Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007847.1 Hibiscus syriacus cultivar Beakdansim tig00110204_pilon, whole genome shotgun sequence
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: 1444154
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:2952 original size:21 final size:21
Alignment explanation
Indices: 2926--2968 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2916 TTTCTGGGTT
* *
2926 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
2947 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
2968 A
1 A
2969 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:3084 original size:67 final size:68
Alignment explanation
Indices: 2948--3096 Score: 207
Period size: 68 Copynumber: 2.2 Consensus size: 68
2938 ACCCATTCAA
* *
2948 GGGGAACCGATACCCCTTCAACGAATATGATTTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGATATTCCAGAATGCTAGAGGGGAATCGGTACCCCCA
3013 GGG
66 GGG
* * *
3016 GGGGAACCGATACCCCCTCATCGTATATGA-ATTCCAGATTGCTTA-AGGGGAATC-GTA-CCCC
1 GGGGAACCGATACCCCCTCAACGAATATGATATTCCAGAATGC-TAGAGGGGAATCGGTACCCCC
3077 AGGG
65 AGGG
*
3081 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
3097 ATAGAAAAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
65 23 0.31
66 3 0.04
67 19 0.26
68 29 0.39
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.19
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGATATTCCAGAATGCTAGAGGGGAATCGGTACCCCCA
GGG
Found at i:3429 original size:29 final size:29
Alignment explanation
Indices: 3395--3466 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
3385 CATATTATGA
**
3395 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
3424 TACATGACATGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
3453 TACATGACATGAAT
1 TACATGACATGAAT
3467 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:3831 original size:22 final size:22
Alignment explanation
Indices: 3757--3823 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
3747 TTATGGACAA
3757 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
3779 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
3801 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
3823 A
1 A
3824 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:7564 original size:23 final size:23
Alignment explanation
Indices: 7538--7609 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
7528 GGAACCGATA
7538 CCCCCTTGAAGAGGATCTGATTC
1 CCCCCTTGAAGAGGATCTGATTC
* *
7561 CCCCTTTGAATG-GGAACTGATTC
1 CCCCCTTGAA-GAGGATCTGATTC
* * *
7584 CCTCCTTG-AGAGAATC-GATAC
1 CCCCCTTGAAGAGGATCTGATTC
7605 CCCCC
1 CCCCC
7610 ACGGGTTCTG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
21 9 0.23
22 4 0.10
23 25 0.64
24 1 0.03
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (23 bp):
CCCCCTTGAAGAGGATCTGATTC
Found at i:26942 original size:13 final size:14
Alignment explanation
Indices: 26914--26942 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26904 ATATTTTATA
26914 ATATTTTTACTATT
1 ATATTTTTACTATT
26928 ATATTTTTACT-TT
1 ATATTTTTACTATT
26941 AT
1 AT
26943 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:28885 original size:146 final size:145
Alignment explanation
Indices: 28604--29087 Score: 477
Period size: 146 Copynumber: 3.3 Consensus size: 145
28594 TTACTGCACT
* * *
28604 GCCGTTCCACCGTCCGATTGTCTTGAAATTTCAGTATGTTGTTCGTGTTAACATCGCACAACTTT
1 GCCG-TCCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTCGTGTTAATATCGCACAACTTT
* * * ** * * * *
28669 TGACAATTCGGAATATTGATCGGAGGTTCCGATCACCGGCGAGAGGCCAAATATCGTCTGGATTT
65 TGACAATTCGGAATATTGATCGGAGATCCCGATCGCCGGAAAGAGGCCAAAAACCGT-TCGACTT
*
28734 GTTTTCTCCGATTCACC
129 ATTTTCTCCGATTCACC
* * * * * * **
28751 ACCGTCTACGGTCCGATCGTCATGAAATTTCAGTATGCTGTTCGTGTTTATATTACACAACTTTT
1 GCCGTCCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTCGTGTTAATATCGCACAACTTTT
* * * * * *
28816 CACTATT-TGAAGTATTGATCGGAGAACCCGATCGCCGGAAAAAAGGCTAAAAACCGTTCGACTT
66 GACAATTCGGAA-TATTGATCGGAGATCCCGATCGCCGG-AAAGAGGCCAAAAACCGTTCGACTT
*
28880 ATTTTCTCCGA-TCTGCC
129 ATTTTCTCCGATTC-ACC
* * * * * ** * *
28897 GTCGTCCACCGTCTGATTGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTT
1 GCCGTCCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTCGTGTTAATATCGCACAACTTTT
** * * * * *
28962 GACCGTTCGGAATGTTAATCGGAGATCCCGATCGCAGGAAAGAGACCAAAAACCGTTCGGCTTAT
66 GACAATTCGGAATATTGATCGGAGATCCCGATCGCCGGAAAGAGGCCAAAAACCGTTCGACTTAT
* *
29027 TTTCTCTGATCCACC
131 TTTCTCCGATTCACC
* *
29042 GCCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTG
1 GCCGTCCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTCGTG
29088 ATGGTCTTGT
Statistics
Matches: 272, Mismatches: 60, Indels: 12
0.79 0.17 0.03
Matches are distributed among these distances:
145 82 0.30
146 172 0.63
147 18 0.07
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (145 bp):
GCCGTCCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTCGTGTTAATATCGCACAACTTTT
GACAATTCGGAATATTGATCGGAGATCCCGATCGCCGGAAAGAGGCCAAAAACCGTTCGACTTAT
TTTCTCCGATTCACC
Found at i:29064 original size:145 final size:146
Alignment explanation
Indices: 28833--29139 Score: 454
Period size: 145 Copynumber: 2.1 Consensus size: 146
28823 TGAAGTATTG
* * * * **
28833 ATCGGAGAACCCGATCGCCGGAAAAAAGGCTAAAAACCGTTCGACTTATTTTCTCCGATCTGCCG
1 ATCGGAGATCCCGATCGCAGGAAAAAAGACCAAAAACCGTTCGACTTATTTTCTCCGATCCACCG
* *
28898 TCGTCCACCGTCTGATTGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTTG
66 CCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTTG
*
28963 ACCGTTCGGAATGTTA
131 ACCGTTCGGAATGGTA
* * *
28979 ATCGGAGATCCCGATCGCAGG-AAAGAGACCAAAAACCGTTCGGCTTATTTTCTCTGATCCACCG
1 ATCGGAGATCCCGATCGCAGGAAAAAAGACCAAAAACCGTTCGACTTATTTTCTCCGATCCACCG
* *
29043 CCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTTGTGCAACTTTTG
66 CCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTTG
*
29108 ACCGTTCGGAATGGTG
131 ACCGTTCGGAATGGTA
* *
29124 ATCGAAGATTCCGATC
1 ATCGGAGATCCCGATC
29140 AACGACGAGA
Statistics
Matches: 144, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
145 125 0.87
146 19 0.13
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (146 bp):
ATCGGAGATCCCGATCGCAGGAAAAAAGACCAAAAACCGTTCGACTTATTTTCTCCGATCCACCG
CCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTTG
ACCGTTCGGAATGGTA
Found at i:29811 original size:112 final size:112
Alignment explanation
Indices: 29628--29884 Score: 403
Period size: 112 Copynumber: 2.3 Consensus size: 112
29618 GCTGTCACTC
* * *
29628 AGGGAATATCAGATCTGGG-GATGTTTATTCATTGAATGTGGCAAGACTTGTTCCGCTGTCACTC
1 AGGGAATATCAGATCTGGGAGA-GTTGATCCATTGAATGTGGCAAGACTTGTTCCACTGTCACTC
* *
29692 AGGGAATATCAAATCCTGAAAAAGAGGGATATGTTCCGCTTCTTCTGA
65 AGGGAATATCAAATCCTGAAAAAAAGGGATATGTTCCGCTTCTTCTAA
29740 A-GGAATATCAGATCTGGGAGAGTTGATCCATTGAATCGTGGCAAGACTTGTTCCACTGTCACTC
1 AGGGAATATCAGATCTGGGAGAGTTGATCCATTGAAT-GTGGCAAGACTTGTTCCACTGTCACTC
* *
29804 AGGGAATATCAAATCTTGAAAAAAAGGGATCTGTTCCGCTTCTTCTAA
65 AGGGAATATCAAATCCTGAAAAAAAGGGATATGTTCCGCTTCTTCTAA
29852 AGGGAATATCAGATCT-GGATGAGTTGATCCATT
1 AGGGAATATCAGATCTGGGA-GAGTTGATCCATT
29885 CCACTGTCAC
Statistics
Matches: 134, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
111 30 0.22
112 77 0.57
113 27 0.20
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (112 bp):
AGGGAATATCAGATCTGGGAGAGTTGATCCATTGAATGTGGCAAGACTTGTTCCACTGTCACTCA
GGGAATATCAAATCCTGAAAAAAAGGGATATGTTCCGCTTCTTCTAA
Found at i:30123 original size:48 final size:46
Alignment explanation
Indices: 30055--30570 Score: 153
Period size: 47 Copynumber: 11.5 Consensus size: 46
30045 ATGGTAGACT
* *
30055 TGTTCCGATGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATA
1 TGTTCCGCTGTCACTAAGGGAATATCAAATCTTGAAAGAG-ATGATA
* * * * * *
30102 TGTTCCGCT-TCTTCTGAAGGGAATATCAGATC-TGGATGAGTTGATC
1 TGTTCCGCTGTC-ACT-AAGGGAATATCAAATCTTGAAAGAGATGATA
** * * ** * *
30148 CATTCCGCTGTCACTCAGGGAAGATTGAATCATG---GTAGA--CT-
1 TGTTCCGCTGTCACTAAGGGAATATCAAATCTTGAAAG-AGATGATA
*
30189 TGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATA
1 TGTTCCGCTGTCACTAAGGGAATATCAAATCTTGAAAGAG-ATGATA
* * * * *
30236 TGTTCCGCT-TCTTCTGAAGGGAATATCAGAT-TTGGATGAGTTGAT-
1 TGTTCCGCTGTC-ACT-AAGGGAATATCAAATCTTGAAAGAGATGATA
* * * ** * *
30281 TCATTCCACTGTCACTCAA-GGAAGATTGAATCATG---GTAGA--CT-
1 T-GTTCCGCTGTCACT-AAGGGAATATCAAATCTTGAAAG-AGATGATA
* *
30323 TGTTCTGCTGTCACTCAA-GGAATATCAAATCTTGAAAGAGAATGATT
1 TGTTCCGCTGTCACT-AAGGGAATATCAAATCTTGAAAGAG-ATGATA
* * * *
30370 TGTTCCGCT-T-ATTCTGAAGGGAATATCATATC-TGAATGAGTTAAT-
1 TGTTCCGCTGTCA--CT-AAGGGAATATCAAATCTTGAAAGAGATGATA
* * * ** * *
30415 TCATTCCGCTGTCACT-CGGGAAGATTGAATCATG---GTAGA--CT-
1 T-GTTCCGCTGTCACTAAGGGAATATCAAATCTTGAAAG-AGATGATA
* *
30456 TGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
1 TGTTCCGCTGTCACTAAGGGAATATCAAATCTTGAAAGAG-ATGATA
* * * *
30503 TGTTCCGCT-TCTTCTGAAGGGAATATCAGATC-TGAATGAGTTGAT-
1 TGTTCCGCTGTC-ACT-AAGGGAATATCAAATCTTGAAAGAGATGATA
* * *
30548 TCATTCCGCAGTCACTCAGGGAA
1 T-GTTCCGCTGTCACTAAGGGAA
30571 GATTGAATCA
Statistics
Matches: 344, Mismatches: 80, Indels: 92
0.67 0.16 0.18
Matches are distributed among these distances:
40 13 0.04
41 69 0.20
42 4 0.01
43 10 0.03
44 20 0.06
45 31 0.09
46 65 0.19
47 78 0.23
48 54 0.16
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (46 bp):
TGTTCCGCTGTCACTAAGGGAATATCAAATCTTGAAAGAGATGATA
Found at i:30174 original size:134 final size:134
Alignment explanation
Indices: 29769--30595 Score: 1309
Period size: 134 Copynumber: 6.2 Consensus size: 134
29759 GAGTTGATCC
* * * * *
29769 ATTGAATCGTGGCAAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAA-AAAAGGGA
1 ATTGAATCATGG-TAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAA-TGA
* *
29833 TCTGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCA
64 TCTGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCA
29898 GGGAAG
129 GGGAAG
* * * * *
29904 ATTGAATCGTGGTAGACTTGTTCTGCTGTCACTCAGGGAATATCAAGTCTTGAAA-AAAATCATC
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
* * * *
29968 TATTTCGCTTCTTCTAAAGGGAATATCAGAACTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
30033 GAAG
131 GAAG
* *
30037 ATTGAATCATGGTAGACTTGTTCCGATGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATA
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
30102 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
30167 GAAG
131 GAAG
*
30171 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATA
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
* * * *
30236 TGTTCCGCTTCTTCTGAAGGGAATATCAGATTTGGATGAGTTGATTCATTCCACTGTCACTCAAG
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
30301 GAAG
131 GAAG
* * *
30305 ATTGAATCATGGTAGACTTGTTCTGCTGTCACTCAAGGAATATCAAATCTTGAAAGAGAATGATT
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
* * * * *
30370 TGTTCCGCTTATTCTGAAGGGAATATCATATCTGAATGAGTTAATTCATTCCGCTGTCACTC-GG
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
30434 GAAG
131 GAAG
30438 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
* * *
30503 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGAATGAGTTGATTCATTCCGCAGTCACTCAGG
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
30568 GAAG
131 GAAG
30572 ATTGAATCATGGTAGACTTGTTCC
1 ATTGAATCATGGTAGACTTGTTCC
30596 ACTTCTTTGT
Statistics
Matches: 647, Mismatches: 43, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
133 244 0.38
134 391 0.60
135 12 0.02
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (134 bp):
ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
GAAG
Found at i:30312 original size:401 final size:401
Alignment explanation
Indices: 29769--30598 Score: 1349
Period size: 401 Copynumber: 2.1 Consensus size: 401
29759 GAGTTGATCC
* *
29769 ATTGAATCGTGGCAAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAAAAAGGGAT
1 ATTGAATCATGG-TAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAAAAAGGGAT
* *
29834 CTGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCAG
65 ATGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCAA
* * *
29899 GGAAGATTGAATCGTGGTAGACTTGTTCTGCTGTCACTCAGGGAATATCAAGTCTTGAAA-AAAA
130 GGAAGATTGAATCATGGTAGACTTGTTCTGCTGTCACTCAAGGAATATCAAATCTTGAAAGAAAA
* * * *
29963 TCATCTATTTCGCTTCTTCTAAAGGGAATATCAGAACTGGATGAGTTGATCCATTCCGCTGTCAC
195 TCATCTATTCCGCTTATTCTAAAGGGAATATCAGAACTGAATGAGTTAATCCATTCCGCTGTCAC
30028 TCAGGGAAGATTGAATCATGGTAGACTTGTTCCGATGTCACTCAGGGAATATCAAATCTTGAAAG
260 TC-GGGAAGATTGAATCATGGTAGACTTGTTCCGATGTCACTCAGGGAATATCAAATCTTGAAAG
* *
30093 AGAATGATATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTG
324 AGAATGATATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGAATGAGTTGATCCATTCCGCAG
30158 TCACTCAGGGAAG
389 TCACTCAGGGAAG
* * *
30171 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAA-TGAT
1 ATTGAATCATGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAA-AAAAGGGAT
* * *
30235 ATGTTCCGCTTCTTCTGAAGGGAATATCAGATTTGGATGAGTTGATTCATTCCACTGTCACTCAA
65 ATGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCAA
*
30300 GGAAGATTGAATCATGGTAGACTTGTTCTGCTGTCACTCAAGGAATATCAAATCTTGAAAGAGAA
130 GGAAGATTGAATCATGGTAGACTTGTTCTGCTGTCACTCAAGGAATATCAAATCTTGAAAGAAAA
* * * * * * *
30365 TGATTTGTTCCGCTTATTCTGAAGGGAATATCATATCTGAATGAGTTAATTCATTCCGCTGTCAC
195 TCATCTATTCCGCTTATTCTAAAGGGAATATCAGAACTGAATGAGTTAATCCATTCCGCTGTCAC
*
30430 TCGGGAAGATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGA
260 TCGGGAAGATTGAATCATGGTAGACTTGTTCCGATGTCACTCAGGGAATATCAAATCTTGAAAGA
* *
30495 GAATGATCTGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGAATGAGTTGATTCATTCCGCAGT
325 GAATGATATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGAATGAGTTGATCCATTCCGCAGT
30560 CACTCAGGGAAG
390 CACTCAGGGAAG
30572 ATTGAATCATGGTAGACTTGTTCCACT
1 ATTGAATCATGGTAGACTTGTTCCACT
30599 TCTTTGTACC
Statistics
Matches: 395, Mismatches: 31, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
401 322 0.82
402 73 0.18
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (401 bp):
ATTGAATCATGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAAAAAGGGATA
TGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCAAG
GAAGATTGAATCATGGTAGACTTGTTCTGCTGTCACTCAAGGAATATCAAATCTTGAAAGAAAAT
CATCTATTCCGCTTATTCTAAAGGGAATATCAGAACTGAATGAGTTAATCCATTCCGCTGTCACT
CGGGAAGATTGAATCATGGTAGACTTGTTCCGATGTCACTCAGGGAATATCAAATCTTGAAAGAG
AATGATATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGAATGAGTTGATCCATTCCGCAGTC
ACTCAGGGAAG
Found at i:30564 original size:267 final size:268
Alignment explanation
Indices: 29769--30595 Score: 1318
Period size: 267 Copynumber: 3.1 Consensus size: 268
29759 GAGTTGATCC
* * * * *
29769 ATTGAATCGTGGCAAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAA-AAAAGGGA
1 ATTGAATCATGG-TAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAA-TGA
* * *
29833 TCTGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCA
64 TATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCA
* * * *
29898 GGGAAGATTGAATCGTGGTAGACTTGTTCTGCTGTCACTCAGGGAATATCAAGTCTTGAAA-AAA
129 GGGAAGATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGA
* * * * * *
29962 ATCATCTATTTCGCTTCTTCTAAAGGGAATATCAGAACTGGATGAGTTGATCCATTCCGCTGTCA
194 ATGATCTGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATTCATTCCGCTGTCA
30027 CTCAGGGAAG
259 CTCAGGGAAG
*
30037 ATTGAATCATGGTAGACTTGTTCCGATGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATA
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATA
30102 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
30167 GAAGATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAAT
131 GAAGATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAAT
* * *
30232 GATATGTTCCGCTTCTTCTGAAGGGAATATCAGATTTGGATGAGTTGATTCATTCCACTGTCACT
196 GATCTGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATTCATTCCGCTGTCACT
*
30297 CAAGGAAG
261 CAGGGAAG
* * *
30305 ATTGAATCATGGTAGACTTGTTCTGCTGTCACTCAAGGAATATCAAATCTTGAAAGAGAATGATT
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATA
* * * * *
30370 TGTTCCGCTTATTCTGAAGGGAATATCATATCTGAATGAGTTAATTCATTCCGCTGTCACTC-GG
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
30434 GAAGATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAAT
131 GAAGATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAAT
* *
30499 GATCTGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGAATGAGTTGATTCATTCCGCAGTCACT
196 GATCTGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATTCATTCCGCTGTCACT
30564 CAGGGAAG
261 CAGGGAAG
30572 ATTGAATCATGGTAGACTTGTTCC
1 ATTGAATCATGGTAGACTTGTTCC
30596 ACTTCTTTGT
Statistics
Matches: 518, Mismatches: 39, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
267 319 0.62
268 199 0.38
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (268 bp):
ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATA
TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
GAAGATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAAT
GATCTGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATTCATTCCGCTGTCACT
CAGGGAAG
Found at i:30938 original size:22 final size:23
Alignment explanation
Indices: 30913--30964 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
30903 GGATGGCCCG
* *
30913 AAGGACTTAT-CATCTTGCTCTA
1 AAGGACTTATACATCATGCTCGA
30935 AAGG-CTTATACATCATGCTCGA
1 AAGGACTTATACATCATGCTCGA
30957 AA-GACTTA
1 AAGGACTTA
30965 CTGATGGCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (23 bp):
AAGGACTTATACATCATGCTCGA
Found at i:31123 original size:184 final size:186
Alignment explanation
Indices: 30758--31126 Score: 580
Period size: 184 Copynumber: 2.0 Consensus size: 186
30748 TGATTTTTTT
*
30758 CATCATGCTTGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCAC
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCAC
* * * * *
30823 ATTCTTCGTTTTAAAAAAAAATCCATCTTCATTTTTTCATTTTCAATTTCATGTGAAAACATCAT
66 ATTCTTCGTTTT-AAAAAAAATCCAACATCATTTTTTCATTCTCAAATTCATGTGAAAACATCAG
30888 ACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTATA
130 ACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTATA
* * *
30945 CATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTATAAATTGTGAAATTTTGAAACTCGC
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCAC
* * *
31010 ATTCTTCGTTTT-CAAAAATTCCAACATCA-TTTTTCATTCTCAAATTCATGTGAAAACATCCGA
66 ATTCTTCGTTTTAAAAAAAATCCAACATCATTTTTTCATTCTCAAATTCATGTGAAAACATCAGA
* * *
31073 CCTGAAGGTTTTATGGATGGCTCGAAGGACTTCTCATCTTGCTCTAAAGGCTTA
131 CCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
31127 CAGATGACAC
Statistics
Matches: 167, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
184 81 0.49
185 13 0.08
187 73 0.44
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (186 bp):
CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCAC
ATTCTTCGTTTTAAAAAAAATCCAACATCATTTTTTCATTCTCAAATTCATGTGAAAACATCAGA
CCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTATA
Found at i:31349 original size:207 final size:207
Alignment explanation
Indices: 30945--31726 Score: 1069
Period size: 214 Copynumber: 3.7 Consensus size: 207
30935 AAGGCTTATA
* * *
30945 CATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTATAAATTGTGAAATTTTGAAACTCGC
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCAC
* *
31010 ATTCTTCGTTTTCAAAAATTCCA----ACATCATTTTTCATTCTCAAATTCATGTGAAAACATCC
66 ATTCTTCATTTTCAAAAATTCCATCTTACAT-ATTTTTCATTTTCAAATTCATGTGAAAACATCC
* * * * * *
31071 GACCTGAAGGTTTTATGGATGGCTCGAAGGACTTCTCATCTTGCTCTAAAGGCTTACAGATGACA
130 TACCCGAAGGTTTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACC
31136 CGAAGGATTTAAG
195 CGAAGGATTTAAG
*
31149 CATCATGCTTGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCAC
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCAC
* *
31214 ATTCTTCATTTTCAAAAAAATTCCATCTT-CAT-TTTTTTATTTTCAATTTCATGTGAAAACATC
66 ATTCTTCATTTTC--AAAAATTCCATCTTACATATTTTTCATTTTCAAATTCATGTGAAAACATC
*
31277 CTACCCGAAGGTTTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGCTTAAAGATGAC
129 CTACCCGAAGGTTTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGAC
31342 CCGAAGGATTTAAG
194 CCGAAGGATTTAAG
* * *
31356 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGAACTTATAAATCGTGAATTTTTGAAAAT-AT
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCA-
* * *
31420 CATTCTTCGTTTTCAAAAATTTCATCTTCGTAAAACATCATTTTTTCATTTTCAAATTCA-ATGA
65 CATTCTTCATTTTCAAAAATTCCATC-T--T---ACAT-A-TTTTTCATTTTCAAATTCATGTGA
* * *
31484 AAATATCCTACCCGAAGGTTTTATGGATGACCCAAAGGACTTGTCATCTTGCTCTAAAGGCTTAC
122 AAACATCCTACCCGAAGGTTTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGCTTAC
31549 AGATGACCCGAAGGATTTAAG
187 AGATGACCCGAAGGATTTAAG
* * *
31570 CATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTATAAATTGTGAAATTTTGAAACTCGC
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCAC
* *
31635 ATTCTTCATTTTCAAAAATTTCATCATCTTAAAACATCAATTTTCATTTCCAAATTCATGTG-AA
66 ATTCTTCATTTTCAAAAA-TTC--CATCTT---ACAT-ATTTTTCATTTTCAAATTCATGTGAAA
31699 ACATCCTACCCGAAGGTTTTATGGATGG
124 ACATCCTACCCGAAGGTTTTATGGATGG
31727 ATTTGCTTCA
Statistics
Matches: 515, Mismatches: 41, Indels: 35
0.87 0.07 0.06
Matches are distributed among these distances:
204 73 0.14
205 11 0.02
206 12 0.02
207 171 0.33
208 1 0.00
209 3 0.01
212 3 0.01
213 45 0.09
214 172 0.33
215 19 0.04
216 1 0.00
217 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (207 bp):
CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCAC
ATTCTTCATTTTCAAAAATTCCATCTTACATATTTTTCATTTTCAAATTCATGTGAAAACATCCT
ACCCGAAGGTTTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCC
GAAGGATTTAAG
Found at i:31768 original size:36 final size:36
Alignment explanation
Indices: 31722--31965 Score: 281
Period size: 36 Copynumber: 7.0 Consensus size: 36
31712 AGGTTTTATG
31722 GATGGATTTGCTTCACTACTCTTTGGTGAAGGCTTAA
1 GATGG-TTTGCTTCACTACTCTTTGGTGAAGGCTTAA
* * * *
31759 TATGGTTTGCTTCACTCCACTTTGGTGAAGGGTTAA
1 GATGGTTTGCTTCACTACTCTTTGGTGAAGGCTTAA
* *
31795 GATGGTTTGCTTCACTCCTCTTCGGTGAAGGCTTAA
1 GATGGTTTGCTTCACTACTCTTTGGTGAAGGCTTAA
31831 GATGGTTTGCTTCACTACTC--T-GTGAAGGCTTAA
1 GATGGTTTGCTTCACTACTCTTTGGTGAAGGCTTAA
*
31864 GATGG--TGTTTCACTACTCTTCT-GTGAAGGCTTAA
1 GATGGTTTGCTTCACTACTCTT-TGGTGAAGGCTTAA
* ** **
31898 AAT-AATTGCTTCACTACTCTCCGGTGAAGGCTTAA
1 GATGGTTTGCTTCACTACTCTTTGGTGAAGGCTTAA
**
31933 GATGG--TGCTTCACTACTCTCCGGTGAAGGCTTA
1 GATGGTTTGCTTCACTACTCTTTGGTGAAGGCTTA
31966 GGATTGACTT
Statistics
Matches: 182, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
31 12 0.07
33 17 0.09
34 43 0.24
35 27 0.15
36 79 0.43
37 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (36 bp):
GATGGTTTGCTTCACTACTCTTTGGTGAAGGCTTAA
Found at i:31934 original size:69 final size:68
Alignment explanation
Indices: 31730--31965 Score: 305
Period size: 69 Copynumber: 3.4 Consensus size: 68
31720 TGGATGGATT
* * * *
31730 TGCTTCACTACTCTTTGGTGAAGGCTTAATATGGTTTGCTTCACTCCACTTTGGTGAAGGGTTAA
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAAATGGTTTGCTTCACT--ACTCTGGTGAAGGCTTAA
31795 GATGG
64 GATGG
* *
31800 TTTGCTTCACTCCTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTCT-GTGAAGGCTTAA
1 --TGCTTCACTACTCTTCGGTGAAGGCTTAAAATGGTTTGCTTCACTACTCTGGTGAAGGCTTAA
31864 GATGG
64 GATGG
* * **
31869 TGTTTCACTACTCTTCTGTGAAGGCTTAAAAT-AATTGCTTCACTACTCTCCGGTGAAGGCTTAA
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAAATGGTTTGCTTCACTACTCT--GGTGAAGGCTTAA
31933 GATGG
64 GATGG
*
31938 TGCTTCACTACTCTCCGGTGAAGGCTTA
1 TGCTTCACTACTCTTCGGTGAAGGCTTA
31966 GGATTGACTT
Statistics
Matches: 147, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
66 15 0.10
67 28 0.19
69 58 0.39
70 4 0.03
72 42 0.29
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (68 bp):
TGCTTCACTACTCTTCGGTGAAGGCTTAAAATGGTTTGCTTCACTACTCTGGTGAAGGCTTAAGA
TGG
Found at i:33484 original size:125 final size:125
Alignment explanation
Indices: 33205--33712 Score: 736
Period size: 125 Copynumber: 4.1 Consensus size: 125
33195 TCGTCACTTG
* * * ** *
33205 TGCCGCAACATTATCTTATATTGATACGGGCCTTCAAAATATTCCAACACCTCAACTTGTAAGGC
1 TGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATACCCCAACACCTCAAATTGTAAGGC
* *
33270 TCATTC-TCAATGCCTTCTTGGTCT---TCTTGTCATCTCGACATGATGTGGGTTCAGTCA
66 TCATTCTTC-ATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCA
* * *
33327 TGCCCCAACATTGTCTTATACTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGC
1 TGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATACCCCAACACCTCAAATTGTAAGGC
*
33392 TCATTCTTCATGCCTCCTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCA
66 TCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCA
* * * * *
33452 TGCCCCAACCTCATCTTATACTGGTACAGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGC
1 TGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATACCCCAACACCTCAAATTGTAAGGC
* *
33517 TCATTCTTCATGCCTCCTTGGTCTGAGTCTTTTCATCTCAACATGATGTGGGTTCAGTCA
66 TCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCA
* *
33577 TGCCCCAACATTATCTTATACTGGTATGGGCCTTCAAAATACCCCAACACCTCAAATTGTAATGC
1 TGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATACCCCAACACCTCAAATTGTAAGGC
* * ** *
33642 TCATTCTTAATGCCTCCTTGGTCTGAATCTCGTCATCTCAACGGGATGTGGGTTCAGTCG
66 TCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCA
*
33702 TGCCTCAACAT
1 TGCCCCAACAT
33713 ATCACAACTT
Statistics
Matches: 350, Mismatches: 32, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
122 76 0.22
123 2 0.01
125 272 0.78
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (125 bp):
TGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATACCCCAACACCTCAAATTGTAAGGC
TCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCA
Found at i:42221 original size:146 final size:143
Alignment explanation
Indices: 41940--42423 Score: 445
Period size: 146 Copynumber: 3.3 Consensus size: 143
41930 TTACTGCGCT
* * *
41940 GCCGTGCCACCGTCCGATTGTCTTGAAATTTCAGTATGTTGTTCGTGTTAACATCGCACAACTTT
1 GCCGT-CCACCGTCCGATCGTCATGAAATTTCAGTATGTTGTTCGTGTTTACATCGCACAACTTT
* * * * * * * * *
42005 TGACCATTCGGAATATTGATCGGAGGTTCCGATCACCGGCGAGAGGCCAAATATCGTCTAGATTT
65 T--CAATTCGGAATATTGATCGGAGATTCCGATCGCAGGCAAGAGGCCAAAAACCGT-TCGACTT
*
42070 GTTTTCTCTGATTCACC
127 ATTTTCTCTGATTCACC
* * **
42087 ACCGTCTACCGTCCGATCGTCATGAAATTTCAGTATGTTGTTCGTGTTTACATTACACAACTTTT
1 GCCGTCCACCGTCCGATCGTCATGAAATTTCAGTATGTTGTTCGTGTTTACATCGCACAACTTTT
** * * *
42152 CAATTTTTGAAGTATTGATCGGAGATTCCGATCGCTGGCAAAAAGGCTAAAAACCGTTCGACTTA
66 CAA-TTCGGAA-TATTGATCGGAGATTCCGATCGCAGGC-AAGAGGCCAAAAACCGTTCGACTTA
* **
42217 TTTTCTCCGA-TCTGTC
128 TTTTCTCTGATTC-ACC
* * * * * *
42233 GTCGTCCACCGTCTGATTGTCCTGAATTTTCAGTATGTTGTTCGT-TATGGT-C-TCGCGCAACT
1 GCCGTCCACCGTCCGATCGTCATGAAATTTCAGTATGTTGTTCGTGT-T--TACATCGCACAACT
** * * * * * *
42295 TTTGACCGTTCGGAATGTTAATCGAAGATCCCGATCGCAGGCAAGAGACCAAAAACCGTTCGGCT
63 TTT--CAATTCGGAATATTGATCGGAGATTCCGATCGCAGGCAAGAGGCCAAAAACCGTTCGACT
*
42360 TATTTTCTCTGATCCACC
126 TATTTTCTCTGATTCACC
* *
42378 GCCGTCCACCGTCTGATCGTCATGAATTTTCAGTATGTTGTTCGTG
1 GCCGTCCACCGTCCGATCGTCATGAAATTTCAGTATGTTGTTCGTG
42424 ATGGTCTTGC
Statistics
Matches: 272, Mismatches: 54, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
144 2 0.01
145 81 0.30
146 165 0.61
147 22 0.08
148 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (143 bp):
GCCGTCCACCGTCCGATCGTCATGAAATTTCAGTATGTTGTTCGTGTTTACATCGCACAACTTTT
CAATTCGGAATATTGATCGGAGATTCCGATCGCAGGCAAGAGGCCAAAAACCGTTCGACTTATTT
TCTCTGATTCACC
Found at i:42391 original size:145 final size:144
Alignment explanation
Indices: 42173--42474 Score: 424
Period size: 145 Copynumber: 2.1 Consensus size: 144
42163 GTATTGATCG
* * * * * *** *
42173 GAGATTCCGATCGCTGGCAAAAAGGCTAAAAACCGTTCGACTTATTTTCTCCGATCTGTCGTCGT
1 GAGATCCCGATCGCAGGC-AAGAGACCAAAAACCGTTCGACTTATTTTCTCCGATCCACCGCCGT
* * *
42238 CCACCGTCTGATTGTCCTGAATTTTCAGTATGTTGTTCGTTATGGTCTCGCGCAACTTTTGACCG
65 CCACCGTCTGATCGTCATGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTTGACCG
*
42303 TTCGGAATGTTAATC
130 TTCGGAATGGTAATC
* *
42318 GAAGATCCCGATCGCAGGCAAGAGACCAAAAACCGTTCGGCTTATTTTCTCTGATCCACCGCCGT
1 G-AGATCCCGATCGCAGGCAAGAGACCAAAAACCGTTCGACTTATTTTCTCCGATCCACCGCCGT
*
42383 CCACCGTCTGATCGTCATGAATTTTCAGTATGTTGTTCGTGATGGTCTTGCGCAACTTTTGACCG
65 CCACCGTCTGATCGTCATGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTTGACCG
*
42448 TTCGGAATGGTGATC
130 TTCGGAATGGTAATC
*
42463 GAGATTCCGATC
1 GAGATCCCGATC
42475 AATGACGAGA
Statistics
Matches: 138, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
144 10 0.07
145 113 0.82
146 15 0.11
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (144 bp):
GAGATCCCGATCGCAGGCAAGAGACCAAAAACCGTTCGACTTATTTTCTCCGATCCACCGCCGTC
CACCGTCTGATCGTCATGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTTGACCGT
TCGGAATGGTAATC
Found at i:43060 original size:109 final size:111
Alignment explanation
Indices: 42902--43121 Score: 336
Period size: 110 Copynumber: 2.0 Consensus size: 111
42892 TGAAAATCAT
* *
42902 ATATCTCTACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAATAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAATAA
* * * *
42967 TATTTAGTT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
* *
43012 ATATCTCGATACTTTGCTGATAC-GTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAATAA
* *
43076 TAATTAGTTGATTCATTTATTGCTTGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
43122 TTTTTGTAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
109 48 0.48
110 51 0.52
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAATAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:44650 original size:18 final size:18
Alignment explanation
Indices: 44627--44666 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
44617 CCAGCAGCCA
44627 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
44645 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
44663 CCGC
1 CCGC
44667 CATCGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:45228 original size:26 final size:24
Alignment explanation
Indices: 45157--45228 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
45147 TTATATTTGT
45157 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
45182 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
45204 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
45229 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:48529 original size:47 final size:49
Alignment explanation
Indices: 48410--48530 Score: 149
Period size: 51 Copynumber: 2.5 Consensus size: 49
48400 TTATACAAAA
*
48410 CGCGGTACCTGCTCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTGCTCCGCGCTATATAAAATTATGTC--GAGTAAAAGTATGT
* *
48461 CGCGGTACCTGCCCCGAGCTATATAAAATTATG-C-AGTAAAAGTATAG-
1 CGCGGTACCTGCTCCGCGCTATATAAAATTATGTCGAGTAAAAGTAT-GT
* *
48508 CGCGGTATCTGATCCGCGCTATA
1 CGCGGTACCTGCTCCGCGCTATA
48531 CCCCTACGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
47 29 0.47
48 1 0.02
50 1 0.02
51 31 0.50
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (49 bp):
CGCGGTACCTGCTCCGCGCTATATAAAATTATGTCGAGTAAAAGTATGT
Found at i:48626 original size:50 final size:49
Alignment explanation
Indices: 48542--48665 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 49
48532 CCCTACGTGG
* * * **
48542 CGTATAGCGCGCTGCAAGGGCCGCACTATACCCACGTGGCACCAGCTCAC
1 CGTATAGCGCGGTGC-AGGGGCGCACTATACCCACGTGACACCAAATCAC
* * *
48592 CGTATAGCGCGGTGCAGGGGCGCGCTATACCCCACGTGACGCCAAATCAT
1 CGTATAGCGCGGTGCAGGGGCGCACTATA-CCCACGTGACACCAAATCAC
48642 CGTATAGCGCGGTGCAGGAGGCGC
1 CGTATAGCGCGGTGCAGG-GGCGC
48666 TTTACTACTA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
49 12 0.19
50 47 0.73
51 5 0.08
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (49 bp):
CGTATAGCGCGGTGCAGGGGCGCACTATACCCACGTGACACCAAATCAC
Found at i:51978 original size:178 final size:178
Alignment explanation
Indices: 51679--52034 Score: 703
Period size: 178 Copynumber: 2.0 Consensus size: 178
51669 TATTACCTAG
51679 AACAGAATTGCAAGAAAACAACACATATTATCCAGGAAATATTCTGTAATAATGTGAGAGTAAGG
1 AACAGAATTGCAAGAAAACAACACATATTATCCAGGAAATATTCTGTAATAATGTGAGAGTAAGG
*
51744 AAAAGATTACTCCTGACATAAAGTAGTCCACACATTCAATAATATCTAAAGATTAATATAATCAC
66 AAAAGATTACTCCTGACATAAAGTAGTCCACACATTCAATAATATCTAAAGATTAATATAACCAC
51809 AACAACAATATGCCCTCATAAAATAATGAAAGGAAGAACAAACTAGCT
131 AACAACAATATGCCCTCATAAAATAATGAAAGGAAGAACAAACTAGCT
51857 AACAGAATTGCAAGAAAACAACACATATTATCCAGGAAATATTCTGTAATAATGTGAGAGTAAGG
1 AACAGAATTGCAAGAAAACAACACATATTATCCAGGAAATATTCTGTAATAATGTGAGAGTAAGG
51922 AAAAGATTACTCCTGACATAAAGTAGTCCACACATTCAATAATATCTAAAGATTAATATAACCAC
66 AAAAGATTACTCCTGACATAAAGTAGTCCACACATTCAATAATATCTAAAGATTAATATAACCAC
51987 AACAACAATATGCCCTCATAAAATAATGAAAGGAAGAACAAACTAGCT
131 AACAACAATATGCCCTCATAAAATAATGAAAGGAAGAACAAACTAGCT
52035 TTTGCAATAA
Statistics
Matches: 177, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 177 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.23
Consensus pattern (178 bp):
AACAGAATTGCAAGAAAACAACACATATTATCCAGGAAATATTCTGTAATAATGTGAGAGTAAGG
AAAAGATTACTCCTGACATAAAGTAGTCCACACATTCAATAATATCTAAAGATTAATATAACCAC
AACAACAATATGCCCTCATAAAATAATGAAAGGAAGAACAAACTAGCT
Found at i:61128 original size:33 final size:33
Alignment explanation
Indices: 61091--61165 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
61081 GCCATAGCTT
*
61091 CACTAGTCTACCACGGGGTATACCTATGGCTAC
1 CACTAGTCTACCACGGGCTATACCTATGGCTAC
61124 CACTAGTCTACCACGGGCTATACCTATGGCTAC
1 CACTAGTCTACCACGGGCTATACCTATGGCTAC
61157 CACTAGTCT
1 CACTAGTCT
61166 TGTACAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (33 bp):
CACTAGTCTACCACGGGCTATACCTATGGCTAC
Found at i:61908 original size:17 final size:17
Alignment explanation
Indices: 61874--61906 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61864 TTTGATTATA
61874 ATTATATAATTATATTT
1 ATTATATAATTATATTT
*
61891 ATTATTTAA-TATATTT
1 ATTATATAATTATATTT
61907 TACTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATATAATTATATTT
Found at i:63341 original size:20 final size:20
Alignment explanation
Indices: 63316--63486 Score: 114
Period size: 20 Copynumber: 8.5 Consensus size: 20
63306 GATTTTCCAG
*
63316 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
63336 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* *
63356 AATCGCAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * *
63376 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * *
63397 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
63417 AATCACAACGAC-AATACGTA
1 AATCGCAACG-CGAATACGAA
* * *
63437 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
63457 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
63477 AATCGCAACG
1 AATCGCAACG
63487 AGATTCTGAC
Statistics
Matches: 122, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.02
20 97 0.80
21 22 0.18
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:63420 original size:81 final size:80
Alignment explanation
Indices: 63316--63486 Score: 177
Period size: 81 Copynumber: 2.1 Consensus size: 80
63306 GATTTTCCAG
* * * * *
63316 AATCGCAACGCGAATATGAAAATCGCAACG-CGAACATATAAATCGCAACGCG-ATTC-TGACTA
1 AATCGCAACGCGAATACGAAAATCACAACGAC-AACACATAAATCGCAACGCGTATCCGT-A-AA
* *
63378 TCGCAACGAGTATCCGTAA
63 TCGCAACGAGAATACGT-A
* * * * *
63397 AATCGCAACGCGTATCCGTAAATCACAACGACAATACGTAAATCGCAACGCGTATCCGTAAATCG
1 AATCGCAACGCGAATACGAAAATCACAACGACAACACATAAATCGCAACGCGTATCCGTAAATCG
63462 CAACGAGAATACGTA
66 CAACGAGAATACGTA
63477 AATCGCAACG
1 AATCGCAACG
63487 AGATTCTGAC
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
80 11 0.15
81 58 0.77
82 5 0.07
83 1 0.01
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.18
Consensus pattern (80 bp):
AATCGCAACGCGAATACGAAAATCACAACGACAACACATAAATCGCAACGCGTATCCGTAAATCG
CAACGAGAATACGTA
Found at i:63487 original size:20 final size:20
Alignment explanation
Indices: 63377--63489 Score: 136
Period size: 20 Copynumber: 5.6 Consensus size: 20
63367 GATTCTGACT
*
63377 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGAGAATCCGT-AA
* *
63398 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATCCGTAA
* * *
63418 ATCACAACGACAATACGTAA
1 ATCGCAACGAGAATCCGTAA
* *
63438 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATCCGTAA
*
63458 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGAATCCGTAA
63478 ATCGCAACGAGA
1 ATCGCAACGAGA
63490 TTCTGACTAT
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
20 61 0.78
21 17 0.22
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGAGAATCCGTAA
Found at i:63504 original size:40 final size:40
Alignment explanation
Indices: 63316--63486 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
63306 GATTTTCCAG
* ** * * * **
63316 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * * *
63356 AATCGCAACGCG-ATTC-TGACTATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGTATCCGT-A-AATCGCAACGAGAATACGT-A
* *
63397 AATCGCAACGCGTATCCGTAAATCACAACGACAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
63437 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
63477 AATCGCAACG
1 AATCGCAACG
63487 AGATTCTGAC
Statistics
Matches: 108, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 73 0.68
41 27 0.25
42 4 0.04
43 1 0.01
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
Found at i:79347 original size:21 final size:22
Alignment explanation
Indices: 79305--79379 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
79295 CATTTTAATC
79305 AAAATATTAATTATTAAATATTT
1 AAAATA-TAATTATTAAATATTT
*
79328 AAAATATATTTATT-AATATTT
1 AAAATATAATTATTAAATATTT
* *
79349 ATAATATAA-TATTATAT-TTT
1 AAAATATAATTATTAAATATTT
*
79369 AATATTATAAT
1 AA-AATATAAT
79380 AAAATAATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
20 8 0.19
21 22 0.51
22 7 0.16
23 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAATATAATTATTAAATATTT
Found at i:79371 original size:13 final size:13
Alignment explanation
Indices: 79340--79379 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
79330 AATATATTTA
79340 TTAATATTTATAAT
1 TTAATA-TTATAAT
* *
79354 ATAATATTATATT
1 TTAATATTATAAT
79367 TTAATATTATAAT
1 TTAATATTATAAT
79380 AAAATAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATATTATAAT
Found at i:79579 original size:23 final size:23
Alignment explanation
Indices: 79553--79604 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
79543 TTAATCTAAT
* *
79553 AATATTTTGATAAAGATATTTAA
1 AATATATTAATAAAGATATTTAA
* * *
79576 AATATATTAATTAATATTTTTAA
1 AATATATTAATAAAGATATTTAA
79599 AATATA
1 AATATA
79605 ATATAATACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
AATATATTAATAAAGATATTTAA
Found at i:79980 original size:15 final size:15
Alignment explanation
Indices: 79946--80002 Score: 73
Period size: 14 Copynumber: 3.9 Consensus size: 15
79936 TCAATAAATG
*
79946 TAATTCATTTTCCAA
1 TAATTCAATTTCCAA
79961 -AATTCAATTTCCAA
1 TAATTCAATTTCCAA
* *
79975 TCATTCATTTTCC-A
1 TAATTCAATTTCCAA
79989 TAATTCAATTTCCA
1 TAATTCAATTTCCA
80003 GAAAACCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 25 0.71
15 10 0.29
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTCAATTTCCAA
Found at i:81369 original size:5 final size:5
Alignment explanation
Indices: 81359--81384 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
81349 TGACTTAGAA
81359 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
81385 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:88571 original size:13 final size:15
Alignment explanation
Indices: 88553--88584 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
88543 TTAAAACTAT
88553 ATAAAATA-TTTA-A
1 ATAAAATACTTTATA
88566 ATAAAATACTTTATA
1 ATAAAATACTTTATA
88581 ATAA
1 ATAA
88585 TATTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATACTTTATA
Found at i:88858 original size:9 final size:9
Alignment explanation
Indices: 88844--88911 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
88834 ATATAATATA
88844 ATAAAAAAT
1 ATAAAAAAT
88853 ATAAAAAA-
1 ATAAAAAAT
*
88861 ATAATTAAGAT
1 ATAA--AAAAT
88872 ATAAAAAA-
1 ATAAAAAAT
*
88880 ATAAAAAAA
1 ATAAAAAAT
*
88889 ATAATTAAGAT
1 ATAA--AAAAT
88900 ATAAAAAAT
1 ATAAAAAAT
88909 ATA
1 ATA
88912 TTTAATATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
8 12 0.25
9 22 0.46
10 3 0.06
11 11 0.23
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:88875 original size:28 final size:28
Alignment explanation
Indices: 88844--88911 Score: 120
Period size: 28 Copynumber: 2.4 Consensus size: 28
88834 ATATAATATA
88844 ATAAAAAATATAAAAAAATAATTAAGAT
1 ATAAAAAATATAAAAAAATAATTAAGAT
88872 ATAAAAAA-ATAAAAAAAATAATTAAGAT
1 ATAAAAAATAT-AAAAAAATAATTAAGAT
88900 ATAAAAAATATA
1 ATAAAAAATATA
88912 TTTAATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 2 0.05
28 34 0.89
29 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (28 bp):
ATAAAAAATATAAAAAAATAATTAAGAT
Found at i:88905 original size:20 final size:20
Alignment explanation
Indices: 88880--88922 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
88870 ATATAAAAAA
88880 ATAAAAAAAATAATTAAGAT
1 ATAAAAAAAATAATTAAGAT
* * *
88900 ATAAAAAATATATTTAATAT
1 ATAAAAAAAATAATTAAGAT
88920 ATA
1 ATA
88923 GATGAATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAAAAAAATAATTAAGAT
Found at i:88919 original size:18 final size:17
Alignment explanation
Indices: 88878--88920 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
88868 AGATATAAAA
*
88878 AAATAAAAAAAATAATT
1 AAATATAAAAAATAATT
88895 AAGATATAAAAAATATATT
1 AA-ATATAAAAAATA-ATT
*
88914 TAATATA
1 AAATATA
88921 TAGATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 16 0.73
19 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AAATATAAAAAATAATT
Found at i:100099 original size:68 final size:68
Alignment explanation
Indices: 100005--100133 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
99995 CCTTGTACGC
* * * * * *
100005 TATTTCAAATAAGACCCGTAAATATTTTATGATTACACGAACTACTAACCATGATAATCCTCATA
1 TATTTCAAATAAAACCCGTAAATATTTAATAATTACAAGAACCACTAACCATAATAATCCTCATA
100070 TAA
66 TAA
* * * *
100073 TATTTCAAATAAAATCTGTAAATATTTAATAATTACAAGAACCACTTACTATAATAATCCT
1 TATTTCAAATAAAACCCGTAAATATTTAATAATTACAAGAACCACTAACCATAATAATCCT
100134 TATCATTATT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (68 bp):
TATTTCAAATAAAACCCGTAAATATTTAATAATTACAAGAACCACTAACCATAATAATCCTCATA
TAA
Found at i:101383 original size:21 final size:21
Alignment explanation
Indices: 101358--101397 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
101348 CTCCATTCCA
101358 TTAAAATTATC-CACTTTAATT
1 TTAAAATTATCACA-TTTAATT
101379 TTAAAATTATCACATTTAA
1 TTAAAATTATCACATTTAA
101398 AATATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAATTATCACATTTAATT
Found at i:110428 original size:17 final size:17
Alignment explanation
Indices: 110376--110441 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
110366 AGGATATGTC
110376 AAATAATAAATT-ATTTA
1 AAAT-ATAAATTAATTTA
* *
110393 AATTATAAAATTAA-ATA
1 AAATAT-AAATTAATTTA
*
110410 AAATGTAAATTAATTTA
1 AAATATAAATTAATTTA
110427 AAATATTAAA-TAATT
1 AAATA-TAAATTAATT
110442 GTTATTTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.23
17 25 0.64
18 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATATAAATTAATTTA
Found at i:131366 original size:38 final size:38
Alignment explanation
Indices: 131324--131401 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
131314 TAAGTGCTCA
131324 ACTCAAACGCATCATTACGTACAATAACAAACGCTTAT
1 ACTCAAACGCATCATTACGTACAATAACAAACGCTTAT
131362 ACTCAAACGCATCATTACGTACAATAACAAACGCTTAT
1 ACTCAAACGCATCATTACGTACAATAACAAACGCTTAT
131400 AC
1 AC
131402 CCAACCTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.23
Consensus pattern (38 bp):
ACTCAAACGCATCATTACGTACAATAACAAACGCTTAT
Found at i:146391 original size:24 final size:24
Alignment explanation
Indices: 146364--146410 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
146354 TACAAAATGT
146364 TATTAAATTTATAT-TTAAAAATTG
1 TATT-AATTTATATCTTAAAAATTG
* *
146388 TATTTATTTTTATCTTAAAAATT
1 TATTAATTTATATCTTAAAAATT
146411 AGCATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TATTAATTTATATCTTAAAAATTG
Found at i:147198 original size:57 final size:58
Alignment explanation
Indices: 147110--147220 Score: 199
Period size: 57 Copynumber: 1.9 Consensus size: 58
147100 TCCCACGTCA
147110 TTTACACATAATAAGAACTTTATTTTGTTACC-AAAA-AATAAAAAAAAATATTTAGAG
1 TTTACACATAATAAGAACTTTATTTTGTTACCAAAAATAAT-AAAAAAAATATTTAGAG
147167 TTTACACATAATAAGAACTTTATTTTGTTACCAAAAATAATAAAAAAAATATTT
1 TTTACACATAATAAGAACTTTATTTTGTTACCAAAAATAATAAAAAAAATATTT
147221 TCTAAATCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
57 32 0.62
58 17 0.33
59 3 0.06
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.35
Consensus pattern (58 bp):
TTTACACATAATAAGAACTTTATTTTGTTACCAAAAATAATAAAAAAAATATTTAGAG
Found at i:147279 original size:13 final size:13
Alignment explanation
Indices: 147261--147285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
147251 AAAATTAAAC
147261 TTATATTTAGAGA
1 TTATATTTAGAGA
147274 TTATATTTAGAG
1 TTATATTTAGAG
147286 TTTCCTAATC
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:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTATATTTAGAGA
Found at i:150252 original size:21 final size:20
Alignment explanation
Indices: 150166--150323 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
150156 AAATGACCAA
**
150166 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
150185 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
150205 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
150225 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
150246 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
150267 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
150287 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
150308 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
150324 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:150352 original size:20 final size:20
Alignment explanation
Indices: 150290--150483 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
150280 CGATTTTCCA
* ** *
150290 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
150310 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
150330 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
150350 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
150370 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
150390 AAATCGTAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
150410 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
150430 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
150450 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
150471 AAATCGCAACGCG
1 AAATCGCAACGCG
150484 ATATTTAAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:150374 original size:60 final size:60
Alignment explanation
Indices: 150290--150483 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
150280 CGATTTTCCA
* ** * *
150290 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** * *
150350 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGTAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
150410 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
150471 AAATCGCAACGCG
1 AAATCGCAACGCG
150484 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 80 0.73
61 30 0.27
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:150905 original size:33 final size:33
Alignment explanation
Indices: 150866--150936 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
150856 TTCACTTAGA
*
150866 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
150899 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
150932 TTTCA
1 TTTCA
150937 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:151060 original size:20 final size:20
Alignment explanation
Indices: 151016--151125 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
151006 TGCAGAAGAG
*
151016 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
151037 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
151057 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
151078 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
151092 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
151111 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
151126 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:151073 original size:41 final size:38
Alignment explanation
Indices: 151009--151125 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
150999 TTCAATTTGC
* *
151009 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
151047 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
151088 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
151121 AGAAT
1 AGAAT
151126 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:151095 original size:14 final size:14
Alignment explanation
Indices: 151076--151132 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
151066 GAGAAATGAA
151076 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
151090 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
151109 AATCGCAACGAGAG
1 AATCGCAACGAGAG
151123 AATCGCAACG
1 AATCGCAACG
151133 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:151108 original size:33 final size:33
Alignment explanation
Indices: 151068--151148 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
151058 CGCAACGAGA
151068 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
151101 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
151134 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
151149 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:151166 original size:19 final size:19
Alignment explanation
Indices: 151144--151213 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
151134 GAAACCAAAA
*
151144 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
151163 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
151182 TCGCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
151201 TCGCGTTGCGATT
1 TCGCGTTGCGATT
151214 CTCTCGTTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:153070 original size:93 final size:93
Alignment explanation
Indices: 152911--153378 Score: 886
Period size: 93 Copynumber: 5.1 Consensus size: 93
152901 TAGATTGCTT
* *
152911 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
152976 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
153004 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
153069 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
153096 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTATGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
153161 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
153189 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
153254 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
153282 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
153347 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
153374 AGTAA
1 AGTAA
153379 TGCAATCCAT
Statistics
Matches: 368, Mismatches: 6, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
92 96 0.26
93 272 0.74
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:153223 original size:185 final size:186
Alignment explanation
Indices: 152911--153378 Score: 886
Period size: 185 Copynumber: 2.5 Consensus size: 186
152901 TAGATTGCTT
* *
152911 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
152976 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACT
153041 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG-TTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
153096 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTATGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
153161 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACT
153226 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
153282 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
153347 TTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAA
153379 TGCAATCCAT
Statistics
Matches: 277, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
185 170 0.61
186 107 0.39
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:153466 original size:19 final size:19
Alignment explanation
Indices: 153426--153554 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
153416 TAGTTTACTT
* *
153426 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
153446 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
153465 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
153484 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
153498 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
153517 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
153531 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
153550 TCGCA
1 TCGCA
153555 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:153505 original size:33 final size:32
Alignment explanation
Indices: 153462--153554 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
153452 CGCGAAACCA
**
153462 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
153494 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
153527 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
153555 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:153552 original size:52 final size:52
Alignment explanation
Indices: 153426--153554 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
153416 TAGTTTACTT
**
153426 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
153478 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
153531 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
153555 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:153572 original size:19 final size:19
Alignment explanation
Indices: 153550--153651 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
153540 GAAACCAAAA
*
153550 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
153569 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
153585 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
153602 TCGCGTTGTGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
153621 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
153641 TCGTGTTGCGA
1 TCGCGTTGCGA
153652 AAGTAAACTA
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
14 8 0.12
16 6 0.09
17 6 0.09
19 37 0.54
20 12 0.17
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:154168 original size:14 final size:14
Alignment explanation
Indices: 154149--154184 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
154139 ATTGTTTAAT
154149 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
154163 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
154177 TGATTTGT
1 TGATTTGT
154185 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:154307 original size:19 final size:19
Alignment explanation
Indices: 154291--154388 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
154281 AAAAATGACT
154291 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
154310 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
154329 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
154343 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
154362 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
154382 ATCGCAA
1 ATCGCAA
154389 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:154420 original size:53 final size:53
Alignment explanation
Indices: 154291--154406 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
154281 AAAAATGACT
154291 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
154343 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
154396 ATCGCAATGCG
1 ATCGCAATGCG
154407 TTTATAATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:154470 original size:52 final size:54
Alignment explanation
Indices: 154413--154570 Score: 218
Period size: 52 Copynumber: 3.0 Consensus size: 54
154403 TGCGTTTATA
154413 ATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATT-T-TC
1 ATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATTCTCTC
*
154465 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATTCTCTC
* * * * *
154519 GTTGCG-ATTTTC-ATT-TCGCATTGTGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATTCTCTC
154571 GTTGCGATTT
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 82 0.85
53 5 0.05
54 9 0.09
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (54 bp):
ATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:154491 original size:33 final size:33
Alignment explanation
Indices: 154454--154546 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
154444 TCATTTCGCA
154454 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
154487 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
154520 TTGCGATTTTCATTTCGCATTGTGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
154547 TTCATTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:154492 original size:14 final size:14
Alignment explanation
Indices: 154473--154527 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
154463 TCATTTCGCA
154473 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
154487 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
154504 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
154520 TTGCGATT
1 TTGCGATT
154528 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:154528 original size:85 final size:85
Alignment explanation
Indices: 154413--154632 Score: 379
Period size: 85 Copynumber: 2.6 Consensus size: 85
154403 TGCGTTTATA
*
154413 ATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
154478 ATTCTCTCGTTGCGATTTTC
66 ATTCTCTCGTTGCGATTTTC
*
154498 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGTGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
154563 ATTCTCTCGTTGCGATTTTC
66 ATTCTCTCGTTGCGATTTTC
* *
154583 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGATT
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGATT
154633 CTCTCATTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
85 87 0.68
86 40 0.31
87 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (85 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTC
Found at i:154571 original size:52 final size:52
Alignment explanation
Indices: 154439--154604 Score: 221
Period size: 52 Copynumber: 3.2 Consensus size: 52
154429 CTCTCGTTGT
* * * * *
154439 GATTTTCATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGC
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTGC
*
154491 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGT
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
154543 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGC
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGC
154596 GATTTTCAT
1 GATTTTCAT
154605 GTTGGGATTT
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
52 73 0.71
53 21 0.20
54 9 0.09
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
Found at i:154654 original size:33 final size:33
Alignment explanation
Indices: 154413--154646 Score: 160
Period size: 33 Copynumber: 6.9 Consensus size: 33
154403 TGCGTTTATA
* *
154413 ATTTCGCATTGCGATTCTCTCGTTGTGATTTTC
1 ATTTCGCATTGCGATTCTCTCATTGCGATTTTC
* *
154446 ATTTCGCATTGCGATT-T-TCATTTCGCA-TTGC
1 ATTTCGCATTGCGATTCTCTCATTGCG-ATTTTC
* * * *
154477 GATTCTCTCGTTGCGATT-T-TCATTTCGCA-TTGC
1 -ATT-TCGCATTGCGATTCTCTCATTGCG-ATTTTC
* * * *
154510 GATTCTCTCGTTGCGATTTTCATTTCGCATTGTGATTTTC
1 -ATT-TCGCATTGCGA--TTC---TCTCATTGCGATTTTC
*
154550 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCATTGCGATTTTC
*
154583 ATTTCCGCATTGCGATT-T-TCATGTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTCTCA--TTGCGATTTTC
154617 ATTTCGCATTGCGATTCTCTCATTGCGATT
1 ATTTCGCATTGCGATTCTCTCATTGCGATT
154647 GTAATTTCCG
Statistics
Matches: 167, Mismatches: 18, Indels: 32
0.77 0.08 0.15
Matches are distributed among these distances:
31 8 0.05
32 7 0.04
33 95 0.57
34 27 0.16
35 5 0.03
36 3 0.02
38 9 0.05
39 5 0.03
40 8 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCATTGCGATTTTC
Found at i:154678 original size:119 final size:118
Alignment explanation
Indices: 154454--154678 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 118
154444 TCATTTCGCA
154454 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * ** **
154519 GTTGCGATTTTCATTTCGCATTGTGATTTTCATTTCGCATTGCGATTCTCTCG
66 ATTGCGATTGTAATTTCGCATTGCGATAGTCAAATCGCATTGCGATTCTCTCG
* *
154572 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGATTCTC
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGATTCTC
**
154636 TCATTGCGATTGTAATTTCCGTGTTGCGATAGTCAAAT-GCATT
64 TCATTGCGATTGTAATTT-CGCATTGCGATAGTCAAATCGCATT
154679 CCTAATAGTG
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
118 15 0.16
119 64 0.70
120 13 0.14
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (118 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
ATTGCGATTGTAATTTCGCATTGCGATAGTCAAATCGCATTGCGATTCTCTCG
Found at i:156945 original size:12 final size:12
Alignment explanation
Indices: 156928--156952 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
156918 TCTTCGGGGA
156928 CTTTTTCTTCTT
1 CTTTTTCTTCTT
156940 CTTTTTCTTCTT
1 CTTTTTCTTCTT
156952 C
1 C
156953 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:157161 original size:24 final size:24
Alignment explanation
Indices: 157127--157173 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
157117 CTGAAACATC
157127 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
157151 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
157174 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:157883 original size:20 final size:20
Alignment explanation
Indices: 157855--158124 Score: 274
Period size: 20 Copynumber: 13.5 Consensus size: 20
157845 AAATTCCAGT
* * *
157855 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
157875 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
157895 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
157915 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
157935 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
157955 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
157975 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
157995 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
158015 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
158035 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
158055 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
158075 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
**
158095 GTTGCGATTTTA-ATATTCGC
1 GTTGCGA-TTTACGGATTCGC
158115 GTTGCGATTT
1 GTTGCGATTT
158125 TGGAAAATCG
Statistics
Matches: 219, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
19 3 0.01
20 211 0.96
21 5 0.02
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:157915 original size:40 final size:40
Alignment explanation
Indices: 157855--158124 Score: 307
Period size: 40 Copynumber: 6.8 Consensus size: 40
157845 AAATTCCAGT
* *
157855 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
157895 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
157935 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
* * *
157975 GTTGCGATTTACGGATACGCGTTGCGATATACGGA-TA-C
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
** * *
158013 GCATTGCGATTTACCCATACGCGTTGCGATTTACGGA-TACAC
1 G--TTGCGATTTACAGATTCGCGTTGCGATTTACGGATTA-TC
* * * **
158055 GTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACG-GATTATC
*
158095 GTTGCGATTTTA-ATATTCGCGTTGCGATTT
1 GTTGCGA-TTTACAGATTCGCGTTGCGATTT
158125 TGGAAAATCG
Statistics
Matches: 207, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 195 0.94
41 6 0.03
42 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (40 bp):
GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
Found at i:158125 original size:20 final size:20
Alignment explanation
Indices: 158091--158188 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 20
158081 ATTTATGTGT
*
158091 TCGCGTTGCGATTTTAATAT
1 TCGCGTTGCGATTTTAATAA
158111 TCGCGTTGCGATTTTGGAA-AA
1 TCGCGTTGCGATTTT--AATAA
** *
158132 TCGCAATGCGAATTTGTACT-A
1 TCGCGTTGCG-ATTT-TAATAA
* *
158153 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTT-AATAA
158174 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
158189 GGAAACTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 20 0.32
21 35 0.56
22 6 0.10
23 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTAATAA
Found at i:158184 original size:42 final size:43
Alignment explanation
Indices: 158091--158189 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
158081 ATTTATGTGT
* *
158091 TCGCGTTGCG-ATTT-TAATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
** *
158132 TCGCAATGCGAATTTGTACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAA-AA
*
158174 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
158190 GAAACTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
41 10 0.21
42 33 0.70
43 4 0.09
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
Found at i:158953 original size:29 final size:30
Alignment explanation
Indices: 158896--158965 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
158886 ATATAGATTT
158896 TTAAAA-TTTATAATTTTAGAACGAATAAA
1 TTAAAATTTTATAATTTTAGAACGAATAAA
* * *
158925 TTAAAATTTTATCATTTTA-AATGATTAAA
1 TTAAAATTTTATAATTTTAGAACGAATAAA
* *
158954 ATATAATTTTAT
1 TTAAAATTTTAT
158966 TATTGACTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 24 0.69
30 11 0.31
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (30 bp):
TTAAAATTTTATAATTTTAGAACGAATAAA
Found at i:168504 original size:64 final size:63
Alignment explanation
Indices: 168366--168522 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 63
168356 TAATGAAGGT
* * * * *
168366 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* * *
168430 ATGCAGCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
168492 G
63 G
*
168493 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
168523 ACACCTTCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
63 3 0.04
64 67 0.86
65 8 0.10
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:171778 original size:18 final size:18
Alignment explanation
Indices: 171755--171818 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 18
171745 TTTAGTATTC
171755 GTCCCGTAGGACCACTAT
1 GTCCCGTAGGACCACTAT
* *
171773 GTCCCGAAAGACCACTGTATAT
1 GTCCCGTAGGACCAC----TAT
*
171795 GTCTCGTAGGACCACTAT
1 GTCCCGTAGGACCACTAT
171813 GTCCCG
1 GTCCCG
171819 AATGACTACT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
18 21 0.58
22 15 0.42
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (18 bp):
GTCCCGTAGGACCACTAT
Found at i:173436 original size:64 final size:62
Alignment explanation
Indices: 173327--173483 Score: 156
Period size: 64 Copynumber: 2.5 Consensus size: 62
173317 TAATGAAGGT
* * * **
173327 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATG-TTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATT-TTA-AAAG
* * *
173391 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCCTTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATGTTTCTATTTTAAAAG
*
173454 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
173484 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 4 0.05
64 67 0.85
65 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (62 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATTTTAAAAG
Found at i:183630 original size:18 final size:19
Alignment explanation
Indices: 183593--183630 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
183583 CACGGAATGT
183593 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGT-GGAATAA
183613 AAGATTACCAGT-GAATAA
1 AAGATTACCAGTGGAATAA
183631 CTTACTGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (19 bp):
AAGATTACCAGTGGAATAA
Found at i:186489 original size:18 final size:18
Alignment explanation
Indices: 186448--186486 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
186438 TTTGGTTCAC
186448 GGAATGTAAGATTACAGTG
1 GGAATGTAAGATTACAG-G
186467 GGAATGTAAGATTACCAGG
1 GGAATGTAAGATTA-CAGG
186486 G
1 G
186487 AATAGGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.36, C:0.08, G:0.33, T:0.23
Consensus pattern (18 bp):
GGAATGTAAGATTACAGG
Found at i:186700 original size:33 final size:34
Alignment explanation
Indices: 186642--186706 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
186632 GAAAATATTA
*
186642 TATATTTTCTTTAAAAAATTTAAAATCATAAAATT
1 TATATTTTCTTTAAAAAATTGAAAAT-ATAAAATT
*
186677 TATATTTT-TTT-ACAAATTGAAAATATAAAA
1 TATATTTTCTTTAAAAAATTGAAAATATAAAA
186707 GGTTTAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 6 0.21
33 11 0.39
34 3 0.11
35 8 0.29
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (34 bp):
TATATTTTCTTTAAAAAATTGAAAATATAAAATT
Found at i:200923 original size:81 final size:81
Alignment explanation
Indices: 200788--200949 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
200778 CTTTTATTTA
200788 GGTTATCAACTTATTATGATAGAAAACTTGTTCATGTTCTACAGAGAATAAGGCCAGGTCTTAGT
1 GGTTATCAACTTATTATGATAGAAAACTTGTTCATGTTCTACAGAGAATAAGGCCAGGTCTTAGT
200853 TTATTTGTAGCTCTAC
66 TTATTTGTAGCTCTAC
200869 GGTTATCAACTTATTATGATAGAAAACTTGTTCATGTTCTACAGAGAATAAGGCCAGGTCTTAGT
1 GGTTATCAACTTATTATGATAGAAAACTTGTTCATGTTCTACAGAGAATAAGGCCAGGTCTTAGT
200934 TTATTTGTAGCTCTAC
66 TTATTTGTAGCTCTAC
200950 TGCTCTAGGC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (81 bp):
GGTTATCAACTTATTATGATAGAAAACTTGTTCATGTTCTACAGAGAATAAGGCCAGGTCTTAGT
TTATTTGTAGCTCTAC
Found at i:204655 original size:17 final size:18
Alignment explanation
Indices: 204633--204670 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
204623 CCCAAACATG
204633 CCTCTCCC-AATTACCCT
1 CCTCTCCCTAATTACCCT
*
204650 CCTCTCCCTCATTACCCT
1 CCTCTCCCTAATTACCCT
204668 CCT
1 CCT
204671 GGTCATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.13, C:0.55, G:0.00, T:0.32
Consensus pattern (18 bp):
CCTCTCCCTAATTACCCT
Found at i:206785 original size:24 final size:26
Alignment explanation
Indices: 206758--206816 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
206748 TCCTACATGG
*
206758 TTAATTT-A-CTTCACTGTAATTTGT
1 TTAATTTCATCTTCAATGTAATTTGT
206782 TTAATTGCTTCATCTTCAATGTAATTTGT
1 TTAA-T--TTCATCTTCAATGTAATTTGT
206811 TTAATT
1 TTAATT
206817 GTTTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
24 4 0.14
25 1 0.03
26 1 0.03
27 2 0.07
28 2 0.07
29 19 0.66
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.54
Consensus pattern (26 bp):
TTAATTTCATCTTCAATGTAATTTGT
Found at i:206974 original size:20 final size:20
Alignment explanation
Indices: 206914--206976 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
206904 ACTTGTTATT
206914 TTGTTAAGGTAATCTGTTTAA
1 TTGTT-AGGTAATCTGTTTAA
** *
206935 TTGTTTATCTATAATATGTTTAA
1 TTG-TTA--GGTAATCTGTTTAA
206958 TTGTTAGGTAATCTGTTTA
1 TTGTTAGGTAATCTGTTTA
206977 GAATTTAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 10 0.30
21 4 0.12
22 5 0.15
23 14 0.42
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (20 bp):
TTGTTAGGTAATCTGTTTAA
Found at i:219064 original size:21 final size:22
Alignment explanation
Indices: 219031--219071 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
219021 ATGTTTAGGT
*
219031 TTTAGGATTTAGAATTTAAAGG
1 TTTAGGATATAGAATTTAAAGG
*
219053 TTTA-GATATAGAGTTTAAA
1 TTTAGGATATAGAATTTAAA
219072 TTTTAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (22 bp):
TTTAGGATATAGAATTTAAAGG
Found at i:225554 original size:60 final size:60
Alignment explanation
Indices: 225456--225584 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
225446 AAGGGTAAAG
* *** * *
225456 TACACAAATGATCCCTCAACTATAGGGTGTTATATTGTTGAGTCCCTCTACTATTAAAAAT
1 TACA-AAATGATCCCACAACTATAGGACATTATATTGTTGAGTCCCCCGACTATTAAAAAT
* * *
225517 TACAAAATGATCCCACAACTATAGGACATTGTTTTGTTGAGTCCCCCGACTATTAAAAGT
1 TACAAAATGATCCCACAACTATAGGACATTATATTGTTGAGTCCCCCGACTATTAAAAAT
225577 TACAAAAT
1 TACAAAAT
225585 TGTCACCCGA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
60 55 0.93
61 4 0.07
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (60 bp):
TACAAAATGATCCCACAACTATAGGACATTATATTGTTGAGTCCCCCGACTATTAAAAAT
Found at i:239193 original size:4 final size:4
Alignment explanation
Indices: 239186--239213 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
239176 AGAATCTCTC
239186 TCTT TCTT TCTT TCTT TCTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT
239214 CGTTACTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TCTT
Found at i:243935 original size:2 final size:2
Alignment explanation
Indices: 243930--243956 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
243920 AACAAGGGGG
243930 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
243957 TCAATGTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:245281 original size:173 final size:165
Alignment explanation
Indices: 244946--245283 Score: 570
Period size: 173 Copynumber: 2.0 Consensus size: 165
244936 GTACAAAGCT
*
244946 TTCTTTCTTGCCCGCTCAAATCTTTAAGTAGACAGCAAAATGCTCTTCAATTACTGTAAGAATAT
1 TTCTTTCTTGCCCGCTCAAATCTTTAAGTAGACAGCAAAATGCTCTTCAATTACTGTAAGAAAAT
245011 AAAACCCCCCCTCATATTTATCCTAATAGCAATTGGAGATGACCAGCATCATATATGGTGAAATG
66 AAAACCCCCCCTCATATTTATCCTAATAGCAATTGGAGATGACCAGCATCATATATGGTGAAATG
*
245076 ACGTGATAAAAGAATTTGAGCTCTATCTTGTTCAA
131 ACGTGATAAAAGAATTTGAGCTCTACCTTGTTCAA
245111 TTCTTTCTTGCCCGCTCAAATC-TTAAGTAGACAGCAAAATGCTCTTCAATTACTGTAAGATAAA
1 TTCTTTCTTGCCCGCTCAAATCTTTAAGTAGACAGCAAAATGCTCTTCAATTACTGTAAG--AAA
245175 ATATAAACCCCCCCTCATATTTATCCTAATATAGCAATTGGAGATGACCAGCTATCACATATACT
64 ATA-AAACCCCCCCTCATATTTATCCT-A-ATAGCAATTGGAGATGACCAGC-AT--CATATA-T
245240 GGTGAAATGACGTGATAAAAGAATTTGAGCTCTACCTTGTTCAA
122 GGTGAAATGACGTGATAAAAGAATTTGAGCTCTACCTTGTTCAA
245284 ACATTGAATA
Statistics
Matches: 162, Mismatches: 2, Indels: 10
0.93 0.01 0.06
Matches are distributed among these distances:
164 37 0.23
165 22 0.14
166 5 0.03
167 23 0.14
168 1 0.01
169 22 0.14
170 2 0.01
172 6 0.04
173 44 0.27
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (165 bp):
TTCTTTCTTGCCCGCTCAAATCTTTAAGTAGACAGCAAAATGCTCTTCAATTACTGTAAGAAAAT
AAAACCCCCCCTCATATTTATCCTAATAGCAATTGGAGATGACCAGCATCATATATGGTGAAATG
ACGTGATAAAAGAATTTGAGCTCTACCTTGTTCAA
Found at i:254140 original size:17 final size:17
Alignment explanation
Indices: 254115--254150 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
254105 CTATTATTTG
*
254115 TTAATATTTAATATAAT
1 TTAAAATTTAATATAAT
*
254132 TTAAAATTTAATATTAT
1 TTAAAATTTAATATAAT
254149 TT
1 TT
254151 TAGAAATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATTTAATATAAT
Found at i:255695 original size:30 final size:31
Alignment explanation
Indices: 255659--255721 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
255649 ATCTTTGTTC
255659 AATTTAATCCTT-AAACTATATTTTTATTCT
1 AATTTAATCCTTAAAACTATATTTTTATTCT
255689 AATTTAATCCTTAAAACTATATTTTTATTCT
1 AATTTAATCCTTAAAACTATATTTTTATTCT
255720 AA
1 AA
255722 ATTGACTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.51
Consensus pattern (31 bp):
AATTTAATCCTTAAAACTATATTTTTATTCT
Found at i:256192 original size:27 final size:27
Alignment explanation
Indices: 256132--256196 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
256122 CATAAAATAA
* *
256132 TTCACCCGAAAATGGCCCAACTTGAAG
1 TTCACTCGAAAATGACCCAACTTGAAG
*
256159 TTCACTCGAAAATGACCCGACTTGAAG
1 TTCACTCGAAAATGACCCAACTTGAAG
256186 TGT-ACTCGAAA
1 T-TCACTCGAAA
256197 CTAATATTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (27 bp):
TTCACTCGAAAATGACCCAACTTGAAG
Found at i:258260 original size:2 final size:2
Alignment explanation
Indices: 258253--258277 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
258243 CACCTCATTT
258253 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
258278 TTTTTGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:260502 original size:18 final size:18
Alignment explanation
Indices: 260463--260513 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
260453 TATGGAATTG
*
260463 GATTCCAA-TTCCTGACA
1 GATTCCAATTTCCTCACA
260480 GATTCCAATTTCCTCACA
1 GATTCCAATTTCCTCACA
* *
260498 TATTCCAATTCCCTCA
1 GATTCCAATTTCCTCA
260514 GAAACATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.27, C:0.33, G:0.06, T:0.33
Consensus pattern (18 bp):
GATTCCAATTTCCTCACA
Found at i:266752 original size:3 final size:3
Alignment explanation
Indices: 266744--266768 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
266734 GTATTTATTG
266744 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
266769 TCTGTTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:267013 original size:29 final size:29
Alignment explanation
Indices: 266937--267013 Score: 145
Period size: 29 Copynumber: 2.7 Consensus size: 29
266927 CTTCCCAGCA
*
266937 TAGGTCGCCATGCACTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
266966 TAGGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
266995 TAGGTCGCCATGCACTCCT
1 TAGGTCGCCATGCACTCCT
267014 CCTGCTCCTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.14, C:0.35, G:0.27, T:0.23
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCTGGCGACCTTG
Found at i:267091 original size:14 final size:14
Alignment explanation
Indices: 267074--267113 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
267064 CTCGAATGGC
267074 CTCGGTCGGATGCA
1 CTCGGTCGGATGCA
*
267088 CTCGGTCGGATGCC
1 CTCGGTCGGATGCA
267102 CTCGGTCGGATG
1 CTCGGTCGGATG
267114 GCTTCGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.10, C:0.30, G:0.38, T:0.23
Consensus pattern (14 bp):
CTCGGTCGGATGCA
Found at i:267120 original size:14 final size:14
Alignment explanation
Indices: 267069--267120 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
267059 GCTCGCTCGA
267069 ATGGCCTCGGTCGG
1 ATGGCCTCGGTCGG
267083 AT-GCACTCGGTCGG
1 ATGGC-CTCGGTCGG
*
267097 ATGCCCTCGGTCGG
1 ATGGCCTCGGTCGG
*
267111 ATGGCTTCGG
1 ATGGCCTCGG
267121 ATGCCCAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 2 0.06
14 30 0.91
15 1 0.03
ACGTcount: A:0.10, C:0.29, G:0.38, T:0.23
Consensus pattern (14 bp):
ATGGCCTCGGTCGG
Found at i:267951 original size:30 final size:30
Alignment explanation
Indices: 267906--267965 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
267896 ATTTTATAAA
*
267906 ATTTAAAAATCAAACAAGTTAAAA-ATTATT
1 ATTTAAAAATCAAACAA-ATAAAATATTATT
* *
267936 ATTTTAAAATTAAACAAATAAAATATTATT
1 ATTTAAAAATCAAACAAATAAAATATTATT
267966 TGATCTCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (30 bp):
ATTTAAAAATCAAACAAATAAAATATTATT
Found at i:278518 original size:82 final size:76
Alignment explanation
Indices: 278366--278526 Score: 259
Period size: 82 Copynumber: 2.0 Consensus size: 76
278356 ACTATTCCAC
278366 TTCATATTCTCTGTAACAGGATATGGTTTTGGTTGATTCTGTAACCCGGCCTTCCCCATTTATAT
1 TTCATATTCTCTGTAACAGGATATGGTTTTGGTTGATTCTGTAACCCGGCCTTCCCCATTTATAT
278431 TTCGAAGATGG
66 TTCGAAGATGG
*
278442 TTCATATTCTCTGTAACAGGATATGGAATGGTTTTGGTTGATTCTGTAACCCCGGCTTTCCCCAT
1 TTCATATTCTCTGTAACAGG--AT---ATGGTTTTGGTTGATTCTGTAA-CCCGGCCTTCCCCAT
278507 TTATATTTCGAAGATGG
60 TTATATTTCGAAGATGG
278524 TTC
1 TTC
278527 TTCTACAATA
Statistics
Matches: 78, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
76 20 0.26
78 2 0.03
81 22 0.28
82 34 0.44
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (76 bp):
TTCATATTCTCTGTAACAGGATATGGTTTTGGTTGATTCTGTAACCCGGCCTTCCCCATTTATAT
TTCGAAGATGG
Found at i:279531 original size:26 final size:26
Alignment explanation
Indices: 279495--279567 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
279485 TTTCGATAAC
*
279495 GTATTTTCTTAGTCTTATATTAGGTT
1 GTATTTTCTTAGACTTATATTAGGTT
*
279521 GTATTTTCTTAGCCTTATATTAGGTT
1 GTATTTTCTTAGACTTATATTAGGTT
* *
279547 GTCTTTCCTTAGACTTCATAT
1 GTATTTTCTTAGACTT-ATAT
279568 GATATATAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 38 0.90
27 4 0.10
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (26 bp):
GTATTTTCTTAGACTTATATTAGGTT
Found at i:286790 original size:15 final size:16
Alignment explanation
Indices: 286761--286790 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
286751 GCAAGCAGTT
286761 TCTTACCTATTTTCTC
1 TCTTACCTATTTTCTC
286777 TCTTACCT-TTTTCT
1 TCTTACCTATTTTCT
286791 TTCTCTCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.10, C:0.30, G:0.00, T:0.60
Consensus pattern (16 bp):
TCTTACCTATTTTCTC
Found at i:286806 original size:18 final size:19
Alignment explanation
Indices: 286771--286814 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
286761 TCTTACCTAT
286771 TTTCTCTCTTACCTTTTTC
1 TTTCTCTCTTACCTTTTTC
*
286790 TTTCTCTC-TATCTTTTTC
1 TTTCTCTCTTACCTTTTTC
286808 TTTCTCT
1 TTTCTCT
286815 ATATATACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTCTCTTACCTTTTTC
Found at i:291920 original size:17 final size:18
Alignment explanation
Indices: 291888--291921 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
291878 TTATTCCATA
291888 AAAAATAATTTAATTAAC
1 AAAAATAATTTAATTAAC
*
291906 AAAAATGATTT-ATTAA
1 AAAAATAATTTAATTAA
291922 TCAATGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAAATAATTTAATTAAC
Found at i:294740 original size:2 final size:2
Alignment explanation
Indices: 294735--294759 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
294725 TCCTCCTCTC
294735 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
294760 CTTTTTGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:303823 original size:100 final size:102
Alignment explanation
Indices: 303642--303856 Score: 380
Period size: 100 Copynumber: 2.1 Consensus size: 102
303632 GTCGAGGGTC
303642 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGA-ATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
303707 TTGATCCTTGGCATATG-ATATGATTCTTAAGGAATGA
65 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
303744 TATGTGGTCCTTCGGG-ATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
1 TATGTGGTCCTTCGGGAATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
*
303808 TGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
303845 TATGTGGTCCTT
1 TATGTGGTCCTT
303857 ATGGACATTA
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
100 61 0.56
101 32 0.29
102 16 0.15
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (102 bp):
TATGTGGTCCTTCGGGAATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
TGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:303906 original size:23 final size:23
Alignment explanation
Indices: 303873--303935 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
303863 ATTATTATAT
303873 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
303896 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
303919 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
303936 ATATGAGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:314414 original size:67 final size:67
Alignment explanation
Indices: 314272--314399 Score: 192
Period size: 68 Copynumber: 1.9 Consensus size: 67
314262 CGTAATATCA
* *
314272 ATTTTTGGTGTCTTGATTGTTTGCATCTGTAAATTGAATTTGCCTTTTTGATTTATAAAAACAAT
1 ATTTTTGGTGTCTTGATTGTTTGCATCTGTAAATTGAATTTGCCCTTTGGATTTATAAAAACAAT
314337 TG
66 TG
314339 ATTTTTGGTGTTCTTGATTGTTTGCAT-TGGTAAATTG-ATTT-CCCTTTGGA-TTATAAAAACA
1 ATTTTTGGTG-TCTTGATTGTTTGCATCT-GTAAATTGAATTTGCCCTTTGGATTTATAAAAACA
314400 TCATTTTGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
65 11 0.19
66 7 0.12
67 15 0.26
68 24 0.42
ACGTcount: A:0.25, C:0.09, G:0.17, T:0.48
Consensus pattern (67 bp):
ATTTTTGGTGTCTTGATTGTTTGCATCTGTAAATTGAATTTGCCCTTTGGATTTATAAAAACAAT
TG
Found at i:319766 original size:21 final size:21
Alignment explanation
Indices: 319742--319793 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
319732 GGGGTATCGA
319742 TTCCCCTAAAGGGGGAATCAG
1 TTCCCCTAAAGGGGGAATCAG
* *
319763 TTCCCCTTCAGAGGGGGAATCGG
1 TTCCCC-T-AAAGGGGGAATCAG
319786 TTCCCCTA
1 TTCCCCTA
319794 GGGGGTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.26
22 2 0.07
23 18 0.67
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (21 bp):
TTCCCCTAAAGGGGGAATCAG
Found at i:326536 original size:20 final size:20
Alignment explanation
Indices: 326511--326550 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
326501 TTTGGTGCAG
*
326511 AGGGAATCGATTCCCCCTTT
1 AGGGAACCGATTCCCCCTTT
326531 AGGGAACCGATTCCCCCTTT
1 AGGGAACCGATTCCCCCTTT
326551 GAAAGGGAAC
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:0.20, C:0.33, G:0.20, T:0.28
Consensus pattern (20 bp):
AGGGAACCGATTCCCCCTTT
Found at i:326565 original size:23 final size:20
Alignment explanation
Indices: 326519--326568 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 20
326509 AGAGGGAATC
*
326519 GATTCCCCCTTTAGGGAACC
1 GATTCCCCCTTTAGGGAACT
326539 GATTCCCCCTTTGAAAGGGAACT
1 GATTCCCCCTTT---AGGGAACT
326562 GATTCCC
1 GATTCCC
326569 TCCACAGGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 12 0.46
23 14 0.54
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (20 bp):
GATTCCCCCTTTAGGGAACT
Found at i:333096 original size:30 final size:30
Alignment explanation
Indices: 333062--333130 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
333052 TTATATGAGT
* *
333062 TATGTGATAAAGGTATGGAAATGATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
*
333092 TATGTGATAAAGGTATGAAAATAATATGTT
1 TATGTGATAAAGGTATGAAAATAATATGTC
*
333122 TACGTGATA
1 TATGTGATA
333131 CAAATTATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (30 bp):
TATGTGATAAAGGTATGAAAATAATATGTC
Done.