Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 626 of 770
Found at i:196339333 original size:78 final size:77
Alignment explanation
Indices: 196339168--196339403 Score: 312
Period size: 78 Copynumber: 3.0 Consensus size: 77
196339158 CTCGTTCAAA
* * * * * * *
196339168 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGG-CTT-AGCCGGATAT
* *
196339233 CACAACTCGCACAAT
63 CACAATTCGCACATT
196339248 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCAGGATATCA
1 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCC-GGATATCA
196339313 CAATTCGCACATT
65 CAATTCGCACATT
* * *
196339326 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATTTGCCTTCGGGCTTAGCCGGATATCA
1 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACAATTGCCTTCGGGCTTAGCCGGATATCA
196339390 CAATTCGCACATT
65 CAATTCGCACATT
196339403 C
1 C
196339404 ATACACATCT
Statistics
Matches: 141, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
77 24 0.17
78 72 0.51
79 35 0.25
80 10 0.07
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (77 bp):
CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCGGATATCAC
AATTCGCACATT
Found at i:196347279 original size:39 final size:39
Alignment explanation
Indices: 196347167--196347397 Score: 269
Period size: 39 Copynumber: 5.9 Consensus size: 39
196347157 TCGTTCAAAC
* * * * *
196347167 GCCTTCGGGACATAGCCCGGTTATGATAA-CCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCA-AATCTCGCACAATT
* *
196347207 GCCTTCGGGACTTAACCCGGATATCACAA-CTCGCACAATC
1 GCCTTCGGG-CTTAGCCCGGATATCA-AATCTCGCACAATT
*
196347247 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCAAATCTCGCACAATT
196347286 GCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCAC-ATT
1 GCCTTCGGGCTTAGCCCGGATATCA-AATCTCGCACAATT
*
196347324 GCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATTT
1 GCCTTCGGGCTTAGCCCGGATATCA-AATCTCGCACAATT
196347363 GCCTTCGGGCTTAG-CCGGATATCACAAT-TCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCA-AATCTCGCACA
196347398 TTCATACACA
Statistics
Matches: 175, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 60 0.34
39 72 0.41
40 43 0.25
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCAAATCTCGCACAATT
Found at i:196347315 original size:30 final size:31
Alignment explanation
Indices: 196347279--196347353 Score: 80
Period size: 38 Copynumber: 2.2 Consensus size: 31
196347269 TCATATCTCG
196347279 CACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CACAATTGCCTTCGGGCTTAGCCCGGATAT-A
196347311 CAATTCGCACATTGCCTTCGGGCTTAGCCCGGATAT-
1 C-A----CA-ATTGCCTTCGGGCTTAGCCCGGATATA
196347347 CACAATT
1 CACAATT
196347354 CGCACATTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
30 3 0.08
31 2 0.05
32 1 0.03
33 1 0.03
35 1 0.03
36 1 0.03
37 2 0.05
38 26 0.70
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (31 bp):
CACAATTGCCTTCGGGCTTAGCCCGGATATA
Found at i:196347334 original size:38 final size:38
Alignment explanation
Indices: 196347206--196347399 Score: 293
Period size: 39 Copynumber: 5.0 Consensus size: 38
196347196 CCCGCACAAA
* *
196347206 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCAC-AT
* *
196347246 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCAC-AT
196347285 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAT
196347323 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA-T
196347362 TGCCTTCGGGCTTAG-CCGGATATCACAATTCGCACAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAT
196347399 T
1 T
196347400 CATACACATC
Statistics
Matches: 145, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
37 2 0.01
38 61 0.42
39 71 0.49
40 11 0.08
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.26
Consensus pattern (38 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAT
Found at i:196347344 original size:77 final size:77
Alignment explanation
Indices: 196347167--196347399 Score: 317
Period size: 77 Copynumber: 3.0 Consensus size: 77
196347157 TCGTTCAAAC
* * * * * * *
196347167 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATC
* *
196347232 ACAACTCGCACAATC
64 ACAATTCGCAC-ATT
196347247 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
196347312 AATTCGCACATT
66 AATTCGCACATT
* *
196347324 GCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATTTGCCTTCGGGCTTAG-CCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
196347387 CAATTCGCACATT
65 CAATTCGCACATT
196347400 CATACACATC
Statistics
Matches: 141, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
76 23 0.16
77 50 0.35
78 26 0.18
79 33 0.23
80 9 0.06
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (77 bp):
GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
AATTCGCACATT
Found at i:196362061 original size:24 final size:24
Alignment explanation
Indices: 196362002--196362066 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
196361992 GTGATATATA
*
196362002 ATATAT-ATAAAAAATAATAAGTG
1 ATATATAATAAAAAATAATAAATG
196362025 ATATA-AA-AAAAAACCTAATAAATG
1 ATATATAATAAAAAA--TAATAAATG
* *
196362049 CTATATAATAAAATATAA
1 ATATATAATAAAAAATAA
196362067 ACATACGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 6 0.18
23 6 0.18
24 15 0.44
25 2 0.06
26 5 0.15
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (24 bp):
ATATATAATAAAAAATAATAAATG
Found at i:196362164 original size:24 final size:23
Alignment explanation
Indices: 196362127--196362172 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
196362117 ATAAATGGTA
196362127 TTTTAGTAATAATATAAGTATATT
1 TTTTAGTAATAATA-AAGTATATT
*
196362151 TTTTA-TAATAAATAAATTATAT
1 TTTTAGTAAT-AATAAAGTATAT
196362173 AAAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTTTAGTAATAATAAAGTATATT
Found at i:196365213 original size:29 final size:31
Alignment explanation
Indices: 196365181--196365238 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
196365171 TGTGCATCAT
*
196365181 ATATATATGCTGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
196365210 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
196365239 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:196365418 original size:44 final size:42
Alignment explanation
Indices: 196365337--196365444 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 42
196365327 ATTGGCTGAG
* * * *
196365337 TAAATGGCACTATGTGTGCGATACTGATATGAGTTCGGTTTAC
1 TAAATGGCACTAAGTGTGCGATACTAATATGAGTTCGG-CTAA
196365380 TATAATGGCACTAAGTGTGCGATA-TAATTAT-AGCTTCGGCTAA
1 TA-AATGGCACTAAGTGTGCGATACTAA-TATGAG-TTCGGCTAA
196365423 TAAATTGGCACTAAGTGTGCGA
1 TAAA-TGGCACTAAGTGTGCGA
196365445 GTTCATTGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
42 2 0.04
43 27 0.47
44 28 0.49
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
TAAATGGCACTAAGTGTGCGATACTAATATGAGTTCGGCTAA
Found at i:196370730 original size:43 final size:43
Alignment explanation
Indices: 196370657--196370873 Score: 307
Period size: 43 Copynumber: 5.1 Consensus size: 43
196370647 CCAGCATTAC
*
196370657 GCCTGCTAGGCACG--GACCCGAATACACATCACCGGCACGAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAG
196370698 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAG
* * * *
196370741 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGACAAGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAG
* *
196370784 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAG
* * * *
196370827 GCTTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAG
196370868 GCCTGC
1 GCCTGC
196370874 GGGATTTATC
Statistics
Matches: 158, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
41 26 0.16
42 2 0.01
43 130 0.82
ACGTcount: A:0.29, C:0.33, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAG
Found at i:196370901 original size:38 final size:38
Alignment explanation
Indices: 196370845--196370952 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
196370835 GGCACGAAGG
* * * *
196370845 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
196370883 CTTGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
196370921 CCCGGATATTTTACCAGCACGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG
196370953 TCTTTAAGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:196374414 original size:18 final size:18
Alignment explanation
Indices: 196374393--196374463 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
196374383 AATTTGGCAA
196374393 ATTAATATAATTCACCAT
1 ATTAATATAATTCACCAT
* * * *
196374411 ATTAATACAGTTCACTAA
1 ATTAATATAATTCACCAT
* * *
196374429 ATTAACATAGTTCGCCAT
1 ATTAATATAATTCACCAT
*
196374447 AATAATATAATTCACCA
1 ATTAATATAATTCACCA
196374464 AGTTAACATG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (18 bp):
ATTAATATAATTCACCAT
Found at i:196374461 original size:36 final size:36
Alignment explanation
Indices: 196374390--196374472 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
196374380 CACAATTTGG
* * *
196374390 CAAATTAATATAATTCACCATATTAATACAGTTCAC
1 CAAATTAACATAATTCACCATAATAATACAATTCAC
* * * *
196374426 TAAATTAACATAGTTCGCCATAATAATATAATTCAC
1 CAAATTAACATAATTCACCATAATAATACAATTCAC
*
196374462 CAAGTTAACAT
1 CAAATTAACAT
196374473 GGTTTACAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
CAAATTAACATAATTCACCATAATAATACAATTCAC
Found at i:196374864 original size:2 final size:2
Alignment explanation
Indices: 196374802--196374845 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
196374792 TGACCCATGC
*
196374802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
196374843 AT A
1 AT A
196374846 ACAAAATGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:196379149 original size:46 final size:46
Alignment explanation
Indices: 196379081--196379217 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
196379071 TATATATACA
* * * *
196379081 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCTCATTAGCCATTCGGCTTTACCACATATC
* * *
196379127 CATCTCATACACGTTTCTCATTAGCCATTCGACTTTACCTCATATC
1 CATCTCATACACATTTCTCATTAGCCATTCGGCTTTACCACATATC
* *
196379173 TATCTCATACACATTTCTCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCTCATTAGCCATTCGGCTTTACCACATAT
196379218 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCTCATTAGCCATTCGGCTTTACCACATATC
Found at i:196379252 original size:47 final size:47
Alignment explanation
Indices: 196379191--196379577 Score: 486
Period size: 47 Copynumber: 8.1 Consensus size: 47
196379181 ACACATTTCT
* *
196379191 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * *
196379238 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * **
196379285 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* ***
196379332 CATTGGCCATTCGGCCTTATCACACATACGTATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
196379379 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
* * * *
196379430 CATTTGCCATTCGGCTTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
196379477 CATTGGCCATTCGACCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
* * **
196379528 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
196379575 CAT
1 CAT
196379578 AAAATCCTAA
Statistics
Matches: 299, Mismatches: 33, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
47 212 0.71
49 11 0.04
51 76 0.25
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:196379465 original size:98 final size:96
Alignment explanation
Indices: 196379191--196379577 Score: 530
Period size: 98 Copynumber: 4.0 Consensus size: 96
196379181 ACACATTTCT
* * *
196379191 CATTAGCCATTCGGCCTTA-C-CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCC
1 CATTGGCCATTCGACCTTATCACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCC
* * *
196379254 TTATCTCATATATGCATGTTCACGTTCATCA
66 TTATCACACATATGCATGTTCACATTCATCA
** *
196379285 CATTGGCCATTCGACCTTATCACAC--ATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
1 CATTGGCCATTCGACCTTATCACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCC
* *
196379348 TTATCACACATACGTATGTTCACATTCATCA
66 TTATCACACATATGCATGTTCACATTCATCA
* *
196379379 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTTGCCATTCGG
1 CATTGGCCATTCGACCTTATCACAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
196379444 CTTTATCACACATATGCATGTTCACATTCATCA
64 CCTTATCACACATATGCATGTTCACATTCATCA
*
196379477 CATTGGCCATTCGACCTTATCACACATATATATACAGGTTCACATTCATCACATTTGCCATTCGG
1 CATTGGCCATTCGACCTTATCACAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * * **
196379542 CCTTATCTCATATATACACATTCACATTCATCA
64 CCTTATCACACATATGCATGTTCACATTCATCA
196379575 CAT
1 CAT
196379578 AAAATCCTAA
Statistics
Matches: 263, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
94 103 0.39
95 1 0.00
96 3 0.01
98 156 0.59
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (96 bp):
CATTGGCCATTCGACCTTATCACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCC
TTATCACACATATGCATGTTCACATTCATCA
Found at i:196381114 original size:31 final size:31
Alignment explanation
Indices: 196381042--196381135 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
196381032 CCTTTTCATA
*
196381042 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
196381073 TTT-ATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
196381103 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
196381134 TT
1 TT
196381136 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
30 29 0.48
31 32 0.52
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:196381385 original size:24 final size:24
Alignment explanation
Indices: 196381327--196381444 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
196381317 GCTTTATCAT
*
196381327 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
196381352 ATAACT-GGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
196381375 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
* *
196381398 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
196381422 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
196381445 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
23 36 0.43
24 41 0.49
25 6 0.07
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:196381415 original size:47 final size:47
Alignment explanation
Indices: 196381327--196381444 Score: 159
Period size: 47 Copynumber: 2.5 Consensus size: 47
196381317 GCTTTATCAT
*
196381327 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGCAAAAGCCCTTTCA
* **
196381375 ATAACTGGGGCATAAGCCCTTTT-ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTG-GGCAAAAGCCCTTTCA
196381422 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
196381445 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
46 7 0.11
47 45 0.70
48 12 0.19
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCAAAAGCCCTTTCA
Found at i:196381537 original size:20 final size:20
Alignment explanation
Indices: 196381494--196381553 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
196381484 TTATGATTAC
196381494 ATCATGTGCATATCA-ACAT
1 ATCATGTGCATATCATACAT
196381513 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* * *
196381533 GTCATGTACATCTCATACAT
1 ATCATGTGCATATCATACAT
196381553 A
1 A
196381554 CCAATATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 15 0.42
20 21 0.58
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:196389585 original size:40 final size:40
Alignment explanation
Indices: 196389477--196389725 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
196389467 CGGGATTTAA
* * * * *
196389477 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
196389517 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
196389557 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
196389597 CCGGATATATCAACTCGCA-GAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
196389636 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
196389676 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
196389716 CCGGATATAT
1 CCGGATATAT
196389726 TTCCAATGTT
Statistics
Matches: 191, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 40 0.21
40 151 0.79
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:196389648 original size:79 final size:80
Alignment explanation
Indices: 196389477--196389725 Score: 376
Period size: 79 Copynumber: 3.1 Consensus size: 80
196389467 CGGGATTTAA
* * * * * * * * * * *
196389477 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGT-GACTTGCACAAAG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACGAAT
196389541 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAGC
196389557 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA-GAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
196389621 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
196389636 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
196389701 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
196389716 CCGGATATAT
1 CCGGATATAT
196389726 TTCCAATGTT
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
79 78 0.50
80 78 0.50
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
CCTTCGGGTCTTAGC
Found at i:196389676 original size:119 final size:120
Alignment explanation
Indices: 196389477--196389725 Score: 376
Period size: 119 Copynumber: 2.1 Consensus size: 120
196389467 CGGGATTTAA
* * * * * * *
196389477 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGTGACTTGCACAAAGG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATAACTCGCACAAAGG
196389542 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
196389597 CCGGATATATCAACTCGCA-GAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACGAAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGAT-AACTCGCACAAAG
196389660 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
196389716 CCGGATATAT
1 CCGGATATAT
196389726 TTCCAATGTT
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
118 1 0.01
119 99 0.85
120 17 0.15
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (120 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATAACTCGCACAAAGG
CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:196392127 original size:40 final size:40
Alignment explanation
Indices: 196392072--196392243 Score: 299
Period size: 40 Copynumber: 4.3 Consensus size: 40
196392062 AACCCAAGTA
196392072 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
*
196392112 CCTTCGGGATTTAGCCCAGATATAGCAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
* *
196392152 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
* *
196392192 CCTTCGGGACTTAGCCCGGATATTGCAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
196392232 CCTTCGGGATTT
1 CCTTCGGGATTT
196392244 TAGTTCGGTT
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:196393053 original size:19 final size:19
Alignment explanation
Indices: 196393001--196393056 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
196392991 ATAAATATAA
*
196393001 GTTCAATATAAACTCACAT
1 GTTCAATATAAATTCACAT
* *
196393020 G-T-AA-CTAAATACACAT
1 GTTCAATATAAATTCACAT
196393036 GTTCAATATAAATTCACAT
1 GTTCAATATAAATTCACAT
196393055 GT
1 GT
196393057 AATCAAATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 10 0.34
17 3 0.10
18 3 0.10
19 13 0.45
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (19 bp):
GTTCAATATAAATTCACAT
Found at i:196393081 original size:35 final size:35
Alignment explanation
Indices: 196392999--196393073 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
196392989 ATATAAATAT
196392999 AAGTTCAATATAAACTCACATGTAACTAAATACAC
1 AAGTTCAATATAAACTCACATGTAACTAAATACAC
* * *
196393034 ATGTTCAATATAAATTCACATGTAA-TCAAATACTC
1 AAGTTCAATATAAACTCACATGTAACT-AAATACAC
196393069 AAGTT
1 AAGTT
196393074 TGATATAAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (35 bp):
AAGTTCAATATAAACTCACATGTAACTAAATACAC
Found at i:196395677 original size:30 final size:30
Alignment explanation
Indices: 196395631--196395690 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
196395621 TTCCTGAGCC
* *
196395631 TAGGGGCAAAAGTGT-AATTATGCAAAAGTT
1 TAGGGGAAAAAATGTAAATT-TGCAAAAGTT
*
196395661 TAGGGGAAAAAATGTAAATTTGCCAAAGTT
1 TAGGGGAAAAAATGTAAATTTGCAAAAGTT
196395691 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGAAAAAATGTAAATTTGCAAAAGTT
Found at i:196397656 original size:27 final size:27
Alignment explanation
Indices: 196397634--196397920 Score: 367
Period size: 27 Copynumber: 10.6 Consensus size: 27
196397624 TTAGTTTACC
*
196397634 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
196397661 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
196397688 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** **
196397715 AAATCACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
196397742 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
196397769 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
196397796 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
196397823 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
196397850 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
196397877 AAATTACCAAAATATCCTTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
196397904 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
196397921 TCGACCTATA
Statistics
Matches: 223, Mismatches: 37, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 223 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:196397699 original size:54 final size:54
Alignment explanation
Indices: 196397634--196397920 Score: 412
Period size: 54 Copynumber: 5.3 Consensus size: 54
196397624 TTAGTTTACC
*
196397634 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *
196397688 AAATCACCAAAATACCCCTGGTTTGTAAAATCACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
196397742 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
196397796 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *
196397850 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCTTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
**
196397904 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
196397921 TCGACCTATA
Statistics
Matches: 206, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 206 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:196397902 original size:81 final size:81
Alignment explanation
Indices: 196397634--196397981 Score: 353
Period size: 81 Copynumber: 4.3 Consensus size: 81
196397624 TTAGTTTACC
* * * * *
196397634 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAATTACCAAAATACCCTTGA-TTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTATCAA
*
196397698 AATACCCCTGGTTTGTA
65 AATACCCCTAGTTTGTA
* * * ** * *
196397715 AAATCACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-CTAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTATC-AA
* * *
196397779 AATACCCTTTGTTTATA
65 AATACCCCTAGTTTGTA
* * *
196397796 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTATCAAA
196397861 ATACCCCTAGTTTGTA
66 ATACCCCTAGTTTGTA
* * ** *** **
196397877 AAATTACCAAAATATCCTTGATTTGTGAAATTACTGAAATA-CCCTCGACCTATAAAATTATTGA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCT-GGTTTATAAAATTATCAA
* *
196397941 AATA-CCCTCGACTTGTA
65 AATACCCCTAG-TTTGTA
*
196397958 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTTGATTT
196397982 ACAGAATTAT
Statistics
Matches: 223, Mismatches: 39, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
80 10 0.04
81 212 0.95
82 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTATCAAA
ATACCCCTAGTTTGTA
Found at i:196397973 original size:27 final size:27
Alignment explanation
Indices: 196397634--196397981 Score: 269
Period size: 27 Copynumber: 12.9 Consensus size: 27
196397624 TTAGTTTACC
*
196397634 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * *
196397661 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
196397688 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * * **
196397715 AAATCACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
196397742 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
196397769 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
196397796 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
196397823 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
196397850 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
196397877 AAATTACCAAAATATCCTTGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** ** *
196397904 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
196397931 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
196397958 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
196397982 ACAGAATTAT
Statistics
Matches: 259, Mismatches: 52, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.00
27 257 0.99
28 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:196397989 original size:27 final size:26
Alignment explanation
Indices: 196397628--196398030 Score: 130
Period size: 27 Copynumber: 14.9 Consensus size: 26
196397618 AATACTTTAG
* *
196397628 TTTACCAAATTACCAAAATACCCCT-A
1 TTTACAAAATTACC-AAATACCCTTGA
** * *
196397654 GTTTGTAAAATTACTAAAATACCCTTGG
1 -TTTACAAAATTAC-CAAATACCCTTGA
* * * *
196397682 TTTATAAAATCACCAAAATACCCCTGG
1 TTTACAAAATTACC-AAATACCCTTGA
** * * *
196397709 TTTGTAAAATCACCAAAATACCATTGG
1 TTTACAAAATTACC-AAATACCCTTGA
*
196397736 TTTACAAAATTACCAAAATACCCCT-A
1 TTTACAAAATTACC-AAATACCCTTGA
** *
196397762 GTTTGTAAAATTACTAAAATACCCTTTG-
1 -TTTACAAAATTAC-CAAATACCC-TTGA
* * *
196397790 TTTATAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACC-AAATACCCTTGA
** * *
196397817 TTTGTAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACC-AAATACCCTTGA
** * *
196397844 TTTGTAAAATTATCAAAATACCCCT-A
1 TTTACAAAATTA-CCAAATACCCTTGA
** *
196397870 GTTTGTAAAATTACCAAAATATCCTTGA
1 -TTTACAAAATTACC-AAATACCCTTGA
*** * *
196397898 TTTGTGAAATTACTGAAATACCCTCGA
1 TTTACAAAATTAC-CAAATACCCTTGA
** * ** *
196397925 CCTATAAAATTATTGAAATACCCTCGA
1 TTTACAAAATTA-CCAAATACCCTTGA
* **
196397952 CTTGTAAAATTACCAAAGTACCCTTGA
1 TTTACAAAATTACCAAA-TACCCTTGA
* **** *
196397979 TTTACAGAATTATCGTTTTACCCTCGA
1 TTTACAAAATTA-CCAAATACCCTTGA
196398006 TTTACAAAATTACCGAAATACCCTT
1 TTTACAAAATTACC-AAATACCCTT
196398031 CTAGGGTAGA
Statistics
Matches: 297, Mismatches: 61, Indels: 36
0.75 0.15 0.09
Matches are distributed among these distances:
26 7 0.02
27 286 0.96
28 4 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (26 bp):
TTTACAAAATTACCAAATACCCTTGA
Found at i:196398046 original size:27 final size:27
Alignment explanation
Indices: 196398013--196398693 Score: 842
Period size: 27 Copynumber: 25.3 Consensus size: 27
196398003 CGATTTACAA
* *
196398013 AATTACCGAAATACCCTTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
196398040 AAATACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
196398067 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
196398094 AATTACCGTAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
196398121 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
196398148 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
196398175 AATTACCGCAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
196398202 AACTACTGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
196398229 AACTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
196398256 AATTACCAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
196398283 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
196398310 AATTACTGAAGTACCACTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
196398337 AATTACCGGAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
196398364 AATTACCGGAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
196398391 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
196398418 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
196398445 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
196398472 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
196398499 AATTATCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
196398526 AATTACCGGAATACCTCTCTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
196398553 AATTATCGCAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
196398580 AATTATCGCAATACCCATGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * **
196398607 AATTATCGCAATACCTATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
196398634 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
196398661 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
196398687 AATTACC
1 AATTACC
196398694 ATTTTGCCCC
Statistics
Matches: 586, Mismatches: 68, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
26 16 0.03
27 570 0.97
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:196399184 original size:22 final size:22
Alignment explanation
Indices: 196399120--196399184 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
196399110 TTAAAGCCTT
*
196399120 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTTTGTGCCAAC
* * *
196399142 CT-ACATATGCCTTTGTCCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
196399164 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
196399185 ACGTATTTTC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:196399373 original size:27 final size:27
Alignment explanation
Indices: 196399343--196399441 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 27
196399333 ATTCTATTAA
* *
196399343 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
196399370 GTGGCTATGCCACAAATATCTG-TTCTA
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * * *
196399397 GTGGCTCTACCACAATATTTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
196399424 GTGACTCTGTCACAATAT
1 GTGGCTATGCCACAATAT
196399442 TTGATAACTG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 7 0.12
27 45 0.76
28 7 0.12
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:196399608 original size:13 final size:12
Alignment explanation
Indices: 196399592--196399697 Score: 56
Period size: 12 Copynumber: 8.6 Consensus size: 12
196399582 TTCTAATTTT
*
196399592 TGATTCTGTTACC
1 TGATTCTGAT-CC
*
196399605 TGATACTGATCC
1 TGATTCTGATCC
*
196399617 TGATTTTGATTCC
1 TGATTCTGA-TCC
*
196399630 -G-TTACCTGATAC
1 TGATT--CTGATCC
*
196399642 TGATTCTGATTC
1 TGATTCTGATCC
196399654 TGATTCTG-TCACC
1 TGATTCTGAT--CC
* *
196399667 TAATTCTGATTC
1 TGATTCTGATCC
* *
196399679 TAATTCTGATTC
1 TGATTCTGATCC
196399691 TGATTCT
1 TGATTCT
196399698 AGTTCTGATA
Statistics
Matches: 74, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
11 3 0.04
12 45 0.61
13 23 0.31
14 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (12 bp):
TGATTCTGATCC
Found at i:196399626 original size:31 final size:31
Alignment explanation
Indices: 196399592--196399692 Score: 139
Period size: 31 Copynumber: 3.3 Consensus size: 31
196399582 TTCTAATTTT
* *
196399592 TGATTCTGTTACCTGATACTGATCCTGATTT
1 TGATTCTGTTACCTGATACTGATTCTGATTC
*
196399623 TGATTCCGTTACCTGATACTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * * *
196399654 TGATTCTGTCACCTAATTCTGATTCTAATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
196399685 TGATTCTG
1 TGATTCTG
196399693 ATTCTAGTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.45
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTGATTC
Found at i:196399644 original size:6 final size:6
Alignment explanation
Indices: 196399604--196399706 Score: 68
Period size: 6 Copynumber: 16.8 Consensus size: 6
196399594 ATTCTGTTAC
* * * * *
196399604 CTGATA CTGATC CTGATT TTGATT CCG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
196399653 CTGATT CTG-TCAC CTAATT CTGATT CTAATT CTGATT CTGATT CT-AGTT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGATT CTGA-TT
196399702 CTGAT
1 CTGAT
196399707 AATGTTTCTT
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
5 4 0.05
6 64 0.85
7 5 0.07
8 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:196400317 original size:27 final size:27
Alignment explanation
Indices: 196400285--196400379 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
196400275 TAAGTGACTT
* *
196400285 TGCCACATTATCTGTTTCTGGTGGCTA
1 TGCCACAATATCTGTTTCTGGTGGCTC
*
196400312 TGCCACAAATATCTG-TTCTAGTGGCTC
1 TGCCAC-AATATCTGTTTCTGGTGGCTC
* * * *
196400339 TACCACAATATTTGTATCTGGTGACTC
1 TGCCACAATATCTGTTTCTGGTGGCTC
*
196400366 TGTCACAATATCTG
1 TGCCACAATATCTG
196400380 ATACCTGAGC
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
26 7 0.13
27 41 0.75
28 7 0.13
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
TGCCACAATATCTGTTTCTGGTGGCTC
Found at i:196400555 original size:6 final size:6
Alignment explanation
Indices: 196400539--196400616 Score: 79
Period size: 6 Copynumber: 12.8 Consensus size: 6
196400529 ATTCTGTTAC
* * * *
196400539 CTGATA CTGATT TTGATT CTGATT CTG-TCAC CTAATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
196400588 CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGA-TT CTGAT
196400617 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
5 2 0.03
6 54 0.90
7 3 0.05
8 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:196400560 original size:12 final size:12
Alignment explanation
Indices: 196400516--196400616 Score: 82
Period size: 12 Copynumber: 8.2 Consensus size: 12
196400506 CTGCATTCAC
*
196400516 ATTCTGATTTTTG
1 ATTCTGA-TTCTG
196400529 ATTCTG-TTACCTG
1 ATTCTGATT--CTG
* *
196400542 ATACTGATTTTG
1 ATTCTGATTCTG
196400554 ATTCTGATTCTG
1 ATTCTGATTCTG
* *
196400566 -TCACCTAATTCTG
1 AT--TCTGATTCTG
196400579 ATTCTGATTCTG
1 ATTCTGATTCTG
196400591 ATTCTGATTCTG
1 ATTCTGATTCTG
196400603 ATTCT-AGTTCTG
1 ATTCTGA-TTCTG
196400615 AT
1 AT
196400617 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
11 4 0.06
12 44 0.61
13 21 0.29
14 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.50
Consensus pattern (12 bp):
ATTCTGATTCTG
Found at i:196400562 original size:31 final size:31
Alignment explanation
Indices: 196400516--196400596 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
196400506 CTGCATTCAC
* * *
196400516 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTCACCTAATACTG
* *
196400548 ATTTTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
196400579 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
196400597 ATTCTGATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 37 0.86
32 6 0.14
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:196408278 original size:16 final size:16
Alignment explanation
Indices: 196408254--196408284 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
196408244 ATGTCATTAA
196408254 ATGACCAAATACACAT
1 ATGACCAAATACACAT
*
196408270 ATGATCAAATACACA
1 ATGACCAAATACACA
196408285 AACTCAAGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (16 bp):
ATGACCAAATACACAT
Found at i:196409514 original size:31 final size:31
Alignment explanation
Indices: 196409476--196409539 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
196409466 CCTTTTCATA
196409476 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
* *
196409507 TTTCATATTTCATATTACTGGGTCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
196409538 TT
1 TT
196409540 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:196409782 original size:24 final size:24
Alignment explanation
Indices: 196409731--196409873 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
196409721 GCTTTATCAT
*
196409731 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
196409756 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
196409780 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
196409803 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
196409827 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
196409851 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
196409874 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:196409810 original size:47 final size:48
Alignment explanation
Indices: 196409731--196409872 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
196409721 GCTTTATCAT
* *
196409731 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
196409780 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
196409827 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
196409873 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:196409831 original size:71 final size:72
Alignment explanation
Indices: 196409730--196409873 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
196409720 TGCTTTATCA
*
196409730 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
196409795 GCCCTTT
66 GCCCTTT
* * **
196409802 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
196409865 AGCCCTTT
65 AGCCCTTT
196409873 T
1 T
196409874 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:196409948 original size:20 final size:20
Alignment explanation
Indices: 196409923--196409983 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
196409913 TTATGATTAC
196409923 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
196409943 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
196409963 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
196409983 A
1 A
196409984 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:196410058 original size:25 final size:25
Alignment explanation
Indices: 196410026--196410073 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
196410016 ATACATAAAC
* * *
196410026 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
196410051 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
196410074 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:196415699 original size:13 final size:13
Alignment explanation
Indices: 196415681--196415705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
196415671 CAGCACTCAT
196415681 AATATCATATATC
1 AATATCATATATC
196415694 AATATCATATAT
1 AATATCATATAT
196415706 TGTAAGGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATCATATATC
Found at i:196416772 original size:31 final size:32
Alignment explanation
Indices: 196416734--196416797 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
196416724 CCTTTTCATA
196416734 TTCATATTTC-ATAATACTGGGCCGAAGCCTT
1 TTCATATTTCAATAATACTGGGCCGAAGCCTT
*
196416765 TTCATATTTCAATATTACTGGGCCGAAGCCTT
1 TTCATATTTCAATAATACTGGGCCGAAGCCTT
196416797 T
1 T
196416798 ACTGTAAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (32 bp):
TTCATATTTCAATAATACTGGGCCGAAGCCTT
Found at i:196417039 original size:23 final size:24
Alignment explanation
Indices: 196417009--196417054 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
196416999 GCCTCTTTTT
196417009 AATAACTGGGGCA-AAGCCCTTTC
1 AATAACTGGGGCATAAGCCCTTTC
196417032 AATAACTGGGGCATAAGCCCTTT
1 AATAACTGGGGCATAAGCCCTTT
196417055 TATAACTNNN
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (24 bp):
AATAACTGGGGCATAAGCCCTTTC
Found at i:196417059 original size:23 final size:23
Alignment explanation
Indices: 196416983--196417061 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 23
196416973 TGCTTTATCA
*
196416983 TATAACTGGAGGCCT-AGCCTCTTTT
1 TATAACTGG-GGCATAAGCC-C-TTT
196417008 TAATAACTGGGGCA-AAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
196417031 CAATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
196417055 TATAACT
1 TATAACT
196417062 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
23 21 0.45
24 10 0.21
25 8 0.17
26 8 0.17
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:196419923 original size:2 final size:2
Alignment explanation
Indices: 196419916--196419943 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
196419906 GAGACTAGTC
196419916 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
196419944 CATGTCATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:196421972 original size:30 final size:30
Alignment explanation
Indices: 196421938--196421998 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
196421928 TCCTTAACTC
196421938 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
196421968 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
196421998 A
1 A
196421999 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:196423481 original size:28 final size:29
Alignment explanation
Indices: 196423450--196423509 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
196423440 GATTTTTAGT
*
196423450 AAAAATGCATATT-AGGGATTAAATTGAG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
* * * *
196423478 AAAAGTGTAAATTGAGGGGTTAAATTGTG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
196423507 AAA
1 AAA
196423510 TAAATGAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.28
Consensus pattern (29 bp):
AAAAATGCAAATTGAGGGATTAAATTGAG
Found at i:196425556 original size:31 final size:31
Alignment explanation
Indices: 196425518--196425578 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
196425508 TTTCATATTT
196425518 CATATTTCATAACACTGGGCCGAAGCCTTTC
1 CATATTTCATAACACTGGGCCGAAGCCTTTC
**
196425549 CATATTTCATATTACTGGGCCGAAGCCTTT
1 CATATTTCATAACACTGGGCCGAAGCCTTT
196425579 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (31 bp):
CATATTTCATAACACTGGGCCGAAGCCTTTC
Found at i:196425822 original size:24 final size:24
Alignment explanation
Indices: 196425770--196425936 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
196425760 GCTTTATCAT
* *
196425770 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
196425795 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
* *
196425819 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
196425842 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
196425866 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
196425890 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
196425914 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
196425937 TCACTTCCTC
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
23 20 0.15
24 98 0.75
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:196425844 original size:47 final size:47
Alignment explanation
Indices: 196425791--196425935 Score: 227
Period size: 47 Copynumber: 3.1 Consensus size: 47
196425781 CCTAGCCTCT
* * *
196425791 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
* *
196425838 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
196425885 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
196425933 TTT
1 TTT
196425936 TTCACTTCCT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 45 0.51
48 44 0.49
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:196426011 original size:20 final size:20
Alignment explanation
Indices: 196425986--196426052 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
196425976 TTATGAATAC
196425986 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
196426006 ATCATGTTCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
196426026 GTCATGTGCATATCATATAT
1 ATCATGTGCATATCATACAT
*
196426046 ACCATGT
1 ATCATGT
196426053 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:196426121 original size:25 final size:25
Alignment explanation
Indices: 196426089--196426136 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
196426079 ATACATAAAC
* * *
196426089 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
196426114 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
196426137 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:196429602 original size:45 final size:45
Alignment explanation
Indices: 196429528--196429626 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
196429518 GATATCGAAA
* * *
196429528 GCCCGAATAGTATCTCACCGGCATTATAGCATGCTAAGCTCAAAG
1 GCCCGAATAGTATCTCACCAGCATCATAGCATGCTAAGCACAAAG
* * *
196429573 GCCCGAATAGTAT-TCCACCAGCATCATAGCCTGCTAGGCACGAAG
1 GCCCGAATAGTATCT-CACCAGCATCATAGCATGCTAAGCACAAAG
196429618 GCCCGAATA
1 GCCCGAATA
196429627 CACATCACCG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 46 0.98
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (45 bp):
GCCCGAATAGTATCTCACCAGCATCATAGCATGCTAAGCACAAAG
Found at i:196429654 original size:43 final size:43
Alignment explanation
Indices: 196429600--196430094 Score: 837
Period size: 43 Copynumber: 11.5 Consensus size: 43
196429590 CCAGCATCAT
196429600 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* * *
196429643 AGCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGTAAGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
196429686 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* *
196429729 AGCCTACTAGGCACGAAGGCCCGAATACACATCACCCGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* *
196429772 AGCCTGCTAGACACGAAGGCCCGAATACACATCACCGGCAAGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* *
196429815 AGCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCAAGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
** *
196429858 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACTAGCAAGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
196429901 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* * *
196429944 AGCCTGCTAGGCACGAAGGCCCGAATTCACATCACCGGTAAGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
196429987 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* *
196430030 AGCCTGCTAGGAACGAAGGCCCGAATACACATCACCGGCACAA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
196430073 AGCCTGCTAGGCACGAAGGCCC
1 AGCCTGCTAGGCACGAAGGCCC
196430095 AATTATAATA
Statistics
Matches: 423, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 423 1.00
ACGTcount: A:0.32, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
Found at i:196435115 original size:46 final size:46
Alignment explanation
Indices: 196435065--196435237 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
196435055 TGGTTGAGCA
*
196435065 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
196435111 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
196435158 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
196435204 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
196435238 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:196435221 original size:93 final size:93
Alignment explanation
Indices: 196435062--196435232 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
196435052 GGATGGTTGA
* * *
196435062 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
196435127 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
196435155 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
196435220 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
196435233 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:196444146 original size:40 final size:39
Alignment explanation
Indices: 196443981--196444164 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
196443971 AAATTGATTG
* * *
196443981 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
196444021 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
196444061 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
196444101 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
196444140 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
196444165 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:196444189 original size:80 final size:81
Alignment explanation
Indices: 196444021--196444209 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
196444011 GCTGGAAATT
* * * *
196444021 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
196444086 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
196444102 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
196444165 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
196444181 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
196444210 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:196449107 original size:40 final size:40
Alignment explanation
Indices: 196448984--196449232 Score: 367
Period size: 40 Copynumber: 6.2 Consensus size: 40
196448974 CGGGATTTAA
* * * * *
196448984 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
196449024 CCGGATTTGGT-GACTTGCACAAAGGCCTTC-GGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
196449063 CCGGATATATCCACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
196449103 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
196449143 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
196449183 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
196449223 CCGGATATAT
1 CCGGATATAT
196449233 TTCCAATGTT
Statistics
Matches: 190, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 29 0.15
40 160 0.84
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:196454580 original size:20 final size:20
Alignment explanation
Indices: 196454555--196454592 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
196454545 GTTTATTCGC
*
196454555 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
196454575 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
196454593 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:196456244 original size:28 final size:28
Alignment explanation
Indices: 196456212--196456270 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
196456202 GCGTAGATCA
196456212 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
196456240 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
196456268 CGA
1 CGA
196456271 TATACCCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:196460207 original size:40 final size:40
Alignment explanation
Indices: 196460162--196460328 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
196460152 CGGAATATAA
196460162 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
196460202 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
196460242 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
196460282 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
196460321 CCGGATAT
1 CCGGATAT
196460329 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:196462913 original size:13 final size:13
Alignment explanation
Indices: 196462895--196462920 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
196462885 GTTCAAACGT
196462895 CAAAATTTTCAAA
1 CAAAATTTTCAAA
196462908 CAAAATTTTCAAA
1 CAAAATTTTCAAA
196462921 AAATAATTCC
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:196467196 original size:29 final size:29
Alignment explanation
Indices: 196467161--196467216 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
196467151 ATCTGAAATA
196467161 CTGATATGCATGGCCC-GAAGCCAAATCAG
1 CTGATATGCATGGCCCAG-AGCCAAATCAG
196467190 CTGATATGCATGGCCCAGAGCCAAATC
1 CTGATATGCATGGCCCAGAGCCAAATC
196467217 GATTTATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (29 bp):
CTGATATGCATGGCCCAGAGCCAAATCAG
Found at i:196478082 original size:17 final size:18
Alignment explanation
Indices: 196478040--196478088 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
196478030 AGTTGAAAAG
196478040 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
196478059 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
196478076 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
196478089 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:196478976 original size:40 final size:40
Alignment explanation
Indices: 196478910--196479076 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
196478900 AAATTGAATG
* * *
196478910 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
196478949 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
196478989 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
196479029 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
196479069 ATATCCGG
1 ATATCCGG
196479077 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:196490993 original size:40 final size:40
Alignment explanation
Indices: 196490908--196491058 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
196490898 AATTGAATGA
* * *
196490908 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
196490948 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
196490989 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
196491028 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
196491059 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:196491072 original size:40 final size:40
Alignment explanation
Indices: 196490944--196491074 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
196490934 TATGCTGGAA
* * *
196490944 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
196490984 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
196491024 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
196491064 ATTATATCCGG
1 ATTATATCCGG
196491075 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:196498992 original size:40 final size:40
Alignment explanation
Indices: 196498907--196499057 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
196498897 AATTGAATGA
* * *
196498907 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
196498947 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
196498988 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
196499027 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
196499058 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:196499071 original size:40 final size:40
Alignment explanation
Indices: 196498943--196499073 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
196498933 TATGCTGGAA
* * *
196498943 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
196498983 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
196499023 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
196499063 ATTATATCCGG
1 ATTATATCCGG
196499074 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:196508907 original size:50 final size:50
Alignment explanation
Indices: 196508837--196508962 Score: 234
Period size: 50 Copynumber: 2.5 Consensus size: 50
196508827 ATTATCCAGC
*
196508837 ACACGTAGTAGCCTGCACTTAGTACTACATACGTAACCTAACCATCTGAT
1 ACACGTAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGAT
*
196508887 ACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGAT
1 ACACGTAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGAT
196508937 ACACGTAGTAGCCTGCACTTAGTACT
1 ACACGTAGTAGCCTGCACTTAGTACT
196508963 GCACTTAGTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (50 bp):
ACACGTAGTAGCCTGCACTTAGTACTACACACGTAACCTAACCATCTGAT
Found at i:196508966 original size:12 final size:12
Alignment explanation
Indices: 196508949--196508974 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
196508939 ACGTAGTAGC
196508949 CTGCACTTAGTA
1 CTGCACTTAGTA
196508961 CTGCACTTAGTA
1 CTGCACTTAGTA
196508973 CT
1 CT
196508975 ACACACGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (12 bp):
CTGCACTTAGTA
Found at i:196510730 original size:21 final size:22
Alignment explanation
Indices: 196510704--196510749 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
196510694 TATATAAAAT
196510704 TACACA-AAATCAAAATTTATA
1 TACACATAAATCAAAATTTATA
*
196510725 TACACATTAAATCATAATTTATA
1 TACACA-TAAATCAAAATTTATA
196510748 TA
1 TA
196510750 TAATTTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
23 16 0.73
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (22 bp):
TACACATAAATCAAAATTTATA
Found at i:196513040 original size:17 final size:16
Alignment explanation
Indices: 196513014--196513050 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
196513004 TAAATTAATT
196513014 TCAATAAATAAATTTC
1 TCAATAAATAAATTTC
*
196513030 TCAATTAAATAATTTTC
1 TCAA-TAAATAAATTTC
196513047 TCAA
1 TCAA
196513051 CCTGATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (16 bp):
TCAATAAATAAATTTC
Found at i:196513793 original size:52 final size:52
Alignment explanation
Indices: 196513715--196513817 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
196513705 CCGTAGCCAT
* *
196513715 GTTTTACTTTTCATCTATCATGTAATGCTAATAAGAGAATATCAATTACTCA
1 GTTTTACTTGTCATCTATCATGTAATGCCAATAAGAGAATATCAATTACTCA
*
196513767 GTTTTACTTGTCATCTATCATGTAATGCCAATAAGATAATATCAATTACTC
1 GTTTTACTTGTCATCTATCATGTAATGCCAATAAGAGAATATCAATTACTC
196513818 TACATATTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.40
Consensus pattern (52 bp):
GTTTTACTTGTCATCTATCATGTAATGCCAATAAGAGAATATCAATTACTCA
Found at i:196522441 original size:29 final size:29
Alignment explanation
Indices: 196522407--196522538 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
196522397 TACTCGATTT
** * *
196522407 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
196522436 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
196522465 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
196522494 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
196522523 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
196522539 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:196529096 original size:43 final size:45
Alignment explanation
Indices: 196529035--196529139 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 45
196529025 AGCAAACCTA
* * *
196529035 ATCTCTCTGAAGTTGCAGTAGAGTGGGTTGAAG-TAGAAG-TCTC
1 ATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATAGAAGATCTC
* * *
196529078 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGATCTT
1 ATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATAGAAGATCTC
*
196529123 GTCTCCCTGAAGTTGCA
1 ATCTCCCTGAAGTTGCA
196529140 TTGGAGCAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 29 0.55
44 5 0.09
45 19 0.36
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATAGAAGATCTC
Found at i:196529139 original size:45 final size:45
Alignment explanation
Indices: 196529035--196529376 Score: 175
Period size: 45 Copynumber: 7.6 Consensus size: 45
196529025 AGCAAACCTA
* * ** * * *
196529035 ATCTCTCTGAAGTTGCAGTAGAGTGGGTTGAAG-TAGAAG-TCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTT
*
196529078 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTT
* * * **
196529123 GTCTCCCTGAAGTTGCATTGGAGCAGATCGAAGCCA-CA-ATCCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGAT-CTT
* * * * * *
196529167 ATCTCTCTGAAGTTACAGTAGG-GCAGGA-T-AAAATTACCTAGGTCTC
1 ATCTCCCTGAAGTTGCAGT-GGAGCA-GATTGAAGA-TAGC-AGATCTT
* * * *
196529213 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGTTAGTAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTT
** * * ** **
196529258 ATCTCCCTGAAGTTGTTGTGGTGTAGATCAAAGCCA-CA-ATCCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGAT-CTT
* * * * * * *
196529302 ATCTCTCTGAAGTTGCGGTAGAGCAGGA-TAAAAATA-CAAGAACCAT
1 ATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATAGC-AG-ATCTT
*
196529348 ATCTCCCTGAAGTTGCAGTAGAGCAGATT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATT
196529377 AAAAGCTACA
Statistics
Matches: 227, Mismatches: 54, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
43 35 0.15
44 57 0.25
45 78 0.34
46 53 0.23
47 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTT
Found at i:196529286 original size:135 final size:135
Alignment explanation
Indices: 196529073--196529334 Score: 391
Period size: 135 Copynumber: 1.9 Consensus size: 135
196529063 TGAAGTAGAA
* * * *
196529073 GTCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGATCTTGTCTCCCTGAAGTTG
1 GTCTCATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTTG
* *
196529138 CATTGGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTACAGTAGGGCAGGATAAAATTA
66 CATTGGAGCAGATCAAAGCCACAATCCTTATCTCTCTGAAGTTACAGTAGAGCAGGATAAAATTA
196529203 CCTAG
131 CCTAG
* *
196529208 GTCTCATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGTTAGTAGATCTTATCTCCCTGAAGTTG
1 GTCTCATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTTG
* * * * *
196529273 -TTGTGGTGTAGATCAAAGCCACAATCCTTATCTCTCTGAAGTTGCGGTAGAGCAGGATAAAA
66 CAT-TGGAGCAGATCAAAGCCACAATCCTTATCTCTCTGAAGTTACAGTAGAGCAGGATAAAA
196529335 ATACAAGAAC
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
134 1 0.01
135 112 0.99
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (135 bp):
GTCTCATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTTG
CATTGGAGCAGATCAAAGCCACAATCCTTATCTCTCTGAAGTTACAGTAGAGCAGGATAAAATTA
CCTAG
Found at i:196529352 original size:135 final size:135
Alignment explanation
Indices: 196529075--196529374 Score: 390
Period size: 135 Copynumber: 2.2 Consensus size: 135
196529065 AAGTAGAAGT
* * *
196529075 CTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGATCTTGTCTCCCTGAAGTTGCA
1 CTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTTGCA
* * *
196529140 TTGGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTACAGTAGGGCAGGATAAAATTACC
66 TTGGAGCAGATCAAAGCCACAATCCTTATCTCTCTGAAGTTACAGTAGAGCAGGATAAAAATACC
* **
196529205 TAGGT
131 AAGAC
* * * *
196529210 CTCATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGTTAGTAGATCTTATCTCCCTGAAGTTG-T
1 CTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTTGCA
* * * *
196529274 TGTGGTGTAGATCAAAGCCACAATCCTTATCTCTCTGAAGTTGCGGTAGAGCAGGATAAAAATA-
66 T-TGGAGCAGATCAAAGCCACAATCCTTATCTCTCTGAAGTTACAGTAGAGCAGGATAAAAATAC
196529338 CAAGAAC
130 CAAG-AC
*
196529345 CAT-ATCTCCCTGAAGTTGCAGTAGAGCAGA
1 C-TCATCTCCCTGAAGTTGCAGTGGAGCAGA
196529375 TTAAAAGCTA
Statistics
Matches: 143, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
134 4 0.03
135 138 0.97
136 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (135 bp):
CTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTTGCA
TTGGAGCAGATCAAAGCCACAATCCTTATCTCTCTGAAGTTACAGTAGAGCAGGATAAAAATACC
AAGAC
Found at i:196532261 original size:127 final size:126
Alignment explanation
Indices: 196532027--196532346 Score: 394
Period size: 127 Copynumber: 2.5 Consensus size: 126
196532017 GTAATAATTG
* * *
196532027 ATGTTTGGGAACTCGAGGAATCGTGCCCTACCGTGCTGGGTTTCGATTTTCCGTTTGACCAAATA
1 ATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTTGATTTTCCGTTTGACCAAATA
*
196532092 ATCAAATATTCCTTTGAAATTTCATCCGTACTTTCTAAATTCTAAAACAAGGCAATGTTCA
66 ATCAAATATTCCTTTGAAATTTCATCCGTACTTTATAAATTCTAAAACAAGGCAATGTTCA
* * * **
196532153 ATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTTGGTTTTGATTTT-CGATTTGTTTCAAA
1 ATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTTGATTTTCCG-TTTG-ACCAAA
** * ** *
196532217 TAATTGAATATTCCTTT-AGTATTTCAGT-CGTGTTTTATAAATTCTAAAGCAAGGCAATGTTCA
64 TAATCAAATATTCCTTTGA-AATTTCA-TCCGTACTTTATAAATTCTAAAACAAGGCAATGTTCA
* * * * * *
196532280 AGGTTTGGAAATTCGAGGAATCGTGCTCTACCGTGCTGGGTTTTGGTTTTTCGTTGGACTAAATA
1 ATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTTGATTTTCCGTTTGACCAAATA
196532345 AT
66 AT
196532347 TGGGCATCCT
Statistics
Matches: 164, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
125 2 0.01
126 56 0.34
127 103 0.63
128 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (126 bp):
ATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTTGATTTTCCGTTTGACCAAATA
ATCAAATATTCCTTTGAAATTTCATCCGTACTTTATAAATTCTAAAACAAGGCAATGTTCA
Found at i:196535081 original size:49 final size:49
Alignment explanation
Indices: 196534931--196535104 Score: 140
Period size: 49 Copynumber: 3.6 Consensus size: 49
196534921 TAAGATGCCA
* * * * *
196534931 ATGCCATGTCCCAGACATGGTCTTACACT-A-GCT-AGCACATCAAAGTCG
1 ATGCCATGTCCTAGACA-GGTCTTACACTGACTCTCA-TATATCAAGGTCG
* * * * *
196534979 ATGCCATGTCCTAGACAGATCTTACACTGATTTTCATATATCAAGGCCA
1 ATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCAAGGTCG
* * * **
196535028 ATGCCGTGTCCTAGACTGGTCTTACACTGACTCTCATCTAT-TGGTGTCG
1 ATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCAAG-GTCG
* *
196535077 ATGCCATGTCCCAAACAGGTCTTACACT
1 ATGCCATGTCCTAGACAGGTCTTACACT
196535105 AACACACAAC
Statistics
Matches: 99, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
47 10 0.10
48 18 0.18
49 70 0.71
50 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCAAGGTCG
Found at i:196535890 original size:20 final size:18
Alignment explanation
Indices: 196535853--196535903 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
196535843 CTATAGCAAC
196535853 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
196535870 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
196535890 TTACAACTTTACAA
1 TCACAA-TTTACAA
196535904 AATCGCACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:196541115 original size:40 final size:40
Alignment explanation
Indices: 196541068--196541271 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
196541058 CGGGCTTTAA
** *
196541068 CCGGATATAGCCACTCGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
196541108 CCGGATATAGTAGTTCGTACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
196541148 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
196541188 CCGGATATAGTAACTGGC-CAAATGCCTTCGGGACTTTTGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGAC-TTAGC
* * *
196541228 CC-GAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
196541268 CCGG
1 CCGG
196541272 TTATCATCCA
Statistics
Matches: 145, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 19 0.13
40 109 0.75
41 17 0.12
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:196549150 original size:40 final size:40
Alignment explanation
Indices: 196549069--196549244 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
196549059 AAACCAAGTA
* * * *
196549069 CCTTCGGGATTTA-ACCGGATATAG-CACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
196549107 CCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
196549147 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
196549187 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
196549227 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
196549245 TTATCATCCG
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
38 12 0.09
39 13 0.10
40 101 0.79
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:196555464 original size:79 final size:81
Alignment explanation
Indices: 196555363--196555547 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
196555353 ACGACTCGCT
** * *
196555363 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
196555426 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
196555443 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
196555507 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
196555523 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
196555548 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:196555547 original size:40 final size:39
Alignment explanation
Indices: 196555356--196555547 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
196555346 GGATATAACG
* ** * *
196555356 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
196555396 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
196555436 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
196555475 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
196555515 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
196555548 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:196563529 original size:78 final size:81
Alignment explanation
Indices: 196563411--196563593 Score: 227
Period size: 78 Copynumber: 2.3 Consensus size: 81
196563401 ACGACTCGCT
** * *
196563411 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
*
196563474 GGGTTTAGTAACTT-GCA
65 -GGATTAGTAACTTAGCA
**
196563491 CAAATGCCTTCGGG-CTTAGCCCGGATT-TA-TAACTCGCACGAATGCCTTCGGATCCTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
*
196563553 GATTAGTCACTTAGCA
66 GATTAGTAACTTAGCA
196563569 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
196563594 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
77 23 0.25
78 42 0.46
79 10 0.11
80 16 0.18
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
GATTAGTAACTTAGCA
Found at i:196563593 original size:39 final size:38
Alignment explanation
Indices: 196563404--196563593 Score: 152
Period size: 40 Copynumber: 4.8 Consensus size: 38
196563394 GGATATAACG
* ** * *
196563404 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGAT-TAGTA
* * *
196563444 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCC-GGATTAGTA
*
196563484 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTA-TA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGA-TTAGTA
* * * *
196563522 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATTAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATTAGTA
*
196563561 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
196563594 CATCATTCGA
Statistics
Matches: 121, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
37 2 0.02
38 20 0.17
39 43 0.36
40 50 0.41
41 6 0.05
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (38 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATTAGTA
Found at i:196565379 original size:37 final size:37
Alignment explanation
Indices: 196565321--196565427 Score: 178
Period size: 38 Copynumber: 2.8 Consensus size: 37
196565311 TCAATCATGC
*
196565321 ACTGGGCCGTAGCCCTTTTCATATTTCATATTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTCATAAT
*
196565359 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATA-TTCATAAT
196565397 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
196565428 ACTGGGCCGA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
37 18 0.28
38 47 0.72
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (37 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTCATAAT
Found at i:196565387 original size:31 final size:32
Alignment explanation
Indices: 196565344--196565444 Score: 118
Period size: 38 Copynumber: 3.1 Consensus size: 32
196565334 CCTTTTCATA
196565344 TTTCATA--TTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTTCATAATACTGGGCCGAAGCCT
196565374 TTTCATGTTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCA----T-AT-TTTCATAATACTGGGCCGAAGCCT
*
196565412 TTTCATA-TTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTTCATAATACTGGGCCGAAGCCT
196565443 TT
1 TT
196565445 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 15
0.79 0.01 0.19
Matches are distributed among these distances:
30 5 0.08
31 25 0.40
33 1 0.02
34 2 0.03
35 1 0.02
38 28 0.45
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (32 bp):
TTTCATATTTTCATAATACTGGGCCGAAGCCT
Found at i:196565682 original size:24 final size:24
Alignment explanation
Indices: 196565636--196565754 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
196565626 GCTTTATCAT
*
196565636 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
196565661 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
196565685 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
196565708 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
196565732 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
196565755 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:196565715 original size:47 final size:48
Alignment explanation
Indices: 196565636--196565754 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
196565626 GCTTTATCAT
*
196565636 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
196565685 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
196565732 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
196565755 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:196565830 original size:20 final size:20
Alignment explanation
Indices: 196565805--196565864 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
196565795 TATGATTACC
196565805 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
196565825 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
196565845 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
196565865 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:196565939 original size:25 final size:25
Alignment explanation
Indices: 196565907--196565954 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
196565897 ATACATAAAC
* * *
196565907 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
196565932 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
196565955 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:196573713 original size:37 final size:37
Alignment explanation
Indices: 196573659--196573763 Score: 165
Period size: 38 Copynumber: 2.8 Consensus size: 37
196573649 AATCATGCAC
*
196573659 TGGGCCGTAGCCCTTTTCATATTTCATATTCATAATAA
1 TGGGCCGAAG-CCTTTTCATATTTCATATTCATAATAA
* *
196573697 TGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATAC
1 TGGGCCGAAGCCTTTTCATATTTCATA-TTCATAATAA
196573735 TGGGCCGAAGCCTTTTCATATTTCATATT
1 TGGGCCGAAGCCTTTTCATATTTCATATT
196573764 ACTGGGCCGA
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
37 18 0.29
38 44 0.71
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (37 bp):
TGGGCCGAAGCCTTTTCATATTTCATATTCATAATAA
Found at i:196573723 original size:31 final size:31
Alignment explanation
Indices: 196573680--196573780 Score: 105
Period size: 31 Copynumber: 3.1 Consensus size: 31
196573670 CCTTTTCATA
196573680 TTTCATA-TTCATAATAATGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATAATGGGCCGAAG-C----C-T
*
196573716 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATAATGGGCCGAAGCCT
* *
196573748 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATAATGGGCCGAAGCCT
196573779 TT
1 TT
196573781 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
31 32 0.52
32 1 0.02
33 1 0.02
37 8 0.13
38 19 0.31
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATAATGGGCCGAAGCCT
Found at i:196574018 original size:24 final size:24
Alignment explanation
Indices: 196573972--196574090 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
196573962 GCTTTATCAT
*
196573972 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
196573997 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
196574021 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
196574044 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
196574068 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
196574091 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:196574051 original size:47 final size:48
Alignment explanation
Indices: 196573972--196574090 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
196573962 GCTTTATCAT
*
196573972 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
196574021 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
196574068 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
196574091 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:196574166 original size:20 final size:20
Alignment explanation
Indices: 196574141--196574200 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
196574131 TATGATTACC
196574141 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
196574161 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
196574181 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
196574201 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:196574275 original size:25 final size:25
Alignment explanation
Indices: 196574243--196574290 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
196574233 ATACATAAAC
* * *
196574243 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
196574268 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
196574291 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:196575137 original size:40 final size:39
Alignment explanation
Indices: 196574972--196575155 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
196574962 AAATTGATTG
* * *
196574972 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
196575012 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
196575052 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
196575092 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
196575131 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
196575156 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:196575180 original size:80 final size:81
Alignment explanation
Indices: 196575012--196575200 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
196575002 GCTGGAAATT
* * * *
196575012 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
196575077 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
196575093 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
196575156 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
196575172 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
196575201 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:196583253 original size:40 final size:39
Alignment explanation
Indices: 196583088--196583271 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
196583078 AAATTGAATG
* * *
196583088 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
196583128 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
196583168 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
196583208 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
196583247 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
196583272 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:196583296 original size:80 final size:81
Alignment explanation
Indices: 196583128--196583316 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
196583118 GCTGGAAATT
* * * *
196583128 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
196583193 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
196583209 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
196583272 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
196583288 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
196583317 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:196589749 original size:39 final size:40
Alignment explanation
Indices: 196589675--196589795 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
196589665 AAGTTCAGTA
196589675 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
196589715 TGTTATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
*
196589754 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCCGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
196589794 TG
1 TG
196589796 ATATGTATTC
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
39 39 0.49
40 40 0.51
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (40 bp):
TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
Found at i:196589845 original size:43 final size:43
Alignment explanation
Indices: 196589784--196589871 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
196589774 CCGAAGAGCA
*
196589784 TTCGTGCCGGTGATATGTATTCGGGTCTTCGTGCCTAGCAGGC
1 TTCGTGCCGGTGATATGTATTCCGGTCTTCGTGCCTAGCAGGC
196589827 TTCGTGCCGGTGATATGTATTCCGGTCTTCGTGCCTAGCAGGC
1 TTCGTGCCGGTGATATGTATTCCGGTCTTCGTGCCTAGCAGGC
196589870 TT
1 TT
196589872 AATACTGGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.11, C:0.24, G:0.31, T:0.34
Consensus pattern (43 bp):
TTCGTGCCGGTGATATGTATTCCGGTCTTCGTGCCTAGCAGGC
Found at i:196589882 original size:43 final size:43
Alignment explanation
Indices: 196589790--196589883 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
196589780 AGCATTCGTG
* ** *
196589790 CCGGTGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTTCGTG
1 CCGGTGATATGTATTCCGGTCTTCGTGCCTAGCAGGCTTAATA
196589833 CCGGTGATATGTATTCCGGTCTTCGTGCCTAGCAGGCTTAATA
1 CCGGTGATATGTATTCCGGTCTTCGTGCCTAGCAGGCTTAATA
*
196589876 CTGGTGAT
1 CCGGTGAT
196589884 TCGAGCAAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.33
Consensus pattern (43 bp):
CCGGTGATATGTATTCCGGTCTTCGTGCCTAGCAGGCTTAATA
Found at i:196591747 original size:93 final size:93
Alignment explanation
Indices: 196591635--196591806 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
196591625 CGCCCATAAG
* *
196591635 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
196591700 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
196591728 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
196591793 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
196591807 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:196591803 original size:46 final size:46
Alignment explanation
Indices: 196591628--196591803 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
196591618 TGTAACCCGC
* * *
196591628 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
196591674 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
196591724 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
196591767 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
196591804 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Done.