Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 73
Found at i:8495663 original size:20 final size:20
Alignment explanation
Indices: 8495640--8495704 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
8495630 TGGTAAGTTC
8495640 TTCGGGTCATCAGTAAGTCT
1 TTCGGGTCATCAGTAAGTCT
* * *
8495660 TTCGAG-CATGATGATTAAATCT
1 TTCGGGTCATCA-G--TAAGTCT
* *
8495682 TTCGGGTCATCTGTCAGTCT
1 TTCGGGTCATCAGTAAGTCT
8495702 TTC
1 TTC
8495705 AAGCAATATG
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 4 0.12
20 14 0.42
22 12 0.36
23 3 0.09
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (20 bp):
TTCGGGTCATCAGTAAGTCT
Found at i:8495716 original size:42 final size:41
Alignment explanation
Indices: 8495639--8495733 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
8495629 TTGGTAAGTT
*
8495639 CTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATC
1 CTTCGGGTCATCAGTAAGTCTTTCAAGCATGATGA-TAAATC
* * * *
8495681 TTTCGGGTCATCTGTCAGTCTTTCAAGCAAT-ATGATAAGTC
1 CTTCGGGTCATCAGTAAGTCTTTCAAGC-ATGATGATAAATC
*
8495722 CTTCGGGCCATC
1 CTTCGGGTCATC
8495734 CATAAGACCT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 15 0.33
42 28 0.62
43 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (41 bp):
CTTCGGGTCATCAGTAAGTCTTTCAAGCATGATGATAAATC
Found at i:8495910 original size:257 final size:257
Alignment explanation
Indices: 8495255--8496717 Score: 2091
Period size: 257 Copynumber: 5.7 Consensus size: 257
8495245 ATTAAGTTAT
* * * * *
8495255 TTTGAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAATGTTTCCATAAAATGAATTTTTTG
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG
* * * **
8495320 AAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTTCAAAATTAATAAGTCCT
66 AAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
* * * *
8495385 TCGGGCCATCAGTAAGTATTTCGAGCATGCTGATTAAATCCTTCGGGTCATCTGTAAGTATTTTG
131 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
* * * * ** *
8495450 AGCAAGAAGATAAGTCCTTCGTGCCATCCGTAAGAACTTTTGGTAGGATGTTTTCACGTGAA
196 AGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAA
* *
8495512 TTTGAAAAATGAG-AAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCATAAAATGAAATTTTTG
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG
* * * *
8495576 AAAAGTAAGAAAGTGAATTCCAAAGTTTCTTACCCAATAAACTATTTCCCAAATTGGTAAGTTCT
66 AAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
* * * *
8495641 TCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCTTTCGGGTCATCTGTCAGTCTTTCA
131 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
*
8495706 AGCAATATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAA
196 AGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAA
* * *
8495768 TTTGAAAAATGAGAAAGAGATTTCCAAAGTTTCTCATTTAATATTATCAGAAAATGAAATTTTTA
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG
*
8495833 AAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
66 AAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
* *
8495898 TTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATATGTAAGTCTTTCG
131 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
* * * *
8495963 AGCAAGATGATAAGTTCTTCGAGCAATCCATAAGACCTTCCGGTAGGATGTTTTCACATGAA
196 AGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAA
* * *
8496025 TTTGAAAAATAAGAAAGCGATTTCCAAAAGTTTCTCATTTAGTATTTTTAGAAAATGAAATTTTT
1 TTTGAAAAATGAGAAAGCGATTTCC-AAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTT
****
8496090 GAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTTTTGAATTGGTAAGTCC
65 GAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCC
* * * *
8496155 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGACTAAATCCTTCGTGTTATCTGTAAGCCTTTC
130 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTC
** ** *
8496220 GAGCAAGATGATAAGTCCTTCATGCCATCTGTAAGACCTTCGGGTAGGATGTTTCCACATGAA
195 GAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAA
* *
8496283 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATATAGTATTTTCAGAAAATGAAATTTTTG
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG
* * * *
8496348 AAAAGTAAGAAAGTGATTTCTAAAGCTTCTTACCCAGTAAACTATTTCCCAAATTGGTTAGTCCT
66 AAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
* * ** * * * * *
8496413 TCGGGCCATCAATTAGTCTTTAAAGCATGGTGATTAAATCTTTCAGGTCATCTATAATTCTTTCG
131 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
* * ** **
8496478 AGCAAGATGATAAGTCCTTTGGGCCATTCATAAGACCTTCATGTAGGATGTTTTCGTATGAA
196 AGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAA
* * *
8496540 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTTAGAAAATTAAATTTTTG
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG
** * * *
8496605 AAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACATAGTAAATTATTTCCAAAATTAGTAAGTCCT
66 AAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
* * * *
8496670 TTGTGCAATCAGTAAGTCTTTCGAGCATAATGATTAAATCCTTCGGGT
131 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
8496718 TATTTGTCGG
Statistics
Matches: 1070, Mismatches: 134, Indels: 4
0.89 0.11 0.00
Matches are distributed among these distances:
256 226 0.21
257 611 0.57
258 233 0.22
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (257 bp):
TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG
AAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
AGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAA
Found at i:8496199 original size:42 final size:41
Alignment explanation
Indices: 8496152--8496259 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 41
8496142 AATTGGTAAG
* * * *
8496152 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGACTAAA
1 TCCTTCGTGCCATCTGTAAGCCTTTCGAGCAAGATGA-TAAA
** *
8496194 TCCTTCGTGTTATCTGTAAGCCTTTCGAGCAAGATGATAAG
1 TCCTTCGTGCCATCTGTAAGCCTTTCGAGCAAGATGATAAA
*
8496235 TCCTTCATGCCATCTGTAAGACCTT
1 TCCTTCGTGCCATCTGTAAG-CCTT
8496260 CGGGTAGGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 20 0.36
42 35 0.64
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (41 bp):
TCCTTCGTGCCATCTGTAAGCCTTTCGAGCAAGATGATAAA
Found at i:8496297 original size:515 final size:513
Alignment explanation
Indices: 8495255--8496720 Score: 2124
Period size: 515 Copynumber: 2.9 Consensus size: 513
8495245 ATTAAGTTAT
* * * *
8495255 TTTGAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAATGTTTCCATAAAATGAATTTTTTG
1 TTTGAAAAATGAGAAAGAGATTTCCAAAGTTTCTCATTTAATATTT-CAGAAAATGAAATTTTTG
* * * * **
8495320 AAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTTCAAAATTAATAAGTCCT
65 AAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
* * * *
8495385 TCGGGCCATCAGTAAGTATTTCGAGCATGCTGATTAAATCCTTCGGGTCATCTGTAAGTATTTTG
130 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
* * * * ** *
8495450 AGCAAGAAGATAAGTCCTTCGTGCCATCCGTAAGAACTTTTGGTAGGATGTTTTCACGTGAATTT
195 AGCAAGATGATAAGTCCTTCGAGCCATCCATAAGACCTTCAGGTAGGATGTTTTCACATGAATTT
* *
8495515 GAAAAATGAG-AAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCATAAAATGAAATTTTTGAAA
260 GAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTTAGAAAATGAAATTTTTGAAA
* * * * *
8495579 AGTAAGAAAGTGAATTCCAAAGTTTCTTACCCAATAAACTATTTCCCAAATTGGTAAGTTCTTCG
325 AGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTCG
* * * * *
8495644 GGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCTTTCGGGTCATCTGTCAGTCTTTCAAGC
390 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTTATCTGTAAGCCTTTCAAGC
* * *
8495709 AATATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAA
455 AAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGTAGGATGTTTCCACATGAA
*
8495768 TTTGAAAAATGAGAAAGAGATTTCCAAAGTTTCTCATTTAATATTATCAGAAAATGAAATTTTTA
1 TTTGAAAAATGAGAAAGAGATTTCCAAAGTTTCTCATTTAATATT-TCAGAAAATGAAATTTTTG
8495833 AAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
65 AAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
* *
8495898 TTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATATGTAAGTCTTTCG
130 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
* * *
8495963 AGCAAGATGATAAGTTCTTCGAGCAATCCATAAGACCTTCCGGTAGGATGTTTTCACATGAATTT
195 AGCAAGATGATAAGTCCTTCGAGCCATCCATAAGACCTTCAGGTAGGATGTTTTCACATGAATTT
*
8496028 GAAAAATAAGAAAGCGATTTCCAAAAGTTTCTCATTTAGTATTTTTAGAAAATGAAATTTTTGAA
260 GAAAAATGAGAAAGCGATTTCC-AAAGTTTCTCATTTAGTATTTTTAGAAAATGAAATTTTTGAA
****
8496093 AAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTTTTGAATTGGTAAGTCCTTC
324 AAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTC
* * *
8496158 GGGCCATCAGTAAGTCTTTCGAGCATGATGACTAAATCCTTCGTGTTATCTGTAAGCCTTTCGAG
389 GGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTTATCTGTAAGCCTTTCAAG
* **
8496223 CAAGATGATAAGTCCTTCATGCCATCTGTAAGACCTTCGGGTAGGATGTTTCCACATGAA
454 CAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGTAGGATGTTTCCACATGAA
* * *
8496283 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATATAGTATTTTCAGAAAATGAAATTTTTG
1 TTTGAAAAATGAGAAAGAGATTTCCAAAGTTTCTCATTTAATA-TTTCAGAAAATGAAATTTTTG
* * *
8496348 AAAAGTAAGAAAGTGATTTCTAAAGCTTCTTACCCAGTAAACTATTTCCCAAATTGGTTAGTCCT
65 AAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCT
* * ** * * * * *
8496413 TCGGGCCATCAATTAGTCTTTAAAGCATGGTGATTAAATCTTTCAGGTCATCTATAATTCTTTCG
130 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
* * * * **
8496478 AGCAAGATGATAAGTCCTTTGGGCCATTCATAAGACCTTCATGTAGGATGTTTTCGTATGAATTT
195 AGCAAGATGATAAGTCCTTCGAGCCATCCATAAGACCTTCAGGTAGGATGTTTTCACATGAATTT
* * *
8496543 GAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTTAGAAAATTAAATTTTTGAAA
260 GAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTTAGAAAATGAAATTTTTGAAA
** * * *
8496608 AGTAAGAAAGCGATTTCCAAAGTTTCTTACATAGTAAATTATTTCCAAAATTAGTAAGTCCTTTG
325 AGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTCG
* * *
8496673 TGCAATCAGTAAGTCTTTCGAGCATAATGATTAAATCCTTCGGGTTAT
390 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTTAT
8496721 TTGTCGGTCT
Statistics
Matches: 853, Mismatches: 96, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
513 241 0.28
514 151 0.18
515 459 0.54
516 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (513 bp):
TTTGAAAAATGAGAAAGAGATTTCCAAAGTTTCTCATTTAATATTTCAGAAAATGAAATTTTTGA
AAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCTT
CGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGA
GCAAGATGATAAGTCCTTCGAGCCATCCATAAGACCTTCAGGTAGGATGTTTTCACATGAATTTG
AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTTAGAAAATGAAATTTTTGAAAA
GTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTTATCTGTAAGCCTTTCAAGCA
AGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGTAGGATGTTTCCACATGAA
Found at i:8496859 original size:3 final size:3
Alignment explanation
Indices: 8496853--8496902 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
8496843 TTTTTCTGGG
* *
8496853 TTA TTA TTA ATA TGTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTT
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8496898 TTA TT
1 TTA TT
8496903 TTTTTACAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8502794 original size:34 final size:34
Alignment explanation
Indices: 8502751--8502875 Score: 120
Period size: 34 Copynumber: 3.8 Consensus size: 34
8502741 TTCGTCCTAC
8502751 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
8502785 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
*
8502820 GCTAGGATTC--A-----AAAAATATGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
8502849 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
8502876 CCACAAGCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 14 0.19
34 38 0.51
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:8503351 original size:2 final size:2
Alignment explanation
Indices: 8503287--8503332 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
8503277 TTATTAGTGT
8503287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8503329 TA TA
1 TA TA
8503333 CCTATTTTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8503455 original size:16 final size:18
Alignment explanation
Indices: 8503434--8503468 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
8503424 TTTACTCATT
8503434 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
8503450 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
8503468 T
1 T
8503469 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:8505615 original size:18 final size:18
Alignment explanation
Indices: 8505592--8505631 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
8505582 TTCCTTCAAG
8505592 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
8505610 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
8505628 TCTG
1 TCTG
8505632 AAAGACTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (18 bp):
TCTGGATTCACATCCACT
Found at i:8507372 original size:16 final size:16
Alignment explanation
Indices: 8507346--8507398 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
8507336 AGATCCAATC
8507346 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
8507361 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
* * *
8507378 AAAAACACACAAAGAAA
1 AAGAACA-AAAAAGCAA
8507395 AAGA
1 AAGA
8507399 GAAACAAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.16
16 10 0.32
17 16 0.52
ACGTcount: A:0.75, C:0.11, G:0.13, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:8508105 original size:22 final size:22
Alignment explanation
Indices: 8508080--8508128 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
8508070 CCATCAATCT
* *
8508080 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGCCAAACC
8508102 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGCCAAACC
8508124 TTTGA
1 TTTGA
8508129 CCAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATGCCAAACC
Found at i:8508566 original size:18 final size:18
Alignment explanation
Indices: 8508543--8508578 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8508533 TCAACATCAA
* *
8508543 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
8508561 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
8508579 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:8509046 original size:36 final size:35
Alignment explanation
Indices: 8509006--8509338 Score: 209
Period size: 36 Copynumber: 9.5 Consensus size: 35
8508996 ACACATGATT
* * *
8509006 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
1 GTTTCTCTTAAAACAA-ATTTGTCTCTCTTGAGACA
* * * **
8509042 GTTT-TCACTAGAAGAGTTTTGTCTCT-TTGAGACA
1 GTTTCTC-TTAAAACAAATTTGTCTCTCTTGAGACA
* *
8509076 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACA
* *
8509112 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 GTTTCTCTTAAAACAAATTT-GTCTCTCTTGAGACA
* ** *
8509148 GTTTCCCTGGAAATAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACA
* * * *
8509184 GTTTCCCTTAAAACAAA-----ATAT-TTGA-ATA
1 GTTTCTCTTAAAACAAATTTGTCTCTCTTGAGACA
* * *
8509212 TGTTT-TCTTTGAAACAAATTCCGTCTCCCTTGAGACA
1 -GTTTCTC-TTAAAACAAATT-TGTCTCTCTTGAGACA
* ** *
8509249 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTCTTAAAAC-AA-ATTTGTCTCTCTTGAGACA
* * *
8509286 GTTTCTCTTGAAACAATTTTCGTCTATCTTGAGACA
1 GTTTCTCTTAAAACAAATTT-GTCTCTCTTGAGACA
* *
8509322 GTTTCCCTTGAAACAAA
1 GTTTCTCTTAAAACAAA
8509339 ACCTTTGAAT
Statistics
Matches: 235, Mismatches: 42, Indels: 40
0.74 0.13 0.13
Matches are distributed among these distances:
28 3 0.01
29 17 0.07
30 2 0.01
34 15 0.06
35 28 0.12
36 134 0.57
37 34 0.14
38 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (35 bp):
GTTTCTCTTAAAACAAATTTGTCTCTCTTGAGACA
Found at i:8509246 original size:101 final size:103
Alignment explanation
Indices: 8509113--8509301 Score: 283
Period size: 102 Copynumber: 1.9 Consensus size: 103
8509103 CTTGAGACAG
* *
8509113 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTC-CCTGGAAATAAATTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCTCCTGGAAATAAATTTTGTCTCTCT
8509177 TGAGACAGTTTCCCTTAAAACAAAATATTTGAATATGT
66 TGAGACAGTTTCCCTTAAAACAAAATATTTGAATATGT
* ** * *
8509215 TTTCT-TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCTCCTGGAAATAAATTTTGTCTCTCT
* *
8509279 TGAGACAGTTTCTCTTGAAACAA
66 TGAGACAGTTTCCCTTAAAACAA
8509302 TTTTCGTCTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 31 0.40
102 46 0.60
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (103 bp):
TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCTCCTGGAAATAAATTTTGTCTCTCT
TGAGACAGTTTCCCTTAAAACAAAATATTTGAATATGT
Found at i:8509346 original size:138 final size:137
Alignment explanation
Indices: 8509083--8509401 Score: 379
Period size: 138 Copynumber: 2.3 Consensus size: 137
8509073 ACAGTTTCCC
** *
8509083 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
* *
8509148 GTTTCCCTGGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAAATATTTGAATAT
66 GTTTCCCTGGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTAAAACAAAACATTTGAATAT
8509213 GTTTTCT
131 GTTTTCT
* * * * *
8509220 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCTTGAGAC
* * * * *
8509285 AGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCTTTGAAT
65 AGTTTCCCTGGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTAAAACAAAACATTTGAAT
* * * *
8509349 TTATTTCCC
129 ATGTTTTCT
* * * ** * *
8509358 CTAAAAAAAATTTTGTCTCCTTTGAGACAGTTACTCTTGAAACA
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACA
8509402 CAAAATCTTC
Statistics
Matches: 152, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
137 45 0.30
138 107 0.70
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (137 bp):
TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
GTTTCCCTGGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTAAAACAAAACATTTGAATAT
GTTTTCT
Found at i:8509430 original size:67 final size:68
Alignment explanation
Indices: 8509313--8509480 Score: 198
Period size: 68 Copynumber: 2.5 Consensus size: 68
8509303 TTTCGTCTAT
* * **
8509313 CTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCTAAAA-AAAATTTTGTC
1 CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAAAACAAAATTTTGTC
8509375 TCC
66 TCC
* * * * *
8509378 TTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAAAACAAAATTTTGTC
8509443 TCC
66 TCC
* *
8509446 CTTGAGACCGTTTCTCATGAAACAACAAATATCTT
1 CTTGAGACAGTTTCTCTTGAAAC-ACAAA-ATCTT
8509481 TGAGATCGTT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
65 16 0.19
66 2 0.02
67 26 0.31
68 31 0.36
69 5 0.06
70 5 0.06
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (68 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAAAACAAAATTTTGTC
TCC
Found at i:8510306 original size:105 final size:105
Alignment explanation
Indices: 8510074--8510839 Score: 1060
Period size: 105 Copynumber: 7.3 Consensus size: 105
8510064 GCCATCTGCG
* * * * * *
8510074 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
8510139 GGGA-CGACTGGTTGTCAACAAAAAACTTCTCAATTTCAGAGCCA
63 GGGACCG-CTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* *
8510183 ATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
8510248 ACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
8510288 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
8510353 ACCGCTGCTTGTCAACAACAACCTCTTAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * *
8510393 ATTTCAACTTCACAACAAATGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
8510458 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * *
8510498 ATTTCAACTTCACAACGAAGGATATTGGACTTCATACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
8510563 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
8510603 ATTTCAATTTCACAACGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
8510668 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * *
8510703 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * ** *
8510768 A-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCG-CTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* * *
8510809 ATTTCAACTTCACGACGGAGGATATTAGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
8510840 TGGAACAATG
Statistics
Matches: 597, Mismatches: 52, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
99 2 0.00
100 79 0.13
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 398 0.67
106 79 0.13
107 5 0.01
109 21 0.04
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:8511431 original size:34 final size:34
Alignment explanation
Indices: 8511388--8511512 Score: 120
Period size: 34 Copynumber: 3.8 Consensus size: 34
8511378 TTCGTCCTAC
8511388 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
8511422 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
*
8511457 GCTAGGATTC--A-----AAAAATATGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
8511486 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
8511513 CCACAAGCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 14 0.19
34 38 0.51
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:8511930 original size:2 final size:2
Alignment explanation
Indices: 8511925--8511959 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
8511915 TTAGTGTTAT
*
8511925 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8511960 TTCCTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:8512060 original size:24 final size:23
Alignment explanation
Indices: 8511996--8512064 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
8511986 ATATTACTTT
*
8511996 TGATTTT-CTTTTTTTTATTATTA
1 TGATTTTACTTTTTTATA-TATTA
* * *
8512019 TTATTTTACTTATATATATATATA
1 TGATTTTACTTTTTTATATAT-TA
*
8512043 TGCTTTTACTTTTTTATATATT
1 TGATTTTACTTTTTTATATATT
8512065 TTACTCATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 10 0.28
24 26 0.72
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (23 bp):
TGATTTTACTTTTTTATATATTA
Found at i:8512095 original size:16 final size:18
Alignment explanation
Indices: 8512074--8512108 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
8512064 TTTACTCATT
8512074 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
8512090 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
8512108 T
1 T
8512109 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:8512796 original size:18 final size:18
Alignment explanation
Indices: 8512757--8512796 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8512747 ATTACTCGGT
*
8512757 ATTTAAATATAAAAATTG
1 ATTTAAATATAAAAATTA
* *
8512775 ATTTAAGTATAAAACTTA
1 ATTTAAATATAAAAATTA
8512793 ATTT
1 ATTT
8512797 GAACGATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
ATTTAAATATAAAAATTA
Found at i:8513244 original size:44 final size:42
Alignment explanation
Indices: 8513179--8513543 Score: 214
Period size: 43 Copynumber: 8.5 Consensus size: 42
8513169 AAAAATTATT
* * *
8513179 AAATTAGGGACTTAAACTATAAAAGTGAAAAAGTATGATTGAAA
1 AAATTAGGGACCTCAATTATAAAAGT-AAAAAGTA-GATTGAAA
* * *
8513223 AAATTAGGGACCTCAATTATAAAGGTGAAAAGTGAAATT-AAA
1 AAATTAGGGACCTCAATTATAAAAGTAAAAAGT-AGATTGAAA
* * * * *
8513265 AAAATAAGAATCC-CAATTTTAAAGGTAAAAAGTTAGATTGAAA
1 AAATTAGGGA-CCTCAATTATAAAAGTAAAAAG-TAGATTGAAA
*
8513308 AAATTAGGG--CTCAATTAT-AAAGATATAAAGTGAGATTGAAA
1 AAATTAGGGACCTCAATTATAAAAG-TAAAAAGT-AGATTGAAA
* * * * *
8513349 AGCA-TA-TGAGCTCAATTATAAATGTATAAAGTGAGATTGAAA
1 A-AATTAGGGACCTCAATTATAAAAGTAAAAAGT-AGATTGAAA
*
8513391 AAATTAGGG-CCATCAGTTATAAACA-TAAAAAAGTAGGATTGAAA
1 AAATTAGGGACC-TCAATTATAAA-AGT-AAAAAGTA-GATTGAAA
* *
8513435 AAATTAAGGG-TCTCAATTAT-AAAGATAAAAAATAGGATT-ACAA
1 AAATT-AGGGACCTCAATTATAAAAG-TAAAAAGTA-GATTGA-AA
** * * * *
8513478 AAAAGAGAGCCCTCAATTATAAAAATAAAAAGTATGATTAAAA
1 AAATTAGGGACCTCAATTATAAAAGTAAAAAGTA-GATTGAAA
* * * *
8513521 AAATGAGAGCCCCCAATTATAAA
1 AAATTAGGGACCTCAATTATAAA
8513544 GAAAAAAAAT
Statistics
Matches: 258, Mismatches: 39, Indels: 49
0.75 0.11 0.14
Matches are distributed among these distances:
40 6 0.02
41 25 0.10
42 68 0.26
43 100 0.39
44 54 0.21
45 5 0.02
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.24
Consensus pattern (42 bp):
AAATTAGGGACCTCAATTATAAAAGTAAAAAGTAGATTGAAA
Found at i:8513304 original size:85 final size:84
Alignment explanation
Indices: 8513196--8513544 Score: 248
Period size: 83 Copynumber: 4.1 Consensus size: 84
8513186 GGACTTAAAC
* *
8513196 TATAAAAGTGAAAAAG-TATGATTGAAAAAATTAGGGACCTCAATTATAAAGGTGA-AAAGTGAA
1 TATAAAGGT-AAAAAGTTA-GATTGAAAAAATTAGGG-CCTCAATTATAAAGAT-ATAAAGTGAA
*
8513259 ATT-AAAAAAATAAGAATCCCAAT
62 ATTGAAAAAAATAAG-AGCCCAAT
* *
8513282 TTTAAAGGTAAAAAGTTAGATTGAAAAAATTAGGG-CTCAATTATAAAGATATAAAGTGAGATTG
1 TATAAAGGTAAAAAGTTAGATTGAAAAAATTAGGGCCTCAATTATAAAGATATAAAGTGAAATTG
** * *
8513346 AAAAGCATATGAGCTCAAT
66 AAAAAAATAAGAGCCCAAT
* * * * * * *
8513365 TATAAATGTATAAAGTGAGATTGAAAAAATTAGGGCCATCAGTTATAAACATAAAAAAGT-AGGA
1 TATAAAGGTAAAAAGTTAGATTGAAAAAATTAGGGCC-TCAATTATAAAGAT-ATAAAGTGA-AA
* * *
8513429 TTGAAAAAATTAAGGGTCTCAAT
63 TTGAAAAAAATAAGAG-CCCAAT
* * ** * * * *
8513452 TATAAAGATAAAAA-ATAGGATT-ACAAAAAAGAGAGCCCTCAATTATAAAAATAAAAAGT-ATG
1 TATAAAGGTAAAAAGTTA-GATTGA-AAAAATTAG-GGCCTCAATTATAAAGATATAAAGTGA-A
*
8513514 ATT-AAAAAAATGAGAGCCCCCAAT
62 ATTGAAAAAAATAAGAG--CCCAAT
8513538 TATAAAG
1 TATAAAG
8513545 AAAAAAAATA
Statistics
Matches: 214, Mismatches: 37, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
82 1 0.00
83 61 0.29
84 9 0.04
85 46 0.21
86 54 0.25
87 40 0.19
88 3 0.01
ACGTcount: A:0.51, C:0.08, G:0.17, T:0.24
Consensus pattern (84 bp):
TATAAAGGTAAAAAGTTAGATTGAAAAAATTAGGGCCTCAATTATAAAGATATAAAGTGAAATTG
AAAAAAATAAGAGCCCAAT
Found at i:8513561 original size:43 final size:42
Alignment explanation
Indices: 8513448--8513568 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 42
8513438 TTAAGGGTCT
* * *
8513448 CAATTATAAAGATAAAAAATAGGATTACAAAAAAGAGAGCCCT
1 CAATTATAAAGAAAAAAAATAAGATTA-AAAAAAGAGAGCCCC
* *
8513491 CAATTATAAA-AATAAAAAGTATGATTAAAAAAATGAGAGCCCC
1 CAATTATAAAGAA-AAAAAATAAGATTAAAAAAA-GAGAGCCCC
* *
8513534 CAATTATAAAGAAAAAAAATAAAATTAAAGAAAGA
1 CAATTATAAAGAAAAAAAATAAGATTAAAAAAAGA
8513569 ATTCAATTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
42 9 0.13
43 56 0.84
44 2 0.03
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (42 bp):
CAATTATAAAGAAAAAAAATAAGATTAAAAAAAGAGAGCCCC
Found at i:8514127 original size:13 final size:13
Alignment explanation
Indices: 8514109--8514133 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8514099 TTAGCTTCTG
8514109 ATGTTTCATTTCA
1 ATGTTTCATTTCA
8514122 ATGTTTCATTTC
1 ATGTTTCATTTC
8514134 TGGGTAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
ATGTTTCATTTCA
Found at i:8519690 original size:14 final size:15
Alignment explanation
Indices: 8519662--8519690 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8519652 TATTAATAGA
8519662 TTGCATGACATAAAT
1 TTGCATGACATAAAT
8519677 TTGCATGA-ATAAAT
1 TTGCATGACATAAAT
8519691 AAACATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (15 bp):
TTGCATGACATAAAT
Found at i:8521698 original size:41 final size:40
Alignment explanation
Indices: 8521614--8521780 Score: 160
Period size: 41 Copynumber: 4.1 Consensus size: 40
8521604 AGGTAAATCA
**
8521614 TACTTTAGT-GCGTTTTTA-AACAAACACCGCTA-ACGACTAG
1 TACTTTAGTGGCGTTTTTAGAA-AAAC-GTGCTATA-GACTAG
* * * *
8521654 TACTTTAGTGGCATTTTTAGATAAACGATGTTATAGACTCG
1 TACTTTAGTGGCGTTTTTAGAAAAACG-TGCTATAGACTAG
*
8521695 TACTTTAGTGGCGTTTTTAGAAAAACGTCGCTATAGACTAT
1 TACTTTAGTGGCGTTTTTAGAAAAACGT-GCTATAGACTAG
* * * *
8521736 TACTTTAGTGGCGTTTTTAGACAAACGCCGCTGTAGACTCG
1 TACTTTAGTGGCGTTTTTAGAAAAACG-TGCTATAGACTAG
8521777 TACT
1 TACT
8521781 GCATGGAGTT
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
40 10 0.10
41 93 0.89
42 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (40 bp):
TACTTTAGTGGCGTTTTTAGAAAAACGTGCTATAGACTAG
Found at i:8521727 original size:82 final size:81
Alignment explanation
Indices: 8521614--8521780 Score: 212
Period size: 82 Copynumber: 2.0 Consensus size: 81
8521604 AGGTAAATCA
*
8521614 TACTTTAGTGCGTTTTTAAACAAACACCGCTA-ACGACTAGTACTTTAGTGGCATTTTTAGATAA
1 TACTTTAGTGCGTTTTTAAACAAACACCGCTATA-GACTAGTACTTTAGTGGCATTTTTAGACAA
* *
8521678 ACGATGTTATAGACTCG
65 ACGACGCTATAGACTCG
** * *
8521695 TACTTTAGTGGCGTTTTTAGAA-AAACGTCGCTATAGACTATTACTTTAGTGGCGTTTTTAGACA
1 TACTTTAGT-GCGTTTTTA-AACAAACACCGCTATAGACTAGTACTTTAGTGGCATTTTTAGACA
* *
8521759 AACGCCGCTGTAGACTCG
64 AACGACGCTATAGACTCG
8521777 TACT
1 TACT
8521781 GCATGGAGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
81 9 0.12
82 62 0.84
83 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (81 bp):
TACTTTAGTGCGTTTTTAAACAAACACCGCTATAGACTAGTACTTTAGTGGCATTTTTAGACAAA
CGACGCTATAGACTCG
Found at i:8524901 original size:44 final size:44
Alignment explanation
Indices: 8524846--8524930 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
8524836 TTTTACATTT
* *
8524846 ACAAACACCATTATATGACATAACACTTAGCGGTATTTTTGGGA
1 ACAAACACCATTATATGACAAAACACTTAGCGGCATTTTTGGGA
* * * *
8524890 ACAAACGCCATTATATGTCAAAATATTTAGCGGCATTTTTG
1 ACAAACACCATTATATGACAAAACACTTAGCGGCATTTTTG
8524931 AGACAACCCC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (44 bp):
ACAAACACCATTATATGACAAAACACTTAGCGGCATTTTTGGGA
Found at i:8525948 original size:17 final size:17
Alignment explanation
Indices: 8525908--8525948 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8525898 TATCTTGAAA
*
8525908 AAATAAAATAAATATAT
1 AAATAAAATAAATAAAT
* *
8525925 TAGTAAAATAAATAAAT
1 AAATAAAATAAATAAAT
8525942 AAATAAA
1 AAATAAA
8525949 TGATAATAAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATAAAATAAATAAAT
Found at i:8526375 original size:18 final size:17
Alignment explanation
Indices: 8526343--8526376 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8526333 AACAATAACA
*
8526343 TAAAATGAAAATAAAAG
1 TAAAATAAAAATAAAAG
8526360 TAAAATAAATAATAAAA
1 TAAAATAAA-AATAAAA
8526377 TCAAAGAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAAAATAAAAATAAAAG
Found at i:8527499 original size:157 final size:159
Alignment explanation
Indices: 8527229--8527544 Score: 609
Period size: 157 Copynumber: 2.0 Consensus size: 159
8527219 AAAGGATTTG
8527229 AGTTATAAGGAATGTATTTAAGTTTTATCCAGTCTCTAGTTGAGTAAATAACTCATTTTTATACC
1 AGTTATAAGGAATGTATTTAAGTTTTATCCAGTCTCTAGTTGAGTAAATAACTCATTTTTATACC
8527294 TTGTTAGTGAAAGAGGTTAAAGATAGTTCAAAAGTCAAGGGTAAAAGAAAGGTGAATTCCTAGTT
66 TTGTTAGTGAAAGAGGTTAAAGATAGTTCAAAAGTCAAGGGTAAAAGAAAGGTGAATTCCTAGTT
8527359 GTTGAGAGAGGTTTTAGTATCCAAAGAAT
131 GTTGAGAGAGGTTTTAGTATCCAAAGAAT
8527388 AGTTATAA-GAATGTATTTAAGTTTTATCCAGTCTCTAGTTGAGTAAATAACTCA-TTTTATACC
1 AGTTATAAGGAATGTATTTAAGTTTTATCCAGTCTCTAGTTGAGTAAATAACTCATTTTTATACC
*
8527451 TTGTTAGTTAAAGAGGTTAAAGATAGTTCAAAAGTCAAGGGTAAAAGAAAGGTGAATTCCTAGTT
66 TTGTTAGTGAAAGAGGTTAAAGATAGTTCAAAAGTCAAGGGTAAAAGAAAGGTGAATTCCTAGTT
8527516 GTTGAGAGAGGTTTTAGTATCCAAAGAAT
131 GTTGAGAGAGGTTTTAGTATCCAAAGAAT
8527545 CCAGGTAACA
Statistics
Matches: 156, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
157 102 0.65
158 46 0.29
159 8 0.05
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (159 bp):
AGTTATAAGGAATGTATTTAAGTTTTATCCAGTCTCTAGTTGAGTAAATAACTCATTTTTATACC
TTGTTAGTGAAAGAGGTTAAAGATAGTTCAAAAGTCAAGGGTAAAAGAAAGGTGAATTCCTAGTT
GTTGAGAGAGGTTTTAGTATCCAAAGAAT
Found at i:8533171 original size:23 final size:23
Alignment explanation
Indices: 8533145--8533236 Score: 184
Period size: 23 Copynumber: 4.0 Consensus size: 23
8533135 TGGTAGTGGT
8533145 AAGTCCAGTTATATACTTACTTA
1 AAGTCCAGTTATATACTTACTTA
8533168 AAGTCCAGTTATATACTTACTTA
1 AAGTCCAGTTATATACTTACTTA
8533191 AAGTCCAGTTATATACTTACTTA
1 AAGTCCAGTTATATACTTACTTA
8533214 AAGTCCAGTTATATACTTACTTA
1 AAGTCCAGTTATATACTTACTTA
8533237 GACAAAGAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (23 bp):
AAGTCCAGTTATATACTTACTTA
Found at i:8540455 original size:24 final size:23
Alignment explanation
Indices: 8540416--8540527 Score: 100
Period size: 24 Copynumber: 4.7 Consensus size: 23
8540406 ATTTTCGATT
** *
8540416 TGAATTCTGTCCTGATACATGACC
1 TGAATTCTGTTATGATAC-TGATC
*
8540440 TGAATTCTGTTATGATTTCTGATC
1 TGAATTCTGTTATGA-TACTGATC
*
8540464 T-AGATTCTGTTATGATATTTGATC
1 TGA-ATTCTGTTATGATA-CTGATC
* *
8540488 TGGATTCTGTTATGATATCTGATT
1 TGAATTCTGTTATGATA-CTGATC
*
8540512 TGAATTCTGTTTTGAT
1 TGAATTCTGTTATGAT
8540528 TTATGAAATC
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.03
24 69 0.95
25 2 0.03
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.47
Consensus pattern (23 bp):
TGAATTCTGTTATGATACTGATC
Found at i:8540522 original size:48 final size:48
Alignment explanation
Indices: 8540412--8540527 Score: 135
Period size: 48 Copynumber: 2.4 Consensus size: 48
8540402 TCTGATTTTC
** *
8540412 GATTTGAATTCTGTCCTGATACATGACCTGAATTCTGTTATGATTTCT
1 GATTTGAATTCTGTTATGATACATGACCTGAATTCTGTTATGATATCT
* ** * *
8540460 GATCT-AGATTCTGTTATGATATTTGATCTGGATTCTGTTATGATATCT
1 GATTTGA-ATTCTGTTATGATACATGACCTGAATTCTGTTATGATATCT
*
8540508 GATTTGAATTCTGTTTTGAT
1 GATTTGAATTCTGTTATGAT
8540528 TTATGAAATC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
47 1 0.02
48 54 0.96
49 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.47
Consensus pattern (48 bp):
GATTTGAATTCTGTTATGATACATGACCTGAATTCTGTTATGATATCT
Found at i:8543882 original size:34 final size:33
Alignment explanation
Indices: 8543844--8543974 Score: 88
Period size: 34 Copynumber: 3.7 Consensus size: 33
8543834 AGAAACTAAA
8543844 AATAATGAAAATAAATAAATAGTATAAATA-AAAT
1 AATAATGAAAATAAATAAA-A-TATAAATAGAAAT
** * *
8543878 AATAAAAAAAATATATAAAAATATAAAATATAAA-
1 AATAATGAAAATAAAT-AAAATAT-AAATAGAAAT
* *
8543912 AATATATGTATAATATAATAAAATACTAAATAGTAAT
1 AATA-ATG-AAAATA-AATAAAATA-TAAATAGAAAT
8543949 AATAAT-AATAATAAATGAAAAATATA
1 AATAATGAA-AATAAAT--AAAATATA
8543975 CATATAATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
33 3 0.04
34 27 0.36
35 13 0.17
36 26 0.34
37 7 0.09
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (33 bp):
AATAATGAAAATAAATAAAATATAAATAGAAAT
Found at i:8543883 original size:21 final size:21
Alignment explanation
Indices: 8543851--8543964 Score: 62
Period size: 19 Copynumber: 5.6 Consensus size: 21
8543841 AAAAATAATG
*
8543851 AAAATAAATAAATAGTATAAAT
1 AAAAT-AATAAATAATATAAAT
* * *
8543873 AAAATAATAAAAAAAATATAT
1 AAAATAATAAATAATATAAAT
8543894 -AAA-AATATAA-AATATAAA-
1 AAAATAATA-AATAATATAAAT
* **
8543912 AATAT-ATGTATAATAT-AAT
1 AAAATAATAAATAATATAAAT
* *
8543931 AAAATACTAAATAGTA-ATAAT
1 AAAATAATAAATAATATA-AAT
8543952 AATAATAATAAAT
1 AA-AATAATAAAT
8543965 GAAAAATATA
Statistics
Matches: 68, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
18 3 0.04
19 23 0.34
20 11 0.16
21 17 0.25
22 14 0.21
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.29
Consensus pattern (21 bp):
AAAATAATAAATAATATAAAT
Found at i:8543888 original size:12 final size:13
Alignment explanation
Indices: 8543860--8543913 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 13
8543850 GAAAATAAAT
*
8543860 AAATAGTATAAATA
1 AAATA-TATAAAAA
8543874 AAATA-ATAAAAA
1 AAATATATAAAAA
8543886 AAATATATAAAAA
1 AAATATATAAAAA
*
8543899 TATAAAATATAAAAA
1 -A-AATATATAAAAA
8543914 TATATGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 11 0.31
13 7 0.20
14 6 0.17
15 11 0.31
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AAATATATAAAAA
Found at i:8543910 original size:15 final size:15
Alignment explanation
Indices: 8543871--8543917 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
8543861 AATAGTATAA
8543871 ATAAAATAATAAAAA-
1 ATAAAAT-ATAAAAAT
*
8543886 A-AATATATAAAAAT
1 ATAAAATATAAAAAT
8543900 ATAAAATATAAAAAT
1 ATAAAATATAAAAAT
8543915 ATA
1 ATA
8543918 TGTATAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 7 0.25
14 5 0.18
15 16 0.57
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAAAATATAAAAAT
Found at i:8543918 original size:17 final size:17
Alignment explanation
Indices: 8543840--8543918 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 17
8543830 GCAAAGAAAC
8543840 TAAAAATA-ATGAAAATA
1 TAAAAATATAT-AAAATA
8543857 -AATAAATAGTAT-AAATA
1 TAA-AAATA-TATAAAATA
* *
8543874 -AAATAATAAAAAAAATA
1 TAAA-AATATATAAAATA
8543891 TATAAAA-ATATAAAATA
1 TA-AAAATATATAAAATA
8543908 TAAAAATATAT
1 TAAAAATATAT
8543919 GTATAATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
16 8 0.16
17 35 0.70
18 3 0.06
19 4 0.08
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
TAAAAATATATAAAATA
Found at i:8543923 original size:29 final size:28
Alignment explanation
Indices: 8543870--8543963 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 28
8543860 AAATAGTATA
8543870 AATAAAATAATAAAAAAAATATATAAAA-
1 AATAAAAT-ATAAAAAAAATATATAAAAT
* * *
8543898 ATATAAAATATAAAAATATATGTATAATAT
1 A-ATAAAATATAAAAA-AAATATATAAAAT
**
8543928 AATAAAATACTAAATAGTAATA-ATAATAAT
1 AATAAAATA-TAAA-AAAAATATATAA-AAT
8543958 AATAAA
1 AATAAA
8543964 TGAAAAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
28 8 0.15
29 28 0.54
30 15 0.29
31 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (28 bp):
AATAAAATATAAAAAAAATATATAAAAT
Found at i:8546873 original size:106 final size:106
Alignment explanation
Indices: 8546689--8547964 Score: 1906
Period size: 106 Copynumber: 12.0 Consensus size: 106
8546679 GCATTGTTCC
* * * * **
8546689 GAGTCCAATATCCTCCGTCGTGAACTTGAAATTGGCTCTGGAATCAGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
** * * * *
8546754 CCAGCATTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
8546795 GAGTCCAATATTCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
8546860 CCAGCGGTCCCTTCATCGTAAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
8546901 GAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
8546966 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
8547007 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * *
8547072 CCAGAGGTCCCTTCGTTGTGAAGTTGAACTTGCATTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** *
8547113 GAGTCTAATATCCTTCGACGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
8547178 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
8547219 GAGTACAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTAGGAAATTTTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
8547284 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCATTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
8547325 GAGTCCAATATCCTTCGCTGTGAAGTTTAAATTGGCTGTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
8547390 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
8547431 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
8547496 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
8547537 GTGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTGTTGACA
* * *
8547601 ACCAACGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* **
8547643 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTACTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
8547708 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
8547749 GAGTCCAATATCCTTCGTCGGGAAGTTGAAATTGGATCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
8547814 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
8547855 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * *
8547920 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
8547961 GAGT
1 GAGT
8547965 GGCACGATAT
Statistics
Matches: 1063, Mismatches: 105, Indels: 4
0.91 0.09 0.00
Matches are distributed among these distances:
105 3 0.00
106 1055 0.99
107 5 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:8548948 original size:22 final size:22
Alignment explanation
Indices: 8548922--8548976 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
8548912 TTGTATTTGG
8548922 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
8548944 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
8548966 TCAAAGGTTTG
1 TCAAAGGTTTG
8548977 ATGGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:8549611 original size:14 final size:14
Alignment explanation
Indices: 8549594--8549644 Score: 77
Period size: 14 Copynumber: 3.6 Consensus size: 14
8549584 TTCTTTTTGA
8549594 TTTTTGTTCTTTCT
1 TTTTTGTTCTTTCT
8549608 TTTTTGTTC-TTCT
1 TTTTTGTTCTTTCT
8549621 TTTTTGCTTCTTTTCT
1 TTTTTG-TTC-TTTCT
8549637 TTTTTGTT
1 TTTTTGTT
8549645 TTTGCCCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 10 0.29
14 12 0.35
15 2 0.06
16 10 0.29
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.78
Consensus pattern (14 bp):
TTTTTGTTCTTTCT
Found at i:8554340 original size:29 final size:28
Alignment explanation
Indices: 8554308--8554371 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 28
8554298 GCAAAGAAAC
*
8554308 TAAAAATAATGAAATAATAAATAGT-AAAA
1 TAAAAATAAT-AAAAAATAAATA-TAAAAA
*
8554337 T-AAAATAATAAAAAATATATATAAAAA
1 TAAAAATAATAAAAAATAAATATAAAAA
8554364 TATAAAAT
1 TA-AAAAT
8554372 GTATGTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 1 0.03
27 15 0.50
28 8 0.27
29 6 0.20
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (28 bp):
TAAAAATAATAAAAAATAAATATAAAAA
Found at i:8554362 original size:21 final size:21
Alignment explanation
Indices: 8554319--8554415 Score: 63
Period size: 21 Copynumber: 4.7 Consensus size: 21
8554309 AAAAATAATG
* * *
8554319 AAATAATAAATAGTA-AAATA
1 AAATAATAAAAAATATATATA
8554339 AAATAATAAAAAATATATATA
1 AAATAATAAAAAATATATATA
** *
8554360 AAA-ATATAAAATGTATGTATA
1 AAATA-ATAAAAAATATATATA
* * * *
8554381 ATATAATAAATACTAAATATA
1 AAATAATAAAAAATATATATA
* *
8554402 TAATAATAATAAAT
1 AAATAATAAAAAAT
8554416 CAAAATAAAT
Statistics
Matches: 57, Mismatches: 17, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
20 14 0.25
21 42 0.74
22 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (21 bp):
AAATAATAAAAAATATATATA
Found at i:8554365 original size:27 final size:28
Alignment explanation
Indices: 8554310--8554362 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
8554300 AAAGAAACTA
*
8554310 AAAATAATGAAATAATAAATAGTAAAAT
1 AAAATAATGAAAAAATAAATAGTAAAAT
*
8554338 AAAATAAT-AAAAAATATATA-TAAAA
1 AAAATAATGAAAAAATAAATAGTAAAA
8554363 ATATAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 10 0.43
28 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (28 bp):
AAAATAATGAAAAAATAAATAGTAAAAT
Found at i:8554403 original size:23 final size:23
Alignment explanation
Indices: 8554377--8554437 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 23
8554367 AAAATGTATG
*
8554377 TATAATATAATAAATACTAAAT-A
1 TATAATATAATAAAT-CAAAATAA
8554400 TATAATAATAATAAATCAAAATAAA
1 TATAAT-ATAATAAATCAAAAT-AA
8554425 TATACATATAATA
1 TATA-ATATAATA
8554438 TTAACTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.33
24 9 0.27
25 11 0.33
26 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAATATAATAAATCAAAATAA
Found at i:8554426 original size:17 final size:18
Alignment explanation
Indices: 8554313--8554415 Score: 56
Period size: 17 Copynumber: 5.9 Consensus size: 18
8554303 GAAACTAAAA
8554313 ATAATGAAATAATAAATAGT
1 ATAAT-AAATAATAAATA-T
* *
8554333 AAAATAAAATAATAAA-AA
1 ATAAT-AAATAATAAATAT
*
8554351 AT-ATATATAA-AAATAT
1 ATAATAAATAATAAATAT
* ** * *
8554367 AAAATGTAT-GTATA-AT
1 ATAATAAATAATAAATAT
*
8554383 ATAATAAATACTAAATAT
1 ATAATAAATAATAAATAT
8554401 ATAAT-AATAATAAAT
1 ATAATAAATAATAAAT
8554416 CAAAATAAAT
Statistics
Matches: 62, Mismatches: 16, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
15 3 0.05
16 15 0.24
17 21 0.34
18 8 0.13
19 1 0.02
20 14 0.23
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (18 bp):
ATAATAAATAATAAATAT
Found at i:8554447 original size:27 final size:25
Alignment explanation
Indices: 8554377--8554474 Score: 69
Period size: 27 Copynumber: 3.8 Consensus size: 25
8554367 AAAATGTATG
*
8554377 TATAATATAATAAATACTAAATATATA
1 TATAATATAATAAA-A-TAAATATACA
8554404 -ATAATAATAAATCAAAATAAATATACA
1 TATAAT-AT-AAT-AAAATAAATATACA
*
8554431 TATAATATTAACTAAAAAAAATA-ATCA
1 TATAATA-TAA-TAAAATAAATATA-CA
*
8554458 TAGAA-AT-ATAAAATAAA
1 TATAATATAATAAAATAAA
8554475 ATAAGTAAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
23 8 0.13
24 1 0.02
25 1 0.02
26 7 0.12
27 29 0.48
28 11 0.18
29 3 0.05
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (25 bp):
TATAATATAATAAAATAAATATACA
Found at i:8554908 original size:17 final size:17
Alignment explanation
Indices: 8554886--8554919 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8554876 AACACAGCAA
8554886 GGGTAAGGAAAAATAAC
1 GGGTAAGGAAAAATAAC
8554903 GGGTAAGGAAAAATAAC
1 GGGTAAGGAAAAATAAC
8554920 ATGCGAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.29, T:0.12
Consensus pattern (17 bp):
GGGTAAGGAAAAATAAC
Found at i:8555166 original size:37 final size:37
Alignment explanation
Indices: 8555068--8555169 Score: 141
Period size: 37 Copynumber: 2.8 Consensus size: 37
8555058 ATGCTTGTGG
* ** * *
8555068 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
*
8555105 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
*
8555142 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAG
8555170 TAGGACGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
Found at i:8560249 original size:182 final size:187
Alignment explanation
Indices: 8559942--8560310 Score: 687
Period size: 182 Copynumber: 2.0 Consensus size: 187
8559932 GACTAGGGTA
8559942 AAACCTTATGAACCCAAGGTGTTCCCTTAGATTGGAACCTAAGCCTAATGGGCCTAGGGTAAGTC
1 AAACCTTATGAACCCAAGGTGTTCCCTTAGATTGGAACCTAAGCCTAATGGGCCTAGGGTAAGTC
8560007 CTTATGGATGTAGTTATAGGGAACTGTATATTGGTTGTTCATTGGAGGGTTTTACCACGATTTT-
66 CTTATGGATGTAGTTATAGGGAACTGTATATTGGTTGTTCATTGGAGGGTTTTACCACGATTTTA
8560071 AAAA-A-ATTTT-AACTA-TACTGTTTTAAAAAGATATGTACATTTTCACTGGTTTT
131 AAAATACATTTTAAACTATTACTGTTTTAAAAAGATATGTACATTTTCACTGGTTTT
8560124 AAACCTTATGAACCCAAGGTGTTCCCTTAGATTGGAACCTAAGCCTAATGGGCCTAGGGTAAGTC
1 AAACCTTATGAACCCAAGGTGTTCCCTTAGATTGGAACCTAAGCCTAATGGGCCTAGGGTAAGTC
8560189 CTTATGGATGTAGTTATAGGGAACTGTATATTGG-TGTTCAGTTGGAGGGTTTTACCACGATTTT
66 CTTATGGATGTAGTTATAGGGAACTGTATATTGGTTGTTCA-TTGGAGGGTTTTACCACGATTTT
8560253 AAAAATACATTTTAAACTATTACTGTTTTAAAAAGATATGTACATTTTCACTGGTTTT
130 AAAAATACATTTTAAACTATTACTGTTTTAAAAAGATATGTACATTTTCACTGGTTTT
8560311 GTGGGAACAC
Statistics
Matches: 181, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
181 6 0.03
182 122 0.67
183 4 0.02
184 1 0.01
185 5 0.03
186 5 0.03
187 38 0.21
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (187 bp):
AAACCTTATGAACCCAAGGTGTTCCCTTAGATTGGAACCTAAGCCTAATGGGCCTAGGGTAAGTC
CTTATGGATGTAGTTATAGGGAACTGTATATTGGTTGTTCATTGGAGGGTTTTACCACGATTTTA
AAAATACATTTTAAACTATTACTGTTTTAAAAAGATATGTACATTTTCACTGGTTTT
Found at i:8562546 original size:17 final size:17
Alignment explanation
Indices: 8562524--8562574 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
8562514 AATTAAGAGT
8562524 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
8562541 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
*
8562558 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
8562575 AAACTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:8569161 original size:3 final size:3
Alignment explanation
Indices: 8569155--8569181 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8569145 AAGAAGAAGA
8569155 AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG
8569182 TAGGCAACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:8570797 original size:21 final size:21
Alignment explanation
Indices: 8570773--8570812 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8570763 TATAAAAAAT
8570773 TATTTTTATTAAATATTTTGG
1 TATTTTTATTAAATATTTTGG
* *
8570794 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATATTTT
8570813 AAATAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
TATTTTTATTAAATATTTTGG
Found at i:8578866 original size:13 final size:13
Alignment explanation
Indices: 8578848--8578872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8578838 GACTCTGTTC
8578848 GAGTTGACTCAGT
1 GAGTTGACTCAGT
8578861 GAGTTGACTCAG
1 GAGTTGACTCAG
8578873 CTCACCCGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (13 bp):
GAGTTGACTCAGT
Found at i:8579767 original size:12 final size:11
Alignment explanation
Indices: 8579726--8579767 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
8579716 AATTTGATTA
8579726 AATTAATTCTTT
1 AATTAATT-TTT
8579738 --TTAATTTTT
1 AATTAATTTTT
8579747 AATTAATTTTT
1 AATTAATTTTT
8579758 AATTATATTT
1 AATTA-ATTT
8579768 AGGGTTGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 3 0.11
10 6 0.22
11 14 0.52
12 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
AATTAATTTTT
Found at i:8582834 original size:29 final size:29
Alignment explanation
Indices: 8582796--8582861 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
8582786 TTCAAAAGTC
8582796 AAATTGATTT-ATTTTTTAAAAAAAATCTT
1 AAATT-ATTTAATTTTTTAAAAAAAATCTT
* * *
8582825 AAACTTATTTAATTTTTTTAAAAATATTTT
1 AAA-TTATTTAATTTTTTAAAAAAAATCTT
8582855 AAATTAT
1 AAATTAT
8582862 AAATATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (29 bp):
AAATTATTTAATTTTTTAAAAAAAATCTT
Found at i:8582953 original size:20 final size:19
Alignment explanation
Indices: 8582874--8582972 Score: 57
Period size: 20 Copynumber: 5.2 Consensus size: 19
8582864 ATATAAAATG
8582874 ATTAAAA-TATTA-AAAAA
1 ATTAAAATTATTATAAAAA
* *
8582891 ATT-AAA-T-TTAGAAATTA
1 ATTAAAATTATTATAAA-AA
*
8582908 ATAAAAATTAAATTATCAAAAA
1 ATTAAAATT--ATTAT-AAAAA
*
8582930 ATTAATATTCA-TATAAAAA
1 ATTAAAATT-ATTATAAAAA
8582949 TATTAAAATTATTATAAAATA
1 -ATTAAAATTATTATAAAA-A
8582970 ATT
1 ATT
8582973 TTAAAAAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
15 3 0.05
16 7 0.11
17 6 0.10
18 3 0.05
19 7 0.11
20 21 0.33
21 2 0.03
22 11 0.17
23 3 0.05
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (19 bp):
ATTAAAATTATTATAAAAA
Found at i:8583019 original size:45 final size:43
Alignment explanation
Indices: 8582956--8583040 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 43
8582946 AAATATTAAA
8582956 ATTATTATAAAATAATTTTAAAAAAATGAATATATATATATATATAT
1 ATTATTATAAAATAATTTT-AAAAAA-G-ATATAT-TATATATATAT
*
8583003 ATTATTA-AAAAT-ATTTTTAAAAAGATATATTATATATA
1 ATTATTATAAAATAATTTTAAAAAAGATATATTATATATA
8583041 ACATATACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
41 8 0.22
42 6 0.16
43 1 0.03
44 5 0.14
45 5 0.14
46 5 0.14
47 7 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTATTATAAAATAATTTTAAAAAAGATATATTATATATATAT
Found at i:8595110 original size:85 final size:85
Alignment explanation
Indices: 8595016--8595173 Score: 192
Period size: 85 Copynumber: 1.9 Consensus size: 85
8595006 GCTTGTAGTA
* * * ** *
8595016 AAAATGCCACTACATATCAT-AATATATAACAATGTTTGGGTGAAATATGCCACTATATATCATC
1 AAAACGCCACTACATATCATGAATAT-TAACAATGTTTCGGTGAAAAACACCACCATATATCATC
8595080 ACTATTAGCGACATTTGGGTG
65 ACTATTAGCGACATTTGGGTG
* * *** *
8595101 AAAACGCCACTATATATCATGACTATTAGTGATGTTTCGGTGAAAAACACCACCATATATCATGA
1 AAAACGCCACTACATATCATGAATATTAACAATGTTTCGGTGAAAAACACCACCATATATCATCA
8595166 CTATTAGC
66 CTATTAGC
8595174 AGTGATTTGG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
85 56 0.93
86 4 0.07
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (85 bp):
AAAACGCCACTACATATCATGAATATTAACAATGTTTCGGTGAAAAACACCACCATATATCATCA
CTATTAGCGACATTTGGGTG
Found at i:8595126 original size:42 final size:42
Alignment explanation
Indices: 8595050--8595173 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 42
8595040 TATAACAATG
* *
8595050 TTTGGGTGAAATATGCCACTATATATCATCACTATTAGCGACA
1 TTTGGGTGAAA-ACGCCACTATATATCATGACTATTAGCGACA
* **
8595093 TTTGGGTGAAAACGCCACTATATATCATGACTATTAGTGATG
1 TTTGGGTGAAAACGCCACTATATATCATGACTATTAGCGACA
* * *
8595135 TTTCGGTGAAAAACACCACCATATATCATGACTATTAGC
1 TTTGGGTG-AAAACGCCACTATATATCATGACTATTAGC
8595174 AGTGATTTGG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 33 0.46
43 38 0.54
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (42 bp):
TTTGGGTGAAAACGCCACTATATATCATGACTATTAGCGACA
Found at i:8595186 original size:43 final size:43
Alignment explanation
Indices: 8595065--8595186 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 43
8595055 GTGAAATATG
* ** * *
8595065 CCACTATATATCATCACTATTAGCGACATTTGGGTG-AAAACG
1 CCACTATATATCATGACTATTAGCGTGATTTCGGTGAAAAACA
*
8595107 CCACTATATATCATGACTATTAGTGATG-TTTCGGTGAAAAACA
1 CCACTATATATCATGACTATTAGCG-TGATTTCGGTGAAAAACA
*
8595150 CCACCATATATCATGACTATTAGCAGTGATTT-GGTGA
1 CCACTATATATCATGACTATTAGC-GTGATTTCGGTGA
8595187 CCAAATGCCA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 30 0.44
43 34 0.50
44 4 0.06
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (43 bp):
CCACTATATATCATGACTATTAGCGTGATTTCGGTGAAAAACA
Found at i:8598674 original size:22 final size:23
Alignment explanation
Indices: 8598624--8598685 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
8598614 CGATTCCCCT
*
8598624 AGGGGAAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
*
8598647 AGGGGGAATCGGTTCCCCTT-TA
1 AGGGGGAATCGGTTCCCCTTCAA
* *
8598669 AGGGGGTATCGATTCCC
1 AGGGGGAATCGGTTCCC
8598686 TCTACCTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCCTTCAA
Found at i:8602518 original size:22 final size:21
Alignment explanation
Indices: 8602476--8602515 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8602466 GAGTTTATTT
*
8602476 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
8602497 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
8602516 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:8609291 original size:25 final size:25
Alignment explanation
Indices: 8609217--8609283 Score: 134
Period size: 25 Copynumber: 2.7 Consensus size: 25
8609207 AGGTTAACTC
8609217 TTTTATGAGATTTACTGCAATATGA
1 TTTTATGAGATTTACTGCAATATGA
8609242 TTTTATGAGATTTACTGCAATATGA
1 TTTTATGAGATTTACTGCAATATGA
8609267 TTTTATGAGATTTACTG
1 TTTTATGAGATTTACTG
8609284 GACTATGACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.46
Consensus pattern (25 bp):
TTTTATGAGATTTACTGCAATATGA
Found at i:8616634 original size:25 final size:25
Alignment explanation
Indices: 8616560--8616625 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
8616550 AGGTTAACTC
*
8616560 TTTTATGAGATTTACTGCAATATGA
1 TTTTATGAGATTTACTGAAATATGA
8616585 TTTTATGAGATTTACTGAAATATGA
1 TTTTATGAGATTTACTGAAATATGA
8616610 TTTTATGAGATTTACT
1 TTTTATGAGATTTACT
8616626 AGACTATGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (25 bp):
TTTTATGAGATTTACTGAAATATGA
Found at i:8617648 original size:20 final size:21
Alignment explanation
Indices: 8617620--8617659 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8617610 CTTTGTATAG
*
8617620 TAGTGTCGATACCA-AAGGCT
1 TAGTATCGATACCATAAGGCT
8617640 TAGTATCGATACCATAAGGC
1 TAGTATCGATACCATAAGGC
8617660 CCCAACGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (21 bp):
TAGTATCGATACCATAAGGCT
Found at i:8619931 original size:26 final size:25
Alignment explanation
Indices: 8619893--8619978 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 25
8619883 TATGATTAAA
*
8619893 ATAAGAATATAAT-AGTATCATATATT
1 ATAATAATATAATGAGTAT-AT-TATT
*
8619919 ATTATAATATAATTGAGTATATTATT
1 ATAATAATATAA-TGAGTATATTATT
* * *
8619945 GTAATAATATAATTATTATATTATT
1 ATAATAATATAATGAGTATATTATT
*
8619970 A-AAAAATAT
1 ATAATAATAT
8619979 TAATAAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
24 7 0.14
25 11 0.22
26 24 0.48
27 3 0.06
28 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (25 bp):
ATAATAATATAATGAGTATATTATT
Found at i:8619982 original size:25 final size:24
Alignment explanation
Indices: 8619936--8619996 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
8619926 TATAATTGAG
* * * *
8619936 TATATTATTGTAATAATATAATTAT
1 TATATTATT-AAAAAATATAATAAA
8619961 TATATTATTAAAAAATATTAATAAA
1 TATATTATTAAAAAATA-TAATAAA
8619986 TATATT-TTAAA
1 TATATTATTAAA
8619997 TATGTGGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TATATTATTAAAAAATATAATAAA
Found at i:8622120 original size:25 final size:25
Alignment explanation
Indices: 8622092--8622169 Score: 120
Period size: 25 Copynumber: 3.1 Consensus size: 25
8622082 GTGCAATATG
*
8622092 CACTCGAAAGTGCCTCGTATAATTA
1 CACTCAAAAGTGCCTCGTATAATTA
*
8622117 CACTCAAAAGTGCCTCGTATAATTG
1 CACTCAAAAGTGCCTCGTATAATTA
* *
8622142 CACTCAAAAGCGCCTCATATAATTA
1 CACTCAAAAGTGCCTCGTATAATTA
8622167 CAC
1 CAC
8622170 CATAGGTTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.26
Consensus pattern (25 bp):
CACTCAAAAGTGCCTCGTATAATTA
Found at i:8624526 original size:104 final size:104
Alignment explanation
Indices: 8624346--8624556 Score: 379
Period size: 104 Copynumber: 2.0 Consensus size: 104
8624336 GAAAACGTCA
*
8624346 TTCTTGGGGCTAAATTATTCATTTACGGGATACAATTTCTTCTTGGAAAAATAACCACTTCGGTC
1 TTCTTGGGGCTAAATTATTCATTTACGGGATACAATTTCTTCTTGGAAAAATAACCAATTCGGTC
8624411 CCTAAACTTTATCCAAGTTTACACTCTGAATACTAAACT
66 CCTAAACTTTATCCAAGTTTACACTCTGAATACTAAACT
* *
8624450 TTCTTGGGGCTAAATTATTCATTTACGGGAT-CAAATTTCTTCTTGGAAAAATTACCAATTTGGT
1 TTCTTGGGGCTAAATTATTCATTTACGGGATAC-AATTTCTTCTTGGAAAAATAACCAATTCGGT
8624514 CCCTAAACTTTATCCAAGTTTACACTCTGAATACTAAACT
65 CCCTAAACTTTATCCAAGTTTACACTCTGAATACTAAACT
8624554 TTC
1 TTC
8624557 AAAATTTATA
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
103 1 0.01
104 102 0.99
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (104 bp):
TTCTTGGGGCTAAATTATTCATTTACGGGATACAATTTCTTCTTGGAAAAATAACCAATTCGGTC
CCTAAACTTTATCCAAGTTTACACTCTGAATACTAAACT
Found at i:8626593 original size:21 final size:21
Alignment explanation
Indices: 8626569--8626615 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
8626559 ACATGACAAT
8626569 CATAACAA-AAAACTTGAAATC
1 CATAACAACAAAA-TTGAAATC
*
8626590 CATAACAACCAAATTGAAATC
1 CATAACAACAAAATTGAAATC
8626611 CATAA
1 CATAA
8626616 TAATAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.19
Consensus pattern (21 bp):
CATAACAACAAAATTGAAATC
Found at i:8627645 original size:23 final size:22
Alignment explanation
Indices: 8627619--8627682 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
8627609 CAGCTCATAT
8627619 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
8627642 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
8627665 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
8627683 TATAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:8627823 original size:103 final size:103
Alignment explanation
Indices: 8627698--8627915 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
8627688 TAATGTCCAT
*
8627698 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
8627763 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
8627801 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
8627866 GACTTCACACATGTTCCAAAGAATACATATATGTGCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
8627904 AAGGACCACATA
1 AAGGACCACATA
8627916 GACCCTCTAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:8634551 original size:23 final size:22
Alignment explanation
Indices: 8634525--8634588 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
8634515 CAGCTCATAT
8634525 AATTACACCTAAGTGCCACGTAG
1 AATTACACCT-AGTGCCACGTAG
*
8634548 AATTACACCGGAGTGCCACGTAG
1 AATTACACC-TAGTGCCACGTAG
*
8634571 AATTGCACCGTAGTGCCA
1 AATTACACC-TAGTGCCA
8634589 TATAATAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (22 bp):
AATTACACCTAGTGCCACGTAG
Found at i:8634725 original size:103 final size:103
Alignment explanation
Indices: 8634604--8634821 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
8634594 TAATGTCCAT
* *
8634604 AAGGACCATATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTAAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
8634669 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
8634707 AAGGACCACATATCATTCCTAAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTAAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
8634772 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
8634810 AAGGACCACATA
1 AAGGACCACATA
8634822 GACCCTCTAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTAAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:8635326 original size:19 final size:20
Alignment explanation
Indices: 8635289--8635326 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8635279 TATTTTTTTA
*
8635289 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
8635309 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
8635327 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:8646290 original size:24 final size:24
Alignment explanation
Indices: 8646263--8646315 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
8646253 TTTTTTAAAT
8646263 TTTTTAAAATTTTGGCTTTTTTTG
1 TTTTTAAAATTTTGGCTTTTTTTG
****
8646287 TTTTTTTTTTTTTGGCTTTTTTTG
1 TTTTTAAAATTTTGGCTTTTTTTG
8646311 TTTTT
1 TTTTT
8646316 TGTTTTGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.08, C:0.04, G:0.11, T:0.77
Consensus pattern (24 bp):
TTTTTAAAATTTTGGCTTTTTTTG
Found at i:8646316 original size:24 final size:24
Alignment explanation
Indices: 8646272--8646321 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
8646262 TTTTTTAAAA
*
8646272 TTTTGGCTTTTTTTGTTTTTTTTT
1 TTTTGGCTTTTTTTGTTTTTTGTT
8646296 TTTTGGCTTTTTTTGTTTTTTGTT
1 TTTTGGCTTTTTTTGTTTTTTGTT
8646320 TT
1 TT
8646322 GAAAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.00, C:0.04, G:0.14, T:0.82
Consensus pattern (24 bp):
TTTTGGCTTTTTTTGTTTTTTGTT
Found at i:8655967 original size:13 final size:14
Alignment explanation
Indices: 8655938--8655970 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8655928 TGATTTAGAT
8655938 ATAATATTAAATAA
1 ATAATATTAAATAA
*
8655952 ATAATA-TAATTAA
1 ATAATATTAAATAA
8655965 ATAATA
1 ATAATA
8655971 ATAGGAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATATTAAATAA
Found at i:8660862 original size:15 final size:16
Alignment explanation
Indices: 8660830--8660862 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8660820 AAAATCTTTC
8660830 TTTCCCGTTCTAGATT
1 TTTCCCGTTCTAGATT
*
8660846 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTAGATT
8660861 TT
1 TT
8660863 GATCTGCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.24, G:0.15, T:0.52
Consensus pattern (16 bp):
TTTCCCGTTCTAGATT
Found at i:8661636 original size:16 final size:16
Alignment explanation
Indices: 8661612--8661645 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8661602 TATCGCCGAC
*
8661612 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
8661628 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
8661644 CG
1 CG
8661646 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:8665007 original size:19 final size:18
Alignment explanation
Indices: 8664957--8665009 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
8664947 TCGTTCTTTA
*
8664957 TTTATTTTC-TTTCAACT
1 TTTATTTTCTTTTTAACT
8664974 TTTATTTT-TACTTTTAAGCT
1 TTTATTTTCT--TTTTAA-CT
8664994 TTTATTTTCTTTTTAA
1 TTTATTTTCTTTTTAA
8665010 AAATGTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 8 0.27
19 11 0.37
20 10 0.33
21 1 0.03
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTATTTTCTTTTTAACT
Found at i:8665946 original size:83 final size:83
Alignment explanation
Indices: 8665736--8665982 Score: 309
Period size: 83 Copynumber: 3.0 Consensus size: 83
8665726 ACAACATTTT
* * *
8665736 TTGGAAAAACGTCACTATGAACAAACCCTATTGTGGCATTTGTATAAAAACACCGCTAAAGTACT
1 TTGGAAAAACGCCACTATGAACGAACCCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACT
* * * * *
8665801 -CTTTATCACGCCATTGG
66 ACTCTATCGCGGCGTTTG
*
8665818 TTGG-AAAACGCCACTATGAACGAATCCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACT
1 TTGGAAAAACGCCACTATGAACGAACCCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACT
* *
8665882 ACTCTATCGTGGTGTTTG
66 ACTCTATCGCGGCGTTTG
* * * ** ** *
8665900 TTGGAAAAAAGCCACTATAAACGAACCCTATTACAACATTTGTATAAAAATGCCGATAAAGTACT
1 TTGGAAAAACGCCACTATGAACGAACCCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACT
8665965 ACTCTATCGCGGCGTTTG
66 ACTCTATCGCGGCGTTTG
8665983 GATTGTAAGC
Statistics
Matches: 141, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
81 56 0.40
82 18 0.13
83 67 0.48
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (83 bp):
TTGGAAAAACGCCACTATGAACGAACCCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACT
ACTCTATCGCGGCGTTTG
Found at i:8666609 original size:2 final size:2
Alignment explanation
Indices: 8666602--8666651 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
8666592 CTCAAAACAA
8666602 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8666644 AT AT AT AT
1 AT AT AT AT
8666652 GAACAATCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8667426 original size:14 final size:14
Alignment explanation
Indices: 8667407--8667439 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
8667397 GAGTCAAGTT
8667407 TTGCTCATCCGTAA
1 TTGCTCATCCGTAA
8667421 TTGCTCATCCGTAA
1 TTGCTCATCCGTAA
8667435 TTGCT
1 TTGCT
8667440 TTGTCGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.39
Consensus pattern (14 bp):
TTGCTCATCCGTAA
Found at i:8670293 original size:3 final size:3
Alignment explanation
Indices: 8670287--8670325 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
8670277 TATATGCTCT
*
8670287 TGA TGA TGA TGA TGA TGA TGA TGA TGG TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
8670326 GAGTGAGGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:8670578 original size:32 final size:32
Alignment explanation
Indices: 8670490--8670578 Score: 78
Period size: 35 Copynumber: 2.7 Consensus size: 32
8670480 TATGTAATTG
8670490 TTTACTTTTT-ATTTGTTTTGTTTCTTAATTTT
1 TTTACTTTTTAATTT-TTTTGTTTCTTAATTTT
*
8670522 TTTA-TTACTTAATTGTTTGATTGTTT-TT-ATTATT
1 TTTACTT-TTTAATT-TTT--TTGTTTCTTAATT-TT
8670556 TATTACTTTTTAATTTTTTTGTT
1 T-TTACTTTTTAATTTTTTTGTT
8670579 GTATCGTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
31 2 0.04
32 11 0.23
33 8 0.17
34 9 0.19
35 15 0.32
36 2 0.04
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (32 bp):
TTTACTTTTTAATTTTTTTGTTTCTTAATTTT
Found at i:8673840 original size:15 final size:14
Alignment explanation
Indices: 8673828--8673859 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8673818 TCAAATAATC
8673828 ATAT-ATAAAATAA
1 ATATAATAAAATAA
8673841 ATATAATAAAATAA
1 ATATAATAAAATAA
8673855 A-ATAA
1 ATATAA
8673860 ATTTTACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATATAATAAAATAA
Found at i:8678215 original size:3 final size:3
Alignment explanation
Indices: 8678203--8678261 Score: 82
Period size: 3 Copynumber: 19.7 Consensus size: 3
8678193 TTATATTATT
* * * *
8678203 ATC ATT ATC ATC ATC ATC ATC ATC TTC TTC TTC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
8678251 ATC ATC ATC AT
1 ATC ATC ATC AT
8678262 TATTATTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.41
Consensus pattern (3 bp):
ATC
Found at i:8678215 original size:9 final size:9
Alignment explanation
Indices: 8678197--8678264 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
8678187 TATCATTTAT
*
8678197 ATTATTATC
1 ATTATCATC
8678206 ATTATCATC
1 ATTATCATC
*
8678215 ATCATCATC
1 ATTATCATC
*
8678224 ATCT-TCTTC
1 AT-TATCATC
8678233 -TTCATCATC
1 ATT-ATCATC
*
8678242 ATCATCATC
1 ATTATCATC
*
8678251 ATCATCATC
1 ATTATCATC
8678260 ATTAT
1 ATTAT
8678265 TATTATTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 45 0.94
10 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTATCATC
Found at i:8678266 original size:3 final size:3
Alignment explanation
Indices: 8678260--8678332 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
8678250 CATCATCATC
8678260 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8678308 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
8678333 CGTGTTCGAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8679782 original size:13 final size:13
Alignment explanation
Indices: 8679764--8679815 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
8679754 GTCATAAATC
*
8679764 TATGACGTGCATT
1 TATGACGCGCATT
*
8679777 TATGACACGCATT
1 TATGACGCGCATT
8679790 TATGACGCGCATT
1 TATGACGCGCATT
* *
8679803 TATTACACGCATT
1 TATGACGCGCATT
8679816 GCGCGTCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:8679794 original size:26 final size:26
Alignment explanation
Indices: 8679764--8679815 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
8679754 GTCATAAATC
*
8679764 TATGACGTGCATTTATGACACGCATT
1 TATGACGCGCATTTATGACACGCATT
*
8679790 TATGACGCGCATTTATTACACGCATT
1 TATGACGCGCATTTATGACACGCATT
8679816 GCGCGTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (26 bp):
TATGACGCGCATTTATGACACGCATT
Found at i:8679979 original size:2 final size:2
Alignment explanation
Indices: 8679972--8680002 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8679962 TGTCGTAAAT
8679972 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8680003 GATTGACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8681506 original size:13 final size:13
Alignment explanation
Indices: 8681464--8681499 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
8681454 CTATGATGTG
8681464 CATTTATGACACA
1 CATTTATGACACA
* *
8681477 CATTTATGACGCG
1 CATTTATGACACA
8681490 CATTTATGAC
1 CATTTATGAC
8681500 CTTCATTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (13 bp):
CATTTATGACACA
Found at i:8681592 original size:85 final size:85
Alignment explanation
Indices: 8681478--8681642 Score: 192
Period size: 85 Copynumber: 1.9 Consensus size: 85
8681468 TATGACACAC
* * * * * *
8681478 ATTTATGACGCGCATTTATGACCTTCATTG-AGCGTAATTGAAGCCCCCGTCA-TAAATTAAGAT
1 ATTTATGACACACATGTATGACCTTCATTGCA-CGTAATTGAAGCACACGTCATTAAA-AAAGAT
*
8681541 GACACACATTTGTGTGTTATAA
64 GACACACATTCGTGTGTTATAA
* *
8681563 ATTTATGACACACATGTATGA-CTTACATTGCATGTCATTGAAGCACACGTCATTAAAAAAGATG
1 ATTTATGACACACATGTATGACCTT-CATTGCACGTAATTGAAGCACACGTCATTAAAAAAGATG
*
8681627 GCACACATTCGTGTGT
65 ACACACATTCGTGTGT
8681643 CGTGATTATA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
84 3 0.04
85 59 0.88
86 5 0.07
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (85 bp):
ATTTATGACACACATGTATGACCTTCATTGCACGTAATTGAAGCACACGTCATTAAAAAAGATGA
CACACATTCGTGTGTTATAA
Found at i:8681670 original size:2 final size:2
Alignment explanation
Indices: 8681663--8681693 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8681653 TTTCGTTAAT
8681663 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8681694 TGTAGATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8694938 original size:25 final size:24
Alignment explanation
Indices: 8694891--8694941 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
8694881 CATATATTAT
* *
8694891 TATTATTATTATTATTAAAAATAA
1 TATTATTACTATCATTAAAAATAA
*
8694915 TATTATTAACTATCATTAATAATAA
1 TATTATT-ACTATCATTAAAAATAA
8694940 TA
1 TA
8694942 AATACATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TATTATTACTATCATTAAAAATAA
Found at i:8697227 original size:42 final size:42
Alignment explanation
Indices: 8697181--8697424 Score: 253
Period size: 42 Copynumber: 5.9 Consensus size: 42
8697171 ATAAGGTGGC
**
8697181 GTTTTTGTAATAAATACCGCAATAGTCATGCACCTTAGCGGT
1 GTTTTTGTAATAAACGCCGCAATAGTCATGCACCTTAGCGGT
* * * * *
8697223 GTTTTTGTAATAAATGCCGCAATTGTCATGCACTTTAGTGGC
1 GTTTTTGTAATAAACGCCGCAATAGTCATGCACCTTAGCGGT
* * * *
8697265 GCTTTTGTAATAAACGCCGTAATAGTCATGCACTTTAGTGGT
1 GTTTTTGTAATAAACGCCGCAATAGTCATGCACCTTAGCGGT
* * * **
8697307 ATTTTTGCAATAAACGTCTTAATAGTCATGCACCTTAGCGGT
1 GTTTTTGTAATAAACGCCGCAATAGTCATGCACCTTAGCGGT
* * * * *
8697349 ATTTTT-T-ATAAATGCCACAGTAGTCATGCACCTTAGCGGC
1 GTTTTTGTAATAAACGCCGCAATAGTCATGCACCTTAGCGGT
* *
8697389 GTTTTTG--ATAAACGCCGCAATAATCATGCACTTTAG
1 GTTTTTGTAATAAACGCCGCAATAGTCATGCACCTTAG
8697425 TAGCGTTTTT
Statistics
Matches: 171, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 56 0.33
42 115 0.67
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (42 bp):
GTTTTTGTAATAAACGCCGCAATAGTCATGCACCTTAGCGGT
Found at i:8697264 original size:84 final size:81
Alignment explanation
Indices: 8697176--8697452 Score: 277
Period size: 84 Copynumber: 3.4 Consensus size: 81
8697166 CTCCTATAAG
* * *
8697176 GTGGCGTTTTTGTAATAAATACCGCAATAGTCATGCACCTTAGCGGTGTTTTTGTAATAAATGCC
1 GTGGCGTTTTT-T-ATAAACACCACAATAGTCATGCACCTTAGCGGTGTTTTTG-AATAAACGCC
*
8697241 GCAATTGTCATGCACTTTA
63 GCAATAGTCATGCACTTTA
* * ** * * * *
8697260 GTGGCGCTTTTGTAATAAACGCCGTAATAGTCATGCACTTTAGTGGTATTTTTGCAATAAACGTC
1 GTGGCG-TTTT-TTATAAACACCACAATAGTCATGCACCTTAGCGGTGTTTTTG-AATAAACGCC
** *
8697325 TTAATAGTCATGCACCTTA
63 GCAATAGTCATGCACTTTA
* ** ** * *
8697344 GCGGTATTTTTTATAAATGCCACAGTAGTCATGCACCTTAGCGGCGTTTTTG-ATAAACGCCGCA
1 GTGGCGTTTTTTATAAACACCACAATAGTCATGCACCTTAGCGGTGTTTTTGAATAAACGCCGCA
*
8697408 ATAATCATGCACTTTA
66 ATAGTCATGCACTTTA
*
8697424 GTAGCGTTTTTTATAAACACCACAATAGT
1 GTGGCGTTTTTTATAAACACCACAATAGT
8697453 ATAGGGGTGA
Statistics
Matches: 153, Mismatches: 38, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
80 45 0.29
82 33 0.22
83 4 0.03
84 66 0.43
85 4 0.03
86 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (81 bp):
GTGGCGTTTTTTATAAACACCACAATAGTCATGCACCTTAGCGGTGTTTTTGAATAAACGCCGCA
ATAGTCATGCACTTTA
Found at i:8697431 original size:40 final size:40
Alignment explanation
Indices: 8697178--8697452 Score: 217
Period size: 42 Copynumber: 6.7 Consensus size: 40
8697168 CCTATAAGGT
**
8697178 GGCGTTTTTGTAATAAATACCGCAATAGTCATGCACCTTAGC
1 GGCGTTTTTG--ATAAACGCCGCAATAGTCATGCACCTTAGC
* * * * *
8697220 GGTGTTTTTGTAATAAATGCCGCAATTGTCATGCACTTTAGT
1 GGCGTTTTTG--ATAAACGCCGCAATAGTCATGCACCTTAGC
* * * *
8697262 GGCGCTTTTGTAATAAACGCCGTAATAGTCATGCACTTTAGT
1 GGCG-TTTT-TGATAAACGCCGCAATAGTCATGCACCTTAGC
** * **
8697304 GGTATTTTTGCAATAAACGTCTTAATAGTCATGCACCTTAGC
1 GGCGTTTTTG--ATAAACGCCGCAATAGTCATGCACCTTAGC
** * * * *
8697346 GGTATTTTTTATAAATGCCACAGTAGTCATGCACCTTAGC
1 GGCGTTTTTGATAAACGCCGCAATAGTCATGCACCTTAGC
* * *
8697386 GGCGTTTTTGATAAACGCCGCAATAATCATGCACTTTAGT
1 GGCGTTTTTGATAAACGCCGCAATAGTCATGCACCTTAGC
* * * *
8697426 AGCGTTTTTTATAAACACCACAATAGT
1 GGCGTTTTTGATAAACGCCGCAATAGT
8697453 ATAGGGGTGA
Statistics
Matches: 192, Mismatches: 37, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
40 79 0.41
41 4 0.02
42 104 0.54
43 4 0.02
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (40 bp):
GGCGTTTTTGATAAACGCCGCAATAGTCATGCACCTTAGC
Found at i:8698545 original size:13 final size:14
Alignment explanation
Indices: 8698522--8698553 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
8698512 CTCGTCTGAG
8698522 TTGACTCGTTGACT
1 TTGACTCGTTGACT
8698536 TTGA-TCGTTGACT
1 TTGACTCGTTGACT
8698549 TTGAC
1 TTGAC
8698554 CCAAAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (14 bp):
TTGACTCGTTGACT
Found at i:8700353 original size:32 final size:32
Alignment explanation
Indices: 8700283--8700356 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
8700273 CCTGAGATAG
8700283 CCCTTGGGTAGGCTCCGAGGCCCCAAGAAACT
1 CCCTTGGGTAGGCTCCGAGGCCCCAAGAAACT
** **
8700315 TTCTTGGGTAGGCTCTC-AGGCCCCAAGGCACT
1 CCCTTGGGTAGGCTC-CGAGGCCCCAAGAAACT
8700347 CCCTTGGGTA
1 CCCTTGGGTA
8700357 AATCATGGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 34 0.97
33 1 0.03
ACGTcount: A:0.18, C:0.32, G:0.28, T:0.22
Consensus pattern (32 bp):
CCCTTGGGTAGGCTCCGAGGCCCCAAGAAACT
Found at i:8702055 original size:19 final size:19
Alignment explanation
Indices: 8702018--8702055 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8702008 TTTTTGGTCA
*
8702018 CTTTTAATTTATTTGTTTT
1 CTTTTAATTTACTTGTTTT
8702037 CTTTTAA-TTACTTGATTTT
1 CTTTTAATTTACTTG-TTTT
8702056 TAAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.68
Consensus pattern (19 bp):
CTTTTAATTTACTTGTTTT
Found at i:8705042 original size:2 final size:2
Alignment explanation
Indices: 8705035--8705074 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8705025 TTGTTGGTTG
8705035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8705075 TTAAACAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8705735 original size:4 final size:4
Alignment explanation
Indices: 8705726--8705834 Score: 76
Period size: 4 Copynumber: 26.2 Consensus size: 4
8705716 TATATACATG
* * * *
8705726 AATA AATA AATA AATA AATA AATA TGAGTA AATA AATC AA-A GATA AAGGA
1 AATA AATA AATA AATA AATA AATA --AATA AATA AATA AATA AATA AA-TA
* * * * *
8705776 AATA AAAA AATA AAGA GAAGA AAAA AATA AATA AATA ATTA AATA AATA
1 AATA AATA AATA AATA -AATA AATA AATA AATA AATA AATA AATA AATA
*
8705825 GATA AGATA A
1 AATA A-ATA A
8705835 GAAAAAAGTA
Statistics
Matches: 82, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
3 1 0.01
4 67 0.82
5 11 0.13
6 3 0.04
ACGTcount: A:0.70, C:0.01, G:0.09, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:8705920 original size:2 final size:2
Alignment explanation
Indices: 8705908--8705941 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8705898 AACATATAAC
*
8705908 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8705942 AAATAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8705923 original size:12 final size:12
Alignment explanation
Indices: 8705899--8705941 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
8705889 ATACTAATAA
8705899 ACATATA-ACTAT
1 ACATATATA-TAT
8705911 ACATATATATAT
1 ACATATATATAT
*
8705923 ATATATATATAT
1 ACATATATATAT
*
8705935 ATATATA
1 ACATATA
8705942 AAATAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 28 0.97
13 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (12 bp):
ACATATATATAT
Found at i:8708205 original size:106 final size:104
Alignment explanation
Indices: 8708065--8708455 Score: 491
Period size: 99 Copynumber: 3.8 Consensus size: 104
8708055 AACCTCCATC
* * * *
8708065 GTGAAGTTGAAATTGGTTCTGGAACTGGAAAATTGTTTGTTGACTGTCAGCCGCCCCTTCACTGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGG--AATTGTTTGTTGACTGTCAGCCGCCCCTTCGCTGT
*
8708130 GAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGCT
64 GAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGTT
* * * *
8708171 GTGAAGTTGAAATTGGATCTGAAATTGGGGAATTGTTTGTTGA-TAGTCAGCCGCTCATTCGCCG
1 GTGAAGTTGAAATTGGCTCTGAAATT--GGAATTGTTTGTTGACT-GTCAGCCGCCCCTTCGCTG
**
8708235 TGAAGTTGAGCTTGTGCTGTCTTAAGTCCAATATCCTTCGTT
63 TGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGTT
**
8708277 GTGAAGTTGAAATTGGCTCTGAAA---G--TTGTTTGTTGACAATCAGCCGCCCCTTCG-TCGTG
1 GTGAAGTTGAAATTGGCTCTGAAATTGGAATTGTTTGTTGACTGTCAGCCGCCCCTTCGCT-GTG
*
8708336 AAGTTGAGCTTGTGTTGTCTTGGGTCCAATATCCTTCGTT
65 AAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGTT
* * *
8708376 GTGAAGTTGAAATTGGCTCTAAAATTGGAA-----AGTTGACTGTCAGTCGCCCCTTCGCTGTGA
1 GTGAAGTTGAAATTGGCTCTGAAATTGGAATTGTTTGTTGACTGTCAGCCGCCCCTTCGCTGTGA
8708436 AGTTGAGCTTGTGCTGTCTT
66 AGTTGAGCTTGTGCTGTCTT
8708456 CTGTGCACGA
Statistics
Matches: 249, Mismatches: 25, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
99 130 0.52
100 1 0.00
101 1 0.00
102 1 0.00
105 1 0.00
106 113 0.45
108 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (104 bp):
GTGAAGTTGAAATTGGCTCTGAAATTGGAATTGTTTGTTGACTGTCAGCCGCCCCTTCGCTGTGA
AGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGTT
Found at i:8709558 original size:6 final size:6
Alignment explanation
Indices: 8709547--8709599 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
8709537 CCTTATTTTA
*
8709547 TTTTCT TTTTCT TTTGTTT TTTCTCT TTTTCT CTTTTCT TTTTCT TTTT-T
1 TTTTCT TTTTCT TTT-TCT TTT-TCT TTTTCT -TTTTCT TTTTCT TTTTCT
8709597 TTT
1 TTT
8709600 CAGTTTAGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
5 4 0.10
6 22 0.52
7 16 0.38
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:8709575 original size:20 final size:21
Alignment explanation
Indices: 8709550--8709597 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
8709540 TATTTTATTT
8709550 TCTTTTTCT-TTTGT-TTTTTC
1 TCTTTTTCTCTTT-TCTTTTTC
8709570 TCTTTTTCTCTTTTCTTTTTC
1 TCTTTTTCTCTTTTCTTTTTC
*
8709591 TTTTTTT
1 TCTTTTT
8709598 TTCAGTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (21 bp):
TCTTTTTCTCTTTTCTTTTTC
Found at i:8714270 original size:86 final size:87
Alignment explanation
Indices: 8714125--8714295 Score: 335
Period size: 86 Copynumber: 2.0 Consensus size: 87
8714115 ATAACATCTC
8714125 TCTTGGTCCCATCAAATGCTTGGACCACGTTCTGACAGGCTGTCATATGAGAGGTATCTATTGGT
1 TCTTGGTCCCATCAAATGCTTGGACCACGTTCTGACAGGCTGTCATATGAGAGGTATCTATTGGT
8714190 AGCCTATTCAATG-TACCAAGG
66 AGCCTATTCAATGTTACCAAGG
8714211 TCTTGGTCCCATCAAATGCTTGGACCACGTTCTGACAGGCTGTCATATGAGAGGTATCTATTGGT
1 TCTTGGTCCCATCAAATGCTTGGACCACGTTCTGACAGGCTGTCATATGAGAGGTATCTATTGGT
8714276 AGCCTATTCAATGTTACCAA
66 AGCCTATTCAATGTTACCAA
8714296 AGGCGTGCCT
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 78 0.93
87 6 0.07
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (87 bp):
TCTTGGTCCCATCAAATGCTTGGACCACGTTCTGACAGGCTGTCATATGAGAGGTATCTATTGGT
AGCCTATTCAATGTTACCAAGG
Found at i:8718453 original size:153 final size:154
Alignment explanation
Indices: 8718175--8718481 Score: 607
Period size: 153 Copynumber: 2.0 Consensus size: 154
8718165 CCGTTGGGCC
8718175 CCGGAATTGGGCTTTGACTTAGACTAAACGAATTGGAGAAGCCACCAATCATTTATTTTAAAACA
1 CCGGAATTGGGCTTTGACTTAGACTAAACGAATTGGAGAAGCCACCAATCATTTATTTTAAAACA
8718240 AATGGGTTGATCGAATACCCTATTTCTTACCTGATCTGCGTCTTACCAAAGATATGTCGGATTCG
66 AATGGGTTGATCGAATACCCTATTTCTTACCTGATCTGCGTCTTACCAAAGATATGTCGGATTCG
8718305 AGAGTC-GTTACAGTCAAGGAAGG
131 AGAGTCGGTTACAGTCAAGGAAGG
8718328 CCGGAATTGGGCTTTGACTTAGACTAAACGAATTGGAGAAGCCACCAATCATTTATTTTAAAACA
1 CCGGAATTGGGCTTTGACTTAGACTAAACGAATTGGAGAAGCCACCAATCATTTATTTTAAAACA
8718393 AATGGGTTGATCGAATACCCTATTTCTTACCTGATCTGCGTCTTACCAAAGATATGTCGGATTCG
66 AATGGGTTGATCGAATACCCTATTTCTTACCTGATCTGCGTCTTACCAAAGATATGTCGGATTCG
8718458 AGAGTCGGTTACAGTCAAGGAAGG
131 AGAGTCGGTTACAGTCAAGGAAGG
8718482 GTTAACACCC
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
153 136 0.89
154 17 0.11
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (154 bp):
CCGGAATTGGGCTTTGACTTAGACTAAACGAATTGGAGAAGCCACCAATCATTTATTTTAAAACA
AATGGGTTGATCGAATACCCTATTTCTTACCTGATCTGCGTCTTACCAAAGATATGTCGGATTCG
AGAGTCGGTTACAGTCAAGGAAGG
Found at i:8718752 original size:4 final size:4
Alignment explanation
Indices: 8718714--8718851 Score: 52
Period size: 4 Copynumber: 34.0 Consensus size: 4
8718704 ATAAAACGAG
* * * * *
8718714 ATAA A-AA AGAA ATACA ATAT ATAC ATGA ATGA ATAA ATAA ATAA ATATGA
1 ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA--A
* * * * * * *
8718764 GTAA ATAA ATCA A-AG ATAA AGGAA ATAGA A-AA ATAA AGAGA AGAA AAAA
1 ATAA ATAA ATAA ATAA ATAA A-TAA ATA-A ATAA ATAA ATA-A ATAA ATAA
* *
8718813 ATAA AT-A ATAA ATAA AT-A ATAA ATAT ATAG ATAA GATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA
8718852 GAAAAAAGTA
Statistics
Matches: 102, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
3 12 0.12
4 70 0.69
5 17 0.17
6 3 0.03
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:8718827 original size:11 final size:11
Alignment explanation
Indices: 8718811--8718851 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
8718801 GAGAAGAAAA
8718811 AAATAAATAAT
1 AAATAAATAAT
8718822 AAATAAATAAT
1 AAATAAATAAT
*
8718833 AAATATATAGAT
1 AAATAAATA-AT
8718845 AAGATAA
1 AA-ATAA
8718852 GAAAAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 19 0.73
12 4 0.15
13 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (11 bp):
AAATAAATAAT
Done.