Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 3 of 214
Found at i:729535 original size:12 final size:12
Alignment explanation
Indices: 729513--729544 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
729503 ATTATGCATA
729513 TTAAA-AAATAT
1 TTAAATAAATAT
729524 TTAAATAAATAT
1 TTAAATAAATAT
729536 TTAAATAAA
1 TTAAATAAA
729545 ATAATCGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAAATAAATAT
Found at i:729604 original size:26 final size:28
Alignment explanation
Indices: 729570--729623 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
729560 AATAAAGATA
*
729570 ATAAATTCTACAT-ATTA-AAAAATTAT
1 ATAAATTCTACATAATAATAAAAATTAT
729596 ATAAATTCTACATAATAATAAAAATTAT
1 ATAAATTCTACATAATAATAAAAATTAT
729624 GACATTGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 13 0.52
27 3 0.12
28 9 0.36
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (28 bp):
ATAAATTCTACATAATAATAAAAATTAT
Found at i:738598 original size:32 final size:32
Alignment explanation
Indices: 738540--738600 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
738530 AATTATATTA
*
738540 TATTTTTTATGAAAGCTAAAATATAATTTCAT
1 TATTTTTTATGAAAGATAAAATATAATTTCAT
* *
738572 TATTTTTTAT-AAGGATTAAATCATAATTT
1 TATTTTTTATGAAAGATAAAAT-ATAATTT
738601 TATCATTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (32 bp):
TATTTTTTATGAAAGATAAAATATAATTTCAT
Found at i:740876 original size:51 final size:51
Alignment explanation
Indices: 740818--740935 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
740808 TGTGTAAATG
* * *
740818 TTAACAAAATGTGTAAATTTTGTAGGTTAAATTTATTAAATTGAGACCAAA
1 TTAACAAAATGTGTAAATATTGTAGGTTAAATTTATTAAAATAAGACCAAA
* * * *
740869 TTGACAAAATGTGTAAATATTGTGGGTTAAATTTGTTAAAATAAGATCAAA
1 TTAACAAAATGTGTAAATATTGTAGGTTAAATTTATTAAAATAAGACCAAA
*
740920 TTAACAAAATATGTAA
1 TTAACAAAATGTGTAA
740936 GCTTTAAGGG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (51 bp):
TTAACAAAATGTGTAAATATTGTAGGTTAAATTTATTAAAATAAGACCAAA
Found at i:744075 original size:45 final size:45
Alignment explanation
Indices: 743991--744079 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
743981 TTGATCCTTA
*
743991 TTCTCCAAAAGAACATCTTTTTCACCCTTCTCTCCCACAGTTTCT
1 TTCTCCAAAAGAACATCTTTTTCACCCTTATCTCCCACAGTTTCT
* ** **
744036 TTCTCCAAAAGATCA-CTTTTTTCTGCCTTATCTTTCACAGTTTC
1 TTCTCCAAAAGAACATC-TTTTTCACCCTTATCTCCCACAGTTTC
744080 ATCTTTTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.21, C:0.31, G:0.06, T:0.42
Consensus pattern (45 bp):
TTCTCCAAAAGAACATCTTTTTCACCCTTATCTCCCACAGTTTCT
Found at i:748924 original size:21 final size:20
Alignment explanation
Indices: 748874--748924 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 20
748864 CCTCTTCCTC
*
748874 TTCCTCTCCCCTCCTCCATTG
1 TTCCTCT-CCCTCCACCATTG
*
748895 -TAC-CTCCCTCCACCATTG
1 TTCCTCTCCCTCCACCATTG
748913 TTTCCTCTCCCT
1 -TTCCTCTCCCT
748925 TGTCTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
18 12 0.50
19 2 0.08
20 4 0.17
21 6 0.25
ACGTcount: A:0.08, C:0.51, G:0.04, T:0.37
Consensus pattern (20 bp):
TTCCTCTCCCTCCACCATTG
Found at i:757636 original size:44 final size:44
Alignment explanation
Indices: 757547--757832 Score: 155
Period size: 44 Copynumber: 6.7 Consensus size: 44
757537 TTTAATCCAT
* * ** *
757547 TCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGTCTTCAATCTGC
* * *
757590 TCCGCTGTAATCTCAGGGAGATGAGATCTCTGTCTTCAATCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGTCTTCAATCTGC
* *** *
757634 TCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTGT
1 TCCACTGTAACCTCAGGGAGATAAGATCT---CTGTCTTCAATCTGC
* * * *
757680 TCCACTGTAATCTCAGGGAGATAAGA-C-CTGAT-GT-GATCTTC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTG-TCTTCAATCTGC
* * * * *
757721 TCTACTGTAACTTCAGAGAGATACGATC-C--T-TT-AATCCGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGTCTTCAATCTGC
* * * * * **
757760 TCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCT-CTGTCTTCAATCTGC
* * *
757804 TCCGCTGTAATCTCAGGGAGATAGGATCT
1 TCCACTGTAACCTCAGGGAGATAAGATCT
757833 GAAATTCTTT
Statistics
Matches: 186, Mismatches: 43, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
39 26 0.14
40 1 0.01
41 26 0.14
42 4 0.02
43 25 0.13
44 68 0.37
45 2 0.01
46 33 0.18
47 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (44 bp):
TCCACTGTAACCTCAGGGAGATAAGATCTCTGTCTTCAATCTGC
Found at i:757697 original size:46 final size:45
Alignment explanation
Indices: 757578--757875 Score: 221
Period size: 44 Copynumber: 6.8 Consensus size: 45
757568 TAGGATAGTG
* * * *
757578 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATGAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
** *
757621 GTCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
757668 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
757711 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-AT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * * *
757748 CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* *
757791 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAGGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
757838 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
757876 CCTGTATAAT
Statistics
Matches: 199, Mismatches: 37, Indels: 34
0.74 0.14 0.13
Matches are distributed among these distances:
36 2 0.01
37 1 0.01
38 1 0.01
39 22 0.11
40 2 0.01
41 24 0.12
42 1 0.01
43 1 0.01
44 71 0.36
45 1 0.01
46 70 0.35
47 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:785171 original size:12 final size:12
Alignment explanation
Indices: 785154--785180 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
785144 AAACAGTTAA
785154 ACCAACGCTAAC
1 ACCAACGCTAAC
785166 ACCAACGCTAAC
1 ACCAACGCTAAC
785178 ACC
1 ACC
785181 CAAAATCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.44, G:0.07, T:0.07
Consensus pattern (12 bp):
ACCAACGCTAAC
Found at i:790557 original size:10 final size:11
Alignment explanation
Indices: 790531--790556 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
790521 TTAAAAATAA
790531 AAAAATATTTT
1 AAAAATATTTT
790542 AAAAATATTTT
1 AAAAATATTTT
790553 AAAA
1 AAAA
790557 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:790576 original size:30 final size:30
Alignment explanation
Indices: 790517--790581 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
790507 ACCAAAAATT
****
790517 TATTTTAAAAATAAAAAAATATTTTAAAAA
1 TATTTTAAAAATAAAAAAATAAAAAAAAAA
*
790547 TATTTTAAAATTAAAAAAATAAAAAAAAAA
1 TATTTTAAAAATAAAAAAATAAAAAAAAAA
790577 TATTT
1 TATTT
790582 ATTATATTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
TATTTTAAAAATAAAAAAATAAAAAAAAAA
Found at i:795540 original size:29 final size:31
Alignment explanation
Indices: 795502--795569 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
795492 TCACAAATTT
* *
795502 AGAATCTAGTATTTT-TA-TTTTTA-TTTTTA
1 AGAATTTAGT-TTTTCTATTTTTTAGATTTTA
795531 AGAATTTAGTTTTTCTATTTTTTAGATTTTA
1 AGAATTTAGTTTTTCTATTTTTTAGATTTTA
795562 A-AATTTAG
1 AGAATTTAG
795570 ATTCAATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 4 0.12
29 11 0.32
30 13 0.38
31 6 0.18
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (31 bp):
AGAATTTAGTTTTTCTATTTTTTAGATTTTA
Found at i:795561 original size:23 final size:22
Alignment explanation
Indices: 795519--795561 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
795509 AGTATTTTTA
795519 TTTTTATTTTTAAGAATTTAGT
1 TTTTTATTTTTAAGAATTTAGT
* *
795541 TTTTCTATTTTTTAGATTTTA
1 TTTT-TATTTTTAAGAATTTA
795562 AAATTTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTTATTTTTAAGAATTTAGT
Found at i:805487 original size:11 final size:11
Alignment explanation
Indices: 805457--805491 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
805447 TCATGTTATC
*
805457 AATTTAACCCT
1 AATTAAACCCT
805468 AATTAAAACCCT
1 AATT-AAACCCT
805480 AATTAAACCCT
1 AATTAAACCCT
805491 A
1 A
805492 TTTTGATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (11 bp):
AATTAAACCCT
Found at i:807283 original size:4 final size:4
Alignment explanation
Indices: 807274--807299 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
807264 AAAAGTTATT
807274 TTTG TTTG TTTG TTTG TTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TT
807300 GTGAGGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:808481 original size:32 final size:32
Alignment explanation
Indices: 808440--808504 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
808430 TCAAACCTTA
808440 TATCTTTGATATCCTTTAAAGCATTGATTATT
1 TATCTTTGATATCCTTTAAAGCATTGATTATT
808472 TATCTTTGATATCCTTTAAAGCATTGATTATT
1 TATCTTTGATATCCTTTAAAGCATTGATTATT
808504 T
1 T
808505 CATGCTGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (32 bp):
TATCTTTGATATCCTTTAAAGCATTGATTATT
Found at i:816213 original size:19 final size:19
Alignment explanation
Indices: 816178--816218 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
816168 CTATTCCACC
816178 TTAAAAATAATTAAATTATT
1 TTAAAAATAATTAAATT-TT
*
816198 TTAAAAAT-ATTGAATTTT
1 TTAAAAATAATTAAATTTT
816216 TTA
1 TTA
816219 TATTTAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 7 0.35
20 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTAAAAATAATTAAATTTT
Found at i:818076 original size:69 final size:69
Alignment explanation
Indices: 817996--818130 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 69
817986 CTCTGGTTAA
*
817996 AACAGCAGAGTTGTTCACACACTAACATTTGACTTATCTATCGATAGACT-GATGCATCAAAAAC
1 AACAGCAGAGTTGTTCACACACTAACATTTGACTTATCTATCGATAGA-TGGATACATCAAAAAC
818060 TAAAC
65 TAAAC
* ** * * *
818065 AACATCAGAGTTGTTTTCACAGTAGCATTTGACTTATCTATCTATAGATGGATACATCAAAAACT
1 AACAGCAGAGTTGTTCACACACTAACATTTGACTTATCTATCGATAGATGGATACATCAAAAACT
818130 A
66 A
818131 TTACTTTTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 57 0.98
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (69 bp):
AACAGCAGAGTTGTTCACACACTAACATTTGACTTATCTATCGATAGATGGATACATCAAAAACT
AAAC
Found at i:822118 original size:21 final size:21
Alignment explanation
Indices: 822093--822132 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
822083 GTATGTATCA
*
822093 TTTTA-ATATTTATATTAATAT
1 TTTTATATATGTA-ATTAATAT
822114 TTTTATATATGTAATTAAT
1 TTTTATATATGTAATTAAT
822133 TAATGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTATATATGTAATTAATAT
Found at i:824173 original size:12 final size:12
Alignment explanation
Indices: 824156--824180 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
824146 AATTTTAAAA
824156 TTTTTATAACTT
1 TTTTTATAACTT
824168 TTTTTATAACTT
1 TTTTTATAACTT
824180 T
1 T
824181 ATTATTTTTT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTATAACTT
Found at i:824187 original size:29 final size:30
Alignment explanation
Indices: 824141--824199 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
824131 TTGCAAAAAA
*
824141 TTTATAATTTTAAAA-TTTTTATAACTTTT
1 TTTATAACTTTAAAATTTTTTATAACTTTT
** *
824170 TTTATAACTTTATTATTTTTTATTACTTTT
1 TTTATAACTTTAAAATTTTTTATAACTTTT
824200 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTATAACTTTAAAATTTTTTATAACTTTT
Found at i:824785 original size:10 final size:10
Alignment explanation
Indices: 824764--824813 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
824754 GAATATATTG
824764 AAATTGATAAA
1 AAATT-ATAAA
824775 AAATTATAAA
1 AAATTATAAA
*
824785 AAATAAT-AA
1 AAATTATAAA
*
824794 AACTTAT-AA
1 AAATTATAAA
*
824803 ATATTATAAA
1 AAATTATAAA
824813 A
1 A
824814 TATGAAAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
9 14 0.42
10 14 0.42
11 5 0.15
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
AAATTATAAA
Found at i:824868 original size:28 final size:29
Alignment explanation
Indices: 824803--824870 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
824793 AAACTTATAA
824803 ATATTATAAAA-TATGAAAATCTAATAAAC
1 ATATT-TAAAATTATGAAAATCTAATAAAC
**
824832 -TATAAAAAATTATG-AAAT-TAATAAAAC
1 ATATTTAAAATTATGAAAATCTAAT-AAAC
824859 ATATTTAAAATT
1 ATATTTAAAATT
824871 TTATAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
26 4 0.12
27 12 0.38
28 16 0.50
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATTTAAAATTATGAAAATCTAATAAAC
Found at i:824887 original size:21 final size:21
Alignment explanation
Indices: 824832--824890 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
824822 TCTAATAAAC
*
824832 TATAAAAAATTA-TGAAA-TT
1 TATAAAAAATTATTAAAATTT
* *
824851 AATAAAACA-TATTTAAAATTT
1 TATAAAAAATTA-TTAAAATTT
824872 TATAAAAAATTATTAAAAT
1 TATAAAAAATTATTAAAAT
824891 CCTTAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.06
19 7 0.23
20 4 0.13
21 16 0.52
22 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TATAAAAAATTATTAAAATTT
Found at i:825583 original size:19 final size:18
Alignment explanation
Indices: 825559--825652 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 18
825549 TTATGATTTA
825559 TTATAATGTATTATATTAT
1 TTATAATGT-TTATATTAT
*
825578 TTATAAT-TTTATATCAAT
1 TTATAATGTTTATAT-TAT
* *
825596 TT-TAATATTTAATAATATT
1 TTATAATGTTT-ATATTA-T
* * *
825615 TTAGAATTTATTATAATAT
1 TTATAATGT-TTATATTAT
*
825634 TTATAA-GTTTTTATTAT
1 TTATAATGTTTATATTAT
825651 TT
1 TT
825653 TATTATAGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
17 19 0.32
18 10 0.17
19 19 0.32
20 10 0.17
21 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (18 bp):
TTATAATGTTTATATTAT
Found at i:825589 original size:30 final size:29
Alignment explanation
Indices: 825555--825703 Score: 93
Period size: 30 Copynumber: 5.2 Consensus size: 29
825545 TTTTTTATGA
825555 TTTATTATAATGTATTATATTATTTATAAT
1 TTTATTATAAT-TATTATATTATTTATAAT
825585 TTTA-TATCAATT-TTA-A-TATTTAATAAT
1 TTTATTAT-AATTATTATATTATTT-ATAAT
* * *
825612 ATT-TTAGAATTTATTATAATATTTATAAGTT
1 TTTATTATAA-TTATTATATTATTTATAA--T
* *
825643 TTTATTAT-TTTATTATAGTT-TTTATAAG
1 TTTATTATAATTATTATA-TTATTTATAAT
*
825671 TTTA-TATTAATT-TTAATATT-TTTAAAAT
1 TTTATTA-TAATTATT-ATATTATTTATAAT
825699 TTTAT
1 TTTAT
825704 ATTTTTTATA
Statistics
Matches: 94, Mismatches: 10, Indels: 31
0.70 0.07 0.23
Matches are distributed among these distances:
26 7 0.07
27 14 0.15
28 25 0.27
29 14 0.15
30 27 0.29
31 4 0.04
32 3 0.03
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (29 bp):
TTTATTATAATTATTATATTATTTATAAT
Found at i:825615 original size:18 final size:19
Alignment explanation
Indices: 825585--825635 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
825575 TATTTATAAT
*
825585 TTTATATCA-ATTTTA-ATA
1 TTTATATAATATTTTAGA-A
825603 TTTA-ATAATATTTTAGAA
1 TTTATATAATATTTTAGAA
825621 TTTATTATAATATTT
1 TTTA-TATAATATTT
825636 ATAAGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 3 0.11
18 15 0.54
19 1 0.04
20 9 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTATATAATATTTTAGAA
Found at i:825646 original size:22 final size:20
Alignment explanation
Indices: 825607--825667 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
825597 TTAATATTTA
* **
825607 ATAATATTTTAGAATTTATT
1 ATAATATTATAGTTTTTATT
825627 ATAATATTTATAAGTTTTTATT
1 ATAATA-TTAT-AGTTTTTATT
**
825649 ATTTTATTATAGTTTTTAT
1 ATAATATTATAGTTTTTAT
825668 AAGTTTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 15 0.44
21 7 0.21
22 12 0.35
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
ATAATATTATAGTTTTTATT
Found at i:825674 original size:20 final size:21
Alignment explanation
Indices: 825634--825675 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
825624 ATTATAATAT
* *
825634 TTATAAGTTTTTATTATTTTA
1 TTATAAGTTTTTATAAGTTTA
825655 TTAT-AGTTTTTATAAGTTTA
1 TTATAAGTTTTTATAAGTTTA
825675 T
1 T
825676 ATTAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TTATAAGTTTTTATAAGTTTA
Found at i:825725 original size:11 final size:11
Alignment explanation
Indices: 825700--825731 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
825690 TTTTAAAATT
825700 TTATATTTT--
1 TTATATTTTAA
825709 TTATATTTTAA
1 TTATATTTTAA
825720 TTATATTTTAA
1 TTATATTTTAA
825731 T
1 T
825732 GATTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATATTTTAA
Found at i:825736 original size:20 final size:20
Alignment explanation
Indices: 825700--825758 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
825690 TTTTAAAATT
*
825700 TTATATTTTTTATATTTTAA
1 TTATATTTTTAATATTTTAA
*
825720 TTATA-TTTTAATGATTTT-T
1 TTATATTTTTAAT-ATTTTAA
*
825739 TTTTATTTTTAATCATTTTA
1 TTATATTTTTAAT-ATTTTA
825759 TGGGGAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATATTTTTAATATTTTAA
Found at i:833777 original size:20 final size:20
Alignment explanation
Indices: 833754--833796 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
833744 AATATGTCGA
833754 AAGATTATGTTAATATAATT
1 AAGATTATGTTAATATAATT
*
833774 AAGATTATGTTAATTTAATT
1 AAGATTATGTTAATATAATT
833794 AAG
1 AAG
833797 TAATTAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (20 bp):
AAGATTATGTTAATATAATT
Found at i:837688 original size:22 final size:22
Alignment explanation
Indices: 837663--837705 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
837653 ATTGGTCTTG
*
837663 AGACCTAGTCTCGAGACATAAA
1 AGACCTAGCCTCGAGACATAAA
*
837685 AGACCTTGCCTCGAGACATAA
1 AGACCTAGCCTCGAGACATAA
837706 CATGTAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (22 bp):
AGACCTAGCCTCGAGACATAAA
Found at i:840091 original size:12 final size:12
Alignment explanation
Indices: 840074--840099 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
840064 TTAGTCTTTG
840074 TACTATTTACTT
1 TACTATTTACTT
840086 TACTATTTACTT
1 TACTATTTACTT
840098 TA
1 TA
840100 ATGACTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (12 bp):
TACTATTTACTT
Found at i:844004 original size:3 final size:3
Alignment explanation
Indices: 843996--844020 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
843986 TCCAATTTTC
843996 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
844021 TTTTTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:849858 original size:32 final size:31
Alignment explanation
Indices: 849801--849887 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 31
849791 AATGGGGTTT
* * *
849801 TAGATTCCTTAAAAGTTAGAGAAAATTTTTTC
1 TAGATCCCTTAAAAGTTAGA-AAAAATATTTC
849833 TAGATCCCTTAAAAGTT-GATAAAAATATTTC
1 TAGATCCCTTAAAAGTTAGA-AAAAATATTTC
* * *
849864 T-GAGCCCTTAAAAGCTAAAAAAAA
1 TAGATCCCTTAAAAGTTAGAAAAAA
849888 ATGGCCCCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 18 0.38
31 13 0.28
32 16 0.34
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (31 bp):
TAGATCCCTTAAAAGTTAGAAAAAATATTTC
Found at i:853075 original size:18 final size:17
Alignment explanation
Indices: 853052--853085 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
853042 AAAAGTTAAA
853052 AGAGATGAAAATTAAATG
1 AGAGATGAAAA-TAAATG
*
853070 AGAGATTAAAATAAAT
1 AGAGATGAAAATAAAT
853086 TTTTTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (17 bp):
AGAGATGAAAATAAATG
Found at i:854353 original size:7 final size:7
Alignment explanation
Indices: 854341--854372 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
854331 TAATGGTGGT
854341 GATTTGA
1 GATTTGA
854348 GATTTGA
1 GATTTGA
854355 GATTTGA
1 GATTTGA
*
854362 AATTTGA
1 GATTTGA
854369 GATT
1 GATT
854373 CTGTTCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (7 bp):
GATTTGA
Found at i:861734 original size:60 final size:59
Alignment explanation
Indices: 861694--861826 Score: 169
Period size: 60 Copynumber: 2.2 Consensus size: 59
861684 AATGTAATTT
* * *
861694 TTTTTGCTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGCTATAAA
1 TTTTTG-TGTTTATAATTATTTTAAAATTAATTTATTAGT-ATTTAGGATAATGCTATAAA
* *
861755 TTTTTGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAA-GTTATAAA
1 TTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGT-ATTTAGGA-TAATGCTATAAA
*
861815 TTGTTGTGTTTA
1 TTTTTGTGTTTA
861827 GTTTAGTATT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
60 56 0.88
61 8 0.12
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.55
Consensus pattern (59 bp):
TTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTATTTAGGATAATGCTATAAA
Found at i:862748 original size:21 final size:22
Alignment explanation
Indices: 862713--862753 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
862703 AGCCCCTATA
*
862713 CTCTTCTATTTTTAAATTTAGT
1 CTCTTCTACTTTTAAATTTAGT
*
862735 CTCTT-TACTTTTAATTTTA
1 CTCTTCTACTTTTAAATTTA
862754 AAAAATTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.15, G:0.02, T:0.61
Consensus pattern (22 bp):
CTCTTCTACTTTTAAATTTAGT
Found at i:865270 original size:15 final size:15
Alignment explanation
Indices: 865250--865287 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
865240 AAAATTATTT
*
865250 AATATAATTTAAAT-A
1 AATATAAATT-AATCA
865265 AATATAAATTAATCA
1 AATATAAATTAATCA
865280 AATATAAA
1 AATATAAA
865288 ATTTTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AATATAAATTAATCA
Found at i:866919 original size:12 final size:12
Alignment explanation
Indices: 866902--866935 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
866892 TAAGTTTATG
866902 TATCTATCAATC
1 TATCTATCAATC
*
866914 TATCTATCTATC
1 TATCTATCAATC
866926 TATCT-TCAAT
1 TATCTATCAAT
866936 AATGTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (12 bp):
TATCTATCAATC
Found at i:867498 original size:6 final size:6
Alignment explanation
Indices: 867457--867499 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
867447 TTTGGCTAGT
* *
867457 GTTAGG GTTAAGG GTTTAGG GTTGGG GTTGGG GTTAGG GTTAG
1 GTTAGG GTT-AGG G-TTAGG GTTAGG GTTAGG GTTAGG GTTAG
867500 AGTTTAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 23 0.70
7 8 0.24
8 2 0.06
ACGTcount: A:0.14, C:0.00, G:0.51, T:0.35
Consensus pattern (6 bp):
GTTAGG
Found at i:867782 original size:22 final size:21
Alignment explanation
Indices: 867753--867803 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
867743 ATAGAAAAAT
*
867753 AATA-TAAAATCCACATCATTCA
1 AATACTAAAATCCA-AT-ATTAA
*
867775 AA-ACTAAATTCCAATATTAA
1 AATACTAAAATCCAATATTAA
867795 AATACTAAA
1 AATACTAAA
867804 GTCATTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 6 0.24
21 9 0.36
22 10 0.40
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (21 bp):
AATACTAAAATCCAATATTAA
Found at i:886755 original size:30 final size:28
Alignment explanation
Indices: 886706--886763 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
886696 AAGTGAGATG
*
886706 TCTTAAAATTTTTAGAAATTCTAATTAA
1 TCTTAAAATTTTTAAAAATTCTAATTAA
*
886734 TCTTACAAATTTTTTAAAAATTTTAATTAA
1 TCTTA-AAA-TTTTTAAAAATTCTAATTAA
886764 ACACTCCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.19
29 3 0.12
30 18 0.69
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (28 bp):
TCTTAAAATTTTTAAAAATTCTAATTAA
Found at i:896642 original size:122 final size:122
Alignment explanation
Indices: 896471--896714 Score: 434
Period size: 122 Copynumber: 2.0 Consensus size: 122
896461 AGAGCAAAGC
* *
896471 ATAATTGACTGGTCTTTCAGCCAACGATTGGCTCTCCACTAGTTCATCAACCTGATTAGTGTTTT
1 ATAATTGACTAGTCTTTCAGCCAACAATTGGCTCTCCACTAGTTCATCAACCTGATTAGTGTTTT
*
896536 TCTTATTTTGTTTCAGCTGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAATG
66 TCTTAATTTGTTTCAGCTGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAATG
* * *
896593 ATAATTGACTAGTCTTTCAGCCAATAATTGGCTCTCCACTAGTTCATCAACCTGTTTAGTTTTTT
1 ATAATTGACTAGTCTTTCAGCCAACAATTGGCTCTCCACTAGTTCATCAACCTGATTAGTGTTTT
896658 TCTTAATTTGTTTCAGCTGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAATG
66 TCTTAATTTGTTTCAGCTGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAATG
896715 TTCTTACATA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 116 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (122 bp):
ATAATTGACTAGTCTTTCAGCCAACAATTGGCTCTCCACTAGTTCATCAACCTGATTAGTGTTTT
TCTTAATTTGTTTCAGCTGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAATG
Found at i:899211 original size:44 final size:45
Alignment explanation
Indices: 899134--899254 Score: 181
Period size: 44 Copynumber: 2.7 Consensus size: 45
899124 TCTAAATCAT
*
899134 TGAGTGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAATAA
1 TGAGTGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAACAA
* *
899179 TGAGTGGTTTA-CCACATTGTATTAGCAGCTTTTATTTGCAACAA
1 TGAGTGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAACAA
* * *
899223 TGAGTGGTCTATCCACACCGTACTAGCAACTT
1 TGAGTGGTTTATCCACACTGTATTAGCAACTT
899255 GTCTATAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 40 0.60
45 27 0.40
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (45 bp):
TGAGTGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAACAA
Found at i:899358 original size:21 final size:21
Alignment explanation
Indices: 899328--899367 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
899318 TGGTTTATCC
*
899328 ACAATGAGTGGTTCATCCACA
1 ACAATAAGTGGTTCATCCACA
*
899349 ACAATAAGTGGTTTATCCA
1 ACAATAAGTGGTTCATCCA
899368 TGACGTGGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (21 bp):
ACAATAAGTGGTTCATCCACA
Found at i:903279 original size:28 final size:28
Alignment explanation
Indices: 903239--903308 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
903229 TTGAAATCTT
*
903239 TTAAAATAATTATATTA-TTTTTTA-ATA
1 TTAAAAT-TTTATATTACTTTTTTATATA
*
903266 TTTAATAATTTTATA-TACTTTTTTATTTA
1 -TTAA-AATTTTATATTACTTTTTTATATA
903295 TTAAAATTTTATAT
1 TTAAAATTTTATAT
903309 ATATAGGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
27 11 0.31
28 20 0.56
29 5 0.14
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (28 bp):
TTAAAATTTTATATTACTTTTTTATATA
Found at i:905009 original size:5 final size:5
Alignment explanation
Indices: 904999--905026 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
904989 TCTTGTTCGA
904999 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
905027 TAAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:909404 original size:44 final size:45
Alignment explanation
Indices: 909341--909457 Score: 166
Period size: 44 Copynumber: 2.6 Consensus size: 45
909331 AACCATTGAG
*
909341 TGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAATAATGAA
1 TGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAACAATGAA
*
909386 TGGTTTA-CCACACTGTATTAGCAGA-TTTTATTTGCAACAATGAG
1 TGGTTTATCCACACTGTATTAGCA-ACTTTTATTTGCAACAATGAA
* * *
909430 TGGTCTATCCACACCGTACTAGCAACTT
1 TGGTTTATCCACACTGTATTAGCAACTT
909458 GTCTATAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
44 40 0.62
45 24 0.38
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (45 bp):
TGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAACAATGAA
Found at i:909562 original size:21 final size:21
Alignment explanation
Indices: 909532--909571 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
909522 TGGTTTATCC
*
909532 ACAATGAGTGGTTCATCCACA
1 ACAATAAGTGGTTCATCCACA
*
909553 ACAATAAGTGGTTTATCCA
1 ACAATAAGTGGTTCATCCA
909572 TGACGTGGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (21 bp):
ACAATAAGTGGTTCATCCACA
Found at i:913078 original size:29 final size:29
Alignment explanation
Indices: 913046--913108 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
913036 TTTAAAAAAA
913046 TTATATTA-TTTTTTTA-ATATTTAATAATT
1 TTATATTACTTTTTTTATATA-TTAA-AATT
*
913075 TTATA-TACTTTTTTTATTTATTAAAATT
1 TTATATTACTTTTTTTATATATTAAAATT
913103 TTATAT
1 TTATAT
913109 ATATAGGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
28 11 0.37
29 17 0.57
30 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
TTATATTACTTTTTTTATATATTAAAATT
Found at i:913102 original size:28 final size:27
Alignment explanation
Indices: 913042--913110 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
913032 TTCTTTTAAA
*
913042 AAAATTATAT-TATTTTTTTAATATTT
1 AAAATTTTATATATTTTTTTAATATTT
*
913068 AATAATTTTATATACTTTTTTT-ATTTATT
1 AA-AATTTTATATA-TTTTTTTAATAT-TT
913097 AAAATTTTATATAT
1 AAAATTTTATATAT
913111 ATAGGCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
26 2 0.05
27 8 0.22
28 16 0.43
29 11 0.30
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (27 bp):
AAAATTTTATATATTTTTTTAATATTT
Found at i:916092 original size:41 final size:41
Alignment explanation
Indices: 916047--916149 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
916037 TTTTCGAATC
*
916047 AATGAAAAGGTTGAAAAGGATGTTATTTGAAAACAATAACA
1 AATGAAAAGGTTGAAAAGGATGTTATCTGAAAACAATAACA
** *
916088 AATGAAAAGGTTGAAAAGGATGTTATCTGAAAATGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCTGAAAACAATAACA
*
916129 AATGAAAAGGTCGAAAAGGAT
1 AATGAAAAGGTTGAAAAGGAT
916150 ATCAATGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.50, C:0.05, G:0.22, T:0.23
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCTGAAAACAATAACA
Found at i:916161 original size:24 final size:24
Alignment explanation
Indices: 916116--916187 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
916106 GATGTTATCT
*
916116 GAAAATGATATCAAATGAAAAGGTC
1 GAAAAGGATATC-AATGAAAAGGTC
916141 GAAAAGGATATCAATGAAAAGGTC
1 GAAAAGGATATCAATGAAAAGGTC
* *
916165 GAAAAGAATAGCAATGAAAAGGT
1 GAAAAGGATATCAATGAAAAGGT
916188 TGGTATCTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
24 33 0.75
25 11 0.25
ACGTcount: A:0.53, C:0.07, G:0.24, T:0.17
Consensus pattern (24 bp):
GAAAAGGATATCAATGAAAAGGTC
Found at i:920843 original size:55 final size:55
Alignment explanation
Indices: 920793--920959 Score: 244
Period size: 55 Copynumber: 3.0 Consensus size: 55
920783 CACACAGTTT
* * *
920793 GACAGACGACCTATGACGCGGTAGTGTGGCCCTATTTCGAATACTCACACAAGTG
1 GACACACGACCTATGACACGGTAGTGTAGCCCTATTTCGAATACTCACACAAGTG
* * * *
920848 GACACACGACTTACGACACGGTAGTGTAGCTCTATTTCGAATACTCACACGAGTG
1 GACACACGACCTATGACACGGTAGTGTAGCCCTATTTCGAATACTCACACAAGTG
** *
920903 GACACACGACCTATGACACGGCCGTGTAGCCCTATTTTGAATACTCACACAAGTG
1 GACACACGACCTATGACACGGTAGTGTAGCCCTATTTCGAATACTCACACAAGTG
920958 GA
1 GA
920960 TACATGGGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 98 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (55 bp):
GACACACGACCTATGACACGGTAGTGTAGCCCTATTTCGAATACTCACACAAGTG
Found at i:922535 original size:46 final size:46
Alignment explanation
Indices: 922468--922629 Score: 249
Period size: 46 Copynumber: 3.6 Consensus size: 46
922458 TTTGAGTACT
* *
922468 TCTGATCAAGAGAAAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
922514 TCTGATCAAGAGGCAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
922560 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTGGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
922605 TCTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
922630 ATCATACATA
Statistics
Matches: 109, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
43 9 0.08
44 8 0.07
45 19 0.17
46 73 0.67
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:924429 original size:48 final size:48
Alignment explanation
Indices: 924370--924612 Score: 324
Period size: 48 Copynumber: 5.1 Consensus size: 48
924360 AAGCTGCTAG
* * * * *
924370 TACGTTGTGGATGAACCATTGGTCGTGCAGATAAATTGTCGACTAAGA
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTATCGACTAAAA
* * *
924418 TACGTTTTGGATGAACCACTAGTCGTGTAGATAAACTATCGACTAAGA
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTATCGACTAAAA
*
924466 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTACCGACTAAAA
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTATCGACTAAAA
* * ** * *
924514 TACGTTTTGGATGAACCATTAGTCAAGTAGATAAACTACCGACTAAAA
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTATCGACTAAAA
** *
924562 TACGTTTTGGATGAACCACTGGTCAAGCAGATAAACTGTCGACTAAAA
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTATCGACTAAAA
924610 TAC
1 TAC
924613 ATTGCGGATA
Statistics
Matches: 175, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 175 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (48 bp):
TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTATCGACTAAAA
Found at i:924471 original size:96 final size:96
Alignment explanation
Indices: 924370--924612 Score: 369
Period size: 96 Copynumber: 2.5 Consensus size: 96
924360 AAGCTGCTAG
* * * *
924370 TACGTTGTGGATGAACCATTGGTCGTGCAGATAAATTGTCGACTAAGATACGTTTTGGATGAACC
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTAAAATACGTTTTGGATGAACC
** * *
924435 ACTAGTCGTGTAGATAAACTATCGACTAAGA
66 ACTAGTCAAGTAGATAAACTACCGACTAAAA
**
924466 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTACCGACTAAAATACGTTTTGGATGAACC
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTAAAATACGTTTTGGATGAACC
*
924531 ATTAGTCAAGTAGATAAACTACCGACTAAAA
66 ACTAGTCAAGTAGATAAACTACCGACTAAAA
**
924562 TACGTTTTGGATGAACCACTGGTCAAGCAGATAAACTGTCGACTAAAATAC
1 TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTAAAATAC
924613 ATTGCGGATA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 132 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (96 bp):
TACGTTTTGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTAAAATACGTTTTGGATGAACC
ACTAGTCAAGTAGATAAACTACCGACTAAAA
Found at i:928741 original size:3 final size:3
Alignment explanation
Indices: 928735--928760 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
928725 CACCTCCCCA
928735 TCG TCG TCG TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TC
928761 ATTTGCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.31, T:0.35
Consensus pattern (3 bp):
TCG
Found at i:930479 original size:16 final size:17
Alignment explanation
Indices: 930458--930491 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
930448 CCATTTTGAA
930458 ATATTA-ATTAATTTTT
1 ATATTATATTAATTTTT
930474 ATATTATATTAATTTTT
1 ATATTATATTAATTTTT
930491 A
1 A
930492 CAAAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTATATTAATTTTT
Found at i:931416 original size:22 final size:22
Alignment explanation
Indices: 931382--931429 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
931372 AATTTGAAAT
* *
931382 AAAAAATTTAATTAAAAATAAA
1 AAAAAACTAAATTAAAAATAAA
* *
931404 AAAAAACTAAATTACAAATATA
1 AAAAAACTAAATTAAAAATAAA
931426 AAAA
1 AAAA
931430 GCATATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAAACTAAATTAAAAATAAA
Found at i:939956 original size:2 final size:2
Alignment explanation
Indices: 939949--939973 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
939939 CTTCTCCCTT
939949 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
939974 TTTCTCTTTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:950033 original size:26 final size:26
Alignment explanation
Indices: 949986--950038 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
949976 GATAACATAT
* *
949986 AATCAATTAAATAAATATTTAAGTTA
1 AATCAAATAAATAAATATTTAAATTA
*
950012 AATCAAATAGATAAAT-TATTAAATTA
1 AATCAAATAAATAAATAT-TTAAATTA
950038 A
1 A
950039 TTTTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (26 bp):
AATCAAATAAATAAATATTTAAATTA
Found at i:955179 original size:48 final size:48
Alignment explanation
Indices: 955108--955200 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
955098 TTTCTTTACT
*
955108 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAAGATTCAACAG
*
955156 TAAAAACGCCTAAGTTAGCCTAACTCGCAACGATAAAAGATTCAA
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAAGATTCAA
955201 TAGAATTCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.18
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAAGATTCAACAG
Found at i:955418 original size:17 final size:17
Alignment explanation
Indices: 955396--955459 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
955386 CATTAAGGGC
*
955396 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
955413 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
955432 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
955449 TACAATTAGAA
1 TACAATTAGAA
955460 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:955438 original size:19 final size:19
Alignment explanation
Indices: 955414--955467 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
955404 AAAGCTGTAT
955414 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
955433 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
955450 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
955468 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:955445 original size:36 final size:36
Alignment explanation
Indices: 955397--955467 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
955387 ATTAAGGGCT
955397 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
955433 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
955468 TTACATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:960295 original size:48 final size:48
Alignment explanation
Indices: 960224--960316 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
960214 TTTCTTTGCT
960224 TAAAAATGCCTAAGTCAGCCTAACTCGCAACGATAAATGATTCAACAG
1 TAAAAATGCCTAAGTCAGCCTAACTCGCAACGATAAATGATTCAACAG
*
960272 TAAAAATGCCTAAGTCAGCCTAACTCGCAATGATAAATGATTCAA
1 TAAAAATGCCTAAGTCAGCCTAACTCGCAACGATAAATGATTCAA
960317 TAGAATTCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.23
Consensus pattern (48 bp):
TAAAAATGCCTAAGTCAGCCTAACTCGCAACGATAAATGATTCAACAG
Found at i:960553 original size:36 final size:36
Alignment explanation
Indices: 960513--960583 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
960503 ATCAAGGGCT
*
960513 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
960549 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
960584 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:960554 original size:19 final size:19
Alignment explanation
Indices: 960530--960583 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
960520 AAAGTTGTAT
960530 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
960549 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
960566 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
960584 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:960571 original size:17 final size:17
Alignment explanation
Indices: 960512--960575 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
960502 CATCAAGGGC
* *
960512 TACAATTAAAAGTTGTA
1 TACAATTAGAAGCTGTA
*
960529 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
960548 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
960565 TACAATTAGAA
1 TACAATTAGAA
960576 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 2 0.05
17 21 0.57
19 11 0.30
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:963036 original size:43 final size:42
Alignment explanation
Indices: 962888--963045 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
962878 ATGTGATTTT
962888 GTGTAAGACCACGTCTGGGAC-GTTGGCATCG-ATTTGAGATTTAC
1 GTGTAAGACCACGTCTGGGACAG-TGGCATCGTATTT--GA-TTAC
* * * *
962932 GTGTAAGACCATGTCTGAGACATTGGCATCGTATATGATTAC
1 GTGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGATTAC
* * **
962974 GTGTAAAACC-CTGTTTGGGACAGTAACATCGTTATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATTTGATTAC
* *
963017 ATGTAAGACCACGTCTGGGACATTGGCAT
1 GTGTAAGACCACGTCTGGGACAGTGGCAT
963046 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
42 27 0.30
43 33 0.36
44 28 0.31
45 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGATTAC
Found at i:966861 original size:24 final size:24
Alignment explanation
Indices: 966834--966938 Score: 67
Period size: 24 Copynumber: 4.5 Consensus size: 24
966824 TTTGGATTAA
*
966834 AATTGAATTTAATTTAAAAAATAT
1 AATTTAATTTAATTTAAAAAATAT
* *
966858 AATTTAATTAAAAAATTAAAAAAT-T
1 AATTTAATT--TAATTTAAAAAATAT
***
966883 AA-TTAA-TTAA-TTAAATTTTA-
1 AATTTAATTTAATTTAAAAAATAT
* * * *
966903 AAATAAATTTAATTTTAAAAATAG
1 AATTTAATTTAATTTAAAAAATAT
966927 AATTTAATTTAA
1 AATTTAATTTAA
966939 AACAATTAAA
Statistics
Matches: 60, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
20 8 0.13
21 5 0.08
22 4 0.07
23 7 0.12
24 22 0.37
25 3 0.05
26 11 0.18
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
AATTTAATTTAATTTAAAAAATAT
Found at i:966870 original size:17 final size:18
Alignment explanation
Indices: 966839--967180 Score: 156
Period size: 18 Copynumber: 18.2 Consensus size: 18
966829 ATTAAAATTG
966839 AATTTAATTTAAAAAATAT
1 AATTTAATTT-AAAAATAT
*
966858 AATTTAATTAAAAAAT-T
1 AATTTAATTTAAAAATAT
* * *
966875 AA--AAAATTAATTAAT-T
1 AATTTAATTTAA-AAATAT
* *
966891 AATTAAATTTTAAAATA-
1 AATTTAATTTAAAAATAT
*
966908 AATTTAATTTTAAAAATAG
1 AATTTAA-TTTAAAAATAT
966927 AATTTAATTTAAAACA-ATT
1 AATTTAATTTAAAA-ATA-T
* *
966946 AAAATTAATTAAATAAATAAATT
1 -AATTTAATTTAA-AAAT--A-T
966969 AATTTAATTTAAAAATA-
1 AATTTAATTTAAAAATAT
*
966986 AATTTAATTTTAAAAATAA
1 AATTTAA-TTTAAAAATAT
* *
967005 AAATTAA-TTAAAAATAA
1 AATTTAATTTAAAAATAT
* *
967022 AAATTAATTAAAGAAATAAATT
1 AATTTAATTTAA-AAAT--A-T
*
967044 AATTAAAGTTT-AAAATA-
1 AATTTAA-TTTAAAAATAT
*
967061 AATTTAATTTAAAAAATAA
1 AATTTAATTT-AAAAATAT
967080 AATTTAATTTAAAACA-AT
1 AATTTAATTTAAAA-ATAT
*
967098 CAAAATTAA-TTAAAAAGGTCAATT
1 --AATTTAATTTAAAAA--T--A-T
*
967122 AATTAAAGTTT-AAAATA-
1 AATTTAA-TTTAAAAATAT
967139 AATTTAATTTTAAAAAATAT
1 AATTTAA-TTT-AAAAATAT
967159 AATTTAA-TTAAAAATAAT
1 AATTTAATTTAAAAAT-AT
967177 AATT
1 AATT
967181 GAAGAAATAA
Statistics
Matches: 256, Mismatches: 28, Indels: 79
0.71 0.08 0.22
Matches are distributed among these distances:
15 5 0.02
16 9 0.04
17 57 0.22
18 62 0.24
19 53 0.21
20 24 0.09
21 12 0.05
22 21 0.08
23 10 0.04
24 3 0.01
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (18 bp):
AATTTAATTTAAAAATAT
Found at i:966985 original size:78 final size:78
Alignment explanation
Indices: 966868--967178 Score: 409
Period size: 78 Copynumber: 4.0 Consensus size: 78
966858 AATTTAATTA
* * * * *
966868 AAAAATTAA-AAAATTAATTAATTAATTAAATTTTAAAATAAATTTAATTTTAAAAATAGAATTT
1 AAAAATTAATTAAATAAATAAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAATAAAATTT
966932 AATTTAAAACAAT
66 AATTTAAAACAAT
* * *
966945 TAAAATTAATTAAATAAATAAATTAATTTAA-TTTAAAAATAAATTTAATTTTAAAAATAAAAAT
1 AAAAATTAATTAAATAAATAAATTAATTAAAGTTT-AAAATAAATTTAATTTTAAAAATAAAATT
967009 TAA-TT-AAA-AAT
65 TAATTTAAAACAAT
* *
967020 AAAAATTAATTAAAGAAATAAATTAATTAAAGTTTAAAATAAATTTAATTTAAAAAATAAAATTT
1 AAAAATTAATTAAATAAATAAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAATAAAATTT
967085 AATTTAAAACAAT
66 AATTTAAAACAAT
* * * *
967098 CAAAATTAATTAAA-AAGGTCAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAAATATAAT
1 AAAAATTAATTAAATAA-ATAAATTAATTAAAGTTTAAAATAAATTTAATTTT-AAAAATAAAAT
* *
967162 TTAATTAAAAATAAT
64 TTAATTTAAAACAAT
967177 AA
1 AA
967179 TTGAAGAAAT
Statistics
Matches: 206, Mismatches: 20, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
75 61 0.30
76 8 0.04
77 18 0.09
78 95 0.46
79 24 0.12
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (78 bp):
AAAAATTAATTAAATAAATAAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAATAAAATTT
AATTTAAAACAAT
Found at i:967056 original size:58 final size:56
Alignment explanation
Indices: 966945--967111 Score: 151
Period size: 58 Copynumber: 2.9 Consensus size: 56
966935 TTAAAACAAT
* ** * * *
966945 TAAAATTAATTAAATAA-ATAAATTAATTTAATTTAA-AAATAAATTTAATTTTAAAAA
1 TAAAATTAATTAAA-AATAAAAATTAATTTAA-AAAATAAATTAATTAAAGTTT-AAAA
967002 TAAAAATTAATTAAAAATAAAAATTAA-TTAAAGAAATAAATTAATTAAAGTTTAAAA
1 T-AAAATTAATTAAAAATAAAAATTAATTTAAA-AAATAAATTAATTAAAGTTTAAAA
* *
967059 TAAATTTAATTTAAAAAATAAAATTTAATTTAAAACAATCAAAATTAATTAAA
1 TAAAATTAA-TT-AAAAATAAAAATTAATTTAAAA-AAT--AAATTAATTAAA
967112 AAGGTCAATT
Statistics
Matches: 92, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
56 7 0.08
57 16 0.17
58 49 0.53
59 8 0.09
61 12 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (56 bp):
TAAAATTAATTAAAAATAAAAATTAATTTAAAAAATAAATTAATTAAAGTTTAAAA
Found at i:967057 original size:153 final size:150
Alignment explanation
Indices: 966830--967214 Score: 476
Period size: 153 Copynumber: 2.6 Consensus size: 150
966820 CCCATTTGGA
* * * * * ** *
966830 TTAAAATTGAATTTAA-TTTAAAAAATATAATTTAATTAAAAA-ATTAA-AAAATTAATTAATTA
1 TTAAAA-TAAATTTAATTTTAAAAAATAAAAATTAATTAAAAATAATAATTAAAGAAATAAATTA
* * * *
966892 ATTAAATTTTAAAATAAATTTAATTTTAAAAATAGAATTTAATTTAAAACAATTAAAATTAATTA
65 ATTAAAGTTTAAAATAAATTTAATTTAAAAAATAAAATTTAATTTAAAACAATCAAAATTAATTA
*
966957 AATAA-ATAAATTAATTTAA-T
130 AA-AAGATAAATTAATTAAAGT
966977 TTAAAAATAAATTTAATTTT-AAAAATAAAAATTAATTAAAAATAAAAATTAATTAAAGAAATAA
1 TT-AAAATAAATTTAATTTTAAAAAATAAAAATTAATTAAAAAT---AA-TAATTAAAGAAATAA
967041 ATTAATTAAAGTTTAAAATAAATTTAATTTAAAAAATAAAATTTAATTTAAAACAATCAAAATTA
61 ATTAATTAAAGTTTAAAATAAATTTAATTTAAAAAATAAAATTTAATTTAAAACAATCAAAATTA
* *
967106 ATTAAAAAGGTCAATTAATTAAAGT
126 ATTAAAAAGATAAATTAATTAAAGT
* * *
967131 TTAAAATAAATTTAATTTTAAAAAATATAATTTAATTAAAAATAATAATTGAAGAAATAAATTAA
1 TTAAAATAAATTTAATTTTAAAAAATAAAAATTAATTAAAAATAATAATTAAAGAAATAAATTAA
* *
967196 TTATAGTTTTAAAAAAAAT
66 TTAAAG-TTTAAAATAAAT
967215 AAAAAGTGAT
Statistics
Matches: 206, Mismatches: 20, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
147 30 0.15
148 7 0.03
150 24 0.12
151 14 0.07
152 5 0.02
153 102 0.50
154 24 0.12
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.38
Consensus pattern (150 bp):
TTAAAATAAATTTAATTTTAAAAAATAAAAATTAATTAAAAATAATAATTAAAGAAATAAATTAA
TTAAAGTTTAAAATAAATTTAATTTAAAAAATAAAATTTAATTTAAAACAATCAAAATTAATTAA
AAAGATAAATTAATTAAAGT
Found at i:967474 original size:4 final size:4
Alignment explanation
Indices: 967454--967492 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
967444 GGTAAATTTT
* * *
967454 TTTC TTTC CTTC CTTC TTTC TTTC TTTT TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
967493 TAACACCCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:967485 original size:12 final size:12
Alignment explanation
Indices: 967450--967493 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 12
967440 TTCAGGTAAA
967450 TTTTTTTCTTTCC
1 TTTTTTTCTTT-C
967463 TTCCTTCTTTCTTTC
1 TT--TT-TTTCTTTC
967478 TTTTTTTCTTTC
1 TTTTTTTCTTTC
967490 TTTT
1 TTTT
967494 AACACCCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 12 0.43
13 4 0.14
15 5 0.18
16 7 0.25
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:970128 original size:26 final size:27
Alignment explanation
Indices: 970037--970126 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
970027 TTTTCTTAAT
* * *
970037 GTTTTTGGATAACATAAAGAACTATAA
1 GTTTTTGAATAACATAAAGAATTATGA
*
970064 GTTTTTGAATAACATAAAATCAAGTACTATG-
1 GTTTTTGAATAACAT-AAA-GAA-T--TATGA
970095 GTTTTTGAATAACATAAAGAATTATGA
1 GTTTTTGAATAACATAAAGAATTATGA
970122 GTTTT
1 GTTTT
970127 GATTTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
26 4 0.08
27 19 0.37
28 4 0.08
29 4 0.08
30 3 0.06
31 15 0.29
32 3 0.06
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (27 bp):
GTTTTTGAATAACATAAAGAATTATGA
Found at i:970499 original size:12 final size:11
Alignment explanation
Indices: 970478--970541 Score: 62
Period size: 12 Copynumber: 5.7 Consensus size: 11
970468 TAATAATAAT
970478 ATTATATTAAA
1 ATTATATTAAA
970489 ATTATTATTAAA
1 ATTA-TATTAAA
970501 CATTATA--AATA
1 -ATTATATTAA-A
970512 ATTATATTAAGA
1 ATTATATTAA-A
*
970524 ATTTTATT-AA
1 ATTATATTAAA
970534 ATTATATT
1 ATTATATT
970542 TAATAATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
10 16 0.36
11 6 0.13
12 19 0.42
13 4 0.09
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
ATTATATTAAA
Found at i:970614 original size:26 final size:26
Alignment explanation
Indices: 970523--970618 Score: 75
Period size: 26 Copynumber: 3.5 Consensus size: 26
970513 TTATATTAAG
970523 AATTTTATTAAATTATATTTAATAAT
1 AATTTTATTAAATTATATTTAATAAT
* * * * *
970549 AATTATGTTAAAATATGACTAAATTATTTATT
1 AATTTTATT-AAAT-T-A-T-ATTTA-ATAAT
* *
970581 ATTTTTATTAAATTATATTTAATAGT
1 AATTTTATTAAATTATATTTAATAAT
970607 AATTTTATTAAA
1 AATTTTATTAAA
970619 ATTTAATAAC
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
26 21 0.40
27 8 0.15
28 2 0.04
29 2 0.04
30 2 0.04
31 8 0.15
32 9 0.17
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (26 bp):
AATTTTATTAAATTATATTTAATAAT
Found at i:970950 original size:19 final size:19
Alignment explanation
Indices: 970915--970952 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
970905 AAGACAAAAA
*
970915 ATATTATTTTCTCTTTTTT
1 ATATTATTTTCTATTTTTT
970934 ATATATATTTT-TATTTTTT
1 ATAT-TATTTTCTATTTTTT
970953 CTTGCTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
ATATTATTTTCTATTTTTT
Found at i:971406 original size:21 final size:21
Alignment explanation
Indices: 971371--971411 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
971361 AAAATAGAAA
*
971371 AAAATAAAGAGAGAAATAATGT
1 AAAAGAAAGAGAGAAA-AATGT
971393 AAAAGAAA-AGAGAAAAATG
1 AAAAGAAAGAGAGAAAAATG
971412 AAAGAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (21 bp):
AAAAGAAAGAGAGAAAAATGT
Found at i:971954 original size:15 final size:16
Alignment explanation
Indices: 971919--971960 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
971909 AGTGTGGAAA
*
971919 AAAAAATTGAAAGGAT
1 AAAAAATTAAAAGGAT
*
971935 GAAAAATTAAAAGG-T
1 AAAAAATTAAAAGGAT
*
971950 AAAAAACTAAA
1 AAAAAATTAAA
971961 GAGATGAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.17
Consensus pattern (16 bp):
AAAAAATTAAAAGGAT
Found at i:973739 original size:16 final size:16
Alignment explanation
Indices: 973711--973743 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
973701 TACACTCATG
973711 TATATGTTTTATATTT
1 TATATGTTTTATATTT
973727 TATA-GTTTATATATTT
1 TATATGTTT-TATATTT
973743 T
1 T
973744 CTTTGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TATATGTTTTATATTT
Found at i:1006315 original size:18 final size:18
Alignment explanation
Indices: 1006292--1006330 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1006282 CAAACAAAAC
1006292 AAAACAAAACAAAACAAT
1 AAAACAAAACAAAACAAT
* *
1006310 AAAACAAAATAAAATAAT
1 AAAACAAAACAAAACAAT
1006328 AAA
1 AAA
1006331 TAAATTACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAACAAAACAAAACAAT
Found at i:1006318 original size:5 final size:5
Alignment explanation
Indices: 1006283--1006308 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1006273 CTCAGCATCC
1006283 AAACA AAACA AAACA AAACA AAACA A
1 AAACA AAACA AAACA AAACA AAACA A
1006309 TAAAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:1011325 original size:25 final size:24
Alignment explanation
Indices: 1011258--1011325 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
1011248 ATGAAAATGT
*
1011258 TATTGTATAAATAAAATTA-CAAA
1 TATTGTAAAAATAAAATTATCAAA
* * * *
1011281 TA-TATAAAAATGGAATTTATGAATA
1 TATTGTAAAAAT-AAAATTATCAA-A
1011306 TATTGTAAAAATAAAATTAT
1 TATTGTAAAAATAAAATTAT
1011326 AGAAATGTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 7 0.21
23 7 0.21
24 2 0.06
25 9 0.27
26 8 0.24
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (24 bp):
TATTGTAAAAATAAAATTATCAAA
Found at i:1011484 original size:12 final size:12
Alignment explanation
Indices: 1011469--1011506 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1011459 ATAACATTTA
1011469 TAATAATAGTAG
1 TAATAATAGTAG
*
1011481 TAATAATAGTAA
1 TAATAATAGTAG
*
1011493 TAATAATAATAG
1 TAATAATAGTAG
1011505 TA
1 TA
1011507 TTATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (12 bp):
TAATAATAGTAG
Found at i:1011521 original size:24 final size:26
Alignment explanation
Indices: 1011468--1011527 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
1011458 AATAACATTT
*
1011468 ATAATAATAGTAGTAATAATAGTAATA
1 ATAATAATAGTAGTAATAATA-TAAAA
*
1011495 ATAATAATAGTA-TTATAAT-TAAAA
1 ATAATAATAGTAGTAATAATATAAAA
*
1011519 ATAAGAATA
1 ATAATAATA
1011528 AAAAAACAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.40
26 6 0.20
27 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (26 bp):
ATAATAATAGTAGTAATAATATAAAA
Found at i:1012875 original size:15 final size:15
Alignment explanation
Indices: 1012855--1012888 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1012845 TTGATTAAAC
1012855 TTAATT-AAATATTAA
1 TTAATTAAAAT-TTAA
1012870 TTAATTAAAATTTAA
1 TTAATTAAAATTTAA
1012885 TTAA
1 TTAA
1012889 CCAAACCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAATTAAAATTTAA
Found at i:1016367 original size:3 final size:3
Alignment explanation
Indices: 1016359--1016383 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1016349 TCCTTCCTTC
1016359 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
1016384 ATTGGGGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:1017893 original size:21 final size:21
Alignment explanation
Indices: 1017864--1017921 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
1017854 TATTTTTGAA
1017864 AATAA-TTA-TGAACTTTTCTTT
1 AATAATTTATTGAA-TTTT-TTT
1017885 -ATAATTTATTGAATTTTTTT
1 AATAATTTATTGAATTTTTTT
1017905 AATAATTT-TT-AATTTTT
1 AATAATTTATTGAATTTTT
1017922 ATAAAATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
19 7 0.21
20 9 0.26
21 14 0.41
22 4 0.12
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
AATAATTTATTGAATTTTTTT
Found at i:1022909 original size:32 final size:31
Alignment explanation
Indices: 1022850--1022911 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
1022840 GATATTTTTT
*
1022850 AAAAATATTAATAGTTTAGTAATTTAAATAA
1 AAAAATATTAATAGTTTAATAATTTAAATAA
*
1022881 AAAAATTTTAAATAGTTTAATGAA-TTAAATA
1 AAAAATATT-AATAGTTTAAT-AATTTAAATA
1022912 TAAATTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 8 0.30
32 17 0.63
33 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (31 bp):
AAAAATATTAATAGTTTAATAATTTAAATAA
Found at i:1030319 original size:20 final size:20
Alignment explanation
Indices: 1030296--1030335 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1030286 CTTTGTTTCC
1030296 ATTTACAATGGAGGAATCTG
1 ATTTACAATGGAGGAATCTG
1030316 ATTTACAATGGAGGAATCTG
1 ATTTACAATGGAGGAATCTG
1030336 TTGAAGACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (20 bp):
ATTTACAATGGAGGAATCTG
Found at i:1033458 original size:20 final size:20
Alignment explanation
Indices: 1033433--1033482 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1033423 TGGCTTAAAA
1033433 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1033453 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1033470 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1033483 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:1038097 original size:20 final size:20
Alignment explanation
Indices: 1038072--1038121 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1038062 TGGCTTAAAA
1038072 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1038092 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1038109 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1038122 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:1039043 original size:12 final size:12
Alignment explanation
Indices: 1039028--1039057 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1039018 GAAAAGATTA
1039028 CGAATGAGATCG
1 CGAATGAGATCG
1039040 CGAATGAGATCG
1 CGAATGAGATCG
1039052 CGAATG
1 CGAATG
1039058 GTGATGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (12 bp):
CGAATGAGATCG
Found at i:1042457 original size:18 final size:19
Alignment explanation
Indices: 1042429--1042466 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
1042419 TATTTAAATT
1042429 ATTTAAATTTAAAATTTTA
1 ATTTAAATTTAAAATTTTA
1042448 ATTT-AATTTAAAATTTTA
1 ATTTAAATTTAAAATTTTA
1042466 A
1 A
1042467 AAAAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTAAATTTAAAATTTTA
Found at i:1045245 original size:32 final size:32
Alignment explanation
Indices: 1045204--1045267 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1045194 AAATTAGGCC
1045204 ACATGCGTATCCATTTAAAAGCATGTACTATG
1 ACATGCGTATCCATTTAAAAGCATGTACTATG
1045236 ACATGCGTATCCATTTAAAAGCATGTACTATG
1 ACATGCGTATCCATTTAAAAGCATGTACTATG
1045268 TTGGAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (32 bp):
ACATGCGTATCCATTTAAAAGCATGTACTATG
Found at i:1045979 original size:41 final size:41
Alignment explanation
Indices: 1045934--1046015 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
1045924 AATGGAATAG
1045934 AGATGCAATAGAATAGAGGCGTAATAGTAATTCAATTGTTT
1 AGATGCAATAGAATAGAGGCGTAATAGTAATTCAATTGTTT
1045975 AGATGCAATAGAATAGAGGCGTAATAGTAATTCAATTGTTT
1 AGATGCAATAGAATAGAGGCGTAATAGTAATTCAATTGTTT
1046016 GGTTGACTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (41 bp):
AGATGCAATAGAATAGAGGCGTAATAGTAATTCAATTGTTT
Found at i:1046437 original size:117 final size:119
Alignment explanation
Indices: 1046212--1046484 Score: 478
Period size: 117 Copynumber: 2.3 Consensus size: 119
1046202 TTAATCATAT
*
1046212 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-TAATATT
*
1046277 AAATATTCTTATATGAATTTATTAAAATCATAATATATAATACTATAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
1046332 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAGTTTAATAAAATTC-AATA-TA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTAATATTA
*
1046395 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
1046449 TTTAAAATATTTATTATTAAATATAATTTAATAAAA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
1046485 TTCAATATAA
Statistics
Matches: 148, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
117 89 0.60
118 4 0.03
120 55 0.37
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (119 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTAATATTA
AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:1046481 original size:99 final size:98
Alignment explanation
Indices: 1046370--1046555 Score: 354
Period size: 99 Copynumber: 1.9 Consensus size: 98
1046360 TAATAAAAAT
*
1046370 ATATAGTTTAATAAAATTCAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAAT
1 ATATAATTTAATAAAATTCAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAAT
1046435 ACTATAAAATATAATTTAAAATATTTATTATTAA
66 ACTAT-AAATATAATTTAAAATATTTATTATTAA
1046469 ATATAATTTAATAAAATTCAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAAT
1 ATATAATTTAATAAAATTCAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAAT
1046534 ACTATAAATATAATTTAAAATA
66 ACTATAAATATAATTTAAAATA
1046556 ATCTACTTTA
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
98 17 0.20
99 69 0.80
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (98 bp):
ATATAATTTAATAAAATTCAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAAT
ACTATAAATATAATTTAAAATATTTATTATTAA
Found at i:1046528 original size:36 final size:35
Alignment explanation
Indices: 1046376--1046529 Score: 96
Period size: 35 Copynumber: 4.5 Consensus size: 35
1046366 AAATATATAG
*
1046376 TTTAATAAAAT-TCAATATAATTATTCTTATATGAA
1 TTTACTAAAATAT-AATATAATTATTCTTATATGAA
* * *
1046411 TTTACTAAAATCATAATAT-ATAATAC-TATA-AAA
1 TTTACTAAAAT-ATAATATAATTATTCTTATATGAA
* * **
1046444 TATAATTTAAAATAT--T-T-ATTATT-AAATAT-AA
1 T-TTA-CTAAAATATAATATAATTATTCTTATATGAA
*
1046475 TTTAATAAAAT-TCAATATAATTATTCTTATATGAA
1 TTTACTAAAATAT-AATATAATTATTCTTATATGAA
1046510 TTTACTAAAATCATAATATA
1 TTTACTAAAAT-ATAATATA
1046530 TAATACTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 29
0.68 0.11 0.22
Matches are distributed among these distances:
28 1 0.01
29 6 0.07
30 2 0.02
31 12 0.13
32 2 0.02
33 9 0.10
34 12 0.13
35 33 0.37
36 11 0.12
37 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (35 bp):
TTTACTAAAATATAATATAATTATTCTTATATGAA
Found at i:1046555 original size:21 final size:21
Alignment explanation
Indices: 1046512--1046555 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1046502 TATATGAATT
*
1046512 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
1046533 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
1046554 TA
1 TA
1046556 ATCTACTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:1050403 original size:13 final size:13
Alignment explanation
Indices: 1050385--1050416 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1050375 GCAGAAAAAG
1050385 GAAACGAAAATAA
1 GAAACGAAAATAA
1050398 GAAACGAAAATAA
1 GAAACGAAAATAA
1050411 GAAACG
1 GAAACG
1050417 GGTAAAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.66, C:0.09, G:0.19, T:0.06
Consensus pattern (13 bp):
GAAACGAAAATAA
Found at i:1053858 original size:15 final size:15
Alignment explanation
Indices: 1053817--1053860 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
1053807 TCGCATGCGG
*
1053817 AAATATAATTATACT
1 AAATATAATTATAAT
*
1053832 AAAAATTAAATTATAAT
1 AAATA-T-AATTATAAT
1053849 AAATATAATTAT
1 AAATATAATTAT
1053861 GTGAGACCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATAATTATAAT
Found at i:1057402 original size:17 final size:17
Alignment explanation
Indices: 1057380--1057413 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1057370 ATCCACTAAT
*
1057380 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1057397 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1057414 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1062040 original size:17 final size:17
Alignment explanation
Indices: 1062018--1062051 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1062008 ATCCACTAAT
*
1062018 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1062035 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1062052 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1064048 original size:3 final size:3
Alignment explanation
Indices: 1064042--1064075 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1064032 GTAGTAACCC
1064042 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1064076 ATCTTTAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1076958 original size:13 final size:13
Alignment explanation
Indices: 1076940--1076994 Score: 76
Period size: 12 Copynumber: 4.2 Consensus size: 13
1076930 TTCAATTTTT
1076940 TATTTTTAATTAA
1 TATTTTTAATTAA
1076953 TATTTTTTCAATTAA
1 TA-TTTTT-AATTAA
*
1076968 TATTTTTAATTTA
1 TATTTTTAATTAA
1076981 T-TTTTTAATTAA
1 TATTTTTAATTAA
1076993 TA
1 TA
1076995 ACTCTTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 11 0.30
13 8 0.22
14 10 0.27
15 8 0.22
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTAATTAA
Found at i:1076965 original size:15 final size:14
Alignment explanation
Indices: 1076942--1076994 Score: 76
Period size: 14 Copynumber: 3.9 Consensus size: 14
1076932 CAATTTTTTA
1076942 TTTTTAATTAATAT
1 TTTTTAATTAATAT
1076956 TTTTTCAATTAATA-
1 TTTTT-AATTAATAT
1076970 TTTTTAATT--TAT
1 TTTTTAATTAATAT
1076982 TTTTTAATTAATA
1 TTTTTAATTAATA
1076995 ACTCTTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.06
12 9 0.26
13 4 0.11
14 12 0.34
15 8 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTAATTAATAT
Found at i:1077008 original size:27 final size:26
Alignment explanation
Indices: 1076940--1076994 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 26
1076930 TTCAATTTTT
1076940 TATTTTTAATTAATATTTTTTCAATTAA
1 TATTTTTAATT--TATTTTTTCAATTAA
1076968 TATTTTTAATTTATTTTTT-AATTAA
1 TATTTTTAATTTATTTTTTCAATTAA
1076993 TA
1 TA
1076995 ACTCTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 8 0.30
26 8 0.30
28 11 0.41
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTTTTAATTTATTTTTTCAATTAA
Found at i:1077335 original size:106 final size:104
Alignment explanation
Indices: 1077138--1077336 Score: 240
Period size: 106 Copynumber: 1.9 Consensus size: 104
1077128 TGTGTATTTC
* **
1077138 AAATAATTATTTGAAATATTTCACATATAAACGTAATGATATTTGAAATAATTAATTCATATATA
1 AAATAATTACTTGAAATATTTCACATATAAAAATAATGATATTTGAAATAATTAATTCATATATA
* *
1077203 AAAATATTTGAAATATCATACCCACAATGTAGATGAAAA
66 AAAATATTAGAAATACCATACCCACAATGTAGATGAAAA
* * *
1077242 AAATAA-TACTTGAAATATTTTACATATAAAAATAATAATGATATTTGAAATAATTTATT-TTAT
1 AAATAATTACTTGAAATATTTCACATAT--AAA-AATAATGATATTTGAAATAATTAATTCATAT
* * * *
1077305 TTTATAATATTAGAAATCACCATACGCACAAT
63 ATAAAAATATTAGAAAT-ACCATACCCACAAT
1077337 ATAGCTGGAG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
103 19 0.24
104 6 0.08
105 19 0.24
106 35 0.44
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (104 bp):
AAATAATTACTTGAAATATTTCACATATAAAAATAATGATATTTGAAATAATTAATTCATATATA
AAAATATTAGAAATACCATACCCACAATGTAGATGAAAA
Found at i:1078825 original size:4 final size:4
Alignment explanation
Indices: 1078818--1078852 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
1078808 AAACAATGTA
* *
1078818 ATAC ATAC ATAC ATGC AAAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1078853 GCTACTATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:1085465 original size:13 final size:13
Alignment explanation
Indices: 1085432--1085458 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1085422 ACAGAGCTAA
1085432 CCTGATATGATCG
1 CCTGATATGATCG
1085445 CCTGATATGATCG
1 CCTGATATGATCG
1085458 C
1 C
1085459 TTTATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (13 bp):
CCTGATATGATCG
Found at i:1089847 original size:22 final size:21
Alignment explanation
Indices: 1089813--1089859 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
1089803 AAAAAAATTA
1089813 AGAAAAAAAATGGAAGGTTCT
1 AGAAAAAAAATGGAAGGTTCT
*
1089834 AGAAAGAAGAATGGAAGGTTCT
1 AGAAA-AAAAATGGAAGGTTCT
1089856 AGAA
1 AGAA
1089860 TGATCGGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.51, C:0.04, G:0.28, T:0.17
Consensus pattern (21 bp):
AGAAAAAAAATGGAAGGTTCT
Done.