Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 172 of 240
Found at i:53466362 original size:40 final size:40
Alignment explanation
Indices: 53466282--53466464 Score: 194
Period size: 40 Copynumber: 4.5 Consensus size: 40
53466272 ACCCAAGTAT
* * *
53466282 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAGTGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
53466321 CTTAGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
53466361 CTTCGGGAC-TAGCTCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
53466403 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
53466443 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
53466465 CATCCGAATA
Statistics
Matches: 119, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 26 0.22
40 59 0.50
41 1 0.01
42 17 0.14
43 15 0.13
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:53480210 original size:40 final size:40
Alignment explanation
Indices: 53480166--53480466 Score: 388
Period size: 39 Copynumber: 7.8 Consensus size: 40
53480156 AGCATGATTA
* * *
53480166 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* ** *
53480206 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
** *
53480246 CTCTTCGAAACTTAGCCCGGATACATCACTA-CACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
53480285 CTCCTCGGGACTTAGCTCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
53480325 CTCCTC-GGACTTAGCCC-GATATATTACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
53480363 CTCCTCGGGAC-TAGCCC-GATATATCACTAGCAC--ATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
53480399 CTCCTT--GGACTTAGCCCGGATATATCACTAGCACGAATG
1 CT-CTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
53480438 CTCTTC-GGACTTAGCCCGGATATATCACT
1 CTCTTCGGGACTTAGCCCGGATATATCACT
53480467 CTCAATTCTC
Statistics
Matches: 230, Mismatches: 23, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
35 4 0.02
36 11 0.05
37 18 0.08
38 50 0.22
39 76 0.33
40 71 0.31
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:53480428 original size:113 final size:116
Alignment explanation
Indices: 53480170--53480466 Score: 386
Period size: 113 Copynumber: 2.6 Consensus size: 116
53480160 TGATTACTCT
* * * * ** *
53480170 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTC-TTCGGACTTAGC-CCGATATATCAC
*
53480235 TAGCACGAATGCTCTTCGAAACTTAGCCCGGATACATCACTACACGAATGCTCC
64 TAGCACGAATGCTCCTCGAAACTTAGCCCGGATACATCACTACAC-AATGCTCC
* * *
53480289 TCGGGACTTAGCTCGGATATATCACTAGCACGAATGCTCCTCGGACTTAGCCCGATATATTACTA
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGATATATCACTA
** *
53480354 GCACGAATGCTCCTCGGGAC-TAGCCC-GATATATCACTAGCAC-ATGCTCC
66 GCACGAATGCTCCTCGAAACTTAGCCCGGATACATCACTA-CACAATGCTCC
*
53480403 T-TGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCC-GATATATCACT
53480467 CTCAATTCTC
Statistics
Matches: 158, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
113 48 0.30
114 18 0.11
115 11 0.07
116 9 0.06
117 29 0.18
118 8 0.05
119 35 0.22
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (116 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGATATATCACTA
GCACGAATGCTCCTCGAAACTTAGCCCGGATACATCACTACACAATGCTCC
Found at i:53481785 original size:37 final size:37
Alignment explanation
Indices: 53481726--53481864 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
53481716 AGCTCAGACG
* *
53481726 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
53481763 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
53481800 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
53481837 TAATCTCCAGACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
53481865 TAGAGCTCGG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:53482296 original size:49 final size:47
Alignment explanation
Indices: 53481981--53482529 Score: 807
Period size: 47 Copynumber: 11.6 Consensus size: 47
53481971 CCCTTCGGGA
* * * * * *
53481981 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53482028 CTTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53482075 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53482122 CTTATCACATATATACACTTTCACATTTATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
53482169 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53482216 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53482263 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53482312 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53482359 CTTATCACATATATATACACTTTCACATTCATCACATTGG-CATT-CGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
53482406 CTTATCACATATACACAC-TTCACATTCATCACATCGACCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53482452 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53482501 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
53482530 ATATATATAT
Statistics
Matches: 457, Mismatches: 36, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
44 17 0.04
45 12 0.03
46 10 0.02
47 277 0.61
48 13 0.03
49 128 0.28
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53482539 original size:23 final size:23
Alignment explanation
Indices: 53482509--53482552 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
53482499 GCCTTATCAC
53482509 ATATATATACACTTTCACATTAT
1 ATATATATACACTTTCACATTAT
53482532 ATATATATACACTTTCACATT
1 ATATATATACACTTTCACATT
53482553 CATCATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATATATACACTTTCACATTAT
Found at i:53482540 original size:72 final size:72
Alignment explanation
Indices: 53482460--53482601 Score: 275
Period size: 72 Copynumber: 2.0 Consensus size: 72
53482450 GCCTTATCAC
53482460 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
53482525 ACATTAT
66 ACATTAT
*
53482532 ATATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
53482597 ACATT
66 ACATT
53482602 CATCACATTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.37
Consensus pattern (72 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
ACATTAT
Found at i:53482549 original size:214 final size:218
Alignment explanation
Indices: 53482320--53482748 Score: 812
Period size: 214 Copynumber: 2.0 Consensus size: 218
53482310 GCCTTATCAC
53482320 ATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
*
53482385 ATTCATCACATTGG-CATTC-GCCTTATCACATATACACAC-TTCACATTCATCACATCGACCGT
66 ATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCACATCGACCAT
53482447 TAGGCCTTATCAC-ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
131 TAGGCCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
53482511 ATATATACACTTTCACATTATAT
196 ATATATACACTTTCACATTATAT
53482534 ATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
53482599 ATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCACATCGACCAT
66 ATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCACATCGACCAT
53482664 TAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
131 TAGGCCTTATCACA-ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
53482729 TATATATACACTTTCACATT
195 TATATATACACTTTCACATT
53482749 CATCACATCG
Statistics
Matches: 209, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
214 79 0.38
215 5 0.02
216 20 0.10
217 35 0.17
219 70 0.33
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (218 bp):
ATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
ATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCACATCGACCAT
TAGGCCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
ATATATACACTTTCACATTATAT
Found at i:53482560 original size:23 final size:23
Alignment explanation
Indices: 53482511--53482560 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
53482501 CTTATCACAT
*
53482511 ATATATACACTTTCACATTATAT
1 ATATATACACTTTCACATTATAC
53482534 ATATATACACTTTCACATTCAT-C
1 ATATATACACTTTCACATT-ATAC
53482557 ATAT
1 ATAT
53482561 CGGCCATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATATACACTTTCACATTATAC
Found at i:53482571 original size:121 final size:118
Alignment explanation
Indices: 53482414--53482648 Score: 380
Period size: 121 Copynumber: 2.0 Consensus size: 118
53482404 GCCTTATCAC
*
53482414 ATATACACACTTCACATTCATCACATCGACCGTTAGGCCTTATCACATATATATACACTTTCACA
1 ATATACACACTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATATACACTTTCACA
*
53482479 TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTATAT
66 TTCATCACATCGGCCATTAGGCCTTATCAC--ATATACACACTTTCACATTATAT
* * *
53482534 ATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 ATATACACAC-TTCACATTCATCACATCGACCATTAGGCCTTATCACATATATATACACTTTCAC
* *
53482599 ATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATT
65 ATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATT
53482649 CATCACATCG
Statistics
Matches: 107, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
119 18 0.17
120 9 0.08
121 80 0.75
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (118 bp):
ATATACACACTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATATACACTTTCACA
TTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTATAT
Found at i:53482586 original size:49 final size:49
Alignment explanation
Indices: 53482532--53482798 Score: 434
Period size: 49 Copynumber: 5.5 Consensus size: 49
53482522 TTCACATTAT
*
53482532 ATATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
53482581 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
53482630 --ATATACACACTTTCACATTCATCACATCGACCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
53482677 ATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 --ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
53482728 ATATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
53482777 --ATATATACACTTTCACATTCAT
1 ATATATATACACTTTCACATTCAT
53482799 TCAAATATAC
Statistics
Matches: 204, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
47 65 0.32
49 94 0.46
51 45 0.22
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:53482685 original size:310 final size:313
Alignment explanation
Indices: 53482224--53482798 Score: 1007
Period size: 310 Copynumber: 1.8 Consensus size: 313
53482214 GCCTTATCAC
53482224 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
* * *
53482289 ATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCAT
66 ATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCACATCGACCAT
*
53482354 TAGGCCTTATCAC-ATATATATACACTTTCACATTCATCACATTGG-CATT-CGCCTTATCAC-A
131 TAGGCCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACAA
*
53482415 TATACACAC-TTCACATTCATCACATCGACCGTTAGGCCTTATCACATATATATACACTTTCACA
196 TATACACACTTTCACATTCATCACATCGACCATTAGGCCTTATCAC--ATATATACACTTTCACA
53482479 TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTATAT
259 TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTATAT
*
53482534 ATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
53482599 ATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCACATCGACCAT
66 ATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCACATCGACCAT
*
53482664 TAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
131 TAGGCCTTATCACA-ATATATATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACA
*
53482729 TATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACA
195 -ATATACACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACA
53482794 TTCAT
259 TTCAT
53482799 TCAAATATAC
Statistics
Matches: 250, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
310 139 0.56
312 31 0.12
313 4 0.02
314 10 0.04
315 22 0.09
316 9 0.04
317 35 0.14
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (313 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
ATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCACATCGACCAT
TAGGCCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTACGCCTTATCACAA
TATACACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTATAT
Found at i:53482702 original size:147 final size:147
Alignment explanation
Indices: 53482530--53482798 Score: 493
Period size: 147 Copynumber: 1.8 Consensus size: 147
53482520 CTTTCACATT
*
53482530 ATATATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATACACTT
1 ATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
* * *
53482595 TCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCACATCGA
66 TCACATTCATCACATCGACCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATCGA
53482660 CCATTAGGCCTTATCAC
131 CCATTAGGCCTTATCAC
53482677 ATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
1 ATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
*
53482742 TCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCAT
66 TCACATTCATCACATCGACCATTAGGCCTTATCACATATACACACTTTCACATTCAT
53482799 TCAAATATAC
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
147 117 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (147 bp):
ATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
TCACATTCATCACATCGACCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATCGA
CCATTAGGCCTTATCAC
Found at i:53486766 original size:235 final size:233
Alignment explanation
Indices: 53486355--53486819 Score: 770
Period size: 235 Copynumber: 2.0 Consensus size: 233
53486345 TGAGTAAGTC
* *
53486355 ACAATCATTTACTTCTAAGAAATTAAATGTGACAGCTCTAACCCATATCAGTTGCTGGAATAAGG
1 ACAATCATTTACTTCTAAGAAATTAAATGTGACAACTCTAACCCATATAAGTTGCTGGAATAAGG
* * *
53486420 TTATGAGGGATTACCGGACATATCGGAACATTCAGATATACTTCAACATAACATAATCAAAACAT
66 TTACGAGGGATTACCGGACATATCGGAACATTCACATACACTTCAACATAACATAATCAAAACAT
*
53486485 ATAATAATCGTTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGGG
131 ATAATAATCATTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAA-GG
*
53486550 GTTGGGACTAAACTGAGCTCATACAAAATTTTTCAAAACT
195 GTTGGGACTAAACCGAGCTCATAC-AAATTTTTCAAAACT
*
53486590 ACAATCATTTACTTCTAAGAAATTAAATGTGACAACTCTAACCCATATAAGTTGCTGGAATAGGG
1 ACAATCATTTACTTCTAAGAAATTAAATGTGACAACTCTAACCCATATAAGTTGCTGGAATAAGG
* * *
53486655 TTACGATGGATTACTGGACATATCGGAACATTCACATACACTT-AAGCATAACATAGTCAAAACA
66 TTACGAGGGATTACCGGACATATCGGAACATTCACATACACTTCAA-CATAACATAATCAAAACA
* * *
53486719 TATAATAATCATTCACAATTTTCCGTTATATAGGTCTAGGAGACCTTAAACATGCTTTAGAAAGG
130 TATAATAATCATTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGG
53486784 GTTGGGACTAAACCGAGCTCATACAAATTTTTCAAA
195 GTTGGGACTAAACCGAGCTCATACAAATTTTTCAAA
53486820 GTTATAAAGG
Statistics
Matches: 215, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
233 12 0.06
234 27 0.13
235 176 0.82
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (233 bp):
ACAATCATTTACTTCTAAGAAATTAAATGTGACAACTCTAACCCATATAAGTTGCTGGAATAAGG
TTACGAGGGATTACCGGACATATCGGAACATTCACATACACTTCAACATAACATAATCAAAACAT
ATAATAATCATTCACAATTGTCCGTTATATAAGTCTAAGAGACCTTAAACATGCTTTAGAAAGGG
TTGGGACTAAACCGAGCTCATACAAATTTTTCAAAACT
Found at i:53488271 original size:44 final size:42
Alignment explanation
Indices: 53488123--53488289 Score: 120
Period size: 42 Copynumber: 3.9 Consensus size: 42
53488113 TGGAAAGCTC
* * * ** ** *
53488123 ATACAATGCTAATGTCCTAGATGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATAAAATAAA
** * * * *
53488165 ATATTATGCCACTGTCCCAGACAGGGTCTTACAGAAAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATAAAATAAA
* * * *
53488207 ATACGATGTCGATGACCCAGACATGATCTTACATATAAATAATA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATA-AAATAA-A
*
53488251 AGT-CGATGCCAATGTCCCAGACGTGGTCTTACATGAAAA
1 A-TACGATGCCAATGTCCCAGACATGGTCTTACAT-AAAA
53488290 CACATATCGG
Statistics
Matches: 95, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
42 57 0.60
43 5 0.05
44 31 0.33
45 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACATAAAATAAA
Found at i:53492007 original size:42 final size:43
Alignment explanation
Indices: 53491931--53492011 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 43
53491921 TAGAGGTTGT
* * *
53491931 CTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGG
1 CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAGGGG
53491974 CTTACACGAAATCAAATA-CGATGCCAATGTCCCAGACA
1 CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACA
53492012 CGATCTTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 19 0.54
43 16 0.46
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (43 bp):
CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAGGGG
Found at i:53492020 original size:42 final size:43
Alignment explanation
Indices: 53491930--53492022 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
53491920 TTAGAGGTTG
* * * * *
53491930 TCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGG
1 TCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACACGA
*
53491973 GCTTACACGAAATCAAATA-CGATGCCAATGTCCCAGACACGA
1 TCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACACGA
53492015 TCTTACAC
1 TCTTACAC
53492023 ATAAATCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
TCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACACGA
Found at i:53493367 original size:24 final size:24
Alignment explanation
Indices: 53493334--53493431 Score: 135
Period size: 24 Copynumber: 4.0 Consensus size: 24
53493324 AAGGCTGTCA
* *
53493334 GGAGAAGATTTAGGAGCTAATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
53493358 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
53493382 GGAGAGGATTTAGGATCTGATAAA
1 GGAGAGGATTTAGGAGCTGATAAG
53493406 GGAGAAGG-TTTAGGAGCTGATCAAG
1 GGAG-AGGATTTAGGAGCTGAT-AAG
53493431 G
1 G
53493432 AGTGGGAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
24 60 0.91
25 6 0.09
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:53495986 original size:22 final size:22
Alignment explanation
Indices: 53495958--53496008 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
53495948 ACTTGTTTTT
53495958 TTTCAAACGTTTGAAAAATGGA
1 TTTCAAACGTTTGAAAAATGGA
*
53495980 TTTCAAAGGTTTGAAAAATGGA
1 TTTCAAACGTTTGAAAAATGGA
53496002 TTTCAAA
1 TTTCAAA
53496009 AAGCCTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (22 bp):
TTTCAAACGTTTGAAAAATGGA
Found at i:53497711 original size:24 final size:25
Alignment explanation
Indices: 53497675--53497721 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
53497665 AGAGGATGGT
53497675 GTTAAGGACTATTGAGG-ATGAAGA
1 GTTAAGGACTATTGAGGAATGAAGA
* * *
53497699 GTTAATGATTATTGGGGAATGAA
1 GTTAAGGACTATTGAGGAATGAA
53497722 TAGATTACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.32, T:0.30
Consensus pattern (25 bp):
GTTAAGGACTATTGAGGAATGAAGA
Found at i:53501122 original size:24 final size:24
Alignment explanation
Indices: 53501095--53501192 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
53501085 AAGGCTGTCA
*
53501095 GGAGAAGATTTAGAAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
53501119 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
53501143 GGAGAGGATTTAGGAGCTGGTAAA
1 GGAGAAGATTTAGGAGCTGATAAG
53501167 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
53501192 G
1 G
53501193 AGCAGGAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
24 63 0.95
25 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:53503133 original size:39 final size:40
Alignment explanation
Indices: 53502889--53503151 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
53502879 TTGAATGCTG
* * * * * *
53502889 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * * *
53502929 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCTAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
53502969 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
53503009 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
53503049 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
53503089 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
53503128 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
53503152 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.18
40 155 0.78
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:53503171 original size:79 final size:80
Alignment explanation
Indices: 53502925--53503186 Score: 253
Period size: 80 Copynumber: 3.3 Consensus size: 80
53502915 GCTAAGTGAA
* * * * * * *
53502925 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCTAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** * *
53502989 CATTCGTGCGAGTTA-T
65 CATTCGAACGAG-GAGC
* * *
53503005 TATATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
** ** *
53503070 ATTCGTGCGAGTTGT
66 ATTCGAACGAGGAGC
* * * *
53503085 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
*
53503149 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
53503164 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
53503187 TACGTGATTT
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 95 0.61
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:53510915 original size:40 final size:40
Alignment explanation
Indices: 53510871--53511077 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
53510861 CTAAGATCCA
* * * *
53510871 AAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
53510911 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
53510951 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
* *
53510991 AAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCG
1 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
* * * * *
53511031 AAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCG
1 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
53511070 AAGGCATT
1 AAGGCATT
53511078 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 34 0.22
40 122 0.78
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
Found at i:53511097 original size:79 final size:80
Alignment explanation
Indices: 53510871--53511112 Score: 247
Period size: 80 Copynumber: 3.0 Consensus size: 80
53510861 CTAAGATCCA
* * * * * ** * *
53510871 AAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAA
1 AAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCTAAA
53510935 TCCGGGTTAAGTCCCG
65 TCCGGGTTAAGTCCCG
* * * ** ** *
53510951 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAAT
1 AAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAAT
*
53511016 CCGGGTTATGTCCCG
66 CCGGGTTAAGTCCCG
* * * *
53511031 AAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATAT
1 AAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAAT
*
53511095 CC-GGTTAAATCCCG
66 CCGGGTTAAGTCCCG
53511109 AAGG
1 AAGG
53511113 TACGTGATTT
Statistics
Matches: 141, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 80 0.57
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
AAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAAT
CCGGGTTAAGTCCCG
Found at i:53517345 original size:23 final size:23
Alignment explanation
Indices: 53517319--53517362 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
53517309 TGTTCTTTTG
53517319 TTTCTTT-TTCTAACTCATTTTCT
1 TTTCTTTCTTC-AACTCATTTTCT
*
53517342 TTTCTTTCTTCAACTTATTTT
1 TTTCTTTCTTCAACTCATTTT
53517363 TCAATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTCTTTCTTCAACTCATTTTCT
Found at i:53521532 original size:45 final size:44
Alignment explanation
Indices: 53521396--53521576 Score: 198
Period size: 45 Copynumber: 4.2 Consensus size: 44
53521386 AACATCTCAA
* *
53521396 ACGTGGTCTTACATGCT-ATCTC-ATATCGATGCCA-CTGTCCCAG
1 ACGTGGTCTTACACG-TAATCACAATATCGATGCCATC-GTCCCAG
*
53521439 ACAG-GGTCTTACACG-AATCA-AATA-CGATGCCAAT-GTCCTAG
1 AC-GTGGTCTTACACGTAATCACAATATCGATGCC-ATCGTCCCAG
* *
53521480 ACATGGTCTTACACGTAATCACATATATCGATGCCATCGTCCCAA
1 ACGTGGTCTTACACGTAATCACA-ATATCGATGCCATCGTCCCAG
*
53521525 ACGTGGTCTTACACGTAATCACATATATCGATGCCATTGTCCCAG
1 ACGTGGTCTTACACGTAATCACA-ATATCGATGCCATCGTCCCAG
53521570 ACGTGGT
1 ACGTGGT
53521577 TTTGCACGAG
Statistics
Matches: 118, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 26 0.22
42 12 0.10
43 13 0.11
44 6 0.05
45 61 0.52
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
ACGTGGTCTTACACGTAATCACAATATCGATGCCATCGTCCCAG
Found at i:53521595 original size:45 final size:45
Alignment explanation
Indices: 53521418--53521576 Score: 220
Period size: 45 Copynumber: 3.6 Consensus size: 45
53521408 ATGCTATCTC
*
53521418 ATATCGATGCCACTGTCCCAGACAG-GGTCTTACACG-AATCA-A-
1 ATATCGATGCCATTGTCCCAGAC-GTGGTCTTACACGTAATCACAT
* * *
53521460 ATA-CGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCCATTGTCCCAGACGTGGTCTTACACGTAATCACAT
* *
53521504 ATATCGATGCCATCGTCCCAAACGTGGTCTTACACGTAATCACAT
1 ATATCGATGCCATTGTCCCAGACGTGGTCTTACACGTAATCACAT
53521549 ATATCGATGCCATTGTCCCAGACGTGGT
1 ATATCGATGCCATTGTCCCAGACGTGGT
53521577 TTTGCACGAG
Statistics
Matches: 102, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
41 28 0.27
42 8 0.08
43 1 0.01
44 3 0.03
45 62 0.61
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (45 bp):
ATATCGATGCCATTGTCCCAGACGTGGTCTTACACGTAATCACAT
Found at i:53524028 original size:44 final size:47
Alignment explanation
Indices: 53523922--53524028 Score: 130
Period size: 49 Copynumber: 2.3 Consensus size: 47
53523912 CCATATTCTG
* * *
53523922 ATAGAAGTAGTGTAGTAAGGTTGAAACACCTAATTCTAATCAATATCAA
1 ATAGAAGAAGTGTAATAAGGTTGAAAAACCTAATTCTAA-CAATA-CAA
* *
53523971 ATAGAGGAAGTGTAATAAGGTTGAAAAACCTTATTCTAA-AATA-AA
1 ATAGAAGAAGTGTAATAAGGTTGAAAAACCTAATTCTAACAATACAA
53524016 ATA-AAGAAGTGTA
1 ATAGAAGAAGTGTA
53524029 GTTCTATATG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
44 9 0.17
45 5 0.10
47 4 0.08
49 34 0.65
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (47 bp):
ATAGAAGAAGTGTAATAAGGTTGAAAAACCTAATTCTAACAATACAA
Found at i:53526940 original size:16 final size:16
Alignment explanation
Indices: 53526921--53526954 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53526911 GAAATTTTGG
*
53526921 AAAAATAATAAAATTA
1 AAAAATAAAAAAATTA
*
53526937 AAAATTAAAAAAATTA
1 AAAAATAAAAAAATTA
53526953 AA
1 AA
53526955 TCAAAGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTA
Found at i:53533590 original size:25 final size:26
Alignment explanation
Indices: 53533546--53533596 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
53533536 GTTAGTATGA
53533546 ATGTAACACCCTTAAATTTCTTAACT
1 ATGTAACACCCTTAAATTTCTTAACT
*
53533572 ATGTAACATCC-TAAATTTCTTAACT
1 ATGTAACACCCTTAAATTTCTTAACT
53533597 TTCTTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (26 bp):
ATGTAACACCCTTAAATTTCTTAACT
Found at i:53536110 original size:24 final size:24
Alignment explanation
Indices: 53536078--53536129 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
53536068 AGGACCTAAG
53536078 TATGTATCTGCATCTAATTATGAA
1 TATGTATCTGCATCTAATTATGAA
*
53536102 TATGTATCTGTATCTAATTATGAA
1 TATGTATCTGCATCTAATTATGAA
53536126 TATG
1 TATG
53536130 ATTTTGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (24 bp):
TATGTATCTGCATCTAATTATGAA
Found at i:53538517 original size:20 final size:18
Alignment explanation
Indices: 53538507--53538561 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
53538497 TACAATTATA
*
53538507 TATATATTTTTATAATTT
1 TATATATTTTTAAAATTT
53538525 TATA-ATTTTTAAAATTT
1 TATATATTTTTAAAATTT
* *
53538542 TTTAAAATTTTTAAAATTT
1 TAT-ATATTTTTAAAATTT
53538561 T
1 T
53538562 GATTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 14 0.42
18 5 0.15
19 14 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATTTTTAAAATTT
Found at i:53538534 original size:9 final size:9
Alignment explanation
Indices: 53538482--53538561 Score: 65
Period size: 9 Copynumber: 8.8 Consensus size: 9
53538472 AACTTTTGAT
*
53538482 TAATTATTA
1 TAATTTTTA
53538491 TAA-TTTTA
1 TAATTTTTA
* *
53538499 CAATTATATA
1 TAATT-TTTA
53538509 TATATTTTTA
1 TA-ATTTTTA
53538519 TAA-TTTTA
1 TAATTTTTA
53538527 TAATTTTTA
1 TAATTTTTA
*
53538536 AAATTTTTTA
1 TAA-TTTTTA
*
53538546 AAATTTTTA
1 TAATTTTTA
*
53538555 AAATTTT
1 TAATTTT
53538562 GATTTTTTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
8 14 0.23
9 25 0.42
10 18 0.30
11 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (9 bp):
TAATTTTTA
Found at i:53538545 original size:10 final size:10
Alignment explanation
Indices: 53538530--53538561 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
53538520 AATTTTATAA
53538530 TTTTTAAAAT
1 TTTTTAAAAT
53538540 TTTTTAAAA-
1 TTTTTAAAAT
53538549 TTTTTAAAAT
1 TTTTTAAAAT
53538559 TTT
1 TTT
53538562 GATTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:53538550 original size:19 final size:19
Alignment explanation
Indices: 53538522--53538561 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
53538512 ATTTTTATAA
*
53538522 TTTTATAATTTTTAAAATT
1 TTTTAAAATTTTTAAAATT
53538541 TTTTAAAATTTTTAAAATT
1 TTTTAAAATTTTTAAAATT
53538560 TT
1 TT
53538562 GATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAAATTTTTAAAATT
Found at i:53541739 original size:27 final size:26
Alignment explanation
Indices: 53541702--53542057 Score: 365
Period size: 27 Copynumber: 13.3 Consensus size: 26
53541692 AGAGGTCAAT
* * * *
53541702 AAATGATCGAATTACTCCCACATGGTA
1 AAATGACCGAAATAC-CCCATAGGGTA
* * *
53541729 AAATGACCGAATTACCCTACAGGGTA
1 AAATGACCGAAATACCCCATAGGGTA
*
53541755 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* * *
53541782 AAATGACCAAAATATCCCTATAGGTTA
1 AAATGACCGAAATA-CCCCATAGGGTA
**
53541809 AAATGACTAAAATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
53541836 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* **
53541863 AAATAACTAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
53541890 AAATGACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
*
53541917 AAATGATCGAAATACTCCCATAGGGTA
1 AAATGACCGAAATAC-CCCATAGGGTA
*
53541944 AAATGACTG-AATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
53541970 AAATAACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
*
53541997 AAATGATCGAAATACCTCCATAGGGTA
1 AAATGACCGAAATACC-CCATAGGGTA
* **
53542024 AAATGACTGTTATACCCC-TAGGAGATA
1 AAATGACCGAAATACCCCATAGG-G-TA
53542051 AAATGAC
1 AAATGAC
53542058 TGTTATGGCC
Statistics
Matches: 286, Mismatches: 32, Indels: 22
0.84 0.09 0.06
Matches are distributed among these distances:
25 4 0.01
26 57 0.20
27 217 0.76
28 8 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (26 bp):
AAATGACCGAAATACCCCATAGGGTA
Found at i:53541849 original size:81 final size:81
Alignment explanation
Indices: 53541725--53542030 Score: 417
Period size: 81 Copynumber: 3.8 Consensus size: 81
53541715 ACTCCCACAT
* *
53541725 GGTAAAATGACCGAATTA-CCCTACAGGGTAAAATGA-CTGAAATACCCTCATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATC-GAAATACCCTCATAGGGTAAAATGA
*
53541788 CCAAAATATCCCTATAG
65 CCAAAATACCCCTATAG
* ** * *
53541805 GTTAAAATGACTAAAATACCCCCATAGGGTAAAATGA-CTGAAATACCCTCATAGGGTAAAATAA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATC-GAAATACCCTCATAGGGTAAAATGA
*
53541869 CTAAAATACCCCTATAG
65 CCAAAATACCCCTATAG
53541886 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACTCC-CATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATAC-CCTCATAGGGTAAAATGA
** *
53541950 -CTGAATACCCCCATAG
65 CCAAAATACCCCTATAG
*
53541966 GGTAAAATAACCGAAATACCCCTATAGGGTAAAATGATCGAAATA-CCTCCATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCT-CATAGGGTAAAATGA
53542030 C
65 C
53542031 TGTTATACCC
Statistics
Matches: 201, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
78 2 0.01
80 85 0.42
81 111 0.55
82 3 0.01
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (81 bp):
GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGAC
CAAAATACCCCTATAG
Found at i:53542299 original size:26 final size:26
Alignment explanation
Indices: 53542263--53542339 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
53542253 TTTGCCACAT
* *
53542263 ATACTGTTACTGGCAGCTTTGTTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* *
53542289 ATACTGATACTGGCAGCTCTGCTGTG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
53542315 ATGCT-ATTACTGGCAGCTTTGCTGC
1 ATACTGA-TACTGGCAGCTTTGCTGC
53542340 AATATTGGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.02
26 42 0.98
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:53542515 original size:28 final size:28
Alignment explanation
Indices: 53542445--53542567 Score: 133
Period size: 28 Copynumber: 4.4 Consensus size: 28
53542435 TATTGCACTG
* *
53542445 CACTATTACTGTATTGGGCTAAGGCCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
53542473 CACTGATT-CTATATTGGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* * * *
53542501 CACTGTTATTGTATTAGGCTAAGGTCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
** *
53542529 TGCTGTTATTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
53542557 CACTG-TACTGT
1 CACTGTTACTGT
53542568 CACTGAATAG
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
27 7 0.09
28 68 0.88
29 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:53545919 original size:40 final size:40
Alignment explanation
Indices: 53545864--53546131 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
53545854 GAGCATTGGA
*
53545864 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
53545904 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
53545944 ATATACCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
53545984 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
53546024 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
53546064 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
53546104 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
53546132 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:53552989 original size:3 final size:3
Alignment explanation
Indices: 53552983--53553011 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
53552973 AATTTTTTTC
53552983 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
53553012 TCCATGTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:53553156 original size:16 final size:16
Alignment explanation
Indices: 53553135--53553168 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
53553125 CATAATTTTT
53553135 ATATACATGTATATAC
1 ATATACATGTATATAC
*
53553151 ATATACATTTATATAC
1 ATATACATGTATATAC
53553167 AT
1 AT
53553169 TTTCCTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (16 bp):
ATATACATGTATATAC
Found at i:53553326 original size:24 final size:23
Alignment explanation
Indices: 53553283--53553354 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
53553273 TTCCTCTACT
*
53553283 TTTTTATATGTATACTTATATATA
1 TTTTTA-ATATATACTTATATATA
* *
53553307 TGTTTTAATATATACATATACATA
1 T-TTTTAATATATACTTATATATA
* *
53553331 TTTTCAA-ATTTACTTATATATA
1 TTTTTAATATATACTTATATATA
53553353 TT
1 TT
53553355 GTACTTATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 14 0.35
23 5 0.12
24 16 0.40
25 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (23 bp):
TTTTTAATATATACTTATATATA
Found at i:53557613 original size:14 final size:14
Alignment explanation
Indices: 53557594--53557633 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
53557584 TCATATGCTC
53557594 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
*
53557608 AAGAAAAGAAA-AGA
1 AAGAAAA-AAAGAAA
53557622 AAGAAAAAAAGA
1 AAGAAAAAAAGA
53557634 GAGCATGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:53557621 original size:16 final size:17
Alignment explanation
Indices: 53557600--53557633 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
53557590 GCTCAAGAAA
*
53557600 AAAAGAAA-AAGAAAAG
1 AAAAGAAAGAAAAAAAG
53557616 AAAAGAAAGAAAAAAAG
1 AAAAGAAAGAAAAAAAG
53557633 A
1 A
53557634 GAGCATGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAAAAAG
Found at i:53558311 original size:27 final size:26
Alignment explanation
Indices: 53558251--53558311 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
53558241 TCGAAATTCA
*
53558251 TAATTTAATTATAAAATAATTAATTT
1 TAATTAAATTATAAAATAATTAATTT
* *
53558277 GAACTTAAATTATTAAAA-ATTTGAATTT
1 TAA-TTAAATTA-TAAAATAATT-AATTT
53558305 TAATTAA
1 TAATTAA
53558312 TTTTATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 2 0.07
27 14 0.50
28 12 0.43
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (26 bp):
TAATTAAATTATAAAATAATTAATTT
Found at i:53562224 original size:13 final size:13
Alignment explanation
Indices: 53562208--53562233 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53562198 GAAAAAAAAA
53562208 CATGAAAATTATT
1 CATGAAAATTATT
53562221 CATGAAAATTATT
1 CATGAAAATTATT
53562234 TTGGCCCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
CATGAAAATTATT
Found at i:53564567 original size:68 final size:69
Alignment explanation
Indices: 53564458--53564640 Score: 208
Period size: 69 Copynumber: 2.7 Consensus size: 69
53564448 ATAAAAATCG
* ** * * *
53564458 TATTAAGGCTCGCAGGATAAAAACCATAGCC-TCGAACATAGTTAGTGAAAGCAAAGC-CCTAGT
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTC-AACATAGTTAGCGAAAGCAAAGCTCCCAGC
53564521 TGTCA
65 TGTCA
** * *
53564526 TATTAAGGCTCACAGGATAAAAGTCGCAGCCTTCAACATAGTTAGCGAGAGCTAAGCTCCCAGCT
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGCGAAAGCAAAGCTCCCAGCT
53564591 GTCA
66 GTCA
** * * *
53564595 TATTAAGGCTCTTAGGATAAAAACCGCAACATCCAACATAGTTAGC
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGC
53564641 CAAAATTGAA
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
68 46 0.48
69 50 0.52
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (69 bp):
TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGCGAAAGCAAAGCTCCCAGCT
GTCA
Found at i:53564873 original size:57 final size:59
Alignment explanation
Indices: 53564653--53564874 Score: 229
Period size: 58 Copynumber: 3.8 Consensus size: 59
53564643 AAATTGAACT
* * * *
53564653 CCCAGCTACGTTATCTTTCAAAAGTTTCTCAAGTATAAAAC-AGCTCGTGGATTCACATC
1 CCCAGCT-GGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * * * *
53564712 CTCAGCTGGTTATCCTTCAAAATTTTCTTAAGTATAAAACT-GCTCGTGGATCTACATC
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * * * * **
53564770 CCTAGCTAGTTATCTTTCAAAATTCTCTTAAGTATGAAA-TAGCTCGCGGATTTTTATC
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * *
53564828 CCCAGTTGGTTATCTTT-GAAATTTTCTCAAGTATAAAGCTA-CTCGCG
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCG
53564875 AATTAATATT
Statistics
Matches: 135, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
57 23 0.17
58 106 0.79
59 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (59 bp):
CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
Found at i:53569054 original size:37 final size:37
Alignment explanation
Indices: 53568995--53569140 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
53568985 AGCTCAGAAG
* * *
53568995 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
53569032 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
53569069 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
53569106 TAATCTCCACACATAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
53569141 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:53569414 original size:47 final size:47
Alignment explanation
Indices: 53569352--53569691 Score: 437
Period size: 47 Copynumber: 7.1 Consensus size: 47
53569342 ACACGTTTCG
* * *
53569352 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
53569399 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
53569446 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
53569493 CATTGGACATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
* **
53569544 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
* * * *
53569595 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
53569642 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
53569689 CAT
1 CAT
53569692 AAAATCCTAA
Statistics
Matches: 262, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
47 172 0.66
49 4 0.02
51 84 0.32
53 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:53574985 original size:43 final size:43
Alignment explanation
Indices: 53574924--53575010 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
53574914 ATTCTCACAT
53574924 TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
1 TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
*
53574967 TGATATGGAAATCAAAGAAGAAAGCAGAGAGGTCGAATGGAGG
1 TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
53575010 T
1 T
53575011 TTACAAGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.08, G:0.33, T:0.15
Consensus pattern (43 bp):
TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
Found at i:53577077 original size:17 final size:17
Alignment explanation
Indices: 53577055--53577088 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53577045 GAAAAATTGG
*
53577055 AGTATTTGTAATCTTTC
1 AGTATTTCTAATCTTTC
53577072 AGTATTTCTAATCTTTC
1 AGTATTTCTAATCTTTC
53577089 TACAGGAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (17 bp):
AGTATTTCTAATCTTTC
Found at i:53577732 original size:73 final size:73
Alignment explanation
Indices: 53577613--53577798 Score: 345
Period size: 73 Copynumber: 2.5 Consensus size: 73
53577603 TATTATTATT
*
53577613 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
53577678 ATTTTAAG
66 ATTTTAAG
* *
53577686 TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
53577751 ATTTTAAG
66 ATTTTAAG
53577759 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
53577799 GTCAAGTTGT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 108 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:53580144 original size:21 final size:21
Alignment explanation
Indices: 53580098--53580144 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
53580088 GTTTTTATTT
*
53580098 TAAAAAATAATTCATAATAAA
1 TAAAAAATAATTAATAATAAA
* *
53580119 CAAAAAATAAATTAAT-ATTAA
1 TAAAAAAT-AATTAATAATAAA
53580140 TAAAA
1 TAAAA
53580145 TGTTATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAAAATAATTAATAATAAA
Found at i:53586447 original size:15 final size:15
Alignment explanation
Indices: 53586424--53586454 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53586414 ATATTTTTCT
53586424 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
53586439 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
53586454 T
1 T
53586455 TCTCAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:53586589 original size:23 final size:23
Alignment explanation
Indices: 53586563--53586616 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
53586553 ATTATTTTGA
** *
53586563 ATTTTTAAAATTTATAATGATAT
1 ATTTTTAAAATTTATAAAAAAAT
*
53586586 A-TTTTATAATTTTATAAAAAAAT
1 ATTTTTA-AAATTTATAAAAAAAT
53586609 ATTTTTAA
1 ATTTTTAA
53586617 GCCTTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 5 0.20
23 15 0.60
24 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTTTAAAATTTATAAAAAAAT
Found at i:53586794 original size:7 final size:7
Alignment explanation
Indices: 53586784--53586813 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
53586774 TATTATAATA
53586784 TTCTATT
1 TTCTATT
53586791 TTCTATT
1 TTCTATT
53586798 TTCTATT
1 TTCTATT
53586805 TTCTATT
1 TTCTATT
53586812 TT
1 TT
53586814 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
TTCTATT
Found at i:53587298 original size:13 final size:13
Alignment explanation
Indices: 53587280--53587313 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
53587270 TATCTCTAAA
53587280 AATTTTCTAAAAG
1 AATTTTCTAAAAG
* *
53587293 AATTTTTTTAAAG
1 AATTTTCTAAAAG
53587306 AATTTTCT
1 AATTTTCT
53587314 CTCTACAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (13 bp):
AATTTTCTAAAAG
Found at i:53591229 original size:24 final size:25
Alignment explanation
Indices: 53591125--53591232 Score: 111
Period size: 25 Copynumber: 4.4 Consensus size: 25
53591115 ATGTATGCTA
53591125 ATACGAGCTATG-AATCGG-AATGCTC
1 ATACGAGCTA-GAAATCGGTAA-GCTC
53591150 -TCACGAGCTAGAAATCGGTAAGCTC
1 AT-ACGAGCTAGAAATCGGTAAGCTC
* *
53591175 ATACTAGCT-GAGAATTGGTAAGCTC
1 ATACGAGCTAGA-AATCGGTAAGCTC
53591200 -TCACGAG-TAGAAATCGGTAAGCTC
1 AT-ACGAGCTAGAAATCGGTAAGCTC
53591224 ATACGAGCT
1 ATACGAGCT
53591233 GTGGTGTGTC
Statistics
Matches: 70, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
24 23 0.33
25 44 0.63
26 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (25 bp):
ATACGAGCTAGAAATCGGTAAGCTC
Found at i:53593817 original size:16 final size:16
Alignment explanation
Indices: 53593796--53593828 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
53593786 TATTAAGAAA
53593796 ATGTTACAAAAATGTG
1 ATGTTACAAAAATGTG
53593812 ATGTTACAAAAATGTG
1 ATGTTACAAAAATGTG
53593828 A
1 A
53593829 AAATAGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
ATGTTACAAAAATGTG
Found at i:53602065 original size:26 final size:26
Alignment explanation
Indices: 53602036--53602099 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
53602026 TTACCCTCAG
*
53602036 TAAAATTTTGATGATTTTACCCCTAA
1 TAAAATTTTGAAGATTTTACCCCTAA
* *
53602062 TAAAATTTTTAAAGATTTTACCCCTAG
1 TAAAA-TTTTGAAGATTTTACCCCTAA
*
53602089 TGAAATTTTGA
1 TAAAATTTTGA
53602100 GAAAATATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (26 bp):
TAAAATTTTGAAGATTTTACCCCTAA
Found at i:53602260 original size:12 final size:12
Alignment explanation
Indices: 53602243--53602267 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53602233 AGCAAATGGA
53602243 TCATTTCCATTT
1 TCATTTCCATTT
53602255 TCATTTCCATTT
1 TCATTTCCATTT
53602267 T
1 T
53602268 TGGAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:53604663 original size:25 final size:26
Alignment explanation
Indices: 53604624--53604672 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
53604614 TGTAAATAAG
53604624 AATAATATCTCTAGA-AATTTTCTAA
1 AATAATATCTCTAGAGAATTTTCTAA
* *
53604649 AATAATTTCTTTAGAGAATTTTCT
1 AATAATATCTCTAGAGAATTTTCT
53604673 CTCTACAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (26 bp):
AATAATATCTCTAGAGAATTTTCTAA
Found at i:53606035 original size:13 final size:14
Alignment explanation
Indices: 53606012--53606043 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
53606002 TCCGTCATAG
53606012 AAATACATCCAACA
1 AAATACATCCAACA
53606026 AAAT-CATCCAACA
1 AAATACATCCAACA
53606039 AAATA
1 AAATA
53606044 AAAACATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.59, C:0.25, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATACATCCAACA
Found at i:53608078 original size:20 final size:20
Alignment explanation
Indices: 53608053--53608090 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
53608043 CCATTTTCTA
*
53608053 GCTCTGCTGCATGTACCCTT
1 GCTCTGCTGCAAGTACCCTT
53608073 GCTCTGCTGCAAGTACCC
1 GCTCTGCTGCAAGTACCC
53608091 CTAATCCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.37, G:0.21, T:0.29
Consensus pattern (20 bp):
GCTCTGCTGCAAGTACCCTT
Found at i:53609323 original size:41 final size:41
Alignment explanation
Indices: 53609278--53609398 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 41
53609268 AGTGTTATTC
* * * *
53609278 GGGGTACCGTAGTACAAACAGGGGTATATATGTGCAATTTA
1 GGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTTA
* * *
53609319 GGGGTACCAAAGTACAAATAGGGCCATGCATGTGCAATTTA
1 GGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTTA
*
53609360 GGGGTA-CGAAAGTACAAATAGGGGCACGTATGTGCAATT
1 GGGGTACCG-AAGTACAAATAGGGGCATGTATGTGCAATT
53609399 CAAATATAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 67 0.99
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (41 bp):
GGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTTA
Found at i:53609383 original size:20 final size:20
Alignment explanation
Indices: 53609317--53609383 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
53609307 ATGTGCAATT
*
53609317 TAGGGGTACCAAAGTACAAA
1 TAGGGGTACGAAAGTACAAA
** * * * * *
53609337 TAGGGCCATGCATGTGCAATT
1 TAGGGGTACGAAAGTACAA-A
53609358 TAGGGGTACGAAAGTACAAA
1 TAGGGGTACGAAAGTACAAA
53609378 TAGGGG
1 TAGGGG
53609384 CACGTATGTG
Statistics
Matches: 31, Mismatches: 15, Indels: 2
0.65 0.31 0.04
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.19
Consensus pattern (20 bp):
TAGGGGTACGAAAGTACAAA
Found at i:53611920 original size:10 final size:9
Alignment explanation
Indices: 53611875--53611916 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
53611865 CAACAAATAT
53611875 ACATACATA
1 ACATACATA
53611884 ACATACATA
1 ACATACATA
53611893 ACAGTACATA
1 ACA-TACATA
53611903 ACATAACAT-
1 ACAT-ACATA
53611912 ACATA
1 ACATA
53611917 AACAGTAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 1 0.03
9 17 0.55
10 13 0.42
ACGTcount: A:0.55, C:0.21, G:0.02, T:0.21
Consensus pattern (9 bp):
ACATACATA
Found at i:53611920 original size:15 final size:15
Alignment explanation
Indices: 53611884--53611917 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
53611874 TACATACATA
53611884 ACAT-ACATAACAGT
1 ACATAACATAACAGT
53611898 ACATAACATAACA-T
1 ACATAACATAACAGT
53611912 ACATAA
1 ACATAA
53611918 ACAGTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (15 bp):
ACATAACATAACAGT
Found at i:53615857 original size:37 final size:37
Alignment explanation
Indices: 53615816--53615892 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
53615806 GATAATCACT
*
53615816 TTAAAATT-AAATTAATA-AAATACTATTAATATAAATA
1 TTAAAATTCAAATTAATATAAAT-CTATTAAAAT-AATA
*
53615853 TT-AAATTCAATTTAATATTAAATCTATTAAAATAATA
1 TTAAAATTCAAATTAATA-TAAATCTATTAAAATAATA
53615890 TTA
1 TTA
53615893 TTTTTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
36 5 0.15
37 16 0.47
38 9 0.26
39 4 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (37 bp):
TTAAAATTCAAATTAATATAAATCTATTAAAATAATA
Found at i:53617462 original size:15 final size:15
Alignment explanation
Indices: 53617442--53617473 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
53617432 TATTCATGTA
*
53617442 AAATATGAAAGACAG
1 AAATATAAAAGACAG
53617457 AAATATAAAAGACAG
1 AAATATAAAAGACAG
53617472 AA
1 AA
53617474 TAATGACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.16, T:0.12
Consensus pattern (15 bp):
AAATATAAAAGACAG
Found at i:53618017 original size:29 final size:29
Alignment explanation
Indices: 53617861--53618021 Score: 93
Period size: 29 Copynumber: 5.6 Consensus size: 29
53617851 TTGTTCCTAT
* *
53617861 ATATGTGAGCCTTTGTGGCGTAACTTGTTG
1 ATATGTGAGCCCTTGTGGCGGAACTTG-TG
* * * *
53617891 -TATGTGAGTCTTTGTGGCAGAA--TATG
1 ATATGTGAGCCCTTGTGGCGGAACTTGTG
** * *
53617917 ATATACGAGCCCTTGTGGTAGTAACTTG-G
1 ATATGTGAGCCCTTGTGG-CGGAACTTGTG
* *
53617946 TATATGTGAG-CCTTGGTGGCCGATCTAT-T-
1 -ATATGTGAGCCCTT-GTGGCGGAACT-TGTG
*
53617975 ATATGTAAGCCCTTGTGGCGGGAACTTGTG
1 ATATGTGAGCCCTTGTGGC-GGAACTTGTG
*
53618005 ATATGTGAGCCTTTGTG
1 ATATGTGAGCCCTTGTG
53618022 ACTATTCTTT
Statistics
Matches: 96, Mismatches: 23, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
26 2 0.02
27 14 0.15
28 16 0.17
29 36 0.38
30 28 0.29
ACGTcount: A:0.20, C:0.14, G:0.30, T:0.36
Consensus pattern (29 bp):
ATATGTGAGCCCTTGTGGCGGAACTTGTG
Found at i:53618035 original size:58 final size:58
Alignment explanation
Indices: 53617924--53618043 Score: 136
Period size: 58 Copynumber: 2.1 Consensus size: 58
53617914 ATGATATACG
* * *
53617924 AGCCCTTGTGGTAGTAACTTGGTATATGTGAGCCTTGGTGGCCGATCTATTATATGTA
1 AGCCCTTGTGGCAGGAACTTGGTATATGTGAGCCTTGGTGGACGATCTATTATATGTA
* * * * *
53617982 AGCCCTTGTGGCGGGAACTT-GTGATATGTGAGCCTTTGT-GACTATTCTTTTATATGTG
1 AGCCCTTGTGGCAGGAACTTGGT-ATATGTGAGCCTTGGTGGACGA-TCTATTATATGTA
53618040 AGCC
1 AGCC
53618044 ATCGTGGAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
57 5 0.10
58 47 0.90
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (58 bp):
AGCCCTTGTGGCAGGAACTTGGTATATGTGAGCCTTGGTGGACGATCTATTATATGTA
Found at i:53621323 original size:21 final size:21
Alignment explanation
Indices: 53621299--53621340 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
53621289 TTTTTTCATT
53621299 AATTGATTAACTA-AATGTTAA
1 AATTGATTAACTATAAT-TTAA
**
53621320 AATTTCTTAACTATAATTTAA
1 AATTGATTAACTATAATTTAA
53621341 TACGACTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (21 bp):
AATTGATTAACTATAATTTAA
Found at i:53622783 original size:27 final size:27
Alignment explanation
Indices: 53622753--53622930 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
53622743 ATATTGAGCC
* *
53622753 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
53622780 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
53622807 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
53622835 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
53622862 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
53622889 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
53622916 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
53622931 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:53622892 original size:82 final size:81
Alignment explanation
Indices: 53622774--53622929 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
53622764 TGCTATATAA
* * *
53622774 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
53622839 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
53622856 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53622920 CCCTTAGTGC
65 CCCTTAGTGC
53622930 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:53629962 original size:17 final size:19
Alignment explanation
Indices: 53629940--53629985 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
53629930 TAAAAACTAA
53629940 GATAAATAAA-A-TAGAAC
1 GATAAATAAATATTAGAAC
53629957 GATAAATCAAATATTAGAAC
1 GATAAAT-AAATATTAGAAC
*
53629977 AATAAATAA
1 GATAAATAA
53629986 GGGGAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 3 0.12
19 3 0.12
20 12 0.48
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (19 bp):
GATAAATAAATATTAGAAC
Found at i:53634549 original size:30 final size:30
Alignment explanation
Indices: 53634515--53634575 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
53634505 TTAAATTAAG
53634515 ATTAAT-TTTCTAAATTTTTTATTAATT-TTA
1 ATTAATATTT-TAAATTTTTTA-TAATTCTTA
*
53634545 ATTAATATTTTAGATTTTTTATAATTCTTA
1 ATTAATATTTTAAATTTTTTATAATTCTTA
53634575 A
1 A
53634576 CAATTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 5 0.18
30 20 0.71
31 3 0.11
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (30 bp):
ATTAATATTTTAAATTTTTTATAATTCTTA
Found at i:53644070 original size:6 final size:6
Alignment explanation
Indices: 53644052--53644088 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
53644042 AAAGGCAAAG
*
53644052 ATAAAA ATGAAAA ATAAAA ATAAAA CTAAAA ATAAAA
1 ATAAAA AT-AAAA ATAAAA ATAAAA ATAAAA ATAAAA
53644089 GTTTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:53648377 original size:21 final size:21
Alignment explanation
Indices: 53648353--53648394 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
53648343 TTCTTTAGTG
53648353 TTACTATTTGACTTTGGATCA
1 TTACTATTTGACTTTGGATCA
*
53648374 TTACTGTTTGACTTTGGATCA
1 TTACTATTTGACTTTGGATCA
53648395 ATGCGTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (21 bp):
TTACTATTTGACTTTGGATCA
Found at i:53650519 original size:21 final size:21
Alignment explanation
Indices: 53650493--53650543 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
53650483 AGCGGTGGCG
*
53650493 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
53650514 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
53650535 GTGAGATTA
1 GTGAGATTA
53650544 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:53664381 original size:16 final size:17
Alignment explanation
Indices: 53664355--53664392 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
53664345 ATATCTTTCT
53664355 TTAATAATAAATTAAAA
1 TTAATAATAAATTAAAA
*
53664372 TTAA-AATAAATTAAGA
1 TTAATAATAAATTAAAA
53664388 TTAAT
1 TTAAT
53664393 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
TTAATAATAAATTAAAA
Found at i:53664443 original size:30 final size:31
Alignment explanation
Indices: 53664387--53664469 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
53664377 ATAAATTAAG
*
53664387 ATTAATTTTTAAAATTTGTTATTAATT-TTA
1 ATTAATTTTTAAAATTTCTTATTAATTCTTA
*
53664417 ATTAATATTTTAAAGTTTCTTA-TAATTCTTA
1 ATTAAT-TTTTAAAATTTCTTATTAATTCTTA
*
53664448 A-TAATTTTAAATAACTTTCTTA
1 ATTAATTTTTAA-AA-TTTCTTA
53664470 AAAATAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
29 5 0.11
30 16 0.36
31 24 0.53
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.55
Consensus pattern (31 bp):
ATTAATTTTTAAAATTTCTTATTAATTCTTA
Found at i:53675512 original size:15 final size:16
Alignment explanation
Indices: 53675494--53675526 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53675484 TAATTTTTTT
53675494 TTATAAA-ATTATATA
1 TTATAAACATTATATA
*
53675509 TTATAAACTTTATATA
1 TTATAAACATTATATA
53675525 TT
1 TT
53675527 TGGTGCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAAACATTATATA
Found at i:53675846 original size:10 final size:10
Alignment explanation
Indices: 53675833--53675859 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
53675823 TCACTTCTTT
53675833 TGCTCTCAAA
1 TGCTCTCAAA
53675843 TGCTCTCAAA
1 TGCTCTCAAA
53675853 TGCTCTC
1 TGCTCTC
53675860 CTAAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (10 bp):
TGCTCTCAAA
Found at i:53681626 original size:25 final size:24
Alignment explanation
Indices: 53681595--53681691 Score: 92
Period size: 25 Copynumber: 3.9 Consensus size: 24
53681585 CAACTTGTAT
53681595 GAGCTTACCGATTTACAGCTCGTGA
1 GAGCTTACCGATTT-CAGCTCGTGA
*
53681620 GAGCTTACCGATTCTCAGCTTGT-A
1 GAGCTTACCGATT-TCAGCTCGTGA
* *
53681644 TGAGCTTACCGTTATTT-AGCTCGGGG
1 -GAGCTTACCG--ATTTCAGCTCGTGA
53681670 GAGCTTACCG-TTTACAGCTCGT
1 GAGCTTACCGATTT-CAGCTCGT
53681692 ATGAGCATAC
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
22 3 0.05
24 7 0.12
25 45 0.75
26 2 0.03
27 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.32
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCTCGTGA
Found at i:53681665 original size:50 final size:48
Alignment explanation
Indices: 53681588--53681697 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 48
53681578 CATGCCACAA
*
53681588 CTTGTATGAGCTTACCGATTTACAGCTCGTGAGAGCTTACCGATTCT-CAG
1 CTTGTATGAGCTTACCGATTTA-AGCTCGGGAGAGCTTACCG-TT-TACAG
*
53681638 CTTGTATGAGCTTACCGTTATTT-AGCTCGGGGGAGCTTACCGTTTACAG
1 CTTGTATGAGCTTACCG--ATTTAAGCTCGGGAGAGCTTACCGTTTACAG
*
53681687 CTCGTATGAGC
1 CTTGTATGAGC
53681698 ATACACGTAC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
48 1 0.02
49 15 0.28
50 34 0.63
52 4 0.07
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.33
Consensus pattern (48 bp):
CTTGTATGAGCTTACCGATTTAAGCTCGGGAGAGCTTACCGTTTACAG
Found at i:53682865 original size:12 final size:12
Alignment explanation
Indices: 53682848--53682877 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
53682838 CTCTAGTTTT
53682848 CACACGGCCTAG
1 CACACGGCCTAG
*
53682860 CACACGGCCTGG
1 CACACGGCCTAG
53682872 CACACG
1 CACACG
53682878 AGCGTGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.43, G:0.27, T:0.07
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:53685769 original size:6 final size:6
Alignment explanation
Indices: 53685746--53685790 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
53685736 TCAAGTAAAT
* *
53685746 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA T
53685791 GACTAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (6 bp):
TAAAAA
Found at i:53685776 original size:20 final size:20
Alignment explanation
Indices: 53685742--53685801 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
53685732 ATAATCAAGT
*
53685742 AAATTAAAA-ATTAAATTAA
1 AAATAAAAATATTAAATTAA
*
53685761 AAATAAAAATATTAAAATAA
1 AAATAAAAATATTAAATTAA
*
53685781 AAATAAAAATGACTAAATTAA
1 AAATAAAAAT-ATTAAATTAA
53685802 TGGAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.23
20 19 0.54
21 8 0.23
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATAAAAATATTAAATTAA
Found at i:53695451 original size:27 final size:28
Alignment explanation
Indices: 53695401--53695469 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53695391 AAATAAAAAA
*
53695401 TTACCAAAATGT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAAC-TTTTTTTAT
53695429 TTACCAAAATATATATAA-TTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
53695456 TTACCAAAATATAT
1 TTACCAAAATATAT
53695470 CAAAAAAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 23 0.59
28 11 0.28
29 5 0.13
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:53695567 original size:27 final size:27
Alignment explanation
Indices: 53695537--53695613 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
53695527 ACGCCAATGG
* *
53695537 CATTGGTGGCACCAAAGGTGCCAAAAC
1 CATTGGCGGCACCAATGGTGCCAAAAC
**
53695564 CATTGGCGGCACCAATGGTGCCAATGC
1 CATTGGCGGCACCAATGGTGCCAAAAC
53695591 CATTGGCGGCACCAATGGTGCCA
1 CATTGGCGGCACCAATGGTGCCA
53695614 TACTGATTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.17
Consensus pattern (27 bp):
CATTGGCGGCACCAATGGTGCCAAAAC
Found at i:53695622 original size:27 final size:26
Alignment explanation
Indices: 53695538--53695629 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 26
53695528 CGCCAATGGC
* * *
53695538 ATTGGTGGCACCAAAGGTGCCAAAAC-C
1 ATTGGCGGCACCAATGGTGCC--AACTG
53695565 ATTGGCGGCACCAATGGTGCCAA-TG
1 ATTGGCGGCACCAATGGTGCCAACTG
53695590 CCATTGGCGGCACCAATGGTGCCATACTG
1 --ATTGGCGGCACCAATGGTGCCA-ACTG
53695619 ATTGGCGGCAC
1 ATTGGCGGCAC
53695630 TATTCGTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
25 2 0.04
27 52 0.91
28 1 0.02
29 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.18
Consensus pattern (26 bp):
ATTGGCGGCACCAATGGTGCCAACTG
Found at i:53695794 original size:19 final size:21
Alignment explanation
Indices: 53695756--53695794 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
53695746 AATAATTGAT
*
53695756 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
53695777 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
53695795 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:53695873 original size:3 final size:3
Alignment explanation
Indices: 53695867--53695910 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
53695857 ATTATTATTA
53695867 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
53695911 AGTATTAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:53695937 original size:19 final size:21
Alignment explanation
Indices: 53695913--53695957 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
53695903 TTGTTGTTAG
*
53695913 TATTAAGATGTTA-TTAAT-A
1 TATTAAGATGTAACTTAATAA
53695932 TATTAAGATGTAACTTAATAA
1 TATTAAGATGTAACTTAATAA
53695953 TATTA
1 TATTA
53695958 TTGTTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 5 0.22
21 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (21 bp):
TATTAAGATGTAACTTAATAA
Found at i:53699049 original size:33 final size:33
Alignment explanation
Indices: 53699006--53699073 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
53698996 ATTGTATCCA
53699006 AATTGCATCCAAATTGTATAC-AGATTAAGTTAT
1 AATTGCATCCAAATTGT-TACTAGATTAAGTTAT
* *
53699039 AATTGTATCCAAATTGTTTCTAGATTAAGTTAT
1 AATTGCATCCAAATTGTTACTAGATTAAGTTAT
53699072 AA
1 AA
53699074 AATACTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (33 bp):
AATTGCATCCAAATTGTTACTAGATTAAGTTAT
Found at i:53702101 original size:30 final size:31
Alignment explanation
Indices: 53702033--53702103 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
53702023 AAAAAAATTA
53702033 CTTT-CTTTT-TTCTTTTTTTTCCTTCCTTC
1 CTTTCCTTTTCTTCTTTTTTTTCCTTCCTTC
* *
53702062 C-CTCTTTTTCTTCTTTTTTTTCTCTT-C-TC
1 CTTTCCTTTTCTTCTTTTTTTTC-CTTCCTTC
53702091 CTTTCCTTTTCTT
1 CTTTCCTTTTCTT
53702104 TCCTTCTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
28 1 0.03
29 8 0.24
30 22 0.65
31 3 0.09
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (31 bp):
CTTTCCTTTTCTTCTTTTTTTTCCTTCCTTC
Found at i:53702153 original size:4 final size:4
Alignment explanation
Indices: 53702098--53702224 Score: 77
Period size: 4 Copynumber: 31.0 Consensus size: 4
53702088 CTCCTTTCCT
* *
53702098 TTTC TTTC CTTC TTTC CTTC TTT- TTTC TTCTCC TTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC
* * *
53702144 -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC
*
53702191 TTTC TTTC TTTCC TCTCC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC
53702225 CCTCTCCTTC
Statistics
Matches: 98, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
3 13 0.13
4 62 0.63
5 16 0.16
6 7 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:53702166 original size:79 final size:77
Alignment explanation
Indices: 53702064--53702212 Score: 239
Period size: 79 Copynumber: 1.9 Consensus size: 77
53702054 CTTCCTTCCC
*
53702064 TCTTTTTCTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCCTTCTTT-TTTCTTC
1 TCTTTTTCTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTT--TTCTTTCTTTCCTC
53702128 TCCTTTCCTTTTCT
64 TCCTTTCCTTTTCT
53702142 TCTTCTTTCTT-TCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTC
1 TCTT-TTTCTTCT-TTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTC
53702206 TCCTTTC
64 TCCTTTC
53702213 TTTCTTTCTT
Statistics
Matches: 67, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
77 6 0.09
78 18 0.27
79 43 0.64
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (77 bp):
TCTTTTTCTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTC
CTTTCCTTTTCT
Found at i:53702178 original size:40 final size:40
Alignment explanation
Indices: 53702064--53702212 Score: 172
Period size: 40 Copynumber: 3.8 Consensus size: 40
53702054 CTTCCTTCCC
53702064 TCTT-TTTC-TTCTTTTTTTTCTCTTCTCCTTTCCTTTTC-
1 TCTTCTTTCTTTC-TTTTTTTCTCTTCTCCTTTCCTTTTCT
*
53702102 T-TTCCTTCTTTCCTTCTTTTT-TCTTCTCCTTTCCTTTTCT
1 TCTTCTTTCTTT-CTT-TTTTTCTCTTCTCCTTTCCTTTTCT
53702142 TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
1 TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTC-T
*
53702183 TCCTTC-TT-TTTCTTTCTTTC-C-TCTCCTTTC
1 T-CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTC
53702213 TTTCTTTCTT
Statistics
Matches: 99, Mismatches: 3, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
37 2 0.02
38 13 0.13
39 28 0.28
40 39 0.39
41 13 0.13
42 4 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (40 bp):
TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCT
Found at i:53702191 original size:18 final size:18
Alignment explanation
Indices: 53702044--53702225 Score: 89
Period size: 18 Copynumber: 10.1 Consensus size: 18
53702034 TTTCTTTTTT
* *
53702044 CTTTTTTTTCCTTCCTTCC
1 CTTTTCTTTCCTT-CTTTC
*
53702063 CTCTT-TTT-CTTCTTT-
1 CTTTTCTTTCCTTCTTTC
* *
53702078 TTTTTCTCTT-CTCCTTTC
1 CTTTTCT-TTCCTTCTTTC
53702096 CTTTTCTTTCCTTCTTTC
1 CTTTTCTTTCCTTCTTTC
* *
53702114 CTTCTTTTTTCTTCTCCTTTC
1 CTT-TTCTTTC--CTTCTTTC
*
53702135 CTTTTCTTCTTCTTTCTTT-
1 CTTTTC-T-TTCCTTCTTTC
53702154 CTTTT-TTTCTCTTCTCCTTTC
1 CTTTTCTTTC-C-T-T-CTTTC
53702175 CTTTTCTTTCCTTCTTT-
1 CTTTTCTTTCCTTCTTTC
*
53702192 TTCTTTCTTTCC-TC--TC
1 CT-TTTCTTTCCTTCTTTC
*
53702208 C-TTTCTTTCTTTCTTTC
1 CTTTTCTTTCCTTCTTTC
53702225 C
1 C
53702226 CTCTCCTTCT
Statistics
Matches: 127, Mismatches: 16, Indels: 42
0.69 0.09 0.23
Matches are distributed among these distances:
14 8 0.06
15 6 0.05
16 7 0.06
17 20 0.16
18 33 0.26
19 17 0.13
20 12 0.09
21 17 0.13
22 7 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTCTTTCCTTCTTTC
Found at i:53702235 original size:18 final size:18
Alignment explanation
Indices: 53702149--53702235 Score: 57
Period size: 22 Copynumber: 4.4 Consensus size: 18
53702139 TCTTCTTCTT
* *
53702149 TCTTTCTTTTTTTCTCTTC
1 TCTTTCTTTCTTTC-CCTC
*
53702168 TCCTTTCCTTTTCTTTCCTTC
1 T-CTTT-C-TTTCTTTCCCTC
*
53702189 TTTTTCTTTCTTTCCTCTCC
1 TCTTTCTTTCTTTCC-CT-C
53702209 TTTCTTTCTTTCTTTCCCTC
1 --TCTTTCTTTCTTTCCCTC
*
53702229 TCCTTCT
1 TCTTTCT
53702236 GCCCCCCACC
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
18 15 0.27
19 3 0.05
20 9 0.16
21 8 0.14
22 21 0.38
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TCTTTCTTTCTTTCCCTC
Found at i:53702403 original size:29 final size:28
Alignment explanation
Indices: 53702368--53702425 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
53702358 GGTTTTTTTG
53702368 ATATATTTTAGTAAATAAAAAAAAATTAT
1 ATATATTTTAGTAAAT-AAAAAAAATTAT
*
53702397 ATATATTTTGGTAAATAAAAAAAATTAT
1 ATATATTTTAGTAAATAAAAAAAATTAT
53702425 A
1 A
53702426 ACATTTTGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (28 bp):
ATATATTTTAGTAAATAAAAAAAATTAT
Found at i:53702431 original size:27 final size:29
Alignment explanation
Indices: 53702372--53702437 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
53702362 TTTTTGATAT
* *
53702372 ATTTTAGTAAATAAAAAAAAATTATATAT
1 ATTTTGGTAAATAAAAAAAAATTATATAC
53702401 ATTTTGGTAAAT-AAAAAAAATTATA-AC
1 ATTTTGGTAAATAAAAAAAAATTATATAC
53702428 ATTTTGGTAA
1 ATTTTGGTAA
53702438 TTTTTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 11 0.31
28 13 0.37
29 11 0.31
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (29 bp):
ATTTTGGTAAATAAAAAAAAATTATATAC
Found at i:53705900 original size:23 final size:22
Alignment explanation
Indices: 53705857--53705914 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
53705847 AAAGGGTATC
* *
53705857 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
53705878 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
53705901 TGCATATCATATCT
1 TACAAATCATATCT
53705915 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:53707571 original size:17 final size:17
Alignment explanation
Indices: 53707551--53707586 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
53707541 AAAAAAGAAG
*
53707551 AAGAAGAAGATGAGGAA
1 AAGAAGAAGAAGAGGAA
*
53707568 AAGAAGGAGAAGAGGAA
1 AAGAAGAAGAAGAGGAA
53707585 AA
1 AA
53707587 ATGAATACGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.03
Consensus pattern (17 bp):
AAGAAGAAGAAGAGGAA
Found at i:53708230 original size:23 final size:24
Alignment explanation
Indices: 53708191--53708236 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
53708181 AAAGAAAGAA
*
53708191 ACATTTGTATTTCTCAATTCTCAC
1 ACATTTGTATTTCTCAATACTCAC
53708215 ACATTTGT-TTTCTCAATACTCA
1 ACATTTGTATTTCTCAATACTCA
53708237 TATGTTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (24 bp):
ACATTTGTATTTCTCAATACTCAC
Found at i:53709503 original size:26 final size:25
Alignment explanation
Indices: 53709456--53709504 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
53709446 ACATGCATAT
**
53709456 TATTAAAAAATAGTCATTGCATGCA
1 TATTAAAAAATAGTCACAGCATGCA
*
53709481 TATTCAAAAATAGTCAACAGCATG
1 TATTAAAAAATAGTC-ACAGCATG
53709505 TGACCATCCC
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:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (25 bp):
TATTAAAAAATAGTCACAGCATGCA
Found at i:53709682 original size:76 final size:77
Alignment explanation
Indices: 53709475--53709801 Score: 444
Period size: 76 Copynumber: 4.2 Consensus size: 77
53709465 ATAGTCATTG
* * * * * **
53709475 CATGCATATTCAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAATCATACACACACACCT
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACAGACAAAT
* *
53709540 AAAAAATAGTCACTG
66 TAAAAA-A--CACTA
* * * *
53709555 CATGCATATTAAAAAATAGTCAATAGCATATAACCATCCCCACCAACAATCAT-CAACAGACAAA
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATAC-ACAGACAAA
53709619 TTAAAAAACACTA
65 TTAAAAAACACTA
53709632 CATGCATATTAAAAAATAGTCAA-AACATGTAACCAACCCCACCAACAATCAT-CAACAGACAAA
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATAC-ACAGACAAA
53709695 TTAAAAAACACTA
65 TTAAAAAACACTA
* *
53709708 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACATAGACATAT
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACAGACAAAT
53709773 TAAAAAAACACTA
66 T-AAAAAACACTA
53709786 CATGCATATTAAAAAA
1 CATGCATATTAAAAAA
53709802 CATTCACTAA
Statistics
Matches: 229, Mismatches: 14, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
76 73 0.32
77 65 0.28
78 28 0.12
79 2 0.01
80 61 0.27
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (77 bp):
CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACAGACAAAT
TAAAAAACACTA
Found at i:53709757 original size:153 final size:157
Alignment explanation
Indices: 53709475--53709801 Score: 450
Period size: 153 Copynumber: 2.1 Consensus size: 157
53709465 ATAGTCATTG
* * * * **
53709475 CATGCATATTCAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAATCATACACACACACCT
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACACACAAAT
* * * *
53709540 AAAAAATAGTCACTGCATGCATATTAAAAAATAGTCAATAGCATATAACCATCCCCACCAACAAT
66 AAAAAATAG-CACTACATGCATATTAAAAAATAGTCAACAACATATAACCAACCCCACCAACAAT
53709605 CAT-CAACAGACAAATT-AAAAAACACTA
130 CATAC-ACAGACAAATTAAAAAAACACTA
*
53709632 CATGCATATTAAAAAATAGTCAA-AACATGTAACCAACCCCACCAACAATCAT-CAACAGACAAA
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATAC-ACACACAAA
* *
53709695 TTAAAAA-A-CACTACATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAAT
65 TAAAAAATAGCACTACATGCATATTAAAAAATAGTCAACAACATATAACCAACCCCACCAACAAT
* *
53709758 CATACATAGACATATTAAAAAAACACTA
130 CATACACAGACAAATTAAAAAAACACTA
53709786 CATGCATATTAAAAAA
1 CATGCATATTAAAAAA
53709802 CATTCACTAA
Statistics
Matches: 152, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
153 62 0.41
154 28 0.18
155 2 0.01
156 38 0.25
157 22 0.14
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (157 bp):
CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACACACAAAT
AAAAAATAGCACTACATGCATATTAAAAAATAGTCAACAACATATAACCAACCCCACCAACAATC
ATACACAGACAAATTAAAAAAACACTA
Found at i:53711846 original size:41 final size:41
Alignment explanation
Indices: 53711801--53711984 Score: 300
Period size: 41 Copynumber: 4.5 Consensus size: 41
53711791 GGCTATGTGC
53711801 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
*
53711842 CTAGCAGGCTTAATACC-AGTGAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGA-TGAAATATTTCAGACTTTACGT
*
53711883 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
*
53711924 CTAGCAGGCTTAATGCCTG-TGAAATATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCC-GATGAAATATTTCAGACTTTACGT
*
53711965 CTAGCAGGCTTAATGTCGAT
1 CTAGCAGGCTTAATGCCGAT
53711985 ATTCTGAATC
Statistics
Matches: 134, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
40 2 0.01
41 131 0.98
42 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
Found at i:53712010 original size:123 final size:120
Alignment explanation
Indices: 53711801--53712028 Score: 275
Period size: 123 Copynumber: 1.9 Consensus size: 120
53711791 GGCTATGTGC
53711801 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATACCAGTGAAA
1 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAAT---AGTGAAA
* * * *
53711866 TATTTCAGACTTTACGTCTAGCAGGCTTA-ATGCCGGTGAAATATTTCAGACTTTACGT
63 TATTTCAGACTTCAAGCCTAGCAGGC-TACATGCCGATGAAATATTTCAGACTTTACGT
* *
53711924 CTAGCAGGCTTAATGCCTG-TGAAATATTTCAGACTTTATGTCTAGCAGGCTTAAT-GTCGATAT
1 CTAGCAGGCTTAATGCC-GATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATAGT-GAAAT
*
53711987 -TCTGAATCAGTCTTCAAGCCTAGCAGGCTACATGCCGATGAA
64 AT-T---TCAGACTTCAAGCCTAGCAGGCTACATGCCGATGAA
53712029 TCATTTTAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
119 3 0.03
120 5 0.05
122 2 0.02
123 80 0.88
124 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (120 bp):
CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATAGTGAAATAT
TTCAGACTTCAAGCCTAGCAGGCTACATGCCGATGAAATATTTCAGACTTTACGT
Found at i:53712022 original size:82 final size:82
Alignment explanation
Indices: 53711801--53712015 Score: 254
Period size: 82 Copynumber: 2.6 Consensus size: 82
53711791 GGCTATGTGC
* * * * *
53711801 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATACCAGTGAAA
1 CTAGCAGGCTTAATGCCGATGAAATATATCAGACTTCAAGCCTAGCAGGCTTAATGCCAGTGAAA
53711866 TATTTCAGACTTTACGT
66 TATTTCAGACTTTACGT
* * * * * *
53711883 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATGCCTGTGAAA
1 CTAGCAGGCTTAATGCCGATGAAATATATCAGACTTCAAGCCTAGCAGGCTTAATGCCAGTGAAA
*
53711948 TATTTCAGACTTTATGT
66 TATTTCAGACTTTACGT
* * * *
53711965 CTAGCAGGCTTAATGTCGAT--ATTCTGAATCAGTCTTCAAGCCTAGCAGGCT
1 CTAGCAGGCTTAATGCCGATGAAATAT--ATCAGACTTCAAGCCTAGCAGGCT
53712016 ACATGCCGAT
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 3 0.03
82 115 0.97
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (82 bp):
CTAGCAGGCTTAATGCCGATGAAATATATCAGACTTCAAGCCTAGCAGGCTTAATGCCAGTGAAA
TATTTCAGACTTTACGT
Found at i:53713454 original size:493 final size:493
Alignment explanation
Indices: 53712529--53713518 Score: 1946
Period size: 493 Copynumber: 2.0 Consensus size: 493
53712519 TGACATATGA
53712529 ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
1 ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
53712594 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
66 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
53712659 GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
131 GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
53712724 ATTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTATT
196 ATTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTATT
53712789 CCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAAG
261 CCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAAG
53712854 GTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTTT
326 GTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTTT
53712919 TTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGC-TTTTTTTT
391 TTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTTT
53712983 TGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
456 TGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
*
53713021 ATTTAGCCTATAAATAGGTTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
1 ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
53713086 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
66 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
*
53713151 GTTTTATCTCCATCTTTTATACTCTTCGCTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
131 GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
53713216 ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
196 A-TTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
53713281 TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
260 TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
53713346 GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
325 GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
53713411 TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTT
390 TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTT
53713476 TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
455 TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
53713515 ATTT
1 ATTT
53713519 TGAAGCGTTA
Statistics
Matches: 494, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
492 194 0.39
493 250 0.51
494 50 0.10
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (493 bp):
ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
ATTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTATT
CCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAAG
GTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTTT
TTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTTT
TGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
Found at i:53716514 original size:28 final size:27
Alignment explanation
Indices: 53716455--53716540 Score: 77
Period size: 28 Copynumber: 3.2 Consensus size: 27
53716445 ACATTAATAA
* *
53716455 TAAATAAAACCAAAATTGAAATAATGC
1 TAAATAAAACCAAAATCGAAATAATCC
*
53716482 TAAATCAAAATCAAAATCGAAATAA-CC
1 TAAAT-AAAACCAAAATCGAAATAATCC
* * * *
53716509 TAAA-ATAACCCTAAATCAAAATAACCC
1 TAAATA-AAACCAAAATCGAAATAATCC
53716536 TAAAT
1 TAAAT
53716541 CCAAAAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
25 1 0.02
26 14 0.29
27 16 0.33
28 17 0.35
ACGTcount: A:0.58, C:0.17, G:0.03, T:0.21
Consensus pattern (27 bp):
TAAATAAAACCAAAATCGAAATAATCC
Found at i:53716529 original size:16 final size:17
Alignment explanation
Indices: 53716510--53716546 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
53716500 GAAATAACCT
53716510 AAAATAACCCTAAAT-C
1 AAAATAACCCTAAATCC
53716526 AAAATAACCCTAAATCC
1 AAAATAACCCTAAATCC
53716543 AAAA
1 AAAA
53716547 AATAAGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAACCCTAAATCC
Found at i:53716972 original size:21 final size:21
Alignment explanation
Indices: 53716946--53716986 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
53716936 CAACGTGACA
53716946 AGTTAACTGGCCACAGCAGCT
1 AGTTAACTGGCCACAGCAGCT
* *
53716967 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACAGCAGC
53716987 GGTCCCGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (21 bp):
AGTTAACTGGCCACAGCAGCT
Done.