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 743 of 770
Found at i:235435288 original size:25 final size:25
Alignment explanation
Indices: 235435255--235435302 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
235435245 TTAAATTAAC
*
235435255 TATTATATATTA-TTTATTTTAAAAT
1 TATTATATA-TACCTTATTTTAAAAT
*
235435280 TATTTTATATACCTTATTTTAAA
1 TATTATATATACCTTATTTTAAA
235435303 CCCATTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTATATATACCTTATTTTAAAAT
Found at i:235437237 original size:40 final size:40
Alignment explanation
Indices: 235437192--235437321 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
235437182 CGGAATATAA
235437192 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
235437232 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
235437272 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
235437312 CCGGATATAA
1 CCGGATATAA
235437322 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:235437336 original size:40 final size:39
Alignment explanation
Indices: 235437208--235437357 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 39
235437198 ATAACCATGT
* * *
235437208 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
235437248 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
235437288 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
235437327 AGCATAATTGTCTTCGGG-CTTAGCCC-GATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
235437358 CATTCAATTT
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
38 5 0.05
39 9 0.10
40 77 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:235442249 original size:68 final size:70
Alignment explanation
Indices: 235442177--235442374 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
235442167 ACACCCTGTA
* * * *
235442177 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
235442239 ATAAAT
65 ATAAAT
*
235442245 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
235442310 ATAAAT
65 ATAAAT
*
235442316 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
235442375 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:235442288 original size:41 final size:41
Alignment explanation
Indices: 235442243--235442360 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
235442233 TGAAAGATAA
235442243 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
235442284 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235442314 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235442355 ATGTAG
1 ATGTAG
235442361 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:235442300 original size:71 final size:71
Alignment explanation
Indices: 235442211--235442374 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
235442201 GAGATGTATC
235442211 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235442276 AGGACA
66 AGGACA
235442282 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235442347 AGGACA
66 AGGACA
235442353 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
235442375 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:235449819 original size:68 final size:70
Alignment explanation
Indices: 235449747--235449944 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
235449737 ACACCCTGTA
* * * *
235449747 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
235449809 ATAAAT
65 ATAAAT
*
235449815 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
235449880 ATAAAT
65 ATAAAT
*
235449886 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
235449945 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:235449858 original size:41 final size:41
Alignment explanation
Indices: 235449813--235449930 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
235449803 TGAAAGATAA
235449813 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
235449854 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235449884 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235449925 ATGTAG
1 ATGTAG
235449931 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:235449870 original size:71 final size:71
Alignment explanation
Indices: 235449781--235449944 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
235449771 GAGATGTATC
235449781 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235449846 AGGACA
66 AGGACA
235449852 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235449917 AGGACA
66 AGGACA
235449923 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
235449945 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:235454267 original size:28 final size:27
Alignment explanation
Indices: 235454217--235454325 Score: 123
Period size: 27 Copynumber: 4.0 Consensus size: 27
235454207 AGCATGGATG
** *
235454217 CCAGAACAGATAA-CGTGATAGAGTCA
1 CCAGAACAGATAATCGTGGCAGAGCCA
235454243 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATCGTGGCAGAGCCA
*
235454271 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-CGTGGCAGAGCCA
* * *
235454298 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATCGTGGCAGAGCCA
235454325 C
1 C
235454326 TAGGACGTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATCGTGGCAGAGCCA
Found at i:235459401 original size:40 final size:40
Alignment explanation
Indices: 235459274--235459403 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
235459264 ATGCTGGAAA
* *
235459274 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
235459314 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
235459354 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
235459394 TTATATCCGG
1 TTATATCCGG
235459404 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:235467252 original size:28 final size:28
Alignment explanation
Indices: 235467183--235467283 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
235467173 GACAAGATTG
* * * *
235467183 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
235467213 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
235467241 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
235467270 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
235467284 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:235470576 original size:40 final size:40
Alignment explanation
Indices: 235470449--235470578 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
235470439 ATGCTGGAAA
* * *
235470449 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
235470489 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
235470529 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
235470569 TTATATCCGG
1 TTATATCCGG
235470579 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:235478130 original size:28 final size:28
Alignment explanation
Indices: 235478098--235478196 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
235478088 GCAATAAGCC
*
235478098 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
235478126 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
235478154 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
235478183 CGCACACTTAGTGC
1 CGCACACTTAGTGC
235478197 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:235480161 original size:28 final size:27
Alignment explanation
Indices: 235480098--235480167 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
235480088 ATAGTGAGTC
235480098 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
235480125 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
235480153 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
235480168 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:235485587 original size:19 final size:19
Alignment explanation
Indices: 235485563--235485601 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
235485553 AAGTTATATG
235485563 ATGTTTTGTTATGTGACTA
1 ATGTTTTGTTATGTGACTA
235485582 ATGTTTTGTTATGTGACTA
1 ATGTTTTGTTATGTGACTA
235485601 A
1 A
235485602 CTTATTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.21, T:0.51
Consensus pattern (19 bp):
ATGTTTTGTTATGTGACTA
Found at i:235487474 original size:17 final size:18
Alignment explanation
Indices: 235487432--235487480 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
235487422 AGTTGAAAAG
235487432 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
235487451 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
235487468 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
235487481 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:235488365 original size:40 final size:40
Alignment explanation
Indices: 235488299--235488449 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
235488289 AAATTGAATG
* * *
235488299 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
235488338 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
235488378 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
235488418 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
235488450 ACTGATTATA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:235497944 original size:14 final size:14
Alignment explanation
Indices: 235497925--235497951 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
235497915 ACCCTAGCTC
235497925 TTCCTGCCACGCCG
1 TTCCTGCCACGCCG
235497939 TTCCTGCCACGCC
1 TTCCTGCCACGCC
235497952 CGTGCGCCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.52, G:0.19, T:0.22
Consensus pattern (14 bp):
TTCCTGCCACGCCG
Found at i:235501082 original size:39 final size:39
Alignment explanation
Indices: 235501028--235501179 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
235501018 GAATGTTCGA
* *
235501028 GTGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
235501067 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
235501106 ATGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
235501145 GTGATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
235501180 GGTTACCATA
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 96 0.91
40 9 0.09
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:235501195 original size:39 final size:39
Alignment explanation
Indices: 235501029--235501210 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
235501019 AATGTTCGAG
* * *
235501029 TGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
235501068 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
235501107 TGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
235501146 TGATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
235501185 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
235501211 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 119 0.93
40 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:235501231 original size:79 final size:78
Alignment explanation
Indices: 235501038--235501248 Score: 203
Period size: 78 Copynumber: 2.7 Consensus size: 78
235501028 GTGATATCCA
** * * *
235501038 GGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA
1 GGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGA
** *
235501103 GCTATGATATCCG
66 GCTACCATAACCG
* ** *
235501116 GGTTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 GGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCG
* *
235501180 GGTTACCATAACCG
65 AGCTACCATAACCG
* ** *
235501194 GGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 GGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
235501249 TATGTGATTC
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
77 1 0.01
78 78 0.69
79 33 0.29
80 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
GGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGA
GCTACCATAACCG
Found at i:235509169 original size:39 final size:39
Alignment explanation
Indices: 235509115--235509259 Score: 245
Period size: 39 Copynumber: 3.7 Consensus size: 39
235509105 GAATGTTCGA
*
235509115 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
235509154 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
235509193 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
235509232 GTGATATCCGGGTTAAGTCCCGAAGGCA
1 GTGATATCCGGGCTAAG-CCCGAAGGCA
235509260 TTTTGCGCTT
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.90
40 10 0.10
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:235509307 original size:77 final size:77
Alignment explanation
Indices: 235509122--235509333 Score: 200
Period size: 78 Copynumber: 2.7 Consensus size: 77
235509112 CGAGTGATAT
** * *
235509122 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTTGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
** *
235509187 CGAGCTATGATAT
66 C-AGCTACCATAA
** *
235509200 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC-ATTTT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTTGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
235509264 GC-GCTTACCATAA
65 GCAGC-TACCATAA
* ** * *
235509277 CCGGGC-ATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTTG-TGATATCCGGGTTAAGC-CCGAAGG
235509334 TATGTGATCG
Statistics
Matches: 116, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
75 1 0.01
76 17 0.15
77 35 0.30
78 54 0.47
79 9 0.08
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTTGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CAGCTACCATAA
Found at i:235520288 original size:40 final size:40
Alignment explanation
Indices: 235520244--235520353 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
235520234 TTCACAATTT
* *
235520244 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
235520284 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
235520324 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
235520354 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:235528026 original size:40 final size:40
Alignment explanation
Indices: 235527982--235528091 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
235527972 TTCACAATTT
* *
235527982 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
235528022 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
235528062 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
235528092 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:235533004 original size:46 final size:46
Alignment explanation
Indices: 235532954--235533126 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
235532944 TGGTTGAGCA
235532954 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
235533000 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
235533045 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
235533093 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
235533127 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:235533110 original size:93 final size:93
Alignment explanation
Indices: 235532951--235533121 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
235532941 GGATGGTTGA
* *
235532951 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
235533016 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
235533044 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
235533109 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
235533122 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:235540637 original size:47 final size:46
Alignment explanation
Indices: 235540520--235540692 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
235540510 GGATGGTTGA
235540520 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
235540567 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
235540610 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
235540660 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
235540693 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 24
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.28
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:235540689 original size:93 final size:92
Alignment explanation
Indices: 235540520--235540689 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
235540510 GGATGGTTGA
* *
235540520 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
235540585 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
235540612 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
235540677 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
235540690 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 34 0.46
93 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:235548117 original size:47 final size:38
Alignment explanation
Indices: 235548047--235548159 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 38
235548037 GATGCGAATG
235548047 TCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCGAACTCGTTGAGTTGAGTCCGAGTTC-----ATGTAA-T-GG-A
235548093 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGTAATGGA
1 T-CGAACTCGTTGAGTTGAGTCCGAGTTCATGTAATGGA
235548132 TCGAACTCGTTGAGTTGAGT-CGAGTTCA
1 TCGAACTCGTTGAGTTGAGTCCGAGTTCA
235548160 CTTAGGGCGG
Statistics
Matches: 66, Mismatches: 0, Indels: 11
0.86 0.00 0.14
Matches are distributed among these distances:
37 8 0.12
38 19 0.29
39 2 0.03
40 2 0.03
41 1 0.02
42 6 0.09
46 1 0.02
47 27 0.41
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (38 bp):
TCGAACTCGTTGAGTTGAGTCCGAGTTCATGTAATGGA
Found at i:235549358 original size:17 final size:17
Alignment explanation
Indices: 235549336--235549376 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
235549326 TGAACGAGTA
235549336 GCTAGAAAGCTGTGAAT
1 GCTAGAAAGCTGTGAAT
235549353 GCTAGAAAGCTGTGAAT
1 GCTAGAAAGCTGTGAAT
235549370 G-TAGAAA
1 GCTAGAAA
235549377 CAAATGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.22
Consensus pattern (17 bp):
GCTAGAAAGCTGTGAAT
Found at i:235552903 original size:29 final size:29
Alignment explanation
Indices: 235552870--235552943 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
235552860 GTGACGAGAT
235552870 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
235552899 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
235552928 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
235552944 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:235552959 original size:29 final size:29
Alignment explanation
Indices: 235552927--235553002 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
235552917 CTGGAAATAT
* *
235552927 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
235552956 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
235552985 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
235553003 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:235552970 original size:58 final size:58
Alignment explanation
Indices: 235552870--235553002 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
235552860 GTGACGAGAT
* * * * * *
235552870 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
235552928 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
235552986 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
235553003 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:235554577 original size:26 final size:26
Alignment explanation
Indices: 235554548--235554598 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
235554538 ATATTTGGCT
*
235554548 ATAACAAAGATAAAT-TCTAACATTTC
1 ATAAC-AACATAAATATCTAACATTTC
*
235554574 ATAACAACATAAATATTTAACATTT
1 ATAACAACATAAATATCTAACATTT
235554599 AACTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (26 bp):
ATAACAACATAAATATCTAACATTTC
Found at i:235559102 original size:80 final size:80
Alignment explanation
Indices: 235559018--235559166 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
235559008 TATGGTAACC
* * * *
235559018 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
235559082 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
235559098 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
235559163 CCGG
66 CCGG
235559167 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:235559108 original size:40 final size:38
Alignment explanation
Indices: 235559059--235559166 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
235559049 ATCACGATTT
*
235559059 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
235559099 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
235559139 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
235559167 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:235567199 original size:80 final size:80
Alignment explanation
Indices: 235567115--235567263 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
235567105 TATGGTAACC
* * * *
235567115 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
235567179 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
235567195 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
235567260 CCGG
66 CCGG
235567264 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:235567205 original size:40 final size:38
Alignment explanation
Indices: 235567156--235567263 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
235567146 ATCACGATTT
*
235567156 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
235567196 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
235567236 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
235567264 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:235574578 original size:29 final size:29
Alignment explanation
Indices: 235574544--235574675 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
235574534 TACTCGATTT
** * *
235574544 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
235574573 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
235574602 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
235574631 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
235574660 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
235574676 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:235579209 original size:14 final size:16
Alignment explanation
Indices: 235579190--235579223 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
235579180 TGACGGGGTT
235579190 ATTAGTT-GTTCT-AA
1 ATTAGTTGGTTCTGAA
235579204 ATTAGTTGGTTCTGAA
1 ATTAGTTGGTTCTGAA
235579220 ATTA
1 ATTA
235579224 CCTTGTCGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 5 0.28
16 6 0.33
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (16 bp):
ATTAGTTGGTTCTGAA
Found at i:235584647 original size:29 final size:29
Alignment explanation
Indices: 235584614--235584678 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
235584604 GTGACGAGAT
235584614 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
235584643 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
235584672 CGGCACT
1 TGGCACT
235584679 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:235585209 original size:49 final size:49
Alignment explanation
Indices: 235585137--235585232 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
235585127 TGTGATAACT
235585137 TTATCAATGGGTGGTTGATGAATGCTTATGACTTACTGAGTTATAAAAG
1 TTATCAATGGGTGGTTGATGAATGCTTATGACTTACTGAGTTATAAAAG
235585186 TTATCAATGGGTGGTTGATGAATGCTTATGACTTACTGAGTTATAAA
1 TTATCAATGGGTGGTTGATGAATGCTTATGACTTACTGAGTTATAAA
235585233 CTTACTCGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (49 bp):
TTATCAATGGGTGGTTGATGAATGCTTATGACTTACTGAGTTATAAAAG
Found at i:235591149 original size:20 final size:20
Alignment explanation
Indices: 235591124--235591205 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
235591114 ATTTTGATAA
*
235591124 ACATGATATGTATGGTATGC
1 ACATGATATGTATGATATGC
235591144 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
235591164 ACATGA-ATGTATGATATGC
1 ACATGATATGTATGATATGC
235591183 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
235591203 ACA
1 ACA
235591206 CGATGTTCAT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
19 19 0.32
20 41 0.68
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:235591158 original size:9 final size:9
Alignment explanation
Indices: 235591126--235591201 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
235591116 TTTGATAAAC
235591126 ATGATATGT
1 ATGATATGT
* *
235591135 ATGGTATGCAC
1 ATGATATG--T
235591146 ATGATATGT
1 ATGATATGT
*
235591155 ATGATATGCAC
1 ATGATATG--T
235591166 ATGA-ATGT
1 ATGATATGT
*
235591174 ATGATATGCAC
1 ATGATATG--T
235591185 ATGATATGT
1 ATGATATGT
235591194 ATGATATG
1 ATGATATG
235591202 CACACGATGT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
8 4 0.08
9 26 0.50
10 3 0.06
11 19 0.37
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:235591175 original size:39 final size:40
Alignment explanation
Indices: 235591124--235591205 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 40
235591114 ATTTTGATAA
*
235591124 ACATGATATGTATGGTATGCACATGATATGTATGATATGC
1 ACATGATATGTATGATATGCACATGATATGTATGATATGC
235591164 ACATGA-ATGTATGATATGCACATGATATGTATGATATGC
1 ACATGATATGTATGATATGCACATGATATGTATGATATGC
235591203 ACA
1 ACA
235591206 CGATGTTCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 35 0.85
40 6 0.15
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGATATGTATGATATGC
Found at i:235591327 original size:47 final size:46
Alignment explanation
Indices: 235591258--235591353 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 46
235591248 AGGAAGTGCA
235591258 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATAT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTAT-T
235591305 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATT
235591351 AAA
1 AAA
235591354 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
46 4 0.08
47 35 0.73
48 9 0.19
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATT
Found at i:235591354 original size:23 final size:24
Alignment explanation
Indices: 235591257--235591374 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
235591247 GAGGAAGTGC
235591257 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
235591281 -AAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
235591303 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATT
235591328 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
235591351 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
235591375 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
22 1 0.01
23 40 0.46
24 36 0.41
25 10 0.11
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:235591600 original size:31 final size:32
Alignment explanation
Indices: 235591565--235591646 Score: 114
Period size: 31 Copynumber: 2.6 Consensus size: 32
235591555 CGTTTACAGT
235591565 AAAGGCTTCGGCCCAGTAATATGAAATATG-A
1 AAAGGCTTCGGCCCAGTAATATGAAATATGAA
**
235591596 AAAGGCTTCGGCCCAGTGTTATGAAATATGAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGAA
235591628 AAAGGGCTAT-GGCCCAGTA
1 AAA-GGCT-TCGGCCCAGTA
235591647 CATGTTGAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 28 0.62
32 4 0.09
33 12 0.27
34 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (32 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:235597181 original size:31 final size:31
Alignment explanation
Indices: 235597143--235597206 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
235597133 CCTTTTCATA
235597143 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
235597174 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
235597205 TT
1 TT
235597207 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:235597444 original size:24 final size:24
Alignment explanation
Indices: 235597398--235597516 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
235597388 GCTTTATCAT
*
235597398 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
235597423 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
235597447 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
235597470 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
235597494 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
235597517 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:235597477 original size:47 final size:48
Alignment explanation
Indices: 235597398--235597516 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
235597388 GCTTTATCAT
*
235597398 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
235597447 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
235597494 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
235597517 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:235597592 original size:20 final size:20
Alignment explanation
Indices: 235597567--235597626 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
235597557 TATGATTACC
235597567 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
235597587 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
235597607 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
235597627 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:235597701 original size:25 final size:25
Alignment explanation
Indices: 235597669--235597716 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
235597659 ATACATAAAC
* * *
235597669 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
235597694 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
235597717 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:235605465 original size:31 final size:31
Alignment explanation
Indices: 235605427--235605490 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
235605417 CCTTTTCATA
235605427 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
235605458 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
235605489 TT
1 TT
235605491 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:235605732 original size:23 final size:24
Alignment explanation
Indices: 235605682--235605797 Score: 150
Period size: 23 Copynumber: 4.9 Consensus size: 24
235605672 GCTTTATCAT
* *
235605682 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTCA
235605707 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTCA
*
235605730 ATAACTGGGGCATAAGCCCTTT-T
1 ATAACTGGGGCATAAGCCCTTTCA
*
235605753 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTCA
235605777 ATAACT-GGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
235605798 TTCACTTCCT
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
23 54 0.64
24 22 0.26
25 8 0.10
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTCA
Found at i:235605760 original size:46 final size:48
Alignment explanation
Indices: 235605682--235605798 Score: 170
Period size: 46 Copynumber: 2.5 Consensus size: 48
235605672 GCTTTATCAT
*
235605682 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
*
235605730 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
235605777 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
235605799 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 28 0.43
47 25 0.38
48 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:235605874 original size:20 final size:20
Alignment explanation
Indices: 235605849--235605908 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
235605839 TATGATTACC
235605849 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
235605869 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
235605889 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
235605909 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:235605983 original size:25 final size:25
Alignment explanation
Indices: 235605951--235605998 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
235605941 ATACATAAAC
* * *
235605951 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
235605976 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
235605999 CATATTAAGG
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:235615165 original size:40 final size:41
Alignment explanation
Indices: 235615120--235615246 Score: 158
Period size: 40 Copynumber: 3.2 Consensus size: 41
235615110 CTGGAAATTA
*
235615120 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTA-GTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC-ACGTGG-TAC
*
235615161 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCACGTGGTTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCACGTGGTAC
*
235615200 TATCCGGGCTAAGACTCGAAGGC-ATTCGTGCACGTGGTTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCACGTGG-TAC
235615240 TATCCGG
1 TATCCGG
235615247 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
39 6 0.08
40 71 0.91
41 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCACGTGGTAC
Found at i:235621218 original size:11 final size:11
Alignment explanation
Indices: 235621182--235621237 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
235621172 CATGGTATGT
235621182 ATGATATGCAC
1 ATGATATGCAC
* *
235621193 ATGACATG--T
1 ATGATATGCAC
235621202 ATGATATGCAC
1 ATGATATGCAC
*
235621213 ATGATATG--T
1 ATGATATGCAC
235621222 ATGATATGCAC
1 ATGATATGCAC
235621233 ATGAT
1 ATGAT
235621238 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:235621237 original size:20 final size:20
Alignment explanation
Indices: 235621171--235621237 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
235621161 ATTTTGATAA
*
235621171 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
235621191 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
235621211 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
235621231 ACATGAT
1 ACATGAT
235621238 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:235621313 original size:24 final size:24
Alignment explanation
Indices: 235621286--235621361 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
235621276 GGAGGAAGTG
235621286 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
235621310 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
235621333 TAAAAGGGCTTTTGCCCCATTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
235621357 TAAAA
1 TAAAA
235621362 CAGGCTAGGC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.47
24 26 0.53
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:235621317 original size:23 final size:23
Alignment explanation
Indices: 235621288--235621360 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
235621278 AGGAAGTGTA
235621288 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
235621311 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
235621334 AAAAGGGCTTTTGCCCCATTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
235621358 AAA
1 AAA
235621361 ACAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:235621618 original size:29 final size:30
Alignment explanation
Indices: 235621575--235621636 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
235621565 CATTTACAGT
235621575 AAAGGCTTCGGCCCAGTAATATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
**
235621605 AAAGG-TTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
235621634 AAA
1 AAA
235621637 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATG
Found at i:235623577 original size:27 final size:27
Alignment explanation
Indices: 235623555--235623703 Score: 217
Period size: 27 Copynumber: 5.5 Consensus size: 27
235623545 TTAGTTTACC
235623555 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * * *
235623582 AAATTACTAAAATAACCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
235623609 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
235623636 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
235623663 AAATTATCAAAATACCCCTAGTTTGGA
1 AAATTACCAAAATACCCCTAGTTTGTA
235623690 AAATTACCAAAATA
1 AAATTACCAAAATA
235623704 TTCCTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:235623693 original size:81 final size:81
Alignment explanation
Indices: 235623555--235623733 Score: 234
Period size: 81 Copynumber: 2.2 Consensus size: 81
235623545 TTAGTTTACC
* * *
235623555 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATAACCTTTGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATAACCCTAGTTTAGAAAATTACCAAA
*
235623620 ATACCCCTGGTTTGTA
66 ATACCCCTGATTTGTA
* * *
235623636 AAATTACCAAAATACCCCTGGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGGAAAATTACCAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATAACCCTAGTTTAGAAAATTACCAA
** *
235623700 AATATTCCTGATTTGTG
65 AATACCCCTGATTTGTA
**
235623717 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
235623734 TCGACCTGTA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 84 0.99
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATAACCCTAGTTTAGAAAATTACCAAA
ATACCCCTGATTTGTA
Found at i:235623714 original size:27 final size:27
Alignment explanation
Indices: 235623555--235623733 Score: 159
Period size: 27 Copynumber: 6.6 Consensus size: 27
235623545 TTAGTTTACC
*
235623555 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGGA
* ** **
235623582 AAATTACTAAAATAACCTTTG-TTTATA
1 AAATTACCAAAAT-ACCCCTGATTTGGA
* *
235623609 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGGA
* *
235623636 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGGA
*
235623663 AAATTATCAAAATACCCCT-AGTTTGGA
1 AAATTACCAAAATACCCCTGA-TTTGGA
**
235623690 AAATTACCAAAATATTCCTGATTTGTG-
1 AAATTACCAAAATACCCCTGATTTG-GA
**
235623717 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
235623734 TCGACCTGTA
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.04
27 117 0.91
28 6 0.05
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGGA
Found at i:235623715 original size:54 final size:52
Alignment explanation
Indices: 235623555--235623733 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 52
235623545 TTAGTTTACC
* *
235623555 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATAACCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAACC--TGTTTGTA
* *
235623609 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-ACCT-GTTTGTA
* * * *
235623663 AAATTATCAAAATACCCCTAGTTTGGAAAATTACCAAAATATTCCTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-ACCTG-TTTGTA
**
235623717 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
235623734 TCGACCTGTA
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.02
54 105 0.96
55 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (52 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAACCTGTTTGTA
Found at i:235623747 original size:27 final size:28
Alignment explanation
Indices: 235623717--235623777 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
235623707 CTGATTTGTG
235623717 AAATTACT-GAAATACCCTCGACCTGTA
1 AAATTACTAGAAATACCCTCGACCTGTA
* * *
235623744 AAATTA-TAGACATACCTTCGACTTGTA
1 AAATTACTAGAAATACCCTCGACCTGTA
235623771 AAATTAC
1 AAATTAC
235623778 CAAAGTACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (28 bp):
AAATTACTAGAAATACCCTCGACCTGTA
Found at i:235623813 original size:27 final size:27
Alignment explanation
Indices: 235623783--235623955 Score: 206
Period size: 27 Copynumber: 6.4 Consensus size: 27
235623773 ATTACCAAAG
235623783 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTTGATTTACAGAATTACCGTTT
* **
235623810 TACCC-TCAGTTTACAGAATTACTATTT
1 TACCCTTGA-TTTACAGAATTACCGTTT
* *
235623837 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTTGATTTACAGAATTACCGTTT
* *
235623864 TACCC-TCAGTTTACAGAATTACTGTTT
1 TACCCTTGA-TTTACAGAATTACCGTTT
* * *
235623891 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTTGATTTACAGAATTACCGTTT
* *
235623918 TACCCTTAATTTACAAAATTACCGTTT
1 TACCCTTGATTTACAGAATTACCGTTT
235623945 TACCCTTGATT
1 TACCCTTGATT
235623956 ATGAAATTAC
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.02
27 116 0.96
28 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATTACCGTTT
Found at i:235623830 original size:54 final size:54
Alignment explanation
Indices: 235623783--235623955 Score: 238
Period size: 54 Copynumber: 3.2 Consensus size: 54
235623773 ATTACCAAAG
* *
235623783 TACCCTTGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTT
* **
235623837 TACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTT
* * * * * *
235623891 TACCCTCGATTTACAAAATTATCGTTTTACCCTTAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTT
*
235623945 TACCCTTGATT
1 TACCCTCGATT
235623956 ATGAAATTAC
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTT
Found at i:235623990 original size:27 final size:27
Alignment explanation
Indices: 235623960--235624154 Score: 230
Period size: 27 Copynumber: 7.2 Consensus size: 27
235623950 TTGATTATGA
235623960 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
235623987 AATTTCTGAAATACCCCTATAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
235624014 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
235624041 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
235624068 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
235624095 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
235624122 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
235624149 AATTAC
1 AATTAC
235624155 CATTTTGCCC
Statistics
Matches: 143, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:235624233 original size:22 final size:22
Alignment explanation
Indices: 235624203--235624250 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
235624193 TGTGGGCAAG
*
235624203 TGACTGACTTGGACTGTG-TGTT
1 TGACGGACTT-GACTGTGATGTT
235624225 TGACGGACTTGACTGTGATTGTT
1 TGACGGACTTGACTGTGA-TGTT
235624248 TGA
1 TGA
235624251 TTCAAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 9 0.39
23 7 0.30
ACGTcount: A:0.17, C:0.12, G:0.31, T:0.40
Consensus pattern (22 bp):
TGACGGACTTGACTGTGATGTT
Found at i:235624358 original size:27 final size:26
Alignment explanation
Indices: 235624320--235624402 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
235624310 CGGAGGAAGC
*
235624320 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
235624347 GTTCTGGTGGCTCTGCCACAATTTCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
235624373 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
235624400 GTT
1 GTT
235624403 GACCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 9 0.18
27 40 0.82
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:235624522 original size:22 final size:22
Alignment explanation
Indices: 235624490--235624548 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
235624480 CCCGTTATTA
*
235624490 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
235624512 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
235624534 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
235624549 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:235624735 original size:27 final size:27
Alignment explanation
Indices: 235624713--235624786 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
235624703 TAGGTGGGTT
*
235624713 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
235624740 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
235624767 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
235624787 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:235624913 original size:6 final size:6
Alignment explanation
Indices: 235624904--235625090 Score: 156
Period size: 6 Copynumber: 30.8 Consensus size: 6
235624894 TTGCATTCAC
*
235624904 ATTCTG ATTCTG ATTCTG --TCATG TAATTTTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG --ATTCTG ATTCTG ATTCTG ATTCTG
* * *
235624953 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTTTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
235625001 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
*
235625050 ATTCTG ATTCTA ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
235625091 CATTTTGGTT
Statistics
Matches: 147, Mismatches: 16, Indels: 36
0.74 0.08 0.18
Matches are distributed among these distances:
4 2 0.01
5 12 0.08
6 120 0.82
7 8 0.05
8 4 0.03
9 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:235624969 original size:30 final size:30
Alignment explanation
Indices: 235624904--235625090 Score: 215
Period size: 30 Copynumber: 6.4 Consensus size: 30
235624894 TTGCATTCAC
* * **
235624904 ATTCTGATTCTGATTCTGTCATGTAATTTTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
235624935 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
235624965 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * *
235624989 ATTTTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
*
235625020 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * *
235625050 ATTCTGATTCTAATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
235625080 ATTCTGATTCT
1 ATTCTGATTCT
235625091 CATTTTGGTT
Statistics
Matches: 135, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
24 22 0.16
26 1 0.01
29 1 0.01
30 68 0.50
31 43 0.32
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:235625044 original size:85 final size:85
Alignment explanation
Indices: 235624904--235625090 Score: 320
Period size: 85 Copynumber: 2.2 Consensus size: 85
235624894 TTGCATTCAC
** *
235624904 ATTCTGATTCTGATTCTGTCATGTAATTTTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
235624969 TGATTCTGATTCTGTTACTG
66 TGATTCTAATTCTGTTACTG
* *
235624989 ATTTTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
235625054 TGATTCTAATTCTGTTACTG
66 TGATTCTAATTCTGTTACTG
235625074 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
235625091 CATTTTGGTT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 95 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTAATTCTGTTACTG
Found at i:235629747 original size:40 final size:40
Alignment explanation
Indices: 235629702--235629868 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
235629692 CGGAATATAA
*
235629702 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
235629742 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
235629782 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
235629822 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
235629861 CCGGATAT
1 CCGGATAT
235629869 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235637670 original size:40 final size:39
Alignment explanation
Indices: 235637625--235637754 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
235637615 CGGAATATAA
235637625 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
235637665 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
235637705 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
235637745 CCGGATATAA
1 CCGGATATAA
235637755 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:235637769 original size:40 final size:40
Alignment explanation
Indices: 235637641--235637791 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
235637631 ATAACCATGT
* * *
235637641 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
235637681 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
235637721 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
235637761 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
235637792 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:235637775 original size:80 final size:79
Alignment explanation
Indices: 235637641--235637789 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
235637631 ATAACCATGT
* *
235637641 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
235637706 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
235637721 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
235637784 CCGGAT
64 CCGGAT
235637790 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:235644384 original size:40 final size:40
Alignment explanation
Indices: 235644279--235644534 Score: 378
Period size: 40 Copynumber: 6.5 Consensus size: 40
235644269 CGGATGATAA
* *
235644279 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
235644319 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
235644358 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
235644398 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
235644438 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
235644477 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
235644517 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
235644535 TACTTGGTTG
Statistics
Matches: 200, Mismatches: 12, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
39 88 0.44
40 112 0.56
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:235644444 original size:79 final size:79
Alignment explanation
Indices: 235644282--235644534 Score: 386
Period size: 79 Copynumber: 3.2 Consensus size: 79
235644272 ATGATAACCG
* * *
235644282 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTTGTG
235644345 CGAGTTACTATATCC
65 CGAGTTACTATATCC
*
235644360 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGTG
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTG
235644425 CGAGTTACTATATCC
65 CGAGTTACTATATCC
*
235644440 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
*
235644505 AAG-TAGCTATATCC
66 GAGTTA-CTATATCC
* *
235644519 GGCTAAATTCCGAAGG
1 GGCTAAGTCCCGAAGG
235644535 TACTTGGTTG
Statistics
Matches: 162, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
78 2 0.01
79 129 0.80
80 31 0.19
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGTTACTATATCC
Found at i:235644486 original size:119 final size:119
Alignment explanation
Indices: 235644275--235644501 Score: 386
Period size: 119 Copynumber: 1.9 Consensus size: 119
235644265 TATTCGGATG
* *
235644275 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
*
235644340 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
235644394 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATATCC-GGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
235644457 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
64 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
235644502 AGCAAGTAGC
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
118 9 0.09
119 93 0.91
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:235652021 original size:29 final size:29
Alignment explanation
Indices: 235651959--235652061 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
235651949 GTGACGAGAT
* * *
235651959 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
235651988 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
235652017 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
235652046 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
235652062 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:235657761 original size:26 final size:26
Alignment explanation
Indices: 235657726--235657778 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
235657716 AAGAAAAAAA
235657726 TTTTGCTCATCCATTTCATTCTCTCT
1 TTTTGCTCATCCATTTCATTCTCTCT
235657752 TTTTGCTCATCCATTTCATTCTCTCT
1 TTTTGCTCATCCATTTCATTCTCTCT
235657778 T
1 T
235657779 GACCGAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.11, C:0.30, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTTGCTCATCCATTTCATTCTCTCT
Found at i:235659007 original size:29 final size:29
Alignment explanation
Indices: 235658945--235659047 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
235658935 GTGACGAGAT
* * *
235658945 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
235658974 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
235659003 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
235659032 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
235659048 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:235663144 original size:43 final size:42
Alignment explanation
Indices: 235663052--235663155 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 42
235663042 GTGATTTATG
* *
235663052 TGTAAGACCATGTCTGGGACATCGGTATCGTATATGAGTTCG
1 TGTAAGACCATGTCTGGGACATCGGCATCGTATATGAGTTCA
* * *
235663094 TGTAAGACCCTGTTTGGGACAGT-GGCATC-TATATGTGATTACA
1 TGTAAGACCATGTCTGGGACA-TCGGCATCGTATATGAG-TT-CA
**
235663137 TGTAAGACCACATCTGGGA
1 TGTAAGACCATGTCTGGGA
235663156 TGTTGGCATT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
41 7 0.14
42 26 0.52
43 17 0.34
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGTATATGAGTTCA
Found at i:235665492 original size:40 final size:40
Alignment explanation
Indices: 235665433--235665640 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
235665423 CAATTGAATG
* * * *
235665433 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
235665473 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
235665513 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
235665553 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
235665593 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
235665633 ATATCCGG
1 ATATCCGG
235665641 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:235665571 original size:80 final size:80
Alignment explanation
Indices: 235665435--235665640 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
235665425 ATTGAATGAT
* * ** * * *
235665435 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
235665499 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
235665515 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
235665580 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
235665595 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
235665641 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:235668430 original size:40 final size:40
Alignment explanation
Indices: 235668364--235668530 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
235668354 AAATTGAATG
* * *
235668364 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
235668403 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
235668443 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
235668483 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
235668523 ATATCCGG
1 ATATCCGG
235668531 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 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:235675843 original size:40 final size:40
Alignment explanation
Indices: 235675777--235675943 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
235675767 AAATTGAATG
* * *
235675777 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
235675816 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
235675856 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
235675896 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
235675936 ATATCCGG
1 ATATCCGG
235675944 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 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:235684369 original size:45 final size:45
Alignment explanation
Indices: 235684318--235684409 Score: 168
Period size: 45 Copynumber: 2.0 Consensus size: 45
235684308 GATTAAATTG
235684318 AAAGAAATTGTGTTTAAATGAGGTT-ATTTGAAAATTATATAGATC
1 AAAGAAATTGTGTTTAAATGAGGTTAATTTG-AAATTATATAGATC
235684363 AAAGAAATTGTGTTTAAATGAGGTTAATTTGAAATTATATAGATC
1 AAAGAAATTGTGTTTAAATGAGGTTAATTTGAAATTATATAGATC
235684408 AA
1 AA
235684410 GAACAAAAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 41 0.89
46 5 0.11
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.37
Consensus pattern (45 bp):
AAAGAAATTGTGTTTAAATGAGGTTAATTTGAAATTATATAGATC
Found at i:235686654 original size:12 final size:12
Alignment explanation
Indices: 235686637--235686661 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
235686627 TGACAACCCG
235686637 AATTAGGGCCTA
1 AATTAGGGCCTA
235686649 AATTAGGGCCTA
1 AATTAGGGCCTA
235686661 A
1 A
235686662 TCGGAATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
AATTAGGGCCTA
Found at i:235694577 original size:41 final size:41
Alignment explanation
Indices: 235694532--235694649 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
235694522 TGAAAGATAA
235694532 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
235694573 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235694603 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235694644 ATGTAG
1 ATGTAG
235694650 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:235694588 original size:71 final size:71
Alignment explanation
Indices: 235694500--235694663 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
235694490 GAGATGTATC
235694500 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235694565 AGGACA
66 AGGACA
235694571 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235694636 AGGACA
66 AGGACA
235694642 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
235694664 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:235701687 original size:41 final size:41
Alignment explanation
Indices: 235701642--235701759 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
235701632 TGAAAGATAA
235701642 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
235701683 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235701713 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235701754 ATGTAG
1 ATGTAG
235701760 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:235701698 original size:71 final size:71
Alignment explanation
Indices: 235701610--235701773 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
235701600 GAGATGTATC
235701610 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235701675 AGGACA
66 AGGACA
235701681 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235701746 AGGACA
66 AGGACA
235701752 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
235701774 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:235703265 original size:31 final size:29
Alignment explanation
Indices: 235703197--235703271 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
235703187 TTTTGATTTT
*
235703197 TGATTCTGTTACCTGATACCCTGATGATTT
1 TGATTCTGTTACCTGATA-CCTGATGATTC
235703227 TGATTCTGTTACCTGATA-CTGATTCCGATTC
1 TGATTCTGTTACCTGATACCTGA-T--GATTC
*
235703258 TGATTCTGTCACCT
1 TGATTCTGTTACCT
235703272 ATTTTTTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 4 0.10
29 1 0.03
30 18 0.45
31 17 0.43
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.43
Consensus pattern (29 bp):
TGATTCTGTTACCTGATACCTGATGATTC
Found at i:235707150 original size:40 final size:40
Alignment explanation
Indices: 235706995--235707169 Score: 250
Period size: 40 Copynumber: 4.4 Consensus size: 40
235706985 GACGATAACG
* *
235706995 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
235707035 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
235707074 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
235707114 GGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
235707154 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
235707170 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
39 55 0.44
40 71 0.56
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:235707165 original size:79 final size:79
Alignment explanation
Indices: 235706995--235707169 Score: 239
Period size: 79 Copynumber: 2.2 Consensus size: 79
235706985 GACGATAACG
* * *
235706995 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAG
235707060 CGAGTTACTATTCC
66 CGAGTTACTATTCC
* *
235707074 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGA
*
235707138 GTGAG-TAGCTATATCC
65 GCGAGTTA-CTAT-TCC
*
235707154 -GGTTAAATCCCGAAGG
1 GGGCTAAATCCCGAAGG
235707170 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
78 4 0.05
79 80 0.92
80 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
GGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAG
CGAGTTACTATTCC
Found at i:235722497 original size:40 final size:40
Alignment explanation
Indices: 235722442--235722697 Score: 394
Period size: 40 Copynumber: 6.4 Consensus size: 40
235722432 GATGATAACG
* *
235722442 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
235722482 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
235722522 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
235722562 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
235722602 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
235722642 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
235722682 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
235722698 TACTTGGTTT
Statistics
Matches: 206, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 16 0.08
40 189 0.92
41 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:235729519 original size:26 final size:27
Alignment explanation
Indices: 235729484--235729623 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
235729474 CGATTTACAA
*
235729484 AATTATTGAAATACCCCTGTAGGGT-G
1 AATTACTGAAATACCCCTGTAGGGTAG
*
235729510 AATTACTGAAATACCCATGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
235729537 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
235729564 AAATATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
235729591 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
235729618 AATTAC
1 AATTAC
235729624 CATTTTACCT
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
26 24 0.24
27 74 0.75
28 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:235729593 original size:54 final size:54
Alignment explanation
Indices: 235729484--235729620 Score: 188
Period size: 54 Copynumber: 2.6 Consensus size: 54
235729474 CGATTTACAA
* * *
235729484 AATTATTGAAATACCCCTGTAGGGT-GAATTACTGAAATACCCATGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCATGTAGGGTAG
* *
235729537 AATTATCGAAATACCCTTGTAGGGTAGAAATATTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCATGTAGGGTAG
* * *
235729591 AATTACCGAGATACCCTTGTGGGGTA-AAAT
1 AATTATCGAAATACCCTTGTAGGGTAGAAAT
235729621 TACCATTTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
53 27 0.36
54 48 0.64
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (54 bp):
AATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCATGTAGGGTAG
Found at i:235730213 original size:25 final size:28
Alignment explanation
Indices: 235730180--235730231 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
235730170 TTGTGCCACG
*
235730180 TATTCTG-TT-AAGTGGCTTTGCCACAT
1 TATTCTGTTTCAAGTGGCTATGCCACAT
*
235730206 TATT-TGTTTCTAGTGGCTATGCCACA
1 TATTCTGTTTCAAGTGGCTATGCCACA
235730232 AATATCTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 2 0.09
26 6 0.27
27 14 0.64
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (28 bp):
TATTCTGTTTCAAGTGGCTATGCCACAT
Found at i:235730243 original size:27 final size:26
Alignment explanation
Indices: 235730190--235730266 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
235730180 TATTCTGTTA
* * *
235730190 AGTGGCTTTGCCACATTATTTGTTTCT
1 AGTGGCTATGCCACAATATCTG-TTCT
235730217 AGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTATGCCAC-AATATCTGTTCT
* * *
235730244 GGTCGCTCTGCCACAATATCTGT
1 AGTGGCTATGCCACAATATCTGT
235730267 ATCTGATGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
26 9 0.21
27 28 0.65
28 6 0.14
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
AGTGGCTATGCCACAATATCTGTTCT
Found at i:235730279 original size:27 final size:26
Alignment explanation
Indices: 235730225--235730297 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
235730215 CTAGTGGCTA
*
235730225 TGCCACAAATATCTGTTCTGGTCGCTC
1 TGCCAC-AATATCTGTTCTGATCGCTC
235730252 TGCCACAATATCTGTATCTGAT-GACTC
1 TGCCACAATATCTGT-TCTGATCG-CTC
** *
235730279 TGTTACAATATCTATTCTG
1 TGCCACAATATCTGTTCTG
235730298 GCAGCCATGC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 14 0.35
27 26 0.65
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGATCGCTC
Found at i:235730449 original size:25 final size:26
Alignment explanation
Indices: 235730418--235730789 Score: 432
Period size: 25 Copynumber: 14.6 Consensus size: 26
235730408 GCATTCATAT
235730418 TCTGATTCTGATTCTGTTACCTGATA
1 TCTGATTCTGATTCTGTTACCTGATA
* *
235730444 T-TGATTCTGATTCTGTCACCTAATTCTGA
1 TCTGATTCTGATTCTGTTACCTGA---T-A
*
235730473 TTCTGATTCTGATTCTGTTACTTGATA
1 -TCTGATTCTGATTCTGTTACCTGATA
*
235730500 -CTGATTCTGATAT-TGTTACCTAAT-
1 TCTGATTCTGAT-TCTGTTACCTGATA
235730524 TCTGATTCTGATTCTGTTACCTGATA
1 TCTGATTCTGATTCTGTTACCTGATA
* *
235730550 -CTGATTCTGATTCTGTCACCTAAT-
1 TCTGATTCTGATTCTGTTACCTGATA
* *
235730574 TCTGATTCTGATTCTGTCACCTAAT-
1 TCTGATTCTGATTCTGTTACCTGATA
235730599 TCTGATTCTGATTCTGTTA-CTAGATA
1 TCTGATTCTGATTCTGTTACCT-GATA
* *
235730625 -CTGATTCTGATTCTGTCACCTAAT-
1 TCTGATTCTGATTCTGTTACCTGATA
235730649 TCTGATTCTGATTCTGTTACCTGATA
1 TCTGATTCTGATTCTGTTACCTGATA
*
235730675 -CTGATTCTGATTCTGTCACCTGAT-
1 TCTGATTCTGATTCTGTTACCTGATA
*
235730699 TCTGATTCTGGTTCTGTTACCTGATA
1 TCTGATTCTGATTCTGTTACCTGATA
235730725 -CTGATTCTGATTCTGTTACCTGATA
1 TCTGATTCTGATTCTGTTACCTGATA
* * *
235730750 -CTCATTCTGATTCTGTCACCTAAT-
1 TCTGATTCTGATTCTGTTACCTGATA
*
235730774 TCTGATTCTAATTCTG
1 TCTGATTCTGATTCTG
235730790 ATTCTCATTT
Statistics
Matches: 302, Mismatches: 25, Indels: 39
0.83 0.07 0.11
Matches are distributed among these distances:
24 3 0.01
25 271 0.90
26 4 0.01
27 1 0.00
28 2 0.01
29 1 0.00
30 1 0.00
31 19 0.06
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (26 bp):
TCTGATTCTGATTCTGTTACCTGATA
Found at i:235730535 original size:31 final size:31
Alignment explanation
Indices: 235730416--235730794 Score: 138
Period size: 31 Copynumber: 12.5 Consensus size: 31
235730406 TTGCATTCAT
*
235730416 ATTCTGATTCTGATTCTGTTACCTGA---T-
1 ATTCTGATTCTGATTCTGTTACCTAATTCTG
*
235730443 A-T-TGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATTCTG
235730472 ATTCTGATTCTGATTCTGTTA-C----T-TG
1 ATTCTGATTCTGATTCTGTTACCTAATTCTG
*
235730497 ATACTGATTCTGATAT-TGTTACCTAATTCTG
1 ATTCTGATTCTGAT-TCTGTTACCTAATTCTG
* *
235730528 ATTCTGATTCTG-TTACCTGATA-CTGATTCTG
1 ATTCTGATTCTGATT--CTGTTACCTAATTCTG
* * * *
235730559 ATTCTGTCACCTAATTCTGATTCTGATT-CTGTCA-CCTA
1 ATTCTG-------ATTCTGATTCTG-TTAC-CTAATTCTG
235730597 ATTCTGATTCTGATTCTGTTA-CT-A----G
1 ATTCTGATTCTGATTCTGTTACCTAATTCTG
* *
235730622 ATACTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATTCTG
* *
235730653 ATTCTGATTCTG-TTACCTGATA-CTGATTCTG
1 ATTCTGATTCTGATT--CTGTTACCTAATTCTG
* **
235730684 ATTCTG-TCACCTGATTCTGATT--CTGGTTCTG
1 ATTCTGAT--TCTGATTCTG-TTACCTAATTCTG
* *
235730715 -TTACCTGATACTGATTCTGATT--CT-GTTACCTG
1 ATT--CTGATTCTGATTCTG-TTACCTAATT--CTG
* * *
235730747 ATACTCATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATTCTG
*
235730778 ATTCTAATTCTGATTCT
1 ATTCTGATTCTGATTCT
235730795 CATTTTGGTT
Statistics
Matches: 272, Mismatches: 31, Indels: 94
0.69 0.08 0.24
Matches are distributed among these distances:
25 59 0.22
26 6 0.02
27 2 0.01
28 2 0.01
29 3 0.01
30 15 0.06
31 137 0.50
32 20 0.07
33 6 0.02
37 3 0.01
38 15 0.06
39 4 0.01
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTAATTCTG
Found at i:235733558 original size:30 final size:29
Alignment explanation
Indices: 235733464--235733565 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
235733454 TATAGTGAAT
* * *
235733464 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
235733493 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
235733521 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
235733551 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
235733566 CGTGACCGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:235740709 original size:12 final size:12
Alignment explanation
Indices: 235740692--235740716 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
235740682 AATAATAGCC
235740692 TATACATGCCAA
1 TATACATGCCAA
235740704 TATACATGCCAA
1 TATACATGCCAA
235740716 T
1 T
235740717 GTTCAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (12 bp):
TATACATGCCAA
Found at i:235741328 original size:30 final size:29
Alignment explanation
Indices: 235741234--235741335 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
235741224 TATAGTGAAT
* * *
235741234 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
235741263 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
235741291 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
235741321 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
235741336 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:235745644 original size:28 final size:28
Alignment explanation
Indices: 235745612--235745680 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
235745602 GCGTAGATCA
235745612 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
235745640 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
235745668 CGATA-TACCCCTA
1 CGAAATTACCCCTA
235745681 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:235751981 original size:20 final size:20
Alignment explanation
Indices: 235751956--235751993 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
235751946 GTTTATTCGC
*
235751956 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
235751976 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
235751994 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:235753654 original size:28 final size:28
Alignment explanation
Indices: 235753622--235753690 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
235753612 GCGTAGATCA
235753622 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
235753650 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
235753678 CGATA-TACCCCTA
1 CGAAATTACCCCTA
235753691 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:235760245 original size:41 final size:40
Alignment explanation
Indices: 235760074--235760261 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
235760064 GCTACTCGTT
* * * * *
235760074 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TGGTAACTTGCA
235760114 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTTGCA
* * *
235760154 CAAATGCCTTCGGGAATTAACCCGAATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTTGCA
* * * *
235760194 CAAATGCCTTCGAGACTTAACTCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTT-GCA
* *
235760235 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAACCCGGAT
235760262 ATCATTCGAA
Statistics
Matches: 127, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 99 0.78
41 28 0.22
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTTGCA
Done.