Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 177 of 216
Found at i:55372642 original size:17 final size:18
Alignment explanation
Indices: 55372603--55372644 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
55372593 TTTACTAACC
* *
55372603 ATTAATACAAATTTTTGA
1 ATTAATACAAATTTATCA
*
55372621 CTTAATAC-AATTTATCA
1 ATTAATACAAATTTATCA
55372638 ATTAATA
1 ATTAATA
55372645 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAATACAAATTTATCA
Found at i:55375967 original size:126 final size:124
Alignment explanation
Indices: 55375667--55376007 Score: 517
Period size: 126 Copynumber: 2.7 Consensus size: 124
55375657 CTACTGTAAT
* *
55375667 AAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTACTAGAAGCGAT
1 AAAAGCGC-TCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGAT
* *
55375732 TTTATATTATTTGCTCAGAAACGTC--AAAAAAATTATTTCTTACATGACCTACTGTAGC
65 TTTATATTATTTACTCAGAAACGTCAAAAAAAAATTATTTCTTACATGACCTACTATAGC
* * *
55375790 AAAAGCGCGCTGACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGAT
1 AAAAGCGCTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGAT
* * *
55375855 TTTATACTATTTACTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGACCTACTATAGC
65 TTTATATTATTTACTCAGAAACGTCAAAAAAA-AATTATTTCTTACATGACCTACTATAGC
*
55375916 AAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATACCATCCTGCTAGAAGCGAT
1 AAAAGCGC-TCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGAT
55375981 TTTATATTATTTTA-TCAGAAACGTCAA
65 TTTATATTA-TTTACTCAGAAACGTCAA
55376008 CTCGAAATTA
Statistics
Matches: 197, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
122 1 0.01
123 81 0.41
125 5 0.03
126 105 0.53
127 5 0.03
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (124 bp):
AAAAGCGCTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATT
TTATATTATTTACTCAGAAACGTCAAAAAAAAATTATTTCTTACATGACCTACTATAGC
Found at i:55378786 original size:22 final size:23
Alignment explanation
Indices: 55378723--55378792 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
55378713 TTTTTTTTCC
*
55378723 TGCTACCATTTTGTTGTTGT-TT
1 TGCTACCATTTTGTTGTTATATT
* *
55378745 TGCTACCATTTTGCTATTATATT
1 TGCTACCATTTTGTTGTTATATT
* *
55378768 T-TTACTATTTTGTTGTTATTATT
1 TGCTACCATTTTGTTGTTA-TATT
55378791 TG
1 TG
55378793 GATATTACAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 30 0.79
23 8 0.21
ACGTcount: A:0.16, C:0.11, G:0.13, T:0.60
Consensus pattern (23 bp):
TGCTACCATTTTGTTGTTATATT
Found at i:55385181 original size:17 final size:17
Alignment explanation
Indices: 55385159--55385195 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
55385149 ATAAGAACAT
55385159 ACTAACATTTTCATGAA
1 ACTAACATTTTCATGAA
55385176 ACTAACATTTTCATGAA
1 ACTAACATTTTCATGAA
55385193 ACT
1 ACT
55385196 TAAATCAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (17 bp):
ACTAACATTTTCATGAA
Found at i:55390807 original size:29 final size:28
Alignment explanation
Indices: 55390775--55390831 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
55390765 ATGTCCTAAG
*
55390775 TGAACTTTAATTTTATGTAATTTTATACA
1 TGAACTTTAATTTGATGTAATTTT-TACA
* * *
55390804 TGAATTTTGATTTGATTTAATTTTTACA
1 TGAACTTTAATTTGATGTAATTTTTACA
55390832 AATTATTGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (28 bp):
TGAACTTTAATTTGATGTAATTTTTACA
Found at i:55393562 original size:15 final size:16
Alignment explanation
Indices: 55393538--55393577 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
55393528 TTCTTTGTCC
*
55393538 TTTTTCATTTTTTCTG
1 TTTTTTATTTTTTCTG
55393554 -TTTTTA-TTTTTCTG
1 TTTTTTATTTTTTCTG
55393568 TTTTTTATTT
1 TTTTTTATTT
55393578 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 8 0.38
15 11 0.52
16 2 0.10
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTTTATTTTTTCTG
Found at i:55393702 original size:22 final size:24
Alignment explanation
Indices: 55393671--55393718 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
55393661 ATTTGAAATG
55393671 TTTTATAATAT-TATTTTTTAAAA
1 TTTTATAATATATATTTTTTAAAA
55393694 TTTTA-AATATATATTTTTTAAAA
1 TTTTATAATATATATTTTTTAAAA
55393717 TT
1 TT
55393719 ATTTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTATAATATATATTTTTTAAAA
Found at i:55393720 original size:36 final size:34
Alignment explanation
Indices: 55393671--55393751 Score: 110
Period size: 36 Copynumber: 2.4 Consensus size: 34
55393661 ATTTGAAATG
* *
55393671 TTTTATAATATTATTTTTTAAAATTTTAAATATATA
1 TTTTTTAAAATTATTTTTTAAAA-TTTAAATAT-TA
*
55393707 TTTTTTAAAATTATTTTTTTAAATTTAAATATTA
1 TTTTTTAAAATTATTTTTTAAAATTTAAATATTA
55393741 -TTTTTAAAATT
1 TTTTTTAAAATT
55393752 TTAAATATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 11 0.26
34 2 0.05
35 9 0.21
36 20 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (34 bp):
TTTTTTAAAATTATTTTTTAAAATTTAAATATTA
Found at i:55393724 original size:14 final size:16
Alignment explanation
Indices: 55393694--55393729 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
55393684 TTTTTTAAAA
55393694 TTTT-AAATATATATT
1 TTTTAAAATATATATT
55393709 TTTTAAAAT-TAT-TT
1 TTTTAAAATATATATT
55393723 TTTTAAA
1 TTTTAAA
55393730 TTTAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 7 0.35
16 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTAAAATATATATT
Found at i:55393735 original size:20 final size:20
Alignment explanation
Indices: 55393672--55393783 Score: 92
Period size: 21 Copynumber: 5.5 Consensus size: 20
55393662 TTTGAAATGT
55393672 TTTATAATATTATTTTTTAAAA
1 TTTA-AATATTATTTTTT-AAA
*
55393694 TTTTAAATA-TA-TATTT---
1 -TTTAAATATTATTTTTTAAA
55393710 TTTAAA-ATTATTTTTTTAAA
1 TTTAAATATTA-TTTTTTAAA
*
55393730 TTTAAATATTATTTTTAAAA
1 TTTAAATATTATTTTTTAAA
55393750 TTTTAAATATTATTTTTTAATA
1 -TTTAAATATTATTTTTTAA-A
55393772 TTATAAAATATT
1 TT-T-AAATATT
55393784 TAAAATATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
14 1 0.01
15 8 0.11
17 4 0.05
20 18 0.24
21 26 0.35
22 6 0.08
23 11 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAAATATTATTTTTTAAA
Found at i:55393742 original size:21 final size:22
Alignment explanation
Indices: 55393709--55393783 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
55393699 AATATATATT
*
55393709 TTTTAAA-ATTATTTTTTTAAA
1 TTTTAAATATTATTTTTTAAAA
55393730 -TTTAAATATTA-TTTTTAAAA
1 TTTTAAATATTATTTTTTAAAA
*
55393750 TTTTAAATATTATTTTTTAATA
1 TTTTAAATATTATTTTTTAAAA
*
55393772 TTATAAAATATT
1 TT-TTAAATATT
55393784 TAAAATATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.30
21 15 0.32
22 10 0.21
23 8 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTAAATATTATTTTTTAAAA
Found at i:55393794 original size:55 final size:54
Alignment explanation
Indices: 55393677--55393803 Score: 150
Period size: 55 Copynumber: 2.3 Consensus size: 54
55393667 AATGTTTTAT
* *
55393677 AATATTATTTTTTAAAATTTTAAATATATATTTTTTAAAATTATTTTTTTAAATTTA
1 AATATTA-TTTTTAAAATTTTAAATATATATTTTTTAAAATTATATATTTAAA--TA
*
55393734 AATATTATTTTTAAAATTTTAAATAT-TATTTTTTAATATTATAAAATATTTAAA-A
1 AATATTATTTTTAAAATTTTAAATATATATTTTTTAAAATTAT---ATATTTAAATA
*
55393789 TATATTATTTTTAAA
1 AATATTATTTTTAAA
55393804 GATATGACCT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
55 30 0.48
56 19 0.30
57 7 0.11
58 7 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (54 bp):
AATATTATTTTTAAAATTTTAAATATATATTTTTTAAAATTATATATTTAAATA
Found at i:55393856 original size:22 final size:21
Alignment explanation
Indices: 55393825--55393881 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
55393815 TCAAATTTAT
*
55393825 TATTTGTTTTATAATATTTTAA-A
1 TATTT-TTTTA-AA-ATTTAAATA
55393848 TATTTTTTTAAAATTTAAATA
1 TATTTTTTTAAAATTTAAATA
55393869 TAATTTTTTTAAA
1 T-ATTTTTTTAAA
55393882 TTATTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 6 0.19
21 4 0.13
22 16 0.52
23 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTTTTAAAATTTAAATA
Found at i:55393864 original size:19 final size:20
Alignment explanation
Indices: 55393842--55393883 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
55393832 TTTATAATAT
55393842 TTTAAATAT-TTTTTTAAAA
1 TTTAAATATATTTTTTAAAA
*
55393861 TTTAAATATAATTTTTTTAAA
1 TTTAAATAT-ATTTTTTAAAA
55393882 TT
1 TT
55393884 ATTAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAAATATATTTTTTAAAA
Found at i:55393894 original size:16 final size:17
Alignment explanation
Indices: 55393861--55393902 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
55393851 TTTTTTAAAA
55393861 TTTAAA-TA-TAATTTT
1 TTTAAATTATTAATTTT
55393876 TTTAAATTATTAA-TTT
1 TTTAAATTATTAATTTT
55393892 TTTAAATTATT
1 TTTAAATTATT
55393903 TTTAAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.24
16 16 0.64
17 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATTATTAATTTT
Found at i:55393916 original size:21 final size:21
Alignment explanation
Indices: 55393892--55393939 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
55393882 TTATTAATTT
55393892 TTTAAAT-TATTTTTAAAGATA
1 TTTAAATGT-TTTTTAAAGATA
**
55393913 TTTAAATGTTTTTTAATTATA
1 TTTAAATGTTTTTTAAAGATA
55393934 TTTAAA
1 TTTAAA
55393940 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTAAATGTTTTTTAAAGATA
Found at i:55393925 original size:31 final size:29
Alignment explanation
Indices: 55393890--55393947 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
55393880 AATTATTAAT
*
55393890 TTTTTAAATTATTTTTAAAGATATTTAAATG
1 TTTTTAAATTATATTTAAA-AT-TTTAAATG
*
55393921 TTTTTTAATTATATTTAAAATTTTAAA
1 TTTTTAAATTATATTTAAAATTTTAAA
55393948 AAATAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 2 0.08
31 17 0.68
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (29 bp):
TTTTTAAATTATATTTAAAATTTTAAATG
Found at i:55403351 original size:21 final size:20
Alignment explanation
Indices: 55403325--55403402 Score: 61
Period size: 21 Copynumber: 3.9 Consensus size: 20
55403315 GAAGGAAAGT
55403325 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGCCTTTTAACTT-A
**
55403346 TAGTTTTGATTTTTTAACTT-
1 TAGTTTTG-CCTTTTAACTTA
***
55403366 TAG-AAAGCCTTTTAACTTTA
1 TAGTTTTGCCTTTTAAC-TTA
*
55403386 TAGTTTTGACTTTTAAC
1 TAGTTTTGCCTTTTAAC
55403403 ATTAGAAAAG
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
18 7 0.17
19 3 0.07
20 6 0.14
21 17 0.40
22 9 0.21
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (20 bp):
TAGTTTTGCCTTTTAACTTA
Found at i:55403389 original size:40 final size:39
Alignment explanation
Indices: 55403332--55403410 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 39
55403322 AGTTAGTTTT
* *
55403332 GCCTTTTAACTTGATAGTTTTGATTTTTTAACTTTAGAAA
1 GCCTTTTAACTTGATAGTTTTGA-CTTTTAACATTAGAAA
*
55403372 GCCTTTTAACTTTATAGTTTTGACTTTTAACATTAGAAA
1 GCCTTTTAACTTGATAGTTTTGACTTTTAACATTAGAAA
55403411 AGGTAAACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 14 0.39
40 22 0.61
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.48
Consensus pattern (39 bp):
GCCTTTTAACTTGATAGTTTTGACTTTTAACATTAGAAA
Found at i:55403461 original size:21 final size:21
Alignment explanation
Indices: 55403435--55403476 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
55403425 CAAAATAGCG
*
55403435 TAGTTTTGCCGTTTAACTTTA
1 TAGTTTTGACGTTTAACTTTA
*
55403456 TAGTTTTGACTTTTAACTTTA
1 TAGTTTTGACGTTTAACTTTA
55403477 GAAGAGGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACGTTTAACTTTA
Found at i:55403509 original size:70 final size:70
Alignment explanation
Indices: 55403376--55403514 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 70
55403366 TAGAAAGCCT
*
55403376 TTTAACTTTATAGTTTTGACTTTTAACATTAGAAAAGGTAAACATTTATCAAAATAGCGTAGTTT
1 TTTAACTTTATAGTTTTGACTTTTAACATTAGAAAAGGTAAACATTTATCAAAATAGCATAGTTT
55403441 TGCCG
66 TGCCG
* * *
55403446 TTTAACTTTATAGTTTTGACTTTTAACTTTAGAAGAGGTAAACATTTATCAAAGT-GACATAGTT
1 TTTAACTTTATAGTTTTGACTTTTAACATTAGAAAAGGTAAACATTTATCAAAATAG-CATAGTT
55403510 TTGCC
65 TTGCC
55403515 TTTTTTTTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 1 0.02
70 63 0.98
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (70 bp):
TTTAACTTTATAGTTTTGACTTTTAACATTAGAAAAGGTAAACATTTATCAAAATAGCATAGTTT
TGCCG
Found at i:55403842 original size:18 final size:19
Alignment explanation
Indices: 55403803--55403844 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
55403793 ATATTTTTAG
* *
55403803 ATTTTTTTAAAATTTTATA
1 ATTTTTTTAAAAGTATATA
55403822 ATTTTTTTAAAAGTATA-A
1 ATTTTTTTAAAAGTATATA
55403840 ATTTT
1 ATTTT
55403845 AGAATTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTTTTAAAAGTATATA
Found at i:55403856 original size:18 final size:19
Alignment explanation
Indices: 55403835--55403870 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
55403825 TTTTTAAAAG
55403835 TATAAAT-TTTAGAATTTC
1 TATAAATATTTAGAATTTC
*
55403853 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
55403871 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
TATAAATATTTAGAATTTC
Found at i:55403870 original size:19 final size:18
Alignment explanation
Indices: 55403835--55403883 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
55403825 TTTTTAAAAG
*
55403835 TATAAAT-TTTAGAATTT
1 TATAAATATTTTGAATTT
55403852 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
55403871 TAAAAATTATTTT
1 TATAAA-TATTTT
55403884 CAAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:55403877 original size:18 final size:21
Alignment explanation
Indices: 55403840--55403896 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 21
55403830 AAAAGTATAA
*
55403840 ATTTTAGAATTTCTATAAA-T
1 ATTTTAGAATTTCTAAAAATT
55403860 ATTTT-GAATTT-TAAAAATT
1 ATTTTAGAATTTCTAAAAATT
*
55403879 ATTTTCAAAATTT-TAAAA
1 ATTTT-AGAATTTCTAAAA
55403897 TTAGTTTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 12 0.38
20 5 0.16
21 10 0.31
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (21 bp):
ATTTTAGAATTTCTAAAAATT
Found at i:55409437 original size:25 final size:24
Alignment explanation
Indices: 55409372--55409452 Score: 90
Period size: 25 Copynumber: 3.3 Consensus size: 24
55409362 TTCTCGATAT
*
55409372 TGGCTCATATGAGCTTCCCGTTAA
1 TGGCTCACATGAGCTTCCCGTTAA
* ** *
55409396 TGGCTCGCCGGAACTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCGTTA-A
*
55409421 TGGCTCACATGAGCTTCCCGTTTA
1 TGGCTCACATGAGCTTCCCGTTAA
55409445 TGTGCTCA
1 TG-GCTCA
55409453 TATAAGCATT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 21 0.47
25 24 0.53
ACGTcount: A:0.17, C:0.30, G:0.22, T:0.31
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCGTTAA
Found at i:55410402 original size:42 final size:42
Alignment explanation
Indices: 55410339--55410431 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
55410329 TTTCATCCAT
* *
55410339 ACGGGCATGTGTCTTAGCCGTGTGTGACACACGGCCTAGCAC
1 ACGGGCATGTGGCTCAGCCGTGTGTGACACACGGCCTAGCAC
*
55410381 ACGGGCATGTGGCTCATCCGTGTGTGACACACGGCCTAGCAC
1 ACGGGCATGTGGCTCAGCCGTGTGTGACACACGGCCTAGCAC
*
55410423 ATGGGCATG
1 ACGGGCATG
55410432 AGACTTGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.20
Consensus pattern (42 bp):
ACGGGCATGTGGCTCAGCCGTGTGTGACACACGGCCTAGCAC
Found at i:55410444 original size:42 final size:42
Alignment explanation
Indices: 55410339--55410444 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
55410329 TTTCATCCAT
*
55410339 ACGGGCATGTGTCTTAGCCGTGTGTGACACACGGCCTAGCAC
1 ACGGGCATGTGACTTAGCCGTGTGTGACACACGGCCTAGCAC
* * *
55410381 ACGGGCATGTGGCTCATCCGTGTGTGACACACGGCCTAGCAC
1 ACGGGCATGTGACTTAGCCGTGTGTGACACACGGCCTAGCAC
* * *
55410423 ATGGGCATGAGACTTGGCCGTG
1 ACGGGCATGTGACTTAGCCGTG
55410445 CGTCCCCTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.19, C:0.27, G:0.33, T:0.21
Consensus pattern (42 bp):
ACGGGCATGTGACTTAGCCGTGTGTGACACACGGCCTAGCAC
Found at i:55411348 original size:42 final size:41
Alignment explanation
Indices: 55411302--55411548 Score: 174
Period size: 42 Copynumber: 5.8 Consensus size: 41
55411292 TAGAAAAAAA
*
55411302 CGCCGCTAAAAACCATGTTCTTTAGTGACGTTTTTTTATAAG
1 CGCCGCTAAAAA-CATGTTCTTTAGTGGCGTTTTTTTATAAG
* ** *
55411344 CGCCGCTGAAGAACATGAACTTTAGTGGC-ATTTTTTATTAAG
1 CGCCGCT-AAAAACATGTTCTTTAGTGGCGTTTTTTTA-TAAG
* *
55411386 CGCCGCTGAAGAACATGATCTTTAGTGGCG-TTTTTTATTAAG
1 CGCCGCT-AAAAACATGTTCTTTAGTGGCGTTTTTTTA-TAAG
* * * ** * * * *
55411428 TGCCGTTAAAGAACATGTTTTTTAACGGCGCTTTGTATAAAAAA
1 CGCCGCTAAA-AACATGTTCTTTAGTGGCG-TTT-TTTTATAAG
* * * * *
55411472 CGCCACTAAAGATCATGTTCTTCAGCGGCGTTTTTTTATAAA
1 CGCCGCTAAA-AACATGTTCTTTAGTGGCGTTTTTTTATAAG
* * *
55411514 CACCGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
1 CGCCGCTAAA-AACATGTTCTTTAGTGGCGTTTTT
55411549 GTACAAAAAC
Statistics
Matches: 166, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
41 9 0.05
42 120 0.72
43 7 0.04
44 27 0.16
45 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (41 bp):
CGCCGCTAAAAACATGTTCTTTAGTGGCGTTTTTTTATAAG
Found at i:55411501 original size:44 final size:44
Alignment explanation
Indices: 55411434--55411565 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 44
55411424 TAAGTGCCGT
* *
55411434 TAAAGAACATGTTTTTTAACGGCGCTTTGTATAAAAAACGCCAC
1 TAAAGAACATGTTCTTTAGCGGCGCTTTGTATAAAAAACGCCAC
* * * * * * *
55411478 TAAAGATCATGTTCTTCAGCGGCG-TTT-TTTTATAAACACCGC
1 TAAAGAACATGTTCTTTAGCGGCGCTTTGTATAAAAAACGCCAC
*
55411520 TAAAGAACATGTTCTTTAGCGGCGCTTTTGTA-CAAAAACGCCAC
1 TAAAGAACATGTTCTTTAGCGGCGC-TTTGTATAAAAAACGCCAC
55411564 TA
1 TA
55411566 TTTTTTGGTT
Statistics
Matches: 69, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
42 32 0.46
43 3 0.04
44 33 0.48
45 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (44 bp):
TAAAGAACATGTTCTTTAGCGGCGCTTTGTATAAAAAACGCCAC
Found at i:55411918 original size:21 final size:21
Alignment explanation
Indices: 55411894--55411944 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
55411884 TTCTTTTGAA
*
55411894 CCTCTGCTTCTCTCACTGCAG
1 CCTCTGCTTCCCTCACTGCAG
* *
55411915 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCACTGCAG
55411936 CCTCTGCTT
1 CCTCTGCTT
55411945 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.47, G:0.16, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCACTGCAG
Found at i:55417448 original size:7 final size:7
Alignment explanation
Indices: 55417438--55417474 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
55417428 TGATATATTT
55417438 TTATGTA
1 TTATGTA
55417445 TTATGTAA
1 TTATGT-A
55417453 GTTATGTA
1 -TTATGTA
55417461 TTATGTA
1 TTATGTA
55417468 TTATGTA
1 TTATGTA
55417475 AGTACTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 20 0.71
8 2 0.07
9 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (7 bp):
TTATGTA
Found at i:55417597 original size:25 final size:24
Alignment explanation
Indices: 55417543--55417625 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 24
55417533 TCATTATGTG
* *
55417543 AGTTGTGTATAATGTAAGTTAAGA
1 AGTTATGTATAATGTAAGTTATGA
*
55417567 ACGTTATGTATAATGTAAGTTATGCC
1 A-GTTATGTATAATGTAAGTTATG-A
* *
55417593 AGTTATTTAATTTATGTAAGTTATGTA
1 AGTTATGT-A-TAATGTAAGTTATG-A
55417620 AGTTAT
1 AGTTAT
55417626 TTAATTTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 1 0.02
25 26 0.54
26 2 0.04
27 19 0.40
ACGTcount: A:0.34, C:0.04, G:0.19, T:0.43
Consensus pattern (24 bp):
AGTTATGTATAATGTAAGTTATGA
Found at i:55417607 original size:9 final size:9
Alignment explanation
Indices: 55417593--55417751 Score: 99
Period size: 9 Copynumber: 17.1 Consensus size: 9
55417583 AAGTTATGCC
55417593 AGTTATTTA
1 AGTTATTTA
* *
55417602 ATTTATGTA
1 AGTTATTTA
*
55417611 AGTTATGTA
1 AGTTATTTA
55417620 AGTTATTTA
1 AGTTATTTA
*
55417629 A-TTTTTGTA
1 AGTTATT-TA
*
55417638 AGTTATGTA
1 AGTTATTTA
55417647 AGTTAATTTA
1 AGTT-ATTTA
*
55417657 TGTTACTTATGTA
1 AGTTA--T-T-TA
*
55417670 AGTTATGTA
1 AGTTATTTA
*
55417679 AGTTATTTG
1 AGTTATTTA
* *
55417688 ATTTATGTA
1 AGTTATTTA
*
55417697 AGTTATGTA
1 AGTTATTTA
55417706 AGTTATTTA
1 AGTTATTTA
*
55417715 A-TTTTTGTA
1 AGTTATT-TA
*
55417724 AGTTATGTA
1 AGTTATTTA
*
55417733 A-TTAATGTA
1 AGTT-ATTTA
55417742 AGTTATTTA
1 AGTTATTTA
55417751 A
1 A
55417752 TTTGTGATAC
Statistics
Matches: 117, Mismatches: 22, Indels: 22
0.73 0.14 0.14
Matches are distributed among these distances:
8 10 0.09
9 83 0.71
10 15 0.13
11 2 0.02
12 1 0.01
13 6 0.05
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.52
Consensus pattern (9 bp):
AGTTATTTA
Found at i:55417613 original size:27 final size:27
Alignment explanation
Indices: 55417579--55417733 Score: 211
Period size: 27 Copynumber: 5.6 Consensus size: 27
55417569 GTTATGTATA
**
55417579 ATGTAAGTTATGCCAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
55417606 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* *
55417633 TTGTAAGTTATGTAAGTTAATTTATGTTACTT
1 ATGTAAGTTATGTAAGTT-ATTTA----ATTT
*
55417665 ATGTAAGTTATGTAAGTTATTTGATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
55417692 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
55417719 TTGTAAGTTATGTAA
1 ATGTAAGTTATGTAA
55417734 TTAATGTAAG
Statistics
Matches: 114, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
27 85 0.75
28 5 0.04
31 4 0.04
32 20 0.18
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (27 bp):
ATGTAAGTTATGTAAGTTATTTAATTT
Found at i:55417614 original size:18 final size:18
Alignment explanation
Indices: 55417582--55417751 Score: 128
Period size: 18 Copynumber: 9.2 Consensus size: 18
55417572 ATGTATAATG
**
55417582 TAAGTTATGCCAGTTATT
1 TAAGTTATGTAAGTTATT
* *
55417600 TAATTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATT
* *
55417618 TAAGTTATTTAA-TTTTT
1 TAAGTTATGTAAGTTATT
55417635 GTAAGTTATGTAAGTTAATT
1 -TAAGTTATGTAAGTT-ATT
* *
55417655 TATGTTACTTATGTAAGTTATG
1 TA----AGTTATGTAAGTTATT
* * * *
55417677 TAAGTTATTTGATTTATG
1 TAAGTTATGTAAGTTATT
55417695 TAAGTTATGTAAGTTATT
1 TAAGTTATGTAAGTTATT
* * *
55417713 TAATTTTTGTAAGTTATG
1 TAAGTTATGTAAGTTATT
55417731 TAA-TTAATGTAAGTTATT
1 TAAGTT-ATGTAAGTTATT
55417749 TAA
1 TAA
55417752 TTTGTGATAC
Statistics
Matches: 119, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
17 5 0.04
18 92 0.77
19 4 0.03
20 2 0.02
22 4 0.03
23 12 0.10
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (18 bp):
TAAGTTATGTAAGTTATT
Found at i:55422613 original size:115 final size:113
Alignment explanation
Indices: 55422396--55422935 Score: 538
Period size: 115 Copynumber: 4.7 Consensus size: 113
55422386 ATGCATGGTT
* **
55422396 AAGATCAAAACTCTACGTTTTGGTTAAGATATTTCCCGGCGCTTCTCAAAAAGCGCCGCTAATAC
1 AAGA-CAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTC-AAAAGCGCCGCTAATAC
*
55422461 TATGCTTTAGCGGCGATTTCTC-GT-GGACGCCACTAATTCCAGTATACATC
64 TATGCTTTAGCGGCG-TTTCTCAGTATG-CGCCACTAATTCCAGTATACATC
* * *
55422511 AAGACTTAAACGT-TGCGTTTTGGTTAATATATTTTACGGCGCTTCTCAAAATGCGCCGCTAATA
1 AAGAC-AAAAC-TCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAA-GCGCCGCTAATA
* * * * * * *
55422575 GTATGCTTTAGCGGCG-TTCTCAAATAAGTGCCACTAATTCTAATATACCTC
63 CTATGCTTTAGCGGCGTTTCTC-AGTATGCGCCACTAATTCCAGTATACATC
* * *
55422626 AAGACAAAACTCTGCGTTTTGG-TGAGCATATTTTGCGGCGCCTTTTGCAACA-CGCCGCTAATA
1 AAGACAAAACTCTGCGTTTTGGTTAAG-ATATTTTGCGGCG-CTTCT-CAAAAGCGCCGCTAATA
* * ** *
55422689 CTATGGTTTAGCGGCGTTTTTCAGTATGCGCCACTAATAACTGTATACATC
63 CTATGCTTTAGCGGCGTTTCTCAGTATGCGCCACTAATTCCAGTATACATC
* * * * * *
55422740 AAGACAAAAACGCTGCGTTTTGGTTACGAAATTTTGCGGCGCTTCTCCGAACGCGCCGCTAATAG
1 AAGAC-AAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCT-CAAAAGCGCCGCTAATAC
* * * * *
55422805 TATGCCTTAGCGGCGTGTTC-C-CTTTGCGCCACTAATTCTAGTATACCTC
64 TATGCTTTAGCGGCGT-TTCTCAGTATGCGCCACTAATTCCAGTATACATC
* * * * *
55422854 AAGACCAAACTCTGCGTTGTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCAGCTAATATT
1 AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCA-AAAGCGCCGCTAATACT
*
55422919 ATGCTTTAGCGGTGTTT
65 ATGCTTTAGCGGCGTTT
55422936 TCCCTTAAAC
Statistics
Matches: 347, Mismatches: 62, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
112 3 0.01
113 69 0.20
114 113 0.33
115 152 0.44
116 10 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (113 bp):
AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAGCGCCGCTAATACTA
TGCTTTAGCGGCGTTTCTCAGTATGCGCCACTAATTCCAGTATACATC
Found at i:55422802 original size:229 final size:227
Alignment explanation
Indices: 55422396--55422936 Score: 642
Period size: 229 Copynumber: 2.4 Consensus size: 227
55422386 ATGCATGGTT
* * **
55422396 AAGATCAAAACTCTACGTTTTGGTTAAGATATTTCCCGGCGCTTCTCA-AAAAGCGCCGCTAATA
1 AAGA-CAAAACTCTGCGTTGTGGTTAAGATATTTTGCGGCGCTTCTCACAAAA-CGCCGCTAATA
* ** ** *
55422460 CTATGCTTTAGCGGCGATTTCTCGTGGACGCCACTAATTCCAGTATACATCAAGACTTAAACGTT
64 CTATGCTTTAGCGGCG-TTTTTCGTGGACGCCACTAATAACAGTATACATCAAGACAAAAACGCT
* * * *
55422525 GCGTTTTGGTTAATATATTTTACGGCGCTTCTCAAAATGCGCCGCTAATAGTATGCTTTAGCGGC
128 GCGTTTTGGTTAAGAAATTTTACGGCGCTTCTCAAAACGCGCCGCTAATAGTATGCCTTAGCGGC
*
55422590 GT-TCTCAAATAAGTGCCACTAATTCTAATATACCTC
193 GTGT-TC-AATAAGCGCCACTAATTCTAATATACCTC
* * ** *
55422626 AAGACAAAACTCTGCGTTTTGG-TGAGCATATTTTGCGGCGCCTT-TTGCAACACGCCGCTAATA
1 AAGACAAAACTCTGCGTTGTGGTTAAG-ATATTTTGCGGCG-CTTCTCACAAAACGCCGCTAATA
* * *
55422689 CTATGGTTTAGCGGCGTTTTTCAGTATG-CGCCACTAATAACTGTATACATCAAGACAAAAACGC
64 CTATGCTTTAGCGGCGTTTTTC-GT-GGACGCCACTAATAACAGTATACATCAAGACAAAAACGC
* * **
55422753 TGCGTTTTGGTTACGAAATTTTGCGGCGCTTCTCCGAACGCGCCGCTAATAGTATGCCTTAGCGG
127 TGCGTTTTGGTTAAGAAATTTTACGGCGCTTCTCAAAACGCGCCGCTAATAGTATGCCTTAGCGG
** ** *
55422818 CGTGTTCCCTTTGCGCCACTAATTCTAGTATACCTC
192 CGTGTTCAATAAGCGCCACTAATTCTAATATACCTC
* * *
55422854 AAGACCAAACTCTGCGTTGTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCAGCTAATATT
1 AAGACAAAACTCTGCGTTGTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACT
*
55422919 ATGCTTTAGCGGTGTTTT
66 ATGCTTTAGCGGCGTTTT
55422937 CCCTTAAACA
Statistics
Matches: 263, Mismatches: 40, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
227 3 0.01
228 96 0.37
229 152 0.58
230 12 0.05
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (227 bp):
AAGACAAAACTCTGCGTTGTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACT
ATGCTTTAGCGGCGTTTTTCGTGGACGCCACTAATAACAGTATACATCAAGACAAAAACGCTGCG
TTTTGGTTAAGAAATTTTACGGCGCTTCTCAAAACGCGCCGCTAATAGTATGCCTTAGCGGCGTG
TTCAATAAGCGCCACTAATTCTAATATACCTC
Found at i:55422992 original size:228 final size:227
Alignment explanation
Indices: 55422396--55423006 Score: 619
Period size: 229 Copynumber: 2.7 Consensus size: 227
55422386 ATGCATGGTT
* **
55422396 AAGATCAAAACTCTACGTTTTGGTTAAGATATTTCCCGGCGCTTCTCA-AAAAGCGCCGCTAATA
1 AAGA-CAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAA-CGCCGCTAATA
* * ** * **
55422460 CTATGCTTTAGCGGCGATTTCTCGTGGACGCCACTAATTCCAGTATACAT-CA-AGACTTAAACG
64 CTATGCTTTAGCGGCGTTTTCCCGTAAACGCCACTAA---CTGTA-ACATACACAGACAAAAACG
* * * * *
55422523 TTGCGTTTTGGTTAATATATTTTACGGCGCTTCTCAAAATGCGCCGCTAATAGTATGCTTTAGCG
125 CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAACGCGCCGCTAATAGTATGCCTTAGCG
*
55422588 GCGTTCTCAAATAAGTGCCACTAATTCTAATATACCTC
190 GCGTTCTCAAATAAGCGCCACTAATTCTAATATACCTC
* ** *
55422626 AAGACAAAACTCTGCGTTTTGG-TGAGCATATTTTGCGGCGCCTT-TTGCAACACGCCGCTAATA
1 AAGACAAAACTCTGCGTTTTGGTTAAG-ATATTTTGCGGCG-CTTCTCACAAAACGCCGCTAATA
* * * **
55422689 CTATGGTTTAGCGGCGTTTTTCAGTATGCGCCACTAATAACTGTATACAT-CA-AGACAAAAACG
64 CTATGCTTTAGCGGCGTTTTCCCGTAAACGCCAC---TAACTGTA-ACATACACAGACAAAAACG
* * **
55422752 CTGCGTTTTGGTTACGAAATTTTGCGGCGCTTCTCCGAACGCGCCGCTAATAGTATGCCTTAGCG
125 CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAACGCGCCGCTAATAGTATGCCTTAGCG
** ** *
55422817 GCGTGT-TC-CCTTTGCGCCACTAATTCTAGTATACCTC
190 GCGT-TCTCAAATAAGCGCCACTAATTCTAATATACCTC
* * * *
55422854 AAGACCAAACTCTGCGTTGTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCAGCTAATATT
1 AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACT
* * * * *
55422919 ATGCTTTAGCGGTGTTTTCCCTTAAACACCACTAACTGTAACATACACCGAGACCAAAACGGTGC
66 ATGCTTTAGCGGCGTTTTCCCGTAAACGCCACTAACTGTAACATACA-C-AGACAAAAACGCTGC
* *
55422984 GCTTTGGTTAGGATATTTTGCGG
129 GTTTTGGTTAAGATATTTTGCGG
55423007 TGTTTTGCCA
Statistics
Matches: 314, Mismatches: 54, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
224 4 0.01
225 10 0.03
227 3 0.01
228 132 0.42
229 151 0.48
230 11 0.04
232 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (227 bp):
AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACT
ATGCTTTAGCGGCGTTTTCCCGTAAACGCCACTAACTGTAACATACACAGACAAAAACGCTGCGT
TTTGGTTAAGATATTTTGCGGCGCTTCTCAAAACGCGCCGCTAATAGTATGCCTTAGCGGCGTTC
TCAAATAAGCGCCACTAATTCTAATATACCTC
Found at i:55425999 original size:46 final size:46
Alignment explanation
Indices: 55425943--55426054 Score: 116
Period size: 50 Copynumber: 2.3 Consensus size: 46
55425933 CAAAATCTTG
55425943 TTTATTTAATTATTTTCAAATATAATGTTTTAAATAAATATAAATA
1 TTTATTTAATTATTTTCAAATATAATGTTTTAAATAAATATAAATA
* * * ** *
55425989 TTTATTTAATTTGTTTTGTTTAGATATGTTGTTTTACATAAATATAAATA
1 TTTATTTAA--T-TATT-TTCAAATATAATGTTTTAAATAAATATAAATA
*
55426039 TTTGTTTATATTATTT
1 TTTATTTA-ATTATTT
55426055 GTTCAGATCT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
46 9 0.17
47 1 0.02
48 4 0.08
49 4 0.08
50 34 0.64
51 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (46 bp):
TTTATTTAATTATTTTCAAATATAATGTTTTAAATAAATATAAATA
Found at i:55430943 original size:109 final size:110
Alignment explanation
Indices: 55430748--55431057 Score: 430
Period size: 110 Copynumber: 2.8 Consensus size: 110
55430738 TTGAAATTCC
* * * * * * * *
55430748 AAAGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGAGCACG-TTCC
1 AAAGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTC
* * *
55430810 TCGAATTTCCAAACGCAAAACATTGCTTTA-TTTGAGAATTTTTA
66 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTTTA
*
55430854 AAAGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTC
1 AAAGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTC
*
55430919 TCGAATTTCCAAACGCAAGACATTGCCTTATTTTAAAAATTTTTA
66 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTTTA
*
55430964 AAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTC
1 AAAGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTC
* * *
55431029 TCGAATTTCCCAAACACTAAATATTGCCT
66 TCGAATTT-CCAAACGCAAAACATTGCCT
55431058 CAATTAGAAA
Statistics
Matches: 180, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
106 26 0.14
108 24 0.13
109 31 0.17
110 83 0.46
111 16 0.09
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (110 bp):
AAAGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTC
TCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTTTA
Found at i:55431128 original size:20 final size:22
Alignment explanation
Indices: 55431097--55431140 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
55431087 TATGATATTT
*
55431097 ATATGCATAATG-GAATAATAA
1 ATATGCATAATGTGAATAAAAA
55431118 ATATG-ATAATGTGAATAAAAA
1 ATATGCATAATGTGAATAAAAA
55431139 AT
1 AT
55431141 GAACAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.55, C:0.02, G:0.14, T:0.30
Consensus pattern (22 bp):
ATATGCATAATGTGAATAAAAA
Found at i:55431348 original size:12 final size:12
Alignment explanation
Indices: 55431331--55431377 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
55431321 ATTATATAAA
55431331 ATATATATGTAT
1 ATATATATGTAT
55431343 ATATATATGTA-
1 ATATATATGTAT
**
55431354 AGTATATACCTAT
1 A-TATATATGTAT
*
55431367 ATACATATGTA
1 ATATATATGTA
55431378 ACTATCATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 1 0.04
12 26 0.93
13 1 0.04
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:55447631 original size:45 final size:45
Alignment explanation
Indices: 55447546--55447632 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
55447536 TTATACGCCT
* * *
55447546 AAAATAAGTAAGACCATGGCTGAAAGATATTATGGCATCATGATA
1 AAAATAAGTAAGACCATAGCTGAAAGACATTATGACATCATGATA
* *
55447591 AAAATAAGTAAGACCATAGCTGAAAGACGTTATGATATCATG
1 AAAATAAGTAAGACCATAGCTGAAAGACATTATGACATCATG
55447633 TGAAAACATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (45 bp):
AAAATAAGTAAGACCATAGCTGAAAGACATTATGACATCATGATA
Found at i:55458386 original size:13 final size:13
Alignment explanation
Indices: 55458368--55458399 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
55458358 AATCCATAAG
*
55458368 TATTTACTAGAAA
1 TATTTACTAAAAA
55458381 TATTTACTAAAAA
1 TATTTACTAAAAA
55458394 TATTTA
1 TATTTA
55458400 TGGGCTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (13 bp):
TATTTACTAAAAA
Found at i:55459449 original size:41 final size:41
Alignment explanation
Indices: 55459392--55459475 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
55459382 GATGGCTAAA
55459392 TACTTTCAAAGTGATGAATGTGTTTTGGCATGGTTGATCTT
1 TACTTTCAAAGTGATGAATGTGTTTTGGCATGGTTGATCTT
55459433 TACTTTCAAAGTGATGAATGTGTTTTGGCATGGTTGATCTT
1 TACTTTCAAAGTGATGAATGTGTTTTGGCATGGTTGATCTT
55459474 TA
1 TA
55459476 TGTATACATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.44
Consensus pattern (41 bp):
TACTTTCAAAGTGATGAATGTGTTTTGGCATGGTTGATCTT
Found at i:55461451 original size:51 final size:51
Alignment explanation
Indices: 55461375--55461476 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
55461365 ATAAAGCCAT
55461375 GATGTTTTCAATCAATGTCTGAGACTCCCCCATTTGAAGTAATCATATCAA
1 GATGTTTTCAATCAATGTCTGAGACTCCCCCATTTGAAGTAATCATATCAA
55461426 GATGTTTTCAATCAATGTCTGAGACTCCCCCATTTGAAGTAATCATATCAA
1 GATGTTTTCAATCAATGTCTGAGACTCCCCCATTTGAAGTAATCATATCAA
55461477 AAATCTCTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (51 bp):
GATGTTTTCAATCAATGTCTGAGACTCCCCCATTTGAAGTAATCATATCAA
Found at i:55464867 original size:40 final size:41
Alignment explanation
Indices: 55464791--55464867 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
55464781 GGGCATGCGG
* * *
55464791 GGATTTAGTGGCGTTTTTTATTAAGCGCCGCTAAAGATCAA
1 GGATTTAGCGGCGTTTTTGATAAAGCGCCGCTAAAGATCAA
*
55464832 GGATTTAGCGGCGTTTTTGATAAATCGCCGC-AAAGA
1 GGATTTAGCGGCGTTTTTGATAAAGCGCCGCTAAAGA
55464868 AACCTAAGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (41 bp):
GGATTTAGCGGCGTTTTTGATAAAGCGCCGCTAAAGATCAA
Found at i:55464892 original size:114 final size:114
Alignment explanation
Indices: 55464774--55465037 Score: 275
Period size: 114 Copynumber: 2.3 Consensus size: 114
55464764 CAACCACGTT
* * * * *
55464774 GTTTTCTGGGCATGCGGGGATTTAGTGGCGTTTTTTA-TTAAGCGCCGCTAAAGATCAAGGA-TT
1 GTTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTTGAGGT-AGCGCCGCTAAAGATC-AGGACTT
* * * *
55464837 TAGCGGCGTTTTTGATA-AATCGCCGCAAAGAAACCTAAGACC-AACGACGCC
64 TAGCGGCGTTTGT-ATAGAAGCGCCGCAAAGAAACATAAG-CCGAACGACACC
* ** ** * * *
55464888 GTTTTTTGAGCATTCGGTAACCTAGCGGCGTTTTTGAGGTAGCGCCGCTAATGTTCAGTACTTTA
1 GTTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTTGAGGTAGCGCCGCTAAAGATCAGGACTTTA
*
55464953 GCGGCGTTTGTATAGAAGCGCCGCAAATAAACATAAGCCGAACGACACC
66 GCGGCGTTTGTATAGAAGCGCCGCAAAGAAACATAAGCCGAACGACACC
* * *
55465002 GTTCTCTGAGTATTCGGGGATTTAGCGGCATTTTTG
1 GTTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTTG
55465038 GTAAGCGCTG
Statistics
Matches: 120, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
113 8 0.07
114 111 0.93
115 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (114 bp):
GTTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTTGAGGTAGCGCCGCTAAAGATCAGGACTTTA
GCGGCGTTTGTATAGAAGCGCCGCAAAGAAACATAAGCCGAACGACACC
Found at i:55465448 original size:14 final size:15
Alignment explanation
Indices: 55465429--55465471 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
55465419 GGTTTAAGAG
55465429 GTTTAAGGG-TTATA
1 GTTTAAGGGTTTATA
55465443 GTTTAAGGGGTTTTATA
1 GTTTAA-GGG-TTTATA
55465460 GTTTAA-GGTTTA
1 GTTTAAGGGTTTA
55465472 ATGTTTAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.38
15 5 0.19
17 11 0.42
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (15 bp):
GTTTAAGGGTTTATA
Found at i:55466773 original size:147 final size:146
Alignment explanation
Indices: 55466541--55466888 Score: 357
Period size: 146 Copynumber: 2.4 Consensus size: 146
55466531 AAATGTTGGG
* * * * * * *
55466541 GAAACGACTTCG-TTTGATCTTATATTTAGTGGCGCTTTACTAAAAATGCCACAACATTGTTCTA
1 GAAACGACTGCGTTTTGAT-TTATAGTTAGTGGCGCTTTAATTAAAATGCCGCAAAAATGTTCTA
** * * **
55466605 ACATTTATAGAAACGCTGCCGTTTT-TTAAATGTTATTAGTGG-TGATTT-TTTTAAAACGCCA-
65 ACATTTATAGAAACGAGGCCGTTTTGCT--ATATTATTAGTGGCT--TTTATTCAAAAACGCCAC
* *
55466666 AGGGTTTGAGGTAAGTGTTGAT
126 A-GGTGTGAGCTAAGTGTTGAT
* *
55466688 GAAGCGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAATTAAAATGCCGCAAAAATGTTTTAA
1 GAAACGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAATTAAAATGCCGCAAAAATGTTCTAA
* * *
55466753 CATTTATCGATACGAGGCCGTTTTGCTGTATTATTAGTGGCTTTTATTCAAAAACGCCACAGGTG
66 CATTTATAGAAACGAGGCCGTTTTGCTATATTATTAGTGGCTTTTATTCAAAAACGCCACAGGTG
* **
55466818 TGCGCTATTTGTTGAT
131 TGAGCTAAGTGTTGAT
* * *
55466834 GAAACGACTGCGTTTCGACTTATAGTTAGTGGCGC-TTATTTATAAATGCCGCAAA
1 GAAACGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAATTA-AAATGCCGCAAA
55466889 TGGTTAATTT
Statistics
Matches: 168, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
145 9 0.05
146 81 0.48
147 71 0.42
148 7 0.04
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (146 bp):
GAAACGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAATTAAAATGCCGCAAAAATGTTCTAA
CATTTATAGAAACGAGGCCGTTTTGCTATATTATTAGTGGCTTTTATTCAAAAACGCCACAGGTG
TGAGCTAAGTGTTGAT
Found at i:55469212 original size:21 final size:21
Alignment explanation
Indices: 55469186--55469233 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
55469176 CAACAACTTA
*
55469186 AAGCAGAGGCGACAGCGAGGG
1 AAGCAGAGGCGACAGCGAGAG
*
55469207 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
55469228 AAGCAG
1 AAGCAG
55469234 CGATAGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.42, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGAG
Found at i:55469775 original size:85 final size:84
Alignment explanation
Indices: 55469682--55469888 Score: 251
Period size: 85 Copynumber: 2.5 Consensus size: 84
55469672 TTTGTGAAAT
* **
55469682 AAGCGCCGCTAAAGAACACTA-CTATTAGCGGCGTTTTTGAAC-AAGCGCCGTTAAAGAACATTA
1 AAGCGCCGCTAAAGAACACTATCT-TTAGCGGCGTTTTT-AACAAAGCGCCGCTAAAGAACACGA
*
55469745 -CTTTTAGCGGCGTTTTCCTCCA
64 TC-TTTAGCAGCGTTTT-CTCCA
* * **
55469767 AAGTGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTTCAAAGCGCCGCTAAAGAACACGATC
1 AAGCGCCGCTAAAGAACACTATCTTTAGCGGCGTTTTTAACAAAGCGCCGCTAAAGAACACGATC
* *
55469832 TTTAGCAGCGTTTTTTTCA
66 TTTAGCAGCGTTTTCTCCA
55469851 AAGCGCCGCTAAAGAACA-TGATCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACACT-ATCTTTAGCGGCGTTTTT
55469889 TTCTGTAAGC
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
84 39 0.37
85 64 0.60
86 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACACTATCTTTAGCGGCGTTTTTAACAAAGCGCCGCTAAAGAACACGATC
TTTAGCAGCGTTTTCTCCA
Found at i:55469889 original size:42 final size:42
Alignment explanation
Indices: 55469682--55469891 Score: 257
Period size: 42 Copynumber: 5.0 Consensus size: 42
55469672 TTTGTGAAAT
**
55469682 AAGCGCCGCTAAAGAACACT-A-CTATTAGCGGCG-TTTTTGAA
1 AAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTTCA
* * * *
55469723 CAAGCGCCGTTAAAGAACATTA-CTTTTAGCGGCGTTTTCCTCCA
1 -AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTTCA
* *
55469767 AAGTGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTTCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCA
* *
55469809 AAGCGCCGCTAAAGAACACGATCTTTAGCAGCGTTTTTTTCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCA
55469851 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
55469892 TGTAAGCGCC
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.01
42 110 0.74
43 35 0.23
44 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCA
Found at i:55476943 original size:18 final size:18
Alignment explanation
Indices: 55476920--55476964 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
55476910 AGGAACAGCA
55476920 TCTTCTTTTGAAAAATTC
1 TCTTCTTTTGAAAAATTC
55476938 TCTTCTTTTGAAAAATTC
1 TCTTCTTTTGAAAAATTC
55476956 TCTTCTTTT
1 TCTTCTTTT
55476965 TAGAGTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (18 bp):
TCTTCTTTTGAAAAATTC
Found at i:55484192 original size:23 final size:20
Alignment explanation
Indices: 55484145--55484193 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
55484135 AGATATTTTG
55484145 CTTTTATAAAATTTATAAAA
1 CTTTTATAAAATTTATAAAA
* *
55484165 TTTTTATAATAAATTTAGTAATA
1 CTTTTAT-A-AAATTTA-TAAAA
55484188 CTTTTA
1 CTTTTA
55484194 GTTTAATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 6 0.26
21 1 0.04
22 7 0.30
23 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (20 bp):
CTTTTATAAAATTTATAAAA
Found at i:55489229 original size:20 final size:18
Alignment explanation
Indices: 55489179--55489230 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
55489169 CTACAAGTTA
55489179 AATATTAAATTAA-ATTC
1 AATATTAAATTAATATTC
*
55489196 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTC
55489216 AATATTAAATTAATA
1 AATATTAAATTAATA
55489231 AAATACTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (18 bp):
AATATTAAATTAATATTC
Found at i:55490593 original size:5 final size:5
Alignment explanation
Indices: 55490583--55490615 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
55490573 TAAATATTTG
55490583 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
55490616 TTGTAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:55491091 original size:20 final size:21
Alignment explanation
Indices: 55491066--55491104 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55491056 AAAAAAGAAA
55491066 AAATATTT-TTTTTCTCTTAT
1 AAATATTTCTTTTTCTCTTAT
*
55491086 AAATATTTCTTTTTTTCTT
1 AAATATTTCTTTTTCTCTT
55491105 TTTCTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (21 bp):
AAATATTTCTTTTTCTCTTAT
Found at i:55498199 original size:20 final size:20
Alignment explanation
Indices: 55498174--55498212 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55498164 CAGTTTTGCC
* *
55498174 ACGAACATGGAATGCCCGCT
1 ACGAACATAGAATACCCGCT
55498194 ACGAACATAGAATACCCGC
1 ACGAACATAGAATACCCGC
55498213 CGCGTCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.31, G:0.21, T:0.13
Consensus pattern (20 bp):
ACGAACATAGAATACCCGCT
Found at i:55498795 original size:276 final size:276
Alignment explanation
Indices: 55498299--55498887 Score: 711
Period size: 276 Copynumber: 2.1 Consensus size: 276
55498289 TTATATAATG
* * * * *
55498299 GTTTGTCAGTTTATGATCGCAACCTCCAAAAATGGCTTCCGGACCTACGCTTCTAACCAATATTC
1 GTTTGTCGGTTTATGATCGCAACCTCCAAAAATAGCTTCCGGACCTACGCTCCCAACAAATATTC
* * * * * * *
55498364 TAAAAGTTCACAGGTTTAAGCTCACAACTTCAACATAGCTAGCGGACCTACATTTCTAACTGATG
66 TAAAAGTTCACAAGTTTAAACTCACAACTCCAACATAGCTAGCAGAACTACATTCCCAACTGATG
** * *
55498429 TTATAAAGGTTTTTCGGTTTATGATTGCAACCTCCAAAAATAGTTAGCGAACCTACGCTCCCAGC
131 TTATAAAGGTTTACCGGTTTATGACTGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGC
55498494 TAATATTCTAAGAGCCCGCAGGGTTAAGC-T-CATAGCTCCAACACAACTAGAGAACATACGTTC
196 TAATATTCTAAGAGCCCGCAGGGTTAAGCTTGC-T-GCTCCAACACAACTAGAGAACATACGTTC
*
55498557 CCAGTTGATGTTATAAAA
259 CCAATTGATGTTATAAAA
* * *
55498575 GTTTGTCGGTTTATGATCACAACCTCTAAAAATAG-TTATCGGACCTACGCTCCCAACAAATATT
1 GTTTGTCGGTTTATGATCGCAACCTCCAAAAATAGCTT-CCGGACCTACGCTCCCAACAAATATT
* ** * * *
55498639 CTAAGAGTTCACAAAG-TTAAACTCGTAGCTCCAATATAGCTAGCAGAACTACATTCCCAATTGA
65 CTAAAAGTTCAC-AAGTTTAAACTCACAACTCCAACATAGCTAGCAGAACTACATTCCCAACTGA
* *
55498703 TGTTATAAAGGTTTACCGGTTTATGACTGTAACCTCCAAAAATAGCTAGC-AGACCTATGCTCCC
129 TGTTATAAAGGTTTACCGGTTTATGACTGCAACCTCCAAAAATAGCTAGCGA-ACCTACGCTCCC
* * * * * * * * * *
55498767 AGTTGATATTCTACGAGCTCGTAGGGTTAAGCTTGCTGGTCCAACACAGCTAGTGGACCTACGTT
193 AGCTAATATTCTAAGAGCCCGCAGGGTTAAGCTTGCTGCTCCAACACAACTAGAGAACATACGTT
*
55498832 CCCAATTGATGTTATAAAG
258 CCCAATTGATGTTATAAAA
** * *
55498851 GTTTACCGATTTATGATCGCAACCTCCAAAAACAGCT
1 GTTTGTCGGTTTATGATCGCAACCTCCAAAAATAGCT
55498888 AGCGAACCTA
Statistics
Matches: 262, Mismatches: 45, Indels: 11
0.82 0.14 0.03
Matches are distributed among these distances:
275 3 0.01
276 253 0.97
277 5 0.02
278 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (276 bp):
GTTTGTCGGTTTATGATCGCAACCTCCAAAAATAGCTTCCGGACCTACGCTCCCAACAAATATTC
TAAAAGTTCACAAGTTTAAACTCACAACTCCAACATAGCTAGCAGAACTACATTCCCAACTGATG
TTATAAAGGTTTACCGGTTTATGACTGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGC
TAATATTCTAAGAGCCCGCAGGGTTAAGCTTGCTGCTCCAACACAACTAGAGAACATACGTTCCC
AATTGATGTTATAAAA
Found at i:55498965 original size:138 final size:139
Alignment explanation
Indices: 55498307--55498973 Score: 580
Period size: 138 Copynumber: 4.8 Consensus size: 139
55498297 TGGTTTGTCA
* ** * * * * * * *
55498307 GTTTATGATCGCAACCTCCAAAAATGGCTTCCGGACCTACGCTTCTAACCAATATTCTAAAAGTT
1 GTTTATGATCGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGCTAATATTCTAAGAGCT
* * * * * * * * * *
55498372 CACAGGTTTAAGCTCACAACTTCAACA-TAGCTAGCGGACCTACATTTCTAACTGATGTTATAAA
66 CGCAGGATTAAGCTCACAGCTCCAACACAAGCTAGCGAACCTACGTTCCCAATTGATGTTATAAA
**
55498436 GGTTTTTCG
131 GGTTTACCG
* * *
55498445 GTTTATGATTGCAACCTCCAAAAATAGTTAGCGAACCTACGCTCCCAGCTAATATTCTAAGAGCC
1 GTTTATGATCGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGCTAATATTCTAAGAGCT
* * * * *
55498510 CGCAGGGTTAAGCTCATAGCTCCAACACAA-CTAGAGAACATACGTTCCCAGTTGATGTTATAAA
66 CGCAGGATTAAGCTCACAGCTCCAACACAAGCTAGCGAACCTACGTTCCCAATTGATGTTATAAA
* **
55498574 AGTTTGTCG
131 GGTTTACCG
* * * * * * * *
55498583 GTTTATGATCACAACCTCTAAAAATAGTTATCGGACCTACGCTCCCAACAAATATTCTAAGAGTT
1 GTTTATGATCGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGCTAATATTCTAAGAGCT
* * * ** * * *
55498648 CACA-AAGTTAAACTCGTAGCTCCAATA-TAGCTAGCAGAA-CTACATTCCCAATTGATGTTATA
66 CGCAGGA-TTAAGCTCACAGCTCCAACACAAGCTAGC-GAACCTACGTTCCCAATTGATGTTATA
55498710 AAGGTTTACCG
129 AAGGTTTACCG
* * * * *
55498721 GTTTATGA-CTGTAACCTCCAAAAATAGCTAGC-AGACCTATGCTCCCAGTTGATATTCTACGAG
1 GTTTATGATC-GCAACCTCCAAAAATAGCTAGCGA-ACCTACGCTCCCAGCTAATATTCTAAGAG
* * ** * * * *
55498784 CTCGTAGGGTTAAGCTTGCTGGTCCAACAC-AGCTAGTGGACCTACGTTCCCAATTGATGTTATA
64 CTCGCAGGATTAAGCTCACAGCTCCAACACAAGCTAGCGAACCTACGTTCCCAATTGATGTTATA
55498848 AAGGTTTACCG
129 AAGGTTTACCG
* * * * * * *
55498859 ATTTATGATCGCAACCTCCAAAAACAGCTAGCGAACCTATGCTTCTAGTTGATATTCTAAGAGCT
1 GTTTATGATCGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGCTAATATTCTAAGAGCT
* * *
55498924 CGTAGGATTAAGCTCACAACTCCAACACAAG-TAACGAACCTACG-TCCCAA
66 CGCAGGATTAAGCTCACAGCTCCAACACAAGCTAGCGAACCTACGTTCCCAA
55498974 ATTATGGTAT
Statistics
Matches: 424, Mismatches: 93, Indels: 25
0.78 0.17 0.05
Matches are distributed among these distances:
137 10 0.02
138 406 0.96
139 8 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (139 bp):
GTTTATGATCGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGCTAATATTCTAAGAGCT
CGCAGGATTAAGCTCACAGCTCCAACACAAGCTAGCGAACCTACGTTCCCAATTGATGTTATAAA
GGTTTACCG
Found at i:55499160 original size:17 final size:18
Alignment explanation
Indices: 55499115--55499162 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
55499105 TAAAAATATG
*
55499115 CTTAAGTTCAAAATTTCA
1 CTTAAGTCCAAAATTTCA
*
55499133 CTTAAGCCCAAAATTTC-
1 CTTAAGTCCAAAATTTCA
*
55499150 TTTAAGTCCAAAA
1 CTTAAGTCCAAAA
55499163 CGTGCTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (18 bp):
CTTAAGTCCAAAATTTCA
Found at i:55516133 original size:27 final size:25
Alignment explanation
Indices: 55516077--55516141 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 25
55516067 TTCGTATATG
*
55516077 ATTATTTTAACTTGCTTTATAGATT
1 ATTATTTTAAGTTGCTTTATAGATT
*
55516102 ATTATTTTAAGTTGCTTTATATATT
1 ATTATTTTAAGTTGCTTTATAGATT
55516127 ATTTTATTTTAAGTT
1 A--TTATTTTAAGTT
55516142 ATTCTACATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 24 0.67
27 12 0.33
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.60
Consensus pattern (25 bp):
ATTATTTTAAGTTGCTTTATAGATT
Found at i:55516152 original size:27 final size:26
Alignment explanation
Indices: 55516078--55516164 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 26
55516068 TCGTATATGA
* * * *
55516078 TTATTTTAACTTGCTTTATAGATTA-
1 TTATTTTAAGTTGATTTACATATTAC
* * *
55516103 TTATTTTAAGTTGCTTTATATATTATT
1 TTATTTTAAGTTGATTTACATATTA-C
55516130 TTATTTTAAGTT-ATTCTACATATTAC
1 TTATTTTAAGTTGATT-TACATATTAC
55516156 TTATTTTAA
1 TTATTTTAA
55516165 AATTAACCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
25 23 0.43
26 11 0.20
27 20 0.37
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGATTTACATATTAC
Found at i:55531805 original size:45 final size:44
Alignment explanation
Indices: 55531688--55531807 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 44
55531678 TAGAGCAAGA
* * * * ** * *
55531688 TGAAGCTACAAATCATATATCCCTAAAGTTACAGTGGATCAGAT
1 TGAAGATACAAATCCTATATCCTTGAAGTTGTAATGGATCAAAT
*
55531732 TGAAGCTACAAATCCTATATCCTTGAAGTTGTAATGGATCAAAT
1 TGAAGATACAAATCCTATATCCTTGAAGTTGTAATGGATCAAAT
*
55531776 TGAAGATACCAATTCCTATA-CCATTGAAGTTG
1 TGAAGATA-CAAATCCTATATCC-TTGAAGTTG
55531808 CAGTAGGTCG
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 46 0.71
45 19 0.29
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (44 bp):
TGAAGATACAAATCCTATATCCTTGAAGTTGTAATGGATCAAAT
Found at i:55531922 original size:115 final size:116
Alignment explanation
Indices: 55531776--55531990 Score: 292
Period size: 115 Copynumber: 1.9 Consensus size: 116
55531766 TGGATCAAAT
*
55531776 TGAAGATACCAATTCCTATACCATTGAAGTTGCAGTAGGTCGGAATAAAAC-TAAAATAG-AGAA
1 TGAAGATACCAATTCCTATACCACTGAAGTTGCAGTAGGTCGG-ATAAAACTTAAAATAGCA-AA
55531839 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATACTATGGAGCAAGA
64 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATACTATGGAGCAAGA
* * * * ** **
55531892 TGAAGTTA-CAATTCCTATACCCCTGAAGTTGTAGTAGGTTGGATTGAACTTACGATAGCAAATC
1 TGAAGATACCAATTCCTATACCACTGAAGTTGCAGTAGGTCGGATAAAACTTAAAATAGCAAATC
* *
55531956 TTATTTCCCTGAAGTTGCAGTGGAGCAAGTTGAAG
66 TTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAG
55531991 CTACAATTCT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
114 5 0.06
115 73 0.85
116 8 0.09
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (116 bp):
TGAAGATACCAATTCCTATACCACTGAAGTTGCAGTAGGTCGGATAAAACTTAAAATAGCAAATC
TTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATACTATGGAGCAAGA
Found at i:55532048 original size:94 final size:94
Alignment explanation
Indices: 55531881--55532085 Score: 252
Period size: 94 Copynumber: 2.2 Consensus size: 94
55531871 TGAAGATACT
* * *
55531881 ATGGAGCAAGATGAAGTTACAATTCCTATACCCCTGAAGTTGTAGTAGGTTGGATTGAACTTACG
1 ATGGAGCAAGATGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTAGGTTGGATTGAACTTACA
* * *
55531946 ATAGCAAATCTTATTTCCCTGAAGTTGCA
66 ACACCAAATCTTATCTCCCTGAAGTTGCA
* * * * *
55531975 GTGGAGCAAGTTGAAGCTACAATTCTTATACCTCTGAAGTTGCAGTGGGTTGG-TATGAAGC-TA
1 ATGGAGCAAGATGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTAGGTTGGAT-TGAA-CTTA
* *
55532038 CAACACCAAATCTTATCTCCTTGAAGTTGTA
64 CAACACCAAATCTTATCTCCCTGAAGTTGCA
*
55532069 ATGGAGCAAAATGAAGC
1 ATGGAGCAAGATGAAGC
55532086 CGTGATAGTA
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
93 1 0.01
94 91 0.98
95 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (94 bp):
ATGGAGCAAGATGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTAGGTTGGATTGAACTTACA
ACACCAAATCTTATCTCCCTGAAGTTGCA
Found at i:55539499 original size:42 final size:42
Alignment explanation
Indices: 55539447--55539612 Score: 215
Period size: 42 Copynumber: 3.9 Consensus size: 42
55539437 GTTTACAGAA
*
55539447 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAAAT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAT
*
55539489 AAAAACGCCGCTAAAGATCACGTTCTTTAGCGGCGCTTAAAT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAT
* * ***
55539531 AAAAATGCCGCTAAAGATCATGTTCTTTCGCGGCGCTTGTTT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAT
* * **
55539573 CACAAACGCTGCTAAAAGAAAATGTTCTTTAGCGGCGCTT
1 -AAAAACGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTT
55539613 TCTTCACAAA
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 76 0.70
43 9 0.08
44 23 0.21
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAT
Found at i:55540040 original size:12 final size:12
Alignment explanation
Indices: 55540023--55540100 Score: 51
Period size: 12 Copynumber: 7.0 Consensus size: 12
55540013 TGAACCTCTA
55540023 CTTCTCTCGCTG
1 CTTCTCTCGCTG
*
55540035 CTTCTCTAGCTG
1 CTTCTCTCGCTG
**
55540047 CAGCT-T--CTG
1 CTTCTCTCGCTG
*
55540056 CTTCTCTCACTG
1 CTTCTCTCGCTG
*
55540068 CTTCTCTTGCTG
1 CTTCTCTCGCTG
**
55540080 CAGC-CT--CTG
1 CTTCTCTCGCTG
55540089 CTTCTCTCGCTG
1 CTTCTCTCGCTG
55540101 TAGCCTTTGC
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
9 11 0.22
10 3 0.06
11 3 0.06
12 32 0.65
ACGTcount: A:0.05, C:0.38, G:0.17, T:0.40
Consensus pattern (12 bp):
CTTCTCTCGCTG
Found at i:55540060 original size:33 final size:33
Alignment explanation
Indices: 55540017--55540100 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
55540007 TTCTTTTGAA
*
55540017 CCTCTACTTCTCTCGCTGCTTCTCTAGCTGCAG
1 CCTCTGCTTCTCTCGCTGCTTCTCTAGCTGCAG
* * *
55540050 CTTCTGCTTCTCTCACTGCTTCTCTTGCTGCAG
1 CCTCTGCTTCTCTCGCTGCTTCTCTAGCTGCAG
55540083 CCTCTGCTTCTCTCGCTG
1 CCTCTGCTTCTCTCGCTG
55540101 TAGCCTTTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.06, C:0.39, G:0.15, T:0.39
Consensus pattern (33 bp):
CCTCTGCTTCTCTCGCTGCTTCTCTAGCTGCAG
Found at i:55540089 original size:21 final size:21
Alignment explanation
Indices: 55540065--55540133 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
55540055 GCTTCTCTCA
*
55540065 CTGCTTCTCTTGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
55540086 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
55540107 TTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
55540128 CTGCTT
1 CTGCTT
55540134 TAAGTTGTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.03, C:0.41, G:0.19, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:55541840 original size:20 final size:20
Alignment explanation
Indices: 55541815--55541895 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
55541805 ATACGAAATT
*
55541815 TTATCTTAATATTATATAAC
1 TTATCTTAATATTATATAAG
55541835 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* * *
55541855 TTAT-GT-A-ATTAGA-AATT
1 TTATCTTAATATTATATAA-G
55541872 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
55541892 TTAT
1 TTAT
55541896 GAAGTGTCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
16 2 0.04
17 9 0.18
18 2 0.04
19 2 0.04
20 32 0.65
21 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:55543519 original size:27 final size:27
Alignment explanation
Indices: 55543489--55543571 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
55543479 GGTTACCGTA
55543489 TTAATACCTAAAAATGTTCTTACTTTC
1 TTAATACCTAAAAATGTTCTTACTTTC
* ** * ** *
55543516 TTAA-CCCT-AATTTGAAT-TTACCGTA
1 TTAATACCTAAAAATG-TTCTTACTTTC
55543541 TTAATACCTAAAAATGTTCTTACTTTC
1 TTAATACCTAAAAATGTTCTTACTTTC
55543568 TTAA
1 TTAA
55543572 CCCTAATTTG
Statistics
Matches: 38, Mismatches: 14, Indels: 8
0.63 0.23 0.13
Matches are distributed among these distances:
25 13 0.34
26 8 0.21
27 17 0.45
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (27 bp):
TTAATACCTAAAAATGTTCTTACTTTC
Found at i:55543543 original size:52 final size:52
Alignment explanation
Indices: 55543481--55543586 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
55543471 ATGGTTAAGG
55543481 TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
1 TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
55543533 TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
1 TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
55543585 TT
1 TT
55543587 TCTTATTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (52 bp):
TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
Found at i:55543576 original size:26 final size:26
Alignment explanation
Indices: 55543495--55543577 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 26
55543485 CGTATTAATA
55543495 CCTAAAAATGTTCTTACTTTCTTAAC
1 CCTAAAAATGTTCTTACTTTCTTAAC
** * ** * *
55543521 CCT-AATTTGAAT-TTACCGTATTAATA
1 CCTAAAAATG-TTCTTACTTTCTTAA-C
55543547 CCTAAAAATGTTCTTACTTTCTTAAC
1 CCTAAAAATGTTCTTACTTTCTTAAC
55543573 CCTAA
1 CCTAA
55543578 TTTGAATTTT
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
25 13 0.33
26 13 0.33
27 13 0.33
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.41
Consensus pattern (26 bp):
CCTAAAAATGTTCTTACTTTCTTAAC
Found at i:55544897 original size:11 final size:11
Alignment explanation
Indices: 55544881--55544905 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
55544871 ATTTGAAAGT
55544881 TTTAAATTAAA
1 TTTAAATTAAA
55544892 TTTAAATTAAA
1 TTTAAATTAAA
55544903 TTT
1 TTT
55544906 GTTCTATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:55545522 original size:21 final size:21
Alignment explanation
Indices: 55545498--55545591 Score: 54
Period size: 21 Copynumber: 4.6 Consensus size: 21
55545488 AAAAACCAAA
*
55545498 CCCTAAATC-TATCCCCATAAC
1 CCCTAAATCATAACCCC-TAAC
*
55545519 CCCTTAAAGCATAACCCCTAAC
1 CCC-TAAATCATAACCCCTAAC
* *
55545541 CCTTAAATC----CCCATAAC
1 CCCTAAATCATAACCCCTAAC
* * *
55545558 CCTTAAAGCATAACACCTAAC
1 CCCTAAATCATAACCCCTAAC
* *
55545579 CCTTAAACCATAA
1 CCCTAAATCATAA
55545592 AACCCTAAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
17 15 0.26
21 26 0.45
22 11 0.19
23 6 0.10
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.21
Consensus pattern (21 bp):
CCCTAAATCATAACCCCTAAC
Found at i:55545559 original size:17 final size:16
Alignment explanation
Indices: 55545533--55545564 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
55545523 TAAAGCATAA
55545533 CCCCTAACCCTTAAAT
1 CCCCTAACCCTTAAAT
55545549 CCCCATAACCCTTAAA
1 CCCC-TAACCCTTAAA
55545565 GCATAACACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (16 bp):
CCCCTAACCCTTAAAT
Found at i:55545569 original size:38 final size:39
Alignment explanation
Indices: 55545508--55545585 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
55545498 CCCTAAATCT
*
55545508 ATCCCCATAACCCCTTAAAGCATAACCCCTAACCCTTAA
1 ATCCCCATAACCCCTTAAAGCATAACACCTAACCCTTAA
55545547 ATCCCCATAA-CCCTTAAAGCATAACACCTAACCCTTAA
1 ATCCCCATAACCCCTTAAAGCATAACACCTAACCCTTAA
55545585 A
1 A
55545586 CCATAAAACC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 28 0.74
39 10 0.26
ACGTcount: A:0.38, C:0.38, G:0.03, T:0.21
Consensus pattern (39 bp):
ATCCCCATAACCCCTTAAAGCATAACACCTAACCCTTAA
Found at i:55545917 original size:97 final size:98
Alignment explanation
Indices: 55545809--55545992 Score: 325
Period size: 98 Copynumber: 1.9 Consensus size: 98
55545799 TCCCTGAGCA
*
55545809 TTAGCGGCGCTTTATTGAAAACGCCGCTAAAC-CCCCGAAAGCTTAGAAAACAGCATCGTTGGGC
1 TTAGCGGCGCTTTATTGAAAACGCCGCTAAACTCCCCGAAAGCTCAGAAAACAGCATCGTTGGGC
55545873 TTAAATTTTTTTGCGGCGCTTTCTCAACAACCT
66 TTAAATTTTTTTGCGGCGCTTTCTCAACAACCT
* *
55545906 TTAGCGGCGCTTTATTGAAAACGCCGCTAAACTCCCCGAAAGCTCAGAAAACGGCATCGTTGGGT
1 TTAGCGGCGCTTTATTGAAAACGCCGCTAAACTCCCCGAAAGCTCAGAAAACAGCATCGTTGGGC
*
55545971 TTAATTTTTTTTGCGGCGCTTT
66 TTAAATTTTTTTGCGGCGCTTT
55545993 AATAAAAACG
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 32 0.39
98 50 0.61
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (98 bp):
TTAGCGGCGCTTTATTGAAAACGCCGCTAAACTCCCCGAAAGCTCAGAAAACAGCATCGTTGGGC
TTAAATTTTTTTGCGGCGCTTTCTCAACAACCT
Found at i:55546165 original size:72 final size:73
Alignment explanation
Indices: 55546031--55546177 Score: 208
Period size: 72 Copynumber: 2.0 Consensus size: 73
55546021 TAGCGGCACA
* * *
55546031 TTATTAAAAACGCCGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
1 TTATTAAAAACACCACTAAACCCCCCAAAAGCTAAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
55546096 GCGCCGCT
66 GCGCCGCT
* * *
55546104 TTATTAAAAACACCACTAAA-CCCCCGAAAGCTAAGAAAACGG-GTCGTTGGGTTTAATTTTTTT
1 TTATTAAAAACACCACTAAACCCCCCAAAAGCTAAGAAAACGGCGTCGTTGGGCTT-AGTTTTTT
*
55546167 TGCGGCGCT
65 TGCGCCGCT
55546176 TT
1 TT
55546178 CAGAAAAATG
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
71 11 0.17
72 37 0.56
73 18 0.27
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (73 bp):
TTATTAAAAACACCACTAAACCCCCCAAAAGCTAAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
GCGCCGCT
Found at i:55546195 original size:72 final size:72
Alignment explanation
Indices: 55546031--55546201 Score: 193
Period size: 72 Copynumber: 2.4 Consensus size: 72
55546021 TAGCGGCACA
* *
55546031 TTATTAAAAACGCCGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
1 TTATGAAAAACGCCGCTAAA-CCCCCAAAAGCTAAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
55546096 GCGCCGCT
65 GCGCCGCT
* * * * * *
55546104 TTATTAAAAACACCACTAAACCCCCGAAAGCTAAGAAAACGG-GTCGTTGGGTTTAATTTTTTTT
1 TTATGAAAAACGCCGCTAAACCCCCAAAAGCTAAGAAAACGGCGTCGTTGGGCTT-AGTTTTTTT
*
55546168 GCGGCGCT
65 GCGCCGCT
* * *
55546176 TTCA-GAAAAATGCTGCTAAATCCCCA
1 TT-ATGAAAAACGCCGCTAAACCCCCA
55546202 GCATTAGCGG
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
71 11 0.13
72 52 0.63
73 19 0.23
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (72 bp):
TTATGAAAAACGCCGCTAAACCCCCAAAAGCTAAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTG
CGCCGCT
Found at i:55546252 original size:185 final size:187
Alignment explanation
Indices: 55545913--55546308 Score: 598
Period size: 185 Copynumber: 2.1 Consensus size: 187
55545903 CCTTTAGCGG
* *
55545913 CGCTTTATTGAAAACGCCGCTAAACTCCCCGAAAGCTCAGAAAACGGCATCGTTGGGTTTAATTT
1 CGCTTTATTAAAAACGCCGCTAAACTCCCCGAAAGCTAAGAAAACGGCATCGTTGGGTTTAATTT
*
55545978 TTTTTGCGGCGCTTTAATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCACATTATTAAAAACG
66 TTTTTGCGGCGCTTTAAGAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCACATTATTAAAAACG
* *
55546043 CCGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGC
131 CCGCTAAACCCCCCAAAAGCTCAGAAAACGACGTCGTTAGGCTTAGTTTTTTTGCGC
* * *
55546100 CGCTTTATTAAAAACACCACTAAAC-CCCCGAAAGCTAAGAAAACGG-GTCGTTGGGTTTAATTT
1 CGCTTTATTAAAAACGCCGCTAAACTCCCCGAAAGCTAAGAAAACGGCATCGTTGGGTTTAATTT
* * * * ** * *
55546163 TTTTTGCGGCGCTTTCAGAAAAATGCTGCTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACG
66 TTTTTGCGGCGCTTTAAGAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCACATTATTAAAAACG
* *
55546228 CCGCTAAACCCCCCGAAAGCTCAGAAAACGACGTCGTTAGGCTTAGTTTTTTTGCGG
131 CCGCTAAACCCCCCAAAAGCTCAGAAAACGACGTCGTTAGGCTTAGTTTTTTTGCGC
* *
55546285 CGCTTGATCAAAAACGCCGCTAAA
1 CGCTTTATTAAAAACGCCGCTAAA
55546309 GCCCTTAGCA
Statistics
Matches: 187, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
185 145 0.78
186 20 0.11
187 22 0.12
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (187 bp):
CGCTTTATTAAAAACGCCGCTAAACTCCCCGAAAGCTAAGAAAACGGCATCGTTGGGTTTAATTT
TTTTTGCGGCGCTTTAAGAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCACATTATTAAAAACG
CCGCTAAACCCCCCAAAAGCTCAGAAAACGACGTCGTTAGGCTTAGTTTTTTTGCGC
Found at i:55546402 original size:114 final size:112
Alignment explanation
Indices: 55546104--55546539 Score: 549
Period size: 113 Copynumber: 3.9 Consensus size: 112
55546094 TTGCGCCGCT
* *
55546104 TTATTAAAAACACCACTAAA-CCCCCGAAAGCTAAGAAAACGG-GTCGTTGGGTTTAATTTTTTT
1 TTATTAAAAACGCCACTAAACCCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAA-TTTTTT
* * * *
55546167 TGCGGCGCTTTCAGAAAAATGCTGCTAAATCCCCAGCATTAGCGGCGTA
65 TGCGGCGC-TTGATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTA
* * * * * * *
55546216 TTGTTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAACGACGTCGTTAGGCTTAGTTTTTTT
1 TTATTAAAAACGCCACTAAACCCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAATTTTTTT
* *
55546281 GCGGCGCTTGATCAAAAACGCCGCTAAAGCCCTTAGCATTAGCGGCGCT-
66 GCGGCGCTTGAT-AAAAACGCCGCTAAATCCC-CAGCATTAGCGGCG-TA
* *
55546330 TTATTAAAAACGCCATTAAA-CCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTTAATTTTTT
1 TTATTAAAAACGCCACTAAACCCCCCGAAAGCTAAGAAAACGGCGTCGTTGGG-CTTAATTTTTT
*
55546394 TGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTA
65 TGCGGCGC-TTGATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTA
* * * * * *
55546443 TTGTTGAAAACTCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTT
1 TTATTAAAAACGCCACTAAA-CCCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAATTTTTT
55546508 TGCGGCGCTTGATAAAAACGCCGCTAAA-CCCC
65 TGCGGCGCTTGATAAAAACGCCGCTAAATCCCC
55546540 TGAAAGCTCA
Statistics
Matches: 278, Mismatches: 36, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
112 24 0.09
113 126 0.45
114 92 0.33
115 36 0.13
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (112 bp):
TTATTAAAAACGCCACTAAACCCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAATTTTTTT
GCGGCGCTTGATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTA
Found at i:55546426 original size:227 final size:226
Alignment explanation
Indices: 55546100--55546540 Score: 760
Period size: 227 Copynumber: 1.9 Consensus size: 226
55546090 TTTTTTGCGC
55546100 CGCTTTATTAAAAACACCACTAAACCCCCGAAAGCTAAGAAAACGGGTCGTTGGGTTTAATTTTT
1 CGCTTTATTAAAAACACCACTAAACCCCCGAAAGCTAAGAAAACGGGTCGTTGGGTTTAATTTTT
* *
55546165 TTTGCGGCGCTTTCAGAAAAATGCTGCTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACGCC
66 TTTGCGGCGCTTTCAGAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACGCC
55546230 GCTAAA-CCCCCCGAAAGCTCAGAAAACGACGTCGTTAGGCTTAGTTTTTTTGCGGCGCTTGATC
131 GCTAAACCCCCCCGAAAGCTCAGAAAACGACGTCGTTAGGCTTAGTTTTTTTGCGGCGCTTGAT-
*
55546294 AAAAACGCCGCTAAAGCCCTTAGCATTAGCGG
195 AAAAACGCCGCTAAACCCCTTAGCATTAGCGG
* *
55546326 CGCTTTATTAAAAACGCCATTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTTAA-TT
1 CGCTTTATTAAAAACACCACTAAACCCCCGAAAGCTAAGAAAACGG-GTCGTTGGG-TTTAATTT
* *
55546390 TTTTTGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACT
64 TTTTTGCGGCGCTTTCAGAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACG
* *
55546455 CCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGGCGCTTGA
129 CCGCTAAACCCCCCCGAAAGCTCAGAAAACGACGTCGTTAGGCTTAGTTTTTTTGCGGCGCTTGA
55546520 TAAAAACGCCGCTAAACCCCT
194 TAAAAACGCCGCTAAACCCCT
55546541 GAAAGCTCAG
Statistics
Matches: 203, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
226 44 0.22
227 99 0.49
228 60 0.30
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (226 bp):
CGCTTTATTAAAAACACCACTAAACCCCCGAAAGCTAAGAAAACGGGTCGTTGGGTTTAATTTTT
TTTGCGGCGCTTTCAGAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACGCC
GCTAAACCCCCCCGAAAGCTCAGAAAACGACGTCGTTAGGCTTAGTTTTTTTGCGGCGCTTGATA
AAAACGCCGCTAAACCCCTTAGCATTAGCGG
Found at i:55546562 original size:71 final size:72
Alignment explanation
Indices: 55546449--55546612 Score: 215
Period size: 71 Copynumber: 2.3 Consensus size: 72
55546439 CGTATTGTTG
* * * *
55546449 AAAACTCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTT-AGTTTTTTTGCGG
1 AAAACGCCGCTAAA--CCCCTGAAAGCTCAGAAAACGGCGTCGTTGGG-TTGAATTTTTTTACGG
*
55546513 CGC-TTGATA
63 CGCTTTCATA
* *
55546522 AAAACGCCGCTAAACCCCTGAAAGCTCAGTAAATGGCGTCGTTGGGTTGAATTTTTTTACGGCGC
1 AAAACGCCGCTAAACCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGTTGAATTTTTTTACGGCGC
55546587 TTTCATA
66 TTTCATA
*
55546594 AAAACGCCGCTAAATCCCT
1 AAAACGCCGCTAAACCCCT
55546613 TAGAATTAGC
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
70 2 0.02
71 43 0.53
72 23 0.28
73 13 0.16
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (72 bp):
AAAACGCCGCTAAACCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGTTGAATTTTTTTACGGCGC
TTTCATA
Found at i:55546689 original size:185 final size:186
Alignment explanation
Indices: 55546322--55546701 Score: 543
Period size: 185 Copynumber: 2.0 Consensus size: 186
55546312 CTTAGCATTA
* * *
55546322 GCGGCGCTTTATTAAAAACGCCATTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTTA
1 GCGGCGCTTGATTAAAAACGCCACTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTGA
* * *
55546387 ATTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTGAAA
66 ATTTTTTTACGGCGCTTTCATAAAAACGCCGCTAAATCCCCAGAATTAGCGGCGTATTATTGAAA
* *
55546452 ACTCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
131 ACGCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAG-TTTTTT
* * * * *
55546509 GCGGCGCTTGA-TAAAAACGCCGCTAAACCCCTGAAAGCTCAGTAAATGGCGTCGTTGGG-TTGA
1 GCGGCGCTTGATTAAAAACGCCACTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTGA
*
55546572 ATTTTTTTACGGCGCTTTCATAAAAACGCCGCTAAATCCCTTAGAATTAGCGGCGCT-TTATTGA
66 ATTTTTTTACGGCGCTTTCATAAAAACGCCGCTAAATCCC-CAGAATTAGCGGCG-TATTATTGA
** * *
55546636 AAACGCCGCTAAA-CCCTTCGAAAGCTCATAAAACGGCATCGTTTGGCTTAGTTTTTT
129 AAACGCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGTTTTTT
55546693 GCGGCGCTT
1 GCGGCGCTT
55546702 TTGAGAGCGC
Statistics
Matches: 173, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
184 15 0.09
185 75 0.43
186 72 0.42
187 11 0.06
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (186 bp):
GCGGCGCTTGATTAAAAACGCCACTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTGA
ATTTTTTTACGGCGCTTTCATAAAAACGCCGCTAAATCCCCAGAATTAGCGGCGTATTATTGAAA
ACGCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGTTTTTT
Found at i:55557058 original size:21 final size:21
Alignment explanation
Indices: 55557032--55557072 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
55557022 TTTTGTCATA
* * *
55557032 AAAATTTTAAACAATTTAAAT
1 AAAATTATAAAAAATATAAAT
55557053 AAAATTATAAAAAATATAAA
1 AAAATTATAAAAAATATAAA
55557073 ATCATTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATTATAAAAAATATAAAT
Found at i:55561564 original size:43 final size:43
Alignment explanation
Indices: 55561502--55561587 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
55561492 TTTTTTTTCT
*
55561502 TTTTTATTCTAATTCATATGTTTAAATACAAAGTATACATTTA
1 TTTTTATTCTAATTCATATGTTTAAATACAAAGTAAACATTTA
* *
55561545 TTTTTATT-TCAATTTATATGTTTACATACAAAGTAAACATTTA
1 TTTTTATTCT-AATTCATATGTTTAAATACAAAGTAAACATTTA
55561588 AATAGGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 38 0.97
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (43 bp):
TTTTTATTCTAATTCATATGTTTAAATACAAAGTAAACATTTA
Found at i:55561884 original size:15 final size:16
Alignment explanation
Indices: 55561851--55561884 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
55561841 ACTATCCTCC
**
55561851 TTTTTGACTTGCACTT
1 TTTTTGACTTAAACTT
55561867 TTTTTGACTTAAACTT
1 TTTTTGACTTAAACTT
55561883 TT
1 TT
55561885 GGCTCGCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (16 bp):
TTTTTGACTTAAACTT
Found at i:55568223 original size:30 final size:30
Alignment explanation
Indices: 55568189--55568250 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
55568179 ATAATGAGGT
*
55568189 GTAAGGTTGTGATTACCAATATGAGTGACG
1 GTAAGGTTGTGATTACCAATAAGAGTGACG
55568219 GTAAGGTTGTGATTACCAATAAGAGTGACG
1 GTAAGGTTGTGATTACCAATAAGAGTGACG
55568249 GT
1 GT
55568251 GGCTGTGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (30 bp):
GTAAGGTTGTGATTACCAATAAGAGTGACG
Found at i:55572568 original size:44 final size:44
Alignment explanation
Indices: 55572518--55572605 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
55572508 ATTAACATAA
** **
55572518 AATAGAAGTTGTGATAATTATGCATTTAAAAATAATTATAATTT
1 AATAGAAGTTGCAATAATTACACATTTAAAAATAATTATAATTT
* *
55572562 AATAGAATTTGCAATAATTACACATTTAAAAATGATTATAATTT
1 AATAGAAGTTGCAATAATTACACATTTAAAAATAATTATAATTT
55572606 CATTTACATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (44 bp):
AATAGAAGTTGCAATAATTACACATTTAAAAATAATTATAATTT
Found at i:55573606 original size:28 final size:27
Alignment explanation
Indices: 55573565--55573628 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
55573555 AATAAAAATG
*
55573565 AATAAAATTTATAAAAAACATTAAATTTT
1 AATAAAA-ATATAAAAAACATTAAA-TTT
* * *
55573594 AATAAAAATATAAGAAATATTTAATTT
1 AATAAAAATATAAAAAACATTAAATTT
55573621 AATAAAAA
1 AATAAAAA
55573629 GTTAGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 11 0.35
28 13 0.42
29 7 0.23
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (27 bp):
AATAAAAATATAAAAAACATTAAATTT
Found at i:55573665 original size:9 final size:9
Alignment explanation
Indices: 55573634--55573691 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
55573624 AAAAAGTTAG
55573634 AAAAATATTA
1 AAAAATA-TA
*
55573644 TAAAAATCGTA
1 -AAAAAT-ATA
55573655 AAAAATATA
1 AAAAATATA
55573664 AAAAA-AT-
1 AAAAATATA
*
55573671 AGAAATATA
1 AAAAATATA
55573680 AAAAATATA
1 AAAAATATA
55573689 AAA
1 AAA
55573692 TTTTATAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 4 0.10
8 4 0.10
9 18 0.45
10 6 0.15
11 8 0.20
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (9 bp):
AAAAATATA
Found at i:55573692 original size:16 final size:15
Alignment explanation
Indices: 55573656--55573692 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
55573646 AAAATCGTAA
55573656 AAAATATAAAAAAAT
1 AAAATATAAAAAAAT
55573671 AGAAATATAAAAAATAT
1 A-AAATATAAAAAA-AT
55573688 AAAAT
1 AAAAT
55573693 TTTATAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 16 0.80
17 3 0.15
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (15 bp):
AAAATATAAAAAAAT
Found at i:55573985 original size:20 final size:19
Alignment explanation
Indices: 55573948--55574002 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
55573938 TTTTATATTT
55573948 TTTTATGATTTTTATAAAA
1 TTTTATGATTTTTATAAAA
*
55573967 TTTTAT-ATATTTTATTAAA
1 TTTTATGAT-TTTTATAAAA
* *
55573986 GTTTACTCATTTTTATA
1 TTTTA-TGATTTTTATA
55574003 TTTTTTATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.07
19 19 0.63
20 7 0.23
21 2 0.07
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTATGATTTTTATAAAA
Found at i:55574009 original size:19 final size:18
Alignment explanation
Indices: 55573987--55574027 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
55573977 TTTATTAAAG
55573987 TTTACTCATTTTTATATTT
1 TTTACTCATTTTT-TATTT
* *
55574006 TTTATTGATTTTTTATTT
1 TTTACTCATTTTTTATTT
55574024 TTTA
1 TTTA
55574028 TAACTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTACTCATTTTTTATTT
Found at i:55574035 original size:18 final size:18
Alignment explanation
Indices: 55573994--55574037 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
55573984 AAGTTTACTC
*
55573994 ATTTTTATATTTTTTATTG
1 ATTTTT-TATTTTTTATTA
55574013 ATTTTTTATTTTTTA-TA
1 ATTTTTTATTTTTTATTA
55574030 ACTTTTTT
1 A-TTTTTT
55574038 GTCACATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 15 0.65
19 6 0.26
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
ATTTTTTATTTTTTATTA
Found at i:55575570 original size:8 final size:8
Alignment explanation
Indices: 55575557--55575592 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
55575547 TCACCTCAGT
55575557 ATTTTAAA
1 ATTTTAAA
55575565 ATTTTAAA
1 ATTTTAAA
*
55575573 A-TTAAAA
1 ATTTTAAA
55575580 ATTTTAAA
1 ATTTTAAA
55575588 ATTTT
1 ATTTT
55575593 TAGGAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTAAA
Found at i:55575582 original size:15 final size:15
Alignment explanation
Indices: 55575562--55575590 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55575552 TCAGTATTTT
55575562 AAAATTTTAAAATTA
1 AAAATTTTAAAATTA
55575577 AAAATTTTAAAATT
1 AAAATTTTAAAATT
55575591 TTTAGGAGTT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATTTTAAAATTA
Found at i:55576387 original size:66 final size:65
Alignment explanation
Indices: 55576255--55576388 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 65
55576245 ATTCTAAAGC
* * * *
55576255 TGTAGCTGGAGTTCGTCATATTTTCTGCTTGCCTCTGCTTCCCTCGCTGCTGCCTCCGCTTTAAG
1 TGTAGCTAGAGTTCGTCATATTTTCT-CTTGCCTCTGCTTCCCTCGATGCTGCCTCCACTTCAAG
55576320 T
65 T
* * * *
55576321 TGTAGCTAGAGTTCTTCATATTTTCT-TTGAGCCTTTGCTTCTCTCGATGCTGCCTCTACTTCAA
1 TGTAGCTAGAGTTCGTCATATTTTCTCTT--GCCTCTGCTTCCCTCGATGCTGCCTCCACTTCAA
55576385 GT
64 GT
55576387 TG
1 TG
55576389 AGCAATTTGC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 2 0.03
66 56 0.97
ACGTcount: A:0.12, C:0.27, G:0.19, T:0.42
Consensus pattern (65 bp):
TGTAGCTAGAGTTCGTCATATTTTCTCTTGCCTCTGCTTCCCTCGATGCTGCCTCCACTTCAAGT
Found at i:55582692 original size:32 final size:35
Alignment explanation
Indices: 55582637--55582706 Score: 92
Period size: 32 Copynumber: 2.1 Consensus size: 35
55582627 AGAAATGGAC
* * *
55582637 AAAAAAAATCTCGATTAGTTGGGTGATCAAATTTA
1 AAAAAAAATCTCGATTAGCTGGGTGACCAAAATTA
55582672 AAAAAAAAT-T-GA-TAGCTGGGTGACCAAAATTA
1 AAAAAAAATCTCGATTAGCTGGGTGACCAAAATTA
55582704 AAA
1 AAA
55582707 GAGGTAATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 20 0.62
33 2 0.06
34 1 0.03
35 9 0.28
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (35 bp):
AAAAAAAATCTCGATTAGCTGGGTGACCAAAATTA
Found at i:55586924 original size:16 final size:16
Alignment explanation
Indices: 55586903--55586938 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
55586893 TTTGGTTCGC
55586903 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
55586919 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
55586935 TGTA
1 TGTA
55586939 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:55587196 original size:18 final size:17
Alignment explanation
Indices: 55587175--55587209 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55587165 TTATTATTTA
*
55587175 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
55587193 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
55587210 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:55587203 original size:28 final size:27
Alignment explanation
Indices: 55587133--55587205 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
55587123 TTTATTATCA
*
55587133 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
55587161 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
55587188 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
55587206 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:55587343 original size:18 final size:17
Alignment explanation
Indices: 55587322--55587356 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55587312 TTATTATTAA
*
55587322 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
55587340 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
55587357 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:55587368 original size:147 final size:149
Alignment explanation
Indices: 55587094--55587368 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
55587084 ATGATTATTG
*
55587094 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
55587159 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
55587224 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
55587243 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
55587306 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
55587369 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:55587400 original size:54 final size:54
Alignment explanation
Indices: 55587342--55587520 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
55587332 ATTAAAATAT
*
55587342 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
55587396 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
55587459 TAT
53 -AC
*
55587462 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
55587516 ATAAT
1 ATAAT
55587521 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:55587463 original size:18 final size:17
Alignment explanation
Indices: 55587442--55587476 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55587432 TTATTATTAA
55587442 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
55587460 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
55587477 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:55587591 original size:18 final size:17
Alignment explanation
Indices: 55587552--55587583 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55587542 TTTTAAATAA
55587552 TTAATATTAAATATATT
1 TTAATATTAAATATATT
55587569 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
55587584 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:55587608 original size:120 final size:120
Alignment explanation
Indices: 55587305--55587597 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
55587295 ATCATATTTA
55587305 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
55587370 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
55587425 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
55587490 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
55587546 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
55587598 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:55589351 original size:20 final size:19
Alignment explanation
Indices: 55589292--55589338 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
55589282 CAACTACACA
55589292 AATTCACAATGTAACCTACT
1 AATT-ACAATGTAACCTACT
55589312 AATTACAATGTAACCTACT
1 AATTACAATGTAACCTACT
55589331 AATTACAA
1 AATTACAA
55589339 CTTCGACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTACAATGTAACCTACT
Found at i:55589397 original size:41 final size:41
Alignment explanation
Indices: 55589346--55589438 Score: 177
Period size: 41 Copynumber: 2.2 Consensus size: 41
55589336 CAACTTCGAC
55589346 CTACTACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTAC-ACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
55589388 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
55589429 CTACACAAAT
1 CTACACAAAT
55589439 TCACAATGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 47 0.92
42 4 0.08
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.25
Consensus pattern (41 bp):
CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
Found at i:55590090 original size:14 final size:14
Alignment explanation
Indices: 55590065--55590099 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
55590055 AAGAAGAAGC
55590065 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
55590080 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
55590094 AGAAAA
1 AGAAAA
55590100 GAAATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:55590097 original size:19 final size:18
Alignment explanation
Indices: 55590075--55590119 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
55590065 AGAAATATGG
55590075 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
55590094 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
55590111 AGAAAAGAA
1 AGAAAAGAA
55590120 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:55596620 original size:19 final size:19
Alignment explanation
Indices: 55596582--55596621 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
55596572 TTTAAATCTA
* * *
55596582 AAAATTATTAAAATATTAT
1 AAAATTATAAAAAAACTAT
55596601 AAAATTATAAAAAAACTAT
1 AAAATTATAAAAAAACTAT
55596620 AA
1 AA
55596622 TTTTAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTATAAAAAAACTAT
Found at i:55596912 original size:19 final size:19
Alignment explanation
Indices: 55596890--55596960 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
55596880 GGAAATTACT
*
55596890 AAAATTTTATAAATTTATA
1 AAAATTATATAAATTTATA
*
55596909 AAAATTATAT-AAGTTATTA
1 AAAATTATATAAATTTA-TA
*
55596928 AAAACTAT-TAAATGTTATA
1 AAAATTATATAAAT-TTATA
55596947 AAAATT-TA-AAATTT
1 AAAATTATATAAATTT
55596961 TATTATTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.05
18 11 0.26
19 27 0.63
20 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (19 bp):
AAAATTATATAAATTTATA
Found at i:55597267 original size:29 final size:29
Alignment explanation
Indices: 55597233--55597326 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
55597223 GATTAAAGGT
*
55597233 TTAATTGATTGCACTTTTTGACAAGGGGC
1 TTAATTGATTGCAATTTTTGACAAGGGGC
* * * * * * *
55597262 TCAATTAATTACTAATTTTCGATTAA-AGGT
1 TTAATTGATTGC-AATTTTTGA-CAAGGGGC
*
55597292 TTAATTGATTGCATTTTTTGACAAGGGGC
1 TTAATTGATTGCAATTTTTGACAAGGGGC
55597321 TTAATT
1 TTAATT
55597327 AAATTTACAA
Statistics
Matches: 46, Mismatches: 16, Indels: 6
0.68 0.24 0.09
Matches are distributed among these distances:
28 2 0.04
29 24 0.52
30 18 0.39
31 2 0.04
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.43
Consensus pattern (29 bp):
TTAATTGATTGCAATTTTTGACAAGGGGC
Found at i:55597291 original size:59 final size:60
Alignment explanation
Indices: 55597199--55597328 Score: 203
Period size: 59 Copynumber: 2.2 Consensus size: 60
55597189 CATATTACAT
*
55597199 GGGCTCAATT-ATCTGCTAACTTTTGATTAAAGGTTTAATTGATTGCACTTTTTGACAAG
1 GGGCTCAATTAATCTACTAACTTTTGATTAAAGGTTTAATTGATTGCACTTTTTGACAAG
*
55597258 GGGCTCAATTAAT-TACTAA-TTTTCGATTAAAGGTTTAATTGATTGCATTTTTTGACAAG
1 GGGCTCAATTAATCTACTAACTTTT-GATTAAAGGTTTAATTGATTGCACTTTTTGACAAG
*
55597317 GGGCTTAATTAA
1 GGGCTCAATTAA
55597329 ATTTACAATT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
58 4 0.06
59 60 0.91
60 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (60 bp):
GGGCTCAATTAATCTACTAACTTTTGATTAAAGGTTTAATTGATTGCACTTTTTGACAAG
Done.