Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 87 of 121
Found at i:14716521 original size:33 final size:32
Alignment explanation
Indices: 14716479--14717136 Score: 640
Period size: 33 Copynumber: 19.8 Consensus size: 32
14716469 ATTTTATTAA
* * *
14716479 AGGCCAGATAAACTAGGCTTAAAACCTCATTTG
1 AGGCCAGATAAACTGGGCTTAAAGCTTCA-TTG
14716512 AGGCCAGATAAACTGGGCTTAAAGCTTCATTG
1 AGGCCAGATAAACTGGGCTTAAAGCTTCATTG
14716544 ATGGCCAGATAAACTGGGCTTAAA--TGTCATTG
1 A-GGCCAGATAAACTGGGCTTAAAGCT-TCATTG
*
14716576 ATGGCCAGATAAACTGGGCTTAAA--TGTCATTA
1 A-GGCCAGATAAACTGGGCTTAAAGCT-TCATTG
* * *
14716608 ATGGTCAGTTAAACTAGGCTTAAAGCTTCATTG
1 A-GGCCAGATAAACTGGGCTTAAAGCTTCATTG
* *
14716641 ATGGCCAGATAAACTAGGCTTAAAGTTTCATTG
1 A-GGCCAGATAAACTGGGCTTAAAGCTTCATTG
* **
14716674 ATGGCCAGATAAATTGGGCTTAAATTTTCATTTG
1 A-GGCCAGATAAACTGGGCTTAAAGCTTCA-TTG
* *
14716708 AGACCAGATAAACTGGGCTTGAAGCTTCATTG
1 AGGCCAGATAAACTGGGCTTAAAGCTTCATTG
* *
14716740 AAGACCAGATAAACTGGGCTATCTAGGCTTAAAGCTTCATTA
1 -AGGCCAGATAAACT--G-------GGCTTAAAGCTTCATTG
* *
14716782 ATAGCCTGATAAACTGGGCTTAAAGCTTCATTG
1 A-GGCCAGATAAACTGGGCTTAAAGCTTCATTG
* * *
14716815 ATGGCCAGATAAATTGGGCTTAAATCTTCATTA
1 A-GGCCAGATAAACTGGGCTTAAAGCTTCATTG
* *
14716848 ATAGCCAGATAAATTGGGCTTAAAGCTTCATTG
1 A-GGCCAGATAAACTGGGCTTAAAGCTTCATTG
** * * *
14716881 ATGGTTAGATAAATTGGGTTTAAAGCTTTATTG
1 A-GGCCAGATAAACTGGGCTTAAAGCTTCATTG
* * *
14716914 AAGGCCAGATTAATTAGGCTTAAAGCTTCATTG
1 -AGGCCAGATAAACTGGGCTTAAAGCTTCATTG
* *
14716947 AAGGTCAGATAAACTGGGCTTAAATCTTCATTTG
1 -AGGCCAGATAAACTGGGCTTAAAGCTTCA-TTG
* *
14716981 AGGCCAGATAAATTGGGCTTGAAGCTTCATTG
1 AGGCCAGATAAACTGGGCTTAAAGCTTCATTG
* * *
14717013 AAGGTCAGATAAATTGGACTTAAAGCTTCATTG
1 -AGGCCAGATAAACTGGGCTTAAAGCTTCATTG
*
14717046 ATGGCCAGATAAACTGGGCTTAAAGCTTCATTA
1 A-GGCCAGATAAACTGGGCTTAAAGCTTCATTG
* *
14717079 ATGGCCAGATAAATTAGGCTTAAAGCTTCATTG
1 A-GGCCAGATAAACTGGGCTTAAAGCTTCATTG
*
14717112 AAGGTCAGATAAACTGGGCTTAAAG
1 -AGGCCAGATAAACTGGGCTTAAAG
14717137 TTTTTTTTTT
Statistics
Matches: 538, Mismatches: 66, Indels: 42
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.00
32 69 0.13
33 430 0.80
34 10 0.02
35 1 0.00
40 1 0.00
41 1 0.00
42 25 0.05
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (32 bp):
AGGCCAGATAAACTGGGCTTAAAGCTTCATTG
Found at i:14718326 original size:13 final size:14
Alignment explanation
Indices: 14718308--14718338 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14718298 TCTCAAAAAA
14718308 TTTTGTCT-TTTTT
1 TTTTGTCTCTTTTT
14718321 TTTTGTCTCTTTTT
1 TTTTGTCTCTTTTT
14718335 TTTT
1 TTTT
14718339 TAAACCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (14 bp):
TTTTGTCTCTTTTT
Found at i:14718443 original size:6 final size:6
Alignment explanation
Indices: 14718423--14718456 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
14718413 TTTTTTTCTC
14718423 TTTTT- TTTGTTG TTTTTG TTTTTG TTTTTG TTTT
1 TTTTTG TTT-TTG TTTTTG TTTTTG TTTTTG TTTT
14718457 ATGCCCTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 3 0.11
6 21 0.78
7 3 0.11
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:14725173 original size:14 final size:14
Alignment explanation
Indices: 14725139--14725203 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
14725129 ATATGGAAGG
* *
14725139 TTTAGGATTTTGAT
1 TTTAGGGTTTGGAT
* *
14725153 TTAAGGGTTTGAAT
1 TTTAGGGTTTGGAT
14725167 TTTAGGGATTTTGGAT
1 TTTAGGG--TTTGGAT
* *
14725183 TTTGGGGTTTGGAC
1 TTTAGGGTTTGGAT
14725197 TTTAGGG
1 TTTAGGG
14725204 GGCTTGGGAT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 28 0.70
16 12 0.30
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTGGAT
Found at i:14725247 original size:16 final size:16
Alignment explanation
Indices: 14725226--14725399 Score: 102
Period size: 16 Copynumber: 10.5 Consensus size: 16
14725216 CAAATTTTGG
14725226 GGGGTTTTGGATTTTA
1 GGGGTTTTGGATTTTA
*
14725242 GGGGTTTCGGATTTTA
1 GGGGTTTTGGATTTTA
*
14725258 GGCGG-TTTGGATTTAA
1 GG-GGTTTTGGATTTTA
*
14725274 GGGATTTTGGATTTTTA
1 GGGGTTTTGGA-TTTTA
* * *
14725291 GGAGTTTCGAATTTTA
1 GGGGTTTTGGATTTTA
* * *
14725307 -GGATTTTAGATTTTT
1 GGGGTTTTGGATTTTA
* *
14725322 GGGGTTTCGAATTTTA
1 GGGGTTTTGGATTTTA
**
14725338 -GAATTTTGGATTTTTA
1 GGGGTTTTGGA-TTTTA
* *
14725354 GATTTTGGATTTTAGATTTTA
1 G-----GGGTTTTGGATTTTA
*
14725375 GGAGATTTTGGATTTTA
1 GG-GGTTTTGGATTTTA
14725392 GGGGTTTT
1 GGGGTTTT
14725400 AGAAACCTAG
Statistics
Matches: 118, Mismatches: 28, Indels: 24
0.69 0.16 0.14
Matches are distributed among these distances:
15 16 0.14
16 60 0.51
17 28 0.24
21 6 0.05
22 8 0.07
ACGTcount: A:0.19, C:0.02, G:0.29, T:0.49
Consensus pattern (16 bp):
GGGGTTTTGGATTTTA
Found at i:14725287 original size:7 final size:7
Alignment explanation
Indices: 14725275--14725390 Score: 52
Period size: 7 Copynumber: 15.0 Consensus size: 7
14725265 TGGATTTAAG
14725275 GGATTTT
1 GGATTTT
14725282 GGATTTTT
1 GGA-TTTT
*
14725290 AGGAGTTTC
1 -GGA-TTTT
*
14725299 GAATTTT
1 GGATTTT
14725306 AGGATTTT
1 -GGATTTT
*
14725314 AGATTTTT
1 GGA-TTTT
* *
14725322 GGGGTTTC
1 -GGATTTT
*
14725330 GAATTTT
1 GGATTTT
*
14725337 AGAATTTT
1 -GGATTTT
14725345 GGATTTTT
1 GGA-TTTT
*
14725353 AGATTTT
1 GGATTTT
14725360 GGATTTT
1 GGATTTT
*
14725367 AGATTTT
1 GGATTTT
14725374 AGGAGATTTT
1 --G-GATTTT
14725384 GGATTTT
1 GGATTTT
14725391 AGGGGTTTTA
Statistics
Matches: 82, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
7 36 0.44
8 33 0.40
9 7 0.09
10 6 0.07
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.53
Consensus pattern (7 bp):
GGATTTT
Found at i:14725314 original size:8 final size:8
Alignment explanation
Indices: 14725230--14725393 Score: 76
Period size: 8 Copynumber: 20.9 Consensus size: 8
14725220 TTTTGGGGGG
14725230 TTTT-GGA
1 TTTTAGGA
*
14725237 TTTTAGGG
1 TTTTAGGA
* *
14725245 GTTTCGGA
1 TTTTAGGA
*
14725253 TTTTAGGCG
1 TTTTAGG-A
*
14725262 GTTT-GGA
1 TTTTAGGA
*
14725269 TTTAAGGGA
1 TTTTA-GGA
14725278 TTTT-GGA
1 TTTTAGGA
14725285 TTTTTAGGA
1 -TTTTAGGA
* * *
14725294 GTTTCGAA
1 TTTTAGGA
14725302 TTTTAGGA
1 TTTTAGGA
14725310 TTTTA-GA
1 TTTTAGGA
* *
14725317 TTTTTGGG
1 TTTTAGGA
* * *
14725325 GTTTCGAA
1 TTTTAGGA
*
14725333 TTTTAGAA
1 TTTTAGGA
14725341 TTTT-GGA
1 TTTTAGGA
14725348 TTTTTA-GA
1 -TTTTAGGA
14725356 TTTT-GGA
1 TTTTAGGA
14725363 TTTTA-GA
1 TTTTAGGA
14725370 TTTTAGGAGA
1 TTTTA-G-GA
14725380 TTTT-GGA
1 TTTTAGGA
14725387 TTTTAGG
1 TTTTAGG
14725394 GGTTTTAGAA
Statistics
Matches: 115, Mismatches: 27, Indels: 29
0.67 0.16 0.17
Matches are distributed among these distances:
7 40 0.35
8 57 0.50
9 12 0.10
10 6 0.05
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.50
Consensus pattern (8 bp):
TTTTAGGA
Found at i:14725332 original size:31 final size:32
Alignment explanation
Indices: 14725275--14725354 Score: 126
Period size: 31 Copynumber: 2.5 Consensus size: 32
14725265 TGGATTTAAG
14725275 GGATTTTGGATTTTTAGGAGTTTCGAATTTTA
1 GGATTTTGGATTTTTAGGAGTTTCGAATTTTA
* *
14725307 GGATTTTAGATTTTT-GGGGTTTCGAATTTTA
1 GGATTTTGGATTTTTAGGAGTTTCGAATTTTA
*
14725338 GAATTTTGGATTTTTAG
1 GGATTTTGGATTTTTAG
14725355 ATTTTGGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 28 0.65
32 15 0.35
ACGTcount: A:0.21, C:0.03, G:0.25, T:0.51
Consensus pattern (32 bp):
GGATTTTGGATTTTTAGGAGTTTCGAATTTTA
Found at i:14725350 original size:15 final size:14
Alignment explanation
Indices: 14725332--14725373 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
14725322 GGGGTTTCGA
14725332 ATTTTAGAATTTTGG
1 ATTTTAG-ATTTTGG
14725347 ATTTTTAGATTTTGG
1 A-TTTTAGATTTTGG
14725362 ATTTTAGATTTT
1 ATTTTAGATTTT
14725374 AGGAGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.42
15 9 0.35
16 6 0.23
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.60
Consensus pattern (14 bp):
ATTTTAGATTTTGG
Found at i:14725745 original size:23 final size:22
Alignment explanation
Indices: 14725718--14725766 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
14725708 TTCAATTTTA
*
14725718 TTATTAATAAAACAA-TTAAACAT
1 TTATT-ATAAAA-AATTTAAAAAT
*
14725741 TTATTCTAAAAAATTTAAAAAT
1 TTATTATAAAAAATTTAAAAAT
14725763 TTAT
1 TTAT
14725767 CATGCATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 16 0.70
23 5 0.22
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (22 bp):
TTATTATAAAAAATTTAAAAAT
Found at i:14725751 original size:22 final size:22
Alignment explanation
Indices: 14725725--14725766 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14725715 TTATTATTAA
*
14725725 TAAAACAA-TTAAACATTTATTC
1 TAAAA-AATTTAAAAATTTATTC
14725747 TAAAAAATTTAAAAATTTAT
1 TAAAAAATTTAAAAATTTAT
14725767 CATGCATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAAAAATTTAAAAATTTATTC
Found at i:14726944 original size:3 final size:3
Alignment explanation
Indices: 14726936--14726970 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14726926 TTATTTTTTA
14726936 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14726971 ACTAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14729815 original size:10 final size:10
Alignment explanation
Indices: 14729800--14729826 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14729790 GAGTTTACCT
14729800 TTTTTTTTTC
1 TTTTTTTTTC
14729810 TTTTTTTTTC
1 TTTTTTTTTC
14729820 TTTTTTT
1 TTTTTTT
14729827 CTTTTTGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:14731646 original size:71 final size:73
Alignment explanation
Indices: 14731547--14731705 Score: 182
Period size: 71 Copynumber: 2.2 Consensus size: 73
14731537 AGTGATTGTT
* ** * **
14731547 AAACTATAT-TTTTGAA-ATTCTAAAATTTTAACAAAAATCATATTTTTAAGATAAAAATGTAAT
1 AAACTATATATTTTCAATATTAAAAAATTTTAACAAAAATCATACTTTTAAGATAAAAACATAAT
* *
14731610 AAATGTTG
66 AAATATGG
* * * *
14731618 AAA-T-TATATTTTCAATATTAAAAAATTTTAACAAATATCGTGCTTTTAAGTTAAAAACATAAT
1 AAACTATATATTTTCAATATTAAAAAATTTTAACAAAAATCATACTTTTAAGATAAAAACATAAT
14731681 AAATATGG
66 AAATATGG
14731689 AAACTATATATTTTCAA
1 AAACTATATATTTTCAA
14731706 ATTTCTGAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
69 3 0.04
70 7 0.10
71 50 0.69
72 1 0.01
73 11 0.15
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (73 bp):
AAACTATATATTTTCAATATTAAAAAATTTTAACAAAAATCATACTTTTAAGATAAAAACATAAT
AAATATGG
Found at i:14731853 original size:71 final size:69
Alignment explanation
Indices: 14731776--14731959 Score: 180
Period size: 71 Copynumber: 2.6 Consensus size: 69
14731766 AAGACCATAT
*
14731776 TTTTAAGATAAAAAATGTAATAGATGTTAAAA--TTATATTTTGAAATTCTAAAATTTTAACAAA
1 TTTTAAGATAAAAAA--TAATAGATGTTAAAACTTTAT-TTTTGAAATTATAAAATTTT-A-AAA
14731839 AAAT-CACA
61 AAATCCACA
* *
14731847 TTTTAAGATTAAAAAA-AATAG-TGGTTATTAAAACTTTATTTTTGAAATTATGAAATTTTAATA
1 TTTTAAGA-TAAAAAATAATAGAT-G---TTAAAACTTTATTTTTGAAATTATAAAATTTTAAAA
*
14731910 AACTCCACA
61 AAATCCACA
*
14731919 TTTGTAAGATAAAAACATAATAGATGTTAAAACTTTGTTTT
1 TTT-TAAGATAAAAA-ATAATAGATGTTAAAACTTTATTTT
14731960 CAAATTTTAC
Statistics
Matches: 96, Mismatches: 5, Indels: 24
0.77 0.04 0.19
Matches are distributed among these distances:
68 1 0.01
69 6 0.06
71 27 0.28
72 27 0.28
73 24 0.25
74 10 0.10
75 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (69 bp):
TTTTAAGATAAAAAATAATAGATGTTAAAACTTTATTTTTGAAATTATAAAATTTTAAAAAAATC
CACA
Found at i:14732081 original size:37 final size:37
Alignment explanation
Indices: 14732031--14732113 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
14732021 TAAAATTAAA
** * * *
14732031 ATAAAATGCAAAATATATTTAATTAAAATTATTATAT
1 ATAAAATTTAAAATACATTTAATTAAAATTAATACAT
* *
14732068 ATAAAATTTAAAATACATTTATTTAATATTAATACAT
1 ATAAAATTTAAAATACATTTAATTAAAATTAATACAT
*
14732105 ACAAAATTT
1 ATAAAATTT
14732114 GTTACCACTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (37 bp):
ATAAAATTTAAAATACATTTAATTAAAATTAATACAT
Found at i:14732704 original size:3 final size:3
Alignment explanation
Indices: 14732696--14732746 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
14732686 TTTAGAAATA
*
14732696 AAT AAT AAT AAT AAT AAT AAT AAT AAG AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14732744 AAT
1 AAT
14732747 TCCACATCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14734686 original size:31 final size:31
Alignment explanation
Indices: 14734651--14734710 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
14734641 ATACACTATC
* *
14734651 AATGAATTAGATAATGATGA-TTTATTAATAA
1 AATGAATCAGATAATAAT-ATTTTATTAATAA
*
14734682 AATGAATCAGATGATAATATTTTATTAAT
1 AATGAATCAGATAATAATATTTTATTAAT
14734711 GATTAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (31 bp):
AATGAATCAGATAATAATATTTTATTAATAA
Found at i:14744431 original size:17 final size:17
Alignment explanation
Indices: 14744409--14744464 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 17
14744399 TACAGATAAG
14744409 AGTTTTTGCCAAAAAAA
1 AGTTTTTGCCAAAAAAA
*
14744426 AGTTTTCGCCAATAAAAAAA
1 AGTTTTTGCC---AAAAAAA
*
14744446 AATTTTTGTCCAAAAAAA
1 AGTTTTTG-CCAAAAAAA
14744464 A
1 A
14744465 AAAGCTTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 9 0.28
18 8 0.25
20 13 0.41
21 2 0.06
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (17 bp):
AGTTTTTGCCAAAAAAA
Found at i:14744445 original size:21 final size:21
Alignment explanation
Indices: 14744419--14744468 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
14744409 AGTTTTTGCC
14744419 AAAAAAAAGTTTTCG-CCAATA
1 AAAAAAAAGTTTTCGTCCAA-A
*
14744440 AAAAAAAA-TTTTTGTCCAAA
1 AAAAAAAAGTTTTCGTCCAAA
14744460 AAAAAAAAG
1 AAAAAAAAG
14744469 CTTGCAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.60, C:0.10, G:0.08, T:0.22
Consensus pattern (21 bp):
AAAAAAAAGTTTTCGTCCAAA
Found at i:14746146 original size:42 final size:43
Alignment explanation
Indices: 14746100--14746187 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 43
14746090 AGAAAAGATG
*
14746100 AAAA-TTTTAAAGTTGTGGAGCCTATACTTAGAGGAGCCTTTT
1 AAAATTTTTAAAGTTGTGAAGCCTATACTTAGAGGAGCCTTTT
* *
14746142 AAAATTTTTAAAGTTGTGAAGCCTCTACTTAGAGGAGCTTTTT
1 AAAATTTTTAAAGTTGTGAAGCCTATACTTAGAGGAGCCTTTT
14746185 AAA
1 AAA
14746188 GTTGTTGAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.36
Consensus pattern (43 bp):
AAAATTTTTAAAGTTGTGAAGCCTATACTTAGAGGAGCCTTTT
Found at i:14746371 original size:116 final size:116
Alignment explanation
Indices: 14746151--14746417 Score: 269
Period size: 117 Copynumber: 2.3 Consensus size: 116
14746141 TAAAATTTTT
* * ***
14746151 AAAGTTGTGAAGCCTCTACTTAGAGGAGCTTTTTAAAGTTGTTGAGCATTTGTTTAAAGGAACAT
1 AAAGTTGTGAAGCCTCTACTTAGAGGAGCTTTTTAAAGTTATTGAGCATCTCCCTAAAGGAACAT
* *
14746216 TCATTATCAAGATTCGTAAAGTTCTCTAGGTAGAATATTTTAAATCTTTCA
66 TCATTATCAAGATTCGTAAAGTCCTCTAGGCAGAATATTTTAAATCTTTCA
*
14746267 AAAGTTGTAGAA-CCTTTACTTAGAGGAGCTTTTTTAAAGTTATTGAGTC-TCTCCCTAGAA-GA
1 AAAGTTGT-GAAGCCTCTACTTAGAGGAGC-TTTTTAAAGTTATTGAG-CATCTCCCTA-AAGGA
* * * * **
14746329 GCATTCATTATCAGGATTCGT-CAGTCCT-TCGGACAGAATATTTT-AAT-TTTTT
62 ACATTCATTATCAAGATTCGTAAAGTCCTCTAGG-CAGAATATTTTAAATCTTTCA
* * * *
14746381 AAAGTTATTAAGCCTCTACTTAAATGAGCATTTTTAA
1 AAAGTTGTGAAGCCTCTACTTAGAGGAGC-TTTTTAA
14746418 TTTTTAAAGT
Statistics
Matches: 125, Mismatches: 20, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
113 2 0.02
114 31 0.25
115 6 0.05
116 39 0.31
117 44 0.35
118 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (116 bp):
AAAGTTGTGAAGCCTCTACTTAGAGGAGCTTTTTAAAGTTATTGAGCATCTCCCTAAAGGAACAT
TCATTATCAAGATTCGTAAAGTCCTCTAGGCAGAATATTTTAAATCTTTCA
Found at i:14746427 original size:42 final size:42
Alignment explanation
Indices: 14746369--14746685 Score: 225
Period size: 42 Copynumber: 7.5 Consensus size: 42
14746359 GGACAGAATA
* * * *
14746369 TTTTAATTTTTTAAAGTTATTAAGCCTCTACTTAAATGAGCAT
1 TTTTAA-TTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGCCT
* ** *
14746412 TTTTAATTTTTAAAGTTGTCGAGCCTCTACTTGGAGGAACCCTTT
1 TTTTAATTTTTAAAGTTGTTGAGCCTCTACTTAAAGG-AGCC--T
* * * *
14746457 TTTTAATTTTCAAAGTTGTTAAGCCTTTACTTAAA-AAGGCCT
1 TTTTAATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGA-GCCT
** * * **
14746499 TTCAAAATTTTAAAAGTTGTTGAGCCTTTGTTTAGAA-GAGCCT
1 TT-TTAATTTTTAAAGTTGTTGAGCCTCTACTTA-AAGGAGCCT
* * * *
14746542 TTTAAATTTTTAAAGTTGTCGAGCCTCTACTTAAAGGTGCTT
1 TTTTAATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGCCT
* * * * *
14746584 TTTTAATTTTCAAAGTTATTGAGCCTTTATTTAGAGGAG--T
1 TTTTAATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGCCT
** *
14746624 TTTTAATTTTTAAAAGTCATCGAGCCTCTACTTAGAAGG-GCC-
1 TTTTAATTTTT-AAAGTTGTTGAGCCTCTACTTA-AAGGAGCCT
14746666 -TTTAATTTTTAAAAGTTGTT
1 TTTTAATTTTT-AAAGTTGTT
14746686 AGGCATATAC
Statistics
Matches: 215, Mismatches: 48, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
40 11 0.05
41 38 0.18
42 91 0.42
43 40 0.19
44 5 0.02
45 30 0.14
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (42 bp):
TTTTAATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGCCT
Found at i:14748195 original size:21 final size:20
Alignment explanation
Indices: 14748127--14748195 Score: 50
Period size: 21 Copynumber: 3.3 Consensus size: 20
14748117 TGAAGAAAAT
*
14748127 TAAAAAAATAAAAAGAATAAA
1 TAAAAAAATAATAA-AATAAA
* **
14748148 TAAAATAGA-AATAAATATATT
1 TAAAA-AAATAATAAA-ATAAA
*
14748169 TTAAAAAATAATAACAATAAA
1 TAAAAAAATAATAA-AATAAA
14748190 TAAAAA
1 TAAAAA
14748196 CAAATAGTTG
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 3 0.09
21 29 0.83
22 3 0.09
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.23
Consensus pattern (20 bp):
TAAAAAAATAATAAAATAAA
Found at i:14748672 original size:3 final size:3
Alignment explanation
Indices: 14748664--14748697 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
14748654 ATTCCTAAGT
14748664 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14748698 ATGTTATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14749006 original size:20 final size:21
Alignment explanation
Indices: 14748978--14749021 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
14748968 AAAAAAATTA
14748978 TTAATAAAATTATAAAAGGTT
1 TTAATAAAATTATAAAAGGTT
*
14748999 TTAA-AAAATTATAAAAGTTT
1 TTAATAAAATTATAAAAGGTT
14749019 TTA
1 TTA
14749022 TCAATTCGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TTAATAAAATTATAAAAGGTT
Found at i:14749468 original size:17 final size:16
Alignment explanation
Indices: 14749440--14749493 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
14749430 ATTGATACGT
*
14749440 TATAACAAATATAATACA
1 TATAATAAATATAA-A-A
14749458 TAT-ATAAATATAAAA
1 TATAATAAATATAAAA
*
14749473 TATAATAAATAATCAAA
1 TATAATAAAT-ATAAAA
14749490 TATA
1 TATA
14749494 TCTTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 4 0.12
16 7 0.22
17 18 0.56
18 3 0.09
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
TATAATAAATATAAAA
Found at i:14749474 original size:24 final size:24
Alignment explanation
Indices: 14749446--14749493 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
14749436 ACGTTATAAC
*
14749446 AAATATAATACATATAT-AAATATA
1 AAATATAATAAATA-ATCAAATATA
14749470 AAATATAATAAATAATCAAATATA
1 AAATATAATAAATAATCAAATATA
14749494 TCTTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATATAATAAATAATCAAATATA
Found at i:14759181 original size:18 final size:18
Alignment explanation
Indices: 14759160--14759194 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14759150 AAAGGATAAA
14759160 AAAAAGTTAAAAA-AAATT
1 AAAAA-TTAAAAATAAATT
14759178 AAAAATTAAAAATAAAT
1 AAAAATTAAAAATAAAT
14759195 AATTGGGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAATTAAAAATAAATT
Found at i:14759199 original size:100 final size:93
Alignment explanation
Indices: 14759094--14759276 Score: 240
Period size: 94 Copynumber: 1.9 Consensus size: 93
14759084 GTAGATACCC
* *
14759094 TAATTGGTCCCATCTTTTATAAATTTATCCAATAAAAAAATAAAATGTTAAAAACAAAAGGATAA
1 TAATTGGGCCCATCTTTTATAAATTTATCCAAT-----AA-AAAATGTTAAAAACAAAAAGATAA
14759159 AAAAAAGTTAAAAAAAATTAAAAATTAAAAATAAA
60 AAAAAAGTT-AAAAAAATTAAAAATTAAAAATAAA
* * **
14759194 TAATTGGGCTCATCTTTTATAAATTTGTCCAATAAAAAATGTTAAAAACAAAAAGATTGAAAAAA
1 TAATTGGGCCCATCTTTTATAAATTTATCCAATAAAAAATGTTAAAAACAAAAAGATAAAAAAAA
*
14759259 GTTAAAATAATTAAAAAT
66 GTTAAAAAAATTAAAAAT
14759277 AATTAAAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
93 14 0.18
94 30 0.39
95 2 0.03
100 30 0.39
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (93 bp):
TAATTGGGCCCATCTTTTATAAATTTATCCAATAAAAAATGTTAAAAACAAAAAGATAAAAAAAA
GTTAAAAAAATTAAAAATTAAAAATAAA
Found at i:14760800 original size:25 final size:25
Alignment explanation
Indices: 14760772--14760820 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14760762 ACCAAAATTT
*
14760772 TTTTAAATA-ATAAATATATAAAAAG
1 TTTTAAAAAGATAAA-ATATAAAAAG
14760797 TTTTAAAAAGATAAAATATAAAAA
1 TTTTAAAAAGATAAAATATAAAAA
14760821 ATAAAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
TTTTAAAAAGATAAAATATAAAAAG
Found at i:14760824 original size:14 final size:15
Alignment explanation
Indices: 14760800--14760837 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14760790 TAAAAAGTTT
14760800 TAAAAAGATAAAAT-A
1 TAAAAA-ATAAAATGA
14760815 TAAAAAATAAAATGA
1 TAAAAAATAAAATGA
14760830 TCAAAAAA
1 T-AAAAAA
14760838 CTTATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (15 bp):
TAAAAAATAAAATGA
Found at i:14761260 original size:21 final size:21
Alignment explanation
Indices: 14761234--14761273 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14761224 CAACCCACTT
14761234 GCATAATAGCCAGTTAAAAAA
1 GCATAATAGCCAGTTAAAAAA
*
14761255 GCATAATAGCCGGTTAAAA
1 GCATAATAGCCAGTTAAAA
14761274 GAAAATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (21 bp):
GCATAATAGCCAGTTAAAAAA
Found at i:14770191 original size:2 final size:2
Alignment explanation
Indices: 14770184--14770231 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
14770174 GATGAAAATG
*
14770184 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
14770226 GA GA GA
1 GA GA GA
14770232 ACTCACATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14771866 original size:20 final size:20
Alignment explanation
Indices: 14771831--14771878 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
14771821 ATATAATTAT
14771831 ATAA-TTATATTTAAAAAATA
1 ATAATTTATATTT-AAAAATA
*
14771851 ATATTTTATA-TTAAAAATA
1 ATAATTTATATTTAAAAATA
14771870 ATAATTTAT
1 ATAATTTAT
14771879 TAATTTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.60
20 5 0.20
21 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAATTTATATTTAAAAATA
Found at i:14772295 original size:10 final size:10
Alignment explanation
Indices: 14772275--14772308 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
14772265 GTACGATGTG
14772275 AAAAATAATAT
1 AAAAAT-ATAT
14772286 AAAAATATAT
1 AAAAATATAT
14772296 AAAAATTATAT
1 AAAAA-TATAT
14772307 AA
1 AA
14772309 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATATAT
Found at i:14779023 original size:11 final size:11
Alignment explanation
Indices: 14779007--14779039 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
14778997 ATCAACTCTG
14779007 TAAGTTCATTT
1 TAAGTTCATTT
14779018 TAAGTTCATTT
1 TAAGTTCATTT
14779029 TAAGTTCATTT
1 TAAGTTCATTT
14779040 CATTTCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (11 bp):
TAAGTTCATTT
Found at i:14779673 original size:59 final size:59
Alignment explanation
Indices: 14779600--14779882 Score: 254
Period size: 59 Copynumber: 4.8 Consensus size: 59
14779590 TTTGTACAAG
* *
14779600 GAAAAATTGATACTTTCAACTTTT-TTCCAAAATATTTTTTTTTCAAATTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAATATTTTTTTTTAAAATTTTAATTTCGA
* * *
14779659 GAAAAACTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTGAAAACTTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTAAAA-TTTTAATTTCGA
* * * * **
14779718 GGAAAATTGCTATTTTCAACTTTTCCTCAAAACT-TTTTTTTTTGAAAA-TTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAA-TATTTTTTTTT-AAAATTTTAATTTCGA
* * *** * * **
14779777 GAAAAATTGATACTTTCAACTTTTTCT-TAAACCCTTTTTTTGAAAA-TTTATTCTTAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTAAAATTTTAAT-TTCGA
* * * *
14779835 AAAAAATTGATACTTTCAACTTTTTCTCAAAAATAATTTTATTTAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTTTTAAAA
14779883 AAATAATAAA
Statistics
Matches: 185, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
57 10 0.05
58 51 0.28
59 99 0.54
60 21 0.11
61 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTAAAATTTTAATTTCGA
Found at i:14779816 original size:118 final size:118
Alignment explanation
Indices: 14779602--14779883 Score: 286
Period size: 118 Copynumber: 2.4 Consensus size: 118
14779592 TGTACAAGGA
* * *
14779602 AAAATTGATACTTTCAACTTTTTTCCAAAATATTTTTTTTTCAAATTTTAATTTCGAGAAAAACT
1 AAAATTGATACTTTCAACTTTTCTCCAAAATATTTTTTTTTCAAAATTTAATTTCAAGAAAAACT
14779667 GATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTTAATTTCGAGG
66 GATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTTAATTTCGAGG
* * * * *
14779720 AAAATTGCTATTTTCAACTTTTC-CTCAAAACT-TTTTTTTTTGAAAATTTATTTTTAAGAAAAA
1 AAAATTGATACTTTCAACTTTTCTC-CAAAA-TATTTTTTTTTCAAAATTTAATTTCAAGAAAAA
* * * ** * ** **
14779783 TTGATACTTTCAACTTTTTCTTAAACCCT-TTTTTTGAAAA--TTTATTCTTAAAAA
64 CTGATACTTTCAACTTTTCCTCAAA-AATATTTTTTGAAAACTTTTAAT-TTCGAGG
* * * *
14779837 AAAATTGATACTTTCAACTTTTTCTCAAAAATAATTTTATTTAAAAA
1 AAAATTGATACTTTCAAC-TTTTCTCCAAAATATTTTTTTTTCAAAA
14779884 AATAATAAAA
Statistics
Matches: 133, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
116 5 0.04
117 21 0.16
118 104 0.78
119 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCTCCAAAATATTTTTTTTTCAAAATTTAATTTCAAGAAAAACT
GATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTTAATTTCGAGG
Found at i:14779901 original size:17 final size:19
Alignment explanation
Indices: 14779878--14779931 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
14779868 TAATTTTATT
14779878 TAAAAA-AATAATAAAATAA
1 TAAAAATAATAAT-AAATAA
*
14779897 TAAAACAAAATAAATAAATAA
1 TAAAA-ATAAT-AATAAATAA
*
14779918 TAAAAATAAAAATA
1 TAAAAATAATAATA
14779932 TTAAATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 9 0.30
20 4 0.13
21 14 0.47
22 3 0.10
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (19 bp):
TAAAAATAATAATAAATAA
Found at i:14779906 original size:21 final size:21
Alignment explanation
Indices: 14779882--14779922 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14779872 TTTATTTAAA
14779882 AAAAT-AATAAAATAATAAAAC
1 AAAATAAAT-AAATAATAAAAC
14779903 AAAATAAATAAATAATAAAA
1 AAAATAAATAAATAATAAAA
14779923 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAATAAATAAATAATAAAAC
Found at i:14780853 original size:16 final size:15
Alignment explanation
Indices: 14780808--14780859 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
14780798 AAGAAGAAAC
14780808 AAAAA-AAAAAAGAT
1 AAAAATAAAAAAGAT
*
14780822 -AAAATAAAAAAAAT
1 AAAAATAAAAAAGAT
14780836 AAAAATAAAAAAGGAT
1 AAAAATAAAAAA-GAT
*
14780852 AATAATAA
1 AAAAATAA
14780860 GGATAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 4 0.12
14 8 0.25
15 11 0.34
16 9 0.28
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (15 bp):
AAAAATAAAAAAGAT
Found at i:14780887 original size:8 final size:7
Alignment explanation
Indices: 14780852--14781013 Score: 79
Period size: 7 Copynumber: 22.3 Consensus size: 7
14780842 AAAAAAGGAT
14780852 AATAATA
1 AATAATA
14780859 AGGATAATA
1 A--ATAATA
* *
14780868 TATTAATT
1 -AATAATA
14780876 AATAGATA
1 AATA-ATA
14780884 AATAATA
1 AATAATA
14780891 ATATAAT-
1 A-ATAATA
14780898 AA-AATA
1 AATAATA
14780904 AATACAT-
1 AATA-ATA
*
14780911 ATTAATA
1 AATAATA
*
14780918 AATAGT-
1 AATAATA
14780924 AATAATA
1 AATAATA
14780931 AATAAGTA
1 AATAA-TA
14780939 AATAATA
1 AATAATA
14780946 AATACATA
1 AATA-ATA
14780954 AA-AGATA
1 AATA-ATA
14780961 AA-AATA
1 AATAATA
14780967 TATATAATA
1 -A-ATAATA
* *
14780976 TAGAATA
1 AATAATA
14780983 AA-AATA
1 AATAATA
14780989 AA-ATATAA
1 AATA-AT-A
*
14780997 AATACAAA
1 AATA-ATA
14781005 AATAATA
1 AATAATA
14781012 AA
1 AA
14781014 AAAAACAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 36
0.71 0.09 0.21
Matches are distributed among these distances:
5 3 0.02
6 20 0.16
7 48 0.39
8 38 0.31
9 12 0.10
10 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:14780894 original size:24 final size:24
Alignment explanation
Indices: 14780862--14780931 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 24
14780852 AATAATAAGG
14780862 ATAAT-ATATTAATTAATAGATAA
1 ATAATAATATTAATTAATAGATAA
14780885 ATAATAATA-TAA-TAA-A-ATAA
1 ATAATAATATTAATTAATAGATAA
* *
14780905 AT-A-CATATTAATAAATAG-T-A
1 ATAATAATATTAATTAATAGATAA
14780925 ATAATAA
1 ATAATAA
14780932 ATAAGTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 15
0.67 0.05 0.27
Matches are distributed among these distances:
18 3 0.08
19 4 0.11
20 11 0.30
21 4 0.11
22 4 0.11
23 8 0.22
24 3 0.08
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (24 bp):
ATAATAATATTAATTAATAGATAA
Found at i:14780899 original size:15 final size:14
Alignment explanation
Indices: 14780824--14781013 Score: 80
Period size: 15 Copynumber: 13.4 Consensus size: 14
14780814 AAAAAGATAA
14780824 AATAAA-AA-AAAT
1 AATAAATAATAAAT
* *
14780836 AA-AAATAAAAAAG
1 AATAAATAATAAAT
*
14780849 GAT-AATAATAAGGAT
1 AATAAATAATAA--AT
* *
14780864 AATATATTAATTAAT
1 AATA-AATAATAAAT
14780879 AGATAAATAATAATAT
1 A-ATAAATAATAA-AT
14780895 AAT-AA-AATAAAT
1 AATAAATAATAAAT
*
14780907 ACAT-ATTAATAAAT
1 A-ATAAATAATAAAT
*
14780921 AGT-AATAATAAAT
1 AATAAATAATAAAT
14780934 AAGTAAATAATAAAT
1 AA-TAAATAATAAAT
14780949 ACATAAA-AGATAAA-
1 A-ATAAATA-ATAAAT
* *
14780963 AATATATATAATATAG
1 AATA-A-ATAATAAAT
14780979 AATAAA-AATAAA-
1 AATAAATAATAAAT
*
14780991 ATATAAAATACAAAAAT
1 A-AT-AAATA-ATAAAT
14781008 AATAAA
1 AATAAA
14781014 AAAAACAAAA
Statistics
Matches: 138, Mismatches: 16, Indels: 45
0.69 0.08 0.23
Matches are distributed among these distances:
11 3 0.02
12 8 0.06
13 40 0.29
14 18 0.13
15 44 0.32
16 18 0.13
17 7 0.05
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (14 bp):
AATAAATAATAAAT
Found at i:14780922 original size:42 final size:42
Alignment explanation
Indices: 14780867--14780953 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
14780857 TAAGGATAAT
*
14780867 ATATTAATTAATAGATAAATAATAATATAA-T-AA-AATAAATAC
1 ATATTAATAAATAG-T-AATAATAA-ATAAGTAAATAATAAATAC
14780909 ATATTAATAAATAGTAATAATAAATAAGTAAATAATAAATAC
1 ATATTAATAAATAGTAATAATAAATAAGTAAATAATAAATAC
14780951 ATA
1 ATA
14780954 AAAGATAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
39 4 0.10
40 9 0.22
41 3 0.07
42 25 0.61
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (42 bp):
ATATTAATAAATAGTAATAATAAATAAGTAAATAATAAATAC
Found at i:14780983 original size:55 final size:54
Alignment explanation
Indices: 14780882--14780989 Score: 127
Period size: 55 Copynumber: 2.0 Consensus size: 54
14780872 AATTAATAGA
14780882 TAAATAATAATATAATAAAATAAATACATATTAATAAATAGTAATAATAAATAAG
1 TAAATAATAATATAATAAAATAAATACATATTAATAAATAGTAATAA-AAATAAG
14780937 TAAATAATAA-ATACATAAAAGATAAA-A-ATA-TATATAATATAG-AATAAAAATAA
1 TAAATAATAATATA-AT-AAA-ATAAATACATATTA-ATAA-ATAGTAATAAAAATAA
14780990 AATATAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
54 11 0.23
55 24 0.50
56 8 0.17
57 5 0.10
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (54 bp):
TAAATAATAATATAATAAAATAAATACATATTAATAAATAGTAATAAAAATAAG
Found at i:14780994 original size:23 final size:23
Alignment explanation
Indices: 14780958--14781014 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
14780948 TACATAAAAG
* * *
14780958 ATAAAAAT-ATATATAATATAGA
1 ATAAAAATAAAATATAAAATACA
14780980 ATAAAAATAAAATATAAAATACA
1 ATAAAAATAAAATATAAAATACA
14781003 A-AAATAATAAAA
1 ATAAA-AATAAAA
14781015 AAAACAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (23 bp):
ATAAAAATAAAATATAAAATACA
Found at i:14781011 original size:18 final size:19
Alignment explanation
Indices: 14780968--14781024 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
14780958 ATAAAAATAT
*
14780968 ATATAATATAGAATA-AAA
1 ATATAATATAAAATACAAA
*
14780986 ATAAAATATAAAATACAAA
1 ATATAATATAAAATACAAA
* *
14781005 A-ATAATAAAAAAAACAAA
1 ATATAATATAAAATACAAA
14781023 AT
1 AT
14781025 GGACCAACCC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 28 0.88
19 4 0.12
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
ATATAATATAAAATACAAA
Found at i:14781306 original size:42 final size:43
Alignment explanation
Indices: 14781202--14781391 Score: 233
Period size: 43 Copynumber: 4.4 Consensus size: 43
14781192 TTTGATCAAG
* *
14781202 GCTCCTCTAAGT-AGAGGTTCAACGACTTTGAAAAACATAAACAAT
1 GCTCCTCTAA-TCAGAGGCTCAACGACTTTG-AAAA-ATAAACAAA
* * *
14781247 GCTCCCCTAATCAGAGGCTCAACGACTTTG-AAAATGAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAACAAA
* *
14781289 GCTCCTCTAATTAGAGGCTCAACGACTTTGAAAAATAAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAACAAA
* *
14781332 GCTCCTCTAAACAGAGGCTCAATGACTTTTG-AAAATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAACAAA
*
14781375 GCTCCTCTAAACAGAGG
1 GCTCCTCTAATCAGAGG
14781392 TAATTTTTTT
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
42 34 0.26
43 65 0.50
44 5 0.04
45 26 0.20
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (43 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAACAAA
Found at i:14781569 original size:43 final size:43
Alignment explanation
Indices: 14781434--14781621 Score: 222
Period size: 43 Copynumber: 4.4 Consensus size: 43
14781424 TTTTATCAAA
* * * *
14781434 GCTCCTTTAAGCAGAGGCTCAA-TAATTTTGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAAATAAATG
* * * * *
14781476 GCTCATCTAATCAGAGACTCAACAACTTTT-TAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAAATAAATG
*
14781518 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAAATAAATG
* *
14781561 GCTTCTCTAATCAGAGGCACAACGAC-TTTGAAAAAAATAAAAT-
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTG-AAAAAAT-AAATG
14781604 GCTCCTCTAATCAGAGGC
1 GCTCCTCTAATCAGAGGC
14781622 ACCTCAACTT
Statistics
Matches: 126, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
42 59 0.47
43 63 0.50
44 4 0.03
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (43 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAAATAAATG
Found at i:14781576 original size:85 final size:85
Alignment explanation
Indices: 14781434--14781621 Score: 229
Period size: 85 Copynumber: 2.2 Consensus size: 85
14781424 TTTTATCAAA
* * * *
14781434 GCTCCTTTAAGCAGAGGCTCAATAATTTTGAAAAAATAAATGGCTCATCTAATCAGAGACTCAAC
1 GCTCCTCTAATCAGAGGCTCAAGAATTTTGAAAAAATAAATGGCTCATCTAATCAGAGACACAAC
** *
14781499 AACTTT-TTAAAAGT-AAAT
66 AACTTTGAAAAAAATAAAAT
* * *
14781517 GGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAAGTAAATGGCTTC-TCTAATCAGAGGCAC
1 -GCTCCTCTAATCAGAGGCTCAA-GAATTTTGAAAAAATAAATGGC-TCATCTAATCAGAGACAC
*
14781581 AACGACTTTGAAAAAAATAAAAT
63 AACAACTTTGAAAAAAATAAAAT
14781604 GCTCCTCTAATCAGAGGC
1 GCTCCTCTAATCAGAGGC
14781622 ACCTCAACTT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
84 20 0.22
85 40 0.45
86 25 0.28
87 4 0.04
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (85 bp):
GCTCCTCTAATCAGAGGCTCAAGAATTTTGAAAAAATAAATGGCTCATCTAATCAGAGACACAAC
AACTTTGAAAAAAATAAAAT
Found at i:14781622 original size:43 final size:42
Alignment explanation
Indices: 14781460--14781702 Score: 208
Period size: 42 Copynumber: 5.8 Consensus size: 42
14781450 GCTCAATAAT
* * * *
14781460 TTTGAAAAAATAAATGGCTCATCTAATCAGAGACTCAACAAC
1 TTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCACAACGAC
** * *
14781502 TTTTTAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAACGAC
1 TTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCACAACGAC
* *
14781544 TTTTGAAAAAGTAAATGGCTTCTCTAATCAGAGGCACAACGAC
1 -TTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCACAACGAC
** *
14781587 TTTGAAAAAAATAAAAT-GCTCCTCTAATCAGAGGCACCTCAAC
1 TTTG-AAAAAAT-AAATGGCTCCTCTAATCAGAGGCACAACGAC
* * *
14781630 TTTTG--AAAGTAAATTGCTCCTCTAAAT-AGAGGCAACCACGAC
1 -TTTGAAAAAATAAATGGCTCCTCT-AATCAGAGGC-ACAACGAC
* * * * *
14781672 TTTG-GAATATAAATTGTTCCTCTAAACAGAG
1 TTTGAAAAAATAAATGGCTCCTCTAATCAGAG
14781703 ACACCTCAAC
Statistics
Matches: 170, Mismatches: 22, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
40 4 0.02
41 24 0.14
42 68 0.40
43 66 0.39
44 8 0.05
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (42 bp):
TTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCACAACGAC
Found at i:14781661 original size:41 final size:41
Alignment explanation
Indices: 14781498--14781745 Score: 205
Period size: 43 Copynumber: 5.9 Consensus size: 41
14781488 AGAGACTCAA
* * * * **
14781498 CAACTTTTTAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAA
1 CAAC-TTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCT
* * * * **
14781540 CGACTTTTGAAAAAGTAAATGGCTTCTCTAATCAGAGGCACAA
1 CAACTTTTG--AAAGTAAATTGCTCCTCTAAACAGAGGCACCT
* * * *
14781583 CGAC-TTTGAAAAAAATAAAATGCTCCTCTAATCAGAGGCACCT
1 CAACTTTTG---AAAGTAAATTGCTCCTCTAAACAGAGGCACCT
* *
14781626 CAACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCAACCA
1 CAACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGC-ACCT
* * * *
14781668 CGACTTTGGAATA-TAAATTGTTCCTCTAAACAGAGACACCT
1 CAACTTTTGAA-AGTAAATTGCTCCTCTAAACAGAGGCACCT
14781709 CAACTTTTGAAAGT-AATTGCTCCTCTAAACAGAGGCA
1 CAACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCA
14781746 ACGAAACTTT
Statistics
Matches: 173, Mismatches: 26, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
40 22 0.13
41 41 0.24
42 40 0.23
43 66 0.38
44 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (41 bp):
CAACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCT
Found at i:14781708 original size:83 final size:83
Alignment explanation
Indices: 14781542--14781773 Score: 276
Period size: 83 Copynumber: 2.8 Consensus size: 83
14781532 AGGCTCAACG
* * * * *
14781542 ACTTTTGAAAAAGTAAATGGCTTCTCT-AATCAGAGGC-ACAACGACTTTGAAAAAAATAAAATG
1 ACTTTTG--AAAGTAAATTGCTCCTCTAAAT-AGAGGCAACAACGACTTTG--GAATATAAATTG
* *
14781605 CTCCTCTAATCAGAGGCACCTCA
61 CTCCTCTAAACAGAGACACCTCA
* *
14781628 ACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCAACCACGACTTTGGAATATAAATTGTTCCT
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCAACAACGACTTTGGAATATAAATTGCTCCT
14781693 CTAAACAGAGACACCTCA
66 CTAAACAGAGACACCTCA
* *
14781711 ACTTTTGAAAGT-AATTGCTCCTCTAAACAGAGGCAACGAA--ACTTTGGAATATAAATGGCTCC
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCAAC-AACGACTTTGGAATATAAATTGCTCC
14781773 T
65 T
14781774 TGACAATCAT
Statistics
Matches: 130, Mismatches: 13, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
81 21 0.16
82 24 0.18
83 42 0.32
84 22 0.17
85 14 0.11
86 7 0.05
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.27
Consensus pattern (83 bp):
ACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCAACAACGACTTTGGAATATAAATTGCTCCT
CTAAACAGAGACACCTCA
Found at i:14788245 original size:59 final size:58
Alignment explanation
Indices: 14788182--14788398 Score: 276
Period size: 59 Copynumber: 3.7 Consensus size: 58
14788172 TTTGTACAAG
14788182 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTTTGGAAACTTTTAATTTCGA
*
14788241 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGAAAACTTTTAATTTCGA
1 GAAAAATTGATACTTTCAAC-TTTTCCTAAAAATA-TTTTTTGGAAACTTTTAATTTCGA
* * * * * **
14788301 GAAAAATTGATACTTTCAACTTTTCCTTAAAATCTCTTTTTTGAAA-ATTTATTCTTAAA
1 GAAAAATTGATACTTTCAACTTTTCCTAAAAATAT-TTTTTGGAAACTTTTAAT-TTCGA
* *
14788360 G-AAAATTGATACTTTCAACTTTTCTTCAAAAATAATTTT
1 GAAAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTT
14788399 ATTTAAAAAA
Statistics
Matches: 140, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
58 34 0.24
59 56 0.40
60 50 0.36
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.44
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTGGAAACTTTTAATTTCGA
Found at i:14788262 original size:32 final size:32
Alignment explanation
Indices: 14788226--14788324 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
14788216 ATTTTTTGGA
14788226 AACTTTTAATTTCGAGAAAAATTGATACTTTC
1 AACTTTTAATTTCGAGAAAAATTGATACTTTC
* * * *
14788258 AAC-TTT--TTCCTA-AAAATATT--T-TTTTGAA
1 AACTTTTAATTTCGAGAAAA-ATTGATACTTT--C
14788286 AACTTTTAATTTCGAGAAAAATTGATACTTTC
1 AACTTTTAATTTCGAGAAAAATTGATACTTTC
14788318 AACTTTT
1 AACTTTT
14788325 CCTTAAAATC
Statistics
Matches: 49, Mismatches: 8, Indels: 20
0.64 0.10 0.26
Matches are distributed among these distances:
26 3 0.06
27 1 0.02
28 7 0.14
29 10 0.20
31 10 0.20
32 14 0.29
33 1 0.02
34 3 0.06
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (32 bp):
AACTTTTAATTTCGAGAAAAATTGATACTTTC
Found at i:14788295 original size:60 final size:59
Alignment explanation
Indices: 14788182--14788407 Score: 289
Period size: 60 Copynumber: 3.8 Consensus size: 59
14788172 TTTGTACAAG
*
14788182 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGGAAACTTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTTTTGAAAACTTTTAATTTCGA
14788241 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGAAAACTTTTAATTTCGA
1 GAAAAATTGATACTTTCAAC-TTTTCCTAAAAATATTTTTTTGAAAACTTTTAATTTCGA
* * * **
14788301 GAAAAATTGATACTTTCAACTTTTCCTTAAAATCTCTTTTTTGAAAA--TTTATTCTTAAA
1 GAAAAATTGATACTTTCAACTTTTCCTAAAAATAT-TTTTTTGAAAACTTTTAAT-TTCGA
* *
14788360 G-AAAATTGATACTTTCAACTTTTCTTCAAAAATAATTTTATTTAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCT-AAAAAT-ATTTT-TTTGAAAA
14788408 ATAATAATAA
Statistics
Matches: 150, Mismatches: 10, Indels: 13
0.87 0.06 0.08
Matches are distributed among these distances:
58 29 0.19
59 52 0.35
60 69 0.46
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTGAAAACTTTTAATTTCGA
Found at i:14788398 original size:119 final size:120
Alignment explanation
Indices: 14788182--14788407 Score: 300
Period size: 119 Copynumber: 1.9 Consensus size: 120
14788172 TTTGTACAAG
* **
14788182 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTTAATTTCGAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACATTTAATTTAAAGAAAAA
*
14788247 TTGATACTTTCAACTTTTTCCTAAAAATATTTT-TTTGAAAACTTTTAATTTCGA
66 TTGATACTTTCAACTTTTTCCTAAAAATATTTTATTTAAAAACTTTTAATTTCGA
* * * *
14788301 GAAAAATTGATACTTTCAACTTTTCCT-TAAAATCTCTTTTTTGAAA-ATTTATTCTTAAAG-AA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTGGAAACATTTAAT-TTAAAGAAA
*
14788363 AATTGATACTTTCAAC-TTTTCTTCAAAAATAATTTTATTTAAAAA
64 AATTGATACTTTCAACTTTTTCCT-AAAAAT-ATTTTATTTAAAAA
14788408 ATAATAATAA
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
117 6 0.06
118 35 0.38
119 45 0.48
120 7 0.08
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (120 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACATTTAATTTAAAGAAAAA
TTGATACTTTCAACTTTTTCCTAAAAATATTTTATTTAAAAACTTTTAATTTCGA
Found at i:14788434 original size:21 final size:20
Alignment explanation
Indices: 14788402--14788471 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
14788392 TAATTTTATT
14788402 TAAAAAATAATAATAAAATAA
1 TAAAAAA-AATAATAAAATAA
14788423 TAAAACAAAATAAATAAAATGAA
1 TAAAA-AAAAT-AATAAAAT-AA
** *
14788446 -AATGAAAATAATTAAAAAAA
1 TAAAAAAAATAA-TAAAATAA
14788466 TAAAAA
1 TAAAAA
14788472 TATTAAACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.10
21 21 0.54
22 12 0.31
23 2 0.05
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (20 bp):
TAAAAAAAATAATAAAATAA
Found at i:14788471 original size:18 final size:17
Alignment explanation
Indices: 14788444--14788478 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14788434 AAATAAAATG
*
14788444 AAAATGAAAATAATTAAA
1 AAAATAAAAAT-ATTAAA
14788462 AAAATAAAAATATTAAA
1 AAAATAAAAATATTAAA
14788479 CAATTATGAT
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:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AAAATAAAAATATTAAA
Found at i:14789061 original size:15 final size:16
Alignment explanation
Indices: 14789041--14789072 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14789031 AATTTTTCAG
14789041 AAATTT-CCAAAAAAA
1 AAATTTGCCAAAAAAA
14789056 AAATTTGCCAAAAAAA
1 AAATTTGCCAAAAAAA
14789072 A
1 A
14789073 TTCTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.66, C:0.12, G:0.03, T:0.19
Consensus pattern (16 bp):
AAATTTGCCAAAAAAA
Found at i:14789391 original size:16 final size:16
Alignment explanation
Indices: 14789370--14789418 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
14789360 AAAGAAGAAG
14789370 AAAAAAAAGATAAAAT
1 AAAAAAAAGATAAAAT
*
14789386 AAAAAAAATA-AAAAT
1 AAAAAAAAGATAAAAT
*
14789401 -TAAAAAAGATAATAAT
1 AAAAAAAAGATAA-AAT
14789417 AA
1 AA
14789419 GGATAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 7 0.27
15 7 0.27
16 12 0.46
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (16 bp):
AAAAAAAAGATAAAAT
Found at i:14789472 original size:42 final size:42
Alignment explanation
Indices: 14789426--14789512 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
14789416 TAAGGATAAT
*
14789426 ATATTAATTAATAGATGAATAATAACA-AAAT-AA-AATAAATAC
1 ATATTAATAAATAG-T-AATAATAA-ATAAATAAATAATAAATAC
*
14789468 ATATTAATAAATAGTAATAATAAATAAGTAAATAATAAATAC
1 ATATTAATAAATAGTAATAATAAATAAATAAATAATAAATAC
14789510 ATA
1 ATA
14789513 AAAGATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
39 1 0.03
40 11 0.28
41 3 0.08
42 25 0.62
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (42 bp):
ATATTAATAAATAGTAATAATAAATAAATAAATAATAAATAC
Found at i:14789478 original size:14 final size:13
Alignment explanation
Indices: 14789409--14789513 Score: 68
Period size: 15 Copynumber: 7.3 Consensus size: 13
14789399 ATTAAAAAAG
14789409 ATAATAATAAGGATA
1 ATAATAATAA--ATA
*
14789424 ATATATTAATTAATA
1 ATA-A-TAATAAATA
*
14789439 GATGAATAATAACAAA
1 -AT-AATAATAA-ATA
14789455 ATAA-AATAAATA
1 ATAATAATAAATA
*
14789467 CATATTAATAAATA
1 -ATAATAATAAATA
*
14789481 GTAATAATAAATA
1 ATAATAATAAATA
14789494 AGTAAATAATAAATA
1 A-T-AATAATAAATA
14789509 CATAA
1 -ATAA
14789514 AAGATAAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
12 2 0.03
13 19 0.26
14 13 0.18
15 25 0.35
16 7 0.10
17 6 0.08
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.30
Consensus pattern (13 bp):
ATAATAATAAATA
Found at i:14789570 original size:18 final size:19
Alignment explanation
Indices: 14789528--14789580 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
14789518 TAAAAATATC
*
14789528 TATAATATAGAATA-AAAA
1 TATAATATAAAATACAAAA
*
14789546 TAAAATATAAAATACAAAA
1 TATAATATAAAATACAAAA
*
14789565 -ATAATA-AAAAAACAAA
1 TATAATATAAAATACAAA
14789581 GTGGACCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 9 0.30
18 17 0.57
19 4 0.13
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
TATAATATAAAATACAAAA
Found at i:14791367 original size:19 final size:19
Alignment explanation
Indices: 14791343--14791379 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14791333 GGTAAAGTTT
14791343 TTTCCTTTT-TGTCTTCATC
1 TTTCCTTTTGT-TCTTCATC
14791362 TTTCCTTTTGTTCTTCAT
1 TTTCCTTTTGTTCTTCAT
14791380 TAGTGCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.05, C:0.24, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTCCTTTTGTTCTTCATC
Found at i:14791800 original size:12 final size:12
Alignment explanation
Indices: 14791783--14791807 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14791773 AATTAAATAT
14791783 AAATTAATTAAA
1 AAATTAATTAAA
14791795 AAATTAATTAAA
1 AAATTAATTAAA
14791807 A
1 A
14791808 GTTAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTAATTAAA
Found at i:14807279 original size:17 final size:17
Alignment explanation
Indices: 14807257--14807300 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
14807247 TTATTTAATT
* *
14807257 TTATATTTATATATGTA
1 TTATATTAATAAATGTA
*
14807274 TTATATTAATAAATTTA
1 TTATATTAATAAATGTA
14807291 TTAT-TTAATA
1 TTATATTAATA
14807301 TTTTAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTATATTAATAAATGTA
Found at i:14807330 original size:16 final size:17
Alignment explanation
Indices: 14807309--14807340 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14807299 TATTTTAATT
14807309 TAAAATACTA-ATTTAA
1 TAAAATACTATATTTAA
14807325 TAAAATACTATATTTA
1 TAAAATACTATATTTA
14807341 TATATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATACTATATTTAA
Found at i:14809378 original size:13 final size:13
Alignment explanation
Indices: 14809360--14809412 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
14809350 TATATTTATA
14809360 TAATTTTTATATT
1 TAATTTTTATATT
*
14809373 TAATTTTTATATACA
1 TAATTTTTATAT--T
14809388 TAATTTTTATATT
1 TAATTTTTATATT
* *
14809401 TTATTTATATAT
1 TAATTTTTATAT
14809413 ATGTGAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 22 0.65
15 12 0.35
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TAATTTTTATATT
Found at i:14809391 original size:15 final size:14
Alignment explanation
Indices: 14809344--14809399 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 14
14809334 TATTAAACTA
14809344 AATTTTTATATTTATAT
1 AATTTTTATA--TA-AT
*
14809361 AATTTTTATAT-TT
1 AATTTTTATATAAT
14809374 AATTTTTATATACAT
1 AATTTTTATATA-AT
14809389 AATTTTTATAT
1 AATTTTTATAT
14809400 TTTATTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 12 0.34
15 13 0.37
17 10 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
AATTTTTATATAAT
Found at i:14809397 original size:28 final size:28
Alignment explanation
Indices: 14809344--14809413 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 28
14809334 TATTAAACTA
*
14809344 AATTTTTATATTTATATAATTTTTATATTT
1 AATTTTTATA--TACATAATTTTTATATTT
14809374 AATTTTTATATACATAATTTTTATATTT
1 AATTTTTATATACATAATTTTTATATTT
* *
14809402 TATTTATATATA
1 AATTTTTATATA
14809414 TGTGAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 27 0.73
30 10 0.27
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (28 bp):
AATTTTTATATACATAATTTTTATATTT
Found at i:14811323 original size:42 final size:42
Alignment explanation
Indices: 14811264--14811347 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
14811254 TCATACACAG
* * *
14811264 ATCAAACGAGGAAAAATAACGAGTCGTTTTGAGTAGGATTTA
1 ATCAAACCAAGAAAAATAACGAATCGTTTTGAGTAGGATTTA
14811306 ATCAAACCAAGAAAAATAACGAATCGTTTTGAGTAGGATTTA
1 ATCAAACCAAGAAAAATAACGAATCGTTTTGAGTAGGATTTA
14811348 GTTTGATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (42 bp):
ATCAAACCAAGAAAAATAACGAATCGTTTTGAGTAGGATTTA
Found at i:14811515 original size:32 final size:32
Alignment explanation
Indices: 14811442--14811526 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 32
14811432 TGGATCATAT
* * *
14811442 TAAATTTTATCAAATTAATTTAATTTGATTTAT
1 TAAATTTTAT-ATATTAATTTAATATGATTTAA
* *
14811475 TAATTTTTATATATTATTTTAATAT-ATTTAAA
1 TAAATTTTATATATTAATTTAATATGATTT-AA
*
14811507 TAAATTTTA-ATATAAATTTA
1 TAAATTTTATATATTAATTTA
14811527 TTAATTTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
31 13 0.30
32 21 0.49
33 9 0.21
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (32 bp):
TAAATTTTATATATTAATTTAATATGATTTAA
Found at i:14811563 original size:19 final size:19
Alignment explanation
Indices: 14811539--14811578 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
14811529 AATTTTATTT
14811539 TATAAAAATTAAAAAAATA
1 TATAAAAATTAAAAAAATA
*
14811558 TATAAAAATTAAAAATATA
1 TATAAAAATTAAAAAAATA
14811577 TA
1 TA
14811579 ATTTAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TATAAAAATTAAAAAAATA
Found at i:14811571 original size:17 final size:18
Alignment explanation
Indices: 14811539--14811579 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
14811529 AATTTTATTT
14811539 TATAAAAATTAAAAAAATA
1 TATAAAAATT-AAAAAATA
14811558 TATAAAAATT-AAAAATA
1 TATAAAAATTAAAAAATA
14811575 TATAA
1 TATAA
14811580 TTTAATTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 12 0.55
19 10 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TATAAAAATTAAAAAATA
Found at i:14811661 original size:13 final size:13
Alignment explanation
Indices: 14811614--14811664 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
14811604 TTTATCTTTG
14811614 ATTTAAAATTT-A-
1 ATTT-AAATTTAAT
14811626 ATTTAAATTTAAT
1 ATTTAAATTTAAT
** *
14811639 AGATATATTTAAT
1 ATTTAAATTTAAT
14811652 ATTTAAATTTAAT
1 ATTTAAATTTAAT
14811665 TTAAATCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 6 0.19
12 5 0.16
13 20 0.65
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
ATTTAAATTTAAT
Found at i:14811979 original size:3 final size:3
Alignment explanation
Indices: 14811971--14811999 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14811961 TACCTCTTGG
14811971 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
14812000 AACCAGGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:14814987 original size:14 final size:14
Alignment explanation
Indices: 14814970--14815001 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14814960 ATATAATTAT
*
14814970 ATAAATATTTAAAA
1 ATAAATAATTAAAA
14814984 ATAAATAATTAAAA
1 ATAAATAATTAAAA
14814998 ATAA
1 ATAA
14815002 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAAATAATTAAAA
Found at i:14815635 original size:38 final size:39
Alignment explanation
Indices: 14815593--14815708 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 39
14815583 CTATTAATAA
*
14815593 TGACTGAATAGTAATAAA-TTATGTTAAGAAGGCAATGT
1 TGACTGAATAGTAATAAACTTATGTTAAGAAGCCAATGT
14815631 TGACTGAAT-GCTACCA-AATTACTTATGTTAAGAAGCCAATGT
1 TGACTGAATAG-TA--ATAA--ACTTATGTTAAGAAGCCAATGT
** *
14815673 TGACCCAATAGTAATAAATTCTATGTTAAGAAGCCA
1 TGACTGAATAGTAATAAACT-TATGTTAAGAAGCCA
14815709 TATTAATTCT
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
37 1 0.02
38 11 0.17
39 4 0.06
40 17 0.26
41 3 0.05
42 28 0.43
43 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (39 bp):
TGACTGAATAGTAATAAACTTATGTTAAGAAGCCAATGT
Found at i:14816449 original size:7 final size:7
Alignment explanation
Indices: 14816409--14816439 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
14816399 GACCAAAGAC
14816409 AAATGAG
1 AAATGAG
14816416 AAATGAG
1 AAATGAG
14816423 AAATGAG
1 AAATGAG
14816430 AAATGAG
1 AAATGAG
14816437 AAA
1 AAA
14816440 AGAAATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.26, T:0.13
Consensus pattern (7 bp):
AAATGAG
Found at i:14833817 original size:89 final size:89
Alignment explanation
Indices: 14833661--14833823 Score: 229
Period size: 89 Copynumber: 1.8 Consensus size: 89
14833651 TGTCACACTA
* *
14833661 ATACCATGTTTCTTTGGCAGCATAAGAAAAAGAGTTACCCCTTGCTTCCAGACTTAATACAAAGC
1 ATACCATGTTTCTTTGGCAGCATAAGAAAAAGAGTTACCCCTTGCGTCCAGACTTAAAACAAAGC
14833726 ACATATTGGATCTCTATCCAAATT
66 ACATATTGGATCTCTATCCAAATT
* * * * * * *
14833750 ATACGATGTTTCTTTTGGCAGCAT-GGGAAAAGAGTTATCCCTTGCGTCCTGAGTTAAAAGAAAG
1 ATACCATGTTTC-TTTGGCAGCATAAGAAAAAGAGTTACCCCTTGCGTCCAGACTTAAAACAAAG
14833814 CACATATTGG
65 CACATATTGG
14833824 CTCTACAAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
89 53 0.83
90 11 0.17
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (89 bp):
ATACCATGTTTCTTTGGCAGCATAAGAAAAAGAGTTACCCCTTGCGTCCAGACTTAAAACAAAGC
ACATATTGGATCTCTATCCAAATT
Found at i:14836864 original size:29 final size:30
Alignment explanation
Indices: 14836831--14836902 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 30
14836821 TAAAAATTAT
14836831 TTAAGTTTTTATTAT-TTTATTTTAATAAA
1 TTAAGTTTTTATTATATTTATTTTAATAAA
* * *
14836860 TTAAGTTTTTA-AATATTTATTTTTATCAA
1 TTAAGTTTTTATTATATTTATTTTAATAAA
*
14836889 TTAAATTTTTATTA
1 TTAAGTTTTTATTA
14836903 GACGAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.06
29 33 0.92
30 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (30 bp):
TTAAGTTTTTATTATATTTATTTTAATAAA
Found at i:14849873 original size:20 final size:20
Alignment explanation
Indices: 14849848--14849887 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14849838 AAATATGACC
14849848 CTTAGTTTATACAATCACCT
1 CTTAGTTTATACAATCACCT
14849868 CTTAGTTTATACAATCACCT
1 CTTAGTTTATACAATCACCT
14849888 ATAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (20 bp):
CTTAGTTTATACAATCACCT
Found at i:14852908 original size:20 final size:20
Alignment explanation
Indices: 14852882--14852926 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
14852872 TAAATTTTAA
14852882 TTATATTATTTATAATGA-ATTT
1 TTAT-TTATTT-TAAT-ATATTT
14852904 TTATTTATTTTAATATATTT
1 TTATTTATTTTAATATATTT
14852924 TTA
1 TTA
14852927 CTATATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.05
20 11 0.50
21 6 0.27
22 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTATTTATTTTAATATATTT
Found at i:14853959 original size:18 final size:18
Alignment explanation
Indices: 14853936--14853979 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
14853926 ATAATAATAA
*
14853936 AAAATATAAAATAAAATC
1 AAAATAAAAAATAAAATC
*
14853954 AAAATAAAAAATAAAATG
1 AAAATAAAAAATAAAATC
14853972 AAAA-AAAA
1 AAAATAAAA
14853980 TACTTGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAATAAAAAATAAAATC
Found at i:14855568 original size:66 final size:66
Alignment explanation
Indices: 14855399--14855570 Score: 215
Period size: 66 Copynumber: 2.6 Consensus size: 66
14855389 CTAAATGCAG
* * *
14855399 GTCAAAAATATAAAATGACCTGGATTGAGCTAA-GTTCAAAGATGGATGATCGGGATTGAATCGT
1 GTCAAAAAAATAAAATGACCTGGACTGAGCTAAGGTT-GAAGATGGATGATCGGGATTGAATCGT
14855463 CA
65 CA
* * *
14855465 GTCAAGAAAATAAAATGACTTGGACTGGGCTAAGGTTGAAGATGGATGATCGGGATTGAA-CTGT
1 GTCAAAAAAATAAAATGACCTGGACTGAGCTAAGGTTGAAGATGGATGATCGGGATTGAATC-GT
14855529 -A
65 CA
* * *
14855530 GCTCAAAAAAATAAAATAACCTGAACCGAGCTAAGGTTGAA
1 G-TCAAAAAAATAAAATGACCTGGACTGAGCTAAGGTTGAA
14855571 TATAATTGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
65 3 0.03
66 85 0.93
67 3 0.03
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (66 bp):
GTCAAAAAAATAAAATGACCTGGACTGAGCTAAGGTTGAAGATGGATGATCGGGATTGAATCGTC
A
Found at i:14858226 original size:20 final size:20
Alignment explanation
Indices: 14858141--14858269 Score: 73
Period size: 18 Copynumber: 6.7 Consensus size: 20
14858131 TTAAAATAAA
14858141 AATAATATA--ATATAATAT
1 AATAATATACTATATAATAT
*
14858159 AAT-ATAATA-TAATGTAATAT
1 AATAAT-ATACT-ATATAATAT
*
14858179 AATAATAATACTAGTAGTACTA-
1 AATAAT-ATACTA-TA-TAATAT
14858201 ATATAATATACTATATAATAT
1 A-ATAATATACTATATAATAT
*
14858222 AATAAGATAGC---ATAATAT
1 AATAATATA-CTATATAATAT
* *
14858240 AATAATATAC-A-A-ACTAA
1 AATAATATACTATATAATAT
14858257 AATAATATACTAT
1 AATAATATACTAT
14858270 GTTATGTTAT
Statistics
Matches: 90, Mismatches: 8, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
17 16 0.18
18 23 0.26
20 22 0.24
21 11 0.12
22 9 0.10
23 9 0.10
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (20 bp):
AATAATATACTATATAATAT
Found at i:14858243 original size:5 final size:5
Alignment explanation
Indices: 14858142--14858225 Score: 87
Period size: 5 Copynumber: 15.2 Consensus size: 5
14858132 TAAAATAAAA
*
14858142 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT GTAAT ATAAT AATAAT ACTAGTAGT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT A-TA--A-T
14858197 ACTAAT ATAAT ATACTAT ATAAT ATAAT A
1 A-TAAT ATAAT ATA--AT ATAAT ATAAT A
14858226 AGATAGCATA
Statistics
Matches: 70, Mismatches: 2, Indels: 14
0.81 0.02 0.16
Matches are distributed among these distances:
5 49 0.70
6 9 0.13
7 6 0.09
8 1 0.01
9 5 0.07
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:14859134 original size:20 final size:20
Alignment explanation
Indices: 14859093--14859144 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
14859083 TATATTTTAG
14859093 TTTTA-TTATTTTAAATGAAT
1 TTTTACTTATTTTAAAT-AAT
14859113 TTTTACTTATTTT-AATATAT
1 TTTTACTTATTTTAAATA-AT
14859133 TTTTACTATATT
1 TTTTACT-TATT
14859145 AATTTCATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.03
20 17 0.59
21 11 0.38
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTACTTATTTTAAATAAT
Found at i:14861290 original size:3 final size:3
Alignment explanation
Indices: 14861282--14861311 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14861272 TATTATGTTA
14861282 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14861312 AATAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14861336 original size:9 final size:9
Alignment explanation
Indices: 14861322--14861354 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
14861312 AATAATATTT
14861322 TTTTTTTCA
1 TTTTTTTCA
14861331 TTTTTTTCA
1 TTTTTTTCA
*
14861340 -ATTTTTCA
1 TTTTTTTCA
14861348 TTTTTTT
1 TTTTTTT
14861355 TTGTTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:14861361 original size:17 final size:16
Alignment explanation
Indices: 14861319--14861361 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
14861309 TATAATAATA
14861319 TTTTTTTTTTCATTTT
1 TTTTTTTTTTCATTTT
**
14861335 TTTCAATTTTTCATTTT
1 TTT-TTTTTTTCATTTT
*
14861352 TTTTTGTTTT
1 TTTTTTTTTT
14861362 GATCTGCATA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTTCATTTT
Found at i:14862166 original size:19 final size:19
Alignment explanation
Indices: 14862144--14862185 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14862134 TTTTTTTCAT
*
14862144 TTTTTTAATTTTATTTTTA
1 TTTTTTAATTTTATTTTAA
*
14862163 TTTTTTGATTTTATTTTAA
1 TTTTTTAATTTTATTTTAA
14862182 TTTT
1 TTTT
14862186 AACCCATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTAATTTTATTTTAA
Found at i:14862256 original size:14 final size:14
Alignment explanation
Indices: 14862237--14862274 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
14862227 TTTAAGAAAA
14862237 TTTATTTTTGCCAT
1 TTTATTTTTGCCAT
* *
14862251 TTTATTTATGCTAT
1 TTTATTTTTGCCAT
14862265 TTTATTTTTG
1 TTTATTTTTG
14862275 AAAATAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (14 bp):
TTTATTTTTGCCAT
Found at i:14863159 original size:18 final size:18
Alignment explanation
Indices: 14863132--14863166 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14863122 ATTCCTTTTC
* *
14863132 ATTGTTTATATTTGCTTT
1 ATTGTATATACTTGCTTT
14863150 ATTGTATATACTTGCTT
1 ATTGTATATACTTGCTT
14863167 AATTATTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (18 bp):
ATTGTATATACTTGCTTT
Found at i:14873806 original size:115 final size:113
Alignment explanation
Indices: 14873684--14874218 Score: 330
Period size: 115 Copynumber: 4.6 Consensus size: 113
14873674 AACTTGGTCT
* *
14873684 TAGTCGCTTTATTTTGACTCGTAGTTTCATCCTGATCACTTAATCCTGGCTCAATCTAGATCATT
1 TAGTCGCTTTATTTTGACTCAT-GTTTCATCCTGATCA-TTAATCTTGGCTCAATCTAGATCATT
* * * *
14873749 TTTTATGATTTATGATTTTGTCTCTATCATTTTTTACCTCGATTC-AGTCA
64 TTTTATGATTTGTGATTTTATCTCAATCATTTTTTACCTCGACTCGA-TCA
* * * * *
14873799 TAGTCGCTTCATTTTGACTCATGGTTTCATCAC-GATCATCTAATCTTAGCTTAGTCCAGATCAT
1 TAGTCGCTTTATTTTGACTCAT-GTTTCATC-CTGATCAT-TAATCTTGGCTCAATCTAGATCAT
* * * * ** * *
14873863 TTTTTATGATTTGTGGTTTCATCTCGATTATTTTCAATCTCGACTCGATCT
63 TTTTTATGATTTGTGATTTTATCTCAATCATTTTTTACCTCGACTCGATCA
* * * * *
14873914 TGGTTGCTTTATTTTGACTCATGATTTCAT-CTCGATTATTTGATCTTGGCTCAATCTAGATTAT
1 TAGTCGCTTTATTTTGACTCATG-TTTCATCCT-GATCA-TTAATCTTGGCTCAATCTAGATCAT
** * * * *
14873978 TCCTTATGATTTGTGATTTTATCCCAAATCATTTTTTACCTTGACTTGGTC-
63 TTTTTATGATTTGTGATTTTATCTC-AATCATTTTTTACCTCGACTCGATCA
* * * * * * * * * *
14874029 TTGTTCGCTTCATTTTGACT-AGTGGTTTTAT-CTCGGTTACTTGATCTTGGTTTAGTCTAAATC
1 TAG-TCGCTTTATTTTGACTCA-T-GTTTCATCCT-GATCA-TTAATCTTGGCTCAATCTAGATC
* ** * * ** * * *
14874092 ATTTCTTATGATTCATGGTTTCATCTCGGTTATTTTTAACCTCGACTCGATCC
61 ATTTTTTATGATTTGTGATTTTATCTCAATCATTTTTTACCTCGACTCGATCA
* * * * * * * *
14874145 TGGTTGCCTTATTTTGACTTATAGTTTTAT-CTCGATCACTTGATTTTGGCT-AGTCTAGATCAT
1 TAGTCGCTTTATTTTGACTCAT-GTTTCATCCT-GATCA-TTAATCTTGGCTCAATCTAGATCAT
14874208 TTTTTATGATT
63 TTTTTATGATT
14874219 CGTGGTTTCA
Statistics
Matches: 330, Mismatches: 77, Indels: 27
0.76 0.18 0.06
Matches are distributed among these distances:
113 1 0.00
114 23 0.07
115 216 0.65
116 89 0.27
117 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (113 bp):
TAGTCGCTTTATTTTGACTCATGTTTCATCCTGATCATTAATCTTGGCTCAATCTAGATCATTTT
TTATGATTTGTGATTTTATCTCAATCATTTTTTACCTCGACTCGATCA
Found at i:14874115 original size:231 final size:229
Alignment explanation
Indices: 14873604--14874218 Score: 679
Period size: 231 Copynumber: 2.7 Consensus size: 229
14873594 CTTACATCAT
* * *
14873604 TCACTTGATCTTGGCTCAGTACAAATCATTTCTTATGATTCATGGTTTCATC-CCAGTCATTTTT
1 TCACTTGATCTTGGCTTAGT-CAAATCATTTCTTATGATTCATGGTTTCATCTCGA-TTATTTTT
** * * * * * * *
14873668 AACCTTAACTTGGTCTTAGTCGCTTTATTTTGACTCGTAGTTTCATC-CTGATCACTTAATCCTG
64 AACCTCGACTCGATCTTGGTTGCTTTATTTTGACTCATAGTTTCATCTC-GATCACTTGATCTTG
* * *
14873732 GCTCAATCTAGATCATTTTTTATGATTTATGATTTTGTCTCTATCATTTTTTACCTCGATTCAGT
128 GCTCAATCTAGATCATTTTTTATGATTTATGATTTTATCCCAATCATTTTTTACCTCGATTCAGT
14873797 CATAGTCGCTTCATTTTGACTCATGGTTTCATCACGA
193 CATAGTCGCTTCATTTTGACTCATGGTTTCATCACGA
* * * * ** *
14873834 TCA-TCTAATCTTAGCTTAGTCCAGATCATTTTTTATGATTTGTGGTTTCATCTCGATTATTTTC
1 TCACT-TGATCTTGGCTTAGT-CAAATCATTTCTTATGATTCATGGTTTCATCTCGATTATTTTT
* * *
14873898 AATCTCGACTCGATCTTGGTTGCTTTATTTTGACTCAT-GATTTCATCTCGATTATTTGATCTTG
64 AACCTCGACTCGATCTTGGTTGCTTTATTTTGACTCATAG-TTTCATCTCGATCACTTGATCTTG
* ** * * *
14873962 GCTCAATCTAGATTATTCCTTATGATTTGTGATTTTATCCCAAATCATTTTTTACCTTGACTT-G
128 GCTCAATCTAGATCATTTTTTATGATTTATGATTTTATCCC-AATCATTTTTTACCTCGA-TTCA
* * * *
14874026 GTC-TTGTTCGCTTCATTTTGACT-AGTGGTTTTATCTCGG
191 GTCATAG-TCGCTTCATTTTGACTCA-TGGTTTCATCACGA
* * *
14874065 TTACTTGATCTTGGTTTAGTCTAAATCATTTCTTATGATTCATGGTTTCATCTCGGTTATTTTTA
1 TCACTTGATCTTGGCTTAGTC-AAATCATTTCTTATGATTCATGGTTTCATCTCGATTATTTTTA
* * * * *
14874130 ACCTCGACTCGATCCTGGTTGCCTTATTTTGACTTATAGTTTTATCTCGATCACTTGATTTTGGC
65 ACCTCGACTCGATCTTGGTTGCTTTATTTTGACTCATAGTTTCATCTCGATCACTTGATCTTGGC
*
14874195 T-AGTCTAGATCATTTTTTATGATT
130 TCAATCTAGATCATTTTTTATGATT
14874219 CGTGGTTTCA
Statistics
Matches: 316, Mismatches: 58, Indels: 22
0.80 0.15 0.06
Matches are distributed among these distances:
229 2 0.01
230 154 0.49
231 156 0.49
232 4 0.01
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (229 bp):
TCACTTGATCTTGGCTTAGTCAAATCATTTCTTATGATTCATGGTTTCATCTCGATTATTTTTAA
CCTCGACTCGATCTTGGTTGCTTTATTTTGACTCATAGTTTCATCTCGATCACTTGATCTTGGCT
CAATCTAGATCATTTTTTATGATTTATGATTTTATCCCAATCATTTTTTACCTCGATTCAGTCAT
AGTCGCTTCATTTTGACTCATGGTTTCATCACGA
Found at i:14875811 original size:18 final size:17
Alignment explanation
Indices: 14875765--14875822 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
14875755 AAATACTCTT
14875765 AAAATAAATAAATAAATA
1 AAAATAAA-AAATAAATA
**
14875783 AATTTAAAAAAATAAATA
1 AAAAT-AAAAAATAAATA
*
14875801 AAAATACAAAAAAAAATGA
1 AAAATA-AAAAATAAAT-A
14875820 AAA
1 AAA
14875823 CAGCTTGGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.03
18 24 0.75
19 7 0.22
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAATAAAAAATAAATA
Found at i:14876106 original size:16 final size:15
Alignment explanation
Indices: 14876085--14876114 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
14876075 TTTTCTTCTC
14876085 TCTCTTCTCTTCTTTT
1 TCTCTTC-CTTCTTTT
14876101 TCTCTTCCTTCTTT
1 TCTCTTCCTTCTTT
14876115 CTAAATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TCTCTTCCTTCTTTT
Found at i:14876111 original size:20 final size:22
Alignment explanation
Indices: 14876074--14876116 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
14876064 CAAATGCGTA
14876074 TTTTTCTTCTCTCTCTTCTCTTC
1 TTTTTCTTCTCTCTCTTCT-TTC
14876097 TTTTTC-TCT-TC-CTTCTTTC
1 TTTTTCTTCTCTCTCTTCTTTC
14876116 T
1 T
14876117 AAATGAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.20
20 5 0.25
21 2 0.10
22 3 0.15
23 6 0.30
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTCTTCTCTCTCTTCTTTC
Found at i:14876652 original size:4 final size:4
Alignment explanation
Indices: 14876645--14876693 Score: 50
Period size: 4 Copynumber: 13.0 Consensus size: 4
14876635 GAAAGAAGAA
* * *
14876645 AAAT AAAT AAAT AAAT -AAC AAAT -AAT ATAT AAA- AGAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
14876690 AAAT
1 AAAT
14876694 CTTTGGGCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
3 7 0.19
4 29 0.81
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:14876676 original size:14 final size:15
Alignment explanation
Indices: 14876649--14876691 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
14876639 GAAGAAAAAT
14876649 AAATAAATAAATAAC
1 AAATAAATAAATAAC
*
14876664 AAAT-AATATATAA-
1 AAATAAATAAATAAC
14876677 AAGATAAATAAATAA
1 AA-ATAAATAAATAA
14876692 ATCTTTGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 2 0.08
14 10 0.42
15 12 0.50
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (15 bp):
AAATAAATAAATAAC
Found at i:14877010 original size:45 final size:44
Alignment explanation
Indices: 14876894--14877189 Score: 309
Period size: 45 Copynumber: 6.7 Consensus size: 44
14876884 AATAAACAAA
* * *
14876894 GCTCCTCTAACCATAGGC-ACCAC-AATTTT-G-AAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACGACTTTTGGAAAAATAAATT
* * *
14876934 ACTCCACTAAACAGAGGC-ACCACAACTTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACGACTTTTGGAAAAATAAATT
14876977 GCTCACTCTAAACAGAGGCAACCACGACTTTTGGAAAAAATAAATT
1 GCTC-CTCTAAACAGAGGCAACCACGACTTTTGG-AAAAATAAATT
* * *
14877023 GCTCCTCTAAATAGAGGCAACCACTGGC-TTTGAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCAC-GACTTTTG-GAAAAATAAATT
* *
14877068 GCTCCTCTAGACAAAGGCAACCACTGAC-TTTGGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCAC-GACTTTTGG-AAAAATAAATT
* * * *
14877113 GCTTCTCTAAACAGAGGCAACCATGACAAATTTGAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACGAC--TTTTG-GAAAAATAAATT
**
14877160 GCTTATCTAAACAGAGGCAACCACGACTTT
1 GCTCCTCTAAACAGAGGCAACCACGACTTT
14877190 AAAAAAAAAA
Statistics
Matches: 219, Mismatches: 24, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
40 19 0.09
41 5 0.02
42 1 0.00
43 13 0.06
44 16 0.07
45 108 0.49
46 17 0.08
47 40 0.18
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (44 bp):
GCTCCTCTAAACAGAGGCAACCACGACTTTTGGAAAAATAAATT
Found at i:14877169 original size:47 final size:45
Alignment explanation
Indices: 14876924--14877202 Score: 327
Period size: 45 Copynumber: 6.2 Consensus size: 45
14876914 CACAATTTTG
* * * *
14876924 AAAATAAATTACTCCACTAAACAGAGGC-ACCAC-AACTTTTG-GA
1 AAAATAAATTGCTCCTCTAAACAGAGGCAACCACTGAC-TTTGAAA
*
14876967 AAAATAAATTGCTCACTCTAAACAGAGGCAACCAC-GACTTTTGGAA
1 AAAATAAATTGCTC-CTCTAAACAGAGGCAACCACTGAC-TTTGAAA
* *
14877013 AAAATAAATTGCTCCTCTAAATAGAGGCAACCACTGGCTTTGAAA
1 AAAATAAATTGCTCCTCTAAACAGAGGCAACCACTGACTTTGAAA
* * *
14877058 AAAATAAATTGCTCCTCTAGACAAAGGCAACCACTGACTTTGGAA
1 AAAATAAATTGCTCCTCTAAACAGAGGCAACCACTGACTTTGAAA
*
14877103 AAAATAAATTGCTTCTCTAAACAGAGGCAACCA-TGACAAATTTGAAA
1 AAAATAAATTGCTCCTCTAAACAGAGGCAACCACTGAC---TTTGAAA
** *
14877150 AAAATAAATTGCTTATCTAAACAGAGGCAACCAC-GACTTTAAAA
1 AAAATAAATTGCTCCTCTAAACAGAGGCAACCACTGACTTTGAAA
*
14877194 AAAAAAAAT
1 AAAATAAAT
14877203 ATTCATCAAC
Statistics
Matches: 209, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
43 13 0.06
44 31 0.15
45 107 0.51
46 17 0.08
47 41 0.20
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (45 bp):
AAAATAAATTGCTCCTCTAAACAGAGGCAACCACTGACTTTGAAA
Found at i:14878664 original size:27 final size:28
Alignment explanation
Indices: 14878634--14878696 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
14878624 CTTTTCTCTC
*
14878634 TTTTTCATCCTTT-TTATTTTTTCA-TAT
1 TTTTTCAT-CTTTCTTAATTTTTCATTAT
* *
14878661 TTTTTCATTTTTCTTAATTTTTCATTCT
1 TTTTTCATCTTTCTTAATTTTTCATTAT
14878689 TTTTTCAT
1 TTTTTCAT
14878697 TTTTTTCTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.10
27 18 0.58
28 10 0.32
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTTTCATCTTTCTTAATTTTTCATTAT
Found at i:14878710 original size:17 final size:17
Alignment explanation
Indices: 14878634--14878710 Score: 57
Period size: 17 Copynumber: 4.3 Consensus size: 17
14878624 CTTTTCTCTC
** *
14878634 TTTTTCATCCTTTTTAT
1 TTTTTCATATTTTTTCT
*
14878651 TTTTTCATATTTTTTCA
1 TTTTTCATATTTTTTCT
*
14878668 TTTTTCTTAATTTTTCATTCT
1 TTTTTCAT-A-TTTT--TTCT
14878689 TTTTTCAT-TTTTTTCT
1 TTTTTCATATTTTTTCT
14878705 TCTTTT
1 T-TTTT
14878711 TTTTTTCATT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
16 5 0.10
17 24 0.50
18 5 0.10
19 4 0.08
21 10 0.21
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCATATTTTTTCT
Found at i:14878711 original size:12 final size:11
Alignment explanation
Indices: 14878678--14878723 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
14878668 TTTTTCTTAA
*
14878678 TTTTTCATTCT
1 TTTTTCATTTT
14878689 TTTTTCATTTT
1 TTTTTCATTTT
*
14878700 TTTCTTCTTTTT
1 TTT-TTCATTTT
14878712 TTTTTCATTTT
1 TTTTTCATTTT
14878723 T
1 T
14878724 CCCATCCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCATTTT
Found at i:14878722 original size:10 final size:10
Alignment explanation
Indices: 14878650--14878723 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
14878640 ATCCTTTTTA
*
14878650 TTTTTTCATA
1 TTTTTTCATT
14878660 TTTTTTCATT
1 TTTTTTCATT
*
14878670 TTTCTT-A--
1 TTTTTTCATT
*
14878677 ATTTTTCATT
1 TTTTTTCATT
14878687 CTTTTTTCATTT
1 -TTTTTTCA-TT
*
14878699 TTTTCTTCTTTT
1 TTTT-TTC-ATT
14878711 TTTTTTCATT
1 TTTTTTCATT
14878721 TTT
1 TTT
14878724 CCCATCCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
7 4 0.08
8 1 0.02
9 1 0.02
10 19 0.38
11 14 0.28
12 11 0.22
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:14879205 original size:3 final size:3
Alignment explanation
Indices: 14879199--14879253 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
14879189 GTTTTTTTAA
14879199 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14879247 AAT AAT A
1 AAT AAT A
14879254 GGCTTAAAGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14886290 original size:4 final size:4
Alignment explanation
Indices: 14886283--14886331 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
14886273 AAGAAAGAAG
* *
14886283 AATA AATA AATA AATA AATA AAT- AATA TATA AA-A GATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
14886329 AAT
1 AAT
14886332 CTTTGGGCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 5 0.13
4 34 0.87
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:14887342 original size:14 final size:14
Alignment explanation
Indices: 14887305--14887343 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14887295 TTTTTAAGAA
* *
14887305 ATTTTATTTATGCC
1 ATTTTATTTCTACC
*
14887319 ATTTTATTTCTACT
1 ATTTTATTTCTACC
14887333 ATTTTATTTCT
1 ATTTTATTTCT
14887344 GAAAGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.03, T:0.64
Consensus pattern (14 bp):
ATTTTATTTCTACC
Found at i:14892826 original size:47 final size:47
Alignment explanation
Indices: 14892757--14892848 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
14892747 CTTTATCATT
*
14892757 AAAATTACACTTTCAATATCCCTTTTTCATTGTATAGTTGTAGCAAA
1 AAAATTACACTTTCAATATCCCTTTATCATTGTATAGTTGTAGCAAA
* *
14892804 AAAATTATACTTTCAATATCCCTTTATCATTGTATCGTTGTAGCA
1 AAAATTACACTTTCAATATCCCTTTATCATTGTATAGTTGTAGCA
14892849 GATAAGCCTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (47 bp):
AAAATTACACTTTCAATATCCCTTTATCATTGTATAGTTGTAGCAAA
Found at i:14899307 original size:4 final size:4
Alignment explanation
Indices: 14899298--14899342 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
14899288 GGGAGTAAGT
14899298 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
14899343 ATATATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (4 bp):
TCTA
Found at i:14899347 original size:2 final size:2
Alignment explanation
Indices: 14899340--14899370 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14899330 TCTATCTATC
14899340 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14899371 TCAATTTCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14901246 original size:3 final size:3
Alignment explanation
Indices: 14901240--14901264 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14901230 TCTTCTTTGT
14901240 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
14901265 ATCTTAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14902585 original size:18 final size:19
Alignment explanation
Indices: 14902548--14902585 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14902538 TAAAGATTTA
* *
14902548 TTGTTTTTGTTATTTTTGG
1 TTGTGTTTGTTATATTTGG
14902567 TTGTGTTTG-TATATTTGG
1 TTGTGTTTGTTATATTTGG
14902585 T
1 T
14902586 AGAAAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (19 bp):
TTGTGTTTGTTATATTTGG
Found at i:14903966 original size:11 final size:10
Alignment explanation
Indices: 14903930--14904061 Score: 84
Period size: 10 Copynumber: 13.6 Consensus size: 10
14903920 ATTTTTTTAA
14903930 TTTAAAAAA-
1 TTTAAAAAAT
* *
14903939 TTGAAAAAAA
1 TTTAAAAAAT
14903949 TTT-AAAAAT
1 TTTAAAAAAT
14903958 TCTTAAAAAAT
1 T-TTAAAAAAT
*
14903969 TTCT-AAAAGT
1 TT-TAAAAAAT
14903979 TTTAAAAAAT
1 TTTAAAAAAT
*
14903989 TCT----AAT
1 TTTAAAAAAT
*
14903995 TTTAAAAACT
1 TTTAAAAAAT
*
14904005 TTT-TAAAAT
1 TTTAAAAAAT
14904014 TTTAAAAAA-
1 TTTAAAAAAT
*
14904023 TTCAAAACAAT
1 TTTAAAA-AAT
*
14904034 TTTAAAAATT
1 TTTAAAAAAT
14904044 TATTAAAAAAT
1 T-TTAAAAAAT
14904055 TATTAAA
1 T-TTAAA
14904062 TGTTTTTTAG
Statistics
Matches: 95, Mismatches: 15, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
6 5 0.05
9 28 0.29
10 33 0.35
11 29 0.31
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (10 bp):
TTTAAAAAAT
Found at i:14904017 original size:35 final size:37
Alignment explanation
Indices: 14903955--14904025 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 37
14903945 AAAATTTAAA
14903955 AATTCTTAAAAAATTTCTAAAAGTTTTAAAAAATTCT
1 AATTCTTAAAAAATTTCTAAAAGTTTTAAAAAATTCT
* *
14903992 AATT-TTAAAAACTTTTTAAAA-TTTTAAAAAATTC
1 AATTCTTAAAAAATTTCTAAAAGTTTTAAAAAATTC
14904026 AAAACAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 13 0.41
36 15 0.47
37 4 0.12
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (37 bp):
AATTCTTAAAAAATTTCTAAAAGTTTTAAAAAATTCT
Done.