Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007724.1 Hibiscus syriacus cultivar Beakdansim tig00109971_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: 1221931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:641305 original size:42 final size:42
Alignment explanation
Indices: 641257--641359 Score: 188
Period size: 42 Copynumber: 2.5 Consensus size: 42
641247 TACATACATG
* *
641257 TACTATAAGTTACATATATAGTTTACATTACATGTATATATA
1 TACTATAAGTTACATATATAGTTTACATTACATGTATACACA
641299 TACTATAAGTTACATATATAGTTTACATTACATGTATACACA
1 TACTATAAGTTACATATATAGTTTACATTACATGTATACACA
641341 TACTATAAGTTACATATAT
1 TACTATAAGTTACATATAT
641360 TAACTATTGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.41
Consensus pattern (42 bp):
TACTATAAGTTACATATATAGTTTACATTACATGTATACACA
Found at i:641485 original size:7 final size:7
Alignment explanation
Indices: 641475--641526 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
641465 GTTTATAAAG
641475 TTTAGGA
1 TTTAGGA
641482 TTTA-GA
1 TTTAGGA
*
641488 GTTTAGGG
1 -TTTAGGA
*
641496 TTTAGGG
1 TTTAGGA
641503 TTTAGGA
1 TTTAGGA
* *
641510 TATAGGG
1 TTTAGGA
641517 TTTAGGA
1 TTTAGGA
641524 TTT
1 TTT
641527 TTATAAACTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
6 2 0.05
7 34 0.92
8 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (7 bp):
TTTAGGA
Found at i:641492 original size:14 final size:14
Alignment explanation
Indices: 641473--641526 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
641463 TAGTTTATAA
641473 AGTTTAGGATTTAG
1 AGTTTAGGATTTAG
*
641487 AGTTTAGGGTTTAG
1 AGTTTAGGATTTAG
* *
641501 GGTTTAGGATATAG
1 AGTTTAGGATTTAG
*
641515 GGTTTAGGATTT
1 AGTTTAGGATTT
641527 TTATAAACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (14 bp):
AGTTTAGGATTTAG
Found at i:641500 original size:21 final size:21
Alignment explanation
Indices: 641474--641526 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
641464 AGTTTATAAA
*
641474 GTTTAGGATTTA-GAGTTTAGG
1 GTTTAGGATTTAGGA-TATAGG
*
641495 GTTTAGGGTTTAGGATATAGG
1 GTTTAGGATTTAGGATATAGG
641516 GTTTAGGATTT
1 GTTTAGGATTT
641527 TTATAAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (21 bp):
GTTTAGGATTTAGGATATAGG
Found at i:641587 original size:2 final size:2
Alignment explanation
Indices: 641580--641864 Score: 92
Period size: 2 Copynumber: 148.0 Consensus size: 2
641570 TGTTTCTTTA
641580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T ACT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * *
641621 AT -T AGT -T AT AC AT AC AT AT AT AT ACT AT AT TT AT AT AA AT AGT
1 AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T
* * * * * *
641664 -T CAC AT AA AC AT A- AT TT AT AT AT AT AG CT -T AT A- AT A- AT
1 AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
641702 -T AT AT AGT TT AT A- AT AT AA AT AT AGT TT AT A- AT -T TT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* * ** * * *
641742 AC AT AGT TT AT AT AT AT AGT GC AC AT AA AT AT A- AT TT AT AT AT
1 AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
641785 AT AT AT AT AT AT AT AT A- AT A- AT -T AT AT AGT TT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * *
641824 AA AT AT AGT TT AT AT AT A- AT -T TT AT AT -T AT AT AT AT -T AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
641863 AT
1 AT
641865 TTTTTCAATT
Statistics
Matches: 206, Mismatches: 44, Indels: 66
0.65 0.14 0.21
Matches are distributed among these distances:
1 22 0.11
2 173 0.84
3 11 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:641761 original size:98 final size:103
Alignment explanation
Indices: 641639--641837 Score: 284
Period size: 105 Copynumber: 2.0 Consensus size: 103
641629 TACATACATA
* *
641639 TATATACTATATTTATATAAATAGTTCACATAAACAT-A-AT-T-TATATATATAGCT-TATAAT
1 TATATACTATATTTATATAAATAGTGCACATAAACATAATATATATATATATATAGATATATAAT
641699 AATTATATAGTTTATAATATAAATATAGTTTATAATTT
66 AATTATATAGTTTATAATATAAATATAGTTTATAATTT
* * *
641737 TATATAC-ATAGTTTATATATATAGTGCACATAAATATAATTTATATATATATATATATATATAT
1 TATATACTATA-TTTATATAAATAGTGCACATAAACATAA--TATATATATATATATAGATATAT
641801 AATAATTATATAGTTTATAATATAAATATAGTTTATA
63 AATAATTATATAGTTTATAATATAAATATAGTTTATA
641838 TATAATTTTA
Statistics
Matches: 88, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
97 3 0.03
98 30 0.34
99 1 0.01
102 2 0.02
103 1 0.01
104 11 0.12
105 40 0.45
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (103 bp):
TATATACTATATTTATATAAATAGTGCACATAAACATAATATATATATATATATAGATATATAAT
AATTATATAGTTTATAATATAAATATAGTTTATAATTT
Found at i:646261 original size:21 final size:21
Alignment explanation
Indices: 646236--646288 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
646226 ATTATTGAAC
646236 TTGTTGATGATGAATCTAACT
1 TTGTTGATGATGAATCTAACT
646257 TTGTTGATGATGAATCTAACT
1 TTGTTGATGATGAATCTAACT
646278 TTGTTGATGAT
1 TTGTTGATGAT
646289 TTATGCCAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (21 bp):
TTGTTGATGATGAATCTAACT
Found at i:654021 original size:90 final size:87
Alignment explanation
Indices: 653864--654068 Score: 266
Period size: 90 Copynumber: 2.3 Consensus size: 87
653854 TATACCCATG
* *
653864 CTATATTATTATATACAATAAAGCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCAGGCT
1 CTATATTATTATATACAATAAAGCTTAAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCAGACT
653929 TTATGGATAATATTCAGCTAGC
66 TTATGGATAATATTCAGCTAGC
* * * *
653951 CTATATTATTATATATACAATAAAGCTTAAGTTCTCCCCCCTAAAGCAGTTGGTTAATCGCCCCG
1 CTATATTA-T-TATATACAATAAAGCTTAAGTTAT-CCCCCTAAAGCAATTGGTTAATAGCCCAG
*
654016 ACTTTATGGATAATTTTCAGCTAGC
63 ACTTTATGGATAATATTCAGCTAGC
* * *
654041 TTGTTATACTATTATATGCAATAAAGCT
1 ---CTATATTATTATATACAATAAAGCT
654069 GTCACTCTAG
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
87 8 0.08
88 1 0.01
89 22 0.22
90 49 0.48
91 15 0.15
92 1 0.01
93 6 0.06
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (87 bp):
CTATATTATTATATACAATAAAGCTTAAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCAGACT
TTATGGATAATATTCAGCTAGC
Found at i:655456 original size:7 final size:7
Alignment explanation
Indices: 655444--655491 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
655434 ATTTACAATG
655444 AACCCTA
1 AACCCTA
655451 AACCCTA
1 AACCCTA
* *
655458 AATCATA
1 AACCCTA
**
655465 AACTATA
1 AACCCTA
655472 AACCCTA
1 AACCCTA
*
655479 AACTCTA
1 AACCCTA
655486 AACCCT
1 AACCCT
655492 TAATTTGATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (7 bp):
AACCCTA
Found at i:655475 original size:21 final size:21
Alignment explanation
Indices: 655449--655488 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
655439 CAATGAACCC
655449 TAAACCCTAAA-TCATAAACTA
1 TAAACCCTAAACTC-TAAACTA
655470 TAAACCCTAAACTCTAAAC
1 TAAACCCTAAACTCTAAAC
655489 CCTTAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACTCTAAACTA
Found at i:655490 original size:14 final size:14
Alignment explanation
Indices: 655444--655491 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
655434 ATTTACAATG
*
655444 AACCCTAAACCCTA
1 AACCCTAAACTCTA
* * *
655458 AATCATAAACTATA
1 AACCCTAAACTCTA
655472 AACCCTAAACTCTA
1 AACCCTAAACTCTA
655486 AACCCT
1 AACCCT
655492 TAATTTGATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCTAAACTCTA
Found at i:656044 original size:17 final size:17
Alignment explanation
Indices: 656022--656059 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
656012 AAATTACAAT
*
656022 TAAAATTGGGA-AAATAA
1 TAAAATCGGGACAAAT-A
656039 TAAAATCGGGACAAATA
1 TAAAATCGGGACAAATA
656056 TAAA
1 TAAA
656060 TGAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (17 bp):
TAAAATCGGGACAAATA
Found at i:656192 original size:16 final size:17
Alignment explanation
Indices: 656157--656197 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
656147 TTAATATATA
656157 AAAACCTAATTATAAACT
1 AAAA-CTAATTATAAACT
*
656175 AAAACTAA-TATGAACT
1 AAAACTAATTATAAACT
656191 AAAACTA
1 AAAACTA
656198 TCCTCTTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
17 4 0.18
18 4 0.18
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAACTAATTATAAACT
Found at i:656833 original size:3 final size:3
Alignment explanation
Indices: 656827--656856 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
656817 CTGTTTGTAT
656827 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
656857 ATATTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:658685 original size:11 final size:11
Alignment explanation
Indices: 658667--658706 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
658657 GAGTTTGAGT
658667 TCGAGCTTGAA
1 TCGAGCTTGAA
*
658678 TTGAGCTTGAA
1 TCGAGCTTGAA
*
658689 TCGAGCTTCAA
1 TCGAGCTTGAA
658700 TCGAGCT
1 TCGAGCT
658707 CCTAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:659483 original size:41 final size:43
Alignment explanation
Indices: 659424--659528 Score: 103
Period size: 41 Copynumber: 2.5 Consensus size: 43
659414 TACAATTTAG
* * *
659424 AATGTTG-GGACATCTTAAAGGCCTATTTCA-ACCAGAAAT-A-A
1 AATGTTGAGG-CATTTTAAAGGCCCAATTCATA-CAGAAATGATA
* *
659465 AATGTTGAGGCATTTTAAATGCCCAATTCATACAGAAATGATT
1 AATGTTGAGGCATTTTAAAGGCCCAATTCATACAGAAATGATA
*
659508 CATG-TGAGGCATTTTAAAGGC
1 AATGTTGAGGCATTTTAAAGGC
659529 TCGCATCAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
41 30 0.57
42 20 0.38
43 3 0.06
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (43 bp):
AATGTTGAGGCATTTTAAAGGCCCAATTCATACAGAAATGATA
Found at i:661593 original size:42 final size:41
Alignment explanation
Indices: 661528--661624 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
661518 TCTTGATTTG
* * * * *
661528 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGTATGATGCT
1 TAAATCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG-A
*
661570 TAAATCCTTCGGGCCATCTGTAAGCCTTTCGAGCAAGATGA
1 TAAATCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATGA
*
661611 TAAGTCCTTCGGGC
1 TAAATCCTTCGGGC
661625 AATCCATAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 13 0.27
42 35 0.73
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
TAAATCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATGA
Found at i:661864 original size:274 final size:274
Alignment explanation
Indices: 661368--662205 Score: 1381
Period size: 274 Copynumber: 3.1 Consensus size: 274
661358 AAGTCCCTCG
*
661368 GGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGATTA
1 GGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTA
* *
661433 TCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTAATTTTAAGGGGTTTCTTGACAACTAAGAAACT
66 TCTCAAAAGAGTTGTTAAAGGAAGTTAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAACT
* *
661498 AAGCTTGATTTTCAAGGGTTTCTTGATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGTA
131 AAACTTGATTTTCAAGGGTTTCTTGATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCA
* * *
661563 TGATGCTTAAATCCTTCGGGCCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCAAT
196 TGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
*
661628 CCATAAGGCCTTCA
261 CCATAAGACCTTCA
*
661642 GGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTTATGATTA
1 GGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTA
*
661707 TCTCAAAAGAGTTGTTCAAGGAAGTTAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAACT
66 TCTCAAAAGAGTTGTTAAAGGAAGTTAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAACT
*
661772 AAACTTGATTTTCAAGGGTTTCTTGATTTGTAAATCCTTTGGGTCATCAGTAAGTCTTTCGAGCA
131 AAACTTGATTTTCAAGGGTTTCTTGATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCA
**
661837 CAATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
196 TGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
* *
661902 CCATAAAACCTTTA
261 CCATAAGACCTTCA
* * * *
661916 GACTGGATGTTTTAAAATGAGATTTTAGAAACTAAGCCTGATTTTCAGGGTTTTCTTGATGATTA
1 GGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTA
* *
661981 TCTCAAAAGAGTTGTTAAAAGAA-TCTAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAAT
66 TCTCAAAAGAGTTGTTAAAGGAAGT-TAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAAC
662045 TAAACTTGATTTTCAAGGGTTTCTTGATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGC
130 TAAACTTGATTTTCAAGGGTTTCTTGATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGC
* * * * * *
662110 ATGATGCTTAAATCTTTCTGGTCATCTATAAGCCTTTCGAGCAAAATTATAAGTCATTCGGGCCA
195 ATGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCA
*
662175 TCCATAAGACCTTCG
260 TCCATAAGACCTTCA
* *
662190 GGTAGAATGTTTTCAA
1 GGCAGGATGTTTTCAA
662206 CATTTTCGTT
Statistics
Matches: 522, Mismatches: 41, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
273 1 0.00
274 521 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (274 bp):
GGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTA
TCTCAAAAGAGTTGTTAAAGGAAGTTAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAACT
AAACTTGATTTTCAAGGGTTTCTTGATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCA
TGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
CCATAAGACCTTCA
Found at i:662305 original size:36 final size:36
Alignment explanation
Indices: 662253--662339 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 36
662243 GATGTCTTAT
**
662253 TTAAAACAGAAATTTTATCTCA-CTCGAGATAGTTTTTC
1 TTAAAAC--AAATTTTATCTCACCT-GAGATAGTTCCTC
662291 TTAAAACAAATTTTATCTCACCTGAGATAGTTCCTC
1 TTAAAACAAATTTTATCTCACCTGAGATAGTTCCTC
*
662327 TTCAAACAAATTT
1 TTAAAACAAATTT
662340 CTTTTCGTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
36 36 0.80
37 2 0.04
38 7 0.16
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (36 bp):
TTAAAACAAATTTTATCTCACCTGAGATAGTTCCTC
Found at i:665400 original size:21 final size:20
Alignment explanation
Indices: 665372--665410 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
665362 TTAAAAAATT
665372 TGATATTTAGATACTAAAAC
1 TGATATTTAGATACTAAAAC
*
665392 TGATAATTTAGTTACTAAA
1 TGAT-ATTTAGATACTAAA
665411 TACATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (20 bp):
TGATATTTAGATACTAAAAC
Found at i:667649 original size:13 final size:14
Alignment explanation
Indices: 667620--667649 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
667610 GCTTTACGGG
*
667620 AAATGAATGGAAAA
1 AAATCAATGGAAAA
667634 AAATCAATGGAAAA
1 AAATCAATGGAAAA
667648 AA
1 AA
667650 GGTTGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.17, T:0.13
Consensus pattern (14 bp):
AAATCAATGGAAAA
Found at i:669308 original size:248 final size:242
Alignment explanation
Indices: 668915--669409 Score: 762
Period size: 248 Copynumber: 2.0 Consensus size: 242
668905 AGAAAGTAAC
* * * *
668915 TCATCATCGTCAGCCAATTTGGACGCAATAACCATAGGCATAGCACATGGTGCATAACTCTTCAT
1 TCATCATCGTCAGCCAATTTGGACGCAAGAACCATAGGCATAACACATGGTGAAGAACTCTTCAT
* *
668980 GTTTGCCTTCTCAAAAATATGAACTTGTTTTGACTGAGCATCAATGAACCATTAAATCATTTCGC
66 GTTCGCCTTCTCAAAAATATGAACTTGTTTTGACTGAGAATCAATGAACCATTAAATCATTTCGC
*
669045 TTCAATCCCTAAGAAATAAC-GTAGAGATCCTAAATCCTTAAGGGAAAACATGTTGTGCAACAAG
131 TTCAATCCCTAAGAAATAACTG-AGAGATCCTAAATCCTTAAGGGAAAACATGTTGCGCAACAAG
*
669109 AGCACAACACCAACAATTGCAGAAGATGATGAACTGGTAATAACAATA
195 AGCACAACACCAACAATTGCAGAAGATGATGAACTAGTAATAACAATA
669157 TCATCATTC-TCAGCCAATTTGGACGCAAGAACCAT-GGCATAACACATGGTGAAGAACTCTTCA
1 TCATCA-TCGTCAGCCAATTTGGACGCAAGAACCATAGGCATAACACATGGTGAAGAACTCTTCA
** *
669220 TGTTCGCCTTCTCAAAAAGCTCCAAAATGAACTTGTTTTGACTGAGAATCAATGAGTCATTAAGT
65 TGTTCGCCTTCTCAAAAA--T-----ATGAACTTGTTTTGACTGAGAATCAATGAACCATTAAAT
*
669285 CATTTTGCTTCAATCCCTAAGAAATAACTGAGAGATCCTAAATCCTTAAGGGAAAACATGTTGCG
123 CATTTCGCTTCAATCCCTAAGAAATAACTGAGAGATCCTAAATCCTTAAGGGAAAACATGTTGCG
* *
669350 CAACATGAGCACAACACCAACAATTGCAGAAGATGATGATCTAGTAATAACAATA
188 CAACAAGAGCACAACACCAACAATTGCAGAAGATGATGAACTAGTAATAACAATA
669405 TCATC
1 TCATC
669410 GACGTATACC
Statistics
Matches: 230, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
241 42 0.18
242 31 0.13
243 3 0.01
248 153 0.67
249 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (242 bp):
TCATCATCGTCAGCCAATTTGGACGCAAGAACCATAGGCATAACACATGGTGAAGAACTCTTCAT
GTTCGCCTTCTCAAAAATATGAACTTGTTTTGACTGAGAATCAATGAACCATTAAATCATTTCGC
TTCAATCCCTAAGAAATAACTGAGAGATCCTAAATCCTTAAGGGAAAACATGTTGCGCAACAAGA
GCACAACACCAACAATTGCAGAAGATGATGAACTAGTAATAACAATA
Found at i:677657 original size:96 final size:96
Alignment explanation
Indices: 677480--677662 Score: 235
Period size: 96 Copynumber: 1.9 Consensus size: 96
677470 AAGAATTCAC
* * ** * *
677480 GAAACTGATGTGAGGCCTTTTACCAGTAACCACTGCAAGAATATAAGCCATCCTAGAAATGATGG
1 GAAACTGATGTGAGGCCCTTCACCAGTAACCACCACAAGAACATAAGCCATCCTAGAAATGATGA
677545 AACCACGTGATCTCTCTAATAAGCCATCCTT
66 AACCACGTGATCTCTCTAATAAGCCATCCTT
*
677576 GAAA-TGATGTGAGGCCCCTTCACCAGTAATCC-CCACAAGAACATAAGCCATCCTTGAAATGAT
1 GAAACTGATGTGAGG-CCCTTCACCAGTAA-CCACCACAAGAACATAAGCCATCCTAGAAATGAT
* * * *
677639 GAAACCGCTTGTTGTCTCTAATAA
64 GAAACCACGTGATCTCTCTAATAA
677663 TCAATTCCCT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
95 10 0.14
96 62 0.84
97 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (96 bp):
GAAACTGATGTGAGGCCCTTCACCAGTAACCACCACAAGAACATAAGCCATCCTAGAAATGATGA
AACCACGTGATCTCTCTAATAAGCCATCCTT
Found at i:679026 original size:57 final size:57
Alignment explanation
Indices: 678935--679055 Score: 188
Period size: 57 Copynumber: 2.1 Consensus size: 57
678925 GGATAGCTTC
* ** *
678935 GATTCTGCTGTGGATTCCACTGATTAGGCCTTTCTCGTTGAGAATAACCCTGGTCCT
1 GATTCTGCTGAGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
* *
678992 GATTCTGTTGAGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCGTGGCCCT
1 GATTCTGCTGAGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
679049 GATTCTG
1 GATTCTG
679056 GCGTGTATTC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (57 bp):
GATTCTGCTGAGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
Found at i:679066 original size:57 final size:57
Alignment explanation
Indices: 678935--679073 Score: 181
Period size: 57 Copynumber: 2.4 Consensus size: 57
678925 GGATAGCTTC
** *
678935 GATTCT-GCTGTGGATTCCACTGATTAGGCCTTTCTCGTTGAGAATAACCCTGGTCCT
1 GATTCTGGC-GTGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
** * *
678992 GATTCTGTTGAGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCGTGGCCCT
1 GATTCTGGCGTGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
* *
679049 GATTCTGGCGTGTATTCCATTGATT
1 GATTCTGGCGTGGATTCCACTGATT
679074 GTTACCATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (57 bp):
GATTCTGGCGTGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
Found at i:684689 original size:31 final size:31
Alignment explanation
Indices: 684629--684732 Score: 154
Period size: 31 Copynumber: 3.3 Consensus size: 31
684619 GGGCCCGAGA
* * *
684629 GCCTACCCAAGAAGGTTACTCGGGACCGCAGG
1 GCCTACCCAAGAAAGAT-CTCGGGGCCGCAGG
684661 GCCTACCCAAGAAAGATCTCGGGGCCGCAGG
1 GCCTACCCAAGAAAGATCTCGGGGCCGCAGG
* *
684692 GCCTACCCAAGAAAAATCTCGGGGCCTCAGG
1 GCCTACCCAAGAAAGATCTCGGGGCCGCAGG
684723 GCCTACCCAA
1 GCCTACCCAA
684733 AGGTCACCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 52 0.78
32 15 0.22
ACGTcount: A:0.27, C:0.34, G:0.28, T:0.12
Consensus pattern (31 bp):
GCCTACCCAAGAAAGATCTCGGGGCCGCAGG
Found at i:686676 original size:27 final size:27
Alignment explanation
Indices: 686646--686699 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
686636 CTATAATATA
*
686646 GTCATTTTATACTTC-AAGGGTATTTTG
1 GTCATTTT-TACCTCAAAGGGTATTTTG
686673 GTCATTTTTACCTCATAAGGGTATTTT
1 GTCATTTTTACCTCA-AAGGGTATTTT
686700 TATAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
28 11 0.46
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (27 bp):
GTCATTTTTACCTCAAAGGGTATTTTG
Found at i:686707 original size:28 final size:27
Alignment explanation
Indices: 686661--686716 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
686651 TTTATACTTC
* * *
686661 AAGGGTATTTTGGTCATTTTTACCTCAT
1 AAGGGTATTTTGAT-AATTTTACCCCAT
*
686689 AAGGGTATTTTTATAATTTTACCCCAT
1 AAGGGTATTTTGATAATTTTACCCCAT
686716 A
1 A
686717 GTGATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (27 bp):
AAGGGTATTTTGATAATTTTACCCCAT
Found at i:686733 original size:28 final size:28
Alignment explanation
Indices: 686668--686735 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
686658 TTCAAGGGTA
* * *
686668 TTTTGGTCATTTTTACCTCATAAGGGTAT
1 TTTTGGT-AATTTTACCCCATAAGGATAT
*
686697 TTTT-ATAATTTTACCCCAT-AGTGATAT
1 TTTTGGTAATTTTACCCCATAAG-GATAT
686724 TTTTGGTAATTT
1 TTTTGGTAATTT
686736 CTTATCCAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 2 0.06
27 19 0.59
28 7 0.22
29 4 0.12
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.51
Consensus pattern (28 bp):
TTTTGGTAATTTTACCCCATAAGGATAT
Found at i:687320 original size:14 final size:15
Alignment explanation
Indices: 687301--687338 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
687291 AAAGTCAACA
687301 AGTTGACTCA-ACCG
1 AGTTGACTCAGACCG
**
687315 AGTTGACTCAGATTG
1 AGTTGACTCAGACCG
687330 AGTTGACTC
1 AGTTGACTC
687339 GGTCGGTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (15 bp):
AGTTGACTCAGACCG
Found at i:689636 original size:20 final size:20
Alignment explanation
Indices: 689611--689654 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
689601 ATTTTCTTTC
689611 AAAAGCAAAATTGG-ATTTTG
1 AAAAGCAAAA-TGGAATTTTG
689631 AAAAGCAAAATGGAATTTTG
1 AAAAGCAAAATGGAATTTTG
689651 AAAA
1 AAAA
689655 ATGATTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.52, C:0.05, G:0.18, T:0.25
Consensus pattern (20 bp):
AAAAGCAAAATGGAATTTTG
Found at i:691167 original size:24 final size:24
Alignment explanation
Indices: 691135--691189 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
691125 CAAAGGGTAC
*
691135 TGATACTACTTTACACAGTAGTAT
1 TGATACTACTTTACACAATAGTAT
691159 TGATACTACTTTACACAATAGTAT
1 TGATACTACTTTACACAATAGTAT
691183 TGATACT
1 TGATACT
691190 GTCAAACCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (24 bp):
TGATACTACTTTACACAATAGTAT
Found at i:697343 original size:22 final size:22
Alignment explanation
Indices: 697302--697343 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
697292 TTTCGAACAA
* *
697302 TGCTACTACTGCTATGTAGCAG
1 TGCTACTACTACTATATAGCAG
*
697324 TGCTACTACTATTATATAGC
1 TGCTACTACTACTATATAGC
697344 GATCCTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (22 bp):
TGCTACTACTACTATATAGCAG
Found at i:699874 original size:2 final size:2
Alignment explanation
Indices: 699867--699916 Score: 91
Period size: 2 Copynumber: 24.5 Consensus size: 2
699857 AATCTTGATT
699867 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
699909 TA TCA TA T
1 TA T-A TA T
699917 TGTCATATGT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 45 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:702245 original size:22 final size:22
Alignment explanation
Indices: 702217--702268 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
702207 GACATAAAAT
**
702217 AATAAAAAAATTATTTTTATTC
1 AATAAAAAAATTAACTTTATTC
* *
702239 AATAAAAATATTAACTTTATTG
1 AATAAAAAAATTAACTTTATTC
702261 AA-AAAAAA
1 AATAAAAAA
702269 TATATAGATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (22 bp):
AATAAAAAAATTAACTTTATTC
Found at i:704076 original size:37 final size:37
Alignment explanation
Indices: 704000--704076 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
703990 TTTTTATATT
*
704000 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
704037 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
704074 TTT
1 TTT
704077 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:707396 original size:18 final size:17
Alignment explanation
Indices: 707357--707401 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
707347 AAACCCTTTG
*
707357 TAAATAGTTTGTTTTTA
1 TAAATATTTTGTTTTTA
*
707374 TAAATGTTTTGTTTTTA
1 TAAATATTTTGTTTTTA
707391 TAAAATATTTT
1 T-AAATATTTT
707402 AGGTAGGTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (17 bp):
TAAATATTTTGTTTTTA
Found at i:714055 original size:14 final size:14
Alignment explanation
Indices: 714036--714083 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
714026 AAAGTTAACA
**
714036 AGTTGACTCGTACG
1 AGTTGACTCAAACG
714050 AGTTGACTCAAACG
1 AGTTGACTCAAACG
* * *
714064 AGTTTACTCAGATG
1 AGTTGACTCAAACG
714078 AGTTGA
1 AGTTGA
714084 TTCAGTTCGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (14 bp):
AGTTGACTCAAACG
Found at i:719258 original size:39 final size:39
Alignment explanation
Indices: 719204--719278 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
719194 TTATTATTAT
* *
719204 CTAATTACTATTATGGCCTTAAAATTTTACAATAAACAA
1 CTAATTACTATTATGGCCGTAAAATTTTAAAATAAACAA
*
719243 CTAATTATTATTATGGCCGTAAAATTTTAAAATAAA
1 CTAATTACTATTATGGCCGTAAAATTTTAAAATAAA
719279 TAAACCATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (39 bp):
CTAATTACTATTATGGCCGTAAAATTTTAAAATAAACAA
Found at i:726017 original size:22 final size:22
Alignment explanation
Indices: 725989--726041 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
725979 ATTAACAATA
725989 AGTTGATCTAGTGAGATAAGAC
1 AGTTGATCTAGTGAGATAAGAC
726011 AGTTGATCTAGTGAGATAAGAC
1 AGTTGATCTAGTGAGATAAGAC
726033 A-TTAGATCT
1 AGTT-GATCT
726042 TTTATGAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (22 bp):
AGTTGATCTAGTGAGATAAGAC
Found at i:732769 original size:26 final size:24
Alignment explanation
Indices: 732722--732772 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
732712 TAGTTGTTGT
* *
732722 TGTTTTTTTTTTTTTTCCTTTCTG
1 TGTTTTTTTTTCTTCTCCTTTCTG
732746 TGTTTTTTTTTCTTCTCCGTTTTCTG
1 TGTTTTTTTTTCTTCTCC--TTTCTG
732772 T
1 T
732773 TTCTGTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
26 7 0.30
ACGTcount: A:0.00, C:0.16, G:0.10, T:0.75
Consensus pattern (24 bp):
TGTTTTTTTTTCTTCTCCTTTCTG
Found at i:733220 original size:3 final size:3
Alignment explanation
Indices: 733212--733276 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
733202 TTAATATATT
* *
733212 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
733260 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
733277 TGGATAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:733964 original size:113 final size:113
Alignment explanation
Indices: 733593--734150 Score: 813
Period size: 113 Copynumber: 4.9 Consensus size: 113
733583 TAGAATTATG
* * *
733593 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * * * *
733658 TCATTATGAACTCTAC-CTGGCAATGTTGATCCATTAAATGATGAATTCA-A
63 TCATTATGAACT-TTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGA
* *
733708 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTTAGATGAGTTCTTCTC
1 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
733773 ATTATGAAC--TCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGG
65 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAA-ATGATGAATTCAGA
* *
733821 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
733886 TTATGAACTTTCTCTGGCAAAA-ATAATCCATCAAGTGATGAATTCAGA
66 TTATGAACTTTCTCTGG-AAAAGATAATCCATCAAATGATGAATTCAGA
733934 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
733999 TTATGAAC-TTCTCTGGAAAAGCTAATCTATCAATTTGATGAATTCAAA
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAA-ATGATGAATTCAGA
*
734047 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
734112 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGAT
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGAT
734151 AGATTTGAAT
Statistics
Matches: 404, Mismatches: 29, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
110 1 0.00
111 20 0.05
112 98 0.24
113 191 0.47
114 42 0.10
115 4 0.01
116 48 0.12
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGA
Found at i:734930 original size:83 final size:83
Alignment explanation
Indices: 734791--735264 Score: 736
Period size: 83 Copynumber: 5.7 Consensus size: 83
734781 TTCCTACCAG
* * *
734791 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTTATCTTCTAAATTC
1 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTC
734856 AATGATTGGTTCTGTCCA
66 AATGATTGGTTCTGTCCA
*
734874 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAAGTCATCTTCTAAACTC
1 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTC
734939 AATGATTGGTTCTGTCCA
66 AATGATTGGTTCTGTCCA
734957 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTC
1 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTC
735022 AATGATTGGTTCTGTCCA
66 AATGATTGGTTCTGTCCA
* * *
735040 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTCCAAATT
1 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAACT
* * *
735104 CAATGATTGTTTTTTTTGGGTTCA
65 CAATGATTG---GTTCT--GTCCA
* * *
735128 TACCAAACCAGATAACTCAAAGAACAATTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACT
1 -ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACT
735193 CAATGATT-GTTCTGTCCA
65 CAATGATTGGTTCTGTCCA
**
735211 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCAT
1 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
735265 TTGTTCTATT
Statistics
Matches: 358, Mismatches: 25, Indels: 17
0.89 0.06 0.04
Matches are distributed among these distances:
82 51 0.14
83 232 0.65
85 3 0.01
86 3 0.01
88 4 0.01
89 63 0.18
90 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (83 bp):
ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTC
AATGATTGGTTCTGTCCA
Found at i:736359 original size:21 final size:22
Alignment explanation
Indices: 736321--736368 Score: 89
Period size: 21 Copynumber: 2.2 Consensus size: 22
736311 TTTCTTCTCT
736321 TTTTTATTTTCTATTTTTTTTC
1 TTTTTATTTTCTATTTTTTTTC
736343 TTTTTATTTTCTA-TTTTTTTC
1 TTTTTATTTTCTATTTTTTTTC
736364 TTTTT
1 TTTTT
736369 TTCTTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTATTTTCTATTTTTTTTC
Found at i:736370 original size:23 final size:23
Alignment explanation
Indices: 736305--736370 Score: 91
Period size: 22 Copynumber: 2.9 Consensus size: 23
736295 CTTGACCCCC
*
736305 TTTCT-TTTTCTTCTCTTTTTTAT
1 TTTCTATTTTTTTCT-TTTTTTAT
*
736328 TTTCTATTTTTTT-TCTTTTTAT
1 TTTCTATTTTTTTCTTTTTTTAT
736350 TTTCTATTTTTTTCTTTTTTT
1 TTTCTATTTTTTTCTTTTTTT
736371 CTTCTCTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 20 0.53
23 12 0.32
24 6 0.16
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTCTATTTTTTTCTTTTTTTAT
Found at i:736375 original size:21 final size:21
Alignment explanation
Indices: 736321--736375 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 21
736311 TTTCTTCTCT
736321 TTTTTATTTTCTATTTTTTTTC
1 TTTTT-TTTTCTATTTTTTTTC
736343 TTTTTATTTTCTA-TTTTTTTC
1 TTTTT-TTTTCTATTTTTTTTC
736364 TTTTTTTCTTCT
1 TTTTTTT-TTCT
736376 CTTCAAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.06
21 17 0.53
22 13 0.41
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTTTTCTATTTTTTTTC
Found at i:749164 original size:3 final size:3
Alignment explanation
Indices: 749156--749223 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
749146 TTAATATATT
*
749156 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
749204 TGA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
749224 TGGATAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:753197 original size:35 final size:35
Alignment explanation
Indices: 753148--753259 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 35
753138 TCTAAACCTT
** * *
753148 AAATTGAAGAATTTTAGAATTTGGGGTTTAAAATT
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
* * *
753183 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
* * *
753218 AAATTGAATTACTTTGGAAATTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
753253 AAATTGA
1 AAATTGA
753260 GGACTTGTAG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.40
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
Found at i:757743 original size:13 final size:13
Alignment explanation
Indices: 757718--757751 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
757708 TCTATATTTG
757718 TTTTT-TTTCCTT
1 TTTTTCTTTCCTT
*
757730 TTTTTCTTTTCTT
1 TTTTTCTTTCCTT
757743 TTTTTCTTT
1 TTTTTCTTT
757752 GTCTGCATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTCCTT
Found at i:764045 original size:22 final size:21
Alignment explanation
Indices: 764020--764087 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
764010 CAGTAAGTCT
764020 TTCGAGCATGATGATGAAATCC
1 TTCGAGCATGATGAT-AAATCC
* * * *
764042 TTCGGGTCATCA-G-TAAGTCT
1 TTCGAG-CATGATGATAAATCC
764062 TTCGAGCATGATGATTAAATCC
1 TTCGAGCATGATGA-TAAATCC
764084 TTCG
1 TTCG
764088 GGGCCATTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 4 0.12
20 10 0.29
21 1 0.03
22 15 0.44
23 4 0.12
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (21 bp):
TTCGAGCATGATGATAAATCC
Found at i:764066 original size:42 final size:41
Alignment explanation
Indices: 764007--764136 Score: 179
Period size: 42 Copynumber: 3.1 Consensus size: 41
763997 GAAGCAAATC
764007 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGT
1 CATCAGTAAGTCTTTCGAGCATGATGAT-AAATCCTTCGGGT
*
764049 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGGC
1 CATCAGTAAGTCTTTCGAGCATGATGA-TAAATCCTTC-GGGT
** * * *
764092 CATTTGTGAGTCTCTCGAGCAAGATGATAAATCCTTCGGGT
1 CATCAGTAAGTCTTTCGAGCATGATGATAAATCCTTCGGGT
764133 CATC
1 CATC
764137 CATAAGACCT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
41 6 0.08
42 46 0.59
43 26 0.33
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (41 bp):
CATCAGTAAGTCTTTCGAGCATGATGATAAATCCTTCGGGT
Found at i:764251 original size:53 final size:53
Alignment explanation
Indices: 764171--764340 Score: 234
Period size: 54 Copynumber: 3.2 Consensus size: 53
764161 TTCACACTAT
* * *
764171 AAGATTGTTCGAGTTTTAATCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
1 AAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
*
764224 AAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCCATAGGCAG
1 AAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAA-CCCGTAGGCAG
* * * * *
764278 AAGACTGTTCGAATTCTACTCCCTAAAGCAAGAGGGAGCGAACCCGCTAGTC-G
1 AAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCG-TAGGCAG
764331 AAGATTATTC
1 AAGATTATTC
764341 AAAGAAGAGG
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 51 0.50
54 52 0.50
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
Found at i:769597 original size:16 final size:16
Alignment explanation
Indices: 769576--769615 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
769566 TCCGAAAAAT
769576 AAATTATTTTTCCTGA
1 AAATTATTTTTCCTGA
*
769592 AAATTA--TTTCTTGA
1 AAATTATTTTTCCTGA
769606 AAATTATTTT
1 AAATTATTTT
769616 ATAATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 13 0.62
16 8 0.38
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (16 bp):
AAATTATTTTTCCTGA
Found at i:773601 original size:19 final size:19
Alignment explanation
Indices: 773573--773615 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
773563 AGCTAAAGTA
*
773573 TAAATATTATTTTATTATT
1 TAAATATTATTTCATTATT
* *
773592 TAAATTTTATTTCATTTTT
1 TAAATATTATTTCATTATT
773611 TAAAT
1 TAAAT
773616 GTTGTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TAAATATTATTTCATTATT
Found at i:775770 original size:216 final size:215
Alignment explanation
Indices: 775317--776034 Score: 1172
Period size: 216 Copynumber: 3.3 Consensus size: 215
775307 ATTTTATGAA
* * * **
775317 AAATATAAATTTAAGAACTAAATTGAATAAATATGAAATTACAAATTTAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
*
775382 AC-ACATCACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACA
66 ACAACA-CACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGA-GTTTAAATTAATACA
*
775446 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCTAATTAAAAAATATAAATAAGTAATA
129 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATA
775511 AGTATGGGCCAATTTCAAATGC
194 AGTATGGGCCAATTTCAAATGC
775533 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
*
775598 ACAACACATATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGATGTTTAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGA-GTTTAAATTAATAC-A
* * *
775663 AAAAAGTATTAAATTATATCGATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATA
129 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATA
* * *
775728 AGTATGAGCCAATTTCATATTC
194 AGTATGGGCCAATTTCAAATGC
*
775750 AAATATAATTTTAA-GACTAAATTGAACAAATATGAAATTACAAAT-AAAATTTAAACAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
*
775813 ACAACACACATTGATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGTTTTAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAG-TTTAAATTAATACAA
* * *
775878 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGTCAATTTAAAAATATAAATAAGTAAAAA
130 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
*
775943 GTATGGGCCAATTTCAGATGC
195 GTATGGGCCAATTTCAAATGC
* *
775964 TAATATAATTTTAAGGACTAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
776029 ACAACA
66 ACAACA
776035 AAAAGGGATC
Statistics
Matches: 467, Mismatches: 30, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
214 93 0.20
215 106 0.23
216 170 0.36
217 98 0.21
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (215 bp):
AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGTTTAAATTAATACAAA
AAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAG
TATGGGCCAATTTCAAATGC
Found at i:776145 original size:2 final size:2
Alignment explanation
Indices: 776134--776283 Score: 114
Period size: 2 Copynumber: 74.0 Consensus size: 2
776124 TTAAAACAAC
*
776134 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA AA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
776175 TA TA GTT TA TA TA TA AA GTA TA TA TA T- TA TA TA TA TA AA CTA
1 TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
776217 TA TA GTT TA TA TT TA TA T- TA T- TA TA TA CTA TA TA AA CTA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA
*
776258 TA TA TA TA TA T- TA TA AA CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA
776284 CCATGTATAA
Statistics
Matches: 118, Mismatches: 16, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
1 6 0.05
2 103 0.87
3 9 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:776176 original size:22 final size:21
Alignment explanation
Indices: 776131--776501 Score: 164
Period size: 22 Copynumber: 17.9 Consensus size: 21
776121 AAATTAAAAC
776131 AACTATA-ATATATATATATA
1 AACTATATATATATATATATA
*
776151 TA-TATATATATATA-ATATA
1 AACTATATATATATATATATA
776170 AACTATATAGT-T-TATATATA
1 AACTATATA-TATATATATATA
*
776190 AAGTATATATATTATATATATA
1 AACTATATATA-TATATATATA
*
776212 AACTATATAGT-T-TATATTTA
1 AACTATATA-TATATATATATA
*
776232 TA-T-TAT-TATATACTATATA
1 AACTATATATATATA-TATATA
776251 AACTATATATATATATATTATA
1 AACTATATATATATATA-TATA
** *
776273 AACTATATATA-CCATGTATA
1 AACTATATATATATATATATA
*
776293 AACTATAATACCATATAGTTTATATATG
1 AACTAT-AT---ATATA---TATATATA
*
776321 AACTAT-TGA-A-CTATATATA
1 AACTATAT-ATATATATATATA
* *
776340 AACTACATAGTTTAT-TAATATA
1 AACTATATA-TATATAT-ATATA
*
776362 AA-T-TATATAGTTTATATATA
1 AACTATATATA-TATATATATA
*
776382 AATTATATATGA-ATTATATATA
1 AACTATATAT-ATA-TATATATA
* * *
776404 AACTATACA-ATTTATATTTA
1 AACTATATATATATATATATA
* *
776424 TA-TAT-TATGTATA-ATTATA
1 AACTATATATATATATA-TATA
*
776443 AA-TA-ATATATAT-TGTATA
1 AACTATATATATATATATATA
* *
776461 AATTATATA-ATTTATTAATATA
1 AACTATATATATATA-T-ATATA
*
776483 AACTATATAGTTTATATAT
1 AACTATATA-TATATATAT
776502 GTGGTTTAAG
Statistics
Matches: 263, Mismatches: 42, Indels: 90
0.67 0.11 0.23
Matches are distributed among these distances:
16 1 0.00
17 1 0.00
18 13 0.05
19 57 0.22
20 72 0.27
21 17 0.06
22 79 0.30
23 4 0.02
24 7 0.03
26 1 0.00
28 11 0.04
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (21 bp):
AACTATATATATATATATATA
Found at i:776187 original size:11 final size:10
Alignment explanation
Indices: 776139--776272 Score: 54
Period size: 11 Copynumber: 12.4 Consensus size: 10
776129 ACAACTATAA
*
776139 TATATATATA
1 TATATATATT
*
776149 TATATATATA
1 TATATATATT
*
776159 TATATAATATA
1 TATAT-ATATT
*
776170 AACTATATAGTT
1 TA-TATATA-TT
**
776182 TATATATAAAG
1 TATATAT-ATT
776193 TATATATA-T
1 TATATATATT
*
776202 TATATATATA
1 TATATATATT
*
776212 AACTATATAGTT
1 TA-TATATA-TT
*
776224 TATATTTATAT
1 TATATATAT-T
*
776235 TATTATATACTA
1 TA-TATATA-TT
* *
776247 TATAAACTATA
1 TATATA-TATT
776258 TATATATATAT
1 TATATATAT-T
776269 TATA
1 TATA
776273 AACTATATAT
Statistics
Matches: 96, Mismatches: 16, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
9 8 0.08
10 21 0.22
11 49 0.51
12 17 0.18
13 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (10 bp):
TATATATATT
Found at i:776292 original size:20 final size:19
Alignment explanation
Indices: 776269--776306 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
776259 ATATATATAT
776269 TATAAACTATATATACCATG
1 TATAAACTATA-ATACCATG
776289 TATAAACTATAATACCAT
1 TATAAACTATAATACCAT
776307 ATAGTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (19 bp):
TATAAACTATAATACCATG
Found at i:776371 original size:192 final size:182
Alignment explanation
Indices: 776163--776502 Score: 452
Period size: 192 Copynumber: 1.8 Consensus size: 182
776153 TATATATATA
* * *
776163 TAATATAAACTATATAGTTTATATATAAAGTATATAT-ATTATATATATAAACTATATAGTTTAT
1 TAATATAAACTATATAGTTTATATATAAAGTATATATGAAT-TATATATAAACTATACAATTTAT
*
776227 ATTTATATTATTATATACT-A-TATAAACTATATATATATATATTATAAACTATATATACCATGT
65 ATTTATA-TATTATATA-TAATTATAAA-TA-ATATATAT-T-GTATAAA-T-TATATA--ATGT
776290 ATAAACTATAATACCATATAGTTTATATATGAACTATTGAACTATATATAAACTACATAGTTTAT
120 ATAAA-TATAA-ACCATATAGTTTATATATGAACTATTGAACTATATATAAACTACATAGTTTAT
* *
776355 TAATATAAATTATATAGTTTATATATAAATTATATATGAATTATATATAAACTATACAATTTATA
1 TAATATAAACTATATAGTTTATATATAAAGTATATATGAATTATATATAAACTATACAATTTATA
* * *
776420 TTTATATATTATGTATAATTATAAATAATATATATTGTATAAATTATATAATTTATTAATATAAA
66 TTTATATATTATATATAATTATAAATAATATATATTGTATAAATTATATAATGTATAAATATAAA
*
776485 CTATATAGTTTATATATG
131 CCATATAGTTTATATATG
776503 TGGTTTAAGG
Statistics
Matches: 135, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
182 18 0.13
183 5 0.04
184 7 0.05
186 6 0.04
187 1 0.01
188 6 0.04
189 1 0.01
190 9 0.07
191 11 0.08
192 69 0.51
193 2 0.01
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (182 bp):
TAATATAAACTATATAGTTTATATATAAAGTATATATGAATTATATATAAACTATACAATTTATA
TTTATATATTATATATAATTATAAATAATATATATTGTATAAATTATATAATGTATAAATATAAA
CCATATAGTTTATATATGAACTATTGAACTATATATAAACTACATAGTTTAT
Found at i:776390 original size:13 final size:11
Alignment explanation
Indices: 776353--776410 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
776343 TACATAGTTT
776353 ATTA-ATATAA
1 ATTATATATAA
776363 ATTATATAGT--
1 ATTATATA-TAA
776373 -TTATATATAA
1 ATTATATATAA
*
776383 ATTATATATGA
1 ATTATATATAA
776394 ATTATATATAA
1 ATTATATATAA
*
776405 ACTATA
1 ATTATA
776411 CAATTTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 1 0.03
9 7 0.17
10 4 0.10
11 27 0.68
12 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (11 bp):
ATTATATATAA
Found at i:776436 original size:17 final size:17
Alignment explanation
Indices: 776416--776475 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
776406 CTATACAATT
* *
776416 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
776433 TATAATTATAAATAATA
1 TATATTTATAAATTATA
776450 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
776468 TA-ATTTAT
1 TATATTTAT
776476 TAATATAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 3 0.08
17 21 0.58
18 12 0.33
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:776683 original size:42 final size:40
Alignment explanation
Indices: 776617--776703 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 40
776607 ATTAACTTAT
*
776617 ACTATATGTAAACTATATATACTATATAGTTTACATATGA
1 ACTATATGTAAACTATATAAACTATATAGTTTACATATGA
*
776657 ACTATATGTATAAACTATGTAAACTATATAGTTTACATATGA
1 ACTATATG--TAAACTATATAAACTATATAGTTTACATATGA
*
776699 CCTAT
1 ACTAT
776704 CTATATAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
40 8 0.19
42 34 0.81
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (40 bp):
ACTATATGTAAACTATATAAACTATATAGTTTACATATGA
Found at i:776697 original size:22 final size:20
Alignment explanation
Indices: 776637--776730 Score: 75
Period size: 20 Copynumber: 4.4 Consensus size: 20
776627 AACTATATAT
776637 ACTATATAGTTTACATATGA
1 ACTATATAGTTTACATATGA
* *
776657 ACTATAT-GTATAAACTATGTAA
1 ACTATATAGTTTACA-TATG--A
776679 ACTATATAGTTTACATATGA
1 ACTATATAGTTTACATATGA
*
776699 CCTATCTATATAGTTTA-TTAGTGA
1 ---A-CTATATAGTTTACATA-TGA
776723 ACTATATA
1 ACTATATA
776731 AACTATTTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
19 5 0.08
20 19 0.32
21 1 0.02
22 12 0.20
23 8 0.13
24 15 0.25
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (20 bp):
ACTATATAGTTTACATATGA
Found at i:776753 original size:18 final size:18
Alignment explanation
Indices: 776727--776761 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
776717 TAGTGAACTA
*
776727 TATAAACTATTTATATAG
1 TATAAACTATATATATAG
*
776745 TATATACTATATATATA
1 TATAAACTATATATATA
776762 AACTATAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAAACTATATATATAG
Found at i:776768 original size:20 final size:20
Alignment explanation
Indices: 776745--776795 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
776735 ATTTATATAG
776745 TATATACTATATATATAAAC
1 TATATACTATATATATAAAC
* * *
776765 TATAGT-TTATATTTATATAC
1 TATA-TACTATATATATAAAC
*
776785 TACATACTATA
1 TATATACTATA
776796 GTTGATGTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (20 bp):
TATATACTATATATATAAAC
Found at i:776775 original size:27 final size:27
Alignment explanation
Indices: 776740--776798 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
776730 AAACTATTTA
* *
776740 TATAGTATATA-CTATATA-TATAAAC
1 TATAGTTTATATCTATATACTACAAAC
* *
776765 TATAGTTTATATTTATATACTACATAC
1 TATAGTTTATATCTATATACTACAAAC
776792 TATAGTT
1 TATAGTT
776799 GATGTAACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 10 0.36
26 6 0.21
27 12 0.43
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (27 bp):
TATAGTTTATATCTATATACTACAAAC
Found at i:777434 original size:21 final size:21
Alignment explanation
Indices: 777408--777470 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
777398 ATATAAAATT
* * *
777408 TGTCCCAAAGGACCTTATGTA
1 TGTCCCGAAGGACCTCATATA
*
777429 TGTCCCGAAGGACCTCGTATA
1 TGTCCCGAAGGACCTCATATA
*
777450 TGTCCCGAAGGACTTCATATA
1 TGTCCCGAAGGACCTCATATA
777471 ACCATCGACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (21 bp):
TGTCCCGAAGGACCTCATATA
Found at i:778252 original size:36 final size:35
Alignment explanation
Indices: 778183--778252 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 35
778173 TATTTCAAAA
** *
778183 TGGTATCGATACATGCCTTATGGTATCGGTACCCT
1 TGGTATCGATACACCCCTTATGGTATCGATACCCT
778218 TGGTATCGATACTACCCCTT-TAGGTATCGATACCC
1 TGGTATCGATAC-ACCCCTTAT-GGTATCGATACCC
778253 CTTTAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (35 bp):
TGGTATCGATACACCCCTTATGGTATCGATACCCT
Found at i:778850 original size:3 final size:3
Alignment explanation
Indices: 778842--778893 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
778832 CTCACAGCTG
778842 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
778890 GAA G
1 GAA G
778894 TTCTCTCGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:779618 original size:44 final size:44
Alignment explanation
Indices: 779568--779661 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
779558 CAAGGAGATA
* * * * *
779568 CTTTTAGGAACATTTTATCTCTACTTTGAAACTCAATCTCTTTC
1 CTTTTAGAAACACTTTATCTCCAATTTAAAACTCAATCTCTTTC
*
779612 CTTTTAGAAACACTTTATCTCCAATTTAAAACTCAATCTTTTTC
1 CTTTTAGAAACACTTTATCTCCAATTTAAAACTCAATCTCTTTC
779656 CTTTTA
1 CTTTTA
779662 AGATCAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (44 bp):
CTTTTAGAAACACTTTATCTCCAATTTAAAACTCAATCTCTTTC
Found at i:784472 original size:21 final size:21
Alignment explanation
Indices: 784443--784524 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 21
784433 ATAAAATTTG
* *
784443 TCCCAAAGGACCTCATGTATA
1 TCCCGAAGGACCTCATATATA
* * *
784464 TCCCGAAGGACATCGTATATG
1 TCCCGAAGGACCTCATATATA
*
784485 TCCCGAAGGACCTCGTATATA
1 TCCCGAAGGACCTCATATATA
*
784506 TCCCGAAGGACTTCATATA
1 TCCCGAAGGACCTCATATA
784525 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (21 bp):
TCCCGAAGGACCTCATATATA
Found at i:786187 original size:18 final size:18
Alignment explanation
Indices: 786164--786224 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 18
786154 AGTTGATATT
786164 TATATACTATATATTATA
1 TATATACTATATATTATA
* *
786182 TATATAAACTATGTAGTATA
1 TATAT--ACTATATATTATA
* *
786202 TATAAATTATATAGTTGATA
1 TATATACTATATA-TT-ATA
786222 TAT
1 TAT
786225 GAATTATAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 11 0.33
19 1 0.03
20 21 0.64
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (18 bp):
TATATACTATATATTATA
Found at i:786187 original size:20 final size:20
Alignment explanation
Indices: 786159--786310 Score: 77
Period size: 18 Copynumber: 7.8 Consensus size: 20
786149 GTTACAGTTG
* * *
786159 ATATTTATATACTATATATT
1 ATATATATAAACTATATAGT
*
786179 ATATATATAAACTATGTAG-
1 ATATATATAAACTATATAGT
*
786198 -TATATATAAATTATATAGT
1 ATATATATAAACTATATAGT
*
786217 -TGATATATGAA-T-TATAGT
1 AT-ATATATAAACTATATAGT
* * *
786235 TTACATATGAACTATATA-T
1 ATATATATAAACTATATAGT
*
786254 AAACTATAGTAAAACTATATAGT
1 ATA-TATA-T-AAACTATATAGT
* **
786277 TTATATACGAAC--TATAGT
1 ATATATATAAACTATATAGT
* *
786295 TTACATATAAACTATA
1 ATATATATAAACTATA
786311 GTTGATATTT
Statistics
Matches: 102, Mismatches: 19, Indels: 22
0.71 0.13 0.15
Matches are distributed among these distances:
18 45 0.44
19 6 0.06
20 35 0.34
21 1 0.01
22 13 0.13
23 2 0.02
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
ATATATATAAACTATATAGT
Found at i:786294 original size:18 final size:18
Alignment explanation
Indices: 786271--786318 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
786261 AGTAAAACTA
*
786271 TATAGTTTATATACGAAC
1 TATAGTTTATATACAAAC
* *
786289 TATAGTTTACATATAAAC
1 TATAGTTTATATACAAAC
*
786307 TATAGTTGATAT
1 TATAGTTTATAT
786319 TTATATATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (18 bp):
TATAGTTTATATACAAAC
Found at i:786389 original size:24 final size:24
Alignment explanation
Indices: 786362--786411 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
786352 ATATATAAAC
786362 TATATAGTTTACATA-TGAACTATA
1 TATATAGTTTA-ATAGTGAACTATA
*
786386 TATATAGTTTATTAGTGAACTATA
1 TATATAGTTTAATAGTGAACTATA
786410 TA
1 TA
786412 AACTATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (24 bp):
TATATAGTTTAATAGTGAACTATA
Found at i:786456 original size:27 final size:28
Alignment explanation
Indices: 786426--786485 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
786416 ATTTATATAA
*
786426 TATATACTACATA-TATAAACTATAGTT
1 TATATACTACATACTACAAACTATAGTT
* * *
786453 TATAT-TTATATACTACATACTATAGTT
1 TATATACTACATACTACAAACTATAGTT
786480 TATATA
1 TATATA
786486 AATATAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (28 bp):
TATATACTACATACTACAAACTATAGTT
Found at i:786561 original size:27 final size:25
Alignment explanation
Indices: 786531--786587 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 25
786521 ATATGAACTA
786531 TATATAAAAACTATATAAACTATAGTT
1 TATATAAAAACTATAT--ACTATAGTT
*
786558 TATATATAAACTATATACTATAGTT
1 TATATAAAAACTATATACTATAGTT
*
786583 GATAT
1 TATAT
786588 TTATATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 13 0.46
27 15 0.54
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (25 bp):
TATATAAAAACTATATACTATAGTT
Found at i:786592 original size:27 final size:26
Alignment explanation
Indices: 786531--786603 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 26
786521 ATATGAACTA
*
786531 TATATAAAAACTATATAAACTATAGTT
1 TATATATAAACTATAT-AACTATAGTT
786558 TATATATAAACTATAT-ACTATAGTT
1 TATATATAAACTATATAACTATAGTT
* * *
786583 GATATTTATA-TATA-AACTATA
1 TATATATAAACTATATAACTATA
786604 TAAATTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 10 0.24
25 16 0.39
27 15 0.37
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (26 bp):
TATATATAAACTATATAACTATAGTT
Found at i:786642 original size:18 final size:18
Alignment explanation
Indices: 786611--786790 Score: 73
Period size: 18 Copynumber: 9.2 Consensus size: 18
786601 ATATAAATTA
* *
786611 TATAGTTGATATATGAAC
1 TATAGTTTACATATGAAC
786629 TATAGTTTACATATGATAAGAAC
1 TATAGTTTAC--AT-AT--GAAC
* *
786652 TATAGTTAAACTATAGTTAAAC
1 TATAGTT-TAC-ATA--TGAAC
* *
786674 TATATAGTTTATATACGAAC
1 TAT--AGTTTACATATGAAC
* *
786694 TATAGTCTACATATAAAC
1 TATAGTTTACATATGAAC
786712 TATAGTTGATATTTACATATGAAC
1 TATA---G-T--TTACATATGAAC
786736 TATAGTTTACATATGAAC
1 TATAGTTTACATATGAAC
*
786754 TATA---T--ATATAAAC
1 TATAGTTTACATATGAAC
786767 TATATAGTTTACATATGAAC
1 --TATAGTTTACATATGAAC
786787 TATA
1 TATA
786791 TATATAGTTT
Statistics
Matches: 123, Mismatches: 16, Indels: 46
0.66 0.09 0.25
Matches are distributed among these distances:
13 7 0.06
15 5 0.04
18 44 0.36
20 16 0.13
21 4 0.03
22 11 0.09
23 15 0.12
24 21 0.17
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.38
Consensus pattern (18 bp):
TATAGTTTACATATGAAC
Found at i:786682 original size:13 final size:11
Alignment explanation
Indices: 786649--786677 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
786639 ATATGATAAG
786649 AACTATAGTTA
1 AACTATAGTTA
786660 AACTATAGTTA
1 AACTATAGTTA
786671 AACTATA
1 AACTATA
786678 TAGTTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (11 bp):
AACTATAGTTA
Found at i:786768 original size:31 final size:32
Alignment explanation
Indices: 786728--786796 Score: 113
Period size: 33 Copynumber: 2.2 Consensus size: 32
786718 TGATATTTAC
*
786728 ATATGAAC-TATAGTTTACATATGAACTATAT
1 ATATAAACATATAGTTTACATATGAACTATAT
786759 ATATAAACTATATAGTTTACATATGAACTATAT
1 ATATAAAC-ATATAGTTTACATATGAACTATAT
786792 ATATA
1 ATATA
786797 GTTTATTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 7 0.20
33 28 0.80
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (32 bp):
ATATAAACATATAGTTTACATATGAACTATAT
Found at i:786794 original size:24 final size:24
Alignment explanation
Indices: 786767--786847 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 24
786757 ATATATAAAC
786767 TATATAGTTTACATA-TGAACTATA
1 TATATAGTTTA-ATAGTGAACTATA
*
786791 TATATAGTTTATTAGTGAACTATA
1 TATATAGTTTAATAGTGAACTATA
* *
786815 TAAACTA-TTTATATAGTATATACTATA
1 TATA-TAGTTTA-ATAGT-GA-ACTATA
786842 TATATA
1 TATATA
786848 AACTATAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 2 0.04
24 27 0.57
25 6 0.13
26 3 0.06
27 9 0.19
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.44
Consensus pattern (24 bp):
TATATAGTTTAATAGTGAACTATA
Found at i:786839 original size:18 final size:18
Alignment explanation
Indices: 786813--786847 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
786803 TAGTGAACTA
*
786813 TATAAACTATTTATATAG
1 TATAAACTATATATATAG
*
786831 TATATACTATATATATA
1 TATAAACTATATATATA
786848 AACTATAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAAACTATATATATAG
Found at i:787021 original size:27 final size:27
Alignment explanation
Indices: 786958--787009 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
786948 CCATATAAAC
*
786958 TATATAA-ATAATTTATATTTATATAT
1 TATATAATATAATTTATACTTATATAT
786984 TATATAATATAATTTATACTTATATA
1 TATATAATATAATTTATACTTATATA
787010 ATTTATACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TATATAATATAATTTATACTTATATAT
Found at i:787027 original size:15 final size:15
Alignment explanation
Indices: 786990--787027 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
786980 ATATTATATA
786990 ATAT-AATTTATACT
1 ATATAAATTTATACT
787004 -TATATAATTTATACT
1 ATATA-AATTTATACT
787019 ATATAAATT
1 ATATAAATT
787028 CAAAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.14
15 14 0.67
16 4 0.19
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAAATTTATACT
Found at i:787063 original size:405 final size:404
Alignment explanation
Indices: 786200--786967 Score: 1146
Period size: 405 Copynumber: 1.9 Consensus size: 404
786190 CTATGTAGTA
* * *
786200 TATATAAATTATATAGTTGATATATGAATTATAGTTTACATATG---A-ACTATATA--TAAACT
1 TATATAAATTATATAGTTGAAATATAAAATATAGTTTA-ATATGATAAGACTATATAGTTAAACT
* *
786259 ATAGTAAAACTATATAGTTTATATACGAACTATAGTTTACATATAAACTATAGTTGATATTTATA
65 ATAGTAAAACTATATAGTTTATATACGAACTATAGTCTACATATAAACTATAGTTGATATTTACA
* *
786324 TATGAGCTATCGTTTACATATGAACAATATATATAAACTATATAGTTTACATATGAACTATATAT
130 TATGAACTATAGTTTACATATGAACAATATATATAAACTATATAGTTTACATATGAACTATATAT
786389 ATAGTTTATTAGTGAACTATATAAACTATTTATATAATATATACTACATATATAAACTATAGTTT
195 ATAGTTTATTAGTGAACTATATAAACTATTTATATAATATATACTACATATATAAACTATAGTTT
*
786454 ATATTTATATACTACATACTATAGTTTATATAAATATAAACTATATATACTATATAGTATAATTT
260 ATATTTATATACTACATAC-ATAGTTTATATAAATATAAACTATATATACTAAATAGTATAATTT
* * * **
786519 ACATATGAACTATATATAAAAACTATATAAACTATAGTTTATATATAAACTATATACTATAGTTG
324 ACAAATGAACTATACATAAAAACCATATAAACTATAGTAAATATATAAACTATATACTATAGTTG
*
786584 ATATTTATATATAAAC
389 ATATATATATATAAAC
* * *
786600 TATATAAATTATATAGTTGATATATGAACTATAGTTTACATATGATAAGA--ACTATAGTTAAAC
1 TATATAAATTATATAGTTGAAATATAAAATATAGTTTA-ATATGATAAGACTA-TATAGTTAAAC
*
786663 TATAGTTAAACTATATAGTTTATATACGAACTATAGTCTACATATAAACTATAGTTGATATTTAC
64 TATAGTAAAACTATATAGTTTATATACGAACTATAGTCTACATATAAACTATAGTTGATATTTAC
*
786728 ATATGAACTATAGTTTACATATGAACTATATATATAAACTATATAGTTTACATATGAACTATATA
129 ATATGAACTATAGTTTACATATGAACAATATATATAAACTATATAGTTTACATATGAACTATATA
* *
786793 TATAGTTTATTAGTGAACTATATAAACTATTTATATAGTATATACTATATATATAAACTATAGTT
194 TATAGTTTATTAGTGAACTATATAAACTATTTATATAATATATACTACATATATAAACTATAGTT
* * *
786858 TATATTTATATACTACATAC-TAGTTTATATTTATACTATATATTATATATA-TAAA-ATGTATA
259 TATATTTATATACTACATACATAGTTTATA--TA-AATATAAACTATATATACTAAATA-GTATA
786920 TACTTTACAAATGAACTATACATAAAAACCATATAAACTATA-TAAATA
320 -A-TTTACAAATGAACTATACATAAAAACCATATAAACTATAGTAAATA
786968 ATTTATATTT
Statistics
Matches: 337, Mismatches: 18, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
400 43 0.13
402 1 0.00
403 14 0.04
404 2 0.01
405 222 0.66
406 19 0.06
407 36 0.11
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (404 bp):
TATATAAATTATATAGTTGAAATATAAAATATAGTTTAATATGATAAGACTATATAGTTAAACTA
TAGTAAAACTATATAGTTTATATACGAACTATAGTCTACATATAAACTATAGTTGATATTTACAT
ATGAACTATAGTTTACATATGAACAATATATATAAACTATATAGTTTACATATGAACTATATATA
TAGTTTATTAGTGAACTATATAAACTATTTATATAATATATACTACATATATAAACTATAGTTTA
TATTTATATACTACATACATAGTTTATATAAATATAAACTATATATACTAAATAGTATAATTTAC
AAATGAACTATACATAAAAACCATATAAACTATAGTAAATATATAAACTATATACTATAGTTGAT
ATATATATATAAAC
Found at i:787122 original size:15 final size:15
Alignment explanation
Indices: 787087--787131 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
787077 AATAACGATT
*
787087 TATATAGTATAC-TA
1 TATATAGTTTACATA
* *
787101 CATATAGTTTATATA
1 TATATAGTTTACATA
787116 TATATAGTTTACATA
1 TATATAGTTTACATA
787131 T
1 T
787132 GAACTATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
TATATAGTTTACATA
Found at i:787149 original size:13 final size:13
Alignment explanation
Indices: 787133--787166 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
787123 TTTACATATG
787133 AACTATATATAAA
1 AACTATATATAAA
*
787146 AACTATATATATA
1 AACTATATATAAA
*
787159 AAGTATAT
1 AACTATAT
787167 GGTATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (13 bp):
AACTATATATAAA
Found at i:787257 original size:33 final size:33
Alignment explanation
Indices: 787138--787359 Score: 163
Period size: 33 Copynumber: 6.6 Consensus size: 33
787128 ATATGAACTA
* * *
787138 TATATAAAAACTATATA-TATAAAG-T-ATATGG
1 TATATATAAACTATATATTATATAGTTCAT-TAG
* *
787169 TATATACAAACTATTTATTATATAGTTCATTAG
1 TATATATAAACTATATATTATATAGTTCATTAG
*
787202 TATATATAAACTATACATTATATAGTTCATTAG
1 TATATATAAACTATATATTATATAGTTCATTAG
* *
787235 TATATATAAACTATATGGTATATATAAACTATACATTA-
1 TATATATAAACTATA---TAT-TATATAGT-T-CATTAG
** **
787273 TATATAT-AGTTCAT-TAGTATATATA-AACTATATAG
1 TATATATAAACT-ATATA-T-TATATAGTTC-AT-TAG
787308 TATATATAAACTATAT-TTATATAGTTCATTAG
1 TATATATAAACTATATATTATATAGTTCATTAG
*
787340 TATATATAACCTATATATTA
1 TATATATAAACTATATATTA
787360 ATTTATTAAT
Statistics
Matches: 153, Mismatches: 20, Indels: 34
0.74 0.10 0.16
Matches are distributed among these distances:
31 15 0.10
32 25 0.16
33 61 0.40
34 8 0.05
35 16 0.10
36 5 0.03
37 8 0.05
38 10 0.07
39 5 0.03
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (33 bp):
TATATATAAACTATATATTATATAGTTCATTAG
Found at i:787299 original size:55 final size:53
Alignment explanation
Indices: 787199--787356 Score: 245
Period size: 55 Copynumber: 3.0 Consensus size: 53
787189 TATAGTTCAT
787199 TAGTATATATAAACTATAC--ATTATATAGTTCATTAGTATATATAAACTATA
1 TAGTATATATAAACTATACATATTATATAGTTCATTAGTATATATAAACTATA
*
787250 TGGTATATATAAACTATACATTATATATATAGTTCATTAGTATATATAAACTATA
1 TAGTATATATAAACTATACA-TAT-TATATAGTTCATTAGTATATATAAACTATA
*
787305 TAGTATATATAAACTAT--AT-TTATATAGTTCATTAGTATATATAACCTATA
1 TAGTATATATAAACTATACATATTATATAGTTCATTAGTATATATAAACTATA
787355 TA
1 TA
787357 TTAATTTATT
Statistics
Matches: 100, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
50 31 0.31
51 19 0.19
52 1 0.01
53 1 0.01
54 2 0.02
55 46 0.46
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (53 bp):
TAGTATATATAAACTATACATATTATATAGTTCATTAGTATATATAAACTATA
Found at i:787323 original size:18 final size:18
Alignment explanation
Indices: 787151--787323 Score: 121
Period size: 18 Copynumber: 9.9 Consensus size: 18
787141 ATAAAAACTA
* *
787151 TATATATAAAGTATATGG
1 TATATATAAACTATATAG
* *
787169 TATATACAAACTATTTA-
1 TATATATAAACTATATAG
**
787186 T-TATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAG
*
787202 TATATATAAACTATACA-
1 TATATATAAACTATATAG
**
787219 T-TATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAG
*
787235 TATATATAAACTATATGG
1 TATATATAAACTATATAG
* *
787253 TATATATAAACTATACAT
1 TATATATAAACTATATAG
* *
787271 TATATATATAGT-TCATTAG
1 TATATATAAACTAT-A-TAG
787290 TATATATAAACTATATAG
1 TATATATAAACTATATAG
787308 TATATATAAACTATAT
1 TATATATAAACTATAT
787324 TTATATAGTT
Statistics
Matches: 117, Mismatches: 25, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
15 7 0.06
16 15 0.13
17 17 0.15
18 65 0.56
19 12 0.10
20 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (18 bp):
TATATATAAACTATATAG
Found at i:787489 original size:61 final size:61
Alignment explanation
Indices: 787414--787551 Score: 215
Period size: 61 Copynumber: 2.3 Consensus size: 61
787404 ATATAAGGAT
* *
787414 TAAATTGAACAAATTTTAAATATGAAGCTTAAATTAATAAATTG-TAACATTAAATTTGGAC
1 TAAATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAATCGCT-ACATTAAATTTGGAC
* * *
787475 TAAATTGAAGAAATTTGAAATATGAAGCTTAAATTAATATATCGCTTCATTAAATTTGGAC
1 TAAATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAATCGCTACATTAAATTTGGAC
787536 TAAATTGAACAAATTT
1 TAAATTGAACAAATTT
787552 AAAACTAGGA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
61 69 0.99
62 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (61 bp):
TAAATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAATCGCTACATTAAATTTGGAC
Found at i:787960 original size:102 final size:103
Alignment explanation
Indices: 787779--787979 Score: 257
Period size: 102 Copynumber: 2.0 Consensus size: 103
787769 AAAAACCTCC
*
787779 TTTGATCTTCAGAAACACCAAAACCCAAACCATTTCATGTTTTTTTCGATCAAACACCCAAAAAT
1 TTTGATCTTCAGAAACACCAAAACCCAAACCATTTCATGATTTTTTCGATCAAACACCCAAAAAT
787844 TCATCTCGTGTTCATCCT-AATTCTTCCCCAAACCATTA
66 TCATCTCGTGTTCAT-CTGAATTCTTCCCCAAACCATTA
* * * * *
787882 TTTGATCTTCATAAACACCAAAACCTAAACTCA-TTCCT-ATTTTTTCGATCTAACACCCAAAAG
1 TTTGATCTTCAGAAACACCAAAACCCAAAC-CATTTCATGATTTTTTCGATCAAACACCCAAAAA
* * **
787945 TTCATC-CATTTTTCATCTGTGTTCTTCCCCAAACC
65 TTCATCTC-GTGTTCATCTGAATTCTTCCCCAAACC
787980 CTTACAAACA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
101 3 0.04
102 48 0.56
103 32 0.38
104 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.34
Consensus pattern (103 bp):
TTTGATCTTCAGAAACACCAAAACCCAAACCATTTCATGATTTTTTCGATCAAACACCCAAAAAT
TCATCTCGTGTTCATCTGAATTCTTCCCCAAACCATTA
Found at i:788168 original size:6 final size:6
Alignment explanation
Indices: 788159--788198 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
788149 CCCTAACCTT
* * *
788159 AACCCG AACCCA AACCCA AACCCA AACTCA AACCCG AACC
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACC
788199 TTAAACCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.45, C:0.47, G:0.05, T:0.03
Consensus pattern (6 bp):
AACCCA
Found at i:788180 original size:18 final size:18
Alignment explanation
Indices: 788159--788235 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 18
788149 CCCTAACCTT
788159 AACCCGAACCCAAACCCA
1 AACCCGAACCCAAACCCA
* * *
788177 AACCCAAACTCAAACCCG
1 AACCCGAACCCAAACCCA
** * *
788195 AACCTTAAACCAAATCCTA
1 AACCCGAACCCAAA-CCCA
* * *
788214 AACTCGAACCCGAACCCG
1 AACCCGAACCCAAACCCA
788232 AACC
1 AACC
788236 TGAATCTGAA
Statistics
Matches: 41, Mismatches: 17, Indels: 2
0.68 0.28 0.03
Matches are distributed among these distances:
18 30 0.73
19 11 0.27
ACGTcount: A:0.43, C:0.43, G:0.06, T:0.08
Consensus pattern (18 bp):
AACCCGAACCCAAACCCA
Found at i:788262 original size:18 final size:18
Alignment explanation
Indices: 788220--788275 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
788210 CCTAAACTCG
* * *
788220 AACCCGAACCCGAACCTG
1 AACCTGAACCCAAACCTA
* * *
788238 AATCTGAACCTAAATCTA
1 AACCTGAACCCAAACCTA
788256 AACCTGAACCCAAACCTA
1 AACCTGAACCCAAACCTA
788274 AA
1 AA
788276 TACAAACTAT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.14
Consensus pattern (18 bp):
AACCTGAACCCAAACCTA
Found at i:791047 original size:23 final size:22
Alignment explanation
Indices: 791017--791061 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
791007 TGCTTTCTTA
791017 ATGCATGATGCTTGCTGAATTG
1 ATGCATGATGCTTGCTGAATTG
*
791039 ATGCAATGATGCTTGTTGAATTG
1 ATGC-ATGATGCTTGCTGAATTG
791062 CTTCTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (22 bp):
ATGCATGATGCTTGCTGAATTG
Found at i:791313 original size:13 final size:13
Alignment explanation
Indices: 791294--791331 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
791284 TAATTTAGTG
791294 ATTATAAATAA-A
1 ATTATAAATAAGA
791306 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
791321 ATTATAAATAA
1 ATTATAAATAA
791332 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:797992 original size:26 final size:24
Alignment explanation
Indices: 797919--797994 Score: 118
Period size: 23 Copynumber: 3.1 Consensus size: 24
797909 AATTATACTG
*
797919 AAACCTAAATTCTA-CCTTACTTA
1 AAACCTAAATTCTACCCTAACTTA
797942 AAACCTAAATTCTACCCTAACTTA
1 AAACCTAAATTCTACCCTAACTTA
797966 AAACCTTAAATTCTACCCCTAACTTA
1 AAACC-TAAATTCTA-CCCTAACTTA
797992 AAA
1 AAA
797995 TCTTAAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
23 14 0.29
24 13 0.27
25 9 0.18
26 13 0.27
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (24 bp):
AAACCTAAATTCTACCCTAACTTA
Found at i:797999 original size:26 final size:24
Alignment explanation
Indices: 797919--798001 Score: 105
Period size: 26 Copynumber: 3.4 Consensus size: 24
797909 AATTATACTG
* *
797919 AAACCTAAATTCTA-CCTTACTTA
1 AAACTTAAATTCTACCCTAACTTA
*
797942 AAACCTAAATTCTACCCTAACTTA
1 AAACTTAAATTCTACCCTAACTTA
797966 AAACCTTAAATTCTACCCCTAACTTA
1 AAA-CTTAAATTCTA-CCCTAACTTA
797992 AAATCTTAAA
1 AAA-CTTAAA
798002 AAATATTCTA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 14 0.26
24 11 0.20
25 10 0.19
26 19 0.35
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (24 bp):
AAACTTAAATTCTACCCTAACTTA
Found at i:804435 original size:22 final size:21
Alignment explanation
Indices: 804388--804479 Score: 89
Period size: 21 Copynumber: 4.3 Consensus size: 21
804378 TTGTGCTTCA
*
804388 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-TG
804408 TGCATCGATACATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* *
804430 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
* *
804451 TGCACCGATGCACGTCTTGAATG
1 TGCATCGATACAC--CTTGAATG
804474 TGCATC
1 TGCATC
804480 AACGCACAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
20 12 0.20
21 20 0.34
22 14 0.24
23 13 0.22
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:807262 original size:17 final size:19
Alignment explanation
Indices: 807234--807282 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
807224 TATTTTGAAA
807234 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
807252 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
807271 CACCGATGCACT
1 CATCGATGCACT
807283 AAGGGTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:819127 original size:18 final size:17
Alignment explanation
Indices: 819073--819121 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
819063 TTGGACCCTT
* *
819073 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
819091 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
819109 AGTGCATTCGATG
1 AGTGCA-TCGATG
819122 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:819169 original size:18 final size:19
Alignment explanation
Indices: 819138--819188 Score: 95
Period size: 18 Copynumber: 2.7 Consensus size: 19
819128 AATAGACAGA
819138 GTGCATCGATGCATGACTG
1 GTGCATCGATGCATGACTG
819157 GTGCATC-ATGCATGACTG
1 GTGCATCGATGCATGACTG
819175 GTGCATCGATGCAT
1 GTGCATCGATGCAT
819189 CAAATACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 18 0.58
19 13 0.42
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (19 bp):
GTGCATCGATGCATGACTG
Found at i:819309 original size:65 final size:65
Alignment explanation
Indices: 819155--819320 Score: 173
Period size: 65 Copynumber: 2.6 Consensus size: 65
819145 GATGCATGAC
*
819155 TGGTGCATC-ATGCAT-GACTGGTGCATCGATGCATCAAATACATTCGATGTTTTCATAACATCC
1 TGGTGCATCGATGCATGGATTGGTGCATCGATGCATCAAATACATTCGATG-TTTCATAACATCC
*
819218 T
65 G
* * * * *
819219 TAGTGCATCGGTGCATGG-TAT-GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTA-AT
1 TGGTGCATCGATGCATGGAT-TGGTGCATCGATGCATCAAATACATTCGATGTTTC-A-TAACAT
*
819280 TCG
63 CCG
*
819283 TGGTGCATCGATGCATGGATTGGTGCATCGGTGCATCA
1 TGGTGCATCGATGCATGGATTGGTGCATCGATGCATCA
819321 CTCTGAAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
63 3 0.04
64 29 0.35
65 49 0.59
66 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (65 bp):
TGGTGCATCGATGCATGGATTGGTGCATCGATGCATCAAATACATTCGATGTTTCATAACATCCG
Found at i:819634 original size:25 final size:25
Alignment explanation
Indices: 819619--819677 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
819609 TAAGATTTTC
819619 TTTGAAAATAAGTTTTGAAATCAAT
1 TTTGAAAATAAGTTTTGAAATCAAT
819644 TTTGAAAATAAGTTTTGAAATCAAT
1 TTTGAAAATAAGTTTTGAAATCAAT
819669 TTTGAAAAT
1 TTTGAAAAT
819678 TACTCCAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (25 bp):
TTTGAAAATAAGTTTTGAAATCAAT
Found at i:819637 original size:13 final size:13
Alignment explanation
Indices: 819619--819677 Score: 72
Period size: 13 Copynumber: 4.7 Consensus size: 13
819609 TAAGATTTTC
819619 TTTGAAAAT-AAGT
1 TTTGAAAATCAA-T
819632 TTTG-AAATCAAT
1 TTTGAAAATCAAT
819644 TTTGAAAAT-AAGT
1 TTTGAAAATCAA-T
819657 TTTG-AAATCAAT
1 TTTGAAAATCAAT
819669 TTTGAAAAT
1 TTTGAAAAT
819678 TACTCCAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
12 20 0.49
13 21 0.51
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:819646 original size:12 final size:12
Alignment explanation
Indices: 819631--819675 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
819621 TGAAAATAAG
819631 TTTTGAAATCAA
1 TTTTGAAATCAA
819643 TTTTGAAAAT-AA
1 TTTTG-AAATCAA
819655 GTTTTGAAATCAA
1 -TTTTGAAATCAA
819668 TTTTGAAA
1 TTTTGAAA
819676 ATTACTCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 19 0.63
13 11 0.37
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (12 bp):
TTTTGAAATCAA
Found at i:820919 original size:24 final size:24
Alignment explanation
Indices: 820845--820925 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
820835 ATGGCTCTTG
* *
820845 TGCATCGATGCATATTC-AAGGGCG
1 TGCATCGATGCACATTCAAAGGG-A
* *
820869 TGCATCGATG--CA-TCAGA-TGA
1 TGCATCGATGCACATTCAAAGGGA
*
820889 TGTATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTCAAAGGGA
*
820913 TGCATCGGTGCAC
1 TGCATCGATGCAC
820926 TGTTAAGTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
20 9 0.21
21 3 0.07
22 4 0.09
23 4 0.09
24 23 0.53
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (24 bp):
TGCATCGATGCACATTCAAAGGGA
Found at i:826643 original size:65 final size:65
Alignment explanation
Indices: 826506--826666 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
826496 GTGCACTAAG
* *
826506 AGTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGACT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAACAGCCAGAGTGCATCGATGCATGACT
* * * ** * *
826570 AGTACATCGATGCATCAAATGCATTCGATGTTTTCATAACATCCTTAGTGCATCGGTGCATG-GT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAACAGCCAGAGTGCATCGATGCATGACT
* *
826634 ATGTGCATCGATGCATGAAATACATTCGATGTT
1 A-GTGCATCGATGCATCAAATGCATTCGATGTT
826667 CAATTTAATT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 30 0.36
65 53 0.64
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (65 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAACAGCCAGAGTGCATCGATGCATGACT
Found at i:832123 original size:21 final size:21
Alignment explanation
Indices: 832099--832138 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
832089 AAAAAAATAT
* *
832099 TTAAAATATTATTATTTTTAC
1 TTAAAACATTAATATTTTTAC
832120 TTAAAACATTAATATTTTT
1 TTAAAACATTAATATTTTT
832139 TAATATTTGA
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:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAAAACATTAATATTTTTAC
Found at i:832559 original size:28 final size:27
Alignment explanation
Indices: 832528--832583 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
832518 GATAGTATCT
* *
832528 ATTTAGAATTGTTTAAAATTTATATATA
1 ATTTAGAATAGTTTAAAATTAAT-TATA
**
832556 ATTTTTAATAGTTTAAAATTAATTATA
1 ATTTAGAATAGTTTAAAATTAATTATA
832583 A
1 A
832584 GATAGTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (27 bp):
ATTTAGAATAGTTTAAAATTAATTATA
Found at i:834089 original size:21 final size:21
Alignment explanation
Indices: 834065--834107 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
834055 TTAATAAAAA
*
834065 TATTTAAAATATTATTATTTT
1 TATTTAAAATATTAATATTTT
834086 TATTTAAAATATTAATATTTT
1 TATTTAAAATATTAATATTTT
834107 T
1 T
834108 TTAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTAAAATATTAATATTTT
Found at i:834173 original size:20 final size:20
Alignment explanation
Indices: 834150--834191 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
834140 AAACAGGTAG
*
834150 AAAAAATAACAAAATTGATA
1 AAAAAATAACAAAATCGATA
*
834170 AAAAAATAATAAAATCGATA
1 AAAAAATAACAAAATCGATA
834190 AA
1 AA
834192 TTTTTATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAAAATAACAAAATCGATA
Found at i:835916 original size:132 final size:132
Alignment explanation
Indices: 835558--835916 Score: 493
Period size: 132 Copynumber: 2.7 Consensus size: 132
835548 ACACAAAATA
* *
835558 ATTCTAAGAGAGAAAACGATAATATCTAATTATTTCCAACCGGGAATAAATGACCTCTTATACCT
1 ATTC-AAGAG-GAAAACGATAATATCTAATTATTTCCAACCGAGAATAAATGACCTCTTATGCCT
* * * * * * * * ** *
835623 TAAAGCAGTCGTTTATTACTTCGATCAAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAAT
64 TAAAGAAATCATTTATTACTCCAAACGAAATGAAGAAATATCACTATTTCACCTTAAAAATCAAT
835688 ATTG
129 ATTG
* * * * *
835692 ATTCGAGAGAAAAATGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTTATGCCTTA
1 ATTCAAGAGGAAAACGATAATATCTAATTATTTCCAACCGAGAATAAATGACCTCTTATGCCTTA
* *
835757 AAAAAATCATTTATTACTCCAACCGAAATGAAGAAATATCACTATTTCACCTTAAAAATCAATAT
66 AAGAAATCATTTATTACTCCAAACGAAATGAAGAAATATCACTATTTCACCTTAAAAATCAATAT
835822 TG
131 TG
* *
835824 ATTCAAGAGGAAAACGATAATATCTAATTATTTCCAACCGAGAATAAATTACCTCTCATGCCTTA
1 ATTCAAGAGGAAAACGATAATATCTAATTATTTCCAACCGAGAATAAATGACCTCTTATGCCTTA
*
835889 AAGAATTCATTTATTACTCCAAACGAAA
66 AAGAAATCATTTATTACTCCAAACGAAA
835917 AAAAGAGATA
Statistics
Matches: 196, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
132 188 0.96
133 4 0.02
134 4 0.02
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (132 bp):
ATTCAAGAGGAAAACGATAATATCTAATTATTTCCAACCGAGAATAAATGACCTCTTATGCCTTA
AAGAAATCATTTATTACTCCAAACGAAATGAAGAAATATCACTATTTCACCTTAAAAATCAATAT
TG
Found at i:838071 original size:3 final size:3
Alignment explanation
Indices: 838063--838159 Score: 194
Period size: 3 Copynumber: 32.3 Consensus size: 3
838053 CTACAAAATT
838063 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
838111 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
838159 T
1 T
838160 GTCGAGAACT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:838410 original size:3 final size:3
Alignment explanation
Indices: 838402--838471 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
838392 AAAAGTACAT
838402 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
838450 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
838472 ATTCACCTTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:845600 original size:35 final size:35
Alignment explanation
Indices: 845561--845661 Score: 150
Period size: 35 Copynumber: 2.9 Consensus size: 35
845551 TGGCAACCAA
845561 CTTTGAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGATTTTCAAAGTTTGGTAAATGTTT
845596 CTTTGAAAAT-AGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGA-TTTTCAAAGTTTGGTAAATGTTT
* * *
845631 CTTTCAAAAATGTTTTTCAGAGTTTGGTAAA
1 CTTT-GAAAATGATTTTCAAAGTTTGGTAAA
845662 ATTTGGTAGA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
34 1 0.02
35 37 0.62
36 22 0.37
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (35 bp):
CTTTGAAAATGATTTTCAAAGTTTGGTAAATGTTT
Done.