Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 101 of 196
Found at i:30159699 original size:137 final size:137
Alignment explanation
Indices: 30159412--30159700 Score: 535
Period size: 137 Copynumber: 2.1 Consensus size: 137
30159402 ATAAAACATC
*
30159412 TCAATTTCCAGCAAC-TAAACACTTCAATTCACAGCATTTAAACACTTAAATTTGCAGCACTTAA
1 TCAATTTGCAGC-ACTTAAACACTTCAATTCACAGCATTTAAACACTTAAATTTGCAGCACTTAA
*
30159476 ACATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAAC
65 ACATATCAATTAACAACATTTATACACCACAATTACAGCGATAAAACATCTCAATTTCCAGCAAC
30159541 TAAATACT
130 TAAATACT
*
30159549 TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAA
1 TCAATTTGCAGCACTTAAACACTTCAATTCACAGCATTTAAACACTTAAATTTGCAGCACTTAAA
30159614 CATATCAATTAACAACATTTATACACCACAATTACAGCGATAAAACATCTCAATTTCCAGCAACT
66 CATATCAATTAACAACATTTATACACCACAATTACAGCGATAAAACATCTCAATTTCCAGCAACT
30159679 AAATACT
131 AAATACT
30159686 TCAATTTGCAGCACT
1 TCAATTTGCAGCACT
30159701 ATCAAATTTC
Statistics
Matches: 148, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
136 2 0.01
137 146 0.99
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (137 bp):
TCAATTTGCAGCACTTAAACACTTCAATTCACAGCATTTAAACACTTAAATTTGCAGCACTTAAA
CATATCAATTAACAACATTTATACACCACAATTACAGCGATAAAACATCTCAATTTCCAGCAACT
AAATACT
Found at i:30160119 original size:41 final size:39
Alignment explanation
Indices: 30160036--30160119 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
30160026 GCACAATACA
**
30160036 ATATAAAAAGCATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGCATATATAAATATATGAATGTAGAGAAAT
* *
30160075 ATATAAAAAGCATATATAAATATATGTATGTCATAGAAACT
1 ATATAAAAAGCATATATAAATATATGAATGT-AGAGAAA-T
30160116 ATAT
1 ATAT
30160120 TCATTTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 30 0.77
40 4 0.10
41 5 0.13
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (39 bp):
ATATAAAAAGCATATATAAATATATGAATGTAGAGAAAT
Found at i:30163385 original size:16 final size:15
Alignment explanation
Indices: 30163364--30163393 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30163354 ACCTCTTTAG
30163364 ATTAAATTATAAATTT
1 ATTAAATTA-AAATTT
30163380 ATTAAATTAAAATT
1 ATTAAATTAAAATT
30163394 AAAGGAGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATTAAAATTT
Found at i:30164567 original size:41 final size:40
Alignment explanation
Indices: 30164515--30164864 Score: 269
Period size: 41 Copynumber: 8.5 Consensus size: 40
30164505 TAGCGGTGCT
30164515 TTTTGAAAAAGCGCCGCTAAAGACCCGAGCATTAGCGGCGA
1 TTTTG-AAAAGCGCCGCTAAAGACCCGAGCATTAGCGGCGA
* * * *
30164556 TTTTGACAAAGCGTCGCTAAGGACCCGAGCATTAGCGGTGCT
1 TTTTGA-AAAGCGCCGCTAAAGACCCGAGCATTAGCGGCG-A
* * ** * * *
30164598 TTTTTAGAAGCGCTACTGAAGACCAGAGCATTAGTGGCG-
1 TTTTGAAAAGCGCCGCTAAAGACCCGAGCATTAGCGGCGA
**
30164637 TTTTGGGAAAAGCGCCGCTAAAGACTTGAGCATTAGCGGC-A
1 TTTT--GAAAAGCGCCGCTAAAGACCCGAGCATTAGCGGCGA
* * ** * *
30164678 CTTTTTCAAAATCGCCGCTAAAG-CTTGGGTCTTTAGCGGCGA
1 --TTTTGAAAAGCGCCGCTAAAGACCCGAG-CATTAGCGGCGA
* *
30164720 ATTTGACAAAGCGCCGCGAAAGACCCGAGCATTAGCGGC-A
1 TTTTGA-AAAGCGCCGCTAAAGACCCGAGCATTAGCGGCGA
* * * **
30164760 TTTATTTAGAAGCGCCGCTGAAGACCAAAGCATTAGCGGCG-
1 -TT-TTGAAAAGCGCCGCTAAAGACCCGAGCATTAGCGGCGA
* *
30164801 TTTTGGGAAAAGCACCGCTAAAGACCCGAGCATTAGCGGCGCT
1 TTTT--GAAAAGCGCCGCTAAAGACCCGAGCATTAGCGGCG-A
* *
30164844 TTTTCAAAAACGCCGCTAAAG
1 TTTTGAAAAGCGCCGCTAAAG
30164865 CCTCGAAAGG
Statistics
Matches: 241, Mismatches: 50, Indels: 36
0.74 0.15 0.11
Matches are distributed among these distances:
39 6 0.02
40 13 0.05
41 202 0.84
42 12 0.05
43 8 0.03
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
TTTTGAAAAGCGCCGCTAAAGACCCGAGCATTAGCGGCGA
Found at i:30164627 original size:82 final size:81
Alignment explanation
Indices: 30164503--30164864 Score: 354
Period size: 82 Copynumber: 4.4 Consensus size: 81
30164493 TCAATTTGGG
* * *
30164503 ATTAGCGGTGCTTTTTGAAAAAGCGCCGCTAAAGACCCGAGCATTAGCGGCGATTTT-GACAAAG
1 ATTAGCGGCGCTTTTT-TAAAAGCGCCGCTAAAGACCAGAGCATTAGCGGCG-TTTTGGA-AAAG
* *
30164567 CGTCGCTAAGGACCCGAGC
63 CGCCGCTAAAGACCCGAGC
* * ** * *
30164586 ATTAGCGGTGCTTTTTTAGAAGCGCTACTGAAGACCAGAGCATTAGTGGCGTTTTGGGAAAAGCG
1 ATTAGCGGCGCTTTTTTAAAAGCGCCGCTAAAGACCAGAGCATTAGCGGCGTTTT-GGAAAAGCG
**
30164651 CCGCTAAAGACTTGAGC
65 CCGCTAAAGACCCGAGC
* * * ** * * *
30164668 ATTAGCGGCACTTTTTCAAAATCGCCGCTAAAG-CTTGGGTCTTTAGCGGCGAATTT-GACAAAG
1 ATTAGCGGCGCTTTTTTAAAAGCGCCGCTAAAGACCAGAG-CATTAGCGGCG-TTTTGGA-AAAG
*
30164731 CGCCGCGAAAGACCCGAGC
63 CGCCGCTAAAGACCCGAGC
* * * *
30164750 ATTAGCGGC-ATTTATTTAGAAGCGCCGCTGAAGACCAAAGCATTAGCGGCGTTTTGGGAAAAGC
1 ATTAGCGGCGCTTT-TTTAAAAGCGCCGCTAAAGACCAGAGCATTAGCGGCGTTTT-GGAAAAGC
*
30164814 ACCGCTAAAGACCCGAGC
64 GCCGCTAAAGACCCGAGC
* *
30164832 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTTTTTTAAAAGCGCCGCTAAAG
30164865 CCTCGAAAGG
Statistics
Matches: 223, Mismatches: 46, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
81 15 0.07
82 180 0.81
83 28 0.13
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (81 bp):
ATTAGCGGCGCTTTTTTAAAAGCGCCGCTAAAGACCAGAGCATTAGCGGCGTTTTGGAAAAGCGC
CGCTAAAGACCCGAGC
Found at i:30164803 original size:164 final size:164
Alignment explanation
Indices: 30164546--30164865 Score: 491
Period size: 164 Copynumber: 2.0 Consensus size: 164
30164536 GACCCGAGCA
* * * *
30164546 TTAGCGGCGATTTTGACAAAGCGTCGCTAAGGACCCGAGCATTAGCGGTGCTTTTTTAGAAGCGC
1 TTAGCGGCGAATTTGACAAAGCGCCGCGAAAGACCCGAGCATTAGCGGTGCTTTTTTAGAAGCGC
* * * * **
30164611 TACTGAAGACCAGAGCATTAGTGGCGTTTTGGGAAAAGCGCCGCTAAAGACTTGAGCATTAGCGG
66 CACTGAAGACCAAAGCATTAGCGGCGTTTTGGGAAAAGCACCGCTAAAGACCCGAGCATTAGCGG
*
30164676 CACTTTTTCAAAATCGCCGCTAAAGCTTGGGTCT
131 CACTTTTTCAAAAACGCCGCTAAAGCTTGGGTCT
30164710 TTAGCGGCGAATTTGACAAAGCGCCGCGAAAGACCCGAGCATTAGC-G-GCATTTATTTAGAAGC
1 TTAGCGGCGAATTTGACAAAGCGCCGCGAAAGACCCGAGCATTAGCGGTGC-TTT-TTTAGAAGC
*
30164773 GCCGCTGAAGACCAAAGCATTAGCGGCGTTTTGGGAAAAGCACCGCTAAAGACCCGAGCATTAGC
64 GCCACTGAAGACCAAAGCATTAGCGGCGTTTTGGGAAAAGCACCGCTAAAGACCCGAGCATTAGC
*
30164838 GGCGCTTTTTCAAAAACGCCGCTAAAGC
129 GGCACTTTTTCAAAAACGCCGCTAAAGC
30164866 CTCGAAAGGT
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
162 2 0.01
163 4 0.03
164 135 0.96
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (164 bp):
TTAGCGGCGAATTTGACAAAGCGCCGCGAAAGACCCGAGCATTAGCGGTGCTTTTTTAGAAGCGC
CACTGAAGACCAAAGCATTAGCGGCGTTTTGGGAAAAGCACCGCTAAAGACCCGAGCATTAGCGG
CACTTTTTCAAAAACGCCGCTAAAGCTTGGGTCT
Found at i:30165051 original size:41 final size:40
Alignment explanation
Indices: 30164960--30165052 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
30164950 GCTTTTTTTG
* *
30164960 AAACGTCGCGAATGCTCGATCTTTAGCAGCGTTTTACATA
1 AAACGTCGCTAATGCTCAATCTTTAGCAGCGTTTTACATA
* * * * *
30165000 AAGCGCCGCTAATGCTCAATTTTTAGCGGCGGTTTT-TATA
1 AAACGTCGCTAATGCTCAATCTTTAGCAGC-GTTTTACATA
30165040 CAAACGTCGCTAA
1 -AAACGTCGCTAA
30165053 AAATGCCGCT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
40 27 0.64
41 15 0.36
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (40 bp):
AAACGTCGCTAATGCTCAATCTTTAGCAGCGTTTTACATA
Found at i:30166164 original size:169 final size:169
Alignment explanation
Indices: 30165885--30166215 Score: 574
Period size: 169 Copynumber: 2.0 Consensus size: 169
30165875 TACATGTATA
* *
30165885 TATATTTGATTTGTCTTAGTGATTTTATGGTAGATTTAAAGCTCACCTGGTCCTTTCTAGTTTCT
1 TATATTTGATTTGTATTAGTGATTTTATGGTAGATTTAAAGCTCACCTGGTCATTTCTAGTTTCT
* * *
30165950 GTAATTAAAGATTTATAATATTCGGGTTGTTATTCGTTATAGTAATTTGTATTTCTTTTTTCTTG
66 ATAATTAAAGATTTATAATATTCGGGTTGTTATTCGTTATAGTAATTTGTACTTCTTTTTTCATG
30166015 TTTGAGAGTTGCTTCTTATTATAGCTTCAACACCTTATT
131 TTTGAGAGTTGCTTCTTATTATAGCTTCAACACCTTATT
*
30166054 TATATTTGATTTGTATTAGTGATTTTAT-GTCAGATTTAAAGCTTACCTGGTCATTTCTAGTTTC
1 TATATTTGATTTGTATTAGTGATTTTATGGT-AGATTTAAAGCTCACCTGGTCATTTCTAGTTTC
30166118 TATAATTAAAGATTTATAATATTCGGGTTGTTATTCGTTATAGTAATTTGTACTTCTTTTTTCAT
65 TATAATTAAAGATTTATAATATTCGGGTTGTTATTCGTTATAGTAATTTGTACTTCTTTTTTCAT
* *
30166183 GTTTGAGAGTTTCTTCTTGTTATAGCTTCAACA
130 GTTTGAGAGTTGCTTCTTATTATAGCTTCAACA
30166216 AAGTCTTATT
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
168 2 0.01
169 151 0.99
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (169 bp):
TATATTTGATTTGTATTAGTGATTTTATGGTAGATTTAAAGCTCACCTGGTCATTTCTAGTTTCT
ATAATTAAAGATTTATAATATTCGGGTTGTTATTCGTTATAGTAATTTGTACTTCTTTTTTCATG
TTTGAGAGTTGCTTCTTATTATAGCTTCAACACCTTATT
Found at i:30170084 original size:14 final size:14
Alignment explanation
Indices: 30170046--30170091 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
30170036 TTGGTTCGCT
30170046 GTATTGGATTAGAGG
1 GTATTGGATTAGA-G
*
30170061 TGTGTTGGATTAGAG
1 -GTATTGGATTAGAG
*
30170076 GTATTGGATTAAAG
1 GTATTGGATTAGAG
30170090 GT
1 GT
30170092 GTAATAGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 14 0.52
15 1 0.04
16 12 0.44
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (14 bp):
GTATTGGATTAGAG
Found at i:30170347 original size:16 final size:16
Alignment explanation
Indices: 30170310--30170351 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30170300 TTAATCATAT
*
30170310 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
30170326 TT-AAATATATTATAA
1 TTAAAATATATTATAA
30170341 TTAAAATATAT
1 TTAAAATATAT
30170352 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:30170358 original size:14 final size:15
Alignment explanation
Indices: 30170319--30170360 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30170309 TTTAAACATA
*
30170319 ATTATTATTAAATAT
1 ATTATAATTAAATAT
30170334 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
30170348 A-TATAATTTAATA
1 ATTATAATTAAATA
30170361 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:30170418 original size:157 final size:155
Alignment explanation
Indices: 30170217--30170531 Score: 585
Period size: 157 Copynumber: 2.0 Consensus size: 155
30170207 TAGAATACCC
*
30170217 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
30170282 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAAT-ATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
30170347 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAAT-AAATTCTTAATAA
*
30170374 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
30170439 ATATCAATAATAAATATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 ATATCAATAATAAATATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
30170504 ATATAATTTAATAAATTCTTAATAA
131 ATATAATTTAATAAATTCTTAATAA
30170529 TTA
1 TTA
30170532 ATATTCTTAT
Statistics
Matches: 155, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
155 16 0.10
156 62 0.40
157 77 0.50
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (155 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAATTCTTAATAA
Found at i:30170503 original size:16 final size:16
Alignment explanation
Indices: 30170466--30170507 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30170456 TTAATCATAT
*
30170466 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
30170482 TT-AAATATATTATAA
1 TTAAAATATATTATAA
30170497 TTAAAATATAT
1 TTAAAATATAT
30170508 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:30170514 original size:14 final size:15
Alignment explanation
Indices: 30170475--30170516 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30170465 TTTAAACATA
*
30170475 ATTATTATTAAATAT
1 ATTATAATTAAATAT
30170490 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
30170504 A-TATAATTTAATA
1 ATTATAATTAAATA
30170517 AATTCTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:30170515 original size:75 final size:75
Alignment explanation
Indices: 30170283--30170516 Score: 178
Period size: 75 Copynumber: 3.0 Consensus size: 75
30170273 AGATTATTAT
30170283 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
1 TATCAATAATAAAT-ATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
30170348 ATATAATTTAA
65 ATATAATTTAA
* * * * * **
30170359 TAAAATTCTTAATAATTAGCAGAAATTT-GT--T-TTGGTAAATTATTATTGTTATT-GTTAT-T
1 T---A-TC--AATAA-TA--A-ATATTTAATCATATT--TAAA-CATAATTATTATTAAATATAT
** * *
30170418 TA-AATTTTAATA-AGATTATTAA
53 TATAATTAAAATATATAAT-TTAA
30170440 TATCAATAATAAATATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATA
1 TATCAATAATAAATATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATA
30170505 TATAATTTAA
66 TATAATTTAA
30170515 TA
1 TA
30170517 AATTCTTAAT
Statistics
Matches: 114, Mismatches: 22, Indels: 45
0.63 0.12 0.25
Matches are distributed among these distances:
71 5 0.04
72 12 0.11
73 7 0.06
74 6 0.05
75 21 0.18
76 4 0.04
77 2 0.02
78 1 0.01
79 1 0.01
80 5 0.04
81 15 0.13
82 9 0.08
83 9 0.08
84 11 0.10
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (75 bp):
TATCAATAATAAATATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATA
TATAATTTAA
Found at i:30170717 original size:65 final size:61
Alignment explanation
Indices: 30170524--30170720 Score: 169
Period size: 58 Copynumber: 3.2 Consensus size: 61
30170514 ATAAATTCTT
*
30170524 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGT--AAAATATA
1 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT-TAAAAAATTTA
* * * * * *
30170584 AATTAACATAATATTATTAAAT--ATATTA-T--AATTAAAATATAT-A-ATTTAATAAAATTCT
1 AA-TAA-TTAATATTCTTATATGAAT-TTACTCAAATCATAATATATGATACTTAA-AAAATT-T
*
30170642 T
61 A
30170643 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAGAAAATTTGA
1 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT-T-AA-AAAATTT-A
30170708 AATAATTAATATT
1 AATAATTAATATT
30170721 AAATATATTT
Statistics
Matches: 104, Mismatches: 16, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
55 1 0.01
56 2 0.02
57 13 0.12
58 22 0.21
59 6 0.06
60 5 0.05
61 17 0.16
62 13 0.12
63 2 0.02
64 2 0.02
65 21 0.20
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (61 bp):
AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTTAAAAAATTTA
Found at i:30170769 original size:119 final size:120
Alignment explanation
Indices: 30170469--30170758 Score: 482
Period size: 119 Copynumber: 2.4 Consensus size: 120
30170459 ATCATATTTA
30170469 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAAT-AAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
30170533 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
30170588 AACATAA-TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
30170652 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAGA-A-AATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAA-ATATAAATT
* * *
30170706 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
30170759 TAAAATAATT
Statistics
Matches: 162, Mismatches: 5, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
118 47 0.29
119 114 0.70
120 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:30170836 original size:20 final size:18
Alignment explanation
Indices: 30170811--30170854 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
30170801 TAATTTAAAA
30170811 TAATAATTATACATATAATT
1 TAATAA-TA-ACATATAATT
*
30170831 TAATAATAATATATAATT
1 TAATAATAACATATAATT
*
30170849 TCATAA
1 TAATAA
30170855 AATTCTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 2 0.09
20 6 0.27
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAATAACATATAATT
Found at i:30170901 original size:44 final size:44
Alignment explanation
Indices: 30170842--30170985 Score: 114
Period size: 47 Copynumber: 3.1 Consensus size: 44
30170832 AATAATAATA
*
30170842 TATAATTTCATAAAATTCTTAATAATAAATTTTCTTATATGAATT
1 TATAAATT-ATAAAATTCTTAATAATAAATTTTCTTATATGAATT
** * * *
30170887 TATACAATT-TAAAATAATTAATATTAAATATAATT-TAATAATG-ATA
1 TATA-AATTATAAAATTCTTAATAATAAAT-T--TTCTTAT-ATGAATT
* *
30170933 TATAATTTCATAAAATTCTTAATAATAAAATGTTCTTATATGAATT
1 TATAAATT-ATAAAATTCTTAATAAT-AAATTTTCTTATATGAATT
30170979 TACTAAA
1 TA-TAAA
30170986 ATCAATATAT
Statistics
Matches: 74, Mismatches: 14, Indels: 20
0.69 0.13 0.19
Matches are distributed among these distances:
44 17 0.23
45 13 0.18
46 19 0.26
47 21 0.28
48 4 0.05
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (44 bp):
TATAAATTATAAAATTCTTAATAATAAATTTTCTTATATGAATT
Found at i:30170945 original size:91 final size:90
Alignment explanation
Indices: 30170774--30170980 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 90
30170764 TAATTATAAC
* * * * * *
30170774 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAATAATTATACATATAATTTAATAATA
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATAATTATAAATATAATTTAATAATA
30170839 ATATATAATTTCATAAAATTCTTAA
66 ATATATAATTTCATAAAATTCTTAA
30170864 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAA-TAATTA-TAAATATAATTTAATAA
*
30170928 TGATATATAATTTCATAAAATTCTTAA
64 TAATATATAATTTCATAAAATTCTTAA
*
30170955 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
30170981 CTAAAATCAA
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
90 37 0.35
91 49 0.46
92 20 0.19
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (90 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATAATTATAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:30170955 original size:47 final size:47
Alignment explanation
Indices: 30170814--30170961 Score: 146
Period size: 47 Copynumber: 3.2 Consensus size: 47
30170804 TTTAAAATAA
* * *
30170814 TAATTATACATATAATTTAATAATAATATATAATTTCATAAAATTCT
1 TAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTCT
* * * **
30170861 TAATAATAAAT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAAT
1 TAATAATAAATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCT
*
30170905 TAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCT
1 TAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTCT
30170952 TAATAATAAA
1 TAATAATAAA
30170962 ATGTTCTTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
44 21 0.27
45 13 0.17
46 13 0.17
47 30 0.39
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (47 bp):
TAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTCT
Found at i:30177764 original size:28 final size:28
Alignment explanation
Indices: 30177710--30177764 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
30177700 GCAAATCGGT
* *
30177710 AGAAAAGAAAAGAAAATAAACATAGGGC
1 AGAAAAGAAAAGAAAAGAAACAGAGGGC
*
30177738 AGAAAAGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAAAGAAACAGAGGG
30177765 AGCAAATCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.64, C:0.05, G:0.27, T:0.04
Consensus pattern (28 bp):
AGAAAAGAAAAGAAAAGAAACAGAGGGC
Found at i:30187245 original size:42 final size:42
Alignment explanation
Indices: 30187149--30187248 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
30187139 CTATATGAAC
* *
30187149 GGCACTAAGTGTACGAAACTAAAATGATGATGTTGAATAATG
1 GGCACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAATA
*
30187191 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
1 GGCACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAATA
30187233 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
30187249 TACCGAGAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAATA
Found at i:30191975 original size:12 final size:13
Alignment explanation
Indices: 30191954--30191986 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30191944 GAAGGAAATC
*
30191954 ACACATGGCCT-G
1 ACACACGGCCTGG
30191966 ACACACGGCCTGG
1 ACACACGGCCTGG
30191979 ACACACGG
1 ACACACGG
30191987 GCCTATCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.27, C:0.36, G:0.27, T:0.09
Consensus pattern (13 bp):
ACACACGGCCTGG
Found at i:30195880 original size:50 final size:51
Alignment explanation
Indices: 30195714--30195955 Score: 197
Period size: 50 Copynumber: 4.7 Consensus size: 51
30195704 CGTAAAGAGA
* * * **
30195714 TCCCATGTAAGACCATGTTTGGGACATGGAATTTGCATCATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA-G-TATGAGAAC
* * ***
30195770 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGTA-GAGGGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGTATGAGAAC
** * * *
30195820 TCCCCCGTAAGACCACGTTTGGGACATGGCATGGGCACTGA-TATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGTATGAGAAC
* * * * * *
30195870 TCCCATGTAAGACCATATCTGGGATATGACATTGGCAGT-A-CAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGTATGAGAAC
*
30195918 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30195956 TGTTATTATT
Statistics
Matches: 153, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
48 3 0.02
49 39 0.25
50 72 0.47
51 2 0.01
52 1 0.01
53 2 0.01
55 1 0.01
56 33 0.22
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGTATGAGAAC
Found at i:30197893 original size:16 final size:16
Alignment explanation
Indices: 30197874--30197919 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
30197864 TTTTTATTCA
30197874 TTTATTTATTTAATAG
1 TTTATTTATTTAATAG
* *
30197890 TTTA-TTATCTTATTAT
1 TTTATTTAT-TTAATAG
30197906 TTTATTTATTTAAT
1 TTTATTTATTTAAT
30197920 CTATTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 4 0.16
16 17 0.68
17 4 0.16
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTATTTATTTAATAG
Found at i:30199301 original size:30 final size:30
Alignment explanation
Indices: 30199260--30199317 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
30199250 TTGGGCATTT
*
30199260 CCACACAAGCTGGACACACGCCCTTGTGTG
1 CCACACAAGCTGGACACACGCCCATGTGTG
* *
30199290 CCACACGAGCTGGACACATGCCCATGTG
1 CCACACAAGCTGGACACACGCCCATGTG
30199318 CCAGCCCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (30 bp):
CCACACAAGCTGGACACACGCCCATGTGTG
Found at i:30201611 original size:26 final size:26
Alignment explanation
Indices: 30201557--30201629 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
30201547 ATGAATTTTC
*
30201557 TCAAAATTTTA-CTGAGGTAAAATCG
1 TCAAAATTTTATCTGGGGTAAAATCG
* **
30201582 TCAAAATTTTATCGGGGGTAAAATTT
1 TCAAAATTTTATCTGGGGTAAAATCG
30201608 TCAAAAATTTTAT-TGGGGTAAA
1 TC-AAAATTTTATCTGGGGTAAA
30201630 CTTGGGATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.27
26 20 0.49
27 10 0.24
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (26 bp):
TCAAAATTTTATCTGGGGTAAAATCG
Found at i:30205417 original size:42 final size:42
Alignment explanation
Indices: 30205358--30205450 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
30205348 CAAGTTAGGC
30205358 AGTTACACGGCCTGGCACACAGGCGTGCGTGGCTATTTCGAG
1 AGTTACACGGCCTGGCACACAGGCGTGCGTGGCTATTTCGAG
* * *
30205400 AGTTACATGGCCTGGCACACGGGCGTGTGTGGCTATTTCGAG
1 AGTTACACGGCCTGGCACACAGGCGTGCGTGGCTATTTCGAG
30205442 AGTTACACG
1 AGTTACACG
30205451 ACCTCACTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (42 bp):
AGTTACACGGCCTGGCACACAGGCGTGCGTGGCTATTTCGAG
Found at i:30205466 original size:42 final size:42
Alignment explanation
Indices: 30205358--30205467 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
30205348 CAAGTTAGGC
* ** *
30205358 AGTTACACGGCCTGGCACACAGGCGTGCGTGGCTATTTCGAG
1 AGTTACACGACCTCACACACGGGCGTGCGTGGCTATTTCGAG
* * ** *
30205400 AGTTACATGGCCTGGCACACGGGCGTGTGTGGCTATTTCGAG
1 AGTTACACGACCTCACACACGGGCGTGCGTGGCTATTTCGAG
* *
30205442 AGTTACACGACCTCACTCATGGGCGT
1 AGTTACACGACCTCACACACGGGCGT
30205468 ATGGCTTGGC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.24
Consensus pattern (42 bp):
AGTTACACGACCTCACACACGGGCGTGCGTGGCTATTTCGAG
Found at i:30208969 original size:16 final size:16
Alignment explanation
Indices: 30208948--30208978 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30208938 TTTGATAGCT
30208948 AAACGAAAACTGATTG
1 AAACGAAAACTGATTG
30208964 AAACGAAAACTGATT
1 AAACGAAAACTGATT
30208979 CAAGTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (16 bp):
AAACGAAAACTGATTG
Found at i:30216289 original size:40 final size:40
Alignment explanation
Indices: 30216086--30216273 Score: 306
Period size: 40 Copynumber: 4.7 Consensus size: 40
30216076 TGAATGACAC
* * * *
30216086 CCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAT
30216126 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
*
30216166 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
30216206 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
*
30216246 CCGGGCTAAGACCCGAGGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
30216274 TTGTGGTTAT
Statistics
Matches: 140, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 137 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
Found at i:30218967 original size:23 final size:24
Alignment explanation
Indices: 30218939--30218994 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
30218929 CTTTTTACAA
30218939 AATATTTAGAAAAA-ATATTAAAT
1 AATATTTAGAAAAATATATTAAAT
* *
30218962 TATATTTAGAAAAATTATATTTAAT
1 AATATTTAGAAAAA-TATATTAAAT
30218987 AATATTTA
1 AATATTTA
30218995 TTTTAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 13 0.46
25 15 0.54
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATTTAGAAAAATATATTAAAT
Found at i:30219075 original size:56 final size:56
Alignment explanation
Indices: 30219015--30219195 Score: 170
Period size: 56 Copynumber: 3.1 Consensus size: 56
30219005 TATTTTATAG
*
30219015 TATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTT
1 TATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTT
* * * * * * *
30219071 TATTA-A-ATTATATATTTTTATTAAATTGTATTTAATAATAATT-ATGTTAAAATATATTTTAT
1 TATTATATATTATA-A-TTTTAGTAAATT-CATATAAGAATATTTAATATT--AAGA-A--TT-T
30219133 ACTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTT
1 --TATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTT
30219191 TATTA
1 TATTA
30219196 AATCATATAT
Statistics
Matches: 96, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
54 5 0.05
55 2 0.02
56 25 0.26
57 11 0.11
58 4 0.04
59 3 0.03
61 3 0.03
62 4 0.04
63 11 0.11
64 20 0.21
65 2 0.02
66 6 0.06
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (56 bp):
TATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTT
Found at i:30219106 original size:120 final size:120
Alignment explanation
Indices: 30218972--30219601 Score: 993
Period size: 120 Copynumber: 5.3 Consensus size: 120
30218962 TATATTTAGA
* * * *
30218972 AAAATTATATTTAATAATATTTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 AAAA-TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATAATTTTAGT
* * * *
30219037 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATT
65 AAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
* * * * *
30219093 AAATTGTATTTAATAATAATTATGTTAAAATATATTTTATACTATTATATATTATAATTTTAGTA
1 AAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
* *
30219158 AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATT
66 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
*
30219213 AAAATATATTGAATAATAATTAT-TTCAAATTATATTTTATAGTATCATATATTATAATTTTAGT
1 AAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATCATATATTATAATTTTAGT
30219277 AAATTC--AT---AATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
*
30219328 AAAATATATTTAATAATAAGTATGTTAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
1 AAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
* *
30219393 AATTCATTTAAGAATGTTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
66 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
* *
30219448 AAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTA
1 AAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
*
30219513 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
*
30219568 AAAATATATTTAATAATAATTATGTTAAAATATA
1 AAAATATATTTAATAATAATTATGTTAAATTATA
30219602 ATTAAATTAT
Statistics
Matches: 474, Mismatches: 28, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
115 106 0.22
116 2 0.00
117 1 0.00
118 2 0.00
119 2 0.00
120 358 0.76
121 3 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
Found at i:30219407 original size:235 final size:236
Alignment explanation
Indices: 30218972--30219601 Score: 985
Period size: 235 Copynumber: 2.6 Consensus size: 236
30218962 TATATTTAGA
* *
30218972 AAAATTATATTTAATAATATTTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 AAAA-TATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATCATATATTATGATTTTAGT
* * * * *
30219037 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTGTAT
64 AAATTCA-AT-A-AATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATAT
*
30219102 TTAATAATAATTATGTTAAAATATATTTTATACTATTATATATTATAATTTTAGTAAATTCATAT
126 TTAATAATAATTATGTTAAAATATATTTTATACTATCATATATTATAATTTTAGTAAATTCATAT
*
30219167 AAGAATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATT
191 AAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATT
* *
30219213 AAAATATATTGAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
1 AAAATATATTTAATAATAATTATTT-AAATTATATTTTATAGTATCATATATTATGATTTTAGTA
*
30219278 AATTC-AT-AATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAA
65 AATTCAATAAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
* * * *
30219341 TAATAAGTATGTTAAATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCATTTAAGA
130 TAATAATTATGTTAAAATATATTTTATACTATCATATATTATAATTTTAGTAAATTCATATAAGA
* *
30219406 ATGTTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
195 ATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATT
*
30219448 AAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTA
1 AAAATATATTTAATAATAATTAT-TTAAATTATATTTTATAGTATCATATATTATGATTTTAGTA
30219513 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT
65 AATTCA-AT-A-AATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT
30219578 TAATAATAATTATGTTAAAATATA
127 TAATAATAATTATGTTAAAATATA
30219602 ATTAAATTAT
Statistics
Matches: 358, Mismatches: 24, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
235 213 0.59
236 2 0.01
237 2 0.01
238 2 0.01
239 3 0.01
240 132 0.37
241 4 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (236 bp):
AAAATATATTTAATAATAATTATTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAA
ATTCAATAAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT
AATAATTATGTTAAAATATATTTTATACTATCATATATTATAATTTTAGTAAATTCATATAAGAA
TATTGAATATTAAGAATTTTATTAAATCATATATTTTAATT
Found at i:30219570 original size:18 final size:17
Alignment explanation
Indices: 30219542--30219576 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30219532 ATTATTAAGA
*
30219542 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30219559 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30219577 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30219621 original size:26 final size:26
Alignment explanation
Indices: 30219527--30219621 Score: 66
Period size: 26 Copynumber: 3.5 Consensus size: 26
30219517 CATATAAGAA
* * *
30219527 TATTGATTATTAAGAATTTTATTAAAT
1 TATTTATTATTAA-AATATAATTAAAT
* * *
30219554 TATATATTTTAATTAAAATATATTTAATAA
1 TAT-T-TATT-ATTAAAATATAATTAA-AT
* *
30219584 TAATTA-TGTTAAAATATAATTAAAT
1 TATTTATTATTAAAATATAATTAAAT
30219609 TATTTATTATTAA
1 TATTTATTATTAA
30219622 TATTAATAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 11
0.68 0.18 0.15
Matches are distributed among these distances:
25 6 0.12
26 19 0.38
27 4 0.08
28 2 0.04
29 11 0.22
30 8 0.16
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (26 bp):
TATTTATTATTAAAATATAATTAAAT
Found at i:30219858 original size:16 final size:16
Alignment explanation
Indices: 30219811--30219861 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
30219801 GATTTGCTAT
*
30219811 TACGCCTCTATTCCAT
1 TACGCCTCTATTCCAA
30219827 TACGCCTCTATTCCAA
1 TACGCCTCTATTCCAA
30219843 TACGCCTCTATTCCAA
1 TACGCCTCTATTCCAA
30219859 TAC
1 TAC
30219862 AGTGAACCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.24, C:0.37, G:0.06, T:0.33
Consensus pattern (16 bp):
TACGCCTCTATTCCAA
Found at i:30220009 original size:25 final size:23
Alignment explanation
Indices: 30219981--30220038 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
30219971 GAATATGGTG
30219981 TGTTTTATAAATGATTGTAATTGAA
1 TGTTTTATAAA--ATTGTAATTGAA
*
30220006 TGTTTTAAGTTAAATTGTAATTGAA
1 TGTTTT-A-TAAAATTGTAATTGAA
30220031 TGTTTTAT
1 TGTTTTAT
30220039 GCTAAAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.03
24 1 0.03
25 24 0.80
26 1 0.03
27 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.52
Consensus pattern (23 bp):
TGTTTTATAAAATTGTAATTGAA
Found at i:30220044 original size:25 final size:25
Alignment explanation
Indices: 30219994--30220044 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
30219984 TTTATAAATG
*
30219994 ATTGTAATTGAATGTTTTAAGTTAA
1 ATTGTAATTGAATGTTTTAAGCTAA
*
30220019 ATTGTAATTGAATGTTTTATGCTAA
1 ATTGTAATTGAATGTTTTAAGCTAA
30220044 A
1 A
30220045 AGTTTCTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (25 bp):
ATTGTAATTGAATGTTTTAAGCTAA
Found at i:30221910 original size:20 final size:20
Alignment explanation
Indices: 30221887--30221929 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
30221877 ACTACAGTGT
* *
30221887 CCTTATTTGCACATCTGTGC
1 CCTTATCTGCACATCGGTGC
* *
30221907 CCTTGTCTGCACTTCGGTGC
1 CCTTATCTGCACATCGGTGC
30221927 CCT
1 CCT
30221930 GTTATGCATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.09, C:0.35, G:0.19, T:0.37
Consensus pattern (20 bp):
CCTTATCTGCACATCGGTGC
Found at i:30224274 original size:15 final size:15
Alignment explanation
Indices: 30224254--30224287 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30224244 AGTTTGAGAC
*
30224254 GAATGATAAATTCCA
1 GAATGATAAATTACA
*
30224269 GAATGATGAATTACA
1 GAATGATAAATTACA
30224284 GAAT
1 GAAT
30224288 TATTATTAGT
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:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (15 bp):
GAATGATAAATTACA
Found at i:30227663 original size:26 final size:26
Alignment explanation
Indices: 30227619--30227673 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
30227609 ATTATTTATT
**
30227619 AAATGTGTAAGTGTTATGGTAAGAAG
1 AAATGTGTAAGTGAAATGGTAAGAAG
* * *
30227645 AAATGTTTAAGTGAAATGGTTATAAG
1 AAATGTGTAAGTGAAATGGTAAGAAG
30227671 AAA
1 AAA
30227674 AAATATATAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (26 bp):
AAATGTGTAAGTGAAATGGTAAGAAG
Found at i:30230615 original size:21 final size:22
Alignment explanation
Indices: 30230577--30230618 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
30230567 ATTAATGTTG
*
30230577 TTATTTTATAGCAATTATTTAC
1 TTATTTTATAGAAATTATTTAC
30230599 TTATTTTAT-GAAATTATTTA
1 TTATTTTATAGAAATTATTTA
30230619 ATGTTGACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
TTATTTTATAGAAATTATTTAC
Found at i:30230826 original size:50 final size:50
Alignment explanation
Indices: 30230770--30230901 Score: 183
Period size: 50 Copynumber: 2.6 Consensus size: 50
30230760 TATTGAGGTA
* * *
30230770 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* *
30230820 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
** * *
30230870 ATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
30230902 TTTGGCATTG
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:30231190 original size:20 final size:20
Alignment explanation
Indices: 30231165--30231213 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
30231155 TGAGTTATTT
30231165 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
* *
30231185 AAGTAA-AAGAGTAAGTAAAT
1 AAGTAAGCA-AGTAAGTAAAC
30231205 AAG-AAGCAA
1 AAGTAAGCAA
30231214 AGACCATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.59, C:0.06, G:0.20, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:30238552 original size:50 final size:49
Alignment explanation
Indices: 30238498--30238616 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
30238488 GAGGTCCCCC
* * *
30238498 GTAAGACCATGTCTAGGACATGGCATGGGCACTGATAAGAGAAC-TCCCAT
1 GTAAGACCATGTCTAGGACATGACATGCGCACT-ACAAGA-AACATCCCAT
* * * * * *
30238548 GTAAGACCATATCTGGGATATGACATTCGCAGTACAGGAAACATCCCAT
1 GTAAGACCATGTCTAGGACATGACATGCGCACTACAAGAAACATCCCAT
30238597 GTAAGACCATGTCTAGGACA
1 GTAAGACCATGTCTAGGACA
30238617 CGGCTTTGGC
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
48 3 0.05
49 27 0.48
50 26 0.46
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (49 bp):
GTAAGACCATGTCTAGGACATGACATGCGCACTACAAGAAACATCCCAT
Found at i:30238854 original size:20 final size:20
Alignment explanation
Indices: 30238829--30238867 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30238819 TGATTTATTT
30238829 AAGTAAGTA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
30238849 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
30238868 TAAGAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.03, G:0.23, T:0.18
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:30243421 original size:27 final size:27
Alignment explanation
Indices: 30243292--30243438 Score: 129
Period size: 27 Copynumber: 5.4 Consensus size: 27
30243282 TTACCTACAG
* * * *
30243292 GGGTATTACGGTTATTTTA-CCTTACA
1 GGGTATTTCGGTCATTTTACCCATAGA
* *
30243318 GAGGTATTACGGTCATTTTAACC-TACGA
1 G-GGTATTTCGGTCATTTTACCCATA-GA
**
30243346 GGGTATTTCAATCATTTTACCCATCA-A
1 GGGTATTTCGGTCATTTTACCCAT-AGA
** *
30243373 GGGTATTTCTATTATTTTACCCATAGA
1 GGGTATTTCGGTCATTTTACCCATAGA
* *
30243400 AGGTATTTCGGTCATTTTACCCATCGA
1 GGGTATTTCGGTCATTTTACCCATAGA
30243427 GGGTATTTCGGT
1 GGGTATTTCGGT
30243439 AAATTTTCAA
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.02
27 93 0.92
28 5 0.05
29 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCATAGA
Found at i:30247030 original size:19 final size:19
Alignment explanation
Indices: 30247006--30247072 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
30246996 ACAGTGTATA
30247006 TGGGCCCAAAACCCGCTAT
1 TGGGCCCAAAACCCGCTAT
* *
30247025 TGGGCCCATAAGAACAG-TAT
1 TGGGCCCA-AA-ACCCGCTAT
* *
30247045 ATAGGCCCAAAACTCGCTAT
1 -TGGGCCCAAAACCCGCTAT
30247065 TGGGCCCA
1 TGGGCCCA
30247073 TGTGGGCCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
19 17 0.46
20 10 0.27
21 10 0.27
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (19 bp):
TGGGCCCAAAACCCGCTAT
Found at i:30247056 original size:40 final size:41
Alignment explanation
Indices: 30246985--30247073 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 41
30246975 AATATGATTA
*
30246985 GGCCCATAAGAACAGTGTATATGGGCCCAAAACCCGCTATTG
1 GGCCCATAAGAACAG-GTATATAGGCCCAAAACCCGCTATTG
*
30247027 GGCCCATAAGAACA-GTATATAGGCCCAAAACTCGCTATTG
1 GGCCCATAAGAACAGGTATATAGGCCCAAAACCCGCTATTG
30247067 GGCCCAT
1 GGCCCAT
30247074 GTGGGCCCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 31 0.69
42 14 0.31
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (41 bp):
GGCCCATAAGAACAGGTATATAGGCCCAAAACCCGCTATTG
Found at i:30250542 original size:42 final size:43
Alignment explanation
Indices: 30250446--30250558 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 43
30250436 AGCTCGTACA
* * * *
30250446 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTATTCAAATCACG
1 ATGCCAATGTCCAAGACAG-GGTCTTACAGGAAATCAAATCACG
* * *
30250489 ATGCCACTGTCCAAGACAGGGTCTTATAGGAAATCATAT-ACG
1 ATGCCAATGTCCAAGACAGGGTCTTACAGGAAATCAAATCACG
* *
30250531 ATGCCAATGTCCGAGACATGGTCTTACA
1 ATGCCAATGTCCAAGACAGGGTCTTACA
30250559 CGTAAATCTC
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 27 0.47
43 30 0.52
44 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCAAGACAGGGTCTTACAGGAAATCAAATCACG
Found at i:30251227 original size:13 final size:13
Alignment explanation
Indices: 30251209--30251233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30251199 ACAAATGATA
30251209 AAATTTTCACACG
1 AAATTTTCACACG
30251222 AAATTTTCACAC
1 AAATTTTCACAC
30251234 ATATAAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:30266094 original size:29 final size:28
Alignment explanation
Indices: 30266040--30266377 Score: 218
Period size: 29 Copynumber: 11.8 Consensus size: 28
30266030 TATAAGTAAG
* * *
30266040 CCTTTGTGGCTATATC--TAAAAAGAAA
1 CCTTTGTGGCTATCTCTGTTAAATGAAA
* *
30266066 CCTTTGCGGCGATCTCTGTTAAATCGAAA
1 CCTTTGTGGCTATCTCTGTTAAAT-GAAA
* * *
30266095 TCTTTGTGGCTATTTTTGTTAAA-GAAA
1 CCTTTGTGGCTATCTCTGTTAAATGAAA
* * * *
30266122 GCCATTGTGG-TAATCTCTGTTCTAAGGAAG
1 -CCTTTGTGGCT-ATCTCTGTT-AAATGAAA
* * *
30266152 CCTTTGTGGCTGTCTTTGTTAAATGAAT
1 CCTTTGTGGCTATCTCTGTTAAATGAAA
* * *
30266180 GCTTT-TGCAGCTATCCCTATTAAATGAAA
1 CCTTTGTG--GCTATCTCTGTTAAATGAAA
*
30266209 GCCTTTGTGGCTATCTCTATTAAATGAAA
1 -CCTTTGTGGCTATCTCTGTTAAATGAAA
* *
30266238 GCCTTTGTGGCTATCTCTATTAAATGAATG
1 -CCTTTGTGGCTATCTCTGTTAAATGAA-A
* *
30266268 CCTTTGTGGCGATCTCTGTTAAATGGAAT
1 CCTTTGTGGCTATCTCTGTTAAAT-GAAA
* * *
30266297 CCTTTGTGGCAATTTATGTTAAATGGAAA
1 CCTTTGTGGCTATCTCTGTTAAAT-GAAA
* * * * * * * *
30266326 TCTTTGTGGTTGTTTTTATTAAACAGATA
1 CCTTTGTGGCTATCTCTGTTAAA-TGAAA
*
30266355 CTTTTGTGGCTATCTCTGTTAAA
1 CCTTTGTGGCTATCTCTGTTAAA
30266378 AGGATGCCTT
Statistics
Matches: 244, Mismatches: 53, Indels: 27
0.75 0.16 0.08
Matches are distributed among these distances:
26 13 0.05
27 7 0.03
28 27 0.11
29 184 0.75
30 11 0.05
31 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (28 bp):
CCTTTGTGGCTATCTCTGTTAAATGAAA
Found at i:30266319 original size:87 final size:88
Alignment explanation
Indices: 30266149--30266421 Score: 256
Period size: 87 Copynumber: 3.1 Consensus size: 88
30266139 TGTTCTAAGG
* ** * * * *
30266149 AAGCCTTTGTGGCTGTCTTTGTTAAATGAATGCTTTTGCAGCTATCCCTATTAAATGAAAGCCTT
1 AAGCCTTTGTGGCTGTCTTTATTAAATGAATGCTTTTGTGGCTATCTCTGTTAAATGGAATCCTT
* *
30266214 TGTGGCTATCTCTATTAAAT-GA
66 TGTGGCAATCTATATTAAATGGA
* * * *
30266236 AAGCCTTTGTGGCTATCTCTATTAAATGAATGCCTTTGTGGCGATCTCTGTTAAATGGAATCCTT
1 AAGCCTTTGTGGCTGTCTTTATTAAATGAATGCTTTTGTGGCTATCTCTGTTAAATGGAATCCTT
* *
30266301 TGTGGCAATTTATGTTAAATGGA
66 TGTGGCAATCTATATTAAATGGA
* * * * * *
30266324 AA-TCTTTGTGGTTGTTTTTATTAAA-CAGATACTTTTGTGGCTATCTCTGTTAAAAGG-ATGCC
1 AAGCCTTTGTGGCTGTCTTTATTAAATGA-ATGCTTTTGTGGCTATCTCTGTTAAATGGAAT-CC
30266386 TTTGTGGTCATATC--TATTAAA-GGA
64 TTTGTGG-CA-ATCTATATTAAATGGA
*
30266410 ATGCC-TTGTGGC
1 AAGCCTTTGTGGC
30266422 AAACTTTGTT
Statistics
Matches: 150, Mismatches: 30, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
86 13 0.09
87 129 0.86
88 6 0.04
89 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (88 bp):
AAGCCTTTGTGGCTGTCTTTATTAAATGAATGCTTTTGTGGCTATCTCTGTTAAATGGAATCCTT
TGTGGCAATCTATATTAAATGGA
Found at i:30266389 original size:29 final size:29
Alignment explanation
Indices: 30266096--30266444 Score: 172
Period size: 29 Copynumber: 12.1 Consensus size: 29
30266086 AAATCGAAAT
* * * *
30266096 CTTTGTGGCTATTTTTGTT-AAAGAAAGC
1 CTTTGTGGCTATCTCTGTTAAAAGGATGC
* ** *
30266124 CATTGTGG-TAATCTCTGTTCTAAGGAAGC
1 CTTTGTGGCT-ATCTCTGTTAAAAGGATGC
* * * *
30266153 CTTTGTGGCTGTCTTTGTTAAATGAATGC
1 CTTTGTGGCTATCTCTGTTAAAAGGATGC
* ** * * * * *
30266182 TTTTGCAGCTATCCCTATTAAATGAAAGC
1 CTTTGTGGCTATCTCTGTTAAAAGGATGC
* * * *
30266211 CTTTGTGGCTATCTCTATTAAATGAAAGC
1 CTTTGTGGCTATCTCTGTTAAAAGGATGC
* * *
30266240 CTTTGTGGCTATCTCTATTAAATGAATGC
1 CTTTGTGGCTATCTCTGTTAAAAGGATGC
* *
30266269 CTTTGTGGCGATCTCTGTTAAATGGAAT-C
1 CTTTGTGGCTATCTCTGTTAAAAGG-ATGC
* * * * ***
30266298 CTTTGTGGCAATTTATGTTAAATGGAAAT
1 CTTTGTGGCTATCTCTGTTAAAAGGATGC
* * * * * *
30266327 CTTTGTGGTTGTTTTTATTAAACA-GATAC
1 CTTTGTGGCTATCTCTGTTAAA-AGGATGC
*
30266356 TTTTGTGGCTATCTCTGTTAAAAGGATGC
1 CTTTGTGGCTATCTCTGTTAAAAGGATGC
* *
30266385 CTTTGTGG-TCATATCTATT-AAAGGAATGC
1 CTTTGTGGCT-ATCTCTGTTAAAAGG-ATGC
* * *
30266414 C-TTGTGGCAAACTTTGTTAAAAGGATGC
1 CTTTGTGGCTATCTCTGTTAAAAGGATGC
30266442 CTT
1 CTT
30266445 CACGATAGAA
Statistics
Matches: 252, Mismatches: 57, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
27 1 0.00
28 38 0.15
29 210 0.83
30 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (29 bp):
CTTTGTGGCTATCTCTGTTAAAAGGATGC
Found at i:30271369 original size:530 final size:529
Alignment explanation
Indices: 30270318--30271378 Score: 1897
Period size: 529 Copynumber: 2.0 Consensus size: 529
30270308 TGATGTGCAA
* *
30270318 AAAGGAAAACTGACTATGAGGGTGAATGACCAACAGGTTACATTCAACATATTCGATGCCTTGAA
1 AAAGGAAAACTGACTATGAGGGTGAATGACCAACAGGTTACATCCAACATATTCGATGCCCTGAA
30270383 ATGTGTTAATGAGAGTGAAGATTGTCAGGCCATTGGTTTGGTAGAAACGACAGTGGAAGAAAAGT
66 ATGTGTTAATGAGAGTGAAGATTGTCAGGCCATTGGTTTGGTAGAAACGACAGTGGAAGAAAAGT
* *
30270448 TTGAAAGATGTTTGCCTCAACAAAATCTTCTGTCTCCAAAAATCCATTTGAGTAGCAAATACTCA
131 TTGAAAGATGTTTGCCTCAACAAAATCTTCTGTCTCAAAAAATACATTTGAGTAGCAAATACTCA
*
30270513 ACACATTCGGTCAGTTGCAGAAGCAACTTAATCTCTTTGAGACATAGCAATTCCAAATTGCTGCG
196 ACACATTCGGTCAGTTGCAGAAGCAACTTAATCTCTTTGAGACATAGCAATTCCAAATTGCTGCA
* * *
30270578 GAATTTGAAAAAACATAAAAAAATGTTTTCTATCTTTCTTTTGTTTAATTGCTTTACTTTAATTT
261 GAATTGGAAAAAACATAAAAAAATATTTTCTATCTTTCTTTTCTTTAATTGCTTTACTTTAATTT
* *
30270643 CATTCTTATTATTTTTATCTTTAATTACATAAAGTTATTTTAATTTTTGATTTATCGCCTTATTA
326 CATTCTTATTATTTTTATATTTAATTACATAAAGTTATTTTAATTTCTGATTTATCGCCTTATTA
*
30270708 ATGAGATCATGTAGTCTGATAAAGAAAGGGAGGATTTGCACCCAATGAAAAGGAGCTGTTATCGG
391 ATGAGATCATGTAGTCTGATAAAGAAAGGGAGGATTTGCACCCAATGAAAAGGAGCTATTATCGG
* *
30270773 ATGAAAATGAAGGGGACGAGGATGAAGCTAAAGTTGATGTGCCTGGACCTACCACACACACTGCC
456 ATGAAAATGAAGGGGACGAGGATGAAGCTAAAGCTAATGTGCCTGGACCTACCACACACACTGCC
30270838 ATTGAGGAG
521 ATTGAGGAG
* * *
30270847 AAAGGAAAATTGACTATGAGGGTGAATGATCAACATGTTACATCCAACATATTCGATGCCCTGAA
1 AAAGGAAAACTGACTATGAGGGTGAATGACCAACAGGTTACATCCAACATATTCGATGCCCTGAA
*
30270912 ATGTGTTAATGAGAGTGAAGATTTTCAGGCCATTGGTTTGGTAGAAACGACAGTGGAAGAAAAGT
66 ATGTGTTAATGAGAGTGAAGATTGTCAGGCCATTGGTTTGGTAGAAACGACAGTGGAAGAAAAGT
* * *
30270977 TTGCAAGATGTTTGCCTCAACAAAATCTTTTGTCTCAAAAAATACATTTTAGTAGCAAATACTCA
131 TTGAAAGATGTTTGCCTCAACAAAATCTTCTGTCTCAAAAAATACATTTGAGTAGCAAATACTCA
* *
30271042 ACTCATTCTGTCAGTTGCAGAAGCAACTTAATCTCTTTGAGACATAGCAATTCCAAATTGCTGCA
196 ACACATTCGGTCAGTTGCAGAAGCAACTTAATCTCTTTGAGACATAGCAATTCCAAATTGCTGCA
30271107 GAATTGGAAAAAACATAAAAAAAATATTTTCTATCTTTCTTTTCTTTAATTGCTTTACTTTAATT
261 GAATTGGAAAAAACAT-AAAAAAATATTTTCTATCTTTCTTTTCTTTAATTGCTTTACTTTAATT
*
30271172 TCATTCTTATTATTTTTATATTTAATTACTTAAAGTTATTTTAATTTCTGATTTATCGCCTTATT
325 TCATTCTTATTATTTTTATATTTAATTACATAAAGTTATTTTAATTTCTGATTTATCGCCTTATT
*
30271237 AATGAGATCATGTAGTCTGATAAAGAAAGGGAGGATTTGCACCCAATGAGAAGGAGCTATTATCG
390 AATGAGATCATGTAGTCTGATAAAGAAAGGGAGGATTTGCACCCAATGAAAAGGAGCTATTATCG
30271302 GATGAAAATGAAGGGGACGAGGATGAAGCTAAAGCTAATGTGCCTGGACCTACCACACACACTGC
455 GATGAAAATGAAGGGGACGAGGATGAAGCTAAAGCTAATGTGCCTGGACCTACCACACACACTGC
30271367 CATTGAGGAG
520 CATTGAGGAG
30271377 AA
1 AA
30271379 GTAATAGAAA
Statistics
Matches: 507, Mismatches: 24, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
529 261 0.51
530 246 0.49
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (529 bp):
AAAGGAAAACTGACTATGAGGGTGAATGACCAACAGGTTACATCCAACATATTCGATGCCCTGAA
ATGTGTTAATGAGAGTGAAGATTGTCAGGCCATTGGTTTGGTAGAAACGACAGTGGAAGAAAAGT
TTGAAAGATGTTTGCCTCAACAAAATCTTCTGTCTCAAAAAATACATTTGAGTAGCAAATACTCA
ACACATTCGGTCAGTTGCAGAAGCAACTTAATCTCTTTGAGACATAGCAATTCCAAATTGCTGCA
GAATTGGAAAAAACATAAAAAAATATTTTCTATCTTTCTTTTCTTTAATTGCTTTACTTTAATTT
CATTCTTATTATTTTTATATTTAATTACATAAAGTTATTTTAATTTCTGATTTATCGCCTTATTA
ATGAGATCATGTAGTCTGATAAAGAAAGGGAGGATTTGCACCCAATGAAAAGGAGCTATTATCGG
ATGAAAATGAAGGGGACGAGGATGAAGCTAAAGCTAATGTGCCTGGACCTACCACACACACTGCC
ATTGAGGAG
Found at i:30276353 original size:26 final size:27
Alignment explanation
Indices: 30276269--30276357 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
30276259 CCTTAGTTTT
* * * *
30276269 CCAAACCAACTGGCAAAACCTAGCTCG
1 CCAAACCAATTGGCAAACCCCAGCTTG
* *
30276296 CCATATCAATTGGCAAACCCCAGCTTG
1 CCAAACCAATTGGCAAACCCCAGCTTG
*
30276323 CCAAACCAATTGGCAACCCCCAG-TT-
1 CCAAACCAATTGGCAAACCCCAGCTTG
30276348 CACAAACCAA
1 C-CAAACCAA
30276358 CTGACGAACA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.02
26 10 0.19
27 41 0.79
ACGTcount: A:0.36, C:0.37, G:0.12, T:0.15
Consensus pattern (27 bp):
CCAAACCAATTGGCAAACCCCAGCTTG
Found at i:30288536 original size:16 final size:18
Alignment explanation
Indices: 30288505--30288538 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
30288495 TGTTTTTAAG
30288505 TATTTATATGTAAAATTT
1 TATTTATATGTAAAATTT
30288523 TATTTA-AT-TAAAATTT
1 TATTTATATGTAAAATTT
30288539 AATACATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TATTTATATGTAAAATTT
Found at i:30289542 original size:12 final size:12
Alignment explanation
Indices: 30289525--30289549 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30289515 ATAAATCATA
30289525 ATGTATATTAAT
1 ATGTATATTAAT
30289537 ATGTATATTAAT
1 ATGTATATTAAT
30289549 A
1 A
30289550 GAAAATTTAC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATTAAT
Found at i:30289894 original size:21 final size:21
Alignment explanation
Indices: 30289870--30289967 Score: 99
Period size: 21 Copynumber: 4.5 Consensus size: 21
30289860 CATTATTTCT
*
30289870 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTATCC
**
30289891 AATCTCACCGCTACAGTAATTAAT
1 AATCTCACCGCTACAGT-A-T-CC
*
30289915 AATCTCACCACTACAGTATCC
1 AATCTCACCGCTACAGTATCC
* *
30289936 AATCTCATCGCTACAGTAAT-T
1 AATCTCACCGCTACAGT-ATCC
30289957 AATCTCACCGC
1 AATCTCACCGC
30289968 CACTGCTGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
21 41 0.65
22 4 0.06
23 2 0.03
24 16 0.25
ACGTcount: A:0.33, C:0.32, G:0.08, T:0.28
Consensus pattern (21 bp):
AATCTCACCGCTACAGTATCC
Found at i:30289923 original size:24 final size:24
Alignment explanation
Indices: 30289891--30289959 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
30289881 TACAGTATCC
30289891 AATCTCACCGCTACAGTAATTAAT
1 AATCTCACCGCTACAGTAATTAAT
* **
30289915 AATCTCACCACTACAGT-A-T-CC
1 AATCTCACCGCTACAGTAATTAAT
*
30289936 AATCTCATCGCTACAGTAATTAAT
1 AATCTCACCGCTACAGTAATTAAT
30289960 CTCACCGCCA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
21 15 0.43
22 2 0.06
23 2 0.06
24 16 0.46
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.29
Consensus pattern (24 bp):
AATCTCACCGCTACAGTAATTAAT
Found at i:30289933 original size:45 final size:45
Alignment explanation
Indices: 30289869--30289959 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
30289859 CCATTATTTC
**
30289869 TAATCTCACTGCTACAGTATCCAATCTCACCGCTACAGTAATTAA
1 TAATCTCACCACTACAGTATCCAATCTCACCGCTACAGTAATTAA
*
30289914 TAATCTCACCACTACAGTATCCAATCTCATCGCTACAGTAATTAA
1 TAATCTCACCACTACAGTATCCAATCTCACCGCTACAGTAATTAA
30289959 T
1 T
30289960 CTCACCGCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.30
Consensus pattern (45 bp):
TAATCTCACCACTACAGTATCCAATCTCACCGCTACAGTAATTAA
Found at i:30290703 original size:45 final size:45
Alignment explanation
Indices: 30290639--30290974 Score: 361
Period size: 45 Copynumber: 7.5 Consensus size: 45
30290629 AGGAAATGAT
* * * * ** *
30290639 TAAGACTATAGTTGAAAGACACTATGGAATCA-AATTAGAAACGAG
1 TAAGACCATAGCTGAAAGACATTATGGCATCACAATT-CTATCGAG
* * * *
30290684 TAAGACCATAACTGAAAGACGTTATGGCATCACGATTCTATCAAG
1 TAAGACCATAGCTGAAAGACATTATGGCATCACAATTCTATCGAG
* * ** *
30290729 TAAGACTATAACTGAAAGACATTATGGCATCATGATTCTATCTAG
1 TAAGACCATAGCTGAAAGACATTATGGCATCACAATTCTATCGAG
* * * *
30290774 TAAGACCATAGCTGAAATACATTATGTCATCACGATTCTATTGAG
1 TAAGACCATAGCTGAAAGACATTATGGCATCACAATTCTATCGAG
* * *
30290819 TAAGACCATAACTGAAAGACGTTATGGCATCA-AGATTCTATTGAG
1 TAAGACCATAGCTGAAAGACATTATGGCATCACA-ATTCTATCGAG
*
30290864 TAAGACCATAGCTGAAAGACGTTATGGCATCACAATTCTATCGAG
1 TAAGACCATAGCTGAAAGACATTATGGCATCACAATTCTATCGAG
* * * * *
30290909 TAAGACCATAGCTGAAAGACACTATGGCATCACAACTCAAACGAA
1 TAAGACCATAGCTGAAAGACATTATGGCATCACAATTCTATCGAG
* *
30290954 CAAGACCATAGTTGAAAGACA
1 TAAGACCATAGCTGAAAGACA
30290975 CAATGGCAAC
Statistics
Matches: 251, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
45 247 0.98
46 4 0.02
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACATTATGGCATCACAATTCTATCGAG
Found at i:30290975 original size:45 final size:45
Alignment explanation
Indices: 30290864--30291120 Score: 203
Period size: 46 Copynumber: 5.6 Consensus size: 45
30290854 TTCTATTGAG
* ** * * ** * *
30290864 TAAGACCATAGCTGAAAGACGTTATGGCATCACAATTCTATCGAG
1 TAAGACCATAGTTGAAAGACACTATGGCAACACAACTAAAACGAA
* * *
30290909 TAAGACCATAGCTGAAAGACACTATGGCATCACAACTCAAACGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACAACTAAAACGAA
* * * * *
30290954 CAAGACCATAGTTGAAAGACACAATGGCAACTCAACAGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACAAC-TAAAACGAA
* * * *
30291000 TAAGACCATGGTTGAAAGACACTATGGAAACTCAA-TGGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACAACT--AAAACGAA
* * * * * *
30291046 TAAGACCATGGTTGAAAGACACTATGGAAACTCGACAGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACAAC-TAAAACGAA
*
30291092 TAAGACCATGGTTGAAAGACAAC-ATGGCA
1 TAAGACCATAGTTGAAAGAC-ACTATGGCA
30291121 TCCTTCAACC
Statistics
Matches: 184, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
45 70 0.38
46 112 0.61
47 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACACAACTAAAACGAA
Found at i:30290982 original size:135 final size:135
Alignment explanation
Indices: 30290639--30290973 Score: 429
Period size: 135 Copynumber: 2.5 Consensus size: 135
30290629 AGGAAATGAT
* * * *
30290639 TAAGACTATAGTTGAAAGACACTATGGAATCA-AATTAGAAACGAGTAAGACCATAACTGAAAGA
1 TAAGACCATAGCTGAAAGACACTATGGCATCACAATT-CAAACGAGTAAGACCATAACTGAAAGA
* * **
30290703 CGTTATGGCATCACGATTCTATCAAGTAAGACTATAACTGAAAGACATTATGGCATCATGATTCT
65 CGTTATGGCATCAAGATTCTATCAAGTAAGACCATAACTGAAAGACATTATGGCATCACAATTCT
*
30290768 ATCTAG
130 ATCGAG
* * * * * **
30290774 TAAGACCATAGCTGAAATACATTATGTCATCACGATTCTATTGAGTAAGACCATAACTGAAAGAC
1 TAAGACCATAGCTGAAAGACACTATGGCATCACAATTCAAACGAGTAAGACCATAACTGAAAGAC
** * *
30290839 GTTATGGCATCAAGATTCTATTGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACAATTCTA
66 GTTATGGCATCAAGATTCTATCAAGTAAGACCATAACTGAAAGACATTATGGCATCACAATTCTA
30290904 TCGAG
131 TCGAG
* ** **
30290909 TAAGACCATAGCTGAAAGACACTATGGCATCACAACTCAAACGAACAAGACCATAGTTGAAAGAC
1 TAAGACCATAGCTGAAAGACACTATGGCATCACAATTCAAACGAGTAAGACCATAACTGAAAGAC
30290974 ACAATGGCAA
Statistics
Matches: 167, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
135 164 0.98
136 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (135 bp):
TAAGACCATAGCTGAAAGACACTATGGCATCACAATTCAAACGAGTAAGACCATAACTGAAAGAC
GTTATGGCATCAAGATTCTATCAAGTAAGACCATAACTGAAAGACATTATGGCATCACAATTCTA
TCGAG
Found at i:30291017 original size:46 final size:46
Alignment explanation
Indices: 30290909--30291120 Score: 266
Period size: 46 Copynumber: 4.6 Consensus size: 46
30290899 TTCTATCGAG
* * * * ** *
30290909 TAAGACCATAGCTGAAAGACACTATGGCATCACAAC-TCAAACGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACTCAACAGAAAATGAA
* * *
30290954 CAAGACCATAGTTGAAAGACACAATGGCAACTCAACAGAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACTCAACAGAAAATGAA
* **
30291000 TAAGACCATGGTTGAAAGACACTATGGAAACTCAATGGAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACTCAACAGAAAATGAA
* *
30291046 TAAGACCATGGTTGAAAGACACTATGGAAACTCGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACTCAACAGAAAATGAA
30291092 TAAGACCATGGTTGAAAGACAAC-ATGGCA
1 TAAGACCATGGTTGAAAGAC-ACTATGGCA
30291121 TCCTTCAACC
Statistics
Matches: 147, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
45 31 0.21
46 114 0.78
47 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.17
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGACACTATGGCAACTCAACAGAAAATGAA
Found at i:30300537 original size:21 final size:21
Alignment explanation
Indices: 30300513--30300601 Score: 55
Period size: 21 Copynumber: 4.4 Consensus size: 21
30300503 TCACTTTAAA
30300513 ATTAATTTAATATAATATAAT
1 ATTAATTTAATATAATATAAT
* * * *
30300534 ATTAA-TCAAGATGAATATTAG
1 ATTAATTTAATAT-AATATAAT
30300555 ATTAAATTTAATAT--TA-AAT
1 ATT-AATTTAATATAATATAAT
* *
30300574 ATT-A-TTAAAATAATAAAAT
1 ATTAATTTAATATAATATAAT
*
30300593 ATTTATTTA
1 ATTAATTTA
30300602 CAAGATAAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 16
0.67 0.12 0.21
Matches are distributed among these distances:
16 6 0.12
17 1 0.02
18 2 0.04
19 10 0.20
20 8 0.16
21 17 0.33
22 2 0.04
23 5 0.10
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTAATTTAATATAATATAAT
Found at i:30300659 original size:20 final size:18
Alignment explanation
Indices: 30300612--30300660 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
30300602 CAAGATAAAC
30300612 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
30300629 ATT-AATATAATCACTTTAAT
1 ATTAAAT-TAAT-A-TTTAAT
30300649 ATTAAATTAATA
1 ATTAAATTAATA
30300661 AAACACTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.11
17 6 0.22
19 2 0.07
20 13 0.48
21 3 0.11
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:30310144 original size:159 final size:159
Alignment explanation
Indices: 30309750--30310209 Score: 895
Period size: 159 Copynumber: 2.9 Consensus size: 159
30309740 ATCTCAATCC
*
30309750 GTGTATTATAAGTGCATAGATTTGGCTTTTATTTTTGACTTAGCTCAACTATGCTCACTGATTCC
1 GTGTATTATAAGTGCATAGATTTGGCTTTTATTTTTGACTTAGCTCAAATATGCTCACTGATTCC
30309815 GTGGTTCATCTCCATTTCAATGCTCATGCCTGCTGCATGATATGTAGTCTTGCATTTTCATATAT
66 GTGGTTCATCTCCATTTCAATGCTCATGCCTGCTGCATGATATGTAGTCTTGCATTTTCATATAT
30309880 GAATATG-TTTTTTTTTTTAAGGGAATAT
131 GAATATGTTTTTTTTTTTTAAGGGAATAT
30309908 GTGTATTATAAGTGCATAGATTTGGCTTTTATTTTTGACTTAGCTCAAATATGCTCACTGATTCC
1 GTGTATTATAAGTGCATAGATTTGGCTTTTATTTTTGACTTAGCTCAAATATGCTCACTGATTCC
30309973 GTGGTTCATCTCCATTTCAATGCTCATGCCTGCTGCATGATATGTAGTCTTGCATTTTCATATAT
66 GTGGTTCATCTCCATTTCAATGCTCATGCCTGCTGCATGATATGTAGTCTTGCATTTTCATATAT
30310038 GAATATGTTTTTTTTTTTTAAGGGAATAT
131 GAATATGTTTTTTTTTTTTAAGGGAATAT
30310067 GTGTATTATAAGTGCATAGATTTGGCTTTTATTTTTGACTTAGCTCAAATATGCTCACTGATTCC
1 GTGTATTATAAGTGCATAGATTTGGCTTTTATTTTTGACTTAGCTCAAATATGCTCACTGATTCC
30310132 GTGGTTCATCTCCATTTCAATGCTCATGCCTGCTGCATGATATGTAGTCTTGCATTTTCATATAT
66 GTGGTTCATCTCCATTTCAATGCTCATGCCTGCTGCATGATATGTAGTCTTGCATTTTCATATAT
*
30310197 GAATATGTCTTTT
131 GAATATGTTTTTT
30310210 ACATTGTTGT
Statistics
Matches: 299, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
158 136 0.45
159 163 0.55
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (159 bp):
GTGTATTATAAGTGCATAGATTTGGCTTTTATTTTTGACTTAGCTCAAATATGCTCACTGATTCC
GTGGTTCATCTCCATTTCAATGCTCATGCCTGCTGCATGATATGTAGTCTTGCATTTTCATATAT
GAATATGTTTTTTTTTTTTAAGGGAATAT
Found at i:30312178 original size:21 final size:21
Alignment explanation
Indices: 30312153--30312194 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30312143 TTCCAATTGG
30312153 TAGCAACTAATAGATGTTCTA
1 TAGCAACTAATAGATGTTCTA
30312174 TAGCAACTAATAGATGTTCTA
1 TAGCAACTAATAGATGTTCTA
30312195 ACACCCTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
TAGCAACTAATAGATGTTCTA
Found at i:30313292 original size:28 final size:28
Alignment explanation
Indices: 30313239--30313292 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
30313229 TTTCTTTGTC
* * *
30313239 TAAAATAATAAAACAACTTCTTTAAACA
1 TAAAATAATAAAAAAACTTATATAAACA
30313267 TAAAA-AATAACAAAAACTTATATAAA
1 TAAAATAATAA-AAAAACTTATATAAA
30313293 TAACATGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (28 bp):
TAAAATAATAAAAAAACTTATATAAACA
Found at i:30315739 original size:24 final size:24
Alignment explanation
Indices: 30315689--30315754 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
30315679 ATGCGAATAC
* *
30315689 ACATAAATGATTTTCATTGAACTT
1 ACATAAATGATCTTGATTGAACTT
*
30315713 ACATAAATGATCTTGATTG-ATTAT
1 ACATAAATGATCTTGATTGAACT-T
* *
30315737 ACATGAATAATCTTGATT
1 ACATAAATGATCTTGATT
30315755 AAATTCTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 2 0.06
24 34 0.94
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (24 bp):
ACATAAATGATCTTGATTGAACTT
Found at i:30320948 original size:40 final size:40
Alignment explanation
Indices: 30320911--30321135 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
30320901 GCTACTCGTT
* *
30320911 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
30320951 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
30320991 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
30321031 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
30321070 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
30321111 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30321136 CATCATTCAA
Statistics
Matches: 172, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
38 3 0.02
39 31 0.18
40 125 0.73
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30321119 original size:79 final size:79
Alignment explanation
Indices: 30320878--30321135 Score: 333
Period size: 80 Copynumber: 3.3 Consensus size: 79
30320868 AAATCACGTA
* * * ** * *
30320878 CCTTCGGAATTTAA-CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
30320942 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* *
30320957 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
30321022 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* *
30321037 CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGG
1 CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAG
* *
30321101 TCACTTAGCACAAA-G
65 TAAC-TCGCACAAATG
*
30321116 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
30321136 CATCATTCAA
Statistics
Matches: 159, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
78 3 0.02
79 66 0.42
80 90 0.57
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:30328951 original size:40 final size:40
Alignment explanation
Indices: 30328914--30329139 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
30328904 GCTACTCGTT
* *
30328914 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
30328954 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
30328994 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
30329034 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
** * * * *
30329074 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
30329115 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30329140 CATCATTCAA
Statistics
Matches: 171, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
39 10 0.06
40 144 0.84
41 17 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30330537 original size:56 final size:56
Alignment explanation
Indices: 30330438--30330552 Score: 196
Period size: 56 Copynumber: 2.1 Consensus size: 56
30330428 GTCTACCATG
*
30330438 CTTGTCATGGCCGGCCACTACTAATTAAGGGGGGAAATCTGACATGCATGTCCCCC
1 CTTGTCATGGCCGGCCACTACTAATTAAGGGGGGAAATCTGACATGCAAGTCCCCC
*
30330494 CTTGTCATTGGCCGGCCACTACTAATTAAGGGGGG-AATTTGACATGCAAGTCCCCC
1 CTTGTCA-TGGCCGGCCACTACTAATTAAGGGGGGAAATCTGACATGCAAGTCCCCC
30330550 CTT
1 CTT
30330553 TTTATTTCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
56 29 0.52
57 27 0.48
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (56 bp):
CTTGTCATGGCCGGCCACTACTAATTAAGGGGGGAAATCTGACATGCAAGTCCCCC
Found at i:30331203 original size:11 final size:11
Alignment explanation
Indices: 30331167--30331214 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
30331157 CCCTCATTAC
30331167 TTTT-ATTTAT
1 TTTTCATTTAT
*
30331177 TTATTTATTTCA-
1 TT-TTCATTT-AT
30331189 TTTTCATTTAT
1 TTTTCATTTAT
30331200 TTTTCATTTAT
1 TTTTCATTTAT
30331211 TTTT
1 TTTT
30331215 AGTTATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 3 0.09
11 23 0.70
12 6 0.18
13 1 0.03
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTCATTTAT
Found at i:30332749 original size:45 final size:45
Alignment explanation
Indices: 30332658--30332750 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
30332648 TACTATGTGA
** **
30332658 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGCTTCC
1 ACCGAACATCATTGATTAAAAAGGTGGTTGCTATGTGCTGAATCC
*
30332703 ACCGGACATCATTGATTAAAAAGGTGGTTTG-TATGTGCTGAATCC
1 ACCGAACATCATTGATTAAAAAGGTGG-TTGCTATGTGCTGAATCC
30332748 ACC
1 ACC
30332751 AAGTATCTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 39 0.93
46 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:30340398 original size:40 final size:40
Alignment explanation
Indices: 30340343--30340502 Score: 214
Period size: 40 Copynumber: 4.0 Consensus size: 40
30340333 TTATACTCTC
*
30340343 TGTTTGGCATGTTTCGGTTGGATCAGCTCTTATGAGCTTT
1 TGTTTGGCATGTTTCGATTGGATCAGCTCTTATGAGCTTT
* * * *
30340383 TGTTTGACGTGTTTCGATTGGATCAACTCTTATAAGCTTT
1 TGTTTGGCATGTTTCGATTGGATCAGCTCTTATGAGCTTT
** * *
30340423 TGTTTGGTGTGTTTCGATTGGATTAGCTCTTATGGGCTTT
1 TGTTTGGCATGTTTCGATTGGATCAGCTCTTATGAGCTTT
* *
30340463 TGTTTGGCATGTTTCAATTGGATTAGCTCTTATGAG-TTT
1 TGTTTGGCATGTTTCGATTGGATCAGCTCTTATGAGCTTT
30340502 T
1 T
30340503 ATTTTTGTGT
Statistics
Matches: 105, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 4 0.04
40 101 0.96
ACGTcount: A:0.15, C:0.12, G:0.25, T:0.47
Consensus pattern (40 bp):
TGTTTGGCATGTTTCGATTGGATCAGCTCTTATGAGCTTT
Found at i:30340476 original size:80 final size:79
Alignment explanation
Indices: 30340343--30340521 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 79
30340333 TTATACTCTC
** * * *
30340343 TGTTTGGCATGTTTCGGTTGGATCAGCTCTTATGAGCTTTTGTTTGACGTGTTTCGATTGGATCA
1 TGTTTGGTGTGTTTCGATTGGATCAGCTCTTATGAGCTTTTGTTTGACATGTTTCAATTGGATCA
30340408 ACTCTTATAAGCTTT
66 ACTCTTATAAG-TTT
* * * *
30340423 TGTTTGGTGTGTTTCGATTGGATTAGCTCTTATGGGCTTTTGTTTGGCATGTTTCAATTGGATTA
1 TGTTTGGTGTGTTTCGATTGGATCAGCTCTTATGAGCTTTTGTTTGACATGTTTCAATTGGATCA
* *
30340488 GCTCTTATGAGTTT
66 ACTCTTATAAGTTT
* *
30340502 TATTT-TTGTGTGTTCGATTG
1 TGTTTGGTGTGT-TTCGATTG
30340522 ATTTAACGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
78 5 0.06
79 15 0.18
80 65 0.76
ACGTcount: A:0.15, C:0.12, G:0.25, T:0.49
Consensus pattern (79 bp):
TGTTTGGTGTGTTTCGATTGGATCAGCTCTTATGAGCTTTTGTTTGACATGTTTCAATTGGATCA
ACTCTTATAAGTTT
Found at i:30344787 original size:50 final size:50
Alignment explanation
Indices: 30344712--30345042 Score: 470
Period size: 50 Copynumber: 6.6 Consensus size: 50
30344702 ATTTGGGTAA
30344712 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGAGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGAGTTGGCACCGAGATG
30344762 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG-AGTTGGCACCGAGATG
* *
30344812 AAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGAGTTGGCACCGAGATG
* * * *
30344862 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGAGTTGGCACCGAGATG
* *
30344912 AGAGGTCCCATGTAAGACCATGTCTGGGACAT-GACGTTGGCACTGAGGTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGA-GTTGGCACCGAGATG
** * * *
30344962 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCA-TGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG-AGTTGGCACCGAGATG
**
30345012 AGAACATCCCATGTAAGACCATGTCTGGGAC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGAC
30345043 CTAGCTTTAG
Statistics
Matches: 253, Mismatches: 22, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.00
50 226 0.89
51 25 0.10
52 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGAGTTGGCACCGAGATG
Found at i:30352068 original size:50 final size:50
Alignment explanation
Indices: 30351990--30352226 Score: 281
Period size: 50 Copynumber: 4.8 Consensus size: 50
30351980 ATTTAAGTAA
* * *
30351990 AGAGGTCCCATATAAGACCACGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* ** *
30352040 AGAGGTCCCATGTAAGACCATGTTTGGGACATAACATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
30352090 AGAGGTCCCATGTATGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
30352140 AGAGGTTCC-TCGTAAGACCATGTCTGGGACATGGC-ATGG-A--TATG-TG
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATG
** *
30352186 A-ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
30352227 TGTTATTATC
Statistics
Matches: 162, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
45 28 0.17
46 8 0.05
47 2 0.01
48 1 0.01
49 4 0.02
50 119 0.73
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:30358833 original size:10 final size:11
Alignment explanation
Indices: 30358809--30358837 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
30358799 CTTTGGTATG
30358809 TATTTTTAATC
1 TATTTTTAATC
30358820 TATTTTTAAT-
1 TATTTTTAATC
30358830 TATTTTTA
1 TATTTTTA
30358838 TATTTTTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TATTTTTAATC
Found at i:30359448 original size:31 final size:31
Alignment explanation
Indices: 30359413--30359552 Score: 190
Period size: 31 Copynumber: 4.5 Consensus size: 31
30359403 GTATACGTTT
* *
30359413 TATACATTGCCAAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
30359444 TATACATTGCCGAATTTGATTTTTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* ** **
30359475 TATTCATTATCGAATTTGATTTGTATATAAA
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
30359506 TATACATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
30359537 TATATATTGCCGAATT
1 TATACATTGCCGAATT
30359553 GACTTGAGCA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 93 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATGGA
Found at i:30369310 original size:31 final size:31
Alignment explanation
Indices: 30369276--30369421 Score: 195
Period size: 31 Copynumber: 4.7 Consensus size: 31
30369266 GTATATGTTT
* *
30369276 TATACATTGCCGAATTTGATTTGTATATAGT
1 TATACATTGTCGAATTTGATTTGTATATAGA
* *
30369307 TATACATTGTCAAATTTGATTTGTATATGGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
*
30369338 TATTCATTGTCGAATTTGATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
** * *
30369369 TATACATTACCGAATTTGATTCGTATATGGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
*
30369400 TATATATTGTCGAA-TTGATTTG
1 TATACATTGTCGAATTTGATTTG
30369422 AGCATTGATG
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
30 7 0.07
31 92 0.93
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.45
Consensus pattern (31 bp):
TATACATTGTCGAATTTGATTTGTATATAGA
Found at i:30399510 original size:20 final size:22
Alignment explanation
Indices: 30399468--30399510 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
30399458 AGCTTGTGTT
* *
30399468 AATATGGTGTTTTTATGCTTAA
1 AATATGGTGTTTTTAAGCGTAA
30399490 AATA-GGTGTTTTTAAG-GTAA
1 AATATGGTGTTTTTAAGCGTAA
30399510 A
1 A
30399511 CAATAAGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (22 bp):
AATATGGTGTTTTTAAGCGTAA
Found at i:30399515 original size:22 final size:22
Alignment explanation
Indices: 30399468--30399515 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
30399458 AGCTTGTGTT
* *
30399468 AATATGGTGTTTTTATGCTTAA
1 AATATGGTGTTTTTAAGCTAAA
*
30399490 AATA-GGTGTTTTTAAGGTAAA
1 AATATGGTGTTTTTAAGCTAAA
30399511 CAATA
1 -AATA
30399516 AGGTATTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (22 bp):
AATATGGTGTTTTTAAGCTAAA
Found at i:30412108 original size:14 final size:14
Alignment explanation
Indices: 30412089--30412115 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30412079 GAGGTCCAGT
30412089 TGAACTGAACCGAG
1 TGAACTGAACCGAG
30412103 TGAACTGAACCGA
1 TGAACTGAACCGA
30412116 CCAAGAAATG
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:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:30416464 original size:16 final size:17
Alignment explanation
Indices: 30416429--30416462 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30416419 CACATCTTTC
30416429 CTCTCTTCTCTCCATTTT
1 CTCTCTTCTCTCCA-TTT
*
30416447 CTCTCTTCTTTCCATT
1 CTCTCTTCTCTCCATT
30416463 CTAAAATTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 2 0.13
18 13 0.87
ACGTcount: A:0.06, C:0.38, G:0.00, T:0.56
Consensus pattern (17 bp):
CTCTCTTCTCTCCATTT
Found at i:30417158 original size:35 final size:35
Alignment explanation
Indices: 30417129--30417199 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
30417119 TATTTCGATT
30417129 TAATAAGTATGTATGTGCAATAACATATTTGTCTA
1 TAATAAGTATGTATGTGCAATAACATATTTGTCTA
30417164 TAATAAGTATGTATGTGCAATAACATATTTGTCTA
1 TAATAAGTATGTATGTGCAATAACATATTTGTCTA
30417199 T
1 T
30417200 TAAGATTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (35 bp):
TAATAAGTATGTATGTGCAATAACATATTTGTCTA
Found at i:30419260 original size:50 final size:50
Alignment explanation
Indices: 30419147--30419339 Score: 287
Period size: 50 Copynumber: 3.8 Consensus size: 50
30419137 GATAATAACA
* * * ** *
30419147 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
30419198 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
30419248 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
30419298 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30419340 TTACCAAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 98 0.76
51 31 0.24
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:30427083 original size:22 final size:22
Alignment explanation
Indices: 30427058--30427103 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
30427048 CAAACCGAAA
* *
30427058 CACCACTATACAACCACCATAG
1 CACCACCACACAACCACCATAG
*
30427080 CACCACCACACCACCACCATAG
1 CACCACCACACAACCACCATAG
30427102 CA
1 CA
30427104 TAACCATATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.48, G:0.04, T:0.09
Consensus pattern (22 bp):
CACCACCACACAACCACCATAG
Found at i:30427084 original size:11 final size:11
Alignment explanation
Indices: 30427070--30427130 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
30427060 CCACTATACA
30427070 ACCACCATAGC
1 ACCACCATAGC
* *
30427081 ACCACCACACC
1 ACCACCATAGC
30427092 ACCACCATAGC
1 ACCACCATAGC
** *
30427103 ATAACCATATC
1 ACCACCATAGC
* *
30427114 ACCACCCTTGC
1 ACCACCATAGC
30427125 ACCACC
1 ACCACC
30427131 TCCACAGCTG
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.34, C:0.49, G:0.05, T:0.11
Consensus pattern (11 bp):
ACCACCATAGC
Found at i:30429696 original size:15 final size:16
Alignment explanation
Indices: 30429676--30429706 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30429666 GTCACATCTC
30429676 AAAAATT-GGGTTAGT
1 AAAAATTGGGGTTAGT
30429691 AAAAATTGGGGTTAGT
1 AAAAATTGGGGTTAGT
30429707 GAACCAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (16 bp):
AAAAATTGGGGTTAGT
Found at i:30430379 original size:11 final size:10
Alignment explanation
Indices: 30430361--30430410 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 10
30430351 AAAAATTGAA
30430361 ACACCACCAT
1 ACACCACCAT
30430371 ACAACCACCAT
1 AC-ACCACCAT
*
30430382 AGCACCACCAC
1 A-CACCACCAT
30430393 ACCACCACCAT
1 A-CACCACCAT
30430404 AGCACCA
1 A-CACCA
30430411 TCGTATCACC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 2 0.06
11 31 0.91
12 1 0.03
ACGTcount: A:0.40, C:0.50, G:0.04, T:0.06
Consensus pattern (10 bp):
ACACCACCAT
Found at i:30430423 original size:22 final size:22
Alignment explanation
Indices: 30430362--30430410 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
30430352 AAAATTGAAA
* *
30430362 CACCACCATACAACCACCATAG
1 CACCACCACACCACCACCATAG
30430384 CACCACCACACCACCACCATAG
1 CACCACCACACCACCACCATAG
30430406 CACCA
1 CACCA
30430411 TCGTATCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.51, G:0.04, T:0.06
Consensus pattern (22 bp):
CACCACCACACCACCACCATAG
Found at i:30434721 original size:48 final size:47
Alignment explanation
Indices: 30434652--30434742 Score: 146
Period size: 48 Copynumber: 1.9 Consensus size: 47
30434642 TTATCTACGA
* *
30434652 TTATGTGGTCGTTATTGGCAATCATGTGGTGGCTTGTCCACAATATC
1 TTATGTGGCCGTTATTAGCAATCATGTGGTGGCTTGTCCACAATATC
*
30434699 TTATGTGGCCGTTTATTAGCAATTATGTGGTGGCTTGTCCACAA
1 TTATGTGGCCG-TTATTAGCAATCATGTGGTGGCTTGTCCACAA
30434743 ATTGTGTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 10 0.25
48 30 0.75
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.38
Consensus pattern (47 bp):
TTATGTGGCCGTTATTAGCAATCATGTGGTGGCTTGTCCACAATATC
Found at i:30436571 original size:49 final size:50
Alignment explanation
Indices: 30436518--30436747 Score: 246
Period size: 49 Copynumber: 4.8 Consensus size: 50
30436508 GGTGGAAGTA
*
30436518 AGTGGCAATTTATCTACAAATCAGTGGTGGCTTGTCCACAAAGTGTT-TC
1 AGTGGCAATTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATC
* * * *
30436567 AGTGGCAGTATATCTGC--AT-ATTAGTGG--T-TCCACAAAGTGTTATC
1 AGTGGCAATTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATC
30436611 AGTGG-AAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTT-TC
1 AGTGGCAA-TTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATC
* * ** * * *
30436660 AATGGCAGTACATTTGCATATCAGTGGTGGCTTGTCCACAAAGTGTTATT
1 AGTGGCAATTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATC
**
30436710 AGTGG-AAGTTTATCTGCAAATCAGTGGTCACTTGTCCA
1 AGTGGCAA-TTTATCTGCAAATCAGTGGTGGCTTGTCCA
30436748 TAAATTGAGT
Statistics
Matches: 146, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
43 14 0.10
44 16 0.11
46 8 0.05
47 8 0.05
49 57 0.39
50 43 0.29
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (50 bp):
AGTGGCAATTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATC
Found at i:30436633 original size:93 final size:96
Alignment explanation
Indices: 30436518--30436747 Score: 324
Period size: 93 Copynumber: 2.4 Consensus size: 96
30436508 GGTGGAAGTA
* * *
30436518 AGTGGCAA-TTTATCTACAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAGTGGCAGTATATCT
1 AGTGG-AAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAATGGCAGTACATCT
30436582 GCATAT-TAGTGG-T-TCCACAAAGTGTTATC
65 GCATATATAGTGGCTGTCCACAAAGTGTTATC
*
30436611 AGTGGAAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAATGGCAGTACATTTG
1 AGTGGAAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAATGGCAGTACATCTG
* *
30436676 CATATCAGTGGTGGCTTGTCCACAAAGTGTTATT
66 CATAT-A-TAGTGGC-TGTCCACAAAGTGTTATC
**
30436710 AGTGGAAGTTTATCTGCAAATCAGTGGTCACTTGTCCA
1 AGTGGAAGTTTATCTGCAAATCAGTGGTGGCTTGTCCA
30436748 TAAATTGAGT
Statistics
Matches: 122, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
92 2 0.02
93 63 0.52
96 5 0.04
98 1 0.01
99 51 0.42
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (96 bp):
AGTGGAAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAATGGCAGTACATCTG
CATATATAGTGGCTGTCCACAAAGTGTTATC
Found at i:30442280 original size:9 final size:9
Alignment explanation
Indices: 30442266--30442293 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
30442256 TGAGCTTTTG
30442266 AATTCGAAT
1 AATTCGAAT
30442275 AATTCGAAT
1 AATTCGAAT
30442284 AATTCGAAT
1 AATTCGAAT
30442293 A
1 A
30442294 TCAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30443424 original size:5 final size:5
Alignment explanation
Indices: 30443414--30443444 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
30443404 GAACAAATAT
30443414 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
30443445 ATTCCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:30443468 original size:207 final size:201
Alignment explanation
Indices: 30443168--30443576 Score: 692
Period size: 207 Copynumber: 2.0 Consensus size: 201
30443158 GACAATGGTT
* *
30443168 ACAAGGACCCAAATTTTTTTTTTAAATTTAACTCGAACAAATATATTTGATTCGATTCGATTCGA
1 ACAAGGACCCAAATTATTTTTTAAAATTTAACTCGAACAAATATATTTGATTCGATTCGATTCGA
30443233 TTCGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAATGA
66 TTCGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAATGA
* * *
30443298 GATTCAAAAACTCGATTAACTCAAAATTTTTCAATTCGATTTGATTCGATTCGATCGAATGCTCA
131 GATTCAAAAACTCGATTAACTCAAAAATTTTCAATTCGATTCGATTCGATTCGATCGAATACTCA
30443363 CCCCTA
196 CCCCTA
30443369 ACAAGGACCCAAAATTATTTTTTAAAATTTAACTCGAACAAATATATTCGATTCGATTCGATTCG
1 ACAAGGACCC-AAATTATTTTTTAAAATTTAACTCGAACAAATATA-T---TT-GATTCGATTCG
30443434 ATTCGATTCGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATA
60 ATTCGATTCGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATA
** *
30443499 AAATGAGATTTGAAAACTCGATTAACTCAAAAATTTTCGATTCGATTCGATTCGATTCGATCGAA
125 AAATGAGATTCAAAAACTCGATTAACTCAAAAATTTTCAATTCGATTCGATTCGATTCGATCGAA
30443564 TACTCACCCCTA
190 TACTCACCCCTA
30443576 A
1 A
30443577 TTGAATATAC
Statistics
Matches: 194, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
201 10 0.05
202 33 0.17
203 1 0.01
206 2 0.01
207 148 0.76
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (201 bp):
ACAAGGACCCAAATTATTTTTTAAAATTTAACTCGAACAAATATATTTGATTCGATTCGATTCGA
TTCGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAATGA
GATTCAAAAACTCGATTAACTCAAAAATTTTCAATTCGATTCGATTCGATTCGATCGAATACTCA
CCCCTA
Found at i:30443544 original size:5 final size:5
Alignment explanation
Indices: 30443534--30443559 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30443524 CTCAAAAATT
30443534 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
30443560 CGAATACTCA
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:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:30445356 original size:32 final size:32
Alignment explanation
Indices: 30445299--30445371 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
30445289 TTTTGATCAA
*
30445299 TTCAAGTACCAACTAGGTTCTTTTTGGACAAG
1 TTCAAGTACCAACTAGGTTCATTTTGGACAAG
* *
30445331 TTCAAGTACCAACTAGGTAT-ATTTTGTATAAG
1 TTCAAGTACCAACTAGGT-TCATTTTGGACAAG
*
30445363 TTTAAGTAC
1 TTCAAGTAC
30445372 TAATTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (32 bp):
TTCAAGTACCAACTAGGTTCATTTTGGACAAG
Found at i:30446691 original size:24 final size:23
Alignment explanation
Indices: 30446637--30446683 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
30446627 AAGAAGAGAC
30446637 TGAGTTTTTCTGAGCTGGGTTGT
1 TGAGTTTTTCTGAGCTGGGTTGT
30446660 TGAGTTTTTCTGAGCTGGGTTGT
1 TGAGTTTTTCTGAGCTGGGTTGT
30446683 T
1 T
30446684 CTTGTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.09, C:0.09, G:0.34, T:0.49
Consensus pattern (23 bp):
TGAGTTTTTCTGAGCTGGGTTGT
Found at i:30455074 original size:13 final size:14
Alignment explanation
Indices: 30455057--30455100 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
30455047 TGTTTCAATT
30455057 TAATTTTAATAATA
1 TAATTTTAATAATA
*
30455071 -AATTTTAAAAATAA
1 TAATTTTAATAAT-A
30455085 TAATTTTAAATAATA
1 TAATTTT-AATAATA
30455100 T
1 T
30455101 TCTTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 11 0.44
14 1 0.04
15 8 0.32
16 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTTTAATAATA
Found at i:30455085 original size:16 final size:16
Alignment explanation
Indices: 30455063--30455099 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
30455053 AATTTAATTT
30455063 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
30455080 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
30455095 TAATA
1 TAATA
30455100 TTCTTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:30455109 original size:29 final size:27
Alignment explanation
Indices: 30455057--30455112 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
30455047 TGTTTCAATT
30455057 TAATTTTAATAATAAATTTTAAAAATAA
1 TAATTTTAATAAT-AATTTTAAAAATAA
30455085 TAATTTTAAATAAT-ATTCTTCAAAAATA
1 TAATTTT-AATAATAATT-TT-AAAAATA
30455113 TTAAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 3 0.12
28 9 0.36
29 13 0.52
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (27 bp):
TAATTTTAATAATAATTTTAAAAATAA
Found at i:30459458 original size:21 final size:21
Alignment explanation
Indices: 30459434--30459475 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
30459424 TTTATAGATG
*
30459434 CCTTTGTTTTCTGTTGAAAAT
1 CCTTTGTTCTCTGTTGAAAAT
*
30459455 CCTTTGTTCTCTTTTGAAAAT
1 CCTTTGTTCTCTGTTGAAAAT
30459476 AAACAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (21 bp):
CCTTTGTTCTCTGTTGAAAAT
Found at i:30461186 original size:28 final size:29
Alignment explanation
Indices: 30461154--30461218 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
30461144 AATAAAAATT
* *
30461154 ATTTTACG-AGTCTAGGGGCAAAATCATA
1 ATTTTACGAACTCTAGGGGCAAAAACATA
** *
30461182 ATTTTGTGAAACTTTAGGGGCAAAAACATA
1 ATTTTACG-AACTCTAGGGGCAAAAACATA
30461212 ATTTTAC
1 ATTTTAC
30461219 CAAAGTATGA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
28 6 0.21
30 22 0.79
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (29 bp):
ATTTTACGAACTCTAGGGGCAAAAACATA
Found at i:30461575 original size:101 final size:102
Alignment explanation
Indices: 30461455--30461639 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
30461445 AAAGTGATGG
*
30461455 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
30461518 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * *
30461556 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
30461621 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
30461640 TGAACCGAAC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 6 0.08
101 38 0.49
102 34 0.44
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:30461577 original size:51 final size:51
Alignment explanation
Indices: 30461451--30461646 Score: 227
Period size: 51 Copynumber: 3.9 Consensus size: 51
30461441 AGTGAAAGTG
* * *
30461451 ATGGTCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * *
30461500 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * * *
30461551 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* *
30461603 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
30461647 AACATCATTG
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.32
51 79 0.65
52 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:30461641 original size:26 final size:26
Alignment explanation
Indices: 30461561--30461641 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
30461551 TTCGATCACG
30461561 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
30461587 CGTGTA-T-CGAATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
30461612 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
30461638 TGTG
1 TGTG
30461642 AACCGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:30461699 original size:45 final size:45
Alignment explanation
Indices: 30461643--30461737 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
30461633 TACTATGTGA
* * *
30461643 ACCGAACATCATTGATTAGTAAAGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
* *
30461688 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
30461733 ACCGA
1 ACCGA
30461738 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
Found at i:30466206 original size:2 final size:2
Alignment explanation
Indices: 30466201--30466225 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30466191 ATATATGCGA
30466201 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
30466226 TGTAATAACC
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:30468925 original size:41 final size:41
Alignment explanation
Indices: 30468879--30468992 Score: 158
Period size: 41 Copynumber: 2.8 Consensus size: 41
30468869 ATACTTAATT
*
30468879 ATACCCTTGAATTGCACATATGTGCCCCTGTTTGTACTTCG
1 ATACCCTTGAATTGCACATACGTGCCCCTGTTTGTACTTCG
* *
30468920 ATACCCTTGAATTGCACATACATGCCCCTATTTGTACTTCG
1 ATACCCTTGAATTGCACATACGTGCCCCTGTTTGTACTTCG
* * * *
30468961 GTACCCCT-AATTGCATATACGTGCCCATGTTT
1 ATACCCTTGAATTGCACATACGTGCCCCTGTTT
30468993 ACAGTCCAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
40 20 0.31
41 44 0.69
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (41 bp):
ATACCCTTGAATTGCACATACGTGCCCCTGTTTGTACTTCG
Found at i:30482406 original size:15 final size:14
Alignment explanation
Indices: 30482388--30482421 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30482378 TGTTCTTCTC
30482388 TTTTTTGTTTTCTTT
1 TTTTTTG-TTTCTTT
*
30482403 TTTTTTGTTTGTTT
1 TTTTTTGTTTCTTT
30482417 TTTTT
1 TTTTT
30482422 CTCGAGCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (14 bp):
TTTTTTGTTTCTTT
Found at i:30485330 original size:16 final size:15
Alignment explanation
Indices: 30485305--30485338 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30485295 AAAGTTGATA
*
30485305 ATAATTAATATATATT
1 ATAATAAATATA-ATT
30485321 ATAATAAATATAATT
1 ATAATAAATATAATT
30485336 ATA
1 ATA
30485339 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Done.