Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 13 of 161
Found at i:4274977 original size:21 final size:20
Alignment explanation
Indices: 4274938--4274980 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
4274928 TATAGATTAT
*
4274938 TTAATTTATATATTGTTAAA
1 TTAATTTATATAATGTTAAA
*
4274958 TTAATTTATTTTAATGTTAAA
1 TTAATTTA-TATAATGTTAAA
4274979 TT
1 TT
4274981 TATTAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TTAATTTATATAATGTTAAA
Found at i:4276442 original size:16 final size:16
Alignment explanation
Indices: 4276421--4276452 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4276411 TTATAATATA
*
4276421 TTGTATTATGTTATTT
1 TTGTATTATGTAATTT
4276437 TTGTATTATGTAATTT
1 TTGTATTATGTAATTT
4276453 ATAACAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (16 bp):
TTGTATTATGTAATTT
Found at i:4277674 original size:10 final size:9
Alignment explanation
Indices: 4277583--4277711 Score: 80
Period size: 10 Copynumber: 13.3 Consensus size: 9
4277573 CAGAAGTATA
*
4277583 AAAAAATAT
1 AAAAATTAT
4277592 AAAAAATTAT
1 -AAAAATTAT
*
4277602 AAAAATGATT
1 AAAAATTA-T
*
4277612 ATAAATTAAT
1 AAAAATT-AT
* *
4277622 TACAATTCAT
1 AAAAATT-AT
*
4277632 AAAAAATAT
1 AAAAATTAT
4277641 AAAAA-TAT
1 AAAAATTAT
4277649 AAAAAATTAT
1 -AAAAATTAT
4277659 AAAAATTATT
1 AAAAATTA-T
*
4277669 AGAAATTAATT
1 AAAAATT-A-T
*
4277680 AAAAATCAT
1 AAAAATTAT
4277689 AAAAATTTAT
1 AAAAA-TTAT
*
4277699 AAATTATTAT
1 AAA-AATTAT
4277709 AAA
1 AAA
4277712 GCAATTGAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
8 3 0.03
9 33 0.35
10 49 0.52
11 10 0.11
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:4277675 original size:57 final size:57
Alignment explanation
Indices: 4277584--4277693 Score: 184
Period size: 57 Copynumber: 1.9 Consensus size: 57
4277574 AGAAGTATAA
* * *
4277584 AAAAATATAAAAAATTATAAAAATGATTATAAATTAATTACAATTCATAAAAAATAT
1 AAAAATATAAAAAATTATAAAAATGATTAGAAATTAATTAAAAATCATAAAAAATAT
*
4277641 AAAAATATAAAAAATTATAAAAATTATTAGAAATTAATTAAAAATCATAAAAA
1 AAAAATATAAAAAATTATAAAAATGATTAGAAATTAATTAAAAATCATAAAAA
4277694 TTTATAAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (57 bp):
AAAAATATAAAAAATTATAAAAATGATTAGAAATTAATTAAAAATCATAAAAAATAT
Found at i:4277680 original size:11 final size:10
Alignment explanation
Indices: 4277583--4277707 Score: 70
Period size: 9 Copynumber: 13.1 Consensus size: 10
4277573 CAGAAGTATA
* *
4277583 AAAAAATATA
1 AAAAATTATT
4277593 AAAAATTA-T
1 AAAAATTATT
*
4277602 AAAAATGATT
1 AAAAATTATT
*
4277612 ATAAATTAATT
1 AAAAATT-ATT
*
4277623 -ACAATTCA-T
1 AAAAATT-ATT
*
4277632 AAAAAATA-T
1 AAAAATTATT
*
4277641 AAAAA-TATA
1 AAAAATTATT
4277650 AAAAATTA-T
1 AAAAATTATT
4277659 AAAAATTATT
1 AAAAATTATT
*
4277669 AGAAATTAATT
1 AAAAATT-ATT
*
4277680 AAAAATCA-T
1 AAAAATTATT
4277689 AAAAA-T-TT
1 AAAAATTATT
*
4277697 ATAAATTATT
1 AAAAATTATT
4277707 A
1 A
4277708 TAAAGCAATT
Statistics
Matches: 88, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
8 7 0.08
9 35 0.40
10 35 0.40
11 11 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAATTATT
Found at i:4277741 original size:16 final size:16
Alignment explanation
Indices: 4277720--4277753 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4277710 AAGCAATTGA
4277720 AAACATAGTCTAACAC
1 AAACATAGTCTAACAC
*
4277736 AAACATAGTTTAACAC
1 AAACATAGTCTAACAC
4277752 AA
1 AA
4277754 GCTCAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.21, G:0.06, T:0.21
Consensus pattern (16 bp):
AAACATAGTCTAACAC
Found at i:4279126 original size:26 final size:25
Alignment explanation
Indices: 4279069--4279130 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
4279059 TTTACCCTAA
* * *
4279069 ATAAAATTTTGACGATTTTACCCTTG
1 ATAAAA-TTTGACAATTTTAACATTG
**
4279095 GCAAAAGTTTGACAATTTTAACATTG
1 ATAAAA-TTTGACAATTTTAACATTG
4279121 ATAAAATTTG
1 ATAAAATTTG
4279131 GAGAAAATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (25 bp):
ATAAAATTTGACAATTTTAACATTG
Found at i:4279947 original size:22 final size:21
Alignment explanation
Indices: 4279912--4279975 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
4279902 AAAAGCTATC
*
4279912 TACAAATCAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
4279933 TATAGAATCATATCTTCTAAGAT
1 TACA-AATCATATC-TCTAAGAT
4279956 TACAAAT--TATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
4279975 T
1 T
4279976 GCATATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 9 0.24
20 4 0.11
21 3 0.08
22 11 0.29
23 11 0.29
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:4279972 original size:19 final size:21
Alignment explanation
Indices: 4279922--4279975 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
4279912 TACAAATCAA
*
4279922 ATCTCTAAGATTATAGAATCAT
1 ATCTCTAAGATTACAGAAT-AT
4279944 ATCTTCTAAGATTACA-AAT-T
1 ATC-TCTAAGATTACAGAATAT
4279964 ATCTCTAAGATT
1 ATCTCTAAGATT
4279976 GCATATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.30
20 4 0.13
22 6 0.20
23 11 0.37
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (21 bp):
ATCTCTAAGATTACAGAATAT
Found at i:4281269 original size:27 final size:27
Alignment explanation
Indices: 4281235--4281288 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4281225 GATACTTTCG
4281235 GTTAATATTTTTCATCCTCTTGTGGTT
1 GTTAATATTTTTCATCCTCTTGTGGTT
4281262 GTTAATATTTTTCATCCTCTTGTGGTT
1 GTTAATATTTTTCATCCTCTTGTGGTT
4281289 TCTTGTCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (27 bp):
GTTAATATTTTTCATCCTCTTGTGGTT
Found at i:4282458 original size:19 final size:19
Alignment explanation
Indices: 4282423--4282460 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4282413 ACTGTCATTT
*
4282423 CTTCAAATGCACCAAATTG
1 CTTCAAATGCACAAAATTG
4282442 CTTCAAATTG-ACAAAATTG
1 CTTCAAA-TGCACAAAATTG
4282461 TGTAAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (19 bp):
CTTCAAATGCACAAAATTG
Found at i:4285910 original size:21 final size:22
Alignment explanation
Indices: 4285884--4285924 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
4285874 GCCAACTCCA
4285884 CTTCATC-GTCTCCA-CAAATAT
1 CTTCATCTG-CTCCAGCAAATAT
4285905 CTTCATCTGCTCCAGCAAAT
1 CTTCATCTGCTCCAGCAAAT
4285925 GGATCTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.34, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTCATCTGCTCCAGCAAATAT
Found at i:4293026 original size:6 final size:6
Alignment explanation
Indices: 4293003--4293040 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
4292993 TAAAATAAAG
4293003 AAAT-T AAATCT CAAATCT AAATCT AAATCT AAATCT AA
1 AAATCT AAATCT -AAATCT AAATCT AAATCT AAATCT AA
4293041 TAGAGAGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 4 0.13
6 21 0.68
7 6 0.19
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATCT
Found at i:4296694 original size:16 final size:16
Alignment explanation
Indices: 4296673--4296722 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
4296663 TACAGAATCT
4296673 AATCTTATAAGATTAC
1 AATCTTATAAGATTAC
* *
4296689 AATCTTCTAATATTA-
1 AATCTTATAAGATTAC
*
4296704 AGATCTTTTAAGATTAC
1 A-ATCTTATAAGATTAC
4296721 AA
1 AA
4296723 AATCAAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 1 0.04
16 26 0.93
17 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (16 bp):
AATCTTATAAGATTAC
Found at i:4296721 original size:55 final size:55
Alignment explanation
Indices: 4296655--4296758 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
4296645 ATCTTAAACC
* * *
4296655 TTTAAGATTACAGAATCTAATCTTATAAGATTACAATCTTCTAATATTAAGATCT
1 TTTAAGATTACAAAATCAAATCTTATAAGATTACAATCTTCTAAGATTAAGATCT
* *
4296710 TTTAAGATTACAAAATCAAATCTTCTAAGATTATAATCTTCTAAGATTA
1 TTTAAGATTACAAAATCAAATCTTATAAGATTACAATCTTCTAAGATTA
4296759 CTTCCATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (55 bp):
TTTAAGATTACAAAATCAAATCTTATAAGATTACAATCTTCTAAGATTAAGATCT
Found at i:4296749 original size:16 final size:16
Alignment explanation
Indices: 4296728--4296758 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4296718 TACAAAATCA
4296728 AATCTTCTAAGATTAT
1 AATCTTCTAAGATTAT
4296744 AATCTTCTAAGATTA
1 AATCTTCTAAGATTA
4296759 CTTCCATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (16 bp):
AATCTTCTAAGATTAT
Found at i:4311572 original size:19 final size:19
Alignment explanation
Indices: 4311545--4311611 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
4311535 AAATATAAAA
*
4311545 TTTGAAATTTTTATAAATAT
1 TTTG-AATTTTTAAAAATAT
*
4311565 TTTGAA--TTTAAAAATTCT
1 TTTGAATTTTTAAAAA-TAT
*
4311583 TTTTAATTTTTGAAAAATAT
1 TTTGAATTTTT-AAAAATAT
4311603 TTT-AATTTT
1 TTTGAATTTT
4311612 ATTTGTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 7 0.18
18 7 0.18
19 8 0.21
20 12 0.31
21 5 0.13
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTGAATTTTTAAAAATAT
Found at i:4336827 original size:22 final size:20
Alignment explanation
Indices: 4336786--4336843 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
4336776 TTTAGTCATA
4336786 TAATAAATTATT-AATA---
1 TAATAAATTATTGAATATTT
4336802 TAATAAATATAATTGAATATTT
1 TAATAAAT-T-ATTGAATATTT
*
4336824 TAATAAATTATTTAATATTT
1 TAATAAATTATTGAATATTT
4336844 CAATTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 8 0.23
17 1 0.03
18 3 0.09
19 4 0.11
20 10 0.29
21 1 0.03
22 8 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAATAAATTATTGAATATTT
Found at i:4336877 original size:19 final size:19
Alignment explanation
Indices: 4336855--4336894 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
4336845 AATTTTATTT
4336855 TAATAATAAATTTTAAA-AA
1 TAATAAT-AATTTTAAATAA
4336874 TAATAATAATTTTAAATAA
1 TAATAATAATTTTAAATAA
4336893 TA
1 TA
4336895 TTATTCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATAATAATTTTAAATAA
Found at i:4336947 original size:15 final size:15
Alignment explanation
Indices: 4336927--4336983 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
4336917 ATTCAATATT
4336927 AATATTTTAATAATA
1 AATATTTTAATAATA
*
4336942 AATATTTATTACTATTATA
1 AATA-TT-TTA--ATAATA
*
4336961 AATATATTAATAATA
1 AATATTTTAATAATA
*
4336976 AATGTTTT
1 AATATTTT
4336984 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 15 0.45
16 2 0.06
17 6 0.18
18 1 0.03
19 9 0.27
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:4340714 original size:48 final size:48
Alignment explanation
Indices: 4340659--4341030 Score: 361
Period size: 48 Copynumber: 7.7 Consensus size: 48
4340649 TGTGATCCAC
* *
4340659 TGTAAGACCATGTTTGGAACATGGCATCGACATTGATAAGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACATCGATATGAGAGCTAG
* * * * * * *
4340707 TGTAAGACCATGTTTGGGATATGGCATCGCCCTCGACATGTGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACATCGATATGAGAGCTAG
* * * *
4340755 TGTAAGACCATGTTTGAAACATGGCATTGGCATTGATATGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACATCGATATGAGAGCTAG
* * * * * * *
4340803 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAA
1 TGTAAGACCATGTTTGGAACATGGCATCGACATCGATATGAGAGCTAG
* * *
4340851 TATAAGACCATGTTTGGAGCATGGCATCGGCATCGATATGAGAG-TAAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACATCGATATGAGAGCT-AG
* * * * * * * * *
4340899 TGTAAGACTATATTTGGGACATGGCATCGACCTCAACAAGTGGGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACATCGATATGAGAGCTAG
* * *
4340947 TGTAAGACCATGTTTGGAACATAGAATCGACATTGATATATGAGAG-TCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACATCG--ATATGAGAGCT-AG
* *
4340997 TGTAAGACCATGTTTGGGACATGGAATCGACATC
1 TGTAAGACCATGTTTGGAACATGGCATCGACATC
4341031 TTACCCTTTT
Statistics
Matches: 256, Mismatches: 63, Indels: 8
0.78 0.19 0.02
Matches are distributed among these distances:
48 216 0.84
49 2 0.01
50 38 0.15
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGAACATGGCATCGACATCGATATGAGAGCTAG
Found at i:4340791 original size:96 final size:96
Alignment explanation
Indices: 4340648--4341027 Score: 467
Period size: 96 Copynumber: 3.9 Consensus size: 96
4340638 CATTAGGGTT
* *
4340648 ATGTGATCCACTGTAAGACCATGTTTGGAACATGGCATCGACATTGATAAGAGAGCT-AGTGTAA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATAAGAGAG-TAAGTGTAA
* *
4340712 GACCATGTTTGGGATATGGCATCGCCCTCGAC
65 GACCATGTTTGGGACATGGCATCGACCTCGAC
* * * *
4340744 ATGTGAGCCAGTGTAAGACCATGTTTGAAACATGGCATTGGCATTGATATGAGAGCT-AGTGTAA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATAAGAGAG-TAAGTGTAA
* * *
4340808 GACCATGTCTGGGACATGGCATCGGCCTCGAT
65 GACCATGTTTGGGACATGGCATCGACCTCGAC
* * * * * *
4340840 ATGTGAGCCAATATAAGACCATGTTTGGAGCATGGCATCGGCATCGATATGAGAGTAAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATAAGAGAGTAAGTGTAAG
* * *
4340905 ACTATATTTGGGACATGGCATCGACCTCAAC
66 ACCATGTTTGGGACATGGCATCGACCTCGAC
* * * * * *
4340936 AAGTGGGCTAGTGTAAGACCATGTTTGGAACATAGAATCGACATTGATATATGAGAGTCAGTGTA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATA-A-GAGAGTAAGTGTA
*
4341001 AGACCATGTTTGGGACATGGAATCGAC
64 AGACCATGTTTGGGACATGGCATCGAC
4341028 ATCTTACCCT
Statistics
Matches: 244, Mismatches: 37, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
95 1 0.00
96 207 0.85
98 36 0.15
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (96 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATAAGAGAGTAAGTGTAAG
ACCATGTTTGGGACATGGCATCGACCTCGAC
Found at i:4348448 original size:48 final size:48
Alignment explanation
Indices: 4348374--4348749 Score: 342
Period size: 48 Copynumber: 7.8 Consensus size: 48
4348364 GTTATGTGAT
* *
4348374 CCAGTGTAAGACCATGTTTGGAACATGACATCGGCATTGATATAAGAG
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGATATAAGAG
* * * * *
4348422 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTA-AG
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGATAT-AAGAG
* * *
4348470 CCAGTGCAAGACCATGTTTGGAACATGGCATCGGTATTGATATGAA-AG
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGATAT-AAGAG
* * * * **
4348518 CGAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCGATATGTGAG
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGATATAAGAG
** * *
4348566 CCAACGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAG
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGATATAAGAG
* * * * * * * * * *** *
4348614 CGAATGTAAGACTATATCTGGGACATGGCATCAGCCTCGACACGTGGG
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGATATAAGAG
* * ***
4348662 CTAGTGTAAGACCATGTTTGGAACATGGTATCGGTGCCGATATATGAGAG
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGATATA--AGAG
**
4348712 CCAGTGTAAGACCATGTTTGGGGCATGGCATCGGCATC
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATC
4348750 TTAACCTTTT
Statistics
Matches: 256, Mismatches: 68, Indels: 6
0.78 0.21 0.02
Matches are distributed among these distances:
48 222 0.87
49 1 0.00
50 33 0.13
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGATATAAGAG
Found at i:4348530 original size:96 final size:96
Alignment explanation
Indices: 4348366--4348743 Score: 483
Period size: 96 Copynumber: 3.9 Consensus size: 96
4348356 ATACTAGGGT
* * *
4348366 TATGTGATCCAGTGTAAGACCATGTTTGGAACATGACATCGGCATTGATAT-AAGAGCTAGTGTA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAA-AGCGAGTGTA
*
4348430 AGACCATGTCTGGGACATGGCATCGGCCTCGA
65 AGACCATGTCTGGGACATGGCATCAGCCTCGA
* * *
4348462 TATGTAAGCCAGTGCAAGACCATGTTTGGAACATGGCATCGGTATTGATATGAAAGCGAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAAAGCGAGTGTAA
*
4348527 GACCATGTTTGGGACATGGCATCAGCCTCGA
66 GACCATGTCTGGGACATGGCATCAGCCTCGA
** * *
4348558 TATGTGAGCCAACGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCGAATGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAAAGCGAGTGTAA
* *
4348623 GACTATATCTGGGACATGGCATCAGCCTCGA
66 GACCATGTCTGGGACATGGCATCAGCCTCGA
* * * * * * *
4348654 CACGTGGGCTAGTGTAAGACCATGTTTGGAACATGGTATCGGTGCCGA-T-ATATGAGAGCCAGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-G-G-C-ATTGATATGAAAGCGAGT
* *
4348717 GTAAGACCATGTTTGGGGCATGGCATC
62 GTAAGACCATGTCTGGGACATGGCATC
4348744 GGCATCTTAA
Statistics
Matches: 246, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
96 204 0.83
97 3 0.01
98 36 0.15
99 2 0.01
100 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAAAGCGAGTGTAA
GACCATGTCTGGGACATGGCATCAGCCTCGA
Found at i:4348640 original size:144 final size:144
Alignment explanation
Indices: 4348376--4348749 Score: 392
Period size: 144 Copynumber: 2.6 Consensus size: 144
4348366 TATGTGATCC
* * * * * *
4348376 AGTGTAAGACCATGTTTGGAACATGACATCGGCATTGATATAAGAGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGAGAGCCAGTGTAAGACCATGTTT
* * * * * *
4348441 GGGACATGGCATCGGCCTCGATATGTAAGCCAGTGCAAGACCATGTTTGGAACATGGCATCGGTA
66 GGGACATGGCATCGGCATCGATATGTAAGCCAATGCAAGACCATATCTGGAACATGGCATCAGCA
* * *
4348506 TTGATATGAAAGCG
131 TCGACACGAAAGCG
* * * **
4348520 AGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCGATATGTGAGCCAACGTAAGACCATGTTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGAGAGCCAGTGTAAGACCATGTTT
* * * * * *
4348585 GGAACATGGCATCGGCATTGATATG-AGAGCGAATGTAAGACTATATCTGGGACATGGCATCAGC
66 GGGACATGGCATCGGCATCGATATGTA-AGCCAATGCAAGACCATATCTGGAACATGGCATCAGC
* *** *
4348649 CTCGACACGTGGGCT
130 ATCGACACGAAAGCG
* *
4348664 AGTGTAAGACCATGTTTGGAACATGGTATCGGTGC-CGATATATGAGAGCCAGTGTAAGACCATG
1 AGTGTAAGACCATGTTTGGAACATGGCATCGG-CCTCG--ATATGAGAGCCAGTGTAAGACCATG
*
4348728 TTTGGGGCATGGCATCGGCATC
63 TTTGGGACATGGCATCGGCATC
4348750 TTAACCTTTT
Statistics
Matches: 185, Mismatches: 41, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
143 1 0.01
144 142 0.77
145 1 0.01
146 41 0.22
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (144 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGAGAGCCAGTGTAAGACCATGTTT
GGGACATGGCATCGGCATCGATATGTAAGCCAATGCAAGACCATATCTGGAACATGGCATCAGCA
TCGACACGAAAGCG
Found at i:4360280 original size:28 final size:28
Alignment explanation
Indices: 4360248--4360317 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
4360238 AATGAGATTG
4360248 GCACTAAGTGTGCGAGTTTAA-T-TGTATA
1 GCACTAAGTGTGCGAGTTTAAGTAT-TA-A
*
4360276 GCACTAAGTGTGCGAGTTTGAGTATTAA
1 GCACTAAGTGTGCGAGTTTAAGTATTAA
4360304 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
4360318 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAAGTATTAA
Found at i:4360590 original size:12 final size:12
Alignment explanation
Indices: 4360573--4360597 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4360563 GTTGAAATGC
4360573 ATCAAATATCAT
1 ATCAAATATCAT
4360585 ATCAAATATCAT
1 ATCAAATATCAT
4360597 A
1 A
4360598 CGAGATGTCA
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATCAAATATCAT
Found at i:4362350 original size:52 final size:52
Alignment explanation
Indices: 4362289--4362396 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
4362279 ATTTTGAGAA
4362289 TAAATCAAAATATAATCGACAAACACAACCACAAACTTATTTAAGTATGGTC
1 TAAATCAAAATATAATCGACAAACACAACCACAAACTTATTTAAGTATGGTC
* *
4362341 TAAATCAAAATATTATCGATAAACACAACCACAAACTTATTTAAGTATGGTC
1 TAAATCAAAATATAATCGACAAACACAACCACAAACTTATTTAAGTATGGTC
4362393 TAAA
1 TAAA
4362397 AATCCAATTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (52 bp):
TAAATCAAAATATAATCGACAAACACAACCACAAACTTATTTAAGTATGGTC
Found at i:4375736 original size:40 final size:40
Alignment explanation
Indices: 4375669--4375793 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
4375659 GGACTAAGAT
** * *
4375669 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
* *
4375709 CCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGAC
1 CCGAAGGCATTTATGCGAGTTG-TTATATCCGGGCTAAGTC
* *
4375749 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
4375788 CCGAAG
1 CCGAAG
4375794 ATACTTGGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.21
40 56 0.77
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
Found at i:4377446 original size:43 final size:42
Alignment explanation
Indices: 4377347--4377497 Score: 148
Period size: 43 Copynumber: 3.6 Consensus size: 42
4377337 AGCTCGTACA
* * ** *
4377347 ATGCC-ATATCCCAGATATGGTCTTACATGTTATC-ACAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAATAAT-G
*
4377388 ATACCAATGTCCCAGACATGGTCTTACATGAAATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCA-ATAATG
* *
4377431 ATGCCAATGTCCCAGACATGGTCTTACACGTAATAACAATACA--
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AA-ATCAATA-ATG
*
4377474 ATGCCAATGTCCCAAACATGGTCT
1 ATGCCAATGTCCCAGACATGGTCT
4377498 GTAACACCCC
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
41 4 0.04
42 25 0.27
43 52 0.55
44 9 0.10
45 4 0.04
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAATAATG
Found at i:4379010 original size:24 final size:24
Alignment explanation
Indices: 4378983--4379028 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
4378973 GAATTTAACA
4378983 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
4379007 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
4379029 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:4388675 original size:27 final size:26
Alignment explanation
Indices: 4388635--4388793 Score: 140
Period size: 27 Copynumber: 5.9 Consensus size: 26
4388625 AGGAAGCGTC
*
4388635 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTAAT
**
4388662 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTAAT
* *
4388689 CTGGTGGCTATGCCACGATTATTTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTAAT
* *
4388716 CTGGTGGCTCTACCACA-TATATAAGTT
1 CTGGTGGCTCTGCCACATTATCTAA--T
* * *
4388743 ATGTTGGCTCTGCCACAATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCT-AAT
* *
4388771 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
4388794 GTATCTGGCA
Statistics
Matches: 106, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
25 6 0.06
26 3 0.03
27 76 0.72
28 16 0.15
29 4 0.04
30 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTAAT
Found at i:4388717 original size:54 final size:54
Alignment explanation
Indices: 4388635--4388801 Score: 203
Period size: 54 Copynumber: 3.1 Consensus size: 54
4388625 AGGAAGCGTC
*
4388635 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATTTAATCTGGTGGCTCTGCCACATATATCTGTT
* * **
4388689 CTGGTGGCTATGCCACGATTATTTAATCTGGTGGCTCTACCACATATATAAGTT
1 CTGGTGGCTATGCCACAATTATTTAATCTGGTGGCTCTGCCACATATATCTGTT
* * * * *
4388743 ATGTTGGCTCTGCCACAATTATCTGT-ATCTGGTGACTCTGTCACAT-TATCTGTAT
1 CTGGTGGCTATGCCACAATTAT-T-TAATCTGGTGGCTCTGCCACATATATCTGT-T
4388798 CTGG
1 CTGG
4388802 CAGCCATGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 72 0.77
55 21 0.22
56 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATTTAATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:4393617 original size:49 final size:51
Alignment explanation
Indices: 4393539--4393660 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 51
4393529 TATCACTAGT
*
4393539 GACT-CAAGTGTGGTACTATCTGAAGGCCACTTTGAGAAG-AGATAGCTTG
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
* * * * * *
4393588 GTC-ACAAGTGTGATACTATGTGAATGCCACTTTGTGAAGAAGGTAGCTTT
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
*
4393638 GACTACAAGGGTGGTACTATGTG
1 GACTACAAGTGTGGTACTATGTG
4393661 CAGCCACCGG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 33 0.55
50 10 0.17
51 17 0.28
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (51 bp):
GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
Found at i:4397830 original size:27 final size:27
Alignment explanation
Indices: 4397813--4397870 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
4397803 AATAAACATG
4397813 AGGTAGTCCACCGAGACACTAAACACA
1 AGGTAGTCCACCGAGACACTAAACACA
*
4397840 AGGTAGTCCATCGAGACACTAAACACA
1 AGGTAGTCCACCGAGACACTAAACACA
4397867 AGGT
1 AGGT
4397871 TCATAAGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.14
Consensus pattern (27 bp):
AGGTAGTCCACCGAGACACTAAACACA
Found at i:4400469 original size:75 final size:75
Alignment explanation
Indices: 4400346--4400489 Score: 261
Period size: 75 Copynumber: 1.9 Consensus size: 75
4400336 GAGGAAAACC
*
4400346 AGGATTATTCCCTTATTAATAGAGAACACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
1 AGGATTATTCCCTTATTAATAGAGAACACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCA
4400411 AAAATATTAT
66 AAAATATTAT
* *
4400421 AGGATTATTCTCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCA
1 AGGATTATTCCCTTATTAATAGAGAACACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCA
4400486 AAAA
66 AAAA
4400490 GAATATTAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (75 bp):
AGGATTATTCCCTTATTAATAGAGAACACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCA
AAAATATTAT
Found at i:4401888 original size:13 final size:13
Alignment explanation
Indices: 4401870--4401894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4401860 TTTTGGGTTG
4401870 AAAAGCACTTTTA
1 AAAAGCACTTTTA
4401883 AAAAGCACTTTT
1 AAAAGCACTTTT
4401895 GAGTCAAAAA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
AAAAGCACTTTTA
Found at i:4402962 original size:28 final size:28
Alignment explanation
Indices: 4402926--4402981 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
4402916 TCATGGAGTC
*
4402926 AGTCTAGAAGAAGTACCATGATTGGAAA
1 AGTCCAGAAGAAGTACCATGATTGGAAA
4402954 AGTCCAGAAGAAGTACCATGATTGGAAA
1 AGTCCAGAAGAAGTACCATGATTGGAAA
4402982 CTCCTTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (28 bp):
AGTCCAGAAGAAGTACCATGATTGGAAA
Found at i:4407233 original size:31 final size:31
Alignment explanation
Indices: 4407195--4407256 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4407185 TCCAACATGA
4407195 AAGAGTGTGATACCTACGACCATAAAATGTC
1 AAGAGTGTGATACCTACGACCATAAAATGTC
4407226 AAGAGTGTGATACCTACGACCATAAAATGTC
1 AAGAGTGTGATACCTACGACCATAAAATGTC
4407257 TCGTAAGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (31 bp):
AAGAGTGTGATACCTACGACCATAAAATGTC
Found at i:4433348 original size:79 final size:81
Alignment explanation
Indices: 4433246--4433430 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
4433236 GCTCCTCGTT
* *
4433246 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
4433309 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
4433326 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
4433390 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
4433406 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4433431 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:4433430 original size:40 final size:40
Alignment explanation
Indices: 4433246--4433430 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
4433236 GCTCCTCGTT
* *
4433246 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
4433286 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
4433326 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
4433365 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
4433406 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4433431 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:4441300 original size:40 final size:40
Alignment explanation
Indices: 4441226--4441370 Score: 213
Period size: 40 Copynumber: 3.6 Consensus size: 40
4441216 AACCCAAGTA
* * *
4441226 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
4441265 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
4441305 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
4441345 CCTTC-GGATCTTAGTCCGGTTATAGT
1 CCTTCGGGA-CTTAGCCCGGATATAGT
4441371 CCGAATAATC
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
39 16 0.16
40 82 0.84
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:4442749 original size:13 final size:13
Alignment explanation
Indices: 4442731--4442756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4442721 ATTTTTATTT
4442731 TTAACATAAAATA
1 TTAACATAAAATA
4442744 TTAACATAAAATA
1 TTAACATAAAATA
4442757 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:4449631 original size:37 final size:37
Alignment explanation
Indices: 4449578--4449652 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
4449568 TTAAAAGATT
* * *
4449578 ATTAGGAGGGTTCAAAAACTCAAATTAATTCTAGAAA
1 ATTAGAAGGGTCCAAAAACTCAAATTAAGTCTAGAAA
4449615 ATTAGAAGGGTCCAAAAACTCAAATTAAGTCTAGAAA
1 ATTAGAAGGGTCCAAAAACTCAAATTAAGTCTAGAAA
4449652 A
1 A
4449653 ATATAAGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (37 bp):
ATTAGAAGGGTCCAAAAACTCAAATTAAGTCTAGAAA
Found at i:4453181 original size:50 final size:50
Alignment explanation
Indices: 4453057--4453254 Score: 189
Period size: 50 Copynumber: 3.9 Consensus size: 50
4453047 CATTGTGAGA
* *** *
4453057 ACATGTGTAGTACTATGTGCAAGCTACTATGTGTTTAAAATGGTTTTAGGTC
1 ACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATGG--TTAGGTC
* *
4453109 ACGTGTGTAGTACTAAGGGCAAGCTACTATGTGTACCAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATGGTTAGGTC
* * ** * * * *
4453159 GCATATGTAGTACTAAGTGCAAGCTACTATGCATACCCGATAGCTTCGATC
1 ACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGAT-GGTTAGGTC
* * * **
4453210 ACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAATAGATGGTT
1 ACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATGGTT
4453255 TTGAACACAA
Statistics
Matches: 117, Mismatches: 28, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
50 44 0.38
51 37 0.32
52 36 0.31
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATGGTTAGGTC
Found at i:4461906 original size:27 final size:27
Alignment explanation
Indices: 4461868--4461928 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
4461858 CGAGCGTGTG
4461868 GGCCCATTTGGGCCGAGAAGGGCTTTA
1 GGCCCATTTGGGCCGAGAAGGGCTTTA
*
4461895 GGCCGATTTGGGCCGAGAAGGGC-TTA
1 GGCCCATTTGGGCCGAGAAGGGCTTTA
*
4461921 AGCCCATT
1 GGCCCATT
4461929 CGTATTGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.20, C:0.23, G:0.36, T:0.21
Consensus pattern (27 bp):
GGCCCATTTGGGCCGAGAAGGGCTTTA
Found at i:4462044 original size:53 final size:52
Alignment explanation
Indices: 4461966--4462354 Score: 333
Period size: 53 Copynumber: 7.3 Consensus size: 52
4461956 TTAGTTTACC
* * * * * *
4461966 AAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGGTTTATA
1 AAATTAC-GAAATACCCTCGATTTGTAAAATTACGAAA-TACCCTCGATTTGTA
* **
4462019 AAATTATCGAAATACCGTCGA-TTGTAAAATTATTAAAATACCCTCGATTTGTA
1 AAATTA-CGAAATACCCTCGATTTGTAAAATTA-CGAAATACCCTCGATTTGTA
*
4462072 AAATTACCGAAATACCCTC-AGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTA-CGAAATACCCTCGA-TTTGTAAAATTAC-GAAATACCCTCGATTTGTA
* * * * * *
4462126 AAATGACTG-AATACCCTCGACTTGTAAAATTAC-CAATACCCCCGGTTTATA
1 AAATTAC-GAAATACCCTCGATTTGTAAAATTACGAAATACCCTCGATTTGTA
* * *
4462177 AAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAATACCGTCGA-TTGTA
1 AAATTA-CGAAATACCCTCGATTTGTAAAATTA-CGAAATACCCTCGATTTGTA
4462230 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTAAAATTAC-GAAATACCCTCGATTTGTA
* * * *** **
4462284 AAATTATC-AAAGTACCCCCGATTTATAGAATTACCGTTTTACCCTCGATTTACA
1 AAATTA-CGAAA-TACCCTCGATTTGTAAAATTA-CGAAATACCCTCGATTTGTA
*
4462338 AAATTATTGAAATACCC
1 AAATTA-CGAAATACCC
4462355 CTATAGGGTA
Statistics
Matches: 277, Mismatches: 40, Indels: 37
0.78 0.11 0.10
Matches are distributed among these distances:
51 19 0.07
52 25 0.09
53 124 0.45
54 104 0.38
55 5 0.02
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (52 bp):
AAATTACGAAATACCCTCGATTTGTAAAATTACGAAATACCCTCGATTTGTA
Found at i:4462102 original size:80 final size:79
Alignment explanation
Indices: 4461987--4462354 Score: 370
Period size: 80 Copynumber: 4.6 Consensus size: 79
4461977 ATACCCCCAG
* *
4461987 TTGTAAAATTACC-AAAGTACCCCCGGTTTATAAAATTATCGAAATACCGTCGA-TTGTAAAATT
1 TTGTAAAATTACCGAAA-TACCCTC-GTTTATAAAATTA-CGAAATACCCTCGATTTGTAAAATT
*
4462050 ATTAAAATACCCTCGAT
63 ATCAAAATACCCTCGAT
** *
4462067 TTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTAAAATGA
1 TTGTAAAATTACCGAAATACCCTC-GTTTATAAAATTAC-GAAATACCCTCGATTTGTAAAATTA
** *
4462132 -CTGAATACCCTCGAC
64 TCAAAATACCCTCGAT
* * *
4462147 TTGTAAAATTACC--AATACCCCCGGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTA
1 TTGTAAAATTACCGAAATACCCTC-GTTTATAAAATTA-CGAAATACCCTCGATTTGTAAAATTA
* *
4462210 TCGAAATACCGTCGA-
64 TCAAAATACCCTCGAT
* *
4462225 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTA
1 TTGTAAAATTACCGAAATACCCTCG-TTTATAAAATTAC-GAAATACCCTCGATTTGTAAAATTA
* *
4462290 TCAAAGTACCCCCGAT
64 TCAAAATACCCTCGAT
* * *** * *
4462306 TTATAGAATTACCGTTTTACCCTCGATTTACAAAATTATTGAAATACCC
1 TTGTAAAATTACCGAAATACCCTCG-TTTATAAAATTA-CGAAATACCC
4462355 CTATAGGGTA
Statistics
Matches: 239, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
78 53 0.22
79 15 0.06
80 119 0.50
81 52 0.22
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (79 bp):
TTGTAAAATTACCGAAATACCCTCGTTTATAAAATTACGAAATACCCTCGATTTGTAAAATTATC
AAAATACCCTCGAT
Found at i:4462216 original size:105 final size:104
Alignment explanation
Indices: 4462027--4462289 Score: 307
Period size: 105 Copynumber: 2.5 Consensus size: 104
4462017 TAAAATTATC
* * * * *
4462027 GAAATACCGTCGATTGTAAAATTATTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCA
1 GAAATACCCTCGATTGTAAAATTA--CAAATACCCCCGATTTATAAAATTACCCAAATACCCTCA
4462092 GTTTGCAAAATTACTGAAATACCCTCGATTTGTAAAATGACT
64 GTTTGCAAAATTACTGAAATACCCTCGA-TTGTAAAATGACT
* * *
4462134 G-AATACCCTCGACTTGTAAAATTACCAATACCCCCGGTTTATAAAATTACCCAAATATCCTC-G
1 GAAATACCCTCGA-TTGTAAAATTACAAATACCCCCGATTTATAAAATTACCCAAATACCCTCAG
* * *
4462197 ATTTGTAAAATTA-TCGAAATACCGTCGATTGTAAAATTACT
65 -TTTGCAAAATTACT-GAAATACCCTCGATTGTAAAATGACT
* *
4462238 GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTA
1 GAAATACCCTCGA-TTGTAAAATTAC--AAATACCCCCGATTTATAAAATTA
4462290 TCAAAGTACC
Statistics
Matches: 134, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
104 15 0.11
105 77 0.57
106 10 0.07
107 32 0.24
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (104 bp):
GAAATACCCTCGATTGTAAAATTACAAATACCCCCGATTTATAAAATTACCCAAATACCCTCAGT
TTGCAAAATTACTGAAATACCCTCGATTGTAAAATGACT
Found at i:4462353 original size:27 final size:27
Alignment explanation
Indices: 4461966--4462354 Score: 368
Period size: 27 Copynumber: 14.6 Consensus size: 27
4461956 TTAGTTTACC
* *
4461966 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
4461992 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
*
4462019 AAATTA-TCGAAATACCGTCGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
4462045 AAATTATTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
4462072 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
4462099 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
4462126 AAATGACTG-AATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
4462152 AAATTAC--CAATACCCCCGGTTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
4462177 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
4462204 AAATTA-TCGAAATACCGTCGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
4462230 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
4462257 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
4462284 AAATTA-TCAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* * *** **
4462311 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
*
4462338 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
4462355 CTATAGGGTA
Statistics
Matches: 295, Mismatches: 52, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
25 23 0.08
26 83 0.28
27 185 0.63
28 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:4462369 original size:27 final size:27
Alignment explanation
Indices: 4462346--4462453 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 27
4462336 CAAAATTATT
*
4462346 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
4462373 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
4462400 GAAATACGCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
** * * *
4462427 GGGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
4462454 ATTTTGCCCT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:4462404 original size:54 final size:53
Alignment explanation
Indices: 4462346--4462449 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 53
4462336 CAAAATTATT
4462346 GAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA-AAATACC
* * ** *
4462400 GAAATACGCCTGTAGGGTAGAATTACCGGGATACCCTTGTGGGGTAAAAT
1 GAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAAT
4462450 TACCATTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.09
54 41 0.91
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (53 bp):
GAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATACC
Found at i:4462921 original size:22 final size:22
Alignment explanation
Indices: 4462869--4462933 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
4462859 TTAAAGCCTT
* *
4462869 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
4462891 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
4462913 TTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
4462934 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:4463180 original size:27 final size:26
Alignment explanation
Indices: 4463092--4463199 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
4463082 ATTCTGTTAA
* * *
4463092 GTGGCTTTGCCACATTATATGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
4463119 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
4463146 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* **
4463173 GTGACTCTATCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
4463199 G
1 G
4463200 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 52 0.72
28 6 0.08
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:4463326 original size:6 final size:6
Alignment explanation
Indices: 4463317--4463404 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
4463307 TTGCATTCAC
* *
4463317 ATTCTG ATTCTG ATTCTG -TTAACTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
4463367 ATTCTG ATTCTA ATTCTC ATTTTG ATTCT- ACTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
4463405 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:4463348 original size:25 final size:25
Alignment explanation
Indices: 4463320--4463383 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
4463310 CATTCACATT
*
4463320 CTGATTCTGATTCTGTTAACTGATA
1 CTGATTCTGATTCTGTCAACTGATA
* *
4463345 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCAACTGATA
*
4463370 CTGATTCTAATTCT
1 CTGATTCTGATTCT
4463384 CATTTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCAACTGATA
Found at i:4470220 original size:6 final size:6
Alignment explanation
Indices: 4470209--4471044 Score: 1672
Period size: 6 Copynumber: 139.3 Consensus size: 6
4470199 GAGAATAACC
4470209 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470257 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470305 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470353 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470401 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470449 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470497 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470545 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470593 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470641 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470689 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470737 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470785 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470833 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470881 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470929 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4470977 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
4471025 ACATAT ACATAT ACATAT AC
1 ACATAT ACATAT ACATAT AC
4471045 CAACATATGC
Statistics
Matches: 830, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 830 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:4476136 original size:19 final size:19
Alignment explanation
Indices: 4476112--4476157 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
4476102 TGGGCCCGTT
*
4476112 GGCCCATTGGCCTGTTTTC
1 GGCCCATTGGCCTATTTTC
4476131 GGCCCATTGGCCTATTTTC
1 GGCCCATTGGCCTATTTTC
4476150 GGCCCATT
1 GGCCCATT
4476158 AAGCCCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.09, C:0.33, G:0.24, T:0.35
Consensus pattern (19 bp):
GGCCCATTGGCCTATTTTC
Found at i:4478486 original size:69 final size:70
Alignment explanation
Indices: 4478354--4478486 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 70
4478344 TAGTTTATTA
* * * ** * *
4478354 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTATAATACTGTAAATTATTGGCTCCCCAAATTAGGACAAAATCATGGTA
4478419 CTTAG
66 CTTAG
4478424 CTAATTAATATGCTGCTATAATACT-TAAATTATTGGCTCCCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTATAATACTGTAAATTATTGGCTCCCCAAATTAGGACAAAATCATGGT
4478487 GTTATGTGCT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
69 34 0.61
70 22 0.39
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (70 bp):
CTAATTAATATGCTGCTATAATACTGTAAATTATTGGCTCCCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:4479952 original size:47 final size:47
Alignment explanation
Indices: 4479873--4480277 Score: 675
Period size: 47 Copynumber: 8.6 Consensus size: 47
4479863 TATTTGAATA
*
4479873 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TACATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
4479922 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
4479969 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
4480016 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
4480063 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
4480110 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
4480157 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
4480204 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGTCAACGTGATG
1 AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
4480251 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTACATATGTGATAAG
4480278 TCCCGAAGGG
Statistics
Matches: 343, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
47 331 0.97
49 12 0.03
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTACATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:4488165 original size:27 final size:27
Alignment explanation
Indices: 4488135--4488312 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4488125 ATATTGAGTC
* * * *
4488135 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
4488162 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4488189 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4488217 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4488244 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4488271 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4488298 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4488313 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4488274 original size:82 final size:81
Alignment explanation
Indices: 4488156--4488311 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4488146 TGCTATATAA
* *
4488156 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4488221 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4488238 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4488302 CACTTAGTGC
65 CACTTAGTGC
4488312 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4488526 original size:65 final size:65
Alignment explanation
Indices: 4488422--4488549 Score: 247
Period size: 65 Copynumber: 2.0 Consensus size: 65
4488412 TTTTCTTTCT
4488422 TTCAACAATTTCATCATCACATACGTACATGCACATATATATATGTATATTTATTCATTCCATCA
1 TTCAACAATTTCATCATCACATACGTACATGCACATATATATATGTATATTTATTCATTCCATCA
*
4488487 TTCAACAATTTCATCATCACATACGTACATGCATATATATATATGTATATTTATTCATTCCAT
1 TTCAACAATTTCATCATCACATACGTACATGCACATATATATATGTATATTTATTCATTCCAT
4488550 TCAGCATCAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (65 bp):
TTCAACAATTTCATCATCACATACGTACATGCACATATATATATGTATATTTATTCATTCCATCA
Found at i:4491006 original size:27 final size:26
Alignment explanation
Indices: 4490958--4491009 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
4490948 GCGAGGCTGC
*
4490958 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
4490984 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
4491010 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:4493751 original size:20 final size:20
Alignment explanation
Indices: 4493728--4493765 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4493718 AGACGTTCAA
4493728 ACAGGGACACCGAAATGCAT
1 ACAGGGACACCGAAATGCAT
*
4493748 ACAGGGACACTGAAATGC
1 ACAGGGACACCGAAATGC
4493766 GAATAGTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.26, T:0.11
Consensus pattern (20 bp):
ACAGGGACACCGAAATGCAT
Found at i:4493754 original size:60 final size:60
Alignment explanation
Indices: 4493690--4493811 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
4493680 ACGTGTAGCT
* *
4493690 AGGGACACTGAAGTGC-AACCAGGGGCACAGACGTTCAAACAGGGACACCGAAA-TGCATAC
1 AGGGACACTGAAATGCGAA-CAGGGGCACAGACGTGCAAACAGGGACACC-AAAGTGCATAC
* * * * *
4493750 AGGGACACTGAAATGCGAATAGTGGCACAGTCGTGCAAATAGGGACACCAAAGTGTATAC
1 AGGGACACTGAAATGCGAACAGGGGCACAGACGTGCAAACAGGGACACCAAAGTGCATAC
4493810 AG
1 AG
4493812 TTGCACAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 3 0.06
60 48 0.91
61 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.29, T:0.13
Consensus pattern (60 bp):
AGGGACACTGAAATGCGAACAGGGGCACAGACGTGCAAACAGGGACACCAAAGTGCATAC
Found at i:4493842 original size:20 final size:20
Alignment explanation
Indices: 4493795--4493844 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
4493785 CAAATAGGGA
* *
4493795 CACCAAAGTGTATACAGTTG
1 CACCAAAGTGTAAACAGATG
*
4493815 CACAAAAGTGTAAACAAGAT-
1 CACCAAAGTGTAAAC-AGATG
4493835 CACCAAAGTG
1 CACCAAAGTG
4493845 CGAACAAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (20 bp):
CACCAAAGTGTAAACAGATG
Found at i:4500062 original size:32 final size:32
Alignment explanation
Indices: 4500021--4500085 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
4500011 TATAACTGCT
*
4500021 TATCCCGCAAAATTTGCAACACTTGCCTCAGA
1 TATCCCGCAAAATTTGCAACACTAGCCTCAGA
*
4500053 TATCCCGCAAAATTTGTAACACTAGCCTCAGA
1 TATCCCGCAAAATTTGCAACACTAGCCTCAGA
4500085 T
1 T
4500086 GCTCGGCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.26
Consensus pattern (32 bp):
TATCCCGCAAAATTTGCAACACTAGCCTCAGA
Found at i:4503184 original size:12 final size:12
Alignment explanation
Indices: 4503167--4503199 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4503157 ACTTCGAAAG
4503167 GGTACACGGCCT
1 GGTACACGGCCT
4503179 GGTACACGGCCT
1 GGTACACGGCCT
*
4503191 GGCACACGG
1 GGTACACGG
4503200 GCGTGTGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.33, G:0.36, T:0.12
Consensus pattern (12 bp):
GGTACACGGCCT
Found at i:4509205 original size:25 final size:25
Alignment explanation
Indices: 4509177--4509236 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
4509167 CAACTCGAGA
* *
4509177 GAGCTTACTGATATTCATATCGCAT
1 GAGCTTACTGATATTCAGATCGCAG
* * * *
4509202 GAGCTTACCGTTATTCAGCTCGGAG
1 GAGCTTACTGATATTCAGATCGCAG
4509227 GAGCTTACTG
1 GAGCTTACTG
4509237 TTTACAGCTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCTTACTGATATTCAGATCGCAG
Found at i:4509254 original size:24 final size:25
Alignment explanation
Indices: 4509202--4509254 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
4509192 CATATCGCAT
* *
4509202 GAGCTTACCGTTATTCAGCTCGGAG
1 GAGCTTACCGTTATACAGCTCGGAA
* *
4509227 GAGCTTACTGTT-TACAGCTCGTAA
1 GAGCTTACCGTTATACAGCTCGGAA
4509251 GAGC
1 GAGC
4509255 ATAATGATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (25 bp):
GAGCTTACCGTTATACAGCTCGGAA
Found at i:4511966 original size:19 final size:18
Alignment explanation
Indices: 4511920--4511967 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
4511910 TATAGAATTT
*
4511920 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
4511939 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
4511957 TTGTATTAAAA
1 TTGTA-TAAAA
4511968 ATTTGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:4512026 original size:20 final size:21
Alignment explanation
Indices: 4511982--4512029 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
4511972 GAACATGTTA
4511982 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
4512004 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
4512024 ATTTTT
1 ATTTTT
4512030 GTAACAGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:4513473 original size:50 final size:50
Alignment explanation
Indices: 4513364--4513551 Score: 236
Period size: 50 Copynumber: 3.7 Consensus size: 50
4513354 TATCGATGAA
* **
4513364 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGA-AAATCTTGGT
* * * *
4513415 CACATGTGTAGTACAAAGTGAAGGCTAC-ATGTGTATTGAAAATCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGAAAATC-TTGGT
* * * *
4513465 CACGTGTGTAGTACTATGTGGAGGCTACTATGTGGATTGTAAAA-CTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTG-AAAATCTTGGT
4513515 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
4513552 CGAATGATAA
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
49 4 0.03
50 75 0.64
51 35 0.30
52 4 0.03
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGAAAATCTTGGT
Found at i:4513550 original size:101 final size:101
Alignment explanation
Indices: 4513364--4513551 Score: 254
Period size: 101 Copynumber: 1.9 Consensus size: 101
4513354 TATCGATGAA
* *
4513364 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGATCGATAAATAATGATCACATGTGTAGTAC
*
4513429 AAAGTGAAGGCTACATGTGTATTGAAAATCTTTGGT
66 AAAGTGAAGGCTACACGTGTATTGAAAATCTTTGGT
* * * * *
4513465 CACGTGTGTAGTACTATGTGGAGGCTACTATGTGGATTG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGATCGATAAATA-ATGATCACATGTGTAGTA
* *
4513528 CTATGTGAAGGCTACTACGTGTAT
65 CAAAGTGAAGGCTAC-ACGTGTAT
4513552 CGAATGATAA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
99 1 0.01
100 32 0.43
101 42 0.56
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGATCGATAAATAATGATCACATGTGTAGTAC
AAAGTGAAGGCTACACGTGTATTGAAAATCTTTGGT
Found at i:4521666 original size:33 final size:33
Alignment explanation
Indices: 4521624--4521923 Score: 108
Period size: 33 Copynumber: 8.4 Consensus size: 33
4521614 GGTGGATTCT
4521624 GCACTTAGCAACCACCAATGATTCGGGGAATCA
1 GCACTTAGCAACCACCAATGATTCGGGGAATCA
** *
4521657 GCACTTAGCAAACCCTTTTCACATTCAAAAATACGGTGGAATCA
1 GCACTTAGC-AA--C----CAC---CAATGATTCGG-GGAATCA
* *
4521701 GCACTTAGCAACCACCAATGAATCTGGGAATCA
1 GCACTTAGCAACCACCAATGATTCGGGGAATCA
* * * * *
4521734 GTACTTAGCAACCCCTTTCTCATTTAAGATACGGTGGGATCA
1 GCACTTAGCAA--CC--AC-CA---ATGATTCGG-GGAATCA
*
4521776 GCACTTAGCAACCACCAATGATTCGAGGAATCA
1 GCACTTAGCAACCACCAATGATTCGGGGAATCA
* *
4521809 ACACTTAGCAA-C-CC--T--TTGGGGGAATCA
1 GCACTTAGCAACCACCAATGATTCGGGGAATCA
* * * * *
4521836 ACACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCA
1 GCACTTAGCAA-CCAC--CA-A--T--GATTC-GGGGAATCA
* *
4521878 GCACTTAGCAACTACCAATGAATCGGGGAATCA
1 GCACTTAGCAACCACCAATGATTCGGGGAATCA
*
4521911 ACACTTAGCAACC
1 GCACTTAGCAACC
4521924 CCTTGTTGGA
Statistics
Matches: 196, Mismatches: 36, Indels: 70
0.65 0.12 0.23
Matches are distributed among these distances:
27 21 0.11
29 2 0.01
30 1 0.01
31 2 0.01
32 2 0.01
33 61 0.31
34 16 0.08
35 2 0.01
36 2 0.01
37 7 0.04
38 4 0.02
39 2 0.01
40 5 0.03
41 9 0.05
42 34 0.17
43 10 0.05
44 16 0.08
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (33 bp):
GCACTTAGCAACCACCAATGATTCGGGGAATCA
Found at i:4521806 original size:75 final size:75
Alignment explanation
Indices: 4521613--4521822 Score: 287
Period size: 75 Copynumber: 2.8 Consensus size: 75
4521603 TATCCGTTAT
* * *
4521613 CGGTGGATTCTGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAAACCCTTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTC-GGGAATCAGCACTTAGC-AACCCCTTTCA
4521678 CATTCAAAAATA
64 CATTCAAAAATA
* * *
4521690 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCTGGGAATCAGTACTTAGCAACCCCTTTCTC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTC-GGGAATCAGCACTTAGCAACCCCTTTCAC
* *
4521755 ATT-TAAGATA
65 ATTCAAAAATA
* *
4521765 CGGTGGGATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAACACTTAGCAACCC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCG-GGAATCAGCACTTAGCAACCC
4521823 TTTGGGGGAA
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
74 1 0.01
75 57 0.48
76 13 0.11
77 48 0.40
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGAATCAGCACTTAGCAACCCCTTTCACA
TTCAAAAATA
Found at i:4521878 original size:102 final size:102
Alignment explanation
Indices: 4521726--4521955 Score: 334
Period size: 102 Copynumber: 2.3 Consensus size: 102
4521716 CAATGAATCT
* * * * * *
4521726 GGGAATCAGTACTTAGCAACCCCTTTCTCATTTAAGATACGGTGGGATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACCAC
* *
4521791 CAATGATTCGAGGAATCAACACTTAGCAACCCTTTGG
66 CAATGAATCGAGGAATCAACACTTAGCAACCCCTTGG
* *
4521828 GGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACTAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACCAC
* *
4521893 CAATGAATCGGGGAATCAACACTTAGCAACCCCTTGT
66 CAATGAATCGAGGAATCAACACTTAGCAACCCCTTGG
* *
4521930 TGGAATCAGCACTTAGCAATCCCCTT
1 GGGAATCAGCACTTAGCAACCCCCTT
4521956 TATATTCAAT
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 113 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (102 bp):
GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACCAC
CAATGAATCGAGGAATCAACACTTAGCAACCCCTTGG
Found at i:4524529 original size:34 final size:34
Alignment explanation
Indices: 4524488--4524552 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
4524478 GTACTACAAT
4524488 TTTTAGAGCATTTCATACTTCTTTGCAACTCAAA
1 TTTTAGAGCATTTCATACTTCTTTGCAACTCAAA
*
4524522 TTTTAGAGCATTTTATACTTCTTTGCAACTC
1 TTTTAGAGCATTTCATACTTCTTTGCAACTC
4524553 CCCCAAACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (34 bp):
TTTTAGAGCATTTCATACTTCTTTGCAACTCAAA
Found at i:4525750 original size:60 final size:60
Alignment explanation
Indices: 4525657--4525776 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
4525647 AGGAAAGATT
* *
4525657 GGAGGGGTCACAAACGGTCCCGCTTAAGTTCCAATCTCCTAGACAGAATTTATTTAAACA
1 GGAGGGGTCACAAACGGTCCCACTTAAGTTCCAATCTCCTAAACAGAATTTATTTAAACA
* * *
4525717 GGAGGGGTCACAAATGGTCCCACTTAAGTTCCAATCTCCTAAATAGAATTTATTTCAACA
1 GGAGGGGTCACAAACGGTCCCACTTAAGTTCCAATCTCCTAAACAGAATTTATTTAAACA
4525777 TACTTTACCC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (60 bp):
GGAGGGGTCACAAACGGTCCCACTTAAGTTCCAATCTCCTAAACAGAATTTATTTAAACA
Found at i:4535590 original size:24 final size:25
Alignment explanation
Indices: 4535557--4535603 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
4535547 TTTTGAGAAG
*
4535557 AAAGTTGTTT-TGAAGGAATTCTTCA
1 AAAGTTGTTTCTG-AGAAATTCTTCA
4535582 AAAG-TGTTTCTGAGAAATTCTT
1 AAAGTTGTTTCTGAGAAATTCTT
4535604 TCTGAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (25 bp):
AAAGTTGTTTCTGAGAAATTCTTCA
Found at i:4535746 original size:19 final size:18
Alignment explanation
Indices: 4535700--4535747 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
4535690 TCGATAGAAT
*
4535700 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
4535719 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
4535737 TTGTATTAAAA
1 TTGTA-TAAAA
4535748 ATTTGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:4536382 original size:14 final size:14
Alignment explanation
Indices: 4536359--4536388 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4536349 CATCCCTCAT
*
4536359 TCACATCTCTTCTC
1 TCACAACTCTTCTC
4536373 TCACAACTCTTCTC
1 TCACAACTCTTCTC
4536387 TC
1 TC
4536389 CTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:4541014 original size:52 final size:50
Alignment explanation
Indices: 4540894--4541041 Score: 167
Period size: 50 Copynumber: 3.0 Consensus size: 50
4540884 CATTTAATAA
* * *
4540894 AGTCATGCATTATGTAACTCTCACGTTAGTTAAGTTTGCATCA-TAAATT
1 AGTCATGCATTATGTAACTCTTATGTTAGTTAAGTTTACATCATTAAATT
*
4540943 ATGACATGCATTATGTAACTCTTATGTTAGTTAAAGTTTACATCATTAAATTT
1 A-GTCATGCATTATGTAACTCTTATGTTAGTT-AAGTTTACATCATTAAA-TT
* * * * *
4540996 AGTCATGTATTAAGTAACTCATATTTTA-TTTAGTTTACATC-TTAAA
1 AGTCATGCATTATGTAACTCTTATGTTAGTTAAGTTTACATCATTAAA
4541042 CCATGCATGT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
49 6 0.07
50 37 0.44
51 13 0.15
52 26 0.31
53 3 0.04
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (50 bp):
AGTCATGCATTATGTAACTCTTATGTTAGTTAAGTTTACATCATTAAATT
Found at i:4545709 original size:52 final size:50
Alignment explanation
Indices: 4545589--4545736 Score: 167
Period size: 50 Copynumber: 3.0 Consensus size: 50
4545579 CATTTAATAA
* * *
4545589 AGTCATGCATTATGTAACTCTCACGTTAGTTAAGTTTGCATCA-TAAATT
1 AGTCATGCATTATGTAACTCTTATGTTAGTTAAGTTTACATCATTAAATT
*
4545638 ATGACATGCATTATGTAACTCTTATGTTAGTTAAAGTTTACATCATTAAATTT
1 A-GTCATGCATTATGTAACTCTTATGTTAGTT-AAGTTTACATCATTAAA-TT
* * * * *
4545691 AGTCATGTATTAAGTAACTCATATTTTA-TTTAGTTTACATC-TTAAA
1 AGTCATGCATTATGTAACTCTTATGTTAGTTAAGTTTACATCATTAAA
4545737 CCATGCATGT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
49 6 0.07
50 37 0.44
51 13 0.15
52 26 0.31
53 3 0.04
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (50 bp):
AGTCATGCATTATGTAACTCTTATGTTAGTTAAGTTTACATCATTAAATT
Found at i:4554758 original size:23 final size:24
Alignment explanation
Indices: 4554720--4554765 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
4554710 TTTAATCAAG
*
4554720 ATCATTCATGTATATTCAATGAAT
1 ATCATTCATATATATTCAATGAAT
4554744 ATCATT-ATATATATTCAATGAA
1 ATCATTCATATATATTCAATGAA
4554766 AATTATTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (24 bp):
ATCATTCATATATATTCAATGAAT
Found at i:4566887 original size:25 final size:25
Alignment explanation
Indices: 4566853--4566964 Score: 143
Period size: 25 Copynumber: 4.5 Consensus size: 25
4566843 ACAAGCTGTA
4566853 AACGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTGAAT
*
4566878 AACGGCAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTGAAT
** * *
4566903 AATTGTAAACTCCTCTGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTGAAT
* * * *
4566928 AACGGGAAGCTTCTCCAAGCTAAAT
1 AACGGTAAGCTCCTCCGAGCTGAAT
4566953 AACGGTAAGCTC
1 AACGGTAAGCTC
4566965 ATATGAGCTA
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 71 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (25 bp):
AACGGTAAGCTCCTCCGAGCTGAAT
Found at i:4566973 original size:25 final size:25
Alignment explanation
Indices: 4566945--4567009 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
4566935 AGCTTCTCCA
* *
4566945 AGCTAAATAACGGTAAGCTCATATG
1 AGCTAAATATCGGTAAGCTCATAAG
* *
4566970 AGCTAAGTATTGGTAAGCTCATAAG
1 AGCTAAATATCGGTAAGCTCATAAG
4566995 AGCTAAA-ATCGGTAA
1 AGCTAAATATCGGTAA
4567010 CCCTAATGAC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 7 0.21
25 27 0.79
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.25
Consensus pattern (25 bp):
AGCTAAATATCGGTAAGCTCATAAG
Found at i:4572275 original size:17 final size:17
Alignment explanation
Indices: 4572253--4572287 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4572243 AGAAAGGGGA
4572253 TTCGAGCCATCAATGGT
1 TTCGAGCCATCAATGGT
4572270 TTCGAGCCATCAATGGT
1 TTCGAGCCATCAATGGT
4572287 T
1 T
4572288 CTTTGCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (17 bp):
TTCGAGCCATCAATGGT
Found at i:4581763 original size:27 final size:27
Alignment explanation
Indices: 4581732--4581909 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4581722 TAAATTGTAC
4581732 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
4581759 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4581785 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
4581813 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
4581841 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4581868 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
4581895 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4581910 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:4581846 original size:82 final size:81
Alignment explanation
Indices: 4581733--4581888 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4581723 AAATTGTACA
* *
4581733 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
4581797 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
4581814 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
4581879 TGCGAGTTGA
65 TGCGAATTGA
4581889 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:4581900 original size:82 final size:81
Alignment explanation
Indices: 4581729--4581909 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
4581719 GATTAAATTG
* *
4581729 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
4581794 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
4581810 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
4581874 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
4581892 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
4581910 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:4586982 original size:41 final size:41
Alignment explanation
Indices: 4586935--4587018 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
4586925 AGTTCGATAC
4586935 GGGCTATTACAAGATCACATATGATTTTACATGAAAAATAT
1 GGGCTATTACAAGATCACATATGATTTTACATGAAAAATAT
4586976 GGGCTATTACAAGATCACATATGATTTTACATGAAAAATAT
1 GGGCTATTACAAGATCACATATGATTTTACATGAAAAATAT
4587017 GG
1 GG
4587019 TTATATAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (41 bp):
GGGCTATTACAAGATCACATATGATTTTACATGAAAAATAT
Found at i:4590486 original size:27 final size:27
Alignment explanation
Indices: 4590456--4590633 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4590446 ATATTGAGTC
* * * *
4590456 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
4590483 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4590510 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4590538 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4590565 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4590592 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4590619 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4590634 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4590595 original size:82 final size:81
Alignment explanation
Indices: 4590477--4590632 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4590467 TGCTATATAA
* *
4590477 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4590542 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4590559 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4590623 CACTTAGTGC
65 CACTTAGTGC
4590633 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4600891 original size:137 final size:137
Alignment explanation
Indices: 4600722--4600995 Score: 512
Period size: 137 Copynumber: 2.0 Consensus size: 137
4600712 TCTTTAAAAA
4600722 ATCCATCATTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAGTCCCTCAAAATTCTTCACCT
1 ATCCATCATTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAGTCCCTCAAAATTCTTCACCT
* *
4600787 TTCCAATTTGGTCCTAATTCGTCCATTTTCCTTAGTTTCTAGATTATTCCACCCTTAAAATATTT
66 TTCCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATTATTCCACCATTAAAATATTT
4600852 ACAGCAT
131 ACAGCAT
*
4600859 ATCCATCATTGAGTCGTCACTTAATTTGGTAAAATTGTGATTTAGTCCCTCAAAATTCTTCACCT
1 ATCCATCATTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAGTCCCTCAAAATTCTTCACCT
*
4600924 TTTCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATTATTCCACCATTAAAATATTT
66 TTCCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATTATTCCACCATTAAAATATTT
4600989 ACAGCAT
131 ACAGCAT
4600996 TGGTCCTTCA
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 133 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (137 bp):
ATCCATCATTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAGTCCCTCAAAATTCTTCACCT
TTCCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATTATTCCACCATTAAAATATTT
ACAGCAT
Found at i:4601231 original size:23 final size:23
Alignment explanation
Indices: 4601200--4601250 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
4601190 ACCTACTTTC
* * *
4601200 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCAGGATA
4601223 TTACAGTAGTAATTTTCAGGATA
1 TTACAGTAGTAATTTTCAGGATA
4601246 TTACA
1 TTACA
4601251 TTTCTCTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:4602882 original size:50 final size:50
Alignment explanation
Indices: 4602802--4603066 Score: 286
Period size: 50 Copynumber: 5.3 Consensus size: 50
4602792 CAATGTCATA
* * ** * * * *
4602802 TCCCAGATATGGTCTTACATAGGAGTTCTCATAC-CAGTGCCCATGCAATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-CTCGGTGCCAACGCCATG
* ** *
4602852 TCCTAGACATGGTCTTACGGGGGACCTCTCATCCCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * *
4602902 TCCCAGACATGGTTTTCCATGGGACCTCACATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
4602952 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * * * * * *
4603002 TCCCAGACATGGTATTACACT--GA-CTCACATATCGATGTCGATGCCATG
1 TCCCAGACATGGTCTTACA-TGGGACCTCTCATCTCGGTGCCAACGCCATG
4603050 TCCCAGACATGGTCTTA
1 TCCCAGACATGGTCTTA
4603067 TACGAGATCG
Statistics
Matches: 184, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
48 35 0.19
49 3 0.02
50 145 0.79
51 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:4603086 original size:48 final size:48
Alignment explanation
Indices: 4602996--4603088 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
4602986 CGGTGCCAAC
* *
4602996 GCCATGTCCCAGACATGGTATTACACTGACTCACATATCGATGTCGAT
1 GCCATGTCCCAGACATGGTATTACACTGAATCACATACCGATGTCGAT
* * * *
4603044 GCCATGTCCCAGACATGGTCTTATAC-GAGATCGCATGCCGATGTC
1 GCCATGTCCCAGACATGGTATTACACTGA-ATCACATACCGATGTC
4603089 ATATCTCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 2 0.05
48 36 0.95
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTATTACACTGAATCACATACCGATGTCGAT
Found at i:4605813 original size:39 final size:39
Alignment explanation
Indices: 4605770--4605847 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
4605760 AAATTTCATC
4605770 ATTGAGTCATCACTTAATTTGGTAAAGTTTTTATTTAGT
1 ATTGAGTCATCACTTAATTTGGTAAAGTTTTTATTTAGT
4605809 ATTGAGTCATCACTTAATTTGGTAAAGTTTTTATTTAGT
1 ATTGAGTCATCACTTAATTTGGTAAAGTTTTTATTTAGT
4605848 CCCTCAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (39 bp):
ATTGAGTCATCACTTAATTTGGTAAAGTTTTTATTTAGT
Found at i:4606189 original size:23 final size:23
Alignment explanation
Indices: 4606144--4606192 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
4606134 CTACTTTCTC
* * *
4606144 ACAATAGTAATTTTTGGGGTATT
1 ACAATAGTAATTTTCGAGATATT
4606167 ACAATAGTAATTTTCGAGATATT
1 ACAATAGTAATTTTCGAGATATT
4606190 ACA
1 ACA
4606193 GAACTGACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (23 bp):
ACAATAGTAATTTTCGAGATATT
Found at i:4610160 original size:27 final size:27
Alignment explanation
Indices: 4610130--4610307 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4610120 ATATTGAGTC
* * * *
4610130 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
4610157 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4610184 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4610212 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4610239 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4610266 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4610293 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4610308 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4610269 original size:82 final size:81
Alignment explanation
Indices: 4610151--4610306 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4610141 TGCTATATAA
* *
4610151 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4610216 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4610233 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4610297 CACTTAGTGC
65 CACTTAGTGC
4610307 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4618222 original size:27 final size:27
Alignment explanation
Indices: 4618192--4618369 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4618182 ATATTGAGTC
* * * *
4618192 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
4618219 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4618246 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4618274 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4618301 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4618328 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4618355 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4618370 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4618331 original size:82 final size:81
Alignment explanation
Indices: 4618213--4618368 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4618203 TGCTATATAA
* *
4618213 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4618278 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4618295 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4618359 CACTTAGTGC
65 CACTTAGTGC
4618369 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4623468 original size:21 final size:23
Alignment explanation
Indices: 4623417--4623469 Score: 56
Period size: 26 Copynumber: 2.3 Consensus size: 23
4623407 TGTAATTTTC
4623417 TTTTTATTTTATTTTTGTTCAATT
1 TTTTTATTTTA-TTTTGTTCAATT
*
4623441 TCATTTTATTTTA-TTT-TTCTATT
1 T--TTTTATTTTATTTTGTTCAATT
4623464 TTTTTA
1 TTTTTA
4623470 GAATAATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 5 0.19
23 7 0.27
24 4 0.15
26 10 0.38
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTATTTTATTTTGTTCAATT
Found at i:4624951 original size:17 final size:18
Alignment explanation
Indices: 4624931--4624970 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4624921 ATTATCAAAC
*
4624931 TCTTTTTCA-ATTTTTTT
1 TCTTTTTCACATTCTTTT
*
4624948 TCTTGTTCACATTCTTTT
1 TCTTTTTCACATTCTTTT
4624966 TCTTT
1 TCTTT
4624971 CTCTTTTCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (18 bp):
TCTTTTTCACATTCTTTT
Found at i:4629305 original size:10 final size:10
Alignment explanation
Indices: 4629290--4629314 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4629280 TGATTGTGAA
4629290 TTGGCTTATT
1 TTGGCTTATT
4629300 TTGGCTTATT
1 TTGGCTTATT
4629310 TTGGC
1 TTGGC
4629315 ACATTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.12, G:0.24, T:0.56
Consensus pattern (10 bp):
TTGGCTTATT
Found at i:4632047 original size:29 final size:30
Alignment explanation
Indices: 4632014--4632071 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
4632004 AATTATTTAT
4632014 ATTTAGTCATATAATAATTTA-TTAATATA
1 ATTTAGTCATATAATAATTTATTTAATATA
* ** *
4632043 ATTTATTGTTTTAATAATTTATTTAATAT
1 ATTTAGTCATATAATAATTTATTTAATAT
4632072 TAATATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (30 bp):
ATTTAGTCATATAATAATTTATTTAATATA
Found at i:4632091 original size:15 final size:15
Alignment explanation
Indices: 4632064--4632128 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
4632054 TAATAATTTA
*
4632064 TTTAAT-ATTAATAT
1 TTTAATAATAAATAT
4632078 TTTAATAATAAATATT
1 TTTAATAATAAATA-T
*
4632094 TATTACAATTATAAATAT
1 T-TT--AATAATAAATAT
*
4632112 ATTAATAATAAAT-T
1 TTTAATAATAAATAT
4632126 TTT
1 TTT
4632129 TGTACTATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 9 0.22
15 15 0.37
16 2 0.05
17 4 0.10
18 1 0.02
19 10 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTAATAATAAATAT
Found at i:4638587 original size:16 final size:16
Alignment explanation
Indices: 4638566--4638606 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4638556 AAAAATATTT
4638566 TTAAAATATAAAAAAA
1 TTAAAATATAAAAAAA
* *
4638582 TTAAAATTTTAAAAAA
1 TTAAAATATAAAAAAA
4638598 TTACAAATA
1 TTA-AAATA
4638607 AGTATAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAAAATATAAAAAAA
Found at i:4640985 original size:87 final size:88
Alignment explanation
Indices: 4640868--4641071 Score: 241
Period size: 88 Copynumber: 2.3 Consensus size: 88
4640858 CGTTCAACGG
* * *
4640868 ATTTATTACATTTTGATTTTGTTTCCAAAAATGAAAAATTAAATTAAATAAAATATATTTCATGA
1 ATTTATTTCA-TTTGATTTTGTTTCCAAAAACGAAAAATTAAATTAAATAAAATATATTTCAGGA
*
4640933 -TTTGTTCTCATCATTTAATAAAA
65 TTTTGTTCTCATCATTTAACAAAA
* * * * **
4640956 ATTTATTTGATTTGATTTTGTTGT-TAAAAACGAGAAATTAAATTAAATAAAATCTATTTTGGGA
1 ATTTATTTCATTTGATTTTGTT-TCCAAAAACGAAAAATTAAATTAAATAAAATATATTTCAGGA
* * *
4641020 TTTTTTTCTCGTCATTTAACAATA
65 TTTTGTTCTCATCATTTAACAAAA
* *
4641044 TTTTATTTCATTTTATTTTGTTTCCAAA
1 ATTTATTTCATTTGATTTTGTTTCCAAA
4641072 TTAGAATAGA
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
87 46 0.48
88 50 0.52
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (88 bp):
ATTTATTTCATTTGATTTTGTTTCCAAAAACGAAAAATTAAATTAAATAAAATATATTTCAGGAT
TTTGTTCTCATCATTTAACAAAA
Found at i:4641206 original size:73 final size:74
Alignment explanation
Indices: 4641053--4641206 Score: 235
Period size: 72 Copynumber: 2.1 Consensus size: 74
4641043 ATTTTATTTC
*
4641053 ATTTTATTTTGTTTCCAAATTAGAATAGAATTAAATAAAAATTTTTTCGAGATTGATTCCCGCTG
1 ATTTTATTTTGTTTCCAAATTAGAATAGAATTAAATAAAAATTGTTTCGAGATTGATTCCCGCTG
4641118 TTTAACAAG
66 TTTAACAAG
* *
4641127 A-TTTATTTTGTTTCCAAATT-GAATTGAATTAAAT-AAAATCTGTTTC-AGAATTTATTCCCGC
1 ATTTTATTTTGTTTCCAAATTAGAATAGAATTAAATAAAAAT-TGTTTCGAG-ATTGATTCCCGC
4641188 TGTTTAACAAG
64 TGTTTAACAAG
4641199 ATTTTATT
1 ATTTTATT
4641207 CGATATTTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
71 7 0.09
72 41 0.55
73 25 0.34
74 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (74 bp):
ATTTTATTTTGTTTCCAAATTAGAATAGAATTAAATAAAAATTGTTTCGAGATTGATTCCCGCTG
TTTAACAAG
Found at i:4643070 original size:3 final size:3
Alignment explanation
Indices: 4643062--4643086 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4643052 AAAAGATTAA
4643062 GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG G
4643087 CGGATATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:4650740 original size:20 final size:19
Alignment explanation
Indices: 4650717--4650763 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
4650707 ATAAATTTGG
4650717 TTTAATTAACATAATCTTTA-
1 TTTAATTAACATAA-C-TTAC
*
4650737 TTTAATTAACTTAACTTAC
1 TTTAATTAACATAACTTAC
4650756 TTTAATTA
1 TTTAATTA
4650764 GAACTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 3 0.12
19 9 0.36
20 13 0.52
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAATTAACATAACTTAC
Found at i:4653477 original size:27 final size:27
Alignment explanation
Indices: 4653447--4653624 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
4653437 ATATTGAGCC
* *
4653447 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
4653474 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
4653501 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
4653529 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
4653556 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
4653583 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
4653610 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4653625 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:4653559 original size:55 final size:54
Alignment explanation
Indices: 4653447--4653624 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
4653437 ATATTGAGCC
* * * * *
4653447 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
4653501 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
4653556 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
4653610 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4653625 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:4657838 original size:61 final size:57
Alignment explanation
Indices: 4657765--4657896 Score: 147
Period size: 61 Copynumber: 2.2 Consensus size: 57
4657755 TCCAAAAATA
* * ** *
4657765 ATATTATTTTAATAAATTTAATATTAAATTAAATTTAATATTTATCTTGTAGATAAATATT
1 ATATTAATTTAATAAATCTAATATTAAATT-AATCCAATACTTATC-T-T-GATAAATATT
* * * *
4657826 CTATTAATTTAATAGATCTAATATTAAATTTATCCAATACTTATCTTGATAAGTATT
1 ATATTAATTTAATAAATCTAATATTAAATTAATCCAATACTTATCTTGATAAATATT
4657883 ATATTAATTTAATA
1 ATATTAATTTAATA
4657897 TTAAAGTGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
57 22 0.36
58 1 0.02
59 1 0.02
60 11 0.18
61 26 0.43
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (57 bp):
ATATTAATTTAATAAATCTAATATTAAATTAATCCAATACTTATCTTGATAAATATT
Found at i:4660400 original size:24 final size:24
Alignment explanation
Indices: 4660372--4660477 Score: 81
Period size: 24 Copynumber: 4.2 Consensus size: 24
4660362 TTTATATCAT
4660372 TTATTTTTTGTATATATATTTATA
1 TTATTTTTTGTATATATATTTATA
* * *
4660396 TTATTTATT-TAAAAAGTATTTATA
1 TTATTTTTTGTATATA-TATTTATA
** * *
4660420 TTATTTTATAAATAATTTAAATATT-TA
1 TTATTTT-T-TGT-ATATATAT-TTATA
4660447 TTTATTTTTTGTATATATATTTATA
1 -TTATTTTTTGTATATATATTTATA
4660472 TTATTT
1 TTATTT
4660478 ATTTAAAAAG
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
23 4 0.07
24 30 0.49
25 9 0.15
26 1 0.02
27 6 0.10
28 11 0.18
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
TTATTTTTTGTATATATATTTATA
Found at i:4660465 original size:76 final size:73
Alignment explanation
Indices: 4660349--4660493 Score: 254
Period size: 76 Copynumber: 1.9 Consensus size: 73
4660339 TTTAAATTAA
4660349 ATTTTATAAATAATTTATATCATTTATTTTTTGTATATATATTTATATTATTTATTTAAAAAGTA
1 ATTTTATAAATAATTTATATCATTTATTTTTTGTATATATATTTATATTATTTATTTAAAAAGTA
4660414 TTTATATT
66 TTTATATT
*
4660422 ATTTTATAAATAATTTAAATATTTATTTATTTTTTGTATATATATTTATATTATTTATTTAAAAA
1 ATTTTATAAATAATTT--ATA-TCATTTATTTTTTGTATATATATTTATATTATTTATTTAAAAA
4660487 GTATTTA
63 GTATTTA
4660494 AAATTTATAT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
73 16 0.24
75 3 0.04
76 49 0.72
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (73 bp):
ATTTTATAAATAATTTATATCATTTATTTTTTGTATATATATTTATATTATTTATTTAAAAAGTA
TTTATATT
Done.