Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007166.1 Hibiscus syriacus cultivar Beakdansim tig00018783_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: 27564
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Found at i:6400 original size:60 final size:59
Alignment explanation
Indices: 6326--6443 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 59
6316 CGTGAACTAA
*
6326 CACTTCCTCATGTACCACCACTTT-CTCGGATTTCGATAGCCCCATCCCCTGACCAGCAAG
1 CACTTCATCATGTACCACCA-TTTCCTCGGATTTCGATAGCCCCAT-CCCTGACCAGCAAG
* * * *
6386 CACTTCATCGTGTACCACCATTTCCTCGGTTTTCTATTGCCCCATCCCTGACCAGCAA
1 CACTTCATCATGTACCACCATTTCCTCGGATTTCGATAGCCCCATCCCTGACCAGCAA
6444 CAATATTCCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
59 16 0.31
60 36 0.69
ACGTcount: A:0.20, C:0.39, G:0.13, T:0.28
Consensus pattern (59 bp):
CACTTCATCATGTACCACCATTTCCTCGGATTTCGATAGCCCCATCCCTGACCAGCAAG
Found at i:11568 original size:39 final size:38
Alignment explanation
Indices: 11508--11908 Score: 211
Period size: 39 Copynumber: 10.6 Consensus size: 38
11498 GATTTTTCTT
*
11508 TTTTAC-AAATAGGAAAATAAATCCAAAGATTTATTTCC
1 TTTTACAAAACAGGAAAATAAAT-CAAAGATTTATTTCC
* ** * *
11546 TTTTACAAAACAGGAAATTAAATTTTATGA--T-TTT-A
1 TTTTACAAAACAGGAAAATAAA-TCAAAGATTTATTTCC
* * ** * *
11581 TTTTA-TAAATAGGAAAATAAATTGAACATATTATTTTC
1 TTTTACAAAACAGGAAAATAAATCAAAGAT-TTATTTCC
* * *
11619 TTTTCCAAAAAAAGAAAATAAATCAAACGATTTATTTCC
1 TTTTACAAAACAGGAAAATAAATCAAA-GATTTATTTCC
* * *
11658 -TTTATAAAAC-GAGAAATAAAAATTCTATA-ATTTATTT-C
1 TTTTACAAAACAG-GAAA-ATAAA-TC-AAAGATTTATTTCC
* * * *
11696 TTGCTACAAAACAGGAAAATAAATTTAATGATTTATTTCT
1 TT-TTACAAAACAGGAAAATAAA-TCAAAGATTTATTTCC
* * *** *
11736 TTTTATAAAACAGGAAACTAAATTCTGCGATTTAGTTCC
1 TTTTACAAAACAGGAAAATAAA-TCAAAGATTTATTTCC
* *
11775 TTTTATAAAACAGAAAAATAAATCAAACGATTTATTT-C
1 TTTTACAAAACAGGAAAATAAATCAAA-GATTTATTTCC
* * * *
11813 GTTTACAAAATAGGAAACTAAATC--CGATTTATTTCC
1 TTTTACAAAACAGGAAAATAAATCAAAGATTTATTTCC
* * ** *
11849 TTTTACAAAACATGAAACTAAATTTTATGATTT-TTT-C
1 TTTTACAAAACAGGAAAATAAA-TCAAAGATTTATTTCC
* *
11886 TTTTACAAAATAGAAAAATAAAT
1 TTTTACAAAACAGGAAAATAAAT
11909 TATACAAATT
Statistics
Matches: 276, Mismatches: 64, Indels: 48
0.71 0.16 0.12
Matches are distributed among these distances:
33 4 0.01
34 13 0.05
35 14 0.05
36 25 0.09
37 24 0.09
38 48 0.17
39 127 0.46
40 18 0.07
41 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (38 bp):
TTTTACAAAACAGGAAAATAAATCAAAGATTTATTTCC
Found at i:18068 original size:40 final size:40
Alignment explanation
Indices: 17982--18069 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
17972 GTGCGCAGGA
*
17982 AGGGTTTATAAGGGTTTATAAATGTTAACTAAGATTTACT
1 AGGGTTTATAAGGGTTTATAAATATTAACTAAGATTTACT
* * * * *
18022 ATGGTTTATAAGGGTTTATAAGTATTTA-TAAGGGTTTGCT
1 AGGGTTTATAAGGGTTTATAAATATTAACTAA-GATTTACT
18062 AGGGTTTA
1 AGGGTTTA
18070 CTTGGTTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.08
40 37 0.93
ACGTcount: A:0.31, C:0.03, G:0.24, T:0.42
Consensus pattern (40 bp):
AGGGTTTATAAGGGTTTATAAATATTAACTAAGATTTACT
Found at i:18593 original size:16 final size:15
Alignment explanation
Indices: 18572--18603 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
18562 CTAGGGTTTC
18572 TAGGGTTTATAAGGGT
1 TAGGGTTTAT-AGGGT
18588 TAGGGTTTATAGGGT
1 TAGGGTTTATAGGGT
18603 T
1 T
18604 TATTAGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
TAGGGTTTATAGGGT
Found at i:18600 original size:25 final size:25
Alignment explanation
Indices: 18563--18613 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
18553 AAGGGTTTAC
*
18563 TAGGGTTTCTAGGGTTTATAAGGGT
1 TAGGGTTTATAGGGTTTATAAGGGT
*
18588 TAGGGTTTATAGGGTTTATTAGGGT
1 TAGGGTTTATAGGGTTTATAAGGGT
18613 T
1 T
18614 TTTAGGGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (25 bp):
TAGGGTTTATAGGGTTTATAAGGGT
Found at i:19492 original size:18 final size:17
Alignment explanation
Indices: 19469--19522 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
19459 AGGGTTTACA
19469 AGGGTTTGCTAAGGTTTT
1 AGGGTTT-CTAAGGTTTT
*
19487 AGGGTTTACTAGGGTTTGTT
1 AGGGTTT-CTAAGG-TT-TT
*
19507 AGGGTTTATAAGGTTT
1 AGGGTTTCTAAGGTTT
19523 AAAGGGGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 1 0.03
18 14 0.47
19 6 0.20
20 9 0.30
ACGTcount: A:0.19, C:0.04, G:0.33, T:0.44
Consensus pattern (17 bp):
AGGGTTTCTAAGGTTTT
Found at i:19597 original size:10 final size:10
Alignment explanation
Indices: 18052--20281 Score: 1051
Period size: 10 Copynumber: 227.7 Consensus size: 10
18042 AGTATTTATA
*
18052 AGGGTTTGCT
1 AGGGTTTACT
18062 AGGGTTTACT
1 AGGGTTTACT
* *
18072 TGGTTTTACT
1 AGGGTTTACT
*
18082 AGGGTTTATT
1 AGGGTTTACT
*
18092 AGGG-TTACA
1 AGGGTTTACT
** *
18101 AGCATTTAGT
1 AGGGTTTACT
18111 AGGGTTTTA-T
1 AGGG-TTTACT
18121 A-GGTTTA-T
1 AGGGTTTACT
18129 AAGGGTTTACT
1 -AGGGTTTACT
**
18140 AGTTTTTACT
1 AGGGTTTACT
***
18150 AAAATTTACT
1 AGGGTTTACT
* * *
18160 AAGATTTACA
1 AGGGTTTACT
*
18170 AGGGTTTTCT
1 AGGGTTTACT
*
18180 AGGGTTTGCT
1 AGGGTTTACT
18190 AGGGTTTA-T
1 AGGGTTTACT
*
18199 AATGGTTTA-T
1 -AGGGTTTACT
18209 AAGGGTTTA-T
1 -AGGGTTTACT
* *
18219 AAGAGTTTGCT
1 -AGGGTTTACT
18230 AGGGTTTA-T
1 AGGGTTTACT
* **
18239 AAAGGTTTAGA
1 -AGGGTTTACT
* * *
18250 AAGTTTTATT
1 AGGGTTTACT
18260 AGGGTTTA-T
1 AGGGTTTACT
*
18269 AAGGGTTTATT
1 -AGGGTTTACT
*
18280 AGAGTTTACT
1 AGGGTTTACT
*
18290 AGGGTTTATT
1 AGGGTTTACT
* *
18300 AAGGTTTGCT
1 AGGGTTTACT
18310 AGGGTTTA--
1 AGGGTTTACT
18318 A-GG-TT--T
1 AGGGTTTACT
*
18324 AGGGTTTCCT
1 AGGGTTTACT
*
18334 AGGGTTTATT
1 AGGGTTTACT
* *
18344 AAGATTTACT
1 AGGGTTTACT
**
18354 AGGGTTTGTT
1 AGGGTTTACT
18364 AGGGTTTACT
1 AGGGTTTACT
**
18374 AGGGTTTGTT
1 AGGGTTTACT
18384 AGGGTTTA-T
1 AGGGTTTACT
18393 ATGGGTTTACT
1 A-GGGTTTACT
*
18404 AGGGTTTATT
1 AGGGTTTACT
*
18414 AAGGTTTA-T
1 AGGGTTTACT
*
18423 AAAGGG-TTACA
1 --AGGGTTTACT
* *
18434 AAGGTTTATT
1 AGGGTTTACT
*
18444 AGGGTTTGCT
1 AGGGTTTACT
** *
18454 AGAATTTGCT
1 AGGGTTTACT
*
18464 AGGGTTTATT
1 AGGGTTTACT
* *
18474 AAGGTTTGCT
1 AGGGTTTACT
18484 AGGGTTTACT
1 AGGGTTTACT
18494 AGGGTTTACT
1 AGGGTTTACT
18504 AGGGCTTGTA--
1 AGGG-TT-TACT
*
18514 AGGATTTA-T
1 AGGGTTTACT
18523 AAGGGTTTACT
1 -AGGGTTTACT
*
18534 AGGGTTTACA
1 AGGGTTTACT
**
18544 AGTATTTA-T
1 AGGGTTTACT
18553 AAGGGTTTACT
1 -AGGGTTTACT
18564 AGGGTTT-CT
1 AGGGTTTACT
18573 AGGGTTTA-T
1 AGGGTTTACT
18582 AAGGG--T--T
1 -AGGGTTTACT
18589 AGGGTTTA-T
1 AGGGTTTACT
*
18598 AGGGTTTATT
1 AGGGTTTACT
*
18608 AGGGTTT-TT
1 AGGGTTTACT
*
18617 AGGGCTTACT
1 AGGGTTTACT
**
18627 AGTTTTTACT
1 AGGGTTTACT
***
18637 AAAATTTACT
1 AGGGTTTACT
*
18647 AGGGTTTATT
1 AGGGTTTACT
*
18657 ATGGTTTACT
1 AGGGTTTACT
18667 AGGGTTTA-T
1 AGGGTTTACT
18676 AAGGGTTTACT
1 -AGGGTTTACT
18687 AGGGTTT-CTT
1 AGGGTTTAC-T
*
18697 AGGGTTTATT
1 AGGGTTTACT
18707 AGGGTTT-CAT
1 AGGGTTTAC-T
**
18717 AGGGTTTGTT
1 AGGGTTTACT
**
18727 AGGGTTTGTT
1 AGGGTTTACT
* *
18737 AAGGTTTTCT
1 AGGGTTTACT
18747 AGGGTTT-CTT
1 AGGGTTTAC-T
**
18757 AGGGTTTGTT
1 AGGGTTTACT
*
18767 AGGGTTTTCT
1 AGGGTTTACT
*
18777 AGGGTTT-TT
1 AGGGTTTACT
*
18786 AAGGGTTTATT
1 -AGGGTTTACT
*
18797 AGGGTTT-TT
1 AGGGTTTACT
**
18806 AGGGGCTA-T
1 AGGGTTTACT
*
18815 AAGGGTTTGCT
1 -AGGGTTTACT
18826 AGGG-TT-CTT
1 AGGGTTTAC-T
18835 AGGGTTTA-T
1 AGGGTTTACT
*
18844 AAGGGTTTACA
1 -AGGGTTTACT
18855 AGGGTTTACT
1 AGGGTTTACT
* *
18865 TGGGTTTGCT
1 AGGGTTTACT
18875 AGGGTTTACT
1 AGGGTTTACT
*
18885 AGGGTTTGCT
1 AGGGTTTACT
*
18895 AGGGTTTGCT
1 AGGGTTTACT
18905 AGGG-TTACT
1 AGGGTTTACT
*
18914 AGGGTTTGCT
1 AGGGTTTACT
* *
18924 A-GG-ATAAT
1 AGGGTTTACT
*
18932 AGGGTTTATT
1 AGGGTTTACT
* *
18942 AGGATTTATT
1 AGGGTTTACT
**
18952 AGGGTTTGTT
1 AGGGTTTACT
*
18962 AGGGATTA-T
1 AGGGTTTACT
18971 AAGGGTTTAC-
1 -AGGGTTTACT
*
18981 ATGGGTTTATT
1 A-GGGTTTACT
*
18992 ATGGTTTACT
1 AGGGTTTACT
** *
19002 TTGGTTTGCT
1 AGGGTTTACT
*
19012 AGGGTTTATT
1 AGGGTTTACT
*
19022 ATGGTTTA-T
1 AGGGTTTACT
*
19031 AAGAGTTTA-T
1 -AGGGTTTACT
19041 AAGGGTTTACT
1 -AGGGTTTACT
*
19052 AGGGTTTAAT
1 AGGGTTTACT
* *
19062 AAGGTTTACC
1 AGGGTTTACT
19072 AGGGTTTACT
1 AGGGTTTACT
*
19082 AGTG-TTA-T
1 AGGGTTTACT
*
19090 AAGGGTTT-TT
1 -AGGGTTTACT
*
19100 TGAGGTTTA-T
1 AG-GGTTTACT
*
19110 AAGGGTTTATT
1 -AGGGTTTACT
**
19121 AGGGTTTGGT
1 AGGGTTTACT
**
19131 AGGGTTTGTT
1 AGGGTTTACT
**
19141 AGGGTTTGTT
1 AGGGTTTACT
* *
19151 AGGATTTGCT
1 AGGGTTTACT
19161 A-GG-TTA-T
1 AGGGTTTACT
*
19168 AAGGGTTTA-A
1 -AGGGTTTACT
*
19178 AGGGTTTAGTT
1 AGGGTTTA-CT
**
19189 A-GGTTTAAA
1 AGGGTTTACT
19198 AGGGTTTA-T
1 AGGGTTTACT
*
19207 AAGGGGTTACT
1 -AGGGTTTACT
**
19218 AGGGTTTGTT
1 AGGGTTTACT
19228 AGGGTTTACT
1 AGGGTTTACT
19238 AGGGTTTAC-
1 AGGGTTTACT
* **
19247 AAGGTTTGTT
1 AGGGTTTACT
19257 AGGGTTTA-T
1 AGGGTTTACT
19266 AAGGGTTTACT
1 -AGGGTTTACT
*
19277 AGGATTTACT
1 AGGGTTTACT
*
19287 AGGG-TTAAT
1 AGGGTTTACT
*
19296 GGGGTTTA-T
1 AGGGTTTACT
*
19305 A-AGTATTACT
1 AGGGT-TTACT
19315 AGGGTTTGA-T
1 AGGGTTT-ACT
*
19325 AGGATTTACT
1 AGGGTTTACT
**
19335 -TTGTTTACT
1 AGGGTTTACT
*
19344 -GAGGTTTACA
1 AG-GGTTTACT
19354 AGGGTTTACT
1 AGGGTTTACT
* *
19364 A-GTTTTATT
1 AGGGTTTACT
*
19373 AAGGTTTACT
1 AGGGTTTACT
* *
19383 AGGATTTATT
1 AGGGTTTACT
19393 AGGG-TT--T
1 AGGGTTTACT
19400 AGGGTTT--T
1 AGGGTTTACT
*
19408 AAAGGTTTACT
1 -AGGGTTTACT
* *
19419 AGGGGTTATT
1 AGGGTTTACT
*
19429 AGGGTTTACA
1 AGGGTTTACT
*
19439 AGGGTTTGCT
1 AGGGTTTACT
* *
19449 AGGGGTTATT
1 AGGGTTTACT
*
19459 AGGGTTTACA
1 AGGGTTTACT
*
19469 AGGGTTTGCT
1 AGGGTTTACT
*
19479 AAGGTTT--T
1 AGGGTTTACT
19487 AGGGTTTACT
1 AGGGTTTACT
**
19497 AGGGTTTGTT
1 AGGGTTTACT
19507 AGGGTTTA-T
1 AGGGTTTACT
* *
19516 AAGGTTTA-A
1 AGGGTTTACT
19525 AGGGGTTTACT
1 A-GGGTTTACT
* * *
19536 AGAGCTTGCT
1 AGGGTTTACT
19546 AGGGTTT-CTT
1 AGGGTTTAC-T
* *
19556 AGGATTTGCT
1 AGGGTTTACT
** *
19566 AGTTTTTCCT
1 AGGGTTTACT
**
19576 AAAGTTTACT
1 AGGGTTTACT
*
19586 AGGGTTTGCT
1 AGGGTTTACT
*
19596 AGGGTTTATT
1 AGGGTTTACT
*
19606 AGGGTTT-TT
1 AGGGTTTACT
*
19615 AGGGGTTA-T
1 AGGGTTTACT
*
19624 AGGAGTTTAAT
1 AGG-GTTTACT
* **
19635 AGGGGTTGTT
1 AGGGTTTACT
* *
19645 AGGATTTATT
1 AGGGTTTACT
*
19655 AGAGTTTACT
1 AGGGTTTACT
*
19665 AGGGTTTTCT
1 AGGGTTTACT
*
19675 ACGGTTTACT
1 AGGGTTTACT
**
19685 AGGGTTTGTT
1 AGGGTTTACT
19695 AGGGTTT-CTT
1 AGGGTTTAC-T
*
19705 AGGGTTTGCT
1 AGGGTTTACT
**
19715 AGGGTTTGTT
1 AGGGTTTACT
19725 AGAGG-TT-CTT
1 AG-GGTTTAC-T
19735 AGGGTTTACT
1 AGGGTTTACT
* *
19745 TGGGTTTGCT
1 AGGGTTTACT
19755 AGGGTTTA-T
1 AGGGTTTACT
19764 AAGGGTTTACT
1 -AGGGTTTACT
19775 AGGGTTTACT
1 AGGGTTTACT
* *
19785 TGGGTTTGCT
1 AGGGTTTACT
19795 AGGGTTTA-T
1 AGGGTTTACT
19804 AAGGGTTTACT
1 -AGGGTTTACT
**
19815 AGGGTTTGTT
1 AGGGTTTACT
*
19825 AGGGTTTGCT
1 AGGGTTTACT
* *
19835 AGGATTTACA
1 AGGGTTTACT
*
19845 AGGGTTTGCT
1 AGGGTTTACT
* *
19855 AGGTTTTCCT
1 AGGGTTTACT
* *
19865 A-GGATTCCT
1 AGGGTTTACT
* *
19874 AGGTTTTACG
1 AGGGTTTACT
*
19884 AGGGTTTACA
1 AGGGTTTACT
* *
19894 AAGGTTTACA
1 AGGGTTTACT
*
19904 AGGGTTTACA
1 AGGGTTTACT
*
19914 AGGGTTTATT
1 AGGGTTTACT
*
19924 AGGGTTTGCT
1 AGGGTTTACT
**
19934 AGGGTTTTTT
1 AGGGTTTACT
* *
19944 GGGGTTTATT
1 AGGGTTTACT
**
19954 AGGGTTTGTT
1 AGGGTTTACT
*
19964 AGGATTTGA-T
1 AGGGTTT-ACT
* *
19974 A-AG-TTCCT
1 AGGGTTTACT
*
19982 AGGGTTTGCT
1 AGGGTTTACT
* *
19992 AAGGTTTTCT
1 AGGGTTTACT
20002 AGGGTTTA-T
1 AGGGTTTACT
*
20011 AAGAGTTTACT
1 -AGGGTTTACT
* *
20022 ATGATTTACT
1 AGGGTTTACT
**
20032 AGGAATTACT
1 AGGGTTTACT
*
20042 AGGGTTT-GT
1 AGGGTTTACT
*
20051 AAGGGTTT-GT
1 -AGGGTTTACT
* *
20061 A-AGTTTTCT
1 AGGGTTTACT
*
20070 AGGGTTTCCT
1 AGGGTTTACT
20080 AGGGTTTA-T
1 AGGGTTTACT
*
20089 AAGGATTTACT
1 -AGGGTTTACT
*
20100 AAGGTTTACT
1 AGGGTTTACT
**
20110 AGTTTTTA-T
1 AGGGTTTACT
20119 GAGGGTTTACT
1 -AGGGTTTACT
*
20130 AGGGTTTATT
1 AGGGTTTACT
**
20140 AGGGTTTGTT
1 AGGGTTTACT
** *
20150 ATAGTTTTCT
1 AGGGTTTACT
20160 AGGGTTTACT
1 AGGGTTTACT
20170 AGGGTTGT--T
1 AGGGTT-TACT
*
20179 AGGGTTTACA
1 AGGGTTTACT
*
20189 AGAGTTTACT
1 AGGGTTTACT
*
20199 AGGGTTTGCT
1 AGGGTTTACT
20209 AGGGTTT-CTT
1 AGGGTTTAC-T
20219 AGGG--T--T
1 AGGGTTTACT
*
20225 AGGGTTTATT
1 AGGGTTTACT
* *
20235 ATGGTTTACG
1 AGGGTTTACT
*
20245 AGGGTTTATT
1 AGGGTTTACT
*
20255 AGGGTTTATT
1 AGGGTTTACT
* *
20265 AGGATTTGCT
1 AGGGTTTACT
20275 AGGGTTT
1 AGGGTTT
20282 GTAAAGGTTT
Statistics
Matches: 1712, Mismatches: 373, Indels: 270
0.73 0.16 0.11
Matches are distributed among these distances:
6 12 0.01
7 11 0.01
8 43 0.03
9 189 0.11
10 1407 0.82
11 48 0.03
12 2 0.00
ACGTcount: A:0.22, C:0.06, G:0.30, T:0.43
Consensus pattern (10 bp):
AGGGTTTACT
Found at i:19608 original size:99 final size:99
Alignment explanation
Indices: 19444--19711 Score: 265
Period size: 99 Copynumber: 2.7 Consensus size: 99
19434 TTACAAGGGT
** * * * * * *
19444 TTGCTAGGGGTTATTAGGGTTTACAAGGGTTTGCTAAGGTTT--TAGGGTTTACTAGGGTTTGTT
1 TTGCTAGGATTTATTAGAGTTTACTAGGGTTTTCTAAAGTTTACTAGGGTTTGCTAGGGTTTATT
* * *
19507 AGGGTTTATAAGGTTTAAAGGGGTTTACTAGAGC
66 AGGGTTTATAAGGGTTAAAGGAGTTTAATAGAGC
* * * *
19541 TTGCTAGGGTTTCTTAG-GATTTGCTA-GTTTTTCCTAAAGTTTACTAGGGTTTGCTAGGGTTTA
1 TTGCTAGGATTTATTAGAG-TTTACTAGGGTTTT-CTAAAGTTTACTAGGGTTTGCTAGGGTTTA
* * * * *
19604 TTAGGGTTTTTAGGGGTTATAGGAGTTTAATAGGGG
64 TTAGGGTTTATAAGGGTTAAAGGAGTTTAATAGAGC
* ** * *
19640 TTGTTAGGATTTATTAGAGTTTACTAGGGTTTTCTACGGTTTACTAGGGTTTGTTAGGGTTTCTT
1 TTGCTAGGATTTATTAGAGTTTACTAGGGTTTTCTAAAGTTTACTAGGGTTTGCTAGGGTTTATT
19705 AGGGTTT
66 AGGGTTT
19712 GCTAGGGTTT
Statistics
Matches: 139, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
96 5 0.04
97 28 0.20
99 100 0.72
100 6 0.04
ACGTcount: A:0.19, C:0.07, G:0.31, T:0.43
Consensus pattern (99 bp):
TTGCTAGGATTTATTAGAGTTTACTAGGGTTTTCTAAAGTTTACTAGGGTTTGCTAGGGTTTATT
AGGGTTTATAAGGGTTAAAGGAGTTTAATAGAGC
Found at i:20240 original size:16 final size:16
Alignment explanation
Indices: 20208--20260 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
20198 TAGGGTTTGC
*
20208 TAGGGTTTCTTAGGGT
1 TAGGGTTTATTAGGGT
*
20224 TAGGGTTTATTATGGTT
1 TAGGGTTTATTA-GGGT
20241 TACGAGGGTTTATTAGGGT
1 T---AGGGTTTATTAGGGT
20260 T
1 T
20261 TATTAGGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 11 0.37
17 4 0.13
19 4 0.13
20 11 0.37
ACGTcount: A:0.17, C:0.04, G:0.34, T:0.45
Consensus pattern (16 bp):
TAGGGTTTATTAGGGT
Found at i:20241 original size:36 final size:36
Alignment explanation
Indices: 20120--20260 Score: 95
Period size: 36 Copynumber: 3.7 Consensus size: 36
20110 AGTTTTTATG
* ** *
20120 AGGGTTTACTAGGGTTTATTAGGGTTTGTTATAGTTTTCT
1 AGGGTTTACGAGGGTTTATTA-GG---GTTAGGGTTTACT
* * *
20160 AGGGTTTACTAGGG-TTGTTAGGGTTTACAAGAGTTTACT
1 AGGGTTTACGAGGGTTTATTAGGG-TT---AGGGTTTACT
* * * *
20199 AGGGTTTGCTAGGGTTTCTTAGGGTTAGGGTTTATT
1 AGGGTTTACGAGGGTTTATTAGGGTTAGGGTTTACT
*
20235 ATGGTTTACGAGGGTTTATTAGGGTT
1 AGGGTTTACGAGGGTTTATTAGGGTT
20261 TATTAGGATT
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
35 1 0.01
36 32 0.38
38 2 0.02
39 28 0.33
40 22 0.26
ACGTcount: A:0.18, C:0.06, G:0.32, T:0.44
Consensus pattern (36 bp):
AGGGTTTACGAGGGTTTATTAGGGTTAGGGTTTACT
Found at i:23143 original size:42 final size:41
Alignment explanation
Indices: 23053--23232 Score: 240
Period size: 42 Copynumber: 4.3 Consensus size: 41
23043 CAAGTTCGCA
* **
23053 TTGCGATAGTCAAAGTTCGCGTTGTGATTT-TTCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTACGATTTATTCAAATTCG
*
23093 TTGCGATAGTCGTAGTTCG-GATTACGATTTATTCAAAGTTCG
1 TTGCGATAGTCGAAGTTCGCG-TTACGATTTATTCAAA-TTCG
23135 TTGCGATAGTCGAAGTTCGCGTTGA-GATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTT-ACGATTTATT-CAAATTCG
* *
23177 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTACGATTTATT-CAAATTCG
23219 TTGCGATAGTCGAA
1 TTGCGATAGTCGAA
23233 AAGTGAAACC
Statistics
Matches: 126, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
39 1 0.01
40 24 0.19
41 6 0.05
42 89 0.71
43 6 0.05
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (41 bp):
TTGCGATAGTCGAAGTTCGCGTTACGATTTATTCAAATTCG
Found at i:23157 original size:21 final size:21
Alignment explanation
Indices: 23026--23232 Score: 101
Period size: 21 Copynumber: 10.0 Consensus size: 21
23016 GATTTACATA
* * *
23026 TTCGCATTGCGAAAGTCCAAG
1 TTCGCGTTGCGATAGTCGAAG
* *
23047 TTCGCATTGCGATAGTCAAAG
1 TTCGCGTTGCGATAGTCGAAG
* ** *
23068 TTCGCGTTGTGATTTTTC-AAA
1 TTCGCGTTGCGA-TAGTCGAAG
*
23089 TT--CGTTGCGATAGTCGTAG
1 TTCGCGTTGCGATAGTCGAAG
* * *
23108 TTCG-GATTACGATTTATTCAAAG
1 TTCGCG-TTGCGA--TAGTCGAAG
23131 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* * * *
23150 TTCGCGTTGAGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCGAAG
23173 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* *
23192 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCGAAG
23215 TT--CGTTGCGATAGTCGAA
1 TTCGCGTTGCGATAGTCGAA
23233 AAGTGAAACC
Statistics
Matches: 139, Mismatches: 31, Indels: 34
0.68 0.15 0.17
Matches are distributed among these distances:
18 3 0.02
19 33 0.24
20 1 0.01
21 73 0.53
22 4 0.03
23 25 0.18
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:23194 original size:84 final size:82
Alignment explanation
Indices: 23044--23232 Score: 281
Period size: 84 Copynumber: 2.3 Consensus size: 82
23034 GCGAAAGTCC
* * *
23044 AAGTTCGCATTGCGATAGTCAAAGTTCGCGTTGTGATTTTTCAAATTCGTTGCGATAGTCGTAGT
1 AAGTTCG--TTGCGATAGTCGAAGTTCGCGTTGAGATTTTTCAAATTCGTTGCGATAGTCGAAGT
23109 TCG-GATTACGATTTATTCA
64 TCGCG-TTACGATTTATTCA
23128 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGAGATTTATTCCAAATTCGTTGCGATAGTCGAAGT
1 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGAGATTT-TT-CAAATTCGTTGCGATAGTCGAAGT
* *
23193 TCGCGTTGCGATTTATTCC
64 TCGCGTTACGATTTATTCA
23212 AAGTTCGTTGCGATAGTCGAA
1 AAGTTCGTTGCGATAGTCGAA
23233 AAGTGAAACC
Statistics
Matches: 97, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
82 28 0.29
83 2 0.02
84 66 0.68
85 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.36
Consensus pattern (82 bp):
AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGAGATTTTTCAAATTCGTTGCGATAGTCGAAGTTC
GCGTTACGATTTATTCA
Found at i:25560 original size:7 final size:7
Alignment explanation
Indices: 25548--27564 Score: 704
Period size: 7 Copynumber: 303.7 Consensus size: 7
25538 GGTAGCCAAG
*
25548 TAGGGTT
1 TAGGGCT
*
25555 TAGGGTT
1 TAGGGCT
*
25562 TAGGGTTT
1 TAGGG-CT
*
25570 TAGGGTTT
1 TAGGG-CT
25578 TAGGGCT
1 TAGGGCT
*
25585 TAGGGTT
1 TAGGGCT
*
25592 TAGGGTTT
1 TAGGG-CT
*
25600 TAGGGTT
1 TAGGGCT
*
25607 TAGGGTT
1 TAGGGCT
*
25614 TAGGGTT
1 TAGGGCT
*
25621 TAGGGTTT
1 TAGGG-CT
*
25629 TAGGGTT
1 TAGGGCT
25636 TAGGG-T
1 TAGGGCT
**
25642 TAGGTTT
1 TAGGGCT
25649 TAGGG--
1 TAGGGCT
25654 TAGGG-T
1 TAGGGCT
*
25660 TAGGGTT
1 TAGGGCT
*
25667 TAGGGTT
1 TAGGGCT
*
25674 TAGGGTT
1 TAGGGCT
*
25681 TAGGGTT
1 TAGGGCT
*
25688 TAGGGTT
1 TAGGGCT
*
25695 TAGGGTT
1 TAGGGCT
*
25702 TAGGGTT
1 TAGGGCT
*
25709 TAGGGTT
1 TAGGGCT
25716 TAGGGCT
1 TAGGGCT
*
25723 TAGGGTT
1 TAGGGCT
25730 TAGGGCT
1 TAGGGCT
*
25737 TAGGGTT
1 TAGGGCT
25744 TAGGGCT
1 TAGGGCT
*
25751 TAGGGTT
1 TAGGGCT
25758 TAGGGCT
1 TAGGGCT
25765 TAGGGCT
1 TAGGGCT
25772 TAGGGCT
1 TAGGGCT
25779 TAGGGCT
1 TAGGGCT
25786 TAGGGCT
1 TAGGGCT
25793 TAGGGCT
1 TAGGGCT
25800 TAGGGCT
1 TAGGGCT
25807 TAGGGCT
1 TAGGGCT
25814 TAGGGCT
1 TAGGGCT
25821 TAGGGCT
1 TAGGGCT
25828 TAGGGCT
1 TAGGGCT
25835 TAGGGCT
1 TAGGGCT
25842 TAGGGCT
1 TAGGGCT
25849 TAGGGCT
1 TAGGGCT
25856 TAGGGCT
1 TAGGGCT
25863 TAGGGCT
1 TAGGGCT
25870 TAGGGCT
1 TAGGGCT
25877 TAGGGCT
1 TAGGGCT
25884 TAGGGCT
1 TAGGGCT
25891 TAGGGCT
1 TAGGGCT
25898 TAGGG-T
1 TAGGGCT
25904 TAGGG-T
1 TAGGGCT
*
25910 TAGGGTTT
1 TAGGG-CT
*
25918 TAGGGTTT
1 TAGGG-CT
*
25926 TAGGGTT
1 TAGGGCT
*
25933 TAGGGTT
1 TAGGGCT
*
25940 TAGGGTTT
1 TAGGG-CT
*
25948 TAGGGTTT
1 TAGGG-CT
25956 TAGGGCT
1 TAGGGCT
* *
25963 TATGGTT
1 TAGGGCT
25970 TAGGGCT
1 TAGGGCT
* *
25977 TATGGTT
1 TAGGGCT
*
25984 TAGGGTT
1 TAGGGCT
* *
25991 TATGGTT
1 TAGGGCT
*
25998 TAGGGTT
1 TAGGGCT
* *
26005 TATGGTT
1 TAGGGCT
26012 TAGGGCT
1 TAGGGCT
26019 TAGGGCT
1 TAGGGCT
26026 TAGGGCT
1 TAGGGCT
26033 TAGGGCT
1 TAGGGCT
26040 TAGGGCT
1 TAGGGCT
26047 TAGGGCT
1 TAGGGCT
26054 TAGGGCT
1 TAGGGCT
26061 TAGGGCT
1 TAGGGCT
26068 TAGGGCT
1 TAGGGCT
*
26075 TAGGGCG
1 TAGGGCT
*
26082 CAGGGGCT
1 TA-GGGCT
*
26090 TAGGGCG
1 TAGGGCT
* *
26097 CAGGGCG
1 TAGGGCT
*
26104 CAGGGGC-
1 TA-GGGCT
*
26111 -AGGGCG
1 TAGGGCT
* *
26117 CAGGGCG
1 TAGGGCT
*
26124 CAGGCGC-
1 TAGG-GCT
*
26131 -AGGGCG
1 TAGGGCT
* *
26137 CAGGGCG
1 TAGGGCT
* *
26144 CAGGGCG
1 TAGGGCT
* *
26151 CAGGGCG
1 TAGGGCT
*
26158 CAGGGC-
1 TAGGGCT
26164 -AGGGC-
1 TAGGGCT
* *
26169 GAGGGCG
1 TAGGGCT
* *
26176 CAGGGCG
1 TAGGGCT
* *
26183 CAGGGCG
1 TAGGGCT
*
26190 CAGGCGC-
1 TAGG-GCT
*
26197 -AGGGCG
1 TAGGGCT
*
26203 CAGGGC-
1 TAGGGCT
*
26209 -AGGGCG
1 TAGGGCT
* *
26215 CAGGGCG
1 TAGGGCT
* *
26222 CAGGGCG
1 TAGGGCT
* *
26229 CAGGGCG
1 TAGGGCT
* *
26236 CAGGGCG
1 TAGGGCT
*
26243 CAGGGC-
1 TAGGGCT
*
26249 -AGGGCG
1 TAGGGCT
*
26255 CAGGGGC-
1 TA-GGGCT
**
26262 -AGGGGG
1 TAGGGCT
*
26268 CAGGGGC-
1 TA-GGGCT
26275 -AGGGC-
1 TAGGGCT
26280 --GGGC-
1 TAGGGCT
*
26284 -AGGGCG
1 TAGGGCT
* *
26290 CAGGGCG
1 TAGGGCT
* *
26297 CAGGGCG
1 TAGGGCT
*
26304 CAGGGGC-
1 TA-GGGCT
*
26311 -AGGGCG
1 TAGGGCT
* *
26317 CAGGGCG
1 TAGGGCT
* *
26324 CAGGGCG
1 TAGGGCT
* *
26331 CAGGGCG
1 TAGGGCT
* *
26338 CAGGGCG
1 TAGGGCT
* *
26345 CAGGGCG
1 TAGGGCT
*
26352 CAGGGCT
1 TAGGGCT
* *
26359 CAGGGCG
1 TAGGGCT
*
26366 CAGGGC-
1 TAGGGCT
26372 T-GGGCAGGT
1 TAGGGC---T
*
26381 CAGGGCT
1 TAGGGCT
*
26388 CAGGGCT
1 TAGGGCT
*
26395 CAGGGC-
1 TAGGGCT
26401 -AGGGCT
1 TAGGGCT
*
26407 CAGGGCT
1 TAGGGCT
*
26414 CAGGGCT
1 TAGGGCT
*
26421 CAGGGCT
1 TAGGGCT
*
26428 CAGGGCT
1 TAGGGCT
*
26435 CAGGGGCT
1 TA-GGGCT
*
26443 CAGGGCT
1 TAGGGCT
26450 TCAGGGCT
1 T-AGGGCT
*
26458 CA-GGC-
1 TAGGGCT
*
26463 TCGGGCT
1 TAGGGCT
*
26470 CA-GGCT
1 TAGGGCT
*
26476 CAGGGC-
1 TAGGGCT
*
26482 TCGGGC-
1 TAGGGCT
*
26488 TCGGGC-
1 TAGGGCT
*
26494 TCGGG-T
1 TAGGGCT
*
26500 CAGGGCT
1 TAGGGCT
*
26507 CAGGGCT
1 TAGGGCT
*
26514 CAGGGCT
1 TAGGGCT
*
26521 CAGGGC-
1 TAGGGCT
26527 TA-GGCT
1 TAGGGCT
26533 TCAGGGCT
1 T-AGGGCT
*
26541 CAGGGCT
1 TAGGGCT
*
26548 CAGGGCT
1 TAGGGCT
*
26555 CAGGGC-
1 TAGGGCT
*
26561 CAGGGCT
1 TAGGGCT
*
26568 CAGGGC-
1 TAGGGCT
26574 -AGGG-T
1 TAGGGCT
*
26579 CAGGGC-
1 TAGGGCT
26585 TAGGGC-
1 TAGGGCT
*
26591 TCGGGCT
1 TAGGGCT
*
26598 CAGGGCT
1 TAGGGCT
*
26605 CAGGGC-
1 TAGGGCT
*
26611 TCGGGCT
1 TAGGGCT
*
26618 CAGGGCT
1 TAGGGCT
*
26625 CA-GGC-
1 TAGGGCT
26630 TAGGG-T
1 TAGGGCT
26636 TAGGGCT
1 TAGGGCT
*
26643 CAGGGC-
1 TAGGGCT
26649 -AGGGCT
1 TAGGGCT
*
26655 CAGGGCT
1 TAGGGCT
26662 TAGGGCT
1 TAGGGCT
*
26669 CAGGGCT
1 TAGGGCT
*
26676 CA-GGC-
1 TAGGGCT
26681 TAGGGCT
1 TAGGGCT
*
26688 CAGGGCT
1 TAGGGCT
*
26695 CA-GGC-
1 TAGGGCT
26700 TAGGGCT
1 TAGGGCT
*
26707 CAGGGCT
1 TAGGGCT
*
26714 CAGGGCT
1 TAGGGCT
*
26721 CAGGGC-
1 TAGGGCT
26727 TAGGGCT
1 TAGGGCT
*
26734 CA-GGCT
1 TAGGGCT
*
26740 CAGGGCT
1 TAGGGCT
*
26747 CAGGGCT
1 TAGGGCT
*
26754 CA-GGCT
1 TAGGGCT
26760 TCAGGGC-
1 T-AGGGCT
*
26767 TCGGGC-
1 TAGGGCT
26773 -AGGGCT
1 TAGGGCT
*
26779 CAGGGC-
1 TAGGGCT
26785 TAGGGCT
1 TAGGGCT
*
26792 CAGGGC-
1 TAGGGCT
26798 TAGGGC-
1 TAGGGCT
26804 TAGGGCT
1 TAGGGCT
* *
26811 CAGGCTCT
1 TAGG-GCT
26819 CTCAGGGCT
1 -T-AGGGCT
*
26828 CAGGGC-
1 TAGGGCT
26834 TAGGGC-
1 TAGGGCT
26840 TAGGGCT
1 TAGGGCT
*
26847 CAGGGC-
1 TAGGGCT
26853 TA-GGCT
1 TAGGGCT
26859 TAGGGC-
1 TAGGGCT
26865 -AGGGCT
1 TAGGGCT
*
26871 CA-GGCT
1 TAGGGCT
*
26877 CAGGGCT
1 TAGGGCT
*
26884 CAGGGC-
1 TAGGGCT
26890 TAGGGCT
1 TAGGGCT
26897 TAGGGCT
1 TAGGGCT
*
26904 CA-GG-T
1 TAGGGCT
26909 T-GGGC-
1 TAGGGCT
26914 -AGGGCT
1 TAGGGCT
* *
26920 CATGGCT
1 TAGGGCT
*
26927 CAGGGC-
1 TAGGGCT
26933 -AGGGCTT
1 TAGGGC-T
26940 TA-GGC-
1 TAGGGCT
**
26945 TAGGGGG
1 TAGGGCT
*
26952 CAGGGCT
1 TAGGGCT
*
26959 CAGGGCT
1 TAGGGCT
*
26966 CAGGG-T
1 TAGGGCT
*
26972 CAGGGC-
1 TAGGGCT
26978 TAGGGC-
1 TAGGGCT
26984 TAGGGCT
1 TAGGGCT
*
26991 CAGGGCT
1 TAGGGCT
*
26998 CAGGGC-
1 TAGGGCT
27004 TAGGGCT
1 TAGGGCT
*
27011 CAGGGC-
1 TAGGGCT
27017 TAGGGCT
1 TAGGGCT
*
27024 CAGGGCT
1 TAGGGCT
*
27031 CAGGGCT
1 TAGGGCT
*
27038 CAGGG-T
1 TAGGGCT
* *
27044 CAGGGTT
1 TAGGGCT
27051 TCAGGGCT
1 T-AGGGCT
*
27059 CAGGGCT
1 TAGGGCT
*
27066 CAGGG--
1 TAGGGCT
27071 TAGGG-T
1 TAGGGCT
*
27077 CAGGGCT
1 TAGGGCT
*
27084 CA-GGCT
1 TAGGGCT
*
27090 CA-GGCT
1 TAGGGCT
*
27096 CAGGGC-
1 TAGGGCT
27102 TAGGGCT
1 TAGGGCT
*
27109 CAGGG--
1 TAGGGCT
27114 TAGGG-T
1 TAGGGCT
27120 TAGGGCT
1 TAGGGCT
*
27127 CAGGGC-
1 TAGGGCT
27133 TAGGG--
1 TAGGGCT
27138 TAGGGC-
1 TAGGGCT
27144 TAGGGGCT
1 TA-GGGCT
*
27152 CAGGGCT
1 TAGGGCT
*
27159 CAGGG--
1 TAGGGCT
27164 TAGGGCT
1 TAGGGCT
*
27171 CAGGGC-
1 TAGGGCT
27177 TAGGGCT
1 TAGGGCT
*
27184 CAGGGCT
1 TAGGGCT
*
27191 CAGGGC-
1 TAGGGCT
27197 TAGGGC-
1 TAGGGCT
27203 TAGGGCT
1 TAGGGCT
*
27210 CAGGGCT
1 TAGGGCT
*
27217 CAGGGCT
1 TAGGGCT
*
27224 CAGGGCT
1 TAGGGCT
*
27231 CAGGGCT
1 TAGGGCT
27238 TAGGGC-
1 TAGGGCT
27244 TAGGG-T
1 TAGGGCT
27250 TAGGGCT
1 TAGGGCT
*
27257 CAGGGCT
1 TAGGGCT
*
27264 CAGGGC-
1 TAGGGCT
27270 TAGGGCT
1 TAGGGCT
*
27277 CAGGGC-
1 TAGGGCT
27283 TAGGGCT
1 TAGGGCT
*
27290 CAGGGC-
1 TAGGGCT
27296 TAGGG--
1 TAGGGCT
27301 TAGGG--
1 TAGGGCT
*
27306 T-CGGCT
1 TAGGGCT
*
27312 CAGGG--
1 TAGGGCT
*
27317 TCGGGCT
1 TAGGGCT
*
27324 CAGGGC-
1 TAGGGCT
27330 TAGGGCT
1 TAGGGCT
*
27337 CAGGGCT
1 TAGGGCT
*
27344 CAGGGCT
1 TAGGGCT
*
27351 CAGGG-T
1 TAGGGCT
27357 TCAGGGCT
1 T-AGGGCT
*
27365 CAGGGCT
1 TAGGGCT
*
27372 CAGGGCT
1 TAGGGCT
*
27379 CAGGG-T
1 TAGGGCT
27385 TAGGGCT
1 TAGGGCT
* **
27392 CAGGGGG
1 TAGGGCT
27399 TAGGG-T
1 TAGGGCT
*
27405 CAGGGCTCT
1 TAGGG--CT
27414 CCTCA-GGC-
1 --T-AGGGCT
*
27422 TCGGG--
1 TAGGGCT
*
27427 TA-GGTT
1 TAGGGCT
*
27433 TAGGGGT
1 TAGGGCT
27440 TAGGGC-
1 TAGGGCT
27446 TAGGGC-
1 TAGGGCT
27452 TAGGGCT
1 TAGGGCT
*
27459 CAGGG--
1 TAGGGCT
27464 -AGGGCT
1 TAGGGCT
*
27470 CAGGGCT
1 TAGGGCT
*
27477 CAGGGC-
1 TAGGGCT
27483 TAGGGCT
1 TAGGGCT
27490 TAGGGC-
1 TAGGGCT
27496 TAGGGCT
1 TAGGGCT
*
27503 CAGGG-T
1 TAGGGCT
27509 TCAGGG--
1 T-AGGGCT
27515 TA-GGC-
1 TAGGGCT
27520 TAGGGCT
1 TAGGGCT
*
27527 CAGGGCT
1 TAGGGCT
*
27534 CAGGGCT
1 TAGGGCT
*
27541 CAGGGC-
1 TAGGGCT
27547 -AGGGCT
1 TAGGGCT
*
27553 CAGGGCT
1 TAGGGCT
*
27560 CAGGG
1 TAGGG
Statistics
Matches: 1713, Mismatches: 148, Indels: 298
0.79 0.07 0.14
Matches are distributed among these distances:
4 14 0.01
5 128 0.07
6 332 0.19
7 1113 0.65
8 112 0.07
9 4 0.00
10 7 0.00
11 2 0.00
12 1 0.00
ACGTcount: A:0.14, C:0.19, G:0.46, T:0.20
Consensus pattern (7 bp):
TAGGGCT
Found at i:26116 original size:20 final size:20
Alignment explanation
Indices: 26076--26370 Score: 408
Period size: 20 Copynumber: 14.6 Consensus size: 20
26066 CTTAGGGCTT
26076 AGGGCGCAGGGGCTTAGGGCGC
1 AGGGCGCAGGGGC--AGGGCGC
26098 AGGGCGCAGGGGCAGGGCGC
1 AGGGCGCAGGGGCAGGGCGC
*
26118 AGGGCGCAGGCGCAGGGCGC
1 AGGGCGCAGGGGCAGGGCGC
26138 AGGGCGCAGGGCGCAGGGCGC
1 AGGGCGCAGGG-GCAGGGCGC
26159 A-GG-GCA-GGGCGAGGGCGC
1 AGGGCGCAGGGGC-AGGGCGC
26177 AGGGCGCAGGGCGCA-GGCGC
1 AGGGCGCAGGG-GCAGGGCGC
26197 AGGGCGCA-GGGCAGGGCGC
1 AGGGCGCAGGGGCAGGGCGC
26216 AGGGCGCAGGGCGCAGGGCGC
1 AGGGCGCAGGG-GCAGGGCGC
26237 AGGGCGCA-GGGCAGGGCGC
1 AGGGCGCAGGGGCAGGGCGC
26256 AGGG-GCAGGGGGCAGGG-GC
1 AGGGCGCA-GGGGCAGGGCGC
26275 AGGGCGGGCAGGGCGCAGGGCGC
1 AGGGC--GCAGGG-GCAGGGCGC
26298 AGGGCGCAGGGGCAGGGCGC
1 AGGGCGCAGGGGCAGGGCGC
26318 AGGGCGCAGGGCGCAGGGCGC
1 AGGGCGCAGGG-GCAGGGCGC
*
26339 AGGGCGCAGGGCGCAGGGCTC
1 AGGGCGCAGGG-GCAGGGCGC
26360 AGGGCGCAGGG
1 AGGGCGCAGGG
26371 CTGGGCAGGT
Statistics
Matches: 253, Mismatches: 3, Indels: 35
0.87 0.01 0.12
Matches are distributed among these distances:
17 2 0.01
18 16 0.06
19 39 0.15
20 86 0.34
21 79 0.31
22 24 0.09
23 7 0.03
ACGTcount: A:0.15, C:0.26, G:0.58, T:0.01
Consensus pattern (20 bp):
AGGGCGCAGGGGCAGGGCGC
Found at i:26469 original size:6 final size:7
Alignment explanation
Indices: 26013--27564 Score: 1397
Period size: 7 Copynumber: 236.6 Consensus size: 7
26003 TTTATGGTTT
*
26013 AGGGCTT
1 AGGGCTC
*
26020 AGGGCTT
1 AGGGCTC
*
26027 AGGGCTT
1 AGGGCTC
*
26034 AGGGCTT
1 AGGGCTC
*
26041 AGGGCTT
1 AGGGCTC
*
26048 AGGGCTT
1 AGGGCTC
*
26055 AGGGCTT
1 AGGGCTC
*
26062 AGGGCTT
1 AGGGCTC
*
26069 AGGGCTT
1 AGGGCTC
*
26076 AGGGCGC
1 AGGGCTC
*
26083 AGGGGCTT
1 A-GGGCTC
*
26091 AGGGCGC
1 AGGGCTC
*
26098 AGGGCGC
1 AGGGCTC
*
26105 AGGG-GC
1 AGGGCTC
*
26111 AGGGCGC
1 AGGGCTC
*
26118 AGGGCGC
1 AGGGCTC
*
26125 A-GGCGC
1 AGGGCTC
*
26131 AGGGCGC
1 AGGGCTC
*
26138 AGGGCGC
1 AGGGCTC
*
26145 AGGGCGC
1 AGGGCTC
*
26152 AGGGCGC
1 AGGGCTC
26159 AGGG--C
1 AGGGCTC
*
26164 AGGGC-G
1 AGGGCTC
*
26170 AGGGCGC
1 AGGGCTC
*
26177 AGGGCGC
1 AGGGCTC
*
26184 AGGGCGC
1 AGGGCTC
*
26191 A-GGCGC
1 AGGGCTC
*
26197 AGGGCGC
1 AGGGCTC
26204 AGGG--C
1 AGGGCTC
*
26209 AGGGCGC
1 AGGGCTC
*
26216 AGGGCGC
1 AGGGCTC
*
26223 AGGGCGC
1 AGGGCTC
*
26230 AGGGCGC
1 AGGGCTC
*
26237 AGGGCGC
1 AGGGCTC
26244 AGGG--C
1 AGGGCTC
*
26249 AGGGCGC
1 AGGGCTC
*
26256 AGGG-GC
1 AGGGCTC
**
26262 AGGGGGC
1 AGGGCTC
*
26269 AGGG-GC
1 AGGGCTC
*
26275 AGGGCGGGC
1 AGGGC--TC
*
26284 AGGGCGC
1 AGGGCTC
*
26291 AGGGCGC
1 AGGGCTC
*
26298 AGGGCGC
1 AGGGCTC
*
26305 AGGG-GC
1 AGGGCTC
*
26311 AGGGCGC
1 AGGGCTC
*
26318 AGGGCGC
1 AGGGCTC
*
26325 AGGGCGC
1 AGGGCTC
*
26332 AGGGCGC
1 AGGGCTC
*
26339 AGGGCGC
1 AGGGCTC
*
26346 AGGGCGC
1 AGGGCTC
26353 AGGGCTC
1 AGGGCTC
*
26360 AGGGCGC
1 AGGGCTC
26367 AGGGCT-
1 AGGGCTC
26373 -GGGCAGGTC
1 AGGGC---TC
26382 AGGGCTC
1 AGGGCTC
26389 AGGGCTC
1 AGGGCTC
26396 AGGG--C
1 AGGGCTC
26401 AGGGCTC
1 AGGGCTC
26408 AGGGCTC
1 AGGGCTC
26415 AGGGCTC
1 AGGGCTC
26422 AGGGCTC
1 AGGGCTC
26429 AGGGCTC
1 AGGGCTC
26436 AGGGGCTC
1 A-GGGCTC
26444 AGGGCTTC
1 AGGGC-TC
26452 AGGGCTC
1 AGGGCTC
26459 A-GGCTC
1 AGGGCTC
26465 -GGGCTC
1 AGGGCTC
26471 A-GGCTC
1 AGGGCTC
26477 AGGGCTC
1 AGGGCTC
26484 -GGGCTC
1 AGGGCTC
26490 -GGGCTC
1 AGGGCTC
26496 -GGG-TC
1 AGGGCTC
26501 AGGGCTC
1 AGGGCTC
26508 AGGGCTC
1 AGGGCTC
26515 AGGGCTC
1 AGGGCTC
26522 AGGGCT-
1 AGGGCTC
26528 A-GGCTTC
1 AGGGC-TC
26535 AGGGCTC
1 AGGGCTC
26542 AGGGCTC
1 AGGGCTC
26549 AGGGCTC
1 AGGGCTC
26556 AGGGC-C
1 AGGGCTC
26562 AGGGCTC
1 AGGGCTC
26569 AGGG--C
1 AGGGCTC
26574 AGGG-TC
1 AGGGCTC
26580 AGGGCT-
1 AGGGCTC
26586 AGGGCTC
1 AGGGCTC
26593 -GGGCTC
1 AGGGCTC
26599 AGGGCTC
1 AGGGCTC
26606 AGGGCTC
1 AGGGCTC
26613 -GGGCTC
1 AGGGCTC
26619 AGGGCTC
1 AGGGCTC
26626 A-GGCT-
1 AGGGCTC
*
26631 AGGG-TT
1 AGGGCTC
26637 AGGGCTC
1 AGGGCTC
26644 AGGG--C
1 AGGGCTC
26649 AGGGCTC
1 AGGGCTC
*
26656 AGGGCTT
1 AGGGCTC
26663 AGGGCTC
1 AGGGCTC
26670 AGGGCTC
1 AGGGCTC
26677 A-GGCT-
1 AGGGCTC
26682 AGGGCTC
1 AGGGCTC
26689 AGGGCTC
1 AGGGCTC
26696 A-GGCT-
1 AGGGCTC
26701 AGGGCTC
1 AGGGCTC
26708 AGGGCTC
1 AGGGCTC
26715 AGGGCTC
1 AGGGCTC
26722 AGGGCT-
1 AGGGCTC
26728 AGGGCTC
1 AGGGCTC
26735 A-GGCTC
1 AGGGCTC
26741 AGGGCTC
1 AGGGCTC
26748 AGGGCTC
1 AGGGCTC
26755 A-GGCTTC
1 AGGGC-TC
26762 AGGGCTC
1 AGGGCTC
26769 -GGG--C
1 AGGGCTC
26773 AGGGCTC
1 AGGGCTC
26780 AGGGCT-
1 AGGGCTC
26786 AGGGCTC
1 AGGGCTC
26793 AGGGCT-
1 AGGGCTC
26799 AGGGCT-
1 AGGGCTC
26805 AGGGCTC
1 AGGGCTC
*
26812 AGGCTCTCTC
1 AGG---GCTC
26822 AGGGCTC
1 AGGGCTC
26829 AGGGCT-
1 AGGGCTC
26835 AGGGCT-
1 AGGGCTC
26841 AGGGCTC
1 AGGGCTC
26848 AGGGCT-
1 AGGGCTC
*
26854 A-GGCTT
1 AGGGCTC
26860 AGGG--C
1 AGGGCTC
26865 AGGGCTC
1 AGGGCTC
26872 A-GGCTC
1 AGGGCTC
26878 AGGGCTC
1 AGGGCTC
26885 AGGGCT-
1 AGGGCTC
*
26891 AGGGCTT
1 AGGGCTC
26898 AGGGCTC
1 AGGGCTC
**
26905 AGGTTGGGC
1 AGG--GCTC
26914 AGGGCTC
1 AGGGCTC
*
26921 ATGGCTC
1 AGGGCTC
26928 AGGG--C
1 AGGGCTC
*
26933 AGGGCTTT
1 AGGGC-TC
26941 A-GGCT-
1 AGGGCTC
**
26946 AGGGGGC
1 AGGGCTC
26953 AGGGCTC
1 AGGGCTC
26960 AGGGCTC
1 AGGGCTC
26967 AGGG-TC
1 AGGGCTC
26973 AGGGCT-
1 AGGGCTC
26979 AGGGCT-
1 AGGGCTC
26985 AGGGCTC
1 AGGGCTC
26992 AGGGCTC
1 AGGGCTC
26999 AGGGCT-
1 AGGGCTC
27005 AGGGCTC
1 AGGGCTC
27012 AGGGCT-
1 AGGGCTC
27018 AGGGCTC
1 AGGGCTC
27025 AGGGCTC
1 AGGGCTC
27032 AGGGCTC
1 AGGGCTC
27039 AGGG-TC
1 AGGGCTC
*
27045 AGGGTTTC
1 AGGG-CTC
27053 AGGGCTC
1 AGGGCTC
27060 AGGGCTC
1 AGGGCTC
27067 AGGG-T-
1 AGGGCTC
27072 AGGG-TC
1 AGGGCTC
27078 AGGGCTC
1 AGGGCTC
27085 A-GGCTC
1 AGGGCTC
27091 A-GGCTC
1 AGGGCTC
27097 AGGGCT-
1 AGGGCTC
27103 AGGGCTC
1 AGGGCTC
27110 AGGG-T-
1 AGGGCTC
*
27115 AGGG-TT
1 AGGGCTC
27121 AGGGCTC
1 AGGGCTC
27128 AGGGCT-
1 AGGGCTC
27134 AGGG-T-
1 AGGGCTC
27139 AGGGCT-
1 AGGGCTC
27145 AGGGGCTC
1 A-GGGCTC
27153 AGGGCTC
1 AGGGCTC
27160 AGGG-T-
1 AGGGCTC
27165 AGGGCTC
1 AGGGCTC
27172 AGGGCT-
1 AGGGCTC
27178 AGGGCTC
1 AGGGCTC
27185 AGGGCTC
1 AGGGCTC
27192 AGGGCT-
1 AGGGCTC
27198 AGGGCT-
1 AGGGCTC
27204 AGGGCTC
1 AGGGCTC
27211 AGGGCTC
1 AGGGCTC
27218 AGGGCTC
1 AGGGCTC
27225 AGGGCTC
1 AGGGCTC
*
27232 AGGGCTT
1 AGGGCTC
27239 AGGGCT-
1 AGGGCTC
*
27245 AGGG-TT
1 AGGGCTC
27251 AGGGCTC
1 AGGGCTC
27258 AGGGCTC
1 AGGGCTC
27265 AGGGCT-
1 AGGGCTC
27271 AGGGCTC
1 AGGGCTC
27278 AGGGCT-
1 AGGGCTC
27284 AGGGCTC
1 AGGGCTC
27291 AGGGCT-
1 AGGGCTC
27297 AGGG-T-
1 AGGGCTC
27302 AGGG-TC
1 AGGGCTC
27308 --GGCTC
1 AGGGCTC
27313 AGGG-TC
1 AGGGCTC
27319 -GGGCTC
1 AGGGCTC
27325 AGGGCT-
1 AGGGCTC
27331 AGGGCTC
1 AGGGCTC
27338 AGGGCTC
1 AGGGCTC
27345 AGGGCTC
1 AGGGCTC
*
27352 AGGGTTC
1 AGGGCTC
27359 AGGGCTC
1 AGGGCTC
27366 AGGGCTC
1 AGGGCTC
27373 AGGGCTC
1 AGGGCTC
*
27380 AGGG-TT
1 AGGGCTC
27386 AGGGCTC
1 AGGGCTC
*
27393 AGGGGGT-
1 A-GGGCTC
27400 AGGG-TC
1 AGGGCTC
27406 AGGGCTC
1 AGGGCTC
**
27413 --TCCTC
1 AGGGCTC
27418 A-GGCTC
1 AGGGCTC
27424 -GGG-T-
1 AGGGCTC
* *
27428 A-GGTTT
1 AGGGCTC
* *
27434 AGGGGTT
1 AGGGCTC
27441 AGGGCT-
1 AGGGCTC
27447 AGGGCT-
1 AGGGCTC
27453 AGGGCTC
1 AGGGCTC
27460 AGGG---
1 AGGGCTC
27464 AGGGCTC
1 AGGGCTC
27471 AGGGCTC
1 AGGGCTC
27478 AGGGCT-
1 AGGGCTC
*
27484 AGGGCTT
1 AGGGCTC
27491 AGGGCT-
1 AGGGCTC
27497 AGGGCTC
1 AGGGCTC
*
27504 AGGGTTC
1 AGGGCTC
27511 AGGG-T-
1 AGGGCTC
27516 A-GGCT-
1 AGGGCTC
27521 AGGGCTC
1 AGGGCTC
27528 AGGGCTC
1 AGGGCTC
27535 AGGGCTC
1 AGGGCTC
27542 AGGG--C
1 AGGGCTC
27547 AGGGCTC
1 AGGGCTC
27554 AGGGCTC
1 AGGGCTC
27561 AGGG
1 AGGG
Statistics
Matches: 1376, Mismatches: 45, Indels: 248
0.82 0.03 0.15
Matches are distributed among these distances:
4 11 0.01
5 105 0.08
6 368 0.27
7 832 0.60
8 38 0.03
9 12 0.01
10 10 0.01
ACGTcount: A:0.15, C:0.24, G:0.48, T:0.14
Consensus pattern (7 bp):
AGGGCTC
Done.