Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold448
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: 1056520
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:3499 original size:24 final size:24
Alignment explanation
Indices: 3467--3516 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3457 TTGCTTTGAA
3467 TTTATCTAGGGGGAGAAAATCTCT
1 TTTATCTAGGGGGAGAAAATCTCT
3491 TTTATCTAGGGGGAGAAAATCTCT
1 TTTATCTAGGGGGAGAAAATCTCT
3515 TT
1 TT
3517 AACCGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (24 bp):
TTTATCTAGGGGGAGAAAATCTCT
Found at i:4126 original size:13 final size:13
Alignment explanation
Indices: 4108--4134 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4098 ACATTATGCT
4108 TTGTATCGATACA
1 TTGTATCGATACA
4121 TTGTATCGATACA
1 TTGTATCGATACA
4134 T
1 T
4135 GATCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4143 original size:19 final size:19
Alignment explanation
Indices: 4118--4173 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
4108 TTGTATCGAT
4118 ACATTGTATCGATACAT-G
1 ACATTGTATCGATACATGG
*
4136 ATCATTGTATCGATATATGG
1 A-CATTGTATCGATACATGG
*
4156 ACAATTGCATCGATACAT
1 AC-ATTGTATCGATACAT
4174 AAAACTGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 1 0.03
19 16 0.50
20 15 0.47
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:7349 original size:29 final size:29
Alignment explanation
Indices: 7317--7391 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
7307 TAAATTGACT
**
7317 TTAAAATGCATGAAATTGTTAAAAGGTTC
1 TTAAAATGCATGAAATTGTTAAAAGGAGC
* * *
7346 TTAAAA--CATGGAAAATGTTTAAATGAGC
1 TTAAAATGCAT-GAAATTGTTAAAAGGAGC
7374 TTAAAATGCATGAAATTG
1 TTAAAATGCATGAAATTG
7392 CATAAATAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 3 0.08
28 19 0.51
29 12 0.32
30 3 0.08
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (29 bp):
TTAAAATGCATGAAATTGTTAAAAGGAGC
Found at i:10973 original size:19 final size:19
Alignment explanation
Indices: 10951--10987 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10941 TTGAAAGATA
10951 AAAAATAAAAAAAATATTT
1 AAAAATAAAAAAAATATTT
*
10970 AAAAATAAAAAAAGTATT
1 AAAAATAAAAAAAATATT
10988 ATCATGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAAATAAAAAAAATATTT
Found at i:15312 original size:6 final size:6
Alignment explanation
Indices: 15301--15327 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15291 GTATGTGGAA
15301 GCCATT GCCATT GCCATT GCCATT GCC
1 GCCATT GCCATT GCCATT GCCATT GCC
15328 GTTGGCTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.37, G:0.19, T:0.30
Consensus pattern (6 bp):
GCCATT
Found at i:23130 original size:15 final size:15
Alignment explanation
Indices: 23110--23139 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23100 CAAAAATCTA
23110 TATATATATAAATAT
1 TATATATATAAATAT
*
23125 TATATATTTAAATAT
1 TATATATATAAATAT
23140 AGTAATTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATATATAAATAT
Found at i:24562 original size:58 final size:58
Alignment explanation
Indices: 24489--24627 Score: 163
Period size: 58 Copynumber: 2.4 Consensus size: 58
24479 TGTCTTTCTG
* * * **
24489 TTATGTAATTACATGCATTTTAGGGTCATGTTATTCATTTTTCATGTTTTAGAGACTT-
1 TTATGTAATTACATGCATTTTAGGATCATGTTAGTCATTTTTCATGATCCAGAGA-TTA
* * * *
24547 TTATTTAATTTCATGCATTTGAGGATCATTTTAGTCATTTTTCATGATCCAGAGATTA
1 TTATGTAATTACATGCATTTTAGGATCATGTTAGTCATTTTTCATGATCCAGAGATTA
* *
24605 TTATGTAAATCCATGCATTTTAG
1 TTATGTAATTACATGCATTTTAG
24628 AACCATATTA
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
57 2 0.03
58 65 0.97
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (58 bp):
TTATGTAATTACATGCATTTTAGGATCATGTTAGTCATTTTTCATGATCCAGAGATTA
Found at i:24722 original size:58 final size:58
Alignment explanation
Indices: 24523--24756 Score: 167
Period size: 58 Copynumber: 4.1 Consensus size: 58
24513 GTCATGTTAT
* * * * *
24523 TCATTTTTCATGTTTTAGAGACTT-TTATTTAATTTCATGCATTTGAGGA-TCATTTTAG
1 TCATTTTTCATGATCTAGAGA-TTATTATATAATTTCATGCATTTCAGAACT-ATTTTAG
* * * * * * *
24581 TCATTTTTCATGATCCAGAGATTATTATGTAAATCCATGCATTTTAGAACCATATTAG
1 TCATTTTTCATGATCTAGAGATTATTATATAATTTCATGCATTTCAGAACTATTTTAG
* * * * * * *
24639 -CTATATTCCATGATCTAGTGGTTATTATATAATTTCTTGCATTCCAGCACTATTTTAG
1 TC-ATTTTTCATGATCTAGAGATTATTATATAATTTCATGCATTTCAGAACTATTTTAG
* * * * * *
24697 TCATTTTTCATGATTTAGGGATTATTCTGTAGTTTCATGTA-TT-AG-AC-ATTTTAG
1 TCATTTTTCATGATCTAGAGATTATTATATAATTTCATGCATTTCAGAACTATTTTAG
24751 TCATTT
1 TCATTT
24757 CATGTTAGTC
Statistics
Matches: 137, Mismatches: 35, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
54 13 0.09
55 2 0.01
56 2 0.01
57 4 0.03
58 115 0.84
59 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (58 bp):
TCATTTTTCATGATCTAGAGATTATTATATAATTTCATGCATTTCAGAACTATTTTAG
Found at i:25383 original size:13 final size:13
Alignment explanation
Indices: 25365--25390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25355 TACACCAAGT
25365 ATGTATCGATACA
1 ATGTATCGATACA
25378 ATGTATCGATACA
1 ATGTATCGATACA
25391 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:25388 original size:32 final size:33
Alignment explanation
Indices: 25347--25410 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
25337 TAGCCAAACT
* **
25347 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
25379 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
25411 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:29472 original size:15 final size:15
Alignment explanation
Indices: 29452--29482 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29442 TAAAAATGTC
*
29452 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
29467 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
29482 C
1 C
29483 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:31547 original size:20 final size:20
Alignment explanation
Indices: 31476--31555 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
31466 ATTGTCCATA
*
31476 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
31496 GTGTATCGATACATTTGGAAATTCA
1 ATGTATCGATACATTT-----TTCT
31521 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
31541 TTGTATCGATACATT
1 ATGTATCGATACATT
31556 GTATTGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
25 18 0.37
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:31559 original size:13 final size:13
Alignment explanation
Indices: 31541--31579 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
31531 ACATTTTTCT
31541 TTGTATCGATACA
1 TTGTATCGATACA
*
31554 TTGTATTGATACA
1 TTGTATCGATACA
*
31567 CTGTATCGATACA
1 TTGTATCGATACA
31580 GGGCGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:34153 original size:13 final size:13
Alignment explanation
Indices: 34135--34160 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34125 TACACCAAGT
34135 ATGTATCGATACA
1 ATGTATCGATACA
34148 ATGTATCGATACA
1 ATGTATCGATACA
34161 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:34158 original size:32 final size:33
Alignment explanation
Indices: 34117--34180 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
34107 TAGCCAAACT
* **
34117 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
34149 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
34181 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:42648 original size:13 final size:13
Alignment explanation
Indices: 42630--42654 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42620 CAATTCTTCA
42630 TGTATCGATACAT
1 TGTATCGATACAT
42643 TGTATCGATACA
1 TGTATCGATACA
42655 ATGTGCAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42652 original size:33 final size:33
Alignment explanation
Indices: 42610--42674 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
42600 TTTAGGACAA
*
42610 TGTATCGATACAATTCTTC-ATGTATCGATACAT
1 TGTATCGATACAA-TCTGCAATGTATCGATACAT
*
42643 TGTATCGATACAATGTGCAATGTATCGATACA
1 TGTATCGATACAATCTGCAATGTATCGATACA
42675 AATAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATCTGCAATGTATCGATACAT
Found at i:42762 original size:13 final size:13
Alignment explanation
Indices: 42744--42770 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42734 TACAATGAAC
42744 ATGTATCGATACA
1 ATGTATCGATACA
42757 ATGTATCGATACA
1 ATGTATCGATACA
42770 A
1 A
42771 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:43758 original size:33 final size:33
Alignment explanation
Indices: 43721--43789 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
43711 TCGGTTAAGA
* *
43721 GAACTAAAGTTCTCATCCATGCGCTGTGAAAGT
1 GAACTAAAGTGCTCATCCATGCGCTGCGAAAGT
* *
43754 GAACTAAAGTGCTCATCCATGTGTTGCGAAAGT
1 GAACTAAAGTGCTCATCCATGCGCTGCGAAAGT
43787 GAA
1 GAA
43790 GTGATCAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (33 bp):
GAACTAAAGTGCTCATCCATGCGCTGCGAAAGT
Found at i:47694 original size:13 final size:13
Alignment explanation
Indices: 47654--47705 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
47644 CCGTTACAAG
47654 CAATGTATCGATA
1 CAATGTATCGATA
47667 CAA--T-TC-AT-
1 CAATGTATCGATA
47675 C-ATGTATCGATA
1 CAATGTATCGATA
*
47687 CAATGTATCAATA
1 CAATGTATCGATA
47700 CAATGT
1 CAATGT
47706 CTTATGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 19 0.59
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:47694 original size:33 final size:33
Alignment explanation
Indices: 47654--47722 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
47644 CCGTTACAAG
*
47654 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCAATACAATGTC-TCATGTATCGATA
*
47687 CAATGTATCAATACAATGTCTTATGTATCGATA
1 CAATGTATCAATACAATGTCTCATGTATCGATA
47720 CAA
1 CAA
47723 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCAATACAATGTCTCATGTATCGATA
Found at i:47790 original size:13 final size:13
Alignment explanation
Indices: 47772--47798 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47762 ATAATTGTCC
47772 ATGTATCGATACA
1 ATGTATCGATACA
47785 ATGTATCGATACA
1 ATGTATCGATACA
47798 A
1 A
47799 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:48229 original size:18 final size:18
Alignment explanation
Indices: 48206--48242 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48196 GGGTAGCATT
48206 TATAAACTTACCAATTTG
1 TATAAACTTACCAATTTG
* *
48224 TATAAACTTGCCGATTTG
1 TATAAACTTACCAATTTG
48242 T
1 T
48243 TTAGGCTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (18 bp):
TATAAACTTACCAATTTG
Found at i:50215 original size:21 final size:20
Alignment explanation
Indices: 50162--50215 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
50152 AAATGAAGTG
50162 TTTTGAAGTAAAATTGAGGAA
1 TTTTGAAG-AAAATTGAGGAA
* *
50183 ATTTGTAA-AAAATTTGATGAA
1 TTTTG-AAGAAAA-TTGAGGAA
50204 TTTTGAAGAAAA
1 TTTTGAAGAAAA
50216 GATGTTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 6 0.22
21 19 0.70
22 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (20 bp):
TTTTGAAGAAAATTGAGGAA
Found at i:54133 original size:52 final size:52
Alignment explanation
Indices: 53984--54112 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
53974 CGAAATATGA
*
53984 AAATTTACCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
54036 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
54088 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
54113 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:54195 original size:32 final size:33
Alignment explanation
Indices: 54154--54218 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
54144 TAGCTTAAAT
*
54154 TGTATCGATACAAAAC-TTATGTATTGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
*
54186 TGTATCGATACAACACTTTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
54219 ATCGTTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGTATCGATACAA
Found at i:54265 original size:16 final size:16
Alignment explanation
Indices: 54244--54277 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
54234 AATTTTTAAC
54244 CGTTGGGACCTTGTAT
1 CGTTGGGACCTTGTAT
54260 CGTTGGGACCTTGTAT
1 CGTTGGGACCTTGTAT
54276 CG
1 CG
54278 ATACATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.32, T:0.35
Consensus pattern (16 bp):
CGTTGGGACCTTGTAT
Found at i:55046 original size:49 final size:49
Alignment explanation
Indices: 54974--55352 Score: 319
Period size: 43 Copynumber: 8.0 Consensus size: 49
54964 CAGTTAGACT
* * * *
54974 TGAAGGTGACAATGTGCTGATTCAAGGCC-GACGATATTTGATTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAG-CGATATTGGACTTAAAGA
*
55023 TGAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G-
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * *
55068 -GAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * * *
55115 TAAAGGTGCCAATATGTTGATTCAAGGTCAGCGATATTGGACTTGGAGGTGAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A---AAGA
** * * * *
55169 AAAAGGATGTCAATATGCTGATTCAAGGCTAGCTACATTGGACTTAAAGA
1 TGAAGG-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * *
55219 TGAAAGTGCCAATATACTGATTCAAGGCTAGCGATATTGGACTT----A
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * *
55264 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT---G-
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * *
55307 -G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTATACTGGACTTAAAG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
55353 GAAGATGCCA
Statistics
Matches: 273, Mismatches: 39, Indels: 39
0.78 0.11 0.11
Matches are distributed among these distances:
43 110 0.40
44 3 0.01
45 1 0.00
46 3 0.01
48 2 0.01
49 105 0.38
50 7 0.03
51 1 0.00
53 1 0.00
54 8 0.03
55 32 0.12
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (49 bp):
TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
Found at i:55105 original size:43 final size:45
Alignment explanation
Indices: 54939--55159 Score: 155
Period size: 49 Copynumber: 4.8 Consensus size: 45
54929 AAAAGGATGT
* * * * * *
54939 CAATATGCTGATTCACGGTCAGCAACAGTTAGACTT--GAAGGTGA
1 CAATATGCTGATTCAAGGCCAGCTATA-TTGGACTTGAGAAGGTGC
* * * *
54983 CAATGTGCTGATTCAAGGCC-GACGATATTTGATTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAG-CTATATTGGACTT---GA-GAAGGTGC
* *
55032 TAATATGCTGATTCAAGGCCAGCGATATTGGACTTG-GAA-GTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTGAGAAGGTGC
* * *
55075 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT---GA-GAAGGTGC
* * *
55124 CAATATGTTGATTCAAGGTCAGCGATATTGGACTTG
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTG
55160 GAGGTGAGAA
Statistics
Matches: 141, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
43 42 0.30
44 23 0.16
46 3 0.02
48 2 0.01
49 70 0.50
50 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (45 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTGAGAAGGTGC
Found at i:55112 original size:92 final size:92
Alignment explanation
Indices: 54939--55353 Score: 414
Period size: 92 Copynumber: 4.4 Consensus size: 92
54929 AAAAGGATGT
* * * * * *
54939 CAATATGCTGATTCACGGTCAGCAACAGTTAGACTTGAAGGTGACAATGTGCTGATTCAAGGCC-
1 CAATATGCTGATTCAAGGCCAGCGATA-TTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCA
* * * *
55003 GACGATATTTGATTTAAAGATGAAGGTGC
65 G-CTACATTGGACTTAAAGATGAAGGTGC
*
55032 TAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAA-GTGCCAATGTGCTGATTCAAGGCCA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-GAAGGTGCCAATGTGCTGATTCAAGGCCA
*
55096 GCTACATTGGACTTAAAGATAAAGGTGC
65 GCTACATTGGACTTAAAGATGAAGGTGC
* * * *
55124 CAATATGTTGATTCAAGGTCAGCGATATTGGACTTGGAGGTGAGAAAAAGGATGTCAATATGCTG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--G---AAGG-TGCCAATGTGCTG
* *
55189 ATTCAAGGCTAGCTACATTGGACTTAAAGATGAAAGTGC
54 ATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
55228 CAATATACTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAG
55293 CTACATTGGACTT---G--G-AGGTGC
66 CTACATTGGACTTAAAGATGAAGGTGC
* * * *
55314 CAATGTGCTGATTCAAGGCCAGCTATACTGGACTTAAAGG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGG
55354 AAGATGCCAC
Statistics
Matches: 273, Mismatches: 35, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
86 40 0.15
87 1 0.00
89 1 0.00
92 117 0.43
93 31 0.11
98 2 0.01
99 1 0.00
102 2 0.01
103 2 0.01
104 76 0.28
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (92 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAG
CTACATTGGACTTAAAGATGAAGGTGC
Found at i:55215 original size:104 final size:104
Alignment explanation
Indices: 55075--55262 Score: 308
Period size: 104 Copynumber: 1.8 Consensus size: 104
55065 TTGGAAGTGC
* **
55075 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAATATGTTGATTCA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAA-GTGCCAATATACTGATTCA
55139 AGG-TCAGCGATATTGGACTTGGAGGTGAGAAAAAGGATGT
65 AGGCT-AGCGATATTGGACTTGGAGGTGAGAAAAAGGATGT
*
55179 CAATATGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAAGTGCCAATATACTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATACTGATTCAA
55244 GGCTAGCGATATTGGACTT
66 GGCTAGCGATATTGGACTT
55263 AAAGGTGCCA
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
104 74 0.95
105 4 0.05
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (104 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATACTGATTCAA
GGCTAGCGATATTGGACTTGGAGGTGAGAAAAAGGATGT
Found at i:55395 original size:33 final size:33
Alignment explanation
Indices: 55358--55613 Score: 346
Period size: 33 Copynumber: 7.9 Consensus size: 33
55348 TAAAGGAAGA
*
55358 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAAGGT
* *
55391 TGCCACCGACTTGTGTGGGCTTTAG-AG-GGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAAGG-T
*
55423 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAAGGT
*
55456 TGCCACCAACTTGTGTGGGCTTTAG-AG-GGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAAGG-T
* *
55488 TGCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAAGGT
*
55521 TGCCACCAACTTGTGTGGGCTTTAG-AG-GGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAAGG-T
* *
55553 TGCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAAGGT
55586 TGCCACCAACTTGTGTGGGCTTT-GAAGA
1 TGCCACCAACTTGTGTGGGCTTTAGAAGA
55614 TTGCCACTGA
Statistics
Matches: 195, Mismatches: 19, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
31 6 0.03
32 83 0.43
33 100 0.51
34 6 0.03
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (33 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAGAAGGT
Found at i:55462 original size:65 final size:65
Alignment explanation
Indices: 55358--55608 Score: 457
Period size: 65 Copynumber: 3.9 Consensus size: 65
55348 TAAAGGAAGA
* * *
55358 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGGGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGAT
55423 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGAT
*
55488 TGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGAT
*
55553 TGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTT
55609 GAAGATTGCC
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 182 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (65 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGAT
Found at i:55647 original size:28 final size:28
Alignment explanation
Indices: 55599--55720 Score: 165
Period size: 28 Copynumber: 4.3 Consensus size: 28
55589 CACCAACTTG
*
55599 TGTGGGC-TTTGAAGATTGCCACTGACT
1 TGTGGGCTTTTAAAGATTGCCACTGACT
55626 TGTGGGCTTTTAAAGATTGCCACTGACT
1 TGTGGGCTTTTAAAGATTGCCACTGACT
* *
55654 TGTGGGCTTTTAAAGGTTACCACTGACT
1 TGTGGGCTTTTAAAGATTGCCACTGACT
** *
55682 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT--AAAGATTGCCACTGACT
55712 TGTGGGCTT
1 TGTGGGCTT
55721 AAAAGGAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
27 7 0.08
28 56 0.65
30 23 0.27
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTTAAAGATTGCCACTGACT
Found at i:55723 original size:56 final size:57
Alignment explanation
Indices: 55371--55725 Score: 219
Period size: 65 Copynumber: 5.8 Consensus size: 57
55361 CACCAACTTG
** * * **
55371 TGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGGGGATTGCCACCAACTT
1 TGTGGGCTTTTGAA-AAGGTTGCCACTAAC-T-TGTGGGCTTTA-A--AGATTACCACTGAC-T
* * * * *
55435 GTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGATTGCCACCGACTT
1 -TGTGGGCTTTTG-AAAAGGTTGCCACTAAC-T-TGTGGGCTTTA-A--AGATTACCACTGAC-T
* * * * *
55500 GTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGATTGCCACCGACTT
1 -TGTGGGCTTTTG-AAAAGGTTGCCACTAAC-T-TGTGGGCTTTA-A--AGATTACCACTGAC-T
* * * *
55565 GTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTGAAGATTGCCACTGACT
1 -TGTGGGCTTTTG-AAAAGGTTGCCACTAAC-T-TGTGGGCTTTAAAGATTACCACTGACT
* * *
55626 TGTGGGCTTTT--AAAGATTGCCACTGACTTGTGGGCTTTTAAAGGTTACCACTGACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTAACTTGTGGGC-TTTAAAGATTACCACTGACT
* *
55682 TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAG
1 TGTGGGCTTTTGAAAAGGTTGCCACTAACTTGTGGGCTTTAAAG
55726 GAAAAAGAGT
Statistics
Matches: 269, Mismatches: 17, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
55 7 0.03
56 29 0.11
57 19 0.07
58 21 0.08
60 10 0.04
61 1 0.00
62 12 0.04
64 1 0.00
65 167 0.62
66 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.30
Consensus pattern (57 bp):
TGTGGGCTTTTGAAAAGGTTGCCACTAACTTGTGGGCTTTAAAGATTACCACTGACT
Found at i:55797 original size:35 final size:35
Alignment explanation
Indices: 55711--55783 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 35
55701 TGCCACTAAC
* * *
55711 TTGTGGGCTTA-AAAGGAAAAAGAGTGCTACGGAG
1 TTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAG
55745 TTGTGAGCTTACAAAAGAAAAA-AGTGCCACGGAG
1 TTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAG
55779 TTGTG
1 TTGTG
55784 GACTTTGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 26 0.74
35 9 0.26
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.22
Consensus pattern (35 bp):
TTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAG
Found at i:55811 original size:29 final size:29
Alignment explanation
Indices: 55764--55933 Score: 175
Period size: 29 Copynumber: 5.9 Consensus size: 29
55754 TACAAAAGAA
* * *
55764 AAAAG-TGCCACGGAGTTGTGGACTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
55792 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* * *
55821 AAAAGGGTGCCATTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * * * * *
55850 -AAGGTTGGCACTGACTTATGGACTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
55878 AAAAGATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
55907 AAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
55934 TGAAGGGTGA
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
27 17 0.15
28 7 0.06
29 74 0.64
30 18 0.16
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:55936 original size:86 final size:86
Alignment explanation
Indices: 55782--55939 Score: 237
Period size: 86 Copynumber: 1.8 Consensus size: 86
55772 CACGGAGTTG
* * * * *
55782 TGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCATTGATTTGTGGGCT
1 TGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCT
55847 TTGAAGGTTGGCACTGACTTA
66 TTGAAGGTTGGCACTGACTTA
* *
55868 TGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTT-TGAAAAAGATGCCACTGACTTGTGGGCT
1 TGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGC-
55932 TTTGAAGG
65 TTTGAAGG
55940 GTGAGGAATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
85 22 0.34
86 42 0.66
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (86 bp):
TGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCT
TTGAAGGTTGGCACTGACTTA
Found at i:57374 original size:1 final size:1
Alignment explanation
Indices: 57370--57429 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
57360 CTTTTTGTTG
* * * * * * *
57370 TTTTTTTGTTTTGTTTTGTTTTTTTCTTTTTGTTGTTTTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57430 GCGGAGGACG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:57385 original size:13 final size:12
Alignment explanation
Indices: 57361--57429 Score: 72
Period size: 12 Copynumber: 5.8 Consensus size: 12
57351 ATCCGGACCC
*
57361 TTTTTG-TTGTT
1 TTTTTGTTTTTT
57372 TTTTTGTTTTGTT
1 TTTTTGTTTT-TT
* *
57385 TTGTT-TTTTTC
1 TTTTTGTTTTTT
57396 TTTTTGTTGTTTT
1 TTTTTGTT-TTTT
57409 TTTTTGTTTTTT
1 TTTTTGTTTTTT
57421 TTTTT-TTTT
1 TTTTTGTTTT
57430 GCGGAGGACG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
11 15 0.31
12 17 0.35
13 17 0.35
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (12 bp):
TTTTTGTTTTTT
Found at i:57391 original size:27 final size:26
Alignment explanation
Indices: 57361--57430 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
57351 ATCCGGACCC
*
57361 TTTTTGTTGTTTTTTTGTTTTGTTTTG
1 TTTTT-TTCTTTTTTTGTTTTGTTTTG
*
57388 TTTTTTTCTTTTTGTTGTTTTTTTTTG
1 TTTTTTTCTTTTT-TTGTTTTGTTTTG
*
57415 TTTTTTTTTTTTTTTG
1 TTTTTTTCTTTTTTTG
57431 CGGAGGACGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 10 0.26
27 29 0.74
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (26 bp):
TTTTTTTCTTTTTTTGTTTTGTTTTG
Found at i:57399 original size:35 final size:34
Alignment explanation
Indices: 57360--57429 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 34
57350 CATCCGGACC
57360 CTTTTTGTTG-TTTTTTTGTTTTGTTTTGTTTTTTT
1 CTTTTTGTTGTTTTTTTTGTTTT-TTTT-TTTTTTT
57395 CTTTTTGTTGTTTTTTTTTGTTTTTTTTTTTTTTT
1 CTTTTTGTTG-TTTTTTTTGTTTTTTTTTTTTTTT
57430 GCGGAGGACG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 17 0.52
36 4 0.12
37 12 0.36
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (34 bp):
CTTTTTGTTGTTTTTTTTGTTTTTTTTTTTTTTT
Found at i:57403 original size:32 final size:30
Alignment explanation
Indices: 57361--57429 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 30
57351 ATCCGGACCC
*
57361 TTTTTGTTGTT-TTTTTGTTTTGTTTTGTTTT
1 TTTTTTTTGTTGTTTTT-TTTTGTTTT-TTTT
57392 TTTCTTTTTGTTGTTTTTTTTTGTTTTTTTT
1 TTT-TTTTTGTTGTTTTTTTTTGTTTTTTTT
57423 TTTTTTT
1 TTTTTTT
57430 GCGGAGGACG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
30 4 0.11
31 10 0.29
32 16 0.46
33 5 0.14
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (30 bp):
TTTTTTTTGTTGTTTTTTTTTGTTTTTTTT
Found at i:60729 original size:13 final size:13
Alignment explanation
Indices: 60711--60736 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60701 CTATTTATGA
60711 TGTATCGATACAC
1 TGTATCGATACAC
60724 TGTATCGATACAC
1 TGTATCGATACAC
60737 ACAAATATGT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:60856 original size:21 final size:22
Alignment explanation
Indices: 60826--60870 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
60816 ACAGTGACCT
60826 ATGAACAGTGATGTATCAATAC
1 ATGAACAGTGATGTATCAATAC
*
60848 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCAATAC
60869 AT
1 AT
60871 TTAAATGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (22 bp):
ATGAACAGTGATGTATCAATAC
Found at i:60954 original size:21 final size:21
Alignment explanation
Indices: 60928--60968 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
60918 GTCAACCTTG
60928 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
60949 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
60969 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:72686 original size:52 final size:52
Alignment explanation
Indices: 72537--72665 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
72527 CAAAATATGA
*
72537 AAATTTGCCTGCATGTATCGATACATTTTATAGTATATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
72589 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
72641 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
72666 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:72743 original size:13 final size:13
Alignment explanation
Indices: 72725--72751 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72715 TACAAAACTT
72725 ATGTATCGATACA
1 ATGTATCGATACA
72738 ATGTATCGATACA
1 ATGTATCGATACA
72751 A
1 A
72752 CACTTTATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:72744 original size:32 final size:33
Alignment explanation
Indices: 72707--72771 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
72697 TAGCTTAAAT
72707 TGTATCGATACAAAAC-TTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
*
72739 TGTATCGATACAACACTTTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
72772 ATCGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGTATCGATACAA
Found at i:73537 original size:19 final size:19
Alignment explanation
Indices: 73494--73565 Score: 126
Period size: 19 Copynumber: 3.7 Consensus size: 19
73484 ATTTCAACGA
73494 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACAT-AAAT
*
73514 ATTGTATCGATACATAAAT
1 TTTGTATCGATACATAAAT
73533 TTTGTATCGATACATAAAT
1 TTTGTATCGATACATAAAT
73552 TTTGTATCGATACA
1 TTTGTATCGATACA
73566 ATTTAACCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 36 0.72
20 14 0.28
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAAT
Found at i:73626 original size:13 final size:13
Alignment explanation
Indices: 73608--73632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73598 ATTACTGAAA
73608 TGTATCGATACAT
1 TGTATCGATACAT
73621 TGTATCGATACA
1 TGTATCGATACA
73633 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:73697 original size:52 final size:52
Alignment explanation
Indices: 73641--73769 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
73631 CACTGATCTT
* *
73641 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
73693 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
73745 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
73770 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:85897 original size:32 final size:33
Alignment explanation
Indices: 85856--85918 Score: 110
Period size: 34 Copynumber: 1.9 Consensus size: 33
85846 TAGCCAAACT
85856 TGTATCGATACAC-AAAATATGTATCGATATAA
1 TGTATCGATACACAAAAATATGTATCGATATAA
85888 TGTATCGATACACAAAAAATATGTATCGATA
1 TGTATCGATACAC-AAAAATATGTATCGATA
85919 CATTGGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.45
34 16 0.55
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATATAA
Found at i:89987 original size:15 final size:15
Alignment explanation
Indices: 89967--89997 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89957 TAAAAATATC
*
89967 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
89982 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
89997 C
1 C
89998 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:92097 original size:13 final size:13
Alignment explanation
Indices: 92079--92116 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
92069 CATTTTTCTT
92079 TGTATCGATACAA
1 TGTATCGATACAA
*
92092 TGTATCGATACAC
1 TGTATCGATACAA
*
92105 TGTATCAATACA
1 TGTATCGATACA
92117 GCGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:92271 original size:20 final size:20
Alignment explanation
Indices: 92228--92273 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
92218 AAATCTTTTG
92228 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
92249 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
92269 CAAAA
1 CAAAA
92274 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:94647 original size:19 final size:19
Alignment explanation
Indices: 94623--94687 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
94613 TAGCCAAACT
94623 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
94642 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
94655 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
94676 TGTATCGATACA
1 TGTATCGATACA
94688 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:94659 original size:13 final size:13
Alignment explanation
Indices: 94641--94666 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94631 TACACAAAAT
94641 ATGTATCGATACA
1 ATGTATCGATACA
94654 ATGTATCGATACA
1 ATGTATCGATACA
94667 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:94664 original size:32 final size:33
Alignment explanation
Indices: 94623--94687 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
94613 TAGCCAAACT
94623 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
94655 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
94688 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:98556 original size:29 final size:29
Alignment explanation
Indices: 98518--98842 Score: 230
Period size: 29 Copynumber: 10.9 Consensus size: 29
98508 TCACCCTTCA
*
98518 AAAGCTCACAAGTCAGTGGCATCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTTC
*
98547 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTTC
* * *
98576 AAAGTCCACAAGTTAGTGGCAACC--TTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTTC
* *
98603 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCCTTTT-C
* *
98633 AAAGCCTACAAGTCGGTGGCAT-CTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCCTTTT-C
* * * *
98662 AAAGTCCACAACTCCGTGGCACTCGCTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCA-T--C---CTTTTC
* * * * * *
98697 TAAGCTCACAACTCCGTAGCACTCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCCTTTT-C
* * *
98728 TTTTAAGCCCACAAGTTAGTGGCACCCTTTTC
1 ---AAAGCCCACAAGTCAGTGGCATCCTTTTC
* *
98760 AAAAGCCCACAAGTCAGTGGCAACC-TTTA
1 -AAAGCCCACAAGTCAGTGGCATCCTTTTC
* *
98789 AAAGCCCACAAGTCAGTAGCAAT-C-TTTA
1 AAAGCCCACAAGTCAGTGGC-ATCCTTTTC
*
98817 AAAGCCCACAAGTCAGTGGCAACCTT
1 AAAGCCCACAAGTCAGTGGCATCCTT
98843 CAAAAGCACA
Statistics
Matches: 238, Mismatches: 41, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
27 24 0.10
28 44 0.18
29 78 0.33
30 45 0.19
32 1 0.00
33 6 0.03
34 16 0.07
35 19 0.08
36 5 0.02
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTTC
Found at i:98613 original size:56 final size:57
Alignment explanation
Indices: 98518--98855 Score: 193
Period size: 56 Copynumber: 5.7 Consensus size: 57
98508 TCACCCTTCA
* * * *
98518 AAAGCTCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTTC
1 AAAGC-CACAAGTCAGTGGCAACC-TTTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
*
98576 AAAGTCCACAAGTTAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAG-CCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
* * * * * * **
98633 AAAGCCTACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCGCTTTCTTTTG
1 AAAGCC-ACAAGTCAGTGGCAACCTTT-CAAAGCCCACAAATCAGTGGCAC-C-C--T-TTTCC
* * * * * * * *
98697 TAAGCTCACAACTCCGTAGC-ACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCA
1 AAAGC-CACAAGTCAGTGGCAAC-C--TTT-C---AAAGCCCACAAATCAGTGGCACCCTTTTCC
* * * ** *
98761 AAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTAGCAATC-TTT-A
1 AAAG-CCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
*
98817 AAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCACACAA
1 AAAG-CCACAAGTCAGTGGCAACCTTTC-AAAGCCCACAA
98856 GTTGATGCAA
Statistics
Matches: 221, Mismatches: 39, Indels: 42
0.73 0.13 0.14
Matches are distributed among these distances:
55 2 0.01
56 60 0.27
57 26 0.12
58 41 0.19
59 21 0.10
60 1 0.00
61 1 0.00
62 3 0.01
63 2 0.01
64 35 0.16
65 5 0.02
66 5 0.02
67 1 0.00
68 1 0.00
69 17 0.08
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (57 bp):
AAAGCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
Found at i:98645 original size:86 final size:86
Alignment explanation
Indices: 98512--98883 Score: 252
Period size: 86 Copynumber: 4.2 Consensus size: 86
98502 CATTCCTCAC
* * * *
98512 CCTTCAAAAGCTCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCA
1 CCTTCAAAAGCCCACAAATCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCCA
98577 AAGTCCACAAGTTAGTGGCAA
66 AAGTCCACAAGTTAGTGGCAA
* *
98598 CCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCTACAAGTCGGTGGCATCTTTTCC
1 CCTTCAAAAGCCCACAAATCAGTGGCACCCTTTT-CAAAGCCCACAAGTCAGTGGCATCTTTTCC
* ** *
98662 AAAGTCCACAACTCCGTGGCACT
65 AAAGTCCACAAGTTAGTGGCA-A
** * * * * * * *
98685 CGCTTTCTTTTGTAAGCTCACAACTCCGTAGCACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGG
1 C-C-TTC----AAAAGCCCACAAATCAGTGGCAC-CCTTTT-C---AAAGCCCACAAGTCAGTGG
* * * *
98750 CACCCTTTTCAAAAGCCCACAAGTCAGTGGCAA
55 CA-TCTTTTCCAAAGTCCACAAGTTAGTGGCAA
* * * ** * * * *
98783 CCTTTAAAAGCCCACAAGTCAGTAGCAATC-TTTAAAAGCCCACAAGTCAGTGGCAAC-CTTCAA
1 CCTTCAAAAGCCCACAAATCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCCA
98846 AAG-CACACAAGTT-GAT-GCAAA
66 AAGTC-CACAAGTTAG-TGGC-AA
98867 CCTTTCAAAAGCCCACA
1 CC-TTCAAAAGCCCACA
98884 CAAGTTGGTG
Statistics
Matches: 226, Mismatches: 42, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
83 4 0.02
84 20 0.09
85 39 0.17
86 69 0.31
87 1 0.00
88 1 0.00
89 3 0.01
90 3 0.01
92 17 0.08
94 17 0.08
95 7 0.03
96 2 0.01
97 1 0.00
98 18 0.08
99 24 0.11
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (86 bp):
CCTTCAAAAGCCCACAAATCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCCA
AAGTCCACAAGTTAGTGGCAA
Found at i:98741 original size:34 final size:35
Alignment explanation
Indices: 98667--98741 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
98657 TTTCCAAAGT
* *
98667 CCACAACTCCGTGGCACTCGCTTTCTTTTGTAAGC
1 CCACAACTCCGTAGCACTCGCTTTCCTTTGTAAGC
* **
98702 TCACAACTCCGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCCGTAGCACTCGCTTTCCTTTGTAAGC
98736 CCACAA
1 CCACAA
98742 GTTAGTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (35 bp):
CCACAACTCCGTAGCACTCGCTTTCCTTTGTAAGC
Found at i:98800 original size:28 final size:28
Alignment explanation
Indices: 98732--98883 Score: 182
Period size: 28 Copynumber: 5.3 Consensus size: 28
98722 TTTTCCTTTT
* *
98732 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
98762 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
98790 AAGCCCACAAGTCAGTAGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
98818 AAGCCCACAAGTCAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
98846 AAGCACACAAGT-TGAT-GCAAACCTTTCAA
1 AAGCCCACAAGTCAG-TGGC-AACCTTT-AA
98875 AAGCCCACA
1 AAGCCCACA
98884 CAAGTTGGTG
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
27 3 0.03
28 71 0.66
29 13 0.12
30 21 0.19
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:98971 original size:48 final size:49
Alignment explanation
Indices: 98903--99143 Score: 281
Period size: 48 Copynumber: 4.9 Consensus size: 49
98893 GGCGTCTTCT
* *
98903 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTC
* * * *
98951 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTC
* * **
98999 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT--CGTC
* *
99051 TTTAAGTCTAATATCGCTGGCCTTGAATCATCATATTGGCACCTT-GTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTC
* * * * *
99099 TTTAAGACCAATGTCGCCGGCCTTGAATCAGCACATTGTCACCTT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
99144 AAAGTCTAAC
Statistics
Matches: 165, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
47 3 0.02
48 115 0.70
49 1 0.01
50 2 0.01
51 2 0.01
52 42 0.25
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTC
Found at i:99101 original size:100 final size:100
Alignment explanation
Indices: 98950--99136 Score: 259
Period size: 100 Copynumber: 1.9 Consensus size: 100
98940 GGCACCTTGT
* *
98950 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGACCAATATCG
** *
99015 TTGGCCTTGAATCAGCATATTGGCGCCTTTGGCAC
66 CCGGCCTTGAATCAGCACATTGGCGCCTTTGGCAC
* * * * * *
99050 CTTTAAGTCTAATATCGCTGGCCTTGAATCATCATATTGGCACCTT-GTCTTTAAGACCAATGTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGACCAATATC
99114 GCCGGCCTTGAATCAGCACATTG
65 GCCGGCCTTGAATCAGCACATTG
99137 TCACCTTAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
100 72 0.96
101 3 0.04
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (100 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGACCAATATCG
CCGGCCTTGAATCAGCACATTGGCGCCTTTGGCAC
Found at i:99907 original size:13 final size:13
Alignment explanation
Indices: 99889--99916 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
99879 TACATAAAAT
99889 ATTGTATCGATAC
1 ATTGTATCGATAC
99902 ATTGTATCGATAC
1 ATTGTATCGATAC
99915 AT
1 AT
99917 AAATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:99931 original size:32 final size:33
Alignment explanation
Indices: 99870--99980 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 33
99860 TTTCAACGAT
99870 TTGTATCGATACATAAAATATTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
*
99903 TTGTATCGATACAT-AAATTTTGTATCGATACAA
1 TTGTATCGATACATAAAATATTGTATCGATAC-A
* * *
99936 TT-TA-AGCTAC-TGCCAAAA-AATGTATCGATACA
1 TTGTATCGATACAT---AAAATATTGTATCGATACA
99968 TTGTATCGATACA
1 TTGTATCGATACA
99981 CTGATCTTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
30 1 0.02
31 4 0.06
32 21 0.33
33 30 0.48
34 7 0.11
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATAAAATATTGTATCGATACA
Found at i:99974 original size:13 final size:13
Alignment explanation
Indices: 99956--99980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99946 TGCCAAAAAA
99956 TGTATCGATACAT
1 TGTATCGATACAT
99969 TGTATCGATACA
1 TGTATCGATACA
99981 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:100047 original size:52 final size:52
Alignment explanation
Indices: 99989--100117 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
99979 CACTGATCTT
*
99989 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
100041 TGTATCGATACGTGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
100093 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
100118 TCATATTTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:101504 original size:13 final size:13
Alignment explanation
Indices: 101486--101521 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
101476 ATTTATGATG
*
101486 TATCGATACACTA
1 TATCGATACAATA
*
101499 TATCGATACAATG
1 TATCGATACAATA
101512 TATCGATACA
1 TATCGATACA
101522 TGAATAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:101647 original size:22 final size:22
Alignment explanation
Indices: 101592--101647 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
101582 ACAGTGACCT
101592 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
101614 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
101635 ATGAACAGTGATG
1 ATGAACAGTGATG
101648 AATAATGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:101713 original size:19 final size:19
Alignment explanation
Indices: 101689--101743 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
101679 CTACTACCAA
101689 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
101708 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
*
101727 TGTATCGATACAAATTT
1 TGTATCGATACATATTT
101744 GGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:101788 original size:53 final size:53
Alignment explanation
Indices: 101708--101844 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
101698 ACATATTTTG
* *
101708 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
101761 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
101814 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
101845 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 64 0.80
54 16 0.20
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:101880 original size:21 final size:20
Alignment explanation
Indices: 101832--101886 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
101822 TACATATTTG
**
101832 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
101852 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
101873 TGTGTATCGATACT
1 TGTGTATCGATACT
101887 TTTCATGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:102852 original size:14 final size:14
Alignment explanation
Indices: 102835--102862 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
102825 ATAAGCTAAG
102835 TTTGATAAAACCAA
1 TTTGATAAAACCAA
102849 TTTGATAAAACCAA
1 TTTGATAAAACCAA
102863 ATTTATGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
TTTGATAAAACCAA
Found at i:105272 original size:83 final size:84
Alignment explanation
Indices: 105184--105348 Score: 210
Period size: 83 Copynumber: 2.0 Consensus size: 84
105174 TCATTTTCCA
* * * *
105184 TTTGCAACTCATTTC-TTTTCTCCTCTAATTCATTTAATTTTTTTTAAAAGAAT-T-ATTTTCTA
1 TTTGCAACTC-TTTCATATTCTCCTCTAATTCACTTAATTTCTTTT-AAAGAATATCATTCTCTA
105246 AACTCATTGATTTACTTTCAT
64 AACTCATTGATTTACTTTCAT
* * *
105267 TTTGCAACTCTTTCATATTCTTCTCTAATTCACTTAATTTCTTTTCAAGAATATCATTCTCTACA
1 TTTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTAAAGAATATCATTCTCTAAA
* *
105332 CTTATTGATTTATTTTC
66 CTCATTGATTTACTTTC
105349 TTCTTTGAGT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
82 10 0.14
83 37 0.53
84 23 0.33
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTAAAGAATATCATTCTCTAAA
CTCATTGATTTACTTTCAT
Found at i:107434 original size:13 final size:13
Alignment explanation
Indices: 107416--107451 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
107406 ATTTATGATG
*
107416 TATCGATACACTA
1 TATCGATACAATA
*
107429 TATCGATACAATG
1 TATCGATACAATA
107442 TATCGATACA
1 TATCGATACA
107452 TGAATAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:107563 original size:10 final size:10
Alignment explanation
Indices: 107544--107574 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
107534 GTATCGATAC
107544 ATGAACAGTG
1 ATGAACAGTG
*
107554 ATGAATAGTG
1 ATGAACAGTG
107564 ATGAACAGTG
1 ATGAACAGTG
107574 A
1 A
107575 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:107662 original size:53 final size:53
Alignment explanation
Indices: 107598--107731 Score: 205
Period size: 53 Copynumber: 2.5 Consensus size: 53
107588 CTACTACCAA
* *
107598 TGTATCGATACATATTTTGTGTATCGAAACAAATTTGGCTACTGCCAGTGACT
1 TGTATCGATACATATTTTGTGTATCGAAACAAATTTGGCTACTGCCAATGACC
* * *
107651 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGAAACAAATTTGGCTACTGCCAATGACC
*
107704 TGTATCGATACATATTTGTGTGTCTCGA
1 TGTATCGATACATATTT-TGTGTATCGA
107732 TACTATGCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 64 0.88
54 9 0.12
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGAAACAAATTTGGCTACTGCCAATGACC
Found at i:114373 original size:33 final size:33
Alignment explanation
Indices: 114335--114403 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
114325 CCATTACAAG
114335 CAATGTAT-TGATACAAT-TCATCATGTATCGATA
1 CAATGTATCT-ATACAATGTC-TCATGTATCGATA
* *
114368 CAATGTATCTATATAATGTCTTATGTATCGATA
1 CAATGTATCTATACAATGTCTCATGTATCGATA
114401 CAA
1 CAA
114404 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 29 0.91
34 3 0.09
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (33 bp):
CAATGTATCTATACAATGTCTCATGTATCGATA
Found at i:120487 original size:13 final size:13
Alignment explanation
Indices: 120469--120493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120459 CAATTCATCA
120469 TGTATCGATACAT
1 TGTATCGATACAT
120482 TGTATCGATACA
1 TGTATCGATACA
120494 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:123049 original size:13 final size:13
Alignment explanation
Indices: 123031--123055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123021 TAATAACCCA
123031 TGTATCGATACAT
1 TGTATCGATACAT
123044 TGTATCGATACA
1 TGTATCGATACA
123056 AAAAACATTT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:127609 original size:3 final size:3
Alignment explanation
Indices: 127601--127646 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
127591 CCTAAGTCAA
* *
127601 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT TAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
127647 TTTGATGGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (3 bp):
CAT
Found at i:129337 original size:20 final size:19
Alignment explanation
Indices: 129312--129387 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
129302 CTGCCAGTTT
**
129312 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
129332 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
129351 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
129372 -ATGTATCGATACAATG
1 CATGTATCGATACAATG
129388 TATCAATACA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.36
20 31 0.62
21 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:129893 original size:14 final size:14
Alignment explanation
Indices: 129874--129900 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
129864 TGATTCTAAA
129874 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
129888 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
129901 AAACTAGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:131139 original size:8 final size:8
Alignment explanation
Indices: 131126--131182 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
131116 ATGTTGTGTA
131126 TTTTAATT
1 TTTTAATT
131134 TTTTAAATT
1 TTTT-AATT
*
131143 TTTTAATCC
1 TTTTAAT-T
*
131152 TTTCAATT
1 TTTTAATT
131160 TTTTAATTCT
1 TTTTAA-T-T
*
131170 TTTTAAGT
1 TTTTAATT
131178 TTTTA
1 TTTTA
131183 TGATAATTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 18 0.45
9 15 0.38
10 7 0.17
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (8 bp):
TTTTAATT
Found at i:131148 original size:17 final size:17
Alignment explanation
Indices: 131126--131182 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
131116 ATGTTGTGTA
131126 TTTTAATTTTTTAAATT
1 TTTTAATTTTTTAAATT
** *
131143 TTTTAATCCTTTCAATT
1 TTTTAATTTTTTAAATT
* *
131160 TTTTAATTCTTTTTAAGT
1 TTTTAATT-TTTTAAATT
131178 TTTTA
1 TTTTA
131183 TGATAATTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 21 0.66
18 11 0.34
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTAATTTTTTAAATT
Found at i:134829 original size:339 final size:331
Alignment explanation
Indices: 134415--135079 Score: 824
Period size: 339 Copynumber: 2.0 Consensus size: 331
134405 TGATCCAAAA
134415 TTTCAAAATTCATAAAATATTATTATTTAATTCATGTTAAATCAGTTTTCAAAAATTCATTTATT
1 TTTCAAAATTCATAAAATATTATTATTTAATTCATGTTAAATCAGTTTTCAAAAATTCATTTATT
* * *
134480 TTCGTAAATGTTTCAATTTTTTTCTTGAAAATC-CATTGTTTTCGAAATACAGAGGGATTTTTCT
66 TTCATAAATGTTTCAATTTTTTCCTTGAAAAACTCA-TGTTTTCGAAATACAGA---A------T
*
134544 TTATTTAACTCTATAAATGTTTTCGGAGGGATTTTTCTTGGTTTTT-TTTAAAAAAAGTTTATCA
121 TT-TTT-ACTCCATAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTATTT-AAAAAA-TTTATCA
* * *
134608 AATATTATTATTTAATT-ATGTTAAATTAGTTTTCAAAAATTCATTTATTTTCATAAAATTTTCA
182 AATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATAAAATTTTCA
* *
134672 A-TTTTTTCCTTGAAACT-CTCCTATTTTTGAAATA-GGAGTTTTTTACTCCATAAATGTTTTCG
247 ATTTTTTTCCTTGAAA-TACTCCTATTTTTGAAACATCGAGTTTTTTACTCCATAAATGTTTTCG
134734 GAGGG-ATTTTTCTTGGTTTTT
311 G-GGGAATTTTTCTTGGTTTTT
** * * * *
134755 TTTC-AAATTCATAAAATATTATTATTTAATTTTTTTTAAATTAGTTTTCAAAATTTTATTTATT
1 TTTCAAAATTCATAAAATATTATTATTTAATTCATGTTAAATCAGTTTTCAAAAATTCATTTATT
* *
134819 TTCATAAATGTTTTAATTTTTTCCTTGAAAAACTCATGTTTTTGAAATACAGAATTTTTTACTCC
66 TTCATAAATGTTTCAATTTTTTCCTTGAAAAACTCATGTTTTCGAAATACAGAATTTTTTACTCC
* * * **
134884 GTAAATGTTTTTGGTGGGATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAATATTATTATTT
131 ATAAATGTTTTCGGAGGGATTTTTCTTGGTTTTT-ATTTAAAAAATTTATCAAATATTATTATTT
* * ** *
134949 AATTCATATTAAATCAGTTTTCAAAAGTTCATTCATTTTCATGAGTTTTTGAATTTTTTTCCTTG
195 AATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATAAAATTTTCAATTTTTTTCCTTG
* * * * * *
135014 AAATATTTCTGTTTTTGAAACATCGAGTTTTTTATTCTATAGATGTTTTCGGGGGAATTTTTCTT
260 AAATACTCCTATTTTTGAAACATCGAGTTTTTTACTCCATAAATGTTTTCGGGGGAATTTTTCTT
135079 G
325 G
135080 ATCTAAAATT
Statistics
Matches: 284, Mismatches: 33, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
328 59 0.21
329 48 0.17
330 36 0.13
331 35 0.12
336 1 0.00
339 99 0.35
340 6 0.02
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.51
Consensus pattern (331 bp):
TTTCAAAATTCATAAAATATTATTATTTAATTCATGTTAAATCAGTTTTCAAAAATTCATTTATT
TTCATAAATGTTTCAATTTTTTCCTTGAAAAACTCATGTTTTCGAAATACAGAATTTTTTACTCC
ATAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTATTTAAAAAATTTATCAAATATTATTATTTA
ATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATAAAATTTTCAATTTTTTTCCTTGA
AATACTCCTATTTTTGAAACATCGAGTTTTTTACTCCATAAATGTTTTCGGGGGAATTTTTCTTG
GTTTTT
Found at i:134839 original size:162 final size:161
Alignment explanation
Indices: 134551--135079 Score: 607
Period size: 167 Copynumber: 3.2 Consensus size: 161
134541 TCTTTATTTA
*
134551 ACTCTATAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTTTTAAAAAAAGTTTATCAAATATTAT
1 ACTCCATAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTTTT---AAAA-TTTATCAAATATTAT
* *
134616 TATTTAA-TTATGTTAAATTAGTTTTCAAAAATTCATTTATTTTCATAAAATTTTCAATTTTTTC
62 TATTTAATTTATATTAAATTAGTTTTCAAAAATTCATTTATTTTCAT-AAATTTTTAATTTTTTC
* *
134680 CTTGAAACTCTCCTATTTTTGAAATA-GGAGTTTTTT
126 CTTGAAA-TCTCCTGTTTTTGAAATACAGAGTTTTTT
* * *
134716 ACTCCATAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTTTTCAAATTCATAAAATATTATTATT
1 ACTCCATAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTTTTAAAATTTATCAAATATTATTATT
* * * *
134781 TAATTTTTTTTAAATTAGTTTTCAAAATTTTATTTATTTTCATAAATGTTTTAATTTTTTCCTTG
66 TAATTTATATTAAATTAGTTTTCAAAAATTCATTTATTTTCATAAAT-TTTTAATTTTTTCCTTG
* * *
134846 AAAAACTCATGTTTTTGAAATACAGAATTTTTT
130 -AAATCTCCTGTTTTTGAAATACAGAGTTTTTT
* * *
134879 ACTCCGTAAATGTTTTTGGTGGGATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAATATTAT
1 ACTCCATAAATGTTTTCGGAGGGATTTTTCTTGG--TTT--TTTTTAAAATTTATCAAATATTAT
* * * * * *
134944 TATTTAATTCATATTAAATCAGTTTTCAAAAGTTCATTCATTTTCATGAGTTTTTGAATTTTTTT
62 TATTTAATTTATATTAAATTAGTTTTCAAAAATTCATTTATTTTCATAAATTTTT-AA-TTTTTT
* * *
135009 CCTTGAAATATTTCTGTTTTTGAAACATC-GAGTTTTTT
125 CCTTGAAAT-CTCCTGTTTTTGAAATA-CAGAGTTTTTT
* * *
135047 ATTCTATAGATGTTTTCGG-GGGAATTTTTCTTG
1 ACTCCATAAATGTTTTCGGAGGG-ATTTTTCTTG
135080 ATCTAAAATT
Statistics
Matches: 311, Mismatches: 40, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
161 24 0.08
162 69 0.22
163 42 0.14
165 44 0.14
166 4 0.01
167 71 0.23
168 56 0.18
169 1 0.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.52
Consensus pattern (161 bp):
ACTCCATAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTTTTAAAATTTATCAAATATTATTATT
TAATTTATATTAAATTAGTTTTCAAAAATTCATTTATTTTCATAAATTTTTAATTTTTTCCTTGA
AATCTCCTGTTTTTGAAATACAGAGTTTTTT
Found at i:135500 original size:13 final size:13
Alignment explanation
Indices: 135483--135528 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
135473 AGCTGGTAGG
*
135483 AAAAAGAAGAGAG
1 AAAAAGAAGAGAA
135496 AAAAAG-AGAGAA
1 AAAAAGAAGAGAA
135508 AGAAAAGAA-AGAA
1 A-AAAAGAAGAGAA
135521 AAAAAGAA
1 AAAAAGAA
135529 AAAAATAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 13 0.43
13 16 0.53
14 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAAAGAAGAGAA
Found at i:135505 original size:12 final size:12
Alignment explanation
Indices: 135483--135544 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 12
135473 AGCTGGTAGG
*
135483 AAAAAGAAGAGAG
1 AAAAAG-AGAGAA
135496 AAAAAGAGAGAA
1 AAAAAGAGAGAA
*
135508 AGAAAAGAAAGAA
1 A-AAAAGAGAGAA
135521 AAAAAGA-A-AA
1 AAAAAGAGAGAA
* *
135531 AAATAGTGAGAA
1 AAAAAGAGAGAA
135543 AA
1 AA
135545 TTGGAAAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
10 7 0.17
11 2 0.05
12 16 0.38
13 17 0.40
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (12 bp):
AAAAAGAGAGAA
Found at i:135526 original size:8 final size:8
Alignment explanation
Indices: 135482--135533 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
135472 TAGCTGGTAG
135482 GAAAAAGAA
1 GAAAAA-AA
135491 GAGAGAAAAA
1 GA-A-AAAAA
* *
135501 GAGAGAAA
1 GAAAAAAA
135509 GAAAAGAAA
1 GAAAA-AAA
135518 GAAAAAAA
1 GAAAAAAA
135526 GAAAAAAA
1 GAAAAAAA
135534 TAGTGAGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
8 18 0.50
9 10 0.28
10 5 0.14
11 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:139238 original size:65 final size:66
Alignment explanation
Indices: 139152--139279 Score: 168
Period size: 65 Copynumber: 2.0 Consensus size: 66
139142 AGTGCCAATG
* * * * *
139152 GCAACCAGAGTAGTTGGGCATAATACTTGGAGTTGCTGCACCA-TACTCTGCATGGTAGAACCCT
1 GCAACAAGAGTAGCTGAGCATAATACTTGAAGTTGCTACACCACTACTCTGCATGGTAGAACCCT
139216 A
66 A
* * * *
139217 GCAACAAGAGTAGCTGAGCATAGTACTTGAAGTTGCTACACCACTACTTTGTATGTTAGAACC
1 GCAACAAGAGTAGCTGAGCATAATACTTGAAGTTGCTACACCACTACTCTGCATGGTAGAACC
139280 AATGGAAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
65 37 0.70
66 16 0.30
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (66 bp):
GCAACAAGAGTAGCTGAGCATAATACTTGAAGTTGCTACACCACTACTCTGCATGGTAGAACCCT
A
Found at i:140176 original size:167 final size:166
Alignment explanation
Indices: 140003--141140 Score: 648
Period size: 167 Copynumber: 6.8 Consensus size: 166
139993 TTTTAATTCC
* * * * *
140003 AAAATTCCTTAAATATTATCATTTAATCACTATAAAATTATTTTTAAAATTTTTTTTTTTATTTT
1 AAAATTCATCAAATATTATTATTTAATCACTATAAAATTATTTTTAAAA-TTTTTTTTTCATTTC
*
140068 ATAACTTGTT-AATTTTC-CTTGAGAATTCTTTCTATTTTCAAAATACGAAGTTTTTTACTTCGT
65 ATAACTT-TTCAATTTTCTCTTGA-AATTCTTTCTATTTTCAAAATACGAAGTTTTCTACTTCGT
* * *
140131 AAATTTTTTTAGAAAAATTTTTATTGATCCAAAACATTT
128 AAATGTTTTTGGAAAAATTTTTATTGATCCAAAACTTTT
* * * * *
140170 AAAATTCATCAAATATTATTATTTAATTTA-TATTAAATCAATTTTGAAAA--TTTTATTCATTT
1 AAAATTCATCAAATATTATTATTTAA-TCACTATAAAAT-TATTTTTAAAATTTTTTTTTCA-TT
* * * * * ** *
140232 TCATGAGTTTTCATTTTTCTTTTTGAAATT-TTCCTATTTTTGAAATACGGAGTTTTCTACTTTC
63 TCATAACTTTTCAATTTTC-TCTTGAAATTCTTTCTATTTTCAAAATACGAAGTTTTCTAC-TTC
* * * * **** *
140296 GTAAATGTTTTTGGGAGAATTTTTCTTGGTTTTTAATTTTT
126 GTAAATGTTTTTGGAAAAATTTTTATTGATCCAAAACTTTT
* * * *
140337 AAAATTCATCAAATATTATTATTTAATTC-TTATTAAATTAGTTTTGAAAAATTCGTTCATTTTC
1 AAAATTCATCAAATATTATTATTTAA-TCACTATAAAATTA-TTTT-TAAAATT--TT-TTTTTC
* * * *
140401 A-TTCAT---TTTTCATTTTTCTCTTTGAAATTCTCTTGT-TTAT-AAAATA-TAGAGTTTTCTA
60 ATTTCATAACTTTTCAATTTTCTC-TTGAAATTCT-TTCTATTTTCAAAATACGA-AGTTTTCTA
* * * * **** *
140459 C-TCGGTAAGTGTTTTTGGAGAGATTTTTCTT-AGTTTTTAATTTTT
122 CTTC-GTAAATGTTTTTGGAAAAATTTTTATTGA-TCCAAAACTTTT
* * *
140504 AAAATTCATCAAATATTATCATTTAATCACTATAAAATTATTTTTAAAAAATTCTTTTT-ATTTC
1 AAAATTCATCAAATATTATTATTTAATCACTATAAAATTATTTTT-AAAATTTTTTTTTCATTTC
*
140568 ATAACTTGTT-AATTTTC-CTTGAGAATTCTTTCTATTTTCAAAATACGAAGTTTTCTACTTTGT
65 ATAACTT-TTCAATTTTCTCTTGA-AATTCTTTCTATTTTCAAAATACGAAGTTTTCTACTTCGT
* * *
140631 AAATTTTTTTCGAAAAATTTTCATTGATCCAAAACTTTT
128 AAATGTTTTTGGAAAAATTTTTATTGATCCAAAACTTTT
* * * * * * *
140670 AAAATTCATCAAATTTTATTATTTAATTTA-TATTAAATCAGTTTTGAAAA--ATTTATTCATTT
1 AAAATTCATCAAATATTATTATTTAA-TCACTATAAAATTA-TTTTTAAAATTTTTTTTTCA-TT
* * * * * *
140732 TCATGAGTTTTCATTTTTCTCTTTGAAATT-TTCCTATTTTCGAAATACGGAGTTTTCTACTCTC
63 TCATAACTTTTCAATTTTCTC-TTGAAATTCTTTCTATTTTCAAAATACGAAGTTTTCTACT-TC
* * * * **** *
140796 GTAAATGTTTTTGGGAGAATTTTTCTTGGTTTTTAATTTTT
126 GTAAATGTTTTTGGAAAAATTTTTATTGATCCAAAACTTTT
* * *
140837 AAAATTCATCAAATATTATTA-TTAAT-ATCTTATTAAATTAGTTTTGAAAAATTCGTTCATTTT
1 AAAATTCATCAAATATTATTATTTAATCA-C-TATAAAATTA-TTTT-TAAAATT--TT-TTTTT
* * * *
140900 CA-TTCAT---TTTTCATTTTTCTCTTTGAAATTCTCTTGT-TTAT-AAAATA-TAGAGTTTTCT
59 CATTTCATAACTTTTCAATTTTCTC-TTGAAATTCT-TTCTATTTTCAAAATACGA-AGTTTTCT
* * * * **** *
140958 AC-TCGATAAGTGTTTTTGGAGAGATTTTTCTT-AGTTTTTAATTTTT
121 ACTTCG-TAAATGTTTTTGGAAAAATTTTTATTGA-TCCAAAACTTTT
* * * *
141004 AAAATTCATCAAATATTATTATTTAATTCA-TATTAAATCCATTTTAAAAAATTCATTCATTTTC
1 AAAATTCATCAAATATTATTATTTAA-TCACTATAAAAT-TATTTT-TAAAATT--TT-TTTTTC
* * * *
141068 A-TTCAT---TTTTCATTTTTCTCTTTGAAATT-TTCCTA-TTTCTAAAATACGAAGTTTTTTGC
60 ATTTCATAACTTTTCAATTTTCTC-TTGAAATTCTTTCTATTTTC-AAAATACGAAGTTTTCTAC
*
141127 TCCGTAAATGTTTT
123 TTCGTAAATGTTTT
141141 CGAGGGCATT
Statistics
Matches: 776, Mismatches: 130, Indels: 130
0.75 0.13 0.13
Matches are distributed among these distances:
162 1 0.00
163 9 0.01
164 13 0.02
165 27 0.03
166 191 0.25
167 390 0.50
168 108 0.14
169 9 0.01
170 5 0.01
171 10 0.01
172 3 0.00
173 10 0.01
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.51
Consensus pattern (166 bp):
AAAATTCATCAAATATTATTATTTAATCACTATAAAATTATTTTTAAAATTTTTTTTTCATTTCA
TAACTTTTCAATTTTCTCTTGAAATTCTTTCTATTTTCAAAATACGAAGTTTTCTACTTCGTAAA
TGTTTTTGGAAAAATTTTTATTGATCCAAAACTTTT
Found at i:140673 original size:500 final size:500
Alignment explanation
Indices: 140003--141519 Score: 2037
Period size: 500 Copynumber: 3.0 Consensus size: 500
139993 TTTTAATTCC
* * ** * *
140003 AAAATTCCTTAAATATTATCATTTAATCACTATAAAATTATTTTTAAAATTTTTTTTTTTATTTT
1 AAAATTCATCAAATATTATCATTTAATCACTATAAAATTATTTTTAAAA-AATTCTTTTTATTTC
140068 ATAACTTGTTAATTTTCCTTGAGAATTCTTTCTATTTTCAAAATACGAAGTTTTTTACTTCGTAA
65 ATAACTTGTTAATTTTCCTTGAGAATTCTTTCTATTTTCAAAATACGAAGTTTTTTACTTCGTAA
* * *
140133 ATTTTTTTAGAAAAATTTTTATTGATCCAAAACATTTAAAATTCATCAAATATTATTATTTAATT
130 ATTTTTTTCGAAAAATTTTCATTGATCCAAAACTTTTAAAATTCATCAAATATTATTATTTAATT
* *
140198 TATATTAAATCAATTTTGAAAATTTTATTCATTTTCATGAGTTTTCATTTTTCTTTTTGAAATTT
195 TATATTAAATCAATTTTGAAAAATTTATTCATTTTCATGAGTTTTCATTTTTCTCTTTGAAATTT
140263 TCCTATTTTTGAAATACGGAGTTTTCTACTTTCGTAAATGTTTTTGGGAGAATTTTTCTTGGTTT
260 TCCTATTTTTGAAATACGGAGTTTTCTACTTTCGTAAATGTTTTTGGGAGAATTTTTCTTGGTTT
140328 TTAATTTTTAAAATTCATCAAATATTATTATTTAATTCTTATTAAATTAGTTTTGAAAAATTCGT
325 TTAATTTTTAAAATTCATCAAATATTATTATTTAATTCTTATTAAATTAGTTTTGAAAAATTCGT
140393 TCATTTTCATTCATTTTTCATTTTTCTCTTTGAAATTCTCTTGTTTATAAAATATAGAGTTTTCT
390 TCATTTTCATTCATTTTTCATTTTTCTCTTTGAAATTCTCTTGTTTATAAAATATAGAGTTTTCT
140458 ACTCGGTAAGTGTTTTTGGAGAGATTTTTCTTAGTTTTTAATTTTT
455 ACTCGGTAAGTGTTTTTGGAGAGATTTTTCTTAGTTTTTAATTTTT
140504 AAAATTCATCAAATATTATCATTTAATCACTATAAAATTATTTTTAAAAAATTCTTTTTATTTCA
1 AAAATTCATCAAATATTATCATTTAATCACTATAAAATTATTTTTAAAAAATTCTTTTTATTTCA
* *
140569 TAACTTGTTAATTTTCCTTGAGAATTCTTTCTATTTTCAAAATACGAAGTTTTCTACTTTGTAAA
66 TAACTTGTTAATTTTCCTTGAGAATTCTTTCTATTTTCAAAATACGAAGTTTTTTACTTCGTAAA
*
140634 TTTTTTTCGAAAAATTTTCATTGATCCAAAACTTTTAAAATTCATCAAATTTTATTATTTAATTT
131 TTTTTTTCGAAAAATTTTCATTGATCCAAAACTTTTAAAATTCATCAAATATTATTATTTAATTT
*
140699 ATATTAAATCAGTTTTGAAAAATTTATTCATTTTCATGAGTTTTCATTTTTCTCTTTGAAATTTT
196 ATATTAAATCAATTTTGAAAAATTTATTCATTTTCATGAGTTTTCATTTTTCTCTTTGAAATTTT
* *
140764 CCTATTTTCGAAATACGGAGTTTTCTACTCTCGTAAATGTTTTTGGGAGAATTTTTCTTGGTTTT
261 CCTATTTTTGAAATACGGAGTTTTCTACTTTCGTAAATGTTTTTGGGAGAATTTTTCTTGGTTTT
140829 TAATTTTTAAAATTCATCAAATATTATTA-TTAATATCTTATTAAATTAGTTTTGAAAAATTCGT
326 TAATTTTTAAAATTCATCAAATATTATTATTTAAT-TCTTATTAAATTAGTTTTGAAAAATTCGT
140893 TCATTTTCATTCATTTTTCATTTTTCTCTTTGAAATTCTCTTGTTTATAAAATATAGAGTTTTCT
390 TCATTTTCATTCATTTTTCATTTTTCTCTTTGAAATTCTCTTGTTTATAAAATATAGAGTTTTCT
*
140958 ACTCGATAAGTGTTTTTGGAGAGATTTTTCTTAGTTTTTAATTTTT
455 ACTCGGTAAGTGTTTTTGGAGAGATTTTTCTTAGTTTTTAATTTTT
* * * * *
141004 AAAATTCATCAAATATTATTATTTAATTCA-TATTAAATCCA-TTTTAAAAAATTC-ATTCATTT
1 AAAATTCATCAAATATTATCATTTAA-TCACTATAAAAT-TATTTTTAAAAAATTCTTTTTA-TT
* * * * *
141066 TCAT-TCATTTTTCATTTTTCTCTTTGA-AATT-TTCCTA-TTTCTAAAATACGAAGTTTTTTGC
63 TCATAAC-TTGTT-AATTTTC-C-TTGAGAATTCTTTCTATTTTC-AAAATACGAAGTTTTTTAC
* * ** * * **** * *
141127 TCCGTAAA-TGTTTTCGAGGGCATTTTTC-TTGGTTTTTAATTTTTAAAATTCATCAAATAATAT
123 TTCGTAAATTTTTTTCGA--AAAATTTTCATTGATCCAAAACTTTTAAAATTCATCAAATATTAT
* * * * * *
141190 TATTGAATTTATATTAAATTATTTTTGAAAAATTCATTCATTTTCATTCATTTTTCATTTTTCTC
186 TATTTAATTTATATTAAATCAATTTTGAAAAATTTATTCATTTTCA-TGAGTTTTCATTTTTCTC
* * * * * * *
141255 TTTGAAA-TTTCCTTATTTTTGAAGTATGAAGTTTTCTAC-TCCGTAAATATTTTTGGGGGGATT
250 TTTGAAATTTTCC-TATTTTTGAAATACGGAGTTTTCTACTTTCGTAAATGTTTTTGGGAGAATT
* * * *
141318 TTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTAATTCATGTTAAATCT-TTTT
314 TTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCTTATTAAAT-TAGTTT
* * * * * * *
141382 TCAAAAATTCATTTATTTTCA-TGAGTTTTTTA-TTTT-T-TTTGAAAATTTTCTTATTT-TCGA
378 TGAAAAATTCGTTCATTTTCATTCA-TTTTTCATTTTTCTCTTTG-AAATTCTCTTGTTTAT--A
* * * * * * * * * **
141442 AAA-ATCGAGTTTTCTACTCTGTAAATGTTTTCGGGGGGATCTTCCCTAGTTTAAAATTTTT
439 AAATATAGAGTTTTCTACTCGGTAAGTGTTTTTGGAGAGATTTTTCTTAGTTTTTAATTTTT
* *
141503 GAAATTCATCTAATATT
1 AAAATTCATCAAATATT
141520 GTTATTAAGT
Statistics
Matches: 914, Mismatches: 83, Indels: 40
0.88 0.08 0.04
Matches are distributed among these distances:
498 5 0.01
499 83 0.09
500 506 0.55
501 254 0.28
502 62 0.07
503 4 0.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.51
Consensus pattern (500 bp):
AAAATTCATCAAATATTATCATTTAATCACTATAAAATTATTTTTAAAAAATTCTTTTTATTTCA
TAACTTGTTAATTTTCCTTGAGAATTCTTTCTATTTTCAAAATACGAAGTTTTTTACTTCGTAAA
TTTTTTTCGAAAAATTTTCATTGATCCAAAACTTTTAAAATTCATCAAATATTATTATTTAATTT
ATATTAAATCAATTTTGAAAAATTTATTCATTTTCATGAGTTTTCATTTTTCTCTTTGAAATTTT
CCTATTTTTGAAATACGGAGTTTTCTACTTTCGTAAATGTTTTTGGGAGAATTTTTCTTGGTTTT
TAATTTTTAAAATTCATCAAATATTATTATTTAATTCTTATTAAATTAGTTTTGAAAAATTCGTT
CATTTTCATTCATTTTTCATTTTTCTCTTTGAAATTCTCTTGTTTATAAAATATAGAGTTTTCTA
CTCGGTAAGTGTTTTTGGAGAGATTTTTCTTAGTTTTTAATTTTT
Found at i:141154 original size:167 final size:165
Alignment explanation
Indices: 140167--141557 Score: 1363
Period size: 167 Copynumber: 8.4 Consensus size: 165
140157 ATCCAAAACA
* * * * *
140167 TTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAATTTTGAAAATTTTATTCATTT
1 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTGAAAAATTCATTCATTT
* * * * * *
140232 TCATGAGTTTTCATTTTTCTTTTTGAAATTTTCCTATTTTTGAAATACGGAGTTTTCTACTTTCG
66 TCATCATTTTTCATTTTTCTCTTTGAAATTTTCCTA-TTTTAAAATACGAAGTTTTCTAC-TCCG
*
140297 TAAATGTTTTTG-GGAGAATTTTTCTTGGTTTTTAATT
129 TAAATGTTTTCGAGG-GAATTTTTCTTGGTTTTTAATT
* *
140334 TTTAAAATTCATCAAATATTATTATTTAATTCTTATTAAATTAGTTTTGAAAAATTCGTTCATTT
1 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTGAAAAATTCATTCATTT
* * * * *
140399 TCATTCATTTTTCATTTTTCTCTTTGAAATTCTCTTGTTTATAAAATA-TAGAGTTTTCTACTCG
66 TCA-TCATTTTTCATTTTTCTCTTTGAAATTTTCCTATTT-TAAAATACGA-AGTTTTCTACTCC
* * * *
140463 GTAAGTGTTTTTG-GAGAGATTTTTCTTAGTTTTTAATT
128 GTAAATGTTTTCGAGGGA-ATTTTTCTTGGTTTTTAATT
* * * * **
140501 TTTAAAATTCATCAAATATTATCATTTAA-TCACTATAAAATTATTTTTAAAAAATTC-TTTTTA
1 TTTAAAATTCATCAAATATTATTATTTAATTCA-TATTAAATTAGTTTTGAAAAATTCATTCAT-
* * * *
140564 TTTCATAACTTGTT-AATTTTC-C-TTGAGAATTCTTTCTATTTTCAAAATACGAAGTTTTCTAC
64 TTTCATCA-TTTTTCATTTTTCTCTTTGA-AATT-TTCCTATTTT-AAAATACGAAGTTTTCTAC
** * * * * **** *
140626 TTTGTAAATTTTTTTCGA--AAAATTTTCATTGATCCAAAACT
125 TCCGTAAA-TGTTTTCGAGGGAATTTTTC-TTGGTTTTTAATT
* * * *
140667 TTTAAAATTCATCAAATTTTATTATTTAATTTATATTAAATCAGTTTTGAAAAATTTATTCATTT
1 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTGAAAAATTCATTCATTT
* * * *
140732 TCATGAGTTTTCATTTTTCTCTTTGAAATTTTCCTATTTTCGAAATACGGAGTTTTCTACTCTCG
66 TCATCATTTTTCATTTTTCTCTTTGAAATTTTCCTATTTT-AAAATACGAAGTTTTCTACTC-CG
*
140797 TAAATGTTTTTG-GGAGAATTTTTCTTGGTTTTTAATT
129 TAAATGTTTTCGAGG-GAATTTTTCTTGGTTTTTAATT
* *
140834 TTTAAAATTCATCAAATATTATTA-TTAATATCTTATTAAATTAGTTTTGAAAAATTCGTTCATT
1 TTTAAAATTCATCAAATATTATTATTTAAT-TCATATTAAATTAGTTTTGAAAAATTCATTCATT
* * * *
140898 TTCATTCATTTTTCATTTTTCTCTTTGAAATTCTCTTGTTTATAAAATA-TAGAGTTTTCTACT-
65 TTCA-TCATTTTTCATTTTTCTCTTTGAAATTTTCCTATTT-TAAAATACGA-AGTTTTCTACTC
* * * *
140961 CGATAAGTGTTTTTG-GAGAGATTTTTCTTAGTTTTTAATT
127 CG-TAAATGTTTTCGAGGGA-ATTTTTCTTGGTTTTTAATT
* *
141001 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCCA-TTTTAAAAAATTCATTCATT
1 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT-TAGTTTTGAAAAATTCATTCATT
* *
141065 TTCATTCATTTTTCATTTTTCTCTTTGAAATTTTCCTATTTCTAAAATACGAAGTTTTTTGCTCC
65 TTCA-TCATTTTTCATTTTTCTCTTTGAAATTTTCCTATTT-TAAAATACGAAGTTTTCTACTCC
*
141130 GTAAATGTTTTCGAGGGCATTTTTCTTGGTTTTTAATT
128 GTAAATGTTTTCGAGGGAATTTTTCTTGGTTTTTAATT
* * * *
141168 TTTAAAATTCATCAAATAATATTATTGAATTTATATTAAATTATTTTTGAAAAATTCATTCATTT
1 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTGAAAAATTCATTCATTT
* * *
141233 TCATTCATTTTTCATTTTTCTCTTTGAAA-TTTCCTTATTTTTGAAGTATGAAGTTTTCTACTCC
66 TCA-TCATTTTTCATTTTTCTCTTTGAAATTTTCC-TA-TTTTAAAATACGAAGTTTTCTACTCC
* * * *
141297 GTAAATATTTTTGGGGGGATTTTTCTTGGTTTTTAATT
128 GTAAATGTTTTCGAGGGAATTTTTCTTGGTTTTTAATT
* * * * *
141335 TTTAAAATTCATAAAATATTATTATTTAATTCATGTTAAATCT-TTTTTCAAAAATTCATTTATT
1 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT-TAGTTTTGAAAAATTCATTCATT
* * *
141399 TTCATGAGTTTTTTA-TTTT-T-TTTGAAAATTTTCTTATTTTCGAAAA-ATCG-AGTTTTCTAC
65 TTCATCA-TTTTTCATTTTTCTCTTTG-AAATTTTCCTATTTT--AAAATA-CGAAGTTTTCTAC
* * * * * * * **
141459 TCTGTAAATGTTTTCGGGGGGATCTTCCCTAGTTTAAAATT
125 TCCGTAAATGTTTTCGAGGGAATTTTTCTTGGTTTTTAATT
* * * * * *
141500 TTTGAAATTCATCTAATATTGTTA-TTAAGTTCACATTAAATCAGTTTTAAAAAATTCA
1 TTTAAAATTCATCAAATATTATTATTTAA-TTCATATTAAATTAGTTTTGAAAAATTCA
141558 AATTATTTCA
Statistics
Matches: 1021, Mismatches: 157, Indels: 94
0.80 0.12 0.07
Matches are distributed among these distances:
164 16 0.02
165 107 0.10
166 169 0.17
167 612 0.60
168 116 0.11
169 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (165 bp):
TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTGAAAAATTCATTCATTT
TCATCATTTTTCATTTTTCTCTTTGAAATTTTCCTATTTTAAAATACGAAGTTTTCTACTCCGTA
AATGTTTTCGAGGGAATTTTTCTTGGTTTTTAATT
Found at i:142066 original size:4 final size:4
Alignment explanation
Indices: 142057--142088 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
142047 GGGAGAGAAG
142057 AAGA AAGA AAGA AA-A AAGA AA-A AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
142089 ATAAGGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.23
4 20 0.77
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:142074 original size:11 final size:11
Alignment explanation
Indices: 142057--142089 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
142047 GGGAGAGAAG
142057 AAGAAAGAAAGA
1 AAGAAAGAAA-A
142069 AA-AAAGAAAA
1 AAGAAAGAAAA
142079 AAGAAAGAAAA
1 AAGAAAGAAAA
142090 TAAGGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.15
11 15 0.75
12 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:142081 original size:18 final size:19
Alignment explanation
Indices: 142054--142100 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
142044 AAAGGGAGAG
*
142054 AAGAAGAAAGAAAGAAAA-
1 AAGAAAAAAGAAAGAAAAT
142072 AAGAAAAAAGAAAGAAAAT
1 AAGAAAAAAGAAAGAAAAT
*
142091 AAGGAAAAAG
1 AAGAAAAAAG
142101 CTTATGTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAGAAAGAAAAT
Found at i:145380 original size:81 final size:82
Alignment explanation
Indices: 145209--145414 Score: 199
Period size: 81 Copynumber: 2.5 Consensus size: 82
145199 TGAAAATCGA
* * * **
145209 GATTAGAGTATCCCCTCGAAAATGGTAGGGTTGGAGTATCCCCTGAGATGAAAATTTTGATGTTT
1 GATTAGAGTATCCCCTCGAAAATGATAGGATTGGAGTATCCCCTGAGATGAAAAATTCAATGTTT
145274 TGAAAAATAAAAATAGG
66 TGAAAAATAAAAATAGG
*
145291 G-TTAGAGTATCCCTTCCG-AAATGATAGGATTGGAGTAT-CCCTAGAGATGAAGAAATTCAATG
1 GATTAGAGTATCCCCT-CGAAAATGATAGGATTGGAGTATCCCCT-GAGATGAA-AAATTCAATG
* * *
145353 TTTT-AGAAGTAAAAA-CGG
63 TTTTGAAAAATAAAAATAGG
* ** * * *
145371 GATTGGAGTATCCTTTC-AAAATTCATGGGGTTGGAGTATCCCCT
1 GATTAGAGTATCCCCTCGAAAA-TGATAGGATTGGAGTATCCCCT
145415 CGAAGATGGT
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
80 11 0.11
81 74 0.72
82 18 0.17
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (82 bp):
GATTAGAGTATCCCCTCGAAAATGATAGGATTGGAGTATCCCCTGAGATGAAAAATTCAATGTTT
TGAAAAATAAAAATAGG
Found at i:145642 original size:140 final size:139
Alignment explanation
Indices: 145444--145695 Score: 339
Period size: 140 Copynumber: 1.8 Consensus size: 139
145434 GTATTCCTTG
* * * *
145444 AGATGAAAATTTTATGCTTTGGAAAATAAAAATGGGGTTGGAGTATTCCCTCAAAAATGA-CGGG
1 AGATGAAAATTTTATGCTTTGAAAAATAAAAACGAGGTTGGAGTATTCCCTCAAAAATGATAGGG
* *
145508 ATTGGAGTATCCGAAAGATAAAGAAA-TTCAATGTTTTAGAAGTAAAAACAAGGTTTAGGGTTAG
66 -TTAGAGTATCCCAAAGATAAAGAAAGTT-AATGTTTTAGAAGTAAAAACAAGGTTTAGGGTTAG
145572 AATATCCCCTA
129 AATATCCCCTA
* * *
145583 AGATGAAAATTTTGATGTTTTGAAAAATAAAAACGAGGTTGGAGTA-TCCTTCTAGAAATGATAG
1 AGATGAAAATTTT-ATGCTTTGAAAAATAAAAACGAGGTTGGAGTATTCCCTC-AAAAATGATAG
** *
145647 GGTTAGAGTATCCCTGAGATAAAGAAAGTTGATGTTTTAGAAGTAAAAA
64 GGTTAGAGTATCCCAAAGATAAAGAAAGTTAATGTTTTAGAAGTAAAAA
145696 TGGGGTTGGA
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
139 18 0.19
140 74 0.76
141 5 0.05
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (139 bp):
AGATGAAAATTTTATGCTTTGAAAAATAAAAACGAGGTTGGAGTATTCCCTCAAAAATGATAGGG
TTAGAGTATCCCAAAGATAAAGAAAGTTAATGTTTTAGAAGTAAAAACAAGGTTTAGGGTTAGAA
TATCCCCTA
Found at i:145799 original size:79 final size:80
Alignment explanation
Indices: 145565--145940 Score: 364
Period size: 80 Copynumber: 4.6 Consensus size: 80
145555 ACAAGGTTTA
* * * *
145565 GGGTTAGAATATCCCCTAAGATGAAAATTTTGATGTTTTGAAAAATAAAAACGAGGTTGGAGTAT
1 GGGTTAGAGTATCCCCTGAGATGAAAATTTTGATGTTTT-AGAAGTAAAAACGAGGTTGGAGTAT
* *
145630 -CCTTCTAGAAATGATA
65 CCCTTC-AGAATTGATG
* ** * * *
145646 GGGTTAGAGTAT-CCCTGAGATAAAGAAAGTTGATGTTTTAGAAGTAAAAATGGGGTTGGAATAT
1 GGGTTAGAGTATCCCCTGAGATGAA-AATTTTGATGTTTTAGAAGTAAAAACGAGGTTGGAGTAT
* *
145710 CCCTTAAGAATTGGTG
65 CCCTTCAGAATTGATG
* * *
145726 GGGTTGGAGTATCCCCT-ATGATG-AAATTTTGGTGTTTTAGAAGTAAAAACGAGGTTGGAGTAG
1 GGGTTAGAGTATCCCCTGA-GATGAAAATTTTGATGTTTTAGAAGTAAAAACGAGGTTGGAGTAT
* *
145789 CCCCTCAGAATAGATG
65 CCCTTCAGAATTGATG
* * * * *
145805 GGGTTGGAGTATCCCTTGAGATGAAAATTTTGGTGTTTTAGAAGTAAAGACGGGGTTGGAGTATC
1 GGGTTAGAGTATCCCCTGAGATGAAAATTTTGATGTTTTAGAAGTAAAAACGAGGTTGGAGTATC
*
145870 CCTTCGGAATTGATGGGGGTG
66 CCTTCAGAATTGA------TG
** * * *
145891 GGGTTAGAGTATCCATTGAGATGAAAATTTTGATTTTTTGGAAGGAAAAA
1 GGGTTAGAGTATCCCCTGAGATGAAAATTTTGATGTTTTAGAAGTAAAAA
145941 TTTAAAAATT
Statistics
Matches: 242, Mismatches: 41, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
79 64 0.26
80 99 0.41
81 34 0.14
86 45 0.19
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (80 bp):
GGGTTAGAGTATCCCCTGAGATGAAAATTTTGATGTTTTAGAAGTAAAAACGAGGTTGGAGTATC
CCTTCAGAATTGATG
Found at i:150148 original size:157 final size:153
Alignment explanation
Indices: 149818--150162 Score: 376
Period size: 157 Copynumber: 2.2 Consensus size: 153
149808 ATCTTTAACA
* * *
149818 TAGAAGTATCTGATACCCCTAAAGGACTTAAAAAGGATTATAAATGGGATGAATCTATCCTAAAA
1 TAGAAGTATCCGATACCCCT-AAGGACTTAAAAAGAATTATAAATGGGATGAACCTATCCTAAAA
** * * *
149883 CCCACCTTTGACATAAAAACGGACTCAGTGACAACCTAAGACTCGATTTTAAATAATTACCAAAA
65 CCCACCTTTGACATAAAAACAAACTCAGTGACAACCTAAGACTCGATTCTAAATAATGACAAAAA
*
149948 TGCCCTTAGGGGATATCTTCGACG
130 TGCCCTTAGGGGATACCTTCGACG
** * *
149972 TAGAAGTGCCCAATTCCCCTCAAGGACTTAAAAAGAATTATAAAATGGGATGAACCTATCCTAAA
1 TAGAAGTATCCGATACCCCT-AAGGACTTAAAAAGAATTAT-AAATGGGATGAACCTATCCTAAA
* * * * *
150037 TACCTA-CTTTCGGCATAAAAACAAA-TCTAGTGACAAGCTAGGACTCGGTTCTAGAGA-AATGA
64 -ACCCACCTTT-GACATAAAAACAAACTC-AGTGACAACCTAAGACTCGATTCTA-A-ATAATGA
*
150099 CAAAAATG-CTTCTAGGGGATACC-TCTGACG
124 CAAAAATGCCCT-TAGGGGATACCTTC-GACG
*
150129 TAGAAGTATCCGATACCCCTAAGGGATTTAAAAA
1 TAGAAGTATCCGATACCCCTAA-GGACTTAAAAA
150163 CGTGAAGGAA
Statistics
Matches: 157, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
154 34 0.22
155 28 0.18
156 42 0.27
157 52 0.33
158 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (153 bp):
TAGAAGTATCCGATACCCCTAAGGACTTAAAAAGAATTATAAATGGGATGAACCTATCCTAAAAC
CCACCTTTGACATAAAAACAAACTCAGTGACAACCTAAGACTCGATTCTAAATAATGACAAAAAT
GCCCTTAGGGGATACCTTCGACG
Found at i:152212 original size:20 final size:20
Alignment explanation
Indices: 152187--152428 Score: 100
Period size: 20 Copynumber: 12.9 Consensus size: 20
152177 TTTTACTCAG
* *
152187 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTATCA
* *
152207 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
* **
152227 ATGTATCAATACATTCCTCA
1 ATGTATCGATACATTTATCA
152247 ATGTATCGATACA--T-TC-
1 ATGTATCGATACATTTATCA
*
152263 -TGT-T-G-T---TTTACCTAA
1 ATGTATCGATACATTTA--TCA
* *
152278 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
*
152298 ATGTATCAATACATTCT-TCA
1 ATGTATCGATACATT-TATCA
*
152318 ATGTATCGATAGA--T-TC-
1 ATGTATCGATACATTTATCA
*
152334 -TGT-T-G-T---TTTACCCA
1 ATGTATCGATACATTTA-TCA
*
152348 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTATCA
* *
152369 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
152389 ATGTATCGATACATTCT-TCA
1 ATGTATCGATACATT-TATCA
*
152409 ATGTATCGAGACATTCTATC
1 ATGTATCGATACATT-TATC
152429 TTTTTTTCCT
Statistics
Matches: 166, Mismatches: 27, Indels: 57
0.66 0.11 0.23
Matches are distributed among these distances:
11 2 0.01
12 2 0.01
13 3 0.02
14 3 0.02
15 6 0.04
16 6 0.04
17 7 0.04
18 2 0.01
19 2 0.01
20 121 0.73
21 6 0.04
22 6 0.04
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:152284 original size:31 final size:31
Alignment explanation
Indices: 152246--152363 Score: 92
Period size: 31 Copynumber: 3.5 Consensus size: 31
152236 TACATTCCTC
152246 AATGTATCGATACATTCTGTTGTTTTACCTA
1 AATGTATCGATACATTCTGTTGTTTTACCTA
* * * *
152277 AATGTATCGATACATGTATGAATGTATCAATACATTCTTC
1 AATGTATCGATACAT-TCTG-TTGT-T--TTAC---C-TA
* *
152317 AATGTATCGATAGATTCTGTTGTTTTACCCA
1 AATGTATCGATACATTCTGTTGTTTTACCTA
*
152348 GATGTATCGATACATT
1 AATGTATCGATACATT
152364 TTTCAATGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
31 29 0.44
32 4 0.06
33 3 0.05
34 1 0.02
35 3 0.05
36 3 0.05
37 1 0.02
38 3 0.05
39 4 0.06
40 15 0.23
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (31 bp):
AATGTATCGATACATTCTGTTGTTTTACCTA
Found at i:152322 original size:71 final size:71
Alignment explanation
Indices: 152206--152405 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 71
152196 TACATTTTTT
*
152206 AATGTATCGATACATGTATGAATGTATCAATACATTCCTCAATGTATCGATACATTCTGTTGTTT
1 AATGTATCGATACATGTATGAATGTATCAATACATTCATCAATGTATCGATACATTCTGTTGTTT
*
152271 TACCTA
66 TACCCA
* *
152277 AATGTATCGATACATGTATGAATGTATCAATACATTCTTCAATGTATCGATAGATTCTGTTGTTT
1 AATGTATCGATACATGTATGAATGTATCAATACATTCATCAATGTATCGATACATTCTGTTGTTT
152342 TACCCA
66 TACCCA
* * * * * *
152348 GATGTATCGATACATTTTTCAATGTATCGATACATGT-ATGAATGTATCGATACATTCT
1 AATGTATCGATACATGTATGAATGTATCAATACAT-TCATCAATGTATCGATACATTCT
152406 TCAATGTATC
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
71 116 0.99
72 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (71 bp):
AATGTATCGATACATGTATGAATGTATCAATACATTCATCAATGTATCGATACATTCTGTTGTTT
TACCCA
Found at i:152372 original size:91 final size:92
Alignment explanation
Indices: 152277--152471 Score: 302
Period size: 91 Copynumber: 2.1 Consensus size: 92
152267 GTTTTACCTA
* * *
152277 AATGTATCGATACATGTATGAATGTATCAATACATTCTTCAATGTATCGATAGATTCTGT-TGTT
1 AATGTATCGATACATGTATGAATGTATCAATACATTCTTCAATGTATCGAGACATTCTATCTGTT
*
152341 TTACCCAGATGTATCGATACATTTTTC
66 TTACCCAGACGTATCGATACATTTTTC
* *
152368 AATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTATCGAGACATTCTATCTTTT
1 AATGTATCGATACATGTATGAATGTATCAATACATTCTTCAATGTATCGAGACATTCTATCTGTT
* *
152433 TTTCCTAGACGTATCGATACATTTTTC
66 TTACCCAGACGTATCGATACATTTTTC
*
152460 AATATATCGATA
1 AATGTATCGATA
152472 TATCTAGTTA
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 56 0.60
92 38 0.40
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (92 bp):
AATGTATCGATACATGTATGAATGTATCAATACATTCTTCAATGTATCGAGACATTCTATCTGTT
TTACCCAGACGTATCGATACATTTTTC
Found at i:155872 original size:30 final size:31
Alignment explanation
Indices: 155746--155874 Score: 134
Period size: 31 Copynumber: 4.0 Consensus size: 31
155736 CGAAGTGATT
* *
155746 GAGAGGTTCTATCTTAGCCTTTAAAAAAGATAA
1 GAGAGGTTCTATCTTAGCCTGT-GAAAAGAT-A
* *
155779 GGAAAAAGGTTCTATCTTAGCTTGTGAAAAGATA
1 -G--AGAGGTTCTATCTTAGCCTGTGAAAAGATA
*
155813 AAGAGGTTCTATCTTAGCCTGTGAAAAGATA
1 GAGAGGTTCTATCTTAGCCTGTGAAAAGATA
* * *
155844 GGGAGGTTTTATCTTAGCCT-TCAAAAGATA
1 GAGAGGTTCTATCTTAGCCTGTGAAAAGATA
155874 G
1 G
155875 TGTCGTAAGG
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
30 10 0.12
31 45 0.55
34 2 0.02
35 7 0.09
36 18 0.22
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (31 bp):
GAGAGGTTCTATCTTAGCCTGTGAAAAGATA
Found at i:158250 original size:15 final size:15
Alignment explanation
Indices: 158219--158260 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
158209 AAAGGAAAAG
158219 AAAAAATAATAAGCAA
1 AAAAAATAA-AAGCAA
158235 AAAAAACTAAAA-CAA
1 AAAAAA-TAAAAGCAA
158250 AAAAAATAAAA
1 AAAAAATAAAA
158261 AATATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.20
15 9 0.36
16 8 0.32
17 3 0.12
ACGTcount: A:0.81, C:0.07, G:0.02, T:0.10
Consensus pattern (15 bp):
AAAAAATAAAAGCAA
Found at i:159904 original size:40 final size:40
Alignment explanation
Indices: 159860--159938 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
159850 TTTCGATCAA
*
159860 CTTATTGGTTCATATGGTATCATCCTGGCCAACTCTTTTC
1 CTTATTGGTTCATATGGTATCAGCCTGGCCAACTCTTTTC
* * *
159900 CTTATTGGTTCGTATGGTTTTAGCCTGGCCAACTCTTTT
1 CTTATTGGTTCATATGGTATCAGCCTGGCCAACTCTTTT
159939 TTAACTCGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (40 bp):
CTTATTGGTTCATATGGTATCAGCCTGGCCAACTCTTTTC
Found at i:160229 original size:43 final size:42
Alignment explanation
Indices: 160036--160229 Score: 116
Period size: 43 Copynumber: 4.6 Consensus size: 42
160026 ACTTGTTGGT
* * *
160036 TCATATGGTTTCATC-CCAGCTAACTCCTTTCTAACTCGTTGG
1 TCATATGGTTTCATCTCCATC-AACTCCTTTCTAACTCATTGC
** * * **
160078 TACATATGGTTTCATC-CTGTCTACAACC-TTCTAACTTGTTGAC
1 T-CATATGGTTTCATCTCCATCAAC-TCCTTTCTAACTCATTG-C
* * * * *
160121 TTATATGGTTTCA-CTCTATCAA-T--TTTCTTGACTTATTAGT
1 TCATATGGTTTCATCTCCATCAACTCCTTTC-TAACTCATT-GC
* *
160161 TCATATGGTTTCGTCT-CAACTAACTCCTTTCTAACTCATTAGC
1 TCATATGGTTTCATCTCCATC-AACTCCTTTCTAACTCATT-GC
160204 TCATATGGTTTCATCTCCATCAACTC
1 TCATATGGTTTCATCTCCATCAACTC
160230 TCTTGACTTG
Statistics
Matches: 116, Mismatches: 23, Indels: 25
0.71 0.14 0.15
Matches are distributed among these distances:
39 3 0.03
40 20 0.17
41 6 0.05
42 32 0.28
43 48 0.41
44 7 0.06
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (42 bp):
TCATATGGTTTCATCTCCATCAACTCCTTTCTAACTCATTGC
Found at i:160268 original size:84 final size:82
Alignment explanation
Indices: 160106--160506 Score: 224
Period size: 84 Copynumber: 4.8 Consensus size: 82
160096 GTCTACAACC
** * * * * * *
160106 TTCTAACTTGTTGACTTATATGGTTTCA-CTCTATCAATTTTCTTGACTTATTAG-TTCATATGG
1 TTCTAACTCATTGACTCATATGGTTTCATC-CCATCAACTCTCTTGACTTGTTGGTTTC-TATGG
* *
160169 TTTCGT-CTCAACTAACTCCT
64 TTT-ATACT-AGCTAACTCCT
*
160189 TTCTAACTCATT-AGCTCATATGGTTTCATCTCCATCAACTCTCTTGACTTGTTGGTTTCCATGG
1 TTCTAACTCATTGA-CTCATATGGTTTCATC-CCATCAACTCTCTTGACTTGTTGGTTTCTATGG
**
160253 TTTATACGTAGCTAACTTTT
64 TTTATAC-TAGCTAACTCCT
* * * * ** * **
160273 TTCTAATTTATTGACTCATATAGTTTCGTCCTGGTCAACTTTCTTGACTTGTT-GTTGGGTATGG
1 TTCTAACTCATTGACTCATATGGTTTCATCC-CATCAACTCTCTTGACTTGTTGGTT-TCTATGG
*
160337 TTT-TATCTCGGCTAA-TACCT
64 TTTATA-CT-AGCTAACT-CCT
* * * ** * * ** * *
160357 TTTTAACTCGTTGCCTCATATGGTTTTGTCCCGATTAACTTTAATGACTTGTCGG-TTCATATGT
1 TTCTAACTCATTGACTCATATGGTTTCATCCC-ATCAACTCTCTTGACTTGTTGGTTTC-TATGG
* ** **
160421 TTTATCCTAATTAACTTTT
64 TTTATACTAGCTAACTCCT
* * * *
160440 TTCTAACTCGTTGACTCATATGGTTTCATCTCGATCAACTCTCTTCACTTGTTGGTTTGTATGGT
1 TTCTAACTCATTGACTCATATGGTTTCATC-CCATCAACTCTCTTGACTTGTTGGTTTCTATGGT
160505 TT
65 TT
160507 TGTCCCAACT
Statistics
Matches: 239, Mismatches: 61, Indels: 36
0.71 0.18 0.11
Matches are distributed among these distances:
82 1 0.00
83 85 0.36
84 146 0.61
85 7 0.03
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.46
Consensus pattern (82 bp):
TTCTAACTCATTGACTCATATGGTTTCATCCCATCAACTCTCTTGACTTGTTGGTTTCTATGGTT
TATACTAGCTAACTCCT
Found at i:165851 original size:52 final size:52
Alignment explanation
Indices: 165781--165901 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
165771 GAAAATTTAT
*
165781 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
165833 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
165885 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
165902 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:165914 original size:52 final size:51
Alignment explanation
Indices: 165781--165921 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
165771 GAAAATTTAT
165781 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
165833 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
165885 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
165922 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:165928 original size:13 final size:13
Alignment explanation
Indices: 165910--165934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
165900 CAAAGATCAG
165910 TGTATCGATACAA
1 TGTATCGATACAA
165923 TGTATCGATACA
1 TGTATCGATACA
165935 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:166018 original size:13 final size:13
Alignment explanation
Indices: 166000--166024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
165990 CAAAAAAATA
166000 TGTATCGATACAT
1 TGTATCGATACAT
166013 TGTATCGATACA
1 TGTATCGATACA
166025 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:166020 original size:33 final size:33
Alignment explanation
Indices: 165978--166044 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
165968 AGTAGCTTAA
165978 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
166011 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
166044 A
1 A
166045 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:166915 original size:49 final size:49
Alignment explanation
Indices: 166844--167509 Score: 882
Period size: 49 Copynumber: 14.0 Consensus size: 49
166834 TTTTAAAGAT
* *
166844 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
166893 GATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* * * * *
166942 GGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
166991 GATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* * * * *
167040 GGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
167089 GATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* * * * * *
167138 GGTGAAGGTGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
167187 GATGAAGATGCCAATATGCTGATTCAATGCCAGCGATATTGGACTT-AA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
167235 -A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
*
167279 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
167327 -A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
167371 GATGAAGATGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTT-AA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
167419 -A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
*
167463 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
167510 GAAGGGTTGC
Statistics
Matches: 531, Mismatches: 68, Indels: 36
0.84 0.11 0.06
Matches are distributed among these distances:
43 103 0.19
44 9 0.02
45 3 0.01
46 6 0.01
47 3 0.01
48 9 0.02
49 398 0.75
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
Done.