Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 70 of 189
Found at i:19453285 original size:41 final size:41
Alignment explanation
Indices: 19453255--19453356 Score: 177
Period size: 41 Copynumber: 2.5 Consensus size: 41
19453245 GCAATTAGCT
* *
19453255 TGCTAGACGTAAAGTCTGAAATATTTCACTGGCGTCAAGCC
1 TGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCAAGCC
*
19453296 TGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGCC
1 TGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCAAGCC
19453337 TGCTAGACGTAAAGTCTGAA
1 TGCTAGACGTAAAGTCTGAA
19453357 TTATCTCATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (41 bp):
TGCTAGACGTAAAGTCTGAAACATTTCACTGGCATCAAGCC
Found at i:19461471 original size:10 final size:10
Alignment explanation
Indices: 19461458--19461502 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
19461448 ATAAAAGCAT
19461458 AAAAAGAAAC
1 AAAAAGAAAC
*
19461468 AAAAAGAAAT
1 AAAAAGAAAC
*
19461478 AGAAAGAAAC
1 AAAAAGAAAC
*
19461488 AGAATAGAAAC
1 A-AAAAGAAAC
19461499 AAAA
1 AAAA
19461503 CAGGGAGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.76, C:0.07, G:0.13, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAC
Found at i:19461491 original size:16 final size:15
Alignment explanation
Indices: 19461462--19461502 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
19461452 AAGCATAAAA
19461462 AGAAACAAAAAGAAAT
1 AGAAACAAAAAG-AAT
* *
19461478 AGAAAGAAACAGAAT
1 AGAAACAAAAAGAAT
19461493 AGAAACAAAA
1 AGAAACAAAA
19461503 CAGGGAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.73, C:0.07, G:0.15, T:0.05
Consensus pattern (15 bp):
AGAAACAAAAAGAAT
Found at i:19461503 original size:16 final size:17
Alignment explanation
Indices: 19461462--19461505 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
19461452 AAGCATAAAA
19461462 AGAAACAAAA-AGAAAT
1 AGAAACAAAACAGAAAT
*
19461478 AGAAA-GAAACAG-AAT
1 AGAAACAAAACAGAAAT
19461493 AGAAACAAAACAG
1 AGAAACAAAACAG
19461506 GGAGAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.70, C:0.09, G:0.16, T:0.05
Consensus pattern (17 bp):
AGAAACAAAACAGAAAT
Found at i:19462449 original size:38 final size:39
Alignment explanation
Indices: 19462347--19462454 Score: 94
Period size: 38 Copynumber: 2.8 Consensus size: 39
19462337 GACCTTGAGT
* * **
19462347 CGATGAGACACTGGGTGTCACTATTTTACTACGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGATAGAGC
* * * * *
19462388 TGATGAGATACTAGGTATC-ACTTTACTTCGGGTAG-GC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
*
19462425 CGATGAGACACTGGGTGTCAACTTTGCTTC
1 CGATGAGACACTGGGTGTCAACTTTACTTC
19462455 AAACTATCTG
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
37 15 0.29
38 22 0.42
41 15 0.29
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:19466521 original size:54 final size:54
Alignment explanation
Indices: 19466439--19466541 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
19466429 CATGGGCTAG
* * ** * *
19466439 CACATGGTCTGCGACATGGCCGTGTGTATCAAGTCAGAGAGTTACACGACCTGA
1 CACATGGCCTACGACACAGCCGTATGTATCAAATCAGAGAGTTACACGACCTGA
*
19466493 CACATGGCCTACGACACAGCCGTATGTATCAAATCAGTGAGTTACACGA
1 CACATGGCCTACGACACAGCCGTATGTATCAAATCAGAGAGTTACACGA
19466542 GCTAGGACAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.21
Consensus pattern (54 bp):
CACATGGCCTACGACACAGCCGTATGTATCAAATCAGAGAGTTACACGACCTGA
Found at i:19467296 original size:19 final size:20
Alignment explanation
Indices: 19467250--19467296 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
19467240 GAGTTGATTA
*
19467250 AAGTTTAAGCCTAATTAATT
1 AAGTTTAAGCCTAATTAACT
*
19467270 ATAG-TTAAG-TTAATTAACT
1 A-AGTTTAAGCCTAATTAACT
19467289 AAGTTTAA
1 AAGTTTAA
19467297 CTAAAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 6 0.26
21 2 0.09
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (20 bp):
AAGTTTAAGCCTAATTAACT
Found at i:19469759 original size:16 final size:16
Alignment explanation
Indices: 19469738--19469769 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19469728 TAATTGGTTG
*
19469738 ATTTTTAGTTTAATTA
1 ATTTTTAGGTTAATTA
19469754 ATTTTTAGGTTAATTA
1 ATTTTTAGGTTAATTA
19469770 GATTAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTTTTAGGTTAATTA
Found at i:19470974 original size:68 final size:69
Alignment explanation
Indices: 19470877--19471067 Score: 230
Period size: 68 Copynumber: 2.8 Consensus size: 69
19470867 GACCTCGAAA
* * *
19470877 GAGTTT-TAATATGTAAGACCATAACTAGGCTATGA-CAACATATGGAGTCCACCAAGACAATAA
1 GAGTTTATATTATGTAAGACCATAGCTAGGCTATGAGCAACATATGAAGTCCACCAAGACAATAA
19470940 ACAT
66 ACAT
* ** * * *
19470944 GGGTTTATATTGA-GTAAGACCATAGCTAGGCTAT-AGCAACATATGAAGTCTGCCAGGATAGTA
1 GAGTTTATATT-ATGTAAGACCATAGCTAGGCTATGAGCAACATATGAAGTCCACCAAGACAATA
19471007 AACAT
65 AACAT
* * *
19471012 GAGTTTATATTATGTAAGACCATAGCTAGGCTATG-GTAACAAATGAAGTCCGCCAA
1 GAGTTTATATTATGTAAGACCATAGCTAGGCTATGAGCAACATATGAAGTCCACCAA
19471068 AGTGGAAAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
67 7 0.07
68 97 0.92
69 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (69 bp):
GAGTTTATATTATGTAAGACCATAGCTAGGCTATGAGCAACATATGAAGTCCACCAAGACAATAA
ACAT
Found at i:19472519 original size:17 final size:17
Alignment explanation
Indices: 19472487--19472521 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19472477 TTAATAATCC
19472487 ATTTTGTTGTTCTTTTA
1 ATTTTGTTGTTCTTTTA
*
19472504 ATTTTAGTTGTTTTTTTA
1 ATTTT-GTTGTTCTTTTA
19472522 TATGTGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.14, C:0.03, G:0.11, T:0.71
Consensus pattern (17 bp):
ATTTTGTTGTTCTTTTA
Found at i:19475036 original size:18 final size:18
Alignment explanation
Indices: 19475013--19475053 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
19475003 GTGTAGATTT
* * *
19475013 TTTGTCTATTTTGTTTCG
1 TTTGTCAATTTTCTTTAG
19475031 TTTGTCAATTTTCTTTAG
1 TTTGTCAATTTTCTTTAG
19475049 TTTGT
1 TTTGT
19475054 TTGTTTTGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.15, T:0.66
Consensus pattern (18 bp):
TTTGTCAATTTTCTTTAG
Found at i:19475768 original size:38 final size:38
Alignment explanation
Indices: 19475726--19475798 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
19475716 TTGAGTGAAC
** **
19475726 AAAAGCATTTTCAAGGTTAAAAGCATTGAGAGAGACAT
1 AAAAGCATGGTCAAGGTTAAAAGCAAAGAGAGAGACAT
* *
19475764 AAAAGCATGGTGAGGGTTAAAAGCAAAGAGAGAGA
1 AAAAGCATGGTCAAGGTTAAAAGCAAAGAGAGAGA
19475799 GAAATGGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.47, C:0.08, G:0.27, T:0.18
Consensus pattern (38 bp):
AAAAGCATGGTCAAGGTTAAAAGCAAAGAGAGAGACAT
Found at i:19478339 original size:27 final size:26
Alignment explanation
Indices: 19478309--19478366 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
19478299 AATTATTTTT
*
19478309 ATTTAATTTA-TAATAAATAATTTTTAA
1 ATTTAATTTATTAA-AAAT-ATTTGTAA
*
19478336 ATTTTATTTTATTAAAAATATTTGTAA
1 A-TTTAATTTATTAAAAATATTTGTAA
19478363 ATTT
1 ATTT
19478367 TTACAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 3 0.11
27 9 0.33
28 12 0.44
29 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
ATTTAATTTATTAAAAATATTTGTAA
Found at i:19478369 original size:28 final size:28
Alignment explanation
Indices: 19478310--19478367 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
19478300 ATTATTTTTA
*
19478310 TTTAATTTATAATAAATAATTTTTAAAT
1 TTTAATTTATAATAAATAATTTGTAAAT
*
19478338 TTTATTTTATTAA-AAAT-ATTTGTAAAT
1 TTTAATTTA-TAATAAATAATTTGTAAAT
19478365 TTT
1 TTT
19478368 TACAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 12 0.44
28 12 0.44
29 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTAATTTATAATAAATAATTTGTAAAT
Found at i:19479565 original size:111 final size:113
Alignment explanation
Indices: 19479450--19479725 Score: 302
Period size: 114 Copynumber: 2.5 Consensus size: 113
19479440 CTCCTTGCAA
* * *
19479450 TTTTTTTTTTTTTAA-GAATTAGGTTTGATCCTAAATTAACACATGAGTTAACACATA-C-AAT-
1 TTTTTTTTTTTTAAATGGATTAGGTATGATCCTAAATTAACAC-TGAGTTAA-ACATACCTAATG
* * *
19479511 GT-TCAAA-TAAAATTAAAATAATTGATCAAATAC-TTTTTTCAT-GATAAGT
64 GTAT-AAAGTAAAA-TAAAACAATTGATCAAATACTTTTTTTC-TCAATAAGG
* * **
19479560 TTTTTTTTTTTTAAATGGATTAGGTATGGTCCTAAATTAGCAC-GAGTT-AACATACCTTTTTGG
1 TTTTTTTTTTTTAAATGGATTAGGTATGATCCTAAATTAACACTGAGTTAAACATACC-TAATGG
*
19479623 TATAAAGTTTAAATAAAACAATTGATCAAATACTTTTTTTCTCAATAAGTG
65 TATAAAG-TAAAATAAAACAATTGATCAAATACTTTTTTTCTCAATAAG-G
*
19479674 TTTTTTTTTTTTAAATGGATTAGGTATGATCCTAAATTAACACTTAGTTAAA
1 TTTTTTTTTTTTAAATGGATTAGGTATGATCCTAAATTAACACTGAGTTAAA
19479726 ATATTCTGCT
Statistics
Matches: 139, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
107 5 0.04
108 2 0.01
109 5 0.04
110 15 0.11
111 28 0.20
112 21 0.15
113 16 0.12
114 41 0.29
115 4 0.03
116 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (113 bp):
TTTTTTTTTTTTAAATGGATTAGGTATGATCCTAAATTAACACTGAGTTAAACATACCTAATGGT
ATAAAGTAAAATAAAACAATTGATCAAATACTTTTTTTCTCAATAAGG
Found at i:19479654 original size:112 final size:117
Alignment explanation
Indices: 19479524--19479750 Score: 331
Period size: 114 Copynumber: 2.0 Consensus size: 117
19479514 CAAATAAAAT
* *
19479524 TAAAATAATTGATCAAATAC-TTTTTTCAT-GATAAGT-TTTTTTTTTTTTAAATGGATTAGGTA
1 TAAAACAATTGATCAAATACTTTTTTTC-TCAATAAGTGTTTTTTTTTTTTAAATGGATTAGGTA
* * *
19479586 TGGTCCTAAATTAGCAC-GAGTTAACATA-C-CTTTTTGGTATAAAGTTTAAA
65 TGATCCTAAATTAACACTGAGTTAAAATATCGCTTTTTGGTATAAAGTTTAAA
19479636 TAAAACAATTGATCAAATACTTTTTTTCTCAATAAGTGTTTTTTTTTTTTAAATGGATTAGGTAT
1 TAAAACAATTGATCAAATACTTTTTTTCTCAATAAGTGTTTTTTTTTTTTAAATGGATTAGGTAT
*
19479701 GATCCTAAATTAACACTTAGTTAAAATATTCTGCTTTTTGGTATAAAGTT
66 GATCCTAAATTAACACTGAGTTAAAATA-TC-GCTTTTTGGTATAAAGTT
19479751 GAAGAAAATG
Statistics
Matches: 101, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
112 20 0.20
113 13 0.13
114 41 0.41
115 9 0.09
117 1 0.01
119 17 0.17
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (117 bp):
TAAAACAATTGATCAAATACTTTTTTTCTCAATAAGTGTTTTTTTTTTTTAAATGGATTAGGTAT
GATCCTAAATTAACACTGAGTTAAAATATCGCTTTTTGGTATAAAGTTTAAA
Found at i:19489291 original size:32 final size:32
Alignment explanation
Indices: 19489255--19489316 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
19489245 TCATAAACTT
* * *
19489255 ATAAATTGATTACTTGAACTTAATAACTCATG
1 ATAAATTAATTAATTCAACTTAATAACTCATG
* *
19489287 ATAAATTAATTAATTCAATTTTATAACTCA
1 ATAAATTAATTAATTCAACTTAATAACTCA
19489317 GACCGATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (32 bp):
ATAAATTAATTAATTCAACTTAATAACTCATG
Found at i:19490359 original size:15 final size:15
Alignment explanation
Indices: 19490339--19490379 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
19490329 AAAAATATTT
*
19490339 ATAAATATTAATTAA
1 ATAAATATAAATTAA
19490354 ATAAATATAAATTAA
1 ATAAATATAAATTAA
19490369 ATAAAT-TAAAT
1 ATAAATATAAAT
19490380 GGTGCCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAATATAAATTAA
Found at i:19490467 original size:18 final size:20
Alignment explanation
Indices: 19490444--19490483 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
19490434 ACTTGTGTTA
19490444 TAATTAAAAGA-TATT-TAT
1 TAATTAAAAGATTATTATAT
*
19490462 TAATTAAATGATTATTATAT
1 TAATTAAAAGATTATTATAT
19490482 TA
1 TA
19490484 TTATAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 4 0.21
20 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TAATTAAAAGATTATTATAT
Found at i:19496001 original size:12 final size:12
Alignment explanation
Indices: 19495984--19496010 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19495974 TAACACCCTT
19495984 TACTTGAGTTTG
1 TACTTGAGTTTG
19495996 TACTTGAGTTTG
1 TACTTGAGTTTG
19496008 TAC
1 TAC
19496011 CGAGTTAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (12 bp):
TACTTGAGTTTG
Found at i:19497043 original size:13 final size:13
Alignment explanation
Indices: 19497021--19497065 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
19497011 TTTCTATGCA
*
19497021 AAAATCTTATAAT
1 AAAATATTATAAT
19497034 AAAATATTATGAA-
1 AAAATATTAT-AAT
19497047 AAAATA-T-TAAT
1 AAAATATTATAAT
19497058 AAAATATT
1 AAAATATT
19497066 TTAACCAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
10 2 0.07
11 7 0.25
12 2 0.07
13 15 0.54
14 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAATATTATAAT
Found at i:19502606 original size:21 final size:25
Alignment explanation
Indices: 19502560--19502627 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 25
19502550 CTTAACATTG
*
19502560 TTTTAAATTTATCATTAGT--T-TTA
1 TTTTAAA-TTATCATAAGTACTATTA
19502583 TTTT-AA-TATCAT-A-TACTATTA
1 TTTTAAATTATCATAAGTACTATTA
19502604 TTTTAAATTATCATAAGTACTATT
1 TTTTAAATTATCATAAGTACTATT
19502628 TAAATTTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 7 0.18
21 7 0.18
22 4 0.11
23 10 0.26
24 1 0.03
25 7 0.18
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.54
Consensus pattern (25 bp):
TTTTAAATTATCATAAGTACTATTA
Found at i:19502636 original size:22 final size:21
Alignment explanation
Indices: 19502561--19502640 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
19502551 TTAACATTGT
* *
19502561 TTTAAATTTATCATTAGTTTTA
1 TTTAAA-TTATCATAAGTATTA
* *
19502583 TTTTAA-TATCATATACTATTA
1 TTTAAATTATCATA-AGTATTA
*
19502604 TTTTAAATTATCATAAGTACTA
1 -TTTAAATTATCATAAGTATTA
19502626 TTTAAATTTATCATA
1 TTTAAA-TTATCATA
19502641 TATCATAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
20 6 0.13
21 11 0.23
22 23 0.49
23 7 0.15
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTAAATTATCATAAGTATTA
Found at i:19502660 original size:24 final size:23
Alignment explanation
Indices: 19502625--19502711 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 23
19502615 CATAAGTACT
19502625 ATTTAAATTTATCATATATCATA
1 ATTTAAATTTATCATATATCATA
*
19502648 ATTTAAAATTTATCATGTA-CTATA
1 ATTT-AAATTTATCATATATC-ATA
* *
19502672 ATATTAAACTTATC--ATATCATT
1 AT-TTAAATTTATCATATATCATA
*
19502694 ATTTAGATTTATCATATA
1 ATTTAAATTTATCATATA
19502712 CTATTTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 9 0.17
22 6 0.12
23 9 0.17
24 26 0.50
25 2 0.04
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTTAAATTTATCATATATCATA
Found at i:19502877 original size:14 final size:14
Alignment explanation
Indices: 19502832--19502882 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
19502822 TCTAAAGAAC
19502832 TATATGATAGTATTTT
1 TATAT-ATA-TATTTT
* * *
19502848 CATACAT-TATTAT
1 TATATATATATTTT
19502861 TATATATATATTTT
1 TATATATATATTTT
19502875 TATATATA
1 TATATATA
19502883 AAAATTATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
13 10 0.36
14 13 0.46
15 2 0.07
16 3 0.11
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (14 bp):
TATATATATATTTT
Found at i:19507866 original size:21 final size:21
Alignment explanation
Indices: 19507842--19507925 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 21
19507832 TGTAAATATA
19507842 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* * *
19507863 TGGTGGGGGTGGAGATTTGTGTAC
1 TGGTGGAGGTGGGGA---GTGGAC
*
19507887 ATATGGAGGAGGTGGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
*
19507911 TGGTGGTGGTGGGGA
1 TGGTGGAGGTGGGGA
19507926 CTTGTATTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
21 26 0.54
24 10 0.21
27 12 0.25
ACGTcount: A:0.15, C:0.04, G:0.57, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:19508332 original size:219 final size:219
Alignment explanation
Indices: 19508107--19508552 Score: 637
Period size: 219 Copynumber: 2.0 Consensus size: 219
19508097 GTGGACTGGT
* * * * *
19508107 GGGGGTGGAGATTTGTAGACATATGGAGGTGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTA
1 GGGGGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGAACTGCTGGGGGTGGAGACTTGT-
* * * *
19508172 G-ACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGGGACTTATGGATGTAGGGTGGTGGT
65 GTACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGGGACTTATAGATATAGGGAGGGGGT
* * *
19508236 GGTGAGTGGACTGGT-GGTGGTGGAGACTTGT-AGACATATGGTGGAGGTGGGGAGTGGACTGGT
130 GGAGAATGGACTGGTAGG-GGTGGAGACTTGTGA-ACATATGGTGGAGGTGGGAAGTGGACTGGT
*
19508299 GGTGGAGGGGACTTGTATTTATAGGGA
193 GGTGGAGGGGACTTGTATTTATAAGGA
* *
19508326 GGGGGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGCTGGGGGTGGAGATTTGTG
1 GGGGGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGAACTGCTGGGGGTGGAGACTTGTG
* * * **
19508391 TACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTATTTATAGGGAGGGGGTG
66 TACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGGGACTTATAGATATAGGGAGGGGGTG
*
19508456 GAGAATGGACTGGTAGGGGTGGAGATTTGTGAACATATGGTGGAGGTGGGAAGTGGACTGGTGGT
131 GAGAATGGACTGGTAGGGGTGGAGACTTGTGAACATATGGTGGAGGTGGGAAGTGGACTGGTGGT
*
19508521 GGAGGGGACTTGTATTTGTAAGGA
196 GGAGGGGACTTGTATTTATAAGGA
*
19508545 GGTGGTGG
1 GGGGGTGG
19508553 TGAATGGACT
Statistics
Matches: 201, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
218 1 0.00
219 197 0.98
220 3 0.01
ACGTcount: A:0.19, C:0.05, G:0.50, T:0.26
Consensus pattern (219 bp):
GGGGGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGAACTGCTGGGGGTGGAGACTTGTG
TACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGGGACTTATAGATATAGGGAGGGGGTG
GAGAATGGACTGGTAGGGGTGGAGACTTGTGAACATATGGTGGAGGTGGGAAGTGGACTGGTGGT
GGAGGGGACTTGTATTTATAAGGA
Found at i:19508333 original size:48 final size:48
Alignment explanation
Indices: 19507624--19508315 Score: 724
Period size: 48 Copynumber: 14.4 Consensus size: 48
19507614 ATAAGGTACA
* * ** * * * * *
19507624 GGTGGGGGTGGAGACTTGTAAATGTAAGGAGGGGGCGGTGAATGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * * * * *
19507672 GGTGGTGGAGGGGACTTGTATATATATGGAGGAGGTGGAGAATGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * * *
19507720 GGTGGTGGTGGAGACTTATAAACATATGGTGGAGGTGGGGAGTTGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * *
19507768 GGTGGGGGTGGAGATTTGT-GTACATATGGAGGAGGTGGGGAGTGGATT
1 GGTGGTGGTGGAGACTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACT
* * *
19507816 GGTGGTGGTGGAGACTTGTAAATATATGGTGGAGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* *
19507864 GGTGGGGGTGGAGATTTGT-GTACATATGGAGGAGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACT
* *** * * * * *
19507912 GGTGGTGGTGGGGACTTGTATTTATAGGGAGGGGGTGGAGAATGGATT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* *
19507960 GGTAGG-GGTGGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGGACT
1 GGT-GGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * **** * * * *
19508008 GGTGGTGGAGGGGACTTGTATTTGTAGGGAGGGGGTGGTGAATGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* *
19508056 AGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * *
19508104 GGTGGGGGTGGAGATTTGTAGACATATGGAGGTGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * *
19508152 GGTGGTGGTGGGGACTTGTAGACATATGGAGGAGGAGGAGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * * ** * * * *
19508200 GGTGGTGGTGGGGACTTATGGATGTAGGGTGGTGGTGGTGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
*
19508248 GGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* *
19508296 GGTGGTGGAGGGGACTTGTA
1 GGTGGTGGTGGAGACTTGTA
19508316 TTTATAGGGA
Statistics
Matches: 526, Mismatches: 112, Indels: 12
0.81 0.17 0.02
Matches are distributed among these distances:
47 2 0.00
48 522 0.99
49 2 0.00
ACGTcount: A:0.20, C:0.05, G:0.50, T:0.25
Consensus pattern (48 bp):
GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
Found at i:19508333 original size:123 final size:123
Alignment explanation
Indices: 19508206--19508459 Score: 357
Period size: 123 Copynumber: 2.1 Consensus size: 123
19508196 GACTGGTGGT
* * ** * * * * *
19508206 GGTGGGGACTTATGGATGTAGGGTGGTGGTGGTGAGTGGACTGGTGGTGGTGGAGACTTGTAG-A
1 GGTGGAGACTTATAGACATAGGGTGGAGGTGGGGAGTGAACTGCTGGGGGTGGAGACTTGT-GTA
*
19508270 CATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTATTTATAGGGAGGG
65 CATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTATTTATAGGGAGGG
* * * *
19508329 GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGCTGGGGGTGGAGATTTGTGTAC
1 GGTGGAGACTTATAGACATAGGGTGGAGGTGGGGAGTGAACTGCTGGGGGTGGAGACTTGTGTAC
*
19508394 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTATTTATAGGGAGGG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTATTTATAGGGAGGG
19508452 GGTGGAGA
1 GGTGGAGA
19508460 ATGGACTGGT
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
122 1 0.01
123 114 0.99
ACGTcount: A:0.19, C:0.05, G:0.50, T:0.26
Consensus pattern (123 bp):
GGTGGAGACTTATAGACATAGGGTGGAGGTGGGGAGTGAACTGCTGGGGGTGGAGACTTGTGTAC
ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTATTTATAGGGAGGG
Found at i:19508378 original size:48 final size:48
Alignment explanation
Indices: 19508329--19509574 Score: 1042
Period size: 48 Copynumber: 26.1 Consensus size: 48
19508319 ATAGGGAGGG
* * * *
19508329 GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGCTGGG
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
19508377 GGTGGAGATTTGT-GTACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * *** * * * *
19508425 GGTGGGGACTTGTATTTATAGGGAGGGGGTGGAGAATGGACTGGTAGG-
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGT-GGT
* *
19508473 GGTGGAGATTTGT-GAACATATGGTGGAGGTGGGAAGTGGACTGGTGGT
1 GGTGGAGATTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * **** * * * *
19508521 GGAGGGGACTTGTATTTGTAAGGAGGTGGTGGTGAATGGACTGGTGGT
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * *
19508569 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGG
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
19508617 GGTGGAGATTTGT-GTACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * *** * * *
19508665 GGTGGGGACTTGTA-TTTTAAGGAGG-GG-GGGAGAATGGACTGGTGGG
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGG-GAGTGGACTGGTGGT
*
19508711 GGTGGAGATTTGT-GAACATATGGTGGAGGTGGGGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * **** * * * * *
19508759 GGAGGGGACTTGTATTTGTAAGGAGGTGGTGGTGAATGGACTAGTGGT
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * *
19508807 GGTGGAGACTTGTAGAGATATGGTGGAGGTGGGGAGTGGACTGGTGGG
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
*
19508855 GGTGGAGATTTGT-GTACATATGGAGAAGGTGGGGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * *
19508903 GGTGGGGACTTATGTTTG---TAGGGAGGTGGTGGTGAATGGACTGGTGGT
1 GGTGGAGA-TT-TG-TAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * *
19508951 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTAGAAT-G-
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACT-G-GTGGT
* * *
19508999 GGTGGAGATTTGTGGACATATGGTGGAGGTGGGGAGTGGACTGGTGGA
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * **** * * * *
19509047 GGAGGAGACTTGTATTTGTAGGGAGGAGGTGGAGAATGGACTGGTGGG
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * *
19509095 GGTGGAGATTTATGGACATATGGAGGAGGTGGAGAGTGAACTGGTGGT
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * **** * * * *
19509143 GGAGGGGACTTGTATTTGTAAGGAGGTGGTGGTGAATGGACTGGTGGT
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * *
19509191 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGG
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* *
19509239 GGTGGAGATTTGT-GTACATATGGTGGAGGTGGGGAGTGGACTGGTGGA
1 GGTGGAGATTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * **** * * * *
19509287 GGAGGAGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGACTGGTGGG
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
*
19509335 GGTGGAGATTTGT-GTACATAAGGAGGAGGTGGGGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * *
19509383 GGTGGGGA-CT-T----ATAGGGTGGTGGTGGGGGAGTGGACTGGTGGG
1 GGTGGAGATTTGTAGACATATGGAGGAGGT-GGGGAGTGGACTGGTGGT
* *
19509426 GGTGGAGATTTGTGGACATATGGTGGAGGTGGGGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * **** * * * * *
19509474 GGAGGAGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGATTGGTGGG
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* *
19509522 GGTGGAGATTTGTGGACATATGGTGGAGGTGGGGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
19509570 GGTGG
1 GGTGG
19509575 TGAATGGACT
Statistics
Matches: 934, Mismatches: 228, Indels: 72
0.76 0.18 0.06
Matches are distributed among these distances:
42 10 0.01
43 24 0.03
44 1 0.00
45 6 0.01
46 30 0.03
47 23 0.02
48 815 0.87
49 20 0.02
50 3 0.00
51 1 0.00
52 1 0.00
ACGTcount: A:0.19, C:0.04, G:0.50, T:0.26
Consensus pattern (48 bp):
GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT
Found at i:19508402 original size:75 final size:75
Alignment explanation
Indices: 19508254--19508408 Score: 202
Period size: 75 Copynumber: 2.1 Consensus size: 75
19508244 GACTGGTGGT
* * * * **
19508254 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTATTT
1 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGCTGGGGGAGGAGACTTGTATAC
*
19508319 ATAGGGAGGG
66 ATAGGGAGGA
* * * *
19508329 GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGCTGGGGGTGGAGATTTGTGTAC
1 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGCTGGGGGAGGAGACTTGTATAC
*
19508394 ATATGGAGGA
66 ATAGGGAGGA
19508404 GGTGG
1 GGTGG
19508409 GGAGTGGACT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.21, C:0.05, G:0.48, T:0.26
Consensus pattern (75 bp):
GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGCTGGGGGAGGAGACTTGTATAC
ATAGGGAGGA
Found at i:19508613 original size:21 final size:21
Alignment explanation
Indices: 19508589--19508672 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 21
19508579 TGTAGACATA
19508589 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* * *
19508610 TGGTGGGGGTGGAGATTTGTGTAC
1 TGGTGGAGGTGGGGA---GTGGAC
*
19508634 ATATGGAGGAGGTGGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
*
19508658 TGGTGGTGGTGGGGA
1 TGGTGGAGGTGGGGA
19508673 CTTGTATTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
21 26 0.54
24 10 0.21
27 12 0.25
ACGTcount: A:0.15, C:0.04, G:0.57, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:19508851 original size:21 final size:21
Alignment explanation
Indices: 19508827--19508910 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 21
19508817 TGTAGAGATA
19508827 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* * *
19508848 TGGTGGGGGTGGAGATTTGTGTAC
1 TGGTGGAGGTGGGGA---GTGGAC
* *
19508872 ATATGGAGAAGGTGGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
*
19508896 TGGTGGTGGTGGGGA
1 TGGTGGAGGTGGGGA
19508911 CTTATGTTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
21 25 0.54
24 10 0.22
27 11 0.24
ACGTcount: A:0.17, C:0.04, G:0.56, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:19509029 original size:27 final size:26
Alignment explanation
Indices: 19508944--19509030 Score: 69
Period size: 27 Copynumber: 3.5 Consensus size: 26
19508934 GTGAATGGAC
* *
19508944 TGGTGGTGGTGGAGACTTGTAGACATA
1 TGGTGGAGGTGGAGA-TTGTGGACATA
*
19508971 TGGTGGAGGTGGGGA--GTGGAC-TA
1 TGGTGGAGGTGGAGATTGTGGACATA
*
19508994 -GAAT-G-GGTGGAGATTTGTGGACATA
1 TG-GTGGAGGTGGAGA-TTGTGGACATA
19509019 TGGTGGAGGTGG
1 TGGTGGAGGTGG
19509031 GGAGTGGACT
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
21 7 0.15
22 2 0.04
23 3 0.07
24 11 0.24
25 3 0.07
26 2 0.04
27 18 0.39
ACGTcount: A:0.21, C:0.05, G:0.48, T:0.26
Consensus pattern (26 bp):
TGGTGGAGGTGGAGATTGTGGACATA
Found at i:19509037 original size:24 final size:24
Alignment explanation
Indices: 19508965--19509039 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 24
19508955 GAGACTTGTA
19508965 GACATATGGTGGAGGTGGGGAGTG
1 GACATATGGTGGAGGTGGGGAGTG
* *
19508989 GAC-TA-GAAT-G-GGTGGAGATTTGTG
1 GACATATG-GTGGAGGTGGGGA---GTG
19509013 GACATATGGTGGAGGTGGGGAGTG
1 GACATATGGTGGAGGTGGGGAGTG
19509037 GAC
1 GAC
19509040 TGGTGGAGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
21 7 0.18
22 2 0.05
23 3 0.08
24 15 0.38
25 3 0.08
26 2 0.05
27 7 0.18
ACGTcount: A:0.23, C:0.05, G:0.49, T:0.23
Consensus pattern (24 bp):
GACATATGGTGGAGGTGGGGAGTG
Found at i:19509222 original size:27 final size:25
Alignment explanation
Indices: 19509184--19509270 Score: 74
Period size: 27 Copynumber: 3.5 Consensus size: 25
19509174 GTGAATGGAC
*
19509184 TGGTGGTGGTGGAGACTTGTAGACATA
1 TGGTGGAGGTGGAGA-TTGT-GACATA
* *
19509211 TGGTGGAGGTGGGGAGTG-GAC---
1 TGGTGGAGGTGGAGATTGTGACATA
*
19509232 TGGTGGGGGTGGAGATTTGTGTACATA
1 TGGTGGAGGTGGAGA-TTGTG-ACATA
19509259 TGGTGGAGGTGG
1 TGGTGGAGGTGG
19509271 GGAGTGGACT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
21 13 0.28
22 2 0.04
23 1 0.02
24 5 0.11
26 2 0.04
27 24 0.51
ACGTcount: A:0.17, C:0.05, G:0.51, T:0.28
Consensus pattern (25 bp):
TGGTGGAGGTGGAGATTGTGACATA
Found at i:19509235 original size:21 final size:21
Alignment explanation
Indices: 19509211--19509288 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 21
19509201 TGTAGACATA
19509211 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* * *
19509232 TGGTGGGGGTGGAGATTTGTGTAC
1 TGGTGGAGGTGGGGA---GTGGAC
19509256 ATATGGTGGAGGTGGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
19509280 TGGTGGAGG
1 TGGTGGAGG
19509289 AGGAGACTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
21 22 0.49
24 10 0.22
27 13 0.29
ACGTcount: A:0.15, C:0.04, G:0.56, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:19509387 original size:21 final size:21
Alignment explanation
Indices: 19509362--19509475 Score: 88
Period size: 21 Copynumber: 5.1 Consensus size: 21
19509352 ATAAGGAGGA
19509362 GGTGGGGAGTGGACTGGTGGT
1 GGTGGGGAGTGGACTGGTGGT
* *
19509383 GGTGGGGACT-TA-TAGGGTGGT
1 GGTGGGGAGTGGACT--GGTGGT
*
19509404 GGTGGGGGAGTGGACTGGTGGG
1 GGT-GGGGAGTGGACTGGTGGT
* *
19509426 GGTGGAGATTTGTGGACATATGGTGGA
1 GGTGGGGA---GTGGAC---TGGTGGT
19509453 GGTGGGGAGTGGACTGGTGGT
1 GGTGGGGAGTGGACTGGTGGT
19509474 GG
1 GG
19509476 AGGAGACTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 30 0.41
22 14 0.19
23 1 0.01
24 13 0.18
27 13 0.18
ACGTcount: A:0.13, C:0.04, G:0.58, T:0.25
Consensus pattern (21 bp):
GGTGGGGAGTGGACTGGTGGT
Found at i:19509566 original size:21 final size:21
Alignment explanation
Indices: 19509542--19509595 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
19509532 TGTGGACATA
* *
19509542 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGTGGTGGGGAATGGAC
*
19509563 TGGTGGTGGTGGTGAATGGAC
1 TGGTGGTGGTGGGGAATGGAC
19509584 TGGTGGTGGTGG
1 TGGTGGTGGTGG
19509596 AGACTTGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.11, C:0.04, G:0.59, T:0.26
Consensus pattern (21 bp):
TGGTGGTGGTGGGGAATGGAC
Found at i:19509576 original size:69 final size:69
Alignment explanation
Indices: 19509501--19509643 Score: 214
Period size: 69 Copynumber: 2.1 Consensus size: 69
19509491 GTAGGGAGGA
* * * ** *
19509501 GGTGGTGAATGGATTGGTGGGGGTGGAGATTTGTGGACATATGGTGGAGGTGGGGAGTGGACTGG
1 GGTGGTGAATGGACTGGTGGGGGTGGAGACTTGTAGACATATGGTGGAGGTGAAGAGTGAACTGG
19509566 TGGT
66 TGGT
* *
19509570 GGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGGGGTGAAGAGTGAACTGG
1 GGTGGTGAATGGACTGGTGGGGGTGGAGACTTGTAGACATATGGTGGAGGTGAAGAGTGAACTGG
19509635 TGGT
66 TGGT
19509639 GGTGG
1 GGTGG
19509644 AGACTTGTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.17, C:0.04, G:0.52, T:0.27
Consensus pattern (69 bp):
GGTGGTGAATGGACTGGTGGGGGTGGAGACTTGTAGACATATGGTGGAGGTGAAGAGTGAACTGG
TGGT
Found at i:19515604 original size:21 final size:21
Alignment explanation
Indices: 19515578--19515618 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19515568 ATCTGCTCAA
* *
19515578 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19515599 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
19515619 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:19520740 original size:40 final size:40
Alignment explanation
Indices: 19520685--19520867 Score: 303
Period size: 40 Copynumber: 4.6 Consensus size: 40
19520675 AGGCTTGTGC
*
19520685 CTAGCAGGCTTAATGCCTGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACGT
* *
19520725 CTAGCAGGCTTAATGCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACGT
19520765 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACGT
* *
19520805 CTAGCAGGTTTAATGCCAGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACGT
* *
19520845 CTAGCAGGCTTCATGCCGGTGAA
1 CTAGCAGGCTTAATGCCAGTGAA
19520868 CGGAATCAGG
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACGT
Found at i:19525670 original size:26 final size:26
Alignment explanation
Indices: 19525641--19525692 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
19525631 AATATTAAGA
19525641 TAAATAATATTTATATTTATGATAAT
1 TAAATAATATTTATATTTATGATAAT
19525667 TAAATAATATTTATATTTATGATAAT
1 TAAATAATATTTATATTTATGATAAT
19525693 ATTATTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
TAAATAATATTTATATTTATGATAAT
Found at i:19525698 original size:21 final size:22
Alignment explanation
Indices: 19525639--19525718 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 22
19525629 TAAATATTAA
* *
19525639 GATAAATAATATTTATATTTAT
1 GATAAGTATTATTTATATTTAT
*
19525661 GATAATTAAATAATATTTATATTTAT
1 GATAAGT--AT--TATTTATATTTAT
*
19525687 GATAA-TATTATTTATCTTTAT
1 GATAAGTATTATTTATATTTAT
19525708 GATAAGTATTA
1 GATAAGTATTA
19525719 AATATTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
21 17 0.34
22 11 0.22
23 2 0.04
24 1 0.02
25 1 0.02
26 18 0.36
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.50
Consensus pattern (22 bp):
GATAAGTATTATTTATATTTAT
Found at i:19525723 original size:47 final size:47
Alignment explanation
Indices: 19525629--19525741 Score: 113
Period size: 47 Copynumber: 2.4 Consensus size: 47
19525619 GATTATGAAG
* * * *
19525629 TAAATATTAAGATAAATAATATTTATATTTATGATAATTAAATAATATT
1 TAAAT-TTATGATTAATATTATTTATATTTATGATAAGTAAATAATA-T
* * *
19525678 TATATTTATGA-TAATATTATTTATCTTTATGATAAGT-ATTAAATAT
1 TAAATTTATGATTAATATTATTTATATTTATGATAAGTAAAT-AATAT
*
19525724 TAAATTTATTATTAATAT
1 TAAATTTATGATTAATAT
19525742 AAGTATTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
46 12 0.23
47 32 0.60
48 5 0.09
49 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (47 bp):
TAAATTTATGATTAATATTATTTATATTTATGATAAGTAAATAATAT
Found at i:19525749 original size:53 final size:47
Alignment explanation
Indices: 19525632--19525767 Score: 139
Period size: 53 Copynumber: 2.7 Consensus size: 47
19525622 TATGAAGTAA
* * * *
19525632 ATATTAAGATAAATAATATTTATATTTATGAT-AATTAAATAATATTT
1 ATATTAATAT-AATATTATTTATCTTTATGATAAATTAAATAAAATTT
*
19525679 ATATTTATGATAATATTATTTATCTTTATGATAAGTATTAAATATTAAATTT
1 ATATTAAT-ATAATATTATTTATCTTTATGATAA--ATTAAATA--AAATTT
*
19525731 ATTATTAATATAAGTATTATTTATCTTTATCATAAAT
1 A-TATTAATATAA-TATTATTTATCTTTATGATAAAT
19525768 AATACATTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
47 25 0.34
48 3 0.04
50 8 0.11
51 2 0.03
52 10 0.14
53 26 0.35
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (47 bp):
ATATTAATATAATATTATTTATCTTTATGATAAATTAAATAAAATTT
Found at i:19529852 original size:15 final size:15
Alignment explanation
Indices: 19529832--19529860 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19529822 GTTATTTATT
19529832 TTTATGTATTATTTA
1 TTTATGTATTATTTA
19529847 TTTATGTATTATTT
1 TTTATGTATTATTT
19529861 CCTTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTATGTATTATTTA
Found at i:19535216 original size:23 final size:22
Alignment explanation
Indices: 19535159--19535203 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19535149 AATATTCAAG
*
19535159 TAAAAATATTTTTGCATATTGC
1 TAAAAAGATTTTTGCATATTGC
19535181 TAAAAAGATTTTTGCATATTGC
1 TAAAAAGATTTTTGCATATTGC
19535203 T
1 T
19535204 CTGAAAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (22 bp):
TAAAAAGATTTTTGCATATTGC
Found at i:19535714 original size:43 final size:44
Alignment explanation
Indices: 19535653--19536008 Score: 182
Period size: 45 Copynumber: 8.0 Consensus size: 44
19535643 CATCGTGGCG
* *
19535653 AATCTTATCTCCTTAAAGTTATAGTGGAGTAGATTAAAGCCAC-
1 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTAAAGCCACA
* **
19535696 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTAAAGCCA-CA
* * *
19535741 AATCTTATCT-CTCTAAAGTTGCAATAGAGCAGATTAAA-CCTACA
1 AATCTTATCTCCT-TAAAGTTACAGTGGAGCAGATTAAAGCC-ACA
* ** * * ** **
19535785 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATAGTG
1 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTAAAGCCA-CA
* * * ** *
19535830 AATCTTATCT-TTCTGAAGTTGCAGCAGAGCAGATTGAAA-CTACA
1 AATCTTATCTCCT-TAAAGTTACAGTGGAGCAGATT-AAAGCCACA
* * * * * * ** **
19535874 AATCTTATCTACATGAAGTTGCAGTGAAGCAGATTGAAGATAGTG
1 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTAAAGCCA-CA
* * * ** * **
19535919 AATCTTATCTCCCTAAAGTTGCAATGGAATAGATTGAAGATAGCA
1 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTAAAGCCA-CA
* * * * * *
19535964 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACA
1 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTAAAGCCACA
19536008 A
1 A
19536009 GTTATAAATC
Statistics
Matches: 247, Mismatches: 54, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
43 39 0.16
44 70 0.28
45 136 0.55
46 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTAAAGCCACA
Found at i:19535804 original size:44 final size:44
Alignment explanation
Indices: 19535653--19536350 Score: 421
Period size: 44 Copynumber: 15.2 Consensus size: 44
19535643 CATCGTGGCG
* * ** * *
19535653 AATCTTATCTCCTTAAAGTTATAGTGGAGTAGATTAAAGCCAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
19535696 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * * * *
19535741 AATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAACCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * **
19535785 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
** **
19535830 AATCTTATCTTTCTGAAGTTGCAGCAGAGCAGATTGAAA-CTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTACA
* * * * * **
19535874 AATCTTATCTACATGAAGTTGCAGTGAAGCAGATTGAAGATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * ** * *
19535919 AATCTTATCTCCCTAAAGTTGCAATGGAATAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* *
19535964 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC-------A
* * * * *
19536015 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGATGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
19536059 AATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-T------ACA
* * * ** * *
19536110 AATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAATATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
19536154 AATCTTATTTCCCTGAAGTTGTACTGGAACAGATTAAAGCTACAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-------ACA
* *
19536205 AACCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * *
19536249 ATTCTTATTTCTCTGAAGTTCCAGTGGAACAGATTGAAGCTACAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC-----A
* * * *
19536298 CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGAAGATTGAAGCAAC-
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
19536343 AATCTTAT
1 AATCTTAT
19536351 ACATGTGAAG
Statistics
Matches: 503, Mismatches: 118, Indels: 68
0.73 0.17 0.10
Matches are distributed among these distances:
43 45 0.09
44 175 0.35
45 137 0.27
46 2 0.00
49 1 0.00
50 2 0.00
51 141 0.28
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:19535813 original size:89 final size:89
Alignment explanation
Indices: 19535652--19535998 Score: 378
Period size: 89 Copynumber: 3.9 Consensus size: 89
19535642 TCATCGTGGC
** * * * *
19535652 GAATCTTATCTC-CTTAAAGTTATAGTGGAGTAGATTAAAGCC-AC-AATCTTATCTCCTTAAAG
1 GAATCTTATCTCTC-TAAAGTTGCAATAGAGCAGATTAAA-CCTACAAATCTTATCTCCTTGAAG
* *
19535714 TTACAGTGGAGCAGATTGAAGATAGC
64 TTGCAGTGGAGCAGATTGAAGATAGT
*
19535740 AAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAACCTACAAATCTTATCTCCTTGAAGTT
1 GAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAACCTACAAATCTTATCTCCTTGAAGTT
* *
19535805 GTAGTGGAGCAAATTGAAGATAGT
66 GCAGTGGAGCAGATTGAAGATAGT
* * ** * *
19535829 GAATCTTATCTTTCTGAAGTTGCAGCAGAGCAGATTGAAA-CTACAAATCTTATCTACATGAAGT
1 GAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATT-AAACCTACAAATCTTATCTCCTTGAAGT
*
19535893 TGCAGTGAAGCAGATTGAAGATAGT
65 TGCAGTGGAGCAGATTGAAGATAGT
* * ** * ** * *
19535918 GAATCTTATCTCCCTAAAGTTGCAATGGAATAGATTGAAGATAGCAAATCTTATTTCCCTGAAGT
1 GAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAACCTA-CAAATCTTATCTCCTTGAAGT
*
19535983 TGCAGTGGAACAGATT
65 TGCAGTGGAGCAGATT
19535999 AAAGCTACAA
Statistics
Matches: 217, Mismatches: 36, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
87 2 0.01
88 35 0.16
89 145 0.67
90 35 0.16
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (89 bp):
GAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAACCTACAAATCTTATCTCCTTGAAGTT
GCAGTGGAGCAGATTGAAGATAGT
Found at i:19535923 original size:134 final size:134
Alignment explanation
Indices: 19535783--19536081 Score: 325
Period size: 134 Copynumber: 2.2 Consensus size: 134
19535773 ATTAAACCTA
* * * * ** *
19535783 CAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATAGTGAATCTTATCTT-TCTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAATGGAACAAATTGAAGATAGCAAATCTTAT-TTCCCTGAA
*
19535847 GTTGCAGCAGAGCAGATTGAAA-CTAC-AAATCTTATCTACATGAAGTTGCAGTGAAGCAGATTG
65 GTTGCAGCAGAACAGATT-AAAGCTACAAAATCTTATCTACATGAAGTTGCAGTGAAGCAGATTG
19535910 AAGATAG
129 AAGAT-G
** * * *
19535917 TGAATCTTATCTCCCTAAAGTTGCAATGGAATAGATTGAAGATAGCAAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAATGGAACAAATTGAAGATAGCAAATCTTATTTCCCTGAAG
** * * *
19535982 TTGCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGTTGTAGTGAAGCAG
66 TTGCAGCAGAACAGATTAAAGCTAC-----A-AAATCTTATCTACATGAAGTTGCAGTGAAGCAG
19536047 ATTGAAGATG
125 ATTGAAGATG
*
19536057 CAAATCTTATTTCCCTGAAGTTGCA
1 CAAATCTTATCTCCCTGAAGTTGCA
19536082 GTAGAACAGA
Statistics
Matches: 134, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
133 5 0.04
134 68 0.51
140 22 0.16
141 39 0.29
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (134 bp):
CAAATCTTATCTCCCTGAAGTTGCAATGGAACAAATTGAAGATAGCAAATCTTATTTCCCTGAAG
TTGCAGCAGAACAGATTAAAGCTACAAAATCTTATCTACATGAAGTTGCAGTGAAGCAGATTGAA
GATG
Found at i:19536048 original size:51 final size:50
Alignment explanation
Indices: 19535870--19536344 Score: 303
Period size: 51 Copynumber: 10.0 Consensus size: 50
19535860 AGATTGAAAC
* * * *
19535870 TACAAATCTTATCTACATGAAGTTGCAGT-GAAGCAGATTGAAG--A-TAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAGCTACAAG
* * * * * *
19535917 T--GAATCTTATCTCCCTAAAGTTGCAATGGAATAGATTGAAG--A-TAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAG
*
19535962 --CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAG
* * *
19536010 TTATAAATCTTATCTCCCTGAAGTTGTAGT-GAAGCAGATTGAAG-----A-
1 -TACAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAGCTACAAG
* * *
19536055 TGCAAATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTTA-AAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGC-TACAAG
* * * * *
19536105 CCACAAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAA--T---A-
1 -TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAG
* * * * *
19536150 TGCGAATCTTATTTCCCTGAAGTTGTACTGGAACAGATTAAAGCTACAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAG
* * * *
19536200 CCACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAA-
1 -TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAG
* * * *
19536250 T-----TCTTATTTCTCTGAAGTTCCAGTGGAACAGATTGAAGCTACAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAG
* * * *
19536295 TTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGA-AGATTGAAGCAACAA
1 -TACAAATCTTATCTCCCTGAAGTTGCAGTGGA-ACAGATTAAAGCTACAA
19536345 TCTTATACAT
Statistics
Matches: 335, Mismatches: 61, Indels: 60
0.73 0.13 0.13
Matches are distributed among these distances:
44 103 0.31
45 71 0.21
46 7 0.02
47 2 0.01
48 3 0.01
49 2 0.01
50 3 0.01
51 143 0.43
52 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (50 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAG
Found at i:19536089 original size:95 final size:95
Alignment explanation
Indices: 19535919--19536338 Score: 522
Period size: 95 Copynumber: 4.4 Consensus size: 95
19535909 GAAGATAGTG
* * *
19535919 AATCTTATCTCCCTAAAGTTGCAATGGAA-TAGATTGAAGATAGCAAATCTTATTTCCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGAT-GCAAATCTTATTTCCCTGAAGT
** *
19535983 TGCAGTGGAACAGATTAAAGCTACAAGTTATA
64 TGCAGTGGAACAGATTAAAGCTACAAGCCACA
*
19536015 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
*
19536080 CAGTAGAACAGATTAAAGCTTA-AAGCCACA
66 CAGTGGAACAGATTAAAGC-TACAAGCCACA
* * * * *
19536110 AATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAATATGCGAATCTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
* *
19536175 TACTGGAACAGATTAAAGCTACAAGCCACA
66 CAGTGGAACAGATTAAAGCTACAAGCCACA
* * * * * *
19536205 AACCTTATCTCCCTGAAGTTGCAGT-AGAGCAGATTAAAGCTACAATTCTTATTTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTT
* * **
19536269 CCAGTGGAACAGATTGAAGCTACAAGTTACA
65 GCAGTGGAACAGATTAAAGCTACAAGCCACA
* * * *
19536300 AGTCTTATCTCCCTAAAGTTGCAGTGGAGAAGATTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAG
19536339 CAACAATCTT
Statistics
Matches: 279, Mismatches: 40, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
94 2 0.01
95 242 0.87
96 35 0.13
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (95 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
CAGTGGAACAGATTAAAGCTACAAGCCACA
Found at i:19538107 original size:14 final size:15
Alignment explanation
Indices: 19538076--19538111 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
19538066 TATACGTTCA
19538076 TATT-TTATTATGCG
1 TATTATTATTATGCG
19538090 TATTATTATTATGC-
1 TATTATTATTATGCG
19538104 TATTATTA
1 TATTATTA
19538112 CTACAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (15 bp):
TATTATTATTATGCG
Found at i:19540206 original size:26 final size:26
Alignment explanation
Indices: 19540167--19540218 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
19540157 CTGACTCTCA
*
19540167 GAATGAACCTGAGGACTTTACTGATG
1 GAATGAACCTGAGGACTTCACTGATG
19540193 GAATGAA-CTCGAGGACTTCACTGATG
1 GAATGAACCT-GAGGACTTCACTGATG
19540219 ATGCCCCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (26 bp):
GAATGAACCTGAGGACTTCACTGATG
Found at i:19548165 original size:5 final size:5
Alignment explanation
Indices: 19548155--19548182 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
19548145 GAAAGTCAAG
19548155 AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT
19548183 CATCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:19548218 original size:12 final size:11
Alignment explanation
Indices: 19548150--19548216 Score: 66
Period size: 10 Copynumber: 6.0 Consensus size: 11
19548140 ACAATGAAAG
19548150 TCAAGAATAAAA
1 TCAA-AATAAAA
19548162 T-AAAATAAAA
1 TCAAAATAAAA
19548172 T-AAAATAAAA
1 TCAAAATAAAA
** *
19548182 TCATCATTAAA
1 TCAAAATAAAA
19548193 TACAAAATCAAAA
1 T-CAAAAT-AAAA
19548206 TCAAAATAAAA
1 TCAAAATAAAA
19548217 ATGATAAGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
10 18 0.39
11 13 0.28
12 11 0.24
13 4 0.09
ACGTcount: A:0.69, C:0.09, G:0.01, T:0.21
Consensus pattern (11 bp):
TCAAAATAAAA
Found at i:19549966 original size:179 final size:178
Alignment explanation
Indices: 19549665--19550741 Score: 1695
Period size: 179 Copynumber: 6.0 Consensus size: 178
19549655 GAATTGGTGT
* * * * * * **
19549665 TTCGATCCGCTCTAATATAATTTTAGGGAGAACAGACTTGTAGCTTCGATCTACTCCGCTACAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * * *
19549730 TCCAAAGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAATTTCAGCGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAG-GAGATAAGGTTTGT
* *
19549795 ATATTTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
*
19549844 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTATTCCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
19549909 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCATGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCA-GGAGATAAGGTTTGT
*
19549974 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGGTAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
* * * * *
19550023 TTCTATCTGCTCCAATATAATTTCAGGGAGAAGAGATTTGTAGCATCAATCTACTCCGCTGTAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
19550088 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGAAAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAG-GAGATAAGGTTTGT
19550153 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
* * *
19550202 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACACCTCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
19550267 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGTAACTTCAAGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTC-AGGAGATAAGGTTTGT
* *
19550332 GTATTTTTATCCTGCTCCATTACAACTTCAGGGAGATAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
* * * * *
19550381 TTCGATCTTCTCCAATGTAATTTTAGGGAGAAGAGATTTGAAGCTTCGATTTACTCTGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
** * * *
19550446 TTCAAGGAGATAAGAATTTATAAGTTCAACCTGCTCTACTGTAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCA-GGAGATAAGGTTTGT
* *
19550511 GTATTTTTATCCTGCTCCAATGCAACCTCAGGGAGATAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
* * *
19550560 TTCGATCTTCTCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTTCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
19550625 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCA-GGAGATAAGGTTTGT
* *
19550690 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAAGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
19550739 TTC
1 TTC
19550742 ACCAATCTGT
Statistics
Matches: 828, Mismatches: 66, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
178 2 0.00
179 823 0.99
180 3 0.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (178 bp):
TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGAGATAAGGTTTGTG
TATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
Found at i:19551576 original size:7 final size:7
Alignment explanation
Indices: 19551564--19551620 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
19551554 CCTTGGCATC
19551564 TCTTTTT
1 TCTTTTT
19551571 TC-TTTT
1 TCTTTTT
*
19551577 TCTTTTC
1 TCTTTTT
19551584 TCTTTTTT
1 TC-TTTTT
*
19551592 GTTTTTGTT
1 -TCTTT-TT
*
19551601 TTTTTTT
1 TCTTTTT
19551608 TCTTTTT
1 TCTTTTT
19551615 TCTTTT
1 TCTTTT
19551621 CATTTTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 6 0.14
7 21 0.50
8 12 0.29
9 3 0.07
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (7 bp):
TCTTTTT
Found at i:19551627 original size:7 final size:6
Alignment explanation
Indices: 19551567--19551620 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
19551557 TGGCATCTCT
* *
19551567 TTTTTC TTTTTC TTTTCTC TTTTTTG TTTTTG TTTTT- TTTTTC TTTTTTC
1 TTTTTC TTTTTC TTTT-TC -TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC
19551617 TTTT
1 TTTT
19551621 CATTTTTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
5 5 0.12
6 25 0.58
7 9 0.21
8 4 0.09
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:19551628 original size:31 final size:32
Alignment explanation
Indices: 19551567--19551629 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
19551557 TGGCATCTCT
*
19551567 TTTTTCTTTTTCTTTTCTCTTTTTTGTTTTTG
1 TTTTTCTTTTTCTTTTCTCTTTTATGTTTTTG
* *
19551599 TTTTT-TTTTTCTTTTTTCTTTTCATTTTTTT
1 TTTTTCTTTTTCTTTTCTCTTTT-ATGTTTTT
19551630 AAAGTGAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.02, C:0.11, G:0.03, T:0.84
Consensus pattern (32 bp):
TTTTTCTTTTTCTTTTCTCTTTTATGTTTTTG
Found at i:19554298 original size:5 final size:5
Alignment explanation
Indices: 19554284--19554377 Score: 66
Period size: 5 Copynumber: 17.6 Consensus size: 5
19554274 AAGGATTAGC
* * *
19554284 AAAT- AAATA AAAT- AAATA AGACA CAAATA ATAATA ATAATGA TAATA
1 AAATA AAATA AAATA AAATA AAATA -AAATA A-AATA A-AAT-A AAATA
*
19554331 ACAATA AAAGCCA AGAATA AAATA AAATA AAATA AAATA AAATA AAA
1 A-AATA AAA--TA A-AATA AAATA AAATA AAATA AAATA AAATA AAA
19554378 GCATCATTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
4 8 0.11
5 38 0.52
6 22 0.30
7 3 0.04
8 2 0.03
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:19554404 original size:9 final size:10
Alignment explanation
Indices: 19554349--19554409 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
19554339 AGCCAAGAAT
*
19554349 AAAATAAAAT
1 AAAATAAAAC
*
19554359 AAAATAAAAT
1 AAAATAAAAC
19554369 AAAATAAAAGC
1 AAAATAAAA-C
* *
19554380 ATCATTAAATAC
1 A-AAATAAA-AC
19554392 AAAA-AAAAC
1 AAAATAAAAC
19554401 AAAATAAAA
1 AAAATAAAA
19554410 ATGATAAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 6 0.14
10 26 0.62
11 2 0.05
12 7 0.17
13 1 0.02
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (10 bp):
AAAATAAAAC
Found at i:19556241 original size:20 final size:20
Alignment explanation
Indices: 19556216--19556256 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19556206 AAGTTTGTTT
19556216 TATTTTTTCTTTCTCTGATA
1 TATTTTTTCTTTCTCTGATA
19556236 TATTTTTTCTTTCTCTGATA
1 TATTTTTTCTTTCTCTGATA
19556256 T
1 T
19556257 CCCAATACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (20 bp):
TATTTTTTCTTTCTCTGATA
Found at i:19557359 original size:13 final size:13
Alignment explanation
Indices: 19557343--19557392 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
19557333 ATAGCCATTA
*
19557343 TTTCTTACATTTG
1 TTTCTTACATTTC
19557356 TTTCTGTA-ATTTC
1 TTTCT-TACATTTC
19557369 TTTCTTACA-TTC
1 TTTCTTACATTTC
19557381 TTTCTTACATTT
1 TTTCTTACATTT
19557393 GTAATTATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 14 0.42
13 17 0.52
14 2 0.06
ACGTcount: A:0.16, C:0.18, G:0.04, T:0.62
Consensus pattern (13 bp):
TTTCTTACATTTC
Found at i:19557383 original size:12 final size:12
Alignment explanation
Indices: 19557338--19557391 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
19557328 TATGCATAGC
*
19557338 CATTATTTCTTA
1 CATTCTTTCTTA
*
19557350 CATTTGTTTCTGTA
1 CA-TTCTTTCT-TA
19557364 -ATTTCTTTCTTA
1 CA-TTCTTTCTTA
19557376 CATTCTTTCTTA
1 CATTCTTTCTTA
19557388 CATT
1 CATT
19557392 TGTAATTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 18 0.49
13 17 0.46
14 2 0.05
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.59
Consensus pattern (12 bp):
CATTCTTTCTTA
Found at i:19559471 original size:18 final size:19
Alignment explanation
Indices: 19559426--19559471 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
19559416 CATTATATTA
*
19559426 ATAATA-AATAATTGAATG
1 ATAATATAATAATTAAATG
19559444 ATACATTATAA-AATTAAATG
1 ATA-A-TATAATAATTAAATG
19559464 ATAATATA
1 ATAATATA
19559472 TGATAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 7 0.29
19 2 0.08
20 13 0.54
21 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (19 bp):
ATAATATAATAATTAAATG
Found at i:19577686 original size:18 final size:18
Alignment explanation
Indices: 19577663--19577700 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
19577653 CAAAATTACT
19577663 TAACAA-AATACTTATAAA
1 TAACAACAATACTT-TAAA
19577681 TAACAACTAATACTTTAAA
1 TAACAAC-AATACTTTAAA
19577700 T
1 T
19577701 TCATCAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (18 bp):
TAACAACAATACTTTAAA
Found at i:19583401 original size:18 final size:18
Alignment explanation
Indices: 19583378--19583414 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19583368 TTTTGTTGAT
19583378 TTTGATTATGAGGGTTTG
1 TTTGATTATGAGGGTTTG
* *
19583396 TTTGATTTTGTGGGTTTG
1 TTTGATTATGAGGGTTTG
19583414 T
1 T
19583415 GTTCTGGTTG
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:0.11, C:0.00, G:0.32, T:0.57
Consensus pattern (18 bp):
TTTGATTATGAGGGTTTG
Found at i:19587598 original size:29 final size:30
Alignment explanation
Indices: 19587564--19587628 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
19587554 CCAAATTAAC
*
19587564 CAAAATTAA-TTCG-GTCAGTTAATAGTTTT
1 CAAAATTAATTTCGAGTCAGTTAA-AGGTTT
*
19587593 CAAAA-TAATTTCGATTCAGTTAAAGGTTT
1 CAAAATTAATTTCGAGTCAGTTAAAGGTTT
19587622 CAAAATT
1 CAAAATT
19587629 TCAGTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 3 0.10
29 19 0.61
30 9 0.29
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (30 bp):
CAAAATTAATTTCGAGTCAGTTAAAGGTTT
Found at i:19587957 original size:10 final size:10
Alignment explanation
Indices: 19587942--19587967 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
19587932 TGTTAGGCTG
19587942 CCATGCGTCA
1 CCATGCGTCA
19587952 CCATGCGTCA
1 CCATGCGTCA
19587962 CCATGC
1 CCATGC
19587968 TACTGGTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (10 bp):
CCATGCGTCA
Found at i:19589076 original size:20 final size:20
Alignment explanation
Indices: 19589030--19589082 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
19589020 TCAGGGGAAG
* *
19589030 AAGAAAAAATAAAAGAGAAA
1 AAGAAAAAAAAAAAAAGAAA
**
19589050 ATTAAAAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAAAAGAAA
19589070 AAGAAAAAGAAAA
1 AAGAAAAA-AAAA
19589083 GGAAATCTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (20 bp):
AAGAAAAAAAAAAAAAGAAA
Found at i:19598342 original size:18 final size:18
Alignment explanation
Indices: 19598315--19598356 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19598305 CTCGATGATC
* *
19598315 CCATCTGCCAGCGTACCA
1 CCATCAGCCAGCCTACCA
*
19598333 CCATCAGCCATCCTACCA
1 CCATCAGCCAGCCTACCA
19598351 CCATCA
1 CCATCA
19598357 ACTATCACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.48, G:0.10, T:0.17
Consensus pattern (18 bp):
CCATCAGCCAGCCTACCA
Found at i:19603818 original size:22 final size:22
Alignment explanation
Indices: 19603793--19603834 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19603783 AAATGACAGC
19603793 AAAACAACAAGAAAACAATATG
1 AAAACAACAAGAAAACAATATG
* *
19603815 AAAATAGCAAGAAAACAATA
1 AAAACAACAAGAAAACAATA
19603835 GACTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.69, C:0.12, G:0.10, T:0.10
Consensus pattern (22 bp):
AAAACAACAAGAAAACAATATG
Found at i:19604500 original size:39 final size:39
Alignment explanation
Indices: 19604445--19604523 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
19604435 AGTCTCCCGG
*
19604445 GGGTAATACTATAATTGTTTGCTCAAGAAGTATGCAATT
1 GGGTAATACTAAAATTGTTTGCTCAAGAAGTATGCAATT
*
19604484 GGGTAATACTAAAATTGTTTGTTCAAGAAGTATGCAATT
1 GGGTAATACTAAAATTGTTTGCTCAAGAAGTATGCAATT
19604523 G
1 G
19604524 ATAAGCTAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (39 bp):
GGGTAATACTAAAATTGTTTGCTCAAGAAGTATGCAATT
Found at i:19618708 original size:18 final size:19
Alignment explanation
Indices: 19618687--19618727 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
19618677 AAAAAAATAA
19618687 AAAAAT-ATTAAAACTTAT
1 AAAAATCATTAAAACTTAT
* *
19618705 -AAAATCATTAGAAGTTAT
1 AAAAATCATTAAAACTTAT
19618723 AAAAA
1 AAAAA
19618728 AAAATCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAATCATTAAAACTTAT
Found at i:19618741 original size:22 final size:23
Alignment explanation
Indices: 19618705--19618749 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
19618695 TAAAACTTAT
*
19618705 AAAATCATTAGAAGTTATAAAAA
1 AAAATCATTAAAAGTTATAAAAA
19618728 AAAATCA-TAAAAGTTATAAAAA
1 AAAATCATTAAAAGTTATAAAAA
19618750 CCATAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (23 bp):
AAAATCATTAAAAGTTATAAAAA
Found at i:19621049 original size:38 final size:38
Alignment explanation
Indices: 19620995--19621083 Score: 151
Period size: 38 Copynumber: 2.3 Consensus size: 38
19620985 TGGCTAGAAG
* *
19620995 ATGGTTATCTACTATCTCTACGAAGCGACACCATGAAA
1 ATGGTTATCTACTATCTCCACGAAACGACACCATGAAA
*
19621033 ATGGTTATCTATTATCTCCACGAAACGACACCATGAAA
1 ATGGTTATCTACTATCTCCACGAAACGACACCATGAAA
19621071 ATGGTTATCTACT
1 ATGGTTATCTACT
19621084 GAGTATATGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (38 bp):
ATGGTTATCTACTATCTCCACGAAACGACACCATGAAA
Found at i:19622838 original size:27 final size:27
Alignment explanation
Indices: 19622808--19622894 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
19622798 ACATAGTGAC
*
19622808 AGTGGCATTTCGGTGCAAATCAATGAT
1 AGTGGCACTTCGGTGCAAATCAATGAT
* *
19622835 AGTGGTACTTCAGTGCAAATCAATGAT
1 AGTGGCACTTCGGTGCAAATCAATGAT
* * * * *
19622862 AATGGCACCTCGGTACAACTCAGTGAT
1 AGTGGCACTTCGGTGCAAATCAATGAT
19622889 AGTGGC
1 AGTGGC
19622895 TCATTGTAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (27 bp):
AGTGGCACTTCGGTGCAAATCAATGAT
Found at i:19625133 original size:13 final size:13
Alignment explanation
Indices: 19625115--19625161 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
19625105 CATGATATGA
19625115 AAAATGAAATTAG
1 AAAATGAAATTAG
19625128 AAAATGAAA-T-G
1 AAAATGAAATTAG
*
19625139 GAAATGAAATTAG
1 AAAATGAAATTAG
19625152 AAAATGAAAT
1 AAAATGAAAT
19625162 GGAATTAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 9 0.30
12 2 0.07
13 19 0.63
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (13 bp):
AAAATGAAATTAG
Found at i:19625143 original size:24 final size:24
Alignment explanation
Indices: 19625116--19625165 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
19625106 ATGATATGAA
19625116 AAATGAAATTAGAAAATGAAATGG
1 AAATGAAATTAGAAAATGAAATGG
19625140 AAATGAAATTAGAAAATGAAATGG
1 AAATGAAATTAGAAAATGAAATGG
19625164 AA
1 AA
19625166 TTAACTTGCA
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:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (24 bp):
AAATGAAATTAGAAAATGAAATGG
Found at i:19627582 original size:37 final size:37
Alignment explanation
Indices: 19627536--19627620 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
19627526 TGGACATACG
* * *
19627536 CAAGATAAGATAGTCCACTGGACTTGTCCATATGTTT
1 CAAGCTAAGATAGTCCACTGGACTTATCCATACGTTT
* ** *
19627573 CAAGCTAAGACAGTCCGTTGGACTTATCCTTACGTTT
1 CAAGCTAAGATAGTCCACTGGACTTATCCATACGTTT
19627610 CAAGCTAAGAT
1 CAAGCTAAGAT
19627621 CGTTTGTCAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (37 bp):
CAAGCTAAGATAGTCCACTGGACTTATCCATACGTTT
Found at i:19627787 original size:28 final size:28
Alignment explanation
Indices: 19627756--19627809 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
19627746 ATATAAATAT
* *
19627756 ACATATATGATTCCGTATGTATGAATTC
1 ACATATAAGATTCCGTATCTATGAATTC
*
19627784 ACATATAAGATTTCGTATCTATGAAT
1 ACATATAAGATTCCGTATCTATGAAT
19627810 CTGCCTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (28 bp):
ACATATAAGATTCCGTATCTATGAATTC
Found at i:19627823 original size:28 final size:28
Alignment explanation
Indices: 19627792--19627865 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
19627782 TCACATATAA
19627792 GATTTCGTATCTATGAATCTGCCTATGT
1 GATTTCGTATCTATGAATCTGCCTATGT
* *
19627820 GATTTCGTATCTATAAATTTGCCTATGT
1 GATTTCGTATCTATGAATCTGCCTATGT
**
19627848 GATCACGTATCTATGAAT
1 GATTTCGTATCTATGAAT
19627866 TCACCAATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (28 bp):
GATTTCGTATCTATGAATCTGCCTATGT
Found at i:19627875 original size:28 final size:28
Alignment explanation
Indices: 19627797--19627878 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
19627787 TATAAGATTT
**
19627797 CGTATCTATGAA-TCTGCCTATGTGATTT
1 CGTATCTATGAATTC-GCCTATGTGATCA
* *
19627825 CGTATCTATAAATTTGCCTATGTGATCA
1 CGTATCTATGAATTCGCCTATGTGATCA
* *
19627853 CGTATCTATGAATTCACCAATGTGAT
1 CGTATCTATGAATTCGCCTATGTGAT
19627879 TTTGCATCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
28 44 0.98
29 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (28 bp):
CGTATCTATGAATTCGCCTATGTGATCA
Found at i:19633067 original size:12 final size:12
Alignment explanation
Indices: 19633050--19633074 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19633040 TGTTCAAATC
19633050 AATTAATTCTTG
1 AATTAATTCTTG
19633062 AATTAATTCTTG
1 AATTAATTCTTG
19633074 A
1 A
19633075 TAAATTGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
AATTAATTCTTG
Found at i:19637878 original size:16 final size:16
Alignment explanation
Indices: 19637857--19637893 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
19637847 GTTTTTACGT
19637857 TTTTGGTTTCGGTCAG
1 TTTTGGTTTCGGTCAG
19637873 TTTTGGTTTCGGTCAG
1 TTTTGGTTTCGGTCAG
19637889 TTTTG
1 TTTTG
19637894 CATTTTTGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.05, C:0.11, G:0.30, T:0.54
Consensus pattern (16 bp):
TTTTGGTTTCGGTCAG
Found at i:19638875 original size:27 final size:27
Alignment explanation
Indices: 19638753--19638872 Score: 156
Period size: 27 Copynumber: 4.4 Consensus size: 27
19638743 ATCGCTTTAA
19638753 AGGGTAAAATGATCGAAATACCCTCGA-
1 AGGGTAAAATGATCGAAATACCCTC-AT
* *
19638780 AGGATAAAATGATCGAAATACCCTCAA
1 AGGGTAAAATGATCGAAATACCCTCAT
* *
19638807 AGGATAAAATGATCGAAATACCCCCAT
1 AGGGTAAAATGATCGAAATACCCTCAT
19638834 AGGGTAAAATGA-CTGAAATACACC-CAT
1 AGGGTAAAATGATC-GAAATAC-CCTCAT
19638861 AGGGTAAAATGA
1 AGGGTAAAATGA
19638873 CTGTTATGCC
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
26 2 0.02
27 82 0.95
28 2 0.02
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.18
Consensus pattern (27 bp):
AGGGTAAAATGATCGAAATACCCTCAT
Found at i:19639102 original size:26 final size:26
Alignment explanation
Indices: 19639050--19639104 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
19639040 TTTGCCACAT
* * *
19639050 ATACTGTTATTGGTAGCTTCGCGGCG
1 ATACTATTACTGGTAGCTTCACGGCG
* *
19639076 ATACTATTACTGGTAGCTTTACTGCG
1 ATACTATTACTGGTAGCTTCACGGCG
19639102 ATA
1 ATA
19639105 TTGGTGTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGTAGCTTCACGGCG
Found at i:19646300 original size:27 final size:27
Alignment explanation
Indices: 19646270--19646382 Score: 124
Period size: 26 Copynumber: 4.3 Consensus size: 27
19646260 ATTCGTGGGC
* *
19646270 AAATGACCGAAATACCTTCGA-AGGGTA
1 AAATGACCGAAATACC-CCCATAGGGTA
*
19646297 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
19646324 AAATGACCAAAATA-CCCCATATGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
19646350 AAATGA-CAAAATACCCTCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
19646376 AAATGAC
1 AAATGAC
19646383 TGTTATACCC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.09
26 34 0.46
27 33 0.45
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:19646761 original size:28 final size:28
Alignment explanation
Indices: 19646715--19646778 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
19646705 TGCATTGTAT
* *
19646715 TGTTACTGTATTGGGCTAAGGCCCACAC
1 TGTTACTGTATCGAGCTAAGGCCCACAC
* *
19646743 TGTTACTGTATCGATCTAAGGCCTACAC
1 TGTTACTGTATCGAGCTAAGGCCCACAC
19646771 TG-TACTGT
1 TGTTACTGT
19646779 TACTGTATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (28 bp):
TGTTACTGTATCGAGCTAAGGCCCACAC
Found at i:19646800 original size:33 final size:34
Alignment explanation
Indices: 19646741--19646810 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 34
19646731 TAAGGCCCAC
* *
19646741 ACTGTTACTGTATCGATCTAAGGCCTACACTG-T
1 ACTGTTACTGTATAGAGCTAAGGCCTACACTGAT
* *
19646774 ACTGTTACTGTATAGGGCTCAA-GCCTAGACTGAT
1 ACTGTTACTGTATAGAGCT-AAGGCCTACACTGAT
19646808 ACT
1 ACT
19646811 ACATGTTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
33 25 0.81
34 6 0.19
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (34 bp):
ACTGTTACTGTATAGAGCTAAGGCCTACACTGAT
Found at i:19650895 original size:6 final size:6
Alignment explanation
Indices: 19650870--19650932 Score: 65
Period size: 6 Copynumber: 10.2 Consensus size: 6
19650860 TTCAAATGGA
* *
19650870 TCATTT CTCATTT CTCATTT TCATTT TCATTT TTATTC TCATTT TCA-TT
1 TCATTT -TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
*
19650919 TCTATTT CCATTT T
1 TC-ATTT TCATTT T
19650933 TTTTATAGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
5 4 0.08
6 28 0.58
7 16 0.33
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (6 bp):
TCATTT
Found at i:19650930 original size:18 final size:18
Alignment explanation
Indices: 19650871--19650932 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
19650861 TCAAATGGAT
*
19650871 CATTTCTCATTTCTCATTTT
1 CATTT-TCATTTCT-ATTTC
*
19650891 CATTTTCATTTTTA-TTC
1 CATTTTCATTTCTATTTC
19650908 TCATTTTCATTTCTATTTC
1 -CATTTTCATTTCTATTTC
19650927 CATTTT
1 CATTTT
19650933 TTTTATAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.05
18 20 0.54
19 10 0.27
20 5 0.14
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (18 bp):
CATTTTCATTTCTATTTC
Found at i:19652258 original size:27 final size:27
Alignment explanation
Indices: 19652227--19652287 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
19652217 CATATTAGCT
19652227 AGATAGTTCC-GACGGACTTCCCACATA
1 AGATAGTTCCTG-CGGACTTCCCACATA
*
19652254 AGATAG-TCCTTGCGGACTTCCCACATT
1 AGATAGTTCC-TGCGGACTTCCCACATA
19652281 AGATAGT
1 AGATAGT
19652288 CTTGATGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.10
27 26 0.87
28 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (27 bp):
AGATAGTTCCTGCGGACTTCCCACATA
Found at i:19652285 original size:54 final size:53
Alignment explanation
Indices: 19652226--19652329 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 53
19652216 TCATATTAGC
19652226 TAGATAGT-TCCGACGG-ACTTCCCACATAAGATAGTCCTTGCGGACTTCCCACAT
1 TAGATAGTCT-CGACGGAACTTCCC-CATAAGATAGTCCTTGCGGAC-TCCCACAT
* * * * *
19652280 TAGATAGTCTTGATGGAATTTCCCCATTAGATAGTCCTTGTGGACTCCCA
1 TAGATAGTCTCGACGGAACTTCCCCATAAGATAGTCCTTGCGGACTCCCA
19652330 TAATAGATGG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 5 0.12
54 31 0.72
55 7 0.16
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (53 bp):
TAGATAGTCTCGACGGAACTTCCCCATAAGATAGTCCTTGCGGACTCCCACAT
Found at i:19652288 original size:27 final size:27
Alignment explanation
Indices: 19652239--19652514 Score: 145
Period size: 27 Copynumber: 10.3 Consensus size: 27
19652229 ATAGTTCCGA
*
19652239 CGGACTTCCCACATAAGATAGTCCTTG
1 CGGACTTCCCACATTAGATAGTCCTTG
19652266 CGGACTTCCCACATTAGATAGT-CTTG
1 CGGACTTCCCACATTAGATAGTCCTTG
* *
19652292 ATGGAATTTCCC-CATTAGATAGTCCTTG
1 -CGG-ACTTCCCACATTAGATAGTCCTTG
* * * * *
19652320 TGGAC-TCCCATAATAGATGGTCATT-
1 CGGACTTCCCACATTAGATAGTCCTTG
** * * * *
19652345 ATGAATTTCCACAATAGATAGTTCTTG
1 CGGACTTCCCACATTAGATAGTCCTTG
* * * *
19652372 CAGA-TTTCCACAATAGATAGTCCCTG
1 CGGACTTCCCACATTAGATAGTCCTTG
*
19652398 TGGACTTCCCACATAATAGAT-GATCCTTG
1 CGGACTTCCCACAT--TAGATAG-TCCTTG
* * *
19652427 CAGACTTCCCACATAAGATA-TTCTTG
1 CGGACTTCCCACATTAGATAGTCCTTG
* * ** * *
19652453 ACAGACTTTCTTCAATGGATAGTCCTTG
1 -CGGACTTCCCACATTAGATAGTCCTTG
* * * *
19652481 CGGGCTTCTCATATAAGATAGTCC-TG
1 CGGACTTCCCACATTAGATAGTCCTTG
19652507 ACGGACTT
1 -CGGACTT
19652515 TCCATATATA
Statistics
Matches: 188, Mismatches: 47, Indels: 28
0.71 0.18 0.11
Matches are distributed among these distances:
25 6 0.03
26 60 0.32
27 84 0.45
28 16 0.09
29 22 0.12
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (27 bp):
CGGACTTCCCACATTAGATAGTCCTTG
Found at i:19652319 original size:28 final size:28
Alignment explanation
Indices: 19652242--19652446 Score: 119
Period size: 26 Copynumber: 7.6 Consensus size: 28
19652232 GTTCCGACGG
* *
19652242 ACTTCCCACATAAGATAGTCCTTGCGG-
1 ACTTCCCACATTAGATAGTCCTTGTGGA
19652269 ACTTCCCACATTAGATAGT-CTTGATGGA
1 ACTTCCCACATTAGATAGTCCTTG-TGGA
*
19652297 ATTTCCC-CATTAGATAGTCCTTGTGG-
1 ACTTCCCACATTAGATAGTCCTTGTGGA
* * * * *
19652323 AC-TCCCATAATAGATGGTCATTAT-GA
1 ACTTCCCACATTAGATAGTCCTTGTGGA
* * * **
19652349 A-TTTCCACAATAGATAGTTCTTGCAG-
1 ACTTCCCACATTAGATAGTCCTTGTGGA
* * *
19652375 A-TTTCCACAATAGATAGTCCCTGTGG-
1 ACTTCCCACATTAGATAGTCCTTGTGGA
**
19652401 ACTTCCCACATAATAGAT-GATCCTTGCAG-
1 ACTTCCCACAT--TAGATAG-TCCTTGTGGA
*
19652430 ACTTCCCACATAAGATA
1 ACTTCCCACATTAGATA
19652447 TTCTTGACAG
Statistics
Matches: 140, Mismatches: 26, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
25 5 0.04
26 56 0.40
27 46 0.33
28 11 0.08
29 22 0.16
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (28 bp):
ACTTCCCACATTAGATAGTCCTTGTGGA
Found at i:19652387 original size:52 final size:53
Alignment explanation
Indices: 19652254--19652483 Score: 164
Period size: 52 Copynumber: 4.3 Consensus size: 53
19652244 TTCCCACATA
* * *
19652254 AGATAGTCCTTGCGGACTTCCCACATTAGATAGTCTTGATGGAATTTCCCCATT
1 AGATAGTCCTTGCGGA-TTCCCACAATAGATAGTCTTGATGGAATTTCCACAAT
* * * *
19652308 AGATAGTCCTTGTGGACTCCCATAATAGATGGTCATT-AT-GAATTTCCACAAT
1 AGATAGTCCTTGCGGATTCCCACAATAGATAGTC-TTGATGGAATTTCCACAAT
* * * * * *
19652360 AGATAGTTCTTGCAGATTTCCACAATAGATAGTCCCTG-TGGACTTCCCACATAAT
1 AGATAGTCCTTGCGGATTCCCACAATAGATAGT-CTTGATGGAATTTCCAC--AAT
* * ** * **
19652415 AGAT-GATCCTTGCAGACTTCCCAC-ATAAGATATTCTTGACAGACTTTCTTCAAT
1 AGATAG-TCCTTGCGGA-TTCCCACAAT-AGATAGTCTTGATGGAATTTCCACAAT
*
19652469 GGATAGTCCTTGCGG
1 AGATAGTCCTTGCGG
19652484 GCTTCTCATA
Statistics
Matches: 137, Mismatches: 28, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
52 39 0.28
53 25 0.18
54 32 0.23
55 22 0.16
56 19 0.14
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (53 bp):
AGATAGTCCTTGCGGATTCCCACAATAGATAGTCTTGATGGAATTTCCACAAT
Found at i:19652406 original size:26 final size:26
Alignment explanation
Indices: 19652240--19652406 Score: 122
Period size: 26 Copynumber: 6.3 Consensus size: 26
19652230 TAGTTCCGAC
*
19652240 GGACTTCC-CACATAAGATAGTCCTTGC
1 GGACTTCCACA-AT-AGATAGTCCTTGT
*
19652267 GGACTTCCCACATTAGATAGT-CTTGAT
1 GGACTT-CCACAATAGATAGTCCTTG-T
* * *
19652294 GGAATTTCCCCATTAGATAGTCCTTGT
1 GG-ACTTCCACAATAGATAGTCCTTGT
* * * * *
19652321 GGACTCCCATAATAGATGGTCATTAT
1 GGACTTCCACAATAGATAGTCCTTGT
* * * *
19652347 GAATTTCCACAATAGATAGTTCTTGC
1 GGACTTCCACAATAGATAGTCCTTGT
* * *
19652373 AGATTTCCACAATAGATAGTCCCTGT
1 GGACTTCCACAATAGATAGTCCTTGT
19652399 GGACTTCC
1 GGACTTCC
19652407 CACATAATAG
Statistics
Matches: 107, Mismatches: 28, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
26 64 0.60
27 31 0.29
28 10 0.09
29 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (26 bp):
GGACTTCCACAATAGATAGTCCTTGT
Found at i:19655785 original size:21 final size:19
Alignment explanation
Indices: 19655722--19655788 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 19
19655712 ATTTTAATAA
*
19655722 TTTTTATTAAAATTTA-AAT
1 TTTTTA-TAAAATTTATAGT
* *
19655741 TTTTTATAATATTTATTGT
1 TTTTTATAAAATTTATAGT
19655760 ATTTTTCATAAAATTTTATAGT
1 -TTTTT-ATAAAA-TTTATAGT
19655782 TTTTTAT
1 TTTTTAT
19655789 TTTAAAATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 8 0.21
19 7 0.18
20 7 0.18
21 10 0.26
22 7 0.18
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTTATAAAATTTATAGT
Found at i:19662540 original size:17 final size:17
Alignment explanation
Indices: 19662513--19662552 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
19662503 TAAGTTACTC
19662513 TTTTAAGAATACAATATA
1 TTTT-AGAATACAATATA
*
19662531 TTTTAGAATATAATATA
1 TTTTAGAATACAATATA
19662548 TTTTA
1 TTTTA
19662553 CCTTTGTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (17 bp):
TTTTAGAATACAATATA
Found at i:19668022 original size:40 final size:41
Alignment explanation
Indices: 19667949--19668040 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 41
19667939 ACCTGAACAT
* *
19667949 CAGGCTTTGTGCCGGTGTTATTTATCAGGCTTTGTGCCTAG
1 CAGGCTTTGTGCCAGTGTTATTTATCAAGCTTTGTGCCTAG
* *
19667990 CAGGCTTTGTGCCATTG-TGTTTATCAAGCTTTGTGCCTAG
1 CAGGCTTTGTGCCAGTGTTATTTATCAAGCTTTGTGCCTAG
* *
19668030 CATGCCTTGTG
1 CAGGCTTTGTG
19668041 TCGATGTTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
40 30 0.67
41 15 0.33
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (41 bp):
CAGGCTTTGTGCCAGTGTTATTTATCAAGCTTTGTGCCTAG
Found at i:19670753 original size:13 final size:14
Alignment explanation
Indices: 19670715--19670756 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
19670705 TATGTGAAGA
19670715 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
19670730 ATCATTTTTAAAATT
1 AT-ATTATTAAAATT
19670745 -TATTATTAAAAT
1 ATATTATTAAAAT
19670757 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:19670863 original size:11 final size:10
Alignment explanation
Indices: 19670838--19670866 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
19670828 AAAAAATATA
19670838 ATTTTTAAAT
1 ATTTTTAAAT
19670848 ATTTTTAAAT
1 ATTTTTAAAT
19670858 ATTTTTAAA
1 ATTTTTAAA
19670867 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:19671107 original size:14 final size:14
Alignment explanation
Indices: 19671088--19671114 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19671078 CAGGAAAATA
19671088 CATAAAACCTTTTC
1 CATAAAACCTTTTC
19671102 CATAAAACCTTTT
1 CATAAAACCTTTT
19671115 ACATGTAAAC
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:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (14 bp):
CATAAAACCTTTTC
Found at i:19678468 original size:11 final size:11
Alignment explanation
Indices: 19678448--19678569 Score: 75
Period size: 11 Copynumber: 11.6 Consensus size: 11
19678438 ACAAAAATTA
19678448 AAAAAGTATTTT
1 AAAAA-TATTTT
19678460 AAAAATATTTT
1 AAAAATATTTT
19678471 --AAA-A--TT
1 AAAAATATTTT
* *
19678477 AAAAAAAATTT
1 AAAAATATTTT
*
19678488 AAAAAGCATTTT
1 AAAAA-TATTTT
* *
19678500 AAAAAAAATTT
1 AAAAATATTTT
19678511 AAAAATATTTT
1 AAAAATATTTT
19678522 --AAA-A--TT
1 AAAAATATTTT
*
19678528 AAAAAAATTTT
1 AAAAATATTTT
19678539 AAAAAAGTATTTT
1 -AAAAA-TATTTT
*
19678552 AAAAGTATTTT
1 AAAAATATTTT
19678563 AAAAATA
1 AAAAATA
19678570 AAAAATAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 27
0.71 0.07 0.22
Matches are distributed among these distances:
6 4 0.05
8 8 0.09
9 8 0.09
11 40 0.45
12 23 0.26
13 5 0.06
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:19678480 original size:17 final size:17
Alignment explanation
Indices: 19678458--19678491 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19678448 AAAAAGTATT
* *
19678458 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
19678475 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
19678492 AGCATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:19678505 original size:23 final size:22
Alignment explanation
Indices: 19678475--19678525 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
19678465 TATTTTAAAA
19678475 TTAAAAAAAATTTAAAAAGCATT
1 TTAAAAAAAATTTAAAAA-CATT
*
19678498 TTAAAAAAAATTTAAAAATATT
1 TTAAAAAAAATTTAAAAACATT
19678520 TTAAAA
1 TTAAAA
19678526 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAAAAAATTTAAAAACATT
Found at i:19678516 original size:51 final size:52
Alignment explanation
Indices: 19678457--19678569 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 52
19678447 AAAAAAGTAT
19678457 TTTAAAAATATTTTAAAATTAAAAAAAATTT-AAAAAGCATTTTAAAAAAAA
1 TTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAGCATTTTAAAAAAAA
* * ** *
19678508 TTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAAAGTATTTTAAAAGTAT
1 TTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAGCATTTTAAAAAAAA
19678560 TTTAAAAATA
1 TTTAAAAATA
19678570 AAAAATAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 30 0.54
52 26 0.46
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (52 bp):
TTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAGCATTTTAAAAAAAA
Found at i:19678530 original size:40 final size:40
Alignment explanation
Indices: 19678441--19678573 Score: 126
Period size: 40 Copynumber: 3.3 Consensus size: 40
19678431 AATTAAAACA
* * * ***
19678441 AAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA-AAA
1 AAAATT-AAAAAGAATTTTAAAAAAATTTTAAAAATATTTT
* *
19678481 AAAATTTAAAAAGCATTTTAAAAAAAATTTAAAAATATTTT
1 AAAA-TTAAAAAGAATTTTAAAAAAATTTTAAAAATATTTT
*
19678522 AAAATTAAAAA-AATTTTAAAAAAGTATTTTAAAAGTATTTT
1 AAAATTAAAAAGAATTTTAAAAAA--ATTTTAAAAATATTTT
*
19678563 AAAAATAAAAA
1 AAAATTAAAAA
19678574 ATAAAAAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
39 11 0.14
40 37 0.47
41 30 0.38
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (40 bp):
AAAATTAAAAAGAATTTTAAAAAAATTTTAAAAATATTTT
Found at i:19678531 original size:17 final size:18
Alignment explanation
Indices: 19678504--19678542 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
19678494 CATTTTAAAA
*
19678504 AAAATTTAAAAATATTTT
1 AAAATTTAAAAAAATTTT
19678522 AAAA-TTAAAAAAATTTT
1 AAAATTTAAAAAAATTTT
19678539 AAAA
1 AAAA
19678543 AAGTATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTTAAAAAAATTTT
Found at i:19678534 original size:28 final size:30
Alignment explanation
Indices: 19678422--19678555 Score: 96
Period size: 30 Copynumber: 4.3 Consensus size: 30
19678412 ACCAAAAATT
*
19678422 TATTTTAAAAATTAAAACAAAAATTAAAAAAG
1 TATTTT-AAAATTAAAA-AAAATTTAAAAAAG
* ***
19678454 TATTTTAAAAATATTTTAAAA-TTAAAAAA-
1 TATTTTAAAATTA-AAAAAAATTTAAAAAAG
* *
19678483 AATTTAAAAAGCATTTTAAAAAAAATTT-AAAAA-
1 TATTT-TAAA--A--TTAAAAAAAATTTAAAAAAG
*
19678516 TATTTTAAAATTAAAAAAATTTTAAAAAAG
1 TATTTTAAAATTAAAAAAAATTTAAAAAAG
19678546 TATTTTAAAA
1 TATTTTAAAA
19678556 GTATTTTAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
28 12 0.15
29 9 0.11
30 22 0.28
31 10 0.12
32 10 0.12
33 13 0.16
34 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (30 bp):
TATTTTAAAATTAAAAAAAATTTAAAAAAG
Found at i:19678543 original size:18 final size:19
Alignment explanation
Indices: 19678480--19678543 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 19
19678470 TAAAATTAAA
*
19678480 AAAAATTTAAAAAGCATTTT
1 AAAAATTTAAAAA-AATTTT
*
19678500 AAAAAAAATTTAAAAATATTTT
1 ---AAAAATTTAAAAAAATTTT
19678522 -AAAA-TTAAAAAAATTTT
1 AAAAATTTAAAAAAATTTT
19678539 AAAAA
1 AAAAA
19678544 AGTATTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 12 0.32
18 8 0.21
22 5 0.13
23 13 0.34
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATTTAAAAAAATTTT
Found at i:19678816 original size:19 final size:19
Alignment explanation
Indices: 19678792--19678895 Score: 63
Period size: 20 Copynumber: 5.4 Consensus size: 19
19678782 AATGATAAAA
19678792 ATAAAAATCAATAAAATTT
1 ATAAAAATCAATAAAATTT
* * * *
19678811 AT-AAAATTATTATATTTT
1 ATAAAAATCAATAAAATTT
*
19678829 AATAAAAA-AACATAAAAATATT
1 -ATAAAAATCA-AT-AAAAT-TT
* *
19678851 -TAAAAA-CTATAAAAATT
1 ATAAAAATCAATAAAATTT
*
19678868 ATAAAAATCATAAAAAATTT
1 ATAAAAATCA-ATAAAATTT
19678888 ATAAAAAT
1 ATAAAAAT
19678896 GTAAGGAAAT
Statistics
Matches: 63, Mismatches: 14, Indels: 15
0.68 0.15 0.16
Matches are distributed among these distances:
17 2 0.03
18 22 0.35
19 8 0.13
20 26 0.41
21 3 0.05
22 2 0.03
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAATCAATAAAATTT
Found at i:19678863 original size:9 final size:8
Alignment explanation
Indices: 19678829--19678927 Score: 63
Period size: 9 Copynumber: 11.0 Consensus size: 8
19678819 ATTATATTTT
*
19678829 AATAAAAA
1 AATATAAA
*
19678837 AACATAAA
1 AATATAAA
19678845 AATATTTAAA
1 AATA--TAAA
19678855 AACTATAAA
1 AA-TATAAA
19678864 AATTATAAA
1 AA-TATAAA
19678873 AATCATAAAA
1 AAT-AT-AAA
19678883 AATTTATAAA
1 AA--TATAAA
*
19678893 AATGTAAGGA
1 AATATAA--A
19678903 AATATAAA
1 AATATAAA
*
19678911 ATTTATAAA
1 A-ATATAAA
19678920 AATATAAA
1 AATATAAA
19678928 TTTATTGTAC
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
8 22 0.30
9 23 0.32
10 23 0.32
11 4 0.05
12 1 0.01
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (8 bp):
AATATAAA
Found at i:19678895 original size:20 final size:20
Alignment explanation
Indices: 19678833--19678895 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
19678823 TATTTTAATA
*
19678833 AAAAAACATAAAAATATTTA-
1 AAAAATCATAAAAA-ATTTAT
*
19678853 AAAACT-AT-AAAAA-TTAT
1 AAAAATCATAAAAAATTTAT
19678870 AAAAATCATAAAAAATTTAT
1 AAAAATCATAAAAAATTTAT
19678890 AAAAAT
1 AAAAAT
19678896 GTAAGGAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 3 0.08
17 6 0.17
18 6 0.17
19 7 0.19
20 14 0.39
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAATCATAAAAAATTTAT
Found at i:19690108 original size:15 final size:15
Alignment explanation
Indices: 19690088--19690119 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19690078 TATTCATACA
*
19690088 AAATATGAAAGACAT
1 AAATATAAAAGACAT
19690103 AAATATAAAAGACAT
1 AAATATAAAAGACAT
19690118 AA
1 AA
19690120 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:19694336 original size:5 final size:5
Alignment explanation
Indices: 19694324--19694361 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
19694314 AAAAGTTAAG
*
19694324 TATA- TATAT TATA- TATAT TATAT TATAT AATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
19694362 AATAAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
4 8 0.27
5 22 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
TATAT
Done.