Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 269 of 325
Found at i:83509057 original size:149 final size:149
Alignment explanation
Indices: 83508782--83509081 Score: 546
Period size: 149 Copynumber: 2.0 Consensus size: 149
83508772 CTTGATTTCC
*
83508782 ATAACCAACTTATCATTTGGAAGTAAAGATCCACTTTCAATGATCGATTCGAGTTTAAAGTGTAC
1 ATAACCAACTTATCATTTGGAAGTAAAGATCCACTTTCAAGGATCGATTCGAGTTTAAAGTGTAC
83508847 CGAGGCTAAGGCTAAGCATTCACATATTTGATTTACCAATTTAATTTAAATTACTTAATTTTATT
66 CGAGGCTAAGGCTAAGCATTCACATATTTGATTTACCAATTTAATTTAAATTACTTAATTTTATT
83508912 TTGCAACTATCATTCTGTT
131 TTGCAACTATCATTCTGTT
* * * * *
83508931 ATAAGCAACTTATCGTTTGGAAGTAAATATCCACTTTCAAGGATTGATTCGAGTTTAGAGTGTAC
1 ATAACCAACTTATCATTTGGAAGTAAAGATCCACTTTCAAGGATCGATTCGAGTTTAAAGTGTAC
83508996 CGAGGCTAAGGCTAAGCATTCACATATTTGATTTACCAATTTAATTTAAATTACTTAATTTTATT
66 CGAGGCTAAGGCTAAGCATTCACATATTTGATTTACCAATTTAATTTAAATTACTTAATTTTATT
83509061 TTGCAACTATCATTCTGTT
131 TTGCAACTATCATTCTGTT
83509080 AT
1 AT
83509082 TATTTCACTT
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 145 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (149 bp):
ATAACCAACTTATCATTTGGAAGTAAAGATCCACTTTCAAGGATCGATTCGAGTTTAAAGTGTAC
CGAGGCTAAGGCTAAGCATTCACATATTTGATTTACCAATTTAATTTAAATTACTTAATTTTATT
TTGCAACTATCATTCTGTT
Found at i:83509664 original size:3 final size:3
Alignment explanation
Indices: 83509656--83509738 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
83509646 ATCATTTATT
83509656 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
83509704 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
83509739 TTTAAATCTT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:83511083 original size:23 final size:25
Alignment explanation
Indices: 83511057--83511117 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 25
83511047 TAATTTAGCC
*
83511057 ATTTTTATTTTTTA-TTTCA-TTTT
1 ATTTTTATTTTTTAGTTTAATTTTT
*
83511080 ATTTTT-GTTTTTAGTTTAATTTTT
1 ATTTTTATTTTTTAGTTTAATTTTT
*
83511104 GTTTTCTATTTTTT
1 ATTTT-TATTTTTT
83511118 CTTTTGTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 6 0.20
23 10 0.33
24 8 0.27
25 1 0.03
26 5 0.17
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (25 bp):
ATTTTTATTTTTTAGTTTAATTTTT
Found at i:83517606 original size:19 final size:18
Alignment explanation
Indices: 83517584--83517646 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
83517574 TTTTCTTTAA
*
83517584 TTTAATTTATTTTGCTTTC
1 TTTAATTTATTTT-ATTTC
*
83517603 TTTATTTTATTTTATTTC
1 TTTAATTTATTTTATTTC
83517621 --T-ATTTA-TTTATTTC
1 TTTAATTTATTTTATTTC
83517635 TTTAA-TTATTTT
1 TTTAATTTATTTT
83517647 TTGTTATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 8 0.22
15 4 0.11
16 5 0.14
17 4 0.11
18 4 0.11
19 12 0.32
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTAATTTATTTTATTTC
Found at i:83520713 original size:22 final size:22
Alignment explanation
Indices: 83520674--83520732 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
83520664 GTTTTAATAA
*
83520674 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
83520695 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
83520717 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
83520733 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:83520749 original size:26 final size:24
Alignment explanation
Indices: 83520703--83520762 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
83520693 ATTTGTTTTA
*
83520703 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
83520727 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
83520753 TTTTTTATTT
1 ATATTTATTT
83520763 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:83523643 original size:11 final size:11
Alignment explanation
Indices: 83523627--83523710 Score: 52
Period size: 11 Copynumber: 7.6 Consensus size: 11
83523617 CTTAATCATT
83523627 TTAATATTAAA
1 TTAATATTAAA
83523638 TTAATA-TAATA
1 TTAATATTAA-A
* *
83523649 TTTATGATAAATA
1 TTAAT-ATTAA-A
83523662 TTAA-ATTAAA
1 TTAATATTAAA
83523672 TTTAATATT-AA
1 -TTAATATTAAA
* *
83523683 -T-ATAATCAAT
1 TTAAT-ATTAAA
83523693 TTAATATTAAA
1 TTAATATTAAA
83523704 TTAATAT
1 TTAATAT
83523711 ACTATTAAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
8 2 0.04
9 3 0.05
10 5 0.09
11 33 0.59
12 6 0.11
13 7 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:83523696 original size:66 final size:65
Alignment explanation
Indices: 83523619--83523747 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 65
83523609 TGATTAAACT
* *
83523619 TAATCATTTTAATATTAAATTAATATAATATTTATGATAAATATTAAATTAAATTTAATATTAAT
1 TAATCAATTTAATATTAAATTAATATAATA-TTAAGATAAATATTAAATTAAATTTAATATTAAT
83523684 A
65 A
* * *
83523685 TAATCAATTTAATATTAAATTAATATACTATTAAGATAAGTATTAAATTTAATTTAATATTAA
1 TAATCAATTTAATATTAAATTAATATAATATTAAGATAAATATTAAATTAAATTTAATATTAA
83523748 ACTATTAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
65 30 0.52
66 28 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (65 bp):
TAATCAATTTAATATTAAATTAATATAATATTAAGATAAATATTAAATTAAATTTAATATTAATA
Found at i:83523708 original size:20 final size:20
Alignment explanation
Indices: 83523611--83523708 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 20
83523601 TTCAACTATG
*
83523611 ATTAAACTTAATCATTTTAAT
1 ATTAAA-TTAATCAATTTAAT
* *
83523632 ATTAAATTAATATAATATTTAT
1 ATTAAATTAAT-CAAT-TTAAT
* *
83523654 GATAAATATTAAATTAAATTTAAT
1 -ATTAA-ATT-AA-TCAATTTAAT
83523678 ATT-AATATAATCAATTTAAT
1 ATTAAAT-TAATCAATTTAAT
83523698 ATTAAATTAAT
1 ATTAAATTAAT
83523709 ATACTATTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
20 21 0.34
21 15 0.25
22 6 0.10
23 6 0.10
24 7 0.11
25 5 0.08
26 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (20 bp):
ATTAAATTAATCAATTTAAT
Found at i:83525967 original size:22 final size:22
Alignment explanation
Indices: 83525942--83525986 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
83525932 TCTCCCCATT
*
83525942 AGGCATCGGTGTCGCAACACCC
1 AGGCATCGATGTCGCAACACCC
* * *
83525964 AGGCTTCGATGTTGCGACACCC
1 AGGCATCGATGTCGCAACACCC
83525986 A
1 A
83525987 AAATAGTGGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (22 bp):
AGGCATCGATGTCGCAACACCC
Found at i:83527667 original size:17 final size:18
Alignment explanation
Indices: 83527647--83527687 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
83527637 ACAACTATAT
83527647 TTTAAAAGAAGT-TAAAA
1 TTTAAAAGAAGTGTAAAA
* *
83527664 TTT-AAAGAATTGTAAAT
1 TTTAAAAGAAGTGTAAAA
83527681 TTTAAAA
1 TTTAAAA
83527688 TTTCATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 10 0.50
18 3 0.15
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (18 bp):
TTTAAAAGAAGTGTAAAA
Found at i:83535476 original size:20 final size:22
Alignment explanation
Indices: 83535442--83535481 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
83535432 TTAAGTTGTT
83535442 TTTTTTTTACAAATTTTTATAA
1 TTTTTTTTACAAATTTTTATAA
83535464 TTTTTTTT-C-AATTTTTAT
1 TTTTTTTTACAAATTTTTAT
83535482 GTGTTATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTTTACAAATTTTTATAA
Found at i:83540479 original size:22 final size:22
Alignment explanation
Indices: 83540431--83540479 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
83540421 TGTTAATATT
* *
83540431 ATTAACTAATTATAAATTTTTA
1 ATTAACTAATTATAAAATTTAA
* * *
83540453 TTTAATTAATTTTAAAATTTAA
1 ATTAACTAATTATAAAATTTAA
83540475 ATTAA
1 ATTAA
83540480 ACACTAAAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTAACTAATTATAAAATTTAA
Found at i:83543114 original size:4 final size:4
Alignment explanation
Indices: 83543101--83543143 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
83543091 GTACTCCAAT
83543101 TTTA -TTA TTTA TTTA TTTTA TTTTA TTTA TTTA TTT- TTTA TTT
1 TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA TTT
83543144 TTATAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 6 0.17
4 21 0.58
5 9 0.25
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:83543127 original size:14 final size:15
Alignment explanation
Indices: 83543108--83543143 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
83543098 AATTTTATTA
83543108 TTTATTTATTT-TAT
1 TTTATTTATTTATAT
*
83543122 TTTATTTATTTATTT
1 TTTATTTATTTATAT
83543137 TTTATTT
1 TTTATTT
83543144 TTATAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTATTTATAT
Found at i:83543946 original size:45 final size:45
Alignment explanation
Indices: 83543896--83544002 Score: 178
Period size: 45 Copynumber: 2.4 Consensus size: 45
83543886 ATAGCAGTAG
* *
83543896 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTTGAATCGGTAA
* *
83543941 CAGTAACGGTAACAATATTCGACACACAAAGTGTTGAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTTGAATCGGTAA
83543986 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
83544003 ACAGTAGTCG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGTTGAATCGGTAA
Found at i:83543997 original size:12 final size:12
Alignment explanation
Indices: 83543980--83544004 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83543970 AGTGTTGAAT
83543980 CGGTAACAGTAA
1 CGGTAACAGTAA
83543992 CGGTAACAGTAA
1 CGGTAACAGTAA
83544004 C
1 C
83544005 AGTAGTCGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:83545067 original size:5 final size:5
Alignment explanation
Indices: 83545057--83545091 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
83545047 TGTTTCTTTT
83545057 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
83545092 CTTATTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:83545709 original size:26 final size:25
Alignment explanation
Indices: 83545678--83545734 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
83545668 TATAATAAAT
*
83545678 AAGAAACAGAAAGAAATAGAATAGAA
1 AAGAAACAGAAAGAAAAAGAA-AGAA
* **
83545704 ATGAAACAGGGAGAAAAAGAAAGAA
1 AAGAAACAGAAAGAAAAAGAAAGAA
83545729 AAGAAA
1 AAGAAA
83545735 AAAGGGAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.68, C:0.04, G:0.23, T:0.05
Consensus pattern (25 bp):
AAGAAACAGAAAGAAAAAGAAAGAA
Found at i:83545740 original size:26 final size:25
Alignment explanation
Indices: 83545689--83545751 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
83545679 AGAAACAGAA
* * *
83545689 AGAAATAGAATAGAAATGAAACAGGG
1 AGAAAAAGAA-AGAAAAGAAAAAGGG
83545715 AGAAAAAGAAAGAAAAGAAAAAAGGG
1 AGAAAAAGAAAGAAAAG-AAAAAGGG
83545741 A-AAGAAAGAAA
1 AGAA-AAAGAAA
83545752 TGAGAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.25
26 24 0.75
ACGTcount: A:0.68, C:0.02, G:0.25, T:0.05
Consensus pattern (25 bp):
AGAAAAAGAAAGAAAAGAAAAAGGG
Found at i:83546579 original size:18 final size:18
Alignment explanation
Indices: 83546556--83546838 Score: 160
Period size: 18 Copynumber: 15.3 Consensus size: 18
83546546 AAATAATTAT
83546556 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
83546574 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
83546592 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
83546610 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
83546636 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
83546654 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
83546671 ATATTCAGTAGCAATTAAG
1 TTATTCAGTAAC-AGTCAG
* *
83546690 TTATTCGGTAACAGTCAT
1 TTATTCAGTAACAGTCAG
* *
83546708 TTATTCAGTGACAATCAG
1 TTATTCAGTAACAGTCAG
* *
83546726 TTATTCAGTAA-TGATCAT
1 TTATTCAGTAACAG-TCAG
* *
83546744 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
83546762 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* *
83546780 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
83546798 TTATTC-GATAACAGTCAA
1 TTATTCAG-TAACAGTCAG
* * *
83546816 TTATTCAGAAATAATCAG
1 TTATTCAGTAACAGTCAG
83546834 TTATT
1 TTATT
83546839 TTATACATTT
Statistics
Matches: 199, Mismatches: 50, Indels: 32
0.71 0.18 0.11
Matches are distributed among these distances:
17 14 0.07
18 153 0.77
19 16 0.08
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:83546598 original size:36 final size:36
Alignment explanation
Indices: 83546556--83546838 Score: 185
Period size: 36 Copynumber: 7.6 Consensus size: 36
83546546 AAATAATTAT
* *
83546556 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
83546592 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
83546628 TTGATCGGTTATCCAGTAACAGTCAATTATTTAGTAA-AATCAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * * *
83546672 -TATTCAGTAGCAATTAAGTTATTCGGTAACAGTCAT
1 TTATTCAGTAACAA-TCAGTTATTCAGTAACAATCAA
* ** *
83546708 TTATTCAGTGACAATCAGTTATTCAGTAATGATCAT
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * *
83546744 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * *
83546780 TTATCCAGTAACAGTCAATTATTC-GATAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAG-TAACAATCAA
* *
83546816 TTATTCAGAAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
83546839 TTATACATTT
Statistics
Matches: 186, Mismatches: 48, Indels: 26
0.72 0.18 0.10
Matches are distributed among these distances:
35 8 0.04
36 135 0.73
37 17 0.09
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:83546748 original size:54 final size:54
Alignment explanation
Indices: 83546643--83546838 Score: 182
Period size: 54 Copynumber: 3.6 Consensus size: 54
83546633 CGGTTATCCA
* * * * *
83546643 GTAACAGTCAATTATTTAGTAA-AATCAGATATTCAGTAGCAATTAAGTTATTCG
1 GTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTCAA-TTATTCG
* * * * *
83546697 GTAACAGTCATTTATTCAGTGACAATCAGTTATTCAGTAA-TGATCATTTATTCA
1 GTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAACAG-TCAATTATTCG
* * * * *
83546751 GTAATATTCAGTTATTCAGTAACAGTCTA-TTATCCAGTAACAGTCAATTATTCG
1 GTAACAGTCAATTATTCAGTAACAATC-AGTTATTCAGTAACAGTCAATTATTCG
* * *
83546805 ATAACAGTCAATTATTCAGAAATAATCAGTTATT
1 GTAACAGTCAATTATTCAGTAACAATCAGTTATT
83546839 TTATACATTT
Statistics
Matches: 110, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
53 1 0.01
54 90 0.82
55 19 0.17
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (54 bp):
GTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTCAATTATTCG
Found at i:83547013 original size:6 final size:6
Alignment explanation
Indices: 83547002--83547032 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
83546992 ACAAATCCGA
*
83547002 AACAGT AACAGT AATAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
83547033 TTCAACACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (6 bp):
AACAGT
Found at i:83547069 original size:45 final size:45
Alignment explanation
Indices: 83547017--83547122 Score: 176
Period size: 45 Copynumber: 2.4 Consensus size: 45
83547007 TAACAGTAAT
83547017 AGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGATAAC
1 AGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGATAAC
* * * *
83547062 GGTAACAGTAACATTATTCGACACACAAAGTGCTGAATCGGTAAC
1 AGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGATAAC
83547107 AGTAACAGTAACAGTA
1 AGTAACAGTAACAGTA
83547123 ACAGTAGTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (45 bp):
AGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGATAAC
Found at i:83547113 original size:6 final size:6
Alignment explanation
Indices: 83547102--83547128 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
83547092 TGCTGAATCG
83547102 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
83547129 GTCGGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:83548787 original size:16 final size:17
Alignment explanation
Indices: 83548766--83548797 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
83548756 TTAAACCTCA
83548766 ATTTTC-CCTTTCTTTT
1 ATTTTCTCCTTTCTTTT
83548782 ATTTTCTCCTTTCTTT
1 ATTTTCTCCTTTCTTT
83548798 CTTTCTTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTCTCCTTTCTTTT
Found at i:83573319 original size:9 final size:9
Alignment explanation
Indices: 83573305--83573363 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
83573295 TTTGGTTAAA
83573305 AATTAACCG
1 AATTAACCG
83573314 AATTAACCG
1 AATTAACCG
*
83573323 AATTACCCG
1 AATTAACCG
*
83573332 AATTACCCG
1 AATTAACCG
**
83573341 AATTATTCG
1 AATTAACCG
83573350 AATTAACCG
1 AATTAACCG
83573359 AATTA
1 AATTA
83573364 CCCAAATCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:83573380 original size:27 final size:27
Alignment explanation
Indices: 83573323--83573380 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
83573313 GAATTAACCG
* * * ** *
83573323 AATTACCCGAATTACCCGAATTATTCG
1 AATTAACCGAATTACCCAAATCACCCA
83573350 AATTAACCGAATTACCCAAATCACCCA
1 AATTAACCGAATTACCCAAATCACCCA
83573377 AATT
1 AATT
83573381 TGAATCATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.28, G:0.07, T:0.26
Consensus pattern (27 bp):
AATTAACCGAATTACCCAAATCACCCA
Found at i:83573406 original size:17 final size:17
Alignment explanation
Indices: 83573386--83573449 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
83573376 AAATTTGAAT
83573386 CATTACATAATTAAAAA
1 CATTACATAATTAAAAA
** *
83573403 CATTACATAAGTCTTTGAAT
1 CATTACATAA---TTAAAAA
*
83573423 CACTACATAATTAAAAA
1 CATTACATAATTAAAAA
83573440 CATTACATAA
1 CATTACATAA
83573450 GTCTTGAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
17 23 0.64
20 13 0.36
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (17 bp):
CATTACATAATTAAAAA
Found at i:83573420 original size:37 final size:37
Alignment explanation
Indices: 83573379--83573454 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
83573369 ATCACCCAAA
*
83573379 TTTGAATCATTACATAATTAAAAACATTACATAAGTC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
83573416 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
83573453 TT
1 TT
83573455 GAAATTAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (37 bp):
TTTGAATCACTACATAATTAAAAACATTACATAAGTC
Found at i:83575433 original size:46 final size:46
Alignment explanation
Indices: 83575366--83575457 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
83575356 GTAGTTCGTG
83575366 AAGGAATATGAAACCTAGGACATGCCACAACCATAAATTTATTAAA
1 AAGGAATATGAAACCTAGGACATGCCACAACCATAAATTTATTAAA
83575412 AAGGAATATGAAACCTAGGACATGCCACAACCATAAATTTATTAAA
1 AAGGAATATGAAACCTAGGACATGCCACAACCATAAATTTATTAAA
83575458 GCCTTTACTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (46 bp):
AAGGAATATGAAACCTAGGACATGCCACAACCATAAATTTATTAAA
Found at i:83578157 original size:18 final size:18
Alignment explanation
Indices: 83578134--83578169 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
83578124 TTTGCTATTA
*
83578134 TGTTTCTTTGTTTCTTTT
1 TGTTTCTTTATTTCTTTT
83578152 TGTTTCTTTATTTCTTTT
1 TGTTTCTTTATTTCTTTT
83578170 ATTTACCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.03, C:0.11, G:0.08, T:0.78
Consensus pattern (18 bp):
TGTTTCTTTATTTCTTTT
Found at i:83578323 original size:13 final size:14
Alignment explanation
Indices: 83578307--83578335 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
83578297 CATAATTTGA
83578307 TTTATTTA-TTTAT
1 TTTATTTACTTTAT
83578320 TTTATTTACTTTAT
1 TTTATTTACTTTAT
83578334 TT
1 TT
83578336 AATTAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTACTTTAT
Found at i:83578625 original size:13 final size:13
Alignment explanation
Indices: 83578607--83578632 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83578597 ACAATTAACT
83578607 TTATAAATATTTA
1 TTATAAATATTTA
83578620 TTATAAATATTTA
1 TTATAAATATTTA
83578633 CGAATCCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATAAATATTTA
Found at i:83582575 original size:47 final size:47
Alignment explanation
Indices: 83582510--83582775 Score: 235
Period size: 47 Copynumber: 5.7 Consensus size: 47
83582500 ATTGTTGGCT
*
83582510 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGATGAGAGCC
*
83582556 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACA-T--GATGAGAGCC
* * * * *
83582604 AGTGTAAGACATATCTGGGACAT-GCATGGGCCTCGTGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGATG-AGAGCC
* * * * *
83582650 AATGTAAGACATGTCTGGGACATGG-ATCCGCTACGA-GATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-ATGATGAGAGCC
* *** *
83582696 AGTGTAAGATCATGTCTGGGACATGGCATCGACTTGA-GATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACATGATGAGAGCC
*
83582743 AGTGTAAAACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
83582776 ATTTTACCCA
Statistics
Matches: 178, Mismatches: 28, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
45 4 0.02
46 60 0.34
47 85 0.48
48 28 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGATGAGAGCC
Found at i:83582764 original size:140 final size:140
Alignment explanation
Indices: 83582512--83582767 Score: 381
Period size: 140 Copynumber: 1.8 Consensus size: 140
83582502 TGTTGGCTAG
* *
83582512 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCCGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGGGA
* *
83582577 CATGGCATCGACATTGAGATGAGAGCTAGTGTAAGACATATCTGGGACATGCATGGGCCTCGTGA
66 CATGGCATCGACATTGAGATGAGAGCCAGTGTAAAACATATCTGGGACATGCATGGGCCTCGTGA
83582642 CGTAAGCCAA
131 CGTAAGCCAA
* * * * *
83582652 TGTAAGACATGTCTGGGACATGGATCCGCTACGA-GATGATAGTCAGTGTAAGATCATGTCTGGG
1 TGTAAGACATGTCTGGGACATGCATCCGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTGGG
* *
83582716 ACATGGCATCGAC-TTGAGATGTGAGCCAGTGTAAAACCATGTCTGGGACATG
65 ACATGGCATCGACATTGAGATGAGAGCCAGTGTAAAA-CATATCTGGGACATG
83582768 GCATCGGCAT
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
139 20 0.19
140 82 0.80
141 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (140 bp):
TGTAAGACATGTCTGGGACATGCATCCGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGGGA
CATGGCATCGACATTGAGATGAGAGCCAGTGTAAAACATATCTGGGACATGCATGGGCCTCGTGA
CGTAAGCCAA
Found at i:83584322 original size:36 final size:36
Alignment explanation
Indices: 83584281--83584393 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 36
83584271 CGACAATAAA
* *
83584281 TGTGCCCTGCACTAGTCGGTAGAATCGACAAATATG
1 TGTGCCCTGCACTAGTCAGTAAAATCGACAAATATG
* * **
83584317 TGTG-CCTAGCACTGGTCAGTATAATCGAC-AATAAA
1 TGTGCCCT-GCACTAGTCAGTAAAATCGACAAATATG
** * *
83584352 TGCACCCTGCGCTAGTCAGTAAAACCGACAAATATG
1 TGTGCCCTGCACTAGTCAGTAAAATCGACAAATATG
83584388 TGTGCC
1 TGTGCC
83584394 TACACTGGTT
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
35 26 0.44
36 33 0.56
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (36 bp):
TGTGCCCTGCACTAGTCAGTAAAATCGACAAATATG
Found at i:83584367 original size:71 final size:70
Alignment explanation
Indices: 83584268--83584456 Score: 252
Period size: 70 Copynumber: 2.7 Consensus size: 70
83584258 TGGCCGATAA
* * * *
83584268 AACCGACAATAAATGTGCCCTGCACTAGTCGGTAGAATCGACAAATATGTGTGCCTAGCACTGGT
1 AACCGACAATAAATGCGCCCTGCGCTAGTCGGTAAAACCGACAAATATGTGTGCCTA-CACTGGT
83584333 CAGTAT
65 CAGTAT
* * * *
83584339 AATCGACAATAAATGCACCCTGCGCTAGTCAGTAAAACCGACAAATATGTGTGCCTACACTGGTT
1 AACCGACAATAAATGCGCCCTGCGCTAGTCGGTAAAACCGACAAATATGTGTGCCTACACTGGTC
*
83584404 GGTAT
66 AGTAT
* * * *
83584409 AACCGACAATAAATGCGCCTTGAGCTGGTTGGTAAAACCGACAAATAT
1 AACCGACAATAAATGCGCCCTGCGCTAGTCGGTAAAACCGACAAATAT
83584457 ATCTGAAATC
Statistics
Matches: 102, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
70 52 0.51
71 50 0.49
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (70 bp):
AACCGACAATAAATGCGCCCTGCGCTAGTCGGTAAAACCGACAAATATGTGTGCCTACACTGGTC
AGTAT
Found at i:83584413 original size:35 final size:36
Alignment explanation
Indices: 83584370--83584458 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 36
83584360 GCGCTAGTCA
* *
83584370 GTAAAACCGACAAATATGTGTGCCTACA-CTGGTTG
1 GTAAAACCGACAAATATATGCGCCTACAGCTGGTTG
* * **
83584405 GTATAACCGAC-AATAAATGCGCCTTGAGCTGGTTG
1 GTAAAACCGACAAATATATGCGCCTACAGCTGGTTG
83584440 GTAAAACCGACAAATATAT
1 GTAAAACCGACAAATATAT
83584459 CTGAAATCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 11 0.25
35 27 0.61
36 6 0.14
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (36 bp):
GTAAAACCGACAAATATATGCGCCTACAGCTGGTTG
Found at i:83595282 original size:72 final size:72
Alignment explanation
Indices: 83595165--83595304 Score: 217
Period size: 72 Copynumber: 1.9 Consensus size: 72
83595155 CCCCCTGGCG
* *
83595165 AGCCCGGGAAATAGTTATTGCCCGAAAAATCCGGATGATAAGAAGTACCAGCCGAATGTGAATGC
1 AGCCCGGGAAATAGTCATTGCCCGAAAAATCCGGATGATAAGAAGTACCAGCCGAATATGAATGC
83595230 GATGACA
66 GATGACA
** * * *
83595237 AGCCCGGGAAATAGTCATTGCCCGCCAAATCTGGATGATAAGAAGTATCAGTCGAATATGAATGC
1 AGCCCGGGAAATAGTCATTGCCCGAAAAATCCGGATGATAAGAAGTACCAGCCGAATATGAATGC
83595302 GAT
66 GAT
83595305 CGCTCAGACT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (72 bp):
AGCCCGGGAAATAGTCATTGCCCGAAAAATCCGGATGATAAGAAGTACCAGCCGAATATGAATGC
GATGACA
Found at i:83597030 original size:18 final size:17
Alignment explanation
Indices: 83596989--83597030 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
83596979 TAAATTTCGG
83596989 TTATTA-ATTTTAATAT
1 TTATTAGATTTTAATAT
83597005 TTGA-TAGATTTTAAATAT
1 TT-ATTAGATTTT-AATAT
83597023 TTATTAGA
1 TTATTAGA
83597031 ATAACTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.18
17 7 0.32
18 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TTATTAGATTTTAATAT
Found at i:83597210 original size:12 final size:12
Alignment explanation
Indices: 83597186--83597221 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
83597176 TTTTTTAAAA
83597186 TATATTAATTTTT
1 TATATT-ATTTTT
*
83597199 TATTTTATTTTT
1 TATATTATTTTT
83597211 TATATTATTTT
1 TATATTATTTT
83597222 AGCAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TATATTATTTTT
Found at i:83597476 original size:13 final size:13
Alignment explanation
Indices: 83597460--83597522 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
83597450 TTCGTATTTT
83597460 TTATTTTTGTATA
1 TTATTTTTGTATA
*
83597473 TTATTTTTTAAAATATA
1 TTA-TTTTT---GTATA
* *
83597490 TTATTTTCGTATT
1 TTATTTTTGTATA
*
83597503 TTATTTTTTTATA
1 TTATTTTTGTATA
83597516 TTATTTT
1 TTATTTT
83597523 AGCAAAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
13 23 0.59
14 5 0.13
16 4 0.10
17 7 0.18
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (13 bp):
TTATTTTTGTATA
Found at i:83597962 original size:12 final size:13
Alignment explanation
Indices: 83597934--83597969 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
83597924 TTTTTTAAAA
83597934 TATATTATTTTTG
1 TATATTATTTTTG
83597947 TATATTATTTTT-
1 TATATTATTTTTG
83597959 TATATTATTTT
1 TATATTATTTT
83597970 AGCAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:83598155 original size:148 final size:149
Alignment explanation
Indices: 83597161--83598423 Score: 1853
Period size: 150 Copynumber: 8.5 Consensus size: 149
83597151 ATAAGTAAAA
*
83597161 TATTTTCGTATATTATTTTTTAAAATATATTAATTTT-TTATTTTATTTTTTATATTATTTTAGC
1 TATTTTCGTATATTATTTTTTAAAATATATT-ATTTTCGTATTTTATTTTTTATATTATTTTAGC
* * * *
83597225 AAAAAATGTTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTTCATAAATAACTCTAATTTT
65 AAAAAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTT
*
83597290 -GACACTTTCTTCGTATTTTTT
130 AG-CACTTTATTCGTA-TTTTT
* * *
83597311 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTCTTTATATTATTTTAGT
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGC
* * * **
83597376 ACATAATGTTTCAAATATATTATTTAAGTGTTTTTTATATTCTTTTAATAAATAACCCTGATTTT
65 AAAAAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTT
83597441 AGCACTTTATTCGTATTTTT
130 AGCACTTTATTCGTATTTTT
*
83597461 TATTTTTGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGC
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTTATATTATTTTAGC
* * *
83597526 AAAAAATGTTTCAAATGTATTATTTAAATATTTTTTATATTAATTTAATAAATAACCCTAATTTT
65 AAAAAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTT
83597591 AGCACTTTA-TCGTATTTTT
130 AGCACTTTATTCGTATTTTT
* * * *
83597610 TATTTTCGTATATTATTTTTTAAAATATATTGTTTTTGTATTTTATTTCTTTATATTATTTCAGT
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGC
* * **
83597675 ACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTTTTTTAATAAATAACCCTGATTTT
65 AAAAAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTT
83597740 AGCACTTTATTCGTA-TTTT
130 AGCACTTTATTCGTATTTTT
83597759 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCA
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCA
* *
83597824 AAAAATGTTTCAAATGTATTATTTAAATGTTTTTTTATATTAATTTAATAAATACCCCTGATTTT
66 AAAAATGTTTCAAATGTATTATTTAAGTG-TTTTTTATATTAATTTAATAAATAACCCTGATTTT
83597889 AGCACTTTATTCGTATTTTT
130 AGCACTTTATTCGTATTTTT
* *
83597909 TATTTTCGTATATTATTTTTTAAAATATATTATTTTTGTATATTATTTTTTATATTATTTTAGCA
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCA
* *
83597974 AAAAATGTTTCAAATGTATTATTTAAGTG-TTTTTATATTAATTTAATAAATAACCCTAATTTTG
66 AAAAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTTA
* * *
83598038 GTACTTTCTTTGTATTTTT
131 GCACTTTATTCGTATTTTT
* * **
83598057 TATTTTCGTATCTT-TTTTTT-AAATATATTATTTTCATATTTTATTTATTTATATTATTTTAAT
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGC
* * * * *
83598120 ACATAATGTTTTAAATGTATTATTTAAGTGTTTTTTTATATT-TTTTAATAAATAGCCCTGATTT
65 AAAAAATGTTTCAAATGTATTATTTAAGTG-TTTTTTATATTAATTTAATAAATAACCCTGATTT
83598184 TAGCACTTTATTCGTATTTTT
129 TAGCACTTTATTCGTATTTTT
* *
83598205 TATTTTCGTATATTATTTTTTAAAATATATTATTTTTGTATTTTA-TTTATATATTATTTTAGCA
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCA
* * *
83598269 AAAAATATTTCAAATGTATTATTTAAGT-TTTTTTATATTAATTTAATAAATAACCCTGACTTTG
66 AAAAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTTA
* *
83598333 GCACTTTGTTCATATTTTTT
131 GCACTTTATTCGTA-TTTTT
* * * * *
83598353 TATTTTAGGATTTTATTTTTTAAAATATAATATTTTCATATTTTATTTTTTTATATTATTTTAGC
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTTATATTATTTTAGC
83598418 AAAAAA
65 AAAAAA
83598424 CTCGTCAGCA
Statistics
Matches: 1001, Mismatches: 95, Indels: 34
0.89 0.08 0.03
Matches are distributed among these distances:
146 34 0.03
147 79 0.08
148 236 0.24
149 253 0.25
150 312 0.31
151 86 0.09
152 1 0.00
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (149 bp):
TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCA
AAAAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTTA
GCACTTTATTCGTATTTTT
Found at i:83598989 original size:3 final size:3
Alignment explanation
Indices: 83598983--83599031 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
83598973 GGCTCCTCCC
* * *
83598983 TCT TCT TCT TC- TCT TCT T-T CCT TCT T-T TCT TTT TCT TCT TCT CCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
83599028 TCT T
1 TCT T
83599032 TGTTCCCGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 5 0.14
3 32 0.86
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:83599588 original size:13 final size:13
Alignment explanation
Indices: 83599572--83599596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83599562 TATAATTTTT
83599572 AAAAATAAAAATG
1 AAAAATAAAAATG
83599585 AAAAATAAAAAT
1 AAAAATAAAAAT
83599597 TCTTTAAAAT
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATG
Found at i:83599612 original size:36 final size:35
Alignment explanation
Indices: 83599572--83599640 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 35
83599562 TATAATTTTT
83599572 AAAAATAAAAATGAA-AAATAA-AAATTCTTTAAAATA
1 AAAAATAAAAA-GAATAAA-AAGAAATT-TTTAAAATA
83599608 AAAAATAAAAAGAATAAAAAGAAATTTTTAAAA
1 AAAAATAAAAAGAATAAAAAGAAATTTTTAAAA
83599641 AAATAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
35 12 0.39
36 19 0.61
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (35 bp):
AAAAATAAAAAGAATAAAAAGAAATTTTTAAAATA
Found at i:83600128 original size:39 final size:41
Alignment explanation
Indices: 83600022--83600129 Score: 112
Period size: 39 Copynumber: 2.6 Consensus size: 41
83600012 TTTTATCCAT
* * *
83600022 ATTTTAGAAAACATAAAAAATTCTTAAAAAATCTTGTGTACTTTT
1 ATTTTA-AAAA-ATAAATAATT-TT-AAAAATCTTATGTACTTTG
* * *
83600067 ATTTTTAAAAATATATATTTTTAAAAAT-TTATGTACTTTG
1 ATTTTAAAAAATAAATAATTTTAAAAATCTTATGTACTTTG
83600107 A-TTTAAAAAATAAATAATTTTAA
1 ATTTTAAAAAATAAATAATTTTAA
83600130 TTTAAAAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
39 19 0.35
40 11 0.20
41 6 0.11
42 2 0.04
43 7 0.13
44 4 0.07
45 5 0.09
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (41 bp):
ATTTTAAAAAATAAATAATTTTAAAAATCTTATGTACTTTG
Found at i:83604200 original size:167 final size:166
Alignment explanation
Indices: 83603799--83604182 Score: 579
Period size: 167 Copynumber: 2.3 Consensus size: 166
83603789 TCTCAAACTT
*
83603799 TTTTACTTTTCCCTCAAAATTTTTACTCCT-TCCCACTTTCCCTCCAAAACTTTTATTCCCCTCC
1 TTTTA-TTTTCCCCCAAAATTTTTACTCCTCTCCCACTTTCCCTCCAAAACTTTTATTCCCCTCC
83603863 CACCCCAATCCTCCAATCTACCCAAAATTCATTTCCCACCAAAATTTTACTCTCCCATTTACTTT
65 CACCCCAATCCTCCAATCTACCCAAAATTCATTTCCCACCAAAATTTTACTCTCCCATTTAC---
* * *
83603928 TTTTTTCTTCAGAATTTTACTCCTAAAAACCCTCAAAACC
127 TTTTTTCTTCAAAATTTTACTCCCAAAAACACTCAAAACC
*
83603968 TTTTATTTTCTCCCAAAA-TTTTACTCC-CTCCCACTTTCCCTCCAAAACTTTTATTCCCCTCCC
1 TTTTATTTTCCCCCAAAATTTTTACTCCTCTCCCACTTTCCCTCCAAAACTTTTATTCCCCTCCC
* *
83604031 ACCCCAAT-CTCCTAATCTACCCAAAATTCATTTCCTACTAAAATTTTACTCT-CCATTTAC-TT
66 ACCCCAATCCTCC-AATCTACCCAAAATTCATTTCCCACCAAAATTTTACTCTCCCATTTACTTT
*
83604093 TTTC-TCAAAATTTTACTCCCAAAATCACTCAAAACC
130 TTTCTTCAAAATTTTACTCCCAAAAACACTCAAAACC
83604129 TTTTATTTTCCCCCAAAATTTTTAC-CCTCTCCCACTTTCCC-CCTAAAACTTTTA
1 TTTTATTTTCCCCCAAAATTTTTACTCCTCTCCCACTTTCCCTCC-AAAACTTTTA
83604183 CTTGCTTCTC
Statistics
Matches: 201, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
161 49 0.24
162 35 0.17
166 12 0.06
167 89 0.44
168 11 0.05
169 5 0.02
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (166 bp):
TTTTATTTTCCCCCAAAATTTTTACTCCTCTCCCACTTTCCCTCCAAAACTTTTATTCCCCTCCC
ACCCCAATCCTCCAATCTACCCAAAATTCATTTCCCACCAAAATTTTACTCTCCCATTTACTTTT
TTCTTCAAAATTTTACTCCCAAAAACACTCAAAACC
Found at i:83604598 original size:18 final size:19
Alignment explanation
Indices: 83604550--83604599 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
83604540 TATTGGTATC
*
83604550 AAATTCACATTTTATCTTTA
1 AAATT-ACATTTTATCTATA
83604570 AAA-TA-ATTTTTAT-TATA
1 AAATTACA-TTTTATCTATA
83604587 AAATTACATTTTA
1 AAATTACATTTTA
83604600 CATGTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 7 0.27
18 14 0.54
19 2 0.08
20 3 0.12
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTACATTTTATCTATA
Found at i:83607859 original size:23 final size:23
Alignment explanation
Indices: 83607833--83607880 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
83607823 TTTTAGGGAC
83607833 TAAATTGAATAATTTACAAAATA
1 TAAATTGAATAATTTACAAAATA
83607856 TAAATTGAATAATTTACAAAATA
1 TAAATTGAATAATTTACAAAATA
83607879 TA
1 TA
83607881 CTTGGCTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAATTGAATAATTTACAAAATA
Found at i:83609351 original size:57 final size:57
Alignment explanation
Indices: 83609234--83609349 Score: 157
Period size: 57 Copynumber: 2.0 Consensus size: 57
83609224 TCAGGTCATC
**
83609234 TTCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTTCATTTCTTTATT
1 TTCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTTCATTTCTCCATT
83609291 TTCATTTTTATTTTGGAGAAAACTTCA-ATT-ATTTCCAAATG-TTTCTTATTTCTCCATT
1 TTCATTTTTATTTTGGAGAAAAC--CACATTCATTTCCAAATGATTTC--ATTTCTCCATT
83609349 T
1 T
83609350 CACCATTTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
56 4 0.08
57 34 0.64
58 13 0.25
59 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.51
Consensus pattern (57 bp):
TTCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTTCATTTCTCCATT
Found at i:83615304 original size:27 final size:26
Alignment explanation
Indices: 83615267--83615380 Score: 147
Period size: 27 Copynumber: 4.3 Consensus size: 26
83615257 AGCATGGCTG
* *
83615267 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
83615293 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
83615321 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* ** *
83615348 CCAGATCAGATTTTGTGGCATAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
83615374 CCAGAAC
1 CCAGAAC
83615381 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
26 23 0.29
27 38 0.49
28 17 0.22
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:83617064 original size:26 final size:26
Alignment explanation
Indices: 83616995--83617103 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
83616985 CATGAAATTC
*
83616995 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
83617021 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
83617046 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
83617072 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
83617098 TTATCA
1 TTATCA
83617104 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 24 0.30
26 56 0.70
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:83617075 original size:51 final size:52
Alignment explanation
Indices: 83616995--83617103 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
83616985 CATGAAATTC
83616995 TTATCATGAAACATTTACCTAACCCATTATCAT-GAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCA
* * *
83617046 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCA
83617098 TTATCA
1 TTATCA
83617104 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 31 0.57
52 23 0.43
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCA
Found at i:83621085 original size:27 final size:26
Alignment explanation
Indices: 83621048--83621162 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
83621038 AGCATGGCTG
* *
83621048 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
83621074 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
83621102 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
83621129 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
83621156 CCAGAAC
1 CCAGAAC
83621163 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:83621107 original size:54 final size:54
Alignment explanation
Indices: 83621048--83621162 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
83621038 AGCATGGCTG
*
83621048 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
83621102 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
83621156 CCAGAAC
1 CCAGAAC
83621163 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:83622841 original size:26 final size:26
Alignment explanation
Indices: 83622772--83622880 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
83622762 CATGAAATTC
*
83622772 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
83622798 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
83622823 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
83622849 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
83622875 TTATCA
1 TTATCA
83622881 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 24 0.30
26 56 0.70
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:83622852 original size:51 final size:52
Alignment explanation
Indices: 83622772--83622880 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
83622762 CATGAAATTC
83622772 TTATCATGAAACATTTACCTAACCCATTATCAT-GAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCA
* * *
83622823 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCA
83622875 TTATCA
1 TTATCA
83622881 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 31 0.57
52 23 0.43
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCA
Found at i:83627060 original size:36 final size:37
Alignment explanation
Indices: 83627020--83627104 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
83627010 GTTTGGAACT
83627020 AGTGCCTCATCGGTAAAACC-GAAGT-ATTTGGCACCC
1 AGTGCCTCATCGGT-AAACCTGAAGTAATTTGGCACCC
* * *
83627056 AGTGCCTCATCAGTATACCTGAAGTAATTTGGCACCT
1 AGTGCCTCATCGGTAAACCTGAAGTAATTTGGCACCC
83627093 AGTGCCTCATCG
1 AGTGCCTCATCG
83627105 ACACATAGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 4 0.09
36 18 0.42
37 21 0.49
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (37 bp):
AGTGCCTCATCGGTAAACCTGAAGTAATTTGGCACCC
Found at i:83628787 original size:38 final size:38
Alignment explanation
Indices: 83628727--83628880 Score: 220
Period size: 38 Copynumber: 4.1 Consensus size: 38
83628717 AACTTTTAAT
*
83628727 ACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
* * *
83628765 ACATCGGCACTATGCCTACTAGGCACAAAGCCTGAA-A
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
* *
83628802 ACACCGGCATTAAGTCTGCTAGGCACAAAGCCTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
* * *
83628840 ACACCGACACTAAGCCTGTTAGGTACAAAGCCTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
83628878 ACA
1 ACA
83628881 ATTTAATTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
37 32 0.32
38 69 0.68
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (38 bp):
ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
Found at i:83628851 original size:75 final size:76
Alignment explanation
Indices: 83628727--83628880 Score: 220
Period size: 75 Copynumber: 2.0 Consensus size: 76
83628717 AACTTTTAAT
* * *
83628727 ACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACATCGGCACTATGCCTACTAGGCACA
1 ACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACACTAAGCCTACTAGGCACA
83628792 AAGCCTGAA-A
66 AAGCCTGAATA
* * * ** *
83628802 ACACCGGCATTAAGTCTGCTAGGCACAAAGCCTGAATAACACCGACACTAAGCCTGTTAGGTACA
1 ACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACACTAAGCCTACTAGGCACA
83628867 AAGCCTGAATA
66 AAGCCTGAATA
83628878 ACA
1 ACA
83628881 ATTTAATTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
75 65 0.94
76 4 0.06
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (76 bp):
ACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACACTAAGCCTACTAGGCACA
AAGCCTGAATA
Found at i:83631814 original size:135 final size:137
Alignment explanation
Indices: 83631565--83631849 Score: 529
Period size: 136 Copynumber: 2.1 Consensus size: 137
83631555 TATTGGGCTT
*
83631565 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
83631630 AGCCCCTTATTCAGATAGCAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
83631694 CATATGC
131 CATATGC
83631701 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAAC-GGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
83631765 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
83631830 CATATGC
131 CATATGC
83631837 AAGCCCATTTGGG
1 AAGCCCATTTGGG
83631850 GAGACTACTC
Statistics
Matches: 145, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
135 67 0.46
136 78 0.54
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:83633747 original size:26 final size:26
Alignment explanation
Indices: 83633638--83633739 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
83633628 CATGAAATTC
83633638 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
83633664 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
83633690 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
83633716 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
83633740 TTTTATCAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:83635538 original size:15 final size:16
Alignment explanation
Indices: 83635509--83635538 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83635499 TAAACATGCT
83635509 TTAACACATTATCAAA
1 TTAACACATTATCAAA
83635525 TTAACACA-TATCAA
1 TTAACACATTATCAA
83635539 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:83636632 original size:25 final size:25
Alignment explanation
Indices: 83636604--83636695 Score: 91
Period size: 25 Copynumber: 3.7 Consensus size: 25
83636594 TATTGGACAT
*
83636604 GTATGCTCAT-ACGAGTTGTGA-ATCA
1 GTATGCTC-TCACGAGCTGT-ACATCA
83636629 GTATGCTCTCACGAGCTGTACATCA
1 GTATGCTCTCACGAGCTGTACATCA
* * *
83636654 GTAAGCTCTCATGAGCTGTA-ATCG
1 GTATGCTCTCACGAGCTGTACATCA
* *
83636678 GTAAGCTCTCACAAGCTG
1 GTATGCTCTCACGAGCTG
83636696 CAATCGATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
24 21 0.36
25 38 0.64
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTACATCA
Found at i:83636701 original size:24 final size:24
Alignment explanation
Indices: 83636614--83636700 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 24
83636604 GTATGCTCAT
* *
83636614 ACGAGTTGTGAATCAGTATGCTCTC
1 ACGAGCTGT-AATCAGTAAGCTCTC
83636639 ACGAGCTGTACATCAGTAAGCTCTC
1 ACGAGCTGTA-ATCAGTAAGCTCTC
* *
83636664 ATGAGCTGTAATCGGTAAGCTCTC
1 ACGAGCTGTAATCAGTAAGCTCTC
* *
83636688 ACAAGCTGCAATC
1 ACGAGCTGTAATC
83636701 GATAATCCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 24 0.44
25 30 0.56
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (24 bp):
ACGAGCTGTAATCAGTAAGCTCTC
Found at i:83638052 original size:9 final size:9
Alignment explanation
Indices: 83638039--83638115 Score: 93
Period size: 9 Copynumber: 8.6 Consensus size: 9
83638029 ATAAGTATAA
*
83638039 AATTAACCA
1 AATTAACCG
*
83638048 AATTAACCA
1 AATTAACCG
*
83638057 AATTAATCG
1 AATTAACCG
83638066 AATTAACCG
1 AATTAACCG
83638075 AATT-ACCTG
1 AATTAACC-G
*
83638084 AATTACCCG
1 AATTAACCG
83638093 AATTAACCG
1 AATTAACCG
*
83638102 AATTAACTG
1 AATTAACCG
83638111 AATTA
1 AATTA
83638116 TTTGTATAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
8 3 0.05
9 55 0.92
10 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:83638150 original size:5 final size:6
Alignment explanation
Indices: 83638135--83638175 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
83638125 AATTATATGT
83638135 TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
83638176 ATTAAATTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:83638163 original size:14 final size:13
Alignment explanation
Indices: 83638135--83638172 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
83638125 AATTATATGT
83638135 TTTTTATTTTT-A
1 TTTTTATTTTTAA
83638147 TTTTTATTTTTAGA
1 TTTTTATTTTTA-A
83638161 TTTTTATTTTTA
1 TTTTTATTTTTA
83638173 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:83641091 original size:15 final size:15
Alignment explanation
Indices: 83641071--83641101 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83641061 TCTCTTTGAC
83641071 ATGCCTTTCTATTGT
1 ATGCCTTTCTATTGT
83641086 ATGCCTTTCTATTGT
1 ATGCCTTTCTATTGT
83641101 A
1 A
83641102 GAGTGGCCAG
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:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (15 bp):
ATGCCTTTCTATTGT
Found at i:83643182 original size:2 final size:2
Alignment explanation
Indices: 83643175--83643213 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
83643165 AAACTAAGTA
83643175 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83643214 AAAGAACAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:83643417 original size:3 final size:3
Alignment explanation
Indices: 83643409--83643717 Score: 196
Period size: 3 Copynumber: 104.3 Consensus size: 3
83643399 AAAAGAAATT
83643409 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** * * ** *
83643457 T-G TAA AAA TTAA T-T TGTT TAA GAA TAA -GA TAA TGG TAA TAA GTTA
1 TAA TAA TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * *
83643502 TTA -AA T-A TAA TGAGG GAA -AA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-A-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** *
83643545 TAA TAA TAA TAA TAA TAA TAA T-G TAA AAA TTAA T-T TGTT TAA GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA T-AA TAA TAA
* ** * * * *
83643590 TAA -GA TAA TGG TAA TAA GTTA TTA -AA T-A TAA TGAGG GAA -AA T-A
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T-A-A TAA TAA TAA
83643633 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
83643681 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
83643718 GGTAATTAAT
Statistics
Matches: 242, Mismatches: 40, Indels: 48
0.73 0.12 0.15
Matches are distributed among these distances:
2 20 0.08
3 206 0.85
4 16 0.07
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:83643572 original size:109 final size:109
Alignment explanation
Indices: 83643414--83643675 Score: 524
Period size: 109 Copynumber: 2.4 Consensus size: 109
83643404 AAATTTAATA
83643414 ATAATAATAATAATAATAATAATAATAATAATAATAATAATAATGTAAAAATTAATTTGTTTAAG
1 ATAATAATAATAATAATAATAATAATAATAATAATAATAATAATGTAAAAATTAATTTGTTTAAG
83643479 AATAAGATAATGGTAATAAGTTATTAAATATAATGAGGGAAAAT
66 AATAAGATAATGGTAATAAGTTATTAAATATAATGAGGGAAAAT
83643523 ATAATAATAATAATAATAATAATAATAATAATAATAATAATAATGTAAAAATTAATTTGTTTAAG
1 ATAATAATAATAATAATAATAATAATAATAATAATAATAATAATGTAAAAATTAATTTGTTTAAG
83643588 AATAAGATAATGGTAATAAGTTATTAAATATAATGAGGGAAAAT
66 AATAAGATAATGGTAATAAGTTATTAAATATAATGAGGGAAAAT
83643632 ATAATAATAATAATAATAATAATAATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAATAATAATAATAATAATAATAATAAT
83643676 AATAATAATA
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 153 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (109 bp):
ATAATAATAATAATAATAATAATAATAATAATAATAATAATAATGTAAAAATTAATTTGTTTAAG
AATAAGATAATGGTAATAAGTTATTAAATATAATGAGGGAAAAT
Found at i:83645413 original size:44 final size:44
Alignment explanation
Indices: 83645359--83645625 Score: 167
Period size: 45 Copynumber: 5.8 Consensus size: 44
83645349 AATTGGTAAT
* *
83645359 TTCAACCTGCTCCACTGCAACTTTAAAGAGATAAGGCTGGTGGC
1 TTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGGCTGGTGGC
* * **
83645403 TTCAATCTGCTCCACTGCAAC-TTCAGGAAGATAAGATCCGCCATAATTTGTAAC
1 TTCAATCTGCTCCACTGCAACTTTAAGG-AGATAAG----G-C-----TGGTGGC
* * * ** ** *
83645457 TTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCACTGTC
1 TTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGGCT-GGTGGC
* *
83645502 TTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTGGC
1 TTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGGCTGGTGGC
* * ** ** *
83645546 TTAAATCTGCTCCACTGCAACTTTAAGAAGATAAGATTCGCCGTC
1 TTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGGCT-GGTGGC
* * * *
83645591 TTCTATCTACTCCACTACAACTTCAAGGAGATAAG
1 TTCAATCTGCTCCACTGCAACTTTAAGGAGATAAG
83645626 ATCTACAACT
Statistics
Matches: 170, Mismatches: 39, Indels: 27
0.72 0.17 0.11
Matches are distributed among these distances:
43 4 0.02
44 63 0.37
45 67 0.39
48 1 0.01
49 1 0.01
54 30 0.18
55 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGGCTGGTGGC
Found at i:83645428 original size:133 final size:135
Alignment explanation
Indices: 83645188--83645429 Score: 299
Period size: 133 Copynumber: 1.8 Consensus size: 135
83645178 TTTCAACCTG
** * * * * *
83645188 CTCCGCTGCAACTTCAAGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAAACTTCAGA
1 CTCCGCTGCAACTTCAAGGAGATAAGAATTGTGTAATTTCAACCTGCTCCACTGCAAACTTCAAA
* ** * * *
83645253 GAGATAAGGATTATGGCTTTGATTTGCTCCAATGTAATTTCAGGGAGAAGAGGTTTGTAGCTTCG
66 GAGATAAGGATGATGGCTTCAATCTGCTCCAATGCAACTTCAGGGAGAAGAGGTTTGTAGCTTCG
83645318 ATCTA
131 ATCTA
* * *
83645323 CTCCGCTGGAACTTCAAGGAGGTAAGAATTG-GTAATTTCAACCTGCTCCACTGC-AACTTTAAA
1 CTCCGCTGCAACTTCAAGGAGATAAGAATTGTGTAATTTCAACCTGCTCCACTGCAAACTTCAAA
* * *
83645386 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
66 GAGATAAGGATGATGGCTTCAATCTGCTCCAATGCAACTTCAGG
83645430 AAGATAAGAT
Statistics
Matches: 88, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
133 42 0.48
134 19 0.22
135 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (135 bp):
CTCCGCTGCAACTTCAAGGAGATAAGAATTGTGTAATTTCAACCTGCTCCACTGCAAACTTCAAA
GAGATAAGGATGATGGCTTCAATCTGCTCCAATGCAACTTCAGGGAGAAGAGGTTTGTAGCTTCG
ATCTA
Found at i:83645520 original size:45 final size:45
Alignment explanation
Indices: 83645456--83645672 Score: 197
Period size: 45 Copynumber: 4.9 Consensus size: 45
83645446 TAATTTGTAA
* *
83645456 CTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCACTGT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACTGT
* ** ** *
83645501 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCT-GGTGG
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACTGT
* * * * *
83645545 CTTAAATCTGCTCCACTGCAACTTTAAGAAGATAAGATTCGCCGT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACTGT
* * * * * **
83645590 CTTCTATCTACTCCACTACAACTTCAAGGAGATAAGA-TCTAC-AA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTC-ACTGT
* * *
83645634 CTTCAATCTGCTCCACTGCTACTTCAGGGAGATGAGATT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
83645673 TATGGATTCA
Statistics
Matches: 137, Mismatches: 32, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
44 68 0.50
45 69 0.50
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACTGT
Found at i:83645658 original size:44 final size:44
Alignment explanation
Indices: 83645454--83645671 Score: 143
Period size: 44 Copynumber: 4.9 Consensus size: 44
83645444 CATAATTTGT
* * * *
83645454 AACTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTC-AC
1 AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TCGAC
** * * * * **
83645498 TGTCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAG-GCTGGT
1 -AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATC-GAC
** * * * *
83645543 GGCTTAAATCTGCTCCACTGCAACTTTAAGAAGATAAGATTCGCC
1 AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TCGAC
** * * * *
83645588 GTCTTCTATCTACTCCACTACAACTTCAAGGAGATAAGATCTAC
1 AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATCGAC
* * *
83645632 AACTTCAATCTGCTCCACTGCTACTTCAGGGAGATGAGAT
1 AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
83645672 TTATGGATTC
Statistics
Matches: 136, Mismatches: 33, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
43 1 0.01
44 68 0.50
45 66 0.49
46 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATCGAC
Found at i:83645672 original size:89 final size:89
Alignment explanation
Indices: 83645454--83645672 Score: 235
Period size: 89 Copynumber: 2.5 Consensus size: 89
83645444 CATAATTTGT
* * * * *
83645454 AACTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCACTG
1 AACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACCGTCTTCAGTCTACTCCACTA
* * **
83645519 CAACTTTAGGGAGATAAGGCTGGT
66 CAACTTCAAGGAGATAAGGCTGAC
** * * * *
83645543 GGCTTAAATCTGCTCCACTGCAACTTTAAGAAGATAAGATTCGCCGTCTTCTA-TCTACTCCACT
1 AACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACCGTCTTC-AGTCTACTCCACT
*
83645607 ACAACTTCAAGGAGATAAGATCT-AC
65 ACAACTTCAAGGAGATAAG-GCTGAC
* * *
83645632 AACTTCAATCTGCTCCACTGCTACTTCAGGGAGATGAGATT
1 AACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
83645673 TATGGATTCA
Statistics
Matches: 104, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
89 101 0.97
90 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (89 bp):
AACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACCGTCTTCAGTCTACTCCACTA
CAACTTCAAGGAGATAAGGCTGAC
Found at i:83646073 original size:46 final size:46
Alignment explanation
Indices: 83646023--83646111 Score: 144
Period size: 46 Copynumber: 1.9 Consensus size: 46
83646013 ATTTGTGGTT
*
83646023 TCTTCCATCCATCCCACTACAACTC-GAGGGTATAGGATTTGTACCA
1 TCTTCAATCCATCCCACTACAACTCAG-GGGTATAGGATTTGTACCA
*
83646069 TCTTCAATCCATCCCACTACAGCTCAGGGGTATAGGATTTGTA
1 TCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGTA
83646112 TCTTTCTACT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
46 39 0.98
47 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGTACCA
Found at i:83647429 original size:270 final size:270
Alignment explanation
Indices: 83646948--83647488 Score: 1003
Period size: 270 Copynumber: 2.0 Consensus size: 270
83646938 TAGGCAGAGC
83646948 AAGATGATAAACCGTAATTTATACATATTTTTACCCCATGTTTAACGCATTTTATGGATGATTTC
1 AAGATGATAAACCGTAATTTATACATATTTTTACCCCATGTTTAACGCATTTTATGGATGATTTC
*
83647013 CCATTAGAATTGGTGAATTCGATGCTTCTAATGCTTTAATTTCATGTTTTATACCTAGGAGAGCA
66 CCATTAGAATGGGTGAATTCGATGCTTCTAATGCTTTAATTTCATGTTTTATACCTAGGAGAGCA
* *
83647078 TAGGAGAGCGAAAGGAATGAGAAACGGGCCAAAAATAGAGAAAATGGGCCAAAGTACGAAATCAA
131 TAGGAGAGCGAAAGGAATGAGAAACAGGCCAAAAACAGAGAAAATGGGCCAAAGTACGAAATCAA
83647143 CACGGCTTGGACCTCCTCACACGGGCAGACCACACGGCCATGTCAAATTGGCAGGCTCGAGCACG
196 CACGGCTTGGACCTCCTCACACGGGCAGACCACACGGCCATGTCAAATTGGCAGGCTCGAGCACG
83647208 GCCTGAAGTA
261 GCCTGAAGTA
83647218 AAGATGATAAACCGTAATTTATACATATTTTTACCCCATGTTTAACGCATTTTATGGATGATTTC
1 AAGATGATAAACCGTAATTTATACATATTTTTACCCCATGTTTAACGCATTTTATGGATGATTTC
83647283 CCATTAGAATGGGTGAATTCGATGCTTCTAATGCTTTAATTTCATGTTTTATACCTAGGAGAGCA
66 CCATTAGAATGGGTGAATTCGATGCTTCTAATGCTTTAATTTCATGTTTTATACCTAGGAGAGCA
**
83647348 TAGGATTGCGAAAGGAATGAGAAACAGGCCAAAAACAGAGAAAATGGGCCAAAGTACGAAATCAA
131 TAGGAGAGCGAAAGGAATGAGAAACAGGCCAAAAACAGAGAAAATGGGCCAAAGTACGAAATCAA
* *
83647413 CACGG-TCTGGACCTCCTCACACGGGCAGACCACACGGCCATGTCGATTTGGCAGGCTCGAGCAC
196 CACGGCT-TGGACCTCCTCACACGGGCAGACCACACGGCCATGTCAAATTGGCAGGCTCGAGCAC
83647477 GGCCTGAAGTA
260 GGCCTGAAGTA
83647488 A
1 A
83647489 TCGCACAAGG
Statistics
Matches: 263, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
269 1 0.00
270 262 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (270 bp):
AAGATGATAAACCGTAATTTATACATATTTTTACCCCATGTTTAACGCATTTTATGGATGATTTC
CCATTAGAATGGGTGAATTCGATGCTTCTAATGCTTTAATTTCATGTTTTATACCTAGGAGAGCA
TAGGAGAGCGAAAGGAATGAGAAACAGGCCAAAAACAGAGAAAATGGGCCAAAGTACGAAATCAA
CACGGCTTGGACCTCCTCACACGGGCAGACCACACGGCCATGTCAAATTGGCAGGCTCGAGCACG
GCCTGAAGTA
Found at i:83653504 original size:75 final size:73
Alignment explanation
Indices: 83653416--83653587 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
83653406 GGTTTTCCTC
*** * * **
83653416 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
83653480 TCAGTATGG
65 TCAGTATGG
*
83653489 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
83653554 CTCAGTATGG
64 CTCAGTATGG
83653564 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
83653588 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:83653585 original size:35 final size:35
Alignment explanation
Indices: 83653421--83653587 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
83653411 TCCTCATTGA
*** *
83653421 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
83653456 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
83653496 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
83653531 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
83653566 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
83653588 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:83660999 original size:75 final size:73
Alignment explanation
Indices: 83660911--83661082 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
83660901 GGTTTTCCTC
*** * * **
83660911 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
83660975 TCAGTATGG
65 TCAGTATGG
*
83660984 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
83661049 CTCAGTATGG
64 CTCAGTATGG
83661059 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
83661083 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:83661080 original size:35 final size:35
Alignment explanation
Indices: 83660916--83661082 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
83660906 TCCTCATTGA
*** *
83660916 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
83660951 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
83660991 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
83661026 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
83661061 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
83661083 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:83677008 original size:2 final size:2
Alignment explanation
Indices: 83677001--83677045 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
83676991 AAGAAATAAG
83677001 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83677043 AT A
1 AT A
83677046 AAAGAACAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:83677088 original size:20 final size:20
Alignment explanation
Indices: 83677063--83677104 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
83677053 AATAGAACAT
83677063 ATTAGTAAACCAATGAATAA
1 ATTAGTAAACCAATGAATAA
83677083 ATTAGTAAACCAATGAATAA
1 ATTAGTAAACCAATGAATAA
83677103 AT
1 AT
83677105 AAATAATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (20 bp):
ATTAGTAAACCAATGAATAA
Found at i:83677344 original size:3 final size:3
Alignment explanation
Indices: 83677336--83677452 Score: 175
Period size: 3 Copynumber: 39.7 Consensus size: 3
83677326 GAGGGAAAAT
*
83677336 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
83677383 A-A ATA AGA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
83677430 ATA ATA ACA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
83677453 GTTAATTAAT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
2 4 0.04
3 99 0.96
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:83681851 original size:48 final size:48
Alignment explanation
Indices: 83681706--83681932 Score: 180
Period size: 48 Copynumber: 4.9 Consensus size: 48
83681696 TACATGGTAG
* ** * * *
83681706 GATGCCAATGCCATATCTTAGATAT-GTCTTACATGAGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
* * ** **
83681753 GATGCCAATGCCATGTCTCAGACATGGTCTTATATGGGATCGTAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
*
83681801 GATGCGAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
** * **** * *
83681849 GATGCC---GGTA-G-CCTAG-CTATGGTCTTACACAATATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACACATC
* *
83681892 GATGCCAAAGCCATGTCCCAGACATGGTTTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
83681933 GTACATAACC
Statistics
Matches: 137, Mismatches: 35, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
42 1 0.01
43 29 0.21
44 1 0.01
45 2 0.01
46 2 0.01
47 23 0.17
48 78 0.57
49 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
Found at i:83682705 original size:65 final size:65
Alignment explanation
Indices: 83682601--83682728 Score: 256
Period size: 65 Copynumber: 2.0 Consensus size: 65
83682591 AGAATCATAA
83682601 AATAATTATCTCTACTTCAAATTTGTGGTCTCAAAATCAATGTTCCGATTAAGCCCTAATTCCGG
1 AATAATTATCTCTACTTCAAATTTGTGGTCTCAAAATCAATGTTCCGATTAAGCCCTAATTCCGG
83682666 AATAATTATCTCTACTTCAAATTTGTGGTCTCAAAATCAATGTTCCGATTAAGCCCTAATTCC
1 AATAATTATCTCTACTTCAAATTTGTGGTCTCAAAATCAATGTTCCGATTAAGCCCTAATTCC
83682729 AGATGTTACA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (65 bp):
AATAATTATCTCTACTTCAAATTTGTGGTCTCAAAATCAATGTTCCGATTAAGCCCTAATTCCGG
Found at i:83687628 original size:11 final size:12
Alignment explanation
Indices: 83687597--83687630 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
83687587 TTATTTTCAA
83687597 TTTAAATTCATT
1 TTTAAATTCATT
83687609 TTCTAAATT-ATT
1 TT-TAAATTCATT
83687621 TTTAAATTCA
1 TTTAAATTCA
83687631 ATCTTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAAATTCATT
Found at i:83687707 original size:20 final size:20
Alignment explanation
Indices: 83687662--83687708 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
83687652 TTAGCCAAAT
83687662 TAATTCTACACTTAATCTTA
1 TAATTCTACACTTAATCTTA
* *
83687682 -ATTTCTATACCTTAAT-TTA
1 TAATTCTACA-CTTAATCTTA
83687701 TAATTCTA
1 TAATTCTA
83687709 ATTATTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTCTACACTTAATCTTA
Found at i:83689272 original size:19 final size:19
Alignment explanation
Indices: 83689248--83689302 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
83689238 ATGTGATTTG
83689248 TGTGCCAAGATGCACTACA
1 TGTGCCAAGATGCACTACA
* ** *
83689267 TGTGCCATGATGTGCTTCA
1 TGTGCCAAGATGCACTACA
* *
83689286 TGCGCCAAAATGCACTA
1 TGTGCCAAGATGCACTA
83689303 TGTGTCGATT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (19 bp):
TGTGCCAAGATGCACTACA
Found at i:83692071 original size:3 final size:3
Alignment explanation
Indices: 83692063--83692100 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
83692053 GGTTCACCAT
83692063 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
83692101 GGCTTTGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:83698370 original size:45 final size:44
Alignment explanation
Indices: 83698291--83698403 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 44
83698281 TGCTGACTCT
83698291 ATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-GCCAATGC
1 ATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AGGCCAATGC
* * * *
83698336 ATGT-CCTGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAGGCCAATGC
*
83698381 ATGTCCCAAACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
83698404 AGCACTCGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
43 12 0.21
44 8 0.14
45 22 0.38
46 16 0.28
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
ATGTCCCAGACATGTCTTACACTGACACATCTCGAGGCCAATGC
Found at i:83698414 original size:46 final size:46
Alignment explanation
Indices: 83698291--83698500 Score: 146
Period size: 46 Copynumber: 4.6 Consensus size: 46
83698281 TGCTGACTCT
* *
83698291 ATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA-GCCAATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCG-AGGCCGATGC
* * * *
83698336 ATGT-CCTGACATGTCTTACACTGGC-TTACGTCTCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCACT-CATCTCGAGGCCGATGC
* * ** * *
83698381 ATGTCCCAAACATGTCTTACACTAGCACTCGTCTTAATGTC-ATTGCC
1 ATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGGCCGA-TG-C
* * * * *
83698428 ATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTCGAGGCCGATGC
*
83698475 ATGTCCCAGACATGTCTTAGACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
83698501 TCACGCCAGT
Statistics
Matches: 129, Mismatches: 25, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
43 10 0.08
44 9 0.07
45 22 0.17
46 39 0.30
47 28 0.22
48 19 0.15
49 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGGCCGATGC
Found at i:83702705 original size:50 final size:50
Alignment explanation
Indices: 83702626--83702726 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
83702616 TATTTTATGG
83702626 TCTGACTAAAAAAGATGTTCATTAATCATGGTAATTATACTTACTACTGT
1 TCTGACTAAAAAAGATGTTCATTAATCATGGTAATTATACTTACTACTGT
* *
83702676 TCTGACTAAAAAAGATGTTCTTTAGTCATGGTAATTATACTTACTACTGT
1 TCTGACTAAAAAAGATGTTCATTAATCATGGTAATTATACTTACTACTGT
83702726 T
1 T
83702727 ATGAATCCTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (50 bp):
TCTGACTAAAAAAGATGTTCATTAATCATGGTAATTATACTTACTACTGT
Found at i:83707205 original size:27 final size:26
Alignment explanation
Indices: 83707157--83707396 Score: 266
Period size: 27 Copynumber: 8.9 Consensus size: 26
83707147 GCGAGGCTGC
* *
83707157 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
83707184 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* * *
83707210 CAGATATATGTGGTAGAACCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
83707237 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
83707264 CAGATATATGTGGCAGAGCCACCAGAA
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
83707291 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* * *
83707318 CAGATAATCGTGCCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
* *
83707345 CAGATATACGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
83707372 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
83707397 GACGCTTCCT
Statistics
Matches: 184, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.07
27 165 0.90
28 7 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:83707278 original size:81 final size:81
Alignment explanation
Indices: 83707175--83707396 Score: 349
Period size: 81 Copynumber: 2.7 Consensus size: 81
83707165 GTGACGAAGT
*
83707175 CACCAGATACAGATAT-TGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAACCACCAGATCA
1 CACCAGA-ACAGATATATGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAACCACCAGATCA
*
83707239 GATAATCGTGGCATAGC
65 GATAATCGTGCCATAGC
*
83707256 CACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAG
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAACCACCAGATCAG
83707321 ATAATCGTGCCATAGC
66 ATAATCGTGCCATAGC
* * * *
83707337 CACCAGAACAGATATACGTGGCAGAGCCACCAGATCAGATA-ATTGTGGCATAGCCACCAG
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATATA-TGTGGCAGAACCACCAG
83707397 GACGCTTCCT
Statistics
Matches: 133, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
80 9 0.07
81 124 0.93
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (81 bp):
CACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAACCACCAGATCAG
ATAATCGTGCCATAGC
Found at i:83709054 original size:26 final size:26
Alignment explanation
Indices: 83709014--83709096 Score: 130
Period size: 26 Copynumber: 3.2 Consensus size: 26
83709004 ATGAAATGCC
83709014 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAAACCAT
* * *
83709040 TATCATGGAATATTTACCTAATCAAT
1 TATCATGGAACATTTACCTAAACCAT
*
83709066 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAAACCAT
83709092 TATCA
1 TATCA
83709097 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAAACCAT
Found at i:83714347 original size:27 final size:27
Alignment explanation
Indices: 83714299--83714511 Score: 224
Period size: 27 Copynumber: 7.9 Consensus size: 27
83714289 GCGAGGCTGC
* *
83714299 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
83714326 CAGATATTGCGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAGAGCCACCAGATA
83714352 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
83714379 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
83714406 CAGATATATGTGGCAGAGCTACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
83714433 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
83714460 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
83714487 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
83714512 GACGCTTCCT
Statistics
Matches: 157, Mismatches: 17, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
26 13 0.08
27 136 0.87
28 8 0.05
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:83714399 original size:54 final size:54
Alignment explanation
Indices: 83714317--83714511 Score: 320
Period size: 54 Copynumber: 3.6 Consensus size: 54
83714307 GTGACGAAGT
* * * *
83714317 CACCAGATACAGAT-ATTGCGGCAGAGCCACCAAAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
83714371 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
83714425 TACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
83714479 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
83714512 GACGCTTCCT
Statistics
Matches: 133, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
53 5 0.04
54 128 0.96
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:83714511 original size:81 final size:80
Alignment explanation
Indices: 83714317--83714511 Score: 250
Period size: 81 Copynumber: 2.4 Consensus size: 80
83714307 GTGACGAAGT
* * *
83714317 CACCAGATACAGATATTGCGGCAGAGCCACCAAAACAGATATATGTGGCAGAGCCACCAGATCAG
1 CACCAGAT-CAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAG
*
83714382 ATAATCGTGGCATAGC
65 ATAATCGTGGCAGAGC
* * * *
83714398 CACCAGAACAGATATATGTGGCAGAGCTACCAGATCAGATA-ATCGTGGCATAGCCACCAGAACA
1 CACCAGATCAGATAT-TGTGGCAGAGCCACCAGAACAGATATAT-GTGGCAGAGCCACCAGAACA
83714462 GATATAT-GTGGCAGAGC
64 GATA-ATCGTGGCAGAGC
*
83714479 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGAT-ATTGTGGCAGAGCCACCAG
83714512 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
80 9 0.09
81 86 0.87
82 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (80 bp):
CACCAGATCAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGA
TAATCGTGGCAGAGC
Found at i:83716167 original size:26 final size:26
Alignment explanation
Indices: 83716131--83716239 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
83716121 ATGAAATGCC
*
83716131 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
83716157 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* * *
83716183 TATCATGGAATATTTACCTAATCTAT
1 TATCATGGAACATTTACCTAACCCAT
83716209 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
83716235 TATCA
1 TATCA
83716240 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:83730032 original size:17 final size:20
Alignment explanation
Indices: 83729997--83730032 Score: 51
Period size: 17 Copynumber: 1.9 Consensus size: 20
83729987 AAATTATTAT
83729997 AAAATATTATAAATGTCATG
1 AAAATATTATAAATGTCATG
83730017 AAAA-ATTA-AAAT-TCAT
1 AAAATATTATAAATGTCAT
83730033 TATCAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 4 0.25
20 4 0.25
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (20 bp):
AAAATATTATAAATGTCATG
Found at i:83730504 original size:23 final size:22
Alignment explanation
Indices: 83730470--83730613 Score: 119
Period size: 23 Copynumber: 6.2 Consensus size: 22
83730460 ATCTCTTTTC
83730470 CAGCAACTAAACACTTCAATTTG
1 CAGCAA-TAAACACTTCAATTTG
*
83730493 CAGCAATAAA-ACATCTCAATTTC
1 CAGCAATAAACAC-T-TCAATTTG
83730516 CAGCAACTAAACACTTCAATTTG
1 CAGCAA-TAAACACTTCAATTTG
* * * *
83730539 CAGTACTTAAAACACTTCAAGTTA
1 CAGCA-AT-AAACACTTCAATTTG
* * * *
83730563 CAACATTTAAGCACTTCAATTTA
1 CAGCA-ATAAACACTTCAATTTG
*
83730586 CAGCATTTAAACACTTCAATTTG
1 CAGCA-ATAAACACTTCAATTTG
83730609 CAGCA
1 CAGCA
83730614 CTTTAATTTA
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.02
22 5 0.05
23 69 0.68
24 23 0.23
25 2 0.02
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (22 bp):
CAGCAATAAACACTTCAATTTG
Found at i:83730619 original size:47 final size:47
Alignment explanation
Indices: 83730477--83730619 Score: 150
Period size: 46 Copynumber: 3.1 Consensus size: 47
83730467 TTCCAGCAAC
* *
83730477 TAAACACTTCAATTTGCAGCAATAAAACA-TCTCAATTTCCAGCAAC--
1 TAAACACTTCAATTTGCAGCATTAAAACACT-TCAATTTACAGC-ACTT
* * *
83730523 TAAACACTTCAATTTGCAGTACTTAAAACACTTCAAGTTACAACA-TT
1 TAAACACTTCAATTTGCAGCA-TTAAAACACTTCAATTTACAGCACTT
* * * *
83730570 TAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCATTAAAACACTTCAATTTACAGCACTT
83730617 TAA
1 TAA
83730620 TTTAATAAGG
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
46 40 0.50
47 39 0.49
48 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (47 bp):
TAAACACTTCAATTTGCAGCATTAAAACACTTCAATTTACAGCACTT
Found at i:83732213 original size:25 final size:27
Alignment explanation
Indices: 83732176--83732228 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
83732166 TCAAACATGC
83732176 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
83732202 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
83732228 A
1 A
83732229 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:83738652 original size:12 final size:12
Alignment explanation
Indices: 83738635--83738665 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
83738625 AGTACTACCT
83738635 CGGCCTCGACCA
1 CGGCCTCGACCA
*
83738647 CGGCCTCGACTA
1 CGGCCTCGACCA
83738659 CGGCCTC
1 CGGCCTC
83738666 TTCCCAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.48, G:0.26, T:0.13
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:83745591 original size:23 final size:23
Alignment explanation
Indices: 83745534--83745601 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
83745524 ATATGGACTA
* *
83745534 AAATATTAAATATTAAA-TTTTT
1 AAATTTTAAATTTTAAATTTTTT
* ** **
83745556 AAGTTTTTTATTTTTTATTTTTT
1 AAATTTTAAATTTTAAATTTTTT
83745579 AAATTTTAAATTTTAAATTTTTT
1 AAATTTTAAATTTTAAATTTTTT
83745602 TGAAGATTTT
Statistics
Matches: 33, Mismatches: 12, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (23 bp):
AAATTTTAAATTTTAAATTTTTT
Found at i:83745619 original size:9 final size:8
Alignment explanation
Indices: 83745546--83745626 Score: 60
Period size: 7 Copynumber: 9.9 Consensus size: 8
83745536 ATATTAAATA
83745546 TTAAATTT
1 TTAAATTT
*
83745554 TTAAGTTT
1 TTAAATTT
*
83745562 TT-TATTT
1 TTAAATTT
* *
83745569 TTTATTTT
1 TTAAATTT
83745577 TTAAA-TT
1 TTAAATTT
83745584 TTAAA-TT
1 TTAAATTT
83745591 TTAAATTTTT
1 TTAAA--TTT
83745601 TTGAAGATTT
1 TT-AA-ATTT
83745611 TTATAATTT
1 TTA-AATTT
83745620 TTAAATT
1 TTAAATT
83745627 ATCATATAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
7 19 0.32
8 19 0.32
9 8 0.14
10 10 0.17
11 2 0.03
12 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:83746627 original size:18 final size:18
Alignment explanation
Indices: 83746600--83746634 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83746590 ATAGATTAGT
* *
83746600 GTTTATGATTTTTGGGGG
1 GTTTAGGATTTTAGGGGG
83746618 GTTTAGGATTTTAGGGG
1 GTTTAGGATTTTAGGGG
83746635 TTATATGACT
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:0.14, C:0.00, G:0.40, T:0.46
Consensus pattern (18 bp):
GTTTAGGATTTTAGGGGG
Found at i:83746706 original size:41 final size:41
Alignment explanation
Indices: 83746644--83746855 Score: 231
Period size: 41 Copynumber: 5.3 Consensus size: 41
83746634 GTTATATGAC
* *
83746644 TTTTAGCGGCGTTTTACCGAAAGCGCTGTTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
83746685 TTTTGGCGGCGTTTTACCGAAAGAGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * * * *
83746726 TTTTAGCTGCATTTTACCAAAAGCACCGCTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
83746767 TTTTAGCGGCGTTTTACCGAAAGTGCCGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * * *
83746808 TTTTA---AC----TACCGAAAGCACCGGTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
83746842 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
83746856 CTATTGCTCT
Statistics
Matches: 139, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
34 29 0.21
37 1 0.01
38 1 0.01
41 108 0.78
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:83746819 original size:34 final size:34
Alignment explanation
Indices: 83746781--83746846 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
83746771 AGCGGCGTTT
**
83746781 TACCGAAAGTGCCGCTAATGCTTTGGTTTTTAAC
1 TACCGAAAGCACCGCTAATGCTTTGGTTTTTAAC
*
83746815 TACCGAAAGCACCGGTAATGCTTTGGTTTTTA
1 TACCGAAAGCACCGCTAATGCTTTGGTTTTTA
83746847 GCGGCGTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (34 bp):
TACCGAAAGCACCGCTAATGCTTTGGTTTTTAAC
Found at i:83746871 original size:27 final size:28
Alignment explanation
Indices: 83746841--83746899 Score: 102
Period size: 27 Copynumber: 2.1 Consensus size: 28
83746831 AATGCTTTGG
*
83746841 TTTTTAGCGGCGTTT-CTATTGCTCTGT
1 TTTTTAGCGGCGTTTGCTATTGCTCTAT
83746868 TTTTTAGCGGCGTTTGCTATTGCTCTAT
1 TTTTTAGCGGCGTTTGCTATTGCTCTAT
83746896 TTTT
1 TTTT
83746900 AACGACGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.08, C:0.17, G:0.20, T:0.54
Consensus pattern (28 bp):
TTTTTAGCGGCGTTTGCTATTGCTCTAT
Found at i:83746900 original size:27 final size:27
Alignment explanation
Indices: 83746841--83746909 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
83746831 AATGCTTTGG
*
83746841 TTTTTAGCGGCGTTTCTATTGCTCTGT
1 TTTTTAGCGGCGTTTCTATTGCTCTGA
83746868 TTTTTAGCGGCGTTTGCTATTGCTCT-A
1 TTTTTAGCGGCGTTT-CTATTGCTCTGA
* *
83746895 TTTTTAACGACGTTT
1 TTTTTAGCGGCGTTT
83746910 TAACTAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 28 0.74
28 10 0.26
ACGTcount: A:0.12, C:0.17, G:0.20, T:0.51
Consensus pattern (27 bp):
TTTTTAGCGGCGTTTCTATTGCTCTGA
Found at i:83749625 original size:24 final size:24
Alignment explanation
Indices: 83749562--83749632 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
83749552 TGAGGGGGTG
*
83749562 ATAAGAGTAATCTATGGGATTTGG
1 ATAAGAGTAATCTATGGGATTTGT
* *
83749586 A-CA-TGT-A-CTATGGGATTTGT
1 ATAAGAGTAATCTATGGGATTTGT
83749606 ATAAGAGTAATCTATGGGATTTGT
1 ATAAGAGTAATCTATGGGATTTGT
83749630 ATA
1 ATA
83749633 TATATTGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
20 13 0.34
21 2 0.05
22 4 0.11
23 2 0.05
24 17 0.45
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (24 bp):
ATAAGAGTAATCTATGGGATTTGT
Found at i:83752690 original size:20 final size:20
Alignment explanation
Indices: 83752667--83752704 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83752657 TGCACAATCA
*
83752667 TGCCTTTGTTTGCACTTCGG
1 TGCCTTTGTTTACACTTCGG
*
83752687 TGCCTTTTTTTACACTTC
1 TGCCTTTGTTTACACTTC
83752705 AGTGTCGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.26, G:0.16, T:0.50
Consensus pattern (20 bp):
TGCCTTTGTTTACACTTCGG
Done.