Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2275
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: 181829
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:88 original size:19 final size:18
Alignment explanation
Indices: 60--98 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
50 AAACAAAAAA
60 TTTAAATGTATCGAACAT
1 TTTAAATGTATCGAACAT
*
78 TTTAGAATGTATCGATCAT
1 TTTA-AATGTATCGAACAT
97 TT
1 TT
99 GTGGAATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (18 bp):
TTTAAATGTATCGAACAT
Found at i:213 original size:32 final size:32
Alignment explanation
Indices: 177--237 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
167 TTCAACAATT
*
177 TGTATCG-ATACATAAGTTTTTGTATCGATCAA
1 TGTATCGCATACATAAG-TATTGTATCGATCAA
209 TGTATCGCATACATAAGTATTGTATCGAT
1 TGTATCGCATACATAAGTATTGTATCGAT
238 ACATATTAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGCATACATAAGTATTGTATCGATCAA
Found at i:4225 original size:34 final size:34
Alignment explanation
Indices: 4156--4374 Score: 260
Period size: 34 Copynumber: 6.5 Consensus size: 34
4146 AAGTGGGAGA
* * *
4156 ATTGTTGATTAAAT-GGTGATTTGATAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
4189 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
4223 ATTGTTGACTAAATGGAAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
4257 ATTGTTGATTAAATGGGAAATTTGGCAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
4291 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACT
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * * *
4325 ATTATTGACTAAATGGGAGATTTAGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
4359 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
4375 TGGTTTTTAC
Statistics
Matches: 157, Mismatches: 28, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
33 14 0.09
34 143 0.91
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:4301 original size:102 final size:101
Alignment explanation
Indices: 4156--4376 Score: 318
Period size: 102 Copynumber: 2.2 Consensus size: 101
4146 AAGTGGGAGA
* * * *
4156 ATTGTTGATTAAATGGTGATTTGATAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGACAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
* *
4221 CCATTGTTGACTAAATGGAAGATTTGGTAGCTTACC
66 CCATTATTGACTAAATGGAAGATTTAGTAGCTTACC
*
4257 ATTGTTGATTAAATGG-GAAATTTGGCAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
1 ATTGTTGATTAAATGGTG--ATTTGACAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
* * * *
4321 TACTATTATTGACTAAATGGGAGATTTAGTAGGTTGCC
64 TACCATTATTGACTAAATGGAAGATTTAGTAGCTTACC
4359 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
4377 GTTTTTACCA
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
100 1 0.01
101 16 0.15
102 88 0.83
103 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTGACAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
CCATTATTGACTAAATGGAAGATTTAGTAGCTTACC
Found at i:5570 original size:8 final size:8
Alignment explanation
Indices: 5559--5616 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
5549 AGAGAGAGAG
*
5559 AGAAAAGA
1 AGAAAAAA
5567 AGAAAAGAA
1 AGAAAA-AA
5576 AGAAAAAAA
1 AG-AAAAAA
5585 AGAAAAAA
1 AGAAAAAA
5593 AGAAAGAAAA
1 AG-AA-AAAA
* *
5603 AGAGAGAA
1 AGAAAAAA
5611 AGAAAA
1 AGAAAA
5617 TTTTATATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 21 0.51
9 10 0.24
10 10 0.24
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:5585 original size:21 final size:21
Alignment explanation
Indices: 5561--5603 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5551 AGAGAGAGAG
*
5561 AAAAGAAGAAAAGAAAGAAAA
1 AAAAGAAAAAAAGAAAGAAAA
5582 AAAAGAAAAAAAGAAAGAAAA
1 AAAAGAAAAAAAGAAAGAAAA
5603 A
1 A
5604 GAGAGAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAAAGAAAGAAAA
Found at i:5587 original size:18 final size:18
Alignment explanation
Indices: 5561--5616 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
5551 AGAGAGAGAG
*
5561 AAAAGAAGAAAAGAAAGA
1 AAAAAAAGAAAAGAAAGA
5579 AAAAAAAGAAAA-AAAGA
1 AAAAAAAGAAAAGAAAGA
*
5596 AAGAAAAAG-AGAGAAAGA
1 AA-AAAAAGAAAAGAAAGA
5614 AAA
1 AAA
5617 TTTTATATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 10 0.29
18 24 0.71
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAGAAAGA
Found at i:6417 original size:20 final size:20
Alignment explanation
Indices: 6379--6429 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6369 TTTTTTTGTG
* * *
6379 TTTTTATGTATTTATATTAT
1 TTTTTATTTATTCAAATTAT
6399 TTTTTATTTATTCAAATTAT
1 TTTTTATTTATTCAAATTAT
* *
6419 TATATATTTAT
1 TTTTTATTTAT
6430 ATAAATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTATTTATTCAAATTAT
Found at i:6435 original size:20 final size:20
Alignment explanation
Indices: 6403--6463 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
6393 TATTATTTTT
6403 TATTTAT-TCAAATTATTATA
1 TATTTATAT-AAATTATTATA
* *
6423 TATTTATATAAATTTTTAAA
1 TATTTATATAAATTATTATA
* *
6443 TA-TTA-ATAATTTATTTTA
1 TATTTATATAAATTATTATA
6461 TAT
1 TAT
6464 AGATTTTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 11 0.33
19 3 0.09
20 18 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTATATAAATTATTATA
Found at i:6644 original size:17 final size:17
Alignment explanation
Indices: 6618--6650 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6608 TTAAACTCAG
*
6618 TTATATAAAATATTAAA
1 TTATAAAAAATATTAAA
6635 TTATAAAAAATATTAA
1 TTATAAAAAATATTAA
6651 GAAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTATAAAAAATATTAAA
Found at i:6719 original size:26 final size:27
Alignment explanation
Indices: 6668--6727 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
6658 ATAATTTTTT
6668 AATA-TAATTTAACTTAAATTTGTATA
1 AATATTAATTTAACTTAAATTTGTATA
*
6694 ATTATTAATTTAA-TTAAATATT-TATA
1 AATATTAATTTAACTTAAAT-TTGTATA
6720 AATATTAA
1 AATATTAA
6728 AAATCTCCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
AATATTAATTTAACTTAAATTTGTATA
Found at i:15455 original size:16 final size:17
Alignment explanation
Indices: 15427--15465 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
15417 AATTTCATGC
15427 TATTTTTGCTTGTT-TT
1 TATTTTTGCTTGTTCTT
15443 TATTGTTTG-TTGTTCTT
1 TATT-TTTGCTTGTTCTT
15460 TATTTT
1 TATTTT
15466 CCAATTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.08, C:0.05, G:0.13, T:0.74
Consensus pattern (17 bp):
TATTTTTGCTTGTTCTT
Found at i:15964 original size:16 final size:15
Alignment explanation
Indices: 15943--15973 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
15933 GATTTCCATA
15943 AAAATAATAACAAAAT
1 AAAATAATAA-AAAAT
15959 AAAATAATAAAAAAT
1 AAAATAATAAAAAAT
15974 TATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAATAAAAAAT
Found at i:28528 original size:42 final size:42
Alignment explanation
Indices: 28475--29098 Score: 482
Period size: 42 Copynumber: 14.6 Consensus size: 42
28465 CTTTTTTGTT
* ***
28475 TTCCCTTAGTCTACCTGTTAACTTCGTCCTTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTTTC
* * * * *
28517 TTTCTTTAGTCTGCCTGCCGGTTTCGTCCTTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTTTC
* *
28559 TTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTTTC
** * * ** * *
28601 AACCCTCAATCTATCTATCGGCTTTGAT-CTTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCG-TCCTTGGAGACTTTTC
* * * * *
28643 TTTCTTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTATTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGAC---T-TTT-C
*
28690 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTTTC
* * * *
28732 ATCCCTCAGTCTGTCTGTCGGCTTTGATCC-TGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCG-TCCTTGGAGACTTTTC
* * * * * *
28774 TTTCTTTAGTCTACTTGTCGGCTTCGTTCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCG-TCCTTGGAGACTTTTC
* * *
28817 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGAAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTTTC
** * *
28859 AACCCTCAGTCTGCCTGTCGGCTTCGTCCCTGGAGA-TTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTTT-C
* * * *
28901 TTCCCTTAGTCTACCTGTCGGCTTCATCCCTGGAGATTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTTTC
** * * * * *
28943 AACCCTCAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTTTC
* * *
28985 TTTTCATCCCTTAGTCTGCCTGTCAGCTTTGATCC-TGGAGACTTTTA
1 ---T--TCCCTTAGTCTGCCTGTCGGCTTCG-TCCTTGGAGACTTTTC
* * * * * * *
29032 TTTCCTCATTCTGCCTGTCGGCTTTGACCTTAGAGGCTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTTTC
* * *
29074 TTTCCCTAAGTTTGCCTGTTGGCTT
1 -TTCCCTTAGTCTGCCTGTCGGCTT
29099 TGACTTGGGA
Statistics
Matches: 466, Mismatches: 97, Indels: 37
0.78 0.16 0.06
Matches are distributed among these distances:
41 6 0.01
42 322 0.69
43 64 0.14
44 2 0.00
45 1 0.00
46 3 0.01
47 66 0.14
48 2 0.00
ACGTcount: A:0.12, C:0.30, G:0.19, T:0.40
Consensus pattern (42 bp):
TTCCCTTAGTCTGCCTGTCGGCTTCGTCCTTGGAGACTTTTC
Found at i:29052 original size:300 final size:299
Alignment explanation
Indices: 28496--29077 Score: 724
Period size: 300 Copynumber: 1.9 Consensus size: 299
28486 TACCTGTTAA
* * * * * * * * **
28496 CTTCGTCCTTGGAGACTTTTCTTTCTTTAGTCTGCCTGCCGGTTTCGTCCTTGGAGACTTTCCTT
1 CTTCGTCCCTGGAGACTTTCCTTCCCTTAGTCTACCTGCCGGCTTCGTCCCTGAAGACTTTCCAA
* *
28561 CCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTTCAACCCTCAATCTATCTATCGGCTTT
66 CCCTCAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTTCAACCCTCAATCTACCTATCGGCTTT
* * *** * * * *
28626 GATCTTGGAGACTTTTCTTTCTTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTATTTCCT
131 CATCCTGGAGACTTTTCAACCCTCAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTATTTCCA
* *
28691 TCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTCATCCCTCAGTCTGTCTGTCGGCTT
196 TCCCTTAGTCTGCCTGTCAGCTTCGTCCCTGGAGACTTTTCATCCCTCAGTCTGCCTGTCGGCTT
*
28756 TGATCC-TGGAGACTTTTCTTTCTTTAGTCTACTTGTCGG
261 TGA-CCTTAGAGACTTTTCTTTCTTTAGTCTACTTGTCGG
* *
28795 CTTCGTTCCCTGGAGACTTTCCTTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGAAGACTTTTCA
1 CTTCG-TCCCTGGAGACTTTCCTTCCCTTAGTCTACCTGCCGGCTTCGTCCCTGAAGACTTTCCA
* ** * * *
28860 ACCCTCAGTCTGCCTGTCGGCTTCGTCCCTGGAGA-TTTTCCTTCCCTTAGTCTACCTGTCGGC-
65 ACCCTCAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTT-CAACCCTCAATCTACCTATCGGCT
* *
28923 TTCATCCCTGGAGATTTTTCAACCCTCAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTCTTT
129 TTCAT-CCTGGAGACTTTTCAACCCTCAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTATTT
* * * *
28988 TCATCCCTTAGTCTGCCTGTCAGCTTTGAT-CCTGGAGACTTTT-ATTTCCTCATTCTGCCTGTC
193 CCATCCCTTAGTCTGCCTGTCAGCTTCG-TCCCTGGAGACTTTTCA-TCCCTCAGTCTGCCTGTC
*
29051 GGCTTTGACCTTAGAGGCTTTTCTTTC
256 GGCTTTGACCTTAGAGACTTTTCTTTC
29078 CCTAAGTTTG
Statistics
Matches: 238, Mismatches: 39, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
299 16 0.07
300 221 0.93
301 1 0.00
ACGTcount: A:0.12, C:0.30, G:0.19, T:0.40
Consensus pattern (299 bp):
CTTCGTCCCTGGAGACTTTCCTTCCCTTAGTCTACCTGCCGGCTTCGTCCCTGAAGACTTTCCAA
CCCTCAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTTCAACCCTCAATCTACCTATCGGCTTT
CATCCTGGAGACTTTTCAACCCTCAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTATTTCCA
TCCCTTAGTCTGCCTGTCAGCTTCGTCCCTGGAGACTTTTCATCCCTCAGTCTGCCTGTCGGCTT
TGACCTTAGAGACTTTTCTTTCTTTAGTCTACTTGTCGG
Found at i:30802 original size:16 final size:15
Alignment explanation
Indices: 30781--30811 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30771 GATTTCCATA
30781 AAAATAATAACAAAAT
1 AAAATAATAA-AAAAT
30797 AAAATAATAAAAAAT
1 AAAATAATAAAAAAT
30812 TCTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAATAAAAAAT
Found at i:35341 original size:165 final size:163
Alignment explanation
Indices: 35035--35467 Score: 444
Period size: 165 Copynumber: 2.6 Consensus size: 163
35025 TGTATCAATA
* * * *
35035 TTTTTCATATAAATAGGAATCTGATTCTCA-CAAGCAATCTATGCATTAATCACATTTATTTCAA
1 TTTTTTATATAAA-A-GAATCTGATTCTCATTAAG-AATCTATGCATTTATCATATTTA-TTCAA
* ** * * **
35099 AATAGAATTCATGCATTAGTCTCAAATTTAAAATTCCAATCTATCAACTAGTCTATTCCTTGCGG
62 AAAAGAATTCATGCATTAGTCTCATCTTTCAAATTCCAATCCATCAACTAGTCTATTCCTTGCAA
** **
35164 TATAGTATTTACAATCCATACATT--AATCTTTTCAACT
127 TATAACATTTACAATCCATACATTAGAAT-TACT-AACT
* *
35201 TTTTTTATATCAAAACGAATATGATTCTCATTAAGAATTTATGCATTTATCATATTTATTCAAAA
1 TTTTTTATAT-AAAA-GAATCTGATTCTCATTAAGAATCTATGCATTTATCATATTTATTCAAAA
* * * * *
35266 AAGAATTTATACATTAGTCTTATCTTTCAAATTCCAATCCAT-ACATTATTCTATTCCTTGCAAT
64 AAGAATTCATGCATTAGTCTCATCTTTCAAATTCCAATCCATCA-ACTAGTCTATTCCTTGCAAT
* *
35330 TTAACATTTACAATCCATGCATTAGAATTACTAACT
128 ATAACATTTACAATCCATACATTAGAATTACTAACT
* * * * **
35366 TTTTTTATATAAAAAAATCTTATTCCCATTAAGAATCTATACATTTATTTTATTTATTCAAATAT
1 TTTTTTATATAAAAGAATCTGATTCTCATTAAGAATCTATGCATTTATCATATTTATTCAAA-A-
* *
35431 AA-AATCCATGCATTAGTCTCATCTTTCGAATTCCAAT
64 AAGAATTCATGCATTAGTCTCATCTTTCAAATTCCAAT
35468 AAAATTTTAT
Statistics
Matches: 222, Mismatches: 38, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
163 40 0.18
164 36 0.16
165 92 0.41
166 45 0.20
167 9 0.04
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (163 bp):
TTTTTTATATAAAAGAATCTGATTCTCATTAAGAATCTATGCATTTATCATATTTATTCAAAAAA
GAATTCATGCATTAGTCTCATCTTTCAAATTCCAATCCATCAACTAGTCTATTCCTTGCAATATA
ACATTTACAATCCATACATTAGAATTACTAACT
Found at i:37490 original size:2 final size:2
Alignment explanation
Indices: 37478--37514 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
37468 AAGAATTTGA
37478 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37515 TCCATAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38530 original size:2 final size:2
Alignment explanation
Indices: 38523--38550 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38513 TGATAAGGTT
38523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38551 ATTTTACCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39348 original size:13 final size:13
Alignment explanation
Indices: 39330--39357 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39320 TAATAAATAA
39330 AAAATTGAGGTTG
1 AAAATTGAGGTTG
39343 AAAATTGAGGTTG
1 AAAATTGAGGTTG
39356 AA
1 AA
39358 GCTTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (13 bp):
AAAATTGAGGTTG
Found at i:41944 original size:43 final size:43
Alignment explanation
Indices: 41883--41968 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
41873 ATTTGTCTGG
* *
41883 TAGAAAATGTAAGTAAACTAAATGCTTTGTATAAGCAGACAAC
1 TAGAAAATGTAAGGAAACTAAATGCGTTGTATAAGCAGACAAC
41926 TAGAAAATGTAAGGAAACTAAATGCGTTGTATAAGCAGACAAC
1 TAGAAAATGTAAGGAAACTAAATGCGTTGTATAAGCAGACAAC
41969 GAAGACATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.23
Consensus pattern (43 bp):
TAGAAAATGTAAGGAAACTAAATGCGTTGTATAAGCAGACAAC
Found at i:42785 original size:2 final size:2
Alignment explanation
Indices: 42778--42808 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
42768 TCATGGATAC
*
42778 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42809 GGGTTGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:43386 original size:25 final size:26
Alignment explanation
Indices: 43358--43407 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
43348 TGAAAGTTGT
43358 AAGCA-TAGATTTTTTTTGTTTTTAG
1 AAGCAGTAGATTTTTTTTGTTTTTAG
* *
43383 AAGCATGTAGTTTTTTTTTTTTTTT
1 AAGCA-GTAGATTTTTTTTGTTTTT
43408 TATAATTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
27 16 0.76
ACGTcount: A:0.20, C:0.04, G:0.14, T:0.62
Consensus pattern (26 bp):
AAGCAGTAGATTTTTTTTGTTTTTAG
Found at i:46413 original size:31 final size:31
Alignment explanation
Indices: 46378--46488 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 31
46368 ACTTTTAATT
46378 ACAAAATATAGTCAACAAAGAATTTTTCAAA
1 ACAAAATATAGTCAACAAAGAATTTTTCAAA
* * * * *
46409 ACAAAATATGATTATAGTGACAAAAAATGTACTTTTAATT
1 ACAAAATAT-AGT-CA---ACAAAGAAT-T--TTTCAA-A
46449 ACAAAATATAGTCAACAAAGAATTTTTCAAA
1 ACAAAATATAGTCAACAAAGAATTTTTCAAA
46480 ACAAAATAT
1 ACAAAATAT
46489 GATTATAGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
31 18 0.30
32 7 0.11
33 1 0.02
34 1 0.02
35 8 0.13
36 8 0.13
37 1 0.02
38 1 0.02
39 7 0.11
40 9 0.15
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (31 bp):
ACAAAATATAGTCAACAAAGAATTTTTCAAA
Found at i:46434 original size:71 final size:71
Alignment explanation
Indices: 46357--46509 Score: 306
Period size: 71 Copynumber: 2.2 Consensus size: 71
46347 ATACATTGTC
46357 ACAAAAAATGTACTTTTAATTACAAAATATAGTCAACAAAGAATTTTTCAAAACAAAATATGATT
1 ACAAAAAATGTACTTTTAATTACAAAATATAGTCAACAAAGAATTTTTCAAAACAAAATATGATT
46422 ATAGTG
66 ATAGTG
46428 ACAAAAAATGTACTTTTAATTACAAAATATAGTCAACAAAGAATTTTTCAAAACAAAATATGATT
1 ACAAAAAATGTACTTTTAATTACAAAATATAGTCAACAAAGAATTTTTCAAAACAAAATATGATT
46493 ATAGTG
66 ATAGTG
46499 ACAAAAAATGT
1 ACAAAAAATGT
46510 GATCACTCCA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (71 bp):
ACAAAAAATGTACTTTTAATTACAAAATATAGTCAACAAAGAATTTTTCAAAACAAAATATGATT
ATAGTG
Found at i:51051 original size:24 final size:24
Alignment explanation
Indices: 51024--51071 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
51014 TCATGTTACT
*
51024 CCCACAAGTGATGATGGATATGTA
1 CCCACAAGTGATGATAGATATGTA
51048 CCCACAAGTGATGATAGATATGTA
1 CCCACAAGTGATGATAGATATGTA
51072 TTCGGCTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (24 bp):
CCCACAAGTGATGATAGATATGTA
Found at i:53871 original size:29 final size:28
Alignment explanation
Indices: 53821--53910 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 28
53811 TTTTATATCT
**
53821 TAATAT-ATTATAAAATGAATATAATCATA
1 TAATATAATT-TAAAATTTATATAAT-ATA
*
53850 TAATATAATTTAAAATTTATATAAAATA
1 TAATATAATTTAAAATTTATATAATATA
53878 -AATTATCACA-TTAAAATTTATATAAATATA
1 TAA-TAT-A-ATTTAAAATTTATAT-AATATA
53908 TAA
1 TAA
53911 CATATATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
27 2 0.04
28 6 0.12
29 32 0.63
30 9 0.18
31 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (28 bp):
TAATATAATTTAAAATTTATATAATATA
Found at i:54171 original size:16 final size:16
Alignment explanation
Indices: 54152--54193 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
54142 ATATTTTAAT
54152 TATAAATAAAAAATAA
1 TATAAATAAAAAATAA
* *
54168 TATAAATACAATATAA
1 TATAAATAAAAAATAA
*
54184 -ATATATAAAA
1 TATAAATAAAA
54194 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
TATAAATAAAAAATAA
Found at i:54832 original size:3 final size:3
Alignment explanation
Indices: 54824--54857 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
54814 AAGTTAATTG
54824 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
54858 ATAACAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:60047 original size:21 final size:21
Alignment explanation
Indices: 59989--60072 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
59979 GCTTCTCTCT
* *
59989 CTCCTCTCTCTCTCCCTTTCC
1 CTCCCCTCTCTCTCCTTTTCC
* *
60010 TTCTCCT-TCTC-CC-TTTCC
1 CTCCCCTCTCTCTCCTTTTCC
60028 CTCCCCTCTCTCTCCTTTTCC
1 CTCCCCTCTCTCTCCTTTTCC
* *
60049 CT-CTCTCTTCTCTCCTTATCC
1 CTCCCCTC-TCTCTCCTTTTCC
60070 CTC
1 CTC
60073 TCTTTCTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
18 10 0.20
19 6 0.12
20 10 0.20
21 25 0.49
ACGTcount: A:0.01, C:0.54, G:0.00, T:0.45
Consensus pattern (21 bp):
CTCCCCTCTCTCTCCTTTTCC
Found at i:60048 original size:39 final size:42
Alignment explanation
Indices: 59989--60072 Score: 120
Period size: 39 Copynumber: 2.1 Consensus size: 42
59979 GCTTCTCTCT
* *
59989 CTCCTCTCTCTCTCCCTTTCCTTCTC-CTTCTC-CCTT-TCC
1 CTCCCCTCTCTCTCCCTTTCCCTCTCTCTTCTCTCCTTATCC
*
60028 CTCCCCTCTCTCTCCTTTTCCCTCTCTCTTCTCTCCTTATCC
1 CTCCCCTCTCTCTCCCTTTCCCTCTCTCTTCTCTCCTTATCC
60070 CTC
1 CTC
60073 TCTTTCTCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 23 0.59
40 6 0.15
41 4 0.10
42 6 0.15
ACGTcount: A:0.01, C:0.54, G:0.00, T:0.45
Consensus pattern (42 bp):
CTCCCCTCTCTCTCCCTTTCCCTCTCTCTTCTCTCCTTATCC
Found at i:60081 original size:39 final size:37
Alignment explanation
Indices: 59991--60095 Score: 113
Period size: 39 Copynumber: 2.7 Consensus size: 37
59981 TTCTCTCTCT
* *
59991 CCTCTCTCTCTCCCTTTCCTTCTC-CTTCTCCCTTTC
1 CCTCTCTCTCTCCTTTTCCCTCTCTCTTCTCCCTTTC
60027 CCTCCCCTCTCTCTCCTTTTCCCTCTCTCTTCTCTCCTTATC
1 CCT---CTCTCTCTCCTTTTCCCTCTCTCTTCTC-CCTT-TC
* * *
60069 CCTCTCTTTCTCCTTATCCCTATCTCT
1 CCTCTCTCTCTCCTTTTCCCTCTCTCT
60096 CCTTTCTCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
36 3 0.05
39 40 0.69
40 6 0.10
41 4 0.07
42 5 0.09
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (37 bp):
CCTCTCTCTCTCCTTTTCCCTCTCTCTTCTCCCTTTC
Found at i:60082 original size:18 final size:18
Alignment explanation
Indices: 60029--60089 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
60019 TCCCTTTCCC
* *
60029 TCCC-CTCTCTCTCCTTT
1 TCCCTCTCTTTCTCCTTA
60046 TCCCTCTCTCTTCTCTCCTTA
1 T-CC-CTCTCTT-TCTCCTTA
60067 TCCCTCTCTTTCTCCTTA
1 TCCCTCTCTTTCTCCTTA
60085 TCCCT
1 TCCCT
60090 ATCTCTCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.03
18 15 0.39
19 8 0.21
20 6 0.16
21 8 0.21
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.48
Consensus pattern (18 bp):
TCCCTCTCTTTCTCCTTA
Found at i:61333 original size:23 final size:24
Alignment explanation
Indices: 61274--61349 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
61264 ATAAATGAAA
* *
61274 TAATCAATTAT-TTTCAAAATATT
1 TAATAAATTATATTTAAAAATATT
* *
61297 TAAAAAATGAATATTTAAAAAT-TT
1 TAATAAAT-TATATTTAAAAATATT
61321 TAATAAATTATATTTTAAAGTAATATT
1 TAATAAATTATA-TTTAAA--AATATT
61348 TA
1 TA
61350 GAATCATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
23 9 0.22
24 17 0.41
25 8 0.20
26 3 0.07
27 4 0.10
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (24 bp):
TAATAAATTATATTTAAAAATATT
Found at i:61337 original size:24 final size:25
Alignment explanation
Indices: 61282--61349 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
61272 AATAATCAAT
*
61282 TATTTTCAAAATATTTAAAAAATGA
1 TATTTTAAAAATATTTAAAAAATGA
* *
61307 -ATATTTAAAAAT-TTTAATAAATTA
1 TAT-TTTAAAAATATTTAAAAAATGA
61331 TATTTTAAAGTAATATTTA
1 TATTTTAAA--AATATTTA
61350 GAATCATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
24 18 0.51
25 10 0.29
26 3 0.09
27 4 0.11
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (25 bp):
TATTTTAAAAATATTTAAAAAATGA
Found at i:61920 original size:15 final size:16
Alignment explanation
Indices: 61900--61932 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
61890 TTCAAGTATG
61900 TTATTCTT-TGCTATT
1 TTATTCTTCTGCTATT
61915 TTATTCTTCTGCTATT
1 TTATTCTTCTGCTATT
61931 TT
1 TT
61933 GCTTTTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.12, C:0.15, G:0.06, T:0.67
Consensus pattern (16 bp):
TTATTCTTCTGCTATT
Found at i:66521 original size:13 final size:13
Alignment explanation
Indices: 66503--66527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66493 AGATTGCACA
66503 GTATCGATACATT
1 GTATCGATACATT
66516 GTATCGATACAT
1 GTATCGATACAT
66528 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:66645 original size:13 final size:13
Alignment explanation
Indices: 66627--66652 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66617 TACACATAAT
66627 ATGTATCGATACA
1 ATGTATCGATACA
66640 ATGTATCGATACA
1 ATGTATCGATACA
66653 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:66669 original size:33 final size:32
Alignment explanation
Indices: 66609--66672 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
66599 CTTAACTGTT
* *
66609 TGTATCGATACACATAATATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
66641 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
66673 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:74706 original size:21 final size:22
Alignment explanation
Indices: 74666--74710 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
74656 CGAAATTGTT
74666 AAATTATTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
74688 AAATT-TTTTGATTAAGGGGGAG
1 AAATTATTTT-ATTAAGGGGGAG
74710 A
1 A
74711 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (22 bp):
AAATTATTTTATTAAGGGGGAG
Found at i:75283 original size:13 final size:13
Alignment explanation
Indices: 75265--75289 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75255 AAATCGCACA
75265 GTATCGATACATT
1 GTATCGATACATT
75278 GTATCGATACAT
1 GTATCGATACAT
75290 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:75302 original size:20 final size:21
Alignment explanation
Indices: 75277--75329 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
75267 ATCGATACAT
*
75277 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
75297 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
75318 TGTATCGATACA
1 TGTATCGATACA
75330 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:77127 original size:28 final size:28
Alignment explanation
Indices: 77084--77155 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
77074 GGAATAAAGC
*
77084 CGAGGTTGGAGTATCCCCTCG-GAAGTAA
1 CGAGGTTGGAGTATCCCCT-GAGAAATAA
*
77112 CGGGGTTGGAGTAT-CCCTGATGAAATAA
1 CGAGGTTGGAGTATCCCCTGA-GAAATAA
77140 CGAGGTTGGAGTATCC
1 CGAGGTTGGAGTATCC
77156 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 1 0.03
27 4 0.11
28 32 0.84
29 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCTGAGAAATAA
Found at i:77241 original size:52 final size:52
Alignment explanation
Indices: 77143--77261 Score: 143
Period size: 52 Copynumber: 2.3 Consensus size: 52
77133 GAAATAACGA
* * * *
77143 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGAAAATAAAA-CTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTACTTTAGAAAATAAAATC-GG
* **
77195 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGCTTTAG-CGATAAAATCGG
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTACTTTAGAAAATAAAATCGG
77247 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
77262 TCGGAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
52 43 0.74
53 15 0.26
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.31
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTACTTTAGAAAATAAAATCGG
Found at i:77279 original size:160 final size:160
Alignment explanation
Indices: 77087--77387 Score: 446
Period size: 160 Copynumber: 1.9 Consensus size: 160
77077 ATAAAGCCGA
* *
77087 GGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCTGATGAAATAACGAGGTTGGAGT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGT
* * *
77152 ATCCTCGATTGTGAA-AAATTGGT-ATTTTTGAAAATAAAA-CTGGGGTTGGAGTATCCCCGATT
65 ATCCCCGATTGTGAAGAAATTGGTGATTTTTGAAAATAAAATC-GGAGTTAGAGTATCCCCGATT
* *
77214 GTGGAAAAATTAGTGCTTTAGCGATAAAATCGG
129 ATAG-AAAATTAGTGCTTTAGCGATAAAATCGG
* * *
77247 GGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTA
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTA
* *
77312 TCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAT
66 TCCCCGATTGTGAAGAAATTGGTGATTTTTGAAAATAAAATCGGAGTTAGAGTATCCCCGATTAT
77377 AGAAAATTAGT
131 AGAAAATTAGT
77388 ATTTTGAAAA
Statistics
Matches: 126, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
159 29 0.23
160 61 0.48
161 35 0.28
162 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (160 bp):
GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTA
TCCCCGATTGTGAAGAAATTGGTGATTTTTGAAAATAAAATCGGAGTTAGAGTATCCCCGATTAT
AGAAAATTAGTGCTTTAGCGATAAAATCGG
Found at i:77311 original size:27 final size:28
Alignment explanation
Indices: 77244--77319 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
77234 GCGATAAAAT
***
77244 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
77272 TGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
77299 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
77320 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:77403 original size:160 final size:159
Alignment explanation
Indices: 77041--77421 Score: 437
Period size: 160 Copynumber: 2.4 Consensus size: 159
77031 AACAGGGTTG
* * * ** ** *
77041 GAGTATCCCCAATTATA-AGAAATCAATATTTTGGGAATAAAGCCGAGGTTGGAGTATCCCCTCG
1 GAGTATCCCCGATTATAGA-AAATTAGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCG
* * *
77105 GAAGTAACGGGGTTGGAGTATCCCTGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAA
65 GAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAA
* *
77170 TTGGTATTTTTGAAAATAAAACTGGGGTTG
130 TTGGTATTTTTGAAAATAAAACTGGAGTTA
* * ** **
77200 GAGTATCCCCGATTGTGGAAAAATTAGTGCTTT-AGCGATAAAATCGGGGTTGGAGTATCCCCTC
1 GAGTATCCCCGATTATAG-AAAATTAGTATTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCTC
* * *
77264 GGAAATAATGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGA
64 GGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAA-A
* *
77328 AATTGGTGTTTTTTGGAAATAAAA-TCGGAGTTA
128 AATTGGT-ATTTTTGAAAATAAAACT-GGAGTTA
* * *
77361 GAGTATCCCCGATTATAGAAAATTAGTATTTTGAAAATAAAATCGGAGTTGAAATATCCCC
1 GAGTATCCCCGATTATAGAAAATTAGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
77422 GATTGTGGAG
Statistics
Matches: 183, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
159 43 0.23
160 103 0.56
161 37 0.20
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (159 bp):
GAGTATCCCCGATTATAGAAAATTAGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGG
AAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAAT
TGGTATTTTTGAAAATAAAACTGGAGTTA
Found at i:82410 original size:52 final size:52
Alignment explanation
Indices: 82340--82460 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
82330 GAAAATTTAT
*
82340 CTGCATGTATCGATACATT-TAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAATTTGC
*
82392 CTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAATTTTC
1 CTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAATTTGC
82444 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
82461 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 63 0.95
53 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAATTTGC
Found at i:82473 original size:52 final size:50
Alignment explanation
Indices: 82332--82480 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 50
82322 CGAAATATGA
*
82332 AAATTTAT-CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTT-TCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGC
* *
82384 AAATTTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGC
1 AAATTTTCCTGCATGTATCGATACA--A-AATAGTGTATCGATACATCTGGGC
82436 AAATTTTCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTTCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
82481 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
52 82 0.94
53 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (50 bp):
AAATTTTCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGC
Found at i:82487 original size:13 final size:13
Alignment explanation
Indices: 82469--82493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82459 CAAAGATCAG
82469 TGTATCGATACAA
1 TGTATCGATACAA
82482 TGTATCGATACA
1 TGTATCGATACA
82494 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:82576 original size:13 final size:13
Alignment explanation
Indices: 82558--82582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82548 CAAAAAAATA
82558 TGTATCGATACAT
1 TGTATCGATACAT
82571 TGTATCGATACA
1 TGTATCGATACA
82583 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:82578 original size:33 final size:33
Alignment explanation
Indices: 82536--82602 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
82526 AGTAGCTTAA
82536 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
82569 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
82602 A
1 A
82603 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:83251 original size:49 final size:49
Alignment explanation
Indices: 83179--83655 Score: 682
Period size: 49 Copynumber: 9.9 Consensus size: 49
83169 GTCTTGCAGT
* * * * * * *
83179 GTGCCATTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGGTGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
83228 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
83277 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
83326 GTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
83375 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
83424 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
83473 GTGCCAATATGCAGATTCAAGGCCAGCTATATTGGACTT--A-AT---G
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
83516 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA-AGTG-AG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGA-TGAAG
*
83564 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
83613 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
83656 GGTCGCCACC
Statistics
Matches: 390, Mismatches: 31, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
43 36 0.09
45 2 0.01
46 3 0.01
47 1 0.00
48 44 0.11
49 304 0.78
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
Found at i:83709 original size:33 final size:32
Alignment explanation
Indices: 83660--83850 Score: 289
Period size: 33 Copynumber: 5.9 Consensus size: 32
83650 TTAAAGGGTC
83660 GCCACCGACTTGTGTGGGCTTTAGAGAATGGTT
1 GCCACCGACTTGTGTGGGCTTTAGAGAA-GGTT
* * *
83693 GTCACCAACTTGTGTGGGCTTTGGAAGAAGGTT
1 GCCACCGACTTGTGTGGGCTTTAG-AGAAGGTT
*
83726 GCCACCGACTTGTGTGGGCTTTGAAAGAAGGTT
1 GCCACCGACTTGTGTGGGCTTT-AGAGAAGGTT
83759 GCCACCGACTTGTGTGGGCTTTAGA-AAGGGTT
1 GCCACCGACTTGTGTGGGCTTTAGAGAA-GGTT
83791 GCCACCGACTTGTGTGGGCTTT-GAGAAGGTT
1 GCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
83822 GCCACCGACTTGTGTGGGCTTTAGA-AAGG
1 GCCACCGACTTGTGTGGGCTTTAGAGAAGG
83851 GAGAAAGATG
Statistics
Matches: 145, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
31 34 0.23
32 32 0.22
33 75 0.52
34 4 0.03
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.28
Consensus pattern (32 bp):
GCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
Found at i:83938 original size:33 final size:33
Alignment explanation
Indices: 83834--84352 Score: 417
Period size: 34 Copynumber: 16.0 Consensus size: 33
83824 CACCGACTTG
* *
83834 TGTGGGCTTTAGAAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA-AAA-GAAAAAAG-TGCCACGGAGT
* *
83870 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTAAAA--GAAAAA-AGTGCCACGGAGT
83905 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
83938 TGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGAAAAAAGTGCCACGGAGT
*
83972 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAA-A-GAAAAAAGTGCCACGGAGT
* *
84006 TGTGGGCTTTGAAAAGAAGAAGGTGCCAC-GA-T
1 TGTGGGCTTT-AAAAGAAAAAAGTGCCACGGAGT
* * *
84038 TGTGGGC-TTGAAAG--AAAGGTGCC-CTGAGT
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
*
84067 TGT-GGCTTTAAAAG-----GGTGCCACGGAGGT
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGA-GT
* * *
84095 TGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GAAAAAAGTGCCACGGAGT
* * *
84128 TGTGGGCGTTAAAGAAAAAAAAGAGTGCCACGAAGT
1 TGTGGGC-TTTAA-AAGAAAAA-AGTGCCACGGAGT
* **
84164 TCTGGGCTTTAAAAGGAAAAGGGTTGCCACGGAGT
1 TGTGGGCTTTAAAA-GAAAAAAG-TGCCACGGAGT
* * *
84199 TGTGGGC-TTAGAAGGAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTA-AAAGAAAAAAGTGCCACGGAGT
* *
84232 TGTGGGCTTT---A-AAAAGAGTGTCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
* * *
84261 TGTGGGCTTGAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
*
84294 TGTGGGCTTT---A-AAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
*
84323 TGTGGGCTTT--AAGAAAAAA-TGCCACTGAGT
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
84353 CGTAGAACTT
Statistics
Matches: 404, Mismatches: 45, Indels: 74
0.77 0.09 0.14
Matches are distributed among these distances:
26 6 0.01
27 4 0.01
28 24 0.06
29 63 0.16
30 16 0.04
31 7 0.02
32 12 0.03
33 75 0.19
34 101 0.25
35 60 0.15
36 36 0.09
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (33 bp):
TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
Found at i:83953 original size:62 final size:63
Alignment explanation
Indices: 83885--84332 Score: 333
Period size: 62 Copynumber: 7.0 Consensus size: 63
83875 ACTTAAAAGG
*
83885 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
* *
83948 GAAAAGAAAAAAGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGG
1 G---A-AAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAAGTGCCACGGAGTTGTGGG
84012 CTTT
60 CTTT
* * *
84016 GAAAAGAAGAAGGTGCCAC-GA-TTGTGGGC-TTGAAAG--AAAGGTGCC-CTGAGTTGT-GGCT
1 G-AAA-AAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
84074 TT
62 TT
* * * *
84076 --AAAAGGGTGCCACGGAGGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCGTT
1 GAAAAAGAGTGCCACGGA-GTTGTGGGCTTTAAAA-GAAAAAAGTGCCACGGAGTTGTGGGC-TT
*
84138 AAA
63 --T
* * **
84141 GAAAAAAAAGAGTGCCACGAAGTTCTGGGCTTTAAAAGGAAAAGGGTTGCCACGGAGTTGTGGGC
1 G---AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-GAAAAAAG-TGCCACGGAGTTGTGGGC
*
84206 TTA
61 TTT
* * *
84209 GAAGGAAAAGAGTGCCACAGAGTTGTGGGCTTT---A-AAAAGAGTGTCACGGAGTTGTGGGC-T
1 G-A--AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTT
84269 T
63 T
*
84270 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT---A-AAAAGAGTGCCACGGAGTTGTGGGCT
1 G-AAA-AAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
84331 TT
62 TT
84333 AAGAAAAAAT
Statistics
Matches: 324, Mismatches: 28, Indels: 66
0.78 0.07 0.16
Matches are distributed among these distances:
54 7 0.02
55 2 0.01
56 3 0.01
57 14 0.04
58 1 0.00
59 2 0.01
60 17 0.05
61 21 0.06
62 74 0.23
63 11 0.03
64 1 0.00
65 4 0.01
66 23 0.07
67 26 0.08
68 64 0.20
69 7 0.02
70 29 0.09
71 18 0.06
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (63 bp):
GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
Found at i:84260 original size:29 final size:29
Alignment explanation
Indices: 84145--84352 Score: 191
Period size: 29 Copynumber: 6.7 Consensus size: 29
84135 GTTAAAGAAA
* *
84145 AAAAAGAGTGCCACGAAGTTCTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
* *
84174 AAAAGGAAAAGGGTTGCCACGGAGTTGTGGGCTTAGA
1 ---A--AAAAGAG-TGCCACGGAGTTGTGGGCTT--T
*
84211 AGGAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 A--AAAAGAGTGCCACGGAGTTGTGGGCTTT
* *
84242 AAAAAGAGTGTCACGGAGTTGTGGGCTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTT-T
84272 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 AAA-AAG-A-GTGCCACGGAGTTGTGGGCTTT
84304 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * *
84333 AAGAAAAAATGCCACTGAGT
1 AA-AAAGAGTGCCACGGAGT
84353 CGTAGAACTT
Statistics
Matches: 151, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
29 49 0.32
30 18 0.12
31 7 0.05
32 5 0.03
33 39 0.26
34 15 0.10
35 18 0.12
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.22
Consensus pattern (29 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:84374 original size:32 final size:30
Alignment explanation
Indices: 84329--84396 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 30
84319 GAGTTGTGGG
*
84329 CTTTAAGAAAAAATGCCACTGAGTCGTAGAA
1 CTTTGAGAAAAAATGCCACTGAGTCGT-GAA
*
84360 CTTTGAGACAAAAATGCCACTGAGTCGTGGA
1 CTTTGAGA-AAAAATGCCACTGAGTCGTGAA
84391 CTTTGA
1 CTTTGA
84397 AAAGTGTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 15 0.44
32 19 0.56
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (30 bp):
CTTTGAGAAAAAATGCCACTGAGTCGTGAA
Found at i:84379 original size:91 final size:90
Alignment explanation
Indices: 83892--84362 Score: 208
Period size: 95 Copynumber: 4.9 Consensus size: 90
83882 AGGGAAAAAG
* * *
83892 AGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
1 AGTGCCACGGAGTTGTGGGCTTT---A-AAAAGAGTGCCACAGAGTTGTGGGCTTT---AA-AAA
* * *
83957 AAAGTGCCACGGAGTTGTGGACTT-AAAGATGAAAAA
58 AAA-TGCCACGGAGTCGTGAACTTGAAA-A-G-AAGA
* *
83993 AGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCAC-GA-TTGTGGGCTTGAAAGAAAG
1 AGTGCCACGGAGTTGTGGGCTTT--AAA-AAG-A-GTGCCACAGAGTTGTGGGCTTTAAA-AAAA
* * * * *
84056 GTGCC-CTGAGTTGTG-GCTTTAAAAG--G-
60 ATGCCACGGAGTCGTGAACTTGAAAAGAAGA
* * * * *
84082 -GTGCCACGGAGGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCGTTAAAGAAAA
1 AGTGCCACGGA-GTTGTGGGCTTTAAA--AA-GA-GTGCCACAGAGTTGTGGGC-TT----TAAA
* ** *
84146 AAAAGAGTGCCACGAAGTTC-TGGGCTTTAAAAGGAA-A
56 AAAA-A-TGCCACGGAG-TCGTGAACTTGAAAA-GAAGA
* *
84183 AGGGTTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
1 A--G-TGCCACGGAGTTGTGGGCTT--TA--AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAA
* * * **
84248 AGTGTCACGGAGTTGTGGGCTTGAAAAGAAGA
59 AATGCCACGGAGTCGTGAACTTGAAAAGAAGA
*
84280 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAGAAAAAATGC
1 A-GTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA-AAAAAATGC
*
84345 CACTGAGTCGTAGAACTT
64 CACGGAGTCGT-GAACTT
84363 TGAGACAAAA
Statistics
Matches: 297, Mismatches: 37, Indels: 80
0.72 0.09 0.19
Matches are distributed among these distances:
87 3 0.01
88 22 0.07
89 12 0.04
90 8 0.03
91 31 0.10
92 15 0.05
93 6 0.02
94 7 0.02
95 35 0.12
96 15 0.05
97 31 0.10
98 10 0.03
99 9 0.03
100 14 0.05
101 25 0.08
102 7 0.02
103 2 0.01
104 29 0.10
105 10 0.03
106 4 0.01
108 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (90 bp):
AGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAAAATGCCA
CGGAGTCGTGAACTTGAAAAGAAGA
Found at i:86145 original size:49 final size:49
Alignment explanation
Indices: 86060--86585 Score: 762
Period size: 49 Copynumber: 10.9 Consensus size: 49
86050 GTCTTGCAGT
* * * * * * *
86060 GTGCCATTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGGTGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * * *
86109 GTGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
86158 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
86207 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
86256 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
86305 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
86354 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
86403 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---G
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
86446 GTGCTAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA-AGTG-AG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGA-TGAAG
*
86494 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
86543 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
86586 GGTCGCCACC
Statistics
Matches: 435, Mismatches: 35, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
43 36 0.08
45 2 0.00
46 3 0.01
47 1 0.00
48 43 0.10
49 350 0.80
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
Found at i:86726 original size:32 final size:32
Alignment explanation
Indices: 86582--86779 Score: 274
Period size: 33 Copynumber: 6.1 Consensus size: 32
86572 TATTGGACTT
*
86582 AAAGGGTCGCCACCGACTTGTGTGGGCTTTAG
1 AAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * * *
86614 AGAATGGTTGTCACCAACTTGTGTGGGCTTTGG
1 A-AAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
86647 AAGAAGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AA-AGGGTTGCCACCGACTTGTGTGGGCTTTAG
86679 AAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AAAG--GGTTGCCACCGACTTGTGTGGGCTTTAG
*
86713 AAAGGGTTGCCACCGACTTCTGTGGGCTTT-G
1 AAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
86744 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 A-AAGGGTTGCCACCGACTTGTGTGGGCTTTAG
86777 AAA
1 AAA
86780 AGGAGAAAGA
Statistics
Matches: 148, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.02
32 60 0.41
33 80 0.54
34 5 0.03
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (32 bp):
AAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:86854 original size:34 final size:34
Alignment explanation
Indices: 86765--87268 Score: 519
Period size: 34 Copynumber: 15.3 Consensus size: 34
86755 CACCGACTTG
*
86765 TGTGGGCTTTAGAAAAGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTT--AAAA-GAAAAAGAGTGCCACGGAGT
*
86801 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA--GAAAAAGAGTGCCACGGAGT
86836 TGTGGGCTTTAAAAGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
*
86869 TGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGT
*
86903 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAA-A-GAAAAAGAGTGCCACGGAGT
*
86937 TGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGT
86971 TGTGGGCTTTAAAAG-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
* *
86999 TGTGGAC-TTAAAAGGAACAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAA-GAAAAAGAGTGCCACGGAGT
* *
87032 TGTGGGCTTTAAAGAAAAAAAGAGTGCCACGAAGT
1 TGTGGGCTTTAAA-AGAAAAAGAGTGCCACGGAGT
* *
87067 TCTGGGCTTTAAAAGGAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GAAAAAGAGTGCCACGGAGT
* *
87102 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTA-AAAGAAAAAGAGTGCCACGGAGT
87136 TGTGGGCTTT-----AAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
*
87165 TGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGT
87199 TGTGGGCTTT-----AAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
*
87228 TGTGGGCTTT-AAAGAAAAA-A-TGCCACTGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
* *
87259 CGTGGACTTT
1 TGTGGGCTTT
87269 GAGACAAAAT
Statistics
Matches: 407, Mismatches: 27, Indels: 73
0.80 0.05 0.14
Matches are distributed among these distances:
27 6 0.01
28 25 0.06
29 50 0.12
31 18 0.04
32 4 0.01
33 59 0.14
34 152 0.37
35 78 0.19
36 15 0.04
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
Found at i:87279 original size:30 final size:30
Alignment explanation
Indices: 87217--87300 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
87207 TTAAAAAGAG
* * * *
87217 TGCCACGGAGTTGTGGGCTTTAAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTT-GAGAAAAAA
*
87248 TGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAA
87278 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACTGAGTCGTGGACTTTGA
87301 AAAGGTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 30 0.62
31 18 0.38
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAAA
Found at i:89052 original size:49 final size:49
Alignment explanation
Indices: 88967--89492 Score: 771
Period size: 49 Copynumber: 10.9 Consensus size: 49
88957 GTCTTGCAGT
* * * * * * *
88967 GTGCCATTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGGTGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
89016 GTGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
89065 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
89114 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
89163 GTGCCAATGTGCTGAGTCAAGGGCAACTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
89212 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
89261 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
89310 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---G
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
89353 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA-AGTG-AG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGA-TGAAG
*
89401 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
89450 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
89493 GGTCGCCACC
Statistics
Matches: 437, Mismatches: 33, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
43 37 0.08
45 2 0.00
46 3 0.01
47 1 0.00
48 44 0.10
49 350 0.80
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (49 bp):
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
Found at i:89546 original size:33 final size:32
Alignment explanation
Indices: 89497--89681 Score: 248
Period size: 33 Copynumber: 5.7 Consensus size: 32
89487 TTAAAGGGTC
89497 GCCACCGACTTGTGTGGGCTTTAGAGAATGGTT
1 GCCACCGACTTGTGTGGGCTTTAGAGAA-GGTT
* * *
89530 GTCACCAACTTGTGTGGGCTTTGGAAGAAGGTT
1 GCCACCGACTTGTGTGGGCTTTAG-AGAAGGTT
* *
89563 GCCATCGACTTGTGTGGGCTTTGAAAGAAGGTT
1 GCCACCGACTTGTGTGGGCTTT-AGAGAAGGTT
89596 GCCACCGACTTGTGTGGGCTTTAGA-AAGGGTT
1 GCCACCGACTTGTGTGGGCTTTAGAGAA-GGTT
* *
89628 ACCACCGACTTCTGTGGGCTTT-GAGAAGGGTT
1 GCCACCGACTTGTGTGGGCTTTAGAGAA-GGTT
89660 GCCACCGACTTGTGTGGGCTTT
1 GCCACCGACTTGTGTGGGCTTT
89682 CGAAAAGGAG
Statistics
Matches: 134, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
31 4 0.03
32 53 0.40
33 73 0.54
34 4 0.03
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (32 bp):
GCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
Found at i:89761 original size:34 final size:34
Alignment explanation
Indices: 89672--90175 Score: 485
Period size: 34 Copynumber: 15.3 Consensus size: 34
89662 CACCGACTTG
*
89672 TGTGGGCTTTCGAAAAGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTT--AAAA-GAAAAAGAGTGCCACGGAGT
*
89708 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA--GAAAAAGAGTGCCACGGAGT
89743 TGTGGGCTTTAAAAGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
*
89776 TGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGT
*
89810 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAA-A-GAAAAAGAGTGCCACGGAGT
*
89844 TGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGT
89878 TGTGGGCTTTAAAAG-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
* *
89906 TGTGGAC-TTAAAAGGAACAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAA-GAAAAAGAGTGCCACGGAGT
* *
89939 TGTGGGCTTTAAAGAAAAAAAGAGTGCCACGAAGT
1 TGTGGGCTTTAAA-AGAAAAAGAGTGCCACGGAGT
*
89974 TCTGGGCTTTAAAAGGAAAAATG-GTGCCACGGAGT
1 TGTGGGCTTTAAAA-GAAAAA-GAGTGCCACGGAGT
* *
90009 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTA-AAAGAAAAAGAGTGCCACGGAGT
*
90043 TGTGGGCTTT-----AAAAAGAGTACCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
* **
90072 TGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAAA
1 TGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGT
90106 TGTGGGCTTT-----AAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
*
90135 TGTGGGCTTT-AAAGAAAAA-A-TGCCACTGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
* *
90166 CGTGGACTTT
1 TGTGGGCTTT
90176 GAGACAAAAT
Statistics
Matches: 401, Mismatches: 31, Indels: 77
0.79 0.06 0.15
Matches are distributed among these distances:
27 6 0.01
28 25 0.06
29 47 0.12
31 18 0.04
32 4 0.01
33 60 0.15
34 148 0.37
35 77 0.19
36 16 0.04
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
Found at i:90186 original size:30 final size:30
Alignment explanation
Indices: 90124--90207 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
90114 TTAAAAAGAG
* * * *
90124 TGCCACGGAGTTGTGGGCTTTAAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTT-GAGAAAAAA
*
90155 TGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAA
*
90185 TGCCACTGAGTCATGGACTTTGA
1 TGCCACTGAGTCGTGGACTTTGA
90208 AAAGGTATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 29 0.62
31 18 0.38
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAAA
Found at i:91946 original size:49 final size:49
Alignment explanation
Indices: 91874--92301 Score: 611
Period size: 49 Copynumber: 8.9 Consensus size: 49
91864 GTCTTGCAGT
* * * * * * *
91874 GTGCCATTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGGTGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
91923 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
91972 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
92021 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
*
92070 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
92119 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---G
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
92162 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA-AGTG-AG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGA-TGAAG
*
92210 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
92259 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
92302 GGTCGCCACC
Statistics
Matches: 347, Mismatches: 25, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
43 37 0.11
45 2 0.01
46 3 0.01
47 1 0.00
48 44 0.13
49 260 0.75
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (49 bp):
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
Found at i:92442 original size:32 final size:32
Alignment explanation
Indices: 92298--92498 Score: 280
Period size: 33 Copynumber: 6.2 Consensus size: 32
92288 TATTGGACTT
*
92298 AAAGGGTCGCCACCGACTTGTGTGGGCTTTAG
1 AAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * * *
92330 AGAATGGTTGTCACCAACTTGTGTGGGCTTTGG
1 A-AAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
92363 AAGAAGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AA-AGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
92395 AAGGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AA--AGGGTTGCCACCGACTTGTGTGGGCTTTAG
92429 AAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
92460 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 A-AAGGGTTGCCACCGACTTGTGTGGGCTTTAG
92493 AAAGGG
1 AAAGGG
92499 AGAAAGATGC
Statistics
Matches: 154, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
31 2 0.01
32 66 0.43
33 83 0.54
34 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.27
Consensus pattern (32 bp):
AAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:92539 original size:34 final size:34
Alignment explanation
Indices: 92481--92899 Score: 422
Period size: 34 Copynumber: 12.4 Consensus size: 34
92471 CACCGACTTG
*
92481 TGTGGGCTTTAGAAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA-AAA-GGAAAAAGATGCCACGGAGT
*
92517 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGA-TGCCACGGAGT
92552 TGTGGGCTTTAAAA-GAAAAA-ACTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGA-TGCCACGGAGT
* *
92585 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGATGCCACGGAGT
* *
92619 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGA-TGCCACGGAGT
* *
92653 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGATGCCACGGAGT
* *
92687 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGATGCCACGGAGT
92721 TGTGGGCTTTAAAAGG-----G-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * *
92749 TGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* *
92782 TGTGGGCTTT-AAAGAAAAAAAGAGTGCCACGAAGT
1 TGTGGGCTTTAAAAG-GAAAAAGA-TGCCACGGAGT
* *
92817 TCTGGGCTTTAAAAGGAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAA-GATGCCACGGAGT
* *
92852 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGA-TGCCACGGAGT
92886 TGTGGGCTTTAAAA
1 TGTGGGCTTTAAAA
92900 AGAGTGCCAC
Statistics
Matches: 332, Mismatches: 27, Indels: 49
0.81 0.07 0.12
Matches are distributed among these distances:
27 8 0.02
28 17 0.05
29 1 0.00
32 4 0.01
33 51 0.15
34 163 0.49
35 68 0.20
36 20 0.06
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
Found at i:92579 original size:68 final size:67
Alignment explanation
Indices: 92481--92899 Score: 473
Period size: 68 Copynumber: 6.2 Consensus size: 67
92471 CACCGACTTG
* * *
92481 TGTGGGCTTTAGAAAGGGAGAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTA-AAA-GGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAG-GTGCC
92545 ACGGAGT
61 ACGGAGT
** *
92552 TGTGGGCTTTAAAA-GAAAAAACTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGG
92616 AGT
65 AGT
* * * *
92619 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACG
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACG
92683 GAGT
64 GAGT
*
92687 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAG-----GGTGCCACGG
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGG
92746 AGT
65 AGT
* * *
92749 TGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAAAAGAGTGCCACG
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAG-GTGCCACG
*
92813 AAGT
64 GAGT
* *
92817 TCTGGGCTTTAAAAGGAAAAAGGGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGGAAAAA-GGTGCCACGGAGTTGTGGGCTTTA-AAAGAAAAAG-GTGCCAC
*
92881 AGAGT
63 GGAGT
92886 TGTGGGCTTTAAAA
1 TGTGGGCTTTAAAA
92900 AGAGTGCCAC
Statistics
Matches: 309, Mismatches: 22, Indels: 36
0.84 0.06 0.10
Matches are distributed among these distances:
60 4 0.01
61 33 0.11
62 20 0.06
66 5 0.02
67 25 0.08
68 129 0.42
69 50 0.16
70 32 0.10
71 11 0.04
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (67 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGA
GT
Found at i:92612 original size:102 final size:101
Alignment explanation
Indices: 92481--92916 Score: 481
Period size: 102 Copynumber: 4.4 Consensus size: 101
92471 CACCGACTTG
* * *
92481 TGTGGGCTTTAGAAAGGGAGAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTT-GAAAAGAAG-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCC
*
92545 ACGGAGTTGTGGGCTTTAAAAGAAAAAACTGCCACGGAGT
63 ACGGAGTTGTGGGC-TTAAAAGAAAAAAGTGCCACGGAGT
*
92585 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-AGTGCCAC
1 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGACTTTAAA-AGGAAAAAGAGTGCCAC
* *
92648 GGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGT
65 GGAGTTGTGGGC-TT-AAAAGAAAAAAGTGCCACGGAGT
*
92687 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA-G-----G-GTGCCACG
1 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACG
* * *
92745 GAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGT
66 GAGTTGTGGGCTTAAAA-GAAAAAAGTGCCACGGAGT
* * * * * *
92782 TGTGGGCTTT-AAAGAAAAAAAGAGTGCCACGAAGTTCTGGGCTTTAAAAGGAAAAAGGGTGCCA
1 TGTGGGCTTTGAAA-AGAAGAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCA
* *
92846 CGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGT
64 CGGAGTTGTGGGCTTA-AAAGAAAAA-AGTGCCACGGAGT
92886 TGTGGGCTTT--AAA-AAG-A-GTGCCACGGAGTTG
1 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTG
92917 GCTTGAAGAG
Statistics
Matches: 294, Mismatches: 22, Indels: 38
0.83 0.06 0.11
Matches are distributed among these distances:
94 7 0.02
95 36 0.12
96 42 0.14
97 1 0.00
98 12 0.04
100 1 0.00
101 26 0.09
102 95 0.32
103 41 0.14
104 33 0.11
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (101 bp):
TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACG
GAGTTGTGGGCTTAAAAGAAAAAAGTGCCACGGAGT
Found at i:93012 original size:30 final size:30
Alignment explanation
Indices: 92950--93033 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
92940 TTAAAAAGAG
* * * *
92950 TGCCACGGAGTTGTGGGCTTTAAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTT-GAGAAAAAA
*
92981 TGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAA
93011 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACTGAGTCGTGGACTTTGA
93034 AAAGGTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 30 0.62
31 18 0.38
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAAA
Found at i:94988 original size:13 final size:13
Alignment explanation
Indices: 94970--94994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94960 ACAATACTTA
94970 TGTATCGATACAT
1 TGTATCGATACAT
94983 TGTATCGATACA
1 TGTATCGATACA
94995 AATTGTTGAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:95872 original size:55 final size:55
Alignment explanation
Indices: 95788--96524 Score: 804
Period size: 55 Copynumber: 13.0 Consensus size: 55
95778 ATAAAGTGTA
* * * *
95788 TCCTGCTCTTTGATGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
95843 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * * *
95898 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACATGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
95953 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
96008 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAACA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
*
96069 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * * * *
96128 TCCCGTTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTCAAAAGAAAATGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT----TG-AAAGGCG
* *
96187 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * ** *
96247 TCCTTCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTCAAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
96302 TCCTGCTCTTTGGGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
96357 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * * * *
96417 TCCCGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTCGGCTTTAAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
96472 TCCTGCTCTTTGGGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
96525 AAAAAGCATC
Statistics
Matches: 591, Mismatches: 57, Indels: 68
0.83 0.08 0.09
Matches are distributed among these distances:
54 12 0.02
55 326 0.55
56 11 0.02
59 96 0.16
60 92 0.16
61 46 0.08
62 2 0.00
64 6 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:95975 original size:26 final size:26
Alignment explanation
Indices: 95946--96033 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 26
95936 GTGGGCTTTA
95946 AAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGGTGTCCTGCTCTTTGGGGACTG
** *
95972 AAAGGTG-CCACCAACTTGTGTGGG-CTTTG
1 AAAGGTGTCCTGC-TCTT-TG-GGGAC--TG
*
96001 AAAGGGGTCCTGCTCTTTGGGGACTG
1 AAAGGTGTCCTGCTCTTTGGGGACTG
96027 AAAGGTG
1 AAAGGTG
96034 CCACCAACTT
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
25 3 0.06
26 18 0.38
27 6 0.13
28 6 0.13
29 11 0.23
30 3 0.06
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.27
Consensus pattern (26 bp):
AAAGGTGTCCTGCTCTTTGGGGACTG
Found at i:96307 original size:349 final size:341
Alignment explanation
Indices: 95792--96547 Score: 1014
Period size: 349 Copynumber: 2.2 Consensus size: 341
95782 AGTGTATCCT
* * * * *
95792 GCTCTTTGATGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT-----G-AAAGGCGTC-CTGCT
1 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTCAAAAGAAAAAGCATCAC-GCT
95850 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGAC
65 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGAC
* * *
95915 TGGAAAATGCCACCAACATGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGC
130 TGGAAAATGCCACCAACATGTGTGGGCTTCAAAAGGGGTCCTGCTCTTTGGGGACGGAAAGGTGC
*
95980 CACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTG
195 CACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* ** *
96045 TGTGGGCTTTGAAAAGAAAAAACATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGGGTG
260 TGTGGGCTTT-AAAAGAAAAAACATCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTC
96109 GGCTTTAAAAGAAAAGGCGTCCC
324 GGCTTTAAAAG----GG-GTCCC
* * * *
96132 GTTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGC-TTCAAAAGAAAATGCATCCCGCTC
1 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTCAAAAGAAAAAGCATCACGCTC
*
96195 TTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG-GCATCCTTCTCTTT
66 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AA-GAG--GTG--TCCTGCTCTTT
* * *
96258 GAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTCAAAAGGGGTCCTGCTCTTTGGGGACGGAA
124 GAGGACTGGAAAATGCCACCAACATGTGTGGGCTTCAAAAGGGGTCCTGCTCTTTGGGGACGGAA
* *
96323 AGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACC
189 AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCTCTTTGAGGACTGAAAGGTGCCACC
** *
96388 AACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTT
254 AACTTGTGTGGGCTTTAAAAGAAAAAACATCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTT
* *
96453 GTGTCGGCTTTAAAAGGGGTCCT
319 GGGTCGGCTTTAAAAGGGGTCCC
* * * *
96476 GCTCTTTGGGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCATGCTC
1 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTCAAAAGAAAAAGCATCACGCTC
96541 TTTGAGG
66 TTTGAGG
96548 GCTAAAAAGC
Statistics
Matches: 365, Mismatches: 34, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
338 2 0.01
339 22 0.06
340 12 0.03
343 28 0.08
344 38 0.10
345 29 0.08
346 29 0.08
347 1 0.00
348 28 0.08
349 176 0.48
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (341 bp):
GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTCAAAAGAAAAAGCATCACGCTC
TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
GGAAAATGCCACCAACATGTGTGGGCTTCAAAAGGGGTCCTGCTCTTTGGGGACGGAAAGGTGCC
ACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGT
GTGGGCTTTAAAAGAAAAAACATCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTCGG
CTTTAAAAGGGGTCCC
Found at i:96335 original size:404 final size:397
Alignment explanation
Indices: 95787--96528 Score: 1005
Period size: 404 Copynumber: 1.8 Consensus size: 397
95777 AATAAAGTGT
* * *
95787 ATCCTGCTCTTTGATGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 ATCCCGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCT
* * *
95852 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTCAAAAGGGGTCCTGCTCTTTGAGGACTG
*
95917 GAAAATGCCACCAACATGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCA
131 GAAAATGCCACCAACATGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
* * * *
95982 CCAACTTGTGTGGGCTTT-G-AAAGGGGTCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTT
196 CCAACTTGTGTGGGCTTTAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAA-ATGCCACCAACTT
* *
96044 GTGTGGGCTTTGAAAAGAAAAAACATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGGGT
260 GTGTCGGCTTT-AAAAG-----ACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGGGT
96108 GGGCTTT-AAAAGAAAAGGCGTCCCGTTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCT
319 GGGCTTTGAAAAGAAAAGGCGTCCCGTTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCT
96172 TCAAAAGAAAATGC
384 TCAAAAGAAAATGC
* * *
96186 ATCCCGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCC
1 ATCCCGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT-----GA-AAGGCATCC
* *
96250 TTCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTCAAAAGGGGTCCTGCTCTTTG
60 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTCAAAAGGGGTCCTGCTCTTTG
* * * * *
96314 GGGAC-GGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGAA
124 AGGACTGGAAA-ATGCCACCAACATGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAA
96378 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAAATG
188 AGGTGCCACCAACTTGTGTGGGCTTT---AGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAAATG
*** *
96443 CCACCAACTTGTGTCGGCTTTAAAAGGGGTCCTGCTCTTTGGGGACTAAAAGGTGCCACCAACTT
250 CCACCAACTTGTGTCGGCTTTAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTT
* *
96508 GTGTGGGCTTTGAAAGGAAAA
315 GGGTGGGCTTTGAAAAGAAAA
96529 AGCATCATGC
Statistics
Matches: 298, Mismatches: 29, Indels: 26
0.84 0.08 0.07
Matches are distributed among these distances:
398 25 0.08
399 17 0.06
403 24 0.08
404 167 0.56
405 11 0.04
408 6 0.02
409 44 0.15
410 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (397 bp):
ATCCCGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTCAAAAGGGGTCCTGCTCTTTGAGGACTG
GAAAATGCCACCAACATGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
CCAACTTGTGTGGGCTTTAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTG
TGTCGGCTTTAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGGGTGGGCTTT
GAAAAGAAAAGGCGTCCCGTTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTCAAAAG
AAAATGC
Found at i:110256 original size:20 final size:20
Alignment explanation
Indices: 110233--110305 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
110223 ACAATTCAAA
110233 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
110253 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
110274 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
110294 GTATCGATACAT
1 GTATCGATACAT
110306 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:110277 original size:21 final size:21
Alignment explanation
Indices: 110251--110326 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
110241 ACATGTTGCA
110251 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
110272 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
110292 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
110313 ATGTATCGATACAT
1 ATGTATCGATACAT
110327 TTCTTAGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:110284 original size:41 final size:41
Alignment explanation
Indices: 110233--110326 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
110223 ACAATTCAAA
*
110233 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
110274 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
110315 GTATCGATACAT
1 GTATCGATACAT
110327 TTCTTAGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:110383 original size:13 final size:13
Alignment explanation
Indices: 110365--110390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110355 TACAGCAAGT
110365 ATGTATCGATACA
1 ATGTATCGATACA
110378 ATGTATCGATACA
1 ATGTATCGATACA
110391 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:114472 original size:15 final size:15
Alignment explanation
Indices: 114452--114482 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
114442 TAAAAATGTC
*
114452 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
114467 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
114482 C
1 C
114483 TAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:116575 original size:20 final size:21
Alignment explanation
Indices: 116496--116574 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
116486 AATGTCCAAA
*
116496 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
116516 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
116541 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
116561 TTGTATCGATACAT
1 ATGTATCGATACAT
116575 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:116579 original size:13 final size:13
Alignment explanation
Indices: 116561--116599 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
116551 ACATTTTTCT
116561 TTGTATCGATACA
1 TTGTATCGATACA
116574 TTGTATCGATACA
1 TTGTATCGATACA
*
116587 CTGTATCGATACA
1 TTGTATCGATACA
116600 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:119063 original size:20 final size:20
Alignment explanation
Indices: 119040--119112 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
119030 ACAATTCAAA
119040 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
119060 GTATCAATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
119081 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
119101 GTATCGATACAT
1 GTATCGATACAT
119113 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:119084 original size:21 final size:21
Alignment explanation
Indices: 119058--119133 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
119048 ACATGTTGCA
*
119058 ATGTATCAATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
119079 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
119099 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
119120 ATGTATCGATACAT
1 ATGTATCGATACAT
119134 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:119090 original size:41 final size:41
Alignment explanation
Indices: 119040--119133 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
119030 ACAATTCAAA
*
119040 GTATCGATACATGTTGCAATGTATCAATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCAATACATAAAAAAGAT
*
119081 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCAATACATAAAAAAGAT
119122 GTATCGATACAT
1 GTATCGATACAT
119134 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCAATACATAAAAAAGAT
Found at i:119190 original size:13 final size:13
Alignment explanation
Indices: 119172--119197 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119162 TACAGCAAAT
119172 ATGTATCGATACA
1 ATGTATCGATACA
119185 ATGTATCGATACA
1 ATGTATCGATACA
119198 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:119195 original size:32 final size:33
Alignment explanation
Indices: 119154--119217 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
119144 TAGCCAAACT
*
119154 TGTATCGATACAGC-AAATA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAAATTGTATCGATACAA
119186 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
119218 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 16 0.55
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:120171 original size:28 final size:28
Alignment explanation
Indices: 120117--120191 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
120107 AATAAAGCCG
*** * *
120117 AGGTTGGAGTATCCCCTCGGAAGTAACG
1 AGGTTGGAGTATCCCCGATGAAATAACA
*
120145 GGGTTGGAGTATCCCCGATGAAATAACA
1 AGGTTGGAGTATCCCCGATGAAATAACA
*
120173 AGGTTGGAGTATCCTCGAT
1 AGGTTGGAGTATCCCCGAT
120192 TGTGAAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (28 bp):
AGGTTGGAGTATCCCCGATGAAATAACA
Found at i:120244 original size:52 final size:52
Alignment explanation
Indices: 120174--120292 Score: 150
Period size: 52 Copynumber: 2.3 Consensus size: 52
120164 GAAATAACAA
* * * *
120174 GGTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTACTTTAG-AAATAAAACCGG
* ** *
120226 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGCTTTAGCGATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTACTTTAGAAATAAAACCGG
120278 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
120293 TCAAAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 44 0.76
53 14 0.24
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTACTTTAGAAATAAAACCGG
Found at i:120284 original size:160 final size:160
Alignment explanation
Indices: 120118--120452 Score: 451
Period size: 160 Copynumber: 2.1 Consensus size: 160
120108 ATAAAGCCGA
** *
120118 GGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACAAGGTTGGAGT
1 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATG-AATAACAAGGTTGGAGT
* * * *
120183 ATCCTCGATTGTGAA-AAATTGGT-ATTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTG
65 ATCCCCGATTGTGAAGAAATTGGTGATTTTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTA
* **
120246 TGGAAAAATTAGTGCTTTAG-CGATAAAATCGG
130 TAG-AAAATTAGTG-TTTAGAAAATAAAATCGG
* **
120278 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTA
1 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGAATAACAAGGTTGGAGTA
* * *
120343 TCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAT
66 TCCCCGATTGTGAAGAAATTGGTGATTTTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTAT
*
120408 AGAAAATTAGTGTTTTGAAAATAAAATCGG
131 AGAAAATTAGTGTTTAGAAAATAAAATCGG
* *
120438 AGTTGGAATATCCCC
1 GGTTGGAGTATCCCC
120453 GATTGTGGAG
Statistics
Matches: 153, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
159 32 0.21
160 85 0.56
161 36 0.24
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (160 bp):
GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGAATAACAAGGTTGGAGTA
TCCCCGATTGTGAAGAAATTGGTGATTTTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTAT
AGAAAATTAGTGTTTAGAAAATAAAATCGG
Found at i:120338 original size:27 final size:27
Alignment explanation
Indices: 120266--120350 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
120256 AGTGCTTTAG
*
120266 CGATAAA-ATCGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
* *
120292 CTCAAAAATAACGGGGTTGGAGTATCCC
1 C-GATAAATAACGGGGTTGGAGTATCCC
* *
120320 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
120347 CGAT
1 CGAT
120351 TGTGAAGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.02
27 30 0.60
28 19 0.38
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:120434 original size:51 final size:53
Alignment explanation
Indices: 120338--120456 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
120328 AACGGGGTTG
* * *
120338 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
120392 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
120443 GAATATCCCCGATT
1 GAGTATCCCCGATT
120457 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:122837 original size:13 final size:13
Alignment explanation
Indices: 122819--122844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122809 ACAAAGATCC
122819 ATGTATCGATACA
1 ATGTATCGATACA
122832 ATGTATCGATACA
1 ATGTATCGATACA
122845 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:122840 original size:33 final size:33
Alignment explanation
Indices: 122798--122864 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
122788 AAAATTTCCA
***
122798 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
122831 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
122864 A
1 A
122865 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:122908 original size:19 final size:17
Alignment explanation
Indices: 122882--122953 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 17
122872 GGCAGTAGCT
122882 AATTATGTATCGATACA
1 AATTATGTATCGATACA
122899 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
122917 -A-T-TGTATCGATACAA
1 AATTATGTATCGATAC-A
122932 AATTTATGTATCGATACA
1 AA-TTATGTATCGATACA
122950 AATT
1 AATT
122954 GTTGAATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.23
14 1 0.02
16 2 0.04
17 3 0.06
18 5 0.11
19 25 0.53
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:122924 original size:13 final size:13
Alignment explanation
Indices: 122906--122930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122896 ACAATACTTA
122906 TGTATCGATACAT
1 TGTATCGATACAT
122919 TGTATCGATACA
1 TGTATCGATACA
122931 AAATTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:122928 original size:32 final size:32
Alignment explanation
Indices: 122887--122949 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
122877 TAGCTAATTA
*
122887 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
122919 TGTATCGATACAAAATTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
122950 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:123013 original size:21 final size:21
Alignment explanation
Indices: 122987--123063 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
122977 GTTGGGACCC
* *
122987 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
123008 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
123029 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
123050 TGTATCAATACATT
1 TGTATCGATACATT
123064 TATTTTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 3 0.06
21 47 0.94
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:124056 original size:7 final size:7
Alignment explanation
Indices: 124041--124071 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
124031 TGTTCATGAA
124041 TTTTTTC
1 TTTTTTC
*
124048 TTTTCTC
1 TTTTTTC
124055 TTTTTTC
1 TTTTTTC
124062 TTTTTTC
1 TTTTTTC
124069 TTT
1 TTT
124072 CTCTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:124067 original size:21 final size:21
Alignment explanation
Indices: 124041--124082 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
124031 TGTTCATGAA
124041 TTTTTTCTTTTCTCTTT-TTTC
1 TTTTTTC-TTTCTCTTTATTTC
124062 TTTTTTCTTTCTCTTTATTTC
1 TTTTTTCTTTCTCTTTATTTC
124083 AACTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTCTTTCTCTTTATTTC
Found at i:129939 original size:24 final size:24
Alignment explanation
Indices: 129910--129955 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
129900 ATATTTAAAA
129910 TTAAAATATT-AAATACTTTTTATT
1 TTAAAATATTAAAATA-TTTTTATT
*
129934 TTAAAATTTTAAAATATTTTTA
1 TTAAAATATTAAAATATTTTTA
129956 AATAAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TTAAAATATTAAAATATTTTTATT
Found at i:130414 original size:19 final size:20
Alignment explanation
Indices: 130376--130417 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
130366 GTTTAGTATT
*
130376 ATAAATATTTAATTTTTTTA
1 ATAAATATTTAATCTTTTTA
*
130396 ATAAATA-TTACTCTTTTTA
1 ATAAATATTTAATCTTTTTA
130415 ATA
1 ATA
130418 TTTATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAAATATTTAATCTTTTTA
Found at i:130805 original size:13 final size:13
Alignment explanation
Indices: 130767--130807 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
130757 CAACATATGA
*
130767 AAAAGATTAAATCT
1 AAAAGATTAAA-AT
130781 AAAAGAATTAAAAT
1 AAAAG-ATTAAAAT
130795 AAAAGATTAAAAT
1 AAAAGATTAAAAT
130808 GTAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 11 0.44
15 6 0.24
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (13 bp):
AAAAGATTAAAAT
Found at i:131829 original size:23 final size:23
Alignment explanation
Indices: 131799--131844 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
131789 TTAAGTTGTC
131799 TGCCTATAGA-CTGTGCCCACGGT
1 TGCCTATAGAGC-GTGCCCACGGT
*
131822 TGCCTATAGAGCGTGTCCACGGT
1 TGCCTATAGAGCGTGCCCACGGT
131845 CTATTTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.26
Consensus pattern (23 bp):
TGCCTATAGAGCGTGCCCACGGT
Found at i:132697 original size:12 final size:13
Alignment explanation
Indices: 132675--132703 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
132665 TAATAATTTT
132675 TTTTATTTTTCAA
1 TTTTATTTTTCAA
132688 TTTT-TTTTTCAA
1 TTTTATTTTTCAA
132700 TTTT
1 TTTT
132704 CTTTATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTCAA
Found at i:132777 original size:33 final size:30
Alignment explanation
Indices: 132688--132787 Score: 85
Period size: 33 Copynumber: 3.1 Consensus size: 30
132678 TATTTTTCAA
* *
132688 TTTTTTTTTCAATTTTCTTTATTTCTTTCTTATT
1 TTTTTTTTTCAATTTTC--AATTTTTTTC-T-TT
*
132722 CTTTTTTTTTCTAATCTT-AATTTTGTTTCATTT
1 -TTTTTTTTTC-AATTTTCAATTTT-TTTC-TTT
132755 TTTTCTTTTTCAATTTTCAATTTTTTTCTTT
1 TTTT-TTTTTCAATTTTCAATTTTTTTCTTT
132786 TT
1 TT
132788 CAAAGAATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
31 5 0.09
32 13 0.23
33 18 0.32
34 5 0.09
35 10 0.18
36 5 0.09
ACGTcount: A:0.13, C:0.12, G:0.01, T:0.74
Consensus pattern (30 bp):
TTTTTTTTTCAATTTTCAATTTTTTTCTTT
Found at i:132781 original size:23 final size:22
Alignment explanation
Indices: 132747--132790 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
132737 CTTAATTTTG
132747 TTTCATTTTTTTCTTTTTCAAT
1 TTTCATTTTTTTCTTTTTCAAT
132769 TTTCAATTTTTTTCTTTTTCAA
1 TTTC-ATTTTTTTCTTTTTCAA
132791 AGAATCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTCATTTTTTTCTTTTTCAAT
Found at i:132798 original size:24 final size:23
Alignment explanation
Indices: 132751--132798 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
132741 ATTTTGTTTC
***
132751 ATTTTTTTCTTTTTCAATTTTCA
1 ATTTTTTTCTTTTTCAAGAATCA
132774 ATTTTTTTCTTTTTCAAAGAATCA
1 ATTTTTTTCTTTTTC-AAGAATCA
132798 A
1 A
132799 AGCATATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.25, C:0.12, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTTTTTCTTTTTCAAGAATCA
Found at i:133840 original size:41 final size:41
Alignment explanation
Indices: 133789--133916 Score: 157
Period size: 41 Copynumber: 3.1 Consensus size: 41
133779 AAATTAAAAA
* * * *
133789 CTCTTGTTTGATAAGATGTGGGCATGTTAAGAAAACATAAG
1 CTCTTATTTGATAAGGTATGGGCACGTTAAGAAAACATAAG
* * * * *
133830 CTTTTATTTGATAAGGCATGAGCACATTAAGAAAACAGAAG
1 CTCTTATTTGATAAGGTATGGGCACGTTAAGAAAACATAAG
* *
133871 CTCTTATCTGATAAGGTATGGGCACGTTAAGAAAACATAAA
1 CTCTTATTTGATAAGGTATGGGCACGTTAAGAAAACATAAG
133912 CTCTT
1 CTCTT
133917 GTTTTAAAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (41 bp):
CTCTTATTTGATAAGGTATGGGCACGTTAAGAAAACATAAG
Found at i:135358 original size:19 final size:20
Alignment explanation
Indices: 135322--135363 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
135312 GTTTAGTATT
135322 ATAAATATTTAATTTTTTTA
1 ATAAATATTTAATTTTTTTA
*
135342 ATAAATA-TTACTTTTTTTA
1 ATAAATATTTAATTTTTTTA
135361 ATA
1 ATA
135364 TTTATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAAATATTTAATTTTTTTA
Found at i:137978 original size:20 final size:20
Alignment explanation
Indices: 137949--137988 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
137939 ATTTATACTA
137949 TATTTAAAATTTAAATTTTT
1 TATTTAAAATTTAAATTTTT
*
137969 TATTTGAAATTTAAATTTTT
1 TATTTAAAATTTAAATTTTT
137989 AAATGCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TATTTAAAATTTAAATTTTT
Found at i:139604 original size:20 final size:19
Alignment explanation
Indices: 139561--139606 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
139551 TTCACCAACT
* * *
139561 TCTTAAAAAAATCTATTTC
1 TCTTAAAAAAACCTATCTA
139580 TCTTAAAAAAACCTATCTA
1 TCTTAAAAAAACCTATCTA
139599 TACTTAAA
1 T-CTTAAA
139607 TTTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (19 bp):
TCTTAAAAAAACCTATCTA
Found at i:139711 original size:28 final size:28
Alignment explanation
Indices: 139679--139733 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
139669 TCACGGGCTG
139679 ATCAAGTTGTGATATTGAAAAAAAAAAA
1 ATCAAGTTGTGATATTGAAAAAAAAAAA
139707 ATCAAGTTGTGATATTGAAAAAAAAAA
1 ATCAAGTTGTGATATTGAAAAAAAAAA
139734 TTTGTCTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.15, T:0.25
Consensus pattern (28 bp):
ATCAAGTTGTGATATTGAAAAAAAAAAA
Found at i:139793 original size:32 final size:30
Alignment explanation
Indices: 139757--139850 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 30
139747 AGACCGATCC
*
139757 AAAAACTTATTTTATTATTTAAGATAATATT
1 AAAAAATTATTTTATTATTTAA-ATAATATT
139788 AAAAAATTAATTTTA-TA-TT-AAT-ATA-T
1 AAAAAATT-ATTTTATTATTTAAATAATATT
*
139814 AAATATAAATATTTTATTATTTAAATAATAATT
1 AAA-A-AATTATTTTATTATTTAAATAAT-ATT
139847 AAAA
1 AAAA
139851 TTAAATCAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
26 4 0.08
27 10 0.19
28 7 0.13
29 3 0.06
30 5 0.10
31 11 0.21
32 8 0.15
33 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
AAAAAATTATTTTATTATTTAAATAATATT
Found at i:141112 original size:15 final size:14
Alignment explanation
Indices: 141089--141136 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
141079 AAAAATATAA
*
141089 ATATGTTTTAATTAT
1 ATATATTTTAATT-T
*
141104 ATATATTTTTATTT
1 ATATATTTTAATTT
141118 -TATATTTTAATTT
1 ATATATTTTAATTT
*
141131 TTATAT
1 ATATAT
141137 AATTTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.41
14 6 0.21
15 11 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
ATATATTTTAATTT
Found at i:142329 original size:17 final size:17
Alignment explanation
Indices: 142307--142339 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
142297 CACTTAAATT
142307 TTGAGAAAGATTTAAAA
1 TTGAGAAAGATTTAAAA
142324 TTGAGAAAGATTTAAA
1 TTGAGAAAGATTTAAA
142340 TAATTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (17 bp):
TTGAGAAAGATTTAAAA
Found at i:142600 original size:5 final size:5
Alignment explanation
Indices: 142592--142756 Score: 75
Period size: 5 Copynumber: 33.4 Consensus size: 5
142582 AATATAATAT
* *
142592 TTATA TTATA TT-TA -TATAA TTTTA TGTATA TTATA -TAT- TTATA TAATTA
1 TTATA TTATA TTATA TTAT-A TTATA T-TATA TTATA TTATA TTATA TTA-TA
* *
142641 TTA-A TATATTA TTATA TTATA TTATA -TAAA TT-TAA TGTATT TTATA
1 TTATA T-TA-TA TTATA TTATA TTATA TTATA TTAT-A T-TATA TTATA
* * * * *
142687 TTTATA TAATA TTTATA TTATA ATATA TTATAA TTGT- TTTTA TTTTA
1 -TTATA TTATA -TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA
142734 TT-T- TTATA -TA-A TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TT
142757 TAAAATAATT
Statistics
Matches: 124, Mismatches: 14, Indels: 44
0.68 0.08 0.24
Matches are distributed among these distances:
3 4 0.03
4 23 0.19
5 67 0.54
6 27 0.22
7 3 0.02
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TTATA
Done.