Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1504
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: 102737
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:2932 original size:72 final size:73
Alignment explanation
Indices: 2730--2997 Score: 395
Period size: 72 Copynumber: 3.8 Consensus size: 73
2720 TGGTTGAGCC
*
2730 TTTTAA-TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTAATTTCTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
2794 TGAGGTAA
66 TGAGGTAA
*
2802 TTTTAATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTAATTTCTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
2867 TGAGGTAA
66 TGAGGTAA
* *
2875 TTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACAT
1 TTTTAATTTCTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
*
2939 TGAGGTAT
66 TGAGGTAA
* * * ** *
2947 TTTTAGTTTATG-TTTT--AAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTCTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
2998 TTTAATTTTT
Statistics
Matches: 182, Mismatches: 13, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
69 26 0.14
70 5 0.03
72 77 0.42
73 74 0.41
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (73 bp):
TTTTAATTTCTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTAA
Found at i:3200 original size:72 final size:72
Alignment explanation
Indices: 3001--3554 Score: 927
Period size: 72 Copynumber: 7.7 Consensus size: 72
2991 TAAGCCTTTT
*
3001 AATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
3066 GTATTTTC
65 GTAATTTC
3074 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
3139 GTAATTTC
65 GTAATTTC
3147 AATCTT-TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AAT-TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
3211 GTAATTTC
65 GTAATTTC
3219 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3284 TAATTTC
66 TAATTTC
3291 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
3356 TATTTTC
66 TAATTTC
*
3363 AATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
3428 GTAATTTC
65 GTAATTTC
*
3436 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* *
3501 TATTTTT
66 TAATTTC
* * * ** *
3508 AGTTTATGTTTT--AAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
3555 TTTAATTTTT
Statistics
Matches: 462, Mismatches: 16, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
69 26 0.06
70 5 0.01
71 2 0.00
72 282 0.61
73 145 0.31
74 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTC
Found at i:3651 original size:121 final size:121
Alignment explanation
Indices: 3436--4108 Score: 433
Period size: 144 Copynumber: 5.0 Consensus size: 121
3426 AGGTAATTTC
3436 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
* * **
3501 TATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTT
66 TATATTTA-TTTATGTTTTAAATTAACTCATATTGCGAGAAATGAGTTAAGCCTTTT
* *
3558 AATTTTTGTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
*
3622 TA-ATTT-TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACA
66 TATATTTATTTATGTTTT--AAATT-AACTCATATTGCGAGAAATGAG-T-----T-AAG-C-C-
*
3685 TTGAGGT
118 TT---TT
*
3692 AATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 AA--T----TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACA
3757 TTGAGGTA-ATTTCAATCTT-TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
60 TTGAGGTATATTT--AT-TTATGTTTT--AAATT-AACTCATATTGCGAGAAATGAG-T-----T
*
3820 CAAGACACGTTGAGGT
113 -AAG-C-C-TT---TT
*
3836 AATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 AA--T----TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACA
*
3901 TTGAGGTA-ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
60 TTGAGGTATATTT--ATTTATGTTTT--AAATT-AACTCATATTGCGAGAAATGAG-T-----T-
*
3965 AAGACACGTTGAGGT
113 AAG-C-C-TT---TT
* *
3980 ATTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 AATTT------CTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
* * *
4045 GTTGAGGTA-ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
59 ATTGAGGTATATTT--ATTTATGTTTT--AAATT-AACTCATATTGCGAGAAATGAGTTAAGCCT
4109 CAAGACACAT
Statistics
Matches: 503, Mismatches: 13, Indels: 57
0.88 0.02 0.10
Matches are distributed among these distances:
118 9 0.02
120 8 0.02
121 67 0.13
122 17 0.03
127 1 0.00
128 3 0.01
129 1 0.00
130 1 0.00
131 2 0.00
134 3 0.01
135 1 0.00
136 2 0.00
137 1 0.00
138 4 0.01
139 1 0.00
140 13 0.03
141 53 0.11
142 1 0.00
143 2 0.00
144 206 0.41
145 107 0.21
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (121 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
TATATTTATTTATGTTTTAAATTAACTCATATTGCGAGAAATGAGTTAAGCCTTTT
Found at i:3745 original size:72 final size:72
Alignment explanation
Indices: 3558--4177 Score: 1049
Period size: 72 Copynumber: 8.7 Consensus size: 72
3548 TAAGCCTTTT
*
3558 AATTTTTGTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3622 TAATTT-
66 TAATTTC
*
3628 --TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3691 TAATTTC
66 TAATTTC
3698 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3763 TAATTTC
66 TAATTTC
3770 AATCTT-TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AAT-TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
3834 GTAATTTC
65 GTAATTTC
3842 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3907 TAATTTC
66 TAATTTC
3914 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
3979 TATTTTC
66 TAATTTC
*
3986 AATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
4051 GTAATTTC
65 GTAATTTC
*
4059 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* *
4124 TATTTTT
66 TAATTTC
* * * ** *
4131 AGTTTATGTTTT--AAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
4178 TTTAATTTTT
Statistics
Matches: 527, Mismatches: 16, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
68 14 0.03
69 78 0.15
70 5 0.01
71 2 0.00
72 356 0.68
73 72 0.14
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTC
Found at i:4215 original size:122 final size:124
Alignment explanation
Indices: 4059--4446 Score: 406
Period size: 122 Copynumber: 3.0 Consensus size: 124
4049 AGGTAATTTC
4059 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
* * * * * **
4124 TATTTTTAGTTTATGTTT-TAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCTTTT
66 TAATTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTTTT
* *
4181 AATTTTTGTTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAG
*
4245 GTAATTTCAATTTCTGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
65 GTAATTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAG-T-----T-AAG-C-C
*
4310 GTTGAGGT
121 -TT---TT
* *
4318 ATTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 AATTT------CTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
* *
4383 GTTGAGGTAATTTCAATCTT-TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
59 ATTGAGGTAATTTCAAT-TTATG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCT
4447 CAAGACACAT
Statistics
Matches: 225, Mismatches: 16, Indels: 37
0.81 0.06 0.13
Matches are distributed among these distances:
122 67 0.30
123 14 0.06
124 19 0.08
125 1 0.00
130 1 0.00
131 3 0.01
132 1 0.00
133 1 0.00
134 2 0.01
135 1 0.00
136 1 0.00
137 6 0.03
138 2 0.01
139 1 0.00
143 10 0.04
144 60 0.27
145 35 0.16
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (124 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
TAATTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTTTT
Found at i:4382 original size:73 final size:73
Alignment explanation
Indices: 4177--4553 Score: 606
Period size: 73 Copynumber: 5.2 Consensus size: 73
4167 GAGTTAAGCC
* *
4177 TTTT-AATTTTTGTTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
4240 TTGAGGTA
66 TTGAGGTA
*
4248 ATTTCAATTTCTG--TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
4311 TTGAGGTA
66 TTGAGGTA
*
4319 TTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
4384 TTGAGGTA
66 TTGAGGTA
*
4392 ATTTCAATCTT-TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAAT-TTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
4455 ATTGAGGTA
65 GTTGAGGTA
* *
4464 TTTTCAATTTCTGCTTTTCAAAACTT-AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCAC
1 TTTTCAATTTCTGCTTTTCAAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
4528 GCTGAGGTA
65 GTTGAGGTA
4537 TTTTCAATTTCTGCTTT
1 TTTTCAATTTCTGCTTT
4554 ACTAATTCTA
Statistics
Matches: 286, Mismatches: 12, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
70 8 0.03
71 66 0.23
72 73 0.26
73 135 0.47
74 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
TTGAGGTA
Found at i:4561 original size:145 final size:143
Alignment explanation
Indices: 4177--4549 Score: 615
Period size: 145 Copynumber: 2.6 Consensus size: 143
4167 GAGTTAAGCC
* * *
4177 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTCAATTTCTGCTTTTCAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
4241 TGAGGTAATTTCAATTTCTGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
66 TGAGGTAATTTCAATTTCTGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
*
4306 ACACGTTGAGGTA
131 ACACATTGAGGTA
*
4319 TTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGCTTTTCAAAATT-AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
4384 TTGAGGTAATTTCAATCTT-TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
65 TTGAGGTAATTTCAAT-TTCTG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
4448 AAGACACATTGAGGTA
128 AAGACACATTGAGGTA
* *
4464 TTTTCAATTTCTGCTTTTCAAAACTTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACG
1 TTTTCAATTTCTGCTTTTCAAAA-TTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
* *
4529 CTGAGGTATTTTCAATTTCTG
65 TTGAGGTAATTTCAATTTCTG
4550 CTTTACTAAT
Statistics
Matches: 215, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
142 4 0.02
143 16 0.07
144 59 0.27
145 134 0.62
146 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (143 bp):
TTTTCAATTTCTGCTTTTCAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTAATTTCAATTTCTGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
ACACATTGAGGTA
Found at i:4628 original size:87 final size:87
Alignment explanation
Indices: 4472--4636 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 87
4462 TATTTTCAAT
* * *
4472 TTCTGCTTTTCAAAACTTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACGCTGAGGTA
1 TTCTACTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGGCACGCTGAGGTA
*
4537 TTTTCAATTTCTGCTTTACTAA
66 TTTTCAAATTCTGCTTTACTAA
* *
4559 TTCTACTTTTC-AAA-TCAACTCATATTGCAAGAGGTGAGTTGAGTCTC-AGGCCACACGCTGAG
1 TTCTACTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGG---CACGCTGAG
*
4621 GTCTTTTCAAATTCTG
63 GTATTTTCAAATTCTG
4637 TTTTTAATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 3 0.04
85 29 0.43
86 3 0.04
87 33 0.49
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (87 bp):
TTCTACTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGGCACGCTGAGGTA
TTTTCAAATTCTGCTTTACTAA
Found at i:4654 original size:14 final size:14
Alignment explanation
Indices: 4632--4664 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4622 TCTTTTCAAA
4632 TTCTG-TTTTTAAT
1 TTCTGTTTTTTAAT
4645 TTCTGTTTTTTAAT
1 TTCTGTTTTTTAAT
4659 TTCTGT
1 TTCTGT
4665 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (14 bp):
TTCTGTTTTTTAAT
Found at i:4903 original size:52 final size:54
Alignment explanation
Indices: 4752--5060 Score: 483
Period size: 52 Copynumber: 5.9 Consensus size: 54
4742 TTTTCAGTTT
*
4752 TGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTTTAATTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
4806 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
4860 TGTTTTTC-AAAATCAAC-CATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
* *
4912 T-ATTTTC-AAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT--TTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
* *
4960 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTC
*
5016 TG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
5061 GGCTCACGTG
Statistics
Matches: 238, Mismatches: 8, Indels: 17
0.90 0.03 0.06
Matches are distributed among these distances:
48 5 0.02
49 5 0.02
50 36 0.15
51 13 0.05
52 63 0.26
53 9 0.04
54 61 0.26
55 42 0.18
56 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (54 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
Found at i:5327 original size:14 final size:16
Alignment explanation
Indices: 5302--5337 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
5292 TTTAATTTTC
5302 AAAATTTCAAAAAA-A
1 AAAATTTCAAAAAATA
5317 AAAATTT-AAAAAATA
1 AAAATTTCAAAAAATA
5332 AAAATT
1 AAAATT
5338 GCATTTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATTTCAAAAAATA
Found at i:5396 original size:30 final size:30
Alignment explanation
Indices: 5333--5434 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
5323 TAAAAAATAA
* * *
5333 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCTTAAACTTTCT-TT
5363 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
* * *
5393 AAATTTCACTTAGACCCTTAAACTTTCATT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
5423 AAATTTCATTTT
1 AAATTTCATTTT
5435 AATCCTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCTTAAACTTTCTTT
Found at i:6033 original size:11 final size:11
Alignment explanation
Indices: 6019--6060 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
6009 AGAAGAGAAG
6019 AAGAAAAAAGA
1 AAGAAAAAAGA
6030 AAGAAAAAAGA
1 AAGAAAAAAGA
*
6041 GAA-AGAAAAGA
1 -AAGAAAAAAGA
6052 AAGAAAAAA
1 AAGAAAAAA
6061 AGTAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 2 0.07
11 23 0.85
12 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:6071 original size:11 final size:11
Alignment explanation
Indices: 6057--6083 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6047 AAAGAAAGAA
6057 AAAAAGTAATT
1 AAAAAGTAATT
6068 AAAAAGTAATT
1 AAAAAGTAATT
6079 AAAAA
1 AAAAA
6084 AAATAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (11 bp):
AAAAAGTAATT
Found at i:6715 original size:36 final size:36
Alignment explanation
Indices: 6674--6786 Score: 104
Period size: 36 Copynumber: 3.1 Consensus size: 36
6664 TCGTGTTTTC
*
6674 AAAATTCTAGTGTTTCAAAAATTTTC-TTTTTTCAGA
1 AAAATTCTAGTGTTTCAAAAATTTTCATATTTTCA-A
* * * * * *
6710 AAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAA
1 AAAATTCTAGTGTTTCAAAAATTTTCATATTTTCAA
* * *
6746 AAAAATC-ATGTCTTTCAAAAATTTTCATGTTTTCAA
1 AAAATTCTA-GTGTTTCAAAAATTTTCATATTTTCAA
6782 AAAAT
1 AAAAT
6787 AATGACCGTG
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
36 52 0.88
37 7 0.12
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (36 bp):
AAAATTCTAGTGTTTCAAAAATTTTCATATTTTCAA
Found at i:6763 original size:18 final size:17
Alignment explanation
Indices: 6739--6785 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
6729 AATTTCCGTA
6739 TTTTCAAAAAAATCATG
1 TTTTCAAAAAAATCATG
**
6756 TCTTTCAAAAATTTTCATG
1 T-TTTCAAAAA-AATCATG
6775 TTTTCAAAAAA
1 TTTTCAAAAAA
6786 TAATGACCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 18 0.72
19 6 0.24
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (17 bp):
TTTTCAAAAAAATCATG
Found at i:6814 original size:17 final size:17
Alignment explanation
Indices: 6683--7050 Score: 115
Period size: 17 Copynumber: 20.7 Consensus size: 17
6673 CAAAATTCTA
*
6683 GTGTTTCAAAAATTTTC
1 GTGTTTCAAAAATTTCC
* * *
6700 TTTTTTCAGAAAAATTTTC
1 GTGTTTC--AAAAATTTCC
* *
6719 GTGTTTTATAAATTTCC
1 GTGTTTCAAAAATTTCC
* ** *
6736 GTATTTTCAAAAAAATCAT
1 GT-GTTTCAAAAATTTC-C
* *
6755 GTCTTTCAAAAATTTTC
1 GTGTTTCAAAAATTTCC
* *
6772 ATGTTTTCAAAAAATAATGACC
1 GTG-TTTC-AAAAAT--T-TCC
6794 GTGTTTCAAAAATTTCC
1 GTGTTTCAAAAATTTCC
**
6811 GTGTTAAAAAAAAATCTT-C
1 GTGTT--TCAAAAAT-TTCC
* *
6830 GTATTTTCAAAAAATTTTC
1 GT-GTTTC-AAAAATTTCC
*
6849 GTGTTTCAAAAATTTTC
1 GTGTTTCAAAAATTTCC
*
6866 GTGTTTTCAAAAATTTCG
1 GTG-TTTCAAAAATTTCC
* *
6884 GTGTTTCAAAGATTTTC
1 GTGTTTCAAAAATTTCC
*
6901 GTGTTTTCAAAAA-CTCC
1 GTG-TTTCAAAAATTTCC
* **
6918 GGTGATTTTAAAAAAAAT-C
1 -GTG--TTTCAAAAATTTCC
*
6937 GT-TTTCTAAAAAATGT-C
1 GTGTTTC--AAAAATTTCC
* *
6954 TTGTTTTAAAAA-TTCTC
1 GTGTTTCAAAAATTTC-C
*
6971 GTGTTTCAAAAAAATGT-C
1 GTGTTTC--AAAAATTTCC
* * *
6989 GTATTTTAAAAATTTTC
1 GTGTTTCAAAAATTTCC
***
7006 GTGTTTTTGAAATTTCC
1 GTGTTTCAAAAATTTCC
7023 GTGTTT-AAAAA-TTCTC
1 GTGTTTCAAAAATTTC-C
*
7039 GTGTTTTAAAAA
1 GTGTTTCAAAAA
7051 AAAACTTTCA
Statistics
Matches: 262, Mismatches: 58, Indels: 62
0.69 0.15 0.16
Matches are distributed among these distances:
15 7 0.03
16 22 0.08
17 91 0.35
18 67 0.26
19 55 0.21
20 12 0.05
21 5 0.02
22 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (17 bp):
GTGTTTCAAAAATTTCC
Found at i:6841 original size:18 final size:17
Alignment explanation
Indices: 6820--6913 Score: 100
Period size: 18 Copynumber: 5.3 Consensus size: 17
6810 CGTGTTAAAA
*
6820 AAAAATCTTCGTATTTTC
1 AAAAATTTTCGT-TTTTC
*
6838 AAAAAATTTTCGTGTTTC
1 -AAAAATTTTCGTTTTTC
6856 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGT-TTTTC
*
6874 AAAAA-TTTCGGTGTTTC
1 AAAAATTTTC-GTTTTTC
*
6891 AAAGATTTTCGTGTTTTC
1 AAAAATTTTCGT-TTTTC
6909 AAAAA
1 AAAAA
6914 CTCCGGTGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
17 26 0.41
18 27 0.42
19 11 0.17
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
AAAAATTTTCGTTTTTC
Found at i:6888 original size:35 final size:34
Alignment explanation
Indices: 6664--7051 Score: 182
Period size: 35 Copynumber: 10.9 Consensus size: 34
6654 TAAAGAAAAA
* * *
6664 TCGTGTTTTCAAAATTCTAGTG-TTTCAAAAATTT
1 TCGTGTTTTAAAAATTTTCGTGTTTTCAAAAA-TT
* *
6698 TC-TTTTTTCAGAAAAATTTTCGTGTTTT-ATAAATT
1 TCGTGTTTT---AAAAATTTTCGTGTTTTCAAAAATT
* ** *
6733 TCCGTATTTTCAAAAA-AATCATGTCTTTCAAAAATTT
1 T-CGTGTTTT-AAAAATTTTCGTGT-TTTCAAAAA-TT
* **
6770 TCATGTTTTCAAAAAATAATGACCGTG-TTTCAAAAATT
1 TCGTGTTTT--AAAAAT--T-TTCGTGTTTTCAAAAATT
** * *
6808 TCCGTGTTAAAAAAAAATCTTCGTATTTTCAAAAAATTT
1 T-CGTGTT--TTAAAAATTTTCGTGTTTTC-AAAAA-TT
*
6847 TCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATT
1 TCGTGTTTTAAAAATTTTCGTGTTTTCAAAAATT
* * *
6881 TCGGTGTTTCAAAGATTTTCGTGTTTTCAAAAACT
1 TC-GTGTTTTAAAAATTTTCGTGTTTTCAAAAATT
* *** * *
6916 CCGGTGATTTTAAAAAAAATCGT-TTTCTAAAAAATG
1 TC-GTG-TTTTAAAAATTTTCGTGTTT-TCAAAAATT
* * *
6952 TCTTGTTTTAAAAATTCTCGTG-TTTCAAAAAAATG
1 TCGTGTTTTAAAAATTTTCGTGTTTTC--AAAAATT
* **
6987 TCGTATTTTAAAAATTTTCGTGTTTT-TGAAATT
1 TCGTGTTTTAAAAATTTTCGTGTTTTCAAAAATT
* *
7020 TCCGTG-TTTAAAAATTCTCGTGTTTTAAAAAA
1 T-CGTGTTTTAAAAATTTTCGTGTTTTCAAAAA
7052 AAACTTTCAT
Statistics
Matches: 270, Mismatches: 55, Indels: 58
0.70 0.14 0.15
Matches are distributed among these distances:
33 30 0.11
34 32 0.12
35 82 0.30
36 65 0.24
37 20 0.07
38 14 0.05
39 23 0.09
41 4 0.01
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (34 bp):
TCGTGTTTTAAAAATTTTCGTGTTTTCAAAAATT
Found at i:7054 original size:21 final size:20
Alignment explanation
Indices: 7029--7082 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
7019 TTCCGTGTTT
7029 AAAAATTCTCGTGTTTTAAAA
1 AAAAATT-TCGTGTTTTAAAA
* * *
7050 AAAAACTTTCATTTTTTTAAA
1 AAAAA-TTTCGTGTTTTAAAA
7071 AAAAATTTCGTG
1 AAAAATTTCGTG
7083 CTTCAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 5 0.19
21 20 0.74
22 2 0.07
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (20 bp):
AAAAATTTCGTGTTTTAAAA
Found at i:7692 original size:21 final size:20
Alignment explanation
Indices: 7667--7714 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
7657 TTCTAATAAA
*
7667 TTATAAAAAATCTTTAAAATT
1 TTATAAAAAAT-ATTAAAATT
7688 TTATAAAAAAATATTAAAATT
1 TTAT-AAAAAATATTAAAATT
*
7709 ATATAA
1 TTATAA
7715 TAACCATCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 15 0.62
22 7 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TTATAAAAAATATTAAAATT
Found at i:7771 original size:39 final size:39
Alignment explanation
Indices: 7688--7785 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 39
7678 CTTTAAAATT
**
7688 TTATAAAAAAATATTAAAATTATATAATAACCATCCAAA
1 TTATAAAAAAATATTAAAATTATATAATAACCATAAAAA
* * *
7727 CTATAAAAATATATTAAAATTGATAT-A-AACTTATAAAAA
1 TTATAAAAAAATATTAAAATT-ATATAATAAC-CATAAAAA
*
7766 TTATAAAAAAAAATATAAAA
1 TTATAAAAAAATAT-TAAAA
7786 ACTTGAACTA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.06
39 36 0.75
40 9 0.19
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (39 bp):
TTATAAAAAAATATTAAAATTATATAATAACCATAAAAA
Found at i:8345 original size:19 final size:18
Alignment explanation
Indices: 8315--8428 Score: 69
Period size: 18 Copynumber: 6.3 Consensus size: 18
8305 AATTGATTGG
8315 ATTTTTAT-ATTTTGTAAT
1 ATTTTTATAATTTT-TAAT
**
8333 ATTTTTATAATTTTTTTT
1 ATTTTTATAATTTTTAAT
8351 ATTTTTTATAA-TTTT-AT
1 A-TTTTTATAATTTTTAAT
* *
8368 ATCAATTT-TAATATTT--T
1 AT--TTTTATAATTTTTAAT
8385 ATTTTTATATATTTTTAAT
1 ATTTTTATA-ATTTTTAAT
** *
8404 AATTTTTATGCTTTTTGAT
1 -ATTTTTATAATTTTTAAT
8423 ATTTTT
1 ATTTTT
8429 GAGAAAATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
15 3 0.04
16 3 0.04
17 13 0.17
18 27 0.36
19 22 0.29
20 8 0.11
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTTATAATTTTTAAT
Found at i:8346 original size:27 final size:29
Alignment explanation
Indices: 8315--8384 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
8305 AATTGATTGG
8315 ATTTTTATATTTTGTAAT-ATTTT-TAT-A
1 ATTTTTATATTTT-TAATAATTTTATATCA
* *
8342 ATTTTTTTTATTTTTTATAATTTTATATCA
1 A-TTTTTATATTTTTAATAATTTTATATCA
*
8372 ATTTTAATATTTT
1 ATTTTTATATTTT
8385 ATTTTTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 4 0.11
28 16 0.46
29 13 0.37
30 2 0.06
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (29 bp):
ATTTTTATATTTTTAATAATTTTATATCA
Found at i:8347 original size:10 final size:10
Alignment explanation
Indices: 8324--8410 Score: 59
Period size: 11 Copynumber: 8.3 Consensus size: 10
8314 GATTTTTATA
*
8324 TTTTGTAATAT
1 TTTTATAAT-T
8335 TTTTATAATT
1 TTTTATAATT
*
8345 TTTT-TTATT
1 TTTTATAATT
8354 TTTTATAATT
1 TTTTATAATT
*
8364 TTATATCAATT
1 TTTTAT-AATT
* **
8375 TTAATATTTTAT
1 TT-TTATAAT-T
8387 TTTTATATATT
1 TTTTATA-ATT
*
8398 TTTAATAATT
1 TTTTATAATT
8408 TTT
1 TTT
8411 ATGCTTTTTG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
9 8 0.13
10 20 0.33
11 25 0.41
12 8 0.13
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:8408 original size:25 final size:25
Alignment explanation
Indices: 8362--8409 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
8352 TTTTTTATAA
8362 TTTTATATCAATTTTAATATTTTAT
1 TTTTATATCAATTTTAATATTTTAT
*
8387 TTTTATAT-ATTTTTAATAATTTT
1 TTTTATATCAATTTTAAT-ATTTT
8410 TATGCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTATATCAATTTTAATATTTTAT
Found at i:9597 original size:19 final size:19
Alignment explanation
Indices: 9573--9610 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9563 AACATCCTTC
9573 ATACCATTATTTTGCTTGT
1 ATACCATTATTTTGCTTGT
9592 ATACCATTATTTTGCTTGT
1 ATACCATTATTTTGCTTGT
9611 GAATATCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.53
Consensus pattern (19 bp):
ATACCATTATTTTGCTTGT
Found at i:24656 original size:27 final size:29
Alignment explanation
Indices: 24611--24672 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
24601 TTTAGCCATT
24611 TTTTATTTTTATTGCAATT-TAA-TTTTC
1 TTTTATTTTTATTGCAATTATAATTTTTC
* **
24638 TTTTGTTTTTATTTTAATTACTAATTTTTC
1 TTTTATTTTTATTGCAATTA-TAATTTTTC
24668 TTTTA
1 TTTTA
24673 CCTTCTCCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 16 0.57
29 3 0.11
30 9 0.32
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.69
Consensus pattern (29 bp):
TTTTATTTTTATTGCAATTATAATTTTTC
Found at i:31719 original size:14 final size:15
Alignment explanation
Indices: 31696--31756 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
31686 GTTTGAATCT
*
31696 ATATTTAAA-TAAAA
1 ATATTAAAATTAAAA
**
31710 ATATTAAAATTAATC
1 ATATTAAAATTAAAA
*
31725 ATATT-TAATTATAAA
1 ATATTAAAATTA-AAA
*
31740 TTATTAAAATTAAAA
1 ATATTAAAATTAAAA
31755 AT
1 AT
31757 GCTTTTTCCT
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
14 13 0.37
15 17 0.49
16 5 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATTAAAATTAAAA
Found at i:31747 original size:30 final size:30
Alignment explanation
Indices: 31691--31752 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
31681 GCTAAGTTTG
31691 AATCTATATTTAAATAAAAATATTAAAATT
1 AATCTATATTTAAATAAAAATATTAAAATT
* *
31721 AATC-ATATTTAATTATAAATTATTAAAATT
1 AATCTATATTTAAATA-AAAATATTAAAATT
31751 AA
1 AA
31753 AAATGCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
AATCTATATTTAAATAAAAATATTAAAATT
Found at i:33424 original size:6 final size:6
Alignment explanation
Indices: 33413--33441 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
33403 TACATCAGCA
33413 AACCCT AACCCT AACCCT AACCCT AACCC
1 AACCCT AACCCT AACCCT AACCCT AACCC
33442 GAACACCTCA
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:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (6 bp):
AACCCT
Found at i:34606 original size:14 final size:14
Alignment explanation
Indices: 34596--34677 Score: 59
Period size: 14 Copynumber: 5.9 Consensus size: 14
34586 TACTATTTTC
34596 TTATCATTATTATA
1 TTATCATTATTATA
*
34610 TTATTATTATTATA
1 TTATCATTATTATA
34624 TTAT-A-T-TTAGTA
1 TTATCATTATTA-TA
*
34636 TTATCTTTAATATTATA
1 TTATC---ATTATTATA
34653 TT-TCTATTATTATA
1 TTATC-ATTATTATA
34667 TT-T-ATTATTAT
1 TTATCATTATTAT
34678 CTATTACTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
11 3 0.05
12 15 0.25
13 1 0.02
14 29 0.49
16 3 0.05
17 5 0.08
18 3 0.05
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (14 bp):
TTATCATTATTATA
Found at i:34614 original size:3 final size:3
Alignment explanation
Indices: 34582--34720 Score: 75
Period size: 3 Copynumber: 48.3 Consensus size: 3
34572 TGCTTTAACG
* * *
34582 TTA TTA CTA TT- TTC TTA TCA TTA TTA -TA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
34627 -TA TTTA GTA TTA TCT- TTA ATA TTA -TA TT- TCTA TTA TTA -TA TTTA
1 TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA
* * * *
34671 TTA TTA TCTA TTA CT- TTA TTT TTA TTT TTA TT- TTA ATA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34715 -TA TTA T
1 TTA TTA T
34721 ATTCACCTTT
Statistics
Matches: 103, Mismatches: 17, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
2 19 0.18
3 75 0.73
4 9 0.09
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:34649 original size:38 final size:39
Alignment explanation
Indices: 34603--34712 Score: 110
Period size: 38 Copynumber: 3.0 Consensus size: 39
34593 TTCTTATCAT
*
34603 TATT-ATATTATTATTATTATATTATATTTAGTATTATC
1 TATTAATATTATTATTATTATATTATATTTAATATTATC
*
34641 T-TTAATATTA-TATT-TCTATTATTATATTTATTATTATC
1 TATTAATATTATTATTAT-TA-TATTATATTTAATATTATC
* *
34679 TATTACT-TTATTTTTATT-T-TTAT-TTTAATATTAT
1 TATTAATATTATTATTATTATATTATATTTAATATTAT
34713 TATATTATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
35 10 0.16
36 5 0.08
37 9 0.15
38 29 0.47
39 8 0.13
40 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (39 bp):
TATTAATATTATTATTATTATATTATATTTAATATTATC
Found at i:34663 original size:26 final size:23
Alignment explanation
Indices: 34603--34677 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 23
34593 TTCTTATCAT
34603 TATTATATTATTATTATT-ATATTA
1 TATT-TATTATTATT-TTAATATTA
*
34627 TATTTAGTATTATCTTTAATATTA
1 TATTTATTATTAT-TTTAATATTA
*
34651 TATTTCTATTATTATATTTATTATTA
1 TA-TT-TATTATTAT-TTTAATATTA
34677 T
1 T
34678 CTATTACTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.23
24 13 0.30
25 2 0.05
26 18 0.42
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (23 bp):
TATTTATTATTATTTTAATATTA
Found at i:34821 original size:15 final size:15
Alignment explanation
Indices: 34801--34847 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
34791 TACATATAGC
*
34801 TTTTATATAGTTT-TT
1 TTTTAT-TACTTTGTT
34816 TTTTATTACTTTGTT
1 TTTTATTACTTTGTT
34831 TTTTATTTTACTTTGTT
1 TTTTA--TTACTTTGTT
34848 ATATTTGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 5 0.18
15 13 0.46
17 10 0.36
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTATTACTTTGTT
Found at i:34834 original size:17 final size:17
Alignment explanation
Indices: 34810--34847 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
34800 CTTTTATATA
*
34810 GTTTTTTTTTATTACTTT
1 GTTTTTTATT-TTACTTT
34828 GTTTTTTATTTTACTTT
1 GTTTTTTATTTTACTTT
34845 GTT
1 GTT
34848 ATATTTGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (17 bp):
GTTTTTTATTTTACTTT
Found at i:35133 original size:47 final size:48
Alignment explanation
Indices: 35074--35193 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 48
35064 TTTAAATACC
*
35074 ATATTA-TATACATATATTTT-A-TATCTAT-TCTTATATATTATTATTTT
1 ATATTATTATACATATATTTTCACTAT-TATCACTTAT-TATT-TTATTTT
*
35121 -TGTTATTATACATATTATTTTCACTATTATCACTTATTATTTTATTTT
1 ATATTATTATACATA-TATTTTCACTATTATCACTTATTATTTTATTTT
*
35169 AATATTATTATATATATATTCTTCA
1 -ATATTATTATACATATATT-TTCA
35194 TATATGTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
46 4 0.07
47 8 0.13
48 13 0.21
49 12 0.20
50 24 0.39
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (48 bp):
ATATTATTATACATATATTTTCACTATTATCACTTATTATTTTATTTT
Found at i:35253 original size:11 final size:11
Alignment explanation
Indices: 35231--35261 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
35221 ATATCTATTT
35231 TATATATATATG
1 TATATAT-TATG
35243 TATATATTATG
1 TATATATTATG
35254 TATATATT
1 TATATATT
35262 TTAACATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:35301 original size:22 final size:23
Alignment explanation
Indices: 35249--35303 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
35239 TATGTATATA
*
35249 TTATGTATATATTTTAACATTAC
1 TTATGTATATATTTTAACATAAC
*
35272 -TA-GTTATATATTTTTAC-TAAC
1 TTATG-TATATATTTTAACATAAC
35293 TTATGTATATA
1 TTATGTATATA
35304 CTTCAAACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
21 4 0.15
22 22 0.81
23 1 0.04
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (23 bp):
TTATGTATATATTTTAACATAAC
Found at i:47423 original size:14 final size:14
Alignment explanation
Indices: 47404--47430 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47394 CCGAGATATT
47404 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
47418 TTCAAATTCTGTT
1 TTCAAATTCTGTT
47431 TTTAATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Found at i:47474 original size:102 final size:103
Alignment explanation
Indices: 47337--47535 Score: 283
Period size: 102 Copynumber: 1.9 Consensus size: 103
47327 TCAGTTTTTA
* *
47337 TACTTTTCAAAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGATA
1 TACTTTTCAAAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCCGAGATA
*
47402 TTTTCAAATTCTGTTGTTCAAATTCTGTTTTTAATTTC
66 TTTTCAAATTCTGTTGTTCAAATTCTGCTTTTAATTTC
* * * * * *
47440 TACTTTTC-CAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTA
1 TACTTTTCAAAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCCGAGATA
* * *
47504 TTTTCAATTTCTGTTTTTCAATTTCTGCTTTT
66 TTTTCAAATTCTGTTGTTCAAATTCTGCTTTT
47536 CAAAAAAAGT
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
102 76 0.90
103 8 0.10
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (103 bp):
TACTTTTCAAAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCCGAGATA
TTTTCAAATTCTGTTGTTCAAATTCTGCTTTTAATTTC
Found at i:47523 original size:14 final size:14
Alignment explanation
Indices: 47504--47538 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
47494 CGCTGAGGTA
*
47504 TTTTCAATTTCTGT
1 TTTTCAATTTCTGC
47518 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
47532 TTTTCAA
1 TTTTCAA
47539 AAAAAGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:47626 original size:90 final size:91
Alignment explanation
Indices: 47449--47862 Score: 323
Period size: 83 Copynumber: 4.7 Consensus size: 91
47439 CTACTTTTCC
* *
47449 AAAATCAACTCATATTGCGATAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CACACGCTGAGGTATTTTCAATT
* * * *
47513 TCTGTTTTTCAATTTCTGCTTTTCAAAA
64 CCTATTTTTCAATTTATACTTTTCAAAA
* * * *
47541 AAAGTCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGG-GCACGCTGAGGTATTTTCAGTTCC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTCC
*
47605 TATTTTTCAATTTATATTTTTCAAAAA
66 TATTTTTCAATTTATACTTTTC-AAAA
* * *
47632 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCT-GAGGTATTTTC-AAT
**
47696 T-CTGCTTTT--A---A-A--TTTC-AAA
63 TCCTATTTTTCAATTTATACTTTTCAAAA
* * * * * * *
47715 AAGACCAACTCATATGGCGAGAGGTGAGTTGAGCCT-TGGCTCATGTACTGAGCTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACG--CTGAGGTATTTTCAATT
* * * **
47779 TCTA-TTTT-AATGTCTGTTTTTC----
64 CCTATTTTTCAATTTATACTTTTCAAAA
* * *
47801 -AAATCAACTAATATTGTGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTTAATTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTC
47863 ATGTTTTAAA
Statistics
Matches: 263, Mismatches: 41, Indels: 45
0.75 0.12 0.13
Matches are distributed among these distances:
81 5 0.02
82 9 0.03
83 64 0.24
84 1 0.00
85 37 0.14
86 2 0.01
87 1 0.00
88 1 0.00
89 4 0.02
90 39 0.15
91 42 0.16
92 34 0.13
93 22 0.08
94 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (91 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTCC
TATTTTTCAATTTATACTTTTCAAAA
Found at i:47938 original size:54 final size:53
Alignment explanation
Indices: 47854--47961 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 53
47844 GCTGAGGTAT
*
47854 TTTTAATTCATGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTCATGTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
*
47907 TTTTAATTTC-TGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTTAA-TTCATG-TTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
47961 T
1 T
47962 CGGCTCACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
53 8 0.16
54 43 0.84
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.38
Consensus pattern (53 bp):
TTTTAATTCATGTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
Found at i:48013 original size:128 final size:124
Alignment explanation
Indices: 47783--48032 Score: 326
Period size: 128 Copynumber: 2.0 Consensus size: 124
47773 TCAATTTCTA
* * *
47783 TTTTAATGTCTGTTTTTCAAATCAACTAATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 TTTTAATGTCTGTTTTTCAAATCAACTAATATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTG
* *
47848 AGGTATTTTTAATTCATGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 AGGCATTTTTAATTCATGTTTTAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
* *
47907 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCTCACA
1 TTTTAATGTCTGTTTTTC--AAATCAACTAATATTGCGAGAAGTGAGTTGAGCCTCAGG---ACA
* * *
47971 TACTGAGGCATTTTTAATTTC-TGCTTTT-CAAAATCAATTCATATTACGAGAGGTGAGTTGAG
61 CACTGAGGCATTTTTAA-TTCATG-TTTTAAAAAATCAACTCATATTACGAGAGGTGAGTTGAG
48033 TCTCAGGTCA
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
124 17 0.16
125 2 0.02
126 33 0.30
128 50 0.46
129 7 0.06
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (124 bp):
TTTTAATGTCTGTTTTTCAAATCAACTAATATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTG
AGGCATTTTTAATTCATGTTTTAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
Found at i:48029 original size:74 final size:74
Alignment explanation
Indices: 47907--48075 Score: 214
Period size: 74 Copynumber: 2.3 Consensus size: 74
47897 GAGTTGAGCC
* *
47907 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCTCACA
1 TTTTAATTTCTGCTTTTC-AAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGG-TCACA
* *
47971 TACTGAGGCAT
64 CACTGAAGCAT
* * * *
47982 TTTTAATTTCTGCTTTTCAAAATCAATTCATATTACGAGAGGTGAGTTGAGTCTCAGGTCACACG
1 TTTTAATTTCTGCTTTTCAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGTCACACA
*
48047 CTGAAGTAT
66 CTGAAGCAT
* *
48056 TTTTAAATTCTACTTTTCAA
1 TTTTAATTTCTGCTTTTCAA
48076 TTTCTACTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
74 63 0.77
75 19 0.23
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (74 bp):
TTTTAATTTCTGCTTTTCAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGTCACACA
CTGAAGCAT
Found at i:48193 original size:84 final size:85
Alignment explanation
Indices: 47982--48208 Score: 260
Period size: 84 Copynumber: 2.6 Consensus size: 85
47972 ACTGAGGCAT
* *
47982 TTTTAATTTCTGCTTTTCAAAATCAATTCATATTACGAGAGGTGAGTTGAGTCTCAGGTCACACG
1 TTTTAATTTCTG-TTTTCAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACG
***
48047 CTGAAGTATTTTTAAATTCTAC
64 CTGAAGTATTCCCAAATTCTAC
* * *
48069 TTTTCAATTTCTACTTTTCCAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCAT
1 TTTT-AATTTCT-GTTTT-CAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACAC
* * **
48133 GCTGAGGTATTCCCAATTTC-GG
63 GCTGAAGTATTCCCAAATTCTAC
* *
48155 TTTTAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTAATTTCTGTTTTC-AAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCT
48209 TTTAATTTCT
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
83 1 0.01
84 39 0.32
85 6 0.05
86 4 0.03
87 21 0.17
88 11 0.09
89 39 0.32
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (85 bp):
TTTTAATTTCTGTTTTCAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCT
GAAGTATTCCCAAATTCTAC
Found at i:49353 original size:11 final size:11
Alignment explanation
Indices: 49337--49363 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
49327 GTCTCATTTA
49337 TTTTTTTGTCT
1 TTTTTTTGTCT
49348 TTTTTTTGTCT
1 TTTTTTTGTCT
49359 TTTTT
1 TTTTT
49364 CCTACTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (11 bp):
TTTTTTTGTCT
Found at i:50171 original size:14 final size:14
Alignment explanation
Indices: 50154--50273 Score: 59
Period size: 14 Copynumber: 8.2 Consensus size: 14
50144 TTTTCTTATC
50154 ATTATTATATTACT
1 ATTATTATATTACT
*
50168 ATTATTAT-TATATT
1 ATTATTATAT-TACT
50182 A-TATTTAGTATTATCGTT
1 ATTA-TTA-TATTA-C--T
* *
50200 AATATTATATTTCT
1 ATTATTATATTACT
*
50214 ATTATTATATTTATT
1 ATTATTATA-TTACT
*
50229 ATTATCTATTATT-TT
1 ATTAT-TA-TATTACT
* * *
50244 ATTTTTATTTTAAT
1 ATTATTATATTACT
50258 ATTATTATATTA-T
1 ATTATTATATTACT
50271 ATT
1 ATT
50274 CACCTTTTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
13 10 0.12
14 37 0.45
15 17 0.20
16 6 0.07
17 6 0.07
18 5 0.06
19 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (14 bp):
ATTATTATATTACT
Found at i:50173 original size:3 final size:3
Alignment explanation
Indices: 50135--50270 Score: 76
Period size: 3 Copynumber: 47.3 Consensus size: 3
50125 TGCTTTAACG
* * * *
50135 TTA TTA CTA TT- TTC TTA TCA TTA TTA -TA TTA CTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
50180 TTA -TA TTTA GTA TTA TCG TTA ATA TTA -TA TT- TCTA TTA TTA -TA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* *
50223 TTTA TTA TTA TCTA TTA TT- TTA TTT TTA TT- TTA ATA TTA TTA -TA
1 -TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50267 TTA T
1 TTA T
50271 ATTCACCTTT
Statistics
Matches: 100, Mismatches: 19, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
2 19 0.19
3 73 0.73
4 8 0.08
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:50174 original size:17 final size:16
Alignment explanation
Indices: 50154--50273 Score: 82
Period size: 17 Copynumber: 7.0 Consensus size: 16
50144 TTTTCTTATC
50154 ATTATTATATTACTATT
1 ATTATTATATTA-TATT
50171 ATTATTATATTATATTT
1 ATTATTATATTATA-TT
* *
50188 AGTATTATCGTTAATATT
1 ATTATTAT-ATT-ATATT
*
50206 ATATTTCTATTATTATATTT
1 AT-TAT-TA-TATTATA-TT
*
50226 ATTATTATCTATTATTTT
1 ATTATTA--TATTATATT
* *
50244 ATT-TT-TATTTTAAT
1 ATTATTATATTATATT
50258 ATTATTATATTATATT
1 ATTATTATATTATATT
50274 CACCTTTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
14 9 0.11
15 2 0.03
16 9 0.11
17 23 0.29
18 12 0.15
19 16 0.20
20 8 0.10
21 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTATTATATTATATT
Found at i:50257 original size:55 final size:59
Alignment explanation
Indices: 50154--50262 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 59
50144 TTTTCTTATC
50154 ATTATTATATTACTATTATTATTATATTATATTTAGTATTATCGTTAATATTATATTTCT
1 ATTATTATATTA-TATTATTATTATATTATATTTAGTATTATCGTTAATATTATATTTCT
* * * *
50214 ATTATTATATT-TATTATTA-TCTATTAT-TTTATTTTTAT-TTTAATATTAT
1 ATTATTATATTATATTATTATTATATTATATTTAGTATTATCGTTAATATTAT
50263 TATATTATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
55 10 0.22
56 9 0.20
57 7 0.16
58 8 0.18
60 11 0.24
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (59 bp):
ATTATTATATTATATTATTATTATATTATATTTAGTATTATCGTTAATATTATATTTCT
Found at i:50799 original size:11 final size:11
Alignment explanation
Indices: 50775--50805 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
50765 ATCTATTTTA
50775 TATATATATATG
1 TATATAT-TATG
50787 TATATATTATG
1 TATATATTATG
50798 TATATATT
1 TATATATT
50806 TTAACATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:52438 original size:21 final size:21
Alignment explanation
Indices: 52413--52452 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
52403 TTAAAATTTT
*
52413 ATAAATTATAAAAA-TATTTGA
1 ATAAA-TAAAAAAATTATTTGA
52434 ATAAATAAAAAAATTATTT
1 ATAAATAAAAAAATTATTT
52453 TAGGAGGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
ATAAATAAAAAAATTATTTGA
Found at i:56113 original size:105 final size:105
Alignment explanation
Indices: 55979--56189 Score: 386
Period size: 105 Copynumber: 2.0 Consensus size: 105
55969 TTAAACACAA
*
55979 TTCGTGGCATGGTTATAGCAAAATAAAATAAAGGGAAGTGTGTAAATACGATAGTGATAAAACAC
1 TTCGTGGCATGGTTATAGCAAAATAAAATAAAGGGAAGTGTGCAAATACGATAGTGATAAAACAC
* *
56044 CAACTTGTAATGACGATAGCAATGATTATATTATGATTAT
66 CAACTTGTAATGACGATAGCAATGATCATATTATAATTAT
*
56084 TTCGTGGCATGGTTATAGCAAAATAAAATAAAGGGAAGTGTGCAAATTCGATAGTGATAAAACAC
1 TTCGTGGCATGGTTATAGCAAAATAAAATAAAGGGAAGTGTGCAAATACGATAGTGATAAAACAC
56149 CAACTTGTAATGACGATAGCAATGATCATATTATAATTAT
66 CAACTTGTAATGACGATAGCAATGATCATATTATAATTAT
56189 T
1 T
56190 ATTCTAATAC
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 102 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.29
Consensus pattern (105 bp):
TTCGTGGCATGGTTATAGCAAAATAAAATAAAGGGAAGTGTGCAAATACGATAGTGATAAAACAC
CAACTTGTAATGACGATAGCAATGATCATATTATAATTAT
Found at i:56236 original size:3 final size:3
Alignment explanation
Indices: 56221--56258 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
56211 AAGAAAGGTA
*
56221 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56259 CAACAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:58805 original size:43 final size:43
Alignment explanation
Indices: 58757--58891 Score: 123
Period size: 43 Copynumber: 3.1 Consensus size: 43
58747 ATAAACTACC
* * *
58757 AGTAAGTTGTGAATGCACAACGTATTTGCAGATAAAAGTTGTT
1 AGTAAGTTGTGAATGCACAACGTATTTGTAGATAAAAGCTGCT
* * *
58800 AGTAAGTT-TGCATATGAACCACCGATGTTTGTAGA-AAAA-CTGCT
1 AGTAAGTTGTG-A-ATGCA-CAACG-TATTTGTAGATAAAAGCTGCT
* * * *
58844 AGTAAGTTGTGAGTGCACAACATATTTGTAGATCAAAGCAGCT
1 AGTAAGTTGTGAATGCACAACGTATTTGTAGATAAAAGCTGCT
58887 AGTAA
1 AGTAA
58892 ATTCATGGAT
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
41 9 0.12
42 8 0.11
43 21 0.29
44 16 0.22
45 10 0.14
46 8 0.11
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (43 bp):
AGTAAGTTGTGAATGCACAACGTATTTGTAGATAAAAGCTGCT
Found at i:58907 original size:87 final size:89
Alignment explanation
Indices: 58723--58920 Score: 219
Period size: 87 Copynumber: 2.3 Consensus size: 89
58713 CTCCAGTTTG
* *
58723 TGGATGAACCACCAGTGTTTGCAGATAAACTACCAGTAAGTTGTGAATGCACAACGTATTTGCAG
1 TGGATGAACCACCAGTGTTTGCAGAAAAACTACCAGTAAGTTGTGAATGCACAACATATTTGCAG
** * *
58788 ATAAAAGTTGTTAGTAAGTTTGCA
66 ATAAAAGCAGCTAGTAAGATTGCA
* * * * *
58812 T--ATGAACCACC-GATGTTTGTAGAAAAACTGCTAGTAAGTTGTGAGTGCACAACATATTTGTA
1 TGGATGAACCACCAG-TGTTTGCAGAAAAACTACCAGTAAGTTGTGAATGCACAACATATTTGCA
*
58874 GATCAAAGCAGCTAGTAA-ATT-CA
65 GATAAAAGCAGCTAGTAAGATTGCA
* *
58897 TGGATAAACCACTAGTG-TTGCAGA
1 TGGATGAACCACCAGTGTTTGCAGA
58921 TTATTAAACT
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
85 3 0.03
86 9 0.10
87 76 0.84
88 1 0.01
89 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (89 bp):
TGGATGAACCACCAGTGTTTGCAGAAAAACTACCAGTAAGTTGTGAATGCACAACATATTTGCAG
ATAAAAGCAGCTAGTAAGATTGCA
Found at i:59083 original size:16 final size:16
Alignment explanation
Indices: 59064--59095 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59054 TCTTTAAGAT
59064 GTATTCGGTTTAACAA
1 GTATTCGGTTTAACAA
59080 GTATTCGGTTTAACAA
1 GTATTCGGTTTAACAA
59096 CGACAGTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
GTATTCGGTTTAACAA
Found at i:61271 original size:24 final size:24
Alignment explanation
Indices: 61225--61273 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
61215 CCTAAATTAA
* **
61225 ACCCACCAGCCCAAAATTAAACCT
1 ACCCAACAGCCCAAAACCAAACCT
*
61249 ACCCAACAGCCCAAAACCCAACCT
1 ACCCAACAGCCCAAAACCAAACCT
61273 A
1 A
61274 TCTTAACCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.45, G:0.04, T:0.08
Consensus pattern (24 bp):
ACCCAACAGCCCAAAACCAAACCT
Found at i:62641 original size:3 final size:3
Alignment explanation
Indices: 62627--62732 Score: 60
Period size: 3 Copynumber: 37.0 Consensus size: 3
62617 TTCTTATCAT
* * * * *
62627 TTA TTT TTA TTA TTA CTA TTG CTA TTA TTA TTA -TA TT- TTC TT- TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
62671 TTA TTA CTA TTA CTA -TA TTA TTT TTA TTT TTA CTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
62718 TCA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA
62733 CTATCGTTTT
Statistics
Matches: 78, Mismatches: 21, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
2 10 0.13
3 68 0.87
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:62680 original size:29 final size:27
Alignment explanation
Indices: 62627--62736 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 27
62617 TTCTTATCAT
*
62627 TTATTTTTATTATTACTATTGCTATTATTA
1 TTATTTTTATT-TT--TATTACTATTATTA
*
62657 TTATATTTTCTTTTTTATTACTATTACTATA
1 TTAT-TTTT-ATTTTTATTACTATTA-T-TA
*
62688 TTATTTTTATTTTTACTACTATTATTA
1 TTATTTTTATTTTTATTACTATTATTA
*** *
62715 TTATCAATATTATTATTACTAT
1 TTATTTTTATTTTTATTACTAT
62737 CGTTTTCGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
27 19 0.28
28 1 0.01
29 24 0.36
30 9 0.13
31 12 0.18
32 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (27 bp):
TTATTTTTATTTTTATTACTATTATTA
Found at i:62712 original size:21 final size:20
Alignment explanation
Indices: 62649--62718 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
62639 TTACTATTGC
62649 TATTATTATTATATTTT-CT-
1 TATTATTATTAT-TTTTACTA
* *
62668 T-TT-TTATTACTATTACTA
1 TATTATTATTATTTTTACTA
*
62686 TATTATTTTTATTTTTACTA
1 TATTATTATTATTTTTACTA
62706 CTATTATTATTAT
1 -TATTATTATTAT
62719 CAATATTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 3 0.08
17 8 0.20
18 3 0.08
19 3 0.08
20 12 0.30
21 11 0.28
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTATTATTTTTACTA
Found at i:66093 original size:15 final size:16
Alignment explanation
Indices: 66073--66102 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
66063 ATGTACTTAT
66073 ATATATACAT-TAGAG
1 ATATATACATATAGAG
66088 ATATATACATATAGA
1 ATATATACATATAGA
66103 ATAAAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (16 bp):
ATATATACATATAGAG
Found at i:69445 original size:32 final size:32
Alignment explanation
Indices: 69404--69468 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
69394 AATGCTTACC
*
69404 ATGCCCATCATCCATTAACTATTAAAGTGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
69436 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
69468 A
1 A
69469 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:75853 original size:106 final size:106
Alignment explanation
Indices: 75717--75917 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
75707 AAAATTTTTC
75717 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
75782 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
*
75823 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
75888 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
75918 CTTAAAGCTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:80463 original size:32 final size:32
Alignment explanation
Indices: 80426--80490 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
80416 AATGCTTACC
80426 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
80458 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
80490 A
1 A
80491 AATGCATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:88332 original size:50 final size:50
Alignment explanation
Indices: 88208--88456 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
88198 GATAATAACA
* * ** * *
88208 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
88259 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
88309 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
88359 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
88414 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
88457 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:88386 original size:100 final size:104
Alignment explanation
Indices: 88207--88456 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
88197 TGATAATAAC
**
88207 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
88272 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
88309 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
88372 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
88414 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
88457 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:88572 original size:13 final size:13
Alignment explanation
Indices: 88551--88582 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
88541 GCTTGGATCA
*
88551 TCATCAAATAAAT
1 TCATAAAATAAAT
88564 TCATAAAATAAAT
1 TCATAAAATAAAT
88577 TCATAA
1 TCATAA
88583 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:88829 original size:30 final size:30
Alignment explanation
Indices: 88794--88851 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
88784 CCTCGACTCT
*
88794 AACTTTTTCAAAATTACAATTTTACCCCTA
1 AACTTTTACAAAATTACAATTTTACCCCTA
* * *
88824 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTACCCC
88852 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTACCCCTA
Found at i:90547 original size:15 final size:15
Alignment explanation
Indices: 90527--90557 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
90517 TTATGTTTTG
90527 TTTTGAATAAATAAA
1 TTTTGAATAAATAAA
*
90542 TTTTGAGTAAATAAA
1 TTTTGAATAAATAAA
90557 T
1 T
90558 AAATAAAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTTGAATAAATAAA
Found at i:91802 original size:11 final size:10
Alignment explanation
Indices: 91775--91801 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
91765 GTTTCTTTTA
91775 TTTTTTTAAC
1 TTTTTTTAAC
91785 TTTTTTTAAC
1 TTTTTTTAAC
91795 TTTTTTT
1 TTTTTTT
91802 TTCTTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTTAAC
Found at i:96107 original size:26 final size:26
Alignment explanation
Indices: 96076--96182 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
96066 TGAAATGCCC
*
96076 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
96102 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
96127 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
96153 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96179 ATCA
1 ATCA
96183 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 24 0.32
26 51 0.68
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:96146 original size:51 final size:52
Alignment explanation
Indices: 96076--96182 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
96066 TGAAATGCCC
96076 ATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
96127 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
96179 ATCA
1 ATCA
96183 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 29 0.55
52 24 0.45
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Done.