Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 155 of 213
Found at i:46386062 original size:29 final size:29
Alignment explanation
Indices: 46386027--46386100 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
46386017 GTTGTGAGAT
* *
46386027 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
46386056 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
46386085 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
46386101 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:46386519 original size:40 final size:40
Alignment explanation
Indices: 46386392--46386578 Score: 166
Period size: 40 Copynumber: 4.7 Consensus size: 40
46386382 GCATTTGAAT
*
46386392 GATATCCGGGCTAAG-TCTCGAAG-GCAATT-GAGCTAGTGA
1 GATATCCGGGCTAAGTTC-CGAAGAGC-ATTCGTGCTAGTGA
* ** * * *
46386431 TTATATCCGGGCTAAGACCCGAAG-GCATTGGTGCGAGTTA
1 -GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
* * *
46386471 CTAAATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGA
1 -GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
* * * *
46386512 GGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGT
1 GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
* *
46386552 TATATCCGGGCTAGGTTCCGAAGAGCA
1 GATATCCGGGCTAAGTTCCGAAGAGCA
46386579 ATCATGCTGG
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.03
40 103 0.86
41 14 0.12
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
Found at i:46389989 original size:47 final size:47
Alignment explanation
Indices: 46389936--46390412 Score: 784
Period size: 47 Copynumber: 10.2 Consensus size: 47
46389926 AATTCTAAAT
46389936 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46389983 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46390030 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46390077 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46390124 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46390169 T-TGATAAGG-CTAATGG-CGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
46390213 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
46390261 TATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
46390310 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*** * * * * * * *
46390357 TGTGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46390404 TGTGATAAG
1 TGTGATAAG
46390413 TCCCGAAGGG
Statistics
Matches: 405, Mismatches: 17, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
42 22 0.05
43 7 0.02
44 13 0.03
45 7 0.02
46 5 0.01
47 274 0.68
48 31 0.08
49 46 0.11
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:46390588 original size:38 final size:37
Alignment explanation
Indices: 46390531--46390609 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
46390521 CTGAGCTCTA
* *
46390531 AAGACCCGATGACTACGTGTGG-GAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-A-TTATGTCCGGGT
* *
46390569 AAGACCCTATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46390606 AAGA
1 AAGA
46390610 TTTCGTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 15 0.42
38 20 0.56
39 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46392079 original size:70 final size:70
Alignment explanation
Indices: 46391960--46392240 Score: 341
Period size: 70 Copynumber: 4.0 Consensus size: 70
46391950 GGGGTGTTAC
* * * *
46391960 ATTAAAGCTGGGAGCGTAGGCTCGCGTTAACTATTTTGGAGGCTGTGATATTGAACTTGCGAGCC
1 ATTAGAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTATGATATTGAACCTGCGAGCC
46392025 TTAAG
66 TTAAG
* * * *
46392030 ATTAGAGCTGGGAGCGTAGGCTCTCGTTAACTGTTTTGGAGGTTATGATATTGAACCTGCGAGCC
1 ATTAGAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTATGATATTGAACCTGCGAGCC
46392095 TTAAG
66 TTAAG
* * * * * ** * *
46392100 ATTACAGTTGGGAGTGTAGACTCGCGCTAACTATTTTGAAGGCTGGGGTATTGAACTTGCGAGCC
1 ATTAGAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTATGATATTGAACCTGCGAGCC
46392165 TTAAG
66 TTAAG
* * * *
46392170 ATT-GTAGCTGGGAGCATAAGCTCGCGCTAACTATTTTGGAGGCTA-CAGTATTGAACCTGCAAG
1 ATTAG-AGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTATGA-TATTGAACCTGCGAG
46392233 CCTTAAG
64 CCTTAAG
46392240 A
1 A
46392241 ATGCCCTGTC
Statistics
Matches: 178, Mismatches: 31, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
70 178 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (70 bp):
ATTAGAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTATGATATTGAACCTGCGAGCC
TTAAG
Found at i:46392222 original size:140 final size:140
Alignment explanation
Indices: 46391968--46392240 Score: 388
Period size: 140 Copynumber: 1.9 Consensus size: 140
46391958 ACATTAAAGC
* * * *
46391968 TGGGAGCGTAGGCTCGCGTTAACTATTTTGGAGGCTGTGATATTGAACTTGCGAGCCTTAAGATT
1 TGGGAGCGTAGACTCGCGCTAACTATTTTGAAGGCTGGGATATTGAACTTGCGAGCCTTAAGATT
* * * * * * * *
46392033 AGAGCTGGGAGCGTAGGCTCTCGTTAACTGTTTTGGAGGTTATGATATTGAACCTGCGAGCCTTA
66 AGAGCTGGGAGCATAAGCTCGCGCTAACTATTTTGGAGGCTAAGATATTGAACCTGCAAGCCTTA
46392098 AGATTACAGT
131 AGATTACAGT
* *
46392108 TGGGAGTGTAGACTCGCGCTAACTATTTTGAAGGCTGGGGTATTGAACTTGCGAGCCTTAAGATT
1 TGGGAGCGTAGACTCGCGCTAACTATTTTGAAGGCTGGGATATTGAACTTGCGAGCCTTAAGATT
46392173 -GTAGCTGGGAGCATAAGCTCGCGCTAACTATTTTGGAGGCTACAG-TATTGAACCTGCAAGCCT
66 AG-AGCTGGGAGCATAAGCTCGCGCTAACTATTTTGGAGGCTA-AGATATTGAACCTGCAAGCCT
46392236 TAAGA
129 TAAGA
46392241 ATGCCCTGTC
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
139 1 0.01
140 115 0.98
141 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (140 bp):
TGGGAGCGTAGACTCGCGCTAACTATTTTGAAGGCTGGGATATTGAACTTGCGAGCCTTAAGATT
AGAGCTGGGAGCATAAGCTCGCGCTAACTATTTTGGAGGCTAAGATATTGAACCTGCAAGCCTTA
AGATTACAGT
Found at i:46397986 original size:29 final size:29
Alignment explanation
Indices: 46397953--46398008 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
46397943 TCAAAAAAAA
46397953 TAAAATGGATGTTATATTCGACAAGAAAC
1 TAAAATGGATGTTATATTCGACAAGAAAC
*
46397982 TAAAATGGATGTTTTATTCGACAAGAA
1 TAAAATGGATGTTATATTCGACAAGAA
46398009 CTAGGAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (29 bp):
TAAAATGGATGTTATATTCGACAAGAAAC
Found at i:46405160 original size:26 final size:26
Alignment explanation
Indices: 46405097--46405153 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
46405087 ACACACCTTA
*
46405097 GCTCTT-ATGAGCATCCCGATATATG
1 GCTCTTCATGAGCATCCCGATATAAG
*
46405122 GCTCTTCATGAGCTTCCCGAT-TACAG
1 GCTCTTCATGAGCATCCCGATATA-AG
46405148 GCTCTT
1 GCTCTT
46405154 TGTGAGCGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.33
Consensus pattern (26 bp):
GCTCTTCATGAGCATCCCGATATAAG
Found at i:46408136 original size:205 final size:205
Alignment explanation
Indices: 46407777--46408164 Score: 749
Period size: 205 Copynumber: 1.9 Consensus size: 205
46407767 TTAAACACAA
46407777 CACAATAGCACAATACTCATATATATATACTAACCACAGAGAGTTTAAGTTTAGAAACTCACCAG
1 CACAATAGCACAATACTCATATATATATACTAACCACAGAGAGTTTAAGTTTAGAAACTCACCAG
46407842 CAAAATACCTAAAAGCTAGTACCGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
66 CAAAATACCTAAAAGCTAGTACCGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
46407907 TTCTCAGTTTAGTAAATCCTCAATCACTTAAGCTGATACATTATTTTCTCCCCAAAATAATGTAT
131 TTCTCAGTTTAGTAAATCCTCAATCACTTAAGCTGATACATTATTTTCTCCCCAAAATAATGTAT
46407972 ATATACTAAC
196 ATATACTAAC
* *
46407982 CACAATAGCACAATACTCATATATATATACTAACCATAGAGAGTTTGAGTTTAGAAACTCACCAG
1 CACAATAGCACAATACTCATATATATATACTAACCACAGAGAGTTTAAGTTTAGAAACTCACCAG
46408047 CAAAATACCTAAAAGCTAGTACCGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
66 CAAAATACCTAAAAGCTAGTACCGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
*
46408112 TTCTCAGTTTAGTAAATTCTCAATCACTTAAGCTGATACATTATTTTCTCCCC
131 TTCTCAGTTTAGTAAATCCTCAATCACTTAAGCTGATACATTATTTTCTCCCC
46408165 TTATGCAGAT
Statistics
Matches: 180, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
205 180 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.30
Consensus pattern (205 bp):
CACAATAGCACAATACTCATATATATATACTAACCACAGAGAGTTTAAGTTTAGAAACTCACCAG
CAAAATACCTAAAAGCTAGTACCGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
TTCTCAGTTTAGTAAATCCTCAATCACTTAAGCTGATACATTATTTTCTCCCCAAAATAATGTAT
ATATACTAAC
Found at i:46410437 original size:43 final size:44
Alignment explanation
Indices: 46410371--46410487 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
46410361 AGCTCATACA
* * * *
46410371 ATGCCAACGTCCCTGACGTGGTCTTACATGT-AATTACATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACATGTAAATCACAAATCG
*
46410414 ATGCC-ACAATCCCAGACAG-GGTCTTACACGTAAATCACAAATCG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACATGTAAATCACAAATCG
*
46410458 ATGCCAACGTCCCAGACGTGGTCTTACATG
1 ATGCCAACATCCCAGACGTGGTCTTACATG
46410488 ATAACAAACA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 2 0.03
43 24 0.39
44 34 0.55
45 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (44 bp):
ATGCCAACATCCCAGACGTGGTCTTACATGTAAATCACAAATCG
Found at i:46411250 original size:17 final size:17
Alignment explanation
Indices: 46411217--46411250 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
46411207 CAAAGCAACG
46411217 ATTACAAAAACGAAAAA
1 ATTACAAAAACGAAAAA
*
46411234 ATTATCAAAAACCAAAA
1 ATTA-CAAAAACGAAAA
46411251 TAAAAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.15, G:0.03, T:0.15
Consensus pattern (17 bp):
ATTACAAAAACGAAAAA
Found at i:46418410 original size:25 final size:23
Alignment explanation
Indices: 46418352--46418410 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
46418342 TTAAATAATG
*
46418352 TAATTAATATTT--TTTATATATG
1 TAATT-ATATTTAATTTATATATA
*
46418374 TAATTATTTTTAATTTATATATA
1 TAATTATATTTAATTTATATATA
46418397 TACATGTATATTTA
1 TA-AT-TATATTTA
46418411 TTGTTTTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 5 0.17
22 5 0.17
23 11 0.37
24 2 0.07
25 7 0.23
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (23 bp):
TAATTATATTTAATTTATATATA
Found at i:46418994 original size:15 final size:15
Alignment explanation
Indices: 46418974--46419007 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
46418964 TTTCTATGCC
46418974 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
46418989 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
46419004 ATTG
1 ATTG
46419008 CGACATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:46431400 original size:44 final size:43
Alignment explanation
Indices: 46431304--46431463 Score: 168
Period size: 44 Copynumber: 3.7 Consensus size: 43
46431294 AAGATGGCGA
* *
46431304 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCCAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCC-A-G
* * *
46431348 ATCCTATCTCCCTAAAGTTACAGTGGAGC-GTATTGAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAATC-CAG
* * * *
46431392 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTG-CATCTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCCAG
46431433 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
46431464 CTCAAGAAAG
Statistics
Matches: 97, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
40 21 0.22
41 9 0.09
42 3 0.03
43 9 0.09
44 49 0.51
45 5 0.05
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCCAG
Found at i:46433267 original size:18 final size:20
Alignment explanation
Indices: 46433223--46433266 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
46433213 CTTTTTTTAT
46433223 TTTTTTAAATAATGTAATTA
1 TTTTTTAAATAATGTAATTA
*
46433243 TTTTTTATAT-ATGTAATTA
1 TTTTTTAAATAATGTAATTA
46433262 TTTTT
1 TTTTT
46433267 AATTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTTAAATAATGTAATTA
Found at i:46433292 original size:25 final size:23
Alignment explanation
Indices: 46433246--46433292 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
46433236 GTAATTATTT
* *
46433246 TTTATATATGTAATTATTTTTAA
1 TTTATATATATAATTATATTTAA
46433269 TTTATATATATACATGTATATTTA
1 TTTATATATATA-AT-TATATTTA
46433293 TTGTTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 2 0.10
25 7 0.35
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTATATATATAATTATATTTAA
Found at i:46435909 original size:41 final size:40
Alignment explanation
Indices: 46435798--46435910 Score: 144
Period size: 41 Copynumber: 2.9 Consensus size: 40
46435788 TACTTATCCC
*
46435798 TCAAAAGTTTA-ATTAAATAATGTTATTAACAA-AAAAAA
1 TCAAAATTTTAGATTAAATAATGTTATTAACAATAAAAAA
*
46435836 TCAAAATTTTAGATTAAATAA-GTTACTAACAATACAAAAA
1 TCAAAATTTTAGATTAAATAATGTTATTAACAATA-AAAAA
* *
46435876 TCCAAAATTTTAGCTTAAA-AATATTATTAACAATA
1 T-CAAAATTTTAGATTAAATAATGTTATTAACAATA
46435911 GAATATTTAC
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
38 20 0.31
39 10 0.15
40 8 0.12
41 27 0.42
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (40 bp):
TCAAAATTTTAGATTAAATAATGTTATTAACAATAAAAAA
Found at i:46443074 original size:14 final size:15
Alignment explanation
Indices: 46443048--46443080 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46443038 TGCCAAACAG
46443048 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
46443063 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
46443077 GGAA
1 GGAA
46443081 AAGCTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:46443182 original size:6 final size:6
Alignment explanation
Indices: 46443159--46443245 Score: 83
Period size: 6 Copynumber: 14.7 Consensus size: 6
46443149 AATATTTCAT
* *
46443159 AAAAGA AAAA-A AGGAAGA AAAAGA AAAAGAA AAAAGA GAAAAGA AAAGGA
1 AAAAGA AAAAGA A-AAAGA AAAAGA AAAAG-A AAAAGA -AAAAGA AAAAGA
* *
46443209 AAAAG- AAAA-A AAATGG AAAAG- AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
46443246 AAGGAGAGGC
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
5 14 0.21
6 39 0.58
7 14 0.21
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:46443247 original size:26 final size:25
Alignment explanation
Indices: 46443159--46443250 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 25
46443149 AATATTTCAT
*
46443159 AAAAGAAAAAAAGGAAGA-AAAAGA
1 AAAAGAAAAAAAGGAAAAGAAAAGA
46443183 AAAAG-AAAAAAGAGAAAAGAAAAGGA
1 AAAAGAAAAAAAG-GAAAAGAAAA-GA
46443209 AAAAGAAAAAAAATGGAAAAGAAAAGA
1 AAAAG-AAAAAAA-GGAAAAGAAAAGA
46443236 AAAAGAAAAAAAGGA
1 AAAAGAAAAAAAGGA
46443251 GAGGCCACAG
Statistics
Matches: 61, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
23 7 0.11
24 9 0.15
25 7 0.11
26 14 0.23
27 7 0.11
28 16 0.26
29 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (25 bp):
AAAAGAAAAAAAGGAAAAGAAAAGA
Found at i:46444402 original size:44 final size:44
Alignment explanation
Indices: 46444326--46444489 Score: 159
Period size: 44 Copynumber: 3.7 Consensus size: 44
46444316 GTTATCTTGG
* *
46444326 CAAATCTTGTCTCCCTGAAGTTGTAGTAGAGTAGATT-AATGCCA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAA-GCCA
* * * **
46444370 CAAACCTTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCA
* * * ***
46444414 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAATAA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTG-AAGCCA
* *
46444459 GCAAATCTTATTTCCCTGAAGTTGCAGTGGA
1 -CAAATCTTATCTCCCTGAAGTTGTAGTGGA
46444490 ACAGATTAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
44 66 0.67
45 6 0.06
46 27 0.27
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCA
Found at i:46444549 original size:235 final size:235
Alignment explanation
Indices: 46444136--46444634 Score: 764
Period size: 235 Copynumber: 2.1 Consensus size: 235
46444126 AGATCATAGG
* *
46444136 AAACCTTATCTCCTTGAAGTTGCAGTGGAGCAAGTTGAAGTTACTAGTCTTATCTCCCTAAAGTT
1 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTT
* * *
46444201 ACAGTGGAGCAGATTGGAAATAAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
66 ACAGTGGAGCAGACTGAAAATAAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
* * * *
46444266 TTATAAGTCAAAAATCCTTTACCCCTGAAATTGTAGTGGGATGGATTAAAGTTATCTTGGCAAAT
131 TTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTGGGACGGATTAAAGTTATCTTGGCAAAT
* * * **
46444331 CTTGTCTCCCTGAAGTTGTAGTAGAGTAGATTAATGCCAC
196 CTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAACCAC
* * * * *
46444371 AAACCTTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTT
1 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTT
**
46444436 GTAGTGGAGCAGACTGAAAATAAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
66 ACAGTGGAGCAGACTGAAAATAAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
*
46444501 TTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTGGGACGGATTAAAGTTATCTTGGTAAAT
131 TTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTGGGACGGATTAAAGTTATCTTGGCAAAT
*
46444566 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACCAC
196 CTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAACCAC
* * *
46444606 AAATCTTATTTCCCTGAAGTTACAGTGGA
1 AAACCTTATCTCCCTGAAGTTGCAGTGGA
46444635 ACAGATTAAA
Statistics
Matches: 236, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
235 236 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (235 bp):
AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTT
ACAGTGGAGCAGACTGAAAATAAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
TTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTGGGACGGATTAAAGTTATCTTGGCAAAT
CTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAACCAC
Found at i:46444626 original size:44 final size:44
Alignment explanation
Indices: 46444562--46444832 Score: 130
Period size: 44 Copynumber: 5.8 Consensus size: 44
46444552 TTATCTTGGT
* * *
46444562 AAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACCAC
1 AAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAC
* * * * *
46444606 AAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTAT
1 AAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAC
* * * * *
46444650 AAGTTACTAATCCAATACCTCTGAAGTTGCAGTAGG-TCGGATTAAATCTACCATAGC
1 AA-AT-CT--T--ATTTCC-CTGAAGTTGCAGT-GGAGCAGATTAAA---ACC--A-C
* * * * * *
46444707 AAGTCTTATCTCTCTGACGTTGTAGTGGAGCAGAATAAAACCAC
1 AAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAC
* * * * * *
46444751 AAATCTCATTTCCCTAAAGTTGCAGCGGAGTAGATTGAAACTAC
1 AAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAC
* * * *
46444795 AAGTCTTATTTCTCCTTGAAGTTGTAGGGGATCAGATT
1 AAATCTTATTTC-CC-TGAAGTTGCAGTGGAGCAGATT
46444833 GAAGCAACAC
Statistics
Matches: 164, Mismatches: 46, Indels: 32
0.68 0.19 0.13
Matches are distributed among these distances:
44 81 0.49
45 4 0.02
46 19 0.12
47 3 0.02
48 1 0.01
49 2 0.01
50 22 0.13
51 22 0.13
52 2 0.01
53 1 0.01
54 1 0.01
55 2 0.01
56 2 0.01
57 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (44 bp):
AAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAC
Found at i:46444786 original size:145 final size:145
Alignment explanation
Indices: 46444414--46444775 Score: 467
Period size: 145 Copynumber: 2.5 Consensus size: 145
46444404 GTTGAAGTTA
* **
46444414 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAATAAGCAAATCTTATTTCCCTGAA
1 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAAT-AAAACCA-CAAATCTTATTTCCCTGAA
* *
46444479 GTTGCAGTGGAACAGATTAAAGTTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTGGGACG
64 GTTGCAGTGGAACAGATTAAAGCTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTAGGACG
* * *
46444544 GATTAAAGTTATCTTGG
129 GATTAAAGTTACCATAG
* * * *
46444561 TAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACCACAAATCTTATTTCCCTGAAGT
1 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATAAAACCACAAATCTTATTTCCCTGAAGT
* * ** * * *
46444626 TACAGTGGAACAGATTAAAGCTATAAGTTACTAATCCA-ATACCTCTGAAGTTGCAGTAGGTCGG
66 TGCAGTGGAACAGATTAAAGCTATAAGTCAAAAAT-CATATACCCCTGAAATTGCAGTAGGACGG
46444690 ATTAAA-TCTACCATAG
130 ATTAAAGT-TACCATAG
* * * *
46444706 CAAGTCTTATCTCTCTGACGTTGTAGTGGAGCAGAATAAAACCACAAATCTCATTTCCCTAAAGT
1 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATAAAACCACAAATCTTATTTCCCTGAAGT
46444771 TGCAG
66 TGCAG
46444776 CGGAGTAGAT
Statistics
Matches: 186, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
144 1 0.01
145 145 0.78
146 7 0.04
147 33 0.18
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (145 bp):
CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATAAAACCACAAATCTTATTTCCCTGAAGT
TGCAGTGGAACAGATTAAAGCTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTAGGACGGA
TTAAAGTTACCATAG
Found at i:46447581 original size:32 final size:32
Alignment explanation
Indices: 46447540--46447602 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
46447530 GTTGATTGAT
*
46447540 TAATTGTATAATTCATTTAATTCGACCAATGG
1 TAATTGTATAATTCATTAAATTCGACCAATGG
* * *
46447572 TAATTGTATAATTTATTAAATTGGATCAATG
1 TAATTGTATAATTCATTAAATTCGACCAATG
46447603 ATTGTACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.43
Consensus pattern (32 bp):
TAATTGTATAATTCATTAAATTCGACCAATGG
Found at i:46451249 original size:20 final size:21
Alignment explanation
Indices: 46451224--46451264 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
46451214 TTAGAAAAAT
46451224 ATTATTAT-GTAT-AATTTATA
1 ATTATTATAGT-TGAATTTATA
46451244 ATTATTATAGTTGAATTTATA
1 ATTATTATAGTTGAATTTATA
46451265 GTTTCCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (21 bp):
ATTATTATAGTTGAATTTATA
Found at i:46454121 original size:28 final size:27
Alignment explanation
Indices: 46454063--46454121 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
46454053 GATTTCGCGG
46454063 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGGTAAAT-ATTAA
* *
46454091 AAAAGTGGCCTATTTCGGTAAAT-TTAA
1 AAAA-TGGCCCATTCCGGTAAATATTAA
46454118 AAAA
1 AAAA
46454122 AAAGGGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 4 0.14
29 16 0.57
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATGGCCCATTCCGGTAAATATTAA
Found at i:46454458 original size:10 final size:9
Alignment explanation
Indices: 46454438--46454478 Score: 73
Period size: 9 Copynumber: 4.4 Consensus size: 9
46454428 TTAATTTTTT
46454438 AAAATTTAA
1 AAAATTTAA
46454447 AAAATTTAA
1 AAAATTTAA
46454456 AAAATTTAA
1 AAAATTTAA
46454465 AAAATATTAA
1 AAAAT-TTAA
46454475 AAAA
1 AAAA
46454479 ATGAAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 23 0.74
10 8 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAATTTAA
Found at i:46454485 original size:19 final size:19
Alignment explanation
Indices: 46454445--46454494 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
46454435 TTTAAAATTT
* *
46454445 AAAAAAT-TTAAAAAATTT
1 AAAAAATATTAAAAAAATG
46454463 AAAAAATATTAAAAAAATG
1 AAAAAATATTAAAAAAATG
*
46454482 AAAATATA-TAAAA
1 AAAAAATATTAAAA
46454495 TATTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAAATATTAAAAAAATG
Found at i:46461337 original size:30 final size:32
Alignment explanation
Indices: 46461303--46461363 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
46461293 ATTAATTTAA
46461303 AATATCCCATAA-A-ATCCTAATCAATCCCTT
1 AATATCCCATAAGATATCCTAATCAATCCCTT
*
46461333 AATATCCCATAAGATATTCTAATCAATCCCT
1 AATATCCCATAAGATATCCTAATCAATCCCT
46461364 GAAAATAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 12 0.43
31 1 0.04
32 15 0.54
ACGTcount: A:0.39, C:0.28, G:0.02, T:0.31
Consensus pattern (32 bp):
AATATCCCATAAGATATCCTAATCAATCCCTT
Found at i:46471411 original size:4 final size:4
Alignment explanation
Indices: 46471398--46471438 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
46471388 CCTTTGCATT
46471398 TTTA -TTA TTTA TTT- TATTA TTTA -TTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTT
46471439 GAATTAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 7 0.21
4 25 0.76
5 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:46472846 original size:30 final size:29
Alignment explanation
Indices: 46472794--46472870 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
46472784 TTTGTTTTCC
* * * *
46472794 TTTTTAGTTTTCTTTTTCTTTTTCTATT-T
1 TTTTTATTTTTATTTTTATTTTT-AATTGT
46472823 TTGTTTATTTTTATTTTTATTTTTAATTGT
1 TT-TTTATTTTTATTTTTATTTTTAATTGT
46472853 TTTTTATTTTTTATTTTT
1 TTTTTA-TTTTTATTTTT
46472871 TAGACTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 9 0.22
30 32 0.78
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.81
Consensus pattern (29 bp):
TTTTTATTTTTATTTTTATTTTTAATTGT
Found at i:46472862 original size:5 final size:6
Alignment explanation
Indices: 46472794--46472928 Score: 60
Period size: 6 Copynumber: 22.0 Consensus size: 6
46472784 TTTGTTTTCC
* * * * *
46472794 TTTTTA GTTTTC TTTTTC TTTTTC TATTTT- TGTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA
* * *** * *
46472842 TTTTTA ATTGT- TTTTTA TTTTTTA TTTTTTA GACTTA TTTCGT- TTCTTA
1 TTTTTA TTTTTA TTTTTA -TTTTTA -TTTTTA TTTTTA TTT-TTA TTTTTA
** *
46472891 TCTTTTGA ACTATA TTTTTA TTTTTA TTTTTA TTTTTA
1 T-TTTT-A TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
46472929 ATCGAGTTAG
Statistics
Matches: 96, Mismatches: 25, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
5 7 0.07
6 65 0.68
7 23 0.24
8 1 0.01
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:46476102 original size:14 final size:14
Alignment explanation
Indices: 46476076--46476110 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
46476066 AGCCTTGTCC
46476076 TCTTCCTCTTCTTTT
1 TCTTCC-CTTCTTTT
46476091 TCTTCCCTTCTTTT
1 TCTTCCCTTCTTTT
46476105 T-TTCCC
1 TCTTCCC
46476111 GAATGTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
TCTTCCCTTCTTTT
Found at i:46482873 original size:74 final size:74
Alignment explanation
Indices: 46482735--46482873 Score: 206
Period size: 74 Copynumber: 1.9 Consensus size: 74
46482725 TGTTCTGCAA
* **
46482735 TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATATGGCGTGGGCA
1 TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATAAGGCAAGGGCA
46482800 CTTCATTAT
66 CTTCATTAT
* * * **
46482809 TCTTGAATTTCTTCTGTGAAAAATTGTGTTACTTCTTGATATTCCGTAATAATAAGGCAAGGGCA
1 TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATAAGGCAAGGGCA
46482874 TGCCTTATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (74 bp):
TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATAAGGCAAGGGCA
CTTCATTAT
Found at i:46490568 original size:21 final size:22
Alignment explanation
Indices: 46490539--46490587 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
46490529 ATTTAGTCAT
* *
46490539 TATTATTTT-ATTTTATTTTTA
1 TATTTTTTTAATTTAATTTTTA
46490560 TATTTTTTTAATTTAATTTTTA
1 TATTTTTTTAATTTAATTTTTA
*
46490582 CATTTT
1 TATTTT
46490588 AAATTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTTTTTAATTTAATTTTTA
Found at i:46493163 original size:16 final size:14
Alignment explanation
Indices: 46493135--46493201 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 14
46493125 TACTTTTTTA
46493135 TTATTTTATTTTATT
1 TTATTTTA-TTTATT
46493150 TATATTTATATTTATT
1 T-TATTT-TATTTATT
* * *
46493166 GTATTGTATTGTGTT
1 TTATTTTATT-TATT
46493181 TTATTTTTATTTATT
1 TTA-TTTTATTTATT
46493196 ATTATT
1 -TTATT
46493202 CTTTACTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
14 4 0.10
15 15 0.37
16 20 0.49
17 2 0.05
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (14 bp):
TTATTTTATTTATT
Found at i:46514117 original size:27 final size:28
Alignment explanation
Indices: 46514087--46514169 Score: 125
Period size: 27 Copynumber: 3.0 Consensus size: 28
46514077 CTATTCAGTA
*
46514087 ATAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ATAGTAACAATGTGGGCCTTAGCCCAAT
*
46514114 ATAGTAATAATGTGGGCCTTAGCCCAA-
1 ATAGTAACAATGTGGGCCTTAGCCCAAT
*
46514141 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ATAGTAACAATGTGGGCCTTAGCCCAAT
46514169 A
1 A
46514170 CAATATCGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (28 bp):
ATAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:46514129 original size:28 final size:28
Alignment explanation
Indices: 46514096--46514171 Score: 127
Period size: 27 Copynumber: 2.8 Consensus size: 28
46514086 AATAGTACAG
* *
46514096 TGTGGGCCTTAGCCCAATATAGTAATAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
46514124 TGTGGGCCTTAGCCCAA-ACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
46514151 TGTGGGCCTTAGCCCAATACA
1 TGTGGGCCTTAGCCCAATACA
46514172 ATATCGGTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 25 0.56
28 20 0.44
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:46514551 original size:27 final size:27
Alignment explanation
Indices: 46514529--46514699 Score: 200
Period size: 27 Copynumber: 6.3 Consensus size: 27
46514519 AAGGGTATAA
*
46514529 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTAATT
* *
46514556 C-GATCTTTTTACCCTATGAGGGTAATT
1 CAG-TCATTTTACCCTATGGGGGTAATT
*
46514583 CAGTCATTTTACCCTATGAGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* *
46514610 CAATCATTTTATCCTATGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* * *
46514637 CTGTCATTTTATCCTATAGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
** * *
46514664 TGGTTATTTTACCTTATGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
*
46514691 CGGTCATTT
1 CAGTCATTT
46514700 ATTGACCTCT
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 122 0.98
28 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTAATT
Found at i:46517505 original size:16 final size:16
Alignment explanation
Indices: 46517484--46517514 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46517474 TTATAATAAA
46517484 ATTTTTATGTTGAAAC
1 ATTTTTATGTTGAAAC
*
46517500 ATTTTTGTGTTGAAA
1 ATTTTTATGTTGAAA
46517515 AATCAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (16 bp):
ATTTTTATGTTGAAAC
Found at i:46518699 original size:21 final size:19
Alignment explanation
Indices: 46518655--46518727 Score: 121
Period size: 21 Copynumber: 3.8 Consensus size: 19
46518645 ATCTTCAAGT
46518655 ATATGCAATCTTAGA-ATG
1 ATATGCAATCTTAGATATG
46518673 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
46518692 ATATATGCAATCTTAGATATG
1 --ATATGCAATCTTAGATATG
46518713 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
46518728 AGATATGATT
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.29
19 18 0.35
21 19 0.37
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:46518753 original size:22 final size:22
Alignment explanation
Indices: 46518670--46518750 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 22
46518660 CAATCTTAGA
* *
46518670 ATGATATGCAATCTTAG-ATAT
1 ATGATATGCAATATTAGAAGAT
*
46518691 GAT-ATATGCAATCTT---AGAT
1 -ATGATATGCAATATTAGAAGAT
*
46518710 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATATTAGAAGAT
* *
46518732 ATGATTTTGTAATATTAGA
1 ATGA-TATGCAATATTAGA
46518751 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
18 2 0.04
19 15 0.30
21 12 0.24
22 10 0.20
23 11 0.22
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATATTAGAAGAT
Found at i:46518997 original size:23 final size:23
Alignment explanation
Indices: 46518953--46518997 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
46518943 TCTTATTTTG
* *
46518953 TTGATTTGTATATAATTTATTTA
1 TTGATTTGTAGATAATTGATTTA
**
46518976 TTGATTTGTAGATTGTTGATTT
1 TTGATTTGTAGATAATTGATTT
46518998 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (23 bp):
TTGATTTGTAGATAATTGATTTA
Found at i:46519229 original size:3 final size:3
Alignment explanation
Indices: 46519221--46519261 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
46519211 ATCTTGTATC
*
46519221 ATT ATT ATT ATT ATT CTT ATT ATT ATTT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT A
46519262 CCACGTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:46519551 original size:13 final size:13
Alignment explanation
Indices: 46519533--46519560 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46519523 ATATACCTTC
46519533 TATTTTATTTATT
1 TATTTTATTTATT
46519546 TATTTTATTTATT
1 TATTTTATTTATT
46519559 TA
1 TA
46519561 CCTCATACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTATTTATT
Found at i:46524283 original size:13 final size:13
Alignment explanation
Indices: 46524265--46524290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46524255 AATTTAGATT
46524265 AAAAAAATGATGA
1 AAAAAAATGATGA
46524278 AAAAAAATGATGA
1 AAAAAAATGATGA
46524291 TGGAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAAAATGATGA
Found at i:46524315 original size:11 final size:11
Alignment explanation
Indices: 46524295--46524351 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
46524285 TGATGATGGA
46524295 AAAAATGAAAAG
1 AAAAA-GAAAAG
46524307 AAAAAGAAAAG
1 AAAAAGAAAAG
46524318 -AAAA-AAAAG
1 AAAAAGAAAAG
46524327 AAAGAAG-AAAG
1 AAA-AAGAAAAG
46524338 AAGAAAGAAGAAG
1 AA-AAAGAA-AAG
46524351 A
1 A
46524352 GGAAAAGGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
9 5 0.13
10 6 0.15
11 17 0.44
12 7 0.18
13 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:46524341 original size:14 final size:13
Alignment explanation
Indices: 46524304--46524349 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 13
46524294 AAAAAATGAA
46524304 AAGAAAAAGAAAAG
1 AAGAAAAAG-AAAG
*
46524318 AAAAAAAAGAAAG
1 AAGAAAAAGAAAG
46524331 AAGAAAGAAGAAAG
1 AAGAAA-AAGAAAG
46524345 AAGAA
1 AAGAA
46524350 GAGGAAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGAAAG
Found at i:46524356 original size:20 final size:20
Alignment explanation
Indices: 46524302--46524349 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
46524292 GGAAAAAATG
46524302 AAAAGAAA-AAGAAAAGAAAA
1 AAAAGAAAGAAG-AAAGAAAA
46524322 AAAAGAAAGAAGAAAGAAGAA
1 AAAAGAAAGAAGAAAGAA-AA
*
46524343 AGAAGAA
1 AAAAGAA
46524350 GAGGAAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAAGAAAGAAGAAAGAAAA
Found at i:46525671 original size:44 final size:44
Alignment explanation
Indices: 46525621--46525910 Score: 453
Period size: 44 Copynumber: 6.7 Consensus size: 44
46525611 CACAAAGCCT
* * *
46525621 TATCTCCCTAGACAGCAGTGGAATAGGCTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
46525665 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
*
46525709 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
* *
46525753 TATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
* *
46525797 TATCTCCCTAGTCAGCAGTGGAATAAGTTGAAGA-T-T-AATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
*
46525838 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
*
46525882 TATCTCCCTGAG-CAGCAGTGGAGTAGGTT
1 TATCTCCCTG-GTCAGCAGTGGAATAGGTT
46525911 AAAAATAGTA
Statistics
Matches: 229, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
41 36 0.16
42 2 0.01
43 2 0.01
44 188 0.82
45 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
Found at i:46526271 original size:99 final size:100
Alignment explanation
Indices: 46526114--46526314 Score: 296
Period size: 99 Copynumber: 2.0 Consensus size: 100
46526104 CAATGGAACG
* *
46526114 GATTAAAGCCGCAACGACGAATCTTACTCCCCTGGTGGTGTAGTGAAACAGACTGAAGCTACGAC
1 GATTAAAGCCGCAACGACGAATCTTACTCACCTGGCGGTGTAGTGAAACAGACTGAAGCTACGAC
* *
46526179 GGTGAATCTCGTTTCCCC-ATATTACAATTAAAAA
66 GGTGAATCTCATTTCCCCAACATTACAATTAAAAA
* * * *
46526213 GATTAAAGCCGCAACGATGAATCTTACTTACCTGGCGGTGTAGTGGAACAGATTGAAGCTACGAC
1 GATTAAAGCCGCAACGACGAATCTTACTCACCTGGCGGTGTAGTGAAACAGACTGAAGCTACGAC
* * *
46526278 GGTGAATCTTATTTCCCCAACATTGCAATTTAAAA
66 GGTGAATCTCATTTCCCCAACATTACAATTAAAAA
46526313 GA
1 GA
46526315 CTGAAGATGA
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 75 0.83
100 15 0.17
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (100 bp):
GATTAAAGCCGCAACGACGAATCTTACTCACCTGGCGGTGTAGTGAAACAGACTGAAGCTACGAC
GGTGAATCTCATTTCCCCAACATTACAATTAAAAA
Found at i:46526382 original size:44 final size:43
Alignment explanation
Indices: 46526327--46526873 Score: 326
Period size: 44 Copynumber: 12.6 Consensus size: 43
46526317 GAAGATGACA
46526327 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * *
46526371 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * * * *
46526415 GATCTTTTCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * * *
46526455 AGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* *
46526498 AAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGC--G
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCAAT
*
46526544 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * *
46526588 AATCCTATCTCCCTGAAGTTGCAGTAGAGC-GAATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATT-AAAGCA-AT
* * * * *
46526632 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * * * *
46526672 AGTCTTATCTCCCTGAAGTTACAGGGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * *
46526715 AAGTCTTATC-CTCCTGAAGTTGCAAT-GAGGCAGACTGAAGATGGC--G
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCAAT
*
46526761 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * * * *
46526805 AATCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTAAAACCAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
*
46526848 AGATCTTATCTCTCTGAAGTTGCAGT
1 A-ATCTTATCTCCCTGAAGTTGCAGT
46526874 AAAGTAGATC
Statistics
Matches: 390, Mismatches: 70, Indels: 86
0.71 0.13 0.16
Matches are distributed among these distances:
39 4 0.01
40 40 0.10
41 16 0.04
42 6 0.02
43 31 0.08
44 219 0.56
45 58 0.15
46 12 0.03
47 2 0.01
49 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:46526515 original size:84 final size:87
Alignment explanation
Indices: 46526371--46526576 Score: 219
Period size: 84 Copynumber: 2.4 Consensus size: 87
46526361 TAAAGCCAAT
* * * * *
46526371 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTTTCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCACAGATCTTTCCTCTCTGAAGTTG
*
46526436 CAGAGA-GCAGA-TCG-CAT-CT
66 CAGAGAGGCAGACT-GACATGCG
* *
46526455 AGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTAAGCA-AG-TCTTATCCTC-CTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCACAGATCTT-TCCTCTCTGAAG
* *
46526517 TTGCAGTGAGGCAGACTGAAGATGGCG
63 TTGCAGAGAGGCAGACTG-ACAT-GCG
46526544 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
46526577 TGAAAGCCAA
Statistics
Matches: 101, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
84 50 0.50
85 12 0.12
86 5 0.05
87 2 0.02
89 32 0.32
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCACAGATCTTTCCTCTCTGAAGTTG
CAGAGAGGCAGACTGACATGCG
Found at i:46526687 original size:217 final size:217
Alignment explanation
Indices: 46526312--46526971 Score: 1025
Period size: 217 Copynumber: 3.0 Consensus size: 217
46526302 GCAATTTAAA
* *
46526312 AGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
*
46526377 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTTTCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
46526442 GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTAAGCAAGTCTTAT
131 GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTAAGCAAGTCTTAT
46526507 CCTCCTGAAGTTGCAGTGAGGC
196 CCTCCTGAAGTTGCAGTGAGGC
*
46526529 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* *
46526594 ATCTCCCTGAAGTTGCAGTAGAGCGAATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
*
46526659 GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGGGGAGCAGACTAAGTAAGCAAGTCTTAT
131 GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTAAGCAAGTCTTAT
*
46526724 CCTCCTGAAGTTGCAATGAGGC
196 CCTCCTGAAGTTGCAGTGAGGC
*
46526746 AGACTGAAGATGGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* * * * *
46526811 ATCTCCTTGAAGTTGTAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGTAA
66 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAG-AG
* * ** ** * ** * * * *
46526876 AGTAGATCACATCGGGTCTTATCTCATTGAATTTGCAATGGAGCTGACTCAAGAAAACAAGCCTT
130 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACT-AAGTAAGCAAGTCTT
* *
46526941 ATCC-CCTTAAAGTTGCAGTGATGC
194 ATCCTCC-TGAAGTTGCAGTGAGGC
46526965 AGACTGA
1 AGACTGA
46526972 GAATAGTAAA
Statistics
Matches: 406, Mismatches: 34, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
217 328 0.81
218 41 0.10
219 37 0.09
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTAAGCAAGTCTTAT
CCTCCTGAAGTTGCAGTGAGGC
Found at i:46527482 original size:17 final size:17
Alignment explanation
Indices: 46527431--46527482 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
46527421 ATGGAAACAT
* * *
46527431 AATCTTCAAGGATCTGC
1 AATCTTAAAAGATATGC
*
46527448 AATCTTAGATATGATATGC
1 AATCTTA-A-AAGATATGC
46527467 AATCTTAAAAGATATG
1 AATCTTAAAAGATATG
46527483 ATTTTGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (17 bp):
AATCTTAAAAGATATGC
Found at i:46527989 original size:13 final size:13
Alignment explanation
Indices: 46527971--46527995 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46527961 TCTTGTATCA
46527971 TTATTATTATTAT
1 TTATTATTATTAT
46527984 TTATTATTATTA
1 TTATTATTATTA
46527996 CCACGTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:46534679 original size:242 final size:243
Alignment explanation
Indices: 46534211--46534695 Score: 765
Period size: 242 Copynumber: 2.0 Consensus size: 243
46534201 AACAATAACA
*
46534211 TCCTTTCCTTGGAAACGATGGTATTGTGCATGGATGGCATAAGACGACTTTTCAAGAAATGATAC
1 TCCTTTCCTTGGAAACGATGGTATTGTGCATGGATGGCATAAGACGAATTTTCAAGAAATGATAC
* * **
46534276 CATACTTTTCCAATCAGTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCTTGAGTAGAGACAAT
66 CAGACTTTTCCAATCACTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCCGGAGTAGAGACAAT
* * * *
46534341 CCATTGTGTGCCCTCGACACATAAATCCTTCAAAATATGTGTCAAACCCTCATCTGTGATGCTAT
131 CCATTGTGTGCCCTCGACACATAAATCCTTCAAAACATATGTCAAACCCACATCTGTGATGATAT
*
46534406 AACCAAACTCAGTGTGTTCATCTTATACCTCTCTAAGGCTAAACTGGG
196 AACCAAACTCAGTGTGTCCATCTTATACCTCTCTAAGGCTAAACTGGG
* * * *
46534454 TCCTTTCCTTGGAAATGATGGT-TTGTGCGTGGATGGCATAAGATGAATTTTCAAGAAATGATTC
1 TCCTTTCCTTGGAAACGATGGTATTGTGCATGGATGGCATAAGACGAATTTTCAAGAAATGATAC
* *
46534518 GAGACTTTTCCAATCACTTTCAATGAAGCCCTTTCAATAGTGTAGCATTCCGGAGTAGAGACAAT
66 CAGACTTTTCCAATCACTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCCGGAGTAGAGACAAT
*
46534583 CCATTGTGTGCCCTCGACACATAAATCCTTCAAAACCTATGTCAAACCCACATCTGTGATGATAT
131 CCATTGTGTGCCCTCGACACATAAATCCTTCAAAACATATGTCAAACCCACATCTGTGATGATAT
** * * *
46534648 ATGCAAACTCAGTGTGTCCATCTTGTACCTCTCTTAGGGTAAACTGGG
196 AACCAAACTCAGTGTGTCCATCTTATACCTCTCTAAGGCTAAACTGGG
46534696 CATTTATATA
Statistics
Matches: 220, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
242 199 0.90
243 21 0.10
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (243 bp):
TCCTTTCCTTGGAAACGATGGTATTGTGCATGGATGGCATAAGACGAATTTTCAAGAAATGATAC
CAGACTTTTCCAATCACTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCCGGAGTAGAGACAAT
CCATTGTGTGCCCTCGACACATAAATCCTTCAAAACATATGTCAAACCCACATCTGTGATGATAT
AACCAAACTCAGTGTGTCCATCTTATACCTCTCTAAGGCTAAACTGGG
Found at i:46541011 original size:20 final size:20
Alignment explanation
Indices: 46540988--46541027 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
46540978 TTGCACAACT
46540988 ATGCCCCTAAATACACTCCG
1 ATGCCCCTAAATACACTCCG
* * *
46541008 ATGCCCTTGAATGCACTCCG
1 ATGCCCCTAAATACACTCCG
46541028 GTTCCCCTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.38, G:0.15, T:0.23
Consensus pattern (20 bp):
ATGCCCCTAAATACACTCCG
Found at i:46543027 original size:40 final size:40
Alignment explanation
Indices: 46542983--46543064 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
46542973 TTCCCATAAC
46542983 ATAGTGTCAAATGAAGAAGAAATATGTATTAGATTTGAAG
1 ATAGTGTCAAATGAAGAAGAAATATGTATTAGATTTGAAG
*
46543023 ATAGTGTCAAATGAAGAAGAAATGTGTATTAGATTTGAAG
1 ATAGTGTCAAATGAAGAAGAAATATGTATTAGATTTGAAG
46543063 AT
1 AT
46543065 GACTTGAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.30
Consensus pattern (40 bp):
ATAGTGTCAAATGAAGAAGAAATATGTATTAGATTTGAAG
Found at i:46559225 original size:47 final size:47
Alignment explanation
Indices: 46559164--46559699 Score: 910
Period size: 47 Copynumber: 11.4 Consensus size: 47
46559154 CAGCCAAGAC
46559164 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46559211 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46559258 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46559305 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46559352 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46559399 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
46559446 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
46559493 AGTGCATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46559540 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46559587 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
46559634 AGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
46559681 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
46559700 TCCCGAAGGG
Statistics
Matches: 468, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 468 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:46559874 original size:37 final size:37
Alignment explanation
Indices: 46559822--46559896 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
46559812 GCTCTAAAGG
* *
46559822 CCCGATGACTACGTGTGG-GACTTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGA-TTATGTCCGGGTAAGA
*
46559859 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
46559896 C
1 C
46559897 TTTGTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:46562596 original size:12 final size:12
Alignment explanation
Indices: 46562579--46562634 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
46562569 TATTGAGACT
* *
46562579 GAAATGATAATG
1 GAAATGAGAATA
46562591 GAAATGAGAATA
1 GAAATGAGAATA
*
46562603 GAAATGA-AATT
1 GAAATGAGAATA
*
46562614 GATATGAGAA-A
1 GAAATGAGAATA
46562625 GAAAGTGAGA
1 GAAA-TGAGA
46562635 TTGATTATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
11 12 0.33
12 24 0.67
ACGTcount: A:0.54, C:0.00, G:0.27, T:0.20
Consensus pattern (12 bp):
GAAATGAGAATA
Found at i:46562637 original size:23 final size:23
Alignment explanation
Indices: 46562579--46562639 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
46562569 TATTGAGACT
* *
46562579 GAAATGATAATGGAAATGAGAATA
1 GAAATGA-AATTGATATGAGAATA
46562603 GAAATGAAATTGATATGAGAA-A
1 GAAATGAAATTGATATGAGAATA
*
46562625 GAAAGTGAGATTGAT
1 GAAA-TGAAATTGAT
46562640 TATCAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.15
23 21 0.64
24 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (23 bp):
GAAATGAAATTGATATGAGAATA
Found at i:46563419 original size:14 final size:13
Alignment explanation
Indices: 46563402--46563431 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
46563392 GTGATTGCGC
46563402 ACTTCGGTGCGAGT
1 ACTTCGGTGCGA-T
46563416 ACTTCGGTGCGAT
1 ACTTCGGTGCGAT
46563429 ACT
1 ACT
46563432 GTGATTGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (13 bp):
ACTTCGGTGCGAT
Found at i:46564708 original size:3 final size:3
Alignment explanation
Indices: 46564700--46564763 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
46564690 TAAAATGATA
46564700 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46564748 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
46564764 AGAAGTAGGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:46576295 original size:44 final size:46
Alignment explanation
Indices: 46576246--46576338 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
46576236 TTACACCTCT
* *
46576246 ATTCCATTCAACCAAACACAAGAA-TACC-ATTATGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
* *
46576290 ATTCCATTCAACCAAATAAAAGAATTACCTATTACGCCTCTATTTC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
46576336 ATT
1 ATT
46576339 ACGCATCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.51
45 4 0.09
46 17 0.40
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:46576341 original size:16 final size:16
Alignment explanation
Indices: 46576320--46576372 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
46576310 AGAATTACCT
*
46576320 ATTACGCCTCTATTTC
1 ATTACGCCTCTATTCC
*
46576336 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
46576352 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
46576368 ATTAC
1 ATTAC
46576373 AGGGAACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:46581980 original size:40 final size:40
Alignment explanation
Indices: 46581936--46582197 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
46581926 GCTCCTCATT
* *
46581936 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * **
46581976 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46582016 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46582055 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46582094 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
46582133 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
46582174 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46582198 CATCATTCAA
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.63
40 62 0.31
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:46590484 original size:29 final size:29
Alignment explanation
Indices: 46590410--46590485 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
46590400 AGTTCATAAA
* * * *
46590410 TGTCAGCTTGTGTGAGAAACCTTGATCAG
1 TGTCAACTTGTGTGAGCAACCCTGATCAC
46590439 TGTCAACTTGTGTGAGCAACCCTGATCAC
1 TGTCAACTTGTGTGAGCAACCCTGATCAC
46590468 TGTCAACTTGTGTGAGCA
1 TGTCAACTTGTGTGAGCA
46590486 TTATAGTCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (29 bp):
TGTCAACTTGTGTGAGCAACCCTGATCAC
Found at i:46592256 original size:20 final size:20
Alignment explanation
Indices: 46592231--46592269 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46592221 TTGTACGGGA
46592231 TTGCACTTCAGTCCCTCTGT
1 TTGCACTTCAGTCCCTCTGT
* *
46592251 TTGCACTTCGGTGCCTCTG
1 TTGCACTTCAGTCCCTCTG
46592270 ATTACACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.33, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCACTTCAGTCCCTCTGT
Found at i:46599418 original size:16 final size:16
Alignment explanation
Indices: 46599385--46599418 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46599375 CGTTTATAGT
*
46599385 AAAATATAACATTAAA
1 AAAATATAAAATTAAA
46599401 AAAATATAAGAATTAAA
1 AAAATATAA-AATTAAA
46599418 A
1 A
46599419 CTGGAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAATATAAAATTAAA
Found at i:46608912 original size:64 final size:64
Alignment explanation
Indices: 46608826--46608947 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
46608816 CGAGGTAAGG
** *
46608826 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTATTTCAAATTAAGTGACTGAGATTAAGTGT
1 TTGTCGATAGTTTTACGAATTGACTGTTGTAAGTAATTCAAATTAAGTGACTGAGATTAAGTGT
* *
46608890 TTGTTGATAGTTTTACGAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTGAGATT
1 TTGTCGATAGTTTTACGAATTGACTGTTGTAAGTAATTCAAATTAAGTGACTGAGATT
46608948 GAGTTTCCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.41
Consensus pattern (64 bp):
TTGTCGATAGTTTTACGAATTGACTGTTGTAAGTAATTCAAATTAAGTGACTGAGATTAAGTGT
Found at i:46617019 original size:36 final size:36
Alignment explanation
Indices: 46616940--46617026 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
46616930 TCTAATGAGT
*
46616940 ACTAGGCACACATTACTTTCATTTATACCGATTAAC
1 ACTAGGCGCACATTACTTTCATTTATACCGATTAAC
46616976 ACTAGGCGCACATTACTTTCATTTATACCGATTAAC
1 ACTAGGCGCACATTACTTTCATTTATACCGATTAAC
*
46617012 ACTAGGCGCATATTA
1 ACTAGGCGCACATTA
46617027 ATTTAGACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
ACTAGGCGCACATTACTTTCATTTATACCGATTAAC
Found at i:46618635 original size:12 final size:12
Alignment explanation
Indices: 46618609--46618647 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46618599 TGCTTCTTCT
* *
46618609 TTACTTACTTTC
1 TTACTTGCTTAC
*
46618621 TTACTTGTTTAC
1 TTACTTGCTTAC
46618633 TTACTTGCTTAC
1 TTACTTGCTTAC
46618645 TTA
1 TTA
46618648 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.05, T:0.56
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:46618975 original size:50 final size:50
Alignment explanation
Indices: 46618910--46619030 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
46618900 AAATGTCATA
* * ** * * *
46618910 TCCCAGATATTGTCTTACATGAGAGTTCTCATATC-AGTGCCTATGCCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCGA-TACCAACGCCATG
** * *
46618960 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGATACCAACGCCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCGATACCAACGCCATG
46619010 TCCCAGACATGGTCTTACATG
1 TCCCAGACATGGTCTTACATG
46619031 GGGTCTCATC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 56 0.98
51 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGAGACCTCTCATATCGATACCAACGCCATG
Found at i:46626372 original size:30 final size:30
Alignment explanation
Indices: 46626336--46626393 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
46626326 TACATTTCAT
46626336 TTCCTCTCT-CTCCTCCT-TTCCCTCTTCTTC
1 TTCCTCTCTCCT-CTCCTCTTCCCT-TTCTTC
46626366 TTCCTCTCTCCTCTCCTCTTCCCTTTCT
1 TTCCTCTCTCCTCTCCTCTTCCCTTTCT
46626394 CTCTATGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (30 bp):
TTCCTCTCTCCTCTCCTCTTCCCTTTCTTC
Found at i:46629583 original size:29 final size:29
Alignment explanation
Indices: 46629541--46629599 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
46629531 TATAATCTAA
*
46629541 ACAATTTTCTTAGATGCTAAAGAATTGTT
1 ACAATTTTCTTAGATGCCAAAGAATTGTT
46629570 ACAATTTTCTTAGATGCCAAAGAATTGTT
1 ACAATTTTCTTAGATGCCAAAGAATTGTT
46629599 A
1 A
46629600 AAATGCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.39
Consensus pattern (29 bp):
ACAATTTTCTTAGATGCCAAAGAATTGTT
Found at i:46629732 original size:221 final size:221
Alignment explanation
Indices: 46629349--46629791 Score: 886
Period size: 221 Copynumber: 2.0 Consensus size: 221
46629339 TATAATGTAA
46629349 ACAATTTTCTTAGATGCCAAAGAATTGTTAAAATGCTATTCAAAATTTCCATGAACCAAACATAG
1 ACAATTTTCTTAGATGCCAAAGAATTGTTAAAATGCTATTCAAAATTTCCATGAACCAAACATAG
46629414 TTTCAAAATTTCTGTTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGCAAG
66 TTTCAAAATTTCTGTTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGCAAG
46629479 AAGATTTTTCAGGAAGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACA
131 AAGATTTTTCAGGAAGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACA
46629544 ATTTTCTTAGATGCTAAAGAATTGTT
196 ATTTTCTTAGATGCTAAAGAATTGTT
46629570 ACAATTTTCTTAGATGCCAAAGAATTGTTAAAATGCTATTCAAAATTTCCATGAACCAAACATAG
1 ACAATTTTCTTAGATGCCAAAGAATTGTTAAAATGCTATTCAAAATTTCCATGAACCAAACATAG
46629635 TTTCAAAATTTCTGTTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGCAAG
66 TTTCAAAATTTCTGTTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGCAAG
46629700 AAGATTTTTCAGGAAGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACA
131 AAGATTTTTCAGGAAGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACA
46629765 ATTTTCTTAGATGCTAAAGAATTGTT
196 ATTTTCTTAGATGCTAAAGAATTGTT
46629791 A
1 A
46629792 AAATGCTATT
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 222 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (221 bp):
ACAATTTTCTTAGATGCCAAAGAATTGTTAAAATGCTATTCAAAATTTCCATGAACCAAACATAG
TTTCAAAATTTCTGTTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGCAAG
AAGATTTTTCAGGAAGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACA
ATTTTCTTAGATGCTAAAGAATTGTT
Found at i:46631261 original size:52 final size:52
Alignment explanation
Indices: 46631204--46631306 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
46631194 GCATCAAAAT
*
46631204 GAAAACTAGAACATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTAA
1 GAAAACTAGAAAATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTAA
* *
46631256 GAAAACTAGAAAATTTCAAACTCCTTTGCTATCAAGTTTATAGGATGTGTA
1 GAAAACTAGAAAATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTA
46631307 CCTCGAAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (52 bp):
GAAAACTAGAAAATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTAA
Found at i:46637043 original size:60 final size:60
Alignment explanation
Indices: 46636975--46637094 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
46636965 TTTAATTGTT
46636975 TTTCTTTTGAGATTATTTTGCTTCTGTGATTTTTGGAATCCCTTTACCAACTTGAGACAC
1 TTTCTTTTGAGATTATTTTGCTTCTGTGATTTTTGGAATCCCTTTACCAACTTGAGACAC
46637035 TTTCTTTTGAGATTATTTTGCTTCTGTGATTTTTGGAATCCCTTTACCAACTTGAGACAC
1 TTTCTTTTGAGATTATTTTGCTTCTGTGATTTTTGGAATCCCTTTACCAACTTGAGACAC
46637095 GTAGCAACAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (60 bp):
TTTCTTTTGAGATTATTTTGCTTCTGTGATTTTTGGAATCCCTTTACCAACTTGAGACAC
Found at i:46639238 original size:29 final size:29
Alignment explanation
Indices: 46639115--46639315 Score: 217
Period size: 29 Copynumber: 6.8 Consensus size: 29
46639105 TCATCGACCA
*
46639115 ATGAAGAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
* *
46639144 ATGAAAAGGGGATGGTGACGGCCATCGAATT
1 ATGAAAA-GGGATGGTGACGACCATC-AACT
* * * * * *
46639175 ATGAAAAAGGATAGCT-TCGGA-TATCGATT
1 ATGAAAAGGGAT-GGTGAC-GACCATCAACT
* *
46639204 AAGAAAAGGGATGGTGATGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
*
46639233 ATGAAAAGGGATGGTGATGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
* *
46639262 ATAAAAAGGGATGGTGACGACCATCGAATT
1 ATGAAAAGGGATGGTGACGACCATC-AACT
46639292 ATGAAAAGGGATGGTGACGACCAT
1 ATGAAAAGGGATGGTGACGACCAT
46639316 TGTGATTACA
Statistics
Matches: 143, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
28 4 0.03
29 75 0.52
30 51 0.36
31 13 0.09
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.20
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAACT
Found at i:46643058 original size:40 final size:39
Alignment explanation
Indices: 46643003--46643117 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 39
46642993 AATTATTGAA
*
46643003 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTTCCCC
1 TGATTGCACATACGTGCCCC-GTTTGTACTTCGGTACCCC
*
46643043 TGATTGCACATACGTGCCCCCGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTG-CCCCGTTTGTACTTCGGTACCCC
* * * *
46643083 TGATTGCACTTTCGTGCCCCGGTTATACTTCGGTA
1 TGATTGCACATACGTGCCCCGTTTGTACTTCGGTA
46643118 AACCTAGATC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 16 0.24
40 47 0.70
41 4 0.06
ACGTcount: A:0.14, C:0.30, G:0.21, T:0.35
Consensus pattern (39 bp):
TGATTGCACATACGTGCCCCGTTTGTACTTCGGTACCCC
Found at i:46643102 original size:20 final size:20
Alignment explanation
Indices: 46643003--46643102 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
46642993 AATTATTGAA
*
46643003 TGATTGCACATACGTGCCCC
1 TGATTGCACATTCGTGCCCC
* * *
46643023 TGTTTGTAC-TTCGGTTCCCC
1 TGATTGCACATTC-GTGCCCC
*
46643043 TGATTGCACATACGTGCCCC
1 TGATTGCACATTCGTGCCCC
* * * * * *
46643063 CGTTTGTACTTTGGTACCCC
1 TGATTGCACATTCGTGCCCC
*
46643083 TGATTGCACTTTCGTGCCCC
1 TGATTGCACATTCGTGCCCC
46643103 GGTTATACTT
Statistics
Matches: 58, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
19 2 0.03
20 54 0.93
21 2 0.03
ACGTcount: A:0.13, C:0.33, G:0.20, T:0.34
Consensus pattern (20 bp):
TGATTGCACATTCGTGCCCC
Found at i:46643839 original size:19 final size:19
Alignment explanation
Indices: 46643815--46643851 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46643805 CTCAGCCGTA
*
46643815 TGAGGCACACGGCCATGTT
1 TGAGGCACACGACCATGTT
46643834 TGAGGCACACGACCATGT
1 TGAGGCACACGACCATGT
46643852 GTCATCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.19
Consensus pattern (19 bp):
TGAGGCACACGACCATGTT
Found at i:46644927 original size:42 final size:42
Alignment explanation
Indices: 46644868--46644990 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
46644858 GTTTCACAGT
*
46644868 TTGTGTATTAGCGAAGCTCCCTACGTGAGCTTAAGTGATAAG
1 TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGATAAG
* *
46644910 TTGTGTATCAGCGAAGCTCCTTACGTGAGCTTAAGTGACAAG
1 TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGATAAG
* * * * **
46644952 CTATGTATCAGCGAAGCTCCCCATGCAAGCTTAAGTGAT
1 TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGAT
46644991 TGTGCTCCTT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGATAAG
Found at i:46651351 original size:39 final size:39
Alignment explanation
Indices: 46651297--46651501 Score: 320
Period size: 39 Copynumber: 5.2 Consensus size: 39
46651287 AATCTTATTT
*
46651297 AGTATAATCAGTGGATAATTCTCGTTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
* *
46651336 AGTATAACCAGTGGATAATGCTCATTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
* *
46651375 GGTATAATCAGTGGATAATGCTCGTCTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
*
46651414 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTT
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
* * *
46651453 AGTATAATCAGTGGATATTGCTCGTTTGAGCAAATCATTT
1 AGTATAATCAGTGGATAATGCTCGTTTGAGC-AAGCATTC
46651493 AGTATAATC
1 AGTATAATC
46651502 GATATTCCAT
Statistics
Matches: 153, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 137 0.90
40 16 0.10
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (39 bp):
AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
Found at i:46654031 original size:43 final size:43
Alignment explanation
Indices: 46653933--46654109 Score: 198
Period size: 43 Copynumber: 4.1 Consensus size: 43
46653923 TTATTTCTAT
* * * *
46653933 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCAC--TTTCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTC-CAC
* * *
46653975 AAATGCCGCTAAAGGTCATGTTCTTTGGCGACGCTTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
* * * *
46654018 AAACGCCGCTAAAGGGCATCTTCTTTTGCGGCGCTTTTCCCGA-
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCC-AC
* *
46654061 AAACGCCGCTAAAGGTCATGTTCTTTACCGGCGCTTTCTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
46654104 AAACGC
1 AAACGC
46654110 TGCTGTTGTT
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
42 30 0.27
43 77 0.69
44 5 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
Found at i:46654096 original size:86 final size:85
Alignment explanation
Indices: 46653933--46654109 Score: 237
Period size: 86 Copynumber: 2.1 Consensus size: 85
46653923 TTATTTCTAT
* * *
46653933 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCACTTTCATAAAAATGCCGCTAAAGGTCATGTTC
1 AAACGCCGCTAAAGGCCATCTTCTTTAGCGGCACTTTCACAAAAACGCCGCTAAAGGTCATGTTC
** *
46653998 TTTGGCGACGCTTTTTCCAC
66 TTTACCGACGCTTTCTCCAC
* * * * *
46654018 AAACGCCGCTAAAGGGCATCTTCTTTTGCGGCGCTTTTCCCGAAAACGCCGCTAAAGGTCATGTT
1 AAACGCCGCTAAAGGCCATCTTCTTTAGCGGCAC-TTTCACAAAAACGCCGCTAAAGGTCATGTT
*
46654083 CTTTACCGGCGCTTTCTCCAC
65 CTTTACCGACGCTTTCTCCAC
46654104 AAACGC
1 AAACGC
46654110 TGCTGTTGTT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 30 0.38
86 49 0.62
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (85 bp):
AAACGCCGCTAAAGGCCATCTTCTTTAGCGGCACTTTCACAAAAACGCCGCTAAAGGTCATGTTC
TTTACCGACGCTTTCTCCAC
Found at i:46654504 original size:20 final size:21
Alignment explanation
Indices: 46654468--46654507 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
46654458 TCTGCTCTAC
46654468 TTCCCTCGCTGCAGCCTCTGG
1 TTCCCTCGCTGCAGCCTCTGG
*
46654489 TTCCCTC-CTGCCGCCTCTG
1 TTCCCTCGCTGCAGCCTCTG
46654508 CTTTAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.47, G:0.20, T:0.30
Consensus pattern (21 bp):
TTCCCTCGCTGCAGCCTCTGG
Found at i:46657398 original size:9 final size:9
Alignment explanation
Indices: 46657338--46657754 Score: 242
Period size: 9 Copynumber: 49.3 Consensus size: 9
46657328 AATTACAAGG
*
46657338 GTAAGTTGT
1 GTAAGTTAT
46657347 GT-A-TTAT
1 GTAAGTTAT
46657354 GTAAGTTAT
1 GTAAGTTAT
* *
46657363 GATATGATAT
1 G-TAAGTTAT
* *
46657373 AT-ATTTAT
1 GTAAGTTAT
46657381 GT-A-TTAT
1 GTAAGTTAT
46657388 GTAAGTTAT
1 GTAAGTTAT
46657397 GTACTAAGTTAT
1 G---TAAGTTAT
46657409 GT-A-TTAT
1 GTAAGTTAT
46657416 GTAAGTTAT
1 GTAAGTTAT
*
46657425 GTAAGTTGT
1 GTAAGTTAT
*
46657434 GT-A-TCAT
1 GTAAGTTAT
*
46657441 GTGAGTTAT
1 GTAAGTTAT
*
46657450 GTAAGTTGT
1 GTAAGTTAT
46657459 GT-A-TTAT
1 GTAAGTTAT
*
46657466 GTAAATTAT
1 GTAAGTTAT
46657475 GTAAGTTAT
1 GTAAGTTAT
46657484 GTAAGTTAT
1 GTAAGTTAT
*
46657493 GTATGTTAT
1 GTAAGTTAT
46657502 GTAAGTTAT
1 GTAAGTTAT
46657511 GT-A-TTAT
1 GTAAGTTAT
* * *
46657518 GTATGTAAAC
1 GTAAGT-TAT
**
46657528 CCAAGTTAT
1 GTAAGTTAT
46657537 GTAAGTTAT
1 GTAAGTTAT
46657546 GTAAGTTAT
1 GTAAGTTAT
46657555 GTAAGTTAT
1 GTAAGTTAT
46657564 GT-A--TATT
1 GTAAGTTA-T
*
46657571 GTATGTTAT
1 GTAAGTTAT
46657580 GTAAGTTAT
1 GTAAGTTAT
46657589 GT-A-TTAT
1 GTAAGTTAT
46657596 GT-A-TTAT
1 GTAAGTTAT
46657603 GTAAG-TACT
1 GTAAGTTA-T
*
46657612 GTAAGTAAT
1 GTAAGTTAT
46657621 GT-A-TTAT
1 GTAAGTTAT
46657628 GTAAGTTAT
1 GTAAGTTAT
*
46657637 GTAAGTAAT
1 GTAAGTTAT
46657646 GT-A-TTAT
1 GTAAGTTAT
* *
46657653 ATAAGTTGT
1 GTAAGTTAT
46657662 GTCTAA--TAT
1 G--TAAGTTAT
46657671 -TAA-TTAT
1 GTAAGTTAT
* **
46657678 GTAGGGCA-
1 GTAAGTTAT
*
46657686 --AAGTTGT
1 GTAAGTTAT
*
46657693 GT-A-TAAT
1 GTAAGTTAT
46657700 GTAAGTTA-
1 GTAAGTTAT
*
46657708 GGAAGGTTAT
1 GTAA-GTTAT
46657718 GT-A-TTAT
1 GTAAGTTAT
46657725 GTAAGTTAT
1 GTAAGTTAT
46657734 GTAAGTTAT
1 GTAAGTTAT
46657743 GTAAGTTAT
1 GTAAGTTAT
46657752 GTA
1 GTA
46657755 GGCTATGTTT
Statistics
Matches: 315, Mismatches: 50, Indels: 86
0.70 0.11 0.19
Matches are distributed among these distances:
6 7 0.02
7 70 0.22
8 32 0.10
9 180 0.57
10 14 0.04
11 3 0.01
12 9 0.03
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:46657436 original size:25 final size:25
Alignment explanation
Indices: 46657377--46657754 Score: 274
Period size: 25 Copynumber: 14.6 Consensus size: 25
46657367 TGATATATAT
46657377 TTATGTATTATGTAAGTTATGTACTAAG
1 TTATGTATTATGTAAGTTATG---TAAG
46657405 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* * *
46657430 TTGTGTATCATGTGAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
46657455 TTGTGTATTATGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
46657480 TTATGTAAGTTATGTATGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* * ***
46657507 TTATGTATTATGTATGTAAACCCAAG
1 TTATGTATTATGTAAGT-TATGTAAG
46657533 TTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
46657560 TTATGTA-TATTGTATGTTATGTAAG
1 TTATGTATTA-TGTAAGTTATGTAAG
46657585 TTATGTATTATGT-A-TTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
46657608 -TACTGTAAGTAATGT-A-TTATGTAAG
1 TTA-TGT-A-TTATGTAAGTTATGTAAG
* *
46657633 TTATGTAAGTAATGT-A-TTATATAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
46657658 TTGTGTCTAATAT-TAA-TTATGTAGGGCAAAG
1 TTATG--TATTATGTAAGTTATGT------AAG
* * *
46657689 TTGTGTATAATGTAAGTTA-GGAAGG
1 TTATGTATTATGTAAGTTATGTAA-G
46657714 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
46657739 TTATGTAAGTTATGTA
1 TTATGT-A-TTATGTA
46657755 GGCTATGTTT
Statistics
Matches: 292, Mismatches: 32, Indels: 53
0.77 0.08 0.14
Matches are distributed among these distances:
22 2 0.01
23 12 0.04
24 6 0.02
25 160 0.55
26 22 0.08
27 41 0.14
28 30 0.10
29 4 0.01
30 4 0.01
31 11 0.04
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:46657455 original size:34 final size:34
Alignment explanation
Indices: 46657412--46657754 Score: 138
Period size: 34 Copynumber: 9.7 Consensus size: 34
46657402 AAGTTATGTA
* *
46657412 TTATGTAAGTTATGTAAGTTGTGTATCATGTGAG
1 TTATGTAAGTTATGTAAGTTATGTATCATGTAAG
* *
46657446 TTATGTAAGTTGTGT-A-TTATGTAAATTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGT--ATCATGTAAG
* *
46657480 TTATGTAAGTTATGTATGTTATGTAAGTTATGT-A-
1 TTATGTAAGTTATGTAAGTTATGT-A-TCATGTAAG
* * *** *
46657514 TTATGTATGTAAACCCAAGTTATGTAAGTTATGTAAG
1 TTATGTAAGT-TATGTAAGTTATGT-A-TCATGTAAG
*
46657551 TTATGTAAGTTATGTATATTGTATGT-T-ATGTAAG
1 TTATGTAAGTTATGTA-AGT-TATGTATCATGTAAG
*
46657585 TTATGTATTATGTATTATGTAAG-TACTGTAAGTAATGT-A-
1 TTATGTA--A-G--TTATGTAAGTTA-TGT-A-TCATGTAAG
* * *
46657624 TTATGTAAGTTATGTAAGTAATGTATTATATAAG
1 TTATGTAAGTTATGTAAGTTATGTATCATGTAAG
* * * **
46657658 TTGTGTCTAA--TAT-TAA-TTATGTAGGGCAAAGTTGTG
1 TTATG--TAAGTTATGTAAGTTATGTA--TC-ATG-TAAG
* *
46657694 TATAATGTAAGTTA-GGAAGGTTATGTATTATGTAAG
1 T-T-ATGTAAGTTATGTAA-GTTATGTATCATGTAAG
46657730 TTATGTAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
46657755 GGCTATGTTT
Statistics
Matches: 234, Mismatches: 38, Indels: 74
0.68 0.11 0.21
Matches are distributed among these distances:
32 15 0.06
33 6 0.03
34 96 0.41
35 28 0.12
36 31 0.13
37 19 0.08
38 12 0.05
39 14 0.06
40 9 0.04
41 4 0.02
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGTATCATGTAAG
Found at i:46657615 original size:57 final size:59
Alignment explanation
Indices: 46657346--46657659 Score: 238
Period size: 57 Copynumber: 5.3 Consensus size: 59
46657336 GGGTAAGTTG
* * * * * *
46657346 TGTATTATGTAAGTTATGATATGATATAT-ATTTATGTATTATGTAAGTTATGT-ACTAA
1 TGTATTATGTAAGTTATG-TAAGTTATGTAAGTAATGTATTATGTAAGTTATGTAAGTAA
** * * **
46657404 -G--TTATGT-A-TTATGTAAGTTATGTAAGTTGTGTATCATGTGAGTTATGTAAGTTG
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTAATGTATTATGTAAGTTATGTAAGTAA
* *
46657458 TGTATTATGTAAATTATGTAAGTTATGTAAGTTATGTATGTTATGTAAGTTATGTATTATGT-A
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTAATGTA--TTATGTAAGTTATGTA--A-GTAA
* *
46657521 TGTAAACCCAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTA-TATTGTATGTTATGTAAG
1 TGT-------A-TTATGTAAGTTATGTAAGTTATGTAAGTAATGTATTA-TGTAAGTTATGTAAG
*
46657585 TTA
57 TAA
46657588 TGTATTATGT-A-TTATGTAAG-TACTGTAAGTAATGTATTATGTAAGTTATGTAAGTAA
1 TGTATTATGTAAGTTATGTAAGTTA-TGTAAGTAATGTATTATGTAAGTTATGTAAGTAA
*
46657645 TGTATTATATAAGTT
1 TGTATTATGTAAGTT
46657660 GTGTCTAATA
Statistics
Matches: 210, Mismatches: 20, Indels: 51
0.75 0.07 0.18
Matches are distributed among these distances:
52 7 0.03
53 25 0.12
54 3 0.01
55 7 0.03
56 2 0.01
57 53 0.25
58 5 0.02
59 32 0.15
60 1 0.00
61 14 0.07
63 4 0.02
64 2 0.01
66 2 0.01
67 5 0.02
68 2 0.01
69 12 0.06
70 1 0.00
71 33 0.16
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (59 bp):
TGTATTATGTAAGTTATGTAAGTTATGTAAGTAATGTATTATGTAAGTTATGTAAGTAA
Found at i:46657761 original size:18 final size:18
Alignment explanation
Indices: 46657722--46657762 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
46657712 GGTTATGTAT
*
46657722 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAGC
*
46657740 TATGTAAGTTATGTAGGC
1 TATGTAAGTTATGTAAGC
46657758 TATGT
1 TATGT
46657763 TTTATGTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.44
Consensus pattern (18 bp):
TATGTAAGTTATGTAAGC
Found at i:46657768 original size:43 final size:42
Alignment explanation
Indices: 46657698--46657784 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 42
46657688 GTTGTGTATA
*
46657698 ATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATGTAAGTT
1 ATGTAAGTTAGGAAGGCTATGTATTATGTAAGTTAT-TAAGTT
* * * * *
46657741 ATGTAAGTTATGTAGGCTATGTTTTATGTTAGTTATTATGTT
1 ATGTAAGTTAGGAAGGCTATGTATTATGTAAGTTATTAAGTT
46657783 AT
1 AT
46657785 TATATAAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
42 7 0.18
43 31 0.82
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (42 bp):
ATGTAAGTTAGGAAGGCTATGTATTATGTAAGTTATTAAGTT
Found at i:46657794 original size:20 final size:19
Alignment explanation
Indices: 46657758--46657815 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 19
46657748 TTATGTAGGC
* *
46657758 TATGTTTTATGTTAGTTAT
1 TATGTTTTATATAAGTTAT
46657777 TATGTTATTATATAAGTTAT
1 TATGTT-TTATATAAGTTAT
* *
46657797 GCAAGTTTATATATAAGTT
1 -TATGTTT-TATATAAGTT
46657816 TATATATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.19
20 12 0.38
21 14 0.44
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (19 bp):
TATGTTTTATATAAGTTAT
Found at i:46657932 original size:7 final size:7
Alignment explanation
Indices: 46657920--46657944 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46657910 ATTGATAAAT
46657920 TTATGTA
1 TTATGTA
46657927 TTATGTA
1 TTATGTA
46657934 TTATGTA
1 TTATGTA
46657941 TTAT
1 TTAT
46657945 ATATCACTTT
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TTATGTA
Found at i:46658363 original size:31 final size:32
Alignment explanation
Indices: 46658313--46658376 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
46658303 GTATATTGAT
*
46658313 TTAGCAGCAAAAAAACAATAAAAGGTATCATC
1 TTAGCAGCAAAAAAACAATAAAAGGTACCATC
* *
46658345 TTAGCAGC-AAAAACCAATAGAAGGTACCATC
1 TTAGCAGCAAAAAAACAATAAAAGGTACCATC
46658376 T
1 T
46658377 AATTAGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (32 bp):
TTAGCAGCAAAAAAACAATAAAAGGTACCATC
Found at i:46658805 original size:13 final size:13
Alignment explanation
Indices: 46658787--46658811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46658777 AAAGACCTTG
46658787 CAGCAACATTAAC
1 CAGCAACATTAAC
46658800 CAGCAACATTAA
1 CAGCAACATTAA
46658812 GCAGAACTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (13 bp):
CAGCAACATTAAC
Found at i:46658917 original size:32 final size:31
Alignment explanation
Indices: 46658857--46658917 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
46658847 TTAAGCAAAA
* *
46658857 ACCAAATTAAAACAGTCCCAACTACAAATAT
1 ACCAAATTAAAACAGTCCAAAATACAAATAT
46658888 ACCAAATTTAAATACAGTCCAAAAT-CAAAT
1 ACCAAA-TTAAA-ACAGTCCAAAATACAAAT
46658918 GTAAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 6 0.23
32 10 0.38
33 10 0.38
ACGTcount: A:0.52, C:0.23, G:0.03, T:0.21
Consensus pattern (31 bp):
ACCAAATTAAAACAGTCCAAAATACAAATAT
Found at i:46659812 original size:29 final size:29
Alignment explanation
Indices: 46659770--46659844 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
46659760 CTAAATGCTG
*
46659770 TGAAGAATTGAATAACTAAATCAACGAGA
1 TGAAGAATTGAATAACTAAACCAACGAGA
* * *
46659799 TGAAGAAATGAATAACTAAACCGATGAGA
1 TGAAGAATTGAATAACTAAACCAACGAGA
*
46659828 TGAAGATTTGAATAACT
1 TGAAGAATTGAATAACT
46659845 GGATTTAAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (29 bp):
TGAAGAATTGAATAACTAAACCAACGAGA
Found at i:46661158 original size:22 final size:21
Alignment explanation
Indices: 46661128--46661179 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
46661118 TTGAATCATA
* * *
46661128 AAACATTAACTATAAACCCCT
1 AAACCTTAACCATAAACACCT
*
46661149 AAACCCTTAACCCTAAACACCT
1 AAA-CCTTAACCATAAACACCT
46661171 AAACCTTAA
1 AAACCTTAA
46661180 ATCCTAACTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCTTAACCATAAACACCT
Found at i:46661262 original size:7 final size:7
Alignment explanation
Indices: 46661252--46661278 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
46661242 AAAACATATA
46661252 TAAACCC
1 TAAACCC
46661259 TAAACCC
1 TAAACCC
46661266 TAAACCC
1 TAAACCC
46661273 TAAACC
1 TAAACC
46661279 ATGAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:46661630 original size:115 final size:114
Alignment explanation
Indices: 46661511--46661770 Score: 261
Period size: 115 Copynumber: 2.3 Consensus size: 114
46661501 TGACTTCTGT
* * * * *
46661511 GGCGTTTTTATAAATGCGCCGCTAATGTGC-CAAAACCTTAACAACAAAACGTTGTCATTTGCTT
1 GGCGTTTTTAGAAATGCGCCACTAATGT-CTCAAAACCTTAAAAACAAAACGTCGTCATTTGCCT
* * * *
46661575 AAAAACTTTTACAGCGCTTTTGTGAAAGCACCGCCAATTCTTCACTTTTGC
65 -AAAACTATTACAGCGCTTTCGAGAAAGCACCGCCAATGCTTCACTTTTGC
* * * * * *
46661626 GGCGTTTTGAGGAATGCGCCATTAATGTCTCTAAATCTTAAAAAGAAAACGTCGTCATTTGCCTA
1 GGCGTTTTTAGAAATGCGCCACTAATGTCTCAAAACCTTAAAAACAAAACGTCGTCATTTGCCTA
*** * * *
46661691 AAACTATTGTGGCGCTTTCGAGAAAGCGCCGCTAATGCTTGACTTTTGC
66 AAACTATTACAGCGCTTTCGAGAAAGCACCGCCAATGCTTCACTTTTGC
* * * *
46661740 AGCGTTTTTTGCAAAAGTGCCACTAATGTCT
1 GGCGTTTTTAG-AAATGCGCCACTAATGTCT
46661771 TTAATGCTCA
Statistics
Matches: 115, Mismatches: 28, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
114 49 0.43
115 66 0.57
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (114 bp):
GGCGTTTTTAGAAATGCGCCACTAATGTCTCAAAACCTTAAAAACAAAACGTCGTCATTTGCCTA
AAACTATTACAGCGCTTTCGAGAAAGCACCGCCAATGCTTCACTTTTGC
Found at i:46670512 original size:45 final size:46
Alignment explanation
Indices: 46670463--46670563 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 46
46670453 GCGTCTTTTG
* * *
46670463 TAAAGCCTTTGTGGCATATTCTACAAAGC-TTTGTGGCATATTCTA
1 TAAAGCCTTTGTGGCATATTATACAAAGCATGTCTGGCATATTCTA
* * ** * *
46670508 TAAAGCCTTCGTGGCGTATTATGTAAAGCATGTCTGGCATATTTTG
1 TAAAGCCTTTGTGGCATATTATACAAAGCATGTCTGGCATATTCTA
46670554 TAAAGCCTTT
1 TAAAGCCTTT
46670564 ATGGTGTATT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
45 24 0.53
46 21 0.47
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (46 bp):
TAAAGCCTTTGTGGCATATTATACAAAGCATGTCTGGCATATTCTA
Found at i:46670559 original size:68 final size:68
Alignment explanation
Indices: 46670412--46670577 Score: 172
Period size: 68 Copynumber: 2.4 Consensus size: 68
46670402 AGACGTAATG
* * * * * * * *
46670412 TTTTATAAAGCTTTTGCGGCTTA-TCTCATAAAGCCTTTGTGGCGTCTTTTGTAAAGCCTTTGTG
1 TTTTATAAAGC-TTTGTGGCATATTCT-ATAAAGCCTTCGTGGCGTATTATGTAAAGCATGTCTG
46670476 GCATA
64 GCATA
* *
46670481 TTCTACAAAGCTTTGTGGCATATTCTATAAAGCCTTCGTGGCGTATTATGTAAAGCATGTCTGGC
1 TTTTATAAAGCTTTGTGGCATATTCTATAAAGCCTTCGTGGCGTATTATGTAAAGCATGTCTGGC
46670546 ATA
66 ATA
* * **
46670549 TTTTGTAAAGCCTTTATGGTGTATTCTAT
1 TTTTATAAAG-CTTTGTGGCATATTCTAT
46670578 GATGCCTCTG
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
68 52 0.66
69 27 0.34
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (68 bp):
TTTTATAAAGCTTTGTGGCATATTCTATAAAGCCTTCGTGGCGTATTATGTAAAGCATGTCTGGC
ATA
Found at i:46670573 original size:23 final size:23
Alignment explanation
Indices: 46670440--46670563 Score: 124
Period size: 23 Copynumber: 5.4 Consensus size: 23
46670430 GCTTATCTCA
* * *
46670440 TAAAGCCTTTGTGGCGTCTTTTG
1 TAAAGCCTTTGTGGCATATTCTG
*
46670463 TAAAGCCTTTGTGGCATATTCTA
1 TAAAGCCTTTGTGGCATATTCTG
* *
46670486 CAAAG-CTTTGTGGCATATTCTA
1 TAAAGCCTTTGTGGCATATTCTG
* * *
46670508 TAAAGCCTTCGTGGCGTATTATG
1 TAAAGCCTTTGTGGCATATTCTG
* * * *
46670531 TAAAGCATGTCTGGCATATTTTG
1 TAAAGCCTTTGTGGCATATTCTG
46670554 TAAAGCCTTT
1 TAAAGCCTTT
46670564 ATGGTGTATT
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
22 21 0.26
23 61 0.74
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (23 bp):
TAAAGCCTTTGTGGCATATTCTG
Found at i:46677182 original size:80 final size:81
Alignment explanation
Indices: 46677066--46677224 Score: 257
Period size: 80 Copynumber: 2.0 Consensus size: 81
46677056 TTTTTAGAAG
* * *
46677066 ATAGGTTAAAAACAATTTTGTATTTGTCGAAAGGAAAAAGA-CTAGAGGAGATTGAAATAGCCGT
1 ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATCTAGAGGAGATTGAAATAGCAGT
46677130 ATACAAAAGAAATAAT
66 ATACAAAAGAAATAAT
* * *
46677146 ATAGGTTTAAAACAACTTTGTATTTGTAGAAGGGAAAAAGATTTAGAGGAGATTGAAATAGCAGT
1 ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATCTAGAGGAGATTGAAATAGCAGT
46677211 ATACAAAAGAAATA
66 ATACAAAAGAAATA
46677225 TATGTTCATC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 37 0.51
81 35 0.49
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (81 bp):
ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATCTAGAGGAGATTGAAATAGCAGT
ATACAAAAGAAATAAT
Found at i:46682386 original size:16 final size:16
Alignment explanation
Indices: 46682361--46682397 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
46682351 GGAATGAATT
*
46682361 AATTTAATTAGATTAA
1 AATTTAATTAAATTAA
*
46682377 AATTTGATTAAATTAA
1 AATTTAATTAAATTAA
46682393 AATTT
1 AATTT
46682398 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (16 bp):
AATTTAATTAAATTAA
Found at i:46690966 original size:4 final size:4
Alignment explanation
Indices: 46690957--46690983 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46690947 TTAAATGAAA
46690957 GAAG GAAG GAAG GAAG GAAG GAAG GAA
1 GAAG GAAG GAAG GAAG GAAG GAAG GAA
46690984 AACGGAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (4 bp):
GAAG
Found at i:46691257 original size:6 final size:6
Alignment explanation
Indices: 46691246--46691275 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
46691236 ACTATTTCTA
46691246 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
46691276 GAACTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:46691612 original size:27 final size:26
Alignment explanation
Indices: 46691556--46691613 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
46691546 CGCACGAATG
*
46691556 AAATTTAATTTAAATAAAAATATTTTT
1 AAATTTAATTTAAATAAAAATA-TTAT
*
46691583 AAATTTAAATTTAATTATAAAATA-TAT
1 AAATTT-AATTTAAATA-AAAATATTAT
46691610 AAAT
1 AAAT
46691614 AATAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 12 0.44
28 9 0.33
29 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATTTAATTTAAATAAAAATATTAT
Found at i:46693512 original size:20 final size:20
Alignment explanation
Indices: 46693461--46693514 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
46693451 CTTCCTATGA
*
46693461 GGTATCGATACCTTGGAGAG
1 GGTATCGATACTTTGGAGAG
*
46693481 GGTATCGATACTTTGTTA-AG
1 GGTATCGATACTTTG-GAGAG
46693501 GGTATCGATACTTT
1 GGTATCGATACTTT
46693515 TGATTTTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (20 bp):
GGTATCGATACTTTGGAGAG
Found at i:46705131 original size:20 final size:19
Alignment explanation
Indices: 46705099--46705137 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
46705089 TTGATTAAGG
46705099 TTAAGTTAAGTTAATTAAA
1 TTAAGTTAAGTTAATTAAA
*
46705118 TTAAGTTTATGTTAATTAAA
1 TTAAG-TTAAGTTAATTAAA
46705138 CCAACTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
TTAAGTTAAGTTAATTAAA
Found at i:46708934 original size:20 final size:20
Alignment explanation
Indices: 46708908--46709004 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
46708898 TGCACTTCAT
*
46708908 TGCCTCTATTTACACTTTTG
1 TGCCTCTATTTACACTTTAG
* * * *
46708928 TGTCTCTATTTGCACTTCAA
1 TGCCTCTATTTACACTTTAG
* * *
46708948 TGCCTTTGTTTACACTTTGG
1 TGCCTCTATTTACACTTTAG
*
46708968 TGTCTCTGA-TTACACTTTAG
1 TGCCTCT-ATTTACACTTTAG
*
46708988 TGCCTCTGTTTACACTT
1 TGCCTCTATTTACACTT
46709005 CGGTGTTTTT
Statistics
Matches: 57, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.15, C:0.24, G:0.13, T:0.47
Consensus pattern (20 bp):
TGCCTCTATTTACACTTTAG
Found at i:46708952 original size:40 final size:41
Alignment explanation
Indices: 46708896--46709010 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 41
46708886 CTTGTACGAG
* * *
46708896 TTTGCACTTCATTGCCTCTATTTACACTTTTGTGTCTCT-A
1 TTTGCACTTCAATGCCTCTGTTTACACTTTGGTGTCTCTGA
*
46708936 TTTGCACTTCAATGCCTTTGTTTACACTTTGGTGTCTCTGA
1 TTTGCACTTCAATGCCTCTGTTTACACTTTGGTGTCTCTGA
* * * *
46708977 -TTACACTTTAGTGCCTCTGTTTACACTTCGGTGT
1 TTTGCACTTCAATGCCTCTGTTTACACTTTGGTGT
46709011 TTTTGTTCGT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 64 0.98
41 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (41 bp):
TTTGCACTTCAATGCCTCTGTTTACACTTTGGTGTCTCTGA
Found at i:46719039 original size:31 final size:31
Alignment explanation
Indices: 46719001--46719060 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
46718991 ATCCAGTAAG
* *
46719001 TAAGTTGTGTTTTGTGAACTATGTTCGCATA
1 TAAGTTGTGTTTGGCGAACTATGTTCGCATA
46719032 TAAGTTGTGTTTGGCGAACTATGTTCGCA
1 TAAGTTGTGTTTGGCGAACTATGTTCGCA
46719061 AGTCTATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.42
Consensus pattern (31 bp):
TAAGTTGTGTTTGGCGAACTATGTTCGCATA
Found at i:46721730 original size:53 final size:53
Alignment explanation
Indices: 46721661--46721868 Score: 245
Period size: 53 Copynumber: 3.9 Consensus size: 53
46721651 ATGGGGCTGA
* *
46721661 AAGACCATACCGTGTAAGGCCGTAATTGGTGGGTTATGGCATCATATGGAAAG
1 AAGACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGGAAAG
* * * * * * * *
46721714 AAGACCATATCTTGTAAGACTGTAAGTAGTAGGTTATGACATTATATGAAAAG
1 AAGACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGGAAAG
* * *
46721767 AATACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCACCGTATGGAAAG
1 AAGACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGGAAAG
* * * * * *
46721820 AAAATCATATTGTGTAAGACCGTAACTGGTGGATTATGGCATCTTATGG
1 AAGACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGG
46721869 GAAGGACTAA
Statistics
Matches: 127, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
53 127 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (53 bp):
AAGACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGGAAAG
Found at i:46724401 original size:13 final size:13
Alignment explanation
Indices: 46724374--46724412 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
46724364 ACGGCCTAAC
46724374 ACATGGCC-T-TG
1 ACATGGCCATGTG
*
46724385 ACATGGGCATGTG
1 ACATGGCCATGTG
46724398 ACATGGCCATGTG
1 ACATGGCCATGTG
46724411 AC
1 AC
46724413 CCTACTCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 7 0.29
12 1 0.04
13 16 0.67
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
ACATGGCCATGTG
Done.