Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 98 of 208
Found at i:33245840 original size:32 final size:29
Alignment explanation
Indices: 33245788--33245870 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 29
33245778 TAATTTGGTA
* * *
33245788 CCTAATTTGATACTTGAACTTGACTTTTTTTT
1 CCTAATTTGATACATAAACTT---TTTTTTAT
33245820 CCTAATTTGATACATAAACTTTTTTTTAT
1 CCTAATTTGATACATAAACTTTTTTTTAT
* *
33245849 -CTAATTTGGTACCTAAACTTTT
1 CCTAATTTGATACATAAACTTTT
33245871 CAAATGTGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 20 0.43
29 7 0.15
32 19 0.41
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.51
Consensus pattern (29 bp):
CCTAATTTGATACATAAACTTTTTTTTAT
Found at i:33245973 original size:21 final size:20
Alignment explanation
Indices: 33245935--33245973 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
33245925 ATGATATAAT
*
33245935 TAAGTCTTTGTATCTATGGC
1 TAAGTCTTTGTATATATGGC
*
33245955 TAAGTGCTTTGTTTATATG
1 TAAGT-CTTTGTATATATG
33245974 TTAAAGGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.49
Consensus pattern (20 bp):
TAAGTCTTTGTATATATGGC
Found at i:33246256 original size:18 final size:17
Alignment explanation
Indices: 33246233--33246297 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
33246223 CTTTAATGTA
33246233 TTTTTTTTCTTCTTTCT
1 TTTTTTTTCTTCTTTCT
*
33246250 TTCTTTTTTC-ACTTTTCT
1 TT-TTTTTTCTTC-TTTCT
33246268 TTTCTTTTTCTT-TTTCT
1 TTT-TTTTTCTTCTTTCT
* *
33246285 TTTGTTTGCTTCT
1 TTTTTTTTCTTCT
33246298 GTAAACTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
16 6 0.15
17 13 0.33
18 20 0.51
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTTTTCTTCTTTCT
Found at i:33246282 original size:17 final size:18
Alignment explanation
Indices: 33246235--33246287 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
33246225 TTAATGTATT
33246235 TTTTTTCTTCTTTC-TTTC
1 TTTTTTCTT-TTTCTTTTC
*
33246253 TTTTTTCACTTTTCTTTTC
1 TTTTTTC-TTTTTCTTTTC
33246272 -TTTTTCTTTTTCTTTT
1 TTTTTTCTTTTTCTTTT
33246288 GTTTGCTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 9 0.29
18 17 0.55
19 5 0.16
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTCTTTTTCTTTTC
Found at i:33249525 original size:29 final size:29
Alignment explanation
Indices: 33249448--33249526 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 29
33249438 GTGAGTTTTT
*
33249448 GATAACACATCAGACTAAAGATATCAGAATAA
1 GATAACACATCAGAC---ATATATCAGAATAA
* *
33249480 GTTCACA-AT-AGTAACATATATCAGAATAA
1 GATAACACATCAG--ACATATATCAGAATAA
33249509 GATAACACATCAGACATA
1 GATAACACATCAGACATA
33249527 CAGAATCCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
29 23 0.61
30 4 0.11
31 4 0.11
32 7 0.18
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (29 bp):
GATAACACATCAGACATATATCAGAATAA
Found at i:33254002 original size:22 final size:22
Alignment explanation
Indices: 33253970--33254018 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
33253960 ATTTTTTATG
*
33253970 TTATTTGTGAAACTTATTTATTT
1 TTATTTGTGAAACTT-GTTATTT
*
33253993 TTATTT-TGAACCTTGTTATTT
1 TTATTTGTGAAACTTGTTATTT
33254014 TTATT
1 TTATT
33254019 ATTTTGATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.46
22 7 0.29
23 6 0.25
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.63
Consensus pattern (22 bp):
TTATTTGTGAAACTTGTTATTT
Found at i:33254084 original size:21 final size:20
Alignment explanation
Indices: 33254050--33254089 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
33254040 TGAGATTGTA
*
33254050 ATTTTTTTATCTTCTTATTT
1 ATTTTTTTAACTTCTTATTT
33254070 ATTTTGTTTAACTTCTTATT
1 ATTTT-TTTAACTTCTTATT
33254090 AGTTTGCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTTTTTAACTTCTTATTT
Found at i:33255580 original size:24 final size:24
Alignment explanation
Indices: 33255552--33255603 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
33255542 TTAGTAAGTC
* *
33255552 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
33255576 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
33255600 AAAT
1 AAAT
33255604 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:33257513 original size:24 final size:24
Alignment explanation
Indices: 33257485--33257537 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
33257475 ATTAGTAAGT
*
33257485 TAAATAAACTATGCTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
* *
33257509 TAAATATATTATACTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
33257533 TAAAT
1 TAAAT
33257538 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATAC
Found at i:33258891 original size:4 final size:4
Alignment explanation
Indices: 33258882--33258917 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
33258872 TAAGCATCAC
* *
33258882 ATTT ATTT ATAT AATT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
33258918 TACTACATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:33262020 original size:39 final size:42
Alignment explanation
Indices: 33261977--33262071 Score: 106
Period size: 45 Copynumber: 2.3 Consensus size: 42
33261967 GTGGATATGA
* *
33261977 TATTTCAAAT-GT-T-TTTATATGTGAAATATTTCAATTAAT
1 TATTTCAAATAGTATGTTTACATGTGAAATATTTCAAATAAT
*
33262016 TATTTCAAATATCATTATGTTTACATGTGAAATATTTCAAATAAT
1 TATTTC-AA-AT-AGTATGTTTACATGTGAAATATTTCAAATAAT
*
33262061 TATTTTAAATA
1 TATTTCAAATA
33262072 CACATACAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
39 6 0.13
40 2 0.04
41 2 0.04
42 1 0.02
43 3 0.07
44 3 0.07
45 29 0.63
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (42 bp):
TATTTCAAATAGTATGTTTACATGTGAAATATTTCAAATAAT
Found at i:33263939 original size:42 final size:41
Alignment explanation
Indices: 33263851--33263940 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 41
33263841 ATGTGTACAT
* *
33263851 AATTTTGTATAAGATTCTGAATTTGTTAGAGTTTTTTTTAAT
1 AATTTTGTAAAAGATTCTGAATTTGTTAGAGTTTTTTTT-AG
* *
33263893 AATTTTGTAAAATATTCTGAATTTGTTTGAGTTTGTTCTTT-G
1 AATTTTGTAAAAGATTCTGAATTTGTTAGAGTTT-TT-TTTAG
33263935 AATTTT
1 AATTTT
33263941 CTAATCTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 37 0.88
43 2 0.05
44 3 0.07
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (41 bp):
AATTTTGTAAAAGATTCTGAATTTGTTAGAGTTTTTTTTAG
Found at i:33267417 original size:22 final size:21
Alignment explanation
Indices: 33267389--33267430 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
33267379 TTTTAAATTT
*
33267389 AAAAACATCACGAAAAGATGTG
1 AAAAACATCAC-AAAAAATGTG
33267411 AAAAACATCACAAAAAATGT
1 AAAAACATCACAAAAAATGT
33267431 TTTAATTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAAACATCACAAAAAATGTG
Found at i:33267489 original size:62 final size:59
Alignment explanation
Indices: 33267385--33267522 Score: 163
Period size: 62 Copynumber: 2.3 Consensus size: 59
33267375 ATTTTTTTAA
* *
33267385 ATTTAAAAACATCACGAAAAGATGTGAAAAACATCACAAAAAATGTTTTAATTTGGTAAG
1 ATTTAAAAACATCACGAAAAAATGTGAAAAAAATCACAAAAAATGTTTT-ATTTGGTAAG
* * *
33267445 ATTTAATAA-ATCACGAAAAAATGTGAAAAAAAAAATCACCAAAAATGTTTTGTTTGGTACA-
1 ATTTAAAAACATCACGAAAAAATGTG---AAAAAAATCACAAAAAATGTTTTATTTGGTA-AG
*
33267506 TTTTAAAAACATCACGA
1 ATTTAAAAACATCACGA
33267523 TATATCTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
59 15 0.23
60 8 0.12
61 14 0.21
62 29 0.44
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.28
Consensus pattern (59 bp):
ATTTAAAAACATCACGAAAAAATGTGAAAAAAATCACAAAAAATGTTTTATTTGGTAAG
Found at i:33269152 original size:11 final size:11
Alignment explanation
Indices: 33269136--33269168 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
33269126 TTGGATTTTC
33269136 ACAATTTTTAA
1 ACAATTTTTAA
33269147 ACAA-TTTTAA
1 ACAATTTTTAA
33269157 AGCAATTTTTAA
1 A-CAATTTTTAA
33269169 TCATTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.35
11 7 0.35
12 6 0.30
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (11 bp):
ACAATTTTTAA
Found at i:33269269 original size:19 final size:19
Alignment explanation
Indices: 33269242--33269291 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
33269232 ACTTTAGAAC
* *
33269242 TTTTAATATTTTATAATAA
1 TTTTTATATTTTAAAATAA
33269261 TTTTTATATTTTTAAAATAA
1 TTTTTATA-TTTTAAAATAA
* *
33269281 ATTTTAAATTT
1 TTTTTATATTT
33269292 CCTAAATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTATATTTTAAAATAA
Found at i:33269273 original size:20 final size:20
Alignment explanation
Indices: 33269250--33269291 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
33269240 ACTTTTAATA
* * *
33269250 TTTTATAATAATTTTTATAT
1 TTTTAAAATAAATTTTAAAT
33269270 TTTTAAAATAAATTTTAAAT
1 TTTTAAAATAAATTTTAAAT
33269290 TT
1 TT
33269292 CCTAAATATT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTAAAATAAATTTTAAAT
Found at i:33269297 original size:21 final size:20
Alignment explanation
Indices: 33269242--33269297 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
33269232 ACTTTAGAAC
* *
33269242 TTTTAATATTT-TATAATAAT
1 TTTTAA-ATTTCTAAAATAAA
* *
33269262 TTTTATATTTTTAAAATAAA
1 TTTTAAATTTCTAAAATAAA
33269282 TTTTAAATTTCCTAAA
1 TTTTAAATTT-CTAAA
33269298 TATTCTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.14
20 21 0.72
21 4 0.14
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAATTTCTAAAATAAA
Found at i:33276453 original size:37 final size:37
Alignment explanation
Indices: 33276403--33276481 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
33276393 TTATTACGAA
* * *
33276403 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
33276440 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
33276477 GTCTT
1 GTCTT
33276482 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:33276687 original size:47 final size:47
Alignment explanation
Indices: 33276600--33276972 Score: 494
Period size: 47 Copynumber: 7.8 Consensus size: 47
33276590 CCTTTCGGGA
** * * * * * * *
33276600 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33276647 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33276694 CTTATCACACATATACACTTTCACATTCATCACGTCGGCCATTAGGG
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33276741 CTTATCACACATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33276788 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33276835 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33276882 CTTATTACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACACAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33276933 CTTATCACATATATACATACACTTTCACATTCATCACATC
1 CTTATCAC--ACAT--ATACACTTTCACATTCATCACATC
33276973 ATACACTTTC
Statistics
Matches: 300, Mismatches: 20, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
47 223 0.74
48 1 0.00
49 7 0.02
50 1 0.00
51 68 0.23
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33276854 original size:141 final size:141
Alignment explanation
Indices: 33276600--33277220 Score: 539
Period size: 141 Copynumber: 4.1 Consensus size: 141
33276590 CCTTTCGGGA
* * * * * * * *
33276600 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGCCTTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
*
33276665 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
*
33276730 GGCCATTAGGG
131 GGCCATTAGGC
* *
33276741 CTTATCACACATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
* *
33276806 TTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
*
33276871 GGCTATTAGGC
131 GGCCATTAGGC
* *
33276882 CTTATTACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC--ATAT
*** *** *
33276947 ACATACACTTTCACATTCATCACATCATACACTTTCACATTCATCACATCGGCCAT-TAGGC-CT
60 --ATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTT-ATCACA-----CATATA--CACT
* * *
33277010 TATCACATATACATACACTTTC-ACATTCATCACATCGGC
114 T-TCACAT-T-CAT-CAC-ATCGGC---CAT----TAGGC
* *
33277049 CATTAGGC-CTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 C-TTA-TCAC--A-T--AT--ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC-
* * * *
33277113 TATATACATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATTACATACATACACTTTCA
56 -ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCA
33277178 CATTCATCACATCGGCCATTAGGC
118 CATTCATCACATCGGCCATTAGGC
33277202 CTTATCACATATATACACT
1 CTTATCACATATATACACT
33277221 CTCTTGGCTG
Statistics
Matches: 391, Mismatches: 50, Indels: 74
0.76 0.10 0.14
Matches are distributed among these distances:
141 130 0.33
142 1 0.00
143 5 0.01
145 49 0.13
147 5 0.01
149 25 0.06
150 6 0.02
151 7 0.02
152 4 0.01
153 5 0.01
155 2 0.01
156 6 0.02
157 10 0.03
158 1 0.00
159 5 0.01
160 8 0.02
161 5 0.01
162 1 0.00
163 9 0.02
164 4 0.01
165 2 0.01
167 6 0.02
168 4 0.01
169 6 0.02
170 5 0.01
171 80 0.20
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:33276976 original size:24 final size:24
Alignment explanation
Indices: 33276948--33276996 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
33276938 CACATATATA
33276948 CATACACTTTCACATTCATCACAT
1 CATACACTTTCACATTCATCACAT
33276972 CATACACTTTCACATTCATCACAT
1 CATACACTTTCACATTCATCACAT
33276996 C
1 C
33276997 GGCCATTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (24 bp):
CATACACTTTCACATTCATCACAT
Found at i:33276978 original size:75 final size:73
Alignment explanation
Indices: 33276897--33277045 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 73
33276887 TACAGATATA
33276897 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCACA
1 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATACATACACTTTCACA
33276962 TTCATCACAT
64 TTCATCACAT
33276972 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATT
1 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATT
33277037 CATCACAT
66 CATCACAT
33277045 C
1 C
33277046 GGCCATTAGG
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
73 30 0.41
75 44 0.59
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (73 bp):
CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATT
CATCACAT
Found at i:33277073 original size:124 final size:122
Alignment explanation
Indices: 33276842--33277092 Score: 409
Period size: 124 Copynumber: 2.0 Consensus size: 122
33276832 GGCCTTATCA
* *
33276842 CACAT-ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACAGATATACATACACTT
1 CACATCATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACACATATACATACACTT
*
33276906 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCACATTCAT
66 TCACATTCATCACATCGGCCATTAGGCC-T-T-AC-TACATACATACACTTTCACATTCAT
33276967 CACATCATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-T-CACATATACATACACTT
1 CACATCATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACACATATACATACACTT
*
33277030 TCACATTCATCACATCGGCCATTAGGCCTTATTACATACATACACTTTCACATTCAT
66 TCACATTCATCACATCGGCCATTAGGCCTTACTACATACATACACTTTCACATTCAT
33277087 CACATC
1 CACATC
33277093 GGCCATTAGG
Statistics
Matches: 121, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
120 30 0.25
121 1 0.01
122 1 0.01
123 1 0.01
124 44 0.36
125 6 0.05
126 38 0.31
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (122 bp):
CACATCATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACACATATACATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTACTACATACATACACTTTCACATTCAT
Found at i:33277137 original size:222 final size:216
Alignment explanation
Indices: 33276748--33277190 Score: 717
Period size: 222 Copynumber: 2.0 Consensus size: 216
33276738 GGGCTTATCA
*
33276748 CACAT-ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACACATATACACTTTCAC
1 CACATCATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCAC
* * * *
33276812 ATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTAT
66 ATTCATCACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCCAT
*
33276877 TAGGCCTTATTACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
131 TAGGCCTTATCACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT----
*
33276942 TATATACATACACTTTCACATTCAT
192 TACATACATACACTTTCACATTCAT
*
33276967 CACATCATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTC
1 CACATCATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT--ATACACTTTC
* *
33277032 ACATTCATCACATCGGCCATTAGGCCTTATTACATACATACACTTTCACATTCATCACATCGGCC
64 ACATTCATCACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCC
* *
33277097 ATTAGGCCTTATCACATATATACATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATTA
129 ATTAGGCCTTATCACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTA
33277162 CATACATACACTTTCACATTCAT
194 CATACATACACTTTCACATTCAT
33277185 CACATC
1 CACATC
33277191 GGCCATTAGG
Statistics
Matches: 209, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
218 30 0.14
219 5 0.02
220 45 0.22
222 129 0.62
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (216 bp):
CACATCATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCCAT
TAGGCCTTATCACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACA
TACATACACTTTCACATTCAT
Found at i:33277141 original size:51 final size:50
Alignment explanation
Indices: 33276972--33277218 Score: 400
Period size: 47 Copynumber: 5.0 Consensus size: 50
33276962 TTCATCACAT
33276972 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATA
1 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTATATA
*
33277021 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT---TACATA
1 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTATATA
33277068 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TATATA
* *
33277119 CATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT---TACATA
1 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTATATA
33277166 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TATATA
33277217 CA
1 CA
33277219 CTCTCTTGGC
Statistics
Matches: 183, Mismatches: 6, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
47 90 0.49
49 41 0.22
51 52 0.28
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.32
Consensus pattern (50 bp):
CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTATATA
Found at i:33277163 original size:98 final size:98
Alignment explanation
Indices: 33276968--33277218 Score: 472
Period size: 98 Copynumber: 2.6 Consensus size: 98
33276958 CACATTCATC
33276968 ACAT-CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATACATACACTT
1 ACATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTT
33277030 TCACATTCATCACATCGGCCATTAGGCCTTATT
66 TCACATTCATCACATCGGCCATTAGGCCTTATT
33277063 ACATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTT
1 ACATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTT
*
33277128 TCACATTCATCACATTGGCCATTAGGCCTTATT
66 TCACATTCATCACATCGGCCATTAGGCCTTATT
33277161 ACATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 ACATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
33277219 CTCTCTTGGC
Statistics
Matches: 152, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
95 4 0.03
96 44 0.29
98 104 0.68
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.31
Consensus pattern (98 bp):
ACATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTATT
Found at i:33277183 original size:269 final size:263
Alignment explanation
Indices: 33276701--33277218 Score: 831
Period size: 269 Copynumber: 1.9 Consensus size: 263
33276691 GGCCTTATCA
* *
33276701 CACATATACACTTTCACATTCATCACGTCGGCCATTAGGGCTTATCACACATATACACTTTCACA
1 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACA
* * * *
33276766 TTCATCACGTCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATT
66 TTCATCACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCCATT
*
33276831 AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACAGATAT
131 AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTAC--A-AT
33276896 ACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCAC
193 ACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCAC
33276961 ATTCAT
258 ATTCAT
*
33276967 CACATCATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTC
1 CACAT-ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT--ATACACTTTC
* *
33277032 ACATTCATCACATCGGCCATTAGGCCTTATTACATACATACACTTTCACATTCATCACATCGGCC
63 ACATTCATCACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCC
* *
33277097 ATTAGGCCTTATCACATATATACATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATTA
128 ATTAGGCCTTATCAC--ACAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTA
33277162 C-ATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
189 CAATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
33277219 CTCTCTTGGC
Statistics
Matches: 233, Mismatches: 12, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
266 5 0.02
267 44 0.19
269 140 0.60
271 3 0.01
273 41 0.18
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (263 bp):
CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACA
TTCATCACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCCATT
AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACAATACA
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCACATT
CAT
Found at i:33284214 original size:13 final size:14
Alignment explanation
Indices: 33284181--33284232 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
33284171 AATAATTAAT
*
33284181 TAAACATAAAAGAAA
1 TAAA-ATAAAGGAAA
33284196 TAAAATAAAGGAAA
1 TAAAATAAAGGAAA
* *
33284210 T-AAATAAAGTAAGT
1 TAAAATAAAGGAA-A
33284224 TAAAATAAA
1 TAAAATAAA
33284233 AAGGAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 10 0.31
14 11 0.34
15 11 0.34
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (14 bp):
TAAAATAAAGGAAA
Found at i:33286941 original size:24 final size:24
Alignment explanation
Indices: 33286914--33286963 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
33286904 AAGTGTCGTC
33286914 TGGCATTGATTATCAAGAAACCTT
1 TGGCATTGATTATCAAGAAACCTT
33286938 TGGCATTGATTATCAAGAAACCTT
1 TGGCATTGATTATCAAGAAACCTT
33286962 TG
1 TG
33286964 CTCCCGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (24 bp):
TGGCATTGATTATCAAGAAACCTT
Found at i:33287249 original size:24 final size:24
Alignment explanation
Indices: 33287222--33287273 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
33287212 GCAAGTGTCG
33287222 TTTGGCATTGATTATCAAGAAACC
1 TTTGGCATTGATTATCAAGAAACC
33287246 TTTGGCATTGATTATCAAGAAACC
1 TTTGGCATTGATTATCAAGAAACC
33287270 TTTG
1 TTTG
33287274 CTCCCGTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (24 bp):
TTTGGCATTGATTATCAAGAAACC
Found at i:33287322 original size:310 final size:311
Alignment explanation
Indices: 33286757--33287378 Score: 1201
Period size: 310 Copynumber: 2.0 Consensus size: 311
33286747 CCAAATTGGA
33286757 AGTTAGTAATTATGGAGGAAATGAATGCTTTGAAGAAGAACAATACTTGGGAGATAGTAAATTTA
1 AGTTAGTAATTATGGAGGAAATGAATGCTTTGAAGAAGAACAATACTTGGGAGATAGTAAATTTA
33286822 CCCAAAGATAAACAAATTGTGGGATGTAAATGGTATTCAACGTGAAATGCAATGTTGATGGAAAT
66 CCCAAAGATAAACAAATTGTGGGATGTAAATGG--TTCAACGTGAAATGCAATGTTGATGGAAAT
33286887 ATATAAAGGTATAAGGCAAGTGTCGTCTGGCATTGATTATCAAGAAACCTTTGGCATTGATTATC
129 ATATAAAGGTATAAGGCAAGTGTCGTCTGGCATTGATTATCAAGAAACCTTTGGCATTGATTATC
*
33286952 AAGAAACCTTTGCTCCCGTTGTGAAACTCAATTCAATTCAAATTTTATTTTCCTTGGCTGTGAAT
194 AAGAAACCTTTGCTCCCGTTGCGAAACTCAATTCAATTCAAATTTTATTTTCCTTGGCTGTGAAT
33287017 CAAAATTGGCCCTTATAGCAGTTGGATATTAAGAATGCTTTTCTAAATGATGG
259 CAAAATTGGCCCTTATAGCAGTTGGATATTAAGAATGCTTTTCTAAATGATGG
33287070 AGTTAGTAATTATGGAGGAAATGAATGCTTTGAAGAAGAACAATACTTGGGAGATAGTAAATTTA
1 AGTTAGTAATTATGGAGGAAATGAATGCTTTGAAGAAGAACAATACTTGGGAGATAGTAAATTTA
33287135 CCCAAAGATAAACAAATTGTGGGATGTAAATGG-TCAACGTGAAATGCAATGTTGATGGAAATAT
66 CCCAAAGATAAACAAATTGTGGGATGTAAATGGTTCAACGTGAAATGCAATGTTGATGGAAATAT
*
33287199 ATAAAGGTATAAGGCAAGTGTCGTTTGGCATTGATTATCAAGAAACCTTTGGCATTGATTATCAA
131 ATAAAGGTATAAGGCAAGTGTCGTCTGGCATTGATTATCAAGAAACCTTTGGCATTGATTATCAA
33287264 GAAACCTTTGCTCCCGTTGCGAAACTCAATTCAATTCAAATTTTATTTTCCTTGGCTGTGAATCA
196 GAAACCTTTGCTCCCGTTGCGAAACTCAATTCAATTCAAATTTTATTTTCCTTGGCTGTGAATCA
33287329 AAATTGGCCCTTATAGCAGTTGGATATTAAGAATGCTTTTCTAAATGATG
261 AAATTGGCCCTTATAGCAGTTGGATATTAAGAATGCTTTTCTAAATGATG
33287379 ATTTTGAAGA
Statistics
Matches: 307, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
310 209 0.68
313 98 0.32
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (311 bp):
AGTTAGTAATTATGGAGGAAATGAATGCTTTGAAGAAGAACAATACTTGGGAGATAGTAAATTTA
CCCAAAGATAAACAAATTGTGGGATGTAAATGGTTCAACGTGAAATGCAATGTTGATGGAAATAT
ATAAAGGTATAAGGCAAGTGTCGTCTGGCATTGATTATCAAGAAACCTTTGGCATTGATTATCAA
GAAACCTTTGCTCCCGTTGCGAAACTCAATTCAATTCAAATTTTATTTTCCTTGGCTGTGAATCA
AAATTGGCCCTTATAGCAGTTGGATATTAAGAATGCTTTTCTAAATGATGG
Found at i:33288211 original size:35 final size:35
Alignment explanation
Indices: 33288165--33288234 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
33288155 TTCGTTGGAG
33288165 GAAATTTAGTCACTTGGAGAAGTAAAAAAGCAAAA
1 GAAATTTAGTCACTTGGAGAAGTAAAAAAGCAAAA
33288200 GAAATTTAGTCACTTGGAGAAGTAAAAAAGCAAAA
1 GAAATTTAGTCACTTGGAGAAGTAAAAAAGCAAAA
33288235 TATGGTAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.09, G:0.20, T:0.20
Consensus pattern (35 bp):
GAAATTTAGTCACTTGGAGAAGTAAAAAAGCAAAA
Found at i:33293790 original size:17 final size:17
Alignment explanation
Indices: 33293768--33293804 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
33293758 TTAAAAATAA
33293768 ATAAAATCTGATATTTT
1 ATAAAATCTGATATTTT
* *
33293785 ATAAAATTTTATATTTT
1 ATAAAATCTGATATTTT
33293802 ATA
1 ATA
33293805 CATTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
ATAAAATCTGATATTTT
Found at i:33293811 original size:17 final size:18
Alignment explanation
Indices: 33293778--33293822 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
33293768 ATAAAATCTG
33293778 ATATTTTATAAA-ATTTT
1 ATATTTTATAAATATTTT
* *
33293795 ATATTTTATACATTTTTT
1 ATATTTTATAAATATTTT
33293813 ATAGTTTTAT
1 ATA-TTTTAT
33293823 TTTATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 7 0.29
19 6 0.25
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
ATATTTTATAAATATTTT
Found at i:33294109 original size:27 final size:23
Alignment explanation
Indices: 33294078--33294132 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 23
33294068 AAAAACTATT
33294078 TTTAATATTTTTACAAATTTATATATA
1 TTTAAT-TTTTT--AAATTT-TATATA
*
33294105 TTTAATTTTTTAGATTTTATATA
1 TTTAATTTTTTAAATTTTATATA
33294128 TTTAA
1 TTTAA
33294133 AATATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 11 0.41
24 5 0.19
26 5 0.19
27 6 0.22
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAATTTTTTAAATTTTATATA
Found at i:33294751 original size:11 final size:11
Alignment explanation
Indices: 33294730--33294760 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
33294720 ATTTTAAAAA
33294730 TAAAAAGTATTT
1 TAAAAA-TATTT
33294742 TAAAAATATTT
1 TAAAAATATTT
33294753 TAAAAATA
1 TAAAAATA
33294761 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:33295153 original size:15 final size:15
Alignment explanation
Indices: 33295133--33295162 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33295123 AAACCCTAAA
33295133 ATCTAATATCATTTC
1 ATCTAATATCATTTC
33295148 ATCTAATATCATTTC
1 ATCTAATATCATTTC
33295163 TGGTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
ATCTAATATCATTTC
Found at i:33296208 original size:102 final size:102
Alignment explanation
Indices: 33296032--33296235 Score: 408
Period size: 102 Copynumber: 2.0 Consensus size: 102
33296022 CATAATATAT
33296032 TTGATAGTTGAGTGATAAAAAAAACTAAACATAGACTCCGGTTTCAGTGGCGATGGTGTGCTTTG
1 TTGATAGTTGAGTGATAAAAAAAACTAAACATAGACTCCGGTTTCAGTGGCGATGGTGTGCTTTG
33296097 TTCCGATGGGGATCGGAACACAAAGAAAGTTAGATTC
66 TTCCGATGGGGATCGGAACACAAAGAAAGTTAGATTC
33296134 TTGATAGTTGAGTGATAAAAAAAACTAAACATAGACTCCGGTTTCAGTGGCGATGGTGTGCTTTG
1 TTGATAGTTGAGTGATAAAAAAAACTAAACATAGACTCCGGTTTCAGTGGCGATGGTGTGCTTTG
33296199 TTCCGATGGGGATCGGAACACAAAGAAAGTTAGATTC
66 TTCCGATGGGGATCGGAACACAAAGAAAGTTAGATTC
33296236 AAGGAAGGGG
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (102 bp):
TTGATAGTTGAGTGATAAAAAAAACTAAACATAGACTCCGGTTTCAGTGGCGATGGTGTGCTTTG
TTCCGATGGGGATCGGAACACAAAGAAAGTTAGATTC
Found at i:33299832 original size:75 final size:75
Alignment explanation
Indices: 33299709--33299858 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
33299699 AGATTTTATT
33299709 CATGTCTCTCTCTAAGCAGCAGGTATTCCTGAGTATCTCAGTAAAGTTATTATATCCTCTATTTC
1 CATGTCTCTCTCTAAGCAGCAGGTATTCCTGAGTATCTCAGTAAAGTTATTATATCCTCTATTTC
33299774 AAATCTACTA
66 AAATCTACTA
33299784 CATGTCTCTCTCTAAGCAGCAGGTATTCCTGAGTATCTCAGTAAAGTTATTATATCCTCTATTTC
1 CATGTCTCTCTCTAAGCAGCAGGTATTCCTGAGTATCTCAGTAAAGTTATTATATCCTCTATTTC
33299849 AAATCTACTA
66 AAATCTACTA
33299859 TGCAGGTTAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (75 bp):
CATGTCTCTCTCTAAGCAGCAGGTATTCCTGAGTATCTCAGTAAAGTTATTATATCCTCTATTTC
AAATCTACTA
Found at i:33300535 original size:41 final size:41
Alignment explanation
Indices: 33300478--33300559 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
33300468 TTCTTAGGAA
33300478 AATTAGTGATGAGATTGAAAGTGGTCTAGAGTGGAAAAGAC
1 AATTAGTGATGAGATTGAAAGTGGTCTAGAGTGGAAAAGAC
33300519 AATTAGTGATGAGATTGAAAGTGGTCTAGAGTGGAAAAGAC
1 AATTAGTGATGAGATTGAAAGTGGTCTAGAGTGGAAAAGAC
33300560 TTCATGATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.05, G:0.32, T:0.24
Consensus pattern (41 bp):
AATTAGTGATGAGATTGAAAGTGGTCTAGAGTGGAAAAGAC
Found at i:33300607 original size:32 final size:32
Alignment explanation
Indices: 33300566--33300634 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
33300556 AGACTTCATG
33300566 ATCAAAACATATCCTTTCTTTTGAAGCTAGGT
1 ATCAAAACATATCCTTTCTTTTGAAGCTAGGT
*
33300598 ATCAAAACATATCCTTTCTTTTGAAGCTGGGT
1 ATCAAAACATATCCTTTCTTTTGAAGCTAGGT
*
33300630 TTCAA
1 ATCAA
33300635 CATTGTTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (32 bp):
ATCAAAACATATCCTTTCTTTTGAAGCTAGGT
Found at i:33301878 original size:39 final size:39
Alignment explanation
Indices: 33301834--33301913 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
33301824 TAGTTTGGTA
33301834 TTTCTTATTTTCACCAAAAAAATGTGTTATTTACTTTTT
1 TTTCTTATTTTCACCAAAAAAATGTGTTATTTACTTTTT
33301873 TTTCTTATTTTCACCAAAAAAATGTGTTATTTACTTTTT
1 TTTCTTATTTTCACCAAAAAAATGTGTTATTTACTTTTT
33301912 TT
1 TT
33301914 GTTAAATGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (39 bp):
TTTCTTATTTTCACCAAAAAAATGTGTTATTTACTTTTT
Found at i:33302325 original size:125 final size:125
Alignment explanation
Indices: 33302126--33302375 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
33302116 AAATCATCAA
33302126 GAAACATACTCAAAAGTACAATGATTTCTAAAAACATAGAAATATTTGGCTTGTGGAGGAATAGA
1 GAAACATACTCAAAAGTACAATGATTTCTAAAAACATAGAAATATTTGGCTTGTGGAGGAATAGA
33302191 TTTAGATAGAGAAATGCACCATTTTTGCTCCTTTCATATTCATCCCAATGCTTCATAAAT
66 TTTAGATAGAGAAATGCACCATTTTTGCTCCTTTCATATTCATCCCAATGCTTCATAAAT
33302251 GAAACATACTCAAAAGTACAATGATTTCTAAAAACATAGAAATATTTGGCTTGTGGAGGAATAGA
1 GAAACATACTCAAAAGTACAATGATTTCTAAAAACATAGAAATATTTGGCTTGTGGAGGAATAGA
33302316 TTTAGATAGAGAAATGCACCATTTTTGCTCCTTTCATATTCATCCCAATGCTTCATAAAT
66 TTTAGATAGAGAAATGCACCATTTTTGCTCCTTTCATATTCATCCCAATGCTTCATAAAT
33302376 CCTCCTCACT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (125 bp):
GAAACATACTCAAAAGTACAATGATTTCTAAAAACATAGAAATATTTGGCTTGTGGAGGAATAGA
TTTAGATAGAGAAATGCACCATTTTTGCTCCTTTCATATTCATCCCAATGCTTCATAAAT
Found at i:33308145 original size:18 final size:18
Alignment explanation
Indices: 33308118--33308162 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
33308108 TTTGGTTAAA
* *
33308118 AATTACTCGAATTACCCG
1 AATTAATCGAATTAACCG
33308136 AATTAATCGAATTAACCG
1 AATTAATCGAATTAACCG
33308154 AATTGAATC
1 AATT-AATC
33308163 ACTACATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (18 bp):
AATTAATCGAATTAACCG
Found at i:33308251 original size:18 final size:18
Alignment explanation
Indices: 33308228--33308281 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
33308218 AATTTTTATG
33308228 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
* *
33308246 ATTGGGTCGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
33308264 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
33308282 TTAGGTGAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.11, C:0.04, G:0.46, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:33308554 original size:12 final size:12
Alignment explanation
Indices: 33308534--33308564 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33308524 CCTCACACGC
*
33308534 CCGTTTGCTAGG
1 CCGTGTGCTAGG
33308546 CCGTGTGCTAGG
1 CCGTGTGCTAGG
33308558 CCGTGTG
1 CCGTGTG
33308565 AAGCTACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.26, G:0.39, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:33311687 original size:13 final size:13
Alignment explanation
Indices: 33311666--33311695 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
33311656 CATGAGGATG
*
33311666 AAATGCAGTGCTA
1 AAATACAGTGCTA
33311679 AAATACAGTGCTA
1 AAATACAGTGCTA
33311692 AAAT
1 AAAT
33311696 GCAACCGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (13 bp):
AAATACAGTGCTA
Found at i:33319303 original size:20 final size:20
Alignment explanation
Indices: 33319278--33319320 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
33319268 ATAACTTAAA
33319278 AATGGTATATTTACCATTTG
1 AATGGTATATTTACCATTTG
33319298 AATGGTATATTTACCATTTG
1 AATGGTATATTTACCATTTG
33319318 AAT
1 AAT
33319321 CCCTTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (20 bp):
AATGGTATATTTACCATTTG
Found at i:33325674 original size:21 final size:21
Alignment explanation
Indices: 33325642--33325682 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
33325632 GAACATTTGG
33325642 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
33325663 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
33325683 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:33333436 original size:22 final size:22
Alignment explanation
Indices: 33333408--33333452 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
33333398 GTTGAACAAG
*
33333408 TTGAATTGGTTTAATTAAATTT
1 TTGAATTGGTTTAATAAAATTT
**
33333430 TTGAATTTTTTTAATAAAATTT
1 TTGAATTGGTTTAATAAAATTT
33333452 T
1 T
33333453 AATTATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (22 bp):
TTGAATTGGTTTAATAAAATTT
Found at i:33341381 original size:18 final size:18
Alignment explanation
Indices: 33341354--33341388 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33341344 AGTTTTACAA
*
33341354 ATTTTTAAAATTCTTATG
1 ATTTTCAAAATTCTTATG
*
33341372 ATTTTCAAAATTTTTAT
1 ATTTTCAAAATTCTTAT
33341389 TTTTAATTAT
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:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTTCAAAATTCTTATG
Found at i:33341496 original size:19 final size:20
Alignment explanation
Indices: 33341424--33341497 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 20
33341414 TGATTTTCAT
33341424 ATTTTTTT-ATATTTTAA-A
1 ATTTTTTTAATATTTTAACA
* * *
33341442 ATTATTATAAT-TTTTTACA
1 ATTTTTTTAATATTTTAACA
**
33341461 ATTTTTGAAATATTTTAACA
1 ATTTTTTTAATATTTTAACA
33341481 ATTTTTTTAAT-TTTTAA
1 ATTTTTTTAATATTTTAA
33341498 ACAGCTTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
18 11 0.25
19 17 0.39
20 16 0.36
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (20 bp):
ATTTTTTTAATATTTTAACA
Found at i:33341584 original size:30 final size:29
Alignment explanation
Indices: 33341529--33341610 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
33341519 TTTTTAAATA
* *
33341529 AATTTTAAAT-TTTCTAAACAATTTTTTGT-
1 AATTTTAAATATTT-T-TACAATTTTTTTTC
*
33341558 AATTTTATA-ATTTTTACAAGTTTTTTTTC
1 AATTTTAAATATTTTTACAA-TTTTTTTTC
*
33341587 ATTTTTAAATATTTTTACAATTTT
1 AATTTTAAATATTTTTACAATTTT
33341611 CGAATGATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
27 4 0.09
28 8 0.18
29 22 0.50
30 10 0.23
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (29 bp):
AATTTTAAATATTTTTACAATTTTTTTTC
Found at i:33347370 original size:103 final size:104
Alignment explanation
Indices: 33347126--33347389 Score: 415
Period size: 103 Copynumber: 2.5 Consensus size: 104
33347116 GTTGTACATA
** *
33347126 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
33347191 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
33347230 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
33347294 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
33347333 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCA
33347390 TCAATAACGG
Statistics
Matches: 147, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 81 0.55
104 66 0.45
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:33358261 original size:9 final size:9
Alignment explanation
Indices: 33358249--33358276 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
33358239 TTTTATTACA
33358249 ACAATTAAT
1 ACAATTAAT
33358258 ACAATTAAT
1 ACAATTAAT
33358267 ACAATTAAT
1 ACAATTAAT
33358276 A
1 A
33358277 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:33358294 original size:68 final size:68
Alignment explanation
Indices: 33358153--33358360 Score: 370
Period size: 68 Copynumber: 3.1 Consensus size: 68
33358143 TCAAGTTTGT
*
33358153 TTTACTAATC-AATGTTAGATTTTGTTACAACAATTAATACAA-TAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
33358216 AAA
66 AAA
33358219 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
33358284 AAA
66 AAA
33358287 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
33358350 AAT
66 AAA
33358353 TTTACTAA
1 TTTACTAA
33358361 CAATTAATTT
Statistics
Matches: 138, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
66 37 0.27
67 32 0.23
68 69 0.50
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:33358370 original size:16 final size:16
Alignment explanation
Indices: 33358349--33358390 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
33358339 AATAATTTGA
*
33358349 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
33358365 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
33358381 TAGTTTTAAT
1 TAATTTTAAT
33358391 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:33360563 original size:63 final size:63
Alignment explanation
Indices: 33360462--33360580 Score: 211
Period size: 63 Copynumber: 1.9 Consensus size: 63
33360452 TCCCTTTGGT
*
33360462 TATGCACTAGTTGATGGTCTGAGAGTCAATCGATCATATAAGTTGGGTAGAATCTGTGTAAAA
1 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTGTGTAAAA
* *
33360525 TATGCACTAGTTGATGGTCTGAGAGTCAGTCGACCATATACGTTGGGTAGAATCTG
1 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTG
33360581 ACTAAAACAG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (63 bp):
TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTGTGTAAAA
Found at i:33361844 original size:20 final size:20
Alignment explanation
Indices: 33361819--33361862 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
33361809 GAAGTTGAAT
33361819 AGGCTAGCTATAGCAGTAAA
1 AGGCTAGCTATAGCAGTAAA
*
33361839 AGGCTAGCTATAGCTGTAAA
1 AGGCTAGCTATAGCAGTAAA
33361859 AGGC
1 AGGC
33361863 AAGTTTAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.20
Consensus pattern (20 bp):
AGGCTAGCTATAGCAGTAAA
Found at i:33361873 original size:19 final size:20
Alignment explanation
Indices: 33361819--33361874 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
33361809 GAAGTTGAAT
* *
33361819 AGGCTAGCTATAGCAGTAAA
1 AGGCAAGCTATAGCTGTAAA
*
33361839 AGGCTAGCTATAGCTGTAAA
1 AGGCAAGCTATAGCTGTAAA
*
33361859 AGGCAAG-TTTAGCTGT
1 AGGCAAGCTATAGCTGT
33361875 CCTTTGCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 8 0.24
20 25 0.76
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (20 bp):
AGGCAAGCTATAGCTGTAAA
Found at i:33369945 original size:18 final size:19
Alignment explanation
Indices: 33369918--33369986 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 19
33369908 AATTCAAGAT
33369918 TTTTTGTTCTTCTCTTTTA
1 TTTTTGTTCTTCTCTTTTA
* *
33369937 TTTTT-TTCTTCTGTTTTC
1 TTTTTGTTCTTCTCTTTTA
33369955 TGTTCTTGTTCTTTCTCTTTCTA
1 T-TT-TTGTTC-TTCTCTTT-TA
33369978 CTTTTTGTT
1 -TTTTTGTT
33369987 TCTAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 12 0.30
19 7 0.17
20 2 0.05
21 3 0.08
22 12 0.30
23 3 0.08
24 1 0.03
ACGTcount: A:0.03, C:0.17, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTTGTTCTTCTCTTTTA
Found at i:33378086 original size:124 final size:124
Alignment explanation
Indices: 33377606--33378079 Score: 695
Period size: 124 Copynumber: 3.8 Consensus size: 124
33377596 TCATAATTTG
* * *
33377606 GCAACATGCCTTTCATTCAACTCACTATAGGAGGTGAGTTGATCAATCATTCGTTCTTGAATGCT
1 GCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATGCT
* * * *
33377671 TGTGGGAATAGCCTT-AGGCCTGAGCCAATGGGCACTCCTTGAGACTGCTCGTAATCTA
66 TGTGGGAATAGCCTTGGGGCCTAAGCTAATGGGCACTCCTTGAGATTGCTCGTAATCTA
* ** *
33377729 GCAACATTCCTCTCATTTGACTCACTGTAGGAGGTGAGTTTATCAATCATTCATTCTTGAATGCT
1 GCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATGCT
* *
33377794 TGTGGGAATAGCCTTAGGGCCTAAGCTAATGGGCACTCCTTGAGATTGCTCCTAATCTA
66 TGTGGGAATAGCCTTGGGGCCTAAGCTAATGGGCACTCCTTGAGATTGCTCGTAATCTA
33377853 GCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATGCT
1 GCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATGCT
* * * * *
33377918 TGTGGGAATAGCCTTGGGGCCTGAGCTAGTGGGCACTCATTGAGTTTGCTTGTAATCT-
66 TGTGGGAATAGCCTTGGGGCCTAAGCTAATGGGCACTCCTTGAGATTGCTCGTAATCTA
* * *
33377976 GAAAACATGCCTCTTATTCGAA-TCACTTTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
1 G-CAACATGCCTCTCATTC-AACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
*
33378040 CTTGTAGGAATAGCCTTGGGGCCTAAAGC-AATGGGCACTC
64 CTTGTGGGAATAGCCTTGGGGCCT-AAGCTAATGGGCACTC
33378080 TCTGAGTCTG
Statistics
Matches: 318, Mismatches: 29, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
123 74 0.23
124 239 0.75
125 5 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (124 bp):
GCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATGCT
TGTGGGAATAGCCTTGGGGCCTAAGCTAATGGGCACTCCTTGAGATTGCTCGTAATCTA
Found at i:33382476 original size:29 final size:30
Alignment explanation
Indices: 33382442--33382518 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
33382432 TATAATACCA
33382442 GCACAAAGTGCCTGATAACCGTAA-CACTG
1 GCACAAAGTGCCTGATAACCGTAATCACTG
* * * *
33382471 GTACAAAGTACCTAATAACTGTAATCACTG
1 GCACAAAGTGCCTGATAACCGTAATCACTG
*
33382501 GCACATAGTGCCTGATAA
1 GCACAAAGTGCCTGATAA
33382519 ACCCTAATGA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 20 0.51
30 19 0.49
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (30 bp):
GCACAAAGTGCCTGATAACCGTAATCACTG
Found at i:33388674 original size:28 final size:28
Alignment explanation
Indices: 33388634--33388718 Score: 161
Period size: 28 Copynumber: 3.0 Consensus size: 28
33388624 GGCAAAAAGT
33388634 TGTCACTTCCTAATTAACACACGTTCTA
1 TGTCACTTCCTAATTAACACACGTTCTA
33388662 TGTCACTTCCTAATTAACACACGTTCTA
1 TGTCACTTCCTAATTAACACACGTTCTA
*
33388690 TGTCACTTCCTAATTAACACACGCTCTA
1 TGTCACTTCCTAATTAACACACGTTCTA
33388718 T
1 T
33388719 CTAAATATGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.28, C:0.29, G:0.07, T:0.35
Consensus pattern (28 bp):
TGTCACTTCCTAATTAACACACGTTCTA
Found at i:33410122 original size:27 final size:27
Alignment explanation
Indices: 33410090--33410208 Score: 150
Period size: 27 Copynumber: 4.4 Consensus size: 27
33410080 AGACCCCAAA
33410090 ATAGGGTAAAATAACCAAAATACCCCT
1 ATAGGGTAAAATAACCAAAATACCCCT
*
33410117 ATAGGGTAAAATAACCAAATTACCCCT
1 ATAGGGTAAAATAACCAAAATACCCCT
* * ** *
33410144 ATAGGGTAGAATGACTGAAATACCCCC
1 ATAGGGTAAAATAACCAAAATACCCCT
* * *
33410171 ATAGGGTAAAATGATCGAAATACCCC-
1 ATAGGGTAAAATAACCAAAATACCCCT
33410197 ATAGGGTAAAAT
1 ATAGGGTAAAAT
33410209 GACTGTTATA
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 12 0.15
27 70 0.85
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (27 bp):
ATAGGGTAAAATAACCAAAATACCCCT
Found at i:33420738 original size:82 final size:82
Alignment explanation
Indices: 33420525--33420767 Score: 303
Period size: 82 Copynumber: 3.0 Consensus size: 82
33420515 GACTTTTCGG
* *
33420525 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGCTTTCGCGGCGTTTTTATGTA
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGCTTTAGCGGCGTTTTTAAGTA
*
33420590 AGTGCCGCTAATGTTCT
66 AGCGCCGCTAATGTTCT
* * * *
33420607 GGGATTTAGCGGCATTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGTGGCGTTTTTAAGTA
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGCTTTAGCGGCGTTTTTAAGTA
*
33420672 AGCGCCGTTAATGTTCT
66 AGCGCCGCTAATGTTCT
* * * *
33420689 GGGCTTTAGCGGCGTTTTTAT-TGATGCGCCGCTAAT-TCTCAGGCCTTTAGCAGCGCTTTTTTA
1 GGGCTTTAGCGGCGTTTTTATGT-AAGCGCCGCTAATGT-TCTGGGCTTTAGC-G-GCGTTTTTA
* *
33420752 A-AAAACGCCGCTAATG
62 AGTAAGCGCCGCTAATG
33420768 CTCTTCATTT
Statistics
Matches: 138, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
81 2 0.01
82 114 0.83
83 13 0.09
84 9 0.07
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (82 bp):
GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGCTTTAGCGGCGTTTTTAAGTA
AGCGCCGCTAATGTTCT
Found at i:33420739 original size:41 final size:41
Alignment explanation
Indices: 33420525--33420724 Score: 303
Period size: 41 Copynumber: 4.9 Consensus size: 41
33420515 GACTTTTCGG
33420525 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* *
33420566 GGGCTTTCGCGGCGTTTTTATGTAAGTGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* *
33420607 GGGATTTAGCGGCATTTTTATGTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* * * *
33420648 GGGATTTAGTGGCGTTTTTAAGTAAGCGCCGTTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
*
33420689 GGGCTTTAGCGGCGTTTTTAT-TGATGCGCCGCTAAT
1 GGGCTTTAGCGGCGTTTTTATGT-AAGCGCCGCTAAT
33420725 TCTCAGGCCT
Statistics
Matches: 143, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 1 0.01
41 142 0.99
ACGTcount: A:0.16, C:0.17, G:0.29, T:0.38
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
Found at i:33420778 original size:123 final size:123
Alignment explanation
Indices: 33420529--33420789 Score: 305
Period size: 123 Copynumber: 2.1 Consensus size: 123
33420519 TTTCGGGGGC
* * * *
33420529 TTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGCTTTCGCGGCGTTTTTATGTAAGTG
1 TTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGTTCTGGGCTTTAGCGGCGTTTTTATGTAAGCG
* * ** * * *
33420594 CCGCTAATGTTCTGGGATTTAGCGGCATTTTTATGTAAGCGCCGCTAATGTTCTGGGA
66 CCGCTAATGTTCAGGCATTTAGCGGCATTTTTATAAAAACGCCGCTAATGCTCTGGCA
* *
33420652 TTTAGTGGCGTTTTTAAGTAAGCGCCGTTAATGTTCTGGGCTTTAGCGGCGTTTTTAT-TGATGC
1 TTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGTTCTGGGCTTTAGCGGCGTTTTTATGT-AAGC
* * *
33420716 GCCGCTAAT-TCTCAGGCCTTTAGCAGCGCTTTTTTA-AAAAACGCCGCTAATGCTCT-TCA
65 GCCGCTAATGT-TCAGGCATTTAGC-G-GCATTTTTATAAAAACGCCGCTAATGCTCTGGCA
*
33420775 TTTAGTGGCATTTTT
1 TTTAGTGGCGTTTTT
33420790 GGAAAGCGCC
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
122 2 0.02
123 90 0.77
124 17 0.15
125 8 0.07
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (123 bp):
TTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGTTCTGGGCTTTAGCGGCGTTTTTATGTAAGCG
CCGCTAATGTTCAGGCATTTAGCGGCATTTTTATAAAAACGCCGCTAATGCTCTGGCA
Found at i:33422397 original size:66 final size:66
Alignment explanation
Indices: 33422327--33422462 Score: 236
Period size: 66 Copynumber: 2.1 Consensus size: 66
33422317 GACCACAGTT
* *
33422327 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
33422392 A
66 A
* *
33422393 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
33422458 A
66 A
33422459 GAGG
1 GAGG
33422463 CTGCAGCGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.14
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
A
Found at i:33422872 original size:43 final size:43
Alignment explanation
Indices: 33422811--33422943 Score: 205
Period size: 43 Copynumber: 3.1 Consensus size: 43
33422801 AACAAATAGT
*
33422811 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATTAGCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATTAACTTTAGC
* * *
33422854 GGCGTTTGTGTTAGAAGCGCCGCTAAAGAACATGAACTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATTAACTTTAGC
*
33422897 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGT-TCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACAT-TAACTTTAGC
33422940 GGCG
1 GGCG
33422944 CTTTTAAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATTAACTTTAGC
Found at i:33434931 original size:126 final size:126
Alignment explanation
Indices: 33434611--33434960 Score: 589
Period size: 125 Copynumber: 2.8 Consensus size: 126
33434601 ATTATTTCAA
*
33434611 GTTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCATGATGCTATTTGAGAAGAAATTG
1 GTTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
33434675 TGAAATC-ACGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
65 TGAAATCGA-GCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
* * * * *
33434737 -CTGATGTTTCTGAGCAAATAGTATAAAATCGTTTCTACGAGAATGCTATTTGAGAAGAAATTGT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
33434801 GAAATCGAGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
66 GAAATCGAGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
33434862 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
33434927 GAAATTGCGCCCTCGTGGACGCGATTTTGCTACA
66 GAAATCGAGCCCTCGTGGACGCGATTTTGCTACA
33434961 ATAGCAAGTT
Statistics
Matches: 208, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
125 115 0.55
126 93 0.45
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (126 bp):
GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
GAAATCGAGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
Found at i:33437342 original size:121 final size:121
Alignment explanation
Indices: 33437128--33437374 Score: 494
Period size: 121 Copynumber: 2.0 Consensus size: 121
33437118 AAGGGGCCGA
33437128 CTACCTTTGTAACATACGTTTCAAAGAGTGGACACAAGCATACGACAGAGGCCTACGATATGGCC
1 CTACCTTTGTAACATACGTTTCAAAGAGTGGACACAAGCATACGACAGAGGCCTACGATATGGCC
33437193 ATATGACGTCGAACCTGGCTGAATGCATAAATTCTGTTCTTAAAGGAACGCGCCAT
66 ATATGACGTCGAACCTGGCTGAATGCATAAATTCTGTTCTTAAAGGAACGCGCCAT
33437249 CTACCTTTGTAACATACGTTTCAAAGAGTGGACACAAGCATACGACAGAGGCCTACGATATGGCC
1 CTACCTTTGTAACATACGTTTCAAAGAGTGGACACAAGCATACGACAGAGGCCTACGATATGGCC
33437314 ATATGACGTCGAACCTGGCTGAATGCATAAATTCTGTTCTTAAAGGAACGCGCCAT
66 ATATGACGTCGAACCTGGCTGAATGCATAAATTCTGTTCTTAAAGGAACGCGCCAT
33437370 CTACC
1 CTACC
33437375 GATAACATCG
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 126 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (121 bp):
CTACCTTTGTAACATACGTTTCAAAGAGTGGACACAAGCATACGACAGAGGCCTACGATATGGCC
ATATGACGTCGAACCTGGCTGAATGCATAAATTCTGTTCTTAAAGGAACGCGCCAT
Found at i:33438152 original size:10 final size:10
Alignment explanation
Indices: 33438137--33438161 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33438127 CAAATCTAAC
33438137 ATTATGTAAA
1 ATTATGTAAA
33438147 ATTATGTAAA
1 ATTATGTAAA
33438157 ATTAT
1 ATTAT
33438162 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:33438243 original size:56 final size:55
Alignment explanation
Indices: 33438153--33438481 Score: 486
Period size: 56 Copynumber: 5.9 Consensus size: 55
33438143 TAAAATTATG
33438153 TAAAATTATTAAGCCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
1 TAAAATTATTAAGCC--AAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
**
33438210 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAG-CCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* *
33438265 TAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAAC
1 TAAAATTATTAAGCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
* **
33438320 TAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAG-CCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* *
33438375 TAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAAC
1 TAAAATTATTAAGCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
33438430 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAAT
1 TAAAATTATTAAG-CCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAAT
33438482 TAAGTTAGGT
Statistics
Matches: 245, Mismatches: 18, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
54 55 0.22
55 85 0.35
56 90 0.37
57 13 0.05
58 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.36
Consensus pattern (55 bp):
TAAAATTATTAAGCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
Found at i:33438308 original size:110 final size:110
Alignment explanation
Indices: 33438144--33438480 Score: 611
Period size: 110 Copynumber: 3.0 Consensus size: 110
33438134 AACATTATGT
* *
33438144 AAAATTATGTAAAATTATTAAGCCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAA
1 AAAA-TATGTAAAATTATTAAGCC--AAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAA
33438209 CTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
63 CTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
33438257 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
1 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
*
33438322 AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
66 AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
33438367 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
1 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
33438432 AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATC
66 AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAA-TTATC
33438478 AAA
1 AAA
33438481 TTAAGTTAGG
Statistics
Matches: 219, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
110 188 0.86
111 8 0.04
112 19 0.09
113 4 0.02
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (110 bp):
AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:33438518 original size:29 final size:29
Alignment explanation
Indices: 33438479--33438854 Score: 529
Period size: 29 Copynumber: 12.8 Consensus size: 29
33438469 AAATTTATCA
*
33438479 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
*
33438508 AGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
*
33438537 AATTAATTTAGGTTAGGGATAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
* *
33438566 AGTTAATTTAGGTTAGGGTTAGAGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
*
33438595 ATTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
*
33438624 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
* **
33438653 AGTTAGGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
33438682 AATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
33438711 AATTAAGTTAGGTGAGGGTTAGGGTTAGGGTTTTT
1 AATTAA-TT---T-A-GGTTAGGGTTAGGGTTTTT
** * *
33438746 AATTAAAATAGTTTAGGGTTAGGATTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
* **
33438775 AGTTAGGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
33438804 AATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
*
33438833 AATTAAGTTAGGTTA-GGTTAGG
1 AATTAATTTAGGTTAGGGTTAGG
33438855 TTAGGTTAGG
Statistics
Matches: 311, Mismatches: 30, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
28 7 0.02
29 273 0.88
30 3 0.01
31 1 0.00
33 1 0.00
34 1 0.00
35 25 0.08
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (29 bp):
AATTAATTTAGGTTAGGGTTAGGGTTTTT
Found at i:33438849 original size:5 final size:5
Alignment explanation
Indices: 33438839--33438874 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
33438829 TTTTAATTAA
33438839 GTTAG GTTAG GTTAG GTTAG GTTAG GTTAG GTTAG G
1 GTTAG GTTAG GTTAG GTTAG GTTAG GTTAG GTTAG G
33438875 GTTTTCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (5 bp):
GTTAG
Found at i:33438983 original size:25 final size:26
Alignment explanation
Indices: 33438940--33438988 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
33438930 CTTCAAAAAT
* *
33438940 TTCTATGTGTATTATATCAGATAAAC
1 TTCTATGTGTATTACATCAAATAAAC
*
33438966 TTCTAT-TTTATTACATCAAATAA
1 TTCTATGTGTATTACATCAAATAA
33438989 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (26 bp):
TTCTATGTGTATTACATCAAATAAAC
Found at i:33440082 original size:7 final size:7
Alignment explanation
Indices: 33440072--33440096 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33440062 TTATATACAT
33440072 AATACTA
1 AATACTA
33440079 AATACTA
1 AATACTA
33440086 AATACTA
1 AATACTA
33440093 AATA
1 AATA
33440097 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:33441194 original size:31 final size:29
Alignment explanation
Indices: 33441158--33441223 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 29
33441148 GCCATTGATG
33441158 AAAATATAAAAAAATTTATAATTATTTTAGA
1 AAAATATAAAAAAA-TTATAATTATTTTA-A
33441189 AAAATATAAAAAAATTATAATTATTTTAA
1 AAAATATAAAAAAATTATAATTATTTTAA
33441218 AAAATA
1 AAAATA
33441224 GATTTGAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 7 0.20
30 14 0.40
31 14 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAATATAAAAAAATTATAATTATTTTAA
Found at i:33441907 original size:54 final size:54
Alignment explanation
Indices: 33441822--33441924 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
33441812 CTCAAAAGAG
* * *
33441822 CATATCCATCCAACACACCAAGGCACATAAGTGCAAGACCTGAAGGCATCATAT
1 CATATCCATCCAACACACAAAGGAACATAAGTGCAAGACCCGAAGGCATCATAT
* * *
33441876 CATATCCCTCTAACACACAAAGGAACGTAAGTGCAAGACCCGAAGGCAT
1 CATATCCATCCAACACACAAAGGAACATAAGTGCAAGACCCGAAGGCAT
33441925 ATAACTCTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.39, C:0.29, G:0.17, T:0.16
Consensus pattern (54 bp):
CATATCCATCCAACACACAAAGGAACATAAGTGCAAGACCCGAAGGCATCATAT
Found at i:33444965 original size:11 final size:11
Alignment explanation
Indices: 33444949--33444984 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
33444939 TGGTTGTTAG
33444949 AATATTTTATT
1 AATATTTTATT
33444960 AATATTTTATCAT
1 AATATTTTAT--T
33444973 AATATTTTATT
1 AATATTTTATT
33444984 A
1 A
33444985 TAAGAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.52
13 11 0.48
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
AATATTTTATT
Found at i:33444977 original size:13 final size:12
Alignment explanation
Indices: 33444949--33444987 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
33444939 TGGTTGTTAG
33444949 AATATTTTAT-T
1 AATATTTTATAT
33444960 AATATTTTATCAT
1 AATATTTTAT-AT
33444973 AATATTTTATTAT
1 AATATTTTA-TAT
33444986 AA
1 AA
33444988 GAAATTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.40
13 14 0.56
14 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (12 bp):
AATATTTTATAT
Found at i:33455242 original size:14 final size:14
Alignment explanation
Indices: 33455207--33455242 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
33455197 TACATGTTAT
*
33455207 AATTTTTTTATAAA
1 AATTTATTTATAAA
33455221 ATATTTATTTATAAA
1 A-ATTTATTTATAAA
33455236 AATTTAT
1 AATTTAT
33455243 GGTCAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTATTTATAAA
Found at i:33456347 original size:13 final size:13
Alignment explanation
Indices: 33456329--33456359 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
33456319 AGATATGATG
33456329 ATTTGATTTTAAT
1 ATTTGATTTTAAT
33456342 ATTTGATTTTAAT
1 ATTTGATTTTAAT
*
33456355 TTTTG
1 ATTTG
33456360 TTACTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (13 bp):
ATTTGATTTTAAT
Found at i:33458006 original size:4 final size:4
Alignment explanation
Indices: 33457997--33458124 Score: 211
Period size: 4 Copynumber: 32.0 Consensus size: 4
33457987 AATGTATAGG
33457997 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * *
33458045 GAGA GAGA GAGA GAGA GAGA GAGG GAGG GAGA GGGA GAGG GAGA GGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
33458093 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
33458125 CTAGTAGATA
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 116 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (4 bp):
GAGA
Found at i:33458008 original size:6 final size:6
Alignment explanation
Indices: 33457997--33458124 Score: 211
Period size: 6 Copynumber: 21.3 Consensus size: 6
33457987 AATGTATAGG
33457997 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * *
33458045 GAGAGA GAGAGA GAGAGA GAGAGG GAGGGA GAGGGA GAGGGA GAGGGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
33458093 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GA
33458125 CTAGTAGATA
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 118 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (6 bp):
GAGAGA
Found at i:33459750 original size:37 final size:37
Alignment explanation
Indices: 33459709--33459884 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
33459699 TTTGAGTACT
33459709 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
33459746 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
33459783 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
33459820 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
33459857 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
33459885 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:33459956 original size:45 final size:46
Alignment explanation
Indices: 33459847--33459970 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
33459837 GTGATAAGTG
* *
33459847 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
33459893 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
33459938 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
33459971 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:33466978 original size:23 final size:23
Alignment explanation
Indices: 33466948--33466994 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
33466938 AGGTTTGGTG
33466948 TTGCGGTTTTGAGTATGAAAGGC
1 TTGCGGTTTTGAGTATGAAAGGC
33466971 TTGCGGTTTTGAGTATGAAAGGC
1 TTGCGGTTTTGAGTATGAAAGGC
33466994 T
1 T
33466995 ATGTAGTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.34, T:0.36
Consensus pattern (23 bp):
TTGCGGTTTTGAGTATGAAAGGC
Found at i:33467472 original size:37 final size:37
Alignment explanation
Indices: 33467431--33467606 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
33467421 TTTGAGTACT
33467431 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
33467468 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
33467505 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
33467542 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
33467579 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
33467607 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:33467678 original size:45 final size:46
Alignment explanation
Indices: 33467569--33467692 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
33467559 GTGATAAGTG
* *
33467569 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
33467615 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
33467660 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
33467693 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:33475147 original size:54 final size:54
Alignment explanation
Indices: 33475083--33475254 Score: 272
Period size: 54 Copynumber: 3.2 Consensus size: 54
33475073 GTGTATAACA
* * *
33475083 GTCATTTTACCCTATGGGGGTATTTCAATCATTCTACCTTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
* *
33475137 GTCATTTTACCATATGGAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGG-GGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
*
33475192 GTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
*
33475246 ATCATTTTA
1 GTCATTTTA
33475255 TTGACCTCTC
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 59 0.55
55 48 0.45
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
Found at i:33475224 original size:82 final size:81
Alignment explanation
Indices: 33475083--33475251 Score: 248
Period size: 82 Copynumber: 2.1 Consensus size: 81
33475073 GTGTATAACA
* * * *
33475083 GTCATTTTACCCTATGGGGGTATTTCAATCATTCTACCTTATGGGGATATTTCGGTCATTTTACC
1 GTCATTCTACCCTATGGGGGTATTTCAATCATTCTACCCTATGGGGATATTTCGATCATTCTACC
33475148 ATATGGAGGGTATTTCG
66 ATATGG-GGGTATTTCG
** *
33475165 GTCATTCTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTCTACC
1 GTCATTCTACCCTATGGGGGTATTTCAATCATTCTACCCTATGGGGATATTTCGATCATTCTACC
*
33475230 CTATGGGGGTATTTCG
66 ATATGGGGGTATTTCG
*
33475246 ATCATT
1 GTCATT
33475252 TTATTGACCT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 15 0.19
82 63 0.81
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (81 bp):
GTCATTCTACCCTATGGGGGTATTTCAATCATTCTACCCTATGGGGATATTTCGATCATTCTACC
ATATGGGGGTATTTCG
Found at i:33475245 original size:27 final size:27
Alignment explanation
Indices: 33475084--33475251 Score: 246
Period size: 27 Copynumber: 6.2 Consensus size: 27
33475074 TGTATAACAG
* *
33475084 TCATTTTACCCTATGGGGGTATTTCAA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * *
33475111 TCATTCTACCTTATGGGGATATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGA
* * *
33475138 TCATTTTACCATATGGAGGGTATTTCGG
1 TCATTCTACCCTATGG-GGGTATTTCGA
*
33475166 TCATTCTACCCTATGGGGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGA
33475193 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
33475220 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
33475247 TCATT
1 TCATT
33475252 TTATTGACCT
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (27 bp):
TCATTCTACCCTATGGGGGTATTTCGA
Found at i:33475942 original size:24 final size:25
Alignment explanation
Indices: 33475906--33475952 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
33475896 CCTAAATCCT
*
33475906 AATATTCTCTCCTCAGA-TCTCTCCA
1 AATATCCTCTCCTCA-ATTCTCTCCA
33475931 AATATCCT-TCCTCAATTCTCTC
1 AATATCCTCTCCTCAATTCTCTC
33475953 TATGACCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 12 0.60
25 7 0.35
ACGTcount: A:0.23, C:0.36, G:0.02, T:0.38
Consensus pattern (25 bp):
AATATCCTCTCCTCAATTCTCTCCA
Found at i:33478854 original size:50 final size:50
Alignment explanation
Indices: 33478789--33478930 Score: 203
Period size: 50 Copynumber: 2.8 Consensus size: 50
33478779 ATTTGGGTAA
*
33478789 AGAGGTCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCACCGAGATG
** * * *
33478839 AGAGGTCCCCCGTAAGACCATATCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCACCGAGATG
** *
33478889 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCA
33478931 GTACAAAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCACCGAGATG
Found at i:33494865 original size:19 final size:21
Alignment explanation
Indices: 33494822--33494869 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
33494812 CAAAAATCTT
*
33494822 TTTATAAAAATATATACAATT
1 TTTATAAAAATATATACAATA
33494843 TTTATAAAAATATAT-CAA-A
1 TTTATAAAAATATATACAATA
33494862 TTTA-AAAA
1 TTTATAAAA
33494870 GCAAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 4 0.15
20 3 0.12
21 15 0.58
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTATAAAAATATATACAATA
Found at i:33498634 original size:34 final size:34
Alignment explanation
Indices: 33498591--33498664 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
33498581 ACTAAGAACG
*
33498591 AAATAAAAACGTAAGAATAATTTTTGTCTCCCTA
1 AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
33498625 AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
1 AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
33498659 AAATAA
1 AAATAA
33498665 GTGAAAACTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (34 bp):
AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
Found at i:33499777 original size:18 final size:18
Alignment explanation
Indices: 33499754--33499796 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
33499744 ACCCAATCTA
**
33499754 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
33499772 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
33499790 AACCCAA
1 AACCCAA
33499797 CCCAATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:33499916 original size:18 final size:18
Alignment explanation
Indices: 33499893--33499950 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
33499883 GTAGTGATTC
* *
33499893 AATTCGGGTAATCCGGTT
1 AATTCGGTTAATCCGGGT
* *
33499911 AATTCGATTAATTCGGGT
1 AATTCGGTTAATCCGGGT
* *
33499929 AATTCGGTTAATTCAGGT
1 AATTCGGTTAATCCGGGT
33499947 AATT
1 AATT
33499951 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (18 bp):
AATTCGGTTAATCCGGGT
Found at i:33499921 original size:9 final size:9
Alignment explanation
Indices: 33499893--33499942 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
33499883 GTAGTGATTC
*
33499893 AATTCGGGT
1 AATTCGGTT
*
33499902 AATCCGGTT
1 AATTCGGTT
*
33499911 AATTCGATT
1 AATTCGGTT
*
33499920 AATTCGGGT
1 AATTCGGTT
33499929 AATTCGGTT
1 AATTCGGTT
33499938 AATTC
1 AATTC
33499943 AGGTAATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (9 bp):
AATTCGGTT
Found at i:33499923 original size:27 final size:28
Alignment explanation
Indices: 33499888--33499942 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
33499878 ATTATGTAGT
33499888 GATTCAATTCGGGTAATCCGGTTAATTC
1 GATTCAATTCGGGTAATCCGGTTAATTC
*
33499916 GATT-AATTCGGGTAATTCGGTTAATTC
1 GATTCAATTCGGGTAATCCGGTTAATTC
33499943 AGGTAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (28 bp):
GATTCAATTCGGGTAATCCGGTTAATTC
Found at i:33499949 original size:27 final size:27
Alignment explanation
Indices: 33499893--33499950 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
33499883 GTAGTGATTC
*
33499893 AATTCGGGTAATCCGGTTAATTCGATT
1 AATTCGGGTAATCCGGTTAATTCGAGT
*
33499920 AATTCGGGTAATTCGGTTAATTC-AGGT
1 AATTCGGGTAATCCGGTTAATTCGA-GT
33499947 AATT
1 AATT
33499951 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (27 bp):
AATTCGGGTAATCCGGTTAATTCGAGT
Found at i:33500312 original size:16 final size:16
Alignment explanation
Indices: 33500291--33500326 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
33500281 ACAAATTGAA
33500291 ATTTTA-TTTTCATTTT
1 ATTTTATTTTTCA-TTT
33500307 ATTTTATTTTTCATTT
1 ATTTTATTTTTCATTT
33500323 ATTT
1 ATTT
33500327 GAAAATCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTTATTTTTCATTT
Found at i:33502167 original size:10 final size:10
Alignment explanation
Indices: 33502152--33502287 Score: 54
Period size: 10 Copynumber: 13.3 Consensus size: 10
33502142 GAAGGAGAGG
33502152 GAAAGAAGAA
1 GAAAGAAGAA
33502162 GAAAGAAAGAAA
1 GAAAG-AAG-AA
*
33502174 GAAAGAAAAA
1 GAAAGAAGAA
*
33502184 GAAGGAACGGAAA
1 GAAAGAA--G-AA
*
33502197 GGAAAGGA-AA
1 -GAAAGAAGAA
*
33502207 G-GAGAAGAA
1 GAAAGAAGAA
*
33502216 GAAAAAAGAAA
1 GAAAGAAG-AA
33502227 GAAA-AAGAA
1 GAAAGAAGAA
33502236 GGAAAGAA-AA
1 -GAAAGAAGAA
*
33502246 GGAAAGGAGAA
1 -GAAAGAAGAA
33502257 GAGAAG-AGAA
1 GA-AAGAAGAA
33502267 -AAA-AA-AA
1 GAAAGAAGAA
*
33502274 AACAAGAAGAA
1 GA-AAGAAGAA
33502285 GAA
1 GAA
33502288 TAGGGGAGGA
Statistics
Matches: 97, Mismatches: 11, Indels: 36
0.67 0.08 0.25
Matches are distributed among these distances:
7 2 0.02
8 7 0.07
9 9 0.09
10 44 0.45
11 21 0.22
12 7 0.07
13 2 0.02
14 5 0.05
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:33502169 original size:4 final size:4
Alignment explanation
Indices: 33502152--33502244 Score: 58
Period size: 4 Copynumber: 24.0 Consensus size: 4
33502142 GAAGGAGAGG
* *
33502152 GAAA G-AA G-AA GAAA GAAA GAAA GAAA G-AA -AAA GAAG GAACG GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA
*
33502197 GGAAA GGAAA GGAGAA G-AA GAAA -AAA GAAA G-AA -AAA GAAG GAAA
1 -GAAA -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
33502241 GAAA
1 GAAA
33502245 AGGAAAGGAG
Statistics
Matches: 75, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
3 20 0.27
4 36 0.48
5 17 0.23
6 2 0.03
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:33502232 original size:49 final size:49
Alignment explanation
Indices: 33502151--33502282 Score: 173
Period size: 49 Copynumber: 2.7 Consensus size: 49
33502141 AGAAGGAGAG
* * *
33502151 GGAAAGAAGAAGAAAGAAAGAAAGAAAGAAAAAGAAGGAACGGAAAGGAAA
1 GGAAAGGAGAAG-AAGAAA-AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA
33502202 GGAAAGGAGAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA
1 GGAAAGGAGAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA
*
33502251 GGAGAA-GAGAAG-AGAAAAAA-AAA-AACAAGAAG
1 GGA-AAGGAGAAGAAGAAAAAAGAAAGAAAAAGAAG
33502283 AAGAATAGGG
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
46 8 0.11
47 3 0.04
48 8 0.11
49 38 0.50
50 8 0.11
51 11 0.14
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (49 bp):
GGAAAGGAGAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA
Found at i:33502248 original size:44 final size:49
Alignment explanation
Indices: 33502151--33502275 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 49
33502141 AGAAGGAGAG
* *
33502151 GGAAAGAAGAAGAAAGAAAGAAAGAAAGAAAAAGAAGGAACGGAAAGGAAA
1 GGAAAGGAGAAG-AAGAAAGAAAGAAAG-AAAAGAAGGAACGGAAAGAAAA
33502202 GGAAAGGAGAAGAAGAAA-AAAGAAAG-AAA-AA-GAA-GGAAAGAAAA
1 GGAAAGGAGAAGAAGAAAGAAAGAAAGAAAAGAAGGAACGGAAAGAAAA
*
33502246 GGAAAGGAGAAG-AGAAGAGAAA-AAAAAAAA
1 GGAAAGGAGAAGAAGAA-AGAAAGAAAGAAAA
33502276 CAAGAAGAAG
Statistics
Matches: 68, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
43 4 0.06
44 25 0.37
45 9 0.13
46 2 0.03
47 3 0.04
49 8 0.12
50 6 0.09
51 11 0.16
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (49 bp):
GGAAAGGAGAAGAAGAAAGAAAGAAAGAAAAGAAGGAACGGAAAGAAAA
Found at i:33502437 original size:27 final size:28
Alignment explanation
Indices: 33502405--33502458 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
33502395 TTTTATTATG
* *
33502405 TTATTTAGCAT-ATAAATTTTATGAAAT
1 TTATTTAGCATGACAAAATTTATGAAAT
33502432 TTATTTAGCATGACAAAATTTATGAAA
1 TTATTTAGCATGACAAAATTTATGAAA
33502459 AAATTCATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (28 bp):
TTATTTAGCATGACAAAATTTATGAAAT
Found at i:33503449 original size:285 final size:284
Alignment explanation
Indices: 33502702--33504198 Score: 2241
Period size: 285 Copynumber: 5.3 Consensus size: 284
33502692 AAAGTAAAAA
*
33502702 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATACGGAGAAAAAAATACGAAGAAAT
* * ** *
33502767 GGCCAAGGTAAGAGTGTTTTATAATTTTTTTTTAAAATTCAGAAATAATTAATACAAATATTTGA
66 GG-CGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
33502832 AACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
130 AACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
33502897 ATAAAATTCGGGAAAATAATACGAGCAAATGGCGGGAATAAGGGGTTTTTTTACACTAAATTAAT
195 ATAAAATTCGGGAAAATAATACGAGCAAATGGCGGGAATAA-GGGTTTTTTTACACTAAATTAA-
*
33502962 TTTAAAAACACACTAAATTAATAAATT
258 TTAAAAAACACACTAAATTAATAAATT
*
33502989 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATACGGAGAAAAAAATACGAAGAAAT
* *
33503054 GGCTGAGGTAAGAGTGTTTTACAAAA-TATTTAAAAATTCAGAAATAATTAATATAAATATTTGA
66 GGC-GAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
*
33503118 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
130 AACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
* *
33503183 ATAAATTTCGGGAAAATAATACGAGCAAATGGCGGGAACAAGGGTTTTTTTACACTAAATTAATT
195 ATAAAATTCGGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTTACACTAAATTAATT
33503248 AAAAAACACACTAAATTAATAAATT
260 AAAAAACACACTAAATTAATAAATT
* *
33503273 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAGTACGGACAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATACGGAGAAAAAAATACGAAGAAAT
*
33503338 GGTCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATGTGA
66 GG-CGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
33503403 AACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
130 AACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
* *
33503468 ATAAAATTCGGGAAAATAATATGAGCAAATGGCGGGAATAA-GG----ATT----T---TT--TT
195 ATAAAATTCGGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTTACACTAAATTAATT
33503519 -------ACACTAAATTAATAAATT
260 AAAAAACACACTAAATTAATAAATT
* * ** ** *
33503537 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAA-AATA-CGGAGA-AAAAATACGAAGAA
1 TATAAAATTAGAAATTATGAAATTTTTT-AA--AGTAATAAAATACG-GAGAAAAA-AATACGAA
* * *
33503599 -A--TGGCTAAGGTAAGAGTGTTTTACAAATTTTTTTAAAAATTCAGAAATAATTAATATAAATA
61 GAAATGGC-GAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
*
33503661 TTTGAAACAAAATGTAC-AGAAATAATATAAAATAATAAAATGC-AAAA-AAAATTATTTTATTG
125 TTTGAAACAAAATGTACTA-AAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTG
33503723 AAAGTAATAAAATTCGGGAAAATAATACGAGCAAATGGCGGGAATAAGGG-TTTTTTACACTAAA
189 AAAGTAATAAAATTCGGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTTACACTAAA
*
33503787 TTAATTTAAAAACACACTAAATTAATAAATT
254 TTAATTAAAAAACACACTAAATTAATAAATT
33503818 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATACGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATACGGAGAAAAAAATACGAAGAAAT
** * *
33503883 GGCGAGGTAAGAGTGTTTTACAAAAAATTTAAAAAATTCAGAAATAATTAATAAAAATATTTGAA
66 GGCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGAA
* * *
33503948 ACAAAATATACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTAGTTTATTGAAAGTAA
131 ACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTAA
*
33504013 TAAAATTTGGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTTACACTAAATTAATTT
196 TAAAATTCGGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTTACACTAAATTAA-TT
*
33504078 AAAAAACACACTAAATTTATAAATT
260 AAAAAACACACTAAATTAATAAATT
* * *
33504103 TATAAAATTAGAAATTATGAAAATTTTTAAAGTAAT-AAATGCAGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATACGGAGAAAAAAATACGAAGAAAT
* *
33504167 GGCCGAGGTAAGAGTGTTTTACTAACTTTTTT
66 GG-CGAGGTAAGAGTGTTTTACAAAATTTTTT
33504199 TTCAGCATGC
Statistics
Matches: 1103, Mismatches: 65, Indels: 86
0.88 0.05 0.07
Matches are distributed among these distances:
261 61 0.06
262 8 0.01
263 95 0.09
264 46 0.04
265 11 0.01
266 9 0.01
267 4 0.00
269 1 0.00
271 2 0.00
272 2 0.00
273 2 0.00
274 2 0.00
276 1 0.00
278 4 0.00
279 10 0.01
280 11 0.01
281 135 0.12
282 8 0.01
283 63 0.06
284 160 0.15
285 244 0.22
286 139 0.13
287 85 0.08
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (284 bp):
TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATACGGAGAAAAAAATACGAAGAAAT
GGCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGAA
ACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTAA
TAAAATTCGGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTTACACTAAATTAATTA
AAAAACACACTAAATTAATAAATT
Found at i:33506445 original size:11 final size:11
Alignment explanation
Indices: 33506429--33506455 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
33506419 TTTATAACTT
33506429 AATTTGGATAC
1 AATTTGGATAC
33506440 AATTTGGATAC
1 AATTTGGATAC
33506451 AATTT
1 AATTT
33506456 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:33509514 original size:27 final size:27
Alignment explanation
Indices: 33509475--33509563 Score: 160
Period size: 27 Copynumber: 3.3 Consensus size: 27
33509465 AACACGACTA
*
33509475 GTGCCGCCAATGGGAATGGCACCATCG
1 GTGCCGCCCATGGGAATGGCACCATCG
*
33509502 GTGCCTCCCATGGGAATGGCACCATCG
1 GTGCCGCCCATGGGAATGGCACCATCG
33509529 GTGCCGCCCATGGGAATGGCACCATCG
1 GTGCCGCCCATGGGAATGGCACCATCG
33509556 GTGCCGCC
1 GTGCCGCC
33509564 AATCAGATAC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.18, C:0.34, G:0.33, T:0.16
Consensus pattern (27 bp):
GTGCCGCCCATGGGAATGGCACCATCG
Found at i:33510588 original size:42 final size:42
Alignment explanation
Indices: 33510537--33510908 Score: 464
Period size: 42 Copynumber: 8.9 Consensus size: 42
33510527 GTTTACAAAC
* *
33510537 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
33510579 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
33510621 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * *
33510663 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
33510705 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
33510747 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ****
33510789 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
** * * * ***
33510831 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATT-TTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
33510871 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
33510909 TTATACAAAA
Statistics
Matches: 296, Mismatches: 29, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
40 33 0.11
41 8 0.03
42 252 0.85
43 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:33510998 original size:14 final size:14
Alignment explanation
Indices: 33510975--33511008 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
33510965 GCCCTCCTGT
*
33510975 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
33510989 AGCAACATTTCAAA
1 AGCAACATTTCAAA
33511003 AGCAAC
1 AGCAAC
33511009 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:33511281 original size:21 final size:21
Alignment explanation
Indices: 33511234--33511289 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
33511224 TTGCTCTGCT
* * *
33511234 CTGCTTCTCTTGCTGCAGTCT
1 CTGCTTCCCTCGCTGCAGTCG
*
33511255 CCGCTTCCCTCGCTGCAGTCG
1 CTGCTTCCCTCGCTGCAGTCG
33511276 CTGCTTCCCTCGCT
1 CTGCTTCCCTCGCT
33511290 TCCGCCTCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.04, C:0.43, G:0.20, T:0.34
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGTCG
Found at i:33516775 original size:18 final size:18
Alignment explanation
Indices: 33516752--33516916 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
33516742 AATTGCAATG
33516752 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
33516770 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
33516788 GTAAGTTAAATGTAAG-T-T
1 GTAAGTT--ATGTAAGTTAT
*
33516806 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
33516825 GTAAG-T-TGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
33516843 GT-A-TTGTGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
33516857 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
33516875 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
33516891 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
33516908 GTAAGTTAT
1 GTAAGTTAT
33516917 TATGTATTGT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 14 0.12
17 8 0.07
18 61 0.53
19 15 0.13
20 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:33516800 original size:11 final size:9
Alignment explanation
Indices: 33516752--33516916 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
33516742 AATTGCAATG
33516752 GTAAGTTAT
1 GTAAGTTAT
33516761 GTAAGTTAT
1 GTAAGTTAT
33516770 GTAAGTTAAAT
1 GTAAGTT--AT
33516781 GT-A-TTAT
1 GTAAGTTAT
33516788 GTAAGTTAAAT
1 GTAAGTT--AT
33516799 GTAAG-T-T
1 GTAAGTTAT
33516806 GTAAGTTAT
1 GTAAGTTAT
*
33516815 -TATGTATTAT
1 GTAAG--TTAT
33516825 GTAAG-T-T
1 GTAAGTTAT
33516832 GTAAGTTAAAT
1 GTAAGTT--AT
*
33516843 GT-A-TTGT
1 GTAAGTTAT
33516850 GTAAG-T-T
1 GTAAGTTAT
33516857 GTAAGTTAAAT
1 GTAAGTT--AT
33516868 GT-A-TTAT
1 GTAAGTTAT
33516875 GTAAG-T-T
1 GTAAGTTAT
33516882 GTAAGTTAT
1 GTAAGTTAT
*
33516891 -TATGTATTAT
1 GTAAG--TTAT
33516901 GTAAG-T-T
1 GTAAGTTAT
33516908 GTAAGTTAT
1 GTAAGTTAT
33516917 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:33516831 original size:26 final size:26
Alignment explanation
Indices: 33516797--33517202 Score: 570
Period size: 26 Copynumber: 16.1 Consensus size: 26
33516787 TGTAAGTTAA
33516797 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
33516823 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
33516848 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
33516873 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
33516899 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
33516925 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
33516950 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
33516976 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
33517002 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
33517028 ATGTAAGTTGTAAGTTATTGTGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
33517054 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
33517079 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
33517097 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
33517122 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
33517148 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
33517175 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
33517201 AT
1 AT
33517203 TTAATAAAAT
Statistics
Matches: 343, Mismatches: 24, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
18 12 0.03
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 112 0.33
26 187 0.55
27 15 0.04
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Done.