Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 277 of 316
Found at i:91796957 original size:27 final size:28
Alignment explanation
Indices: 91796905--91796957 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
91796895 GATTGTAATA
* * *
91796905 GGGCTATGGCCTAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
91796933 GGGCTAAGGCCCAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
91796958 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:91799389 original size:5 final size:5
Alignment explanation
Indices: 91799379--91799403 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
91799369 TAATTTAAAC
91799379 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
91799404 TATCAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:91800284 original size:17 final size:17
Alignment explanation
Indices: 91800262--91800300 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
91800252 CCTTTAAAAA
*
91800262 TTATATTCGGTTTTCTT
1 TTATATTCAGTTTTCTT
91800279 TTATATTCAGTTTTCTT
1 TTATATTCAGTTTTCTT
91800296 TTATA
1 TTATA
91800301 CTCGAATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (17 bp):
TTATATTCAGTTTTCTT
Found at i:91801410 original size:44 final size:45
Alignment explanation
Indices: 91801339--91801601 Score: 200
Period size: 44 Copynumber: 5.9 Consensus size: 45
91801329 AACTTCAGAG
* * *
91801339 AGATAAGATCTACCATCTTCAGTCTGCTTCCTTGCTACCTTAGGA
1 AGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGA
* *
91801384 AGATAAGA-CTACAATCTTCAACCTGCTCCCTTGCTACCTCAAGG-
1 AGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCTC-AGGA
** **** ** * * *
91801428 AGATAAGGCCT-GTGGCTAAAATCTGCTCCCCTGCTACCTCGGGA
1 AGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGA
* ** * * * *
91801472 AGATAAGATCCACCCTCTTCGATTTGC-TCC--ACTACTGCTCAGGG
1 AGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTAC--CTCAGGA
*
91801516 AGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCGCAGGA
1 AGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGA
* *
91801561 AGATAAGA-CTACAATCTTCAACCTAC-TCTCTTGCTACCTCA
1 AGATAAGATCTACAATCTTCAATCTGCTTC-CTTGCTACCTCA
91801602 AAGAAATAAG
Statistics
Matches: 167, Mismatches: 41, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
42 4 0.02
43 4 0.02
44 119 0.71
45 36 0.22
47 4 0.02
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
AGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGA
Found at i:91801466 original size:88 final size:88
Alignment explanation
Indices: 91801361--91801643 Score: 248
Period size: 88 Copynumber: 3.2 Consensus size: 88
91801351 CCATCTTCAG
* * *
91801361 TCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTTCAACCTGCTCCCTTGCTACCTCAA
1 TCTGCTCCCCTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCCCTTGCTACCTCAA
91801426 GGAGATAAGGCCT-GTGGCTAAAA
66 GGAGATAAGG-CTAGTGGCTAAAA
* * ** * ** * *
91801449 TCTGCTCCCCTGCTACCTCGGGAAGATAAGATCCACCCTCTTCGATTTGCTCCAC-TACT-GCTC
1 TCTGCTCCCCTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAACCTGCTCC-CTTGCTACCTC
* * **** **
91801512 AGGGAGATAAGATCTACAATCTTCAA
64 AAGGAGATAAG-GCTAGTGGCTAAAA
* * * * *
91801538 TCTGCTTCCTTGCTACCGCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCTCAA
1 TCTGCTCCCCTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCCCTTGCTACCTCAA
* * *
91801603 AGAAATAAGGCTGGTGGCTAAAA
66 GGAGATAAGGCTAGTGGCTAAAA
*
91801626 TCTGCTCCCCTACTACCT
1 TCTGCTCCCCTGCTACCT
91801644 TGGGAAAATA
Statistics
Matches: 140, Mismatches: 49, Indels: 12
0.70 0.24 0.06
Matches are distributed among these distances:
87 1 0.01
88 78 0.56
89 60 0.43
90 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (88 bp):
TCTGCTCCCCTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCCCTTGCTACCTCAA
GGAGATAAGGCTAGTGGCTAAAA
Found at i:91801544 original size:177 final size:177
Alignment explanation
Indices: 91801333--91801657 Score: 526
Period size: 177 Copynumber: 1.8 Consensus size: 177
91801323 CACTGCAACT
* * **
91801333 TCAGAGAGATAAGATCTACCATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAA
1 TCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCGCAGGAAGATAAGACTACAA
* * * *
91801398 TCTTCAACCTGCTCCCTTGCTACCTCAAGGAGATAAGGCCT-GTGGCTAAAATCTGCTCCCCTGC
66 TCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGG-CTGGTGGCTAAAATCTGCTCCCCTAC
*
91801462 TACCTCGGGAAGATAAGATCCACCCTCTTCGATTTGCTCCACTACTGC
130 TACCTCGGGAAAATAAGATCCACCCTCTTCGATTTGCTCCACTACTGC
*
91801510 TCAGGGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCGCAGGAAGATAAGACTACAA
1 TCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCGCAGGAAGATAAGACTACAA
*
91801575 TCTTCAACCTACTCTCTTGCTACCTCAAAGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTACT
66 TCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTACT
*
91801640 ACCTTGGGAAAATAAGAT
131 ACCTCGGGAAAATAAGAT
91801658 TTTCCATTTT
Statistics
Matches: 135, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
176 2 0.01
177 133 0.99
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (177 bp):
TCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCGCAGGAAGATAAGACTACAA
TCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTACT
ACCTCGGGAAAATAAGATCCACCCTCTTCGATTTGCTCCACTACTGC
Found at i:91801611 original size:44 final size:45
Alignment explanation
Indices: 91801516--91801611 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
91801506 CTGCTCAGGG
* * *
91801516 AGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCGCAGGA
1 AGATAAGATCTACAATCTTCAACCTACTTCCTTGCTACCGCAAGA
*
91801561 AGATAAGA-CTACAATCTTCAACCTAC-TCTCTTGCTACCTCAAAGA
1 AGATAAGATCTACAATCTTCAACCTACTTC-CTTGCTACCGC-AAGA
91801606 A-ATAAG
1 AGATAAG
91801612 GCTGGTGGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
43 2 0.04
44 31 0.69
45 12 0.27
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.27
Consensus pattern (45 bp):
AGATAAGATCTACAATCTTCAACCTACTTCCTTGCTACCGCAAGA
Found at i:91801679 original size:177 final size:178
Alignment explanation
Indices: 91801314--91801679 Score: 520
Period size: 177 Copynumber: 2.1 Consensus size: 178
91801304 GACTTGCTTT
* * * *
91801314 GATATGCTCCACTGCAACTTCAGAGAGATAAGATCTACCATCTTCAGTCTGCTTCCTTGCTACCT
1 GATATGCTCCACTACAACTTCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCG
* * * *
91801379 TAGGAAGATAAGACTACAATCTTCAACCTGCTCCCTTGCTACCTCAAGGAGATAAGGCCTGTGGC
66 CAGGAAGATAAGACTACAATCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGGCCTGTGGC
* * *
91801444 TAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATCCACCCTCTTC
131 TAAAATCTGCTCCCCTACTACCTCGGGAAAATAAGATCCACCATCTTC
* ** *
91801492 GATTTGCTCCACTACTGC-TCAGGGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCG
1 GATATGCTCCACTACAACTTCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCG
*
91801556 CAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCTCAAAGAAATAAGG-CTGGTGG
66 CAGGAAGATAAGACTACAATCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGGCCT-GTGG
* *** *
91801620 CTAAAATCTGCTCCCCTACTACCTTGGGAAAATAAGATTTTCCATTTTC
130 CTAAAATCTGCTCCCCTACTACCTCGGGAAAATAAGATCCACCATCTTC
91801669 GATATGCTCCA
1 GATATGCTCCA
91801680 TTGCTACCTC
Statistics
Matches: 165, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
176 2 0.01
177 149 0.90
178 14 0.08
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (178 bp):
GATATGCTCCACTACAACTTCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCG
CAGGAAGATAAGACTACAATCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGGCCTGTGGC
TAAAATCTGCTCCCCTACTACCTCGGGAAAATAAGATCCACCATCTTC
Found at i:91803252 original size:348 final size:348
Alignment explanation
Indices: 91802615--91803311 Score: 1376
Period size: 348 Copynumber: 2.0 Consensus size: 348
91802605 TCAAAGATAG
*
91802615 CCAATTTTTTATGAACAAGATGAAGACTAGGTACCCCTGATATCGCAACCTGAGTTTCGCTGTAC
1 CCAATTTATTATGAACAAGATGAAGACTAGGTACCCCTGATATCGCAACCTGAGTTTCGCTGTAC
91802680 GAACTTCTTAAAGACCAATTTAAACTTGACATGTGTTGAGGAGATCAGAAGCACTTTGTCAATGC
66 GAACTTCTTAAAGACCAATTTAAACTTGACATGTGTTGAGGAGATCAGAAGCACTTTGTCAATGC
91802745 CCCAAGATGCAGCATACCCTTTTCCTTGCTAATTCAGGTATAGTAAGATCGCCGCCTTCCCATTT
131 CCCAAGATGCAGCATACCCTTTTCCTTGCTAATTCAGGTATAGTAAGATCGCCGCCTTCCCATTT
91802810 TTGTTCAAAATTTGAGACGCCATTTTCGGGTCTTCAACTCAAATCCCCTTTGGTCTCAAGGCGCC
196 TTGTTCAAAATTTGAGACGCCATTTTCGGGTCTTCAACTCAAATCCCCTTTGGTCTCAAGGCGCC
91802875 CTTTGCGGGTTTTCACCTTGGAATCTCCTTTTTATCTTTTTATTTTCATTTTTTGTTTGGTCTCA
261 CTTTGCGGGTTTTCACCTTGGAATCTCCTTTTTATCTTTTTATTTTCATTTTTTGTTTGGTCTCA
91802940 AAGCGCCCTTTGTGGGTTTTCAC
326 AAGCGCCCTTTGTGGGTTTTCAC
91802963 CCAATTTATTATGAACAAGATGAAGACTAGGTACCCCTGATATCGCAACCTGAGTTTCGCTGTAC
1 CCAATTTATTATGAACAAGATGAAGACTAGGTACCCCTGATATCGCAACCTGAGTTTCGCTGTAC
*
91803028 GAACTTCTTGAAGACCAATTTAAACTTGACATGTGTTGAGGAGATCAGAAGCACTTTGTCAATGC
66 GAACTTCTTAAAGACCAATTTAAACTTGACATGTGTTGAGGAGATCAGAAGCACTTTGTCAATGC
91803093 CCCAAGATGCAGCATACCCTTTTCCTTGCTAATTCAGGTATAGTAAGATCGCCGCCTTCCCATTT
131 CCCAAGATGCAGCATACCCTTTTCCTTGCTAATTCAGGTATAGTAAGATCGCCGCCTTCCCATTT
91803158 TTGTTCAAAATTTGAGACGCCATTTTCGGGTCTTCAACTCAAATCCCCTTTGGTCTCAAGGCGCC
196 TTGTTCAAAATTTGAGACGCCATTTTCGGGTCTTCAACTCAAATCCCCTTTGGTCTCAAGGCGCC
91803223 CTTTGCGGGTTTTCACCTTGGAATCTCCTTTTTATCTTTTTATTTTCATTTTTTGTTTGGTCTCA
261 CTTTGCGGGTTTTCACCTTGGAATCTCCTTTTTATCTTTTTATTTTCATTTTTTGTTTGGTCTCA
91803288 AAGCGCCCTTTGTGGGTTTTCAC
326 AAGCGCCCTTTGTGGGTTTTCAC
91803311 C
1 C
91803312 TTGGGCTATT
Statistics
Matches: 347, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
348 347 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (348 bp):
CCAATTTATTATGAACAAGATGAAGACTAGGTACCCCTGATATCGCAACCTGAGTTTCGCTGTAC
GAACTTCTTAAAGACCAATTTAAACTTGACATGTGTTGAGGAGATCAGAAGCACTTTGTCAATGC
CCCAAGATGCAGCATACCCTTTTCCTTGCTAATTCAGGTATAGTAAGATCGCCGCCTTCCCATTT
TTGTTCAAAATTTGAGACGCCATTTTCGGGTCTTCAACTCAAATCCCCTTTGGTCTCAAGGCGCC
CTTTGCGGGTTTTCACCTTGGAATCTCCTTTTTATCTTTTTATTTTCATTTTTTGTTTGGTCTCA
AAGCGCCCTTTGTGGGTTTTCAC
Found at i:91809574 original size:64 final size:64
Alignment explanation
Indices: 91809494--91809677 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
91809484 AGACATTATG
* * *
91809494 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
91809558 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGAGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
91809623 AA
63 AA
* * * *
91809625 ACTG--GCTAGGTCACATGAGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
91809678 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:91816052 original size:15 final size:15
Alignment explanation
Indices: 91816032--91816063 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
91816022 TAGTTCACTA
*
91816032 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
91816047 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
91816062 TT
1 TT
91816064 TGTATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:91817194 original size:14 final size:14
Alignment explanation
Indices: 91817175--91817201 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91817165 TAATTTTCTT
91817175 GAAAAATTAATTTA
1 GAAAAATTAATTTA
91817189 GAAAAATTAATTT
1 GAAAAATTAATTT
91817202 TGATCAAGTA
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:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (14 bp):
GAAAAATTAATTTA
Found at i:91826524 original size:30 final size:30
Alignment explanation
Indices: 91826490--91826582 Score: 177
Period size: 30 Copynumber: 3.1 Consensus size: 30
91826480 ACTGAACAAG
*
91826490 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
91826520 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
91826550 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
91826580 CAA
1 CAA
91826583 TAAAATAAGT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:91830269 original size:27 final size:27
Alignment explanation
Indices: 91830238--91830333 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
91830228 AGCATGGCTG
* ** *
91830238 CCAGATACAGATAATGTGACAGAGTCA
1 CCAGATACAAATAATGTGGTAGAGCCA
*
91830265 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGATACAAATAAT-GTGGTAGAGCCA
91830293 CCAGA-ACAAATATATGTGGTAGAGCCA
1 CCAGATACAAATA-ATGTGGTAGAGCCA
91830320 CCAGAT-CAAATAAT
1 CCAGATACAAATAAT
91830334 CATGGCATAG
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.03
27 44 0.71
28 16 0.26
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.19
Consensus pattern (27 bp):
CCAGATACAAATAATGTGGTAGAGCCA
Found at i:91837134 original size:113 final size:113
Alignment explanation
Indices: 91836924--91837258 Score: 634
Period size: 113 Copynumber: 2.9 Consensus size: 113
91836914 GAGGTGAGGT
91836924 GAGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAAAAAGAGGGTT
1 GAGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAG----AAAAAAAAAGAGGGTT
91836989 TCATGGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTATGATACAG
62 TCATGGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTATGATACAG
91837041 GAGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAGAGGGTTTCAT
1 GAGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAGAGGGTTTCAT
91837106 GGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTATGATACAG
66 GGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTATGATACAG
91837154 GAGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAGAGGGTTTCAT
1 GAGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAGAGGGTTTCAT
91837219 GGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTA
66 GGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTA
91837259 CTTCATTTAT
Statistics
Matches: 218, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
113 173 0.79
117 45 0.21
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (113 bp):
GAGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAGAGGGTTTCAT
GGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTATGATACAG
Found at i:91839138 original size:9 final size:9
Alignment explanation
Indices: 91839124--91839150 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
91839114 GAATTTTTAT
91839124 AAAAAATTA
1 AAAAAATTA
91839133 AAAAAATTA
1 AAAAAATTA
91839142 AAAAAATTA
1 AAAAAATTA
91839151 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAAATTA
Found at i:91840392 original size:26 final size:28
Alignment explanation
Indices: 91840363--91840415 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
91840353 ATTTTTAATT
* *
91840363 TATTTTAAACTTATT-TT-GTTAGTAAC
1 TATTATAAACTAATTGTTAGTTAGTAAC
91840389 TATTATAAACTAATTGTTAGTTAGTAA
1 TATTATAAACTAATTGTTAGTTAGTAA
91840416 TGACACCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 2 0.09
28 8 0.35
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (28 bp):
TATTATAAACTAATTGTTAGTTAGTAAC
Found at i:91841011 original size:7 final size:7
Alignment explanation
Indices: 91840999--91841034 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
91840989 GAATTTGAAA
91840999 AGAATTT
1 AGAATTT
91841006 AGAATTT
1 AGAATTT
91841013 AGAATTT
1 AGAATTT
91841020 AGAATTT
1 AGAATTT
91841027 AGAATTT
1 AGAATTT
91841034 A
1 A
91841035 ATATAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (7 bp):
AGAATTT
Found at i:91841047 original size:21 final size:20
Alignment explanation
Indices: 91840999--91841042 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
91840989 GAATTTGAAA
*
91840999 AGAATTTAGAATTTAGAATTT
1 AGAATTTAGAATTTA-AATAT
91841020 AGAATTTAGAATTT-AATAT
1 AGAATTTAGAATTTAAATAT
91841039 AGAA
1 AGAA
91841043 AATTTCTCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
21 14 0.64
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.39
Consensus pattern (20 bp):
AGAATTTAGAATTTAAATAT
Found at i:91844098 original size:48 final size:48
Alignment explanation
Indices: 91844035--91844253 Score: 220
Period size: 48 Copynumber: 4.6 Consensus size: 48
91844025 TAATGTACTC
* * **
91844035 CAATGTATCTAATTTATATTACAAAGTTTGTTCTGTGTTTTAATGTTG
1 CAATGAATCTAATTTAAATTACAAAGTTTGTTCTAAGTTTTAATGTTG
* * *
91844083 CAATTAATCTAATTTAAATTACAAATTTTGTTCCAAGTTTTAATGTTG
1 CAATGAATCTAATTTAAATTACAAAGTTTGTTCTAAGTTTTAATGTTG
* **
91844131 CAATGAATCTCAA-TTAAATTACAAAG-TTATTCTGCGTTTTAATGTTG
1 CAATGAATCT-AATTTAAATTACAAAGTTTGTTCTAAGTTTTAATGTTG
*
91844178 CAATGAATCTCAA-TTAAATAAATACAAAATTT-TTCTAAAG--TT--TGTTG
1 CAATGAATCT-AATTTAAAT---TACAAAGTTTGTTCT-AAGTTTTAATGTTG
*
91844225 CAATTAATCTAATTTAAATTACAAAGTTT
1 CAATGAATCTAATTTAAATTACAAAGTTT
91844254 ATAATTTTGC
Statistics
Matches: 146, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
44 9 0.06
46 2 0.01
47 56 0.38
48 62 0.42
49 4 0.03
50 10 0.07
51 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (48 bp):
CAATGAATCTAATTTAAATTACAAAGTTTGTTCTAAGTTTTAATGTTG
Found at i:91848694 original size:18 final size:17
Alignment explanation
Indices: 91848661--91848699 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
91848651 TTGTATAAAT
91848661 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
91848679 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
91848696 TGTG
1 TGTG
91848700 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:91848952 original size:23 final size:23
Alignment explanation
Indices: 91848925--91849022 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
91848915 AGTGTTATTG
91848925 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
91848948 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
91848971 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
91848993 ATCAGTGGTAGCTTCCGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
91849016 ATCAGTG
1 ATCAGTG
91849023 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:91848991 original size:45 final size:45
Alignment explanation
Indices: 91848927--91849015 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
91848917 TGTTATTGAT
* **
91848927 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCCGCTACATC
91848972 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCCGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCCGCTACAT
91849016 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCCGCTACATC
Found at i:91853217 original size:7 final size:7
Alignment explanation
Indices: 91853207--91853240 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
91853197 ATTTTAAGGT
91853207 TTATGGA
1 TTATGGA
91853214 TTATGGA
1 TTATGGA
91853221 TTATGGA
1 TTATGGA
*
91853228 CTTAGGGA
1 -TTATGGA
91853236 TTATG
1 TTATG
91853241 ATTTATGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (7 bp):
TTATGGA
Found at i:91853238 original size:15 final size:14
Alignment explanation
Indices: 91853207--91853240 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
91853197 ATTTTAAGGT
*
91853207 TTATGGATTATGGA
1 TTATGGATTAGGGA
91853221 TTATGGACTTAGGGA
1 TTATGGA-TTAGGGA
91853236 TTATG
1 TTATG
91853241 ATTTATGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (14 bp):
TTATGGATTAGGGA
Found at i:91853313 original size:22 final size:22
Alignment explanation
Indices: 91853290--91853351 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
91853280 AATAATTTAG
91853290 GGGT-TAAGAGTTAAGGGTTAA
1 GGGTATAAGAGTTAAGGGTTAA
* * *
91853311 GGGTCTAGGAGTTAAAGGTTAA
1 GGGTATAAGAGTTAAGGGTTAA
*
91853333 GGGTATAAG-GTTTAGGGTT
1 GGGTATAAGAGTTAAGGGTT
91853352 TAAAATTTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 12 0.35
22 22 0.65
ACGTcount: A:0.29, C:0.02, G:0.39, T:0.31
Consensus pattern (22 bp):
GGGTATAAGAGTTAAGGGTTAA
Found at i:91853319 original size:29 final size:29
Alignment explanation
Indices: 91853285--91853413 Score: 102
Period size: 29 Copynumber: 4.4 Consensus size: 29
91853275 GGGTTAATAA
91853285 TTTAGGGGTTAAGAGTTAAGGGTTAAGGG
1 TTTAGGGGTTAAGAGTTAAGGGTTAAGGG
* *
91853314 TCTAGGAGTTAA-AGGTTAAGGGTATAA-GG
1 TTTAGGGGTTAAGA-GTTAAGGGT-TAAGGG
* * * *
91853343 TTTAGGGTTTAA-AATTTAGTGGTTAAGGA
1 TTTAGGGGTTAAGAGTTAAG-GGTTAAGGG
* * * * *
91853372 TTTAAGGTTTATGAGTTAAAGGTTAGGGG
1 TTTAGGGGTTAAGAGTTAAGGGTTAAGGG
*
91853401 TTTATGGGTTAAG
1 TTTAGGGGTTAAG
91853414 GCATTAAGAG
Statistics
Matches: 77, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
28 8 0.10
29 62 0.81
30 7 0.09
ACGTcount: A:0.29, C:0.01, G:0.34, T:0.36
Consensus pattern (29 bp):
TTTAGGGGTTAAGAGTTAAGGGTTAAGGG
Found at i:91853894 original size:14 final size:14
Alignment explanation
Indices: 91853872--91853904 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
91853862 CACCTCACCA
91853872 CCACCTCCACCGAT
1 CCACCTCCACCGAT
*
91853886 CCACTTCCACCGAT
1 CCACCTCCACCGAT
91853900 CCACC
1 CCACC
91853905 CAAATCCCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.21, C:0.58, G:0.06, T:0.15
Consensus pattern (14 bp):
CCACCTCCACCGAT
Found at i:91855178 original size:18 final size:17
Alignment explanation
Indices: 91855141--91855175 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
91855131 TATATAAGTG
91855141 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
91855158 ATTG-TTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
91855174 AT
1 AT
91855176 ATTAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTTAATTTAT
Found at i:91858194 original size:15 final size:15
Alignment explanation
Indices: 91858162--91858203 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
91858152 ATTTAAAGTT
*
91858162 TTATTTTGA-TTATG
1 TTATTTTAATTTATG
* *
91858176 TTATTTTATTTTATT
1 TTATTTTAATTTATG
91858191 TTATTTTAATTTA
1 TTATTTTAATTTA
91858204 AGCACGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (15 bp):
TTATTTTAATTTATG
Found at i:91858295 original size:100 final size:100
Alignment explanation
Indices: 91858187--91858475 Score: 472
Period size: 100 Copynumber: 2.8 Consensus size: 100
91858177 TATTTTATTT
91858187 TATTTTATTTTAATTTAAGCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
1 TATTTTATTTTAATTTAAGCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
91858252 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
66 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
* * * *
91858287 TATTTTATTTTATTTTAATCAAGAAAAATATTTTGTCTATTTTTATTTTATTTTTAAATTACCTA
1 TATTTTATTTTAATTTAAGCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
91858352 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
66 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
91858387 TATTTTATTTTATTTTATTTTAAGCAC-AAAAAGTATTTTGTCTACTTTTATTTTATTTTTAAAT
1 TATTTTATTTTA----A-TTTAAGCACGAAAAA-TATTTTGTCTACTTTTATTTTATTTTTAAAT
*
91858451 TACCTAATTAAGTTAAATTGTATTT
60 TACCTAATTAAATTAAATTGTATTT
91858476 TTAAATATTG
Statistics
Matches: 174, Mismatches: 9, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
100 108 0.62
104 5 0.03
105 61 0.35
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.55
Consensus pattern (100 bp):
TATTTTATTTTAATTTAAGCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
Found at i:91863813 original size:13 final size:14
Alignment explanation
Indices: 91863797--91863825 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91863787 TTATAAATAT
91863797 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
91863810 TTATAATGGTTTAA
1 TTATAATGGTTTAA
91863824 TT
1 TT
91863826 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:91864787 original size:19 final size:20
Alignment explanation
Indices: 91864763--91864801 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
91864753 CGTTTTTTGT
*
91864763 GGCTAAAAGA-GCCGCTAAA
1 GGCTAAAAAATGCCGCTAAA
91864782 GGCTAAAAAATGCCGCTAAA
1 GGCTAAAAAATGCCGCTAAA
91864802 AGTCTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.13
Consensus pattern (20 bp):
GGCTAAAAAATGCCGCTAAA
Found at i:91865004 original size:103 final size:102
Alignment explanation
Indices: 91864879--91865205 Score: 349
Period size: 106 Copynumber: 3.1 Consensus size: 102
91864869 ATTTAACTAA
* * *
91864879 ACAAATAATTTATAACATAATCATAAATTACTAACAAAATAACTTTAAAATAATTTTTAAAAAAT
1 ACAAACAATTAATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTTTAAAAAAT
* * **
91864944 TATATTCATAAAAATTCACAATAAATACTAAACTAAAC
66 AAAATAAAT-AAAATTCACAATAAATACTAAACTAAAC
*
91864982 ACAAACAATTAATAACCTAATCATAAATTACTAACAAAATAATAACTTTAAAATAA--TTAAAAA
1 ACAAACAATTAATAACCTAATCATAAATTACTAAC--AA-AATAACTTTAAAATAATTTTTAAAA
* * * *
91865045 AATAAAAAAAATTAAATTTATTAA-AAATCACACTAAACTAAAC
63 AATAAAATAAATAAAATTCA-CAATAAAT---ACTAAACTAAAC
* * *
91865088 ACAAACAGTTTAA-CACCTAATCATAAATTACTAACAAAATAACTTTAAAATTATTTTTAAAAAA
1 ACAAACA-ATTAATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTTTAAAAAA
*
91865152 TAAAATAAAATTTAAAA-TCACAATAAACACTAAACTAAAC
65 TAAAAT-AAA--TAAAATTCACAATAAATACTAAACTAAAC
*
91865192 ACAAATAATATAAT
1 ACAAACAAT-TAAT
91865206 TATAAACCAA
Statistics
Matches: 185, Mismatches: 23, Indels: 30
0.78 0.10 0.13
Matches are distributed among these distances:
103 58 0.31
104 38 0.21
105 15 0.08
106 61 0.33
107 9 0.05
108 4 0.02
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (102 bp):
ACAAACAATTAATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTTTAAAAAAT
AAAATAAATAAAATTCACAATAAATACTAAACTAAAC
Found at i:91865298 original size:28 final size:26
Alignment explanation
Indices: 91865245--91865305 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
91865235 AAAACAACAT
**
91865245 AAAAAAA-ACTAATCCCTTCTATTTA
1 AAAAAAATACTAATCCCTTAAATTTA
91865270 AAAAAAATACTAATCCCTTAAAATTTTA
1 AAAAAAATACTAATCCCTT-AAA-TTTA
91865298 AAAAAAAT
1 AAAAAAAT
91865306 TACAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 7 0.23
26 11 0.35
27 1 0.03
28 12 0.39
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (26 bp):
AAAAAAATACTAATCCCTTAAATTTA
Found at i:91865300 original size:26 final size:26
Alignment explanation
Indices: 91865243--91865304 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
91865233 TAAAAACAAC
**
91865243 ATAAAAAAAACTAATCCCTTCTATTT
1 ATAAAAAAAACTAATCCCTTAAATTT
91865269 A-AAAAAAATACTAATCCCTTAAAATTT
1 ATAAAAAAA-ACTAATCCCTT-AAATTT
91865296 -TAAAAAAAA
1 ATAAAAAAAA
91865305 TTACAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 7 0.23
26 13 0.42
27 11 0.35
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (26 bp):
ATAAAAAAAACTAATCCCTTAAATTT
Found at i:91867132 original size:18 final size:17
Alignment explanation
Indices: 91867098--91867136 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
91867088 CTTGAGGACT
*
91867098 AAATTTAAAATATTTTA
1 AAATTTAAAATAATTTA
*
91867115 AAATTTTAAATAAATTTA
1 AAATTTAAAAT-AATTTA
91867133 AAAT
1 AAAT
91867137 ATGAATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTTAAAATAATTTA
Found at i:91872670 original size:7 final size:7
Alignment explanation
Indices: 91872658--91872682 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
91872648 ATTTCACTAT
91872658 ATTTAAC
1 ATTTAAC
91872665 ATTTAAC
1 ATTTAAC
91872672 ATTTAAC
1 ATTTAAC
91872679 ATTT
1 ATTT
91872683 TATTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTAAC
Found at i:91873902 original size:9 final size:9
Alignment explanation
Indices: 91873880--91873937 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
91873870 TTTTACAAAA
91873880 TTTATATTT
1 TTTATATTT
*
91873889 CTTTACATTT
1 -TTTATATTT
*
91873899 TTTATTTTT
1 TTTATATTT
91873908 TTTATA-TT
1 TTTATATTT
* *
91873916 TCTATATAT
1 TTTATATTT
91873925 TTTATATTT
1 TTTATATTT
91873934 TTTA
1 TTTA
91873938 CGATTTTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
8 7 0.18
9 24 0.62
10 8 0.21
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTATATTT
Found at i:91873911 original size:28 final size:28
Alignment explanation
Indices: 91873880--91873936 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
91873870 TTTTACAAAA
* *
91873880 TTTATATTTCTTTACATTTTTTATTTTT
1 TTTATATTTCTATACATTTTATATTTTT
*
91873908 TTTATATTTCTATATATTTTATATTTTT
1 TTTATATTTCTATACATTTTATATTTTT
91873936 T
1 T
91873937 ACGATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTATATTTCTATACATTTTATATTTTT
Found at i:91873996 original size:28 final size:28
Alignment explanation
Indices: 91873895--91873996 Score: 84
Period size: 28 Copynumber: 3.6 Consensus size: 28
91873885 ATTTCTTTAC
* * *
91873895 ATTTTTTATTTTTTTTAT-ATTTCTATAT
1 ATTTTATATTTTTATTATGATTTTTA-AT
* *
91873923 ATTTTATA-TTTT-TTACGATTTTTATAAA
1 ATTTTATATTTTTATTATGA-TTTT-TAAT
* *
91873951 ATTTTACAAATTTTATTATGATTTTTAAT
1 ATTTTA-TATTTTTATTATGATTTTTAAT
91873980 ATTTTATATTTTTATTA
1 ATTTTATATTTTTATTA
91873997 AAATTTAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
26 3 0.05
27 5 0.08
28 26 0.44
29 12 0.20
30 8 0.14
31 5 0.08
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (28 bp):
ATTTTATATTTTTATTATGATTTTTAAT
Found at i:91874002 original size:19 final size:20
Alignment explanation
Indices: 91873971--91874014 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
91873961 TTTTATTATG
* *
91873971 ATTT-TTAATATTTTATATT
1 ATTTATTAAAATTTAATATT
91873990 -TTTATTAAAATTTAATATT
1 ATTTATTAAAATTTAATATT
91874009 ATTTAT
1 ATTTAT
91874015 AGATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 13 0.62
20 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTATTAAAATTTAATATT
Found at i:91874169 original size:92 final size:91
Alignment explanation
Indices: 91874073--91874244 Score: 211
Period size: 92 Copynumber: 1.9 Consensus size: 91
91874063 TAAAAGCAGT
* * * * * * *
91874073 GGCTTAATTGCTTTTTTTGAAACAGTGGGAGAG-TATTTTTTATGCATTTTGAAAGTTTAAGTAC
1 GGCTTAAATACTTTTTTTGAAAAACTGGGAGAGCT-TTTTTGATGCATTTTGAAAGTTAAAATAC
*
91874137 CCAATTGAGTGCAAAAAAAAAGAGTAAG
65 CCAAATGAGTG-AAAAAAAAAGAGTAAG
** * *
91874165 GGCTTAAATACTTTTTTTGAAAAACTTTGAGGGCTTTTTTGATGTATTTTGAAAGTTAAAATACC
1 GGCTTAAATACTTTTTTTGAAAAACTGGGAGAGCTTTTTTGATGCATTTTGAAAGTTAAAATACC
91874230 CAAATGAGTGAAAAA
66 CAAATGAGTGAAAAA
91874245 GAGAGGAGGA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
91 5 0.07
92 61 0.91
93 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (91 bp):
GGCTTAAATACTTTTTTTGAAAAACTGGGAGAGCTTTTTTGATGCATTTTGAAAGTTAAAATACC
CAAATGAGTGAAAAAAAAAGAGTAAG
Found at i:91875321 original size:74 final size:74
Alignment explanation
Indices: 91875200--91875348 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
91875190 CTTCAATACA
91875200 ATCCAAATCCACCCCATTCTTTAATATTATATCAATATTCTGACCTCACCCTTCTCTCCGTCTCC
1 ATCCAAATCCACCCCATTCTTTAATATTATATCAATATTCTGACCTCACCCTTCTCTCCGTCTCC
91875265 TATAAATAT
66 TATAAATAT
91875274 ATCCAAATCCACCCCATTCTTTAATATTATATCAATATTCTGACCTCACCCTTCTCTCCGTCTCC
1 ATCCAAATCCACCCCATTCTTTAATATTATATCAATATTCTGACCTCACCCTTCTCTCCGTCTCC
91875339 TATAAATAT
66 TATAAATAT
91875348 A
1 A
91875349 CACCAACACC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.36
Consensus pattern (74 bp):
ATCCAAATCCACCCCATTCTTTAATATTATATCAATATTCTGACCTCACCCTTCTCTCCGTCTCC
TATAAATAT
Found at i:91875324 original size:37 final size:37
Alignment explanation
Indices: 91875209--91875324 Score: 94
Period size: 36 Copynumber: 3.1 Consensus size: 37
91875199 AATCCAAATC
91875209 CACCCCATTCTTTAATATTATATCAATATTCTGACCT
1 CACCCCATTCTTTAATATTATATCAATATTCTGACCT
*** * ** * * **
91875246 CA-CCC-TTCTCTCCGTCTCCTATAAATATATC-CAAAT
1 CACCCCATTCT-TTAATATTATATCAATAT-TCTGACCT
91875282 CCACCCCATTCTTTAATATTATATCAATATTCTGACCT
1 -CACCCCATTCTTTAATATTATATCAATATTCTGACCT
91875320 CACCC
1 CACCC
91875325 TTCTCTCCGT
Statistics
Matches: 53, Mismatches: 20, Indels: 12
0.62 0.24 0.14
Matches are distributed among these distances:
35 4 0.08
36 16 0.30
37 13 0.25
38 16 0.30
39 4 0.08
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (37 bp):
CACCCCATTCTTTAATATTATATCAATATTCTGACCT
Found at i:91875347 original size:36 final size:36
Alignment explanation
Indices: 91875233--91875347 Score: 90
Period size: 36 Copynumber: 3.1 Consensus size: 36
91875223 ATATTATATC
91875233 AATATTCTGACCTCACCCTTCTCTCCGTCTCCTATA
1 AATATTCTGACCTCACCCTTCTCTCCGTCTCCTATA
* ** *** * ** *
91875269 AATATATC-CAAATCCACCCCATTCT-TTAATATTATATC
1 AATAT-TCTGACCT-CA-CCC-TTCTCTCCGTCTCCTATA
91875307 AATATTCTGACCTCACCCTTCTCTCCGTCTCCTATA
1 AATATTCTGACCTCACCCTTCTCTCCGTCTCCTATA
91875343 AATAT
1 AATAT
91875348 ACACCAACAC
Statistics
Matches: 53, Mismatches: 20, Indels: 12
0.62 0.24 0.14
Matches are distributed among these distances:
35 4 0.08
36 21 0.40
37 8 0.15
38 16 0.30
39 4 0.08
ACGTcount: A:0.27, C:0.33, G:0.03, T:0.37
Consensus pattern (36 bp):
AATATTCTGACCTCACCCTTCTCTCCGTCTCCTATA
Found at i:91881232 original size:20 final size:20
Alignment explanation
Indices: 91881207--91881249 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
91881197 TTAAAGAATG
91881207 TTGGAAATTCTGTTTTTAAA
1 TTGGAAATTCTGTTTTTAAA
*
91881227 TTGGAAATTCTGTTTTTGAA
1 TTGGAAATTCTGTTTTTAAA
91881247 TTG
1 TTG
91881250 TTACAATGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.51
Consensus pattern (20 bp):
TTGGAAATTCTGTTTTTAAA
Found at i:91883254 original size:23 final size:23
Alignment explanation
Indices: 91883215--91883352 Score: 88
Period size: 23 Copynumber: 6.0 Consensus size: 23
91883205 GACTCACCGT
* *
91883215 AGCTTGTATGAGCTTACTGATTC
1 AGCTCGTAAGAGCTTACTGATTC
* *
91883238 AACTCGTAAGAGCTTACTGTTTC
1 AGCTCGTAAGAGCTTACTGATTC
* ** *
91883261 AGCTCATTGGAGCTTATTGATTC
1 AGCTCGTAAGAGCTTACTGATTC
*
91883284 AGTTCG-ATAGAGCTTACTG-TTC
1 AGCTCGTA-AGAGCTTACTGATTC
* * * *
91883306 AGCTC-AATAGAGCTTACCGTTTTT
1 AGCTCGTA-AGAGCTTACTG-ATTC
91883330 AGCTCAGTAA-AGCTTACT-ATTC
1 AGCTC-GTAAGAGCTTACTGATTC
91883352 A
1 A
91883353 TCAGCTCAGG
Statistics
Matches: 87, Mismatches: 22, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
22 22 0.25
23 49 0.56
24 14 0.16
25 1 0.01
26 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACTGATTC
Found at i:91883296 original size:46 final size:45
Alignment explanation
Indices: 91883224--91883322 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 45
91883214 TAGCTTGTAT
* *
91883224 GAGCTTACTGATTCAACTCGTAAGAGCTTACTGTTTCAGCTCATTG
1 GAGCTTACTGATTCAACTCGTAAGAGCTTACTG-TTCAGCTCAATA
* **
91883270 GAGCTTATTGATTCAGTTCG-ATAGAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTGATTCAACTCGTA-AGAGCTTACTGTTCAGCTCAATA
91883315 GAGCTTAC
1 GAGCTTAC
91883323 CGTTTTTAGC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 18 0.39
46 28 0.61
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (45 bp):
GAGCTTACTGATTCAACTCGTAAGAGCTTACTGTTCAGCTCAATA
Found at i:91883315 original size:22 final size:23
Alignment explanation
Indices: 91883224--91883322 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 23
91883214 TAGCTTGTAT
* *
91883224 GAGCTTACTGATTCAACTC-GTAA
1 GAGCTTACTGATTCAGCTCAAT-A
* * *
91883247 GAGCTTACTGTTTCAGCTCATTG
1 GAGCTTACTGATTCAGCTCAATA
* * *
91883270 GAGCTTATTGATTCAGTTCGATA
1 GAGCTTACTGATTCAGCTCAATA
91883293 GAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACTGATTCAGCTCAATA
91883315 GAGCTTAC
1 GAGCTTAC
91883323 CGTTTTTAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
22 18 0.29
23 43 0.69
24 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (23 bp):
GAGCTTACTGATTCAGCTCAATA
Found at i:91885093 original size:19 final size:21
Alignment explanation
Indices: 91885069--91885114 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
91885059 TTCTCATTTT
*
91885069 TAAAATTTTTAAAAAAC-A-A
1 TAAAATTTTAAAAAAACTATA
91885088 TAAAA-TTTAAAAAAACTATA
1 TAAAATTTTAAAAAAACTATA
91885108 TAAAATT
1 TAAAATT
91885115 CTTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.43
19 6 0.26
20 6 0.26
21 1 0.04
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAATTTTAAAAAAACTATA
Found at i:91885575 original size:10 final size:10
Alignment explanation
Indices: 91885560--91885584 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
91885550 CAAATTAGAT
91885560 TATAAAAAAA
1 TATAAAAAAA
91885570 TATAAAAAAA
1 TATAAAAAAA
91885580 TATAA
1 TATAA
91885585 TAACTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
TATAAAAAAA
Found at i:91889070 original size:43 final size:43
Alignment explanation
Indices: 91889007--91889170 Score: 197
Period size: 43 Copynumber: 3.8 Consensus size: 43
91888997 AGCTCATACA
* * * *
91889007 ATGCC-ATATCCCAGATATGGTCTAACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * *
91889049 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * *
91889092 ATACCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* *
91889135 AAGCCAATGTCTCAGACATGGTCTTACATGTAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
91889171 TATCTCGGTA
Statistics
Matches: 103, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 6 0.06
43 97 0.94
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:91889142 original size:86 final size:86
Alignment explanation
Indices: 91889015--91889173 Score: 230
Period size: 86 Copynumber: 1.8 Consensus size: 86
91889005 CAATGCCATA
* * * * *
91889015 TCCCAGATATGGTCTAACATGTTATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGA
1 TCCCAGACATGGTCTAACACGTAATCACATATCAAAGCCAATGTCCCAGACATGGTCTTACATGA
91889080 AATCATATAACGATACCAATG
66 AATCATATAACGATACCAATG
* *
91889101 TCCCAGACATGGTCTTACACGTAATCACA-ATACAAAGCCAATGTCTCAGACATGGTCTTACATG
1 TCCCAGACATGGTCTAACACGTAATCACATAT-CAAAGCCAATGTCCCAGACATGGTCTTACATG
*
91889165 TAATCATAT
65 AAATCATAT
91889174 CTCGGTAATC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
85 2 0.03
86 62 0.97
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (86 bp):
TCCCAGACATGGTCTAACACGTAATCACATATCAAAGCCAATGTCCCAGACATGGTCTTACATGA
AATCATATAACGATACCAATG
Found at i:91892677 original size:23 final size:23
Alignment explanation
Indices: 91892645--91892690 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
91892635 AAGAAAACCC
*
91892645 ATAATGACCTTTCCTAGTGGCCT
1 ATAATAACCTTTCCTAGTGGCCT
*
91892668 ATAATAACCTTTCCTGGTGGCCT
1 ATAATAACCTTTCCTAGTGGCCT
91892691 TGTTTAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAATAACCTTTCCTAGTGGCCT
Found at i:91896713 original size:22 final size:21
Alignment explanation
Indices: 91896661--91896703 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
91896651 AAATTTGTTG
*
91896661 AAAATAATTAAAATTTATTAT
1 AAAATAATTAAAATTCATTAT
91896682 AAAATTAATTAAAATTCATTAT
1 AAAA-TAATTAAAATTCATTAT
91896704 GTTAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATAATTAAAATTCATTAT
Found at i:91903319 original size:14 final size:16
Alignment explanation
Indices: 91903288--91903332 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
91903278 GTTATAAATT
* *
91903288 TAATTATGTTAAATTA
1 TAATTATATTATATTA
91903304 TAA-TA-ATTATATTA
1 TAATTATATTATATTA
91903318 TAATTATATTATATT
1 TAATTATATTATATT
91903333 TATTATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.40
15 4 0.16
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATTATATTATATTA
Found at i:91903338 original size:9 final size:11
Alignment explanation
Indices: 91903288--91903338 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 11
91903278 GTTATAAATT
*
91903288 TAATTATGTTA
1 TAATTATATTA
91903299 -AATTATA--A
1 TAATTATATTA
91903307 TAATTATATTA
1 TAATTATATTA
91903318 TAATTATATTA
1 TAATTATATTA
91903329 T-ATT-TATTA
1 TAATTATATTA
91903338 T
1 T
91903339 GAAATAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
8 1 0.03
9 13 0.36
10 9 0.25
11 13 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
TAATTATATTA
Found at i:91903757 original size:3 final size:3
Alignment explanation
Indices: 91903749--91903793 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
91903739 AAATAGATAT
* *
91903749 TTA TTA TTA -TA TTA TTA TAA TGTA TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
91903794 ACTAACATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:91904357 original size:16 final size:17
Alignment explanation
Indices: 91904336--91904368 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
91904326 TAAATGAGTT
91904336 AATTAGGAT-TAAATTG
1 AATTAGGATATAAATTG
*
91904352 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
91904369 GATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (17 bp):
AATTAGGATATAAATTG
Found at i:91908102 original size:43 final size:43
Alignment explanation
Indices: 91907936--91908102 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
91907926 CATAAGCTCG
* * * * *
91907936 TACAATGCC-ATATCCCAGAGATGGTCTTACATGTTAT-TCCA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
* * * * *
91907977 TATCGATGCCACTGTCCCAGACA-GAGTCTTACACGAAATC-GAT
1 TA-CAATGCCAATGTCCCAGACATG-GTCTTACACGTAATCTCAA
* * * *
91908020 TAACGATGCCAATGTTCCAGACATGATCTTACACATAATCTCAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
* *
91908064 TACAATGCCAATGTCCTAGACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
91908103 ACATCTTGGT
Statistics
Matches: 96, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 83 0.86
44 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
Found at i:91916824 original size:38 final size:40
Alignment explanation
Indices: 91916781--91917018 Score: 138
Period size: 49 Copynumber: 5.2 Consensus size: 40
91916771 TTCACATTCA
91916781 TCACAT-C-GGCCATTAGGCCTTATCACATATATACACTT
1 TCACATACTGGCCATTAGGCCTTATCACATATATACACTT
*
91916819 TCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
1 T--CA--CAT-AC--TGGCCATTAGGCCTTATCACATATATACACTT
91916866 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
1 T--CA--CAT-AC-T-GGCCATTAGGCCTTATCAC--ATATATACACTT
*
91916915 TCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATATACACTT
1 T--CA--CAT-AC-T-GGCCATTAGGCCTTATCAC--ATATATACACTT
91916964 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTT
1 T--CA--CAT-AC-T-GGCCATTAGGCCTTATCACATATAT--ACACTT
91917013 TCACAT
1 TCACAT
91917019 TCATCACGTT
Statistics
Matches: 181, Mismatches: 5, Indels: 21
0.87 0.02 0.10
Matches are distributed among these distances:
38 1 0.01
40 2 0.01
42 3 0.02
44 1 0.01
45 3 0.02
46 1 0.01
47 69 0.38
49 101 0.56
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (40 bp):
TCACATACTGGCCATTAGGCCTTATCACATATATACACTT
Found at i:91917053 original size:47 final size:47
Alignment explanation
Indices: 91916423--91917052 Score: 956
Period size: 47 Copynumber: 13.3 Consensus size: 47
91916413 CCCTTCGGGA
* * *
91916423 CTTATCACATTTATACACTTTCACA-TCGATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATTGGCCATTCGGC
*
91916470 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
91916517 CTTATCACTTATATACACTTTCACATCCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
91916564 CTTATCACATATATACGCTTCCACATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
91916611 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
91916658 CTTATCACATATATACGCTTCCACATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
91916705 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
91916752 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
91916799 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
91916846 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
91916893 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
91916942 CTTGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
91916991 CTTATCACATATATACACACTTTCACATTCATCACGTTGGCCATTCGGT
1 CTTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTCGGC
91917040 CTTATCACATATA
1 CTTATCACATATA
91917053 CTATCAAGTA
Statistics
Matches: 539, Mismatches: 39, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
47 401 0.74
48 2 0.00
49 136 0.25
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:91926353 original size:107 final size:107
Alignment explanation
Indices: 91926216--91926437 Score: 417
Period size: 107 Copynumber: 2.1 Consensus size: 107
91926206 TACATTCAAA
91926216 TAAACAAAATTAGAGAAAATAAACTATTAAGGGCCTTTCCTTAAAATTTTTACTCTATTCTCATT
1 TAAACAAAATTAGAGAAAATAAACTATTAAGGGCCTTTCCTTAAAATTTTTACTCTATTCTCATT
91926281 ATTTCCGAACACAAAACATAAAAAAGCTCATTTTTTTAAGTC
66 ATTTCCGAACACAAAACATAAAAAAGCTCATTTTTTTAAGTC
* *
91926323 TAAACAAAATTGGAGAAAATAAACTATTAAGGGCCTTTCCTTAGAATTTTTACTCTATTCTCATT
1 TAAACAAAATTAGAGAAAATAAACTATTAAGGGCCTTTCCTTAAAATTTTTACTCTATTCTCATT
91926388 ATTTCCGAACACAAAACATAAAAAAGCTCATTTTTTTAAGTC
66 ATTTCCGAACACAAAACATAAAAAAGCTCATTTTTTTAAGTC
*
91926430 TAAGCAAA
1 TAAACAAA
91926438 GTTGCGATTG
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 112 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.34
Consensus pattern (107 bp):
TAAACAAAATTAGAGAAAATAAACTATTAAGGGCCTTTCCTTAAAATTTTTACTCTATTCTCATT
ATTTCCGAACACAAAACATAAAAAAGCTCATTTTTTTAAGTC
Found at i:91926707 original size:17 final size:18
Alignment explanation
Indices: 91926683--91926735 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
91926673 AATAAAAAAT
91926683 ACAATTATAATAATATAA
1 ACAATTATAATAATATAA
*
91926701 A-AATTATAATAACA-AA
1 ACAATTATAATAATATAA
91926717 ACAATTATAA-AATAATAA
1 ACAATTATAATAAT-ATAA
91926735 A
1 A
91926736 TTTAAACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 5 0.17
17 21 0.70
18 4 0.13
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
ACAATTATAATAATATAA
Found at i:91927679 original size:18 final size:19
Alignment explanation
Indices: 91927648--91927697 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
91927638 TAATATATAA
*
91927648 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTAAAAATT
91927668 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
91927687 ATTTT-AATTTT
1 ATTTTGAATTTT
91927698 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 14 0.50
19 8 0.29
20 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:91927679 original size:19 final size:20
Alignment explanation
Indices: 91927648--91927698 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
91927638 TAATATATAA
*
91927648 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAATT
91927668 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
91927687 ATTTT-AATTTTT
1 ATTTTGAATTTTT
91927699 TTTGTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 10 0.36
19 12 0.43
20 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:91927933 original size:7 final size:7
Alignment explanation
Indices: 91927885--91927932 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
91927875 ATTTGATAAA
91927885 CTCAAAG
1 CTCAAAG
91927892 CTCAAAG
1 CTCAAAG
91927899 CTCAAAG
1 CTCAAAG
91927906 CTCAAAG
1 CTCAAAG
91927913 CTCAAAG
1 CTCAAAG
*
91927920 CTCAAAA
1 CTCAAAG
91927927 CTCAAA
1 CTCAAA
91927933 ATTCAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.46, C:0.29, G:0.10, T:0.15
Consensus pattern (7 bp):
CTCAAAG
Found at i:91927938 original size:7 final size:7
Alignment explanation
Indices: 91927882--91927938 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 7
91927872 TGGATTTGAT
91927882 AAACTCA
1 AAACTCA
*
91927889 AAGCTCA
1 AAACTCA
*
91927896 AAGCTCA
1 AAACTCA
*
91927903 AAGCTCA
1 AAACTCA
*
91927910 AAGCTCA
1 AAACTCA
*
91927917 AAGCTCA
1 AAACTCA
91927924 AAACTCA
1 AAACTCA
*
91927931 AAATTCA
1 AAACTCA
91927938 A
1 A
91927939 TTTTTATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.49, C:0.26, G:0.09, T:0.16
Consensus pattern (7 bp):
AAACTCA
Found at i:91934116 original size:23 final size:24
Alignment explanation
Indices: 91934083--91934132 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
91934073 ATTTTTTTTC
91934083 TTCTAAATTTA-ATGTAAAATAATT
1 TTCTAAATTTATAT-TAAAATAATT
*
91934107 TTCT-AATTTATATTAAAATAGTT
1 TTCTAAATTTATATTAAAATAATT
91934130 TTC
1 TTC
91934133 CTCTAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (24 bp):
TTCTAAATTTATATTAAAATAATT
Found at i:91935876 original size:21 final size:22
Alignment explanation
Indices: 91935832--91935876 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
91935822 ATTAAAATTG
* *
91935832 ACCTAAACTCAAAATGATTAAA
1 ACCTAAAATCAAAATGACTAAA
*
91935854 ACCTAAAAT-AAAATGACTCAA
1 ACCTAAAATCAAAATGACTAAA
91935875 AC
1 AC
91935877 ACATAACTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.56, C:0.20, G:0.04, T:0.20
Consensus pattern (22 bp):
ACCTAAAATCAAAATGACTAAA
Found at i:91939247 original size:22 final size:22
Alignment explanation
Indices: 91939216--91939259 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
91939206 AATTATTAAC
*
91939216 ATAATGAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
91939238 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAAATAATTTT
91939260 GATCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:91939422 original size:22 final size:22
Alignment explanation
Indices: 91939396--91939440 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
91939386 ATTATGTGTA
91939396 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
91939418 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
91939440 T
1 T
91939441 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:91939736 original size:33 final size:33
Alignment explanation
Indices: 91939689--91939754 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
91939679 AAAAACTTCA
* * *
91939689 AACTTGCCACATGTGTGGCTGGCCATGGGAGGG
1 AACTTGCCAAATGTGCGGCAGGCCATGGGAGGG
91939722 AACTTGCCAAATGTGCGGCAGGCCATGGGAGGG
1 AACTTGCCAAATGTGCGGCAGGCCATGGGAGGG
91939755 CTCTTTGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.21, C:0.21, G:0.39, T:0.18
Consensus pattern (33 bp):
AACTTGCCAAATGTGCGGCAGGCCATGGGAGGG
Found at i:91948770 original size:15 final size:15
Alignment explanation
Indices: 91948722--91948790 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
91948712 TAAAGATAAC
*
91948722 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
* *
91948736 AAGAAATCCA-AGATT
1 AAGAAACCCAGA-ATA
*
91948751 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
91948766 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
91948781 AAGAAACCCA
1 AAGAAACCCA
91948791 AGATACGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.20
15 34 0.77
16 1 0.02
ACGTcount: A:0.58, C:0.17, G:0.14, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:91948786 original size:30 final size:30
Alignment explanation
Indices: 91948722--91948790 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
91948712 TAAAGATAAC
* *
91948722 AAGAAAACC-GAATAAAGAAATCCAAGATT
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
*
91948751 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATA
91948781 AAGAAACCCA
1 AAGAAACCCA
91948791 AGATACGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.58, C:0.17, G:0.14, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:91951894 original size:46 final size:46
Alignment explanation
Indices: 91951719--91951894 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
91951709 TGTAACCCGC
* * * * *
91951719 CCATAAGTGAAATTGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
91951765 CCATAACTGAACTCGGACTCAACTCAACTACTTTGGATACCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--A-C--GTTCGCAT
* * *
91951815 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
91951858 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
91951895 TGCCCAAATA
Statistics
Matches: 101, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 1 0.01
45 3 0.03
46 57 0.56
47 25 0.25
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:91960187 original size:46 final size:46
Alignment explanation
Indices: 91960135--91960759 Score: 923
Period size: 46 Copynumber: 13.6 Consensus size: 46
91960125 GCTTTCTGAA
91960135 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
91960181 ATGAAATGTGTAAGTCCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
91960227 ATGAAATGTGTAAGACCATGGTTAAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
91960273 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
91960319 ATGAAATGTGTAAGACTTTGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
91960365 AT-AAATTGTGTAAGACCATGGTTGAAAGACACCATGGCAACAGGAT
1 ATGAAA-TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
91960411 ATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
91960457 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
91960503 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
91960549 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
91960595 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
91960640 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * * *
91960686 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
91960732 A-AAAATGAGTAAGACCATAGTTGAAAGA
1 ATGAAATGTGTAAGACCATGGTTGAAAGA
91960760 CATTATGGCA
Statistics
Matches: 539, Mismatches: 37, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
45 63 0.12
46 473 0.88
47 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:91962215 original size:16 final size:15
Alignment explanation
Indices: 91962167--91962217 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
91962157 TAACAGAGTG
*
91962167 AAAGAAAGAAAAGAA
1 AAAGAAAGAGAAGAA
* *
91962182 AAA-AAAAAGAAAGGA
1 AAAGAAAGAG-AAGAA
91962197 AAAGAAAGATGAAGAA
1 AAAGAAAGA-GAAGAA
91962213 AAAGA
1 AAAGA
91962218 GAAACGAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 4 0.14
15 10 0.36
16 13 0.46
17 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAAGAAAGAGAAGAA
Found at i:91963672 original size:25 final size:25
Alignment explanation
Indices: 91963644--91963738 Score: 79
Period size: 25 Copynumber: 3.7 Consensus size: 25
91963634 AACTAATAAT
*
91963644 TATAAATTATAA-AATTTATATTAAA
1 TATAAAATATAATAA-TTATATTAAA
91963669 TATAAAATATAATAATTATATTAAAAA
1 TATAAAATATAATAATTATATT--AAA
*
91963696 TTTAAATATTACTAATAA-TATATTAAA
1 TATAAA-A-TA-TAATAATTATATTAAA
* *
91963723 -ATATAATATAGTAATT
1 TATAAAATATAATAATT
91963739 TATACCTCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
23 5 0.09
24 3 0.05
25 19 0.33
26 5 0.09
27 11 0.19
28 1 0.02
29 8 0.14
30 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (25 bp):
TATAAAATATAATAATTATATTAAA
Found at i:91964638 original size:21 final size:20
Alignment explanation
Indices: 91964617--91964670 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
91964607 TGTTTGAAAT
91964617 TTTAATATAAATATTATAAA
1 TTTAATATAAATATTATAAA
* *
91964637 TTTAAT-TATATTTTAT-AA
1 TTTAATATAAATATTATAAA
*
91964655 TTTAATATGAATATTA
1 TTTAATATAAATATTA
91964671 GTTTTATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 8 0.29
19 14 0.50
20 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTAATATAAATATTATAAA
Found at i:91967224 original size:20 final size:20
Alignment explanation
Indices: 91967199--91967236 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
91967189 GTAACTTAAT
*
91967199 AAACCTTATTTTGATTAAAC
1 AAACCTTATTTTAATTAAAC
91967219 AAACCTTATTTTAATTAA
1 AAACCTTATTTTAATTAA
91967237 TCTAATGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (20 bp):
AAACCTTATTTTAATTAAAC
Found at i:91968465 original size:24 final size:22
Alignment explanation
Indices: 91968413--91968469 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
91968403 GATTCTACAA
91968413 AATTTAAATTAGATAACTTATT
1 AATTTAAATTAGATAACTTATT
* * *
91968435 ATTTTTAAATTATTATAGCTTAATT
1 A-ATTTAAATTA-GATAACTT-ATT
91968460 AATTTAAATT
1 AATTTAAATT
91968470 TATAATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 1 0.04
23 9 0.32
24 14 0.50
25 4 0.14
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
AATTTAAATTAGATAACTTATT
Found at i:91969739 original size:12 final size:13
Alignment explanation
Indices: 91969717--91969750 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
91969707 AATAGGAAAA
91969717 TATTATTTTATTT
1 TATTATTTTATTT
91969730 TATT-TTTTATTT
1 TATTATTTTATTT
*
91969742 TTTTATTTT
1 TATTATTTT
91969751 TGATTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TATTATTTTATTT
Found at i:91969747 original size:15 final size:15
Alignment explanation
Indices: 91969727--91969757 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
91969717 TATTATTTTA
*
91969727 TTTTATTTTTTATTT
1 TTTTATTTTTGATTT
91969742 TTTTATTTTTGATTT
1 TTTTATTTTTGATTT
91969757 T
1 T
91969758 ATATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (15 bp):
TTTTATTTTTGATTT
Found at i:91977664 original size:46 final size:46
Alignment explanation
Indices: 91977560--91977690 Score: 167
Period size: 46 Copynumber: 2.8 Consensus size: 46
91977550 GGAAATTGAT
* * * *
91977560 ATCCAAACTCGTTGAGTTGCATTTCGAGTTCACCTATGGATGCAAGC
1 ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAGC
*
91977607 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA-C
1 ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGC-AAGC
*
91977653 A-CTCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 ATC-CGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
91977691 GTGAGATTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
45 1 0.01
46 44 0.59
47 30 0.40
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAGC
Found at i:91985723 original size:46 final size:45
Alignment explanation
Indices: 91985598--91985761 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 45
91985588 GTGTCGCCGC
* * * *
91985598 CATGTCCAAGACATGGTCTTACACTG-ACACATCTCGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGCACTCGTCTCG-AGCCGATA
* *
91985643 CATGTCCCAGACAT-GTCTTACACTGGC-TTACGTCTCGAGGCTGATA
1 CATGTCCCAGACATGGTCTTACACT-GCACT-CGTCTCGA-GCCGATA
* * *
91985689 CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATGCCAATGC
1 CATGTCCCAGACATGGTCTTACACT-GCACTCGTCTCGA-GCCGAT-A
*
91985736 CATGTTCCAGACATGGTCTTACACTG
1 CATGTCCCAGACATGGTCTTACACTG
91985762 GCTCTCATAA
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
44 10 0.10
45 15 0.15
46 48 0.49
47 15 0.15
48 10 0.10
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGCACTCGTCTCGAGCCGATA
Found at i:91986622 original size:61 final size:62
Alignment explanation
Indices: 91986480--91986622 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 62
91986470 TCAAGCTTTA
*
91986480 CTGGGCCTAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCTAA-CCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
* * *
91986542 CTGGGCCATAGGCCC--TTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAAT
1 CTGGGCC-TA-ACCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAAT
91986602 CTGGGCCGTAACCCTATTACA
1 CTGGGCC-TAACCCTATTACA
91986623 AGTTGAGATA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
59 3 0.04
60 29 0.42
61 22 0.32
62 10 0.14
63 5 0.07
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (62 bp):
CTGGGCCTAACCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:91989681 original size:62 final size:60
Alignment explanation
Indices: 91989543--91989683 Score: 153
Period size: 60 Copynumber: 2.3 Consensus size: 60
91989533 ATCAGAGTTA
* *
91989543 ACTGGGCCTTAGCCCATATCAATATTAATTTGGGCCATAGGCCCTTACAGTATCAAAGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGGCCCTTACAGTATCAAAGTAT
* * * *
91989604 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTA-GCCCTATTACAAGT-TGAGATA-TAT
1 ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGGCCC--TTAC-AGTATCA-A-AGTAT
91989666 ACTGGGCCTTGCCCATAT
1 ACTGGGCCTTGCCCATAT
91989684 TAACATAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
59 4 0.06
60 24 0.35
61 15 0.22
62 24 0.35
63 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (60 bp):
ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGGCCCTTACAGTATCAAAGTAT
Found at i:91998195 original size:20 final size:21
Alignment explanation
Indices: 91998170--91998209 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
91998160 ACTTTGAAAT
91998170 AGGGCAA-ACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
91998190 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
91998210 CCACTTCGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.23, C:0.28, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:92001262 original size:26 final size:26
Alignment explanation
Indices: 92001226--92001277 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
92001216 ACAGCCTTTA
92001226 GATTGGAGATCAATCAGAAGTTCAAT
1 GATTGGAGATCAATCAGAAGTTCAAT
*
92001252 GATTGGTGATCAATCAGAAGTTCAAT
1 GATTGGAGATCAATCAGAAGTTCAAT
92001278 CCTCTATGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.29
Consensus pattern (26 bp):
GATTGGAGATCAATCAGAAGTTCAAT
Found at i:92001550 original size:69 final size:69
Alignment explanation
Indices: 92001474--92001612 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 69
92001464 TTGGAATTTT
*
92001474 ATTCTTAAATGTTGTTATATTAAAATATTACAAAATCAAAGTTAATGATTTGGAATCAAAAATAA
1 ATTCTTAAATGTTGTTATATCAAAATATTACAAAATCAAAGTTAATGATTTGGAATCAAAAATAA
92001539 AAGA
66 AAGA
* * **
92001543 ATTCTTAAATGTTGTTATATCAAAATGTTACAAAGTCAAAGTTAATGATTTGGAATTGAAAATAA
1 ATTCTTAAATGTTGTTATATCAAAATATTACAAAATCAAAGTTAATGATTTGGAATCAAAAATAA
92001608 AAGA
66 AAGA
92001612 A
1 A
92001613 AGAAAAAAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (69 bp):
ATTCTTAAATGTTGTTATATCAAAATATTACAAAATCAAAGTTAATGATTTGGAATCAAAAATAA
AAGA
Found at i:92002090 original size:42 final size:43
Alignment explanation
Indices: 92002024--92002110 Score: 158
Period size: 42 Copynumber: 2.0 Consensus size: 43
92002014 TTTTAAAGAG
92002024 ATAAAATTATTAGAAATTGAGTAAAAGTTTAAATGTATAAATGA
1 ATAAAATTATTA-AAATTGAGTAAAAGTTTAAATGTATAAATGA
92002068 ATAAAATTATT-AAATTGAGTAAAAGTTTAAATGTATAAATGA
1 ATAAAATTATTAAAATTGAGTAAAAGTTTAAATGTATAAATGA
92002110 A
1 A
92002111 CATTTCAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 32 0.74
44 11 0.26
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (43 bp):
ATAAAATTATTAAAATTGAGTAAAAGTTTAAATGTATAAATGA
Found at i:92021260 original size:16 final size:17
Alignment explanation
Indices: 92021241--92021279 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
92021231 CTTTATTTAC
92021241 TTAATAT-ATTATAATA
1 TTAATATAATTATAATA
92021257 TTAATATAATTATAATA
1 TTAATATAATTATAATA
92021274 -TAATAT
1 TTAATAT
92021280 TATTTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATAATTATAATA
Found at i:92028199 original size:16 final size:15
Alignment explanation
Indices: 92028157--92028200 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
92028147 ATTTATTAAT
*
92028157 TAAATAATTATATTA
1 TAAATAATTATATGA
*
92028172 TAAGATATTTATATGA
1 TAA-ATAATTATATGA
92028188 TAAATAAATTATA
1 TAAAT-AATTATA
92028201 GAAATACTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (15 bp):
TAAATAATTATATGA
Found at i:92029572 original size:18 final size:18
Alignment explanation
Indices: 92029549--92029594 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
92029539 TAAATAAAGG
*
92029549 TACTGAATAATTGACTGC
1 TACTGAATAATTAACTGC
*
92029567 TACTGAATAATTAACTGT
1 TACTGAATAATTAACTGC
92029585 TACTGAATAA
1 TACTGAATAA
92029595 ATGATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (18 bp):
TACTGAATAATTAACTGC
Found at i:92029605 original size:18 final size:18
Alignment explanation
Indices: 92029584--92029625 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
92029574 TAATTAACTG
92029584 TTACTGAATAAATGATTA
1 TTACTGAATAAATGATTA
* *
92029602 TTACTGATTAACTGATTA
1 TTACTGAATAAATGATTA
92029620 TTACTG
1 TTACTG
92029626 TTGACTGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (18 bp):
TTACTGAATAAATGATTA
Found at i:92029689 original size:18 final size:17
Alignment explanation
Indices: 92029666--92029714 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
92029656 AACTGATTGT
*
92029666 TACTGAATATTGGACTAC
1 TACTGAATATTGGA-TAA
*
92029684 TACTGAATGTTTGGATAA
1 TACTGAAT-ATTGGATAA
92029702 TACTGAATATTGG
1 TACTGAATATTGG
92029715 TTATTACTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 18 0.67
19 5 0.19
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (17 bp):
TACTGAATATTGGATAA
Found at i:92031956 original size:16 final size:17
Alignment explanation
Indices: 92031937--92031975 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
92031927 CTTTATTTAC
92031937 TTAATAT-ATTATAATA
1 TTAATATAATTATAATA
92031953 TTAATATAATTATAATA
1 TTAATATAATTATAATA
92031970 -TAATAT
1 TTAATAT
92031976 TATTTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATAATTATAATA
Found at i:92034826 original size:37 final size:37
Alignment explanation
Indices: 92034785--92034960 Score: 291
Period size: 37 Copynumber: 4.8 Consensus size: 37
92034775 TTTGAGTACT
92034785 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
92034822 TCTGATCAAGAAACAAAGTGATAAGTGG-TCACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCT-ACACTTA
*
92034859 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
92034896 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
92034933 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
92034961 TAGCTTCAGC
Statistics
Matches: 133, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
36 1 0.01
37 131 0.98
38 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:92035032 original size:45 final size:46
Alignment explanation
Indices: 92034923--92035046 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
92034913 GTGATAAGTG
* *
92034923 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
92034969 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
92035014 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
92035047 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:92041988 original size:37 final size:37
Alignment explanation
Indices: 92041947--92042122 Score: 282
Period size: 37 Copynumber: 4.8 Consensus size: 37
92041937 TTTGAGTACT
92041947 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
92041984 TCTGATCAAGAAACAAAGTGATAAGTGG-TCACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCT-ACACTTA
*
92042021 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
* *
92042058 TCTGATCAGGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
92042095 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
92042123 TAGCTTCAGC
Statistics
Matches: 131, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
36 1 0.01
37 129 0.98
38 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:92042194 original size:45 final size:46
Alignment explanation
Indices: 92042085--92042208 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
92042075 GTGATAAGTG
* *
92042085 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
92042131 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
92042176 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
92042209 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:92045108 original size:132 final size:132
Alignment explanation
Indices: 92044931--92045539 Score: 562
Period size: 132 Copynumber: 4.6 Consensus size: 132
92044921 TATTTGAGTT
* ** * * *
92044931 AGATCGCAACTCTGAATAGCTTGTTGATTTAAGATCGCAACTGATATTGTCAAGGTTTGCTGATT
1 AGATCGCAACTCTGAACAGCTCATTGATTTAAGATCGCAACTGATATTGTTAAAGTTCGCTGATT
92044996 TAAGATCGCAACCTAAGTTCATTCGATTT-AGAATCATGAACAAATTTTATTTGAGTTAGCTAAT
66 TAAGATCGCAACCTAAGTTCATTCGATTTAAG-ATCATGAACAAATTTTATTTGAGTTAGCTAAT
92045060 CTC
130 CTC
* * * * * ** * *
92045063 AAATTGCAACTCTGAACAACTAATTGATTTAATATCGCAGTTGATATTGTTAAACTTCACT-AGT
1 AGATCGCAACTCTGAACAGCTCATTGATTTAAGATCGCAACTGATATTGTTAAAGTTCGCTGA-T
* * * *
92045127 TTAAGATCGCAACCTAAGTTCATTTGGTTTAAGATCGTGAACAAATTTTATTTGAGTTAGCTGAT
65 TTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTAAT
92045192 CTC
130 CTC
* * ** * ** * * * *
92045195 ATATCACAACTCCAAATAGCTCGCTGATTTAAGATTGCAAATGATATTGTTAATGTTCACTGATT
1 AGATCGCAACTCTGAACAGCTCATTGATTTAAGATCGCAACTGATATTGTTAAAGTTCGCTGATT
* * * * * *
92045260 TAATATAGCAACCTAAGTTCATTCAATTTAAAATCGTGAA-AATTTTTTATTTGAGTTAGCTAAT
66 TAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAA-ATTTTATTTGAGTTAGCTAAT
92045324 CTC
130 CTC
* * * * * * * *
92045327 GGATAGCAACT-TCAAACAGCTCACTGATTTAAGATCGCAATTGATATTATTAAGGCTT-GTTGA
1 AGATCGCAACTCT-GAACAGCTCATTGATTTAAGATCGCAACTGATATTGTTAAAG-TTCGCTGA
* * * ** * * *
92045390 TTTAAGACCGTAACCTAATTTCATTTTATTTAATATCATGAATAAATTTTATTTGAGTTAGCTGA
64 TTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTAA
92045455 TCTC
129 TCTC
* * ** * * ** * * *
92045459 AGATCGCAACTATGAACAACTGTTTGGTTTAAAATTACAGCTGATATTGTTAAAGTTAGCTAATT
1 AGATCGCAACTCTGAACAGCTCATTGATTTAAGATCGCAACTGATATTGTTAAAGTTCGCTGATT
*
92045524 TAAGGTCGCAACCTAA
66 TAAGATCGCAACCTAA
92045540 CTCTAGTTAA
Statistics
Matches: 382, Mismatches: 86, Indels: 18
0.79 0.18 0.04
Matches are distributed among these distances:
131 5 0.01
132 369 0.97
133 8 0.02
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (132 bp):
AGATCGCAACTCTGAACAGCTCATTGATTTAAGATCGCAACTGATATTGTTAAAGTTCGCTGATT
TAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTAATC
TC
Found at i:92045415 original size:264 final size:264
Alignment explanation
Indices: 92044931--92045469 Score: 654
Period size: 264 Copynumber: 2.0 Consensus size: 264
92044921 TATTTGAGTT
* ** * * * **
92044931 AGATCGCAACTCTGAATAGCTTGTTGATTTAAGATCGCAACTGATATTGTCAAGGTTTGCTGATT
1 AGATCACAACTCCAAATAGCTCGCTGATTTAAGATCGCAAATGATATTGTCAAGGTTCACTGATT
* * *
92044996 TAAGATCGCAACCTAAGTTCATTCGATTTAGAATCATGAACAAATTTTATTTGAGTTAGCTAATC
66 TAAGATAGCAACCTAAGTTCATTCAATTTAAAATCATGAACAAATTTTATTTGAGTTAGCTAATC
* * * * * *
92045061 TCAAATTGCAACTCTGAACAACTAATTGATTTAATATCGCAGTTGATATTGTTAAACTTCACTAG
131 TCAAATAGCAACTCTAAACAACTAACTGATTTAAGATCGCAATTGATATTATTAAACTTCACTAG
* * *
92045126 TTTAAGATCGCAACCTAAGTTCATTTGGTTTAAGATCGTGAACAAATTTTATTTGAGTTAGCTGA
196 TTTAAGACCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTGA
92045191 TCTC
261 TCTC
* * * *
92045195 ATATCACAACTCCAAATAGCTCGCTGATTTAAGATTGCAAATGATATTGTTAATGTTCACTGATT
1 AGATCACAACTCCAAATAGCTCGCTGATTTAAGATCGCAAATGATATTGTCAAGGTTCACTGATT
* * *
92045260 TAATATAGCAACCTAAGTTCATTCAATTTAAAATCGTGAA-AATTTTTTATTTGAGTTAGCTAAT
66 TAAGATAGCAACCTAAGTTCATTCAATTTAAAATCATGAACAA-ATTTTATTTGAGTTAGCTAAT
** * * * *
92045324 CTCGGATAGCAACT-TCAAACAGCTCACTGATTTAAGATCGCAATTGATATTATTAAGGCTT--G
130 CTCAAATAGCAACTCT-AAACAACTAACTGATTTAAGATCGCAATTGATATTATTAA-ACTTCAC
* * * * * *
92045386 TTGATTTAAGACCGTAACCTAATTTCATTTTATTTAATATCATGAATAAATTTTATTTGAGTTAG
193 TAG-TTTAAGACCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAAATTTTATTTGAGTTAG
92045451 CTGATCTC
257 CTGATCTC
*
92045459 AGATCGCAACT
1 AGATCACAACT
92045470 ATGAACAACT
Statistics
Matches: 230, Mismatches: 41, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
263 5 0.02
264 222 0.97
265 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (264 bp):
AGATCACAACTCCAAATAGCTCGCTGATTTAAGATCGCAAATGATATTGTCAAGGTTCACTGATT
TAAGATAGCAACCTAAGTTCATTCAATTTAAAATCATGAACAAATTTTATTTGAGTTAGCTAATC
TCAAATAGCAACTCTAAACAACTAACTGATTTAAGATCGCAATTGATATTATTAAACTTCACTAG
TTTAAGACCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTGA
TCTC
Found at i:92060158 original size:39 final size:39
Alignment explanation
Indices: 92060105--92060179 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
92060095 AAATATGGTT
* *
92060105 TTAATTAATAATAAAACAAAGTGGCATGGGGGAGTGAGA
1 TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTGAGA
*
92060144 TTAATTAATAATAAAATAAAGTAGCATAGGGGAGTG
1 TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTG
92060180 GGATCAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.45, C:0.04, G:0.25, T:0.25
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTGAGA
Found at i:92064196 original size:50 final size:50
Alignment explanation
Indices: 92064083--92064324 Score: 270
Period size: 50 Copynumber: 4.7 Consensus size: 50
92064073 ATTTGGGTAA
* * *
92064083 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* *
92064139 AGAGGTCCCCTGTAAGACCATGCCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
92064189 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
92064239 AGAAGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** *
92064289 AGAACATCCCATGTAAGACTATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
92064325 TTTGGCATGT
Statistics
Matches: 162, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 89 0.55
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:92064274 original size:100 final size:103
Alignment explanation
Indices: 92064083--92064332 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 103
92064073 ATTTGGGTAA
*
92064083 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAAGTCCC
* *
92064148 CTGTAAGACCATGCCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGCCTGGGACATGGCATGGGCACC-ATCACG
* * *
92064189 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAAGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAAGTCCCCTA
*
92064251 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGCCTGGGACATGGCATGGGCACCATCACG
* * *
92064289 AGAACATCCCATGTAAGACTATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
92064333 GTTATTATCA
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.38
101 38 0.29
105 2 0.02
106 40 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAAGTCCCCTA
TAAGACCATGCCTGGGACATGGCATGGGCACCATCACG
Found at i:92070453 original size:18 final size:18
Alignment explanation
Indices: 92070432--92070467 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
92070422 CTTAATTCTA
* *
92070432 AAAAATTTAAAGAAATAT
1 AAAAATATAAAAAAATAT
92070450 AAAAATATAAAAAAATAT
1 AAAAATATAAAAAAATAT
92070468 TTTATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAATATAAAAAAATAT
Found at i:92071001 original size:12 final size:12
Alignment explanation
Indices: 92070986--92071010 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92070976 AATGATTAAA
92070986 AAAATAAAAAAT
1 AAAATAAAAAAT
92070998 AAAATAAAAAAT
1 AAAATAAAAAAT
92071010 A
1 A
92071011 GTTTTCTCGA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:92084943 original size:32 final size:32
Alignment explanation
Indices: 92084898--92084962 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
92084888 CAAACACTAC
*
92084898 TTTATTATGTTTGTTTTACTAAAAATAACTTT
1 TTTATTATATTTGTTTTACTAAAAATAACTTT
92084930 TTTATTATATTTGTTTTACTAAAAATAACTTT
1 TTTATTATATTTGTTTTACTAAAAATAACTTT
92084962 T
1 T
92084963 GAAAAATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (32 bp):
TTTATTATATTTGTTTTACTAAAAATAACTTT
Found at i:92086219 original size:30 final size:29
Alignment explanation
Indices: 92086154--92086219 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
92086144 AATTGAACCA
* * *
92086154 TCCATCAAAATATAAACATCAATAAAGTT
1 TCCATCAAAATACAAACATCAATAAACTG
* *
92086183 TCCATCAAAATACAACCATTAATTAAACTG
1 TCCATCAAAATACAAACATCAA-TAAACTG
92086213 TCCATCA
1 TCCATCA
92086220 TTGAAATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (29 bp):
TCCATCAAAATACAAACATCAATAAACTG
Found at i:92087051 original size:23 final size:24
Alignment explanation
Indices: 92087009--92087056 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
92086999 TTTTCCTTAG
*
92087009 AATAGGAGGGTTAATTGTTCCCAT
1 AATAGGAGGGTCAATTGTTCCCAT
92087033 AATAGGA-GGTCAATTGTTCCCAT
1 AATAGGAGGGTCAATTGTTCCCAT
92087056 A
1 A
92087057 TCAATTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (24 bp):
AATAGGAGGGTCAATTGTTCCCAT
Found at i:92098186 original size:47 final size:46
Alignment explanation
Indices: 92098104--92098251 Score: 158
Period size: 46 Copynumber: 3.2 Consensus size: 46
92098094 CCAAAAACGA
* * * *
92098104 TCTTACACTGACTTACATCTCAAGTCGAA-GCCATGTTCTAGACATGG
1 TCTTACACTGACTTACATCTCGAGGCCAATG-CATGTCCTAGACAT-G
*
92098151 TCTTACACTGAC-TATCATCTCGTA-GCCATTGCATGTCCTAGACATG
1 TCTTACACTGACTTA-CATCTCG-AGGCCAATGCATGTCCTAGACATG
* * * *
92098197 TCTTATACTGGCTTACGTCTCGAGGCCAATGCATGTCCCAGACATG
1 TCTTACACTGACTTACATCTCGAGGCCAATGCATGTCCTAGACATG
92098243 TCTTACACT
1 TCTTACACT
92098252 AGCACTCGTC
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 47 0.55
47 35 0.41
48 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (46 bp):
TCTTACACTGACTTACATCTCGAGGCCAATGCATGTCCTAGACATG
Found at i:92098262 original size:46 final size:46
Alignment explanation
Indices: 92098175--92098302 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 46
92098165 TCATCTCGTA
* * * * * *
92098175 GCCATTGCATGTCCTAGACATGTCTTATACTGGCTTACGTCTCGAG
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAG
*
92098221 GCCAATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCAAG
** **
92098267 GCTGATGCCACATCCCAGACATAGTCTTACACTAGC
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAGC
92098303 TCTCACAAGT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 42 0.62
47 13 0.19
48 13 0.19
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAG
Found at i:92098647 original size:45 final size:45
Alignment explanation
Indices: 92098583--92098674 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
92098573 TTCTTGATCT
*
92098583 ATAATAGAAAAATACACTTATTTAATCACTAAATGAAATTAAGAA
1 ATAATAGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
*
92098628 ATAATGGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
1 ATAATAGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
92098673 AT
1 AT
92098675 TGAAAATTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (45 bp):
ATAATAGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
Found at i:92103482 original size:13 final size:13
Alignment explanation
Indices: 92103464--92103495 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
92103454 CTGTGCATTC
92103464 TTAGTTTAAATAA
1 TTAGTTTAAATAA
92103477 TTAGTTTAAATAA
1 TTAGTTTAAATAA
92103490 TTAGTT
1 TTAGTT
92103496 AATTAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (13 bp):
TTAGTTTAAATAA
Found at i:92108905 original size:45 final size:47
Alignment explanation
Indices: 92108848--92108969 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 47
92108838 TGTAGTCAAC
* *
92108848 GCATGTCTCAGACATGTCTTACACTAGCTTA-T-GTCTCGAGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-TACTCGTCTCAAGGCTGAT
*
92108894 G-ATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTCAAGGTTGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTACTCGTCTCAAGGCTGAT
* *
92108939 GCCACGTCCCAGACATTATCTTACACTAGCT
1 G-CATGTCCCAGACA-TGTCTTACACTAGCT
92108970 CTCACAAATG
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
43 1 0.02
44 1 0.02
45 38 0.58
46 1 0.02
47 11 0.17
48 13 0.20
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
GCATGTCCCAGACATGTCTTACACTAGCTACTCGTCTCAAGGCTGAT
Found at i:92111543 original size:27 final size:27
Alignment explanation
Indices: 92111510--92111591 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
92111500 ATCTATTCCA
92111510 CATTTAATTCATGAATATATAACTCAT
1 CATTTAATTCATGAATATATAACTCAT
* * * * *
92111537 CATTTAAATAATG-GTACTATCTATTCCA-
1 CATTTAATTCATGAATA-TAT-AACT-CAT
92111565 CATTTAATTCATGAATATATAACTCAT
1 CATTTAATTCATGAATATATAACTCAT
92111592 GTATTCAATG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
26 4 0.10
27 16 0.40
28 16 0.40
29 4 0.10
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (27 bp):
CATTTAATTCATGAATATATAACTCAT
Found at i:92111564 original size:55 final size:55
Alignment explanation
Indices: 92111480--92111591 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
92111470 TTATTCACGT
92111480 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
1 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
92111535 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
1 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
92111590 AT
1 AT
92111592 GTATTCAATG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.40
Consensus pattern (55 bp):
ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
Done.