Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 12 of 170
Found at i:3498116 original size:24 final size:24
Alignment explanation
Indices: 3498088--3498307 Score: 107
Period size: 25 Copynumber: 8.9 Consensus size: 24
3498078 AAAACTCTAA
3498088 AGAGCCATTAA-CGGGAAGCTCAT
1 AGAGCCATTAATCGGGAAGCTCAT
* *
3498111 ACGAGCCA-AAATCGGGAAGCTCCAG
1 A-GAGCCATTAATCGGGAAGCT-CAT
* *
3498136 AGAGTCATTAATCAGGAAGCTCAT
1 AGAGCCATTAATCGGGAAGCTCAT
* *
3498160 GAAAGAGCCTTTAATCGGGAAGTTCA-
1 ---AGAGCCATTAATCGGGAAGCTCAT
* *
3498186 AGTGAGCCAAT-ATAGGGAAGCTC-T
1 A--GAGCCATTAATCGGGAAGCTCAT
* * * *
3498210 GAAAAGCCATTAATCAGTAAGCTCCT
1 --AGAGCCATTAATCGGGAAGCTCAT
3498236 AAGAGCCAGTT-ATCGGGAAGCTCCGA-
1 -AGAGCCA-TTAATCGGGAAGCT-C-AT
**
3498262 AGAGCCAATT-ATTAGGAAGCTCAT
1 AGAGCC-ATTAATCGGGAAGCTCAT
*
3498286 AAGAGTCA-TAATCGGGAAGCTC
1 -AGAGCCATTAATCGGGAAGCTC
3498308 GCAAGAACCA
Statistics
Matches: 148, Mismatches: 28, Indels: 41
0.68 0.13 0.19
Matches are distributed among these distances:
23 6 0.04
24 50 0.34
25 67 0.45
26 6 0.04
27 19 0.13
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (24 bp):
AGAGCCATTAATCGGGAAGCTCAT
Found at i:3498256 original size:50 final size:49
Alignment explanation
Indices: 3498200--3498307 Score: 128
Period size: 50 Copynumber: 2.2 Consensus size: 49
3498190 AGCCAATATA
* * * *
3498200 GGGAAGCTCTGAAAAGCC-ATTAATCAGTAAGCTCCTAAGAGCCAGTTATC
1 GGGAAGCTCCGAAAAGCCAATT-ATCAGGAAGCTCATAAGAGCCA-TAATC
* * *
3498250 GGGAAGCTCCGAAGAGCCAATTATTAGGAAGCTCATAAGAGTCATAATC
1 GGGAAGCTCCGAAAAGCCAATTATCAGGAAGCTCATAAGAGCCATAATC
3498299 GGGAAGCTC
1 GGGAAGCTC
3498308 GCAAGAACCA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 13 0.26
50 34 0.68
51 3 0.06
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (49 bp):
GGGAAGCTCCGAAAAGCCAATTATCAGGAAGCTCATAAGAGCCATAATC
Found at i:3500949 original size:12 final size:12
Alignment explanation
Indices: 3500932--3500982 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
3500922 TCGAATAAGC
3500932 ATGTATATATAT
1 ATGTATATATAT
3500944 ATGTATATATA-
1 ATGTATATATAT
*
3500955 ATGCTAGAATATAT
1 ATG-TA-TATATAT
**
3500969 ATACATATATAT
1 ATGTATATATAT
3500981 AT
1 AT
3500983 AAAAGTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 3 0.09
12 21 0.66
13 6 0.19
14 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:3501843 original size:41 final size:41
Alignment explanation
Indices: 3501703--3501844 Score: 205
Period size: 41 Copynumber: 3.5 Consensus size: 41
3501693 AGGCTAAGCG
3501703 CCTAGCAGGCTTAA-TGCCGGTGATCTAAATCAGGTTATAAA
1 CCTAGCAGGC-TAAGTGCCGGTGATCTAAATCAGGTTATAAA
* * *
3501744 CCTAGCAGGCTACGTGCCGGTGATCTGAATCAGATTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAA
* * *
3501785 CCTAGCAGGCTACGTGCCGGTGATCTAAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAA
*
3501826 TCTAGCAGGCTAAGTGCCG
1 CCTAGCAGGCTAAGTGCCG
3501845 TTGAATCTGT
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 2 0.02
41 89 0.98
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAA
Found at i:3504905 original size:36 final size:36
Alignment explanation
Indices: 3504830--3505111 Score: 277
Period size: 36 Copynumber: 7.8 Consensus size: 36
3504820 GCCAGCAGAA
* * * * *
3504830 CGGCCAGACCCTGCACCATTGCTTG-AGCCAACAGGC
1 CGGCCAGGCCCAGTACCATTGCTAGCA-CCACCAGGC
* * * * *
3504866 CGGCCAGACCCTGCACCATTGCTAGCAGCACCAGCC
1 CGGCCAGGCCCAGTACCATTGCTAGCACCACCAGGC
* * * *
3504902 CGGCCAGGACCAGAACCACTGTTAGCACCACCAGGC
1 CGGCCAGGCCCAGTACCATTGCTAGCACCACCAGGC
* *
3504938 CGACCAGGCCCAGTACCATTGCTTA-CACCACCAGGT
1 CGGCCAGGCCCAGTACCATTGC-TAGCACCACCAGGC
* * *
3504974 CGGCTAGGCCCGGTACCATTGCTAGCACGACCAGGC
1 CGGCCAGGCCCAGTACCATTGCTAGCACCACCAGGC
3505010 CGGCCAGGCCCCA-TACCATTGCTAGCACCACCAGGC
1 CGGCCAGG-CCCAGTACCATTGCTAGCACCACCAGGC
* *
3505046 TGGCCAGGCCCCA-TACCATTGCTAACACCACCAGGC
1 CGGCCAGG-CCCAGTACCATTGCTAGCACCACCAGGC
* *
3505082 CGGCCTGGCCCCA-TACCATTGCTAACACCA
1 CGGCCAGG-CCCAGTACCATTGCTAGCACCA
3505112 TGCTGCTTTC
Statistics
Matches: 212, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
35 2 0.01
36 204 0.96
37 6 0.03
ACGTcount: A:0.23, C:0.41, G:0.23, T:0.13
Consensus pattern (36 bp):
CGGCCAGGCCCAGTACCATTGCTAGCACCACCAGGC
Found at i:3506900 original size:6 final size:6
Alignment explanation
Indices: 3506889--3506920 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
3506879 CCTGGTTTCT
*
3506889 TCTTCC TCTTCC TCTTCC TCTTCT TCTTCC TC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TC
3506921 CTCATATCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (6 bp):
TCTTCC
Found at i:3509186 original size:18 final size:18
Alignment explanation
Indices: 3509145--3509187 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
3509135 AAATTATTTT
* *
3509145 TATATATATTAATAAATT
1 TATATTTATTAATAAATC
3509163 TATATTTATTAATAAATC
1 TATATTTATTAATAAATC
3509181 TATATTT
1 TATATTT
3509188 TAAATTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATTTATTAATAAATC
Found at i:3514613 original size:14 final size:14
Alignment explanation
Indices: 3514575--3514617 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
3514565 CAAAATGTAC
3514575 AATATAATTAAA-T
1 AATATAATTAAATT
3514588 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
3514603 AA-ATAATTTAATT
1 AATATAATTAAATT
3514616 AA
1 AA
3514618 CTGATTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:3516417 original size:14 final size:15
Alignment explanation
Indices: 3516386--3516418 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3516376 GGATTTTATA
*
3516386 TTTTATATTGTTTTG
1 TTTTATATTGTCTTG
3516401 TTTTATATTG-CTTG
1 TTTTATATTGTCTTG
3516415 TTTT
1 TTTT
3516419 GAATCTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.73
Consensus pattern (15 bp):
TTTTATATTGTCTTG
Found at i:3518584 original size:12 final size:13
Alignment explanation
Indices: 3518553--3518592 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
3518543 AGTTCTTCAT
*
3518553 TGCTTTTGGAAAG
1 TGCTTTTGAAAAG
3518566 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
3518579 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
3518592 T
1 T
3518593 TTGGTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.25, C:0.05, G:0.28, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:3519624 original size:14 final size:15
Alignment explanation
Indices: 3519599--3519627 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3519589 ACTTTAAGTC
3519599 CAAAGAAAAACATAA
1 CAAAGAAAAACATAA
3519614 CAAAG-AAAACATAA
1 CAAAGAAAAACATAA
3519628 TGAATGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.72, C:0.14, G:0.07, T:0.07
Consensus pattern (15 bp):
CAAAGAAAAACATAA
Found at i:3536015 original size:15 final size:17
Alignment explanation
Indices: 3535986--3536017 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3535976 AAACACCATT
3535986 AAAAATATTAGAAAATA
1 AAAAATATTAGAAAATA
3536003 AAAAAT-TTA-AAAATA
1 AAAAATATTAGAAAATA
3536018 TAATATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAATATTAGAAAATA
Found at i:3536052 original size:14 final size:16
Alignment explanation
Indices: 3536013--3536052 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
3536003 AAAAATTTAA
*
3536013 AAATATAATATATAAT
1 AAATTTAATATATAAT
3536029 AAATTT-ATATA-AAT
1 AAATTTAATATATAAT
3536043 -AATTTAATAT
1 AAATTTAATAT
3536053 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.23
14 7 0.32
15 5 0.23
16 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATTTAATATATAAT
Found at i:3538091 original size:45 final size:45
Alignment explanation
Indices: 3538027--3538116 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
3538017 CTCTGGGAGT
3538027 AGTTTTGTCTTCGAAGTGCTGTCCTCTAGGTAGTCGACCTGGACC
1 AGTTTTGTCTTCGAAGTGCTGTCCTCTAGGTAGTCGACCTGGACC
3538072 AGTTTTGTCTTCGAAGTGCTGTCCTCTAGGTAGTCGACCTGGACC
1 AGTTTTGTCTTCGAAGTGCTGTCCTCTAGGTAGTCGACCTGGACC
3538117 TCAACAATCG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (45 bp):
AGTTTTGTCTTCGAAGTGCTGTCCTCTAGGTAGTCGACCTGGACC
Found at i:3538133 original size:45 final size:45
Alignment explanation
Indices: 3538039--3538133 Score: 100
Period size: 45 Copynumber: 2.1 Consensus size: 45
3538029 TTTTGTCTTC
****** ***
3538039 GAAGTGCTGTCCTCTAGGTAGTCGACCTGGACCAGTTTTGTCTTC
1 GAAGTGCTGTCCTCTAGGTAGTCGACCTGGACCACAACAATCGAA
*
3538084 GAAGTGCTGTCCTCTAGGTAGTCGACCTGGACCTCAACAATCGAA
1 GAAGTGCTGTCCTCTAGGTAGTCGACCTGGACCACAACAATCGAA
3538129 GAAGT
1 GAAGT
3538134 TGTCCCCATG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.27
Consensus pattern (45 bp):
GAAGTGCTGTCCTCTAGGTAGTCGACCTGGACCACAACAATCGAA
Found at i:3541888 original size:2 final size:2
Alignment explanation
Indices: 3541883--3541907 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3541873 TCTCTGATTA
3541883 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3541908 AACTATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3549852 original size:17 final size:17
Alignment explanation
Indices: 3549830--3549872 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
3549820 ATATAGGAGG
3549830 AAAT-AGTGATACAATGA
1 AAATAAGTGATA-AATGA
3549847 AAATAGAGTGATAAATGA
1 AAATA-AGTGATAAATGA
*
3549865 AATTAAGT
1 AAATAAGT
3549873 AAAATCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.30
18 9 0.39
19 7 0.30
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (17 bp):
AAATAAGTGATAAATGA
Found at i:3550727 original size:15 final size:14
Alignment explanation
Indices: 3550707--3550747 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
3550697 ATGTAAATGT
*
3550707 TTATAAATAGATAGA
1 TTATAAATAAATA-A
3550722 TTATAAATTAAATAA
1 TTATAAA-TAAATAA
3550737 TTATAAATAAA
1 TTATAAATAAA
3550748 CGATGATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 15 0.62
16 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (14 bp):
TTATAAATAAATAA
Found at i:3560254 original size:20 final size:21
Alignment explanation
Indices: 3560224--3560262 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3560214 GTTTTTTATA
*
3560224 TTTTATATTTTTAGAATTTTT
1 TTTTATATTTTTAAAATTTTT
3560245 TTTTAT-TTTTTAAAATTT
1 TTTTATATTTTTAAAATTT
3560263 AATTCCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATATTTTTAAAATTTTT
Found at i:3565579 original size:6 final size:6
Alignment explanation
Indices: 3565539--3565566 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3565529 TTATTTTTAT
3565539 TTAATA TTAATA TTAATA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAA
3565567 AATTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:3565596 original size:22 final size:23
Alignment explanation
Indices: 3565566--3565619 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
3565556 ATTAATATTA
* *
3565566 AAATTTATTAT-TATATTTTTTT
1 AAATATATTATATATATTTCTTT
3565588 GAAA-ATATT-TATATATTTCTTT
1 -AAATATATTATATATATTTCTTT
3565610 AAATATATTA
1 AAATATATTA
3565620 GAATTAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 4 0.15
22 19 0.73
23 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
AAATATATTATATATATTTCTTT
Found at i:3565946 original size:19 final size:19
Alignment explanation
Indices: 3565924--3565966 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
3565914 TTATATGAAA
*
3565924 TTTTAAAAATTATTTTAAT
1 TTTTAAAAATAATTTTAAT
* * *
3565943 TTTTATATATAATTTTTAT
1 TTTTAAAAATAATTTTAAT
3565962 TTTTA
1 TTTTA
3565967 CATAATAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAAAAATAATTTTAAT
Found at i:3567198 original size:22 final size:22
Alignment explanation
Indices: 3567163--3567205 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3567153 CGAGTATTTT
* *
3567163 ATTTTTTATTTTTTAATTATGA
1 ATTTTTAATATTTTAATTATGA
*
3567185 ATTTTTAATATTTTATTTATG
1 ATTTTTAATATTTTAATTATG
3567206 TAGTGTTTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
ATTTTTAATATTTTAATTATGA
Found at i:3572549 original size:7 final size:7
Alignment explanation
Indices: 3572537--3572569 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
3572527 GTTGAAAGAG
3572537 AATAATA
1 AATAATA
3572544 AATAATA
1 AATAATA
3572551 AATAATA
1 AATAATA
3572558 AATAATA
1 AATAATA
3572565 AATAA
1 AATAA
3572570 AGAAACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AATAATA
Found at i:3576378 original size:14 final size:14
Alignment explanation
Indices: 3576359--3576385 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3576349 CAAACTCTTG
3576359 TTTTTATTTTATTT
1 TTTTTATTTTATTT
3576373 TTTTTATTTTATT
1 TTTTTATTTTATT
3576386 AATTAATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:3579545 original size:34 final size:35
Alignment explanation
Indices: 3579501--3579567 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
3579491 CAGTAAAATA
* *
3579501 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACGGGAAAATATTTTAC
* *
3579535 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACGGGAAAATATTTT
3579568 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACGGGAAAATATTTTAC
Found at i:3585282 original size:16 final size:16
Alignment explanation
Indices: 3585238--3585284 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
3585228 CAATAAACAG
3585238 AACAAAAAAGAAAAATA
1 AACAAAAAA-AAAAATA
* *
3585255 AACCAAACAAAAAATA
1 AACAAAAAAAAAAATA
*
3585271 AGCAAAAAAAAAAA
1 AACAAAAAAAAAAA
3585285 ACACGGAAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.81, C:0.11, G:0.04, T:0.04
Consensus pattern (16 bp):
AACAAAAAAAAAAATA
Found at i:3601864 original size:16 final size:16
Alignment explanation
Indices: 3601860--3601914 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 16
3601850 TTTAAAATAT
*
3601860 TTTTAAAATA-CTTT-
1 TTTTAAAATATTTTTA
3601874 TTTTAAAAT-TTTTTA
1 TTTTAAAATATTTTTA
3601889 TTTTTAAAATACTTTTTTA
1 -TTTTAAAATA--TTTTTA
3601908 TTTTAAA
1 TTTTAAA
3601915 TTTTTTTTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 12 0.35
16 9 0.26
18 7 0.21
19 6 0.18
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTAAAATATTTTTA
Found at i:3601878 original size:30 final size:29
Alignment explanation
Indices: 3601842--3601914 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
3601832 AATATATTTA
3601842 TTTTTTATTTTAAAATATTTTTAAAATAC
1 TTTTTTATTTTAAAATATTTTTAAAATAC
*
3601871 TTTTTTTAAAATTTT---TTATTTTTAAAATAC
1 -TTTTTT---ATTTTAAAATATTTTTAAAATAC
3601901 TTTTTTATTTTAAA
1 TTTTTTATTTTAAA
3601915 TTTTTTTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 13
0.72 0.02 0.26
Matches are distributed among these distances:
26 5 0.14
29 6 0.17
30 20 0.56
33 5 0.14
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTTTATTTTAAAATATTTTTAAAATAC
Found at i:3601887 original size:13 final size:14
Alignment explanation
Indices: 3601859--3601906 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
3601849 TTTTAAAATA
3601859 TTTTTAAAATACTT
1 TTTTTAAAATACTT
**
3601873 TTTTTAAAATTTTTT
1 TTTTTAAAA-TACTT
3601888 ATTTTTAAAATACTT
1 -TTTTTAAAATACTT
3601903 TTTT
1 TTTT
3601907 ATTTTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 13 0.46
15 6 0.21
16 9 0.32
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTAAAATACTT
Found at i:3601922 original size:16 final size:15
Alignment explanation
Indices: 3601871--3601922 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
3601861 TTTAAAATAC
*
3601871 TTTTTTTAAAATTTT
1 TTTTTTTTAAATTTT
*
3601886 TTATTTTTAAAATACTTT
1 TT-TTTTTTAAAT--TTT
*
3601904 TTTATTTTAAATTTT
1 TTTTTTTTAAATTTT
3601919 TTTT
1 TTTT
3601923 GGTGTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 8 0.26
16 10 0.32
17 8 0.26
18 5 0.16
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTTTAAATTTT
Found at i:3606003 original size:9 final size:9
Alignment explanation
Indices: 3605989--3606057 Score: 102
Period size: 9 Copynumber: 7.7 Consensus size: 9
3605979 TTTGGTTAAA
3605989 AATTAACCG
1 AATTAACCG
3605998 AATTAACCG
1 AATTAACCG
*
3606007 AATTACCCG
1 AATTAACCG
*
3606016 AATTAATCG
1 AATTAACCG
*
3606025 AATTACCCG
1 AATTAACCG
3606034 AATTAACCG
1 AATTAACCG
*
3606043 AATTAACCA
1 AATTAACCG
3606052 AATTAA
1 AATTAA
3606058 ATCACTACAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:3608182 original size:90 final size:90
Alignment explanation
Indices: 3608058--3608315 Score: 383
Period size: 90 Copynumber: 2.9 Consensus size: 90
3608048 ATTGCAGCGG
* * *
3608058 AGTAGACTAAAAACAACAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAGCAAG
1 AGTAGACTGAAGATAACAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAGCAAG
* * *
3608123 TCTTGTTTTTCTGTATTGGTAGCAA
66 TCTTGTCTTCCTGTATTGGCAGCAA
*
3608148 AGTAGACTGAAGATAACAGATCTTATCTTCCTGTATTGGCAGTAAAGTAGATCGAAGATAGCAAG
1 AGTAGACTGAAGATAACAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAGCAAG
**
3608213 TCTTGTCTTCCTGTATTGGCAGTGA
66 TCTTGTCTTCCTGTATTGGCAGCAA
* * *
3608238 AGTAGAGTGAAGATAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCATA
1 AGTAGACTGAAGATAACAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAGCA-A
*
3608303 -TCTTGTCTCCCTG
65 GTCTTGTCTTCCTG
3608316 AGCAGTAGTG
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
90 152 0.99
91 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (90 bp):
AGTAGACTGAAGATAACAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAGCAAG
TCTTGTCTTCCTGTATTGGCAGCAA
Found at i:3608387 original size:45 final size:45
Alignment explanation
Indices: 3608074--3608378 Score: 332
Period size: 45 Copynumber: 6.8 Consensus size: 45
3608064 CTAAAAACAA
*
3608074 CAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAG
* * * *
3608119 CA-AGTCTTGTTTTTCTGTATTGGTAGCAAAGTAGA-CTGAAGATAA
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC-GAAGATAG
* *
3608164 CAGATCTTATCTTCCTGTATTGGCAGTAAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAG
**
3608209 CA-AGTCTTGTCTTCCTGTATTGGCAGTGAAGTAGAGT-GAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-TCGAAGATAG
* *
3608254 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAG
* * *** * *** * *
3608299 CATATCTTGTCTCCCTG-AGCAGTAGTGGAGTAGGTCGAAGATTG
1 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAG
*
3608343 TAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGAT
1 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGAT
3608379 TAGAGATTGG
Statistics
Matches: 214, Mismatches: 37, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
44 37 0.17
45 173 0.81
46 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAG
Found at i:3610588 original size:106 final size:106
Alignment explanation
Indices: 3610364--3610589 Score: 371
Period size: 106 Copynumber: 2.1 Consensus size: 106
3610354 TACAAAAATG
* *
3610364 AAAATTTCAAAGTAAGACAATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAGTAAGACAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAACGTGCTGG
* * *
3610429 GTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTT
66 GTTTCGATTTCTCGTTCAACCAAATAGCCAAATATCCTCTT
** *
3610470 AAGGTTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAACGTGCTGG
1 AAAATTTCAAAGTAAGACAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAACGTGCTGG
3610535 GTTTCGATTTCTCGTTCAACCAAATAGCCAAATATCCTCTT
66 GTTTCGATTTCTCGTTCAACCAAATAGCCAAATATCCTCTT
*
3610576 AAAATTTTAAAGTA
1 AAAATTTCAAAGTA
3610590 TGGGTTGTGG
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 109 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (106 bp):
AAAATTTCAAAGTAAGACAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAACGTGCTGG
GTTTCGATTTCTCGTTCAACCAAATAGCCAAATATCCTCTT
Found at i:3613103 original size:16 final size:18
Alignment explanation
Indices: 3613065--3613105 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
3613055 ATATGTCATT
3613065 TTTTGTTTGCTTTTGATA
1 TTTTGTTTGCTTTTGATA
*
3613083 TTTTGTTT-CTTTTTA-A
1 TTTTGTTTGCTTTTGATA
3613099 TTTTGTT
1 TTTTGTT
3613106 GATAATTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 6 0.27
18 8 0.36
ACGTcount: A:0.10, C:0.05, G:0.12, T:0.73
Consensus pattern (18 bp):
TTTTGTTTGCTTTTGATA
Found at i:3613691 original size:15 final size:15
Alignment explanation
Indices: 3613671--3613702 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3613661 TTATCATCAT
3613671 TTTATTATATAATTA
1 TTTATTATATAATTA
3613686 TTTATTATATAATTA
1 TTTATTATATAATTA
3613701 TT
1 TT
3613703 AAATGAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATTATATAATTA
Found at i:3615927 original size:20 final size:20
Alignment explanation
Indices: 3615902--3615951 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3615892 TGGCTTAAAA
3615902 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3615922 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3615939 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3615952 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3620557 original size:20 final size:20
Alignment explanation
Indices: 3620532--3620581 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3620522 TGGCTTAAAA
3620532 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3620552 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3620569 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3620582 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3627873 original size:15 final size:14
Alignment explanation
Indices: 3627849--3627878 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
3627839 TTATACATAA
3627849 TTTTGTGTTTAATT
1 TTTTGTGTTTAATT
3627863 TTTTAGTGTTTAATT
1 TTTT-GTGTTTAATT
3627878 T
1 T
3627879 AGTTTTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (14 bp):
TTTTGTGTTTAATT
Found at i:3628813 original size:23 final size:21
Alignment explanation
Indices: 3628763--3628814 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
3628753 AGAATAGATA
*
3628763 AATATAAATATAATTATAATT
1 AATATCAATATAATTATAATT
*
3628784 ACA-ATCAATATATTTATTTAATT
1 A-ATATCAATATAATTA--TAATT
3628807 AATATCAA
1 AATATCAA
3628815 AATCAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 12 0.48
22 2 0.08
23 11 0.44
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATCAATATAATTATAATT
Found at i:3631198 original size:31 final size:30
Alignment explanation
Indices: 3631129--3631198 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
3631119 AGGTCAATTT
* *
3631129 GGGTGTGTAGGCCACACGGGAATGACACAT
1 GGGTGTGTGGGCCACACGGGAATGACACAC
* * *
3631159 TGGCGTGTGGGCCCACACGGGCATGACACAC
1 GGGTGTGTGGG-CCACACGGGAATGACACAC
3631190 GGGTGTGTG
1 GGGTGTGTG
3631199 AACTGTGGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.20, C:0.23, G:0.40, T:0.17
Consensus pattern (30 bp):
GGGTGTGTGGGCCACACGGGAATGACACAC
Found at i:3633802 original size:3 final size:3
Alignment explanation
Indices: 3633794--3633905 Score: 197
Period size: 3 Copynumber: 37.3 Consensus size: 3
3633784 ATAAAATTTT
* *
3633794 AGA AGA AGA AGA AGA AGA AAA AGA AGA AAA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
3633842 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
3633890 AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A
3633906 ATGAGATATA
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 103 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3634658 original size:21 final size:21
Alignment explanation
Indices: 3634619--3634660 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3634609 AGTTTTAGGT
*
3634619 TTAGTTTTCTCTAGGTTTTTC
1 TTAGTTTTCTCTACGTTTTTC
*
3634640 TTAGTTTTCTGTAC-TTTTTC
1 TTAGTTTTCTCTACGTTTTTC
3634660 T
1 T
3634661 AGGGTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.10, C:0.14, G:0.12, T:0.64
Consensus pattern (21 bp):
TTAGTTTTCTCTACGTTTTTC
Found at i:3636807 original size:39 final size:39
Alignment explanation
Indices: 3636753--3636827 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
3636743 TGATATTGAT
3636753 GTTAATTTTTTTGGGTATACTGATAGTAATTATGCATGG
1 GTTAATTTTTTTGGGTATACTGATAGTAATTATGCATGG
*
3636792 GTTAATTTTTTTGGGTATATTGATAGTAATTATGCA
1 GTTAATTTTTTTGGGTATACTGATAGTAATTATGCA
3636828 GGGGATATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.04, G:0.21, T:0.48
Consensus pattern (39 bp):
GTTAATTTTTTTGGGTATACTGATAGTAATTATGCATGG
Found at i:3640874 original size:21 final size:21
Alignment explanation
Indices: 3640848--3640891 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
3640838 TTTTGAATGG
3640848 AAGGGAATCTTATGGTCTTGC
1 AAGGGAATCTTATGGTCTTGC
3640869 AAGGGAATCTTATGGTCTTGC
1 AAGGGAATCTTATGGTCTTGC
3640890 AA
1 AA
3640892 CCGAGATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (21 bp):
AAGGGAATCTTATGGTCTTGC
Found at i:3645631 original size:18 final size:18
Alignment explanation
Indices: 3645608--3645673 Score: 107
Period size: 18 Copynumber: 3.7 Consensus size: 18
3645598 AGAATATGAG
3645608 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTT
*
3645626 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTT
3645644 AAATGATGTTCACATTTCT
1 AAATGATGTTCACATTT-T
3645663 -AATGATGTTCA
1 AAATGATGTTCA
3645674 AATTGATGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (18 bp):
AAATGATGTTCACATTTT
Found at i:3646188 original size:72 final size:72
Alignment explanation
Indices: 3646101--3646261 Score: 245
Period size: 72 Copynumber: 2.2 Consensus size: 72
3646091 CAATGCTAAA
* *
3646101 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTATTTATTTAT
1 CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
3646166 GTGTAAT
66 GTGTAAT
* *
3646173 CTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
3646238 ACT-AAAT
66 -GTGTAAT
3646245 -TAGTTTTATCAATAGTT
1 CTAGTTTTATCAATAGTT
3646262 GTTAATATGA
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 16 0.20
72 64 0.79
73 1 0.01
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:3647665 original size:6 final size:6
Alignment explanation
Indices: 3647647--3647689 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
3647637 AGAAAGTGAT
* * * *
3647647 GATGAC GACGAC GATGAC GATGAC GATGAT GGTGAT GATGAC G
1 GATGAC GATGAC GATGAC GATGAC GATGAC GATGAC GATGAC G
3647690 GTGAATCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.30, C:0.14, G:0.37, T:0.19
Consensus pattern (6 bp):
GATGAC
Found at i:3647686 original size:12 final size:12
Alignment explanation
Indices: 3647642--3647693 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
3647632 GGTTGAGAAA
3647642 GTGATGATGACG
1 GTGATGATGACG
** *
3647654 ACGACGATGACG
1 GTGATGATGACG
* * *
3647666 ATGACGATGATG
1 GTGATGATGACG
3647678 GTGATGATGACG
1 GTGATGATGACG
3647690 GTGA
1 GTGA
3647694 ATCAAACAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.29, C:0.12, G:0.38, T:0.21
Consensus pattern (12 bp):
GTGATGATGACG
Found at i:3648046 original size:8 final size:8
Alignment explanation
Indices: 3648035--3648062 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
3648025 TTTAATTTTT
3648035 ATATTTAA
1 ATATTTAA
3648043 ATATTTAA
1 ATATTTAA
3648051 ATATTTAA
1 ATATTTAA
3648059 ATAT
1 ATAT
3648063 AGTTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:3648336 original size:13 final size:13
Alignment explanation
Indices: 3648318--3648355 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
3648308 ACACTCAAAT
3648318 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
3648331 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
3648344 TTCTCAAAAGCA
1 TTCTCAAAAGCA
3648356 ATAAAGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:3649466 original size:257 final size:258
Alignment explanation
Indices: 3648989--3649509 Score: 963
Period size: 257 Copynumber: 2.0 Consensus size: 258
3648979 TCTGAGTTAG
* * *
3648989 AACAATAAGGAAAACAGAAGAAAAAAAAAAGGAGAAAGGGAGAGAAGTTTTGTACAACTTTTTTG
1 AACATTAAGGAAAACAAAAGAAAAAAAAAAGGAGAAAGGGAGAGAAGTTTTCTACAACTTTTTTG
*
3649054 TGTATGTATTTTGATAACCACCTTTCCTTACGGCTAGAGTTTAAAAGAAAGAGAAAGTAGACGTG
66 TGTATGTATTTTGATAACCACCTTTCCTTACAGCTAGAGTTTAAAAGAAAGAGAAAGTAGACGTG
3649119 GCAAAGTTAGTTACAATCGCCAGCTAGTCCGTTGATGCTGTCACCATTTCACTAAAGACATTACC
131 GCAAAGTTAGTTACAATCGCCAGCTAGTCCGTTGATGCTGTCACCATTTCACTAAAGACATTACC
* *
3649184 CCTTAATTCTAACGCACTGTTTCATCCCATACATCATATTTTCCTGATTTAAATTCTACCCAT
196 CCTTAATTCTAACGCACCGTTTCATCCCATACATCATATTTTCCCGATTTAAATTCTACCCAT
*
3649247 AACATTAAGGAAAACAAAAG-AAAAAAAAAGGAGAAAGGGAGAGAAGTTTTCTGCAACTTTTTTG
1 AACATTAAGGAAAACAAAAGAAAAAAAAAAGGAGAAAGGGAGAGAAGTTTTCTACAACTTTTTTG
3649311 TGTATGTATTTTGATAACCACCTTTCCTTACAGCTAGAGTTTAAAAGAAAGAGAAAGTAGACGTG
66 TGTATGTATTTTGATAACCACCTTTCCTTACAGCTAGAGTTTAAAAGAAAGAGAAAGTAGACGTG
3649376 GCAAAGTTAGTTACAATCGCCAGCTAGTCCGTTGATGCTGTCACCATTTCACTAAAGACATTACC
131 GCAAAGTTAGTTACAATCGCCAGCTAGTCCGTTGATGCTGTCACCATTTCACTAAAGACATTACC
*
3649441 CCTTAATTCTAACGCACCGTTTCATCCCATACATCATATTTTCCCGATTTAAATTCTACTCAT
196 CCTTAATTCTAACGCACCGTTTCATCCCATACATCATATTTTCCCGATTTAAATTCTACCCAT
3649504 AACATT
1 AACATT
3649510 TACTTTAGGC
Statistics
Matches: 255, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
257 237 0.93
258 18 0.07
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (258 bp):
AACATTAAGGAAAACAAAAGAAAAAAAAAAGGAGAAAGGGAGAGAAGTTTTCTACAACTTTTTTG
TGTATGTATTTTGATAACCACCTTTCCTTACAGCTAGAGTTTAAAAGAAAGAGAAAGTAGACGTG
GCAAAGTTAGTTACAATCGCCAGCTAGTCCGTTGATGCTGTCACCATTTCACTAAAGACATTACC
CCTTAATTCTAACGCACCGTTTCATCCCATACATCATATTTTCCCGATTTAAATTCTACCCAT
Found at i:3659582 original size:79 final size:79
Alignment explanation
Indices: 3659447--3659596 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
3659437 GGTAATTCGT
* *
3659447 TTCTTTAAAGCGGACCTAGATAGCACACTTCTTTAAAGCGACTTTACCTTTGTAAGGTAACACAC
1 TTCTTTAAAGCGAACCTAGATAACACACTTCTTTAAAGCGACTTTACCTTTGTAAGGTAACACAC
3659512 TTATTTAAACATGC
66 TTATTTAAACATGC
* * **
3659526 TTCTTTAAAGCGAACTTAGATAACACACTT-TTTAAAAGTGGTTTTACCTCTT-TAAGGTAACAC
1 TTCTTTAAAGCGAACCTAGATAACACACTTCTTT-AAAGCGACTTTACCT-TTGTAAGGTAACAC
*
3659589 GCTTATTT
64 ACTTATTT
3659597 TAAAACGAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 57 0.92
80 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (79 bp):
TTCTTTAAAGCGAACCTAGATAACACACTTCTTTAAAGCGACTTTACCTTTGTAAGGTAACACAC
TTATTTAAACATGC
Found at i:3659607 original size:66 final size:65
Alignment explanation
Indices: 3659529--3659655 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 65
3659519 AACATGCTTC
* *
3659529 TTTAAAGCGAACTTAGATAACACACTT-TTTAAAAGTGGTTTTACCTCTTTAAGGTAACACGCTT
1 TTTAAAACGAACTTAGATAACACACTTCTTT-AAAGTGGCTTTACCT-TTTAAGGTAACACGCTT
3659593 AT
64 AT
* * *
3659595 TTTAAAACGAACTTAGATAGCCCACTTCTTTAAAGTGGCTTTACCTTTTAAGGTAATACGC
1 TTTAAAACGAACTTAGATAACACACTTCTTTAAAGTGGCTTTACCTTTTAAGGTAACACGC
3659656 CATTTGATGA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
65 14 0.25
66 38 0.69
67 3 0.05
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (65 bp):
TTTAAAACGAACTTAGATAACACACTTCTTTAAAGTGGCTTTACCTTTTAAGGTAACACGCTTAT
Found at i:3660417 original size:13 final size:13
Alignment explanation
Indices: 3660401--3660467 Score: 91
Period size: 13 Copynumber: 5.1 Consensus size: 13
3660391 TTTAAACCAA
3660401 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
3660414 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
3660427 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
3660440 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
3660453 ACTTTTTCAAAAGC
1 AC-TTTTCAAAAGC
3660467 A
1 A
3660468 ATGAAGAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
12 4 0.09
13 27 0.57
14 16 0.34
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:3667620 original size:60 final size:60
Alignment explanation
Indices: 3667526--3667694 Score: 257
Period size: 60 Copynumber: 2.8 Consensus size: 60
3667516 CTCCTTGAGT
3667526 CCACAACCACTGCTATTCACCATGCTTCCACAACCTCCGCCGCACCCACCACAGCCAGAG
1 CCACAACCACTGCTATTCACCATGCTTCCACAACCTCCGCCGCACCCACCACAGCCAGAG
* * *
3667586 CCACAGCCACTGCTATTCACCATGCTTCCGCAACCTCCGCCACACCCACCACAGCCAGAG
1 CCACAACCACTGCTATTCACCATGCTTCCACAACCTCCGCCGCACCCACCACAGCCAGAG
** * * * *
3667646 CCACAACTGCCGCTATTCACTATGCTTCCACAACCACCCCCGCACCCAC
1 CCACAACCACTGCTATTCACCATGCTTCCACAACCTCCGCCGCACCCAC
3667695 TACCGCAACC
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 97 1.00
ACGTcount: A:0.25, C:0.49, G:0.11, T:0.14
Consensus pattern (60 bp):
CCACAACCACTGCTATTCACCATGCTTCCACAACCTCCGCCGCACCCACCACAGCCAGAG
Found at i:3670616 original size:21 final size:22
Alignment explanation
Indices: 3670587--3670633 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
3670577 CAGAAGGAGT
*
3670587 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
3670609 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
3670630 GAGT
1 GAGT
3670634 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:3675910 original size:21 final size:21
Alignment explanation
Indices: 3675886--3675925 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3675876 AATTCTTCAA
*
3675886 TATTCATTTATAATTTATAAT
1 TATTCATTAATAATTTATAAT
* *
3675907 TATTTATTAATATTTTATA
1 TATTCATTAATAATTTATA
3675926 TATATTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTCATTAATAATTTATAAT
Found at i:3675931 original size:21 final size:20
Alignment explanation
Indices: 3675884--3675931 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
3675874 TTAATTCTTC
*
3675884 AATATTCATTTATAATTTAT
1 AATATTCATTAATAATTTAT
* *
3675904 AATTATTTATTAATATTTTAT
1 AA-TATTCATTAATAATTTAT
3675925 ATATATT
1 A-ATATT
3675932 ATTTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 20 0.87
22 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
AATATTCATTAATAATTTAT
Found at i:3677016 original size:14 final size:14
Alignment explanation
Indices: 3676980--3677016 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3676970 TGCAACCATT
*
3676980 TTACTATTATGTTG
1 TTACTATTTTGTTG
3676994 TTACTATTTTGTTG
1 TTACTATTTTGTTG
*
3677008 TTATTATTT
1 TTACTATTT
3677017 AGATATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.11, T:0.65
Consensus pattern (14 bp):
TTACTATTTTGTTG
Found at i:3677171 original size:21 final size:21
Alignment explanation
Indices: 3677130--3677173 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3677120 TTTTTGATGT
* *
3677130 ATTATATATATATATATTAAA
1 ATTATATAAAAATATATTAAA
*
3677151 ATTATATAAAAATAATATAAAA
1 ATTATATAAAAAT-ATATTAAA
3677173 A
1 A
3677174 GTAATATGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTATATAAAAATATATTAAA
Found at i:3681983 original size:42 final size:41
Alignment explanation
Indices: 3681937--3682031 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
3681927 AAGGTCATGT
*
3681937 TCTTTAGCGGCGTTTTTTCTGAAGTGCCGCTAAAGAACATAA
1 TCTTTAGCGGCGTTTTTT-TGAACTGCCGCTAAAGAACATAA
* * * *
3681979 TCTTTAGCAGCGTTTTTTTGGACTGCCGCTAACGAACATGA
1 TCTTTAGCGGCGTTTTTTTGAACTGCCGCTAAAGAACATAA
3682020 TCTTTAGCGGCG
1 TCTTTAGCGGCG
3682032 CTTCTAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 30 0.64
42 17 0.36
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (41 bp):
TCTTTAGCGGCGTTTTTTTGAACTGCCGCTAAAGAACATAA
Found at i:3682091 original size:83 final size:84
Alignment explanation
Indices: 3682003--3682200 Score: 249
Period size: 83 Copynumber: 2.4 Consensus size: 84
3681993 TTTTTGGACT
* * * *
3682003 GCCGCTAACGAACATGATCTTTAGCGGCGCTTCTAAAAAAGACGCCGCTGAAGATCATGTTCTTT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTC-AAAAAAAACGCCGCTAAAGATCATGTTCTTT
3682068 AACGGCGC-T-AAAAAAAAC
65 AACGGCGCTTCAAAAAAAAC
** * * *
3682086 GCCGCTAAAGTTCATGTTTTTTAGTGGCGCTTCAAAAAAAATGCCGCTAAAGATCATGTTCTTTA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
3682151 GCGGCGCTTCAAAAAAAAC
66 ACGGCGCTTCAAAAAAAAC
** *
3682170 GCTACTAAAGAA-ATGTTCTTTAGCGGTGCTT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
3682201 TATTCACAAA
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
82 35 0.36
83 44 0.46
84 17 0.18
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (84 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCGCTAAAGATCATGTTCTTTA
ACGGCGCTTCAAAAAAAAC
Found at i:3682123 original size:42 final size:42
Alignment explanation
Indices: 3681866--3682200 Score: 257
Period size: 42 Copynumber: 8.0 Consensus size: 42
3681856 GCAGCGTTTA
*
3681866 CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 CAAAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * * *
3681909 GAAAAAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGTTT
1 -CAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
****** ** * ** *
3681952 TTTCTGAAGTGCCGCTAAAGAACATAATCTTTAGCAGCG-TT
1 CAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
******* * * *
3681993 -TTTTTGGACTGCCGCTAACGAACATGATCTTTAGCGGCGCTT
1 CAAAAAAAAC-GCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
3682035 CTAAAAAAGACGCCGCTGAAGATCATGTTCTTTAACGGCGC-T
1 C-AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
3682077 -AAAAAAAACGCCGCTAAAGTTCATGTTTTTTAGTGGCGCTT
1 CAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
3682118 CAAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 CAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
** * *
3682160 CAAAAAAAACGCTACTAAAGA-AATGTTCTTTAGCGGTGCTT
1 CAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
3682201 TATTCACAAA
Statistics
Matches: 233, Mismatches: 52, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
40 36 0.15
41 47 0.20
42 83 0.36
43 59 0.25
44 8 0.03
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (42 bp):
CAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:3682553 original size:21 final size:21
Alignment explanation
Indices: 3682529--3682590 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
3682519 CTCTGCTTCT
3682529 CTCGCTGCAGCCTTTGCTTTC
1 CTCGCTGCAGCCTTTGCTTTC
*
3682550 CTCGCTGCAG-CTGTTGCTTCC
1 CTCGCTGCAGCCT-TTGCTTTC
* * *
3682571 CTTGCTGCCGCCTCTGCTTT
1 CTCGCTGCAGCCTTTGCTTT
3682591 AAGTTGTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.03, C:0.39, G:0.21, T:0.37
Consensus pattern (21 bp):
CTCGCTGCAGCCTTTGCTTTC
Found at i:3686456 original size:44 final size:44
Alignment explanation
Indices: 3686393--3686484 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
3686383 ATCGGGTTTG
*
3686393 GGGAAATATGGATTAGGGGAAATTGTAGGGA-TTTGAGGGGGAAT
1 GGGAAATATGGATTAGGGGAAATTGTAGGGATTTTG-GGGAGAAT
* *
3686437 GGGAAATGTGGATTAGGGGAAATTTTAGGGATTTTGGGGAGAAT
1 GGGAAATATGGATTAGGGGAAATTGTAGGGATTTTGGGGAGAAT
3686481 GGGA
1 GGGA
3686485 TTTTGGGGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 40 0.91
45 4 0.09
ACGTcount: A:0.30, C:0.00, G:0.43, T:0.26
Consensus pattern (44 bp):
GGGAAATATGGATTAGGGGAAATTGTAGGGATTTTGGGGAGAAT
Found at i:3686839 original size:148 final size:147
Alignment explanation
Indices: 3686664--3686946 Score: 413
Period size: 148 Copynumber: 1.9 Consensus size: 147
3686654 GCGCTTAGAG
* *
3686664 TAAAAACGCCACTAATAACATGGACAAAACGACACCGTTATAAGGTAACATTAAACATTTTTACG
1 TAAAAACGCCACTAATAACATAGACAAAACGACACCGTTATAAGATAACATTAAACATTTTTACG
* * * * *
3686729 GCGTTTTATCTAAAGCGCCACTAATAAAAATAGGAAACGGCGCCGTTACCTCAACCCCTATTAAA
66 GCATATTAGCT-AAGCGCCACTAATAAAAATAGGAAACGACGCCGTTACCTCAACCCCTAATAAA
3686794 TATTTGTAACGCTTACGC
130 TATTTGTAACGCTTACGC
* * * * *
3686812 TAAAAACGCCACTAATAACATATACAAAACGGCACTGTTATAAGATAACGTTAAACATTTTTGCG
1 TAAAAACGCCACTAATAACATAGACAAAACGACACCGTTATAAGATAACATTAAACATTTTTACG
* * * *
3686877 GTATATTAGCTAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAACTCGTAATAAAT
66 GCATATTAGCTAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTACCTCAACCCCTAATAAAT
3686942 ATTTG
131 ATTTG
3686947 CGGCGTTTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
147 54 0.45
148 65 0.55
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (147 bp):
TAAAAACGCCACTAATAACATAGACAAAACGACACCGTTATAAGATAACATTAAACATTTTTACG
GCATATTAGCTAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTACCTCAACCCCTAATAAAT
ATTTGTAACGCTTACGC
Found at i:3687349 original size:28 final size:28
Alignment explanation
Indices: 3687318--3687377 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
3687308 CATTATACCA
3687318 TAAACCTTAAACCCTAAACCGTAAAAAT
1 TAAACCTTAAACCCTAAACCGTAAAAAT
* *** *
3687346 TAAATCTTAAATTTTAAACCGTAAAACT
1 TAAACCTTAAACCCTAAACCGTAAAAAT
3687374 TAAA
1 TAAA
3687378 ATAAAATGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.28
Consensus pattern (28 bp):
TAAACCTTAAACCCTAAACCGTAAAAAT
Found at i:3687437 original size:7 final size:7
Alignment explanation
Indices: 3687419--3687470 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
3687409 GGCGTTGAAA
3687419 CCCTAA-
1 CCCTAAC
3687425 CCCTAAC
1 CCCTAAC
3687432 CCCTAAATC
1 CCCT-AA-C
3687441 CCCTAAC
1 CCCTAAC
*
3687448 CCCTAAA
1 CCCTAAC
* *
3687455 ACATAAC
1 CCCTAAC
3687462 CCCTAAC
1 CCCTAAC
3687469 CC
1 CC
3687471 TAGTTGCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
6 6 0.16
7 22 0.59
8 4 0.11
9 5 0.14
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (7 bp):
CCCTAAC
Found at i:3687624 original size:14 final size:14
Alignment explanation
Indices: 3687598--3687630 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3687588 AATCCTAAAT
*
3687598 CCCT-ACCCTTAAC
1 CCCTAACCCATAAC
3687611 CCCTAACCCATAAC
1 CCCTAACCCATAAC
3687625 CCCTAA
1 CCCTAA
3687631 ACCTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.18
Consensus pattern (14 bp):
CCCTAACCCATAAC
Found at i:3687769 original size:21 final size:21
Alignment explanation
Indices: 3687711--3687773 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
3687701 ATAAACCCTA
* ***
3687711 AATCCCTAACTCTTAACATTT
1 AATCCCTAACCCTTAACCCAT
*
3687732 AACCCCTAA-CC-TAACCCAT
1 AATCCCTAACCCTTAACCCAT
3687751 AATCCCTAACCCTTAACCCAT
1 AATCCCTAACCCTTAACCCAT
3687772 AA
1 AA
3687774 CCTTAAATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.38
20 3 0.09
21 18 0.53
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (21 bp):
AATCCCTAACCCTTAACCCAT
Found at i:3687821 original size:14 final size:15
Alignment explanation
Indices: 3687802--3687834 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
3687792 CTTAAACCAG
3687802 AATCCCTAATT-CAT
1 AATCCCTAATTCCAT
3687816 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
3687831 AATC
1 AATC
3687835 TATAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:3687908 original size:20 final size:21
Alignment explanation
Indices: 3687883--3687926 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3687873 ATCCTAAATT
*
3687883 AACCATATATA-TATACCCTA
1 AACCATATATATTAAACCCTA
*
3687903 AACCATATTTATTAAACCCTA
1 AACCATATATATTAAACCCTA
3687924 AAC
1 AAC
3687927 TATAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
AACCATATATATTAAACCCTA
Found at i:3688282 original size:114 final size:114
Alignment explanation
Indices: 3688079--3688650 Score: 722
Period size: 114 Copynumber: 5.0 Consensus size: 114
3688069 TAAATTATAT
*
3688079 TAAATCCCTGAGCATTAGCGGCGCATACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCATACTTAAAAACACCACTAAATCCCCGAAAGCTCAGAAAAC
* *
3688144 GGCGTCGTTGGGCTTTGGTATTTTTGCGGCGCTTTCTCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* * *
3688193 TAAATCCTTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCATACTTAAAAACACCACTAAATCCCCGAAAGCTCAGAAAAC
** * ** *
3688258 GATGTCGTTGGACTTAGGTTTTTTTTTGGCGCTTTCACAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* *
3688307 TAAAGT-CCTGA-CTATTAGCGGCGCATACTTAAAAACACCACTAATTCCCCGAAAGCTCAGGAA
1 TAAA-TCCCTGAGC-ATTAGCGGCGCATACTTAAAAACACCACTAAATCCCCGAAAGCTCAGAAA
* * * *
3688370 ACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC-TTCCCAAAAAACACCGC
64 ACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTC-AAAAACGCCGC
* * *
3688421 AAAAGCCCTGAGCATTAGCGGCGCATACTTAAAAACACCACTGAATCCCCGAAAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCATACTTAAAAACACCACTAAATCCCCGAAAGCTCAGAAAAC
** ** * * * *
3688486 GATGTCGTTGGGCTTAGGTTTTTTTATGGCACTTTTTTAAAAACGCCAC
66 GGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* * * * * *
3688535 TAAAGCCCTGAGCATTAGCAGCGCTTTCTTAAAAACACCGCTGAATCCCCGAAAGCTCCA-AAAA
1 TAAATCCCTGAGCATTAGCGGCGCATACTTAAAAACACCACTAAATCCCCGAAAGCT-CAGAAAA
* * **
3688599 CGGCATCGTTGGGCTTAGG-TATTTTGCGGCGCTTTCTGGAAAACGCCGC
65 CGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
3688648 TAA
1 TAA
3688651 TGCTTATTTT
Statistics
Matches: 394, Mismatches: 57, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
113 30 0.08
114 358 0.91
115 6 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (114 bp):
TAAATCCCTGAGCATTAGCGGCGCATACTTAAAAACACCACTAAATCCCCGAAAGCTCAGAAAAC
GGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
Found at i:3690647 original size:46 final size:44
Alignment explanation
Indices: 3690537--3690862 Score: 373
Period size: 46 Copynumber: 7.6 Consensus size: 44
3690527 TACGTATGAT
*
3690537 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTA
3690579 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTA
3690625 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAG-CTA
*
3690671 CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCT-A
3690718 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-AG---
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTA
*
3690754 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T-AG---
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTA
* * *
3690790 CACTTATCACTTTTTCACTTGATTAGATAAGTGTAACTAAAGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTA
* *
3690835 TCACTTATCACTTTATCTCTTGATCAGA
1 -CACTTATCACTTTGTCACTTGATCAGA
3690863 AGTACTCAAA
Statistics
Matches: 258, Mismatches: 9, Indels: 29
0.87 0.03 0.10
Matches are distributed among these distances:
36 64 0.25
38 3 0.01
40 2 0.01
41 1 0.00
42 3 0.01
43 10 0.04
44 8 0.03
45 24 0.09
46 141 0.55
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (44 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTA
Found at i:3690759 original size:36 final size:36
Alignment explanation
Indices: 3690718--3690821 Score: 190
Period size: 36 Copynumber: 2.9 Consensus size: 36
3690708 CTAAGGCTAA
*
3690718 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
3690754 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
3690790 CACTTATCACTTTTTCACTTGATTAGATAAGT
1 CACTTATCACTTTTTCACTTGATCAGATAAGT
3690822 GTAACTAAAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:3703799 original size:36 final size:35
Alignment explanation
Indices: 3703751--3703823 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 35
3703741 TGTAAAGTAT
3703751 AAAATATATAAGTACGTACATATATATAAATTATAA
1 AAAATATATAAGTACGTACATATATATAAA-TATAA
* * ** *
3703787 AAAATATGTAAGTATGTGTATATATATATATATAA
1 AAAATATATAAGTACGTACATATATATAAATATAA
3703822 AA
1 AA
3703824 CAAGATTCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 7 0.22
36 25 0.78
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (35 bp):
AAAATATATAAGTACGTACATATATATAAATATAA
Found at i:3704668 original size:20 final size:20
Alignment explanation
Indices: 3704645--3704682 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3704635 AAAAAGTTAT
*
3704645 AGAAAATAAATAAAAAAGGA
1 AGAAAATAAACAAAAAAGGA
3704665 AGAAAATAAACAAAAAAG
1 AGAAAATAAACAAAAAAG
3704683 AAACGCAAGA
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:0.76, C:0.03, G:0.13, T:0.08
Consensus pattern (20 bp):
AGAAAATAAACAAAAAAGGA
Found at i:3712147 original size:3 final size:3
Alignment explanation
Indices: 3712139--3712169 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
3712129 CAATTGTTGC
*
3712139 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3712170 GAGTTATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3712339 original size:44 final size:44
Alignment explanation
Indices: 3712245--3712332 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
3712235 ATATCTCAAG
*
3712245 GTCCATGTTTATAACATGGCAATTAAGGAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
3712289 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
3712333 TACCATGGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (44 bp):
GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
Found at i:3712351 original size:44 final size:44
Alignment explanation
Indices: 3712245--3712353 Score: 150
Period size: 44 Copynumber: 2.5 Consensus size: 44
3712235 ATATCTCAAG
* *
3712245 GTCCATGTTTATAACATGGCAATTAAGGAAGAATTGACGGAAAA
1 GTCCATGTTGATAACATGGCAATTAAGAAAGAATTGACGGAAAA
*
3712289 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
1 GTCCATGTTGATAACATGGCAATTAAGAAAGAATTGACGGAAAA
*
3712333 -TACCATGGTTGA-ACCATGGCA
1 GT-CCAT-GTTGATAACATGGCA
3712354 GTAAGTGTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 55 0.92
45 4 0.07
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (44 bp):
GTCCATGTTGATAACATGGCAATTAAGAAAGAATTGACGGAAAA
Found at i:3715475 original size:183 final size:180
Alignment explanation
Indices: 3715135--3715502 Score: 639
Period size: 183 Copynumber: 2.0 Consensus size: 180
3715125 TAGTCCTTGC
* *
3715135 GTTTGAATTCGGAATGGATCGTAGGTAAGATTATAATGTTTTTTCTTTAGATTTGTAATTTATTT
1 GTTTGAATTCGGAATGGATCGTAGGTAAGATTAGAATGCTTTTTCTTTAGATTTGTAATTTATTT
*
3715200 GTGTTTTAGATTACTGATTTCTAGTTAATTGATTTATATATAAATGTGAAATTATTTTGGTTATT
66 GTGTTTTAGATTACTGATTTATAGTTAATTGATTTATATATAAATGTGAAATTATTTTGGTTATT
3715265 TATATAACCATATGAATTGCAATTATTTATGTACACACTTCGCTGCCCCT
131 TATATAACCATATGAATTGCAATTATTTATGTACACACTTCGCTGCCCCT
* *
3715315 GTTTTAATTGGGAATGGATCGTAGGTAAGATTAGAAT-CTTTTTCTTTAGATTTGTAATTTATTT
1 GTTTGAATTCGGAATGGATCGTAGGTAAGATTAGAATGCTTTTTCTTTAGATTTGTAATTTATTT
*
3715379 GTGTTTTAGATTATTGATTTATAGTTAATTGATATATATATATATAAATGTGAAATTATTTTGGT
66 GTGTTTTAGATTACTGATTTATAGTTAATTG--AT-T-TATATATAAATGTGAAATTATTTTGGT
3715444 TATTTATATAACCATATGAATTGCAATTATTTATGTACACACTTCGCTGCCCCT
127 TATTTATATAACCATATGAATTGCAATTATTTATGTACACACTTCGCTGCCCCT
3715498 GTTTG
1 GTTTG
3715503 CACATCAGTG
Statistics
Matches: 177, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
179 55 0.31
180 34 0.19
181 2 0.01
182 1 0.01
183 85 0.48
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.47
Consensus pattern (180 bp):
GTTTGAATTCGGAATGGATCGTAGGTAAGATTAGAATGCTTTTTCTTTAGATTTGTAATTTATTT
GTGTTTTAGATTACTGATTTATAGTTAATTGATTTATATATAAATGTGAAATTATTTTGGTTATT
TATATAACCATATGAATTGCAATTATTTATGTACACACTTCGCTGCCCCT
Found at i:3716956 original size:3 final size:3
Alignment explanation
Indices: 3716948--3716997 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
3716938 TAGTAATGAC
* *
3716948 AAT AAT AAT AAT AAT AAT AAT AAT GAA- AAT GAT AAT AAT ATT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
3716992 AAT AAT
1 AAT AAT
3716998 GAACAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.85
4 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3718507 original size:44 final size:43
Alignment explanation
Indices: 3718458--3720361 Score: 240
Period size: 44 Copynumber: 44.7 Consensus size: 43
3718448 TTTTAATCCA
*
3718458 CTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCTGTCTG
* **** * *
3718502 TTCCACTATTGCTT-AGGTAGATAAGACTTGA---TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * * *
3718542 CTCTACTGCAACTTCAGAGAGATAAGATCT-ATGGCTT-TAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGAT-TCTTCT-GTCTG
* * *
3718586 CTCCACTGTAACTTCAGGGAGATAGGATTGGTCTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGAT-TCTTCTGTCTG
* * *
3718630 CTCCACTACTACTT-AGGGAGATAAGACTTGA----TGTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * * ** * * *
3718670 CTCTACTGTAACTTCAGAGAGATAAGATCTG-TGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGATTCTTCT-GTCTG
* *
3718714 CTCCACTACAACTTCAGGGAGATAGGATTGATTTCTT-TCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* ** * *
3718758 CTCCACTACTGCTT-AGGGAGATAAGACTGGA---TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * ** **
3718798 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGATT-TT-AATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--T-TGATTCTTCTGTCTG
* * *
3718842 CTCCACTACAACTTTAGGGAGATAGGATTGATTTCTT-TCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* ** * *
3718886 CTCCACTACTGCTT-AGGGAGATAAGACTGGA---TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * ** * * *
3718926 CTCTACTGCAACTTCAGAGAGATAAGATCT-ATGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGATTCTTCT-GTCTG
* * * *
3718970 CTCCATTGCAACTTCAGGGAAATAGGATTGATTTCTT-TCGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* * ** * *
3719014 CTTCACTACTGCTT-AGGGAGATAAGACTGGA---TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * ** *
3719054 CTCTACTGCAACTTCAGAGAGATAAGATATGTAGTT-TT-AATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TG-A-TTCTTCTGTCTG
* * *
3719098 TTCCACTACAACTTCAGGGAGATAGGATTGATTTCTT-TCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* * ** * *
3719142 CTCTACTACTGCTT-AGGGAGATAAGACTGGA---TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * * ** * * *
3719182 CTCTACTGTAACTTCAGAGAGATAAGATATG-TGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGATTCTTCT-GTCTG
* * * * *
3719226 CTCCACTGCAACTTTAGGAAGATAGGATTGATTTCTT-TCGTTTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* ** * *
3719270 CTCCACTACTGCTT-AGGGAGATAAGACTGGA---TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * * * *
3719310 CTCTACTGCAACTTCAGAGAGATAAGATCT-ATGGCTT-TAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGAT-TCTTCT-GTCTG
* * * *
3719354 CTCCACTGCAACTTTAGGAAGATAGGATTGGTCTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGAT-TCTTCTGTCTG
* * * *
3719398 CTCCACTACTACTT-AGGGAGATAAAACTTGA----TATGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * * ** * * *
3719438 CTCTACTACAACTTCAGAGAGATAAGATCTG-TGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGATTCTTCT-GTCTG
* * * *
3719482 CTCCACTGCAACTTCAGGGAGATAGGATTAATTTTTTTCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGATTCTTCT-GTCTG
* * ** * * * *
3719526 CTCCAATACTGCTT-AGAGAGATAAGACTGGA---TGC-GATCAG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * ** * * **
3719566 CTCTACTGCAACTTCAGAGAGATAAGATCTG-TGGTTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGATTCTTCT-GTCTG
* * *
3719610 CTCCACTGCAACATCGGGGAGATAGGATTGATTTCTT-TCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* ** * * * **
3719654 CTCCACTACTGCTT-ATGGAGATAAGACTGGATGC-GAT-T-TG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTGTCTG
* * ** * * *
3719694 CTCTACTGCAACTTCAGAGAGATAAGATCT-ATGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGATTCTTCT-GTCTG
* *
3719738 CTCCATTGCAACTTCAGGGAGATAGGATTGATTTCTT-TCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* * * ** * * *
3719782 TTCTACTACTGCTT-AGGGAGATAAGACTGGA----TGTGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * * *
3719822 CTCTACTGCAACTTCAGAGAGATAAGATCTG-TGGTTTTAAT-TC-G
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGAT--TCTT-CTGTCTG
* *
3719866 CTCCACTACAACTTCAGGGAGATAGGATTGATTTCTT-TCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* * ** * *
3719910 CTCTACTAC-TGTTTAGGGAGATAAGATTGGA---TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-GATTCTTCTG-TCTG
* * ** * * *
3719950 CTCTACTGCAACTTCAGAGAGATAAGATATG-TGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGATTCTTCT-GTCTG
* * *
3719994 CTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTT-TCGTTTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* ** * * *
3720038 CTCCACTACTGCTT-AAGGAGATAAGACTGGA---TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* * * * **
3720078 CTCTACTGCAACTTCAGAGAGATAAGATCT-ATGGCTT-TAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGAT-TCTTCT-GTCTG
* * *
3720122 CTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTT-TCGTTTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* ** * *
3720166 CTCCACTACTGCTT-AGGGAGATAAGACTGGA---TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* ** ** * * *
3720206 CTCTACTGCAACTTCAAAGAGATAAGATCT-ATGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGATTCTTCT-GTCTG
* *
3720250 CTCCACTACAACTTCAGGGAGATAGGATTGATTTCTT-TCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGA-TTCTTCT-GTCTG
* ** * *
3720294 CTCCACTACTGCTT-AGGGAGATAAGACTAGA---TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATTCTTCTG-TCTG
* *
3720334 CTCTACTGCAACTTCAGAGAGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
3720362 CTGTAGTTGT
Statistics
Matches: 1299, Mismatches: 388, Indels: 350
0.64 0.19 0.17
Matches are distributed among these distances:
39 19 0.01
40 228 0.18
41 181 0.14
42 10 0.01
43 199 0.15
44 631 0.49
45 29 0.02
46 1 0.00
47 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGATTCTTCTGTCTG
Found at i:3718629 original size:128 final size:128
Alignment explanation
Indices: 3718416--3720407 Score: 3146
Period size: 128 Copynumber: 15.6 Consensus size: 128
3718406 TTAATCCGAC
*
3718416 CTACTGCAACTTCAGAG-GCATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGA
1 CTACTGCAACTTCAGAGAG-ATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
* * * *
3718480 TAGGATTGATTTC-TTCTGTCTGTTCCACTATTGCTTAGGTAGATAAGACTTGATGCGATCTGCT
65 TAGGATTGATTTCTTTC-GTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* * * *
3718544 CTACTGCAACTTCAGAGAGATAAGATCTATGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* * * * *
3718609 AGGATTGGTCTC-TTCTGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGTGATCTGCT
66 AGGATTGATTTCTTTC-GTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* *
3718672 CTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
3718737 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* * * *
3718800 CTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTACAACTTTAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
3718865 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* * *
3718928 CTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCATTGCAACTTCAGGGAAAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* *
3718993 AGGATTGATTTCTTTCGTCTACTTCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* * * *
3719056 CTACTGCAACTTCAGAGAGATAAGATATGTAGTTTTAATCCGTTCCACTACAACTTCAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
*
3719121 AGGATTGATTTCTTTCGTCTGCTCTACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* * * *
3719184 CTACTGTAACTTCAGAGAGATAAGATATGTGGTTTTAATCCGCTCCACTGCAACTTTAGGAAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* *
3719249 AGGATTGATTTCTTTCGTTTACTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* * * *
3719312 CTACTGCAACTTCAGAGAGATAAGATCTATGGCTTTAATCCGCTCCACTGCAACTTTAGGAAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* * * * * **
3719377 AGGATTGGTCTC-TTCTGTCTGCTCCACTACTACTTAGGGAGATAAAACTTGATATGATCTGCT
66 AGGATTGATTTCTTTC-GTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
*
3719440 CTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* * * * *
3719505 AGGATTAATTTTTTTCGTCTGCTCCAATACTGCTTAGAGAGATAAGACTGGATGCGATCAGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* * *
3719568 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACATCGGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* *
3719633 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTATGGAGATAAGACTGGATGCGATTTGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* *
3719696 CTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCATTGCAACTTCAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* * * *
3719761 AGGATTGATTTCTTTCGTCTGTTCTACTACTGCTTAGGGAGATAAGACTGGATGTGATCTACT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* *
3719824 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATTCGCTCCACTACAACTTCAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* * *
3719889 AGGATTGATTTCTTTCGTCTGCTCTACTACTGTTTAGGGAGATAAGATTGGATGCGATCTGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
*
3719952 CTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* * *
3720017 AGGATTGATTTCTTTCGTTTACTCCACTACTGCTTAAGGAGATAAGACTGGATGCGATCTGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* * *
3720080 CTACTGCAACTTCAGAGAGATAAGATCTATGGCTTTAATCCACTCCACTGCAACTTCAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* *
3720145 AGGATTGATTTCTTTCGTTTACTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* * *
3720208 CTACTGCAACTTCAAAGAGATAAGATCTATGGTTTTAATCCGCTCCACTACAACTTCAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
*
3720273 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTAGATGCGATCTGCT
66 AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
* * **
3720336 CTACTGCAACTTCAGAGAGATAAGATCTGTAGTTGTAATCCGCTCCACTGCAACTTCAAAGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
3720401 AGGATTG
66 AGGATTG
3720408 GTTTTTCTGA
Statistics
Matches: 1716, Mismatches: 144, Indels: 8
0.92 0.08 0.00
Matches are distributed among these distances:
127 3 0.00
128 1706 0.99
129 7 0.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (128 bp):
CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
AGGATTGATTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCT
Found at i:3720789 original size:49 final size:50
Alignment explanation
Indices: 3720437--3721466 Score: 325
Period size: 50 Copynumber: 20.7 Consensus size: 50
3720427 TGCAATGTCG
* * * * * *
3720437 GGGAAGCAAGATTCACCGTT-TCAGCTTCAATCTATCCCATTGCACCTCCA
1 GGGAAGCAAGATTCGCCGTTGT-AGCTTCAATCTGTTCCACTGCATCGCCA
* ** * ** * *
3720487 GGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAAT-GTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCA
* * * *** *
3720537 GGGAAACAAGATTCGTCATTACGGCTTCAATCTG-TCCTATTGCATCGCCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCC-ACTGCATCGCCA
* * ** * * ** * * * *
3720587 AGGAAGTAAGATTCGCCGTTGCGGCTTCAATATTTTAAATTGTGAT-GTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTG-CATCGCCA
* *
3720637 GGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-CGCTA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCA
* * * ** * ** * * * *
3720686 AGGAAGTAAGATTTGCCGTTGCGGCTTCAATCTTTTAAATTGTGAT-GTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTG-CATCGCCA
* *
3720736 GGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCACCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCA
* * * * ** * * **
3720785 GGGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTAAATTGTAAT-ATCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTG-CATCGCCA
* ** * * * * *
3720835 AGGAAATAAGATTCGCCGTCGTAGCTTTAATCTGCTCAACTGTA-CTGCCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATC-GCCA
* ** * ** * * ** * * *
3720885 GAGAAGTGATATTTACCGTTGTAG-TGTTAATCTTTTTAATTGCAAT-ACCG
1 GGGAAGCAAGATTCGCCGTTGTAGCT-TCAATCTGTTCCACTGC-ATCGCCA
* * *
3720935 GGGAA-CAAGATTCACTGTTGTAGCTTCAATCTGATCCACTGCATCGCCTA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCC-A
* * * * ** * * *
3720985 -GGAAGTAAGATTCGTCGTT-TGGCTTCAATCTTTTAAATTGCAAT-GTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCA
* * * * *
3721033 GGGAAGCAAGATTCACCATTGTAGCTTTAATCTGCTCCACTGCA-CTACCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATC-GCCA
* * * * ** * *
3721083 GGGAAGTAAGATTCGTCGTTG-CGACTTCAATCTTTTAAATTGCAAT-GTC-
1 GGGAAGCAAGATTCGCCGTTGTAG-CTTCAATCTGTTCCACTGC-ATCGCCA
* * * *
3721132 GAGGAAACAAGATTCGTCGTTGTAACTTCAATCTGTTCCACTGCA-CTGCCT
1 G-GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATC-GCCA
* ** * * ** * **
3721183 GGG-AGTAAGATTCATCGTTGTGGCTTCAATAT-TTTAATTGCAAT-GTTA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCA
* * * * * *
3721231 GGGAAACAATATTTGTCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGC-CA
* * * ** * **
3721282 GGG-AGTAAGATTCGCTGTTGTAGCTCCAATCT-TTTAATTGCAAT-GTTA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCA
* * * * *
3721330 GGGAAACAAGATTTGTCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGC-CA
* * * * ** * ** *
3721381 AGG-AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCA
* *
3721430 GGGGAGCAAGATTCACCGTTGTAGCTTCAATCTGTTC
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTC
3721467 TGCTGCACCA
Statistics
Matches: 687, Mismatches: 246, Indels: 94
0.67 0.24 0.09
Matches are distributed among these distances:
48 18 0.03
49 219 0.32
50 433 0.63
51 17 0.02
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCA
Found at i:3721488 original size:100 final size:100
Alignment explanation
Indices: 3720427--3721525 Score: 1087
Period size: 99 Copynumber: 11.1 Consensus size: 100
3720417 ACTAATTAAC
* * * * * * *
3720427 TGCAATGTCGGGGAAGCAAGATTCACCGTT-TCAGCTTCAATCTATCCCATTGCACCTCCAGGGA
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGT-AGCTTCAATCTGTTCCACTGCACCGCCTGGGA
*
3720491 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
65 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* * * *** * * **
3720527 TGCAATGTCAGGGAAACAAGATTCGTCATTACGGCTTCAATCTG-TCCTATTGCATCGCCAAGGA
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCC-ACTGCACCGCCTGGGA
* *
3720591 AGTAAGATTCGCCGTTGCGGCTTCAATATTTTAAAT
65 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
** *
3720627 TGTGATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-CG-CTAAGGA
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-GGGA
* *
3720690 AGTAAGATTTGCCGTTGCGGCTTCAATCTTTTAAAT
65 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
** * * * *
3720726 TGTGATGTCGGGG-AACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCACCAGGGAA
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
*
3720790 GTAAGATTCGCTGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* * ** * * * * * * * * *
3720825 TGTAATATCAAGGAAATAAGATTCGCCGTCGTAGCTTTAATCTGCTCAACTGTACTGCCAGAGAA
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
* * ** *
3720890 GTGATATTTACCGTTGTAGTG-TT-AATCTTTTTAAT
66 GTAAGATTCGCCGTTGT-G-GCTTCAATCTTTTAAAT
** * * * * *
3720925 TGCAATACCGGGG-AACAAGATTCACTGTTGTAGCTTCAATCTGATCCACTGCATCGCCTAGGAA
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
*
3720989 GTAAGATTCGTCGTT-TGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* * * * * ** *
3721023 TGCAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTTAATCTGCTCCACTGCACTACCAGGGAA
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
* * *
3721088 GTAAGATTCGTCGTTGCGACTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* * * *
3721123 TGCAATGTCGAGGAAACAAGATTCGTCGTTGTAACTTCAATCTGTTCCACTGCACTGCCTGGG-A
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
** *
3721187 GTAAGATTCATCGTTGTGGCTTCAATATTTT-AAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
** * * *
3721221 TGCAATGTTAGGGAAACAATATTTGTCGTTGTAGCTTCAATCTGTTCCACTGCACCG-CTAAGGG
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT--GGG
* * *
3721285 -AGTAAGATTCGCTGTTGTAGCTCCAATCTTTT-AAT
64 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
** * * *
3721320 TGCAATGTTAGGGAAACAAGATTTGTCGTTGTAGCTTCAATCTGTTCCACTGCACCG-CTAAAGG
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT--GGG
*
3721384 -AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
64 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* * * * ** *
3721420 TGCAATATCGGGGGAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCTGCTGCACCACCTGGGAA
1 TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
* * * * *
3721485 GTAAGATTTGCTGTTGTGGCCTCAGTCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
3721520 TGCAAT
1 TGCAAT
3721526 CTATGGTTTC
Statistics
Matches: 844, Mismatches: 137, Indels: 36
0.83 0.13 0.04
Matches are distributed among these distances:
96 1 0.00
97 5 0.01
98 116 0.14
99 358 0.42
100 355 0.42
101 8 0.01
102 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (100 bp):
TGCAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
GTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
Found at i:3724100 original size:3 final size:3
Alignment explanation
Indices: 3724092--3724120 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3724082 GTTCAAAATG
3724092 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3724121 TGGTTAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3727157 original size:4 final size:4
Alignment explanation
Indices: 3727148--3727183 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
3727138 CTAGGTAAAT
*
3727148 TTTC TTTC TTGC TTTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTT
3727184 GAAGTCGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:3727165 original size:13 final size:13
Alignment explanation
Indices: 3727147--3727182 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
3727137 TCTAGGTAAA
3727147 TTTTCTTTCTTGC
1 TTTTCTTTCTTGC
*
3727160 TTTTCTTTCTTTC
1 TTTTCTTTCTTGC
3727173 -TTTCTTTCTT
1 TTTTCTTTCTT
3727183 TGAAGTCGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTTCTTTCTTGC
Found at i:3742251 original size:16 final size:16
Alignment explanation
Indices: 3742230--3742262 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3742220 TCTTCAAAAC
3742230 ACCACTCATGCATGTG
1 ACCACTCATGCATGTG
3742246 ACCACTCATGCATGTG
1 ACCACTCATGCATGTG
3742262 A
1 A
3742263 TTCTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (16 bp):
ACCACTCATGCATGTG
Found at i:3744032 original size:18 final size:17
Alignment explanation
Indices: 3744000--3744040 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
3743990 CATATCAATT
*
3744000 GCATAATATAAGCATAA
1 GCATAAAATAAGCATAA
3744017 GCATAAAATCAAGCATAA
1 GCATAAAAT-AAGCATAA
*
3744035 CCATAA
1 GCATAA
3744041 GCTTGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.20
Consensus pattern (17 bp):
GCATAAAATAAGCATAA
Found at i:3746207 original size:11 final size:11
Alignment explanation
Indices: 3746191--3746215 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3746181 TATTATATGA
3746191 GTTAATTTTGT
1 GTTAATTTTGT
3746202 GTTAATTTTGT
1 GTTAATTTTGT
3746213 GTT
1 GTT
3746216 GATGATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (11 bp):
GTTAATTTTGT
Found at i:3752436 original size:41 final size:41
Alignment explanation
Indices: 3752379--3752523 Score: 254
Period size: 41 Copynumber: 3.5 Consensus size: 41
3752369 TTTAACATAT
* *
3752379 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
3752420 TCACCGGCACTTAGCCTGCTAGGTTTATAACTTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
3752461 TCACCAGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
3752502 TCACCGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
3752524 ACTAAGTCCT
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:3755698 original size:18 final size:17
Alignment explanation
Indices: 3755656--3755712 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
3755646 ATGTTATGGT
*
3755656 TGTGTTTATATTA-ATG
1 TGTGTATATATTATATG
* *
3755672 TGCGAATATATGTATATG
1 TGTGTATATAT-TATATG
*
3755690 TGTGTATATATATATATA
1 TGTGTATATAT-TATATG
3755708 TGTGT
1 TGTGT
3755713 GGATCGAACA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
16 8 0.25
17 2 0.06
18 22 0.69
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (17 bp):
TGTGTATATATTATATG
Found at i:3755987 original size:41 final size:41
Alignment explanation
Indices: 3755925--3756182 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
3755915 GTTTGGAATT
* *
3755925 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
3755966 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
3756007 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
3756048 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
3756089 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
3756130 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
3756171 GGTGATCCGAAT
1 GGTGATCTGAAT
3756183 ATGATGAATT
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:3756062 original size:82 final size:82
Alignment explanation
Indices: 3755925--3756176 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
3755915 GTTTGGAATT
*
3755925 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
3755990 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
3756007 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
3756072 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
3756089 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
3756154 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
3756171 GGTGAT
1 GGTGAT
3756177 CCGAATATGA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:3763412 original size:19 final size:19
Alignment explanation
Indices: 3763388--3763424 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3763378 TTAATGTGCG
*
3763388 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
3763407 AATATATATATATGTGTG
1 AATATATATATATGTGTG
3763425 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:3763698 original size:41 final size:41
Alignment explanation
Indices: 3763636--3763893 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
3763626 GTTTGGAATT
* *
3763636 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
3763677 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
3763718 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
3763759 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
3763800 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
3763841 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
3763882 GGTGATCCGAAT
1 GGTGATCTGAAT
3763894 ATGATGAATT
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:3763773 original size:82 final size:82
Alignment explanation
Indices: 3763636--3763887 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
3763626 GTTTGGAATT
*
3763636 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
3763701 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
3763718 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
3763783 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
3763800 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
3763865 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
3763882 GGTGAT
1 GGTGAT
3763888 CCGAATATGA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:3771245 original size:40 final size:41
Alignment explanation
Indices: 3771148--3771246 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
3771138 TTGATCTCGG
* * * *
3771148 TTTCGCACATTTAGTGCCCGTTATTTAACATAATTATTTAA
1 TTTCGCACACTTAGTGCTCGTTATTCAACATAATCATTTAA
* *
3771189 TTTCGCACACTTAGTGCTCGTTATTCAACCTCATCATTTAA
1 TTTCGCACACTTAGTGCTCGTTATTCAACATAATCATTTAA
3771230 -TTCGCACACTTAGTGCT
1 TTTCGCACACTTAGTGCT
3771247 AATCATATAG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 17 0.33
41 35 0.67
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.40
Consensus pattern (41 bp):
TTTCGCACACTTAGTGCTCGTTATTCAACATAATCATTTAA
Found at i:3778323 original size:36 final size:36
Alignment explanation
Indices: 3778197--3778323 Score: 110
Period size: 36 Copynumber: 3.5 Consensus size: 36
3778187 TATGTATTTT
*
3778197 TCGGTTTATCCGACTAGCGCTAGGCGTAAATCATTG
1 TCGGTTTATCCGACTAGCGCTGGGCGTAAATCATTG
* * * * ** ** *
3778233 TTGATTTATCCGACTAGTGTTGGGCACATTTGATATCG
1 TCGGTTTATCCGACTAGCGCTGGGCGTAAATCAT-T-G
* ** *
3778271 TTGGTTTATCTAACTAGCGCTGGGCGTAACTCATTG
1 TCGGTTTATCCGACTAGCGCTGGGCGTAAATCATTG
3778307 TCGGTTTATCCGACTAG
1 TCGGTTTATCCGACTAG
3778324 TGTTGGGTAC
Statistics
Matches: 66, Mismatches: 23, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
36 39 0.59
37 2 0.03
38 25 0.38
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (36 bp):
TCGGTTTATCCGACTAGCGCTGGGCGTAAATCATTG
Found at i:3778382 original size:76 final size:75
Alignment explanation
Indices: 3778201--3778467 Score: 329
Period size: 76 Copynumber: 3.5 Consensus size: 75
3778191 TATTTTTCGG
* * * *
3778201 TTTATCCGACTAGCGCTAGGCGTAAATCATTGTTGATTTATCCGACTAGTGTTGGG-CACATTTG
1 TTTATCCGACTAGCGCTAGGCGCAAAACATTGTCGGTTTATCCGACTAGTGTTGGGACACATTTG
* *
3778265 ATATCGTTGG
66 ATATCGTCGA
** * * **
3778275 TTTATCTAACTAGCGCTGGGCGTAACTCATTGTCGGTTTATCCGACTAGTGTTGGGTACACATTT
1 TTTATCCGACTAGCGCTAGGCGCAAAACATTGTCGGTTTATCCGACTAGTGTTGGG-ACACATTT
*
3778340 GATATCATCGA
65 GATATCGTCGA
* * * *
3778351 TTTATCTGACTAACGCTAGGAGCAAAACATTGTCGGTTTATCTGACTAGTGTTGGGCACACATTT
1 TTTATCCGACTAGCGCTAGGCGCAAAACATTGTCGGTTTATCCGACTAGTGTTGGG-ACACATTT
*
3778416 GATATCGTCAA
65 GATATCGTCGA
* *
3778427 TTTATCCGACTAGCGTTGGGCGCAAAACATTGTCGGTTTAT
1 TTTATCCGACTAGCGCTAGGCGCAAAACATTGTCGGTTTAT
3778468 TCAACTGGTG
Statistics
Matches: 166, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
74 50 0.30
76 116 0.70
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (75 bp):
TTTATCCGACTAGCGCTAGGCGCAAAACATTGTCGGTTTATCCGACTAGTGTTGGGACACATTTG
ATATCGTCGA
Found at i:3778635 original size:24 final size:24
Alignment explanation
Indices: 3778602--3778659 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
3778592 AACAATCCAT
3778602 TGAAGAAGGTTGAAAAGGATATAAA
1 TGAA-AAGGTTGAAAAGGATATAAA
*
3778627 TGAAAAGGTTGAAAAGGATATCAA
1 TGAAAAGGTTGAAAAGGATATAAA
*
3778651 CGAAAAGGT
1 TGAAAAGGT
3778660 CGGTATCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.50, C:0.03, G:0.28, T:0.19
Consensus pattern (24 bp):
TGAAAAGGTTGAAAAGGATATAAA
Found at i:3785970 original size:14 final size:15
Alignment explanation
Indices: 3785938--3785971 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3785928 TAAATTTTAG
3785938 TTTTGGTTCCTCTAT
1 TTTTGGTTCCTCTAT
**
3785953 TTTTGGTTTTTCTAT
1 TTTTGGTTCCTCTAT
3785968 TTTT
1 TTTT
3785972 ATATTCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (15 bp):
TTTTGGTTCCTCTAT
Found at i:3794596 original size:29 final size:30
Alignment explanation
Indices: 3794535--3794612 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
3794525 AAATAAGGTT
*
3794535 TTAAAAGTTGTAGAAAAAAAATTTTAGGTCC
1 TTAAAAGTTG-AGAAAAAAAATTTTAGGACC
* *
3794566 TTAAAAGTTG-GTAAAAAAATTTTATGACC
1 TTAAAAGTTGAGAAAAAAAATTTTAGGACC
*
3794595 TTTAAGAGTT-A-AAAAAAA
1 -TTAAAAGTTGAGAAAAAAA
3794613 TTGACCTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 22 0.55
30 8 0.20
31 10 0.25
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (30 bp):
TTAAAAGTTGAGAAAAAAAATTTTAGGACC
Found at i:3796190 original size:30 final size:30
Alignment explanation
Indices: 3796150--3796206 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
3796140 TAGGCATTTC
*
3796150 CACACGGGCTGGCCACACGCCCGTGTGAGA
1 CACACGGGCTGGCCACACGCCCATGTGAGA
* *
3796180 CACACTGGCTGGCCACATGCCCATGTG
1 CACACGGGCTGGCCACACGCCCATGTG
3796207 CCAACCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (30 bp):
CACACGGGCTGGCCACACGCCCATGTGAGA
Found at i:3804165 original size:26 final size:23
Alignment explanation
Indices: 3804136--3804187 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 23
3804126 TCATATACTT
3804136 ATTATTATTTTCTTCTTAATGTTCTC
1 ATTATTA-TTTCTT-TTAATGTT-TC
*
3804162 ATTATTATTTGTTTTAATGTTTC
1 ATTATTATTTCTTTTAATGTTTC
3804185 ATT
1 ATT
3804188 TCTTATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 5 0.20
26 7 0.28
ACGTcount: A:0.21, C:0.10, G:0.06, T:0.63
Consensus pattern (23 bp):
ATTATTATTTCTTTTAATGTTTC
Found at i:3805690 original size:6 final size:6
Alignment explanation
Indices: 3805679--3805801 Score: 189
Period size: 6 Copynumber: 21.0 Consensus size: 6
3805669 AGCTTATTTG
* *
3805679 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA- TTTTAT TTTCAT TTTCAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
3805726 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* *
3805774 TTTTA- TGTT-T TTTTAT TGTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
3805802 AGACTTATTT
Statistics
Matches: 108, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
5 11 0.10
6 97 0.90
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:3805795 original size:16 final size:15
Alignment explanation
Indices: 3805672--3805799 Score: 63
Period size: 15 Copynumber: 8.5 Consensus size: 15
3805662 ACCATTAAGC
* *
3805672 TTATTTGTTTTATTT
1 TTATTTTTTTTATTG
*
3805687 TTATTTTTATTT-TTA
1 TTATTTTT-TTTATTG
*
3805702 TT-TTTATTTTATT-
1 TTATTTTTTTTATTG
* *
3805715 TTCATTTTCATTT-TTA
1 TT-ATTTT-TTTTATTG
*
3805731 TT-TTTATTTTTATTT
1 TTATTT-TTTTTATTG
*
3805746 TTATTTTTATTT-TTA
1 TTATTTTT-TTTATTG
*
3805761 TT-TTTATTTTTATTT
1 TTATTT-TTTTTATTG
3805776 TTATGTTTTTTTATTG
1 TTAT-TTTTTTTATTG
3805792 TTATTTTT
1 TTATTTTT
3805800 ATAGACTTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
13 5 0.06
14 18 0.20
15 37 0.42
16 27 0.30
17 2 0.02
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (15 bp):
TTATTTTTTTTATTG
Found at i:3810059 original size:12 final size:12
Alignment explanation
Indices: 3810044--3810068 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3810034 AAAATAAAAC
3810044 TGATAATAATAA
1 TGATAATAATAA
3810056 TGATAATAATAA
1 TGATAATAATAA
3810068 T
1 T
3810069 AGTCAAATAA
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TGATAATAATAA
Found at i:3814545 original size:121 final size:121
Alignment explanation
Indices: 3814386--3814628 Score: 414
Period size: 121 Copynumber: 2.0 Consensus size: 121
3814376 ATTAACAGAT
* * **
3814386 AATGAAAGGGTGAATGTTGGTGAGAATGTATCCGCAGTGTTATAGCGGAAAATGCCGGCAAAATG
1 AATGAAAGGGTGAATGTTGGTGAGAATGTATCCGCAGTGTTACAGCGAAAAATGCCAACAAAATG
* *
3814451 CAAGGATAGGGGCATGTTTGCAATACCATGCAAAATAGGCCATCTGGCAATTAAGA
66 CAAGGATAAGGGCATATTTGCAATACCATGCAAAATAGGCCATCTGGCAATTAAGA
*
3814507 AATGAAAGGGTGAATGTTGGTGAGAATGTATTCGCAGTGTTACAGCGAAAAATGCCAACAAAATG
1 AATGAAAGGGTGAATGTTGGTGAGAATGTATCCGCAGTGTTACAGCGAAAAATGCCAACAAAATG
*
3814572 CAAGGATAAGGGCATATTTGCAATACCATGCAAAATAGGCCATCTGGGAATTAAGA
66 CAAGGATAAGGGCATATTTGCAATACCATGCAAAATAGGCCATCTGGCAATTAAGA
3814628 A
1 A
3814629 GGCTATGTAT
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 114 1.00
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (121 bp):
AATGAAAGGGTGAATGTTGGTGAGAATGTATCCGCAGTGTTACAGCGAAAAATGCCAACAAAATG
CAAGGATAAGGGCATATTTGCAATACCATGCAAAATAGGCCATCTGGCAATTAAGA
Found at i:3815505 original size:4 final size:4
Alignment explanation
Indices: 3815492--3815559 Score: 70
Period size: 4 Copynumber: 16.5 Consensus size: 4
3815482 CAACCCAATT
3815492 TTTA -TTA TTTA TTTA TTTA TTTA TTTTA TTTA CTTTA TTTA -TTA CTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA -TTTA
3815541 TTTTA TTT- TATTA TTTA TT
1 -TTTA TTTA T-TTA TTTA TT
3815560 ACTTATTTGG
Statistics
Matches: 56, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
3 7 0.12
4 33 0.59
5 16 0.29
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:3815531 original size:26 final size:25
Alignment explanation
Indices: 3815491--3815567 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 25
3815481 GCAACCCAAT
3815491 TTTTA-TTATTTATTTATTTA-TTTA
1 TTTTATTTATTTATTTA-TTACTTTA
3815515 TTTTATTTACTTTATTTATTACTTTA
1 TTTTATTTA-TTTATTTATTACTTTA
3815541 TTTTATTT-TATTATTTATTAC-TTA
1 TTTTATTTAT-TTATTTATTACTTTA
3815565 TTT
1 TTT
3815568 GGATATTAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
24 12 0.24
25 17 0.35
26 20 0.41
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATTTATTTATTTATTACTTTA
Found at i:3819443 original size:11 final size:11
Alignment explanation
Indices: 3819427--3819461 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
3819417 CATTTTAAAA
3819427 TTTTAGATATT
1 TTTTAGATATT
3819438 TTTTAGATATT
1 TTTTAGATATT
3819449 TTTTAGATATT
1 TTTTAGATATT
3819460 TT
1 TT
3819462 CTTTTAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (11 bp):
TTTTAGATATT
Found at i:3820120 original size:23 final size:23
Alignment explanation
Indices: 3820076--3820122 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3820066 ATACTACCTA
* *
3820076 TTTTCTTTTCTTTCTTAGATTTC
1 TTTTCTTTCCTTTCTTACATTTC
3820099 TTTTCTTTCCTTTCTCT-CATTTC
1 TTTTCTTTCCTTTCT-TACATTTC
3820122 T
1 T
3820123 CATCATCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTCTTTCCTTTCTTACATTTC
Found at i:3820813 original size:28 final size:29
Alignment explanation
Indices: 3820782--3820845 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
3820772 CCAAAAAAAT
3820782 CCCATTTTTTTA-AATTTACCGAAATGGG
1 CCCATTTTTTTATAATTTACCGAAATGGG
*** * *
3820810 CCCAGGATTTTATTATTTACCGGAATGGG
1 CCCATTTTTTTATAATTTACCGAAATGGG
3820839 CCC-TTTT
1 CCCATTTT
3820846 ACCTGAAAAC
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (29 bp):
CCCATTTTTTTATAATTTACCGAAATGGG
Found at i:3820975 original size:40 final size:40
Alignment explanation
Indices: 3820931--3821009 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
3820921 TACGTGGACA
**
3820931 CAAAGCGCGCTGACGAGGACGCGTTTTGCTGCCACGTAGG
1 CAAAGCGCGCCCACGAGGACGCGTTTTGCTGCCACGTAGG
* * * *
3820971 CAAAGCGCGCCCCCGGGGACGCGTTTTGTTGCCATGTAG
1 CAAAGCGCGCCCACGAGGACGCGTTTTGCTGCCACGTAG
3821010 CGCACCCCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.18, C:0.29, G:0.34, T:0.19
Consensus pattern (40 bp):
CAAAGCGCGCCCACGAGGACGCGTTTTGCTGCCACGTAGG
Found at i:3821381 original size:117 final size:118
Alignment explanation
Indices: 3821251--3821520 Score: 373
Period size: 117 Copynumber: 2.2 Consensus size: 118
3821241 TTCTGAAATC
* * **
3821251 GCGCCCACGTGGACGCGTTTTTGCTATAGTTGGTCCTGAAAAAAATAATTTCAAGTTGACGTTTC
1 GCGCCCACGTGGACGCGCTTTTGCTACAACTGGTCCTG-AAAAAATAATTTCAAGTTGACGTTTC
* *
3821316 TGAGCGAATAGTAT-AAAAACGCTTCAAGTAGGATACTTTA-CAGAAGAATTTT
65 TGAGCGAATAATATAAAAAACGCTTCAAGCAGGATACTTTATCAGAAGAATTTT
*
3821368 GCGCCCACGTGGACGCGCTTTTGCTACAACTGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCT
1 GCGCCCACGTGGACGCGCTTTTGCTACAACTGGTCCTGAAAAAATAATTTCAAGTTGACGTTTCT
*
3821433 GAGCGAATAATATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAAATTATGAAAT
66 GAGCGAATAATATAAAAAACGCTTCAAGCAGGATACTTTATCAGAAG-AATT-T----T
*
3821492 CGCGCCCTCGTGGACGCGCTTTTGCTACA
1 -GCGCCCACGTGGACGCGCTTTTGCTACA
3821521 GTAGCATGTT
Statistics
Matches: 135, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
116 38 0.28
117 58 0.43
118 6 0.04
119 4 0.03
120 1 0.01
124 1 0.01
125 27 0.20
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (118 bp):
GCGCCCACGTGGACGCGCTTTTGCTACAACTGGTCCTGAAAAAATAATTTCAAGTTGACGTTTCT
GAGCGAATAATATAAAAAACGCTTCAAGCAGGATACTTTATCAGAAGAATTTT
Done.