17 0.09
30 2 0.01
31 1 0.01
32 2 0.01
33 2 0.01
35 2 0.01
36 128 0.70
37 29 0.16
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:417226 original size:121 final size:121
Alignment explanation
Indices: 417001--417226 Score: 319
Period size: 121 Copynumber: 1.9 Consensus size: 121
416991 AAAGGTTGGT
* *
417001 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACTGTCTCAAGAGAGATA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGATTCAAGGGAAACTGTCTCAAGAGAGACA
** *
417066 AAACTTAGTTCCAAAAGAAACTATCTCGAGAGAGGAAAACAGATTCAAAGATTTTG
66 AAACTTAGTTCCAAAAGAAACTATCTAAAGAGAGCAAAACAGATTCAAAGATTTTG
* * *
417122 TTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGATTCAAGGGAAACTGTCTCAAGAGAGACA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGATTCAAGGGAAACTGTCTCAAGAGAGACA
* * * * *
417187 AAA-TTTGTTTCAAGAGAAATTGTCTAAAGAGAGCCAAAAC
66 AAACTTAGTTCCAAAAGAAACTATCTAAAGAGAG-CAAAAC
417227 TTAGTTCCAA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
120 23 0.25
121 68 0.75
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.23
Consensus pattern (121 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGATTCAAGGGAAACTGTCTCAAGAGAGACA
AAACTTAGTTCCAAAAGAAACTATCTAAAGAGAGCAAAACAGATTCAAAGATTTTG
Found at i:417272 original size:73 final size:71
Alignment explanation
Indices: 417118--417277 Score: 214
Period size: 73 Copynumber: 2.2 Consensus size: 71
417108 ATTCAAAGAT
* * ** *
417118 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGATTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAA-GGAAATTGTCTAAAGAGAGACAAAATTAGATTCAAAAGAAACTATCTCAAGAGA
417183 GACAAAA
65 GACAAAA
* *
417190 TTTGTTTCAAGAGAAATTGTCTAAAGAGAGCCAAAACTTAG-TTCCAAAAGAAACTATCTCAAGG
1 TTTGTTTCAAG-GAAATTGTCTAAAGAGAGACAAAA-TTAGATT-CAAAAGAAACTATCTCAAGA
417254 GAGACAAAA
63 GAGACAAAA
417263 TTTGTTTCAAGGAAA
1 TTTGTTTCAAGGAAA
417278 ACAGATTCAA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
71 1 0.01
72 38 0.49
73 39 0.50
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (71 bp):
TTTGTTTCAAGGAAATTGTCTAAAGAGAGACAAAATTAGATTCAAAAGAAACTATCTCAAGAGAG
ACAAAA
Found at i:417366 original size:101 final size:103
Alignment explanation
Indices: 417190--417379 Score: 249
Period size: 101 Copynumber: 1.9 Consensus size: 103
417180 AGAGACAAAA
* * * * *
417190 TTTGTTTCAAGAGAAATTGTCTAAAGAGAGCCAAAACTTAGTTCCAAAAGAAACTATCTCAAGGG
1 TTTGTTTCAAGAGAAACTATCTAAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCTCAAGAG
417255 AGACAAAATTTGTTTCAAG-GAAAACAGATTCAAAGTT
66 AGACAAAATTTGTTTCAAGAGAAAACAGATTCAAAGTT
* * * ** * *
417292 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTTGTTTTAAGAGAAAATGTCTCAAGAG
1 TTTGTTTCAAGAGAAACTATCTAAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCTCAAGAG
*
417356 AGACAAAATTTGTTTTAAGAGAAA
66 AGACAAAATTTGTTTCAAGAGAAA
417380 CTAGGCAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
101 39 0.53
102 35 0.47
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (103 bp):
TTTGTTTCAAGAGAAACTATCTAAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCTCAAGAG
AGACAAAATTTGTTTCAAGAGAAAACAGATTCAAAGTT
Found at i:417376 original size:19 final size:19
Alignment explanation
Indices: 417318--417377 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
417308 CTATCTCAAG
417318 AGAGACAAAATTTGTTTTA
1 AGAGACAAAATTTGTTTTA
**
417337 AGAG--AAAA--TGTCTCAA
1 AGAGACAAAATTTGT-TTTA
417353 GAGAGACAAAATTTGTTTTA
1 -AGAGACAAAATTTGTTTTA
417373 AGAGA
1 AGAGA
417378 AACTAGGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
15 3 0.10
16 2 0.06
17 8 0.26
19 13 0.42
20 2 0.06
21 3 0.10
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (19 bp):
AGAGACAAAATTTGTTTTA
Found at i:418928 original size:95 final size:95
Alignment explanation
Indices: 418727--418986 Score: 310
Period size: 95 Copynumber: 2.7 Consensus size: 95
418717 AGCTAGCTGA
** * * * *
418727 ATCCATAAAGCCAAGGCGTTTAACAAATTGCTCTAGAGGGACAACTTAATATCATTGTATAG-AT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAAC-TCA-AGC-TT-TATTGTAT
* *
418791 ATTATAATCGTCTTTATCAGGCTAGCTGAATTTT
62 ATTATAATCCTCTTTATCAGGCTAGCTGAATCTT
* *
418825 ATCTATAAAGCCGGGGCGTTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
* *
418890 TAATCACT-TTTATCAGGTTAGTTGAATCTT
66 TAATC-CTCTTTATCAGGCTAGCTGAATCTT
* * * *
418920 ATCCATAAAGCCGGGGCATTTAACCAATTGCTTTATAGGGACAGCTCAAGCTTTATTGTATA-TA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
418984 TAA
66 TAA
418987 AATATTATAA
Statistics
Matches: 142, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
94 9 0.06
95 88 0.62
96 3 0.02
97 2 0.01
98 40 0.28
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCCTCTTTATCAGGCTAGCTGAATCTT
Found at i:431203 original size:16 final size:15
Alignment explanation
Indices: 431167--431205 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
431157 GAATTATTAT
*
431167 TTATTTTATTTTTAA
1 TTATTTTATTTTTTA
431182 GTTATTTTATTTTTTA
1 -TTATTTTATTTTTTA
431198 TCTATTTT
1 T-TATTTT
431206 TTAACAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (15 bp):
TTATTTTATTTTTTA
Found at i:432095 original size:16 final size:16
Alignment explanation
Indices: 432071--432119 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
432061 ACCAAAGATG
*
432071 TCAACTTTGCCAACTT
1 TCAATTTTGCCAACTT
432087 TCAATTTTGCCAACTT
1 TCAATTTTGCCAACTT
*
432103 TTAATTTTGCCAACTT
1 TCAATTTTGCCAACTT
432119 T
1 T
432120 ATACTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (16 bp):
TCAATTTTGCCAACTT
Found at i:432127 original size:16 final size:16
Alignment explanation
Indices: 432074--432127 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
432064 AAAGATGTCA
432074 ACTTTGCCAACTTTCA-
1 ACTTTGCCAACTTT-AT
*
432090 ATTTTGCCAACTTT-T
1 ACTTTGCCAACTTTAT
*
432105 AATTTTGCCAACTTTAT
1 -ACTTTGCCAACTTTAT
432122 ACTTTG
1 ACTTTG
432128 TTAATTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 32 0.97
17 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.46
Consensus pattern (16 bp):
ACTTTGCCAACTTTAT
Found at i:436814 original size:16 final size:16
Alignment explanation
Indices: 436790--436831 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
436780 ACCAAAGATG
436790 TCAACTTTGCCAACTT
1 TCAACTTTGCCAACTT
* * *
436806 TCAATTTTGTCGACTT
1 TCAACTTTGCCAACTT
436822 TCAACTTTGC
1 TCAACTTTGC
436832 TAATTTTTCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (16 bp):
TCAACTTTGCCAACTT
Found at i:436816 original size:25 final size:25
Alignment explanation
Indices: 436788--436842 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
436778 CAACCAAAGA
436788 TGTCAACTTTGCCAACTTT-C-AATTT
1 TGTCAACTTT--CAACTTTGCTAATTT
*
436813 TGTCGACTTTCAACTTTGCTAATTT
1 TGTCAACTTTCAACTTTGCTAATTT
436838 T-TCAA
1 TGTCAA
436843 AGCCAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.27
24 4 0.15
25 15 0.58
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (25 bp):
TGTCAACTTTCAACTTTGCTAATTT
Found at i:438855 original size:21 final size:20
Alignment explanation
Indices: 438816--438856 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
438806 TTTGCTTCCT
*
438816 TCCTAAAATTTTTAAGTTCA
1 TCCTAAAATTTTAAAGTTCA
438836 TCCTAAAATTTTAAAAGTTCA
1 TCCTAAAATTTT-AAAGTTCA
438857 ACCCATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TCCTAAAATTTTAAAGTTCA
Found at i:441295 original size:29 final size:29
Alignment explanation
Indices: 441253--441316 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
441243 TAAGATCAAA
*
441253 TTATATTAAACTTTCGATAGTCAATTATT
1 TTATATTAAACTTTCAATAGTCAATTATT
* * *
441282 TTATTTTAAACTTTCAATAGTCGATTTTT
1 TTATATTAAACTTTCAATAGTCAATTATT
441311 TTATAT
1 TTATAT
441317 GATTAGATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.53
Consensus pattern (29 bp):
TTATATTAAACTTTCAATAGTCAATTATT
Found at i:443510 original size:22 final size:23
Alignment explanation
Indices: 443467--443511 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
443457 ATGACAATGA
*
443467 CAATGACAATAGACCTATTTTTT
1 CAATGACAATAGACCTACTTTTT
* *
443490 CAATGA-AATAGGCTTACTTTTT
1 CAATGACAATAGACCTACTTTTT
443512 AATTATAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (23 bp):
CAATGACAATAGACCTACTTTTT
Found at i:447321 original size:38 final size:38
Alignment explanation
Indices: 447275--447351 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
447265 CACAAAAAAG
447275 TATGAATCATTGATATTTTGGTTACAAGAGAGTAAGTA
1 TATGAATCATTGATATTTTGGTTACAAGAGAGTAAGTA
*
447313 TATGAATCATTGATATTTTGGTTACAAGTGAGTAAGTA
1 TATGAATCATTGATATTTTGGTTACAAGAGAGTAAGTA
447351 T
1 T
447352 CGAAGAAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (38 bp):
TATGAATCATTGATATTTTGGTTACAAGAGAGTAAGTA
Found at i:457060 original size:29 final size:29
Alignment explanation
Indices: 457018--457079 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
457008 AGATTGCTAG
* * * *
457018 AGAAGTTGTCATGAGTCTCGATCATTTTC
1 AGAAGTCGCCATGAGTCTAGATAATTTTC
457047 AGAAGTCGCCATGAGTCTAGATAATTTTC
1 AGAAGTCGCCATGAGTCTAGATAATTTTC
457076 AGAA
1 AGAA
457080 CTGGTAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (29 bp):
AGAAGTCGCCATGAGTCTAGATAATTTTC
Found at i:470339 original size:21 final size:20
Alignment explanation
Indices: 470303--470367 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
470293 AGTAAAACAA
470303 TGAAA-GGATCTG-TCCTTTCT
1 TGAAAGGGAT-TGATCCTTT-T
470323 TGAAAGGGATTGATCCTTTT
1 TGAAAGGGATTGATCCTTTT
* *
470343 TCACGAGGGATTGATCC-TTT
1 TGA-AAGGGATTGATCCTTTT
470363 TGAAA
1 TGAAA
470368 AGGGGTCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.03
20 15 0.39
21 22 0.58
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (20 bp):
TGAAAGGGATTGATCCTTTT
Found at i:474006 original size:21 final size:21
Alignment explanation
Indices: 473967--474018 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
473957 GAATATTTTT
*
473967 TTAAAAATTTTATTCTTTTAATT
1 TTAAAAA--TTATTCTTTTAATA
* *
473990 TTTAAAATTATTGTTTTAATA
1 TTAAAAATTATTCTTTTAATA
474011 TTAAAAAT
1 TTAAAAAT
474019 ACAAAAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 19 0.76
23 6 0.24
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAAAAATTATTCTTTTAATA
Found at i:474060 original size:16 final size:17
Alignment explanation
Indices: 474029--474061 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
474019 ACAAAAATTC
*
474029 AAATTTAATTATAATAA
1 AAATTAAATTATAATAA
474046 AAATTAAATTA-AATAA
1 AAATTAAATTATAATAA
474062 TTTCATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAAATTATAATAA
Found at i:487375 original size:19 final size:20
Alignment explanation
Indices: 487351--487404 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
487341 TTATAAATAT
487351 ATTTTTTATATTTTA-ATTA
1 ATTTTTTATATTTTATATTA
*
487370 ATTTTTTA-ATTATATATTA
1 ATTTTTTATATTTTATATTA
* *
487389 ACTGTTTCATATTTTA
1 A-TTTTTTATATTTTA
487405 CCTAGTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.18
19 13 0.46
20 5 0.18
21 5 0.18
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTTTATATTTTATATTA
Found at i:487851 original size:3 final size:3
Alignment explanation
Indices: 487843--487876 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
487833 AAAAATTTAA
487843 AAG AAG AAG AAG -AG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
487877 TCGTCTAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:488406 original size:17 final size:16
Alignment explanation
Indices: 488370--488415 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
488360 TAAGATCTTA
488370 AACTTT-AAAAA-TTT
1 AACTTTAAAAAATTTT
488384 ACACTTTAAAAAATTGTT
1 A-ACTTTAAAAAATT-TT
*
488402 AACTTAAAAAAATT
1 AACTTTAAAAAATT
488416 ATTTTTCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 1 0.04
15 5 0.19
16 5 0.19
17 13 0.48
18 3 0.11
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (16 bp):
AACTTTAAAAAATTTT
Found at i:496288 original size:15 final size:16
Alignment explanation
Indices: 496268--496306 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
496258 GAAAATCAAG
496268 AATAAAGATC-AAGAC
1 AATAAAGATCTAAGAC
*
496283 AATAAAGA-CTAAGAT
1 AATAAAGATCTAAGAC
496298 AATAAAGAT
1 AATAAAGAT
496307 AAATAAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.18
Consensus pattern (16 bp):
AATAAAGATCTAAGAC
Found at i:504089 original size:25 final size:25
Alignment explanation
Indices: 504053--504198 Score: 149
Period size: 25 Copynumber: 5.9 Consensus size: 25
504043 ACAATATTTT
*
504053 ATGAAAGAATTTTGAAAAATTTTTG
1 ATGAAAGAATTTTGAAAAATGTTTG
* *
504078 ATAAAAGAATTTTGAGAAATGTTTG
1 ATGAAAGAATTTTGAAAAATGTTTG
*
504103 ATGAAATAATTTTGAAGAACAT-TTT-
1 ATGAAAGAATTTTGAA-AA-ATGTTTG
* *
504128 ATGAAATAATTTTGAAGAATGTTTG
1 ATGAAAGAATTTTGAAAAATGTTTG
* * *
504153 ATCAAATAATTTTAAAAAAATGTTTG
1 ATGAAAGAATTTT-GAAAAATGTTTG
504179 ATG-AAG--TTTTGAAAAATGTT
1 ATGAAAGAATTTTGAAAAATGTT
504199 GCCCCTTATT
Statistics
Matches: 103, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
22 9 0.09
23 6 0.06
24 4 0.04
25 65 0.63
26 17 0.17
27 2 0.02
ACGTcount: A:0.44, C:0.01, G:0.16, T:0.39
Consensus pattern (25 bp):
ATGAAAGAATTTTGAAAAATGTTTG
Found at i:511746 original size:20 final size:18
Alignment explanation
Indices: 511694--511772 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 18
511684 GTATTTGAAC
* *
511694 GGGTTTGAGTA-TTAAGA
1 GGGTTTGAGAATTTGAGA
**
511711 GGGTTT-AGGCTTTGAGA
1 GGGTTTGAGAATTTGAGA
511728 GGGTTTGAGTAGATTTGAGA
1 GGGTTTGAG-A-ATTTGAGA
* * *
511748 CGATTTGAGAATTTGA-T
1 GGGTTTGAGAATTTGAGA
511765 GGGTTTGA
1 GGGTTTGA
511773 ATGAAGAAGG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
16 2 0.04
17 23 0.48
18 8 0.17
19 1 0.02
20 14 0.29
ACGTcount: A:0.24, C:0.03, G:0.37, T:0.37
Consensus pattern (18 bp):
GGGTTTGAGAATTTGAGA
Found at i:514747 original size:19 final size:19
Alignment explanation
Indices: 514720--514771 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
514710 AATTAATTAG
514720 TAATA-AGATTAATAATAA
1 TAATATAGATTAATAATAA
*
514738 TAATATAGA-TAATAAATAC
1 TAATATAGATTAAT-AATAA
514757 TAATATA-ATTAATAA
1 TAATATAGATTAATAA
514772 CATTTTTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
TAATATAGATTAATAATAA
Found at i:515012 original size:26 final size:26
Alignment explanation
Indices: 514976--515027 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
514966 GGGTGACAGG
514976 ACTCCTACATAATGAGGAGATTTAGT
1 ACTCCTACATAATGAGGAGATTTAGT
515002 ACTCCTACATAATGAGGAGATTTAGT
1 ACTCCTACATAATGAGGAGATTTAGT
515028 CATGGGATGA
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:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (26 bp):
ACTCCTACATAATGAGGAGATTTAGT
Found at i:515390 original size:129 final size:127
Alignment explanation
Indices: 515093--515391 Score: 289
Period size: 129 Copynumber: 2.3 Consensus size: 127
515083 GTGATAATCC
* *
515093 GGTTCCTA-GATGATGAGGACGACTGGTTATCTTGGTTGACATAGCTCCTACATAATGAGGAAAT
1 GGTTCCTACG-TGATGAGGA-GACTGGTTATCTGGGTTGACACAGCTCCTACATAATGAGGAAAT
* * * * *
515157 CTAGTCGGGTGATGACACGGCTCATACGCGATGAAGAGTTCTGACCTTCTAAAGGTGATAACAT
64 CTAGTCGGGTGATGACAAGGCTCATACGCGATGAAGAGTGCAGACCATCTAAAGGTGATAACAA
** * * * * * * *
515221 GACTCATACGTGATGAAGAGTTCTGGTTATCAAGGATTGACACGGCTCCTACATAATGAGGAGAT
1 GGTTCCTACGTGATGAGGAG-ACTGGTTATC-TGGGTTGACACAGCTCCTACATAATGAGGAAAT
* * * * * * *
515286 C-AGGTCGGGTGATGACAAGGTTCCTGCGTGATGAGGA-TGGCAGGCCATCTATAGGTGATAACA
64 CTA-GTCGGGTGATGACAAGGCTCATACGCGATGAAGAGT-GCAGACCATCTAAAGGTGATAACA
515349 A
127 A
*
515350 GGTTCCTACGTGATGAGGATGACTGGCTATCTGGGGTTGACA
1 GGTTCCTACGTGATGAGGA-GACTGGTTATCT-GGGTTGACA
515392 TCGTTCATAC
Statistics
Matches: 133, Mismatches: 31, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
127 1 0.01
128 24 0.18
129 107 0.80
130 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (127 bp):
GGTTCCTACGTGATGAGGAGACTGGTTATCTGGGTTGACACAGCTCCTACATAATGAGGAAATCT
AGTCGGGTGATGACAAGGCTCATACGCGATGAAGAGTGCAGACCATCTAAAGGTGATAACAA
Found at i:515713 original size:91 final size:91
Alignment explanation
Indices: 515558--515730 Score: 285
Period size: 91 Copynumber: 1.9 Consensus size: 91
515548 AAGTGTTGAA
*
515558 TTGAACAAGCTCTTCTCATTATGAACTTCTTCTCTCTTGTTAGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGCTCTTCTCATTATGAACTTCTTCTCTCTCGTTAGATGAGTTCTTCTCATTATGAAC
515623 TCTCCACTGGAAATGTTAATGCAAGG
66 TCTCCACTGGAAATGTTAATGCAAGG
* * *
515649 TTGAACGAGTTCTTCTCATTATGAACTTCTT-TTTCCTCGTTAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGCTCTTCTCATTATGAACTTCTTCTCT-CTCGTTAGATGAGTTCTTCTCATTATGAA
*
515713 CTCTTCACTGGAAATGTT
65 CTCTCCACTGGAAATGTT
515731 GATTCACCTC
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
90 2 0.03
91 74 0.97
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (91 bp):
TTGAACAAGCTCTTCTCATTATGAACTTCTTCTCTCTCGTTAGATGAGTTCTTCTCATTATGAAC
TCTCCACTGGAAATGTTAATGCAAGG
Done.