Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 127 of 204
Found at i:39290498 original size:16 final size:17
Alignment explanation
Indices: 39290479--39290523 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
39290469 CGGGATTTCC
39290479 TTCTTTTTCTCTCC-CT
1 TTCTTTTTCTCTCCTCT
*
39290495 TTCTTTCTC-CTTCCTCT
1 TTCTTTTTCTC-TCCTCT
39290512 TTC-TTTTCTCTC
1 TTCTTTTTCTCTC
39290524 TTTTTCGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.04
16 17 0.71
17 6 0.25
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (17 bp):
TTCTTTTTCTCTCCTCT
Found at i:39291631 original size:98 final size:98
Alignment explanation
Indices: 39291452--39291644 Score: 341
Period size: 98 Copynumber: 2.0 Consensus size: 98
39291442 GTACAATAAA
*
39291452 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
39291517 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
39291550 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
39291615 CCTTTAAAATCTCAAACTCGGAATATTTCC
66 CCTCTAAAATCCCAAACTCGGAATATTTCC
39291645 ATTATTATTT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:39292992 original size:19 final size:19
Alignment explanation
Indices: 39292968--39293080 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
39292958 AATCATATAT
39292968 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
39292987 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
39293006 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
39293025 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
39293046 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
39293065 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
39293081 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:39293055 original size:40 final size:40
Alignment explanation
Indices: 39292968--39293079 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
39292958 AATCATATAT
*
39292968 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
39293006 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
39293046 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
39293080 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:39293396 original size:44 final size:43
Alignment explanation
Indices: 39293294--39293798 Score: 324
Period size: 44 Copynumber: 11.6 Consensus size: 43
39293284 CTTCAATCTA
39293294 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
*
39293339 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTCCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTCTG
* *
39293383 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * * *
39293424 CT-CTCTGCAACTTCAGAGAGATAAGACCTGTG-ATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATCTTAGTCTG
* * * *
39293467 CTCTACTGCAACTTCAGGGAGATAGGATTATCGGC-T-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCATCTTAGTCTG
*
39293511 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
* * *
39293556 CTTCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTTG
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTC-TG
* * *
39293601 -TCCACCGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * * *** * * *
39293641 CT-CTCTGTAACTTCAGAGAGATAAAATCTAAAATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTTGCATCTTAGTCTG
* ** *
39293684 CTCCACTGCAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATC-TTAGTCTG
* * * * *
39293728 CTCCACTGCAACTTTAGGAAGATAAGATTTGCCATCTTCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTTAG-TCTG
* **
39293773 CTCCACTACTGCTT-AGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
39293799 TCTACAATCT
Statistics
Matches: 363, Mismatches: 66, Indels: 63
0.74 0.13 0.13
Matches are distributed among these distances:
40 43 0.12
41 15 0.04
42 11 0.03
43 18 0.05
44 186 0.51
45 90 0.25
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTAGTCTG
Found at i:39293405 original size:89 final size:86
Alignment explanation
Indices: 39293294--39293766 Score: 292
Period size: 84 Copynumber: 5.4 Consensus size: 86
39293284 CTTCAATCTA
39293294 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA-GGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTTCAGTCTG-CTCACTGCAACTTCAGGGA
39293358 GGATAAGACTTGCTTCCTTAGTCTG
64 -GATAAGACTTGCTT-CTTAGTCTG
* * * *
39293383 CTCCACTGCAACTTCAGGGAGATAAGACTAG-A--TGC-GATCTGCTCTCTGCAACTTCAGAGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTCAG-TCTGCTCACTGCAACTTCAGGGAG
* * *
39293444 ATAAGACCTGTGATT-TTAATCCG
65 ATAAGA-CT-TGCTTCTTAGTCTG
* * * ** * *
39293467 CTCTACTGCAACTTCAGGGAGATAGGA-TTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCATCTTCAGTCTGCT-CACTGCAACTTCAGGGA
* *
39293531 GATAAGATTTGCCATCTTCAGTCTG
64 GATAAGACTTG-CTTCTT-AGTCTG
* * * *
39293556 CTTCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTT-AGTCTTG-TCCACCGCAACTTCAGG
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTCAGTC-TGCT-CACTGCAACTTCAGG
* * * *
39293618 GAGATAAGACTAGATGC-GA-TCTG
62 GAGATAAGACTTGCTTCTTAGTCTG
* * * * *** * * *
39293641 CT-CTCTGTAACTTCAGAGAGATAAAATCTAAAAT-TTTAATCCGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTTGCATCTTCAGTCTGCT-CACTGCAACTTCAGGGA
* ** *
39293704 GATAGGA-TTGTCGGCTTTAATCTG
64 GATAAGACTTG-CTTC-TTAGTCTG
* * *
39293728 CTCCACTGCAACTTTAGGAAGATAAGATTTGCCATCTTC
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTTC
39293767 GATCTACTCC
Statistics
Matches: 293, Mismatches: 63, Indels: 56
0.71 0.15 0.14
Matches are distributed among these distances:
83 6 0.02
84 100 0.34
85 21 0.07
86 8 0.03
87 17 0.06
88 48 0.16
89 86 0.29
90 7 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (86 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTCAGTCTGCTCACTGCAACTTCAGGGAGA
TAAGACTTGCTTCTTAGTCTG
Found at i:39293627 original size:217 final size:217
Alignment explanation
Indices: 39293288--39293766 Score: 798
Period size: 217 Copynumber: 2.2 Consensus size: 217
39293278 TTAGTACTTC
* *
39293288 AATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
* *
39293353 CAGGAGGATAAGACTTGCTTCCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGC
66 CAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
* *** *
39293418 GATCTGCTCTCTGCAACTTCAGAGAGATAAGACCTGTGATTTTAATCCGCTCTACTGCAACTTCA
131 GATCTGCTCTCTGCAACTTCAGAGAGATAAAACCTAAAATTTTAATCCGCTCCACTGCAACTTCA
39293483 GGGAGATAGGATTATCGGCTTT
196 GGGAGATAGGATTATCGGCTTT
* *
39293505 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTTCACTGTAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
39293570 CAGGAGGATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACTAGATG
66 CAGGAGGATAAGACTTGCTTACTTAGTC-TGCTCCACCGCAACTTCAGGGAGATAAGACTAGATG
* *
39293634 CGATCTGCTCTCTGTAACTTCAGAGAGATAAAATCTAAAATTTTAATCCGCTCCACTGCAACTTC
130 CGATCTGCTCTCTGCAACTTCAGAGAGATAAAACCTAAAATTTTAATCCGCTCCACTGCAACTTC
*
39293699 AGGGAGATAGGATTGTCGGCTTT
195 AGGGAGATAGGATTATCGGCTTT
* *
39293722 AATCTGCTCCACTGCAACTTTAGGAAGATAAGATTTGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
39293767 GATCTACTCC
Statistics
Matches: 245, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
217 243 0.99
218 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (217 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
CAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
GATCTGCTCTCTGCAACTTCAGAGAGATAAAACCTAAAATTTTAATCCGCTCCACTGCAACTTCA
GGGAGATAGGATTATCGGCTTT
Found at i:39293882 original size:132 final size:132
Alignment explanation
Indices: 39293746--39294339 Score: 990
Period size: 132 Copynumber: 4.5 Consensus size: 132
39293736 CAACTTTAGG
* * *
39293746 AAGATAAGATTTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* *
39293811 AACCTACTCCGCTGCTGCTCAGGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
39293876 GA
131 GA
* * *
39293878 AAGATAAGATTCGTCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAATATCTACAATCTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
39293943 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
39294008 GA
131 GA
* * * * * *
39294010 AATATAAGATTCGCTGTCTTCAATCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAATTTTT
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* *
39294075 AACTTTCTCCGCTGCTGCTCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
39294140 GA
131 GA
* *
39294142 AAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATATTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
*
39294207 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATTTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
39294272 GA
131 GA
* * *
39294274 AAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATTTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
39294339 A
66 A
39294340 CTGATCTGTT
Statistics
Matches: 433, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 433 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
GA
Found at i:39294061 original size:44 final size:44
Alignment explanation
Indices: 39293722--39294327 Score: 151
Period size: 44 Copynumber: 13.8 Consensus size: 44
39293712 TGTCGGCTTT
* ** * * **
39293722 AATCTGCTCCACTGCAACTTTAGGAAGATAAGATTTGCCATCTTC
1 AATCTGCTCCACTACTGC-TTAGGGAGATAAGATTCGCTGTCTTC
* * * **
39293767 GATCTACTCCACTACTGCTTAGGGAGATAAGA-TCTACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCTGTCTTC
* * * * * * * * * * *
39293811 AACCTACTCCGCTGCTGCTCAGGGAAACAAGGCTT-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAA-GATTCGCTGTCTTC
*
39293855 AATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCG-TCGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTCGCT-GTCTTC
* * * * **
39293899 GATCTACTCCACTACTGCTTAGGGAGATAATA-TCTACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCTGTCTTC
* * * * * * * * * *
39293943 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTT-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAA-GATTCGCTGTCTTC
* *
39293987 AATCTGCTTCCCACTA-T-CTT-GGAAATATAAGATTCGCTGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTCGCTGTCTTC
* ** *
39294031 AATCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAAT-T-TTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CGCTGTCTTC
* * * * * * * *
39294075 AA-CTTTCTCCGCTGCTGCTCAGGGAGACAAGACTT-GGTGGCTTA
1 AATC-TGCTCCACTACTGCTTAGGGAGATAAGA-TTCGCTGTCTTC
*
39294119 AATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCGCTGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTCGCTGTCTTC
* * ** *
39294163 GATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTACAATATTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCTGTCTTC
* * * * * * * * * *
39294207 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTT-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAA-GATTCGCTGTCTTC
* * * *
39294251 AATTTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCACCGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTCGCTGTCTTC
* *
39294295 GATCTGCTCCACTACTGTTTAGGGAGATAAGAT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT
39294328 CTACAATTTT
Statistics
Matches: 383, Mismatches: 132, Indels: 93
0.63 0.22 0.15
Matches are distributed among these distances:
42 24 0.06
43 34 0.09
44 269 0.70
45 35 0.09
46 21 0.05
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCTGTCTTC
Found at i:39295569 original size:5 final size:6
Alignment explanation
Indices: 39295547--39295591 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
39295537 TTGGCCTCTC
* *
39295547 CTTTTA CTTTTT CTTTTT CTTTTTT CCTTTTT CCTTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT C-TTTTT -CTTTTT CTTTTT CTTTTT C
39295592 CTCTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 23 0.68
7 10 0.29
8 1 0.03
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:39295576 original size:20 final size:19
Alignment explanation
Indices: 39295548--39295603 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
39295538 TGGCCTCTCC
*
39295548 TTTTACTTTTTCTTTTTCTT
1 TTTTCCTTTTTCTTTTTC-T
*
39295568 TTTTCCTTTTTCCTTTTCT
1 TTTTCCTTTTTCTTTTTCT
39295587 TTTTCCTCTTTT-TTTTT
1 TTTTCCT-TTTTCTTTTT
39295604 GAAATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.38
20 20 0.62
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCCTTTTTCTTTTTCT
Found at i:39295592 original size:12 final size:12
Alignment explanation
Indices: 39295555--39295602 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
39295545 TCCTTTTACT
*
39295555 TTTTCTTTTTCTT
1 TTTTCTTTTTC-C
39295568 TTTTCCTTTTTCC
1 TTTT-CTTTTTCC
39295581 TTTTCTTTTTCC
1 TTTTCTTTTTCC
39295593 TCTTT-TTTTT
1 T-TTTCTTTTT
39295603 TGAAATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.44
13 11 0.34
14 7 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTTTTCC
Found at i:39295597 original size:14 final size:13
Alignment explanation
Indices: 39295555--39295603 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
39295545 TCCTTTTACT
*
39295555 TTTTCTTTTTCTT
1 TTTTCTTTTTCTC
39295568 TTTTCCTTTTTC-C
1 TTTT-CTTTTTCTC
39295581 TTTTCTTTTTCCTC
1 TTTTCTTTTT-CTC
39295595 TTTT-TTTTT
1 TTTTCTTTTT
39295604 GAAATATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.19
13 14 0.44
14 12 0.38
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTTCTC
Found at i:39298675 original size:13 final size:13
Alignment explanation
Indices: 39298657--39298684 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39298647 CACTTTATCA
39298657 AAAAACTAAATTG
1 AAAAACTAAATTG
39298670 AAAAACTAAATTG
1 AAAAACTAAATTG
39298683 AA
1 AA
39298685 TTACAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AAAAACTAAATTG
Found at i:39299224 original size:19 final size:19
Alignment explanation
Indices: 39299200--39299312 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
39299190 AATCATATAT
39299200 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
39299219 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
39299238 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
39299257 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
39299278 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
39299297 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
39299313 CTCAAAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 67 0.80
21 17 0.20
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:39299287 original size:40 final size:40
Alignment explanation
Indices: 39299200--39299311 Score: 192
Period size: 40 Copynumber: 2.9 Consensus size: 40
39299190 AATCATATAT
39299200 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
39299238 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
39299278 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
39299312 CCTCAAAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
38 28 0.40
40 42 0.60
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:39299293 original size:59 final size:56
Alignment explanation
Indices: 39299193--39299312 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 56
39299183 ATTACAAAAT
*
39299193 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
** *
39299248 CATATCATATCTAAGATTGCATATATCATATCTTGGATTGCATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
39299307 CATATC
1 CATATC
39299313 CTCAAAAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
55 5 0.09
56 2 0.04
57 11 0.19
59 39 0.68
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (56 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:39304614 original size:18 final size:18
Alignment explanation
Indices: 39304593--39304628 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
39304583 ATTATTTATA
39304593 GTGTAATATATAAAACTT
1 GTGTAATATATAAAACTT
39304611 GTGTAATATATAAAACTT
1 GTGTAATATATAAAACTT
39304629 AGTAATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (18 bp):
GTGTAATATATAAAACTT
Found at i:39304641 original size:18 final size:18
Alignment explanation
Indices: 39304595--39304634 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
39304585 TATTTATAGT
*
39304595 GTAATATATAAAACTTGT
1 GTAATATATAAAACTTGA
39304613 GTAATATATAAAACTT-A
1 GTAATATATAAAACTTGA
39304630 GTAAT
1 GTAAT
39304635 CTAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (18 bp):
GTAATATATAAAACTTGA
Found at i:39311416 original size:15 final size:16
Alignment explanation
Indices: 39311384--39311417 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
39311374 ATTTCATCTC
*
39311384 ATTTGCATTTAGGTTA
1 ATTTGCATCTAGGTTA
39311400 ATTTGCATCTA-GTTA
1 ATTTGCATCTAGGTTA
39311415 ATT
1 ATT
39311418 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (16 bp):
ATTTGCATCTAGGTTA
Found at i:39312974 original size:187 final size:187
Alignment explanation
Indices: 39312659--39313034 Score: 583
Period size: 187 Copynumber: 2.0 Consensus size: 187
39312649 AAAATAAACA
* * * *
39312659 GAAAACTAAATTCTATAAAGAAAACTAATAATATCCAAAGCTATCCATAACAAGTGTTATATGAG
1 GAAAACTAAACTCTACAAAAAAAACTAATAATATCCAAAGCTATCCATAACAAGTGTTAAATGAG
* *
39312724 TCTACTTATAGATTTAGGGTTACCGTTATCGTCAACCCTAGGTCTGCTAACGTTCTTGTGTTAAA
66 TCTACTTATAGATTTAGGGTTACCGTTATCCTCAACCCTAGGTCTGCTAACGTTCTCGTGTTAAA
*
39312789 CATTTGATTGTGCAGACCAAAACACCCCTAGCTCGTAAGTGTTTCTCGTACAGGACC
131 CATTTGATTGTGCAGACCAAAACACCCCTAGCTCGTAAGTGTTTATCGTACAGGACC
*
39312846 GAAAACTAAACTCTACAAAAAAAACTAATAATATCCAAAGCTATCCATAACAATTGTTAAATGAG
1 GAAAACTAAACTCTACAAAAAAAACTAATAATATCCAAAGCTATCCATAACAAGTGTTAAATGAG
* * ** * * *
39312911 TCTATTTATGGATTTAGGGTTGTCGTTATCCTCAGCCCTAGGT-TAGCTGATGTTCTCGTGTTAA
66 TCTACTTATAGATTTAGGGTTACCGTTATCCTCAACCCTAGGTCT-GCTAACGTTCTCGTGTTAA
* *
39312975 ACATTTGATTGTGCAGACCAAAACAGCCCTAGCTCGTAAGTGTTTATTGTACAGGACC
130 ACATTTGATTGTGCAGACCAAAACACCCCTAGCTCGTAAGTGTTTATCGTACAGGACC
39313033 GA
1 GA
39313035 TGTCACGATG
Statistics
Matches: 171, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
186 1 0.01
187 170 0.99
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (187 bp):
GAAAACTAAACTCTACAAAAAAAACTAATAATATCCAAAGCTATCCATAACAAGTGTTAAATGAG
TCTACTTATAGATTTAGGGTTACCGTTATCCTCAACCCTAGGTCTGCTAACGTTCTCGTGTTAAA
CATTTGATTGTGCAGACCAAAACACCCCTAGCTCGTAAGTGTTTATCGTACAGGACC
Found at i:39319592 original size:17 final size:17
Alignment explanation
Indices: 39319559--39319606 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
39319549 CATTGTCCCC
*
39319559 AATGCACTGAC-ATGAA
1 AATGCAATGACAATGAA
*
39319575 AATGTAATGACAATGAA
1 AATGCAATGACAATGAA
39319592 AATGCAATGACAATG
1 AATGCAATGACAATG
39319607 TATACTTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:39323459 original size:394 final size:394
Alignment explanation
Indices: 39322731--39323522 Score: 1413
Period size: 394 Copynumber: 2.0 Consensus size: 394
39322721 GAATAAATAC
* *
39322731 GACTCGTTCCAATGATACTTCATTACGTCATGAAGAAATCTTTCTTTTTTATGACCCTTGAGGGG
1 GACTCGTTCCAATGATACTTCACTACGTCACGAAGAAATCTTTCTTTTTTATGACCCTTGAGGGG
*
39322796 AGCTTACCATACACCAAGTAATCAACCAAATCTGCATACCAAGGAGTTACATCGACAACGAATAA
66 AGCTTACCACACACCAAGTAATCAACCAAATCTGCATACCAAGGAGTTACATCGACAACGAATAA
* * *
39322861 CATCTCATCTGGGAATATGTCGACAATTGGAAGTATTTTCTCATCTTCGCTGCCAACTTCTAATC
131 CATCTCATCTGGAAATATGTCGACAACTGGAAGTATTTTCCCATCTTCGCTGCCAACTTCTAATC
*
39322926 TAGACAAATGATCGGCAACTTGATTCTCTGATCCCTTTCGATCTTTTATCTTGATGCCAAATTCT
196 TAGACAAATGATCGGCAACTTGATTCTCTGACCCCTTTCGATCTTTTATCTTGATGCCAAATTCT
* *
39322991 TGCAACAATAATATCCACCGTATCGGTCTTGGTTTGGCATCTTTTTTTGCAAATAGATATCGCAA
261 TGCAACAATAATATCCACCGTATCGATCTTGGTTTGGCATCTTTTTTTGCAAATAGATATCACAA
* *
39323056 TGCAAAATGATCAGTGAATACCATAATTTTTGCGCCGACAAGATAAGAGTGAAACTTGTCAAAGG
326 TGCAAAATGATCAATGAATACCATAATTTTTGCACCGACAAGATAAGAGTGAAACTTGTCAAAGG
39323121 CAAA
391 CAAA
* * *
39323125 GACTCGTTCCAATGATACTTCACTATGTCACGAAGAAATCTTTCTTTTTTATGGCCCTTGATGGG
1 GACTCGTTCCAATGATACTTCACTACGTCACGAAGAAATCTTTCTTTTTTATGACCCTTGAGGGG
*
39323190 AGCTTACCACACACCAAGTAATCAACCAAATCTGCATACCAAGGAGTTACATCGACAATGAATAA
66 AGCTTACCACACACCAAGTAATCAACCAAATCTGCATACCAAGGAGTTACATCGACAACGAATAA
*
39323255 CATCTCATCTGGAAATATGTCGACGACTGGAAGTATTTTCCCATCTTCGCTGCCAACTTCTAATC
131 CATCTCATCTGGAAATATGTCGACAACTGGAAGTATTTTCCCATCTTCGCTGCCAACTTCTAATC
*
39323320 TAGACAAATGATCGGCAACTTGATTCTCTGACCCCTTTCGATCTTTTATCTTGATGTCAAATTCT
196 TAGACAAATGATCGGCAACTTGATTCTCTGACCCCTTTCGATCTTTTATCTTGATGCCAAATTCT
39323385 TGCAACAATAATATCCACCGTATCGATCTTGGTTTGGCATCTTTTTTTGCAAATAGATATCACAA
261 TGCAACAATAATATCCACCGTATCGATCTTGGTTTGGCATCTTTTTTTGCAAATAGATATCACAA
* *
39323450 TGCAAAATGATCAATGAATACCGTAATTTTTTCACCGACAAGATAAGAGTGAAACTTGTCAAAGG
326 TGCAAAATGATCAATGAATACCATAATTTTTGCACCGACAAGATAAGAGTGAAACTTGTCAAAGG
39323515 CAAA
391 CAAA
39323519 GACT
1 GACT
39323523 ACAACCAACA
Statistics
Matches: 379, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
394 379 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (394 bp):
GACTCGTTCCAATGATACTTCACTACGTCACGAAGAAATCTTTCTTTTTTATGACCCTTGAGGGG
AGCTTACCACACACCAAGTAATCAACCAAATCTGCATACCAAGGAGTTACATCGACAACGAATAA
CATCTCATCTGGAAATATGTCGACAACTGGAAGTATTTTCCCATCTTCGCTGCCAACTTCTAATC
TAGACAAATGATCGGCAACTTGATTCTCTGACCCCTTTCGATCTTTTATCTTGATGCCAAATTCT
TGCAACAATAATATCCACCGTATCGATCTTGGTTTGGCATCTTTTTTTGCAAATAGATATCACAA
TGCAAAATGATCAATGAATACCATAATTTTTGCACCGACAAGATAAGAGTGAAACTTGTCAAAGG
CAAA
Found at i:39332519 original size:37 final size:38
Alignment explanation
Indices: 39332455--39332542 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 38
39332445 GTGCTGAGGT
* *
39332455 GTGTTATCGGTCGGGTTTAGCTCTTATGAGTGTTTGGC
1 GTGTTATCGGTTGGGTTTAGCTCTTATGAGCGTTTGGC
*
39332493 GTGTTATTGGTTGGG-TTAGCTCTTATGAGCGTTTGGC
1 GTGTTATCGGTTGGGTTTAGCTCTTATGAGCGTTTGGC
39332530 GTGTT-TCGGTTGG
1 GTGTTATCGGTTGG
39332543 ACTACTTGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 7 0.15
37 26 0.57
38 13 0.28
ACGTcount: A:0.09, C:0.11, G:0.36, T:0.43
Consensus pattern (38 bp):
GTGTTATCGGTTGGGTTTAGCTCTTATGAGCGTTTGGC
Found at i:39342692 original size:26 final size:26
Alignment explanation
Indices: 39342620--39342685 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
39342610 AGCGAGCCAT
**
39342620 ATCGGGAAGCTC-CGAAGAGCCATTA
1 ATCGGGAAGCTCACGAAGAGCTTTTA
* **
39342645 ATCAGGAAGCTCATAAAGAGCTTTTA
1 ATCGGGAAGCTCACGAAGAGCTTTTA
39342671 ATCGGGAAGCTCACG
1 ATCGGGAAGCTCACG
39342686 GAAAGCTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (26 bp):
ATCGGGAAGCTCACGAAGAGCTTTTA
Found at i:39351042 original size:31 final size:31
Alignment explanation
Indices: 39351013--39351564 Score: 267
Period size: 31 Copynumber: 18.0 Consensus size: 31
39351003 TATATATATT
* *
39351013 CATATACGAACCAAATTCGGCAATGTATATC
1 CATATACGAATCAAATTCGGCAATGTATAAC
* *
39351044 TATATA-GAAATC-AATTCGGCAATGTACAAC
1 CATATACG-AATCAAATTCGGCAATGTATAAC
* * *
39351074 CATATATGAATCAAGTTCGGCAATGTATAAT
1 CATATACGAATCAAATTCGGCAATGTATAAC
* * **
39351105 CATATACAAATTAAATTTAGCAATGTATAAC
1 CATATACGAATCAAATTCGGCAATGTATAAC
* * *
39351136 CATATACGAA-CCAATTCAGCAACT-TATATC
1 CATATACGAATCAAATTCGGCAA-TGTATAAC
**
39351166 CATATAC-AATTC-AATTCCAACAATGTATAAC
1 CATATACGAA-TCAAATT-CGGCAATGTATAAC
* * * * * * *
39351197 CATGTACAAATTAATTTCAGCAATATATAAT
1 CATATACGAATCAAATTCGGCAATGTATAAC
* ** *
39351228 CATATACAAATC-AATTCAACAACT-TATATC
1 CATATACGAATCAAATTCGGCAA-TGTATAAC
* ** *
39351258 CATATAC-AATTCAATTTCAACAATGCATAAC
1 CATATACGAA-TCAAATTCGGCAATGTATAAC
* * * ** *
39351289 CATATACAAATTAATTTTAGCAATGTACAAC
1 CATATACGAATCAAATTCGGCAATGTATAAC
* *
39351320 CATATATGAATC-AATTCGGCAACT-TATATC
1 CATATACGAATCAAATTCGGCAA-TGTATAAC
* * **
39351350 CAGATAC-AATTCAATTTCAACAATGTATAAC
1 CATATACGAA-TCAAATTCGGCAATGTATAAC
* * * * *
39351381 CATGTAC-ACATTAATTTCAGCAATGTATAAT
1 CATATACGA-ATCAAATTCGGCAATGTATAAC
* *
39351412 CATATACAAATC-AATTCGGCAACT-TATATC
1 CATATACGAATCAAATTCGGCAA-TGTATAAC
* **
39351442 CATATAC-AATTCAATTTCAACAATGTATAAC
1 CATATACGAA-TCAAATTCGGCAATGTATAAC
* * * * * *
39351473 CATATACAAATTAATTTCAGCAATGTAAAAT
1 CATATACGAATCAAATTCGGCAATGTATAAC
* * * *
39351504 CATATACAAAT-TAATTTGGCAACT-TATATC
1 CATATACGAATCAAATTCGGCAA-TGTATAAC
* * * *
39351534 CATATGCAAATCAATTTCGACAATGTATAAC
1 CATATACGAATCAAATTCGGCAATGTATAAC
39351565 TATAAACAAT
Statistics
Matches: 404, Mismatches: 88, Indels: 58
0.73 0.16 0.11
Matches are distributed among these distances:
29 8 0.02
30 136 0.34
31 249 0.62
32 11 0.03
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (31 bp):
CATATACGAATCAAATTCGGCAATGTATAAC
Found at i:39351169 original size:92 final size:92
Alignment explanation
Indices: 39351032--39351573 Score: 714
Period size: 92 Copynumber: 5.9 Consensus size: 92
39351022 ACCAAATTCG
* * * * * **
39351032 GCAATGTAT-ATCTATATAGAAATCAATTCGGCAA-TGTACAACCATATATGAA-TCAAGTTCGG
1 GCAATGTATAATC-ATATACAAATCAATTCGGCAACT-TATATCCATATA-CAATTCAATTTCAA
*
39351094 CAATGTATAATCATATACAAATTAAATTT-A
63 CAATGTATAACCATATACAAATT-AATTTCA
* * * * *
39351124 GCAATGTATAACCATATACGAACCAATTCAGCAACTTATATCCATATACAATTCAATTCCAACAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
*
39351189 TGTATAACCATGTACAAATTAATTTCA
66 TGTATAACCATATACAAATTAATTTCA
* **
39351216 GCAATATATAATCATATACAAATCAATTCAACAACTTATATCCATATACAATTCAATTTCAACAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
* *
39351281 TGCATAACCATATACAAATTAATTTTA
66 TGTATAACCATATACAAATTAATTTCA
* * ** *
39351308 GCAATGTACAACCATATATGAATCAATTCGGCAACTTATATCCAGATACAATTCAATTTCAACAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
* *
39351373 TGTATAACCATGTACACATTAATTTCA
66 TGTATAACCATATACAAATTAATTTCA
39351400 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
39351465 TGTATAACCATATACAAATTAATTTCA
66 TGTATAACCATATACAAATTAATTTCA
* * * * * *
39351492 GCAATGTAAAATCATATACAAATTAATTTGGCAACTTATATCCATATGCAAATCAATTTCGACAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
* *
39351557 TGTATAACTATAAACAA
66 TGTATAACCATATACAA
39351574 TTCGAATTCG
Statistics
Matches: 396, Mismatches: 50, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
91 7 0.02
92 386 0.97
93 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.31
Consensus pattern (92 bp):
GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
TGTATAACCATATACAAATTAATTTCA
Found at i:39351537 original size:61 final size:62
Alignment explanation
Indices: 39351032--39351560 Score: 312
Period size: 61 Copynumber: 8.6 Consensus size: 62
39351022 ACCAAATTCG
* * * * * ** * **
39351032 GCAA-TGTATATCTATATAGAAATCAA-TTCGGCAATGTACAACCATATATGAATCAAGTTCG
1 GCAACTGTATATCCATATACAAATTAATTTCAGCAATGTAAAACCATATACAAATTAA-TTTA
* * ** *
39351093 GCAA-TGTATAAT-CATATACAAATTAAATTT-AGCAATGTATAACCATATACGAACCAATTCA
1 GCAACTGTAT-ATCCATATACAAATT-AATTTCAGCAATGTAAAACCATATACAAATTAATTTA
* * * *
39351154 GCAACT-TATATCCATATAC-AATTCAATTCCAACAATGTATAACCATGTACAAATTAATTTCA
1 GCAACTGTATATCCATATACAAATT-AATTTCAGCAATGTAAAACCATATACAAATTAATTT-A
* * * * *
39351216 GCAA-TATATAAT-CATATACAAATCAA-TTCAACAACT-TATATCCATATAC-AATTCAATTTC
1 GCAACTGTAT-ATCCATATACAAATTAATTTCAGCAA-TGTAAAACCATATACAAATT-AATTT-
39351276 A
62 A
* * * * * ** * **
39351277 ACAA-TGCATAACCATATACAAATTAATTTTAGCAATGTACAACCATATATGAATCAATTCG
1 GCAACTGTATATCCATATACAAATTAATTTCAGCAATGTAAAACCATATACAAATTAATTTA
* * * * *
39351338 GCAACT-TATATCCAGATAC-AATTCAATTTCAACAATGTATAACCATGTACACATTAATTTCA
1 GCAACTGTATATCCATATACAAATT-AATTTCAGCAATGTAAAACCATATACAAATTAATTT-A
* * * *
39351400 GCAA-TGTATAAT-CATATACAAATCAA-TTCGGCAACT-TATATCCATATAC-AATTCAATTTC
1 GCAACTGTAT-ATCCATATACAAATTAATTTCAGCAA-TGTAAAACCATATACAAATT-AATTT-
39351460 A
62 A
* * * *
39351461 ACAA-TGTATAACCATATACAAATTAATTTCAGCAATGTAAAATCATATACAAATTAATTTG
1 GCAACTGTATATCCATATACAAATTAATTTCAGCAATGTAAAACCATATACAAATTAATTTA
* *
39351522 GCAACT-TATATCCATATGCAAATCAATTTC-GACAATGTA
1 GCAACTGTATATCCATATACAAATTAATTTCAG-CAATGTA
39351561 TAACTATAAA
Statistics
Matches: 372, Mismatches: 66, Indels: 60
0.75 0.13 0.12
Matches are distributed among these distances:
60 24 0.06
61 223 0.60
62 106 0.28
63 19 0.05
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.31
Consensus pattern (62 bp):
GCAACTGTATATCCATATACAAATTAATTTCAGCAATGTAAAACCATATACAAATTAATTTA
Found at i:39354319 original size:15 final size:15
Alignment explanation
Indices: 39354301--39354482 Score: 93
Period size: 15 Copynumber: 12.3 Consensus size: 15
39354291 TTAATATAAT
39354301 TATTTTATATTAAAA
1 TATTTTATATTAAAA
*
39354316 TATTTTAT-TT-TAA
1 TATTTTATATTAAAA
39354329 -A--TTATATTAAAA
1 TATTTTATATTAAAA
* **
39354341 TATTTTTTAGTT-TTA
1 TATTTTATA-TTAAAA
39354356 TATTAAATTATATTAAAA
1 TATT---TTATATTAAAA
*
39354374 TATTTTATTTTAAATTA
1 TATTTTATATTAAA--A
* *
39354391 TACTTTGA-AATAAAA
1 TA-TTTTATATTAAAA
39354406 TATTTTATATT--AA
1 TATTTTATATTAAAA
39354419 -A--TTATATTAAAA
1 TATTTTATATTAAAA
*
39354431 TATTTTATTTTAAATTA
1 TATTTTATATTAAA--A
* *
39354448 TACTTTGA-AATAAAA
1 TA-TTTTATATTAAAA
39354463 TATTTTATATTAAAA
1 TATTTTATATTAAAA
39354478 TATTT
1 TATTT
39354483 CAAATATTTT
Statistics
Matches: 124, Mismatches: 20, Indels: 46
0.65 0.11 0.24
Matches are distributed among these distances:
10 11 0.09
11 2 0.02
12 6 0.05
13 6 0.05
14 10 0.08
15 54 0.44
16 2 0.02
17 16 0.13
18 17 0.14
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTTATATTAAAA
Found at i:39354339 original size:25 final size:25
Alignment explanation
Indices: 39354305--39354449 Score: 146
Period size: 25 Copynumber: 5.2 Consensus size: 25
39354295 TATAATTATT
39354305 TTATATTAAAATATTTTATTTTAAA
1 TTATATTAAAATATTTTATTTTAAA
39354330 TTATATTAAAATATTTTTTAGTTTTATATTAAA
1 TTATATTAAAATA--TTTTA----T-T-TTAAA
39354363 TTATATTAAAATATTTTATTTTAAA
1 TTATATTAAAATATTTTATTTTAAA
*
39354388 TTATACTTTGAAATAAAATATTTTATATTAAA
1 TTATA---T----TAAAATATTTTATTTTAAA
39354420 TTATATTAAAATATTTTATTTTAAA
1 TTATATTAAAATATTTTATTTTAAA
39354445 TTATA
1 TTATA
39354450 CTTTGAAATA
Statistics
Matches: 103, Mismatches: 2, Indels: 30
0.76 0.01 0.22
Matches are distributed among these distances:
25 46 0.45
26 1 0.01
27 6 0.06
28 1 0.01
29 1 0.01
31 6 0.06
32 24 0.23
33 18 0.17
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
TTATATTAAAATATTTTATTTTAAA
Found at i:39354410 original size:32 final size:32
Alignment explanation
Indices: 39354369--39354476 Score: 149
Period size: 32 Copynumber: 3.6 Consensus size: 32
39354359 TAAATTATAT
*
39354369 TAAAATATTTTATTTTAAATTATACTTTGAAA
1 TAAAATATTTTATATTAAATTATACTTTGAAA
39354401 TAAAATATTTTATATTAAATTATA---T----
1 TAAAATATTTTATATTAAATTATACTTTGAAA
*
39354426 TAAAATATTTTATTTTAAATTATACTTTGAAA
1 TAAAATATTTTATATTAAATTATACTTTGAAA
39354458 TAAAATATTTTATATTAAA
1 TAAAATATTTTATATTAAA
39354477 ATATTTCAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 14
0.80 0.04 0.17
Matches are distributed among these distances:
25 23 0.35
28 1 0.02
29 1 0.02
32 41 0.62
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (32 bp):
TAAAATATTTTATATTAAATTATACTTTGAAA
Found at i:39354499 original size:57 final size:57
Alignment explanation
Indices: 39354305--39354497 Score: 284
Period size: 57 Copynumber: 3.4 Consensus size: 57
39354295 TATAATTATT
* ***
39354305 TTATATTAAAATATTTTATTTTAAATTATA--TTAAAATATTTTTTAGTTTTATATTAAA
1 TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATA--AAATA-TTTTATATTAAA
39354363 TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATAAAATATTTTATATTAAA
1 TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATAAAATATTTTATATTAAA
39354420 TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATAAAATATTTTATATTAAA
1 TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATAAAATATTTTATATTAAA
* *
39354477 ATAT-TTCAAATATTTTATTTT
1 TTATATTAAAATATTTTATTTT
39354498 TATATTTTCC
Statistics
Matches: 127, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
56 16 0.13
57 72 0.57
58 32 0.25
60 7 0.06
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (57 bp):
TTATATTAAAATATTTTATTTTAAATTATACTTTGAAATAAAATATTTTATATTAAA
Found at i:39360709 original size:15 final size:15
Alignment explanation
Indices: 39360689--39360719 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39360679 ATTAATTAAT
39360689 TATGATGTCATCGCA
1 TATGATGTCATCGCA
39360704 TATGATGTCATCGCA
1 TATGATGTCATCGCA
39360719 T
1 T
39360720 GTCGATGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (15 bp):
TATGATGTCATCGCA
Found at i:39366554 original size:24 final size:26
Alignment explanation
Indices: 39366513--39366571 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
39366503 AACAAAAAAA
*
39366513 AAACACAAATATCATAAA-AAAATATC
1 AAACTCAAATAT-ATAAATAAAATATC
* *
39366539 AAACTCAAATAT-TAAATAATATATT
1 AAACTCAAATATATAAATAAAATATC
39366564 AAA-TCAAA
1 AAACTCAAA
39366572 AAAGAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 9 0.31
25 9 0.31
26 11 0.38
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.25
Consensus pattern (26 bp):
AAACTCAAATATATAAATAAAATATC
Found at i:39368309 original size:66 final size:66
Alignment explanation
Indices: 39368199--39368376 Score: 209
Period size: 66 Copynumber: 2.7 Consensus size: 66
39368189 GAAAAATCAA
* * *
39368199 ATACCG-GATCTTTCCAAGCTCTTGAACGAGATATCAGGTCTTCTCAATCC-CAAGCTCCTAAAC
1 ATACCGAG-TCTTTCCAAGCTCCTGAACAAGATATCAGGTCTTCTCAA-CCTCAAGATCCTAAAC
**
39368262 GTG
64 AAG
** * * *
39368265 ATACCGAGTCTTTCCAAGCTCCTGAATTAGATATCAGGTTTTCTCAACCTCAAGATCCTGAATAA
1 ATACCGAGTCTTTCCAAGCTCCTGAACAAGATATCAGGTCTTCTCAACCTCAAGATCCTAAACAA
39368330 G
66 G
*
39368331 ATATCGAGT-TTTCCCAAGCTCCTGAACAAGATATCAGGTCTTCTCA
1 ATACCGAGTCTTT-CCAAGCTCCTGAACAAGATATCAGGTCTTCTCA
39368377 GGTTTCTGAA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
65 5 0.05
66 90 0.94
67 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (66 bp):
ATACCGAGTCTTTCCAAGCTCCTGAACAAGATATCAGGTCTTCTCAACCTCAAGATCCTAAACAA
G
Found at i:39371656 original size:34 final size:32
Alignment explanation
Indices: 39371595--39371665 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 32
39371585 GTAAGGTTAT
* *
39371595 ATTTTGTTTTTTTATTAAAAATAAATTAATTA
1 ATTTTGTTGTTTAATTAAAAATAAATTAATTA
*
39371627 ATTTTGTATGTTTAATTAAAGAGTAAATTAATTA
1 ATTTTGT-TGTTTAATTAAA-AATAAATTAATTA
*
39371661 TTTTT
1 ATTTT
39371666 TATTATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 7 0.21
33 10 0.30
34 16 0.48
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (32 bp):
ATTTTGTTGTTTAATTAAAAATAAATTAATTA
Found at i:39371664 original size:33 final size:31
Alignment explanation
Indices: 39371594--39371664 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 31
39371584 AGTAAGGTTA
* *
39371594 TATTTTGTTTTTTTATTAAAAATAAATTAAT
1 TATTTTGTTGTTTAATTAAAAATAAATTAAT
*
39371625 TAATTTTGTATGTTTAATTAAAGAGTAAATTAAT
1 T-ATTTTGT-TGTTTAATTAAA-AATAAATTAAT
39371659 TATTTT
1 TATTTT
39371665 TTATTATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 1 0.03
32 7 0.21
33 15 0.44
34 11 0.32
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (31 bp):
TATTTTGTTGTTTAATTAAAAATAAATTAAT
Found at i:39372771 original size:23 final size:23
Alignment explanation
Indices: 39372746--39372789 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
39372736 ACTTTTTATA
*
39372746 AAAATATTTAAAAA-TTTAAAAG
1 AAAATATATAAAAATTTTAAAAG
39372768 AAAATATATAAAAATTTTAAAA
1 AAAATATATAAAAATTTTAAAA
39372790 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATATATAAAAATTTTAAAAG
Found at i:39372799 original size:29 final size:29
Alignment explanation
Indices: 39372741--39372807 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 29
39372731 AATGTACTTT
39372741 TTATAAAAATATTTAAAAATTTAAAAGAAAA
1 TTATAAAAATATTTAAAAA-TTAAAAG-AAA
39372772 TATATAAAAAT-TTTAAAAA-TAAAAGAAA
1 T-TATAAAAATATTTAAAAATTAAAAGAAA
39372800 TTATAAAA
1 TTATAAAA
39372808 TATAAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 7 0.20
28 4 0.11
29 6 0.17
31 9 0.26
32 9 0.26
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
TTATAAAAATATTTAAAAATTAAAAGAAA
Found at i:39372814 original size:19 final size:18
Alignment explanation
Indices: 39372768--39372815 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
39372758 AATTTAAAAG
* *
39372768 AAAATATATAAAAATTTT
1 AAAATATAAAAAAATTAT
39372786 AAAA-ATAAAAGAAATTAT
1 AAAATATAAAA-AAATTAT
39372804 AAAATATAAAAA
1 AAAATATAAAAA
39372816 TAGATGTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 15 0.58
19 6 0.23
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATATAAAAAAATTAT
Found at i:39373411 original size:49 final size:49
Alignment explanation
Indices: 39373333--39373427 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
39373323 TTGCAACTCA
* * **
39373333 GGCTCTCAATTCAAGGTGGTTATACGGTCATGGGTTGAAGTATAACTAG
1 GGCTCCCAATTCAAAGTGGTTATACGGTCACAGGTTGAAGTATAACTAG
* ** *
39373382 GGCTCCCAATTGAAAGTGGTTATGTGGTCACAGGTTGGAGTATAAC
1 GGCTCCCAATTCAAAGTGGTTATACGGTCACAGGTTGAAGTATAAC
39373428 ACAGGCCCCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (49 bp):
GGCTCCCAATTCAAAGTGGTTATACGGTCACAGGTTGAAGTATAACTAG
Found at i:39385554 original size:9 final size:9
Alignment explanation
Indices: 39385540--39385584 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
39385530 AACTAAATAC
39385540 TTGAGAGAA
1 TTGAGAGAA
39385549 TTGAGAG-A
1 TTGAGAGAA
39385557 TT-AGATGAA
1 TTGAGA-GAA
*
39385566 TTGAAAGAA
1 TTGAGAGAA
39385575 TTGAGAGAA
1 TTGAGAGAA
39385584 T
1 T
39385585 AGGATTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 3 0.10
8 4 0.13
9 22 0.71
10 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:39388638 original size:17 final size:18
Alignment explanation
Indices: 39388618--39388660 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
39388608 TAAAAATATC
39388618 ATTTTAATTTAATAAA-T
1 ATTTTAATTTAATAAAGT
*
39388635 ATTTTAATTTATTAAAGT
1 ATTTTAATTTAATAAAGT
*
39388653 TTTTTAAT
1 ATTTTAAT
39388661 GTATTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTTAATTTAATAAAGT
Found at i:39388659 original size:18 final size:17
Alignment explanation
Indices: 39388618--39388665 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
39388608 TAAAAATATC
*
39388618 ATTTTAATTTAATAAAT
1 ATTTTAATTTATTAAAT
39388635 ATTTTAATTTATTAAAGT
1 ATTTTAATTTATTAAA-T
* *
39388653 TTTTTAATGTATT
1 ATTTTAATTTATT
39388666 TTTTGATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (17 bp):
ATTTTAATTTATTAAAT
Found at i:39394551 original size:29 final size:29
Alignment explanation
Indices: 39394518--39394573 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
39394508 CATATTTTTA
39394518 ATATTGAATTTTTCTTTCACCCACGTTAC
1 ATATTGAATTTTTCTTTCACCCACGTTAC
39394547 ATATTGAATTTTTCTTTCACCCACGTT
1 ATATTGAATTTTTCTTTCACCCACGTT
39394574 GCACATTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.46
Consensus pattern (29 bp):
ATATTGAATTTTTCTTTCACCCACGTTAC
Found at i:39406133 original size:16 final size:16
Alignment explanation
Indices: 39406112--39406180 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
39406102 TTTGGTTCGC
39406112 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
39406128 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
39406144 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
39406161 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
39406177 TGTA
1 TGTA
39406181 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 35 0.70
17 15 0.30
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:39406158 original size:33 final size:32
Alignment explanation
Indices: 39406112--39406180 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
39406102 TTTGGTTCGC
39406112 TGTATTGGATTAGAGGTGTATTAGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTAGATTAGAGG
*
39406144 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTAGATTAGAGG
39406177 TGTA
1 TGTA
39406181 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTAGATTAGAGG
Found at i:39406245 original size:44 final size:45
Alignment explanation
Indices: 39406161--39406251 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
39406151 GGATTAGAGG
* * *
39406161 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
39406206 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
39406250 TG
1 TG
39406252 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:39406433 original size:16 final size:16
Alignment explanation
Indices: 39406396--39406450 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
39406386 TTAATCATAT
*
39406396 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
39406412 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
39406427 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
39406445 -TAAAAT
1 TTAAAAT
39406451 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:39406443 original size:18 final size:18
Alignment explanation
Indices: 39406402--39406450 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
39406392 ATATTTAAAC
39406402 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
39406420 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
39406436 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
39406451 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:39406569 original size:67 final size:67
Alignment explanation
Indices: 39406498--39406710 Score: 163
Period size: 67 Copynumber: 3.1 Consensus size: 67
39406488 ATTGTTAATG
*
39406498 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATCTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATCTTAATCATATTTAAACATAAT
39406563 TA
66 TA
* * * * ***
39406565 TTATTAAATATATTTTAATTAAAATATATAATT-T-AAT-A-AAAT-TCTT-ATAATTAGCAGAA
1 TTATT---TAAATTTTAA-TAAGAT-TATTATTATCAATAATAAATATCTTAATCA-TA-TTTAA
** * *
39406624 ATTTGTTATTG
59 A--CATAATTA
*
39406635 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAAT-TTAATCATATTTAAACATAA
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAAT-ATCTTAATCATATTTAAACATAA
39406699 TTA
65 TTA
39406702 TTA-TTAAAT
1 TTATTTAAAT
39406711 ACATTATAAT
Statistics
Matches: 106, Mismatches: 24, Indels: 33
0.65 0.15 0.20
Matches are distributed among these distances:
65 5 0.05
66 15 0.14
67 30 0.28
68 8 0.08
69 8 0.08
70 24 0.23
71 10 0.09
72 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATCTTAATCATATTTAAACATAAT
TA
Found at i:39406587 original size:156 final size:156
Alignment explanation
Indices: 39406303--39406630 Score: 611
Period size: 156 Copynumber: 2.1 Consensus size: 156
39406293 TAGAATACCC
* *
39406303 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
39406368 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
39406433 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
39406459 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
39406524 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
39406589 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
39406615 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
39406631 ATTGTTATTT
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 167 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:39406593 original size:18 final size:17
Alignment explanation
Indices: 39406572--39406606 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39406562 TTATTATTAA
*
39406572 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
39406590 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
39406607 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:39406597 original size:137 final size:137
Alignment explanation
Indices: 39406489--39406748 Score: 387
Period size: 137 Copynumber: 1.9 Consensus size: 137
39406479 TAAATGATTA
* *
39406489 TTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAAT-ATCTTAATCATATT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAAT-TTAATCATATT
* * * *
39406553 TAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTA
65 TAAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAAGAAAATTCTTATAAGTA
*
39406618 GCAGAAAT
130 GAAGAAAT
*
39406626 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
**** *
39406691 AAACATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTA
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAAGAAAATTCTTA
39406749 ATAATTCATA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
137 111 0.98
138 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (137 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAAGAAAATTCTTATAAGTAG
AAGAAAT
Found at i:39406788 original size:137 final size:135
Alignment explanation
Indices: 39406510--39406788 Score: 332
Period size: 137 Copynumber: 2.0 Consensus size: 135
39406500 ATTTAAATTT
* *
39406510 TAATAAGATTATTATTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATATCTTAATCATATTTAAACATAATTATTATTAAATA
* * * *
39406575 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-AAATTTCTTATTGTTACT
* **
39406640 TAAATTT
129 CAAATCA
39406647 TAATAAGATTATTAATATCAATAATAAATAAT-TTAATCATATTTAAACATAATTATTATTAAAT
1 TAATAAGATTATTAATATCAATAATAAAT-ATCTTAATCATATTTAAACATAATTATTATTAAAT
**** *
39406711 ACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATA-TTCTTATATGAATT
65 ACATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAAAATTTCTTAT-TG---T
39406773 TACTCAAATCA
125 TACTCAAATCA
39406784 TAATA
1 TAATA
39406789 TAATGAAGAT
Statistics
Matches: 122, Mismatches: 14, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
136 1 0.01
137 103 0.84
138 8 0.07
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATATCTTAATCATATTTAAACATAATTATTATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAAATTTCTTATTGTTACTCA
AATCA
Found at i:39410153 original size:64 final size:64
Alignment explanation
Indices: 39410061--39410185 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
39410051 TAATAACAAA
*
39410061 GAATATTTATTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCCAATTTTAATATATT
1 GAATATTTATTTTTTAATCAAGTTGTTTACTTGATTATACCTAATGATCCAATTTTAATATATT
* *
39410125 GAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATACCTAATGATCCAATTTTTATAT
1 GAATATTTATTTTTTAATCAAGTTGTTTACTTGATTATACCTAATGATCCAATTTTAATAT
39410186 GAATTTACTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (64 bp):
GAATATTTATTTTTTAATCAAGTTGTTTACTTGATTATACCTAATGATCCAATTTTAATATATT
Found at i:39414382 original size:11 final size:11
Alignment explanation
Indices: 39414368--39414392 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39414358 GTGAATAAAT
39414368 TGTGAAATTGA
1 TGTGAAATTGA
39414379 TGTGAAATTGA
1 TGTGAAATTGA
39414390 TGT
1 TGT
39414393 AATAATAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (11 bp):
TGTGAAATTGA
Found at i:39436476 original size:32 final size:32
Alignment explanation
Indices: 39436434--39436494 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
39436424 TTTTTTGAAA
39436434 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
39436466 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
39436495 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:39436487 original size:20 final size:20
Alignment explanation
Indices: 39436453--39436494 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
39436443 AACTATTTAA
** *
39436453 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
39436473 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
39436493 AT
1 AT
39436495 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:39442605 original size:114 final size:113
Alignment explanation
Indices: 39442399--39442633 Score: 409
Period size: 114 Copynumber: 2.1 Consensus size: 113
39442389 TAAATACTCA
* *
39442399 AGTATTG-AGGAGTATTGTTAGGCATAAAGCTTCAAATTAAGTTTGGGGGTGGTAAAACTCGTTA
1 AGTATTGAAGGAGTATTGTTAGGAATAAAGCTTCAAATTAAGTTTGGGGGTGGTAAAACCCGTTA
*
39442463 GTAGGAAGGATGTACCTTGAAAGGATCCAAGACAAAGTTAGGGTTAAG
66 GTAGGAAGGATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAAG
*
39442511 AGTATTGAAGGAGTATTGTTGGGAATAAAGCTTCAAATTAAGTTTGGGGGGTGGTAAAACCCGTT
1 AGTATTGAAGGAGTATTGTTAGGAATAAAGCTTCAAATTAAGTTT-GGGGGTGGTAAAACCCGTT
39442576 AGTAGGAAGGATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAAG
65 AGTAGGAAGGATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAAG
*
39442625 ATTATTGAA
1 AGTATTGAA
39442634 CCTAAAAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
112 7 0.06
113 35 0.30
114 74 0.64
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.27
Consensus pattern (113 bp):
AGTATTGAAGGAGTATTGTTAGGAATAAAGCTTCAAATTAAGTTTGGGGGTGGTAAAACCCGTTA
GTAGGAAGGATGTACCTCGAAAGGATCCAAGACAAAGTTAGGGTTAAG
Found at i:39448784 original size:35 final size:34
Alignment explanation
Indices: 39448737--39448845 Score: 137
Period size: 35 Copynumber: 3.0 Consensus size: 34
39448727 AAATCACATC
*
39448737 TTAAACCGATCTTAAACCCAAATTGTAACAAAATG
1 TTAAACC-ATCTTAAACCCAAATTGCAACAAAATG
*
39448772 TTAAATCCATCTTAAACCCAAATTGCAACAAAACATC
1 TTAAA-CCATCTTAAACCCAAATTGCAAC-AAA-ATG
*
39448809 TAAGAACACATCTTAAACCCAAATTGCAACAAAATG
1 TTA-AAC-CATCTTAAACCCAAATTGCAACAAAATG
39448845 T
1 T
39448846 CAAAACACAC
Statistics
Matches: 65, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
35 25 0.38
36 8 0.12
37 8 0.12
38 24 0.37
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.24
Consensus pattern (34 bp):
TTAAACCATCTTAAACCCAAATTGCAACAAAATG
Found at i:39448856 original size:38 final size:37
Alignment explanation
Indices: 39448745--39448856 Score: 138
Period size: 38 Copynumber: 3.0 Consensus size: 37
39448735 TCTTAAACCG
* * *
39448745 ATCTTAAACCCAAATTGTAACAAAATGT-TAAATC-C
1 ATCTTAAACCCAAATTGCAACAAAATGTCAAAAACAC
** *
39448780 ATCTTAAACCCAAATTGCAACAAAACATCTAAGAACAC
1 ATCTTAAACCCAAATTGCAACAAAATGTC-AAAAACAC
39448818 ATCTTAAACCCAAATTGCAACAAAATGTCAAAACACAC
1 ATCTTAAACCCAAATTGCAACAAAATGTCAAAA-ACAC
39448856 A
1 A
39448857 AAGCCTTTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
35 25 0.39
37 6 0.09
38 33 0.52
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.21
Consensus pattern (37 bp):
ATCTTAAACCCAAATTGCAACAAAATGTCAAAAACAC
Found at i:39449066 original size:16 final size:16
Alignment explanation
Indices: 39449045--39449079 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39449035 ATGTAGACGT
39449045 GAAAGAGAT-GGAAAAC
1 GAAAGAGATAGG-AAAC
39449061 GAAAGAGATAGGAAAC
1 GAAAGAGATAGGAAAC
39449077 GAA
1 GAA
39449080 GAAGTGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.57, C:0.06, G:0.31, T:0.06
Consensus pattern (16 bp):
GAAAGAGATAGGAAAC
Found at i:39449193 original size:51 final size:48
Alignment explanation
Indices: 39449138--39449235 Score: 135
Period size: 48 Copynumber: 2.0 Consensus size: 48
39449128 AATAGATGTT
*
39449138 AGAGAAAATGAAAGA-AAAAGAGACTGGAATGAAAAATGTTGAAGACGATGC
1 AGAGAAAATGAAAGAGAAAAGAG-CAGG---GAAAAATGTTGAAGACGATGC
*
39449189 AGAGAAAATGAAAGAGAAAATAGCAGGGAAAAATGTTGAAGACGATG
1 AGAGAAAATGAAAGAGAAAAGAGCAGGGAAAAATGTTGAAGACGATG
39449236 GTGAATAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
48 20 0.45
51 18 0.41
52 6 0.14
ACGTcount: A:0.53, C:0.05, G:0.29, T:0.13
Consensus pattern (48 bp):
AGAGAAAATGAAAGAGAAAAGAGCAGGGAAAAATGTTGAAGACGATGC
Found at i:39449195 original size:24 final size:24
Alignment explanation
Indices: 39449168--39449235 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 24
39449158 AGACTGGAAT
39449168 GAAAAATGTTGAAGACGATGCAGA
1 GAAAAATGTTGAAGACGATGCAGA
** ** *
39449192 G-AAAATG-AAAGAGAAAATAGCAGG
1 GAAAAATGTTGA-AGACGAT-GCAGA
39449216 GAAAAATGTTGAAGACGATG
1 GAAAAATGTTGAAGACGATG
39449236 GTGAATAAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 8
0.65 0.19 0.17
Matches are distributed among these distances:
22 1 0.03
23 11 0.35
24 7 0.23
25 11 0.35
26 1 0.03
ACGTcount: A:0.50, C:0.06, G:0.29, T:0.15
Consensus pattern (24 bp):
GAAAAATGTTGAAGACGATGCAGA
Found at i:39464460 original size:49 final size:49
Alignment explanation
Indices: 39464388--39464485 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
39464378 CGCCTTACAC
* *
39464388 ACATAAAGCTCACTGCTGAGACTTTATAGATGTAGTATCAAAATACAGA
1 ACATAAAGCTCACTGATGAGACTTCATAGATGTAGTATCAAAATACAGA
*
39464437 ACATAAAGCTCACTGATGAGACTTCATATATGTAGTATCAAAATACAGA
1 ACATAAAGCTCACTGATGAGACTTCATAGATGTAGTATCAAAATACAGA
39464486 TTTAATAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (49 bp):
ACATAAAGCTCACTGATGAGACTTCATAGATGTAGTATCAAAATACAGA
Found at i:39465272 original size:22 final size:22
Alignment explanation
Indices: 39465240--39465286 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
39465230 TATTCATTCA
* *
39465240 TACATCTCATAAAGGGCTCTAT
1 TACATCCCATAAACGGCTCTAT
* *
39465262 TACATCCCATATACGGCTTTAT
1 TACATCCCATAAACGGCTCTAT
39465284 TAC
1 TAC
39465287 TGGTGCACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (22 bp):
TACATCCCATAAACGGCTCTAT
Found at i:39465569 original size:15 final size:15
Alignment explanation
Indices: 39465549--39465579 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39465539 CTCCACATAA
*
39465549 TTCATACACATGCAT
1 TTCATACACAAGCAT
39465564 TTCATACACAAGCAT
1 TTCATACACAAGCAT
39465579 T
1 T
39465580 CAACCAATAC
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:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (15 bp):
TTCATACACAAGCAT
Found at i:39466853 original size:27 final size:25
Alignment explanation
Indices: 39466794--39466841 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
39466784 TCATAGCCCA
39466794 AAACATTGGTAAATGATATCCTCAC
1 AAACATTGGTAAATGATATCCTCAC
39466819 AAACATTGGTAAATGATATCCTC
1 AAACATTGGTAAATGATATCCTC
39466842 TCATTGGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (25 bp):
AAACATTGGTAAATGATATCCTCAC
Found at i:39473424 original size:20 final size:19
Alignment explanation
Indices: 39473401--39473450 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
39473391 ACTTTTTAAA
39473401 TATATTTTCTACAATTATTT
1 TATATTTTCTAC-ATTATTT
*
39473421 TATAATTTT-TACATTTTTT
1 TAT-ATTTTCTACATTATTT
*
39473440 TACATTTTCTA
1 TATATTTTCTA
39473451 ATAGTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 6 0.23
21 5 0.19
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTTTCTACATTATTT
Found at i:39473525 original size:17 final size:15
Alignment explanation
Indices: 39473493--39473521 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39473483 AATTATAAGT
39473493 TTTTTGTAAATTTTA
1 TTTTTGTAAATTTTA
39473508 TTTTTGTAAATTTT
1 TTTTTGTAAATTTT
39473522 TTATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTTTGTAAATTTTA
Found at i:39473536 original size:16 final size:17
Alignment explanation
Indices: 39473517--39473555 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
39473507 ATTTTTGTAA
39473517 ATTTTTT-ATAATATAT
1 ATTTTTTGATAATATAT
*
39473533 ATTTTTTGGATTATATAT
1 ATTTTTT-GATAATATAT
39473551 ATTTT
1 ATTTT
39473556 AAGAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
18 13 0.65
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (17 bp):
ATTTTTTGATAATATAT
Found at i:39475986 original size:46 final size:46
Alignment explanation
Indices: 39475934--39476025 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
39475924 TTATATATAT
39475934 GCTATTGAATATGATTATTGTAGGCAAAGCTGTGAATTTGGCTATC
1 GCTATTGAATATGATTATTGTAGGCAAAGCTGTGAATTTGGCTATC
39475980 GCTATTGAATATGATTATTGTAGGCAAAGCTGTGAATTTGGCTATC
1 GCTATTGAATATGATTATTGTAGGCAAAGCTGTGAATTTGGCTATC
39476026 TCAAAAAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (46 bp):
GCTATTGAATATGATTATTGTAGGCAAAGCTGTGAATTTGGCTATC
Found at i:39485912 original size:36 final size:36
Alignment explanation
Indices: 39485872--39485944 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
39485862 TTAAGTTTGT
39485872 AACTTTTTAACCCTCTACTACGTAGGATTAATTATA
1 AACTTTTTAACCCTCTACTACGTAGGATTAATTATA
*
39485908 AACTTTTTAACCCTTTACTACGTAGGATTAATTATA
1 AACTTTTTAACCCTCTACTACGTAGGATTAATTATA
39485944 A
1 A
39485945 CTCCTGATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (36 bp):
AACTTTTTAACCCTCTACTACGTAGGATTAATTATA
Found at i:39489023 original size:40 final size:40
Alignment explanation
Indices: 39488947--39489037 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
39488937 TAACTCATTC
* * *
39488947 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGAATTGAAAACTCGCACA
** *
39488987 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTGAAAACTCGCACA
*
39489027 AAGGCCTTCGG
1 AATGCCTTCGG
39489038 ATCTTAGTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTGAAAACTCGCACA
Found at i:39495133 original size:40 final size:40
Alignment explanation
Indices: 39495048--39495189 Score: 112
Period size: 40 Copynumber: 3.5 Consensus size: 40
39495038 CTCATTCAAT
** * *
39495048 GCCTTCGGGACTTAACCCGGATTTTTAAAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGATTGGT-AAACTCGCACAAAG
*
39495089 GCCTTCGGGACTTAACCCGGAATTGGT-ATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGG-ATTGGTAAACTCGCACAAAG
** * * *
39495129 GCCTTC-GGATCTTAGTCCGGATATAGT-CACTTAGCACAAA-
1 GCCTTCGGGA-CTTAACCCGGAT-TGGTAAAC-TCGCACAAAG
*
39495169 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
39495190 CAGCATTCAA
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
39 5 0.06
40 44 0.52
41 31 0.37
42 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGATTGGTAAACTCGCACAAAG
Found at i:39501775 original size:12 final size:12
Alignment explanation
Indices: 39501758--39501784 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39501748 CTGAATAAGA
39501758 AAAAATTGAAAT
1 AAAAATTGAAAT
39501770 AAAAATTGAAAT
1 AAAAATTGAAAT
39501782 AAA
1 AAA
39501785 CCTAAAGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (12 bp):
AAAAATTGAAAT
Found at i:39502846 original size:18 final size:18
Alignment explanation
Indices: 39502823--39502857 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
39502813 CAAGAACAGG
39502823 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
*
39502841 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
39502858 GACACATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:39508153 original size:50 final size:50
Alignment explanation
Indices: 39508073--39508270 Score: 157
Period size: 50 Copynumber: 3.8 Consensus size: 50
39508063 TTTCCTTTAC
* ** *
39508073 TGCCAATGCCATATCCCA-AATATGGTCTTACGTGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGAA-ATGGTCTTACGTGGGACCTCTCATATCAG
* ** * * *
39508123 TGCCTATGTTATGTCCCTA-ACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCC-AGAAATGGTCTTACGTGGGACCTCTCATATCAG
* * *
39508173 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGGGCCTCTCGTAATCTCAATG
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACGTGGGACCTCTC---ATATC-A-G
* * * *
39508228 ATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGAAATGGTCTTACGTGGGACCTCT
39508271 TTACCCAAAT
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 1 0.01
50 71 0.60
51 2 0.02
53 5 0.04
54 1 0.01
55 1 0.01
56 38 0.32
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGAAATGGTCTTACGTGGGACCTCTCATATCAG
Found at i:39511185 original size:50 final size:49
Alignment explanation
Indices: 39511082--39511251 Score: 191
Period size: 50 Copynumber: 3.4 Consensus size: 49
39511072 ACAAGCTATA
* ** *
39511082 TCCCAGACATAGTCTTACATGGGATGTT-TCATTTACTGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATTTGGTGCCAATGCCATG
* *
39511131 TCCCATATATGGTCTTACATGGGAGTTCTCATATTGGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCAT-TTGGTGCCAATGCCATG
* ** * *
39511181 TCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATG-GGAGTTCTCAT-TTGGTGCCAATGCCATG
39511231 TCCCAGACATGGTCTTACATG
1 TCCCAGACATGGTCTTACATG
39511252 AGACCTCTTG
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
48 3 0.03
49 26 0.25
50 72 0.71
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATTTGGTGCCAATGCCATG
Found at i:39512999 original size:27 final size:28
Alignment explanation
Indices: 39512915--39513012 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
39512905 CATGAGATTG
* * * *
39512915 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
39512944 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
39512972 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39512999 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
39513013 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39513023 original size:27 final size:27
Alignment explanation
Indices: 39512943--39513025 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
39512933 TAAATTGTAC
* *
39512943 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
39512971 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
39512998 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
39513025 A
1 A
39513026 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:39513026 original size:29 final size:27
Alignment explanation
Indices: 39512915--39513026 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
39512905 CATGAGATTG
** * *
39512915 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
39512944 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
39512972 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
39512999 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
39513027 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:39535996 original size:15 final size:15
Alignment explanation
Indices: 39535976--39536006 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39535966 AAAACTTAAC
39535976 ATGTAGAGCTATCAG
1 ATGTAGAGCTATCAG
39535991 ATGTAGAGCTATCAG
1 ATGTAGAGCTATCAG
39536006 A
1 A
39536007 CTTACTAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (15 bp):
ATGTAGAGCTATCAG
Found at i:39546212 original size:15 final size:14
Alignment explanation
Indices: 39546201--39546247 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
39546191 TTTAATAAAG
39546201 TTTAATAAAATAAT
1 TTTAATAAAATAAT
*
39546215 TTTTATAAAATGAAT
1 TTTAATAAAAT-AAT
* *
39546230 TTTAATTAAATCAT
1 TTTAATAAAATAAT
39546244 TTTA
1 TTTA
39546248 TAAGACAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TTTAATAAAATAAT
Found at i:39547579 original size:19 final size:20
Alignment explanation
Indices: 39547555--39547599 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
39547545 TTATGTAAAC
* *
39547555 AAATGTTTTAAT-TTTTTTT
1 AAATGTTCTAATGTGTTTTT
39547574 AAATGTTCTAATGTGTTTTT
1 AAATGTTCTAATGTGTTTTT
39547594 AAATGT
1 AAATGT
39547600 GTTGTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (20 bp):
AAATGTTCTAATGTGTTTTT
Found at i:39547794 original size:29 final size:26
Alignment explanation
Indices: 39547760--39547816 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 26
39547750 AGAGGTTAAT
39547760 TTATAAATT-TAATGATATTTTAGAATTTC
1 TTATAAATTAT-AT-ATATTTT--AATTTC
39547789 TTATAAATTATATATATTTTAATTTC
1 TTATAAATTATATATATTTTAATTTC
39547815 TT
1 TT
39547817 TATGGTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.30
28 7 0.26
29 11 0.41
30 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (26 bp):
TTATAAATTATATATATTTTAATTTC
Found at i:39547803 original size:26 final size:29
Alignment explanation
Indices: 39547760--39547816 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 29
39547750 AGAGGTTAAT
39547760 TTATAAATTTAATGATAT-TTTAGAATTTC
1 TTATAAATTTAATGATATATTT-GAATTTC
*
39547789 TTATAAA-TT-AT-ATATATTTTAATTTC
1 TTATAAATTTAATGATATATTTGAATTTC
39547815 TT
1 TT
39547817 TATGGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 12 0.46
27 5 0.19
28 2 0.08
29 7 0.27
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (29 bp):
TTATAAATTTAATGATATATTTGAATTTC
Found at i:39556095 original size:5 final size:5
Alignment explanation
Indices: 39556062--39556092 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
39556052 CTTTGATTAC
*
39556062 AAATA AAATA AAATA AAATA AAATA ATATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
39556093 TATGAAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:39556595 original size:23 final size:24
Alignment explanation
Indices: 39556541--39556597 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
39556531 ATAGAAATGT
39556541 ATAAAATAAAATAATAATACCTAA
1 ATAAAATAAAATAATAATACCTAA
* *
39556565 A-AACATAAAATAAT-AT-CTTATA
1 ATAAAATAAAATAATAATACCTA-A
39556587 ATAAAATAAAA
1 ATAAAATAAAA
39556598 GGATCTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.11
22 4 0.14
23 20 0.71
24 1 0.04
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (24 bp):
ATAAAATAAAATAATAATACCTAA
Found at i:39556668 original size:19 final size:18
Alignment explanation
Indices: 39556631--39556680 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
39556621 GGGAAAATAA
39556631 AATAAAATAA-AAAGACT
1 AATAAAATAATAAAGACT
*
39556648 AATAATAATAATAATGACT
1 AATAA-AATAATAAAGACT
39556667 AATAAAAATAATAA
1 AAT-AAAATAATAA
39556681 CAATAAACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.17
18 5 0.17
19 17 0.59
20 2 0.07
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.24
Consensus pattern (18 bp):
AATAAAATAATAAAGACT
Found at i:39558888 original size:42 final size:42
Alignment explanation
Indices: 39558767--39558926 Score: 151
Period size: 42 Copynumber: 3.8 Consensus size: 42
39558757 ATGGGTTATA
* * * * ** *
39558767 CTTCGGTTAATCCGATGATGCACTTACGTGCTAGTATGCTTA
1 CTTCGGTTTATTCAATGATGCACTTATGTGCTAGTATATTTG
** * *
39558809 CTTCGGTTTA-TCTGGTGATACACTTATGTGTTAGTATATTTG
1 CTTCGGTTTATTC-AATGATGCACTTATGTGCTAGTATATTTG
*
39558851 CTTCCGTTTATTCAATGATGCACTTATGTGCTAGTATATTTG
1 CTTCGGTTTATTCAATGATGCACTTATGTGCTAGTATATTTG
* ** * *
39558893 CTTTGGTACATCCAATAATGCACTTATGTGCTAG
1 CTTCGGTTTATTCAATGATGCACTTATGTGCTAG
39558927 GATGATTGCT
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 1 0.01
42 93 0.97
43 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (42 bp):
CTTCGGTTTATTCAATGATGCACTTATGTGCTAGTATATTTG
Found at i:39559308 original size:12 final size:13
Alignment explanation
Indices: 39559291--39559320 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
39559281 GGCTCAGAAA
39559291 TGATA-GAAATGT
1 TGATAGGAAATGT
39559303 TGATAGGAAATGT
1 TGATAGGAAATGT
39559316 TGATA
1 TGATA
39559321 ACAGTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (13 bp):
TGATAGGAAATGT
Found at i:39560879 original size:23 final size:23
Alignment explanation
Indices: 39560823--39560902 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
39560813 GACCCATATT
* *
39560823 AAATATATATTTAATATATATAA-A
1 AAATATATATTTGAT-TA-AAAATA
39560847 AAATATATATTTGATTAAAAATA
1 AAATATATATTTGATTAAAAATA
*
39560870 ATATATATATTTGATTAAAAATA
1 AAATATATATTTGATTAAAAATA
*
39560893 AAAAATATAT
1 AAATATATAT
39560903 ATTAATATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 3 0.06
23 33 0.66
24 14 0.28
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (23 bp):
AAATATATATTTGATTAAAAATA
Found at i:39561095 original size:31 final size:32
Alignment explanation
Indices: 39561033--39561095 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
39561023 AAATGTTTAG
** *
39561033 AATGAACTTGAACAAATGGTTGTCCAGATTCA
1 AATGAACTTGAACAAATCATTGTCCAAATTCA
*
39561065 AATGAACTTGGAC-AATCATTGTCCAAATTCA
1 AATGAACTTGAACAAATCATTGTCCAAATTCA
39561096 TTCTCTATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (32 bp):
AATGAACTTGAACAAATCATTGTCCAAATTCA
Found at i:39569604 original size:28 final size:28
Alignment explanation
Indices: 39569564--39569619 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
39569554 GATTGCAACT
39569564 TCTTTTAGTTAAGTAATCAAAATGAAAA
1 TCTTTTAGTTAAGTAATCAAAATGAAAA
39569592 TCTTTTAGTTAAGTAATCAAAATGAAAA
1 TCTTTTAGTTAAGTAATCAAAATGAAAA
39569620 CTTACCCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (28 bp):
TCTTTTAGTTAAGTAATCAAAATGAAAA
Found at i:39570246 original size:21 final size:22
Alignment explanation
Indices: 39570192--39570248 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
39570182 TTAAAAATAT
*
39570192 TTTTTGTATTAATATCTAAATAA
1 TTTTT-TATTAATATCTAAACAA
* *
39570215 TTTTATGTTAA-ATCTAAACAA
1 TTTTTTATTAATATCTAAACAA
39570236 TTTTTTATTAATA
1 TTTTTTATTAATA
39570249 AAAAGCAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 18 0.64
22 6 0.21
23 4 0.14
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTTTTATTAATATCTAAACAA
Found at i:39576086 original size:18 final size:16
Alignment explanation
Indices: 39576049--39576081 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
39576039 AGTCGCCACC
39576049 GATCCTTTATTAAGGT
1 GATCCTTTATTAAGGT
39576065 GATCCTTTATTAAGGT
1 GATCCTTTATTAAGGT
39576081 G
1 G
39576082 TGATCGGCTC
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:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (16 bp):
GATCCTTTATTAAGGT
Found at i:39578586 original size:44 final size:44
Alignment explanation
Indices: 39578538--39578880 Score: 139
Period size: 44 Copynumber: 7.8 Consensus size: 44
39578528 AAAATCTGCC
* *
39578538 ATCTTCGATCTACTCCACTACTGCCTAGGGAGATAGGATATGTA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATATGTA
* * *
39578582 ATCTTCAATCTATTCCACTGCTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATATGTA
* * * * * ** **
39578623 CTGGCTTCAATGTACTCCACTA-TAACCTCAGGGAGGTAAAATCCGCC
1 AT--CTTCAATCTACTCCACTACT-GCCT-AGGGAGATAAGATATGTA
* * * *
39578670 ATCCTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 AT-CTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATATGTA
* * * * *
39578714 ATCTTCTATCTATTCCACTGCTACCCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATATGTA
* * * * * * ** **
39578755 CTGGCTGCAATGTACTCCACTA-TAACCTCAGGGAGGTAAAATCCGCC
1 AT--CTTCAATCTACTCCACTACT-GCCT-AGGGAGATAAGATATGTA
* * * * * * *
39578802 ATCCTT-GATCTGCTCCACTATTGCTTAGAGAGATAAGATCTTTA
1 AT-CTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATATGTA
* * *
39578846 ATCTTCAATCTATTCCACTGCTGCCCAGGGAGATA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATA
39578881 GAATTACTAG
Statistics
Matches: 208, Mismatches: 73, Indels: 36
0.66 0.23 0.11
Matches are distributed among these distances:
41 6 0.03
42 5 0.02
43 44 0.21
44 114 0.55
45 30 0.14
46 7 0.03
47 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATATGTA
Found at i:39578639 original size:132 final size:132
Alignment explanation
Indices: 39578451--39578936 Score: 776
Period size: 132 Copynumber: 3.7 Consensus size: 132
39578441 AGATCTGCTT
* * * * * *
39578451 TCTTCGATCGATTCCACTGCCGACCAGAGAGATAGAATTACTGGCTTCAATATACTCCACTATAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
* * * * *
39578516 CCTCAGGGAGGTAAAATCTGCCAT-CTTCGATCTACTCCACTACTGCCTAGGGAGATAGGATATG
66 CCTCAGGGAGGTAAAATCCGCCATCCTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
39578580 TAA
130 TAA
39578583 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
39578648 CCTCAGGGAGGTAAAATCCGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCCGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
39578713 AA
131 AA
* * *
39578715 TCTTCTATCTATTCCACTGCTACCCAGGGAGATAGAATTACTGGCTGCAATGTACTCCACTATAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
* * *
39578780 CCTCAGGGAGGTAAAATCCGCCATCCTTGATCTGCTCCACTATTGCTTAGAGAGATAAGATCTTT
66 CCTCAGGGAGGTAAAATCCGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
39578845 AA
131 AA
* *
39578847 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
*
39578912 CCTCAGGGAGGTAAAATCTGCCATC
66 CCTCAGGGAGGTAAAATCCGCCATC
39578937 AACCTGTTCC
Statistics
Matches: 330, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 327 0.99
133 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (132 bp):
TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAA
CCTCAGGGAGGTAAAATCCGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
AA
Found at i:39579748 original size:13 final size:13
Alignment explanation
Indices: 39579730--39579754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39579720 AAATTGTCGA
39579730 GGATAACAAAGAT
1 GGATAACAAAGAT
39579743 GGATAACAAAGA
1 GGATAACAAAGA
39579755 AATTGATTTA
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:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (13 bp):
GGATAACAAAGAT
Found at i:39581133 original size:20 final size:20
Alignment explanation
Indices: 39581108--39581148 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
39581098 AATTTGGCAG
39581108 AAAAAATC-TGAAAGAATGAA
1 AAAAAATCGT-AAAGAATGAA
39581128 AAAAAATCGTAAAGAATGAA
1 AAAAAATCGTAAAGAATGAA
39581148 A
1 A
39581149 GAACATTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.66, C:0.05, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAAAATCGTAAAGAATGAA
Found at i:39583053 original size:13 final size:13
Alignment explanation
Indices: 39583035--39583060 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39583025 TGTTCAATTT
39583035 TTTACTAGAAAAC
1 TTTACTAGAAAAC
39583048 TTTACTAGAAAAC
1 TTTACTAGAAAAC
39583061 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:39586005 original size:15 final size:15
Alignment explanation
Indices: 39585967--39585998 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
39585957 GGCTCTACAA
39585967 TTTTATTATA--TAT
1 TTTTATTATATTTAT
39585980 TTTTATTATATTTAT
1 TTTTATTATATTTAT
39585995 TTTT
1 TTTT
39585999 TTGATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 10 0.59
15 7 0.41
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTATTATATTTAT
Found at i:39587520 original size:23 final size:23
Alignment explanation
Indices: 39587494--39587539 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
39587484 GTTGGTCCTT
39587494 AGAGGACTTATCCACATTAGATA
1 AGAGGACTTATCCACATTAGATA
*
39587517 AGAGGACTTATCCACGTTAGATA
1 AGAGGACTTATCCACATTAGATA
39587540 GTCCCAGCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (23 bp):
AGAGGACTTATCCACATTAGATA
Found at i:39588801 original size:15 final size:15
Alignment explanation
Indices: 39588781--39588812 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
39588771 ACGAATATAG
39588781 TAAGATTAAGAAGCT
1 TAAGATTAAGAAGCT
39588796 TAAGATTAAGAAGCT
1 TAAGATTAAGAAGCT
39588811 TA
1 TA
39588813 CTAGTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
TAAGATTAAGAAGCT
Found at i:39598743 original size:21 final size:20
Alignment explanation
Indices: 39598709--39598748 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
39598699 ATTATTTTGG
*
39598709 AATTTTATACAAAACCATTA
1 AATTTTATAAAAAACCATTA
*
39598729 AATTTATATAAAAAATCATT
1 AATTT-TATAAAAAACCATT
39598749 GCCATCCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTTATAAAAAACCATTA
Found at i:39615875 original size:30 final size:29
Alignment explanation
Indices: 39615797--39615875 Score: 70
Period size: 30 Copynumber: 2.6 Consensus size: 29
39615787 ATATCACCTA
* *
39615797 AGATTACCTCTCAATCTCACCTAGGCTTAT
1 AGATTA-CTCTGAATCTCACCTAGGCATAT
* * *
39615827 AAATTACGTCTTG-GTCTCACCTCGGCATAT
1 AGATTAC-TC-TGAATCTCACCTAGGCATAT
39615857 AGATTATCTCTGAATCTCA
1 AGATTA-CTCTGAATCTCA
39615876 TTATTCAGCA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
29 3 0.08
30 33 0.87
31 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (29 bp):
AGATTACTCTGAATCTCACCTAGGCATAT
Found at i:39617478 original size:34 final size:35
Alignment explanation
Indices: 39617324--39617519 Score: 103
Period size: 36 Copynumber: 5.5 Consensus size: 35
39617314 GCTTCAACAT
* * * *
39617324 CCTTCCATAAGCCTTCCCCATGTACTCGG-AGCAAAA
1 CCTTCCATAAGCCTTCCCCATAT-GTTGGAAG-AAAG
* ** * * *
39617360 CCTTCCATAACCCTTCCTTATGTGTTGGGAGCAAG
1 CCTTCCATAAGCCTTCCCCATATGTTGGAAGAAAG
* * **
39617395 ACCTTCCGTAAGCCACTTCCCC-TCTGTATGGAAGCGAG
1 -CCTTCCATAAG-C-CTTCCCCATATGT-TGGAAGAAAG
*** *
39617433 CCTTTTGTAAGCCTTCCCTCATGTG-TGGAAGAAAG
1 CCTTCCATAAGCCTTCCC-CATATGTTGGAAGAAAG
*
39617468 CC-TCCATAAGCCTCTCCCCATATGTTGGAAGCAAG
1 CCTTCCATAAGCCT-TCCCCATATGTTGGAAGAAAG
* *
39617503 CCTTCCGTAAGCTTTCC
1 CCTTCCATAAGCCTTCC
39617520 TATATATGTG
Statistics
Matches: 124, Mismatches: 26, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
34 13 0.10
35 39 0.31
36 42 0.34
37 17 0.14
38 13 0.10
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.27
Consensus pattern (35 bp):
CCTTCCATAAGCCTTCCCCATATGTTGGAAGAAAG
Found at i:39617497 original size:35 final size:35
Alignment explanation
Indices: 39617440--39617538 Score: 96
Period size: 35 Copynumber: 2.8 Consensus size: 35
39617430 GAGCCTTTTG
*
39617440 TAAGCCTTCCCTCATGTGTGGAAGAAAGCC-TCCA
1 TAAGCCTTCCCTCATATGTGGAAGAAAGCCTTCCA
* *
39617474 TAAGCCTCTCCC-CATATGTTGGAAGCAAGCCTTCCG
1 TAAGCCT-TCCCTCATATG-TGGAAGAAAGCCTTCCA
* * *
39617510 TAAG-CTTTCCTATATATGTGGAAAAAAGC
1 TAAGCCTTCCCT-CATATGTGGAAGAAAGC
39617539 ACCCTGTAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
34 15 0.28
35 26 0.49
36 12 0.23
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (35 bp):
TAAGCCTTCCCTCATATGTGGAAGAAAGCCTTCCA
Found at i:39617634 original size:36 final size:36
Alignment explanation
Indices: 39617542--39617634 Score: 87
Period size: 36 Copynumber: 2.6 Consensus size: 36
39617532 AAAAAGCACC
* * *
39617542 CTGTAAGCATTCCCCCATATACTATGAGCAGGCATT
1 CTGTAAGCATTCCCCCATGTGCTAAGAGCAGGCATT
** * ** * *
39617578 CCATAAGCTTTCCCTTATGTGCTAAGAGTAGGCCTT
1 CTGTAAGCATTCCCCCATGTGCTAAGAGCAGGCATT
*
39617614 CTGTAAGCCTTCCCCCATGTG
1 CTGTAAGCATTCCCCCATGTG
39617635 TGTAAGAAAG
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (36 bp):
CTGTAAGCATTCCCCCATGTGCTAAGAGCAGGCATT
Found at i:39617656 original size:107 final size:106
Alignment explanation
Indices: 39617545--39617743 Score: 222
Period size: 107 Copynumber: 1.9 Consensus size: 106
39617535 AAGCACCCTG
* * * *
39617545 TAAGCATTCCCCCATATACTATGAGCAGGCATTCCATAAGCTTTCCC-TTATGTGCTAAGAGTAG
1 TAAGCATT-CCCCATATACTAGGAGCAGACATTCCATAAGC-TTCCCTTTATCTACTAAGAGTAG
* *
39617609 GCCTT-CTGTAAGCCTTCCCCCATGTGTGTAAGAAAGCCCCTCT
64 GCCTTAC-ATAAGCATTCCCCCATGTGTGTAAGAAAGCCCCTCT
* * * * * * * *
39617652 TAAGCCTTTCCCATGTACTAGGAGTAGACCTTTCGTAAGCTTCCCTTTTATCTACTAGGAGTAGG
1 TAAGCATTCCCCATATACTAGGAGCAGACATTCCATAAGCTTCCC-TTTATCTACTAAGAGTAGG
39617717 CCTTACATAAGCATTCCCCCATGTGTG
65 CCTTACATAAGCATTCCCCCATGTGTG
39617744 GAAGCAGACC
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
105 5 0.07
106 24 0.32
107 45 0.60
108 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (106 bp):
TAAGCATTCCCCATATACTAGGAGCAGACATTCCATAAGCTTCCCTTTATCTACTAAGAGTAGGC
CTTACATAAGCATTCCCCCATGTGTGTAAGAAAGCCCCTCT
Found at i:39628317 original size:13 final size:13
Alignment explanation
Indices: 39628299--39628326 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39628289 TAGCTAGATT
39628299 TTAACTAAGAAAA
1 TTAACTAAGAAAA
39628312 TTAACTAAGAAAA
1 TTAACTAAGAAAA
39628325 TT
1 TT
39628327 TAAAAAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:39629853 original size:27 final size:27
Alignment explanation
Indices: 39629780--39629853 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 27
39629770 TTATGAAAAT
* *
39629780 TTATTATAAAATTA-ATTA-AAATTAA
1 TTATTTTATAATTATATTATAAATTAA
* * *
39629805 ATATTTTAATAATT-TAAGTATAATTTAA
1 TTATTTT-ATAATTAT-ATTATAAATTAA
39629833 TTATTTTATAATTATATTATA
1 TTATTTTATAATTATATTATA
39629854 TTTTTTGACA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
25 5 0.14
26 5 0.14
27 14 0.38
28 13 0.35
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TTATTTTATAATTATATTATAAATTAA
Found at i:39638249 original size:20 final size:20
Alignment explanation
Indices: 39638224--39638261 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39638214 GTTTTTCTAG
39638224 TTTAAATTATTT-TGTTAAAT
1 TTTAAATT-TTTATGTTAAAT
39638244 TTTAAATTTTTATGTTAA
1 TTTAAATTTTTATGTTAA
39638262 TAAAGGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTTATGTTAAAT
Found at i:39642322 original size:16 final size:17
Alignment explanation
Indices: 39642297--39642331 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
39642287 ACTTTTTCAA
39642297 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
39642313 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
39642330 TC
1 TC
39642332 TCAACTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:39644270 original size:5 final size:5
Alignment explanation
Indices: 39644260--39644294 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
39644250 TTTATGTTAG
39644260 CTTTT CTTTT CTTTT CTTTT CTTTTT CTTTT CTTT
1 CTTTT CTTTT CTTTT CTTTT C-TTTT CTTTT CTTT
39644295 CCATTTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:39644301 original size:16 final size:16
Alignment explanation
Indices: 39644266--39644301 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39644256 TTAGCTTTTC
* *
39644266 TTTTCTTTTCTTTTCT
1 TTTTCTTTTCTTTCCA
39644282 TTTTCTTTTCTTTCCA
1 TTTTCTTTTCTTTCCA
39644298 TTTT
1 TTTT
39644302 TAGATTAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTCTTTTCTTTCCA
Found at i:39645366 original size:20 final size:20
Alignment explanation
Indices: 39645341--39645378 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39645331 GATAGGATTT
39645341 ATCCTATC-ATAGACATCCTC
1 ATCCTATCGA-AGACATCCTC
39645361 ATCCTATCGAAGACATCC
1 ATCCTATCGAAGACATCC
39645379 CTCCCACGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.26
Consensus pattern (20 bp):
ATCCTATCGAAGACATCCTC
Found at i:39646090 original size:22 final size:22
Alignment explanation
Indices: 39646054--39646096 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
39646044 AACTCATAAC
39646054 ACATTTAGAGAATTTTGTATTT
1 ACATTTAGAGAATTTTGTATTT
* * *
39646076 ACATTTTGAGGATTTTTTATT
1 ACATTTAGAGAATTTTGTATT
39646097 CTCTTCGATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (22 bp):
ACATTTAGAGAATTTTGTATTT
Done.