Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 8 of 206
Found at i:2517940 original size:9 final size:9
Alignment explanation
Indices: 2517926--2517960 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
2517916 GGGATTTAAT
2517926 TGAAAATAA
1 TGAAAATAA
2517935 TGAAAATAA
1 TGAAAATAA
2517944 TGAAAATAA
1 TGAAAATAA
2517953 TGAAAATA
1 TGAAAATA
2517961 TGACTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (9 bp):
TGAAAATAA
Found at i:2526471 original size:13 final size:13
Alignment explanation
Indices: 2526453--2526481 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2526443 ATTTGTTAGG
2526453 TTAAATTCTATTA
1 TTAAATTCTATTA
2526466 TTAAATTCTATTA
1 TTAAATTCTATTA
2526479 TTA
1 TTA
2526482 GGTTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAAATTCTATTA
Found at i:2531869 original size:49 final size:49
Alignment explanation
Indices: 2531814--2532008 Score: 300
Period size: 49 Copynumber: 4.0 Consensus size: 49
2531804 TTCGTTTTCT
* * *
2531814 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* * *
2531863 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
** *
2531912 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGTCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
2531961 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACA-AATCACAT
2532009 GTTCACATGT
Statistics
Matches: 135, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 130 0.96
50 5 0.04
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:2533810 original size:15 final size:12
Alignment explanation
Indices: 2533782--2533824 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
2533772 ATTAATATAG
*
2533782 TATTATTATTAT
1 TATTGTTATTAT
2533794 TATTGCTTACCTTAT
1 TATTG-TTA--TTAT
2533809 TATTGTTATTAT
1 TATTGTTATTAT
2533821 TATT
1 TATT
2533825 TACCTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 12 0.44
13 3 0.11
14 3 0.11
15 9 0.33
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.63
Consensus pattern (12 bp):
TATTGTTATTAT
Found at i:2533835 original size:24 final size:24
Alignment explanation
Indices: 2533782--2533829 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2533772 ATTAATATAG
*
2533782 TATTATTATTATTATTGCTTACCT
1 TATTATTATTATTATTACTTACCT
* *
2533806 TATTATTGTTATTATTATTTACCT
1 TATTATTATTATTATTACTTACCT
2533830 ATTTATACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.25, C:0.10, G:0.04, T:0.60
Consensus pattern (24 bp):
TATTATTATTATTATTACTTACCT
Found at i:2533916 original size:23 final size:24
Alignment explanation
Indices: 2533881--2533938 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 24
2533871 TATTTTATAC
2533881 TTTATAACTTATATATA-TACATATT
1 TTTATAA--TATATATACTACATATT
2533906 TTTATAATATATATACGTACATATT
1 TTTATAATATATATAC-TACATATT
*
2533931 TTCATAAT
1 TTTATAAT
2533939 TTACTTGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 8 0.27
25 22 0.73
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTATAATATATATACTACATATT
Found at i:2535177 original size:29 final size:29
Alignment explanation
Indices: 2535115--2535254 Score: 113
Period size: 30 Copynumber: 4.7 Consensus size: 29
2535105 GAATTTACGT
* * *
2535115 TTTTTTAAAAATTGCGTTTT-AGCCCCTGAA
1 TTTTTCAAAAATTACATTTTGA-CCCCT-AA
*
2535145 TTTTTCAAAAATTACATTTTGACCCCTAGT
1 TTTTTCAAAAATTACATTTTGACCCCTA-A
* *
2535175 TTTTTCTAAATTTACATTTTGACCCCTAA
1 TTTTTCAAAAATTACATTTTGACCCCTAA
* ** **
2535204 TATTTT-ATAAATTACATTCAGGGCCCTAA
1 T-TTTTCAAAAATTACATTTTGACCCCTAA
*
2535233 ATTTTCAAGAAATTACATTTTG
1 TTTTTCAA-AAATTACATTTTG
2535255 GCCCAATTTT
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
28 4 0.05
29 19 0.22
30 63 0.72
31 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.44
Consensus pattern (29 bp):
TTTTTCAAAAATTACATTTTGACCCCTAA
Found at i:2535595 original size:23 final size:23
Alignment explanation
Indices: 2535568--2535626 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
2535558 CACCGCGCGC
*
2535568 CACCGTCCCCACCACCACGACAG
1 CACCGTCACCACCACCACGACAG
*
2535591 CACCGTCACCACCACCACTACAG
1 CACCGTCACCACCACCACGACAG
*
2535614 CACTGTCACCACC
1 CACCGTCACCACC
2535627 GTCCCCGCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.54, G:0.10, T:0.08
Consensus pattern (23 bp):
CACCGTCACCACCACCACGACAG
Found at i:2535899 original size:17 final size:17
Alignment explanation
Indices: 2535865--2535917 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
2535855 AAGTTAAGAG
* *
2535865 AAGAAGAAGAAAGGAAA
1 AAGAAAAAGAAAGAAAA
*
2535882 AAGAAAAAGAGAGAAAA
1 AAGAAAAAGAAAGAAAA
*
2535899 AA-AAAAAGGAAATAAAA
1 AAGAAAAA-GAAAGAAAA
2535916 AA
1 AA
2535918 AGGTAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (17 bp):
AAGAAAAAGAAAGAAAA
Found at i:2535910 original size:13 final size:13
Alignment explanation
Indices: 2535874--2535929 Score: 67
Period size: 13 Copynumber: 4.0 Consensus size: 13
2535864 GAAGAAGAAG
2535874 AAAGGAAAAAGAAA
1 AAAGGAAAAA-AAA
2535888 AAGAGAGAAAAAAAA
1 AA-AG-GAAAAAAAA
*
2535903 AAAGGAAATAAAA
1 AAAGGAAAAAAAA
2535916 AAAGGTAAAAAAAA
1 AAAGG-AAAAAAAA
2535930 TAAAAACAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
13 13 0.35
14 11 0.30
15 7 0.19
16 6 0.16
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (13 bp):
AAAGGAAAAAAAA
Found at i:2535927 original size:29 final size:30
Alignment explanation
Indices: 2535874--2535935 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
2535864 GAAGAAGAAG
*
2535874 AAAGGAAAAAGAAAAAGAGAGAAAAAA-AA
1 AAAGGAAAAAGAAAAAGAGAAAAAAAATAA
2535903 AAAGGAAATAA-AAAAAG-GTAAAAAAAATAA
1 AAAGGAAA-AAGAAAAAGAG-AAAAAAAATAA
2535933 AAA
1 AAA
2535936 CAGCAGGCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 1 0.03
29 21 0.72
30 7 0.24
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (30 bp):
AAAGGAAAAAGAAAAAGAGAAAAAAAATAA
Found at i:2536565 original size:17 final size:16
Alignment explanation
Indices: 2536517--2536565 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
2536507 TTAAAAAAAA
2536517 TCGTGTTTCAAAAATTT
1 TCGTGTTTC-AAAATTT
*
2536534 TCATGTCTTCAAAATTT
1 TCGTGT-TTCAAAATTT
*
2536551 CTCGTGTTTCCAAAT
1 -TCGTGTTTCAAAAT
2536566 AATAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (16 bp):
TCGTGTTTCAAAATTT
Found at i:2536680 original size:17 final size:17
Alignment explanation
Indices: 2536624--2536710 Score: 52
Period size: 17 Copynumber: 5.0 Consensus size: 17
2536614 TTTTGAAAAA
2536624 AAAAATTTCCGTG-TTTC
1 AAAAATTT-CGTGTTTTC
* ***
2536641 AAAAATTCTCGTGAATAAA
1 AAAAATT-TCGTG-TTTTC
2536660 AAAAATTTCGTGTTTTC
1 AAAAATTTCGTGTTTTC
* * **
2536677 -AAAATTCCCATGTTTGA
1 AAAAATT-TCGTGTTTTC
2536694 AAAAATTTCGTGTTTTC
1 AAAAATTTCGTGTTTTC
2536711 GTGTTTTCAA
Statistics
Matches: 50, Mismatches: 15, Indels: 10
0.67 0.20 0.13
Matches are distributed among these distances:
16 6 0.12
17 24 0.48
18 12 0.24
19 8 0.16
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:2536697 original size:36 final size:36
Alignment explanation
Indices: 2536617--2536710 Score: 106
Period size: 34 Copynumber: 2.7 Consensus size: 36
2536607 TGTTTCTTTT
* *
2536617 TGAA-AAAAAAAATTTCCGTG-TTTCAAAAATTCTCG
1 TGAATAAAAAAAATTT-CGTGTTTTCAAAAATTCCCA
2536652 TGAATAAAAAAAATTTCGTGTTTTC-AAAATTCCCA
1 TGAATAAAAAAAATTTCGTGTTTTCAAAAATTCCCA
* **
2536687 TG-TTTGAAAAAATTTCGTGTTTTC
1 TGAATAAAAAAAATTTCGTGTTTTC
2536711 GTGTTTTCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
34 19 0.37
35 18 0.35
36 15 0.29
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (36 bp):
TGAATAAAAAAAATTTCGTGTTTTCAAAAATTCCCA
Found at i:2536741 original size:21 final size:22
Alignment explanation
Indices: 2536709--2536756 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
2536699 TTTCGTGTTT
*
2536709 TCGTGTTTTCAAAAAAAAATTC
1 TCGTGTTTTCAAAAAAAAACTC
2536731 TCGTG-TTTCAAAAAAAAACTC
1 TCGTGTTTTCAAAAAAAAACTC
2536752 TCGTG
1 TCGTG
2536757 AATATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (22 bp):
TCGTGTTTTCAAAAAAAAACTC
Found at i:2536815 original size:36 final size:36
Alignment explanation
Indices: 2536775--2536856 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 36
2536765 TTTGATGTTA
* * *
2536775 TCGTGTTTTCAAAAGATTCCCGTGTTTGACAAATTT
1 TCGTGTTTTCAAAAAATTCCCGTGTTTCAAAAATTT
* *
2536811 TCGTGTTTTTAAAAAATTCTCGTGTTTCAAAAATTT
1 TCGTGTTTTCAAAAAATTCCCGTGTTTCAAAAATTT
*
2536847 TCATGTTTTC
1 TCGTGTTTTC
2536857 GTGTCTTCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (36 bp):
TCGTGTTTTCAAAAAATTCCCGTGTTTCAAAAATTT
Found at i:2536833 original size:19 final size:19
Alignment explanation
Indices: 2536775--2536837 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
2536765 TTTGATGTTA
* *
2536775 TCGTGTTTTCAAAAGATTC
1 TCGTGTTTTTAAAAAATTC
* * * *
2536794 CCGTG--TTTGACAAATTT
1 TCGTGTTTTTAAAAAATTC
2536811 TCGTGTTTTTAAAAAATTC
1 TCGTGTTTTTAAAAAATTC
2536830 TCGTGTTT
1 TCGTGTTT
2536838 CAAAAATTTT
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
17 11 0.34
19 21 0.66
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (19 bp):
TCGTGTTTTTAAAAAATTC
Found at i:2536844 original size:17 final size:18
Alignment explanation
Indices: 2536775--2536856 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 18
2536765 TTTGATGTTA
2536775 TCGTGTTTTCAAAAGATTC
1 TCGTGTTTTCAAAA-ATTC
* * * *
2536794 CCGTG-TTTGACAAATTT
1 TCGTGTTTTCAAAAATTC
*
2536811 TCGTGTTTTTAAAAAATTC
1 TCGTG-TTTTCAAAAATTC
*
2536830 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
*
2536847 TCATGTTTTC
1 TCGTGTTTTC
2536857 GTGTCTTCAA
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
17 21 0.43
18 10 0.20
19 18 0.37
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTC
Found at i:2536888 original size:18 final size:18
Alignment explanation
Indices: 2536854--2536918 Score: 85
Period size: 18 Copynumber: 3.5 Consensus size: 18
2536844 TTTTCATGTT
* *
2536854 TTCGTGTCTTCAAAAAAAT
1 TTCGTGT-TTAAAAAAAAA
2536873 TCTCGTGTTTAAAAAAAAA
1 T-TCGTGTTTAAAAAAAAA
2536892 TTCGTGTTTAAAAAAAAA
1 TTCGTGTTTAAAAAAAAA
*
2536910 TTCATGTTT
1 TTCGTGTTT
2536919 TCAAAATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
18 25 0.60
19 11 0.26
20 6 0.14
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
TTCGTGTTTAAAAAAAAA
Found at i:2536937 original size:17 final size:18
Alignment explanation
Indices: 2536917--2536950 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2536907 AAATTCATGT
2536917 TTTCAAAA-TTTTCGTGA
1 TTTCAAAATTTTTCGTGA
2536934 TTTCAAAATTTTTCGTG
1 TTTCAAAATTTTTCGTG
2536951 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (18 bp):
TTTCAAAATTTTTCGTGA
Found at i:2536997 original size:18 final size:17
Alignment explanation
Indices: 2536976--2537033 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 17
2536966 TCATGTATCG
2536976 AAAATTTCCGTGTTTTCAA
1 AAAATTT-CGTGTTTTC-A
2536995 AAAATTTTCGTG-TTTCA
1 AAAA-TTTCGTGTTTTCA
2537012 AAAATCTTCGTGTTTTCA
1 AAAAT-TTCGTGTTTTCA
2537030 AAAA
1 AAAA
2537034 GTATTATTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.03
17 11 0.31
18 13 0.36
19 8 0.22
20 3 0.08
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (17 bp):
AAAATTTCGTGTTTTCA
Found at i:2537016 original size:36 final size:35
Alignment explanation
Indices: 2536852--2537063 Score: 128
Period size: 37 Copynumber: 5.8 Consensus size: 35
2536842 AATTTTCATG
*
2536852 TTTTCGTGTCTTCAAAAAAATTCTCGTG-TTTAAAAAAA
1 TTTTCGTGT-TTC--AAAAATT-TCGTGTTTTCAAAAAA
** * * *
2536890 AATTCGTGTTTAAAAAAAAATTCATGTTTTC--AAAA
1 TTTTCGTGTTT--CAAAAATTTCGTGTTTTCAAAAAA
* ****
2536925 TTTTCGTGATTTCAAAATTTTTCGTGTAAAAAAAAAA
1 TTTTCGTG-TTTCAAAA-ATTTCGTGTTTTCAAAAAA
* * *
2536962 TTTCTCATGTATCGAAAATTTCCGTGTTTTCAAAAAA
1 TTT-TCGTGTTTCAAAAATTT-CGTGTTTTCAAAAAA
2536999 TTTTCGTGTTTCAAAAATCTTCGTGTTTTCAAAAAGTA
1 TTTTCGTGTTTCAAAAAT-TTCGTGTTTTCAAAAA--A
2537037 TTATT-GTGTTTC-AAAATTCTCGTGTTT
1 TT-TTCGTGTTTCAAAAATT-TCGTGTTT
2537064 AAAAACAAAA
Statistics
Matches: 133, Mismatches: 27, Indels: 29
0.70 0.14 0.15
Matches are distributed among these distances:
34 4 0.03
35 16 0.12
36 37 0.28
37 53 0.40
38 21 0.16
39 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (35 bp):
TTTTCGTGTTTCAAAAATTTCGTGTTTTCAAAAAA
Found at i:2538791 original size:19 final size:19
Alignment explanation
Indices: 2538767--2538803 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2538757 CATGTTTTAG
*
2538767 TTTTAATCAATCTTAATTT
1 TTTTAATCAAGCTTAATTT
*
2538786 TTTTAATTAAGCTTAATT
1 TTTTAATCAAGCTTAATT
2538804 ATTAATTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTAATCAAGCTTAATTT
Found at i:2571590 original size:22 final size:22
Alignment explanation
Indices: 2571548--2571614 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
2571538 GGCCCAGCCC
**
2571548 ATTT-TTTAAATAAATACTAAAA
1 ATTTATTTAAA-AAATTTTAAAA
2571570 ATTTATTTAAAAAATTTTAAAA
1 ATTTATTTAAAAAATTTTAAAA
*
2571592 A-GTATTTTAAAAACATTTTAAAA
1 ATTTA-TTTAAAAA-ATTTTAAAA
2571615 TTAAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 2 0.05
22 22 0.56
23 15 0.38
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (22 bp):
ATTTATTTAAAAAATTTTAAAA
Found at i:2571598 original size:12 final size:10
Alignment explanation
Indices: 2571575--2571614 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 10
2571565 TAAAAATTTA
2571575 TTTAAAAAAT
1 TTTAAAAAAT
2571585 TTTAAAAAGTAT
1 TTTAAAAA--AT
2571597 TTTAAAAACAT
1 TTTAAAAA-AT
2571608 TTTAAAA
1 TTTAAAA
2571615 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 8 0.30
11 9 0.33
12 10 0.37
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (10 bp):
TTTAAAAAAT
Found at i:2575352 original size:11 final size:11
Alignment explanation
Indices: 2575336--2575366 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2575326 ATTATATATT
2575336 TAAAAATTATA
1 TAAAAATTATA
*
2575347 TAAAAATAATA
1 TAAAAATTATA
2575358 TAAAAATTA
1 TAAAAATTA
2575367 ATATGGGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:2575363 original size:12 final size:11
Alignment explanation
Indices: 2575336--2575370 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2575326 ATTATATATT
*
2575336 TAAAAATTATA
1 TAAAAATAATA
2575347 TAAAAATAATA
1 TAAAAATAATA
2575358 TAAAAATTAATA
1 TAAAAA-TAATA
2575370 T
1 T
2575371 GGGTGGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:2575819 original size:6 final size:6
Alignment explanation
Indices: 2575808--2575832 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2575798 AGTTAAATTA
2575808 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
2575833 TTATTACAGT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:2582027 original size:27 final size:27
Alignment explanation
Indices: 2581963--2582043 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
2581953 TTGCGGCATC
* *
2581963 GATGGTGCCAATA-AGGTTGGAAGCACC
1 GATGGTGCC-ATACAGGTTGGCAGCACT
2581990 GATGGTGCCATACAGGTTGGCAGCACT
1 GATGGTGCCATACAGGTTGGCAGCACT
* * *
2582017 GATGGTGCCATACTGATTGGCGGCACT
1 GATGGTGCCATACAGGTTGGCAGCACT
2582044 ACTCGTCTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.06
27 45 0.94
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.22
Consensus pattern (27 bp):
GATGGTGCCATACAGGTTGGCAGCACT
Found at i:2585802 original size:162 final size:162
Alignment explanation
Indices: 2585582--2586288 Score: 582
Period size: 162 Copynumber: 4.4 Consensus size: 162
2585572 TTTATTACTT
*
2585582 TAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTA
1 TAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTCCAGTGCATAATGTTTGAAATTTA
2585647 TTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTGCT
66 TTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTGCT
2585712 CGTATTATTTTCCCGATTTTTATTACTTTTAA
131 CGTATTATTTTCCCGATTTTTATTACTTTTAA
* * * * **
2585744 TAAAAATATTTTATTTTCGT-ATTTTATTATTTTATATTATTCCAGTGCATTTTGTTTGAAATAT
1 TAAAAATATCTTAATTTC-TAATTTTATAATTTTACATTATTCCAGTGCATAATGTTTG-AA-A-
* * * * * *
2585808 TTGTATTAA-TTATTCCT-TAATTTTTAAA--AA---AGT-T-AGTAAAAAAACTCTTA-CTTCA
62 TT-TATTAATTTAGT-GTGT--TTTTTAAATTAATTTGGTGTAAG-AAAAAAACCCTTATC-CCT
* * *
2585863 GCCATTTGTTCATA-T-TTTTCTCCGCA-TTTTATTAC--TT--
121 GCCCTTTGCTCGTATTATTTTC-CCG-ATTTTTATTACTTTTAA
* *
2585900 TAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTTCAGTACATAATGTTTGAAATTTA
1 TAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTCCAGTGCATAATGTTTGAAATTTA
2585965 TTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTGCT
66 TTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTGCT
* * *
2586030 CGTATTATTTTCTCGATTTTTATTTCTTTCAA
131 CGTATTATTTTCCCGATTTTTATTACTTTTAA
* * * * * **
2586062 TAAAAGTATTTTATTTTCGT-ATTTTATTATTTTATATTATTCCAGTGCATTTTGTTTGAAATGT
1 TAAAAATATCTTAATTTC-TAATTTTATAATTTTACATTATTCCAGTGCATAATGTTTGAAA---
* * * * **
2586126 TTGTATTAA-TTATCTCTGAATTTTTTAAA--AA----GT-T-AGTAAAAAACTCTTA-CTTTGG
62 TT-TATTAATTTA-GTGTG--TTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCT-G
* * * *
2586181 CCATTTGTTCGTATTTTTTTATCCGCA-TTTTATTA-TTTT-A
122 CCCTTTGCTCGTATTATTTT-CCCG-ATTTTTATTACTTTTAA
* * * *
2586221 -AAAAATATCGTAATTTTTAATTTTATCAA-TTTACATTATTTCAGTGCATTATGTTTGAAATTT
1 TAAAAATATCTTAATTTCTAATTTTAT-AATTTTACATTATTCCAGTGCATAATGTTTGAAATTT
2586284 ATTAA
65 ATTAA
2586289 ATATACAATT
Statistics
Matches: 435, Mismatches: 67, Indels: 94
0.73 0.11 0.16
Matches are distributed among these distances:
151 8 0.02
152 7 0.02
153 9 0.02
154 7 0.02
155 5 0.01
156 50 0.11
157 27 0.06
158 63 0.14
159 14 0.03
160 51 0.12
161 36 0.08
162 104 0.24
163 4 0.01
164 1 0.00
165 14 0.03
166 18 0.04
167 8 0.02
168 9 0.02
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (162 bp):
TAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTCCAGTGCATAATGTTTGAAATTTA
TTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTGCT
CGTATTATTTTCCCGATTTTTATTACTTTTAA
Found at i:2586092 original size:318 final size:317
Alignment explanation
Indices: 2585515--2586288 Score: 1318
Period size: 318 Copynumber: 2.4 Consensus size: 317
2585505 GCAAGTTGAA
*
2585515 AAAAAAGTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTCTCCGCATTTTATTAC
1 AAAAAAGTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCATA-TTTTTCTCCGCATTTTATTAC
2585580 TTTAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
65 TTTAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
2585645 TATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTG
130 TATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTG
*
2585710 CTCGTATTATTTTCCCGATTTTTATTACTTTTAATAAAAATATTTTATTTTCGTATTTTATTATT
195 CTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATTATT
*
2585775 TTATATTATTCCAGTGCATTTTGTTTGAAATATTTGTATTAATTAT-TCCTTAATTTTT
260 TTATATTATTCCAGTGCATTTTGTTTGAAATATTTGTATTAATTATCT-CTGAATTTTT
*
2585833 AAAAAAGTTAGTAAAAAAACTCTTACTTCAGCCATTTGTTCATATTTTTCTCCGCATTTTATTAC
1 AAAAAAGTTAGT-AAAAAACTCTTACTTCGGCCATTTGTTCATATTTTTCTCCGCATTTTATTAC
*
2585898 TTTAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTTCAGTACATAATGTTTGAAATT
65 TTTAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
2585963 TATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTG
130 TATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTG
* * *
2586028 CTCGTATTATTTTCTCGATTTTTATTTCTTTCAATAAAAGTATTTTATTTTCGTATTTTATTATT
195 CTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATTATT
*
2586093 TTATATTATTCCAGTGCATTTTGTTTGAAATGTTTGTATTAATTATCTCTGAATTTTT
260 TTATATTATTCCAGTGCATTTTGTTTGAAATATTTGTATTAATTATCTCTGAATTTTT
* * * *
2586151 TAAAAAGTTAGTAAAAAACTCTTACTTTGGCCATTTGTTCGTATTTTTTTATCCGCATTTTATTA
1 AAAAAAGTTAGTAAAAAACTCTTACTTCGGCCATTTGTTC--ATATTTTTCTCCGCATTTTATTA
* * * *
2586216 TTTTAAAAAATATCGTAATTTTTAATTTTATCAA-TTTACATTATTTCAGTGCATTATGTTTGAA
64 CTTT-AAAAATATCTTAATTTCTAATTTTAT-AATTTTACATTATTTCAGTGCATAATGTTTGAA
2586280 ATTTATTAA
127 ATTTATTAA
2586289 ATATACAATT
Statistics
Matches: 431, Mismatches: 19, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
317 26 0.06
318 288 0.67
319 54 0.13
320 61 0.14
321 2 0.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.50
Consensus pattern (317 bp):
AAAAAAGTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCATATTTTTCTCCGCATTTTATTACT
TTAAAAATATCTTAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTT
ATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCTGCCCTTTGC
TCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATTATTT
TATATTATTCCAGTGCATTTTGTTTGAAATATTTGTATTAATTATCTCTGAATTTTT
Found at i:2586670 original size:5 final size:5
Alignment explanation
Indices: 2586662--2586776 Score: 52
Period size: 5 Copynumber: 24.4 Consensus size: 5
2586652 TTCTCTCTTC
* * *
2586662 TCCTT TCCTT TTCTT TCC-T TCTTT TTCTT T-CTT T--TT TCTTCTT CTCCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TC--CTT -TCCTT
* * * * * *
2586711 TCCTT TTCTT TCC-T TCTTT TTCTT T-CTT TCCTC TCCTC TCCTT TTCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
2586759 T-CTT T-CTT T-CTT T-CTT TC
1 TCCTT TCCTT TCCTT TCCTT TC
2586777 TTCTTCTTTC
Statistics
Matches: 88, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
3 3 0.03
4 30 0.34
5 48 0.55
6 3 0.03
7 2 0.02
8 2 0.02
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (5 bp):
TCCTT
Found at i:2586679 original size:10 final size:10
Alignment explanation
Indices: 2586664--2586787 Score: 68
Period size: 10 Copynumber: 12.6 Consensus size: 10
2586654 CTCTCTTCTC
2586664 CTTTCCTTTT
1 CTTTCCTTTT
2586674 CTTTCCTTCTT
1 CTTTCCTT-TT
*
2586685 -TTTCTTTCTT
1 CTTTCCTT-TT
* *
2586695 TTTTCTTCTTCTC
1 CTTTC--CTT-TT
2586708 CTTTCCTTTT
1 CTTTCCTTTT
2586718 CTTTCCTTCTT
1 CTTTCCTT-TT
2586729 -TTT-C-TTT
1 CTTTCCTTTT
* *
2586736 CTTTCCTCTC
1 CTTTCCTTTT
*
2586746 CTCTCCTTTT
1 CTTTCCTTTT
2586756 CTTT-C-TTT
1 CTTTCCTTTT
2586764 CTTT-C-TTT
1 CTTTCCTTTT
2586772 CTTT-CTTCTT
1 CTTTCCTT-TT
2586782 CTTTCC
1 CTTTCC
2586788 CTCTCCTTCT
Statistics
Matches: 92, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
7 2 0.02
8 20 0.22
9 4 0.04
10 46 0.50
11 12 0.13
13 8 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:2586687 original size:14 final size:14
Alignment explanation
Indices: 2586670--2586736 Score: 82
Period size: 14 Copynumber: 4.6 Consensus size: 14
2586660 TCTCCTTTCC
2586670 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
2586684 TTTTCTTT-CTTTT
1 TTTTCTTTCCTTCT
*
2586697 TTCTTCTTCTCCTTTCC
1 TT-TTCTT-TCC-TTCT
2586714 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
2586728 TTTTCTTTC
1 TTTTCTTTC
2586737 TTTCCTCTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.13
14 25 0.56
15 4 0.09
16 6 0.13
17 4 0.09
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:2586692 original size:4 final size:4
Alignment explanation
Indices: 2586671--2586786 Score: 68
Period size: 4 Copynumber: 29.0 Consensus size: 4
2586661 CTCCTTTCCT
*
2586671 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC -TTC TTCTCC TTTCC TTTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C -TTTC
* * *
2586719 TTTC CTTC -TT- TTTC TTTC TTTCC TCTCC TCTCC TTTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTT-C T-TTC T-TTC -TTTC TTTC TTTC
2586765 TTTC TTTC TTTC -TTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC
2586787 CCTCTCCTTC
Statistics
Matches: 95, Mismatches: 4, Indels: 26
0.76 0.03 0.21
Matches are distributed among these distances:
3 20 0.21
4 52 0.55
5 15 0.16
6 8 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:2586712 original size:44 final size:44
Alignment explanation
Indices: 2586634--2586784 Score: 192
Period size: 44 Copynumber: 3.6 Consensus size: 44
2586624 TTCCTTCCCT
* *
2586634 CTTCTTCTTCTTTTTTTTTTCTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCT-TCTTCTCCTTTCCTTTTCTTTC
2586679 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
*
2586723 CTTCTTTTTCTTTC---TTTC--C-TCTCCTCTCCTTTTCTTT-
1 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
* *
2586760 CTT-TCTTTCTTTCTTTCTTCTTCTT
1 CTTCTTTTTCTTTCTTTTTTCTTCTT
2586785 TCCCTCTCCT
Statistics
Matches: 95, Mismatches: 5, Indels: 15
0.83 0.04 0.13
Matches are distributed among these distances:
36 9 0.09
37 3 0.03
38 17 0.18
39 4 0.04
41 5 0.05
42 1 0.01
44 36 0.38
45 20 0.21
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (44 bp):
CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
Found at i:2586726 original size:24 final size:23
Alignment explanation
Indices: 2586634--2586787 Score: 111
Period size: 24 Copynumber: 7.0 Consensus size: 23
2586624 TTCCTTCCCT
*
2586634 CTTCTTCTTCTTT-TTTT-TTT-
1 CTTCTTCTCCTTTCTTTTCTTTC
2586654 CTCTCTTCTCCTTTCCTTTTCTTTC
1 CT-TCTTCTCCTTT-CTTTTCTTTC
* *
2586679 CTTCTTTTTCTTTC-TTT-TTT-
1 CTTCTTCTCCTTTCTTTTCTTTC
2586699 CTTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTCTCCTTT-CTTTTCTTTC
2586723 CTTC-T-T--TTTC-TTTCTTTC
1 CTTCTTCTCCTTTCTTTTCTTTC
*
2586741 CTCTCCTCTCCTTT-TCTTTCTTTC
1 CT-TCTTCTCCTTTCT-TTTCTTTC
*
2586765 TTTCTT-T-CTTTCTTCTTCTTTC
1 CTTCTTCTCCTTTCTT-TTCTTTC
2586787 C
1 C
2586788 CTCTCCTTCT
Statistics
Matches: 108, Mismatches: 8, Indels: 34
0.72 0.05 0.23
Matches are distributed among these distances:
18 10 0.09
19 3 0.03
20 17 0.16
21 20 0.19
22 16 0.15
23 15 0.14
24 25 0.23
25 2 0.02
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (23 bp):
CTTCTTCTCCTTTCTTTTCTTTC
Found at i:2586728 original size:38 final size:38
Alignment explanation
Indices: 2586686--2586783 Score: 135
Period size: 38 Copynumber: 2.6 Consensus size: 38
2586676 TTCCTTCTTT
*
2586686 TTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTTTCTTTTTTCTTCTTCTCCTCTCCTTTTCTTTCC
* * *
2586724 TTCTTT-TTCTTTCTTTCCTCTCCTCTCCTTTTCTTTCT
1 TTCTTTCTTTTTTC-TTCTTCTCCTCTCCTTTTCTTTCC
2586762 TTCTTTCTTTCTTTCTTCTTCT
1 TTCTTTCTTT-TTTCTTCTTCT
2586784 TTCCCTCTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 6 0.12
38 33 0.65
39 8 0.16
40 4 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (38 bp):
TTCTTTCTTTTTTCTTCTTCTCCTCTCCTTTTCTTTCC
Found at i:2587167 original size:32 final size:34
Alignment explanation
Indices: 2587101--2587163 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
2587091 AGAGGGCATG
2587101 CAAAAAAGAAAAGGAAGAAGAAAGAAAGAAAATTA
1 CAAAAAAGAAAA-GAAGAAGAAAGAAAGAAAATTA
*
2587136 CAAAAAA-AAAA-AAGAAGAAA-AAGGAAAA
1 CAAAAAAGAAAAGAAGAAGAAAGAAAGAAAA
2587164 ATTATGACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 7 0.26
32 9 0.33
34 4 0.15
35 7 0.26
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (34 bp):
CAAAAAAGAAAAGAAGAAGAAAGAAAGAAAATTA
Found at i:2593477 original size:9 final size:9
Alignment explanation
Indices: 2593463--2593493 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2593453 GTTAAACGAA
2593463 TCGAGTTAT
1 TCGAGTTAT
*
2593472 TCGAGTTAA
1 TCGAGTTAT
2593481 TCGAGTTAT
1 TCGAGTTAT
2593490 TCGA
1 TCGA
2593494 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:2593564 original size:9 final size:9
Alignment explanation
Indices: 2593547--2593583 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
2593537 TGAGTTTTCG
2593547 AATTCGAAT
1 AATTCGAAT
*
2593556 AACTCGAAT
1 AATTCGAAT
2593565 AATTCGAAT
1 AATTCGAAT
2593574 AATTCGAAT
1 AATTCGAAT
2593583 A
1 A
2593584 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:2598341 original size:42 final size:42
Alignment explanation
Indices: 2598294--2598377 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
2598284 CTATCCATGC
2598294 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
2598336 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
2598378 TTCAAGTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (42 bp):
ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
Found at i:2598381 original size:23 final size:23
Alignment explanation
Indices: 2598307--2598397 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 23
2598297 TGTGTAACTT
*
2598307 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
2598330 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTC
*
2598349 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
2598372 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
2598395 TTC
1 TTC
2598398 TAACTTTTCA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.20, C:0.29, G:0.07, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:2602807 original size:42 final size:42
Alignment explanation
Indices: 2602760--2602843 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
2602750 CTATCCATGC
2602760 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
2602802 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
2602844 TTCAAGTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (42 bp):
ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
Found at i:2602847 original size:23 final size:23
Alignment explanation
Indices: 2602773--2602863 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 23
2602763 TGTGTAACTT
*
2602773 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
2602796 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTC
*
2602815 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
2602838 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
2602861 TTC
1 TTC
2602864 TAACTTTTCA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.20, C:0.29, G:0.07, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:2604400 original size:2 final size:2
Alignment explanation
Indices: 2604393--2604417 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2604383 CGTATTTGAT
2604393 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2604418 TCAAAATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2606322 original size:43 final size:42
Alignment explanation
Indices: 2606254--2606394 Score: 178
Period size: 43 Copynumber: 3.4 Consensus size: 42
2606244 TTTTTTTAAG
*
2606254 CCTTTAGCGGCGCCTT-TCACAAACGCCGCTAAAGAACATGA
1 CCTTTAGCGGCGCTTTATCACAAACGCCGCTAAAGAACATGA
* *
2606295 CCTTTAGCGGTGCTTATATCACAAACGCCACTAAAGAACATGA
1 CCTTTAGCGGCGCTT-TATCACAAACGCCGCTAAAGAACATGA
* * * *
2606338 CCTTTAGCGACGCTTTTATCATAAACGCCGCTAAAAAACA-AA
1 CCTTTAGCGGCGC-TTTATCACAAACGCCGCTAAAGAACATGA
*
2606380 CCTTTAGCGACGCTT
1 CCTTTAGCGGCGCTT
2606395 CTCGCAAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
41 15 0.17
42 15 0.17
43 56 0.64
44 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
CCTTTAGCGGCGCTTTATCACAAACGCCGCTAAAGAACATGA
Found at i:2606416 original size:42 final size:42
Alignment explanation
Indices: 2606294--2606416 Score: 102
Period size: 43 Copynumber: 2.9 Consensus size: 42
2606284 AAAGAACATG
** * * * * * *
2606294 ACCTTTAGCGGTGCTTATATCACAAACGCCACTAAAGAACATG
1 ACCTTTAGCGACGCTTCTAGCAAAAACGCCACAAAAAAACA-A
* * * * *
2606337 ACCTTTAGCGACGCTTTTATCATAAACGCCGCTAAAAAACAA
1 ACCTTTAGCGACGCTTCTAGCAAAAACGCCACAAAAAAACAA
* *
2606379 ACCTTTAGCGACGCTTCTCGCAAAAATGCCACAAAAAA
1 ACCTTTAGCGACGCTTCTAGCAAAAACGCCACAAAAAA
2606417 CATAAACGCC
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (42 bp):
ACCTTTAGCGACGCTTCTAGCAAAAACGCCACAAAAAAACAA
Found at i:2606656 original size:27 final size:26
Alignment explanation
Indices: 2606619--2606676 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
2606609 TAAATAATAA
2606619 TAAAAATTAATAAAAGTGAGAAAA-TG
1 TAAAAATTAATAAAAGTGA-AAAATTG
*
2606645 TAAATAATTAATAAAAGTTAAAAATTG
1 TAAA-AATTAATAAAAGTGAAAAATTG
2606672 TAAAA
1 TAAAA
2606677 TCAACACCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (26 bp):
TAAAAATTAATAAAAGTGAAAAATTG
Found at i:2609806 original size:38 final size:38
Alignment explanation
Indices: 2609763--2609844 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
2609753 TAAAACAATT
* * * *
2609763 GATAAACCAAACTTTGTGAGATAAACATGTAAAAAGCA
1 GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
*
2609801 GATAAAAGAAAATTTGTGAGATAAACATATAAAAAACA
1 GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
2609839 GATAAA
1 GATAAA
2609845 GTTTGTAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.21
Consensus pattern (38 bp):
GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
Found at i:2612655 original size:40 final size:39
Alignment explanation
Indices: 2612610--2612700 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
2612600 AATATATTTA
2612610 TTTTTTATTTTTTTATTTTCAAAAATATTTTTAAAATACT
1 TTTTTTATTTTTTTATTTT-AAAAATATTTTTAAAATACT
* * *
2612650 TTTTTTAATTTTTTATTTTTAAATTATTTTTAAAATACT
1 TTTTTTATTTTTTTATTTTAAAAATATTTTTAAAATACT
2612689 TTTTTTATTTTT
1 TTTTTTATTTTT
2612701 AAAATTTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 29 0.62
40 18 0.38
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (39 bp):
TTTTTTATTTTTTTATTTTAAAAATATTTTTAAAATACT
Found at i:2612714 original size:20 final size:20
Alignment explanation
Indices: 2612635--2612705 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
2612625 TTTTCAAAAA
2612635 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATACTTTTTT
2612655 TAATTTTT----TA-TTTTTAAAT
1 T-ATTTTTAAAATACTTTTT---T
2612674 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATACTTTTTT
2612694 TATTTTTAAAAT
1 TATTTTTAAAAT
2612706 TTTCTTTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 18
0.70 0.00 0.30
Matches are distributed among these distances:
16 5 0.12
17 2 0.05
18 6 0.14
19 2 0.05
20 14 0.33
21 6 0.14
22 2 0.05
23 5 0.12
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTAAAATACTTTTTT
Found at i:2613930 original size:16 final size:17
Alignment explanation
Indices: 2613850--2614084 Score: 126
Period size: 17 Copynumber: 13.5 Consensus size: 17
2613840 AAAACATGAA
2613850 AAAATTTT-AAAACACG
1 AAAATTTTGAAAACACG
* * * *
2613866 AGAACTTT-AGAGACACA
1 AAAATTTTGA-AAACACG
*
2613883 AAAATTCTTAAAAACACG
1 AAAATT-TTGAAAACACG
2613901 AAAATTTTGAAAACACG
1 AAAATTTTGAAAACACG
* *
2613918 ACAA-TTTGGAAACACG
1 AAAATTTTGAAAACACG
* *
2613934 CAAATTTTTTTGAAAACCCG
1 -AAA--ATTTTGAAAACACG
*** *
2613954 ATTTTTTTTG-AAACGCG
1 A-AAATTTTGAAAACACG
2613971 AAAATTTATG-AAACACG
1 AAAATTT-TGAAAACACG
*
2613988 AGAATTGTTGAAAACAC-
1 AAAATT-TTGAAAACACG
*
2614005 ACAAATTTTTG-AAATACG
1 A-AAA-TTTTGAAAACACG
2614023 AAAATTTTTG-AAACACG
1 AAAA-TTTTGAAAACACG
2614040 AAAATTTTTGAAAACACG
1 AAAA-TTTTGAAAACACG
* **
2614058 AGAATTTTTTGAAAACGTG
1 A-AA-ATTTTGAAAACACG
2614077 AAAATTTT
1 AAAATTTT
2614085 TGCAACACCG
Statistics
Matches: 172, Mismatches: 30, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
16 21 0.12
17 81 0.47
18 42 0.24
19 18 0.10
20 10 0.06
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.29
Consensus pattern (17 bp):
AAAATTTTGAAAACACG
Found at i:2613974 original size:70 final size:67
Alignment explanation
Indices: 2613894--2614064 Score: 193
Period size: 70 Copynumber: 2.5 Consensus size: 67
2613884 AAATTCTTAA
* * * ***
2613894 AAACACGAAAATTTTGAAAACACGACAATTTGGAAACACGCAAATTTTTTTGAAA-ACCCGATTT
1 AAACACGAAAATTTTGAAAACACGAGAATTTGAAAACACACAAA--TTTTTGAAATA--CGAAAA
2613958 TTTTTG
62 TTTTTG
*
2613964 AAACGCGAAAATTTATG-AAACACGAGAATTGTTGAAAACACACAAATTTTTGAAATACGAAAAT
1 AAACACGAAAATTT-TGAAAACACGAGAA-T-TTGAAAACACACAAATTTTTGAAATACGAAAAT
2614028 TTTTG
63 TTTTG
2614033 AAACACGAAAATTTTTGAAAACACGAGAATTT
1 AAACACGAAAA-TTTTGAAAACACGAGAATTT
2614065 TTTGAAAACG
Statistics
Matches: 87, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
68 2 0.02
69 22 0.25
70 46 0.53
71 4 0.05
72 13 0.15
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (67 bp):
AAACACGAAAATTTTGAAAACACGAGAATTTGAAAACACACAAATTTTTGAAATACGAAAATTTT
TG
Found at i:2614011 original size:35 final size:35
Alignment explanation
Indices: 2613893--2614121 Score: 168
Period size: 35 Copynumber: 6.5 Consensus size: 35
2613883 AAAATTCTTA
*
2613893 AAAACACGAAAA-TTTTGAAAACACGACAA--TTTG
1 AAAACACGAAAATTTTTG-AAACACGAGAATTTTTG
* * * ***
2613926 GAAACACGCAAATTTTTTTGAAAACCCGATTTTTTTTG
1 AAAACACG-AAA-ATTTTTG-AAACACGAGAATTTTTG
* * *
2613964 -AAACGCGAAAATTTATGAAACACGAGAATTGTTG
1 AAAACACGAAAATTTTTGAAACACGAGAATTTTTG
* *
2613998 AAAACAC-ACAAATTTTTGAAATACGAAAATTTTTG
1 AAAACACGA-AAATTTTTGAAACACGAGAATTTTTG
2614033 -AAACACGAAAATTTTTGAAAACACGAGAATTTTTTG
1 AAAACACGAAAATTTTTG-AAACACGAGAA-TTTTTG
** * * *
2614069 AAAACGTGAAAATTTTTGCAACACCGA-ATTTTTTT
1 AAAACACGAAAATTTTTGAAACA-CGAGAATTTTTG
*
2614104 TAAACAC-AAAATTTTTGA
1 AAAACACGAAAATTTTTGA
2614122 TTTTTTTTAT
Statistics
Matches: 154, Mismatches: 30, Indels: 23
0.74 0.14 0.11
Matches are distributed among these distances:
33 7 0.05
34 41 0.27
35 51 0.33
36 27 0.18
37 24 0.16
38 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (35 bp):
AAAACACGAAAATTTTTGAAACACGAGAATTTTTG
Found at i:2614025 original size:52 final size:53
Alignment explanation
Indices: 2613840--2614071 Score: 170
Period size: 52 Copynumber: 4.4 Consensus size: 53
2613830 TTTTCTTTGA
* * * * * * * * *
2613840 AAAACATGAAAAAATTTTAAAACACGAGAACTTTA-GAGACACAAAAATTCTTA
1 AAAACACGACAAATTTTTGAAACACGA-AAATTTATGAAACACGAAAATTGTTG
* * * *
2613893 AAAACACGA-AAA-TTTTGAAAACACGACAATTT-GGAAACACGCAAATTTTTTTG
1 AAAACACGACAAATTTTTG-AAACACGAAAATTTATGAAACACG-AAA-ATTGTTG
* *** * *
2613946 AAAACCCGA-TTTTTTTTGAAACGCGAAAATTTATGAAACACGAGAATTGTTG
1 AAAACACGACAAATTTTTGAAACACGAAAATTTATGAAACACGAAAATTGTTG
* * *
2613998 AAAACAC-ACAAATTTTTGAAATACGAAAATTTTTGAAACACGAAAATTTTTG
1 AAAACACGACAAATTTTTGAAACACGAAAATTTATGAAACACGAAAATTGTTG
* *
2614050 AAAACACGAGAATTTTTTGAAA
1 AAAACACGACAAATTTTTGAAA
2614072 ACGTGAAAAT
Statistics
Matches: 141, Mismatches: 30, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
51 15 0.11
52 67 0.48
53 46 0.33
54 13 0.09
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (53 bp):
AAAACACGACAAATTTTTGAAACACGAAAATTTATGAAACACGAAAATTGTTG
Found at i:2614084 original size:18 final size:17
Alignment explanation
Indices: 2613894--2614121 Score: 169
Period size: 17 Copynumber: 13.1 Consensus size: 17
2613884 AAATTCTTAA
2613894 AAACACGAAAA-TTTTG
1 AAACACGAAAATTTTTG
* *
2613910 AAAACACGACAA-TTTGG
1 -AAACACGAAAATTTTTG
*
2613927 AAACACGCAAATTTTTTTG
1 AAACACG-AAA-ATTTTTG
* ***
2613946 AAAACCCGATTTTTTTTG
1 -AAACACGAAAATTTTTG
* *
2613964 AAACGCGAAAATTTATG
1 AAACACGAAAATTTTTG
* *
2613981 AAACACGAGAATTGTTG
1 AAACACGAAAATTTTTG
2613998 AAAACAC-ACAAATTTTTG
1 -AAACACGA-AAATTTTTG
*
2614016 AAATACGAAAATTTTTG
1 AAACACGAAAATTTTTG
2614033 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
*
2614050 AAAACACGAGAATTTTTTG
1 -AAACACGA-AAATTTTTG
2614069 AAA-ACGTGAAAATTTTTG
1 AAACAC--GAAAATTTTTG
* ** *
2614087 CAACACCGAATTTTTTTT
1 AAACA-CGAAAATTTTTG
2614105 AAACAC-AAAATTTTTG
1 AAACACGAAAATTTTTG
2614121 A
1 A
2614122 TTTTTTTTAT
Statistics
Matches: 167, Mismatches: 31, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
16 15 0.09
17 75 0.45
18 54 0.32
19 16 0.10
20 7 0.04
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:2614255 original size:19 final size:19
Alignment explanation
Indices: 2614231--2614291 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
2614221 TTATTATTAT
2614231 TTTTTTGAAAACGCGAATA
1 TTTTTTGAAAACGCGAATA
*
2614250 TTTTTTGAAACACGAGAAT-
1 TTTTTTGAAA-ACGCGAATA
* * *
2614269 TTTTTTGAAGACACGAAAA
1 TTTTTTGAAAACGCGAATA
2614288 TTTT
1 TTTT
2614292 GAAGCGCGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 5 0.14
19 23 0.66
20 7 0.20
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (19 bp):
TTTTTTGAAAACGCGAATA
Found at i:2614469 original size:5 final size:5
Alignment explanation
Indices: 2614456--2614504 Score: 71
Period size: 5 Copynumber: 9.6 Consensus size: 5
2614446 AAAATATTAA
* *
2614456 AAATA AAATT AAATT GAATT AAAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT -AAATT AAATT AAATT AAATT AAATT AAA
2614505 AATATAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
5 36 0.90
6 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (5 bp):
AAATT
Found at i:2614479 original size:21 final size:21
Alignment explanation
Indices: 2614455--2614505 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2614445 AAAAATATTA
*
2614455 AAAATAAAATTAAATTGAATT
1 AAAATAAAATTAAATTAAATT
*
2614476 AAAATTAAATTAAATTAAATT
1 AAAATAAAATTAAATTAAATT
*
2614497 AAATTAAAA
1 AAAATAAAA
2614506 ATATAAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATAAAATTAAATTAAATT
Found at i:2614480 original size:16 final size:16
Alignment explanation
Indices: 2614459--2614504 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
2614449 ATATTAAAAA
*
2614459 TAAAATTAAATTGAAT
1 TAAAATTAAATTAAAT
2614475 TAAAATTAAATTAAAT
1 TAAAATTAAATTAAAT
2614491 T-AAATTAAATTAAA
1 TAAAATTAAATTAAA
2614505 AATATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAATTAAATTAAAT
Found at i:2614490 original size:26 final size:26
Alignment explanation
Indices: 2614456--2614514 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
2614446 AAAATATTAA
*
2614456 AAATAAAATTAAATTGAATTAAAATT
1 AAATAAAATTAAATTAAATTAAAATT
*
2614482 AAATTAAATTAAATTAAATTAAAAATAT
1 AAATAAAATTAAATTAAATT-AAAAT-T
2614510 AAATA
1 AAATA
2614515 CAAAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 18 0.64
27 5 0.18
28 5 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
AAATAAAATTAAATTAAATTAAAATT
Found at i:2614712 original size:28 final size:26
Alignment explanation
Indices: 2614660--2614726 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
2614650 CAAATTGAAC
2614660 CTTT-TTTCTTTTTTCCTCTTTTTCT
1 CTTTCTTTCTTTTTTCCTCTTTTTCT
* **
2614685 TTTTCTTTCTTTTTTTTTCTTTCATTCT
1 CTTTCTTTCTTTTTTCCTCTTT--TTCT
2614713 CTTTC-TTCTTTTTT
1 CTTTCTTTCTTTTTT
2614727 GTTGGGCCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 3 0.09
26 15 0.43
27 9 0.26
28 8 0.23
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (26 bp):
CTTTCTTTCTTTTTTCCTCTTTTTCT
Found at i:2614814 original size:14 final size:14
Alignment explanation
Indices: 2614778--2614815 Score: 62
Period size: 12 Copynumber: 2.9 Consensus size: 14
2614768 TTGGGCAGCT
2614778 TGCTGGATTGGGCC
1 TGCTGGATTGGGCC
2614792 TGCT-G-TTGGGCC
1 TGCTGGATTGGGCC
2614804 TGCTGGATTGGG
1 TGCTGGATTGGG
2614816 TCAGGCCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.50
13 2 0.09
14 9 0.41
ACGTcount: A:0.05, C:0.18, G:0.45, T:0.32
Consensus pattern (14 bp):
TGCTGGATTGGGCC
Found at i:2614988 original size:13 final size:13
Alignment explanation
Indices: 2614972--2615011 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
2614962 TTTTTTTTGA
2614972 TTTTTTTCTCTTT
1 TTTTTTTCTCTTT
*
2614985 TTTTCTTCTCTTTT
1 TTTTTTTCTC-TTT
2614999 TCTTTTTTCTCTT
1 T-TTTTTTCTCTT
2615012 CTTCTTGCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 9 0.39
14 6 0.26
15 8 0.35
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTCTCTTT
Found at i:2614998 original size:20 final size:20
Alignment explanation
Indices: 2614974--2615013 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2614964 TTTTTTGATT
*
2614974 TTTTTCTCTTTTTTTCTTCTC
1 TTTTTCT-TTTTTCTCTTCTC
2614995 TTTTTCTTTTTTCTCTTCT
1 TTTTTCTTTTTTCTCTTCT
2615014 TCTTGCCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTCTTTTTTCTCTTCTC
Found at i:2615010 original size:15 final size:15
Alignment explanation
Indices: 2614973--2615017 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
2614963 TTTTTTTGAT
2614973 TTTTTTCTC-TTTT-
1 TTTTTTCTCTTTTTC
*
2614986 TTTCTTCTCTTTTTC
1 TTTTTTCTCTTTTTC
*
2615001 TTTTTTCTCTTCTTC
1 TTTTTTCTCTTTTTC
2615016 TT
1 TT
2615018 GCCCTCCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 15 0.56
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTCTCTTTTTC
Found at i:2615555 original size:30 final size:30
Alignment explanation
Indices: 2615520--2615658 Score: 149
Period size: 30 Copynumber: 4.6 Consensus size: 30
2615510 CAAAACTTTT
**
2615520 GGGGTCAAAACATAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAATTTTGAGAAAGTTTA
* * * *
2615550 AGGGTCAAGATGTAA-TTTCA-AAATCTTTA
1 GGGGTCAAAATGTAATTTTGAGAAA-GTTTA
** *
2615579 GGGGTTGAAATGTAATTTTGAAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGAGAAAGTTTA
2615609 GGGGTCAAAATGTAATTTT-AGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGAG-AAAGTTTA
2615639 GGGGTCAAAATGTAAATTTT
1 GGGGTCAAAATGT-AATTTT
2615659 TTAAACACAA
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
28 3 0.03
29 20 0.22
30 57 0.64
31 9 0.10
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGAGAAAGTTTA
Found at i:2615595 original size:59 final size:60
Alignment explanation
Indices: 2615494--2615658 Score: 188
Period size: 59 Copynumber: 2.7 Consensus size: 60
2615484 CCAGAGGGAC
** * ** *
2615494 CAAAATGTAATGGCAGCAAAACTTTTGGGGTCAAAACATAATTTTGAGAAAGTTTAAGGGT
1 CAAAATGTAATTTCAG-AAAACTTTAGGGGTCAAAATGTAATTTTGAAAAAGTTTAAGGGT
* * ** *
2615555 CAAGATGTAATTTCA-AAATCTTTAGGGGTTGAAATGTAATTTTGAAAAAGTTTAGGGGT
1 CAAAATGTAATTTCAGAAAACTTTAGGGGTCAAAATGTAATTTTGAAAAAGTTTAAGGGT
* *
2615614 CAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATGTAAATTTT
1 CAAAATGTAATTTCAGAAAACTTTAGGGGTCAAAATGT-AATTTT
2615659 TTAAACACAA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 49 0.58
60 18 0.21
61 18 0.21
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (60 bp):
CAAAATGTAATTTCAGAAAACTTTAGGGGTCAAAATGTAATTTTGAAAAAGTTTAAGGGT
Found at i:2615793 original size:96 final size:96
Alignment explanation
Indices: 2615629--2615824 Score: 365
Period size: 96 Copynumber: 2.0 Consensus size: 96
2615619 TGTAATTTTA
2615629 GAAAAGTTTAGGGGTCAAAATGTAAATTTTTTAAACACAAAATTATTCCAAGACAAAATTCAGTG
1 GAAAAGTTTAGGGGTCAAAATGTAAATTTTTTAAACACAAAATTATTCCAAGACAAAATTCAGTG
*
2615694 ATTACAGCTGCCCCTCTTTGCTCATCGCTGT
66 ATTACAACTGCCCCTCTTTGCTCATCGCTGT
* *
2615725 GAAAAGTTTAGGGGTCAAAATGTAATTTTTTTAAACACAAAATTATTCCAGGACAAAATTCAGTG
1 GAAAAGTTTAGGGGTCAAAATGTAAATTTTTTAAACACAAAATTATTCCAAGACAAAATTCAGTG
2615790 ATTACAACTGCCCCTCTTTGCTCATCGCTGT
66 ATTACAACTGCCCCTCTTTGCTCATCGCTGT
2615821 GAAA
1 GAAA
2615825 CAGGGATAGA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (96 bp):
GAAAAGTTTAGGGGTCAAAATGTAAATTTTTTAAACACAAAATTATTCCAAGACAAAATTCAGTG
ATTACAACTGCCCCTCTTTGCTCATCGCTGT
Found at i:2616094 original size:75 final size:75
Alignment explanation
Indices: 2615932--2616440 Score: 412
Period size: 75 Copynumber: 6.5 Consensus size: 75
2615922 GTGAGTCAAA
* *
2615932 GCTCAACTCACCTCTTG-AATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAGAATACCTC
1 GCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTT-AAAAACAAAAATTG-AAA-AATACCTC
*
2615996 GGCGTGTGCCCGAT
62 GGCGTGTGCCCGAG
2616010 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCG
2616075 TGTGCCCGAG
66 TGTGCCCGAG
***** **** * ** *
2616085 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTATTTTTATTTTTTGAAAAGCAAAAATTTA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTG--AA--AAATACCTC
*** ** *
2616149 AAAGAAATACCTCGGCATG
62 GGCG-TGTGCC-C-G-A-G
* * * * *
2616168 TGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAAATA
1 -GCTC-A-ACTCA-----CCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATA
* *
2616233 CCTCAGCGTG-ACCCGAG
58 CCTCGGCGTGTGCCCGAG
* * *
2616250 GCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTTAAAACAAAAATTAAAAAATACCTCGGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTAAAAACAAAAATTGAAAAATACCTCGGC
*
2616315 GTGTGCTCGAG
65 GTGTGCCCGAG
* * * *
2616326 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTTACAAGAAATACCTCC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACA-AAAATT-GAA-AAATACCTCG
*
2616391 GCATGTGACCCGAG
63 GCGTGTG-CCCGAG
*
2616405 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
2616441 TTTGAAAAAA
Statistics
Matches: 344, Mismatches: 62, Indels: 49
0.76 0.14 0.11
Matches are distributed among these distances:
74 31 0.09
75 89 0.26
76 46 0.13
77 15 0.04
78 53 0.15
79 48 0.14
80 2 0.01
81 4 0.01
82 2 0.01
83 2 0.01
84 4 0.01
85 2 0.01
86 7 0.02
88 7 0.02
90 2 0.01
91 20 0.06
92 10 0.03
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCG
TGTGCCCGAG
Found at i:2616173 original size:166 final size:165
Alignment explanation
Indices: 2615961--2616443 Score: 649
Period size: 166 Copynumber: 3.0 Consensus size: 165
2615951 TTATGAGTTG
* * *
2615961 ATTTTTTGAAAAACAGAAATTGAAAAG-AATACCTCGGCGTGTGCCCGATGCTCAACTCACCTCT
1 ATTTTTTG-AAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCT
* *
2616025 CGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCGTGTGCCCGAGGCTCA
65 CGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGTGCCCGAGGCTCA
*
2616090 ACTCACCTCTCGCAATATGAGTTGATTTTTATTTTT
130 ACTCACCTCTCACAATATGAGTTGATTTTTATTTTT
*
2616126 ATTTTTTGAAAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCT
1 ATTTTTTGAAAA-CAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCT
* * *
2616191 CGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAAATACCTCAGCGTG-ACCCGAGGCTCA
65 CGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGTGCCCGAGGCTCA
2616255 ACTCACCTCTCACAATATGAGTTG------A---TT
130 ACTCACCTCTCACAATATGAGTTGATTTTTATTTTT
* *
2616282 -CTTTTT-AAAACAAAAA-TT-AAA-AAATACCTCGGCGTGTGCTCGAGGCTCAACTCACCTCTC
1 ATTTTTTGAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTC
* * * *
2616342 GCAATATGAGTTGATTTTTGAAAAACATAAATTTACAAGAAATACCTCCGCATGTGACCCGAGGC
66 GCAATATGAGTTGATTTTTGAAAAACA-AAAATT-GAA-AAATACCTCAGCGTGTG-CCCGAGGC
2616407 TCAACTCACCTCTCACAATATGAGTTGATTTTT-TTTT
127 TCAACTCACCTCTCACAATATGAGTTGATTTTTATTTT
2616444 GAAAAAACAG
Statistics
Matches: 282, Mismatches: 20, Indels: 34
0.84 0.06 0.10
Matches are distributed among these distances:
150 63 0.22
151 7 0.02
152 4 0.01
153 19 0.07
154 4 0.01
155 40 0.14
156 2 0.01
159 1 0.00
163 1 0.00
164 4 0.01
165 54 0.19
166 83 0.29
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (165 bp):
ATTTTTTGAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGTGCCCGAGGCTCAA
CTCACCTCTCACAATATGAGTTGATTTTTATTTTT
Found at i:2616192 original size:91 final size:87
Alignment explanation
Indices: 2616039--2616210 Score: 281
Period size: 91 Copynumber: 1.9 Consensus size: 87
2616029 ATATGAGTTG
* *
2616039 ATTTTTTAAAAACAAAAATTGAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCGCA
1 ATTTTTTAAAAACAAAAATTAAAAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCA
2616104 ATATGAGTTGATTTTTATTTTT
66 ATATGAGTTGATTTTTATTTTT
*
2616126 ATTTTTTGAAAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCT
1 ATTTTTT-AAAAACAAAAA-TT-AAA-AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCT
2616191 CGCAATATGAGTTGATTTTT
62 CGCAATATGAGTTGATTTTT
2616211 GAAAAATAGA
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
87 7 0.09
88 10 0.13
89 2 0.03
90 2 0.03
91 57 0.73
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (87 bp):
ATTTTTTAAAAACAAAAATTAAAAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTATTTTT
Found at i:2616334 original size:150 final size:159
Alignment explanation
Indices: 2616128--2616448 Score: 498
Period size: 150 Copynumber: 2.1 Consensus size: 159
2616118 TTATTTTTAT
2616128 TTTTTGAAAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCG
1 TTTTTGAAAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCG
* *
2616193 CAATATGAGTTGATTTTTGAAAAATAGAAA-TT-GAA-AAATACCTCAGC-GTGACCCGAGGCTC
66 CAATATGAGTTGATTTTTGAAAAACAGAAATTTACAAGAAATACCTCAGCAGTGACCCGAGGCTC
2616254 AACTCACCTCTCACAATATGAGTTGATTC
131 AACTCACCTCTCACAATATGAGTTGATTC
* *
2616283 TTTTT-AAAA-CAAAAA-TT-AAA-AAATACCTCGGCGTGTGCTCGAGGCTCAACTCACCTCTCG
1 TTTTTGAAAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCG
* *
2616343 CAATATGAGTTGATTTTTGAAAAACATAAATTTACAAGAAATACCTCCGCATGTGACCCGAGGCT
66 CAATATGAGTTGATTTTTGAAAAACAGAAATTTACAAGAAATACCTCAGCA-GTGACCCGAGGCT
*
2616408 CAACTCACCTCTCACAATATGAGTTGATTTT
130 CAACTCACCTCTCACAATATGAGTTGA-TTC
2616439 TTTTTGAAAA
1 TTTTTGAAAA
2616449 AACAGAAATT
Statistics
Matches: 152, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
150 66 0.43
151 5 0.03
152 4 0.03
153 17 0.11
154 4 0.03
155 45 0.30
156 7 0.05
157 4 0.03
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (159 bp):
TTTTTGAAAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTGAAAAACAGAAATTTACAAGAAATACCTCAGCAGTGACCCGAGGCTC
AACTCACCTCTCACAATATGAGTTGATTC
Found at i:2624162 original size:3 final size:3
Alignment explanation
Indices: 2624154--2624218 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
2624144 GTGAGGTAAG
2624154 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2624202 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
2624219 AGATGAGTGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2624391 original size:23 final size:24
Alignment explanation
Indices: 2624375--2624420 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2624365 TGGATTAATT
2624375 ATTG-ATTGAAAGATGGAGAAATG
1 ATTGAATTGAAAGATGGAGAAATG
2624398 ATTGAATTGAAA-ATGTGAGAAAT
1 ATTGAATTGAAAGATG-GAGAAAT
2624421 TGTGATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (24 bp):
ATTGAATTGAAAGATGGAGAAATG
Found at i:2626039 original size:37 final size:38
Alignment explanation
Indices: 2625998--2626069 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 38
2625988 CAAAATACGA
* * *
2625998 ATTTTTTTAAAAAAACACG-AAGATTTTTAAAACAATT
1 ATTTTCTTAAAAAAACACGAAAAAATTTTAAAACAATT
**
2626035 ATTTTCTTGGAAAAACACGAAAAAATTTTAAAACA
1 ATTTTCTTAAAAAAACACGAAAAAATTTTAAAACA
2626070 CGAGAACTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 16 0.55
38 13 0.45
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (38 bp):
ATTTTCTTAAAAAAACACGAAAAAATTTTAAAACAATT
Found at i:2626362 original size:92 final size:92
Alignment explanation
Indices: 2626196--2626363 Score: 245
Period size: 92 Copynumber: 1.8 Consensus size: 92
2626186 GTGAAACACG
*
2626196 AGAATTGTTGAAAACACACAAATTTTTGAAAACACGAAAATTTTTGAAACACGAACTTTTTTAGG
1 AGAATTGTTGAAAACACACAAATTTTTGAAAACACGAAAATTTTTGAAACACGAACTTTTTTAGA
2626261 AAACATGAAAAAAAATTTTTGATCATC
66 AAACATGAAAAAAAATTTTTGATCATC
*
2626288 AGAATTTTTGAAAACACGA-AAATTTTTG-AAACACGAAAATTTTTGAAAACACGGGAA-TTTTT
1 AGAATTGTTGAAAACAC-ACAAATTTTTGAAAACACGAAAATTTTTG-AAACAC--GAACTTTTT
*
2626350 T-GAAAACGTGAAAA
62 TAGAAAACATGAAAA
2626364 TTTTTGAAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
91 17 0.25
92 42 0.61
93 7 0.10
94 3 0.04
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (92 bp):
AGAATTGTTGAAAACACACAAATTTTTGAAAACACGAAAATTTTTGAAACACGAACTTTTTTAGA
AAACATGAAAAAAAATTTTTGATCATC
Found at i:2626381 original size:35 final size:34
Alignment explanation
Indices: 2626100--2626400 Score: 179
Period size: 35 Copynumber: 8.5 Consensus size: 34
2626090 AAATTCTTAA
*
2626100 AAACACGAAAATTTTTGAAAACACGACA-ATTTTG
1 AAACACGAAAATTTTTGAAAACACGA-ATTTTTTG
* * *
2626134 AAACACGCAAATTTTTTTTGAAAACCCGATTTTTTTTG
1 AAACACG-AAA--ATTTTTGAAAACACGA-ATTTTTTG
* * * *
2626172 AAACGCGAAAATTTGTG-AAACACGAGAATTGTTG
1 AAACACGAAAATTTTTGAAAACACGA-ATTTTTTG
*
2626206 AAAACAC-ACAAATTTTTGAAAACACGAAAATTTTTG
1 -AAACACGA-AAATTTTTGAAAACACG-AATTTTTTG
** * * *
2626242 AAACACGAACTTTTTTAGGAAACATGAAAAAAAATTTTTG
1 AAACACGAAAATTTTT-GAAAACACG-----AATTTTTTG
* * *
2626282 -ATCATC-AGAATTTTTGAAAACACGAAAATTTTTG
1 AAACA-CGAAAATTTTTGAAAACACG-AATTTTTTG
2626316 AAACACGAAAATTTTTGAAAACACGGGAATTTTTTG
1 AAACACGAAAATTTTTGAAAACAC--GAATTTTTTG
*
2626352 AAA-ACGTGAAAATTTTTG-AAACATCGAATTTTTTT
1 AAACAC--GAAAATTTTTGAAAACA-CGAATTTTTTG
2626387 AAACAC--AAATTTTT
1 AAACACGAAAATTTTT
2626401 CGATTTTTTA
Statistics
Matches: 214, Mismatches: 30, Indels: 48
0.73 0.10 0.16
Matches are distributed among these distances:
32 8 0.04
34 31 0.14
35 66 0.31
36 40 0.19
37 31 0.14
38 18 0.08
39 9 0.04
40 11 0.05
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (34 bp):
AAACACGAAAATTTTTGAAAACACGAATTTTTTG
Found at i:2626385 original size:17 final size:18
Alignment explanation
Indices: 2626046--2626372 Score: 210
Period size: 18 Copynumber: 18.2 Consensus size: 18
2626036 TTTTCTTGGA
*
2626046 AAAACACGAAAAAATTTT-
1 AAAACACG-AAAATTTTTG
* * *
2626064 AAAACACGAGAACTTTAG
1 AAAACACGAAAATTTTTG
* * * *
2626082 -AGACACAAAAATTCTTA
1 AAAACACGAAAATTTTTG
2626099 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
2626117 AAAACACGACAA-TTTTG
1 AAAACACGAAAATTTTTG
*
2626134 -AAACACGCAAATTTTTTTTG
1 AAAACACG-AAA--ATTTTTG
* ***
2626154 AAAACCCGATTTTTTTTG
1 AAAACACGAAAATTTTTG
* *
2626172 -AAACGCGAAAATTTGTG
1 AAAACACGAAAATTTTTG
* *
2626189 -AAACACGAGAATTGTTG
1 AAAACACGAAAATTTTTG
2626206 AAAACAC-ACAAATTTTTG
1 AAAACACGA-AAATTTTTG
2626224 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
**
2626242 -AAACACGAACTTTTTTAG
1 AAAACACGAAAATTTTT-G
* *
2626260 GAAACATGAAAAAAAATTTTTG
1 AAAACACG----AAAATTTTTG
* *
2626282 --ATCATC-AGAATTTTTG
1 AAAACA-CGAAAATTTTTG
2626298 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
2626316 -AAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
* *
2626333 AAAACACGGGAATTTTTTG
1 AAAACAC-GAAAATTTTTG
**
2626352 AAAACGTGAAAATTTTTG
1 AAAACACGAAAATTTTTG
2626370 AAA
1 AAA
2626373 CATCGAATTT
Statistics
Matches: 240, Mismatches: 47, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
16 16 0.07
17 81 0.34
18 99 0.41
19 21 0.09
20 9 0.04
21 6 0.03
22 1 0.00
23 7 0.03
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.29
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:2626390 original size:17 final size:16
Alignment explanation
Indices: 2626292--2626400 Score: 67
Period size: 17 Copynumber: 6.2 Consensus size: 16
2626282 ATCATCAGAA
*
2626292 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACAC-AAAT
*
2626310 TTTTTGAAACACGAAAA
1 TTTTTGAAACAC-AAAT
*
2626327 TTTTTGAAAACACGGGAAT
1 TTTTTG-AAACAC--AAAT
*
2626346 TTTTTGAAA-ACGTGAAAA
1 TTTTTGAAACAC---AAAT
*
2626364 TTTTTGAAACATCGAAT
1 TTTTTGAAACA-CAAAT
*
2626381 TTTTTTAAACACAAAT
1 TTTTTGAAACACAAAT
2626397 TTTT
1 TTTT
2626401 CGATTTTTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
16 8 0.10
17 31 0.40
18 27 0.35
19 10 0.13
20 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (16 bp):
TTTTTGAAACACAAAT
Found at i:2626535 original size:19 final size:19
Alignment explanation
Indices: 2626511--2626572 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
2626501 TTATTATTCT
2626511 TTTTTTGAAAACGCGAATA
1 TTTTTTGAAAACGCGAATA
* *
2626530 TTTTTTGAAACACGAGAATT
1 TTTTTTGAAA-ACGCGAATA
* * *
2626550 TTTTTTGAAGACACGAAAA
1 TTTTTTGAAAACGCGAATA
2626569 TTTT
1 TTTT
2626573 GAAGCGCGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTTTTGAAAACGCGAATA
Found at i:2626535 original size:20 final size:20
Alignment explanation
Indices: 2626510--2626572 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
2626500 CTTATTATTC
2626510 TTTTTTTGAAAACGCGAATA
1 TTTTTTTGAAAACGCGAATA
*
2626530 -TTTTTTGAAACACGAGAAT-
1 TTTTTTTGAAA-ACGCGAATA
* * *
2626549 TTTTTTTGAAGACACGAAAA
1 TTTTTTTGAAAACGCGAATA
2626569 TTTT
1 TTTT
2626573 GAAGCGCGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (20 bp):
TTTTTTTGAAAACGCGAATA
Found at i:2626753 original size:5 final size:5
Alignment explanation
Indices: 2626740--2626788 Score: 71
Period size: 5 Copynumber: 9.6 Consensus size: 5
2626730 AAAATATTAA
* *
2626740 AAATA AAATT AAATT GAATT AAAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT -AAATT AAATT AAATT AAATT AAATT AAA
2626789 AATATAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
5 36 0.90
6 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (5 bp):
AAATT
Found at i:2626763 original size:21 final size:21
Alignment explanation
Indices: 2626739--2626789 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2626729 AAAAATATTA
*
2626739 AAAATAAAATTAAATTGAATT
1 AAAATAAAATTAAATTAAATT
*
2626760 AAAATTAAATTAAATTAAATT
1 AAAATAAAATTAAATTAAATT
*
2626781 AAATTAAAA
1 AAAATAAAA
2626790 ATATAAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATAAAATTAAATTAAATT
Found at i:2626764 original size:16 final size:16
Alignment explanation
Indices: 2626743--2626788 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
2626733 ATATTAAAAA
*
2626743 TAAAATTAAATTGAAT
1 TAAAATTAAATTAAAT
2626759 TAAAATTAAATTAAAT
1 TAAAATTAAATTAAAT
2626775 T-AAATTAAATTAAA
1 TAAAATTAAATTAAA
2626789 AATATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAATTAAATTAAAT
Found at i:2626774 original size:26 final size:26
Alignment explanation
Indices: 2626740--2626798 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
2626730 AAAATATTAA
*
2626740 AAATAAAATTAAATTGAATTAAAATT
1 AAATAAAATTAAATTAAATTAAAATT
*
2626766 AAATTAAATTAAATTAAATTAAAAATAT
1 AAATAAAATTAAATTAAATT-AAAAT-T
2626794 AAATA
1 AAATA
2626799 CAAAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 18 0.64
27 5 0.18
28 5 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
AAATAAAATTAAATTAAATTAAAATT
Found at i:2626958 original size:9 final size:9
Alignment explanation
Indices: 2626944--2626987 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
2626934 CAAATTGAAA
2626944 CTTTTTTTT
1 CTTTTTTTT
*
2626953 C-TTTTTTC
1 CTTTTTTTT
*
2626961 CTTTTTTTC
1 CTTTTTTTT
*
2626970 CTTTTCTTT
1 CTTTTTTTT
2626979 CTTTTTTTT
1 CTTTTTTTT
2626988 GTTGGGTCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:2627259 original size:15 final size:16
Alignment explanation
Indices: 2627239--2627270 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
2627229 TTTTTGATTT
2627239 TTTTCTCTTTTT-TTC
1 TTTTCTCTTTTTCTTC
2627254 TTTTCTCTTTTTCTTC
1 TTTTCTCTTTTTCTTC
2627270 T
1 T
2627271 CTCTTCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTCTCTTTTTCTTC
Found at i:2627264 original size:13 final size:13
Alignment explanation
Indices: 2627236--2627282 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
2627226 TATTTTTTGA
*
2627236 TTTTT-TTCTCTT
1 TTTTTCTTCTCTC
*
2627248 TTTTTCTTTTCTC
1 TTTTTCTTCTCTC
2627261 TTTTTCTTCTCTC
1 TTTTTCTTCTCTC
*
2627274 TTCTTCTTC
1 TTTTTCTTC
2627283 CTTCTTCCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 5 0.17
13 25 0.83
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTCTTCTCTC
Found at i:2627843 original size:59 final size:59
Alignment explanation
Indices: 2627735--2627903 Score: 176
Period size: 59 Copynumber: 2.8 Consensus size: 59
2627725 TGGCTACCAG
* ** * * ** *
2627735 AGGGACCAAAATGTAATGGCAGCAAAACTTTTGGGGTTGAAACATAATTTTGAGAAAGTTT
1 AGGGATCAAAATGTAATTTCA--AAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAGTTT
** *
2627796 AGGGATCAAAATGTAATTTCAAAATGTTTAGGGGTTGAAATGTAATTTTGAAAAATTTT
1 AGGGATCAAAATGTAATTTCAAAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAGTTT
* * * **
2627855 AGGGGTCAAAATGTAATTTTAAAAAATTTATGGGTCAAAATGTAATTTT
1 AGGGATCAAAATGTAATTTCAAAAAATTTAGGGGTTGAAATGTAATTTT
2627904 TTTAAACACA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
59 73 0.80
61 18 0.20
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (59 bp):
AGGGATCAAAATGTAATTTCAAAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAGTTT
Found at i:2627903 original size:29 final size:30
Alignment explanation
Indices: 2627779--2627903 Score: 155
Period size: 29 Copynumber: 4.2 Consensus size: 30
2627769 GGTTGAAACA
* *
2627779 TAATTTTGAGAAAGTTTAGGGATCAAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
* * **
2627809 TAA-TTTCAAAATGTTTAGGGGTTGAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
*
2627838 TAATTTTGAAAAATTTTAGGGGTCAAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
* *
2627868 TAATTTT-AAAAAATTTATGGGTCAAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
2627897 TAATTTT
1 TAATTTT
2627904 TTTAAACACA
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
29 50 0.62
30 31 0.38
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.38
Consensus pattern (30 bp):
TAATTTTGAAAAAGTTTAGGGGTCAAAATG
Found at i:2629361 original size:7 final size:7
Alignment explanation
Indices: 2629349--2629374 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2629339 ATCCATGATA
2629349 AAACCCT
1 AAACCCT
2629356 AAACCCT
1 AAACCCT
2629363 AAACCCT
1 AAACCCT
2629370 AAACC
1 AAACC
2629375 AAATAATCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:2632573 original size:14 final size:14
Alignment explanation
Indices: 2632545--2632586 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
2632535 TACAACCACC
2632545 TTAACTGCT-ACTG
1 TTAACTGCTAACTG
2632558 TTAACTGCTAACTG
1 TTAACTGCTAACTG
*
2632572 TTAACTACTAACTG
1 TTAACTGCTAACTG
2632586 T
1 T
2632587 AATAACAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (14 bp):
TTAACTGCTAACTG
Found at i:2637689 original size:15 final size:15
Alignment explanation
Indices: 2637669--2637699 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2637659 GTTATGTAAG
2637669 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
2637684 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
2637699 T
1 T
2637700 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:2638656 original size:15 final size:15
Alignment explanation
Indices: 2638638--2638667 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2638628 TGGAGATCGA
*
2638638 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
2638653 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
2638668 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:2641956 original size:15 final size:15
Alignment explanation
Indices: 2641936--2641966 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2641926 GTTATGTAAG
*
2641936 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAAAGT
2641951 TGAAAGGTCAAAAGT
1 TGAAAGGTCAAAAGT
2641966 T
1 T
2641967 ATGTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAAAGT
Found at i:2645979 original size:38 final size:40
Alignment explanation
Indices: 2645903--2645981 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
2645893 GGAAATGTAT
* *
2645903 TTTAAAATTAAAAAAATAAAAAAAAGTATTTTAAAAATAC
1 TTTAAAATTAAAAAAATAAAAAAAAGAATTATAAAAATAC
*
2645943 TTTAAAA-T-AAAAAATAAAAAAATA-AATTATATAAATAC
1 TTTAAAATTAAAAAAATAAAAAAA-AGAATTATAAAAATAC
2645981 T
1 T
2645982 AAATATCTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 26 0.74
39 2 0.06
40 7 0.20
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (40 bp):
TTTAAAATTAAAAAAATAAAAAAAAGAATTATAAAAATAC
Found at i:2650536 original size:21 final size:20
Alignment explanation
Indices: 2650508--2650546 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2650498 AATTTTTTTT
* *
2650508 AATTGAGTCGAGTGAAATGA
1 AATTGAGTCAAGTCAAATGA
2650528 AATTCGAGTCAAGTCAAAT
1 AATT-GAGTCAAGTCAAAT
2650547 AGAATCAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (20 bp):
AATTGAGTCAAGTCAAATGA
Found at i:2650790 original size:19 final size:19
Alignment explanation
Indices: 2650759--2650868 Score: 68
Period size: 19 Copynumber: 5.7 Consensus size: 19
2650749 ATATTAACTC
2650759 TTTTTATATATTTTTTAGAA
1 TTTTTATA-ATTTTTTAGAA
2650779 TTTTTATAATTTTTTA-AA
1 TTTTTATAATTTTTTAGAA
* * **
2650797 -ATATATAATTTTGGA-AA
1 TTTTTATAATTTTTTAGAA
*
2650814 TTTTTATAAATATTTT-GAA
1 TTTTTAT-AATTTTTTAGAA
* *
2650833 TTTTAAAAATTATTTT-GAA
1 TTTTTATAATT-TTTTAGAA
2650852 TTCTATTTATAATTTTT
1 -T-T-TTTATAATTTTT
2650869 GTTGAGGGAG
Statistics
Matches: 69, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
17 13 0.19
18 9 0.13
19 27 0.39
20 9 0.13
21 4 0.06
22 7 0.10
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTATAATTTTTTAGAA
Found at i:2654635 original size:16 final size:17
Alignment explanation
Indices: 2654606--2654639 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2654596 TGAATTGTAT
2654606 ATATGTATACATATATA
1 ATATGTATACATATATA
*
2654623 ATATGT-TATATATATA
1 ATATGTATACATATATA
2654639 A
1 A
2654640 GTAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGTATACATATATA
Found at i:2654844 original size:20 final size:19
Alignment explanation
Indices: 2654821--2654870 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2654811 TGTCTACATT
2654821 TTTTTTTTCTGAATTTTCAC
1 TTTTTTTT-TGAATTTTCAC
* *
2654841 TTTTTCCTTTGAATTTTCTC
1 TTTTT-TTTTGAATTTTCAC
2654861 TTCTTTTTTT
1 TT-TTTTTTT
2654871 TATTATCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.10, C:0.16, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTTTTTTGAATTTTCAC
Found at i:2661861 original size:52 final size:52
Alignment explanation
Indices: 2661779--2661883 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
2661769 TTCTCGTCGG
2661779 ATTTGTGGTCCCAAAACCACTGTTCCGACTAGACCCAAAATCGGGCTGTTAC
1 ATTTGTGGTCCCAAAACCACTGTTCCGACTAGACCCAAAATCGGGCTGTTAC
* * *
2661831 ATTTGTGGTTCCAAAACTACTGTTCGGACTAGACCCAAAATCGGGCTGTTAC
1 ATTTGTGGTCCCAAAACCACTGTTCCGACTAGACCCAAAATCGGGCTGTTAC
2661883 A
1 A
2661884 ATTTCAAAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (52 bp):
ATTTGTGGTCCCAAAACCACTGTTCCGACTAGACCCAAAATCGGGCTGTTAC
Found at i:2662018 original size:31 final size:31
Alignment explanation
Indices: 2661980--2662041 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
2661970 TAAAGATAGG
2661980 CCTACTATATGTCTACTATTGTTTCAATGCT
1 CCTACTATATGTCTACTATTGTTTCAATGCT
2662011 CCTACTATATGTCTACTATTGTTTCAATGCT
1 CCTACTATATGTCTACTATTGTTTCAATGCT
2662042 TAACAGTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (31 bp):
CCTACTATATGTCTACTATTGTTTCAATGCT
Found at i:2663700 original size:15 final size:15
Alignment explanation
Indices: 2663677--2663706 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2663667 ATTGTATAAC
2663677 ACTTGTTTTATTATT
1 ACTTGTTTTATTATT
*
2663692 ACTTTTTTTATTATT
1 ACTTGTTTTATTATT
2663707 TTAGAGGCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (15 bp):
ACTTGTTTTATTATT
Found at i:2664320 original size:20 final size:20
Alignment explanation
Indices: 2664297--2664346 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2664287 AATATATAAT
*
2664297 TTTTGAAGTTTTTATAAA-TA
1 TTTTGAA-TTTTTAAAAATTA
2664317 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
2664336 TTTTGAATTTT
1 TTTTGAATTTT
2664347 ATTTGTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 8 0.30
19 9 0.33
20 10 0.37
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAATTA
Found at i:2664327 original size:28 final size:27
Alignment explanation
Indices: 2664263--2664317 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
2664253 TAACTCTTTT
*
2664263 TATAT-ATTTTTAGAATTTTTTAAAAA
1 TATATAATTTTTAGAAGTTTTTAAAAA
*
2664289 TATATAATTTTT-GAAGTTTTTATAAA
1 TATATAATTTTTAGAAGTTTTTAAAAA
2664315 TAT
1 TAT
2664318 TTTGAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
TATATAATTTTTAGAAGTTTTTAAAAA
Found at i:2664337 original size:19 final size:18
Alignment explanation
Indices: 2664306--2664347 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
2664296 TTTTTGAAGT
*
2664306 TTTTATAAATATTTTGAA
1 TTTTAAAAATATTTTGAA
2664324 TTTTAAAAATTATTTTGAA
1 TTTTAAAAA-TATTTTGAA
2664343 TTTTA
1 TTTTA
2664348 TTTGTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:2669377 original size:30 final size:29
Alignment explanation
Indices: 2669332--2669388 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
2669322 GAGGGCATGC
* *
2669332 AAAAAGAAAAGGAAGAAGAAAGAAAAAAAT
1 AAAAAAAAAAAGAAGAA-AAAGAAAAAAAT
*
2669362 AAAAAAAAAAAGAAGAAAAAGGAAAAA
1 AAAAAAAAAAAGAAGAAAAAGAAAAAA
2669389 TTATGACACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (29 bp):
AAAAAAAAAAAGAAGAAAAAGAAAAAAAT
Found at i:2675269 original size:5 final size:5
Alignment explanation
Indices: 2675259--2675288 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
2675249 ATGAAGCAAC
2675259 ATAAA ATAAA ATAAA ATAAA ATGAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA AT-AAA ATAA
2675289 GAACCACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:2675385 original size:3 final size:3
Alignment explanation
Indices: 2675377--2675401 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2675367 AAACAAGCAA
2675377 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
2675402 GAGACAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2676532 original size:20 final size:19
Alignment explanation
Indices: 2676495--2676549 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
2676485 TTTGTTTTGT
2676495 TTTCTTT-TGTTTGCTTCTA
1 TTTCTTTCT-TTTGCTTCTA
*
2676514 TTTCTTTCTTTTCGCTTCTG
1 TTTCTTTCTTTT-GCTTCTA
2676534 TTGTC-TTCTTTTGCTT
1 TT-TCTTTCTTTTGCTT
2676550 GCGTGTTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 14 0.44
20 16 0.50
21 2 0.06
ACGTcount: A:0.02, C:0.20, G:0.11, T:0.67
Consensus pattern (19 bp):
TTTCTTTCTTTTGCTTCTA
Found at i:2677731 original size:45 final size:45
Alignment explanation
Indices: 2677681--2677826 Score: 143
Period size: 45 Copynumber: 3.3 Consensus size: 45
2677671 ATTGTAACAC
* *
2677681 CAGGGAAATAAGATTTGTTGTCTTCAGTCTGCTCTACTGCAACTT
1 CAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCACTGCAACTT
* ** * * * * *
2677726 CAGGGAGATAAG-GCTCCTGGCTTCAATCTGATCCACTGCAA-TGC
1 CAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCACTGCAACT-T
* *
2677770 CAGGGAAATAAGATTTGCTGTCTTTAGTCTGCTCCGCTGCAACTT
1 CAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCACTGCAACTT
* *
2677815 TAGGGAGATAAG
1 CAGGGAAATAAG
2677827 GCTGGTGGCT
Statistics
Matches: 76, Mismatches: 22, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
43 1 0.01
44 32 0.42
45 42 0.55
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCACTGCAACTT
Found at i:2677783 original size:143 final size:143
Alignment explanation
Indices: 2677148--2677766 Score: 909
Period size: 143 Copynumber: 4.3 Consensus size: 143
2677138 TGCTCCACTA
* * ** * **
2677148 CAACTTCAGGGAGAT-AGGATCGGTGGCTTCAATCTGCTTGACTGCAACTTTAAAAAGATAAGAT
1 CAACTTCAGGGAGATAAGGCT-GGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAT
* * * * *
2677212 CTGCCATAATTTGTATCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGATTCGATGTCTTC
65 CCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTC
*
2677277 AGTCTGCTCCGCTG
130 AGTCTGCTCTGCTG
* *
2677291 TAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAGGATC
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATC
* * *
2677356 TGCCATAATTTGTAGCTTTAACCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGGTGTCTTCA
66 CGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCA
*
2677421 GTTTGCTCTGCTG
131 GTCTGCTCTGCTG
* * *
2677434 CAACTTTAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATC
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATC
** *
2677499 CATCATAATTTGTAGCTTTAATCTGTTCCACTGTAACGCCAGGGAAATAAGATTTGTTGTCTTCA
66 CGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCA
*
2677564 GTCTGTTCTGCTG
131 GTCTGCTCTGCTG
*
2677577 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATC
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATC
* * *
2677642 CGCCATAATTTGTAGCTTTAATCTGTTCCATTGTAACACCAGGGAAATAAGATTTGTTGTCTTCA
66 CGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCA
*
2677707 GTCTGCTCTACTG
131 GTCTGCTCTGCTG
**
2677720 CAACTTCAGGGAGATAAGGCTCCTGGCTTCAATCTGA-TCCACTGCAA
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCT-ACTCCACTGCAA
2677767 TGCCAGGGAA
Statistics
Matches: 433, Mismatches: 41, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
143 428 0.99
144 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (143 bp):
CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATC
CGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCA
GTCTGCTCTGCTG
Found at i:2677783 original size:232 final size:232
Alignment explanation
Indices: 2677513--2677999 Score: 661
Period size: 232 Copynumber: 2.1 Consensus size: 232
2677503 ATAATTTGTA
* * * * * *
2677513 GCTTTAATCTGTTCCACTGTAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCTGTTCTGCTGC
1 GCTTCAATCTGATCCACTGCAACGCCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGC
* * * *
2677578 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTC-AGAAAGATAAGATC
66 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATATACCCCACTACAAATTCAAG-AAGATAAGATC
* * * * ***
2677642 CGCCATAATTTGTAGCTTTAATCTGTTCCATTGTAACACCAGGGAAATAAGATTTGTTGTCTTCA
130 CGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAAATTCACTGTCTTCA
* * *
2677707 GTCTGCTCTACTGCAACTTCAGGGAGATAAGGCTCCTG
195 GTCTACTCCACTGCAACTTCAGGGAAATAAGGCTCCTG
* *
2677745 GCTTCAATCTGATCCACTGCAATGCCAGGGAAATAAGATTTGCTGTCTTTAGTCTGCTCCGCTGC
1 GCTTCAATCTGATCCACTGCAACGCCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGC
* * *
2677810 AACTTTAGGGAGATAAGGCTGGTGGCTTGAATATGCCCCACTACAAATTCAAGAAGATAAGATCC
66 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATATACCCCACTACAAATTCAAGAAGATAAGATCC
** * *
2677875 GCCATAATTTGTAGCTTTAATCTATTCCACTGCAATGCTAGGGAAATAAAATTCACTGTCTTTAG
131 GCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAAATTCACTGTCTTCAG
* **
2677940 TCTACTCCGCTGCAACTTCAGGGAAATAAGGCTGGTG
196 TCTACTCCACTGCAACTTCAGGGAAATAAGGCTCCTG
*
2677977 GCTTCAATCTGCTCCACTGCAAC
1 GCTTCAATCTGATCCACTGCAAC
2678000 TTCAGGAAGA
Statistics
Matches: 220, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
232 218 0.99
233 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (232 bp):
GCTTCAATCTGATCCACTGCAACGCCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGC
AACTTCAGGGAGATAAGGCTGGTGGCTTCAATATACCCCACTACAAATTCAAGAAGATAAGATCC
GCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAAATTCACTGTCTTCAG
TCTACTCCACTGCAACTTCAGGGAAATAAGGCTCCTG
Found at i:2677851 original size:89 final size:89
Alignment explanation
Indices: 2677680--2677851 Score: 245
Period size: 89 Copynumber: 1.9 Consensus size: 89
2677670 CATTGTAACA
* *
2677680 CCAGGGAAATAAGATTTGTTGTCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGGCTCCTG
1 CCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTCCTG
* *
2677745 GCTTCAATCTGATCCACTGCAATG
66 GCTTCAATATGACCCACTGCAATG
* * * **
2677769 CCAGGGAAATAAGATTTGCTGTCTTTAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTG
1 CCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTCCTG
* *
2677834 GCTTGAATATGCCCCACT
66 GCTTCAATATGACCCACT
2677852 ACAAATTCAA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (89 bp):
CCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTCCTG
GCTTCAATATGACCCACTGCAATG
Found at i:2678009 original size:143 final size:143
Alignment explanation
Indices: 2677757--2678168 Score: 590
Period size: 143 Copynumber: 2.9 Consensus size: 143
2677747 TTCAATCTGA
* * *
2677757 TCCACTGCAATGCCAGGGAAATAAGATTTGCTGTCTTTAGTCTGCTCCGCTGCAACTTTAGGGAG
1 TCCACTGCAATGCTAGGGAAATAAGATTCGCTGTCTTTAGTCTGCTCCGCTGCAACTTCAGGGAG
* * * * * *
2677822 ATAAGGCTGGTGGCTTGAATATGCCCCACTACAAATTCAAGAAGATAAGATCCGCCATAATTTGT
66 ATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGT
2677887 AGCTTTAATCTAT
131 AGCTTTAATCTAT
* * * *
2677900 TCCACTGCAATGCTAGGGAAATAAAATTCACTGTCTTTAGTCTACTCCGCTGCAACTTCAGGGAA
1 TCCACTGCAATGCTAGGGAAATAAGATTCGCTGTCTTTAGTCTGCTCCGCTGCAACTTCAGGGAG
2677965 ATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGT
66 ATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGT
*
2678030 AGCTTTAATCTGT
131 AGCTTTAATCTAT
* * ** * * * * *
2678043 TCCACCGTAACACTAAGGAAATAAGATTCGCTGTCTTCAGTTTGTTCCACTGCAACTTCAGGGAG
1 TCCACTGCAATGCTAGGGAAATAAGATTCGCTGTCTTTAGTCTGCTCCGCTGCAACTTCAGGGAG
* * *
2678108 ATAAGGCTGGTGGCTTCAGTCTGCTCCACTGTAACTTCAGGAAGATAAGATCTGCCATAAT
66 ATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAAT
2678169 GACTTCAATC
Statistics
Matches: 239, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
143 239 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (143 bp):
TCCACTGCAATGCTAGGGAAATAAGATTCGCTGTCTTTAGTCTGCTCCGCTGCAACTTCAGGGAG
ATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGT
AGCTTTAATCTAT
Found at i:2678158 original size:375 final size:375
Alignment explanation
Indices: 2677382--2678138 Score: 1136
Period size: 375 Copynumber: 2.0 Consensus size: 375
2677372 TTTAACCTGT
* * * *
2677382 TCCACTGCAACGCCAGGGAAATAAGATTTGGTGTCTTCAGTTTGCTCTGCTGCAACTTTAGAGAG
1 TCCACTGCAATGCCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGAGAG
* * * * * *
2677447 ATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCATCATAATTTGT
66 ATAAGGCTGGTGGCTTCAATATGCCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGT
* * * *** ** *
2677512 AGCTTTAATCTGTTCCACTGTAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCTGTTCTGCTG
131 AGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAAATTCACTGTCTTCAGTCTACTCCGCTG
*
2677577 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATC
196 CAACTTCAGGGAAATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATC
** * * *
2677642 CGCCATAATTTGTAGCTTTAATCTGTTCCATTGTAACACCAGGGAAATAAGATTTGTTGTCTTCA
261 CGCCATAATTTGTAGCTTTAATCTGTTCCACCGTAACACCAAGGAAATAAGATTCGCTGTCTTCA
*
2677707 GTCTGCTCTACTGCAACTTCAGGGAGATAAGGCTCCTGGCTTCAATCTGA
326 GTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTCCTGGCTTCAATCTGA
* *
2677757 TCCACTGCAATGCCAGGGAAATAAGATTTGCTGTCTTTAGTCTGCTCCGCTGCAACTTTAGGGAG
1 TCCACTGCAATGCCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGAGAG
* *
2677822 ATAAGGCTGGTGGCTTGAATATGCCCCACTACAAATTCAAGAAGATAAGATCCGCCATAATTTGT
66 ATAAGGCTGGTGGCTTCAATATGCCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGT
* * *
2677887 AGCTTTAATCTATTCCACTGCAATGCTAGGGAAATAAAATTCACTGTCTTTAGTCTACTCCGCTG
131 AGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAAATTCACTGTCTTCAGTCTACTCCGCTG
* *
2677952 CAACTTCAGGGAAATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATC
196 CAACTTCAGGGAAATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATC
*
2678017 CGCCATAATTTGTAGCTTTAATCTGTTCCACCGTAACACTAAGGAAATAAGATTCGCTGTCTTCA
261 CGCCATAATTTGTAGCTTTAATCTGTTCCACCGTAACACCAAGGAAATAAGATTCGCTGTCTTCA
* * ** * *
2678082 GTTTGTTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAGTCTGC
326 GTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTCCTGGCTTCAATCTGA
2678132 TCCACTG
1 TCCACTG
2678139 TAACTTCAGG
Statistics
Matches: 340, Mismatches: 42, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
375 340 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (375 bp):
TCCACTGCAATGCCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGAGAG
ATAAGGCTGGTGGCTTCAATATGCCCCACTACAAATTCAAGAAGATAAGATCCACCATAATTTGT
AGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAAATTCACTGTCTTCAGTCTACTCCGCTG
CAACTTCAGGGAAATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATC
CGCCATAATTTGTAGCTTTAATCTGTTCCACCGTAACACCAAGGAAATAAGATTCGCTGTCTTCA
GTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTCCTGGCTTCAATCTGA
Found at i:2679058 original size:17 final size:16
Alignment explanation
Indices: 2679036--2679067 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
2679026 CCTCTCCTTT
2679036 TTTTTTCTTTTCTTTTC
1 TTTTTTCTTTT-TTTTC
2679053 TTTTTTCTTTTTTTT
1 TTTTTTCTTTTTTTT
2679068 AAGTGAAGCG
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTC
Found at i:2680593 original size:13 final size:13
Alignment explanation
Indices: 2680575--2680637 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
2680565 TTTTCATTGT
2680575 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
2680588 TTTTGAAAAGTTC
1 TTTTGAAAAGTGC
* * *
2680601 TGTGGAAAAGTAC
1 TTTTGAAAAGTGC
*
2680614 TTTTGAAGAGTGC
1 TTTTGAAAAGTGC
*
2680627 TTTTAAAAAGT
1 TTTTGAAAAGT
2680638 TTGGTTTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Done.