Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004218.1 Hibiscus syriacus cultivar Beakdansim tig00009238_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: 133205
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:339 original size:147 final size:146
Alignment explanation
Indices: 105--716 Score: 826
Period size: 147 Copynumber: 4.2 Consensus size: 146
95 CCAACATCCA
* * *
105 TAAGACCTGCATTGCAGGATGTTTTCAAAAA--CTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
*
168 GTCATCTGTAAGACCTACAGTGCATGATGTTTTTAAAAAGCCTTCGGGATCTTTTTGATCTTAAA
66 GTCATCTGTAAGACCTACAGTGCATGATGTTTTTAAAAAGCCTTCGGGAGCTTTTTGATCTTAAA
233 GCCTCAGGGTCATCTG
131 GCCTCAGGGTCATCTG
* * * *
249 TAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTTGATCTTAAAGCTTTAG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTTGATCTTAAAGCCTCAG
* *
314 GGTCATCTGTAAGACCTACAGTGCATTATGTTTTCAAAAAGCCTTC-GGAGCTTTTTGATCTTAA
65 GGTCATCTGTAAGACCTACAGTGCATGATGTTTTTAAAAAGCCTTCGGGAGCTTTTTGATCTTAA
378 AGCCTCAGGGTCATCTG
130 AGCCTCAGGGTCATCTG
* * **
395 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGTTTTTTTTTATCTTAAAGATTCA
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAG--CTTTTTGATCTTAAAGCCTCA
*
460 GGGTCATCTGTAAGA-CTACAGTGCATGATGTTTTTCAAAAAGCCTTCAGGAGCTTTTTGATC-T
64 GGGTCATCTGTAAGACCTACAGTGCATGATGTTTTT-AAAAAGCCTTCGGGAGCTTTTTGATCTT
*
523 AAAGTCTCAGGGTCCATCTG
128 AAAGCCTCAGGGT-CATCTG
* *
543 TAAGACCTACAGTGCATGATG-TTTCAAAAGGCCTTCGGGAGCTTTTTGATCTTAAAACCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
* * * * * *
607 GCCATCTGTAAGCCCTTCAGTGCATGATGTTTTT-AAAGGCCTTCGGGAGATTTTTGATGTTTTC
66 GTCATCTGTAAGACCTACAGTGCATGATGTTTTTAAAAAGCCTTCGGGAGCTTTTTGA--TCTT-
* ** *
671 AAAACCTTTGGATCATCTG
128 AAAGCCTCAGGGTCATCTG
* *
690 TAAGCCCTTCAGTGCATGAT-TTTTCAA
1 TAAGACCTACAGTGCATGATGTTTTCAA
717 CATTTCCATC
Statistics
Matches: 415, Mismatches: 39, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
144 47 0.11
145 29 0.07
146 121 0.29
147 169 0.41
148 49 0.12
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (146 bp):
TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
GTCATCTGTAAGACCTACAGTGCATGATGTTTTTAAAAAGCCTTCGGGAGCTTTTTGATCTTAAA
GCCTCAGGGTCATCTG
Found at i:405 original size:72 final size:73
Alignment explanation
Indices: 105--716 Score: 817
Period size: 72 Copynumber: 8.4 Consensus size: 73
95 CCAACATCCA
* * *
105 TAAGACCTGCATTGCAGGATGTTTTCAAAAA--CTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
168 GTCATCTG
66 GTCATCTG
* *
176 TAAGACCTACAGTGCATGATGTTTTTAAAAAGCCTTCGGGATCTTTTTGATCTTAAAGCCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
241 GTCATCTG
66 GTCATCTG
* * * *
249 TAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTTGATCTTAAAGCTTTAG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTTGATCTTAAAGCCTCAG
314 GGTCATCTG
65 GGTCATCTG
*
323 TAAGACCTACAGTGCATTATGTTTTCAAAAAGCCTTC-GGAGCTTTTTGATCTTAAAGCCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
387 GTCATCTG
66 GTCATCTG
* * **
395 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGTTTTTTTTTATCTTAAAGATTCA
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAG--CTTTTTGATCTTAAAGCCTCA
460 GGGTCATCTG
64 GGGTCATCTG
* *
470 TAAGA-CTACAGTGCATGATGTTTTTCAAAAAGCCTTCAGGAGCTTTTTGATC-TAAAGTCTCAG
1 TAAGACCTACAGTGCATGATG-TTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAG
533 GGTCCATCTG
65 GGT-CATCTG
* *
543 TAAGACCTACAGTGCATGATG-TTTCAAAAGGCCTTCGGGAGCTTTTTGATCTTAAAACCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
*
607 GCCATCTG
66 GTCATCTG
* * * * * * * *
615 TAAGCCCTTCAGTGCATGATGTTTT-TAAAGGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTT
1 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TCTT-AAAGCCTC
* *
679 TGGATCATCTG
63 AGGGTCATCTG
* *
690 TAAGCCCTTCAGTGCATGAT-TTTTCAA
1 TAAGACCTACAGTGCATGATGTTTTCAA
717 CATTTCCATC
Statistics
Matches: 485, Mismatches: 41, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
71 27 0.06
72 151 0.31
73 120 0.25
74 99 0.20
75 88 0.18
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (73 bp):
TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
GTCATCTG
Found at i:689 original size:220 final size:219
Alignment explanation
Indices: 105--713 Score: 774
Period size: 220 Copynumber: 2.8 Consensus size: 219
95 CCAACATCCA
* * * *
105 TAAGACCTGCATTGCAGGATGTTTTCAAAA-ACTTCGGGAGCTTTTTGATCTTAAAGCCTCAGGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGGG
* *
169 TCATCTGTAAGACCTACAGTGCATGATGTTTTTAAAAAGCCTTCGGGATCTTTTTGA-TCTT-AA
66 TCATCTGTAAGACCTACAGTGCATGATGTTTTT-AAAAGCCTTCGGGA-GTTTTTGATTTTTCAA
* * * **
232 AGCCTCAGGGTCATCTGTAAGACCTATAGTGCATGATG-TTTTCAAAAAGCCTTTGGGAGCTTTT
129 AACCTTAGGGTCATCTGTAAGA-CTACAGTGCATGATGTTTTTCAAAAAGCCTTCAGGAGCTTTT
*
296 TTGATCTTAAAGCTTTAGGGTCATCTG
193 TTGATCTTAAAGCTTCAGGGTCATCTG
*
323 TAAGACCTACAGTGCATTATGTTTTCAAAAAGCCTTC-GGAGCTTTTTGATCTTAAAGCCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTC-AAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
*
387 GTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGTTTTT--TTTTATCT
65 GTCATCTGTAAGACCTACAGTGCATGATGTTTT-TAAAAGCCTTCGGGAGTTTTTGATTTT-TC-
* **
450 TAAAGATTCAGGGTCATCTGTAAGACTACAGTGCATGATGTTTTTCAAAAAGCCTTCAGGAGC-T
127 AAAACCTT-AGGGTCATCTGTAAGACTACAGTGCATGATGTTTTTCAAAAAGCCTTCAGGAGCTT
514 TTTTGATC-TAAAG-TCTCAGGGTCCATCTG
191 TTTTGATCTTAAAGCT-TCAGGGT-CATCTG
*
543 TAAGACCTACAGTGCATGATG-TTTCAAAAGGCCTTCGGGAGCTTTTTGATCTTAAAACCTCAGG
1 TAAGACCTACAGTGCATGATGTTTTCAAAA-GCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGG
* * * *
607 GCCATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAGGCCTTCGGGAGATTTTTGATGTTTTCA
65 GTCATCTGTAAGACCTACAGTGCATGATGTTTTTAAAAGCCTTCGGGAG-TTTTTGAT-TTTTCA
* * * *
672 AAACCTTTGGATCATCTGTAAGCCCTTCAGTGCATGAT-TTTT
128 AAACCTTAGGGTCATCTGTAAG-ACTACAGTGCATGATGTTTT
714 CAACATTTCC
Statistics
Matches: 342, Mismatches: 31, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
217 2 0.01
218 33 0.10
219 113 0.33
220 134 0.39
221 54 0.16
222 3 0.01
223 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (219 bp):
TAAGACCTACAGTGCATGATGTTTTCAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGGG
TCATCTGTAAGACCTACAGTGCATGATGTTTTTAAAAGCCTTCGGGAGTTTTTGATTTTTCAAAA
CCTTAGGGTCATCTGTAAGACTACAGTGCATGATGTTTTTCAAAAAGCCTTCAGGAGCTTTTTTG
ATCTTAAAGCTTCAGGGTCATCTG
Found at i:850 original size:3 final size:3
Alignment explanation
Indices: 844--902 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
834 TCATTTCATT
** *
844 TTA TTA TTA TTA TTAA AAA TTA TTG TTA TTA TTA TATA TTA TATA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA T-TA TTA T-TA TTA
*
892 TTA TTA CTA TT
1 TTA TTA TTA TT
903 TAAATAAACC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
3 38 0.84
4 7 0.16
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:872 original size:19 final size:19
Alignment explanation
Indices: 844--897 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
834 TCATTTCATT
844 TTATTATTATTATTAAAAA
1 TTATTATTATTATTAAAAA
* * *
863 TTATTGTTATTATTATATA
1 TTATTATTATTATTAAAAA
882 TTATATATTATTATTA
1 TTAT-TATTATTATTA
898 CTATTTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTATTATTATTATTAAAAA
Found at i:2960 original size:138 final size:139
Alignment explanation
Indices: 2706--2969 Score: 315
Period size: 140 Copynumber: 1.9 Consensus size: 139
2696 CATATTTAAT
* * * *
2706 ATTTATTTATTTTTTAATATTAAGAATGGACTGTCTTAAAGCACTATAAGTCCTTTTCTAATATT
1 ATTTATTTATTTTTAAATATTAAGAATGGACTATCTTAAAGCACTAGAAGTCATTTTCTAATATT
** * * *
2771 CTTAAATAAATAAATATCCTATTTTTATAAATTATATATTATTTATTTTAAT-TATTTTTGAAAA
66 CTTAAATAAATAAATATCCTATTTAAATAAATTAAATATTATATATATTAATATATTTTTGAAAA
2835 TGTTTACAA
131 TGTTTACAA
* *
2844 ATTTATTTATTTTTAAATATTAAGAAAT-GAGCTATCTTAAAGCACGTAGAAGTCATTTTGTGAT
1 ATTTATTTATTTTTAAATATTAAG-AATGGA-CTATCTTAAAGCAC-TAGAAGTCATTTTCTAAT
* *
2908 ATT-TCTAAGTAAATAAATATCTTATTTAAATATAA-TAAATA-TATATA-ATTAATAATATTTT
63 ATTCT-TAAATAAATAAATATCCTATTTAAATA-AATTAAATATTATATATATTAAT-ATATTTT
2969 T
125 T
2970 CTAAATAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
138 30 0.28
139 22 0.21
140 52 0.49
141 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (139 bp):
ATTTATTTATTTTTAAATATTAAGAATGGACTATCTTAAAGCACTAGAAGTCATTTTCTAATATT
CTTAAATAAATAAATATCCTATTTAAATAAATTAAATATTATATATATTAATATATTTTTGAAAA
TGTTTACAA
Found at i:7686 original size:2 final size:2
Alignment explanation
Indices: 7679--7754 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
7669 GATTCATACG
7679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7721 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7755 CATAAAACCG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8248 original size:39 final size:39
Alignment explanation
Indices: 8187--8305 Score: 168
Period size: 39 Copynumber: 3.1 Consensus size: 39
8177 AAAAGCATAC
*
8187 GAGCATGTAGTAATGACTTACCCTGAGCACAAAGTCGAG
1 GAGCATGTAATAATGACTTACCCTGAGCACAAAGTCGAG
* *
8226 GAGCCTGTAATAATGA-TATACCCTGAGCATAAAGTCGAG
1 GAGCATGTAATAATGACT-TACCCTGAGCACAAAGTCGAG
* * *
8265 GAGCATGCACTAAGGACTTACCCTGAGCACAAAGTCGAG
1 GAGCATGTAATAATGACTTACCCTGAGCACAAAGTCGAG
8304 GA
1 GA
8306 TCATTCGGAG
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 68 0.97
40 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (39 bp):
GAGCATGTAATAATGACTTACCCTGAGCACAAAGTCGAG
Found at i:12694 original size:17 final size:16
Alignment explanation
Indices: 12654--12733 Score: 74
Period size: 17 Copynumber: 5.0 Consensus size: 16
12644 ATACTACAAG
*
12654 AACAATATTGGTACT-
1 AACAATATTGATACTA
*
12669 AATAATATTGATACTA
1 AACAATATTGATACTA
*
12685 CAACAATATTGGTACT-
1 -AACAATATTGATACTA
* *
12701 AAGAGTATTGATACTA
1 AACAATATTGATACTA
*
12717 TAACAGTATTGATACTA
1 -AACAATATTGATACTA
12734 GTATCGATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
15 25 0.47
17 28 0.53
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (16 bp):
AACAATATTGATACTA
Found at i:12695 original size:32 final size:32
Alignment explanation
Indices: 12639--12733 Score: 118
Period size: 32 Copynumber: 2.9 Consensus size: 32
12629 TGTTGGGGAG
*
12639 TATTGATACTACAAGAACAATATTGGTACTAATAA
1 TATTGATACTAC---AACAATATTGGTACTAAGAA
*
12674 TATTGATACTACAACAATATTGGTACTAAGAG
1 TATTGATACTACAACAATATTGGTACTAAGAA
* * *
12706 TATTGATACTATAACAGTATTGATACTA
1 TATTGATACTACAACAATATTGGTACTA
12734 GTATCGATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 43 0.78
35 12 0.22
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (32 bp):
TATTGATACTACAACAATATTGGTACTAAGAA
Found at i:14149 original size:15 final size:15
Alignment explanation
Indices: 14129--14161 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
14119 ATAAGCGATG
14129 GAAATTTGACTAAGA
1 GAAATTTGACTAAGA
14144 GAAATTTGACTAAGA
1 GAAATTTGACTAAGA
14159 GAA
1 GAA
14162 GCAATGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.24
Consensus pattern (15 bp):
GAAATTTGACTAAGA
Found at i:21674 original size:17 final size:17
Alignment explanation
Indices: 21652--21692 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
21642 TAGCAGTGTG
*
21652 TATTATCGGATATCGAA
1 TATTATCGAATATCGAA
*
21669 TATTATCGAATATCGGA
1 TATTATCGAATATCGAA
21686 TATTATC
1 TATTATC
21693 TGATCCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (17 bp):
TATTATCGAATATCGAA
Found at i:23382 original size:23 final size:23
Alignment explanation
Indices: 23354--23411 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
23344 TTCATTTTAC
23354 TATTAGTGTCTACCCTGAAATTT
1 TATTAGTGTCTACCCTGAAATTT
*
23377 TATTAGTGTCCACCCTGAAATTT
1 TATTAGTGTCTACCCTGAAATTT
*
23400 TATTTGTGTCTA
1 TATTAGTGTCTA
23412 TACCATATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (23 bp):
TATTAGTGTCTACCCTGAAATTT
Found at i:33617 original size:90 final size:89
Alignment explanation
Indices: 33501--33665 Score: 294
Period size: 90 Copynumber: 1.8 Consensus size: 89
33491 TAATCCCGAA
* *
33501 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
*
33566 TAGGGTAACTTGGATATAAAAAGAT
65 TAGAGTAACTTGGATATAAAAAGAT
33591 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
33656 AGAGTAACTT
66 AGAGTAACTT
33666 AGCAGCTATA
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 22 0.31
90 50 0.69
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGAGTAACTTGGATATAAAAAGAT
Found at i:34075 original size:16 final size:16
Alignment explanation
Indices: 34054--34086 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34044 TTGGTTGATA
34054 CGATATGTATGAGATG
1 CGATATGTATGAGATG
34070 CGATATGTATGAGATG
1 CGATATGTATGAGATG
34086 C
1 C
34087 ATGTTCTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (16 bp):
CGATATGTATGAGATG
Found at i:34408 original size:23 final size:24
Alignment explanation
Indices: 34354--34405 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
34344 AGAAGTTCTA
34354 TTTTTGAAGGCCCATATTAATTTT
1 TTTTTGAAGGCCCATATTAATTTT
34378 TTTTTGAAGGCCCATATTAATTTT
1 TTTTTGAAGGCCCATATTAATTTT
34402 TTTT
1 TTTT
34406 GAACAAAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.54
Consensus pattern (24 bp):
TTTTTGAAGGCCCATATTAATTTT
Found at i:43495 original size:97 final size:97
Alignment explanation
Indices: 43297--43495 Score: 231
Period size: 97 Copynumber: 2.1 Consensus size: 97
43287 GCACACCTAG
43297 TAAATTCCATGATTCCATAAATCAGGAACAATTCATATTTTTCAGTGAAAACAGGAAACCAGATA
1 TAAATTCCATGATTCCATAAATCAGGAACAATTCATATTTTTCAGTGAAAACAGGAAACCAGATA
** *
43362 CACATTTCAGGTAACCATAATTCATAAACCAG
66 CACATACCAGGTAACCATAATTCATAAACCAA
* * * * * * *
43394 TAAATTCCATGATTTCATAAATCATGTACAATTCATATTTTTC-GATGAAAAC-CGTAATCAGAG
1 TAAATTCCATGATTCCATAAATCAGGAACAATTCATATTTTTCAG-TGAAAACAGGAAACCAGAT
* ** **
43457 ATCACATACCATGTTGCCATGGTTCATAAACCAA
65 A-CACATACCAGGTAACCATAATTCATAAACCAA
43491 TAAAT
1 TAAAT
43496 CGATACTTTC
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
96 9 0.11
97 76 0.89
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (97 bp):
TAAATTCCATGATTCCATAAATCAGGAACAATTCATATTTTTCAGTGAAAACAGGAAACCAGATA
CACATACCAGGTAACCATAATTCATAAACCAA
Found at i:51120 original size:14 final size:14
Alignment explanation
Indices: 51101--51143 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
51091 TACTTAATTA
51101 ATAAAGACAACTTC
1 ATAAAGACAACTTC
51115 ATAAAGACAACTTC
1 ATAAAGACAACTTC
*
51129 AT--ACACAACTTC
1 ATAAAGACAACTTC
51141 ATA
1 ATA
51144 CATAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (14 bp):
ATAAAGACAACTTC
Found at i:51138 original size:12 final size:12
Alignment explanation
Indices: 51107--51145 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
51097 ATTAATAAAG
*
51107 ACAACTTCATAAAG
1 ACAACTTCAT--AC
51121 ACAACTTCATAC
1 ACAACTTCATAC
51133 ACAACTTCATAC
1 ACAACTTCATAC
51145 A
1 A
51146 TAAATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 14 0.58
14 10 0.42
ACGTcount: A:0.46, C:0.28, G:0.03, T:0.23
Consensus pattern (12 bp):
ACAACTTCATAC
Found at i:52667 original size:6 final size:6
Alignment explanation
Indices: 52656--52702 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
52646 GGGATAAAAC
*
52656 AAAATT AAAATT AAAATT AAAATA ACAAATT AAAA-T -AAA-T AAAATT
1 AAAATT AAAATT AAAATT AAAATT A-AAATT AAAATT AAAATT AAAATT
52702 A
1 A
52703 TAAAAGGGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 4 0.11
5 4 0.11
6 23 0.64
7 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (6 bp):
AAAATT
Found at i:53666 original size:44 final size:43
Alignment explanation
Indices: 53618--53740 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 43
53608 TTTCTTTGAG
* * *
53618 GAATGCCAAGTCGTAATCAATGGTTGTTTGCTTCTTTCCCTTAA
1 GAATGCCAAGTCGTAATCAATGGTT-CTTGCTCCTTTCCCTAAA
* * * * *
53662 GAATGCCAAATAG-AA-GAAT-GATCTTGCTCCTTTCTCTAAA
1 GAATGCCAAGTCGTAATCAATGGTTCTTGCTCCTTTCCCTAAA
* *
53702 GGATGCCAAGTCGTAATCAATGGTCGACTTGCTCCTTTC
1 GAATGCCAAGTCGTAATCAATGGT--TCTTGCTCCTTTC
53741 ACTGAAGGAC
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
40 24 0.40
41 4 0.07
42 6 0.10
43 3 0.05
44 11 0.18
45 12 0.20
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (43 bp):
GAATGCCAAGTCGTAATCAATGGTTCTTGCTCCTTTCCCTAAA
Found at i:53780 original size:85 final size:84
Alignment explanation
Indices: 53620--53789 Score: 198
Period size: 85 Copynumber: 2.0 Consensus size: 84
53610 TCTTTGAGGA
* * * * * *
53620 ATGCCAAGTCGTAATCAATGGTTGTTTGCTTCTTTCCCTTAAGAATGCCAAATAGAAGAATGATC
1 ATGCCAAGTCGTAATCAATGGTCGCTTGCTCCTTTCACTGAAGAACGCCAAATAGAAGAATGATC
*
53685 TTGCTCCTTTCTCTAAAGG
66 TTGCTCCTTTCACTAAAGG
* ** * *
53704 ATGCCAAGTCGTAATCAATGGTCGACTTGCTCCTTTCACTGAAGGACGTTAAATTGGAGAACT-A
1 ATGCCAAGTCGTAATCAATGGTCG-CTTGCTCCTTTCACTGAAGAACGCCAAATAGAAGAA-TGA
*
53768 TCTTGCTCCTTTCACTGAAGG
64 TCTTGCTCCTTTCACTAAAGG
53789 A
1 A
53790 CGTTAAACTG
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
84 23 0.32
85 47 0.66
86 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (84 bp):
ATGCCAAGTCGTAATCAATGGTCGCTTGCTCCTTTCACTGAAGAACGCCAAATAGAAGAATGATC
TTGCTCCTTTCACTAAAGG
Found at i:53784 original size:40 final size:40
Alignment explanation
Indices: 53729--53820 Score: 157
Period size: 40 Copynumber: 2.3 Consensus size: 40
53719 CAATGGTCGA
*
53729 CTTGCTCCTTTCACTGAAGGACGTTAAATTGGAGAACTAT
1 CTTGCTCCTTTCACTGAAGGACGTTAAACTGGAGAACTAT
53769 CTTGCTCCTTTCACTGAAGGACGTTAAACTGGAGAACTAT
1 CTTGCTCCTTTCACTGAAGGACGTTAAACTGGAGAACTAT
* *
53809 CTTTCTCATTTC
1 CTTGCTCCTTTC
53821 TTTGAAGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (40 bp):
CTTGCTCCTTTCACTGAAGGACGTTAAACTGGAGAACTAT
Found at i:62193 original size:5 final size:5
Alignment explanation
Indices: 62183--62222 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
62173 TTATGGAAAC
62183 AAATA AAATA AAATA AAATA AAA-A TAAAT- AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA -AAATA AAATA AAATA A
62223 TAAATAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 5 0.16
5 27 0.84
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:62208 original size:16 final size:16
Alignment explanation
Indices: 62183--62231 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
62173 TTATGGAAAC
62183 AAATAAAAT-AAAATA
1 AAATAAAATAAAAATA
*
62198 AAATAAAA-ATAAAT-
1 AAATAAAATAAAAATA
62212 AAATAAAATAATAAATA
1 AAATAAAATAA-AAATA
62229 AAA
1 AAA
62232 AGAAAAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 8 0.29
15 13 0.46
16 4 0.14
17 3 0.11
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAAATAAAAATA
Found at i:62238 original size:7 final size:7
Alignment explanation
Indices: 62228--62265 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
62218 AATAATAAAT
62228 AAAAAGA
1 AAAAAGA
62235 AAAAA-A
1 AAAAAGA
62241 GAAAAAG-
1 -AAAAAGA
62248 AAAAAGA
1 AAAAAGA
62255 AAAAAGA
1 AAAAAGA
62262 AAAA
1 AAAA
62266 TAATAATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.25
7 21 0.75
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:62245 original size:6 final size:6
Alignment explanation
Indices: 62236--62265 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
62226 ATAAAAAGAA
62236 AAAAAG AAAAAG AAAAAG AAAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG -AAAAAG AAAAA
62266 TAATAATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:62245 original size:13 final size:14
Alignment explanation
Indices: 62228--62265 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
62218 AATAATAAAT
62228 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
*
62242 AAAAAGAAAAAGA-
1 AAAAAGAAAAAAAG
62255 AAAAAGAAAAA
1 AAAAAGAAAAA
62266 TAATAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:64573 original size:85 final size:83
Alignment explanation
Indices: 64481--65340 Score: 941
Period size: 85 Copynumber: 10.1 Consensus size: 83
64471 TAAGATAAGT
* * * * *
64481 TGTAAATTTGACATGCCCTTGAGTTGGATGGAATCGAACTCGAAGGTTTTGATTGACAGATAGTC
1 TGTAAATTTGATATGCCTTTGAGCT-GATGTAATCGAACTCGAAGGTTTTG-TTGACAGATAGCC
* **
64546 CTTCTCGCCTTGAACTATAT
64 CTTCTCGCCTTGAGCTATGC
* * * * *
64566 TGCAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTAACAGAAAGC
1 TGTAAATTTGATATGCCTTTGAGCTGA-TGTAATCGAACTCGAAGG--TTTTGTTGACAGATAGC
* *
64631 CCTTCTCTCCTTGAGCTATGT
63 CCTTCTCGCCTTGAGCTATGC
* * * *
64652 TGTAAATTCGATATGCCTTTGAGCTGAGTGTAATGGAACTCGAAGGTCTTGGTTGACAGATAACC
1 TGTAAATTTGATATGCCTTTGAGCTGA-TGTAATCGAACTCGAAGGT-TTTGTTGACAGATAGCC
* *
64717 CTTCTCGCCTTGGGTTATGC
64 CTTCTCGCCTTGAGCTATGC
* * *
64737 TGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTGGTTGACAGATAGCC
1 TGTAAATTTGATATGCCTTTGAGCTGA-TGTAATCGAACTCGAAGGT-TTTGTTGACAGATAGCC
64802 CTTCTCGCCTTGAGCTATGC
64 CTTCTCGCCTTGAGCTATGC
** * * * * * * * *
64822 TACAAATTTGATATGTCATTGAGCTGAGTGTAATCTAACTTGAAGGTCTTGGTTGAAAGATAACT
1 TGTAAATTTGATATGCCTTTGAGCTGA-TGTAATCGAACTCGAAGGT-TTTGTTGACAGATAGCC
*
64887 CTTCTCGCCTTGA-CTTATGT
64 CTTCTCGCCTTGAGC-TATGC
* * * * * *
64907 TGTAAACTTGATATGCCTTTGAGCTTAGTGTAATCGAACTCAAATGTCTTTTATTGACAAATAGC
1 TGTAAATTTGATATGCCTTTGAGCTGA-TGTAATCGAACTCGAA-G-GTTTTGTTGACAGATAGC
64972 CCTTCTCGCCTTGAGCTATGC
63 CCTTCTCGCCTTGAGCTATGC
* * * * *
64993 TGTAAATTCGATGTGCCTTTGAGTTGAGTATAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
1 TGTAAATTTGATATGCCTTTGAGCTGA-TGTAATCGAACTCGAAGG--TTTTGTTGACAGATAGC
65058 CCTTCTCGCCTTGAGCTATGC
63 CCTTCTCGCCTTGAGCTATGC
* *
65079 TGTAAATTTGATATGCCTTTGAGCTAAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
1 TGTAAATTTGATATGCCTTTGAGCT-GATGTAATCGAACTCGAAGG--TTTTGTTGACAGATAGC
* * *
65144 CCTTCTCTCCTTGCGTTATGC
63 CCTTCTCGCCTTGAGCTATGC
* * *
65165 TGTAAATTTGATATGCCTTTGAGTCTAATGTAATCGAACTCGAAGGTCTTGACTGACAG-TAGCC
1 TGTAAATTTGATATGCCTTTGAG-CTGATGTAATCGAACTCGAAGGTTTTG-TTGACAGATAGCC
*
65229 CTTTTCGCCTTGAGCTATGC
64 CTTCTCGCCTTGAGCTATGC
* * *
65249 TGTAAAGTTGACATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACC
1 TGTAAATTTGATATGCCTTTGAGCTG-ATGTAATCGAACTCGAAGG-TTTTGTTGACAGATAGCC
* *
65314 CTTCTCGCCTTGTGCTATGT
64 CTTCTCGCCTTGAGCTATGC
65334 TGTAAAT
1 TGTAAAT
65341 AGTTCCTTTA
Statistics
Matches: 664, Mismatches: 95, Indels: 32
0.84 0.12 0.04
Matches are distributed among these distances:
83 2 0.00
84 74 0.11
85 290 0.44
86 288 0.43
87 10 0.02
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (83 bp):
TGTAAATTTGATATGCCTTTGAGCTGATGTAATCGAACTCGAAGGTTTTGTTGACAGATAGCCCT
TCTCGCCTTGAGCTATGC
Found at i:64669 original size:86 final size:86
Alignment explanation
Indices: 64481--65340 Score: 1044
Period size: 86 Copynumber: 10.1 Consensus size: 86
64471 TAAGATAAGT
* * * *
64481 TGTAAATTTGACATGCCCTTGAGTTG-GATGGAATCGAACTCGAAGG--TTTTGATTGACAGATA
1 TGTAAATTTGATATGCCTTTGAGCTGAG-TGTAATCGAACTCGAAGGTCTTTTG-TTGACAGATA
** * **
64543 GTCCTTCTCGCCTTGAACTATAT
64 ACCCTTCTCGCCTTGAGCTATGC
* * * *
64566 TGCAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTAACAGA-AAG
1 TGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAA-
* *
64630 CCCTTCTCTCCTTGAGCTATGT
65 CCCTTCTCGCCTTGAGCTATGC
* * *
64652 TGTAAATTCGATATGCCTTTGAGCTGAGTGTAATGGAACTCGAAGGTC-TTGGTTGACAGATAAC
1 TGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
* *
64716 CCTTCTCGCCTTGGGTTATGC
66 CCTTCTCGCCTTGAGCTATGC
* * * *
64737 TGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTC-TTGGTTGACAGATAGC
1 TGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
64801 CCTTCTCGCCTTGAGCTATGC
66 CCTTCTCGCCTTGAGCTATGC
** * * * * * *
64822 TACAAATTTGATATGTCATTGAGCTGAGTGTAATCTAACTTGAAGGTC-TTGGTTGAAAGATAAC
1 TGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
* *
64886 TCTTCTCGCCTTGA-CTTATGT
66 CCTTCTCGCCTTGAGC-TATGC
* * * * * * *
64907 TGTAAACTTGATATGCCTTTGAGCTTAGTGTAATCGAACTCAAATGTCTTTTATTGACAAATAGC
1 TGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
64972 CCTTCTCGCCTTGAGCTATGC
66 CCTTCTCGCCTTGAGCTATGC
* * * *
64993 TGTAAATTCGATGTGCCTTTGAGTTGAGTATAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
1 TGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
65058 CCTTCTCGCCTTGAGCTATGC
66 CCTTCTCGCCTTGAGCTATGC
* *
65079 TGTAAATTTGATATGCCTTTGAGCTAAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
1 TGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
* * *
65144 CCTTCTCTCCTTGCGTTATGC
66 CCTTCTCGCCTTGAGCTATGC
* *
65165 TGTAAATTTGATATGCCTTTGAGTCT-AATGTAATCGAACTCGAAGGTC--TTGACTGACAG-TA
1 TGTAAATTTGATATGCCTTTGAG-CTGAGTGTAATCGAACTCGAAGGTCTTTTG-TTGACAGATA
* *
65226 GCCCTTTTCGCCTTGAGCTATGC
64 ACCCTTCTCGCCTTGAGCTATGC
* * *
65249 TGTAAAGTTGACATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGT-TTTTGTTGACAGATAAC
1 TGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
* *
65313 CCTTCTCGCCTTGTGCTATGT
66 CCTTCTCGCCTTGAGCTATGC
65334 TGTAAAT
1 TGTAAAT
65341 AGTTCCTTTA
Statistics
Matches: 670, Mismatches: 91, Indels: 28
0.85 0.12 0.04
Matches are distributed among these distances:
83 2 0.00
84 72 0.11
85 292 0.44
86 296 0.44
87 8 0.01
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (86 bp):
TGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
CCTTCTCGCCTTGAGCTATGC
Found at i:64795 original size:256 final size:254
Alignment explanation
Indices: 64481--65332 Score: 1077
Period size: 256 Copynumber: 3.3 Consensus size: 254
64471 TAAGATAAGT
* * * * * **
64481 TGTAAATTTGACATGCCCTTGAGTTG-GATGGAATCGAACTCGAAGGTTTTGATTGACAGATAGT
1 TGTAAATTTGACATGCCTTTGAGCTGAG-TGTAATCGAACTCGAAGGTCTTGGTTGACAGATAAC
* ** *
64545 CCTTCTCGCCTTGAACTATATTGCAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTTGAA
65 CCTTCTCGCCTTGAGCTATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTTGAA
64610 GGTCTTTTGTTAACAGA-AAGCCCTTCTCTCCTTGAGCTATGTTGTAAATTCGATATGCCTTTGA
130 GGTCTTTTGTTAACAGATAA-CCCTTCTCTCCTTGAGCTATGTTGTAAATT-GATATGCCTTTGA
* * * * *
64674 GCTGAGTGTAATGGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGGGTTATGC
193 GCT-AGTGTAATCGAACTCGAAGGTCTTGATTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* * * *
64737 TGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTGGTTGACAGATAGCC
1 TGTAAATTTGACATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACC
* * * *
64802 CTTCTCGCCTTGAGCTATGCTACAAATTTGATATGTCATTGAGCTGAGTGTAATCTAACTTGAAG
66 CTTCTCGCCTTGAGCTATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTTGAAG
* * *
64867 GTC-TTGGTTGAA-AGATAACTCTTCTCGCCTTGA-CTTATGTTGTAAACTTGATATGCCTTTGA
131 GTCTTTTGTT-AACAGATAACCCTTCTCTCCTTGAGC-TATGTTGTAAA-TTGATATGCCTTTGA
* * * *
64929 GCTTAGTGTAATCGAACTCAAATGTCTTTTATTGACAAATAGCCCTTCTCGCCTTGAGCTATGC
193 GC-TAGTGTAATCGAACTCGAAGGTC-TTGATTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* ** * * *
64993 TGTAAATTCGATGTGCCTTTGAGTTGAGTATAATCGAACTCGAAGGTCTTTTGTTGACAGATAAC
1 TGTAAATTTGACATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAAC
* * * *
65058 CCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTAAATGTAATCGAACTCGAA
65 CCTTCTCGCCTTGAGCTATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTTGAA
* * * *
65123 GGTCTTTTGTTGACAGATAACCCTTCTCTCCTTGCGTTATGCTGTAAATTTGATATGCCTTTGAG
130 GGTCTTTTGTTAACAGATAACCCTTCTCTCCTTGAGCTATGTTGTAAA-TTGATATGCCTTTGAG
* * *
65188 TCTAATGTAATCGAACTCGAAGGTCTTGACTGACAG-TAGCCCTTTTCGCCTTGAGCTATGC
194 -CTAGTGTAATCGAACTCGAAGGTCTTGATTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* * * *
65249 TGTAAAGTTGACATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACC
1 TGTAAATTTGACATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACC
*
65314 CTTCTCGCCTTGTGCTATG
66 CTTCTCGCCTTGAGCTATG
65333 TTGTAAATAG
Statistics
Matches: 515, Mismatches: 69, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
254 1 0.00
255 101 0.20
256 258 0.50
257 85 0.17
258 69 0.13
259 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (254 bp):
TGTAAATTTGACATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACC
CTTCTCGCCTTGAGCTATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTTGAAG
GTCTTTTGTTAACAGATAACCCTTCTCTCCTTGAGCTATGTTGTAAATTGATATGCCTTTGAGCT
AGTGTAATCGAACTCGAAGGTCTTGATTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
Found at i:65063 original size:427 final size:426
Alignment explanation
Indices: 64479--65339 Score: 1201
Period size: 427 Copynumber: 2.0 Consensus size: 426
64469 CTTAAGATAA
* * * *
64479 GTTGTAAATTTGACATGCCCTTGAGTTGGATGGAATCGAACTCGAAGGTTTTGATTGACAGATAG
1 GTTGTAAACTTGACATGCCCTTGAGTTAGATGGAATCGAACTCAAAGGTTTTGATTGACAAATAG
* * * * *
64544 TCCTTCTCGCCTTGAACTATATTGCAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTTGA
66 CCCTTCTCGCCTTGAACTATACTGCAAATTCGATGTGCCTTTGAGCTGAGTATAATCGAACTCGA
* *
64609 AGGTCTTTTGTTAACAGAAAGCCCTTCTCTCCTTGAGCTATGTTGTAAATTCGATATGCCTTTGA
131 AGGTCTTTTGTTAACAGAAAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGATATGCCTTTGA
* * * *
64674 GCTGAGTGTAATGGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGGGTTATGCT
196 GCTAAATGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGCCTTGCGTTATGCT
* **
64738 GCAAATTTGATATGCCTTTGAG-CTGAGTGTAATCAAACTCGAAGGTCTTGGTTGACAGATAGCC
261 GCAAATTTGATATGCCTTTGAGTCT-AATGTAATCAAACTCGAAGGTCTTGACTGACAG-TAGCC
* * * * * *
64802 CTTCTCGCCTTGAGCTATGCTACAAATTTGATATGTCATTGAGCTGAGTGTAATCTAACTTGAAG
324 CTTCTCGCCTTGAGCTATGCTACAAAGTTGACATGCCATTGAGCTGAATGTAATCGAACTCGAAG
*
64867 GTCTTGGTTGAAAGATAACTCTTCTCGCCTTG-ACTTAT
389 GTCTTGGTTGAAAGATAACCCTTCTCGCCTTGTAC-TAT
* * * * *
64905 GTTGTAAACTTGATATGCCTTTGAGCTTAG-TGTAATCGAACTCAAATGTCTTTTATTGACAAAT
1 GTTGTAAACTTGACATGCCCTTGAG-TTAGATGGAATCGAACTCAAAGGT-TTTGATTGACAAAT
* * * *
64969 AGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGATGTGCCTTTGAGTTGAGTATAATCGAACTC
64 AGCCCTTCTCGCCTTGAACTATACTGCAAATTCGATGTGCCTTTGAGCTGAGTATAATCGAACTC
* *
65034 GAAGGTCTTTTGTTGACAGATAA-CCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTT
129 GAAGGTCTTTTGTTAACAGA-AAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGATATGCCTT
* *
65098 TGAGCTAAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCTCCTTGCGTTAT
193 TGAGCTAAATGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGCCTTGCGTTAT
* *
65163 GCTGTAAATTTGATATGCCTTTGAGTCTAATGTAATCGAACTCGAAGGTCTTGACTGACAGTAGC
258 GCTGCAAATTTGATATGCCTTTGAGTCTAATGTAATCAAACTCGAAGGTCTTGACTGACAGTAGC
* ** *
65228 CCTTTTCGCCTTGAGCTATGCTGTAAAGTTGACATGCCTTTGAGCTGAATGTAATCGAACTCGAA
323 CCTTCTCGCCTTGAGCTATGCTACAAAGTTGACATGCCATTGAGCTGAATGTAATCGAACTCGAA
* * * *
65293 GGTTTTTGTTGACAGATAACCCTTCTCGCCTTGTGCTAT
388 GGTCTTGGTTGAAAGATAACCCTTCTCGCCTTGTACTAT
65332 GTTGTAAA
1 GTTGTAAA
65340 TAGTTCCTTT
Statistics
Matches: 381, Mismatches: 48, Indels: 11
0.87 0.11 0.03
Matches are distributed among these distances:
426 38 0.10
427 253 0.66
428 88 0.23
429 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (426 bp):
GTTGTAAACTTGACATGCCCTTGAGTTAGATGGAATCGAACTCAAAGGTTTTGATTGACAAATAG
CCCTTCTCGCCTTGAACTATACTGCAAATTCGATGTGCCTTTGAGCTGAGTATAATCGAACTCGA
AGGTCTTTTGTTAACAGAAAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGATATGCCTTTGA
GCTAAATGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGCCTTGCGTTATGCT
GCAAATTTGATATGCCTTTGAGTCTAATGTAATCAAACTCGAAGGTCTTGACTGACAGTAGCCCT
TCTCGCCTTGAGCTATGCTACAAAGTTGACATGCCATTGAGCTGAATGTAATCGAACTCGAAGGT
CTTGGTTGAAAGATAACCCTTCTCGCCTTGTACTAT
Found at i:68922 original size:15 final size:15
Alignment explanation
Indices: 68883--68925 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
68873 TTCTGTTAGT
*
68883 AAATGCGAATATAAAA
1 AAATGC-AAAATAAAA
*
68899 AAATG-AAAATAACA
1 AAATGCAAAATAAAA
68913 AAATGCAAAATAA
1 AAATGCAAAATAA
68926 GTCTAAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 7 0.29
16 5 0.21
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.16
Consensus pattern (15 bp):
AAATGCAAAATAAAA
Found at i:70826 original size:6 final size:6
Alignment explanation
Indices: 70817--70845 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
70807 AATAAAAACA
70817 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
70846 AATAATAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:70832 original size:13 final size:13
Alignment explanation
Indices: 70800--70846 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
70790 TAAAGAAAAT
* *
70800 AAGAAGAAATAAA
1 AAGAAAAAAGAAA
*
70813 AACAAAAAAGAAA
1 AAGAAAAAAGAAA
70826 AAG-AAAAAGAAA
1 AAGAAAAAAGAAA
70838 AAGAAAAAA
1 AAGAAAAAA
70847 ATAATAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 12 0.41
13 17 0.59
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:70846 original size:20 final size:20
Alignment explanation
Indices: 70791--70862 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
70781 CAAATAAAAT
*
70791 AAAGAAAATAAGAAGAAATAA
1 AAAGAAAAAAAGAA-AAATAA
* *
70812 AAA-CAAAAAAGAAAAAGAA
1 AAAGAAAAAAAGAAAAATAA
70831 AAAGAAAAAGAA-AAAAATAA
1 AAAGAAAAA-AAGAAAAATAA
*
70851 TAATGAAAAAAA
1 -AAAGAAAAAAA
70863 TTAAAATATG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 8 0.19
20 21 0.50
21 13 0.31
ACGTcount: A:0.81, C:0.01, G:0.11, T:0.07
Consensus pattern (20 bp):
AAAGAAAAAAAGAAAAATAA
Found at i:71163 original size:10 final size:10
Alignment explanation
Indices: 71148--71172 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
71138 TGGGTAAAAC
71148 AAAAAAATAA
1 AAAAAAATAA
71158 AAAAAAATAA
1 AAAAAAATAA
71168 AAAAA
1 AAAAA
71173 GTGAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:71183 original size:2 final size:2
Alignment explanation
Indices: 71178--71222 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
71168 AAAAAGTGAA
71178 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71220 AT A
1 AT A
71223 AACGAGTCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:71257 original size:12 final size:12
Alignment explanation
Indices: 71240--71298 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
71230 CAAAAAATAG
*
71240 AAAAAATACAAT
1 AAAAAATAAAAT
*
71252 AAAAAATATAAT
1 AAAAAATAAAAT
71264 AAATAAATAAAAT
1 AAA-AAATAAAAT
* *
71277 AAAATA-AAAAG
1 AAAAAATAAAAT
*
71288 AAATAATAAAA
1 AAAAAATAAAA
71299 AACCAAACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 8 0.21
12 20 0.51
13 11 0.28
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:71257 original size:21 final size:20
Alignment explanation
Indices: 71231--71275 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
71221 TAAACGAGTC
71231 AAAAAATAGAAAAAATACAAT
1 AAAAAATAGAAAAAATA-AAT
* *
71252 AAAAAATATAATAAATAAAT
1 AAAAAATAGAAAAAATAAAT
71272 AAAA
1 AAAA
71276 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAAATAGAAAAAATAAAT
Found at i:71268 original size:30 final size:31
Alignment explanation
Indices: 71234--71297 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
71224 ACGAGTCAAA
* *
71234 AAATAGAA-AAAATACAATAAAAA-ATATAAT
1 AAATA-AATAAAATAAAATAAAAAGAAATAAT
71264 AAATAAATAAAATAAAATAAAAAGAAATAAT
1 AAATAAATAAAATAAAATAAAAAGAAATAAT
71295 AAA
1 AAA
71298 AAACCAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 19 0.63
31 9 0.30
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.19
Consensus pattern (31 bp):
AAATAAATAAAATAAAATAAAAAGAAATAAT
Found at i:71300 original size:20 final size:20
Alignment explanation
Indices: 71249--71300 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
71239 GAAAAAATAC
* *
71249 AATAAAAAATATAATAAATA
1 AATAAAAAAAATAATAAAGA
71269 AATAAAATAAAATAA-AAAGA
1 AATAAAA-AAAATAATAAAGA
71289 AATAATAAAAAA
1 AATAA-AAAAAA
71301 CCAAACAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (20 bp):
AATAAAAAAAATAATAAAGA
Found at i:73138 original size:17 final size:17
Alignment explanation
Indices: 73111--73149 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
73101 AATTTACAAT
73111 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
73127 TAATTATAAATAATATC
1 TAATTATAAATAATATC
*
73144 TTATTA
1 TAATTA
73150 ATTTGATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:73267 original size:9 final size:9
Alignment explanation
Indices: 73253--73278 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
73243 TATATTTAAA
73253 GGTTAATTC
1 GGTTAATTC
73262 GGTTAATTC
1 GGTTAATTC
73271 GGTTAATT
1 GGTTAATT
73279 AACCGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (9 bp):
GGTTAATTC
Found at i:73363 original size:21 final size:21
Alignment explanation
Indices: 73338--73377 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
73328 TAATCGTTCC
*
73338 CCGACTGAATTAATTCGGTGG
1 CCGACCGAATTAATTCGGTGG
73359 CCGACCGAATTAATTCGGT
1 CCGACCGAATTAATTCGGT
73378 TCGGTCGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (21 bp):
CCGACCGAATTAATTCGGTGG
Found at i:75964 original size:20 final size:20
Alignment explanation
Indices: 75939--76024 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
75929 GAAAATGAAC
75939 AATAAATAAAGTAAAAAACG
1 AATAAATAAAGTAAAAAACG
* *
75959 AATAAATAAAG-AAAATACAT
1 AATAAATAAAGTAAAAAAC-G
**
75979 AATAAATAAAAAACATAAAAC-
1 AATAAATAAAGTA-A-AAAACG
*
76000 AA-AAATAAAGTAAAAAATG
1 AATAAATAAAGTAAAAAACG
76019 AATAAA
1 AATAAA
76025 ACAAATAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
18 4 0.08
19 9 0.17
20 32 0.60
21 3 0.06
22 1 0.02
23 4 0.08
ACGTcount: A:0.73, C:0.05, G:0.06, T:0.16
Consensus pattern (20 bp):
AATAAATAAAGTAAAAAACG
Found at i:75982 original size:16 final size:16
Alignment explanation
Indices: 75943--75996 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
75933 ATGAACAATA
75943 AATAAAGTAAAAAACGAAT
1 AATAAAG-AAAAAAC--AT
*
75962 AAATAAAGAAAATACAT
1 -AATAAAGAAAAAACAT
*
75979 AATAAATAAAAAACAT
1 AATAAAGAAAAAACAT
75995 AA
1 AA
75997 AACAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 16 0.52
17 2 0.06
19 6 0.19
20 7 0.23
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (16 bp):
AATAAAGAAAAAACAT
Found at i:75996 original size:13 final size:12
Alignment explanation
Indices: 75979--76033 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
75969 GAAAATACAT
75979 AATAAATAAAAA
1 AATAAATAAAAA
*
75991 ACATAAA-ACAAA
1 A-ATAAATAAAAA
76003 AATAAAGT-AAAA
1 AATAAA-TAAAAA
*
76015 AATGAATAAAACA
1 AATAAATAAAA-A
76028 AATAAA
1 AATAAA
76034 AAAGGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
11 6 0.18
12 17 0.50
13 11 0.32
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:76048 original size:25 final size:25
Alignment explanation
Indices: 75985--76048 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 25
75975 ACATAATAAA
* *
75985 TAAAAAACATAAAACAAAAATAAAG
1 TAAAAAAGATAAAACAAAAAAAAAG
76010 TAAAAAATGAATAAAACAAATAAAAAAG
1 TAAAAAA-G-ATAAAACAAA-AAAAAAG
*
76038 -GAAAAAGATAA
1 TAAAAAAGATAA
76049 TAATAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 11 0.33
26 1 0.03
27 15 0.45
28 6 0.18
ACGTcount: A:0.75, C:0.05, G:0.08, T:0.12
Consensus pattern (25 bp):
TAAAAAAGATAAAACAAAAAAAAAG
Found at i:76050 original size:28 final size:27
Alignment explanation
Indices: 75993--76051 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
75983 AATAAAAAAC
* *
75993 ATAAAACAAAAATAAAGTAAAAAATGA
1 ATAAAACAAAAAAAAAGGAAAAAATGA
76020 ATAAAACAAATAAAAAAGGAAAAAGAT-A
1 ATAAAACAAA-AAAAAAGGAAAAA-ATGA
76048 ATAA
1 ATAA
76052 TAATAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 16 0.57
29 2 0.07
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (27 bp):
ATAAAACAAAAAAAAAGGAAAAAATGA
Found at i:76053 original size:3 final size:3
Alignment explanation
Indices: 76045--76074 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
76035 AAGGAAAAAG
76045 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
76075 TATACATAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:76174 original size:21 final size:22
Alignment explanation
Indices: 76150--76212 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
76140 TATAAGGGAG
* *
76150 ATAAAAAGATAAAAATAAAGA-
1 ATAAAAAAATAAAAATAAAAAT
* *
76171 ATAAAAAAAGAAAAAGAAAAAAT
1 ATAAAAAAATAAAAA-TAAAAAT
*
76194 ATAAAAATATAAAAATAAA
1 ATAAAAAAATAAAAATAAA
76213 TAAATTGGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 13 0.39
22 7 0.21
23 13 0.39
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.14
Consensus pattern (22 bp):
ATAAAAAAATAAAAATAAAAAT
Found at i:76177 original size:14 final size:15
Alignment explanation
Indices: 76160--76299 Score: 63
Period size: 16 Copynumber: 8.9 Consensus size: 15
76150 ATAAAAAGAT
*
76160 AAAAATAAAGAATA-
1 AAAAATAAAAAATAG
*
76174 AAAAA-AGAAAA-AG
1 AAAAATAAAAAATAG
*
76187 AAAAAATATAAAAATAT
1 -AAAAATA-AAAAATAG
*
76204 AAAAATAAATAAATTGG
1 AAAAATAAA-AAA-TAG
76221 AAAAATAAAAAAATAG
1 AAAAAT-AAAAAATAG
* * **
76237 TTATAATAAAAAAGGG
1 -AAAAATAAAAAATAG
*
76253 AAATAA-ATAAAATAAG
1 AAA-AATAAAAAAT-AG
*
76269 AAAACTAAAAAATAAGG
1 AAAAATAAAAAAT-A-G
*
76286 AAATATAAAAAATA
1 AAAAATAAAAAATA
76300 AAATAAGAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
12 1 0.01
13 4 0.04
14 10 0.11
15 10 0.11
16 38 0.41
17 27 0.29
18 3 0.03
ACGTcount: A:0.74, C:0.01, G:0.09, T:0.17
Consensus pattern (15 bp):
AAAAATAAAAAATAG
Found at i:76178 original size:23 final size:22
Alignment explanation
Indices: 76152--76212 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
76142 TAAGGGAGAT
76152 AAAAAGATAAAAATAAAGAATAA
1 AAAAAGATAAAAATAAA-AATAA
*
76175 AAAAAGA-AAAAGA-AAAAATAT
1 AAAAAGATAAAA-ATAAAAATAA
*
76196 AAAAATATAAAAATAAA
1 AAAAAGATAAAAATAAA
76213 TAAATTGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 11 0.33
22 14 0.42
23 8 0.24
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (22 bp):
AAAAAGATAAAAATAAAAATAA
Found at i:76202 original size:29 final size:29
Alignment explanation
Indices: 76152--76208 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
76142 TAAGGGAGAT
*
76152 AAAAAGATAAAAATAAAGAATAAAAAAAG
1 AAAAAGATAAAAATAAAAAATAAAAAAAG
*
76181 AAAAAGA-AAAAATATAAAAATATAAAAA
1 AAAAAGATAAAAATA-AAAAATAAAAAAA
76209 TAAATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (29 bp):
AAAAAGATAAAAATAAAAAATAAAAAAAG
Found at i:76209 original size:8 final size:8
Alignment explanation
Indices: 76150--76210 Score: 58
Period size: 8 Copynumber: 8.1 Consensus size: 8
76140 TATAAGGGAG
*
76150 ATAAAAAG
1 ATAAAAAT
76158 ATAAAAAT
1 ATAAAAAT
*
76166 A-AAGAAT
1 ATAAAAAT
76173 A-AAAAA-
1 ATAAAAAT
* *
76179 AGAAAAAG
1 ATAAAAAT
76187 A-AAAAAT
1 ATAAAAAT
76194 ATAAAAAT
1 ATAAAAAT
76202 ATAAAAAT
1 ATAAAAAT
76210 A
1 A
76211 AATAAATTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
6 1 0.02
7 21 0.46
8 24 0.52
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.15
Consensus pattern (8 bp):
ATAAAAAT
Found at i:76294 original size:17 final size:18
Alignment explanation
Indices: 76238--76300 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 18
76228 AAAAAATAGT
76238 TATAATAAAA-AAGGGAAA
1 TATAATAAAATAA-GGAAA
76256 TA-AATAAAATAA-GAAA
1 TATAATAAAATAAGGAAA
76272 -ACTAA-AAAATAAGGAAA
1 TA-TAATAAAATAAGGAAA
76289 TATAA-AAAATAA
1 TATAATAAAATAA
76301 AATAAGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
15 1 0.03
16 11 0.28
17 23 0.57
18 5 0.12
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (18 bp):
TATAATAAAATAAGGAAA
Found at i:76325 original size:2 final size:2
Alignment explanation
Indices: 76318--76356 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
76308 AATATAATTA
76318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
76357 GTAGAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78557 original size:84 final size:84
Alignment explanation
Indices: 78425--78821 Score: 494
Period size: 84 Copynumber: 4.7 Consensus size: 84
78415 CTGAATGGAA
* * * * * * * *
78425 TCGAACTCGATGGT-TTTTATTGGTAGATAACCCTTCTTGCCTTAAGCTAAGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTAAGTTGCAAATGATGT
* *
78489 GCCTTTGAGCTGAGTGTAA
66 GCCTTTGAGCTGAGCGTAG
* * * * * * * *
78508 TCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGCCTTAAGCTATGTTGCAAATTATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTAAGTTGCAAATGATGT
* *
78573 GCCTTTAATCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* *
78592 TCGAACTCGAAGGTCTTTTGTTTGCAAATAGCCCTTCTTGTCTTGAGCTATA-TTGCAAATGATG
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTA-AGTTGCAAATGATG
*
78656 TGCCTTGGAGCTGAGCGTAG
65 TGCCTTTGAGCTGAGCGTAG
* * * *
78676 TCGAACTCGAAGGTTTTTTGTTGGCAAATAGCCCTTCTTACCTTGAGCTATGTTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTAAGTTGCAAATGATGT
*
78741 GCCTTAGAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
*
78760 TCGAACTCGAAGGTCTTTTTTTGGCAAATAGCCCTTCTTGCCTTGAGCTATA-TTGCAAATGA
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTA-AGTTGCAAATGA
78822 ACACAATATA
Statistics
Matches: 272, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
83 13 0.05
84 259 0.95
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTAAGTTGCAAATGATGT
GCCTTTGAGCTGAGCGTAG
Found at i:79085 original size:124 final size:124
Alignment explanation
Indices: 78865--79135 Score: 407
Period size: 124 Copynumber: 2.2 Consensus size: 124
78855 GGAGGGCCCA
* * * * *
78865 TTCGTTGTGAAGTTGAAAACTAATCTGAAGATGAATGTTGCTGGTGGGCACGATTCTCTTCGTCG
1 TTCGTCGTGAAGTTGAAATCCAATCTGAAGATGAATGTTGATGGTGGGCACGATTCCCTTCGTCG
* * * * * *
78930 TGAAGTTGCAATTGTGGAGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTATATATTC
66 TGAAGTTGAAACTGTGGAGGGACCCTTCGTTGTGAAGTTGAGCCTGGAATTAGATATCC
*
78989 TTCGTCGTGAAGTTGAAATCCAATCTGAAGATGAATGTTGATGGTGGGTACGATTCCCTTCGTCG
1 TTCGTCGTGAAGTTGAAATCCAATCTGAAGATGAATGTTGATGGTGGGCACGATTCCCTTCGTCG
* *
79054 TGAAGTTGAAACTGTGGATGGACCCTTCGTTGTGAAGTTGAGCCTGGAATTGGATATCC
66 TGAAGTTGAAACTGTGGAGGGACCCTTCGTTGTGAAGTTGAGCCTGGAATTAGATATCC
*
79113 TTTGTCGTGAAGTTGAAATCCAA
1 TTCGTCGTGAAGTTGAAATCCAA
79136 ATATTTCGAG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
124 132 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (124 bp):
TTCGTCGTGAAGTTGAAATCCAATCTGAAGATGAATGTTGATGGTGGGCACGATTCCCTTCGTCG
TGAAGTTGAAACTGTGGAGGGACCCTTCGTTGTGAAGTTGAGCCTGGAATTAGATATCC
Found at i:79338 original size:43 final size:43
Alignment explanation
Indices: 79291--79392 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 43
79281 TTCGTTGTGA
* *
79291 AGTTGAAATCGTGGATTTGTGGGCACAATATCCTCCGTCGTGG
1 AGTTGAAATCGTGGATTTATGGGCACAATATCCTCCATCGTGG
* *
79334 AGTTGAAATCGTGGATTTATGGGTACGATATCCTCCATCGTGG
1 AGTTGAAATCGTGGATTTATGGGCACAATATCCTCCATCGTGG
*
79377 AGTTAAAATCGTGGAT
1 AGTTGAAATCGTGGAT
79393 GGCCCATTCG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
AGTTGAAATCGTGGATTTATGGGCACAATATCCTCCATCGTGG
Found at i:79507 original size:55 final size:58
Alignment explanation
Indices: 79439--79565 Score: 170
Period size: 59 Copynumber: 2.2 Consensus size: 58
79429 ATACTCCATC
* * * **
79439 GTGAAGTTGAAATCCAATCTTGAG-AAA-AT-TGGTTTTGAGTTGGATATCCTTCGTT
1 GTGAAGTTGAAATCCAATCTCGAGTAAATATATCGCTTTGAGTTCAATATCCTTCGTT
*
79494 GTGAAGTTGAAATCCAATCTCGAGTAAATTATATCGCTTTGAGTTCAATATCTTTCGTT
1 GTGAAGTTGAAATCCAATCTCGAGTAAA-TATATCGCTTTGAGTTCAATATCCTTCGTT
79553 GTGAAGTTGAAAT
1 GTGAAGTTGAAAT
79566 TGACTCTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
55 23 0.37
56 3 0.05
58 2 0.03
59 34 0.55
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (58 bp):
GTGAAGTTGAAATCCAATCTCGAGTAAATATATCGCTTTGAGTTCAATATCCTTCGTT
Found at i:80723 original size:95 final size:95
Alignment explanation
Indices: 80508--80770 Score: 375
Period size: 95 Copynumber: 2.7 Consensus size: 95
80498 GGCTAGTTTA
* * *
80508 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTTAATATCATTGTATAG-AT
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAAC-TCA-AGC-TT-TATTGTAT
*
80572 ATTATAATCACCTTTATCAAGCTAGCTGAATATT
62 ATTATAATCACCTTTATCAAGCTAGCTAAATATT
* * *
80606 ATCCATAAAGTCAGGGCATTTAATCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
* *
80671 TAATCACCTTTATCAGGCTAGCTAAATCTT
66 TAATCACCTTTATCAAGCTAGCTAAATATT
* *
80701 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-T
80766 ATAAT
65 ATAAT
80771 ATTATAATCT
Statistics
Matches: 149, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
94 4 0.03
95 93 0.62
96 8 0.05
97 2 0.01
98 42 0.28
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACCTTTATCAAGCTAGCTAAATATT
Found at i:83505 original size:13 final size:12
Alignment explanation
Indices: 83487--83553 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 12
83477 AAAACGAATG
83487 AAATAAAGAAAAT
1 AAATAAA-AAAAT
*
83500 AAATAATAAAAAA
1 AAATAA-AAAAAT
83513 AACATAAAAAAAT
1 AA-ATAAAAAAAT
83526 AAAGT-AAAAAAT
1 AAA-TAAAAAAAT
*
83538 GAATAAAACAAAT
1 AAATAAAA-AAAT
83551 AAA
1 AAA
83554 AAATAAGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.02
12 13 0.29
13 26 0.58
14 5 0.11
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (12 bp):
AAATAAAAAAAT
Found at i:83533 original size:24 final size:25
Alignment explanation
Indices: 83487--83553 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
83477 AAAACGAATG
* *
83487 AAATAAAGAAAATAAAT-AA-TAAA
1 AAATAAATAAAACAAATAAAGTAAA
83510 AAA-AACATAAAA-AAATAAAGTAAA
1 AAATAA-ATAAAACAAATAAAGTAAA
*
83534 AAATGAATAAAACAAATAAA
1 AAATAAATAAAACAAATAAA
83554 AAATAAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 6 0.16
23 10 0.27
24 13 0.35
25 8 0.22
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (25 bp):
AAATAAATAAAACAAATAAAGTAAA
Found at i:83545 original size:22 final size:20
Alignment explanation
Indices: 83487--83559 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 20
83477 AAAACGAATG
*
83487 AAATAAAGAA-AATAAATAAT
1 AAATAAAAAATAATAAA-AAT
83507 AAA-AAAAACATAA-AAAAAT
1 AAATAAAAA-ATAATAAAAAT
*
83526 AAAGTAAAAAATGAAT-AAAAC
1 AAA-TAAAAAAT-AATAAAAAT
83547 AAATAAAAAATAA
1 AAATAAAAAATAA
83560 GAAAGGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
19 12 0.27
20 17 0.38
21 16 0.36
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (20 bp):
AAATAAAAAATAATAAAAAT
Found at i:83680 original size:21 final size:20
Alignment explanation
Indices: 83655--83701 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
83645 TATAAGGGAG
* * *
83655 ATAAAAAGATAAAAATGAAGA
1 ATAAAAAAAGAAAAA-GAAAA
83676 ATAAAAAAAGAAAAAGAAAA
1 ATAAAAAAAGAAAAAGAAAA
83696 ATAAAA
1 ATAAAA
83702 GAAAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (20 bp):
ATAAAAAAAGAAAAAGAAAA
Found at i:83707 original size:11 final size:10
Alignment explanation
Indices: 83675--83739 Score: 60
Period size: 10 Copynumber: 6.1 Consensus size: 10
83665 AAAAATGAAG
83675 AATAAAAAAA
1 AATAAAAAAA
*
83685 GAA-AAAGAAA
1 -AATAAAAAAA
83695 AATAAAAGAAA
1 AATAAAA-AAA
83706 AATAAATAAATAA
1 AAT-AA-AAA-AA
*
83719 AATAGAAAAA
1 AATAAAAAAA
83729 AATAAAAAAA
1 AATAAAAAAA
83739 A
1 A
83740 TAGTTATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
9 2 0.04
10 21 0.47
11 11 0.24
12 4 0.09
13 7 0.16
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:83716 original size:19 final size:17
Alignment explanation
Indices: 83675--83738 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
83665 AAAAATGAAG
83675 AATAAAAAAAGAAAAAGA
1 AATAAAAAAAGAAAAA-A
*
83693 AA-AATAAAAGAAAAATA
1 AATAAAAAAAGAAAAA-A
*
83710 AATAAATAAAATAGAAAAA
1 AATAAA-AAAAGA-AAAAA
83729 AATAAAAAAA
1 AATAAAAAAA
83739 ATAGTTATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 15 0.38
18 8 0.21
19 12 0.31
20 4 0.10
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (17 bp):
AATAAAAAAAGAAAAAA
Found at i:83742 original size:19 final size:18
Alignment explanation
Indices: 83678--83739 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
83668 AATGAAGAAT
*
83678 AAAAAAAGAAAAAGA-AA
1 AAAAAAAGAAAAAAATAA
*
83695 AATAAAAGAAAAATAAATAA
1 AAAAAAAG-AAAA-AAATAA
*
83715 ATAAAATAGAAAAAAATAA
1 A-AAAAAAGAAAAAAATAA
83734 AAAAAA
1 AAAAAA
83740 TAGTTATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
17 7 0.19
18 8 0.22
19 9 0.25
20 7 0.19
21 5 0.14
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (18 bp):
AAAAAAAGAAAAAAATAA
Found at i:83882 original size:12 final size:12
Alignment explanation
Indices: 83867--83896 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
83857 TAATAATTAT
*
83867 AATAAAAAGGGA
1 AATAAAAAAGGA
83879 AATAAAAAAGGA
1 AATAAAAAAGGA
83891 AATAAA
1 AATAAA
83897 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (12 bp):
AATAAAAAAGGA
Found at i:84815 original size:13 final size:13
Alignment explanation
Indices: 84797--84821 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84787 CTAGTTTATC
84797 GGTTCGGGTTGCG
1 GGTTCGGGTTGCG
84810 GGTTCGGGTTGC
1 GGTTCGGGTTGC
84822 AGACGGGTCC
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:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (13 bp):
GGTTCGGGTTGCG
Found at i:89044 original size:13 final size:14
Alignment explanation
Indices: 89028--89059 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
89018 CAAAAAATGT
89028 ATAATAT-AATTAA
1 ATAATATAAATTAA
89041 ATAATATAAATTAA
1 ATAATATAAATTAA
89055 ATAAT
1 ATAAT
89060 CTAGTTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATATAAATTAA
Found at i:90090 original size:75 final size:75
Alignment explanation
Indices: 89941--90148 Score: 265
Period size: 75 Copynumber: 2.8 Consensus size: 75
89931 CAAAGCCAAA
* * * * **
89941 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
90006 TTGGCTCCGAG
65 TTGGCTCCGAG
* *
90017 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
* *
90082 TTGTTCCGAG
66 TGGCTCCGAG
* * * *
90092 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCCT
90149 GTTCAACGGT
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
75 85 0.73
76 31 0.27
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:98230 original size:3 final size:3
Alignment explanation
Indices: 98222--98283 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
98212 AAATTGTTAA
* *
98222 AAT AAT AAT AAT AGT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
98270 AAT AA- AAGT AAT AA
1 AAT AAT AA-T AAT AA
98284 AAAGTAGAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 49 0.92
4 2 0.04
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:98904 original size:137 final size:138
Alignment explanation
Indices: 98546--98950 Score: 589
Period size: 137 Copynumber: 2.9 Consensus size: 138
98536 ATTTGGAGGC
* * *
98546 AACACGGTTCTTACGTGATGAGGAAATCTGGTTATCTAAGTGTGACACTACTCCTACGTGATGAG
1 AACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACGCTACTCCTACGTGATGAG
* *
98611 GAGATCTGATCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTAGCCATCTTTAGGGATAA
66 GAGATCTGATCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATAA
*
98676 GTGGAGTT
131 GTGGAGAT
* * * *
98684 AACACAGTTCCTACGTGATGAGGAATTCTGGTTATCTAAGGATGATGC-AGCTCCTACGTGATGA
1 AACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACGCTA-CTCCTACGTGATGA
* * * * * *
98748 GGAGATCTGGTCAGAGGATGACACGGTTCCTATGTGATGAGGATGTCTGGCCATCTTTAAGGATA
65 GGAGATCTGATCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATA
98813 A-TGGAGAT
130 AGTGGAGAT
* * *
98821 AACACGGTTCCTACGTGATGAGGAAGTCTGGCTATCTAAGGGTGACGCTACTCCTACGTGATGTG
1 AACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACGCTACTCCTACGTGATGAG
* * *
98886 GAGATATGATCGGTGGATGACACGGTTCCTACATGATGAGGACATCTGGCCATCTTTAGGGATAA
66 GAGATCTGATCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATAA
98951 CTTGTTTCAA
Statistics
Matches: 234, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
137 120 0.51
138 114 0.49
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (138 bp):
AACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACGCTACTCCTACGTGATGAG
GAGATCTGATCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATAA
GTGGAGAT
Found at i:99057 original size:65 final size:65
Alignment explanation
Indices: 98953--99078 Score: 164
Period size: 65 Copynumber: 1.9 Consensus size: 65
98943 AGGGATAACT
* * *
98953 TGTTTCAAGAGAAACAGTCTCAAGCGAGATAAAATTTGTTTCAAGG-GAAACAATCTCAAAGATG
1 TGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAACTTGTTT-AAGGAGAAACAATCTCAAAGATG
99017 A
65 A
* ** **
99018 TGTTTTAAGAGAAATTGTCTCAAGAGAGACAAAACTTGTTTAAGGAGAAATGATCTCAAAG
1 TGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAACTTGTTTAAGGAGAAACAATCTCAAAG
99079 GTTTATCAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 4 0.08
65 48 0.92
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (65 bp):
TGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAACTTGTTTAAGGAGAAACAATCTCAAAGATGA
Found at i:99406 original size:36 final size:37
Alignment explanation
Indices: 99366--99441 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
99356 GTTTCAAAAG
99366 AAAA-TGTCTCAAGCGAGACAAAATTTGTTTCTAAGA
1 AAAATTGTCTCAAGCGAGACAAAATTTGTTTCTAAGA
* *
99402 AAAATTGTCTCAAGCGAGACAAGATTTGTTTTTAAGA
1 AAAATTGTCTCAAGCGAGACAAAATTTGTTTCTAAGA
99439 AAA
1 AAA
99442 CAATCTCAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (37 bp):
AAAATTGTCTCAAGCGAGACAAAATTTGTTTCTAAGA
Found at i:99430 original size:21 final size:20
Alignment explanation
Indices: 99370--99430 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 20
99360 CAAAAGAAAA
99370 TGTCTCAAGCGAGACAAAATT
1 TGTCTCAAGCGAGAC-AAATT
*
99391 TGTTTCTAA--GA-A-AAA-T
1 TGTCTC-AAGCGAGACAAATT
99407 TGTCTCAAGCGAGACAAGATT
1 TGTCTCAAGCGAGACAA-ATT
99428 TGT
1 TGT
99431 TTTTAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
15 2 0.06
16 6 0.19
17 5 0.16
18 1 0.03
19 3 0.10
20 3 0.10
21 9 0.29
22 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
TGTCTCAAGCGAGACAAATT
Found at i:106096 original size:2 final size:2
Alignment explanation
Indices: 106089--106149 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
106079 ATCCAAATGG
106089 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
106131 GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA G
106150 GAAAACTCTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:108805 original size:59 final size:59
Alignment explanation
Indices: 108708--108824 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 59
108698 AGTGTTGGTT
* * * * *
108708 AGAGTCATATTATCGAGTTTATCTTTTCATTGCGACTAGGAATGTTCGATAGGACACTC
1 AGAGCCATATTAGCGAGTTTAGCTTTTCATTGCAACTAGGAAGGTTCGATAGGACACTC
*
108767 AGAGCCATATTAGCGAGTTT-GCATTTTCATTGCAACTAGGAGGGTTCGATAGGACACT
1 AGAGCCATATTAGCGAGTTTAGC-TTTTCATTGCAACTAGGAAGGTTCGATAGGACACT
108825 TATCCATCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 1 0.02
59 50 0.98
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (59 bp):
AGAGCCATATTAGCGAGTTTAGCTTTTCATTGCAACTAGGAAGGTTCGATAGGACACTC
Found at i:110502 original size:24 final size:24
Alignment explanation
Indices: 110457--110502 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
110447 ACAATAGAAA
*
110457 ATTAATAATTTTTTCAACATTTTC
1 ATTAATAATTTTTTCAAAATTTTC
*
110481 ATTAA-AATTGTTTTGAAAATTT
1 ATTAATAATT-TTTTCAAAATTT
110503 AGAAAATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (24 bp):
ATTAATAATTTTTTCAAAATTTTC
Found at i:110762 original size:18 final size:20
Alignment explanation
Indices: 110739--110776 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
110729 GTATATATTG
110739 TATATT-TTA-ATTTAAATA
1 TATATTATTATATTTAAATA
*
110757 TATATTATTATTTTTAAATA
1 TATATTATTATATTTAAATA
110777 AATAAGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATTATTATATTTAAATA
Found at i:110909 original size:21 final size:21
Alignment explanation
Indices: 110872--110920 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
110862 TATATCGTGT
* *
110872 ACTGTCACAATAGTATTGTAA
1 ACTGTCACAATAATATTATAA
110893 ACTGTCAC-ATGAATATTATAA
1 ACTGTCACAAT-AATATTATAA
*
110914 ATTGTCA
1 ACTGTCA
110921 TGTAAGTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (21 bp):
ACTGTCACAATAATATTATAA
Found at i:112614 original size:19 final size:19
Alignment explanation
Indices: 112589--112641 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
112579 GGTGATCGGT
*
112589 GGTGAAGAGACGTTCGGCA
1 GGTGAAGAGGCGTTCGGCA
* *
112608 TGTGAAGAGGCGTTTGGCA
1 GGTGAAGAGGCGTTCGGCA
112627 GGTGAAGAGGCGTTC
1 GGTGAAGAGGCGTTC
112642 CCTATTGCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.23, C:0.13, G:0.43, T:0.21
Consensus pattern (19 bp):
GGTGAAGAGGCGTTCGGCA
Found at i:113542 original size:125 final size:126
Alignment explanation
Indices: 113315--113703 Score: 501
Period size: 126 Copynumber: 3.1 Consensus size: 126
113305 AAGAGTTCTA
* ** * * * * * * * * * *
113315 GCCATCTAAGGGTAATAACATAGTTCCTATGTGACGGGGACGACTGATTATCTGGGGTAACACGA
1 GCCATCTAAGGGTGATAACACGGTTCATACGTGATGAGGACGGCTGGTTATCTGAGTTGACACAA
* * * * * *
113380 CTCCTACGTGATGAGGATATCTAGTCAGGTGATGACACTTCTCATCTGTTCATGAGTCTTG
66 CTCCTACATAATGAGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTG
* * *
113441 GCCATCTAAGGGTGATAACACGGTTCATACGTGATGAGGACGGCT-GTTTTTTGAGTTGACACAG
1 GCCATCTAAGGGTGATAACACGGTTCATACGTGATGAGGACGGCTGGTTATCTGAGTTGACACAA
* *
113505 CTCCTACATAATGAGGAGATCTGGTCACGTGATGACACTGGTCATCTGTTCATGAGTCTTG
66 CTCCTACATAATGAGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTG
* *
113566 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGTTGGTTATCTGAGTTGACACAA
1 GCCATCTAAGGGTGATAACACGGTTCATACGTGATGAGGACGGCTGGTTATCTGAGTTGACACAA
* * * *
113631 CTCTTATATAATGAGGAGATTTGGTCAAGTGATGAAACTGCTCATCTGTTCATGAGTCTTG
66 CTCCTACATAATGAGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTG
113692 GCCATCTAAGGG
1 GCCATCTAAGGG
113704 ATTTTGATTT
Statistics
Matches: 228, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
125 108 0.47
126 120 0.53
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (126 bp):
GCCATCTAAGGGTGATAACACGGTTCATACGTGATGAGGACGGCTGGTTATCTGAGTTGACACAA
CTCCTACATAATGAGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTG
Found at i:114010 original size:32 final size:32
Alignment explanation
Indices: 113963--114051 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
113953 TCGCATCAGA
* * *
113963 ATGTTAAATCCCCAAAGATTCCCCAACATTTG
1 ATGTTGAATCTCCAAAGATGCCCCAACATTTG
* * *
113995 ATTTTGAATCTCCAAAGGTGCCTCAACATTTG
1 ATGTTGAATCTCCAAAGATGCCCCAACATTTG
* *
114027 ATGTTGAATATTCAAAGATGCCCCA
1 ATGTTGAATCTCCAAAGATGCCCCA
114052 TTGTTCCTCA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (32 bp):
ATGTTGAATCTCCAAAGATGCCCCAACATTTG
Found at i:114239 original size:24 final size:25
Alignment explanation
Indices: 114193--114244 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
114183 TCAAAATCTG
*
114193 AAAATGTTAATTAGAAGAGTTTTGA
1 AAAATGTTAATCAGAAGAGTTTTGA
114218 AAAATGTTTAATCA-AAGA-TTTTGA
1 AAAATG-TTAATCAGAAGAGTTTTGA
114242 AAA
1 AAA
114245 TATTGCCCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 10 0.40
26 6 0.24
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (25 bp):
AAAATGTTAATCAGAAGAGTTTTGA
Found at i:117363 original size:12 final size:12
Alignment explanation
Indices: 117346--117370 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
117336 TAGAATGCGA
117346 AGATGCAAATGC
1 AGATGCAAATGC
117358 AGATGCAAATGC
1 AGATGCAAATGC
117370 A
1 A
117371 AAAATGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (12 bp):
AGATGCAAATGC
Found at i:118963 original size:64 final size:64
Alignment explanation
Indices: 118895--119074 Score: 170
Period size: 65 Copynumber: 2.8 Consensus size: 64
118885 TTCGGCTCTT
* * *
118895 AGTGCATCGGTGCACTAAG-AGTGCATCGATGCAT-GAAGTGCATTCGATG-TTTCA-AAATAGC
1 AGTGCATCGATGCA-T-AGCAGTGCATCGATGCATCCAA-TGCATTCGATGTTTTCATAAA-ACC
118956 CTG
62 CTG
* * *
118959 AGTGCATCGATGCATGGCTTGTGCTTCGATGCATCCAATGCATTCGATGTTTTCATAAAACCCTG
1 AGTGCATCGATGCATAGC-AGTGCATCGATGCATCCAATGCATTCGATGTTTTCATAAAACCCTG
* * * ** *
119024 AGTGCATCGATGCATGGTATATGCATCGATGCATAAAATGTATTCGATGTT
1 AGTGCATCGATGCATAGCA-GTGCATCGATGCATCCAATGCATTCGATGTT
119075 CAATTTATTC
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 37 0.38
65 55 0.57
66 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (64 bp):
AGTGCATCGATGCATAGCAGTGCATCGATGCATCCAATGCATTCGATGTTTTCATAAAACCCTG
Found at i:119037 original size:65 final size:64
Alignment explanation
Indices: 118915--119074 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 64
118905 TGCACTAAGA
* *
118915 GTGCATCGATGCATGAAGTGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCT-
1 GTGCATCGATGCAT-AAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGG-TA
118978 T
64 T
* *
118979 GTGCTTCGATGCATCCAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCAT-AAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATGGTA
119043 T
64 T
* *
119044 ATGCATCGATGCATAAAATGTATTCGATGTT
1 GTGCATCGATGCAT-AAATGCATTCGATGTT
119075 CAATTTATTC
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 26 0.31
65 54 0.65
66 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGTAT
Found at i:122093 original size:3 final size:3
Alignment explanation
Indices: 122065--122114 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
122055 ACAAACATAT
* * *
122065 ATA ATA A-A ATTA ATG ATA ACA ATA ATA ATA ATA ATA ATA AT- TTA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
122109 ATA ATA
1 ATA ATA
122115 TTTTTTTGAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 3 0.08
3 33 0.87
4 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:130581 original size:135 final size:134
Alignment explanation
Indices: 130382--130637 Score: 334
Period size: 135 Copynumber: 1.9 Consensus size: 134
130372 TCTACTATAC
* * * *** *
130382 TACTCTTTAAGGGAGATCATACTCGTAAATTTTGATCCACTTTGTTGCTCTTCATGGAAAATTGA
1 TACTCTTTAAGGGAGATCAGACTAGGAAATTTTGATCCACTTCACTGCTCTTCAGGGAAAATTGA
* * * * * *
130447 ATCGAACTTGATTTGCTTCGCTGCTCTTCAGAAATACCAAGTTTGAAAGA-AAGAAGAATCTGCT
66 ATAGAACTTGATTTGCTTCACTGCTCTTAAGAAAGACCAAATCTGAAAGAGAAGAAGAATCTGCT
130511 CAAA
131 CAAA
* *
130515 TACTCTTTATGGGAGATCAGACTTGAGGAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATT
1 TACTCTTTAAGGGAGATCAGAC-T-AGGAAATTTTGATCCACTTCACTGCTCTTCAGGGAAAATT
* *
130580 GAATAGAATTTGATTTGCTTCACTGCTCTTAAGGAAGACCAAATCTGAAAGAGAAGAA
64 GAATAGAACTTGATTTGCTTCACTGCTCTTAAGAAAGACCAAATCTGAAAGAGAAGAA
130638 ATCTATTCCA
Statistics
Matches: 103, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
133 20 0.19
134 1 0.01
135 77 0.75
136 5 0.05
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (134 bp):
TACTCTTTAAGGGAGATCAGACTAGGAAATTTTGATCCACTTCACTGCTCTTCAGGGAAAATTGA
ATAGAACTTGATTTGCTTCACTGCTCTTAAGAAAGACCAAATCTGAAAGAGAAGAAGAATCTGCT
CAAA
Found at i:131603 original size:42 final size:42
Alignment explanation
Indices: 131527--132228 Score: 608
Period size: 42 Copynumber: 16.9 Consensus size: 42
131517 ATGACAATAC
* * * ** *
131527 TGAACGATTAACTTCTCTTCATGAGAAAGTCAATAATAACAT
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
* * *
131569 TGAAAGATTGACTCCTCTTCACGAGGGAGACAATAATAAC--
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
*
131609 --AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAT
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
* ** *
131649 TACTAAACGATTGACTTCTCTTCACGAGAAAGTCAAGAATGACAT
1 T--GAAA-GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
* *
131694 TGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAACAAC--
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
* * *
131734 --AAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGA-AT
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
* * * *
131773 TGAAAGATTTACTTCTTTTCATGAGGGAGTTAAGAA-AGACAAT
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATA-AC-AT
* ** * *
131816 ACTGAAATG-TTAACTTCTCTTCACGAGAAAGTCAAGAATAATTAC
1 --TGAAA-GATTGACTTCTCTTCACGAGGGAGTCAAGAATAA-CAT
* * * ** *
131861 T-AAATGATTGATTTCTCTACATGAGAAAAGTCAAGAATGACAT
1 TGAAA-GATTGACTTCTCTTCACGAG-GGAGTCAAGAATAACAT
* * *
131904 TGAAAGATTGAC-TCATCTCCATGAGGGAGTCAAGAACAAC--
1 TGAAAGATTGACTTC-TCTTCACGAGGGAGTCAAGAATAACAT
* * *
131944 --AAATATTGACTTCTCTTCACGAGGAAGTCAATAATAACAT
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
* * *
131984 TGAAATATTGACTTCTCTTCATGAGAGAGTCAAGAATAACAT
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
* *
132026 TAAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAACAT
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
*
132068 TGAAAGATTGACTTCTGTTCACGAGGGAGTCAAGAATAACAT
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
* * * * *
132110 TAAAAGATTAACTCCTCTTCACGAGGGAGTCAAGAAAGATAATAC
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAG--A-ATAACAT
132155 TGAAAGATTGACTTCTCTTCACGA--GA---AAGAATAACAT
1 TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
* *
132192 CG--A-ATTGAACTCCTCTTCACGAGGGAGTCAAGAATAA
1 TGAAAGATTG-ACTTCTCTTCACGAGGGAGTCAAGAATAA
132229 GAAAATGATT
Statistics
Matches: 540, Mismatches: 83, Indels: 76
0.77 0.12 0.11
Matches are distributed among these distances:
34 4 0.01
35 14 0.03
37 8 0.01
38 96 0.18
39 2 0.00
40 11 0.02
41 29 0.05
42 223 0.41
43 39 0.07
44 20 0.04
45 92 0.17
46 2 0.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (42 bp):
TGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAT
Found at i:131678 original size:125 final size:124
Alignment explanation
Indices: 131532--132228 Score: 585
Period size: 125 Copynumber: 5.6 Consensus size: 124
131522 AATACTGAAC
* * *
131532 GATTAACTTCTCTTCATGAGAAAGTCAATAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
1 GATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
* *
131597 GACAATAATAAC-AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTACTAAA
66 GTCAAGAATAACTAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTA-TAAA
*
131656 CGATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGG
1 -GATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGG
* * * *
131721 AGTCAAGAACAAC-AAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGA-ATT-GAAA
65 AGTCAAGAATAACTAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTATAAA
* * * ** * * *
131778 GATTTACTTCTTTTCATGAGGGAGTTAAGAA-AGACAATACTGAAATG-TTAACTTCTCTTCACG
1 GATTGACTTCTCTTCACGAGAAAGTCAAGAATA-AC-AT--TGAAA-GATTGACTCCTCTTCACG
** * * * * *
131841 AGAAAGTCAAGAATAATTACTAAATGATTGATTTCTCTACATGAGAAAAGTCAAGAATGACATT-
61 AGGGAGTCAAGAAT-A--ACTAAA-GATTGACTTCTCTTCACGAG-GAAGTCAAGAATAACATTA
*
131905 GAAA
121 TAAA
* * ** * * * *
131909 GATTGAC-TCATCTCCATGAGGGAGTCAAGAACAAC----AAATATTGACTTCTCTTCACGAGGA
1 GATTGACTTC-TCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGG
* * *
131969 AGTCAATAATAACATTGAAATATTGACTTCTCTTCATGA-GAGAGTCAAGAATAACATTA-AAA
65 AGTCAAGAATAAC--T-AAAGATTGACTTCTCTTCACGAGGA-AGTCAAGAATAACATTATAAA
* ** * *
132031 GATTGACTCCTCTTCACGAGGGAGTCAAGAATAACATTGAAAGATTGACTTCTGTTCACGAGGGA
1 GATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
* * * * *
132096 GTCAAGAATAACATTAAAAGATTAACTCCTCTTCACGAGGGAGTCAAGAA-AGATAATACTGAAA
66 GTCAAGAATAAC--T-AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATA-ACATTA-T-AAA
*
132160 GATTGACTTCTCTTCACGAG--A---AAGAATAACATCG--A-ATTGAACTCCTCTTCACGAGGG
1 GATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTG-ACTCCTCTTCACGAGGG
132217 AGTCAAGAATAA
65 AGTCAAGAATAA
132229 GAAAATGATT
Statistics
Matches: 481, Mismatches: 60, Indels: 65
0.79 0.10 0.11
Matches are distributed among these distances:
121 34 0.07
122 80 0.17
123 19 0.04
124 78 0.16
125 108 0.22
126 68 0.14
127 4 0.01
128 3 0.01
129 39 0.08
130 14 0.03
131 33 0.07
132 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (124 bp):
GATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
GTCAAGAATAACTAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTATAAA
Found at i:131850 original size:166 final size:164
Alignment explanation
Indices: 131571--132248 Score: 619
Period size: 166 Copynumber: 4.1 Consensus size: 164
131561 AATAACATTG
* * *
131571 AAAGATTGACTCCTCTTCACGAGGGAGACAATAATAACAAAGATTGACTTCTCTTCACGAGGAAG
1 AAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
* * *
131636 TCAAGAATAACATTACT-AAACGATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAG
66 TCAAGAATAACAATACTGAAATGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAG
131700 ATTGACTCCTCTTCACGAGGGAGTCAAGAACAAC
131 ATTGACTCCTCTTCACGAGGGAGTCAAGAACAAC
* * * * * *
131734 AAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGAATTGAAAGATTTACTTCTTTTCATGAGG
1 AAAGATTGACTTCTCTTCACGAGGGAGTCAAGAAT-AA--CAAAGATTGACTTCTCTTCACGAGG
* * * * *
131799 GAGTTAAGAA-AGACAATACTGAAATG-TTAACTTCTCTTCACGAGAAAGTCAAGAATAATTACT
63 AAGTCAAGAATA-ACAATACTGAAATGATTGACTTCTCTTCACGAGAAAGTCAAGAATAA-CATT
* * * * ** **
131862 -AAATGATTGATTTCTCTACATGAGAAAAGTCAAGAATGACATTG
126 GAAA-GATTGACTCCTCTTCACGAG-GGAGTCAAG-A--ACA-AC
* * * *
131906 AAAGATTGAC-TCATCTCCATGAGGGAGTCAAGAACAACAAATATTGACTTCTCTTCACGAGGAA
1 AAAGATTGACTTC-TCTTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
* * * *
131970 GTCAATAATAAC-AT--TGAAAT-ATTGACTTCTCTTCATGAGAGAGTCAAGAATAACATTAAAA
65 GTCAAGAATAACAATACTGAAATGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAA
*
132031 GATTGACTCCTCTTCACGAGGGAGTCAAGAATAAC
130 GATTGACTCCTCTTCACGAGGGAGTCAAGAACAAC
* * *
132066 ATTGAAAGATTGACTTCTGTTCACGAGGGAGTCAAGAATAACATTAAAAGATTAACTCCTCTTCA
1 ----AAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAAC----AAAGATTGACTTCTCTTCA
* *
132131 CGAGGGAGTCAAGAA-AGATAATACTGAAA-GATTGACTTCTCTTCACGAG--A---AAGAATAA
58 CGAGGAAGTCAAGAATA-ACAATACTGAAATGATTGACTTCTCTTCACGAGAAAGTCAAGAATAA
* * *
132189 CATCG--A-ATTGAACTCCTCTTCACGAGGGAGTCAAGAATAAG
122 CATTGAAAGATTG-ACTCCTCTTCACGAGGGAGTCAAGAACAAC
132230 AAA-A-TGA-TT-TCTTCACGAG
1 AAAGATTGACTTCTCTTCACGAG
132249 ACAAGGAGTC
Statistics
Matches: 419, Mismatches: 65, Indels: 69
0.76 0.12 0.12
Matches are distributed among these distances:
156 9 0.02
157 2 0.00
158 3 0.01
159 1 0.00
160 3 0.01
161 2 0.00
163 37 0.09
164 70 0.17
165 21 0.05
166 118 0.28
167 23 0.05
168 39 0.09
169 33 0.08
170 1 0.00
171 30 0.07
172 27 0.06
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (164 bp):
AAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
TCAAGAATAACAATACTGAAATGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACATTGAAAG
ATTGACTCCTCTTCACGAGGGAGTCAAGAACAAC
Found at i:131914 original size:210 final size:206
Alignment explanation
Indices: 131532--132145 Score: 758
Period size: 210 Copynumber: 3.0 Consensus size: 206
131522 AATACTGAAC
* * * * * *
131532 GATTAACTTCTCTTCATGAGAAAGTCAATAATAACATTGAAAGATTGACTCCTCTTCACGAGGGA
1 GATTGACTTCTCTTCACGAGGAAGTCAATAATAACATTGAAAGATTGACTTCTCTTCATGAGAGA
* * *
131597 GACAATAATAAC----AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTACTAAACG
66 GTCAAGAATAACATTAAAAGATTAACTTCTCTTCACGAGGAAGTCAAGAAT-A-ATTACTAAA-G
131658 ATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGGAG
128 ATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGGAG
131723 TCAAGAACAACAAA
193 TCAAGAACAACAAA
* * * *
131737 GATTGACTTCTCTTCACGAGGAAGTCAATAATGA-ATTGAAAGATTTACTTCTTTTCATGAGGGA
1 GATTGACTTCTCTTCACGAGGAAGTCAATAATAACATTGAAAGATTGACTTCTCTTCATGAGAGA
* * *
131801 GTTAAGAA-AGACAATACTGAAATG-TTAACTTCTCTTCACGAGAAAGTCAAGAATAATTACTAA
66 GTCAAGAATA-AC-AT--T-AAAAGATTAACTTCTCTTCACGAGGAAGTCAAGAATAATTACTAA
* * * * * *
131864 ATGATTGATTTCTCTACATGAGAAAAGTCAAGAATGACATTGAAAGATTGACTCATCTCCATGAG
126 A-GATTGACTTCTCTTCACGAG-AAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAG
131929 GGAGTCAAGAACAACAAA
189 GGAGTCAAGAACAACAAA
* *
131947 TATTGACTTCTCTTCACGAGGAAGTCAATAATAACATTGAAATATTGACTTCTCTTCATGAGAGA
1 GATTGACTTCTCTTCACGAGGAAGTCAATAATAACATTGAAAGATTGACTTCTCTTCATGAGAGA
* * * * *
132012 GTCAAGAATAACATTAAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAA-CATTGAAAGAT
66 GTCAAGAATAACATTAAAAGATTAACTTCTCTTCACGAGGAAGTCAAGAATAATTACT-AAAGAT
* ** * * *
132076 TGACTTCTGTTCACGAGGGAGTCAAGAATAACATTAAAAGATTAACTCCTCTTCACGAGGGAGTC
130 TGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGGAGTC
132141 AAGAA
195 AAGAA
132146 AGATAATACT
Statistics
Matches: 348, Mismatches: 47, Indels: 27
0.82 0.11 0.06
Matches are distributed among these distances:
203 1 0.00
204 33 0.09
205 30 0.09
206 45 0.13
207 22 0.06
208 32 0.09
209 26 0.07
210 92 0.26
211 63 0.18
212 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (206 bp):
GATTGACTTCTCTTCACGAGGAAGTCAATAATAACATTGAAAGATTGACTTCTCTTCATGAGAGA
GTCAAGAATAACATTAAAAGATTAACTTCTCTTCACGAGGAAGTCAAGAATAATTACTAAAGATT
GACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGGAGTCA
AGAACAACAAA
Found at i:132098 original size:84 final size:83
Alignment explanation
Indices: 131554--132228 Score: 600
Period size: 80 Copynumber: 8.1 Consensus size: 83
131544 TTCATGAGAA
* * * *
131554 AGTCAATAATAACATTGAAAGATTGACTCCTCTTCACGAGGGAGACAATAATAAC---AAAGATT
1 AGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTAAAGATT
* *
131616 GACTTCTCTTCACGAGGA
66 GACTCCTCTTCACGAGGG
* ** *
131634 AGTCAAGAATAACATTACTAAACGATTGACTTCTCTTCACGAGAAAGTCAAGAATGACATTGAAA
1 AGTCAAGAATAACATT--GAAA-GATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATT-AAA
131699 GATTGACTCCTCTTCACGAGGG
62 GATTGACTCCTCTTCACGAGGG
* * * *
131721 AGTCAAGAACAAC----AAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGA-ATTGAAAGAT
1 AGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATT-AAAGAT
* * * *
131781 TTACTTCTTTTCATGAGGG
65 TGACTCCTCTTCACGAGGG
* * ** * *
131800 AGTTAAGAA-AGACAATACTGAAATG-TTAACTTCTCTTCACGAGAAAGTCAAGAATAATTACTA
1 AGTCAAGAATA-AC-AT--TGAAA-GATTGACTTCTCTTCACGAGGGAGTCAAGAATAA-CATTA
* * * * **
131863 AATGATTGATTTCTCTACATGAGAAA
60 AA-GATTGACTCCTCTTCACGAG-GG
* * * * *
131889 AGTCAAGAATGACATTGAAAGATTGAC-TCATCTCCATGAGGGAGTCAAGAACAAC---AAATAT
1 AGTCAAGAATAACATTGAAAGATTGACTTC-TCTTCACGAGGGAGTCAAGAATAACATTAAAGAT
* *
131950 TGACTTCTCTTCACGAGGA
65 TGACTCCTCTTCACGAGGG
* * * *
131969 AGTCAATAATAACATTGAAATATTGACTTCTCTTCATGAGAGAGTCAAGAATAACATTAAAAGAT
1 AGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATT-AAAGAT
132034 TGACTCCTCTTCACGAGGG
65 TGACTCCTCTTCACGAGGG
*
132053 AGTCAAGAATAACATTGAAAGATTGACTTCTGTTCACGAGGGAGTCAAGAATAACATTAAAAGAT
1 AGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATT-AAAGAT
*
132118 TAACTCCTCTTCACGAGGG
65 TGACTCCTCTTCACGAGGG
* * **
132137 AGTCAAGAAAGATAATACTGAAAGATTGACTTCTCTTCACGA--GA---AAGAATAACA-TCGA-
1 AGTCAAG--A-ATAACATTGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTAAAG
132195 ATTGAACTCCTCTTCACGAGGG
63 ATTG-ACTCCTCTTCACGAGGG
132217 AGTCAAGAATAA
1 AGTCAAGAATAA
132229 GAAAATGATT
Statistics
Matches: 499, Mismatches: 64, Indels: 67
0.79 0.10 0.11
Matches are distributed among these distances:
77 4 0.01
78 2 0.00
79 38 0.08
80 119 0.24
81 22 0.04
82 16 0.03
83 29 0.06
84 107 0.21
85 5 0.01
86 60 0.12
87 67 0.13
88 20 0.04
89 10 0.02
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (83 bp):
AGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAACATTAAAGATT
GACTCCTCTTCACGAGGG
Done.