Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 285 of 313
Found at i:86940943 original size:20 final size:22
Alignment explanation
Indices: 86940912--86940970 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
86940902 CCTTTATTTC
86940912 TTCTTTCTTTCTTCTTCT-TCTT
1 TTCTTTC-TTCTTCTTCTCTCTT
*
86940934 TT-TTTCTTCTCCTTTCTCTCTT
1 TTCTTTCTTCTTC-TTCTCTCTT
86940956 TTCTTTCTCTCTTCT
1 TTCTTTCT-TCTTCT
86940971 GATGGGTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 5 0.16
21 8 0.26
22 8 0.26
23 6 0.19
24 4 0.13
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
TTCTTTCTTCTTCTTCTCTCTT
Found at i:86941309 original size:28 final size:28
Alignment explanation
Indices: 86941241--86941313 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
86941231 TATAAATTTA
*
86941241 AATATTTT-TA-ATAAAAATAAAAAAAT
1 AATATTTTATATAAAAAAATAAAAAAAT
*
86941267 AATATTTTATTTAAAAAAATAAAAAAA-
1 AATATTTTATATAAAAAAATAAAAAAAT
* *
86941294 CATGTTTTAATATAAAAAAA
1 AATATTTT-ATATAAAAAAA
86941314 AGAGTCCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 8 0.21
27 7 0.18
28 24 0.62
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (28 bp):
AATATTTTATATAAAAAAATAAAAAAAT
Found at i:86942399 original size:23 final size:21
Alignment explanation
Indices: 86942364--86942407 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
86942354 TAATAAAATT
*
86942364 AAATTTTATTTATTTATTTTTA
1 AAATTTTATTTATAT-TTTTTA
*
86942386 AAATATTTGTTTATATTTTTTA
1 AAAT-TTTATTTATATTTTTTA
86942408 TAGCTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
AAATTTTATTTATATTTTTTA
Found at i:86942606 original size:18 final size:16
Alignment explanation
Indices: 86942568--86942608 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
86942558 TTTTTTTATT
86942568 AATTTTAAAATTTTGA
1 AATTTTAAAATTTTGA
*
86942584 AATTTTAAAATATCTTTA
1 AATTTTAAAAT-T-TTGA
86942602 AATTTTA
1 AATTTTA
86942609 TTTGTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
17 1 0.05
18 10 0.45
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
AATTTTAAAATTTTGA
Found at i:86944407 original size:13 final size:12
Alignment explanation
Indices: 86944389--86944418 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
86944379 TTAGTACTTA
86944389 TTTTTTTCTTCTT
1 TTTTTTTC-TCTT
86944402 TTTTTTTCTCTT
1 TTTTTTTCTCTT
86944414 TTTTT
1 TTTTT
86944419 GATTTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:86945208 original size:17 final size:17
Alignment explanation
Indices: 86945186--86945219 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
86945176 GGAGAAAAAA
86945186 AAGTTTAGAAAAACTCC
1 AAGTTTAGAAAAACTCC
86945203 AAGTTTAGAAAAACTCC
1 AAGTTTAGAAAAACTCC
86945220 CCATGTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
AAGTTTAGAAAAACTCC
Found at i:86950306 original size:84 final size:84
Alignment explanation
Indices: 86950161--86950327 Score: 280
Period size: 84 Copynumber: 2.0 Consensus size: 84
86950151 GATTGGCTCA
* *
86950161 AAATTGCTGGGAATTCGCAGTCATTGTGGAGATTAAGTCTCTTGCTTGTTGTGGAATCATGTTGA
1 AAATTGCTGGGAATTCGCAGCCATTGTGGAGATTAAGTCTCTTGCTTGTTGTGGAACCATGTTGA
*
86950226 CTAATGCTCCTCCACTCGT
66 CTAACGCTCCTCCACTCGT
* *
86950245 AAATTGCTGGGGATTCGCAGCCATTGTGGAGATTAAGTCTCTTGCTTGTTGTGGAGCCATGTTGA
1 AAATTGCTGGGAATTCGCAGCCATTGTGGAGATTAAGTCTCTTGCTTGTTGTGGAACCATGTTGA
*
86950310 CTAACGCTCCTCTACTCG
66 CTAACGCTCCTCCACTCG
86950328 CAGCATCTAC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (84 bp):
AAATTGCTGGGAATTCGCAGCCATTGTGGAGATTAAGTCTCTTGCTTGTTGTGGAACCATGTTGA
CTAACGCTCCTCCACTCGT
Found at i:86953772 original size:5 final size:5
Alignment explanation
Indices: 86953762--86953789 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
86953752 CATTTTTGTG
86953762 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
86953790 GAACACACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:86957959 original size:5 final size:5
Alignment explanation
Indices: 86957949--86957976 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
86957939 CTAATTTGTG
86957949 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
86957977 TAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:86961321 original size:14 final size:12
Alignment explanation
Indices: 86961292--86961338 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
86961282 AATATACTAA
86961292 AAATATTAAAAT
1 AAATATTAAAAT
86961304 AAATATTTATAAAT
1 AAATA-TTA-AAAT
*
86961318 AAAT-TGAAAAT
1 AAATATTAAAAT
86961329 AAAT-TTAAAA
1 AAATATTAAAA
86961339 AATTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 13 0.42
12 7 0.23
13 3 0.10
14 8 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AAATATTAAAAT
Found at i:86961417 original size:12 final size:11
Alignment explanation
Indices: 86961395--86961428 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
86961385 CAAATACCTT
86961395 TAAAATAATAA
1 TAAAATAATAA
86961406 TAAAATTAATAA
1 TAAAA-TAATAA
86961418 TAAAATAATAA
1 TAAAATAATAA
86961429 CAATATAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:86965102 original size:7 final size:7
Alignment explanation
Indices: 86965090--86965128 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
86965080 AGATTATGAT
86965090 GGGCATA
1 GGGCATA
86965097 GGGCATA
1 GGGCATA
*
86965104 GGGTATA
1 GGGCATA
86965111 GGGCATA
1 GGGCATA
86965118 GGGCATA
1 GGGCATA
86965125 GGGC
1 GGGC
86965129 TGACAGACGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.13, G:0.46, T:0.15
Consensus pattern (7 bp):
GGGCATA
Found at i:86965544 original size:11 final size:11
Alignment explanation
Indices: 86965528--86965626 Score: 50
Period size: 11 Copynumber: 9.2 Consensus size: 11
86965518 TTTTTTCCAT
86965528 AAAAATTATAA
1 AAAAATTATAA
*
86965539 AAAAATAATAA
1 AAAAATTATAA
*
86965550 AAGAA-TAT--
1 AAAAATTATAA
*
86965558 GAAAATTGAT-A
1 AAAAATT-ATAA
* *
86965569 TAAACTTA-AA
1 AAAAATTATAA
86965579 AAAAATTATAA
1 AAAAATTATAA
*
86965590 AAAACA-TAAAA
1 AAAA-ATTATAA
86965601 ATTATAAATTAT-A
1 A--A-AAATTATAA
86965614 AAAAATTATAA
1 AAAAATTATAA
86965625 AA
1 AA
86965627 TTAGTAAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 22
0.67 0.11 0.22
Matches are distributed among these distances:
8 3 0.05
9 1 0.02
10 19 0.29
11 34 0.52
12 1 0.02
13 4 0.06
14 4 0.06
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:86965593 original size:10 final size:10
Alignment explanation
Indices: 86965528--86965626 Score: 68
Period size: 10 Copynumber: 10.3 Consensus size: 10
86965518 TTTTTTCCAT
86965528 AAAAATTATAA
1 AAAAATTAT-A
*
86965539 AAAAATAATA
1 AAAAATTATA
86965549 AAAGAA-TAT-
1 AAA-AATTATA
*
86965558 GAAAATTGATA
1 AAAAATT-ATA
* * *
86965569 TAAACTTAAA
1 AAAAATTATA
86965579 AAAAATTATA
1 AAAAATTATA
*
86965589 AAAAA-CAT-
1 AAAAATTATA
86965597 AAAAATTAT-
1 AAAAATTATA
86965606 --AAATTATA
1 AAAAATTATA
86965614 AAAAATTATA
1 AAAAATTATA
86965624 AAA
1 AAA
86965627 TTAGTAAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
7 7 0.10
8 7 0.10
9 7 0.10
10 33 0.48
11 15 0.22
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAAATTATA
Found at i:86965626 original size:25 final size:26
Alignment explanation
Indices: 86965581--86965639 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
86965571 AACTTAAAAA
86965581 AAATTATAAAAAACATAAAAATTA-T
1 AAATTATAAAAAACATAAAAATTAGT
*
86965606 AAATTATAAAAAA-TTATAAAATTAGT
1 AAATTATAAAAAACATA-AAAATTAGT
*
86965632 AAAATATA
1 AAATTATA
86965640 TTTAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 20 0.67
26 8 0.27
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
AAATTATAAAAAACATAAAAATTAGT
Found at i:86965627 original size:18 final size:18
Alignment explanation
Indices: 86965529--86965635 Score: 74
Period size: 19 Copynumber: 5.7 Consensus size: 18
86965519 TTTTTCCATA
*
86965529 AAAATTATAAAAAAATAAT
1 AAAATTAT-AAAAAATTAT
** *
86965548 AAAAGAATATGAAAATTGAT
1 AAAATTATA-AAAAATT-AT
*
86965568 ATAAACTTAAAAAAAATTAT
1 A-AAA-TTATAAAAAATTAT
* *
86965588 AAAA-AACATAAAAATTAT
1 AAAATTATA-AAAAATTAT
86965606 -AAATTATAAAAAATTAT
1 AAAATTATAAAAAATTAT
86965623 AAAATTAGTAAAA
1 AAAATTA-TAAAA
86965636 TATATTTAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
17 14 0.21
18 18 0.26
19 19 0.28
20 6 0.09
21 9 0.13
22 2 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAATTATAAAAAATTAT
Found at i:86965740 original size:19 final size:19
Alignment explanation
Indices: 86965718--86965760 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
86965708 TTTAAAGTAT
* * *
86965718 TAAAACTAATATAAATTTA
1 TAAAAATAATAAAAAATTA
*
86965737 TAAAAATTATAAAAAATTA
1 TAAAAATAATAAAAAATTA
86965756 TAAAA
1 TAAAA
86965761 TCTTAAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATAATAAAAAATTA
Found at i:86965761 original size:8 final size:9
Alignment explanation
Indices: 86965526--86965760 Score: 68
Period size: 9 Copynumber: 24.7 Consensus size: 9
86965516 TATTTTTTCC
86965526 ATAAAAATT
1 ATAAAAATT
*
86965535 ATAAAAAAATA
1 AT--AAAAATT
*
86965546 ATAAAAGAAT
1 ATAAAA-ATT
*
86965556 ATGAAAATT
1 ATAAAAATT
*
86965565 GATATAAACTT
1 -ATA-AAAATT
*
86965576 AAAAAAAATT
1 -ATAAAAATT
**
86965586 ATAAAAAAC
1 ATAAAAATT
86965595 ATAAAAATT
1 ATAAAAATT
86965604 AT--AAATT
1 ATAAAAATT
86965611 ATAAAAAATT
1 AT-AAAAATT
86965621 AT-AAAATT
1 ATAAAAATT
86965629 AGTAAAATATAT
1 A-TAAAA-AT-T
* **
86965641 TTAAATTTTT
1 ATAAA-AATT
**
86965651 ATAAAAGCGT
1 ATAAAA-ATT
*
86965661 ATTAAAATTCT
1 A-TAAAAAT-T
* *
86965672 TTAAAAATC
1 ATAAAAATT
86965681 ATAAAAGATT
1 ATAAAA-ATT
*
86965691 ATAAAAAGT
1 ATAAAAATT
**
86965700 ATTTAAATT
1 ATAAAAATT
* *
86965709 TTAAAGTATT
1 ATAAA-AATT
86965719 A-AAACTAA-T
1 ATAAA--AATT
*
86965728 AT-AAATTT
1 ATAAAAATT
86965736 ATAAAAATT
1 ATAAAAATT
86965745 ATAAAAAATT
1 AT-AAAAATT
86965755 ATAAAA
1 ATAAAA
86965761 TCTTAAATTA
Statistics
Matches: 161, Mismatches: 42, Indels: 46
0.65 0.17 0.18
Matches are distributed among these distances:
7 8 0.05
8 10 0.06
9 57 0.35
10 57 0.35
11 28 0.17
12 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:86971446 original size:165 final size:165
Alignment explanation
Indices: 86971163--86971491 Score: 597
Period size: 165 Copynumber: 2.0 Consensus size: 165
86971153 GAAACTCAGT
86971163 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
1 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
*
86971228 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCGGGAAAGTGTTAAACATGGACAAGA
66 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
86971293 AATGCAAACC-GATTCTTTCAGGCATGGAGATGATA
131 AATGCAAACCAG-TTCTTTCAGGCATGGAGATGATA
* * *
86971328 TTGATGTACCAATAGTCGTCTCCACTACATCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
1 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
*
86971393 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAATTGTTAAACATGGACAAGA
66 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
86971458 AATGCAAACCAGTTCTTTCAGGCATGGAGATGAT
131 AATGCAAACCAGTTCTTTCAGGCATGGAGATGAT
86971492 GTTGGGCTTC
Statistics
Matches: 158, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
165 157 0.99
166 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (165 bp):
TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
AATGCAAACCAGTTCTTTCAGGCATGGAGATGATA
Found at i:86974088 original size:10 final size:10
Alignment explanation
Indices: 86974075--86974190 Score: 73
Period size: 10 Copynumber: 11.8 Consensus size: 10
86974065 TAAATCTAAG
86974075 TTATAAAAAA
1 TTATAAAAAA
*
86974085 TTAT--TAAA
1 TTATAAAAAA
*
86974093 TTTTAATAAAA
1 TTATAA-AAAA
* *
86974104 ATATTAAAAA
1 TTATAAAAAA
*
86974114 TTAGAAAAGAA
1 TTATAAAA-AA
86974125 TTAT-AAAAA
1 TTATAAAAAA
**
86974134 TCGTAAAAAA
1 TTATAAAAAA
86974144 -TATAAAAAA
1 TTATAAAAAA
86974153 TTAT--AAAA
1 TTATAAAAAA
*
86974161 TTGTATAAAAA
1 TTATA-AAAAA
*
86974172 TCATAAAAAAA
1 TTAT-AAAAAA
86974183 TTATAAAA
1 TTATAAAA
86974191 TGCATCAAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
8 13 0.17
9 11 0.14
10 28 0.36
11 25 0.32
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:86974130 original size:29 final size:28
Alignment explanation
Indices: 86974080--86974190 Score: 96
Period size: 29 Copynumber: 3.8 Consensus size: 28
86974070 CTAAGTTATA
* **
86974080 AAAAATTATTAAATTTTAATAAAAATATT
1 AAAAATTATAAAAAATT-ATAAAAATATT
* **
86974109 AAAAATTAGAAAAGAATTATAAAAATCGT
1 AAAAATTATAAAA-AATTATAAAAATATT
* * *
86974138 AAAAAATATAAAAAATTATAAAATTGTAT
1 AAAAATTATAAAAAATTATAAAAATAT-T
*
86974167 AAAAATCATAAAAAAATTATAAAA
1 AAAAATTAT-AAAAAATTATAAAA
86974191 TGCATCAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 11 0.17
29 39 0.59
30 16 0.24
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAAATTATAAAAAATTATAAAAATATT
Found at i:86974142 original size:38 final size:37
Alignment explanation
Indices: 86974098--86974191 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 37
86974088 TTAAATTTTA
86974098 ATAAAAATATTAAAAATTAGAAAAGAAT-TATAAAAATC
1 ATAAAAATATTAAAAATTA-AAAA-AATGTATAAAAATC
* * * *
86974136 GTAAAAAATATAAAAAATTATAAAATTGTATAAAAATC
1 AT-AAAAATATTAAAAATTAAAAAAATGTATAAAAATC
*
86974174 ATAAAAAAATTATAAAAT
1 ATAAAAATATTA-AAAAT
86974192 GCATCAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
37 10 0.22
38 20 0.43
39 16 0.35
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (37 bp):
ATAAAAATATTAAAAATTAAAAAAATGTATAAAAATC
Found at i:86974415 original size:18 final size:19
Alignment explanation
Indices: 86974371--86974415 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
86974361 TTTGGTACTA
*
86974371 TAATTATTATATTTTTTTAC
1 TAATT-TTATATTTCTTTAC
86974391 TAATTTTATATTTCTTTAC
1 TAATTTTATATTTCTTTAC
86974410 -AATTTT
1 TAATTTT
86974416 TTTATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (19 bp):
TAATTTTATATTTCTTTAC
Found at i:86974485 original size:21 final size:21
Alignment explanation
Indices: 86974461--86974506 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
86974451 ATTTTTTTAA
*
86974461 TTTTTAATAATATTTTAAT-AT
1 TTTTTAATAA-AATTTAATCAT
*
86974482 TTTTTATTAAAATTTAATCAT
1 TTTTTAATAAAATTTAATCAT
86974503 TTTT
1 TTTT
86974507 ATAACTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTAATAAAATTTAATCAT
Found at i:86974508 original size:20 final size:20
Alignment explanation
Indices: 86974460--86974508 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
86974450 AATTTTTTTA
* *
86974460 ATTTTTAATAATATTTTAAT
1 ATTTTTATTAATAATTTAAT
86974480 ATTTTTTATTAA-AATTTAAT
1 A-TTTTTATTAATAATTTAAT
86974500 CATTTTTAT
1 -ATTTTTAT
86974509 AACTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTATTAATAATTTAAT
Found at i:86974526 original size:29 final size:29
Alignment explanation
Indices: 86974415--86974526 Score: 84
Period size: 29 Copynumber: 3.8 Consensus size: 29
86974405 TTTACAATTT
* * * *
86974415 TTTTATAATTTTCTTACAA-CTTGATAAAA
1 TTTTATAATTTTATTA-AATTTTAATAATA
* *
86974444 TTTTATAATTTTTTTAATTTTTAATAATA
1 TTTTATAATTTTATTAAATTTTAATAATA
* * *
86974473 TTTTAATATTTTTTATTAAAATTTAATCAT-
1 TTTT-ATA-ATTTTATTAAATTTTAATAATA
*
86974503 TTTTATAACTTTTATTGAATTTTA
1 TTTTATAA-TTTTATTAAATTTTA
86974527 TTTTTAGCAT
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
28 1 0.02
29 42 0.64
30 7 0.11
31 16 0.24
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTATAATTTTATTAAATTTTAATAATA
Found at i:86980093 original size:343 final size:342
Alignment explanation
Indices: 86979457--86980142 Score: 935
Period size: 343 Copynumber: 2.0 Consensus size: 342
86979447 GGTTTGTAGA
* *
86979457 TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACGCCATGGTCTCGAGAGAATTATTCTTCTTA
1 TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
* * * *
86979522 GTCAACTTCTTGATTTGATCATCTATAGAGACATTAAAGGTCTCTCTATTGCACCTTGATTGGAA
66 GTCAAATTCTAGATCTGATCATCCATAGAGACATTAAAGGTCTCTCTATTGCACCTTGATTGGAA
* * * * *
86979587 TTAAGAGCCTTCACAACATTGTCCCTAAGCTACTCTCTTATTGAGTCCAACTCATCGATGCGTCC
131 CTAAGAGCCTTCACAACATAGTCCCTAAGCTACTCTCTCATCGAGTCCAACTCATCGATGCATCC
* * * * ***
86979652 TTCAATTATCTCGAGTGTTTCCTTCACACCACCCATGGATTCCTCGAGATTGGTCACTTGGCCTT
196 CTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGCCTT
* **
86979717 CCAAAGCCAACAACATATCCTTCGATATGCTATTTTCCTGGTCTTCTTATGGGTCTCTATCGAGA
261 CCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCGAGA
*
86979782 CATTTTGTACGTTTACT
326 CATTTTGTACGTCTACT
* *
86979799 TATTGAGCTACTAAATTTGTTCCTTCAAGGCTGACACCATGGTCTTGAGAGAATCATTCTTCTTA
1 TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
* * * *
86979864 GTCAAATTCTCAG-TCTGATCATCCATGGCA-ACATTGAGGGTCTCTCTCATTGCATCTTGATTG
66 GTCAAATTCT-AGATCTGATCATCCATAG-AGACATTAAAGGTCTCTCT-ATTGCACCTTGATTG
* * * * *
86979927 GAACTGATAGCCTTCACCACATAGTCCCTAAGCTGCTCTCTCATCGAGTCCAACTCATCGGTGCA
128 GAACTAAGAGCCTTCACAACATAGTCCCTAAGCTACTCTCTCATCGAGTCCAACTCATCGATGCA
* *
86979992 TCCCTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTTCTCAAGATTGGTCACCCATC
193 TCCCTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGC
** * * * * **
86980057 CTTCCAAATTCGACAGCATATCTTTCAATTTGCTATTTTGTTGGTCTTCCCATGGGTCTCTATCG
258 CTTCCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCG
*
86980122 AGACATTTTGTTCGTCTACT
323 AGACATTTTGTACGTCTACT
86980142 T
1 T
86980143 CTTTTATCAT
Statistics
Matches: 297, Mismatches: 44, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
342 97 0.33
343 200 0.67
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (342 bp):
TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
GTCAAATTCTAGATCTGATCATCCATAGAGACATTAAAGGTCTCTCTATTGCACCTTGATTGGAA
CTAAGAGCCTTCACAACATAGTCCCTAAGCTACTCTCTCATCGAGTCCAACTCATCGATGCATCC
CTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGCCTT
CCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCGAGA
CATTTTGTACGTCTACT
Found at i:86985289 original size:3 final size:3
Alignment explanation
Indices: 86985276--86985315 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
86985266 TTATATATAT
86985276 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
86985316 GACTTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:86987402 original size:72 final size:72
Alignment explanation
Indices: 86987300--86987456 Score: 269
Period size: 72 Copynumber: 2.2 Consensus size: 72
86987290 TTCACAAATT
* *
86987300 TTATATGTACATATATTTTTTTAAAATTTATTCCGAAATAAATTTTATATATTCATGATTTTACA
1 TTATATGTAC--ATATTTTTTTAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACA
86987365 TGTGTATTA
64 TGTGTATTA
86987374 TTATATGTACATATTTTTTTAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACATG
1 TTATATGTACATATTTTTTTAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACATG
86987439 TGTATTA
66 TGTATTA
*
86987446 TTATATTTACA
1 TTATATGTACA
86987457 AAATATAAGT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
72 70 0.88
74 10 0.12
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.51
Consensus pattern (72 bp):
TTATATGTACATATTTTTTTAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACATG
TGTATTA
Found at i:86987843 original size:16 final size:15
Alignment explanation
Indices: 86987823--86987863 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
86987813 AAGAAAGATG
*
86987823 GAAAATTGAAAGGTA
1 GAAAAATGAAAGGTA
86987838 GAAAAATGAAAGGTA
1 GAAAAATGAAAGGTA
86987853 GAAAAATGAAA
1 GAAAAATGAAA
86987864 AGAATGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (15 bp):
GAAAAATGAAAGGTA
Found at i:86987872 original size:16 final size:15
Alignment explanation
Indices: 86987823--86987875 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
86987813 AAGAAAGATG
* * *
86987823 GAAAATTGAAAGGTA
1 GAAAAATGAAAAGAA
* *
86987838 GAAAAATGAAAGGTA
1 GAAAAATGAAAAGAA
86987853 GAAAAATGAAAAGAA
1 GAAAAATGAAAAGAA
86987868 TGAAAAAT
1 -GAAAAAT
86987876 ATAATTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 27 0.79
16 7 0.21
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (15 bp):
GAAAAATGAAAAGAA
Found at i:86991434 original size:2 final size:2
Alignment explanation
Indices: 86991427--86991453 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
86991417 GCGTCCCAAT
86991427 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
86991454 CATCGATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:86991881 original size:26 final size:24
Alignment explanation
Indices: 86991850--86991898 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
86991840 AAATAAAAAT
*
86991850 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
86991876 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
86991899 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:86996227 original size:8 final size:8
Alignment explanation
Indices: 86996214--86996250 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
86996204 TGAATATTAG
86996214 TGTGCCAT
1 TGTGCCAT
86996222 TGTGCCAT
1 TGTGCCAT
86996230 TGTGCCAT
1 TGTGCCAT
86996238 TGTGCCAT
1 TGTGCCAT
86996246 TGTGC
1 TGTGC
86996251 TTTGACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.11, C:0.24, G:0.27, T:0.38
Consensus pattern (8 bp):
TGTGCCAT
Found at i:86997498 original size:45 final size:45
Alignment explanation
Indices: 86997448--86997557 Score: 170
Period size: 44 Copynumber: 2.5 Consensus size: 45
86997438 ATTGAAAAGA
* *
86997448 TGTAAAATT-CATGGAAAAATTCTAAATTTTATGAAATACATGGGC
1 TGTAAATTTACATGCAAAAA-TCTAAATTTTATGAAATACATGGGC
*
86997493 TGTAAATTTACATGCAAAAA-CTGAATTTTATGAAATACATGGGC
1 TGTAAATTTACATGCAAAAATCTAAATTTTATGAAATACATGGGC
86997537 TGTAAATTTACATGCAAAAAT
1 TGTAAATTTACATGCAAAAAT
86997558 AGGCTAGGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
44 43 0.72
45 8 0.13
46 9 0.15
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (45 bp):
TGTAAATTTACATGCAAAAATCTAAATTTTATGAAATACATGGGC
Found at i:87003521 original size:11 final size:11
Alignment explanation
Indices: 87003507--87003535 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
87003497 ACTCCCTATT
87003507 CAAAGCCTAAC
1 CAAAGCCTAAC
87003518 CAAAGCCTAAC
1 CAAAGCCTAAC
87003529 CAAAGCC
1 CAAAGCC
87003536 CCATTACAAA
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:0.45, C:0.38, G:0.10, T:0.07
Consensus pattern (11 bp):
CAAAGCCTAAC
Found at i:87003591 original size:20 final size:20
Alignment explanation
Indices: 87003562--87003606 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
87003552 AGCACATGTA
* *
87003562 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
87003582 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
87003602 TTCAT
1 TTCAT
87003607 TTTAGTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:87005473 original size:18 final size:19
Alignment explanation
Indices: 87005447--87005491 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
87005437 TACTTATACT
*
87005447 TTAAGTATAATATATT-TA
1 TTAATTATAATATATTATA
*
87005465 TTAATTATAATGTATTATA
1 TTAATTATAATATATTATA
87005484 TTAATTAT
1 TTAATTAT
87005492 TAATTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TTAATTATAATATATTATA
Found at i:87005517 original size:9 final size:9
Alignment explanation
Indices: 87005503--87005528 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
87005493 AATTAATTAA
87005503 AAATAAAAG
1 AAATAAAAG
87005512 AAATAAAAG
1 AAATAAAAG
87005521 AAATAAAA
1 AAATAAAA
87005529 ATAAAGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAATAAAAG
Found at i:87005534 original size:23 final size:24
Alignment explanation
Indices: 87005500--87005546 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
87005490 ATTAATTAAT
*
87005500 TAAAAATAAAAGAAATAAAAGAAA
1 TAAAAATAAAAGAAACAAAAGAAA
87005524 TAAAAAT-AAAGAAACAAAAGAAA
1 TAAAAATAAAAGAAACAAAAGAAA
87005547 AAGAACAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.11
Consensus pattern (24 bp):
TAAAAATAAAAGAAACAAAAGAAA
Found at i:87007125 original size:49 final size:49
Alignment explanation
Indices: 87007020--87007148 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
87007010 CTTCGGGACT
* * * *
87007020 TATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
87007067 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
87007116 TATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATATACACT-TTCACATCCATCACAT
87007149 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 1 0.01
49 35 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:87013573 original size:37 final size:37
Alignment explanation
Indices: 87013518--87013620 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
87013508 GGAAATATAT
87013518 TCCGGGTAAGA-CTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCT-GATGACTACGTGTGGAGATTATG
* *
87013555 TCCGGGTAAGACCTGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
* * *
87013592 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCTGATGACTACGTGTGG
87013621 GGACTATTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 57 0.97
38 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
Found at i:87018371 original size:18 final size:18
Alignment explanation
Indices: 87018329--87018362 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87018319 TAAAGAAGAG
87018329 AAAAAT-AAAATAGAAAC
1 AAAAATAAAAATAGAAAC
87018346 AAAAATAAAAATAGAAA
1 AAAAATAAAAATAGAAA
87018363 TAGAGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAAATAAAAATAGAAAC
Found at i:87024352 original size:43 final size:42
Alignment explanation
Indices: 87024302--87024425 Score: 151
Period size: 41 Copynumber: 2.9 Consensus size: 42
87024292 TCCCAGATGT
* *
87024302 GGTCTTACATGCAATCACATATAGATGCCACTGTCCCAGACAA
1 GGTCTTACACG-AATCACATATAGATGCCAATGTCCCAGACAA
* * * *
87024345 GGTCTTACACGAATCAAATACA-ATGCCAAAGTCCCAGACAT
1 GGTCTTACACGAATCACATATAGATGCCAATGTCCCAGACAA
* *
87024386 GGTCTTACACATAATCACATATCGATGCCAATGTCCCAGA
1 GGTCTTACAC-GAATCACATATAGATGCCAATGTCCCAGA
87024426 TGTGGTCTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 26 0.38
42 17 0.25
43 25 0.37
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAATCACATATAGATGCCAATGTCCCAGACAA
Found at i:87024383 original size:41 final size:41
Alignment explanation
Indices: 87024278--87024436 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 41
87024268 TCACATATAT
* ** *
87024278 CATACAAT-CCAACGTCCCAGATGTGGTCTTACATGCAATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACACG-AATCA
* * *
87024319 CATATAGATGCCACTGTCCCAGACAAGGTCTTACACGAATCA
1 CATACA-ATGCCAATGTCCCAGACATGGTCTTACACGAATCA
* * *
87024361 AATACAATGCCAAAGTCCCAGACATGGTCTTACACATAATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACAC-GAATCA
* **
87024403 CATATCGATGCCAATGTCCCAGATGTGGTCTTAC
1 CATA-CAATGCCAATGTCCCAGACATGGTCTTAC
87024437 TCGAGAACAC
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 31 0.32
42 19 0.20
43 46 0.48
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
CATACAATGCCAATGTCCCAGACATGGTCTTACACGAATCA
Found at i:87032451 original size:43 final size:42
Alignment explanation
Indices: 87032396--87032566 Score: 213
Period size: 43 Copynumber: 4.0 Consensus size: 42
87032386 ATATCGTACA
*
87032396 ATGCCAACGTCCCAGACATGGTCTTACATGCAATTACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AATCACATATCG
* * *
87032439 ATGCC-ACTGTCCCAGATAGGGTCTTACATGAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAATCACATATCG
* *
87032480 ATGCCAAAGTCCCAGACATGGTCTTACATGTAATGACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AATCACATATCG
*
87032523 ATGCCAACGTCCCAGACATGGTCTTAC-TCGAGAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAT-GA-ATCACATATCG
87032566 A
1 A
87032567 AAATCCTATG
Statistics
Matches: 110, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
41 27 0.25
42 19 0.17
43 64 0.58
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAATCACATATCG
Found at i:87032537 original size:84 final size:84
Alignment explanation
Indices: 87032396--87032549 Score: 247
Period size: 84 Copynumber: 1.8 Consensus size: 84
87032386 ATATCGTACA
* * *
87032396 ATGCCAACGTCCCAGACATGGTCTTACATGCAATTACATATCGATGCCACTGTCCCAGATAGGGT
1 ATGCCAAAGTCCCAGACATGGTCTTACATGCAATGACATATCGATGCCACTGTCCCAGACAGGGT
87032461 CTTACATGAATCAAATACG
66 CTTACATGAATCAAATACG
* *
87032480 ATGCCAAAGTCCCAGACATGGTCTTACATGTAATGACATATCGATGCCAAC-GTCCCAGACATGG
1 ATGCCAAAGTCCCAGACATGGTCTTACATGCAATGACATATCGATGCC-ACTGTCCCAGACAGGG
87032544 TCTTAC
65 TCTTAC
87032550 TCGAGAACAC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
84 62 0.97
85 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (84 bp):
ATGCCAAAGTCCCAGACATGGTCTTACATGCAATGACATATCGATGCCACTGTCCCAGACAGGGT
CTTACATGAATCAAATACG
Found at i:87037993 original size:16 final size:16
Alignment explanation
Indices: 87037949--87037984 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
87037939 GCAGATCGGC
*
87037949 AAATCCCAAAAAGCTG
1 AAATACCAAAAAGCTG
*
87037965 AAATACCGAAAAGCTG
1 AAATACCAAAAAGCTG
87037981 AAAT
1 AAAT
87037985 GCTAAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.19, G:0.14, T:0.14
Consensus pattern (16 bp):
AAATACCAAAAAGCTG
Found at i:87038260 original size:29 final size:28
Alignment explanation
Indices: 87038219--87038297 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 28
87038209 GACTGTAAAA
87038219 GTGATTGGGCCTAGTGGGCCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
*
87038247 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
*
87038276 GAGATTGGG-CTAGTGGGCCATA
1 GTGATTGGGCCTAGTGGGCCATA
87038298 AGCATGTATG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 12 0.26
28 9 0.20
29 24 0.52
30 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:87040466 original size:46 final size:46
Alignment explanation
Indices: 87040416--87040598 Score: 266
Period size: 46 Copynumber: 4.0 Consensus size: 46
87040406 TGGTTGAGCA
87040416 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
87040462 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87040508 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
87040553 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
87040599 CGCCTGAGCT
Statistics
Matches: 122, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.02
46 75 0.61
47 29 0.24
48 2 0.02
50 4 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87041317 original size:215 final size:214
Alignment explanation
Indices: 87040946--87041374 Score: 716
Period size: 215 Copynumber: 2.0 Consensus size: 214
87040936 CCAAAAATTC
* *
87040946 TAGAAAAAAATTAGTAAATATATATATGAGTCTAGATTTAGGGAAAATTTACGGATCTTGATTTT
1 TAGAAAAAAATTAGTAAATAGATATATGAGTCTAGATTTAGGGAAAATTTACGGATCTTGATTTC
** * * *
87041011 GAGTTTTGTAACTCCAGATGTGAGTTTTCTTGTAACTGTGATGCGAGTAGCTAGAAGGCTGTGAA
66 GAGTTTCATAACTCCAGATATGAGTTTTCTTGTAACTATGATGCGAGTAGCTAGAAAGCTGTGAA
87041076 TGTAGAAACAAATGATTCGAAGTTCTTAAATTGATAAATTATGTTCGGTAACCCCTCAAGCTCGA
131 TGTAGAAACAAATGATTCGAAGTTCTTAAATTGATAAATTATGTTCGGTAACCCCTCAAGCTCGA
87041141 CTCCGGTGATGGTCTCGGG
196 CTCCGGTGATGGTCTCGGG
* *
87041160 NTAGAAAAAAATTAGTAAATAGATATATGAGTCTATATTTAGGGAAAATTTAGGGATCTTGATTT
1 -TAGAAAAAAATTAGTAAATAGATATATGAGTCTAGATTTAGGGAAAATTTACGGATCTTGATTT
* *
87041225 CGAGTTTCATAACTCGAGATATGATTTTTCTTGTAACTATGACT-CGAGTAGCTAGAAAGCTGTG
65 CGAGTTTCATAACTCCAGATATGAGTTTTCTTGTAACTATGA-TGCGAGTAGCTAGAAAGCTGTG
*
87041289 AATGTAGAAACAAATGATTTGAAGTTCTTAAATTGATAAATTATGTTCGGTAACCCCTCAAGCTC
129 AATGTAGAAACAAATGATTCGAAGTTCTTAAATTGATAAATTATGTTCGGTAACCCCTCAAGCTC
*
87041354 GATTCCGGTGATGGTCTCGGG
194 GACTCCGGTGATGGTCTCGGG
87041375 CGTGGGGATG
Statistics
Matches: 200, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
215 199 1.00
216 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (214 bp):
TAGAAAAAAATTAGTAAATAGATATATGAGTCTAGATTTAGGGAAAATTTACGGATCTTGATTTC
GAGTTTCATAACTCCAGATATGAGTTTTCTTGTAACTATGATGCGAGTAGCTAGAAAGCTGTGAA
TGTAGAAACAAATGATTCGAAGTTCTTAAATTGATAAATTATGTTCGGTAACCCCTCAAGCTCGA
CTCCGGTGATGGTCTCGGG
Found at i:87048300 original size:26 final size:26
Alignment explanation
Indices: 87048262--87048319 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
87048252 CCGCAACTCT
* *
87048262 TTGTGAGCGTCCTGTTATATGATCTG
1 TTGTGAGCATCCTGTTATATGATCGG
87048288 TTGTGAGCATCCTGTTATATGATCGG
1 TTGTGAGCATCCTGTTATATGATCGG
87048314 TTGTGA
1 TTGTGA
87048320 TCCTGCATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (26 bp):
TTGTGAGCATCCTGTTATATGATCGG
Found at i:87050080 original size:21 final size:22
Alignment explanation
Indices: 87050035--87050089 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
87050025 TGTAGGGTTC
*
87050035 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
87050057 ACACGCCCGTGT-GACCCTGGG
1 ACACGCCCGTGTGGACCAAGGG
*
87050078 ACATGCCCGTGT
1 ACACGCCCGTGT
87050090 TGGAGGCCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:87052028 original size:13 final size:13
Alignment explanation
Indices: 87052010--87052036 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87052000 AAAAGTTGTT
87052010 TATCTATCAATAA
1 TATCTATCAATAA
87052023 TATCTATCAATAA
1 TATCTATCAATAA
87052036 T
1 T
87052037 CTTTCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (13 bp):
TATCTATCAATAA
Found at i:87052096 original size:36 final size:36
Alignment explanation
Indices: 87052049--87052123 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
87052039 TTCATTTTCT
87052049 ACCATAAATTTATAATTTCCAGCATATACATCCATG
1 ACCATAAATTTATAATTTCCAGCATATACATCCATG
87052085 ACCATAAATTTATAATTTCCAGCATATACATCCATG
1 ACCATAAATTTATAATTTCCAGCATATACATCCATG
87052121 ACC
1 ACC
87052124 CATTTTTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (36 bp):
ACCATAAATTTATAATTTCCAGCATATACATCCATG
Found at i:87053685 original size:10 final size:11
Alignment explanation
Indices: 87053670--87053698 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
87053660 CAAGATCTAG
87053670 TTTATTTTA-T
1 TTTATTTTATT
87053680 TTTATTTTATT
1 TTTATTTTATT
87053691 TTTATTTT
1 TTTATTTT
87053699 GGAATTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:87057949 original size:39 final size:39
Alignment explanation
Indices: 87057895--87057974 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
87057885 ATCATTCCTA
87057895 TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
1 TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
* *
87057934 TCATAATGCAGACCATGCAATAATATTCAAATAAAATTT
1 TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
87057973 TC
1 TC
87057975 TTTTTGGCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.31
Consensus pattern (39 bp):
TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
Found at i:87063465 original size:12 final size:12
Alignment explanation
Indices: 87063448--87063477 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
87063438 CAGTATTAGC
*
87063448 TTTTTATATTAT
1 TTTTTATATAAT
87063460 TTTTTATATAAT
1 TTTTTATATAAT
87063472 TTTTTA
1 TTTTTA
87063478 AAAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:87064266 original size:28 final size:28
Alignment explanation
Indices: 87064234--87064300 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
87064224 GTACAGTCTA
*
87064234 GGCCTTAGCCCTATACAGAAACAGTGTG
1 GGCCTAAGCCCTATACAGAAACAGTGTG
*
87064262 GGCCTAAGCCCTATACAGTAACAGTGTG
1 GGCCTAAGCCCTATACAGAAACAGTGTG
87064290 GGCCTAAGCCC
1 GGCCTAAGCCC
87064301 AATTCGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.19
Consensus pattern (28 bp):
GGCCTAAGCCCTATACAGAAACAGTGTG
Found at i:87071764 original size:28 final size:28
Alignment explanation
Indices: 87071732--87071831 Score: 94
Period size: 28 Copynumber: 3.4 Consensus size: 28
87071722 AAACAGCATG
*
87071732 CAGTAACAGTATGCGCCTTAGCCCTATA
1 CAGTAACAGTATGGGCCTTAGCCCTATA
87071760 CAGTATTAGTACAG-ACTGGGCCTTAGCCCTATA
1 CAG---TA--ACAGTA-TGGGCCTTAGCCCTATA
* * *
87071793 CAGTAACAGTATGGGCCTAAGCCCAATT
1 CAGTAACAGTATGGGCCTTAGCCCTATA
*
87071821 CAGTATCAGTA
1 CAGTAACAGTA
87071832 CAGTGCAGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
28 31 0.52
29 1 0.02
30 2 0.03
31 2 0.03
32 1 0.02
33 23 0.38
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTATGGGCCTTAGCCCTATA
Found at i:87075668 original size:6 final size:6
Alignment explanation
Indices: 87075657--87076576 Score: 1840
Period size: 6 Copynumber: 153.3 Consensus size: 6
87075647 TTACCGAAAC
87075657 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87075705 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87075753 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87075801 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87075849 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87075897 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87075945 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87075993 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076041 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076089 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076137 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076185 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076233 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076281 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076329 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076377 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076425 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076473 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076521 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
87076569 ATACAT AT
1 ATACAT AT
87076577 GGGCATTAAC
Statistics
Matches: 914, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 914 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:87077124 original size:20 final size:22
Alignment explanation
Indices: 87077084--87077126 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
87077074 AAGACTATAG
*
87077084 TGCTCACACAAGCTGACATATT
1 TGCTCACACAAGATGACATATT
87077106 TGCTCACACAAGAT-A-ATATT
1 TGCTCACACAAGATGACATATT
87077126 T
1 T
87077127 ATGAATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (22 bp):
TGCTCACACAAGATGACATATT
Found at i:87078574 original size:20 final size:20
Alignment explanation
Indices: 87078546--87078594 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
87078536 TATCGATCTA
* * *
87078546 GTATTGATACCTTTCTTAAG
1 GTATCGATACATTTCCTAAG
*
87078566 GTATCGATATATTTCCTAAG
1 GTATCGATACATTTCCTAAG
*
87078586 ATATCGATA
1 GTATCGATA
87078595 TTCTTGCTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATACATTTCCTAAG
Found at i:87078595 original size:20 final size:20
Alignment explanation
Indices: 87078557--87078595 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
87078547 TATTGATACC
* *
87078557 TTTCTTAAGGTATCGATATA
1 TTTCCTAAGATATCGATATA
87078577 TTTCCTAAGATATCGATAT
1 TTTCCTAAGATATCGATAT
87078596 TCTTGCTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTCCTAAGATATCGATATA
Found at i:87080013 original size:27 final size:26
Alignment explanation
Indices: 87079966--87080017 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
87079956 GCGAGGCTGC
87079966 CAGATATTGTGACGAAATCACCAGAA
1 CAGATATTGTGACGAAATCACCAGAA
* **
87079992 CAGATATATGTGGCGAGGTCACCAGA
1 CAGATAT-TGTGACGAAATCACCAGA
87080018 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAATCACCAGAA
Found at i:87085014 original size:29 final size:29
Alignment explanation
Indices: 87084972--87085030 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
87084962 CGAGCCTCAG
87084972 CAAATCCAGCACCCCTGCCAGACGCTCTT
1 CAAATCCAGCACCCCTGCCAGACGCTCTT
*
87085001 CAAATCCAGCACCCCTGCCAGCCGCTCTT
1 CAAATCCAGCACCCCTGCCAGACGCTCTT
87085030 C
1 C
87085031 TTCCTCGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.47, G:0.14, T:0.17
Consensus pattern (29 bp):
CAAATCCAGCACCCCTGCCAGACGCTCTT
Found at i:87091565 original size:40 final size:40
Alignment explanation
Indices: 87091415--87091578 Score: 224
Period size: 40 Copynumber: 4.1 Consensus size: 40
87091405 TGGATGATAA
* * *
87091415 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
87091455 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
87091495 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
87091535 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
87091575 CCGG
1 CCGG
87091579 TTAAATCCTG
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
39 3 0.03
40 111 0.97
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:87095993 original size:17 final size:17
Alignment explanation
Indices: 87095973--87096009 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
87095963 ATGAAAAATA
*
87095973 AAAATAAAAAGAAAAAC
1 AAAAGAAAAAGAAAAAC
*
87095990 AAAAGGAAAAGAAAAAC
1 AAAAGAAAAAGAAAAAC
87096007 AAA
1 AAA
87096010 GTGAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.05, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAC
Found at i:87099799 original size:40 final size:40
Alignment explanation
Indices: 87099701--87100723 Score: 1820
Period size: 40 Copynumber: 25.6 Consensus size: 40
87099691 TCCTCGTTCA
* * * ** *
87099701 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
87099740 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87099780 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87099820 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87099860 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87099900 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87099940 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87099980 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100020 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100060 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100100 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100140 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100180 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100220 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100260 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100300 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100340 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100380 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100420 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100460 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100500 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100540 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
87100580 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
87100620 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
87100660 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
87100700 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
87100724 CAGCATTCAA
Statistics
Matches: 958, Mismatches: 21, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
39 37 0.04
40 913 0.95
41 8 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:87109530 original size:17 final size:18
Alignment explanation
Indices: 87109505--87109538 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
87109495 TATAATCTTG
87109505 CTTAAGTTTT-TGCTTAA
1 CTTAAGTTTTGTGCTTAA
*
87109522 CTTATGTTTTGTGCTTA
1 CTTAAGTTTTGTGCTTA
87109539 GTGCGTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.56
Consensus pattern (18 bp):
CTTAAGTTTTGTGCTTAA
Found at i:87113861 original size:39 final size:38
Alignment explanation
Indices: 87113753--87113866 Score: 149
Period size: 38 Copynumber: 2.9 Consensus size: 38
87113743 TAATTTAGTT
*
87113753 TAAGTCTTTAATTATATCATAATTTGAACATCATTAATA
1 TAAGT-TTTAATTATGTCATAATTTGAACATCATTAATA
*
87113792 TAAGTTTTAATTATGTCATAATCTGAACATCATTAATA
1 TAAGTTTTAATTATGTCATAATTTGAACATCATTAATA
* * *
87113830 -AGAGTTTTCAATTATGTCATAGTTTGGACATCTTTAA
1 TA-AGTTTT-AATTATGTCATAATTTGAACATCATTAA
87113867 AACATGTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.01
38 37 0.55
39 29 0.43
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (38 bp):
TAAGTTTTAATTATGTCATAATTTGAACATCATTAATA
Found at i:87113876 original size:39 final size:37
Alignment explanation
Indices: 87113759--87113885 Score: 130
Period size: 38 Copynumber: 3.3 Consensus size: 37
87113749 AGTTTAAGTC
*
87113759 TTTAATTATATCATAATTTGAACATCATTAATATA-AGT
1 TTTAATTATGTCATAATTTGAACATCATTAA-A-ACAGT
* *
87113797 TTTAATTATGTCATAATCTGAACATCATTAATAAGAGT
1 TTTAATTATGTCATAATTTGAACATCATTAA-AACAGT
* * *
87113835 TTTCAATTATGTCATAGTTTGGACATCTTTAAAACATGTT
1 TTT-AATTATGTCATAATTTGAACATCATTAAAACA-G-T
*
87113875 TTTAAGTATGT
1 TTTAATTATGT
87113886 TTAAATTTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
37 1 0.01
38 40 0.52
39 32 0.42
40 4 0.05
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (37 bp):
TTTAATTATGTCATAATTTGAACATCATTAAAACAGT
Found at i:87114978 original size:13 final size:13
Alignment explanation
Indices: 87114960--87114985 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87114950 ATATTATAAT
87114960 TATTTTATGTTAA
1 TATTTTATGTTAA
87114973 TATTTTATGTTAA
1 TATTTTATGTTAA
87114986 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:87117354 original size:44 final size:44
Alignment explanation
Indices: 87117287--87117373 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
87117277 TAATCGAATA
*
87117287 TTGATGAGTCTATTTTCAAATGAAAGAAACGAAAGGACCATATC
1 TTGATGAGTCTATTTTCAAATGAAAGAAACGAAACGACCATATC
*
87117331 TTGATGAGTCTATTTTCATATGAAAGAAACGAAACGACCATAT
1 TTGATGAGTCTATTTTCAAATGAAAGAAACGAAACGACCATAT
87117374 GAGCCGTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (44 bp):
TTGATGAGTCTATTTTCAAATGAAAGAAACGAAACGACCATATC
Found at i:87124369 original size:40 final size:40
Alignment explanation
Indices: 87124314--87124559 Score: 415
Period size: 40 Copynumber: 6.2 Consensus size: 40
87124304 GGAATAAGAT
87124314 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
87124354 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGATAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
87124394 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
87124434 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGATAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
87124474 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
87124514 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
87124553 CCGAAGG
1 CCGAAGG
87124560 TACTTGGGTT
Statistics
Matches: 195, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 15 0.08
40 178 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:87130870 original size:24 final size:24
Alignment explanation
Indices: 87130838--87130924 Score: 88
Period size: 24 Copynumber: 3.6 Consensus size: 24
87130828 TAACAATAAA
87130838 CAGT-ACAGTAACAGA-AATCAGTG
1 CAGTAACAGTAACA-ATAATCAGTG
*
87130861 TAGTAACAGTAACAATAATCAGTG
1 CAGTAACAGTAACAATAATCAGTG
* ** *
87130885 CAGTAATAGTAACGGTAATCAATG
1 CAGTAACAGTAACAATAATCAGTG
*
87130909 CAGTAATAGTATACAA
1 CAGTAACAGTA-ACAA
87130925 GTCCTACCTA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 4 0.08
24 47 0.89
25 2 0.04
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (24 bp):
CAGTAACAGTAACAATAATCAGTG
Found at i:87130888 original size:18 final size:18
Alignment explanation
Indices: 87130823--87130869 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
87130813 CTTGGCCTAT
87130823 TGCAGTAACA-ATAAACAG
1 TGCAGTAACAGA-AAACAG
* *
87130841 TACAGTAACAGAAATCAG
1 TGCAGTAACAGAAAACAG
*
87130859 TGTAGTAACAG
1 TGCAGTAACAG
87130870 TAACAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (18 bp):
TGCAGTAACAGAAAACAG
Found at i:87131309 original size:27 final size:27
Alignment explanation
Indices: 87131235--87131448 Score: 216
Period size: 27 Copynumber: 8.0 Consensus size: 27
87131225 ATATATACAT
*
87131235 CACAT-AGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
** * *
87131261 CATGT-AGGGGAAACATAGTCATTTTAC
1 CACATAAGGGCAAA-ACAGTCATTTTAC
* * * * *
87131288 TACATAAAGGTAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
87131315 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* **
87131342 AACATAAAAGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
87131369 CATATAAGGGCAAGACAGTCATATTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
87131396 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
87131423 CACATAAGGGAAAAATAGTAATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
87131449 TCAATTAGCG
Statistics
Matches: 151, Mismatches: 35, Indels: 3
0.80 0.19 0.02
Matches are distributed among these distances:
26 10 0.07
27 135 0.89
28 6 0.04
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:87135044 original size:27 final size:27
Alignment explanation
Indices: 87134993--87135232 Score: 297
Period size: 27 Copynumber: 9.0 Consensus size: 27
87134983 ATAAATACAT
* *
87134993 CACAT-AGGGCAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
** **
87135019 CATGTAAGGGCAAAACAGTCAACTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* ** *
87135046 CACATAAGGGAAAAACAAACATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
*
87135073 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
87135100 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
87135127 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
87135154 CACATAA-GG-AAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
87135179 CACCATAAGGGCAAAACAATCATTTTAC
1 CA-CATAAGGGCAAAACAGTCATTTTAC
*
87135207 CACATAAGGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
87135233 TCAATTAGGG
Statistics
Matches: 187, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
25 16 0.09
26 10 0.05
27 143 0.76
28 18 0.10
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:87155604 original size:40 final size:40
Alignment explanation
Indices: 87155549--87155629 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
87155539 TAGTGTCGCA
87155549 CACATAGTGTCCATAGTGATTCACGAATGTATATTGAGCC
1 CACATAGTGTCCATAGTGATTCACGAATGTATATTGAGCC
87155589 CACATAGTGTCCATAGTGATTCACGAATGTATATTGAGCC
1 CACATAGTGTCCATAGTGATTCACGAATGTATATTGAGCC
87155629 C
1 C
87155630 GCACACTCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (40 bp):
CACATAGTGTCCATAGTGATTCACGAATGTATATTGAGCC
Found at i:87155659 original size:27 final size:27
Alignment explanation
Indices: 87155629--87155806 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
87155619 ATATTGAGCC
* *
87155629 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
87155656 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
87155683 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
87155711 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
87155738 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
87155765 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
87155792 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87155807 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:87155768 original size:82 final size:81
Alignment explanation
Indices: 87155650--87155805 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
87155640 TGCTATATAA
* * *
87155650 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
87155715 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
87155732 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
87155796 CACTTAGTGC
65 CACTTAGTGC
87155806 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87159764 original size:26 final size:27
Alignment explanation
Indices: 87159728--87159780 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
87159718 TGTCAGCTAG
* *
87159728 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
87159754 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
87159781 CAGAATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:87163976 original size:47 final size:47
Alignment explanation
Indices: 87163923--87164899 Score: 1810
Period size: 47 Copynumber: 20.7 Consensus size: 47
87163913 TTAGGATTCT
87163923 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
*
87163970 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164017 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164064 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
*
87164111 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCG
* * * * *
87164160 ATATGATGAATGTGAAAGTGTATATAAGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164207 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164254 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164301 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164348 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164395 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164442 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164489 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164536 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164583 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164630 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164677 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164724 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
87164771 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* * * *
87164818 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* * *
87164865 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
87164900 TCCCGAAGGG
Statistics
Matches: 909, Mismatches: 19, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
47 864 0.95
49 45 0.05
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
Found at i:87165068 original size:37 final size:37
Alignment explanation
Indices: 87165018--87165118 Score: 193
Period size: 37 Copynumber: 2.7 Consensus size: 37
87165008 CCGAGCTCTA
87165018 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
87165055 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
87165092 AAGACCCGATGACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
87165119 TCGTCTGAGC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:87166147 original size:45 final size:45
Alignment explanation
Indices: 87166083--87166337 Score: 388
Period size: 45 Copynumber: 5.7 Consensus size: 45
87166073 ATCGGACTTC
87166083 GAGCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT
1 GAGCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT
* * *
87166128 GAGCCTAGCAGGCTATGATGCCAGTGAGATATTATTCGGGCCTTT
1 GAGCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT
87166173 GAGCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT
1 GAGCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT
* *
87166218 AAGCCTAGCAGGCTATGATGCCGGT-AAGATATTATTCGGGCCTTT
1 GAGCCTAGCAGGCTATGATGCCGGTGAA-ATACTATTCGGGCCTTT
* * *
87166263 GAGCCTAGCAGGCTATAATGCCGATGAGATACTATTCGGG-CTTT
1 GAGCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT
* *
87166307 CGAGCCTAGCAGGCTATAATGCCGATGAAAT
1 -GAGCCTAGCAGGCTATGATGCCGGTGAAAT
87166338 GATATCGGGC
Statistics
Matches: 193, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
44 6 0.03
45 186 0.96
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (45 bp):
GAGCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT
Found at i:87176965 original size:177 final size:177
Alignment explanation
Indices: 87176669--87177020 Score: 668
Period size: 177 Copynumber: 2.0 Consensus size: 177
87176659 GATCTTGACT
87176669 TAGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTA
1 TAGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTA
*
87176734 TTTTTGGATCACAAAAGTCTCAAAAATTTGATGACTCAAAGAGACTTAAATCTGCGTCAAAGACG
66 TTTTCGGATCACAAAAGTCTCAAAAATTTGATGACTCAAAGAGACTTAAATCTGCGTCAAAGACG
*
87176799 TTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCAAC
131 TTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCACTGATTACCAAC
*
87176846 TAGCTGCCATCGTATTTGCTTTGAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTA
1 TAGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTA
*
87176911 TTTTCGGATCACAAAAGTCTCAAATATTTGATGACTCAAAGAGACTTAAATCTGCGTCAAAGACG
66 TTTTCGGATCACAAAAGTCTCAAAAATTTGATGACTCAAAGAGACTTAAATCTGCGTCAAAGACG
87176976 TTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCACTGATTACCA
131 TTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCACTGATTACCA
87177021 CCCGGGAAAG
Statistics
Matches: 171, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
177 171 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (177 bp):
TAGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTA
TTTTCGGATCACAAAAGTCTCAAAAATTTGATGACTCAAAGAGACTTAAATCTGCGTCAAAGACG
TTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCACTGATTACCAAC
Found at i:87181696 original size:38 final size:38
Alignment explanation
Indices: 87181641--87181794 Score: 157
Period size: 38 Copynumber: 3.8 Consensus size: 38
87181631 ATTGATTCAT
*
87181641 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
87181679 TAATGTGGTGCTAAGTGGATATGA-CACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATAT-ACCACGGTTA-A-ACA-TG
*
87181720 ATTCATTAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
87181764 TAACGTGGTGATAAGTGGATATGCCACGGTT
1 TAACGTGGTGCTAAGTGGATATACCACGGTT
87181795 GTACATGTTA
Statistics
Matches: 96, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
38 56 0.58
39 2 0.02
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 28 0.29
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:87181722 original size:85 final size:85
Alignment explanation
Indices: 87181606--87181794 Score: 324
Period size: 85 Copynumber: 2.2 Consensus size: 85
87181596 GGGTGTTACA
* **
87181606 AAGTGGATATGCCACGTTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCATGGT
1 AAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACAGT
* *
87181671 TAAACATGTAATGTGGTGCT
66 TAAACATGTAACGTGGTGAT
*
87181691 AAGTGGATATGACACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACAGT
1 AAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACAGT
87181756 TAAACATGTAACGTGGTGAT
66 TAAACATGTAACGTGGTGAT
87181776 AAGTGGATATGCCACGGTT
1 AAGTGGATATGCCACGGTT
87181795 GTACATGTTA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (85 bp):
AAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACAGT
TAAACATGTAACGTGGTGAT
Found at i:87198693 original size:47 final size:46
Alignment explanation
Indices: 87198623--87198799 Score: 225
Period size: 47 Copynumber: 3.8 Consensus size: 46
87198613 GATTTTTTGT
*
87198623 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA
* * *
87198669 GTGCAAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATGGA-GATAA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATGATGA
*
87198717 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGA
*
87198764 -TAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGC
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
87198800 TAAGAGTCTT
Statistics
Matches: 114, Mismatches: 9, Indels: 15
0.83 0.07 0.11
Matches are distributed among these distances:
46 22 0.19
47 68 0.60
48 23 0.20
49 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA
Found at i:87198784 original size:94 final size:93
Alignment explanation
Indices: 87198623--87198799 Score: 277
Period size: 94 Copynumber: 1.9 Consensus size: 93
87198613 GATTTTTTGT
*
87198623 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCAAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCAAGTGTAAGACCATG
87198688 TCTGGGACATGGCATCGGCATGGAGATAA
66 TCTGGGACAT-GCATCGGCATGGAGATAA
* * *
87198717 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGT-GCAAGTGTAAGACCA
87198780 TGTCTGGGACATGCATCGGC
64 TGTCTGGGACATGCATCGGC
87198800 TAAGAGTCTT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
93 8 0.10
94 52 0.68
95 17 0.22
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (93 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCAAGTGTAAGACCATG
TCTGGGACATGCATCGGCATGGAGATAA
Found at i:87206289 original size:94 final size:93
Alignment explanation
Indices: 87206128--87206298 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 93
87206118 TTTGTGTGCC
* *
87206128 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAACGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGAGACATGCATCGGCCACATGATGAGTGCCAACGTAAGACCATGTCTGG
87206193 GACATGGCATCGGTGTAGAGATGAGTATT
66 GACAT-GCATCGGTGTAGAGATGAGTATT
* * * **
87206222 AGTGTAAGATATGTTTGAGACATGCATCGGCCTCGATGATGA-TAGCCAGTGTAAGA-CATGTCT
1 AGTGTAAGACATGTCTGAGACATGCATCGGCCAC-ATGATGAGT-GCCAACGTAAGACCATGTCT
87206285 GGGACATGCATCGG
64 GGGACATGCATCGG
87206299 CTAAGAGTCG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
93 7 0.10
94 45 0.66
95 16 0.24
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGAGACATGCATCGGCCACATGATGAGTGCCAACGTAAGACCATGTCTGG
GACATGCATCGGTGTAGAGATGAGTATT
Found at i:87210832 original size:42 final size:42
Alignment explanation
Indices: 87210773--87210886 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
87210763 TGTGTTATCA
* * *
87210773 TGTAAGACCATATCTGGGATATGGCGTTGATATGAAAATTCG
1 TGTAAGACCATATCTGGGATATGGCATCGAAATGAAAATTCG
** * * *
87210815 TGTAAGACCACGTCTGGGACATGGCATCGAAATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGAAATGAAAATTCG
*
87210857 TATAAGACCATATCTGGGATATGGCATCGA
1 TGTAAGACCATATCTGGGATATGGCATCGA
87210887 TGTAAGATCC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGAAATGAAAATTCG
Found at i:87210905 original size:42 final size:41
Alignment explanation
Indices: 87210770--87210908 Score: 134
Period size: 42 Copynumber: 3.3 Consensus size: 41
87210760 GTATGTGTTA
* * *
87210770 TCATGTAAGACCATATCTGGGATATGGCGTTGATATGAAAAT
1 TCATGTAAGACCATATCTGGGATATGGCATCGATAT-AAGAT
* ** * * *
87210812 TCGTGTAAGACCACGTCTGGGACATGGCATCGAAATGAGATT
1 TCATGTAAGACCATATCTGGGATATGGCATCGATATAAGA-T
* * *
87210854 TCGTATAAGACCATATCTGGGATATGGCATCGATGTAAGAT
1 TCATGTAAGACCATATCTGGGATATGGCATCGATATAAGAT
*
87210895 CCCATGTAAGACCA
1 -TCATGTAAGACCA
87210909 CGTCTGGAAC
Statistics
Matches: 76, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
41 3 0.04
42 73 0.96
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (41 bp):
TCATGTAAGACCATATCTGGGATATGGCATCGATATAAGAT
Found at i:87219728 original size:40 final size:40
Alignment explanation
Indices: 87219674--87219831 Score: 235
Period size: 40 Copynumber: 4.0 Consensus size: 40
87219664 CGGATGTAAC
* *
87219674 AACCAGCACAAATGCCTTCAGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
87219714 AACCGGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* ** *
87219754 AACCTGCACGAATGCCTTCGAAACTTAACCCGGTTATAGT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
87219794 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATA
87219832 TATATATATT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:87228007 original size:27 final size:26
Alignment explanation
Indices: 87227959--87228010 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
87227949 GCGAGGCTGC
*
87227959 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
87227985 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
87228011 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:87231851 original size:42 final size:42
Alignment explanation
Indices: 87231776--87231887 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
87231766 TGTTATCATG
* * * * *
87231776 TAAGACCATATCTAGGATATGGC-GCTGATATGAGAATTT-GTG
1 TAAGACCACATCTAGGACATGGCATC-GAAATGAG-ATTTCGTA
* *
87231818 TAAGACCACGTCTGGGACATGGCATCGAAATGAGATTTCGTA
1 TAAGACCACATCTAGGACATGGCATCGAAATGAGATTTCGTA
* *
87231860 TAAGACCATATCTAGGATATGGCATCGA
1 TAAGACCACATCTAGGACATGGCATCGA
87231888 TGTAAGATCC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 4 0.07
42 52 0.91
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (42 bp):
TAAGACCACATCTAGGACATGGCATCGAAATGAGATTTCGTA
Found at i:87243342 original size:56 final size:56
Alignment explanation
Indices: 87243256--87243367 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
87243246 AGTTTGAGTT
* * *
87243256 AAGGACTGTTTTGAATAGTACATTCATTAAATAAGTAAAATATGATGTTTTAGATC
1 AAGGACTATTTTGAATAGTACATTAATTAAATAAGTAAAATATGATCTTTTAGATC
*
87243312 AAGGACTATTTTGAATAGTACATTAATTAAATAATTAAAATATGATCTTTTAGATC
1 AAGGACTATTTTGAATAGTACATTAATTAAATAAGTAAAATATGATCTTTTAGATC
87243368 CCGGAAAACG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.38
Consensus pattern (56 bp):
AAGGACTATTTTGAATAGTACATTAATTAAATAAGTAAAATATGATCTTTTAGATC
Found at i:87244587 original size:16 final size:17
Alignment explanation
Indices: 87244566--87244597 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
87244556 ACTATGGTAT
87244566 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
87244582 ATGAAATAATTGATAT
1 ATGAAATAATTGATAT
87244598 GTGTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:87245146 original size:247 final size:246
Alignment explanation
Indices: 87244711--87245203 Score: 896
Period size: 247 Copynumber: 2.0 Consensus size: 246
87244701 ATGTTTCAGG
* *
87244711 CAAACATGTTATTCTGCGCATCTGAATCGTGGTATTTTATAAAGATATGATCTAGCTTTAAATAT
1 CAAACATGTTATTCTGCGCATCTGAATCATGGTATTTTATAAAGATATGATCAAGCTTTAAATAT
* *
87244776 GACTGCTTGATGATTAAGCTGAAGATATTTGGTAAGATGATAATCTTGGTATAAACGTATAAGTG
66 GAATACTTGATGATTAAGCTGAAGATATTTGGTAAGATGATAATCTTGGTATAAACGTATAAGTG
87244841 GTAATATAATAAACAAGGTAAAATGAGTATGAGAGACACATGTATGATGACATACAAATGCTATG
131 GTAATATAATAAACAAGGTAAAATGAGTATGAGAGACACATGTATGATGACATACAAATGCTATG
87244906 TTTGTGGTTTAATTGAGGATGTTTAATCATTAAATGAATACCATGTTATAT
196 TTTGTGGTTTAATTGAGGATGTTTAATCATTAAATGAATACCATGTTATAT
* * *
87244957 CAAACATGTTATTCTGTGCATCTGAATCATGGTTTTTTTATAAAGTTATGATCAAGCTTTAAATA
1 CAAACATGTTATTCTGCGCATCTGAATCATGG-TATTTTATAAAGATATGATCAAGCTTTAAATA
*
87245022 TGAATACTTGATGATTAAGCTGAAGATATTTGGTAAGATGATAATCTTGGTATAAATGTATAAGT
65 TGAATACTTGATGATTAAGCTGAAGATATTTGGTAAGATGATAATCTTGGTATAAACGTATAAGT
*
87245087 GGTACTATAATAAACAAGGTAAAATGAGTATGAGAGACACATGTATGATGACATACAAATGCTAT
130 GGTAATATAATAAACAAGGTAAAATGAGTATGAGAGACACATGTATGATGACATACAAATGCTAT
87245152 GTTTGTGGTTTAATTGAGGATGTTTAATCATTAAATGAATACCATGTTATAT
195 GTTTGTGGTTTAATTGAGGATGTTTAATCATTAAATGAATACCATGTTATAT
87245204 GCTTTTGATT
Statistics
Matches: 237, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
246 30 0.13
247 207 0.87
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (246 bp):
CAAACATGTTATTCTGCGCATCTGAATCATGGTATTTTATAAAGATATGATCAAGCTTTAAATAT
GAATACTTGATGATTAAGCTGAAGATATTTGGTAAGATGATAATCTTGGTATAAACGTATAAGTG
GTAATATAATAAACAAGGTAAAATGAGTATGAGAGACACATGTATGATGACATACAAATGCTATG
TTTGTGGTTTAATTGAGGATGTTTAATCATTAAATGAATACCATGTTATAT
Found at i:87245378 original size:38 final size:38
Alignment explanation
Indices: 87245325--87245402 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
87245315 GGAACACGAC
* *
87245325 TTTGGGACACGGGCGTGTGGAGCCTTAAAGCATGAAAT
1 TTTGGGACACAGGCGTGTGGAGCCTTAAACCATGAAAT
*
87245363 TTTGGGACACAGGCGTGTGGAGCCTTAGACCATGAAAT
1 TTTGGGACACAGGCGTGTGGAGCCTTAAACCATGAAAT
87245401 TT
1 TT
87245403 CCAAGATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (38 bp):
TTTGGGACACAGGCGTGTGGAGCCTTAAACCATGAAAT
Found at i:87248853 original size:47 final size:47
Alignment explanation
Indices: 87248801--87249157 Score: 552
Period size: 47 Copynumber: 7.6 Consensus size: 47
87248791 GATAATTGTG
* *
87248801 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
87248848 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
87248895 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
87248944 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
87248991 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
87249038 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *** * * *
87249085 ATGTGAAAGTGTATATATGTGACAGGGCCGGGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
87249132 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
87249158 TCCCGAAGGG
Statistics
Matches: 285, Mismatches: 23, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
47 240 0.84
49 45 0.16
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:87248948 original size:143 final size:141
Alignment explanation
Indices: 87248801--87249157 Score: 570
Period size: 143 Copynumber: 2.5 Consensus size: 141
87248791 GATAATTGTG
* *
87248801 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
87248866 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
87248931 GCCGATGTGATGA
129 GCCGATGTGATGA
*
87248944 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
87249009 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGC
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
87249074 CGATGTGATGA
131 CGATGTGATGA
* * *** * * * *
87249085 ATGTGAAAGTGTATATATGTGACAGGGCCGGGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
87249150 GTGATAAG
66 GTGATAAG
87249158 TCCCGAAGGG
Statistics
Matches: 199, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
141 98 0.49
143 101 0.51
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
CGATGTGATGA
Found at i:87257699 original size:49 final size:49
Alignment explanation
Indices: 87257625--87257818 Score: 248
Period size: 49 Copynumber: 3.9 Consensus size: 49
87257615 ACTATTGTGA
* * *
87257625 GGTCACGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
87257674 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-T
* * *
87257725 GATCACATGTGTAGTACTAGGTGCAGGCTACTACGTGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
87257774 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA--TCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGT-GTACCAGATA
87257819 GCTTCAACTA
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.01
48 9 0.07
49 72 0.58
50 2 0.02
51 41 0.33
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:87257805 original size:100 final size:99
Alignment explanation
Indices: 87257627--87257813 Score: 311
Period size: 100 Copynumber: 1.9 Consensus size: 99
87257617 TATTGTGAGG
* * *
87257627 TCACGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
87257692 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTAT-CGTACCCGAAAACTGTGA
* * *
87257727 TCACATGTGTAGTACTAGGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
87257792 AAGTGCAGGCTACTATCGTACC
66 AAGTGCAGGCTACTATCGTACC
87257814 AGATAGCTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 6 0.07
100 75 0.93
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATCGTACCCGAAAACTGTGA
Found at i:87261983 original size:13 final size:13
Alignment explanation
Indices: 87261965--87261989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87261955 TGAACCCATA
87261965 CCAAAACAATCAC
1 CCAAAACAATCAC
87261978 CCAAAACAATCA
1 CCAAAACAATCA
87261990 TAAAACATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.36, G:0.00, T:0.08
Consensus pattern (13 bp):
CCAAAACAATCAC
Found at i:87263389 original size:15 final size:16
Alignment explanation
Indices: 87263365--87263397 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
87263355 AAGTTGTCTC
*
87263365 ATAAACAATT-CAAAT
1 ATAAAAAATTCCAAAT
87263380 ATAAAAAATTCCAAAT
1 ATAAAAAATTCCAAAT
87263396 AT
1 AT
87263398 TCCATATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAAAATTCCAAAT
Found at i:87266835 original size:27 final size:27
Alignment explanation
Indices: 87266787--87266858 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
87266777 TAACTGTAGG
* *
87266787 ATTACTGAAATACCCCTATA-GGATAGA
1 ATTACTGAAATACCCTTGTAGGGA-AGA
* *
87266814 ATTATTGAAATGCCCTTGTAGGGAAGA
1 ATTACTGAAATACCCTTGTAGGGAAGA
87266841 ATTACTGAAATACCCTTG
1 ATTACTGAAATACCCTTG
87266859 GTTTACAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (27 bp):
ATTACTGAAATACCCTTGTAGGGAAGA
Found at i:87266921 original size:27 final size:27
Alignment explanation
Indices: 87266891--87267152 Score: 217
Period size: 27 Copynumber: 9.7 Consensus size: 27
87266881 CACAATTAGC
*
87266891 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* * *
87266918 AAAATTACCAACATACCCTTGATATGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * * **
87266945 GAAATTACCGAATTACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
87266972 AAAATTACCGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * *
87266999 ACAATTACCGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*
87267026 AAAATTACTAAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
87267053 AAAGTGACCAAAATACCC-CTGATTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* ** ** *
87267080 AAAATTTCTGAAATACCCTTAATTTGG
1 AAAATTACCAAAATACCCTCGATTTGT
* **
87267107 AAAATTA-TAGAAATACCC-CTGATTTAC
1 AAAATTACCA-AAATACCCTC-GATTTGT
*
87267134 AAAATTACAAAAATACCCT
1 AAAATTACCAAAATACCCT
87267153 TGACTTTAAA
Statistics
Matches: 191, Mismatches: 37, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
26 2 0.01
27 187 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:87267105 original size:54 final size:53
Alignment explanation
Indices: 87266865--87267234 Score: 214
Period size: 54 Copynumber: 6.8 Consensus size: 53
87266855 CTTGGTTTAC
* * * *
87266865 AAAATTACTG-AATACCCACAATTAGCAAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACTGAAATACCCTCGATTTG-TAAATTACCAAAATACCCCTGA-TTTGT
* * * * * **
87266918 AAAATTAC-CAACATACCCTTGATATGTGAAATTACCGAATTA-CCCTCGACCTGT
1 AAAATTACTGAA-ATACCCTCGATTTGT-AAATTACCAAAATACCCCT-GATTTGT
* * * *
87266972 AAAATTACCGAAATACCCTCGACTTGTACAATTACCGAAATA-CCCTCGACTTGT
1 AAAATTACTGAAATACCCTCGATTTGTA-AATTACCAAAATACCCCT-GATTTGT
* *
87267026 AAAATTACTAAAATACCCTCGATTTGTAAAGTGACCAAAATACCCCTGATTTGT
1 AAAATTACTGAAATACCCTCGATTTGTAAA-TTACCAAAATACCCCTGATTTGT
* ** * * **
87267080 AAAATTTCTGAAATACCCTTAATTTGGAAAATTA-TAGAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTCGATTT-GTAAATTACCA-AAATACCCCTGATTTGT
** * ** * * ** * *
87267134 AAAATTACAAAAATACCCTTGACTTTAAAAAAATTA-TAGAACTACCATTGGTTTGC
1 AAAATTACTGAAATACCCTCGA-TTT--GTAAATTACCA-AAATACCCCTGATTTGT
* * *
87267190 AAAATTACTGAAATACCCTTGGTTTGTAAATTTACCAAAACACCC
1 AAAATTACTGAAATACCCTCGATTTGTAAA-TTACCAAAATACCC
87267235 TTGTAGGGTG
Statistics
Matches: 250, Mismatches: 52, Indels: 29
0.76 0.16 0.09
Matches are distributed among these distances:
53 20 0.08
54 171 0.68
55 18 0.07
56 41 0.16
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (53 bp):
AAAATTACTGAAATACCCTCGATTTGTAAATTACCAAAATACCCCTGATTTGT
Found at i:87267206 original size:27 final size:28
Alignment explanation
Indices: 87267075--87267224 Score: 76
Period size: 27 Copynumber: 5.5 Consensus size: 28
87267065 ATACCCCTGA
* * * **
87267075 TTTGTAAAATTTCT-GAAATACCCTTAA
1 TTTGCAAAATTACTAGAAATACCATTGG
* ** *
87267102 TTTGGAAAATTA-TAGAAATACCCCTGA
1 TTTGCAAAATTACTAGAAATACCATTGG
* * * *
87267129 TTTACAAAATTAC-AAAAATACCCTTGAC
1 TTTGCAAAATTACTAGAAATACCATTG-G
** *
87267157 TTTAAAAAAATTA-TAGAACTACCATTGG
1 TTT-GCAAAATTACTAGAAATACCATTGG
*
87267185 TTTGCAAAATTACT-GAAATACCCTTGG
1 TTTGCAAAATTACTAGAAATACCATTGG
* *
87267212 TTTGTAAATTTAC
1 TTTGCAAAATTAC
87267225 CAAAACACCC
Statistics
Matches: 97, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.01
27 71 0.73
28 7 0.07
29 18 0.19
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (28 bp):
TTTGCAAAATTACTAGAAATACCATTGG
Found at i:87267234 original size:27 final size:27
Alignment explanation
Indices: 87267181--87267237 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
87267171 AGAACTACCA
** *
87267181 TTGGTTTGCAAAATTACTGAAATACCC
1 TTGGTTTGCAAAATTACCAAAACACCC
* *
87267208 TTGGTTTGTAAATTTACCAAAACACCC
1 TTGGTTTGCAAAATTACCAAAACACCC
87267235 TTG
1 TTG
87267238 TAGGGTGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (27 bp):
TTGGTTTGCAAAATTACCAAAACACCC
Found at i:87267235 original size:83 final size:81
Alignment explanation
Indices: 87267026--87267237 Score: 201
Period size: 83 Copynumber: 2.6 Consensus size: 81
87267016 CTCGACTTGT
* * * * * ** * *
87267026 AAAATTACTAAAATACCCTCGATTTGTAAAGTGACCAAAATACCCCTGATTTGTAAAATTTCTGA
1 AAAATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTAAAAAAATTATGA
* *
87267091 AATACCCTTAATTTGG
66 AATACCATTAATTTGC
* ** *
87267107 AAAATTA-TAGAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTTAAAAAAATTAT
1 AAAATTACT-GAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGA-TTTAAAAAAATTAT
* **
87267171 AGAACTACCATTGGTTTGC
64 -GAAATACCATTAATTTGC
* * *
87267190 AAAATTACTGAAATACCCTTGGTTTGTAAATTTACCAAAACACCCTTG
1 AAAATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTG
87267238 TAGGGTGAAA
Statistics
Matches: 102, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
80 1 0.01
81 38 0.37
82 10 0.10
83 52 0.51
84 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (81 bp):
AAAATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTAAAAAAATTATGA
AATACCATTAATTTGC
Found at i:87267298 original size:27 final size:27
Alignment explanation
Indices: 87267268--87267327 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
87267258 ACCCCTAATA
** *
87267268 GGTAAAAAGCCCGTAATGCCCCTGTAG
1 GGTAAAAAGAACGTAAAGCCCCTGTAG
*
87267295 GGTAAAATGAACGTAAAGCCCCTGTAG
1 GGTAAAAAGAACGTAAAGCCCCTGTAG
87267322 GGTAAA
1 GGTAAA
87267328 GTGATTGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (27 bp):
GGTAAAAAGAACGTAAAGCCCCTGTAG
Found at i:87267337 original size:27 final size:27
Alignment explanation
Indices: 87267279--87267358 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
87267269 GTAAAAAGCC
*
87267279 CGTAATGCCCCTGTAGGGTAAAATGAA
1 CGTAAAGCCCCTGTAGGGTAAAATGAA
* *
87267306 CGTAAAGCCCCTGTAGGGTAAAGTGAT
1 CGTAAAGCCCCTGTAGGGTAAAATGAA
* *
87267333 TGTAATA-CCCCTGTATGGTAAAATGA
1 CGTAA-AGCCCCTGTAGGGTAAAATGA
87267359 CGATTATGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (27 bp):
CGTAAAGCCCCTGTAGGGTAAAATGAA
Found at i:87267586 original size:27 final size:27
Alignment explanation
Indices: 87267500--87267586 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
87267490 GGAAGTTTTG
* * * * *
87267500 TACTGTTGACTATGTCACATTCACTAT
1 TACTGGTGGCTATGCCACATTTACTGT
* *
87267527 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCACATTTACTGT
*
87267554 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACATTTACTGT
*
87267581 TTCTGG
1 TACTGG
87267587 CAACTATGCT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.38
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACATTTACTGT
Found at i:87268143 original size:17 final size:18
Alignment explanation
Indices: 87268103--87268151 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
87268093 AGTCTAGGAA
*
87268103 AACACGAGTTTTCAAAAT
1 AACACGAGTTTTCAAAAG
* *
87268121 AGCACGA-TTTTCTAAAG
1 AACACGAGTTTTCAAAAG
*
87268138 AACACGAGCTTTCA
1 AACACGAGTTTTCA
87268152 GCAACAAAGT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (18 bp):
AACACGAGTTTTCAAAAG
Found at i:87270586 original size:16 final size:17
Alignment explanation
Indices: 87270559--87270594 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
87270549 GAAAACATCT
87270559 CAAAAGCATAAAGATAA
1 CAAAAGCATAAAGATAA
87270576 CAAAA-CATAAAGATAA
1 CAAAAGCATAAAGATAA
87270592 CAA
1 CAA
87270595 GATCTGTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.67, C:0.14, G:0.08, T:0.11
Consensus pattern (17 bp):
CAAAAGCATAAAGATAA
Found at i:87270623 original size:16 final size:16
Alignment explanation
Indices: 87270602--87270632 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87270592 CAAGATCTGT
87270602 CTTAGGCTTCATTCCC
1 CTTAGGCTTCATTCCC
*
87270618 CTTAGGTTTCATTCC
1 CTTAGGCTTCATTCC
87270633 TCTAAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.32, G:0.13, T:0.42
Consensus pattern (16 bp):
CTTAGGCTTCATTCCC
Found at i:87273151 original size:29 final size:28
Alignment explanation
Indices: 87273108--87273185 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
87273098 TCATGAGATT
87273108 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
87273138 -GCACTAAGTGTGCGAGTTTACAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
87273165 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
87273186 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Done.