Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 134 of 313
Found at i:43370038 original size:23 final size:23
Alignment explanation
Indices: 43370012--43370109 Score: 133
Period size: 23 Copynumber: 4.3 Consensus size: 23
43370002 ATAAGTGTCA
*
43370012 CACTGATATGTAGCCAAAGCTAC
1 CACTGAAATGTAGCCAAAGCTAC
* **
43370035 CACTGAAATGTAGTCGTAGCTAC
1 CACTGAAATGTAGCCAAAGCTAC
*
43370058 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCAAAGCTAC
* *
43370081 CGCTGAAATGTAGTCAAAGCTAC
1 CACTGAAATGTAGCCAAAGCTAC
43370104 CACTGA
1 CACTGA
43370110 TCAATAACAC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGAAATGTAGCCAAAGCTAC
Found at i:43370079 original size:46 final size:46
Alignment explanation
Indices: 43370012--43370109 Score: 151
Period size: 46 Copynumber: 2.1 Consensus size: 46
43370002 ATAAGTGTCA
* **
43370012 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGTCGTAGCTAC
1 CACTGAAATGTAGCCAAAGCTACCACTGAAATGTAGTCAAAGCTAC
* *
43370058 CACTGAAATGTAGCCGAAGCTACCGCTGAAATGTAGTCAAAGCTAC
1 CACTGAAATGTAGCCAAAGCTACCACTGAAATGTAGTCAAAGCTAC
43370104 CACTGA
1 CACTGA
43370110 TCAATAACAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCAAAGCTACCACTGAAATGTAGTCAAAGCTAC
Found at i:43370700 original size:87 final size:87
Alignment explanation
Indices: 43370599--43370774 Score: 334
Period size: 87 Copynumber: 2.0 Consensus size: 87
43370589 ACTTTTCAAA
*
43370599 AATTACACTTTTGTCTCAAAGCTCGTAAAAATAAAATTCACTAAATTCTTAAATTTCAAACCTCA
1 AATTACACTTTTGTCCCAAAGCTCGTAAAAATAAAATTCACTAAATTCTTAAATTTCAAACCTCA
43370664 CTAAATCATATTTCATGCTCAT
66 CTAAATCATATTTCATGCTCAT
*
43370686 AATTCCACTTTTGTCCCAAAGCTCGTAAAAATAAAATTCACTAAATTCTTAAATTTCAAACCTCA
1 AATTACACTTTTGTCCCAAAGCTCGTAAAAATAAAATTCACTAAATTCTTAAATTTCAAACCTCA
43370751 CTAAATCATATTTCATGCTCAT
66 CTAAATCATATTTCATGCTCAT
43370773 AA
1 AA
43370775 CAACCCTCAA
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.35
Consensus pattern (87 bp):
AATTACACTTTTGTCCCAAAGCTCGTAAAAATAAAATTCACTAAATTCTTAAATTTCAAACCTCA
CTAAATCATATTTCATGCTCAT
Found at i:43373708 original size:27 final size:27
Alignment explanation
Indices: 43373670--43373727 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 27
43373660 TAAATATTTA
43373670 TTTTTTATTTTTTATTTTTAAAAT-AC
1 TTTTTTATTTTTTATTTTTAAAATAAC
43373696 TTTTTTATTTTTTATTTTTAAAATAAC
1 TTTTTTATTTTTTATTTTTAAAATAAC
43373723 TTTTT
1 TTTTT
43373728 GGTGTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 24 0.77
27 7 0.23
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTTTATTTTTTATTTTTAAAATAAC
Found at i:43373715 original size:6 final size:7
Alignment explanation
Indices: 43373666--43373714 Score: 53
Period size: 7 Copynumber: 6.3 Consensus size: 7
43373656 ATAATAAATA
43373666 TTTATTT
1 TTTATTT
43373673 TTTATTT
1 TTTATTT
43373680 TTTATTT
1 TTTATTT
43373687 TTAAAATACTTT
1 TT----TA-TTT
43373699 TTTATTT
1 TTTATTT
43373706 TTTATTT
1 TTTATTT
43373713 TT
1 TT
43373715 AAAATAACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
7 28 0.76
8 2 0.05
11 2 0.05
12 5 0.14
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTATTT
Found at i:43373735 original size:26 final size:26
Alignment explanation
Indices: 43373670--43373737 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
43373660 TAAATATTTA
* *
43373670 TTTTTTATTTTTTATTTTTAAAATAC
1 TTTTTTAGTGTTTATTTTTAAAATAC
* *
43373696 TTTTTTATTTTTTATTTTTAAAATAAC
1 TTTTTTAGTGTTTATTTTTAAAAT-AC
*
43373723 -TTTTTGGTGTTTATT
1 TTTTTTAGTGTTTATT
43373738 AAAAAAATGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 36 0.95
27 2 0.05
ACGTcount: A:0.24, C:0.03, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTTTTAGTGTTTATTTTTAAAATAC
Found at i:43381850 original size:6 final size:6
Alignment explanation
Indices: 43381839--43381863 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43381829 AATGAAGTCT
43381839 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
43381864 CTATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:43383734 original size:19 final size:19
Alignment explanation
Indices: 43383712--43383849 Score: 79
Period size: 19 Copynumber: 6.9 Consensus size: 19
43383702 TTTAAATTTT
43383712 ATAATTTTATAATATTTAA
1 ATAATTTTATAATATTTAA
43383731 ATAATTTTAATAA-ATTTACATA
1 ATAATTTT-ATAATATTT--A-A
43383753 TCTATAATTTTATAATATTTAA
1 ---ATAATTTTATAATATTTAA
*
43383775 ATAATTTTAATAA-ATTTAT
1 ATAATTTT-ATAATATTTAA
*
43383794 AT-ATCTTT-TAATTTTTTATA
1 ATAAT-TTTATAA-TATTTA-A
* *
43383814 ATAA-TTTATAATTTTTTA
1 ATAATTTTATAATATTTAA
** *
43383832 ATTTTTTTATAATTTTTA
1 ATAATTTTATAATATTTA
43383850 TAATTTATAC
Statistics
Matches: 96, Mismatches: 7, Indels: 32
0.71 0.05 0.24
Matches are distributed among these distances:
17 3 0.03
18 5 0.05
19 54 0.56
20 13 0.14
21 2 0.02
22 2 0.02
23 1 0.01
24 4 0.04
25 12 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATAATTTTATAATATTTAA
Found at i:43383763 original size:44 final size:45
Alignment explanation
Indices: 43383710--43383808 Score: 173
Period size: 44 Copynumber: 2.2 Consensus size: 45
43383700 TCTTTAAATT
43383710 TTATAATTTTATAATATTTAAATAATTTTAATAAATTTACATATC
1 TTATAATTTTATAATATTTAAATAATTTTAATAAATTTACATATC
*
43383755 -TATAATTTTATAATATTTAAATAATTTTAATAAATTTATATATC
1 TTATAATTTTATAATATTTAAATAATTTTAATAAATTTACATATC
*
43383799 TTTTAATTTT
1 TTATAATTTT
43383809 TTATAATAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
44 43 0.84
45 8 0.16
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (45 bp):
TTATAATTTTATAATATTTAAATAATTTTAATAAATTTACATATC
Found at i:43383819 original size:29 final size:28
Alignment explanation
Indices: 43383779--43383868 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
43383769 ATTTAAATAA
43383779 TTTTAATAAATTTATATATCTTTTAATTT
1 TTTTAAT-AATTTATATATCTTTTAATTT
*
43383808 TTTATAATAATTTATA-ATTTTTTAATTT
1 TTT-TAATAATTTATATATCTTTTAATTT
* * *
43383836 TTTT-ATAATTTTTATAAT-TTATACTTT
1 TTTTAATAATTTATAT-ATCTTTTAATTT
43383863 TTTTAA
1 TTTTAA
43383869 ATTAGAATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
26 9 0.17
27 12 0.23
28 17 0.32
29 11 0.21
30 4 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTAATAATTTATATATCTTTTAATTT
Found at i:43383821 original size:10 final size:9
Alignment explanation
Indices: 43383709--43383853 Score: 65
Period size: 9 Copynumber: 15.9 Consensus size: 9
43383699 TTCTTTAAAT
43383709 TTTATAAT-
1 TTTATAATA
43383717 TTTATAATA
1 TTTATAATA
43383726 TTTA-AATAA
1 TTTATAAT-A
43383735 TTT-TAATAAA
1 TTTATAAT--A
*
43383745 TTTA-CATA
1 TTTATAATA
*
43383753 TCTATAAT-
1 TTTATAATA
43383761 TTTATAATA
1 TTTATAATA
43383770 TTTA-AATAA
1 TTTATAAT-A
43383779 TTT-TAATAAA
1 TTTATAAT--A
43383789 TTTAT-ATA
1 TTTATAATA
* *
43383797 TCTTTTAATTT
1 T-TTATAA-TA
43383808 TTTATAATAA
1 TTTATAAT-A
43383818 TTTATAAT-
1 TTTATAATA
* *
43383826 TTTTTAATTTT
1 TTTATAA--TA
*
43383837 TTTATAATT
1 TTTATAATA
43383846 TTTATAAT
1 TTTATAAT
43383854 TTATACTTTT
Statistics
Matches: 109, Mismatches: 10, Indels: 35
0.71 0.06 0.23
Matches are distributed among these distances:
8 33 0.30
9 38 0.35
10 29 0.27
11 9 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTATAATA
Found at i:43383858 original size:16 final size:16
Alignment explanation
Indices: 43383814--43383879 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
43383804 ATTTTTTATA
43383814 ATAATTTATAATTTTT
1 ATAATTTATAATTTTT
43383830 -TAATTTTTTTATAATTTTT
1 ATAA----TTTATAATTTTT
*
43383849 ATAATTTATACTTTTT
1 ATAATTTATAATTTTT
* * *
43383865 TTAAATTAGAATTTT
1 ATAATTTATAATTTT
43383880 AATTTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
15 3 0.08
16 22 0.55
19 12 0.30
20 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
ATAATTTATAATTTTT
Found at i:43383864 original size:28 final size:29
Alignment explanation
Indices: 43383782--43383867 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
43383772 TAAATAATTT
43383782 TAATAAATTTATATATCTTT-TAA-TTTTTTA
1 TAAT-AATTTATA-AT-TTTATAATTTTTTTA
*
43383812 TAATAATTTATAATTTTTTAATTTTTTTA
1 TAATAATTTATAATTTTATAATTTTTTTA
* *
43383841 TAAT-TTTTATAA-TTTATACTTTTTTTA
1 TAATAATTTATAATTTTATAATTTTTTTA
43383868 AATTAGAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 16 0.31
28 12 0.24
29 19 0.37
30 4 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
TAATAATTTATAATTTTATAATTTTTTTA
Found at i:43395403 original size:18 final size:19
Alignment explanation
Indices: 43395375--43395415 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
43395365 TCTTTAGATT
* *
43395375 TTTTTTAAAAATTTATATA
1 TTTTTTAAAAATATATAAA
43395394 TTTTTT-AAAATATATAAA
1 TTTTTTAAAAATATATAAA
43395412 TTTT
1 TTTT
43395416 GAAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTTAAAAATATATAAA
Found at i:43395442 original size:19 final size:20
Alignment explanation
Indices: 43395411--43395462 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
43395401 AAATATATAA
*
43395411 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAACT
*
43395431 ATTTTTAA-TTTTAAAAACT
1 ATTTTGAATTTTTAAAAACT
43395450 ATTTTGAATTTTT
1 ATTTTGAATTTTT
43395463 TTTGTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.30
19 10 0.37
20 9 0.33
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAACT
Found at i:43399439 original size:29 final size:31
Alignment explanation
Indices: 43399346--43399436 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 31
43399336 CAAATTCAAA
*
43399346 AAAAAAATCAACTAAACATTTTTATAAAAATT
1 AAAAAATTCAA-TAAACATTTTTATAAAAATT
** *
43399378 ATATACTATT-AA-AAATATTTTTA-AAAAATT
1 A-A-AAAATTCAATAAACATTTTTATAAAAATT
43399408 AAAAAATTCAATAAA-ATTTTTATAAAAAT
1 AAAAAATTCAATAAACATTTTTATAAAAAT
43399437 AAATATAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
28 4 0.08
29 10 0.21
30 17 0.35
31 10 0.21
32 1 0.02
33 3 0.06
34 3 0.06
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAAAATTCAATAAACATTTTTATAAAAATT
Found at i:43400080 original size:120 final size:122
Alignment explanation
Indices: 43399916--43400174 Score: 479
Period size: 121 Copynumber: 2.1 Consensus size: 122
43399906 ACTTACAAAA
*
43399916 AAAAAAAAAGAAG-ATAAAAATGTTAATTTACATTTTAAAATAAA-CCTACTTTTTTGTCCATAG
1 AAAAAAAAAG-AGTGTAAAAATGTTAATTTACATTTTAAAATAAACCCTACTTTTTTGTCCATAG
43399979 CTTCTCCGGTAAATAAAAACTAAATAATTCAAGGAAAAGGAAGGCTTTCGAAATTATT
65 CTTCTCCGGTAAATAAAAACTAAATAATTCAAGGAAAAGGAAGGCTTTCGAAATTATT
43400037 -AAAAAAAAGAGTGTAAAAATGTTAATTTACATTTTAAAATAAACCCTACTTTTTTGTCCATAGC
1 AAAAAAAAAGAGTGTAAAAATGTTAATTTACATTTTAAAATAAACCCTACTTTTTTGTCCATAGC
43400101 TTCTCCGGTAAATAAAAACTAAATAATTCAAGGAAAAGGAAGGCTTTCGAAATTATT
66 TTCTCCGGTAAATAAAAACTAAATAATTCAAGGAAAAGGAAGGCTTTCGAAATTATT
43400158 AAAAAAAAAGAGTGTAA
1 AAAAAAAAAGAGTGTAA
43400175 TTTTCTCTTA
Statistics
Matches: 134, Mismatches: 1, Indels: 5
0.96 0.01 0.04
Matches are distributed among these distances:
119 2 0.01
120 39 0.29
121 77 0.57
122 16 0.12
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (122 bp):
AAAAAAAAAGAGTGTAAAAATGTTAATTTACATTTTAAAATAAACCCTACTTTTTTGTCCATAGC
TTCTCCGGTAAATAAAAACTAAATAATTCAAGGAAAAGGAAGGCTTTCGAAATTATT
Found at i:43401661 original size:21 final size:21
Alignment explanation
Indices: 43401635--43401676 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
43401625 GTTATGAAGG
43401635 ATAAGAAAACTCAAGAATGTT
1 ATAAGAAAACTCAAGAATGTT
43401656 ATAAGAAAACTCAAGAATGTT
1 ATAAGAAAACTCAAGAATGTT
43401677 CTTTCTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (21 bp):
ATAAGAAAACTCAAGAATGTT
Found at i:43405076 original size:89 final size:89
Alignment explanation
Indices: 43404925--43405104 Score: 360
Period size: 89 Copynumber: 2.0 Consensus size: 89
43404915 TATCCTTAAC
43404925 TGCTCACTTTCGAAATTGATAGAAATTAAATTACTCCGAATTTTTTTAGAGGGATTGGAGAAGCC
1 TGCTCACTTTCGAAATTGATAGAAATTAAATTACTCCGAATTTTTTTAGAGGGATTGGAGAAGCC
43404990 TTTTTAGCAAGAAAAAACTTGAAA
66 TTTTTAGCAAGAAAAAACTTGAAA
43405014 TGCTCACTTTCGAAATTGATAGAAATTAAATTACTCCGAATTTTTTTAGAGGGATTGGAGAAGCC
1 TGCTCACTTTCGAAATTGATAGAAATTAAATTACTCCGAATTTTTTTAGAGGGATTGGAGAAGCC
43405079 TTTTTAGCAAGAAAAAACTTGAAA
66 TTTTTAGCAAGAAAAAACTTGAAA
43405103 TG
1 TG
43405105 ACAATAAAGG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (89 bp):
TGCTCACTTTCGAAATTGATAGAAATTAAATTACTCCGAATTTTTTTAGAGGGATTGGAGAAGCC
TTTTTAGCAAGAAAAAACTTGAAA
Found at i:43424259 original size:10 final size:10
Alignment explanation
Indices: 43424209--43424275 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
43424199 AAAATATTAC
43424209 AAAAATTA-T
1 AAAAATTATT
43424218 AGAAAATT-TT
1 A-AAAATTATT
* *
43424228 CCAAAATCATT
1 -AAAAATTATT
43424239 AAAAATATATT
1 AAAAAT-TATT
*
43424250 ATAAATTATT
1 AAAAATTATT
*
43424260 AAACATTA-T
1 AAAAATTATT
43424269 AAAAATT
1 AAAAATT
43424276 TTGAAATAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
9 8 0.18
10 27 0.60
11 10 0.22
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (10 bp):
AAAAATTATT
Found at i:43424307 original size:18 final size:18
Alignment explanation
Indices: 43424247--43424311 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
43424237 TTAAAAATAT
43424247 ATTAT-AAATTATT-AAAC
1 ATTATAAAATT-TTGAAAC
*
43424264 ATTATAAAAATTTTGAAAT
1 ATTAT-AAAATTTTGAAAC
** *
43424283 AACATAAAATTTTGAAAG
1 ATTATAAAATTTTGAAAC
43424301 ATTATAAAATT
1 ATTATAAAATT
43424312 ATTAATATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 5 0.13
18 23 0.59
19 11 0.28
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
ATTATAAAATTTTGAAAC
Found at i:43424692 original size:23 final size:22
Alignment explanation
Indices: 43424655--43424697 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
43424645 AATTTTTTTA
**
43424655 TATTTTATATTTTTAATAATTTC
1 TATTTTATAAATTT-ATAATTTC
43424678 TATTTTATAAATTTATAATT
1 TATTTTATAAATTTATAATT
43424698 ATTTTACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTTATAAATTTATAATTTC
Found at i:43424701 original size:25 final size:23
Alignment explanation
Indices: 43424655--43424701 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
43424645 AATTTTTTTA
*
43424655 TATTTTATATTTTTAATAATTTC
1 TATTTTATATTTATAATAATTTC
*
43424678 TATTTTATAAATTTATAATTATTT
1 TATTTTAT--ATTTATAATAATTT
43424702 TACTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
25 12 0.60
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTTTATATTTATAATAATTTC
Found at i:43425069 original size:13 final size:13
Alignment explanation
Indices: 43425051--43425075 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43425041 ATTACTAATA
43425051 AATTAAATTCTTC
1 AATTAAATTCTTC
43425064 AATTAAATTCTT
1 AATTAAATTCTT
43425076 TAAATAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTAAATTCTTC
Found at i:43429480 original size:32 final size:32
Alignment explanation
Indices: 43429444--43429511 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
43429434 TGCCTTGAGA
43429444 TTGAACCATTCTGGTGTTCTTTTTTAAAATGT
1 TTGAACCATTCTGGTGTTCTTTTTTAAAATGT
43429476 TTGAACCATTCTGGTGTTCTTTTTTAAAATGT
1 TTGAACCATTCTGGTGTTCTTTTTTAAAATGT
43429508 TTGA
1 TTGA
43429512 TCGGGTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (32 bp):
TTGAACCATTCTGGTGTTCTTTTTTAAAATGT
Found at i:43430833 original size:59 final size:59
Alignment explanation
Indices: 43430762--43430939 Score: 347
Period size: 59 Copynumber: 3.0 Consensus size: 59
43430752 TAACCATGTA
*
43430762 TAGGAATTATAAATAGTTTGTAGAAATATCTTCCATTTTACATGGTGATCTTGTCCATT
1 TAGGAATTATAAATAGTTTGTAGAAATATCTTCCATTTTACATGGTGATCTTGTTCATT
43430821 TAGGAATTATAAATAGTTTGTAGAAATATCTTCCATTTTACATGGTGATCTTGTTCATT
1 TAGGAATTATAAATAGTTTGTAGAAATATCTTCCATTTTACATGGTGATCTTGTTCATT
43430880 TAGGAATTATAAATAGTTTGTAGAAATATCTTCCATTTTACATGGTGATCTTGTTCATT
1 TAGGAATTATAAATAGTTTGTAGAAATATCTTCCATTTTACATGGTGATCTTGTTCATT
43430939 T
1 T
43430940 GATTCTTTCA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 118 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (59 bp):
TAGGAATTATAAATAGTTTGTAGAAATATCTTCCATTTTACATGGTGATCTTGTTCATT
Found at i:43432962 original size:22 final size:20
Alignment explanation
Indices: 43432909--43432963 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
43432899 TAAGTAAAAT
43432909 AAAAAGAC--AAAGAAACAA
1 AAAAAGACGAAAAGAAACAA
*
43432927 AAGAAGAACAGAAAAGAAACAGA
1 AAAAAG-AC-GAAAAGAAACA-A
43432950 GAAAAAGACGAAAA
1 -AAAAAGACGAAAA
43432964 CAGCGGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 5 0.17
19 2 0.07
22 14 0.48
23 3 0.10
24 5 0.17
ACGTcount: A:0.73, C:0.09, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAGACGAAAAGAAACAA
Found at i:43433344 original size:22 final size:24
Alignment explanation
Indices: 43433316--43433359 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
43433306 TATGGCAAGA
43433316 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
43433338 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
43433360 AGCTTGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:43433619 original size:24 final size:23
Alignment explanation
Indices: 43433592--43433638 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
43433582 TAATCATGGG
43433592 ACATTT-AAAGTAAGGTAAGTAATA
1 ACATTTGAAAGTAA-GTAA-TAATA
*
43433616 ACATTTGAAATTAAGTAATAATA
1 ACATTTGAAAGTAAGTAATAATA
43433639 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 10 0.48
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.32
Consensus pattern (23 bp):
ACATTTGAAAGTAAGTAATAATA
Found at i:43433944 original size:27 final size:28
Alignment explanation
Indices: 43433886--43433944 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
43433876 ATCTAATGCC
43433886 TTATTGGTGTGTTTGGGAGGATATGATA
1 TTATTGGTGTGTTTGGGAGGATATGATA
*
43433914 -TATTGGTGTGTTAT-GGAGGAT-TTATA
1 TTATTGGTGTGTT-TGGGAGGATATGATA
43433940 TTATT
1 TTATT
43433945 CCGGGTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 4 0.14
27 23 0.82
28 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (28 bp):
TTATTGGTGTGTTTGGGAGGATATGATA
Found at i:43440968 original size:130 final size:132
Alignment explanation
Indices: 43440729--43440983 Score: 379
Period size: 130 Copynumber: 1.9 Consensus size: 132
43440719 TAATGGGCCA
* * *
43440729 AAGTCATTTTGCTTTTTGGTAATTCTATTACCAAAGTGAATCTTACACTCCTTGGACCAAACGCT
1 AAGTCATTTTGCTTTTTGGTAATTCTATTACCAAAG-G-A--TTAAACTCCTTGAACCAAACGCC
* * * *
43440794 TCTTATTAATATATGTCGAACATAGTTGTGAATAGCTCTTACTCATCTACCAATTTTATTGGTTA
62 CCTTAGTAATATACGTCAAACATAGTTGTGAATAGCTCTTACTCATCTACCAATTTTATTGGTTA
43440859 TGTTCT
127 TGTTCT
43440865 AAGTCATTTTGCTTTTTGGTAATTCTATTACCAAA-G-TTAAACTCCTTGAACCAAACGCCCCTT
1 AAGTCATTTTGCTTTTTGGTAATTCTATTACCAAAGGATTAAACTCCTTGAACCAAACGCCCCTT
**
43440928 AGTAATATACGTCAAACATAGTTGTGAATAGCTCTTACTCATCTACTGATTTTATT
66 AGTAATATACGTCAAACATAGTTGTGAATAGCTCTTACTCATCTACCAATTTTATT
43440984 TCTCTCTGAA
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
130 74 0.67
134 1 0.01
136 35 0.32
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (132 bp):
AAGTCATTTTGCTTTTTGGTAATTCTATTACCAAAGGATTAAACTCCTTGAACCAAACGCCCCTT
AGTAATATACGTCAAACATAGTTGTGAATAGCTCTTACTCATCTACCAATTTTATTGGTTATGTT
CT
Found at i:43445915 original size:24 final size:25
Alignment explanation
Indices: 43445865--43445919 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
43445855 ATAAATCAGC
*
43445865 TTTTAATAGTATAAATAAATGAATT
1 TTTTAATAGAATAAATAAATGAATT
* *
43445890 TTTTAATAGAAT-AATTAAT-TATT
1 TTTTAATAGAATAAATAAATGAATT
43445913 TTTTAAT
1 TTTTAAT
43445920 TTAATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (25 bp):
TTTTAATAGAATAAATAAATGAATT
Found at i:43450325 original size:12 final size:12
Alignment explanation
Indices: 43450293--43450336 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
43450283 AGGCTCAACC
*
43450293 ATATATATATAT
1 ATATATAAATAT
43450305 ATATATAAATAT
1 ATATATAAATAT
*
43450317 ATATGTAAA-AT
1 ATATATAAATAT
*
43450328 GTATATAAA
1 ATATATAAA
43450337 AACATATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (12 bp):
ATATATAAATAT
Found at i:43450761 original size:16 final size:16
Alignment explanation
Indices: 43450739--43450772 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
43450729 TAAATCAAAA
43450739 ATAATATA-AAT-TTT
1 ATAATATATAATATTT
43450753 ATAATATATAATATTT
1 ATAATATATAATATTT
43450769 ATAA
1 ATAA
43450773 AAAAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 3 0.17
16 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATATATAATATTT
Found at i:43450776 original size:37 final size:36
Alignment explanation
Indices: 43450712--43450788 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
43450702 TTAAATTCCT
* *
43450712 TTTTATAATATGTAAATTAAATCAAAAATAATATAAA
1 TTTTATAATATATAAATTAAAT-AAAAAAAATATAAA
* *
43450749 TTTTATAATATATAATATT-TATAAAAAAATTATAAA
1 TTTTATAATATATAA-ATTAAATAAAAAAAATATAAA
43450785 TTTT
1 TTTT
43450789 CCAAAACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 16 0.46
37 16 0.46
38 3 0.09
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (36 bp):
TTTTATAATATATAAATTAAATAAAAAAAATATAAA
Found at i:43450783 original size:36 final size:37
Alignment explanation
Indices: 43450712--43450788 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
43450702 TTAAATTCCT
*
43450712 TTTTATAATATGTAAATTAAATCAAAAATAATATAAA
1 TTTTATAATATATAAATTAAATCAAAAATAATATAAA
*
43450749 TTTTATAATATATAATATT-TAT-AAAAA-AATTATAAA
1 TTTTATAATATATAA-ATTAAATCAAAAATAA-TATAAA
43450785 TTTT
1 TTTT
43450789 CCAAAACTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
35 2 0.06
36 15 0.42
37 16 0.44
38 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (37 bp):
TTTTATAATATATAAATTAAATCAAAAATAATATAAA
Found at i:43460850 original size:18 final size:17
Alignment explanation
Indices: 43460827--43460864 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
43460817 ACAAGTGTAT
43460827 ATAATATATAGTAAAAAA
1 ATAATATATA-TAAAAAA
*
43460845 ATAATATATATAAGAAA
1 ATAATATATATAAAAAA
43460862 ATA
1 ATA
43460865 GGACATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
ATAATATATATAAAAAA
Found at i:43462401 original size:29 final size:31
Alignment explanation
Indices: 43462337--43462401 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
43462327 TATTTTATTA
*
43462337 TGGTACCTATACTTTCATAAAGTATCCAATG
1 TGGTACATATACTTTCATAAAGTATCCAATG
* *
43462368 TGGTACATATACTTTGA-AAA-TATCTAATG
1 TGGTACATATACTTTCATAAAGTATCCAATG
43462397 TGGTA
1 TGGTA
43462402 TATGAACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 13 0.42
30 3 0.10
31 15 0.48
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (31 bp):
TGGTACATATACTTTCATAAAGTATCCAATG
Found at i:43462408 original size:92 final size:92
Alignment explanation
Indices: 43462251--43462429 Score: 270
Period size: 92 Copynumber: 1.9 Consensus size: 92
43462241 CATTTAGTAT
* * * *
43462251 CTATACATTCATAAAATGTTCAATGTGGTACATGTACTTTGAAAATATTCAATGTGATATTTGAA
1 CTATACATTCATAAAATATCCAATGTGGTACATATACTTTGAAAATATTCAATGTGATATATGAA
43462316 CTATCAATATGTATTTTATTATGGTAC
66 CTATCAATATGTATTTTATTATGGTAC
* * *
43462343 CTATACTTTCATAAAGTATCCAATGTGGTACATATACTTTGAAAATA-TCTAATGTGGTATATGA
1 CTATACATTCATAAAATATCCAATGTGGTACATATACTTTGAAAATATTC-AATGTGATATATGA
*
43462407 ACTATCAATATGTGTTTTATTAT
65 ACTATCAATATGTATTTTATTAT
43462430 AGTATTTGAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 2 0.03
92 76 0.97
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (92 bp):
CTATACATTCATAAAATATCCAATGTGGTACATATACTTTGAAAATATTCAATGTGATATATGAA
CTATCAATATGTATTTTATTATGGTAC
Found at i:43470840 original size:15 final size:17
Alignment explanation
Indices: 43470812--43470846 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
43470802 GCTTAGTTAA
43470812 TTTGTTTTTAATTTATT
1 TTTGTTTTTAATTTATT
43470829 TTTG-TTTT-ATTTATT
1 TTTGTTTTTAATTTATT
43470844 TTT
1 TTT
43470847 CACACAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 4 0.22
17 4 0.22
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (17 bp):
TTTGTTTTTAATTTATT
Found at i:43471101 original size:92 final size:92
Alignment explanation
Indices: 43470926--43471101 Score: 194
Period size: 92 Copynumber: 1.9 Consensus size: 92
43470916 CATCAAGTAT
* * * * * * *
43470926 CATAATAAAATACATATTGAAAGTTCAGGTACTGTATCGAACATTTTCTAAGTAGAAATACCACG
1 CATAATAAAATACATATTGAAAGTTCAAGTACCGCATAGAACATTTTCAAAGTACAAATACCACA
* *
43470991 TTGGATATTGCATGAAAGTATATGTAC
66 TTGAATATTGCATAAAAGTATATGTAC
* *
43471018 CATAATAAAATACATATTGATAA-TTCAAGTACCGCATTAG-ATATTTTCAAAGTACAAGTACCA
1 CATAATAAAATACATATTGA-AAGTTCAAGTACCGCA-TAGAACATTTTCAAAGTACAAATACCA
* **
43471081 TATTGAATATTTTATAAAAGT
64 CATTGAATATTGCATAAAAGT
43471102 TTAGGTAAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
92 64 0.94
93 4 0.06
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (92 bp):
CATAATAAAATACATATTGAAAGTTCAAGTACCGCATAGAACATTTTCAAAGTACAAATACCACA
TTGAATATTGCATAAAAGTATATGTAC
Found at i:43472618 original size:36 final size:36
Alignment explanation
Indices: 43472571--43472791 Score: 415
Period size: 36 Copynumber: 6.1 Consensus size: 36
43472561 GCTAGGCTAC
* *
43472571 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
43472607 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
43472643 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
43472679 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
43472715 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
43472751 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
43472787 CACTT
1 CACTT
43472792 CAATGTTACC
Statistics
Matches: 182, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 182 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:43474851 original size:36 final size:36
Alignment explanation
Indices: 43474804--43474944 Score: 156
Period size: 36 Copynumber: 3.6 Consensus size: 36
43474794 GTGGTCCCAA
43474804 TCACTTGATCAGATAAGTATAACACTTATCACTTTT
1 TCACTTGATCAGATAAGTATAACACTTATCACTTTT
*
43474840 TCACTTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTTG
1 TCACTTGATCAGATAA--GTA--T-A----A-CACTTATCACTTTT
* *
43474886 TCACTTGATCAGATAAGTGTAGCACTTATCACTTTT
1 TCACTTGATCAGATAAGTATAACACTTATCACTTTT
*
43474922 TCACTTGATCAGATAAGTGTAAC
1 TCACTTGATCAGATAAGTATAAC
43474945 TAAAGCTACC
Statistics
Matches: 90, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
36 51 0.57
38 3 0.03
40 1 0.01
41 2 0.02
42 1 0.01
44 2 0.02
45 1 0.01
46 29 0.32
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (36 bp):
TCACTTGATCAGATAAGTATAACACTTATCACTTTT
Found at i:43474893 original size:46 final size:44
Alignment explanation
Indices: 43474826--43474980 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 44
43474816 ATAAGTATAA
43474826 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
*
43474872 CACTTATCACTTTGTCACTTGATCAGATAA--GT-G-TAG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
43474908 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAACTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT--AGCTAC
* *
43474954 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
43474981 AGTACTCAAA
Statistics
Matches: 94, Mismatches: 5, Indels: 20
0.79 0.04 0.17
Matches are distributed among these distances:
36 29 0.31
38 2 0.02
40 2 0.02
41 1 0.01
42 3 0.03
43 1 0.01
44 2 0.02
46 54 0.57
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (44 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC
Found at i:43474941 original size:82 final size:82
Alignment explanation
Indices: 43474803--43474980 Score: 293
Period size: 82 Copynumber: 2.2 Consensus size: 82
43474793 TGTGGTCCCA
* * *
43474803 ATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGG
1 ATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTGTAACTAAAG
43474868 CTACCACTTATCACTTT
66 CTACCACTTATCACTTT
* * *
43474885 GTCACTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAACTAAAG
1 ATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTGTAACTAAAG
43474950 CTACCACTTATCACTTT
66 CTACCACTTATCACTTT
*
43474967 ATCTCTTGATCAGA
1 ATCACTTGATCAGA
43474981 AGTACTCAAA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 88 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (82 bp):
ATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTGTAACTAAAG
CTACCACTTATCACTTT
Found at i:43477791 original size:7 final size:7
Alignment explanation
Indices: 43477781--43477814 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
43477771 GAAAAAAAGA
43477781 AAAATAT
1 AAAATAT
43477788 AAAATAT
1 AAAATAT
43477795 AAAATAT
1 AAAATAT
43477802 AAAATAT
1 AAAATAT
43477809 AAAATA
1 AAAATA
43477815 AATGGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATAT
Found at i:43504468 original size:25 final size:25
Alignment explanation
Indices: 43504440--43504567 Score: 90
Period size: 25 Copynumber: 5.4 Consensus size: 25
43504430 GAGTTTAGAG
*
43504440 TGCTCTCTAATTATTAGCACATCAA
1 TGCTCTCTGATTATTAGCACATCAA
* * * *
43504465 TGCTCTCTGGTCATTAGCACGTCAG
1 TGCTCTCTGATTATTAGCACATCAA
*
43504490 TGCTCTCTGATTACTA--AC-TC--
1 TGCTCTCTGATTATTAGCACATCAA
* * *
43504510 -GCTCTCTGATT-TCTAGCACGTTAG
1 TGCTCTCTGATTAT-TAGCACATCAA
* * *
43504534 TGCTCTCCGATTATTAGCACATTAG
1 TGCTCTCTGATTATTAGCACATCAA
43504559 TGCTCTCTG
1 TGCTCTCTG
43504568 TATAGCACAT
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
19 13 0.16
21 2 0.02
22 3 0.04
23 2 0.02
25 61 0.74
26 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (25 bp):
TGCTCTCTGATTATTAGCACATCAA
Found at i:43504576 original size:22 final size:22
Alignment explanation
Indices: 43504523--43504612 Score: 108
Period size: 22 Copynumber: 4.0 Consensus size: 22
43504513 CTCTGATTTC
* *
43504523 TAGCACGTTAGTGCTCTCCGATTA
1 TAGCACATTAGTGCTCTCTG--TA
43504547 TTAGCACATTAGTGCTCTCTGTA
1 -TAGCACATTAGTGCTCTCTGTA
* *
43504570 TAGCACATTTGTGCTCTTTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
43504592 TAGCACTTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
43504613 TTAATAGTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
22 38 0.66
23 2 0.03
25 18 0.31
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:43514581 original size:13 final size:15
Alignment explanation
Indices: 43514544--43514580 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
43514534 AGATTATAGT
43514544 TATTATTTTGA-ATTA
1 TATTATTTT-ATATTA
43514559 TATTATTTTATATTA
1 TATTATTTTATATTA
43514574 T-TTATTT
1 TATTATTT
43514581 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTATTTTATATTA
Found at i:43518054 original size:17 final size:17
Alignment explanation
Indices: 43518028--43518062 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
43518018 GCAATACAAA
*
43518028 TTATCCATAATAAATAT
1 TTATCCATAAGAAATAT
*
43518045 TTATCTATAAGAAATAT
1 TTATCCATAAGAAATAT
43518062 T
1 T
43518063 AATATTCCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (17 bp):
TTATCCATAAGAAATAT
Found at i:43519271 original size:23 final size:24
Alignment explanation
Indices: 43519239--43519284 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
43519229 AAGGCGCCAA
43519239 TGAATTAAAA-AATATTAATTTTTT
1 TGAATTAAAATAATATT-ATTTTTT
*
43519263 TGAA-TAAAATATTATTATTTTT
1 TGAATTAAAATAATATTATTTTT
43519285 AAAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
TGAATTAAAATAATATTATTTTTT
Found at i:43519272 original size:21 final size:19
Alignment explanation
Indices: 43519243--43519294 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 19
43519233 CGCCAATGAA
43519243 TTAAAAAATATTAATT-TTT
1 TTAAAAAATATT-ATTATTT
43519262 TTGAATAAAATATTATTATTT
1 TT-AA-AAAATATTATTATTT
43519283 TTAAAAAATATT
1 TTAAAAAATATT
43519295 TAAATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.33
20 7 0.23
21 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TTAAAAAATATTATTATTT
Found at i:43519652 original size:6 final size:6
Alignment explanation
Indices: 43519643--43519720 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
43519633 CAACTTTTTT
* *
43519643 TTTTCA TTTT-A TTTAT-A TTTCCA AT-TCA -TTTCA TTTTTTCA TTTTCA
1 TTTTCA TTTTCA TTT-TCA TTTTCA TTTTCA TTTTCA -TT-TTCA TTTTCA
43519690 -TTTCA TTTGT-A TTTTCA TTTTCA -TTTCA TTT
1 TTTTCA TTT-TCA TTTTCA TTTTCA TTTTCA TTT
43519721 AAATTTATTT
Statistics
Matches: 59, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
4 1 0.02
5 20 0.34
6 30 0.51
7 4 0.07
8 4 0.07
ACGTcount: A:0.19, C:0.14, G:0.01, T:0.65
Consensus pattern (6 bp):
TTTTCA
Found at i:43519675 original size:5 final size:5
Alignment explanation
Indices: 43519644--43519720 Score: 50
Period size: 5 Copynumber: 14.6 Consensus size: 5
43519634 AACTTTTTTT
* * *
43519644 TTTCA TTTTA TTTATA TTTCCA ATTCA TTTCA TTT-- TTTCA TTTTCA
1 TTTCA TTTCA TTT-CA TTT-CA TTTCA TTTCA TTTCA TTTCA -TTTCA
*
43519690 TTTCA TTTGTA TTTTCA TTTTCA TTTCA TTT
1 TTTCA TTT-CA -TTTCA -TTTCA TTTCA TTT
43519721 AAATTTATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
3 3 0.05
5 32 0.54
6 21 0.36
7 3 0.05
ACGTcount: A:0.19, C:0.14, G:0.01, T:0.65
Consensus pattern (5 bp):
TTTCA
Found at i:43519708 original size:23 final size:22
Alignment explanation
Indices: 43519644--43519720 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 22
43519634 AACTTTTTTT
*
43519644 TTTCATTTTATTTAT-ATTTCCA
1 TTTCATTTTATTT-TCATTTTCA
* *
43519666 ATTCATTTCATTTTTTCATTTTCA
1 TTTCATTT--TATTTTCATTTTCA
43519690 TTTCATTTGTATTTTCATTTTCA
1 TTTCATTT-TATTTTCATTTTCA
43519713 TTTCATTT
1 TTTCATTT
43519721 AAATTTATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
22 7 0.15
23 22 0.48
24 17 0.37
ACGTcount: A:0.19, C:0.14, G:0.01, T:0.65
Consensus pattern (22 bp):
TTTCATTTTATTTTCATTTTCA
Found at i:43519726 original size:11 final size:11
Alignment explanation
Indices: 43519679--43519731 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
43519669 CATTTCATTT
*
43519679 TTTCATTTTCA
1 TTTCATTTTAA
*
43519690 TTTCATTTGTAT
1 TTTCATTT-TAA
*
43519702 TTTCATTTTCA
1 TTTCATTTTAA
*
43519713 TTTCATTTAAA
1 TTTCATTTTAA
43519724 TTT-ATTTT
1 TTTCATTTT
43519732 TTCCATTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
10 4 0.12
11 21 0.62
12 9 0.26
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (11 bp):
TTTCATTTTAA
Found at i:43519734 original size:23 final size:23
Alignment explanation
Indices: 43519678--43519726 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
43519668 TCATTTCATT
**
43519678 TTTTCATTTTCATTTCATTTGTA
1 TTTTCATTTTCATTTCATTTAAA
43519701 TTTTCATTTTCATTTCATTTAAA
1 TTTTCATTTTCATTTCATTTAAA
43519724 TTT
1 TTT
43519727 ATTTTTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.12, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTCATTTTCATTTCATTTAAA
Found at i:43519855 original size:5 final size:5
Alignment explanation
Indices: 43519826--43519947 Score: 59
Period size: 5 Copynumber: 22.4 Consensus size: 5
43519816 TCATTTAAAC
* * *
43519826 TTTCA TTCCA TTTCA TAATCA --TCA TTTCA TTTTA TATTCA TTTAACA
1 TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA T-TTCA TTT--CA
* * * *
43519873 TCTCA TTTCA TTTTA TATTCA TTACAAA TTACA TTTCA TTTCA TATTCATA
1 TTTCA TTTCA TTTCA T-TTCA TTTC--A TTTCA TTTCA TTTCA T-TTC--A
43519924 TTTCA TTTAACA TTTCA TTTCA TT
1 TTTCA TTT--CA TTTCA TTTCA TT
43519948 AATCTTTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
3 3 0.03
5 56 0.61
6 14 0.15
7 17 0.18
8 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (5 bp):
TTTCA
Found at i:43519880 original size:28 final size:28
Alignment explanation
Indices: 43519847--43519947 Score: 112
Period size: 28 Copynumber: 3.4 Consensus size: 28
43519837 TTCATAATCA
*
43519847 TCATTTCATTTTATATTCATTTAACATC
1 TCATTTCATTTTATATTCATTTAACATT
*
43519875 TCATTTCATTTTATATTCATTACAAATTACATT
1 TCATTTCATTTTATATTCATT-----TAACATT
*
43519908 TCATTTCATATTCATATTTCATTTAACATT
1 TCATTTCAT-TTTATA-TTCATTTAACATT
43519938 TCATTTCATT
1 TCATTTCATT
43519948 AATCTTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
28 21 0.34
29 1 0.02
30 15 0.24
33 14 0.23
34 5 0.08
35 6 0.10
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (28 bp):
TCATTTCATTTTATATTCATTTAACATT
Found at i:43520241 original size:22 final size:22
Alignment explanation
Indices: 43520213--43520286 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
43520203 GTCTAAGATG
43520213 TCATTTCATTTTTTTTTTCATT
1 TCATTTCATTTTTTTTTTCATT
***
43520235 TCATTTC-TATTTCAGTTTCATT
1 TCATTTCAT-TTTTTTTTTCATT
*
43520257 TCATTTAAATTTTTTTTTCTCATT
1 TCATTT-CATTTTTTTTT-TCATT
43520281 TCATTT
1 TCATTT
43520287 AAATTATCTA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 1 0.02
22 23 0.56
23 5 0.12
24 12 0.29
ACGTcount: A:0.18, C:0.15, G:0.01, T:0.66
Consensus pattern (22 bp):
TCATTTCATTTTTTTTTTCATT
Found at i:43520246 original size:6 final size:5
Alignment explanation
Indices: 43520228--43520262 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
43520218 TCATTTTTTT
43520228 TTTCA TTTCA TTTCTA TTTCA GTTTCA TTTCA TTT
1 TTTCA TTTCA TTTC-A TTTCA -TTTCA TTTCA TTT
43520263 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.17, C:0.17, G:0.03, T:0.63
Consensus pattern (5 bp):
TTTCA
Found at i:43520248 original size:11 final size:10
Alignment explanation
Indices: 43520228--43520262 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
43520218 TCATTTTTTT
43520228 TTTCATTTCA
1 TTTCATTTCA
43520238 TTTCTATTTCA
1 TTTC-ATTTCA
43520249 GTTTCATTTCA
1 -TTTCATTTCA
43520260 TTT
1 TTT
43520263 AAATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.30
11 12 0.52
12 4 0.17
ACGTcount: A:0.17, C:0.17, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:43520390 original size:48 final size:48
Alignment explanation
Indices: 43520268--43520533 Score: 410
Period size: 48 Copynumber: 5.5 Consensus size: 48
43520258 CATTTAAATT
*
43520268 TTTTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTAAATTTAA
1 TTTTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTAATTTAA
43520316 TTTTTTTTCTCTCATTTCATTTAAATTATCTATCTTCCCATTTTAATTTAA
1 --TTTTTT-TCTCATTTCATTTAAATTATCTATCTTCCCATTTTAATTTAA
* * *
43520367 TTTTTTTATTATTTCATTTAAATTATCTATCTTCCCATTTAAATTTAA
1 TTTTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTAATTTAA
* *
43520415 TTTTTTTCTTC-TTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAA
1 TTTTTTTC-TCATTTCATTTAAATTATCTATCTTCCCATTTTAATTTAA
* *
43520463 TTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTT-A
1 TTTTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTAATTTAA
43520510 TTTTTTTCTCATTTCATTTAAATT
1 TTTTTTTCTCATTTCATTTAAATT
43520534 TACTTTTTTC
Statistics
Matches: 204, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
47 27 0.13
48 123 0.60
49 7 0.03
50 6 0.03
51 41 0.20
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (48 bp):
TTTTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTAATTTAA
Found at i:43520435 original size:21 final size:21
Alignment explanation
Indices: 43520409--43520518 Score: 62
Period size: 21 Copynumber: 4.9 Consensus size: 21
43520399 TCCCATTTAA
43520409 ATTTAATTTTTTTCTTCTTTC
1 ATTTAATTTTTTTCTTCTTTC
* *
43520430 ATTTAAATTATCTTTCTTTCCATTTTA
1 ATTT-AATT-TTTTTC-TT-C--TTTC
43520457 ATTTAATTTTTTTC-TCATTTC
1 ATTTAATTTTTTTCTTC-TTTC
* * *
43520478 ATTTAAATTATCT-TTCTTTCC
1 ATTTAATTTTTTTCTTCTTT-C
*
43520499 ATTTTAATTTATTTTTTTCT
1 A-TTTAATTT-TTTTCTTCT
43520519 CATTTCATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
20 3 0.04
21 21 0.31
22 12 0.18
23 8 0.12
24 6 0.09
25 6 0.09
26 4 0.06
27 7 0.10
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTAATTTTTTTCTTCTTTC
Found at i:43520522 original size:21 final size:22
Alignment explanation
Indices: 43520410--43520523 Score: 87
Period size: 22 Copynumber: 5.1 Consensus size: 22
43520400 CCCATTTAAA
*
43520410 TTTAATTT-TTTTCTTCTTTCA-
1 TTTAATTTATTTTCTT-TCTCAT
*
43520431 TTTAAATTATCTTTCTTTC-CAT
1 TTTAATTTAT-TTTCTTTCTCAT
43520453 TTTAATTTAATTTT-TTTCTCATTT
1 TTTAATTT-ATTTTCTTTCTCA--T
*
43520477 CATTTAAATTATCTTTCTTTC-CAT
1 --TTTAATTTAT-TTTCTTTCTCAT
43520501 TTTAATTTATTTT-TTTCTCAT
1 TTTAATTTATTTTCTTTCTCAT
43520522 TT
1 TT
43520524 CATTTAAATT
Statistics
Matches: 76, Mismatches: 5, Indels: 24
0.72 0.05 0.23
Matches are distributed among these distances:
20 4 0.05
21 21 0.28
22 23 0.30
23 8 0.11
24 2 0.03
25 2 0.03
26 12 0.16
27 4 0.05
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTAATTTATTTTCTTTCTCAT
Found at i:43520581 original size:27 final size:26
Alignment explanation
Indices: 43520259--43520592 Score: 175
Period size: 27 Copynumber: 13.6 Consensus size: 26
43520249 GTTTCATTTC
*
43520259 ATTTAAATTT-TTT-TTTCTCA-TTTC
1 ATTTAAATTTCTTTCTTTC-CATTTTA
* * *
43520283 ATTTAAATTATCTATCTTCCCATTTAA
1 ATTTAAATT-TCTTTCTTTCCATTTTA
* * * *
43520310 ATTTAATTTTTTTTCTCT-CA-TTTC
1 ATTTAAATTTCTTTCTTTCCATTTTA
* *
43520334 ATTTAAATTATCTATCTTCCCATTTTA
1 ATTTAAATT-TCTTTCTTTCCATTTTA
*
43520361 ATTT-AATTT-TTT-TATT--A-TTTC
1 ATTTAAATTTCTTTCT-TTCCATTTTA
* * *
43520382 ATTTAAATTATCTATCTTCCCATTTAA
1 ATTTAAATT-TCTTTCTTTCCATTTTA
* *
43520409 ATTT-AATTTTTTTC-TT-C--TTTC
1 ATTTAAATTTCTTTCTTTCCATTTTA
43520430 ATTTAAATTATCTTTCTTTCCATTTTA
1 ATTTAAATT-TCTTTCTTTCCATTTTA
* *
43520457 ATTT-AATTT-TTT-TCT-CA-TTTC
1 ATTTAAATTTCTTTCTTTCCATTTTA
43520478 ATTTAAATTATCTTTCTTTCCATTTTA
1 ATTTAAATT-TCTTTCTTTCCATTTTA
* *
43520505 ATTT--ATTT-TTT-TCT-CA-TTTC
1 ATTTAAATTTCTTTCTTTCCATTTTA
* *
43520525 ATTTAAATTTACTTT-TTTCTATTTTT
1 ATTTAAATTT-CTTTCTTTCCATTTTA
43520551 ATTTAAATTATCTTTCTTTCCATTTTA
1 ATTTAAATT-TCTTTCTTTCCATTTTA
* *
43520578 ATTTACATTTTTTTC
1 ATTTAAATTTCTTTC
43520593 ATATTAATTT
Statistics
Matches: 231, Mismatches: 44, Indels: 68
0.67 0.13 0.20
Matches are distributed among these distances:
20 7 0.03
21 22 0.10
22 21 0.09
23 14 0.06
24 40 0.17
25 22 0.10
26 47 0.20
27 58 0.25
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTAAATTTCTTTCTTTCCATTTTA
Found at i:43520700 original size:18 final size:18
Alignment explanation
Indices: 43520677--43520713 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43520667 ATATTTAATC
43520677 AAGTATATAATTTGAATA
1 AAGTATATAATTTGAATA
* *
43520695 AAGTATATCATTTGTATA
1 AAGTATATAATTTGAATA
43520713 A
1 A
43520714 TTTTTCATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (18 bp):
AAGTATATAATTTGAATA
Found at i:43526336 original size:13 final size:15
Alignment explanation
Indices: 43526306--43526337 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
43526296 ATATTTCATG
43526306 CATTTCATCAATAAT
1 CATTTCATCAATAAT
43526321 CATTTCAT-AA-AAT
1 CATTTCATCAATAAT
43526334 CATT
1 CATT
43526338 ATTTCCTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (15 bp):
CATTTCATCAATAAT
Found at i:43526932 original size:45 final size:45
Alignment explanation
Indices: 43526835--43526984 Score: 205
Period size: 45 Copynumber: 3.4 Consensus size: 45
43526825 AGTAAACAGT
* * * * *
43526835 AATCAGTAACGGTAGCAGTAACAGTATTC-A-ACACACAGTGCTG
1 AATCAGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
*
43526878 AATCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
* * *
43526923 AGTCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
43526968 AATCAGTAACAGTAACG
1 AATCAGTAACAGTAACG
43526985 TAGTCGGCAC
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 25 0.27
44 1 0.01
45 67 0.72
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (45 bp):
AATCAGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
Found at i:43526975 original size:39 final size:39
Alignment explanation
Indices: 43526887--43527013 Score: 125
Period size: 45 Copynumber: 3.2 Consensus size: 39
43526877 GAATCTGTAA
* *
43526887 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAGTCGGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGA------AT
43526932 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * *
43526971 CAGTAACAGTAAC-GTAGTCGGCACA-TAAGTGCCTG-AT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAAT
43527008 CAGTAA
1 CAGTAA
43527014 GCCGGAAAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
37 15 0.20
38 11 0.14
39 14 0.18
45 36 0.47
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:43528600 original size:37 final size:37
Alignment explanation
Indices: 43528539--43528684 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
43528529 TACGTATGAT
* *
43528539 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
43528574 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
43528611 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
43528648 CAATTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
43528685 TAAAGCTATC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 91 0.88
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:43528718 original size:46 final size:46
Alignment explanation
Indices: 43528651--43528916 Score: 334
Period size: 46 Copynumber: 5.5 Consensus size: 46
43528641 GTGTAGCCAA
* *
43528651 TTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCAC
* * *
43528697 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCAC
43528743 TTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCAC
1 TTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCAC
* * *
43528795 TTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCAC
* *
43528841 TTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCAC
43528893 TTATCACTTTGTCACTTGATCAGA
1 TTATCACTTTGTCACTTGATCAGA
43528917 AGTACTCAAA
Statistics
Matches: 194, Mismatches: 14, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 108 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 82 0.42
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (46 bp):
TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCAC
Found at i:43528767 original size:52 final size:52
Alignment explanation
Indices: 43528691--43528910 Score: 290
Period size: 52 Copynumber: 4.3 Consensus size: 52
43528681 TAGCTAAAGC
* *
43528691 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
43528744 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
43528796 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
43528842 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
43528894 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
43528911 ATCAGAAGTA
Statistics
Matches: 146, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 42 0.29
49 1 0.01
52 85 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:43528828 original size:98 final size:98
Alignment explanation
Indices: 43528654--43528916 Score: 463
Period size: 98 Copynumber: 2.7 Consensus size: 98
43528644 TAGCCAATTA
* *
43528654 TCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCA
1 TCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCA
43528719 GATAAGTATAGCCGAAGCTATCACTTATCACTTT
65 GATAAGTATAGCCGAAGCTATCACTTATCACTTT
*
43528753 TCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAG
1 TCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAG
*
43528818 ATAAGTATAGCCGAAGCTATTACTTATCACTTT
66 ATAAGTATAGCCGAAGCTATCACTTATCACTTT
* *
43528851 CCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAG
1 TCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAG
43528916 A
66 A
43528917 AGTACTCAAA
Statistics
Matches: 157, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 153 0.97
99 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
TCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAG
ATAAGTATAGCCGAAGCTATCACTTATCACTTT
Found at i:43535032 original size:23 final size:23
Alignment explanation
Indices: 43534984--43535036 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
43534974 GTTAGATGGG
*
43534984 TATATAATAAATAATTAAAATGA
1 TATATAATAAACAATTAAAATGA
* *
43535007 TATATAATAAACCAA-TATAATTA
1 TATATAATAAA-CAATTAAAATGA
43535030 TATATAA
1 TATATAA
43535037 CACTAATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
TATATAATAAACAATTAAAATGA
Found at i:43545003 original size:136 final size:133
Alignment explanation
Indices: 43544753--43545013 Score: 468
Period size: 136 Copynumber: 1.9 Consensus size: 133
43544743 AGTATACCGT
*
43544753 CACTAGATATGTAAATATTTGGCTACCATTAATGGTTCAGAAACTTTAGACGTTCCTTTGCTGTT
1 CACTAGATATGTAAATATTTGGCTACCATTAATGGTTCAGAAACTTTAGACGTTCCTTTGCTGTG
43544818 ACAGGCCACTGATACAAATCATAGTAATTTAACAGTGGATTACAAAAGAAATGCATTGTGTATGC
66 ACAGGCCACTGATACAAATCATAGTAATTTAACAGTGGATTACAAAAGAAATGCATTGTGTATGC
43544883 CAA
131 CAA
*
43544886 CACTAGATATGTAAATATTTTGGCTACCATTAATGGTTCAGAAACTTTGGACGTTCCTTTGCTGT
1 CACTAGATATGTAAATA-TTTGGCTACCATTAATGGTTCAGAAACTTTAGACGTTCCTTTGCTGT
*
43544951 AAGACAGGCCACTGATACAAATCATAGTAATTTAACAGTGGATTACAGAAGAAATGCATTGTG
65 --GACAGGCCACTGATACAAATCATAGTAATTTAACAGTGGATTACAAAAGAAATGCATTGTG
43545014 ATTTAACAAA
Statistics
Matches: 122, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
133 17 0.14
134 46 0.38
136 59 0.48
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (133 bp):
CACTAGATATGTAAATATTTGGCTACCATTAATGGTTCAGAAACTTTAGACGTTCCTTTGCTGTG
ACAGGCCACTGATACAAATCATAGTAATTTAACAGTGGATTACAAAAGAAATGCATTGTGTATGC
CAA
Found at i:43545814 original size:152 final size:150
Alignment explanation
Indices: 43545540--43545840 Score: 417
Period size: 152 Copynumber: 2.0 Consensus size: 150
43545530 ATTAATATTC
* *
43545540 TAAGAGTGTTCCTGGTCCCAAAAGAGGTACTCTTAGCTCAAACTGAAACAAAACTTGAACCTTTC
1 TAAGAGTGTTACTAGTCCCAAAAGAGGTACTCTTAGCTCAAACTGAAACAAAACTTGAACCTTTC
* * *
43545605 TAAAATGCATATCTTAGCTCAGATTTGAAAATTAACCAAAAGCCCTAATCATGTTCTCTAGCATC
66 TAAAATGCATATCTTAGCTCAAAATTGAAAATTAACCAAAAGCCCTAATCATATTCTCTAGCATC
43545670 CGCAGCTCG-GATTTACCTTG
131 CGCAGCTCGAG-TTTACCTTG
* * *
43545690 TAAGAGTGTTACTCAGTCTCAAATGAGGTACTCTTAGCTCAAAACTGAAAACAGAACTTGAACCT
1 TAAGAGTGTTACT-AGTCCCAAAAGAGGTACTCTTAGCTC-AAACTG-AAACAAAACTTGAACCT
* * ** * *
43545755 TTCTAAACTGCATCTCTTA-CTCAAAATTGAAAATTAACCAAAAGCTTTACTCATATTCTCTAGT
63 TTCTAAAATGCATATCTTAGCTCAAAATTGAAAATTAACCAAAAGCCCTAATCATATTCTCTAGC
*
43545819 GTCCGCAGCTCGAGTTTACCTT
128 ATCCGCAGCTCGAGTTTACCTT
43545841 CTATAAGTAT
Statistics
Matches: 132, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
150 12 0.09
151 23 0.17
152 63 0.48
153 34 0.26
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (150 bp):
TAAGAGTGTTACTAGTCCCAAAAGAGGTACTCTTAGCTCAAACTGAAACAAAACTTGAACCTTTC
TAAAATGCATATCTTAGCTCAAAATTGAAAATTAACCAAAAGCCCTAATCATATTCTCTAGCATC
CGCAGCTCGAGTTTACCTTG
Found at i:43547827 original size:13 final size:13
Alignment explanation
Indices: 43547809--43547838 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43547799 TACTCGTGTT
*
43547809 CCTATTTTGATTA
1 CCTATTTTGATCA
43547822 CCTATTTTGATCA
1 CCTATTTTGATCA
43547835 CCTA
1 CCTA
43547839 CTTTAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (13 bp):
CCTATTTTGATCA
Found at i:43553629 original size:31 final size:31
Alignment explanation
Indices: 43553578--43553643 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
43553568 AAAACCCTAG
* * *
43553578 AGTTTAGGCCCCAATGTGGGA-ATAATTGCCA
1 AGTTCAGGCCCCAATATGGGACA-AATTACCA
*
43553609 AGTTCAGGTCCCAATATGGGACAAATTACCA
1 AGTTCAGGCCCCAATATGGGACAAATTACCA
43553640 AGTT
1 AGTT
43553644 TAGGGACTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (31 bp):
AGTTCAGGCCCCAATATGGGACAAATTACCA
Found at i:43555908 original size:22 final size:22
Alignment explanation
Indices: 43555874--43555935 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
43555864 GGCCCGGCCC
*
43555874 ATTTTTAATTAAAATTAAAATTA
1 ATTTTTAA-TAAAATTAAAACTA
*
43555897 TTTTTTAATAAAATTAAAACTA
1 ATTTTTAATAAAATTAAAACTA
* *
43555919 ATTGTTATTAAAATTAA
1 ATTTTTAATAAAATTAA
43555936 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTTTTAATAAAATTAAAACTA
Found at i:43555948 original size:16 final size:16
Alignment explanation
Indices: 43555911--43555950 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
43555901 TTAATAAAAT
* *
43555911 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
43555927 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
43555943 TAAAATTA
1 TAAAATTA
43555951 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:43556009 original size:66 final size:59
Alignment explanation
Indices: 43555953--43556072 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 59
43555943 TAAAATTATC
* * * *
43555953 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTAATTAGTA
*
43556011 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTAATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTAATTAGTA
43556070 AAA
1 AAA
43556073 CAAACTTGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 6 0.11
59 49 0.89
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTAATTAGTA
Found at i:43556178 original size:22 final size:24
Alignment explanation
Indices: 43556138--43556181 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
43556128 AAATAAACTT
43556138 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
43556162 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
43556182 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:43557593 original size:30 final size:29
Alignment explanation
Indices: 43557526--43557593 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
43557516 GGTTTCGCGG
43557526 AAAAT-GGCCCATTCCGGTAAATAATTAA
1 AAAATCGGCCCATTCCGGTAAATAATTAA
* * *
43557554 AAAACCGGCCCATTTCGGTAAAT-TTTGAAA
1 AAAATCGGCCCATTCCGGTAAATAATT--AA
43557584 AAAATCGGCC
1 AAAATCGGCC
43557594 TTTTTTGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 16 0.48
30 11 0.33
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (29 bp):
AAAATCGGCCCATTCCGGTAAATAATTAA
Found at i:43573075 original size:16 final size:16
Alignment explanation
Indices: 43573054--43573110 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
43573044 TTTGGTTCGC
*
43573054 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
43573070 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
43573086 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
43573102 TGTAATGGA
1 TGTAATGGA
43573111 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:43573377 original size:18 final size:17
Alignment explanation
Indices: 43573356--43573390 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43573346 TTATTATTAA
*
43573356 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43573374 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43573391 TCTTAAAAAT
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:43579174 original size:37 final size:39
Alignment explanation
Indices: 43579106--43579179 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 39
43579096 CCTTTTCAAA
*
43579106 TTTATAACTAATTTTATATATTCTAATTACTT-TTAAGAG
1 TTTATAAC-AATTTTATATATTATAATTACTTGTTAAGAG
*
43579145 TTTATAA-AATTTTATCTATTAT-ATATACTTGTTAA
1 TTTATAACAATTTTATATATTATAAT-TACTTGTTAA
43579180 TATAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 2 0.06
37 18 0.58
38 4 0.13
39 7 0.23
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (39 bp):
TTTATAACAATTTTATATATTATAATTACTTGTTAAGAG
Found at i:43581875 original size:59 final size:59
Alignment explanation
Indices: 43581801--43581931 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 59
43581791 CTATACCTAT
* * * * **
43581801 ATTAGGGCTTCAAAGTTTTTTTGGTCTAAGTTAGG-CTTGAA-TTAGACAACCATTTTCAC
1 ATTAGAGCTTGAAAG-TTTTATGGTCTAAGTTAGGCCTTAAATTTA-ACAACCATTCCCAC
* *
43581860 ATTAGAGCTTGAAAGTTTTATGGTTTAAGTTAGGCCTTAAATTTAACAACTATTCCCAC
1 ATTAGAGCTTGAAAGTTTTATGGTCTAAGTTAGGCCTTAAATTTAACAACCATTCCCAC
*
43581919 ATTAGAACTTGAA
1 ATTAGAGCTTGAA
43581932 TTTGACAACT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
58 17 0.28
59 41 0.67
60 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (59 bp):
ATTAGAGCTTGAAAGTTTTATGGTCTAAGTTAGGCCTTAAATTTAACAACCATTCCCAC
Found at i:43589661 original size:49 final size:50
Alignment explanation
Indices: 43589531--43589663 Score: 148
Period size: 49 Copynumber: 2.7 Consensus size: 50
43589521 CTCAAGCTCT
* * * *
43589531 TAGTTCACGGTGGTTATACGGTCATGGGTTGAAGTATAACTAGGGCTCCC
1 TAGTTAACGGTGGTTATACGATCACGGGTTCAAGTATAACTAGGGCTCCC
*
43589581 -AGTTAACGGTGGTTATAC-AGTCACGGATTCAAGTATAACTCA-GGC-CCC
1 TAGTTAACGGTGGTTATACGA-TCACGGGTTCAAGTATAACT-AGGGCTCCC
* * *
43589629 TAGTTGACAGTGGTTATACGATAACGGGTTCAAGT
1 TAGTTAACGGTGGTTATACGATCACGGGTTCAAGT
43589664 TTCATGCCAC
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
48 3 0.04
49 65 0.93
50 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
TAGTTAACGGTGGTTATACGATCACGGGTTCAAGTATAACTAGGGCTCCC
Found at i:43590723 original size:41 final size:41
Alignment explanation
Indices: 43590678--43590759 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
43590668 TGTTTGTGAG
* *
43590678 TTAAAAAAATTGGCTTATAACATCATAATACTTTTGAAAAT
1 TTAAAAAAATTCGCTTATAACATCAAAATACTTTTGAAAAT
43590719 TTAAAAAAATTCGCTTATAACATCAAAATACTTTTGAAAAT
1 TTAAAAAAATTCGCTTATAACATCAAAATACTTTTGAAAAT
43590760 ATCACTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (41 bp):
TTAAAAAAATTCGCTTATAACATCAAAATACTTTTGAAAAT
Found at i:43591935 original size:147 final size:147
Alignment explanation
Indices: 43591755--43592050 Score: 592
Period size: 147 Copynumber: 2.0 Consensus size: 147
43591745 CATTATCAAG
43591755 TTGCATAAAACAAAATCAAAAGCAAAACAAGGGGACCATCCAGACAAACCAAACAATCGATTGAA
1 TTGCATAAAACAAAATCAAAAGCAAAACAAGGGGACCATCCAGACAAACCAAACAATCGATTGAA
43591820 CCTATGATTTTCGAGAACAAAGGAAGTGGTTCCAAAGGGACAACCAAATGCCGACAACTGAAATT
66 CCTATGATTTTCGAGAACAAAGGAAGTGGTTCCAAAGGGACAACCAAATGCCGACAACTGAAATT
43591885 TTGGGTTGGGTCAGTGA
131 TTGGGTTGGGTCAGTGA
43591902 TTGCATAAAACAAAATCAAAAGCAAAACAAGGGGACCATCCAGACAAACCAAACAATCGATTGAA
1 TTGCATAAAACAAAATCAAAAGCAAAACAAGGGGACCATCCAGACAAACCAAACAATCGATTGAA
43591967 CCTATGATTTTCGAGAACAAAGGAAGTGGTTCCAAAGGGACAACCAAATGCCGACAACTGAAATT
66 CCTATGATTTTCGAGAACAAAGGAAGTGGTTCCAAAGGGACAACCAAATGCCGACAACTGAAATT
43592032 TTGGGTTGGGTCAGTGA
131 TTGGGTTGGGTCAGTGA
43592049 TT
1 TT
43592051 AACAAGATCC
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
147 149 1.00
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (147 bp):
TTGCATAAAACAAAATCAAAAGCAAAACAAGGGGACCATCCAGACAAACCAAACAATCGATTGAA
CCTATGATTTTCGAGAACAAAGGAAGTGGTTCCAAAGGGACAACCAAATGCCGACAACTGAAATT
TTGGGTTGGGTCAGTGA
Found at i:43595228 original size:20 final size:20
Alignment explanation
Indices: 43595183--43595228 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
43595173 AACTAATACA
*
43595183 AATATCAAGTTATACATATC
1 AATATCAAGTCATACATATC
*
43595203 AA-ATCAAGTCCATACCTAT-
1 AATATCAAGT-CATACATATC
43595222 AATATCA
1 AATATCA
43595229 TGCTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (20 bp):
AATATCAAGTCATACATATC
Found at i:43604101 original size:39 final size:38
Alignment explanation
Indices: 43604044--43604123 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 38
43604034 TAAACGTAAG
*
43604044 ATATTTAAAAGATAATATAATGTTAAAATAAAATAAAA
1 ATATTTAAAAGATAATATAATGGTAAAATAAAATAAAA
* *
43604082 ATATTTTAAAGAATGATATAATGGTAAAATAAAATAAAA
1 ATATTTAAAAG-ATAATATAATGGTAAAATAAAATAAAA
43604121 ATA
1 ATA
43604124 ATTGAAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 10 0.26
39 28 0.74
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (38 bp):
ATATTTAAAAGATAATATAATGGTAAAATAAAATAAAA
Found at i:43608814 original size:5 final size:5
Alignment explanation
Indices: 43608774--43608813 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
43608764 CTAGTAACGT
* *
43608774 GAGAA GAGAA AAGAA GAGAA GAGAA GAGAA GAGAA AAGAA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA
43608814 ATAAAGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:43610743 original size:25 final size:25
Alignment explanation
Indices: 43610715--43610829 Score: 194
Period size: 25 Copynumber: 4.6 Consensus size: 25
43610705 TAGCTCTTAT
* * *
43610715 GAGCTTTCCGTTATATGGTTATTAC
1 GAGCTTCCCGTTATATGGTTCTTGC
*
43610740 GAGCTTCCCGTTATATGGTTGTTGC
1 GAGCTTCCCGTTATATGGTTCTTGC
43610765 GAGCTTCCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTATATGGTTCTTGC
43610790 GAGCTTCCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTATATGGTTCTTGC
43610815 GAGCTTCCCGTTATA
1 GAGCTTCCCGTTATA
43610830 GCTTTTCGGA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 86 1.00
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.40
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGTTCTTGC
Found at i:43611000 original size:25 final size:25
Alignment explanation
Indices: 43610975--43611023 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
43610965 GCTTAAACTT
43610975 CTCAATATATGGCTATTCGGAGCTTC
1 CTCAATA-ATGGCTATTCGGAGCTTC
* * *
43611001 CTGATTAATGGCTCTTCGGAGCT
1 CTCAATAATGGCTATTCGGAGCT
43611024 ACCCGTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (25 bp):
CTCAATAATGGCTATTCGGAGCTTC
Found at i:43611060 original size:24 final size:24
Alignment explanation
Indices: 43610994--43611098 Score: 115
Period size: 24 Copynumber: 4.3 Consensus size: 24
43610984 TGGCTATTCG
*
43610994 GAGCTTCCTGATTAATGGCTCTTC-G
1 GAGCTTCCTGATT-ATGGCTC-TCAT
* * *
43611019 GAGCTACCCG-TTATTGGCTCGCAT
1 GAGCTTCCTGATTA-TGGCTCTCAT
*
43611043 GAGCTTCCTGATTATGGCTCTTAT
1 GAGCTTCCTGATTATGGCTCTCAT
*
43611067 GAGCTTCCTGATTATGGCTCTTAT
1 GAGCTTCCTGATTATGGCTCTCAT
43611091 GAGCTTCC
1 GAGCTTCC
43611099 CATTATATAG
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.03
24 56 0.81
25 11 0.16
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (24 bp):
GAGCTTCCTGATTATGGCTCTCAT
Found at i:43611085 original size:48 final size:49
Alignment explanation
Indices: 43610994--43611098 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 49
43610984 TGGCTATTCG
*
43610994 GAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCAT
1 GAGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTATTGGCTCGCAT
* * * **
43611043 GAGCTTCCTGATT-ATGGCTCTTATGAGCTTCCTGATTA-TGGCTCTTAT
1 GAGCTTCCTGATTAATGGCTCTTAGGAGCTACCCG-TTATTGGCTCGCAT
43611091 GAGCTTCC
1 GAGCTTCC
43611099 CATTATATAG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
48 33 0.67
49 16 0.33
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (49 bp):
GAGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTATTGGCTCGCAT
Found at i:43611134 original size:73 final size:72
Alignment explanation
Indices: 43610994--43611174 Score: 175
Period size: 73 Copynumber: 2.5 Consensus size: 72
43610984 TGGCTATTCG
** * * * * * * *
43610994 GAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCATGAGCTTCCTGATTATG
1 GAGCTTCCTGATT-ATGGCTCTTATGAGCTTCCCATTATTAGCCCGCATAAGCCTCCCGATTATG
**
43611059 GCTCTTAT
65 GCTCACAT
*
43611067 GAGCTTCCTGATTATGGCTCTTATGAGCTTCCCATTATATAGCCCGGATAAGCCTCCCGA-TATT
1 GAGCTTCCTGATTATGGCTCTTATGAGCTTCCCATTAT-TAGCCCGCATAAGCCTCCCGATTA-T
43611131 GGCTCACAT
64 GGCTCACAT
* * *
43611140 GAGCTTCATGTTTATGTGCTCGTATGAGCATTCCC
1 GAGCTTCCTGATTATG-GCTCTTATGAGC-TTCCC
43611175 GAATATGAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
72 23 0.26
73 50 0.56
74 11 0.12
75 5 0.06
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (72 bp):
GAGCTTCCTGATTATGGCTCTTATGAGCTTCCCATTATTAGCCCGCATAAGCCTCCCGATTATGG
CTCACAT
Found at i:43613474 original size:31 final size:31
Alignment explanation
Indices: 43613410--43613488 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
43613400 GTTATGAATT
*
43613410 TAGTCCTTGTAC-TTT-AATTTGATCAAATA
1 TAGTCATTGTACTTTTCAATTTGATCAAATA
*
43613439 TAGTCATTGTACTTTTCGAATTTG-TCAAATC
1 TAGTCATTGTACTTTTC-AATTTGATCAAATA
*
43613470 TAGTCATTTTACTTTTCAA
1 TAGTCATTGTACTTTTCAA
43613489 AATTTGAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 11 0.25
30 5 0.11
31 22 0.50
32 6 0.14
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (31 bp):
TAGTCATTGTACTTTTCAATTTGATCAAATA
Found at i:43613505 original size:31 final size:30
Alignment explanation
Indices: 43613433--43613498 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
43613423 TTAATTTGAT
* *
43613433 CAAATATAGTCATTGTACTTTTCGAATTTG
1 CAAATCTAGTCATTGTACTTTTCAAATTTG
*
43613463 TCAAATCTAGTCATTTTACTTTTCAAAATTTG
1 -CAAATCTAGTCATTGTACTTTTC-AAATTTG
43613495 -AAAT
1 CAAAT
43613499 TTTAGTCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.13
31 21 0.68
32 6 0.19
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (30 bp):
CAAATCTAGTCATTGTACTTTTCAAATTTG
Found at i:43616070 original size:32 final size:31
Alignment explanation
Indices: 43616000--43616070 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
43615990 TTTTGTTTTT
*
43616000 GAGTTAAATTTGATTCTCAACCTTTTAAAAA
1 GAGTTAAATTTGAATCTCAACCTTTTAAAAA
* *
43616031 GAATTAAATTT-AATCATCAATCTTTTGAAAAA
1 GAGTTAAATTTGAATC-TCAACCTTTT-AAAAA
43616063 GAGTTAAA
1 GAGTTAAA
43616071 ATGATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.09
31 19 0.56
32 12 0.35
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (31 bp):
GAGTTAAATTTGAATCTCAACCTTTTAAAAA
Found at i:43616196 original size:6 final size:6
Alignment explanation
Indices: 43616187--43616215 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
43616177 ACTTATTTAT
43616187 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
43616216 TTTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:43621288 original size:18 final size:17
Alignment explanation
Indices: 43621265--43621298 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
43621255 CAAAACATTC
43621265 TAATTAAAAAATATAAAT
1 TAATTAAAAAAT-TAAAT
*
43621283 TAATTATAAAATTAAA
1 TAATTAAAAAATTAAA
43621299 AGAATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATTAAAAAATTAAAT
Found at i:43626290 original size:30 final size:30
Alignment explanation
Indices: 43626246--43626308 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
43626236 ACTTAACAAG
*
43626246 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* *
43626276 CAAATGTCTTTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
43626306 CAA
1 CAA
43626309 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:43630183 original size:15 final size:15
Alignment explanation
Indices: 43630141--43630194 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
43630131 AATTTTTAAC
43630141 TTTATTTTTGTTATT
1 TTTATTTTTGTTATT
* **
43630156 TTGATTGGT-TTATT
1 TTTATTTTTGTTATT
*
43630170 TTTATTTTTGTTATC
1 TTTATTTTTGTTATT
43630185 TTTATTTTTG
1 TTTATTTTTG
43630195 GGAAAAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.13, C:0.02, G:0.11, T:0.74
Consensus pattern (15 bp):
TTTATTTTTGTTATT
Found at i:43637477 original size:39 final size:39
Alignment explanation
Indices: 43637381--43637497 Score: 171
Period size: 39 Copynumber: 2.9 Consensus size: 39
43637371 TACCAACAGT
43637381 TTCAAAGAATATATACGTACATATGAAAGTTCAAATAAATAG
1 TTCAAAGAATATATACGTACATATGAAAGTTC--A-AAATAG
* ** *
43637423 TTTAAACTATTTATACGTACATATGAAAGTTCAAAATAG
1 TTCAAAGAATATATACGTACATATGAAAGTTCAAAATAG
43637462 TTCAAAGAATATATACGTACATATGAAAGTTCAAAA
1 TTCAAAGAATATATACGTACATATGAAAGTTCAAAA
43637498 GGGATATATA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 38 0.57
40 1 0.01
42 28 0.42
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (39 bp):
TTCAAAGAATATATACGTACATATGAAAGTTCAAAATAG
Found at i:43641418 original size:33 final size:33
Alignment explanation
Indices: 43641381--43641446 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
43641371 TATACATAAC
* *
43641381 GATCAAAAGCGAATTCGTTTTACATGTAATTAA
1 GATCAAAAGCAAATTCATTTTACATGTAATTAA
* * *
43641414 GATCAAAAGTAAATTTATTTTACATGTAGTTAA
1 GATCAAAAGCAAATTCATTTTACATGTAATTAA
43641447 TACCTTAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (33 bp):
GATCAAAAGCAAATTCATTTTACATGTAATTAA
Found at i:43646232 original size:78 final size:78
Alignment explanation
Indices: 43646138--43646295 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 78
43646128 TAATTTGATC
43646138 ACTCATTTTCTCACTTAAATTTTTTTAATTTTAATTTTTCCAATTTTTAAAAAAAATTTAATTTT
1 ACTCATTTTCTCACTTAAATTTTTTTAATTTTAATTTTTCCAATTTTTAAAAAAAATTTAATTTT
43646203 TATCATCTTATAT
66 TATCATCTTATAT
*
43646216 ACTCATTTTCTCACTTAAATTTTTTTAATTTTAATTTTTCCAATTTTTTAAAAAAATTTAATTTT
1 ACTCATTTTCTCACTTAAATTTTTTTAATTTTAATTTTTCCAATTTTTAAAAAAAATTTAATTTT
43646281 TATCATCTTATAT
66 TATCATCTTATAT
43646294 AC
1 AC
43646296 ACTTAGGAGC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (78 bp):
ACTCATTTTCTCACTTAAATTTTTTTAATTTTAATTTTTCCAATTTTTAAAAAAAATTTAATTTT
TATCATCTTATAT
Found at i:43646594 original size:5 final size:5
Alignment explanation
Indices: 43646584--43646617 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
43646574 TGAACAAAAG
43646584 CAAAC CAAAC CAAAC CAAAAC CAAAAC CAAAC CA
1 CAAAC CAAAC CAAAC C-AAAC C-AAAC CAAAC CA
43646618 TGTGAGGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 17 0.61
6 11 0.39
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAC
Found at i:43646604 original size:11 final size:11
Alignment explanation
Indices: 43646585--43646617 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
43646575 GAACAAAAGC
43646585 AAACCAAACC-
1 AAACCAAACCA
43646595 AAACCAAAACCA
1 AAACC-AAACCA
43646607 AAACCAAACCA
1 AAACCAAACCA
43646618 TGTGAGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.24
11 11 0.52
12 5 0.24
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (11 bp):
AAACCAAACCA
Found at i:43646926 original size:25 final size:25
Alignment explanation
Indices: 43646898--43646948 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
43646888 ACCACTCACC
43646898 GGTACAAGACAATATTGATCGAAAT
1 GGTACAAGACAATATTGATCGAAAT
43646923 GGTACAAGACAATATTGATCGAAAT
1 GGTACAAGACAATATTGATCGAAAT
43646948 G
1 G
43646949 AAGTTTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.24
Consensus pattern (25 bp):
GGTACAAGACAATATTGATCGAAAT
Found at i:43654882 original size:13 final size:13
Alignment explanation
Indices: 43654864--43654888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43654854 TTTTAAAATT
43654864 TTTAAAAATTTAG
1 TTTAAAAATTTAG
43654877 TTTAAAAATTTA
1 TTTAAAAATTTA
43654889 TTAATATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTTAAAAATTTAG
Found at i:43659204 original size:178 final size:178
Alignment explanation
Indices: 43658905--43659261 Score: 687
Period size: 178 Copynumber: 2.0 Consensus size: 178
43658895 CAGAGATTAA
43658905 TTGCTGGATTGCCACATCTCTTGCTTGAGGATACTGCATATTTGAGCAAACCCTCTTACAAAGAC
1 TTGCTGGATTGCCACATCTCTTGCTTGAGGATACTGCATATTTGAGCAAACCCTCTTACAAAGAC
*
43658970 TCTCCTGGGAAGAAGCTTCCACCAGAGTTAATTGTAAAACCAGTGCCCCAAAATAAGCTCAAAGA
66 TCTCCTGGGAAGAAGCTTCCACCAGAGTTAATTGTAAAACCAGTGCCCCAAAATAAGCGCAAAGA
* *
43659035 TGAAGCTGAGAAGCTAAGTCATAAGATGGAATGTTCAGCAGAAAATGC
131 TGAAGCTGAAAAGCTAAGTCATAAGAGGGAATGTTCAGCAGAAAATGC
43659083 TTGCTGGATTGCCACATCTCTTGCTTGAGGATACTGCATATTTGAGCAAACCCTCTTACAAAGAC
1 TTGCTGGATTGCCACATCTCTTGCTTGAGGATACTGCATATTTGAGCAAACCCTCTTACAAAGAC
43659148 TCTCCTGGGAAGAAGCTTCCACCAGAGTTAATTGTAAAACCAGTGCCCCAAAATAAGCGCAAAGA
66 TCTCCTGGGAAGAAGCTTCCACCAGAGTTAATTGTAAAACCAGTGCCCCAAAATAAGCGCAAAGA
43659213 TGAAGCTGAAAAGCTAAGTCATAAGAGGGAATGTTCAGCAGAAAATGC
131 TGAAGCTGAAAAGCTAAGTCATAAGAGGGAATGTTCAGCAGAAAATGC
43659261 T
1 T
43659262 GTTGGTAGGA
Statistics
Matches: 176, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 176 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (178 bp):
TTGCTGGATTGCCACATCTCTTGCTTGAGGATACTGCATATTTGAGCAAACCCTCTTACAAAGAC
TCTCCTGGGAAGAAGCTTCCACCAGAGTTAATTGTAAAACCAGTGCCCCAAAATAAGCGCAAAGA
TGAAGCTGAAAAGCTAAGTCATAAGAGGGAATGTTCAGCAGAAAATGC
Found at i:43661156 original size:889 final size:889
Alignment explanation
Indices: 43659438--43661216 Score: 3558
Period size: 889 Copynumber: 2.0 Consensus size: 889
43659428 CCTCTGAAGG
43659438 ACTGATATACAAGCCCTATCCAGGACCTGGATTCATGGGATCTGCTTGTGGAGGCTGTGGACCTT
1 ACTGATATACAAGCCCTATCCAGGACCTGGATTCATGGGATCTGCTTGTGGAGGCTGTGGACCTT
43659503 TTGGACAAAACCCAATGACTGGAAACTTCATGACATCAGCTTACGGAGCTCAAGCTCCTCCTCAT
66 TTGGACAAAACCCAATGACTGGAAACTTCATGACATCAGCTTACGGAGCTCAAGCTCCTCCTCAT
43659568 CAAGGACTTGGGGTTCTACCTGGCACTCCTTTAGTCGGTCACTCTTACTTTCCTCATCATGGTAT
131 CAAGGACTTGGGGTTCTACCTGGCACTCCTTTAGTCGGTCACTCTTACTTTCCTCATCATGGTAT
43659633 GCCAGTCATGAACCCAGCATTCTCAGGTTCTTCCATGGAACAGATGAACCAATTTGCTGGAGCAG
196 GCCAGTCATGAACCCAGCATTCTCAGGTTCTTCCATGGAACAGATGAACCAATTTGCTGGAGCAG
43659698 GGTCCCATGCCCAAAGTGGCCAGTTATCTGGAAATGGAGCTAACTTTAACATGCAGCAACAAAGT
261 GGTCCCATGCCCAAAGTGGCCAGTTATCTGGAAATGGAGCTAACTTTAACATGCAGCAACAAAGT
43659763 TCATCTAATCTGCCGAGTAAGAAGAATGTTGCTATTCCTCCTGTTGTGAAGTTTCAGGCATCTAA
326 TCATCTAATCTGCCGAGTAAGAAGAATGTTGCTATTCCTCCTGTTGTGAAGTTTCAGGCATCTAA
43659828 AGACACCGAGCAACAAAGATGTACAGCAAGCAGTCCAGGTGAGAGAGCAGAGAAAAACAGGACCT
391 AGACACCGAGCAACAAAGATGTACAGCAAGCAGTCCAGGTGAGAGAGCAGAGAAAAACAGGACCT
43659893 GTAATACTGCTGAAGGAAAAAATACACCTCTTATCCTTACAGCTCCGGCCAATCCACAGGGAGCC
456 GTAATACTGCTGAAGGAAAAAATACACCTCTTATCCTTACAGCTCCGGCCAATCCACAGGGAGCC
43659958 TCGAAGCCTAATGAAACTGACCAGAGGACAAGGGTGATACGGGTTGTGCCTCATAATCCAAGATC
521 TCGAAGCCTAATGAAACTGACCAGAGGACAAGGGTGATACGGGTTGTGCCTCATAATCCAAGATC
43660023 AGCCACCGAATCAGCAGCACGTATTTTCCAATCTATACAAAAAGAGAGAAAGCGACGGGACTAAG
586 AGCCACCGAATCAGCAGCACGTATTTTCCAATCTATACAAAAAGAGAGAAAGCGACGGGACTAAG
43660088 ATGAGCTTGTTTTACATATCAAACAAACCATTACCGGTAAATCATCTTGGACTCCATCTACCTAT
651 ATGAGCTTGTTTTACATATCAAACAAACCATTACCGGTAAATCATCTTGGACTCCATCTACCTAT
43660153 GTGTGCTGCTTGAACAGTATTATCTCTTACTTTTTGGTGTAACATGTTCTTGCATATTTTCTGGT
716 GTGTGCTGCTTGAACAGTATTATCTCTTACTTTTTGGTGTAACATGTTCTTGCATATTTTCTGGT
43660218 TATAGTCTATTCATATGTAAATATATGTTGAGAGATTACAAGTCAATGTAATATAAATTTTGTTT
781 TATAGTCTATTCATATGTAAATATATGTTGAGAGATTACAAGTCAATGTAATATAAATTTTGTTT
43660283 CAACTTTGCATTTTAGGCTGATTCAAGAACCTTCTATGACAAAC
846 CAACTTTGCATTTTAGGCTGATTCAAGAACCTTCTATGACAAAC
43660327 ACTGATATACAAGCCCTATCCAGGACCTGGATTCATGGGATCTGCTTGTGGAGGCTGTGGACCTT
1 ACTGATATACAAGCCCTATCCAGGACCTGGATTCATGGGATCTGCTTGTGGAGGCTGTGGACCTT
43660392 TTGGACAAAACCCAATGACTGGAAACTTCATGACATCAGCTTACGGAGCTCAAGCTCCTCCTCAT
66 TTGGACAAAACCCAATGACTGGAAACTTCATGACATCAGCTTACGGAGCTCAAGCTCCTCCTCAT
43660457 CAAGGACTTGGGGTTCTACCTGGCACTCCTTTAGTCGGTCACTCTTACTTTCCTCATCATGGTAT
131 CAAGGACTTGGGGTTCTACCTGGCACTCCTTTAGTCGGTCACTCTTACTTTCCTCATCATGGTAT
43660522 GCCAGTCATGAACCCAGCATTCTCAGGTTCTTCCATGGAACAGATGAACCAATTTGCTGGAGCAG
196 GCCAGTCATGAACCCAGCATTCTCAGGTTCTTCCATGGAACAGATGAACCAATTTGCTGGAGCAG
43660587 GGTCCCATGCCCAAAGTGGCCAGTTATCTGGAAATGGAGCTAACTTTAACATGCAGCAACAAAGT
261 GGTCCCATGCCCAAAGTGGCCAGTTATCTGGAAATGGAGCTAACTTTAACATGCAGCAACAAAGT
43660652 TCATCTAATCTGCCGAGTAAGAAGAATGTTGCTATTCCTCCTGTTGTGAAGTTTCAGGCATCTAA
326 TCATCTAATCTGCCGAGTAAGAAGAATGTTGCTATTCCTCCTGTTGTGAAGTTTCAGGCATCTAA
43660717 AGACACCGAGCAACAAAGATGTACAGCAAGCAGTCCAGGTGAGAGAGCAGAGAAAAACAGGACCT
391 AGACACCGAGCAACAAAGATGTACAGCAAGCAGTCCAGGTGAGAGAGCAGAGAAAAACAGGACCT
43660782 GTAATACTGCTGAAGGAAAAAATACACCTCTTATCCTTACAGCTCCGGCCAATCCACAGGGAGCC
456 GTAATACTGCTGAAGGAAAAAATACACCTCTTATCCTTACAGCTCCGGCCAATCCACAGGGAGCC
43660847 TCGAAGCCTAATGAAACTGACCAGAGGACAAGGGTGATACGGGTTGTGCCTCATAATCCAAGATC
521 TCGAAGCCTAATGAAACTGACCAGAGGACAAGGGTGATACGGGTTGTGCCTCATAATCCAAGATC
43660912 AGCCACCGAATCAGCAGCACGTATTTTCCAATCTATACAAAAAGAGAGAAAGCGACGGGACTAAG
586 AGCCACCGAATCAGCAGCACGTATTTTCCAATCTATACAAAAAGAGAGAAAGCGACGGGACTAAG
43660977 ATGAGCTTGTTTTACATATCAAACAAACCATTACCGGTAAATCATCTTGGACTCCATCTACCTAT
651 ATGAGCTTGTTTTACATATCAAACAAACCATTACCGGTAAATCATCTTGGACTCCATCTACCTAT
43661042 GTGTGCTGCTTGAACAGTATTATCTCTTACTTTTTGGTGTAACATGTTCTTGCATATTTTCTGGT
716 GTGTGCTGCTTGAACAGTATTATCTCTTACTTTTTGGTGTAACATGTTCTTGCATATTTTCTGGT
43661107 TATAGTCTATTCATATGTAAATATATGTTGAGAGATTACAAGTCAATGTAATATAAATTTTGTTT
781 TATAGTCTATTCATATGTAAATATATGTTGAGAGATTACAAGTCAATGTAATATAAATTTTGTTT
43661172 CAACTTTGCATTTTAGGCTGATTCAAGAACCTTCTATGACAAAC
846 CAACTTTGCATTTTAGGCTGATTCAAGAACCTTCTATGACAAAC
43661216 A
1 A
43661217 TAAGCTCCTT
Statistics
Matches: 890, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
889 890 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (889 bp):
ACTGATATACAAGCCCTATCCAGGACCTGGATTCATGGGATCTGCTTGTGGAGGCTGTGGACCTT
TTGGACAAAACCCAATGACTGGAAACTTCATGACATCAGCTTACGGAGCTCAAGCTCCTCCTCAT
CAAGGACTTGGGGTTCTACCTGGCACTCCTTTAGTCGGTCACTCTTACTTTCCTCATCATGGTAT
GCCAGTCATGAACCCAGCATTCTCAGGTTCTTCCATGGAACAGATGAACCAATTTGCTGGAGCAG
GGTCCCATGCCCAAAGTGGCCAGTTATCTGGAAATGGAGCTAACTTTAACATGCAGCAACAAAGT
TCATCTAATCTGCCGAGTAAGAAGAATGTTGCTATTCCTCCTGTTGTGAAGTTTCAGGCATCTAA
AGACACCGAGCAACAAAGATGTACAGCAAGCAGTCCAGGTGAGAGAGCAGAGAAAAACAGGACCT
GTAATACTGCTGAAGGAAAAAATACACCTCTTATCCTTACAGCTCCGGCCAATCCACAGGGAGCC
TCGAAGCCTAATGAAACTGACCAGAGGACAAGGGTGATACGGGTTGTGCCTCATAATCCAAGATC
AGCCACCGAATCAGCAGCACGTATTTTCCAATCTATACAAAAAGAGAGAAAGCGACGGGACTAAG
ATGAGCTTGTTTTACATATCAAACAAACCATTACCGGTAAATCATCTTGGACTCCATCTACCTAT
GTGTGCTGCTTGAACAGTATTATCTCTTACTTTTTGGTGTAACATGTTCTTGCATATTTTCTGGT
TATAGTCTATTCATATGTAAATATATGTTGAGAGATTACAAGTCAATGTAATATAAATTTTGTTT
CAACTTTGCATTTTAGGCTGATTCAAGAACCTTCTATGACAAAC
Found at i:43666978 original size:9 final size:9
Alignment explanation
Indices: 43666964--43666995 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
43666954 ATTTGTTGTT
43666964 GTGGTGATG
1 GTGGTGATG
43666973 GTGGTGATG
1 GTGGTGATG
*
43666982 GTGGTGGTG
1 GTGGTGATG
43666991 GTGGT
1 GTGGT
43666996 TGTTATTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.06, C:0.00, G:0.59, T:0.34
Consensus pattern (9 bp):
GTGGTGATG
Found at i:43669760 original size:18 final size:18
Alignment explanation
Indices: 43669739--43669773 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43669729 ATTTAGATTA
43669739 AAATCTCGATTTAAAAAT
1 AAATCTCGATTTAAAAAT
* *
43669757 AAATTTTGATTTAAAAA
1 AAATCTCGATTTAAAAA
43669774 GAGGCATGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATCTCGATTTAAAAAT
Found at i:43672563 original size:18 final size:20
Alignment explanation
Indices: 43672524--43672563 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
43672514 GCTGGAATAA
*
43672524 TAATATTTTTATTTTTTCTT
1 TAATATTTTTATTTTGTCTT
43672544 TAATATTTTT-TTTTGT-TT
1 TAATATTTTTATTTTGTCTT
43672562 TA
1 TA
43672564 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 10 0.53
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (20 bp):
TAATATTTTTATTTTGTCTT
Found at i:43673138 original size:23 final size:22
Alignment explanation
Indices: 43673112--43673166 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
43673102 TAATAATAAA
43673112 TTTAGTTTTTAATGTTTATATTT
1 TTTAGTTTTTAATGTTTAT-TTT
* *
43673135 TTTAGTAATTTTTATTTTTATTTT
1 TTTAGT--TTTTAATGTTTATTTT
43673159 TATTAGTT
1 T-TTAGTT
43673167 AAATTTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 7 0.26
24 4 0.15
25 16 0.59
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (22 bp):
TTTAGTTTTTAATGTTTATTTT
Found at i:43673154 original size:25 final size:26
Alignment explanation
Indices: 43673117--43673188 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
43673107 ATAAATTTAG
*
43673117 TTTTTAATGTTTATATTTTTTAG-TAA
1 TTTTT-ATTTTTATATTTTTTAGTTAA
43673143 TTTTTATTTTTAT-TTTTATTAGTTAA
1 TTTTTATTTTTATATTTT-TTAGTTAA
* * *
43673169 ATTTGATTATTA-ATTTTTTA
1 TTTTTATTTTTATATTTTTTA
43673189 AAAAAGAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 4 0.10
25 14 0.36
26 21 0.54
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (26 bp):
TTTTTATTTTTATATTTTTTAGTTAA
Done.