Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 78 of 279
Found at i:25798231 original size:72 final size:72
Alignment explanation
Indices: 25798114--25798259 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
25798104 CTAGACCCTA
*
25798114 ATGCCAAAAATCCCTAACTAAAATCCCTCTGCCGAAATCCCCTCTCTAATCCCCTCAATTCGGCT
1 ATGCCAAAAATCCCTAACTAAAACCCCTCTGCCGAAATCCCCTCTCTAATCCCCTCAATTCGGCT
25798179 AAGCTCT
66 AAGCTCT
*
25798186 ATGCCGAAAATCCCTAACTAAAACCCCTCTGCCGAAATCCCCTCTCTAATCCCCTCAATTCGGCT
1 ATGCCAAAAATCCCTAACTAAAACCCCTCTGCCGAAATCCCCTCTCTAATCCCCTCAATTCGGCT
25798251 AAGCTCT
66 AAGCTCT
25798258 AT
1 AT
25798260 CCTTCTCTCA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.29, C:0.38, G:0.09, T:0.25
Consensus pattern (72 bp):
ATGCCAAAAATCCCTAACTAAAACCCCTCTGCCGAAATCCCCTCTCTAATCCCCTCAATTCGGCT
AAGCTCT
Found at i:25801309 original size:240 final size:240
Alignment explanation
Indices: 25800886--25801369 Score: 968
Period size: 240 Copynumber: 2.0 Consensus size: 240
25800876 GAACCATCCA
25800886 ACGATGAAGATGTTTAAAAACATTTATTTATTATTTTATGTTTTTAATTTTTATTAAAACTACTT
1 ACGATGAAGATGTTTAAAAACATTTATTTATTATTTTATGTTTTTAATTTTTATTAAAACTACTT
25800951 TTTATTTTTATTAAATTTTAGAATTTTATTTTATAATTATCAATTTCAATTATTTCATTAAGAGT
66 TTTATTTTTATTAAATTTTAGAATTTTATTTTATAATTATCAATTTCAATTATTTCATTAAGAGT
25801016 AATTATTCTTATTTATACCCCCTAAAAAGTTCCTGATTCTGTCATAGTTATATAGAGCTCTTAAG
131 AATTATTCTTATTTATACCCCCTAAAAAGTTCCTGATTCTGTCATAGTTATATAGAGCTCTTAAG
25801081 CTCATCATCGCGTAGGAACTAAAAACTCCACCGGGAAAGGTCTCC
196 CTCATCATCGCGTAGGAACTAAAAACTCCACCGGGAAAGGTCTCC
25801126 ACGATGAAGATGTTTAAAAACATTTATTTATTATTTTATGTTTTTAATTTTTATTAAAACTACTT
1 ACGATGAAGATGTTTAAAAACATTTATTTATTATTTTATGTTTTTAATTTTTATTAAAACTACTT
25801191 TTTATTTTTATTAAATTTTAGAATTTTATTTTATAATTATCAATTTCAATTATTTCATTAAGAGT
66 TTTATTTTTATTAAATTTTAGAATTTTATTTTATAATTATCAATTTCAATTATTTCATTAAGAGT
25801256 AATTATTCTTATTTATACCCCCTAAAAAGTTCCTGATTCTGTCATAGTTATATAGAGCTCTTAAG
131 AATTATTCTTATTTATACCCCCTAAAAAGTTCCTGATTCTGTCATAGTTATATAGAGCTCTTAAG
25801321 CTCATCATCGCGTAGGAACTAAAAACTCCACCGGGAAAGGTCTCC
196 CTCATCATCGCGTAGGAACTAAAAACTCCACCGGGAAAGGTCTCC
25801366 ACGA
1 ACGA
25801370 CTACCATGTC
Statistics
Matches: 244, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
240 244 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (240 bp):
ACGATGAAGATGTTTAAAAACATTTATTTATTATTTTATGTTTTTAATTTTTATTAAAACTACTT
TTTATTTTTATTAAATTTTAGAATTTTATTTTATAATTATCAATTTCAATTATTTCATTAAGAGT
AATTATTCTTATTTATACCCCCTAAAAAGTTCCTGATTCTGTCATAGTTATATAGAGCTCTTAAG
CTCATCATCGCGTAGGAACTAAAAACTCCACCGGGAAAGGTCTCC
Found at i:25807905 original size:53 final size:55
Alignment explanation
Indices: 25807841--25807980 Score: 187
Period size: 53 Copynumber: 2.6 Consensus size: 55
25807831 TTTTGAACTT
* * *
25807841 ACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCC-TTTCCTTAT-G-AAATC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGA-CCTTTTCCTTATAGTAAATC
* * *
25807894 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGACCTTTTCCTTATAGTAAATC
*
25807949 ATCAATGCCATGTCTTGACATGGTCTTACATG
1 ACCAATGCCATGTCTTGACATGGTCTTACATG
25807981 ATTTCCTTGC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.03
53 39 0.52
54 1 0.01
55 33 0.44
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (55 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGGACCTTTTCCTTATAGTAAATC
Found at i:25807994 original size:55 final size:53
Alignment explanation
Indices: 25807846--25808041 Score: 191
Period size: 55 Copynumber: 3.6 Consensus size: 53
25807836 AACTTACCAT
* * * *
25807846 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTTCCTTAT-GAAATCACCAA
1 TGCCATGCCTTGACATGGTCTTACAT-GTATCCTTTCCTTATAGAACTCATCAA
* *
25807899 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACAT-GTATCC-TTTCCTTATAG-AACTCATCAA
* * * * *
25807954 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAAAGAAC-CTATAAA
1 TGCCATGCCTTGACATGGTCTTACATG-TATCCTTTCCTTATAGAACTC-ATCAA
* *
25808008 TGCCATGCCTTGGCATGGTTTTACATGTTATCCT
1 TGCCATGCCTTGACATGGTCTTACATG-TATCCT
25808042 CATCTTACCA
Statistics
Matches: 119, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 36 0.30
54 38 0.32
55 41 0.34
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGTATCCTTTCCTTATAGAACTCATCAA
Found at i:25808079 original size:47 final size:47
Alignment explanation
Indices: 25808021--25808189 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
25808011 CATGCCTTGG
* * **
25808021 CATGGTTTTACATGTTATCCTCATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
25808068 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
25808115 CATGGTTTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
25808162 TATGGTCTTACATGATATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
25808190 GTGCCAATGC
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 114 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:25829142 original size:29 final size:31
Alignment explanation
Indices: 25829077--25829143 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
25829067 GTTTTGAGAT
* *
25829077 ACATGAACTTTGATTTAATGTGCAATTGTAT
1 ACATGAACTTTGATTTAATGTGCAATTATAC
* *
25829108 ATATGAACTTT-ATTTTA-GTGCAATTATAC
1 ACATGAACTTTGATTTAATGTGCAATTATAC
25829137 ACATGAA
1 ACATGAA
25829144 ACTCTAACTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.52
30 5 0.16
31 10 0.32
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (31 bp):
ACATGAACTTTGATTTAATGTGCAATTATAC
Found at i:25829371 original size:29 final size:30
Alignment explanation
Indices: 25829328--25829384 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
25829318 GAATTAGATC
*
25829328 AAATCAAATTTTCATGTATAAAATTACACA
1 AAATCAAATATTCATGTATAAAATTACACA
*
25829358 AAATCAAA-ATTCATGTATATAATTACA
1 AAATCAAATATTCATGTATAAAATTACA
25829385 TATTAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (30 bp):
AAATCAAATATTCATGTATAAAATTACACA
Found at i:25829374 original size:310 final size:309
Alignment explanation
Indices: 25828773--25829376 Score: 834
Period size: 310 Copynumber: 2.0 Consensus size: 309
25828763 ATTATATATA
* * *
25828773 AACTTTGATTCATTTTGCAATTTAATACATGAACTTTAATTAGTGCAATCATACACATGAAACTT
1 AACTTTGATTCAATGTGCAATTTAATACATGAACTTTAATTAGTGCAATCATACACATGAAACTC
* * * * * * * * *
25828838 TGATTGTGGTTCAAACGTATACATGAAACTTTAATTTTTATTTAATCATACATATTGAAGGATAT
66 TAACTGTGATCCAAACATATACATGAAACTTTAATTTTTATTTAATCATACACATTGAAAGAAAG
* * * **
25828903 AAATACATCAGTTTATTTTTATATTGGATAAATATAATTATTTTTGTATGTGATATATAAACATA
131 AAATAAATCAATTTATTTTTATATTGGATAAATATAATTATTTGTGTATGAAATATATAAACATA
* * * ***
25828968 AAATGATGTTATATCAATAATTGTGTTAATAATTTGTGAGAATTAGATCAAATCAAAACTTTCAT
196 AAATGATATTATATCAATAATTCTGTTAATAACTTACAAGAATTAGATCAAATCAAAACTTTCAT
* *
25829033 GTATAAAATTGCACAAAATCAAAGTTCATGTATAGTTTTGAGATACATG
261 GTATAAAATTACACAAAATCAAAATTCATGTATAGTTTTGAGATACATG
* * * *
25829082 AACTTTGATTTAATGTGCAATTGT-ATATATGAACTTTATTTTAGTGCAATTATACACATGAAAC
1 AACTTTGATTCAATGTGCAATT-TAATACATGAACTTTA-ATTAGTGCAATCATACACATGAAAC
* ** *
25829146 TCTAACTGTGATCCAAATATATATTTGAAATTTTAATTTTTATTTAATCATACACATTGAAAGAA
64 TCTAACTGTGATCCAAACATATACATGAAACTTTAATTTTTATTTAATCATACACATTGAAAGAA
* *
25829211 AGAAATAAATTAATTTATTCTTTATATTGGATAAATATAATTATTTGTGTATGAAATATATAAAT
129 AGAAATAAATCAATTTATT-TTTATATTGGATAAATATAATTATTTGTGTATGAAATATATAAAC
* *
25829276 ATAAAATGATATTATATCAGTAATTCTGTTAATAACTTACAAGAATTAGATCAAATC-AAATTTT
193 ATAAAATGATATTATATCAATAATTCTGTTAATAACTTACAAGAATTAGATCAAATCAAAACTTT
25829340 CATGTATAAAATTACACAAAATCAAAATTCATGTATA
258 CATGTATAAAATTACACAAAATCAAAATTCATGTATA
25829377 TAATTACATA
Statistics
Matches: 255, Mismatches: 37, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
309 32 0.13
310 132 0.52
311 91 0.36
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (309 bp):
AACTTTGATTCAATGTGCAATTTAATACATGAACTTTAATTAGTGCAATCATACACATGAAACTC
TAACTGTGATCCAAACATATACATGAAACTTTAATTTTTATTTAATCATACACATTGAAAGAAAG
AAATAAATCAATTTATTTTTATATTGGATAAATATAATTATTTGTGTATGAAATATATAAACATA
AAATGATATTATATCAATAATTCTGTTAATAACTTACAAGAATTAGATCAAATCAAAACTTTCAT
GTATAAAATTACACAAAATCAAAATTCATGTATAGTTTTGAGATACATG
Found at i:25841666 original size:10 final size:10
Alignment explanation
Indices: 25841651--25841675 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25841641 CATCAACCTG
25841651 ACGATAAACA
1 ACGATAAACA
25841661 ACGATAAACA
1 ACGATAAACA
25841671 ACGAT
1 ACGAT
25841676 CAACCAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.12
Consensus pattern (10 bp):
ACGATAAACA
Found at i:25842279 original size:17 final size:17
Alignment explanation
Indices: 25842246--25842279 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25842236 CAATGTATAC
* *
25842246 TAAAATTAAAAACAAAA
1 TAAAACTAAAAAAAAAA
25842263 TAAAACTAAAAAAAAAA
1 TAAAACTAAAAAAAAAA
25842280 AGATGTTAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (17 bp):
TAAAACTAAAAAAAAAA
Found at i:25844392 original size:16 final size:17
Alignment explanation
Indices: 25844365--25844399 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
25844355 AATAGGATAT
*
25844365 ATCATATATAGATATAG
1 ATCATATATAGATACAG
25844382 ATCATAT-TAGATACAG
1 ATCATATATAGATACAG
25844398 AT
1 AT
25844400 GCTGATTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (17 bp):
ATCATATATAGATACAG
Found at i:25844541 original size:2 final size:2
Alignment explanation
Indices: 25844536--25844569 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
25844526 ATCATATATA
25844536 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
25844570 GCTTAGCCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:25855380 original size:22 final size:22
Alignment explanation
Indices: 25855352--25855418 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
25855342 ATAGAAACAA
*
25855352 GATATATTAGATACAGTTATAG
1 GATATATCAGATACAGTTATAG
* * * *
25855374 GATATATCATATACAGATAAAT
1 GATATATCAGATACAGTTATAG
*
25855396 AATATATCAGATATCAGTTATAG
1 GATATATCAGATA-CAGTTATAG
25855419 ATACAGACCA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.34
Consensus pattern (22 bp):
GATATATCAGATACAGTTATAG
Found at i:25860007 original size:6 final size:6
Alignment explanation
Indices: 25859998--25860023 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25859988 ATTAAGATTA
25859998 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
25860024 AGATATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:25860867 original size:100 final size:100
Alignment explanation
Indices: 25860689--25860883 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 100
25860679 TACAAAGTTG
**
25860689 CAGAAGGATAAAACCATGGAAGCGACTTTTGGGGCTATTTGTTTGATAAGGCTTAATTGTCAGGT
1 CAGAAGGATAAAACCATGGAAGCGACTTTCAGGGCTATTTGTTTGATAAGGCTTAATTGTCAGGT
* * * *
25860754 GGTTCTTGTGGTTATTTTATGATTAAGGAAATATC
66 GGTTCCTGCGGTTAATTTACGATTAAGGAAATATC
* *
25860789 CAGAAGGATTAAACCATGGAAGCGACTTTCAGGGCTATTTGTTTGATAAGGCTTAATTGTTAGGT
1 CAGAAGGATAAAACCATGGAAGCGACTTTCAGGGCTATTTGTTTGATAAGGCTTAATTGTCAGGT
25860854 GGTTCCTGCGGTTAATTTACGATTAAGGAA
66 GGTTCCTGCGGTTAATTTACGATTAAGGAA
25860884 GAATTGATGG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.34
Consensus pattern (100 bp):
CAGAAGGATAAAACCATGGAAGCGACTTTCAGGGCTATTTGTTTGATAAGGCTTAATTGTCAGGT
GGTTCCTGCGGTTAATTTACGATTAAGGAAATATC
Found at i:25862826 original size:13 final size:13
Alignment explanation
Indices: 25862808--25862833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25862798 CAACTCCTTA
25862808 TATAAATCGTTAT
1 TATAAATCGTTAT
25862821 TATAAATCGTTAT
1 TATAAATCGTTAT
25862834 ACTTGGAAAA
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TATAAATCGTTAT
Found at i:25863672 original size:30 final size:30
Alignment explanation
Indices: 25863636--25863697 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
25863626 TATGAAAGAT
25863636 AGTCTTTTTGAGCTCTTAAACTTGAATATA
1 AGTCTTTTTGAGCTCTTAAACTTGAATATA
25863666 AGTCTTTTTGAGCTCTTAAACTTGAATATA
1 AGTCTTTTTGAGCTCTTAAACTTGAATATA
25863696 AG
1 AG
25863698 ATTAGTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (30 bp):
AGTCTTTTTGAGCTCTTAAACTTGAATATA
Found at i:25865024 original size:40 final size:40
Alignment explanation
Indices: 25864968--25865047 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
25864958 CTTGGAACCT
*
25864968 TAATAAATTCTCAGATGACACACGACCATGTCGCCAAGCC
1 TAATAAATTCTCAGATGACACACAACCATGTCGCCAAGCC
* * *
25865008 TAATAAATTCTTAGATGACAGACAACCATGTCGCTAAGCC
1 TAATAAATTCTCAGATGACACACAACCATGTCGCCAAGCC
25865048 GTGTACTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (40 bp):
TAATAAATTCTCAGATGACACACAACCATGTCGCCAAGCC
Found at i:25871760 original size:16 final size:16
Alignment explanation
Indices: 25871715--25871761 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
25871705 AAAAAACTAT
*
25871715 TTTTTAATTTATTTTA
1 TTTTTATTTTATTTTA
* **
25871731 TTTTTCTTCGATTTTA
1 TTTTTATTTTATTTTA
25871747 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
25871762 TTAGGTTTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:25872876 original size:153 final size:153
Alignment explanation
Indices: 25872589--25872892 Score: 590
Period size: 153 Copynumber: 2.0 Consensus size: 153
25872579 GACCATACTC
*
25872589 TTGAGTTGGTATGTCAAGATGATAAAGGCACTTAGGTTTAACCCACTCACTCCATAAAAGTCTAC
1 TTGAGTTGATATGTCAAGATGATAAAGGCACTTAGGTTTAACCCACTCACTCCATAAAAGTCTAC
25872654 CTTCACAATTAACCTTTAGTGAACCCCCTTGAGCCCAACAACCCAGTTATTGATTTACCCTCAAC
66 CTTCACAATTAACCTTTAGTGAACCCCCTTGAGCCCAACAACCCAGTTATTGATTTACCCTCAAC
25872719 ATTAACCTTTAATCCATTATAAT
131 ATTAACCTTTAATCCATTATAAT
*
25872742 TTGATTTGATATGTCAAGATGATAAAGGCACTTAGGTTTAACCCACTCACTCCATAAAAGTCTAC
1 TTGAGTTGATATGTCAAGATGATAAAGGCACTTAGGTTTAACCCACTCACTCCATAAAAGTCTAC
25872807 CTTCACAATTAACCTTTAGTGAACCCCCTTGAGCCCAACAACCCAGTTATTGATTTACCCTCAAC
66 CTTCACAATTAACCTTTAGTGAACCCCCTTGAGCCCAACAACCCAGTTATTGATTTACCCTCAAC
25872872 ATTAACCTTTAATCCATTATA
131 ATTAACCTTTAATCCATTATA
25872893 GTTGAAATCC
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 149 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (153 bp):
TTGAGTTGATATGTCAAGATGATAAAGGCACTTAGGTTTAACCCACTCACTCCATAAAAGTCTAC
CTTCACAATTAACCTTTAGTGAACCCCCTTGAGCCCAACAACCCAGTTATTGATTTACCCTCAAC
ATTAACCTTTAATCCATTATAAT
Found at i:25887033 original size:31 final size:31
Alignment explanation
Indices: 25886998--25887065 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
25886988 AAAATTCCAT
* *
25886998 ACGTTCGTGTGGTTCACCAGTGTGGACCCAC
1 ACGTTCGTATAGTTCACCAGTGTGGACCCAC
*
25887029 ACGTTCGTATAGTTCACCCGTGTGGACCCAC
1 ACGTTCGTATAGTTCACCAGTGTGGACCCAC
25887060 ACGTTC
1 ACGTTC
25887066 ATATGGCCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (31 bp):
ACGTTCGTATAGTTCACCAGTGTGGACCCAC
Found at i:25888252 original size:18 final size:18
Alignment explanation
Indices: 25888231--25888285 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
25888221 TAATTTAGTC
25888231 ATTTTTATTTTT-CTTATA
1 ATTTTTATTTTTACTT-TA
* *
25888249 ATTTTTGTTTTTAGTTTA
1 ATTTTTATTTTTACTTTA
*
25888267 ATTTTTAATTTTTATTTTA
1 ATTTTT-ATTTTTACTTTA
25888286 TTTGCTTCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 19 0.61
19 12 0.39
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (18 bp):
ATTTTTATTTTTACTTTA
Found at i:25891333 original size:40 final size:39
Alignment explanation
Indices: 25891235--25891497 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
25891225 TCCTCGTTCA
* * * *
25891235 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
25891274 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
25891313 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
25891353 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
25891393 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
25891433 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
25891474 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25891498 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:25891457 original size:120 final size:119
Alignment explanation
Indices: 25891235--25891497 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
25891225 TCCTCGTTCA
* * *
25891235 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
25891300 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
25891353 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
25891418 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
25891474 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
25891498 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:25891506 original size:41 final size:41
Alignment explanation
Indices: 25891429--25891506 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
25891419 TTTGTATCTC
* * *
25891429 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
25891470 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
25891507 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:25899283 original size:40 final size:39
Alignment explanation
Indices: 25899185--25899447 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
25899175 TCCTCGTTCA
* * * *
25899185 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
25899224 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
25899263 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
25899303 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
25899343 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
25899383 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
25899424 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25899448 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:25899407 original size:120 final size:119
Alignment explanation
Indices: 25899185--25899447 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
25899175 TCCTCGTTCA
* * *
25899185 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
25899250 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
25899303 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
25899368 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
25899424 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
25899448 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:25899456 original size:41 final size:41
Alignment explanation
Indices: 25899379--25899456 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
25899369 TTTGTATCTC
* * *
25899379 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
25899420 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
25899457 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:25905928 original size:5 final size:5
Alignment explanation
Indices: 25905920--25905979 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
25905910 TACCCTTTTC
* * *
25905920 TTTAT TTTA- TTTAT TTAAT GTTCT TATT-T TTTAT TTTAT TTTA- TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT
25905968 TTTCAT TTTAT T
1 TTT-AT TTTAT T
25905980 ACTTTGATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
4 10 0.22
5 28 0.62
6 7 0.16
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:25905932 original size:9 final size:9
Alignment explanation
Indices: 25905915--25906005 Score: 51
Period size: 9 Copynumber: 9.6 Consensus size: 9
25905905 CCTTTTACCC
*
25905915 TTTTCTTTA
1 TTTTATTTA
25905924 TTTTATTTA
1 TTTTATTTA
* *
25905933 TTTAATGTTC
1 TTTTAT-TTA
*
25905943 TTATTTTTTA
1 TT-TTATTTA
25905953 TTTTATTT-
1 TTTTATTTA
25905961 TATTTATTTTCA
1 T-TTTA-TTT-A
25905973 TTTTA-TTA
1 TTTTATTTA
*
25905981 CTTTGATTTA
1 -TTTTATTTA
*
25905991 TTATTATTAA
1 TT-TTATTTA
25906001 TTTTA
1 TTTTA
25906006 ATTCTTTGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
8 2 0.03
9 33 0.52
10 21 0.33
11 6 0.10
12 1 0.02
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTATTTA
Found at i:25906003 original size:28 final size:29
Alignment explanation
Indices: 25905959--25906027 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
25905949 TTTATTTTAT
* *
25905959 TTTATTTATT-TTCATTTT-ATTACTTTGA
1 TTTAGTTATTATTAATTTTAATT-CTTTGA
*
25905987 TTTA-TTATTATTAATTTTAATTCTTTGT
1 TTTAGTTATTATTAATTTTAATTCTTTGA
25906015 TTTAGTT-TTATTA
1 TTTAGTTATTATTA
25906028 GTCTTAACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 5 0.14
28 26 0.72
29 5 0.14
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (29 bp):
TTTAGTTATTATTAATTTTAATTCTTTGA
Found at i:25906034 original size:28 final size:28
Alignment explanation
Indices: 25905981--25906034 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
25905971 CATTTTATTA
*
25905981 CTTTGATTTATTATTATTAATTTTAATT
1 CTTTGATTTATTATTATTAATCTTAATT
* *
25906009 CTTTGTTTTAGTT-TTATTAGTCTTAA
1 CTTTGATTTA-TTATTATTAATCTTAA
25906035 CTTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 20 0.91
29 2 0.09
ACGTcount: A:0.24, C:0.06, G:0.07, T:0.63
Consensus pattern (28 bp):
CTTTGATTTATTATTATTAATCTTAATT
Found at i:25908727 original size:17 final size:17
Alignment explanation
Indices: 25908705--25908738 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25908695 CTTTAAAAAA
*
25908705 ATATCAAAAAAATATAT
1 ATATCAAAAAAAAATAT
25908722 ATATCAAAAAAAAATAT
1 ATATCAAAAAAAAATAT
25908739 TGATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATCAAAAAAAAATAT
Found at i:25912192 original size:47 final size:47
Alignment explanation
Indices: 25912139--25912549 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
25912129 TTAGGATTCT
25912139 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25912186 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25912233 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25912280 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25912327 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25912374 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25912421 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
25912468 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
25912515 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
25912550 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:25912724 original size:37 final size:37
Alignment explanation
Indices: 25912668--25912746 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25912658 CCGAGCTCTA
* * *
25912668 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
25912705 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25912742 AAGAC
1 AAGAC
25912747 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25919990 original size:76 final size:76
Alignment explanation
Indices: 25919893--25920043 Score: 248
Period size: 76 Copynumber: 2.0 Consensus size: 76
25919883 CGATGTAGGA
* * * * *
25919893 AAGTGTACCTATCGAATAGTAGTAAGGTTTTAGCAAGACCGGATTGTCGAACCCAAAGGAAATAA
1 AAGTGTACCTATCGAACAGTAGTAAAGCTTTAGCAAGACCAGATTATCGAACCCAAAGGAAATAA
25919958 AAGTACTAGTC
66 AAGTACTAGTC
*
25919969 AAGTGTACCTATCGAACAGTAGTAAAGCTTTAGCAAGACCAGATTATCGAACCCAAAGGAACTAA
1 AAGTGTACCTATCGAACAGTAGTAAAGCTTTAGCAAGACCAGATTATCGAACCCAAAGGAAATAA
25920034 AAGTACTAGT
66 AAGTACTAGT
25920044 ATTGACTATC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (76 bp):
AAGTGTACCTATCGAACAGTAGTAAAGCTTTAGCAAGACCAGATTATCGAACCCAAAGGAAATAA
AAGTACTAGTC
Found at i:25924418 original size:25 final size:24
Alignment explanation
Indices: 25924388--25924465 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
25924378 TTTCAATTAA
*
25924388 ATTATTATTA-GAAAATTTTACTGT
1 ATTATTATTAGGAAAATTTTAAT-T
*
25924412 ATCTATT-TTATGG-AAATTATAATT
1 AT-TATTATTA-GGAAAATTTTAATT
*
25924436 ATTATTATTAGGAAAAATTT-ATAT
1 ATTATTATTAGGAAAATTTTAAT-T
25924460 ATTATT
1 ATTATT
25924466 GTATTTGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
23 8 0.18
24 23 0.52
25 12 0.27
26 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTATTATTAGGAAAATTTTAATT
Found at i:25924499 original size:3 final size:3
Alignment explanation
Indices: 25924491--25924517 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25924481 ATTGCTATGG
25924491 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
25924518 ATGTGGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25926562 original size:60 final size:60
Alignment explanation
Indices: 25926450--25926589 Score: 160
Period size: 60 Copynumber: 2.3 Consensus size: 60
25926440 CCCAACTGTG
* * *
25926450 CTGATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGTTACGACCCAGATTGATA
1 CTGATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATA
* * *
25926510 CTGATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATA
1 CTGATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTACGACCCAGATTAATA
*
25926570 TTGATATGGGCTAAGGCCCA
1 CTGATATGGGCT-AGGCCCA
25926590 GTTAACACTG
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
59 4 0.06
60 53 0.77
61 12 0.17
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (60 bp):
CTGATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATA
Found at i:25927855 original size:43 final size:43
Alignment explanation
Indices: 25927788--25927958 Score: 245
Period size: 43 Copynumber: 4.0 Consensus size: 43
25927778 TCTAAACTCA
* **
25927788 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * * *
25927830 TTCACTGGCATTATAGCCTGCTAGGCCCGAGGCTCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
25927873 CTCACCGGCATTATAGCTTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
25927916 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
25927959 CATTTCGATA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
42 11 0.10
43 95 0.85
44 6 0.05
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:25937866 original size:46 final size:47
Alignment explanation
Indices: 25937798--25937899 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
25937788 CTGTCAGATC
* * *
25937798 AGATATATGTGGTCAAGTCACTAT-ATTGTAG-CTAAGCTGCCATAAT
1 AGATATGTGTGGTCAAGCCACTATAATTGTAGTC-AAGCTGCCAGAAT
* *
25937844 AGATATGTGTGGTCGAGCCACTATAATTGTAGTCAAGTTGCCAGAAT
1 AGATATGTGTGGTCAAGCCACTATAATTGTAGTCAAGCTGCCAGAAT
*
25937891 AGAAATGTG
1 AGATATGTG
25937900 GTTAAACCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 21 0.44
47 26 0.54
48 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (47 bp):
AGATATGTGTGGTCAAGCCACTATAATTGTAGTCAAGCTGCCAGAAT
Found at i:25939789 original size:12 final size:12
Alignment explanation
Indices: 25939772--25939802 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25939762 ACGCTAGATG
25939772 GCTGTGTGGTAA
1 GCTGTGTGGTAA
*
25939784 GCTGTGTGGTAG
1 GCTGTGTGGTAA
25939796 GCTGTGT
1 GCTGTGT
25939803 AACTCACTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.10, G:0.45, T:0.35
Consensus pattern (12 bp):
GCTGTGTGGTAA
Found at i:25942123 original size:42 final size:41
Alignment explanation
Indices: 25942064--25942210 Score: 168
Period size: 42 Copynumber: 3.5 Consensus size: 41
25942054 TGCTTTAGAA
* * * *
25942064 CCACATGGCCAGGGACATAGGAGTGTGCCCAAGCCATGTGAG
1 CCACATGGGCAAGGACATAGGA-TGTGCCCAGGCCGTGTGAG
*
25942106 CCACATGGGCAAGGACATAGGCTTGTGCCCAGGCCGTGTGAG
1 CCACATGGGCAAGGACATAGG-ATGTGCCCAGGCCGTGTGAG
* * *
25942148 CCACATGGGAAAGGACATGGGCATGTGTCCAGGCCGTGTGAG
1 CCACATGGGCAAGGACATAGG-ATGTGCCCAGGCCGTGTGAG
* * *
25942190 CTACACGGGCAAGAACATAGG
1 CCACATGGGCAAGGACATAGG
25942211 CTCCAGGCAG
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.26, C:0.24, G:0.35, T:0.15
Consensus pattern (41 bp):
CCACATGGGCAAGGACATAGGATGTGCCCAGGCCGTGTGAG
Found at i:25947174 original size:50 final size:49
Alignment explanation
Indices: 25947135--25947229 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 49
25947125 ATGTCGAAAT
*
25947135 TATTTAAGCAACTAAAGAAAATTCAAAACAACTTAATT-AATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAATT-AAAACAACTAAATTAAATTAAAC-AAG
25947185 TATTTAAGCAACTAAAGAAAATTAAAACAACTAAATT-AATTAAAC
1 TATTTAAGCAACTAAAGAAAATTAAAACAACTAAATTAAATTAAAC
25947230 TAAACATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 21 0.48
50 23 0.52
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (49 bp):
TATTTAAGCAACTAAAGAAAATTAAAACAACTAAATTAAATTAAACAAG
Found at i:25947231 original size:49 final size:50
Alignment explanation
Indices: 25947135--25947232 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 50
25947125 ATGTCGAAAT
*
25947135 TATTTAAGCAACTAAAGAAAATTCAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAATTCAAAACAACTAAATTAATTAAACTAAG
25947185 TATTTAAGCAACTAAAGAAAATT-AAAACAACTAAATTAATTAAACTAA
1 TATTTAAGCAACTAAAGAAAATTCAAAACAACTAAATTAATTAAACTAA
25947233 ACATATTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 24 0.51
50 23 0.49
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (50 bp):
TATTTAAGCAACTAAAGAAAATTCAAAACAACTAAATTAATTAAACTAAG
Found at i:25947673 original size:26 final size:26
Alignment explanation
Indices: 25947619--25947673 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
25947609 AAATGCTTAA
*
25947619 TTATTATTATTTGATATTTAATAGTT
1 TTATTATTATTTGATATTTAATAATT
25947645 TTATTATTATTTGAT-TTTAATAATAT
1 TTATTATTATTTGATATTTAATAAT-T
25947671 TTA
1 TTA
25947674 CATAATTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TTATTATTATTTGATATTTAATAATT
Found at i:25947965 original size:24 final size:24
Alignment explanation
Indices: 25947937--25947989 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
25947927 TTTAATTAGT
*
25947937 AAATATA-TATTTTAA-AAATTATAA
1 AAATATATTA-TTTAATAAA-TAAAA
25947961 AAATATATTATTTAATAAATAAAA
1 AAATATATTATTTAATAAATAAAA
25947985 AAATA
1 AAATA
25947990 AATACATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATATATTATTTAATAAATAAAA
Found at i:25951743 original size:57 final size:59
Alignment explanation
Indices: 25951658--25951767 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 59
25951648 TGATATAATC
* * *
25951658 CTTCTCGAGCATATGTTACAATTAGGATTTAGACTGGACTGGTAATCT-TAATTGAGCT
1 CTTCTCGAGCATACGTTACAATAAGGATTTAGACTGGACTGGCAATCTGTAATTGAGCT
*
25951716 CTTCT-GAGCATACGTTAC-ATAAAGGATTTAGCCTGGACTGGCAATCTGTAAT
1 CTTCTCGAGCATACGTTACAAT-AAGGATTTAGACTGGACTGGCAATCTGTAAT
25951768 ACGATATGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
56 2 0.04
57 35 0.76
58 9 0.20
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (59 bp):
CTTCTCGAGCATACGTTACAATAAGGATTTAGACTGGACTGGCAATCTGTAATTGAGCT
Found at i:25956654 original size:27 final size:27
Alignment explanation
Indices: 25956569--25956673 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
25956559 AGGAAGCTTC
*
25956569 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
**
25956596 CCAGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
25956623 TTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
25956650 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
25956674 GAAGCATCGC
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 9 0.14
27 55 0.85
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:25961531 original size:26 final size:26
Alignment explanation
Indices: 25961502--25961609 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
25961492 TGGTACAAAT
25961502 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25961528 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25961554 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
25961580 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25961606 TGAT
1 TGAT
25961610 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25979858 original size:20 final size:20
Alignment explanation
Indices: 25979833--25979872 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25979823 TATTCAAAAG
25979833 AATAAGTATACCATTTAGGC
1 AATAAGTATACCATTTAGGC
25979853 AATAAGTATACCATTTAGGC
1 AATAAGTATACCATTTAGGC
25979873 CCTTACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
AATAAGTATACCATTTAGGC
Found at i:25982363 original size:11 final size:11
Alignment explanation
Indices: 25982331--25982362 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
25982321 ATAAAAACAG
25982331 AAAATAATTTT
1 AAAATAATTTT
25982342 AAAATAATTTT
1 AAAATAATTTT
25982353 AAAAT-ATTTT
1 AAAATAATTTT
25982363 TCTGACTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:25986199 original size:21 final size:20
Alignment explanation
Indices: 25986171--25986210 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
25986161 CAAAACTTGT
25986171 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
25986191 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
25986211 AAAATACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:25986729 original size:11 final size:11
Alignment explanation
Indices: 25986713--25986737 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25986703 TCATGCTGTA
25986713 AATATTAAAAT
1 AATATTAAAAT
25986724 AATATTAAAAT
1 AATATTAAAAT
25986735 AAT
1 AAT
25986738 TAATTCGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:25998225 original size:47 final size:47
Alignment explanation
Indices: 25998171--25998393 Score: 297
Period size: 47 Copynumber: 4.7 Consensus size: 47
25998161 TTAGGATTTT
* *
25998171 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGAGATAAGGCCTAATGGCCG
25998218 ATGTGATGAATGTGAAAGTGTATATATGTA-ATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATG-AGATAAGGCCTAATGGCCG
*
25998265 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCG
* * * * * *
25998312 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCG
* * * *
25998359 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGAGATAAG
25998394 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 158 0.99
48 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCG
Found at i:25998568 original size:37 final size:37
Alignment explanation
Indices: 25998512--25998590 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
25998502 CCGAGCTCTA
* * *
25998512 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
25998549 AAGATCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25998586 AAGAC
1 AAGAC
25998591 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:26009675 original size:34 final size:34
Alignment explanation
Indices: 26009603--26009668 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
26009593 TGCATTCTAT
* *
26009603 ACTGTTACGGATACTGTAATGGGCTAAGGCCCAC
1 ACTGATACGGATACTGTAATGGGCTAAAGCCCAC
* *
26009637 ACTGATACTGATATTGTAATTGGG-TAAAGCCC
1 ACTGATACGGATACTGTAA-TGGGCTAAAGCCC
26009669 TAACTGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 23 0.85
35 4 0.15
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (34 bp):
ACTGATACGGATACTGTAATGGGCTAAAGCCCAC
Found at i:26019588 original size:41 final size:40
Alignment explanation
Indices: 26019521--26019642 Score: 145
Period size: 41 Copynumber: 3.0 Consensus size: 40
26019511 ATGTGCAATT
* * * *
26019521 CGAGACAGCTTTGGCTATATATGGCACTTAGTGTGTGAGA
1 CGAGATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGA
*
26019561 CCGAGATAGCTTTGACTATGTAAGGCACTTAGTGTGCGAGA
1 -CGAGATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGA
** * *
26019602 TTATAATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGA
1 CGA-GATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGA
26019643 TTATAATAGC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 69 0.99
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (40 bp):
CGAGATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGA
Found at i:26019643 original size:41 final size:41
Alignment explanation
Indices: 26019566--26019685 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
26019556 TGAGACCGAG
* *
26019566 ATAGCTTTGACTATGTAAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
26019607 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
* * * *
26019648 ATAGCTTCAGTTATGTATTGGCACTTAGTGTGTGAGAT
1 ATAGCTTCGGCTATGTA-AGGCACTTAGTGTGCGAGAT
26019686 ATCGAGTATT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 54 0.75
42 18 0.25
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (41 bp):
ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
Found at i:26029760 original size:18 final size:18
Alignment explanation
Indices: 26029732--26029795 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
26029722 GAACAATTAT
* *
26029732 TTATTTAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
*
26029750 TTATTCGGTAA-AATTCAG
1 TTATTCAGTAATAA-TCAG
*
26029768 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
*
26029786 TTATTTAGTA
1 TTATTCAGTA
26029796 TCAATCAACT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.03
18 34 0.92
19 2 0.05
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:26029838 original size:18 final size:18
Alignment explanation
Indices: 26029812--26029877 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
26029802 AACTGATCGG
*
26029812 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
*
26029830 TTATTCAGTAAAAATCAA
1 TTATTCAGTAACAATCAA
* * *
26029848 ATATACAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
26029867 TTATTCAGTAA
1 TTATTCAGTAA
26029878 TAGTCGATCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 27 0.69
19 12 0.31
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:26030059 original size:6 final size:6
Alignment explanation
Indices: 26030048--26030075 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
26030038 ACAAATCCAG
26030048 AACAGT AACAGT AACAGT AACAGT AACA
1 AACAGT AACAGT AACAGT AACAGT AACA
26030076 ATATCCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.18, G:0.14, T:0.14
Consensus pattern (6 bp):
AACAGT
Found at i:26031126 original size:20 final size:18
Alignment explanation
Indices: 26031090--26031134 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
26031080 AAACCTTCAA
26031090 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
26031108 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
26031128 -TTTCCCT
1 TTTTCCCT
26031135 GCTTTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:26035386 original size:39 final size:39
Alignment explanation
Indices: 26035301--26035404 Score: 129
Period size: 39 Copynumber: 2.7 Consensus size: 39
26035291 AAATCCTTGC
* * *
26035301 TATAATTATTATAATTATAA-TTTATGATCGAATATTAT
1 TATAATTATTGTAATTATAATTTTATGATCAAAAATTAT
* * *
26035339 TATAATTATTGTAATTGTAATTTTTTGGTCAAAAATTAT
1 TATAATTATTGTAATTATAATTTTATGATCAAAAATTAT
*
26035378 TATAATTATGGTAATTATAATTATTAT
1 TATAATTATTGTAATTATAATT-TTAT
26035405 ATTCAGTTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 18 0.33
39 34 0.62
40 3 0.05
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (39 bp):
TATAATTATTGTAATTATAATTTTATGATCAAAAATTAT
Found at i:26042230 original size:28 final size:28
Alignment explanation
Indices: 26042184--26042270 Score: 129
Period size: 28 Copynumber: 3.1 Consensus size: 28
26042174 ATGCCGTTGA
* *
26042184 ATACTCAATGTCTCGCACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
**
26042212 ATACTCGATATCTTTCACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
*
26042240 ACACTCGATATCTCGCACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
26042268 ATA
1 ATA
26042271 TATAGCCGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (28 bp):
ATACTCGATATCTCGCACACTAAGTGCC
Found at i:26042307 original size:40 final size:40
Alignment explanation
Indices: 26042252--26042348 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
26042242 ACTCGATATC
*
26042252 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
* * *
26042292 TCGCACACTAAGTGCCATATATAGCTAAAGTTATGTCGTA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
* *
26042332 TCACACACTAAATGCCA
1 TCGCACACTAAGTGCCA
26042349 CAAATAACTG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
Found at i:26043940 original size:20 final size:21
Alignment explanation
Indices: 26043907--26043946 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
26043897 AGCTTAATAG
*
26043907 AGCTCAATTCAGCTTGATTCT
1 AGCTCAATTCAGCTCGATTCT
*
26043928 AGCTC-ATTGAGCTCGATTC
1 AGCTCAATTCAGCTCGATTC
26043947 CATCCTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (21 bp):
AGCTCAATTCAGCTCGATTCT
Found at i:26046762 original size:39 final size:40
Alignment explanation
Indices: 26046691--26046835 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
26046681 GCTCCTCGTT
* *
26046691 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
26046731 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
26046770 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
26046811 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26046836 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:26049904 original size:27 final size:28
Alignment explanation
Indices: 26049833--26049892 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
26049823 CATACCTCTA
* *
26049833 GGGTATAATGGTCATTTCTATCCATTAG
1 GGGTAAAATGGTCATTTCTACCCATTAG
* *
26049861 GGGTAAAATAGTAATTT-TACCCATTAG
1 GGGTAAAATGGTCATTTCTACCCATTAG
26049888 GGGTA
1 GGGTA
26049893 TTTTGGTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (28 bp):
GGGTAAAATGGTCATTTCTACCCATTAG
Found at i:26051062 original size:23 final size:23
Alignment explanation
Indices: 26051019--26051062 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
26051009 TCAAGGCTCC
* *
26051019 AAGAGGGAAAAGTAGTTAAGAGT
1 AAGAGGGAAAAGAAGTAAAGAGT
26051042 AAGAGGGAGAAAGAAG-AAAGA
1 AAGAGGGA-AAAGAAGTAAAGA
26051063 AGAAAGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.36, T:0.09
Consensus pattern (23 bp):
AAGAGGGAAAAGAAGTAAAGAGT
Found at i:26057718 original size:27 final size:27
Alignment explanation
Indices: 26057688--26057739 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
26057678 ATATCATAAT
26057688 ACGTGGAAAAGCCACCAGAACAGTAAA
1 ACGTGGAAAAGCCACCAGAACAGTAAA
* *
26057715 ACGTGGCAAAGCCACCAGTACAGTA
1 ACGTGGAAAAGCCACCAGAACAGTA
26057740 CTTCTTCCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.25, G:0.23, T:0.10
Consensus pattern (27 bp):
ACGTGGAAAAGCCACCAGAACAGTAAA
Found at i:26060151 original size:15 final size:17
Alignment explanation
Indices: 26060121--26060153 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
26060111 GAGGATTTGA
26060121 AAATGAGTTAGAAAAAG
1 AAATGAGTTAGAAAAAG
26060138 AAATGAG-T-GAAAAAG
1 AAATGAGTTAGAAAAAG
26060153 A
1 A
26060154 TGCAAGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (17 bp):
AAATGAGTTAGAAAAAG
Found at i:26062639 original size:19 final size:19
Alignment explanation
Indices: 26062594--26062658 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
26062584 TAAATATTAA
* ** *
26062594 AATAAAAATAAAAATTTAG
1 AATAAAAATTAAAATAAAT
*
26062613 AATCAAAATTAAAATAAAT
1 AATAAAAATTAAAATAAAT
* * *
26062632 AATAAAAACTAGATTAAAT
1 AATAAAAATTAAAATAAAT
26062651 -ATAAAAAT
1 AATAAAAAT
26062659 ATCAATAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
18 7 0.19
19 29 0.81
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
AATAAAAATTAAAATAAAT
Found at i:26062658 original size:31 final size:32
Alignment explanation
Indices: 26062583--26062668 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 32
26062573 TCAAATTATC
*
26062583 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATATTAAAATAAAAATAAAAATCTAGAA
*
26062615 TCAAA-ATTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATATTAAAATAAA-AATAAAAATCTAGAA
* **
26062645 TTAAATATAAAAATATCAATAAAA
1 TTAAATATTAAAATAAAAATAAAA
26062669 TAAGATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
30 12 0.26
31 22 0.48
32 12 0.26
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.28
Consensus pattern (32 bp):
TTAAATATTAAAATAAAAATAAAAATCTAGAA
Found at i:26072455 original size:58 final size:58
Alignment explanation
Indices: 26072391--26072507 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 58
26072381 AAAAAGAAAA
* *
26072391 TATTTCAGAAAGAAAAACGATGCTTTTAAATTAAACAATTATGTTTTTTTGCGACGTT
1 TATTTCAGAAAGAAAAACGACGCTTTTAAATTAAACAATTATATTTTTTTGCGACGTT
* * *
26072449 TATTTCAGAAAGGAAAACGACGCTTTTAAGTTAAACAATTATATTTTTTTGCGGCGTT
1 TATTTCAGAAAGAAAAACGACGCTTTTAAATTAAACAATTATATTTTTTTGCGACGTT
26072507 T
1 T
26072508 TTAAAAACGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (58 bp):
TATTTCAGAAAGAAAAACGACGCTTTTAAATTAAACAATTATATTTTTTTGCGACGTT
Found at i:26073280 original size:7 final size:7
Alignment explanation
Indices: 26073268--26073395 Score: 64
Period size: 7 Copynumber: 18.0 Consensus size: 7
26073258 CTAATTAATT
26073268 TAAACCC
1 TAAACCC
26073275 TAAACCTC
1 TAAACC-C
* *
26073283 TTAACCT
1 TAAACCC
* *
26073290 TTATCCC
1 TAAACCC
*
26073297 ATAAACAC
1 -TAAACCC
26073305 TAAACCC
1 TAAACCC
*
26073312 TAAACCT
1 TAAACCC
*
26073319 TTAACCC
1 TAAACCC
*
26073326 TTAACCC
1 TAAACCC
*
26073333 CAAACCC
1 TAAACCC
* *
26073340 TTACACCT
1 -TAAACCC
26073348 TAAACTCC
1 TAAAC-CC
26073356 --AACCC
1 TAAACCC
26073361 T-AACCC
1 TAAACCC
26073367 TTAAACCC
1 -TAAACCC
* *
26073375 TAAATCA
1 TAAACCC
*
26073382 TAATCCC
1 TAAACCC
26073389 TAAACCC
1 TAAACCC
26073396 ATAATTCATC
Statistics
Matches: 90, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
5 2 0.02
6 8 0.09
7 60 0.67
8 20 0.22
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:26073347 original size:29 final size:29
Alignment explanation
Indices: 26073268--26073348 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
26073258 CTAATTAATT
*
26073268 TAAACCCTAAACCTCTTAACCTTTATCCCA
1 TAAACCCTAAACC-CTTAACCTTTAACCCA
* *
26073298 TAAACACTAAACCCTAAACCTTTAACCC-
1 TAAACCCTAAACCCTTAACCTTTAACCCA
* *
26073326 TTAACCCCAAACCCTTACACCTT
1 TAAACCCTAAACCCTTA-ACCTT
26073349 AAACTCCAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 13 0.30
29 18 0.42
30 12 0.28
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (29 bp):
TAAACCCTAAACCCTTAACCTTTAACCCA
Found at i:26073475 original size:46 final size:46
Alignment explanation
Indices: 26073422--26073515 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
26073412 CTTCAAATAC
* *
26073422 TAGTTAACTCCTAAACCTTAAACCCTAGACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
26073468 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
26073514 TA
1 TA
26073516 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:26073517 original size:21 final size:21
Alignment explanation
Indices: 26073438--26073519 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
26073428 ACTCCTAAAC
* *
26073438 CTTAAACCCTAGACCATATAT
1 CTTAAACCATAAACCATATAT
* *
26073459 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
26073484 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
26073505 CTTAAACCATAAACC
1 CTTAAACCATAAACC
26073520 TTAAACTATA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 29 0.59
22 3 0.06
24 2 0.04
25 15 0.31
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:26073530 original size:14 final size:14
Alignment explanation
Indices: 26073433--26073530 Score: 61
Period size: 14 Copynumber: 6.7 Consensus size: 14
26073423 AGTTAACTCC
* *
26073433 TAAACCTTAAACCC
1 TAAACCATAAACCT
* * *
26073447 TAGACCATATATCT
1 TAAACCATAAACCT
*
26073461 TAAACCATAGTTAACTCA
1 TAAACCATA---AAC-CT
* *
26073479 TAAACCTTAAACCC
1 TAAACCATAAACCT
* *
26073493 TAAACCATATATCT
1 TAAACCATAAACCT
26073507 TAAACCATAAACCT
1 TAAACCATAAACCT
*
26073521 TAAACTATAA
1 TAAACCATAA
26073531 TGATAATTAA
Statistics
Matches: 62, Mismatches: 18, Indels: 8
0.70 0.20 0.09
Matches are distributed among these distances:
14 49 0.79
15 3 0.05
17 1 0.02
18 9 0.15
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.28
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:26073744 original size:41 final size:41
Alignment explanation
Indices: 26073687--26073936 Score: 276
Period size: 41 Copynumber: 6.1 Consensus size: 41
26073677 GTTATATGAC
*
26073687 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGTTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* * * * *
26073728 TTTTAGTGGTGTTTTACCGAAAGCGCCGCTAATGCCCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* *
26073769 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-GG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* * *
26073809 TTTTAGTGGCATTTTA-CAGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTAGT
* *
26073850 TGTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTA-T
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
** * *
26073890 TTTTAATGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTAGT
26073931 GTTTTA
1 -TTTTA
26073937 CAATTTTTGA
Statistics
Matches: 177, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 43 0.24
41 118 0.67
42 15 0.08
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
Found at i:26073850 original size:81 final size:81
Alignment explanation
Indices: 26073687--26073935 Score: 331
Period size: 81 Copynumber: 3.0 Consensus size: 81
26073677 GTTATATGAC
* * ** *
26073687 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGTTCTAGTTTTTAGTGGTGTTTTACCGAAAGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-GTTTTTAGTGGCATTTTACAGAAAGC
*
26073752 GCCGCTAATGCCCTGGT
65 GCCGCTAATGCTCTGGT
*
26073769 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTAGTGGCATTTTACAGAAAGCG
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAGTGGCATTTTACAGAAAGCG
26073834 CCGCTAATGCTCTGGT
66 CCGCTAATGCTCTGGT
* * * *
26073850 TGTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTATTTTTAATGGCGTTTTTTACTA-AAA
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAGTGGC--ATTTTAC-AGAAA
*
26073914 -CGCCGCTATTGCTCTGTGT
63 GCGCCGCTAATGCTCTG-GT
26073933 TTT
1 TTT
26073936 ACAATTTTTG
Statistics
Matches: 149, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
81 84 0.56
82 51 0.34
83 13 0.09
84 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAGTGGCATTTTACAGAAAGCG
CCGCTAATGCTCTGGT
Found at i:26073918 original size:122 final size:123
Alignment explanation
Indices: 26073687--26073936 Score: 319
Period size: 122 Copynumber: 2.0 Consensus size: 123
26073677 GTTATATGAC
* * * * *
26073687 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGTTCTAGTTTTTAGTGGTGTTTTACCGAAAGC
1 TTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTAGTTGTTAGCGGCGTTTTACCGAAAGC
* * *
26073752 GCCGCTAATGCCCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG-G
66 GCCGCTAATGCCCTGATTTTTAACGGCGTTTTACCGAAAACGCCGCTAATGCTCTGTG
* *
26073809 TTTTAGTGGCATTTTA-CAGAAAGCGCCGCTAATGCTCTGGTTGTTAGCGGCGTTTTACCGAAAG
1 TTTTAGCGGCATTTTACCA-AAAGCGCCGCTAATGCTCTAGTTGTTAGCGGCGTTTTACCGAAAG
* * * *
26073873 CGCCGCTAATGCTCT-ATTTTTAATGGCGTTTTTTA-CTAAAACGCCGCTATTGCTCTGTG
65 CGCCGCTAATGCCCTGATTTTTAACGGCG--TTTTACCGAAAACGCCGCTAATGCTCTGTG
26073932 TTTTA
1 TTTTA
26073937 CAATTTTTGA
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
121 12 0.11
122 87 0.79
123 11 0.10
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (123 bp):
TTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTAGTTGTTAGCGGCGTTTTACCGAAAGC
GCCGCTAATGCCCTGATTTTTAACGGCGTTTTACCGAAAACGCCGCTAATGCTCTGTG
Found at i:26076183 original size:70 final size:70
Alignment explanation
Indices: 26076065--26076210 Score: 265
Period size: 70 Copynumber: 2.1 Consensus size: 70
26076055 ATGCATGTAG
*
26076065 CTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGCATGCATGTTTTAGTTGTTAGCTTGAGT
1 CTAGCCTAAGGTATGTTTGATGATGTTCCATGAGATGCATGCATGTTTTAGTTGTTAGCTTGAGT
26076130 TCTAC
66 TCTAC
* *
26076135 CTAGCCTAAGGTATGTTTGATGATGTTCTATGAGATGCATGCATGTTTTAGTTGTTATCTTGAGT
1 CTAGCCTAAGGTATGTTTGATGATGTTCCATGAGATGCATGCATGTTTTAGTTGTTAGCTTGAGT
26076200 TCTAC
66 TCTAC
26076205 CTAGCC
1 CTAGCC
26076211 CATGGTCTAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.40
Consensus pattern (70 bp):
CTAGCCTAAGGTATGTTTGATGATGTTCCATGAGATGCATGCATGTTTTAGTTGTTAGCTTGAGT
TCTAC
Found at i:26077301 original size:39 final size:40
Alignment explanation
Indices: 26077200--26077344 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 40
26077190 TTGAATGTTG
* *
26077200 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
26077239 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
26077280 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTAGTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
26077319 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
26077345 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
39 34 0.37
40 44 0.48
41 12 0.13
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:26077362 original size:40 final size:40
Alignment explanation
Indices: 26077253--26077377 Score: 105
Period size: 39 Copynumber: 3.2 Consensus size: 40
26077243 GGACTAAGAT
** * * *
26077253 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGAACGAG-TGAGTAAATCCGGGTTAAGTC
** *
26077292 CCGAAGGCATTTGTGCGAGTTAGTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGAACGAGTGAGTAAATCCGGGTTAAGTC
* * *
26077332 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATT
1 CCGAAGGCATTTGAACGAGTGAG-TAAATCCGGGTTAAGTC
26077371 CCGAAGG
1 CCGAAGG
26077378 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 49 0.66
40 24 0.32
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGTGAGTAAATCCGGGTTAAGTC
Found at i:26077377 original size:39 final size:40
Alignment explanation
Indices: 26077291--26077377 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
26077281 CCGGGCTAAG
** * *
26077291 CCCGAAGGCATTTGTGCGAGTTAGTAAATCCGGGTTAAGT
1 CCCGAAGGCATTTGAACGAGTGAGTAAATCCGGGTTAAAT
*
26077331 CCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAAT
1 CCCGAAGGCATTTGAACGAGTGAG-TAAATCCGGGTTAAAT
*
26077370 TCCGAAGG
1 CCCGAAGG
26077378 TACGTGATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 16 0.40
40 24 0.60
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
CCCGAAGGCATTTGAACGAGTGAGTAAATCCGGGTTAAAT
Found at i:26082727 original size:27 final size:27
Alignment explanation
Indices: 26082689--26082746 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
26082679 GAGAAAGGCA
*
26082689 CCACTGTTGCCGCCTATGGGGTACCCT
1 CCACTGGTGCCGCCTATGGGGTACCCT
*
26082716 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACTGGTGCCGCCTATGGGGTACCCT
26082743 CCAC
1 CCAC
26082747 CCTTATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.10, C:0.40, G:0.28, T:0.22
Consensus pattern (27 bp):
CCACTGGTGCCGCCTATGGGGTACCCT
Found at i:26088878 original size:36 final size:36
Alignment explanation
Indices: 26088831--26088902 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
26088821 GTGTCAAGTG
26088831 GATCGTCAAGAAGCTCACATTATCCCGGTATTGATT
1 GATCGTCAAGAAGCTCACATTATCCCGGTATTGATT
26088867 GATCGTCAAGAAGCTCACATTATCCCGGTATTGATT
1 GATCGTCAAGAAGCTCACATTATCCCGGTATTGATT
26088903 CTATAGTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (36 bp):
GATCGTCAAGAAGCTCACATTATCCCGGTATTGATT
Found at i:26092047 original size:18 final size:18
Alignment explanation
Indices: 26092005--26092040 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
26091995 TCCTTTATAC
*
26092005 GAGCTTAGTAAGTATTGG
1 GAGCTTACTAAGTATTGG
26092023 GAGCTTACTAAGTATTGG
1 GAGCTTACTAAGTATTGG
26092041 TTGCTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.31, T:0.33
Consensus pattern (18 bp):
GAGCTTACTAAGTATTGG
Found at i:26092885 original size:18 final size:18
Alignment explanation
Indices: 26092847--26092885 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
26092837 TGATCCCCTG
26092847 TTTCCAAAATTTTCAATT
1 TTTCCAAAATTTTCAATT
*
26092865 TTTCCTAAAATTTTCTATT
1 TTTCC-AAAATTTTCAATT
26092884 TT
1 TT
26092886 GTTTCTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTCCAAAATTTTCAATT
Found at i:26094764 original size:16 final size:16
Alignment explanation
Indices: 26094743--26094774 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26094733 TAAGGTGGTG
26094743 GATGTCAATTAAGATA
1 GATGTCAATTAAGATA
26094759 GATGTCAATTAAGATA
1 GATGTCAATTAAGATA
26094775 CTATTGGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
GATGTCAATTAAGATA
Found at i:26096173 original size:19 final size:19
Alignment explanation
Indices: 26096129--26096179 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
26096119 TTTTAATTTA
26096129 TTATTT-AAATTATTAAAT
1 TTATTTAAAATTATTAAAT
* *
26096147 ATAATTAAAATATATT-AAT
1 TTATTTAAAAT-TATTAAAT
26096166 TTATTTAACAATTA
1 TTATTTAA-AATTA
26096180 AATGTAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 4 0.15
19 15 0.58
20 7 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTTAAAATTATTAAAT
Found at i:26096619 original size:21 final size:20
Alignment explanation
Indices: 26096593--26096631 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
26096583 AAATTATGCA
26096593 AAGTAAAAAATAATTAATACT
1 AAGTAAAAAATAA-TAATACT
26096614 AAGTAAAAAATAATAATA
1 AAGTAAAAAATAATAATA
26096632 TATTGTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
AAGTAAAAAATAATAATACT
Found at i:26097691 original size:17 final size:17
Alignment explanation
Indices: 26097660--26097702 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
26097650 CCAAGGCGAA
26097660 GAAAAAAATTATTTTTC
1 GAAAAAAATTATTTTTC
26097677 GAAAATAAATT-TTTTT-
1 GAAAA-AAATTATTTTTC
26097693 -AAAAAAATTA
1 GAAAAAAATTA
26097703 AATAAATCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.21
15 4 0.17
17 10 0.42
18 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (17 bp):
GAAAAAAATTATTTTTC
Found at i:26098472 original size:79 final size:79
Alignment explanation
Indices: 26097951--26098450 Score: 824
Period size: 79 Copynumber: 6.3 Consensus size: 79
26097941 AATTAAAGGT
* * * *
26097951 AAATAAAATCCGTTTCGAGATTGA-TTCC-CGTCGTTTAACGATTTTATTCCAAATTTTGTTTTA
1 AAATAAAATCTGTTTCGGGATTGATTTCCACG--GTTCAACAATTTTATTCCAAATTTTGTTTTA
* **
26098014 TTTCTAAAAAAGAGTA
64 TTTCCAAAAGCGAGTA
* * * * *
26098030 AAATAAAATCCGTTTCGGGATTAATTCCCGCCGTTCAACAATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCTGTTTCGGGATTGATTTCCACGGTTCAACAATTTTATTCCAAATTTTGTTTTATT
26098095 TCCAAAAGCGAGTA
66 TCCAAAAGCGAGTA
26098109 AAATAAAATCTGTTTCGGGATTGATTTCCACGGTTCAACAATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCTGTTTCGGGATTGATTTCCACGGTTCAACAATTTTATTCCAAATTTTGTTTTATT
26098174 TCCAAAAGCGAGTA
66 TCCAAAAGCGAGTA
26098188 AAATAAAATCTGTTTCGGGATTGATTTCCACGGTTCAACAATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCTGTTTCGGGATTGATTTCCACGGTTCAACAATTTTATTCCAAATTTTGTTTTATT
26098253 TCCAAAAGCGAGTA
66 TCCAAAAGCGAGTA
26098267 AAATAAAATCTGTTTCGGGATTGATTTCCACGGTTCAACAATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCTGTTTCGGGATTGATTTCCACGGTTCAACAATTTTATTCCAAATTTTGTTTTATT
26098332 TCCAAAAGCGAGTA
66 TCCAAAAGCGAGTA
26098346 AAATAAAATCTGTTTCGGGATTGATTTCCACGGTTCAACAATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCTGTTTCGGGATTGATTTCCACGGTTCAACAATTTTATTCCAAATTTTGTTTTATT
*
26098411 TCCAAAAACGAGTA
66 TCCAAAAGCGAGTA
* **
26098425 AAATAAAACCCATTTCGGGATTGATT
1 AAATAAAATCTGTTTCGGGATTGATT
26098451 CTCGTTGTTC
Statistics
Matches: 401, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
79 397 0.99
80 3 0.01
81 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (79 bp):
AAATAAAATCTGTTTCGGGATTGATTTCCACGGTTCAACAATTTTATTCCAAATTTTGTTTTATT
TCCAAAAGCGAGTA
Found at i:26098571 original size:86 final size:86
Alignment explanation
Indices: 26098465--26098739 Score: 381
Period size: 86 Copynumber: 3.2 Consensus size: 86
26098455 TTGTTCAACG
** * *
26098465 GATTTATTACATTTTGATTTTGTTGTAAAAAATGAGAAATTAAATAAAATAAAATCTGTTTCAGG
1 GATTTATTTGATTTT-ATTTTGTTGTAAAAAACGAGAAATTAAATTAAATAAAATCTGTTTCAGG
*
26098530 ATTTATTCCTGCCGTTTAATAA
65 ATTTATTCTTGCCGTTTAATAA
* *
26098552 GATTTATTTGATTTTATTTTGTTGTCAAAAACGAGAAATTAAATTAAATAAAATCTATTTCAGGA
1 GATTTATTTGATTTTATTTTGTTGTAAAAAACGAGAAATTAAATTAAATAAAATCTGTTTCAGGA
26098617 TTTATTCTTGCCGTTTAATAA
66 TTTATTCTTGCCGTTTAATAA
* * * **
26098638 GATTTTTTTGATTTGAGTTTGTTACAAAAAACGAGAAATTAAATTAAATAAAATCTGTTTC-GAG
1 GATTTATTTGATTTTATTTTGTTGTAAAAAACGAGAAATTAAATTAAATAAAATCTGTTTCAG-G
* *
26098702 ATTTATTCTTGCTGTTTAACAA
65 ATTTATTCTTGCCGTTTAATAA
*
26098724 GATTTTATTTTATTTT
1 GA-TTTATTTGATTTT
26098740 GTTTCCAAAT
Statistics
Matches: 167, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
85 1 0.01
86 143 0.86
87 23 0.14
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (86 bp):
GATTTATTTGATTTTATTTTGTTGTAAAAAACGAGAAATTAAATTAAATAAAATCTGTTTCAGGA
TTTATTCTTGCCGTTTAATAA
Found at i:26098821 original size:79 final size:79
Alignment explanation
Indices: 26098588--26098822 Score: 215
Period size: 79 Copynumber: 2.9 Consensus size: 79
26098578 AAAAACGAGA
* * *
26098588 AATTAAATTAAATAAAATCTATTTC-AGGATTTATTCTTGCCGTTTAATAAGATTTT-TTTGATT
1 AATTAAATTAAATAAAATCTGTTTCGA-GATTTATTCTTGCCGTTTAACAAGATTTTATTCGA--
* * ** *
26098651 TGAGTTTGTTACAAAAAACGAGA
63 T-A--TTGTTTCCAAATTC---T
* ** *
26098674 AATTAAATTAAATAAAATCTGTTTCGAGATTTATTCTTGCTGTTTAACAAGATTTTATTTTATTT
1 AATTAAATTAAATAAAATCTGTTTCGAGATTTATTCTTGCCGTTTAACAAGATTTTATTCGATAT
26098739 TGTTTCCAAATTCT
66 TGTTTCCAAATTCT
* * * *
26098753 AATTGAATTAAATAAAATTTGTTTTGGGATTTATTAC-TGCCGTTTAACAAGATTTTATTCGATA
1 AATTAAATTAAATAAAATCTGTTTCGAGATTTATT-CTTGCCGTTTAACAAGATTTTATTCGATA
26098817 TTGTTT
65 TTGTTT
26098823 TGTTTCCAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
79 60 0.47
80 1 0.01
82 10 0.08
85 1 0.01
86 51 0.40
87 5 0.04
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.46
Consensus pattern (79 bp):
AATTAAATTAAATAAAATCTGTTTCGAGATTTATTCTTGCCGTTTAACAAGATTTTATTCGATAT
TGTTTCCAAATTCT
Found at i:26102431 original size:23 final size:21
Alignment explanation
Indices: 26102389--26102440 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
26102379 ATGCCAAGTA
*
26102389 AAAAATAATTAATACTTAGTG
1 AAAAATAATAAATACTTAGTG
* *
26102410 AAAAATAATAATATATTGTAGTT
1 AAAAATAATAA-ATACT-TAGTG
26102433 AAAAATAA
1 AAAAATAA
26102441 AATTATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 10 0.38
22 4 0.15
23 12 0.46
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.33
Consensus pattern (21 bp):
AAAAATAATAAATACTTAGTG
Found at i:26105409 original size:40 final size:39
Alignment explanation
Indices: 26105345--26105476 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 39
26105335 TCTTCGGAAT
* * *
26105345 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
26105384 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
26105424 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
*
26105464 TTAGCCTGGATAT
1 TTAGCCCGGATAT
26105477 CATTCAAATG
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
39 7 0.09
40 69 0.86
41 4 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:26108138 original size:26 final size:26
Alignment explanation
Indices: 26108085--26108134 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
26108075 ATAATTATTT
*
26108085 TTAAATATGTAATTATCACAACTTTA
1 TTAAATATATAATTATCACAACTTTA
26108111 TTAAAT-TATAATTATC-CTAACTTT
1 TTAAATATATAATTATCAC-AACTTT
26108135 TATTTTAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 15 0.68
26 6 0.27
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (26 bp):
TTAAATATATAATTATCACAACTTTA
Found at i:26109747 original size:26 final size:27
Alignment explanation
Indices: 26109699--26109751 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
26109689 GCCCAGAGAG
* *
26109699 AAAAGAAGAGAAATAATTTTTTTTTCC
1 AAAAGAAGACAAATAATTATTTTTTCC
*
26109726 AAAAGAAG-CAAATGATTATTTTTTCC
1 AAAAGAAGACAAATAATTATTTTTTCC
26109752 TTACAATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (27 bp):
AAAAGAAGACAAATAATTATTTTTTCC
Found at i:26110444 original size:12 final size:11
Alignment explanation
Indices: 26110416--26110463 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
26110406 TTTAAATTTA
26110416 TTATTATTATT
1 TTATTATTATT
*
26110427 GCTATTATTCATT
1 -TTATTATT-ATT
26110440 TTATTAGTTATT
1 TTATTA-TTATT
26110452 TTATT-TTATT
1 TTATTATTATT
26110462 TT
1 TT
26110464 TTCTTTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 7 0.22
12 20 0.62
13 5 0.16
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (11 bp):
TTATTATTATT
Found at i:26114824 original size:44 final size:44
Alignment explanation
Indices: 26114739--26115667 Score: 364
Period size: 44 Copynumber: 20.4 Consensus size: 44
26114729 AATCCTATAC
* *
26114739 CCCTGAAGTTACAGTGG-GACAGATTGAAG-T-C--ATCTTATCT
1 CCCTGAAGTTGCAGTGGAG-CAGATTAAAGTTACAAATCTTATCT
* * **
26114779 CCCTAAAGTTGCAATGGAGCAGATTAAAGCCACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* * * * *
26114823 CCCTAAAGTTGCAGTGGAGTAGATTGAAGATAGTAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAATCTTATCT
* * * * * * * *
26114868 CTCTAAAATTGTAGTAGAGTAGATTAAAGTTATAAACCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
** *
26114912 CCCTGAAGTTGCAGTGGAGCA-AGTCGAAGTTACAAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGA-TTAAAGTTACAAATCTTATCT
* * * * * * *
26114956 CCCTGAAGTAGCAGTGGAGCAAACTGAAGATAGAGAATCTTATTT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AATCTTATCT
* * *
26115001 CCCTGAAGTTACAGTGGAACATATTAAAGCTACAAATTACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAG-------TTACAAATCTTATCT
* * * *
26115052 CCCTGAAGTTACAGTGGAGTAAATTAAAGTTACAGATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* * * ** *
26115096 CCCTAAAGTTGCAATGGAGTAGATCGAA-TATAGAAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGT-TA-CAAATCTTATCT
* * * * * *
26115141 CTCTAAAGCTACAGTTGAGCAGATTGAAGTTACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* * * * * *
26115185 CCTTGAAGTTGCAGTAGAACAGATTGAAGCTACTAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* * ** * * *
26115229 CCCTGAAGTTGCAATGGAGTAGATTGAAA-CAATAAGTCCTATAC-
1 CCCTGAAGTTGCAGTGGAGCAGATT-AAAGTTACAAATCTTAT-CT
* * * *
26115273 CTCTGAAGTTGCACTAGG-TC-GAATTAAA-TCTACCATAGCAAGTCTAATCT
1 CCCTGAAGTTGCAGT-GGAGCAG-ATTAAAGT-TA-C--A--AA-TCTTATCT
** * * * *
26115323 CTTTAAAGTTGCAGTGGAATGACTAAAGCTACAAGCTACAAATCTTATCT
1 CCCTGAAGTTGCAGTGG-A-G-C-AGA-TTA-AAGTTACAAATCTTATCT
* * * * *** * *
26115373 CCCTAAAGTTGCAGTGGAGTAGATTGAAGATGTTAATATTATTT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* * *
26115417 CCCTAAAGTTGCAGTGGA--ATGAATTAAAGCTACAAGTTATGAATCTTATTT
1 CCCTGAAGTTGCAGTGGAGCA-G-ATTAAAGTTAC-----A--AATCTTATCT
* * *
26115468 CCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATAT
1 CCCTGAAGTTGCAGTGGAGCAGA-T-----TA-AAGTTACAAATCTTATCT
* * * * *
26115519 CCCTGAAGTTGCAGTGAAGTAGATTGAAAATGT--GAATATTA-CTT
1 CCCTGAAGTTGCAGTGGAGCAGATT-AAAGT-TACAAATCTTATC-T
* * * * *
26115563 CCCTGAAGTTGCAGTAGAGTAGATTGAAGCTACTAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* ** * *
26115607 CCCTGAAGTTGCAGTGGAGCATATCGAAGTGACAATTCTTATAC-
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTAT-CT
*
26115651 CCCTGAAGTTGTAGTGG
1 CCCTGAAGTTGCAGTGG
26115668 GTTAGAACAA
Statistics
Matches: 675, Mismatches: 149, Indels: 126
0.71 0.16 0.13
Matches are distributed among these distances:
40 23 0.03
41 1 0.00
42 3 0.00
43 9 0.01
44 358 0.53
45 114 0.17
46 5 0.01
47 1 0.00
48 1 0.00
49 5 0.01
50 39 0.06
51 92 0.14
52 4 0.01
53 4 0.01
54 1 0.00
55 3 0.00
56 4 0.01
57 2 0.00
58 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
Found at i:26114998 original size:89 final size:90
Alignment explanation
Indices: 26114739--26115236 Score: 290
Period size: 89 Copynumber: 5.6 Consensus size: 90
26114729 AATCCTATAC
* * * * * * *
26114739 CCCTGAAGTTACAGTGGGAC-AGATTGAAG-T-C--ATCTTATCTCCCTAAAGTTGCAATGGAGC
1 CCCTGAAGTTGCAGTGGAACAAGATCGAAGTTACAAATCTTATCTCCCTGAAGCTACAGTGGAGC
* * **
26114799 AGATTAAAGCCACA-AATCTTATCT
66 AAATTGAAGTTACAGAATCTTATCT
* ** * * * * * ** ** *
26114823 CCCTAAAGTTGCAGTGG-AGTAGATTGAAGATAGTAAATCTTATCTCTCTAAAATTGTAGTAGAG
1 CCCTGAAGTTGCAGTGGAACAAGATCGAAGTTA-CAAATCTTATCTCCCTGAAGCTACAGTGGAG
* * * * *
26114887 TAGATTAAAGTTATA-AACCTTATCT
65 CAAATTGAAGTTACAGAATCTTATCT
* *
26114912 CCCTGAAGTTGCAGTGGAGCAAG-TCGAAGTTACAAGTCTTATCTCCCTGAAG-TAGCAGTGGAG
1 CCCTGAAGTTGCAGTGGAACAAGATCGAAGTTACAAATCTTATCTCCCTGAAGCTA-CAGTGGAG
* * * *
26114975 CAAACTGAAGATAGAGAATCTTATTT
65 CAAATTGAAGTTACAGAATCTTATCT
* * * *
26115001 CCCTGAAGTTACAGTGGAACATATTAAAGCTAC-AAATTACAAATCTTATCTCCCTGAAGTTACA
1 CCCTGAAGTTGCAGTGGAAC------AAGAT-CGAAGTTACAAATCTTATCTCCCTGAAGCTACA
* *
26115065 GTGGAGTAAATTAAAGTTACAG-ATCTTATCT
59 GTGGAGCAAATTGAAGTTACAGAATCTTATCT
* * ** * * * *
26115096 CCCTAAAGTTGCAATGG-AGTAGATCGAA-TATAGAAAATCTTATCTCTCTAAAGCTACAGTTGA
1 CCCTGAAGTTGCAGTGGAACAAGATCGAAGT-TA-CAAATCTTATCTCCCTGAAGCTACAGTGGA
*
26115159 GCAGATTGAAGTTACA-AATCTTATCT
64 GCAAATTGAAGTTACAGAATCTTATCT
* * * * *
26115185 CCTTGAAGTTGCAGTAGAAC-AGATTGAAGCTACTAATCTTATCTCCCTGAAG
1 CCCTGAAGTTGCAGTGGAACAAGATCGAAGTTACAAATCTTATCTCCCTGAAG
26115237 TTGCAATGGA
Statistics
Matches: 319, Mismatches: 71, Indels: 44
0.74 0.16 0.10
Matches are distributed among these distances:
83 1 0.00
84 24 0.08
85 1 0.00
87 3 0.01
88 53 0.17
89 161 0.50
90 3 0.01
94 1 0.00
95 25 0.08
96 44 0.14
97 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (90 bp):
CCCTGAAGTTGCAGTGGAACAAGATCGAAGTTACAAATCTTATCTCCCTGAAGCTACAGTGGAGC
AAATTGAAGTTACAGAATCTTATCT
Found at i:26115027 original size:133 final size:131
Alignment explanation
Indices: 26114725--26115252 Score: 451
Period size: 133 Copynumber: 4.0 Consensus size: 131
26114715 TCAGTGAAAT
* * * * *
26114725 TAGAAATCCTATAC-CCCTGAAGTTACAGTGGGACAGATTGAAG-T-C--ATCTTATCTCCCTAA
1 TAGAAATCTTAT-CTCCCTAAAGTTACAGTGGAACAGATTAAAGTTACAAATCTTATCTCCCTGA
* * * *
26114785 AGTTGCAATGGAGCAGATTAAAGCCACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGA
65 AGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGTAGA-TGA
26114850 AGA
129 AGA
* * ** * ** * *
26114853 TAGTAAATCTTATCTCTCTAAAATTGTAGTAGAGTAGATTAAAGTTATAAACCTTATCTCCCTGA
1 TAG-AAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAGTTACAAATCTTATCTCCCTGA
** * * * * * *
26114918 AGTTGCAGTGGAGCA-AGTCGAAGTTACAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAAACTG
65 AGTTGCAGTGGAGCAGA-TTAAAGCTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGTAGA-TG
26114982 AAGA
128 AAGA
* * *
26114986 TAGAGAATCTTATTTCCCTGAAGTTACAGTGGAACATATTAAAGCTACAAATTACAAATCTTATC
1 TAGA-AATCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAG-------TTACAAATCTTATC
* * * *
26115051 TCCCTGAAGTTACAGTGGAGTAAATTAAAGTTAC-AGATCTTATCTCCCTAAAGTTGCAATGGAG
58 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAG-TCTTATCTCCCTAAAGTTGCAATGGAG
*
26115115 TAGATCGAATA
122 TAGAT-GAAGA
* * * * * *
26115126 TAGAAAATCTTATCTCTCTAAAGCTACAGTTGAGCAGATTGAAGTTACAAATCTTATCTCCTTGA
1 TAG-AAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAGTTACAAATCTTATCTCCCTGA
* * * *
26115191 AGTTGCAGTAGAACAGATTGAAGCTACTAA-TCTTATCTCCCTGAAGTTGCAATGGAGTAGAT
65 AGTTGCAGTGGAGCAGATTAAAGCTAC-AAGTCTTATCTCCCTAAAGTTGCAATGGAGTAGAT
26115253 TGAAACAATA
Statistics
Matches: 315, Mismatches: 64, Indels: 37
0.76 0.15 0.09
Matches are distributed among these distances:
128 4 0.01
129 27 0.09
130 1 0.00
132 2 0.01
133 171 0.54
135 1 0.00
139 3 0.01
140 104 0.33
141 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (131 bp):
TAGAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAGTTACAAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGTAGATGAAG
A
Found at i:26115181 original size:184 final size:184
Alignment explanation
Indices: 26114857--26115217 Score: 406
Period size: 184 Copynumber: 2.0 Consensus size: 184
26114847 TGAAGATAGT
* ** * * *
26114857 AAATCTTATCTCTCTAAAATTGTAGTAGAGTAGATTAAAGTTATAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTAAAATTACAGTAGAGTAAATTAAAGTTACAAACCTTATCTCCCTAAAGTT
* * * *
26114922 GCAGTGGAGCAAGTCGAAGTTACAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAAACTGAAGAT
66 GCAATGGAGCAAGTCGAAGTTAAAAATCTTATCTCCCTAAAGTAGCAGTGGAGCAAACTGAAGAT
* * * *
26114987 AGAGAATCTTATTTCCCTGAAGTTACAGTGGAACATATTAAAGCTACAAATTAC
131 ACAGAATCTTATCTCCCTGAAGTTACAGTAGAACAGATTAAAGCTACAAATTAC
* * * * *
26115041 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAAATTAAAGTTACAGATCTTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTAAAATTACAGTAGAGTAAATTAAAGTTACAAACCTTATCTCCCTAAAGTT
* * * * *
26115106 GCAATGGAG-TAGATCGAA-TATAGAAAATCTTATCTCTCTAAAGCTA-CAGTTGAGCAGATTGA
66 GCAATGGAGCAAG-TCGAAGT-TA-AAAATCTTATCTCCCTAAAG-TAGCAGTGGAGCAAACTGA
* * * *
26115168 AGTTACA-AATCTTATCTCCTTGAAGTTGCAGTAGAACAGATTGAAGCTAC
127 AGATACAGAATCTTATCTCCCTGAAGTTACAGTAGAACAGATTAAAGCTAC
26115218 TAATCTTATC
Statistics
Matches: 145, Mismatches: 28, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
183 3 0.02
184 106 0.73
185 34 0.23
186 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (184 bp):
AAATCTTATCTCCCTAAAATTACAGTAGAGTAAATTAAAGTTACAAACCTTATCTCCCTAAAGTT
GCAATGGAGCAAGTCGAAGTTAAAAATCTTATCTCCCTAAAGTAGCAGTGGAGCAAACTGAAGAT
ACAGAATCTTATCTCCCTGAAGTTACAGTAGAACAGATTAAAGCTACAAATTAC
Found at i:26115493 original size:51 final size:51
Alignment explanation
Indices: 26115411--26115534 Score: 194
Period size: 51 Copynumber: 2.4 Consensus size: 51
26115401 GATGTTAATA
* ** **
26115411 TTATTTCCCTAAAGTTGCAGTGGAATGAATTAAAGCTACAAGTTATGAATC
1 TTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATC
26115462 TTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATC
1 TTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATC
*
26115513 TTATATCCCTGAAGTTGCAGTG
1 TTATTTCCCTGAAGTTGCAGTG
26115535 AAGTAGATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (51 bp):
TTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATC
Found at i:26117244 original size:4 final size:4
Alignment explanation
Indices: 26117235--26117262 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
26117225 ATTGTGCCTT
26117235 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
26117263 ATATTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:26117309 original size:12 final size:11
Alignment explanation
Indices: 26117289--26117328 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
26117279 TAAAATTTAG
26117289 ATTTTATTATT
1 ATTTTATTATT
26117300 ATTGTTATTATT
1 ATT-TTATTATT
26117312 CATTTTATTAGTT
1 -ATTTTATTA-TT
26117325 ATTT
1 ATTT
26117329 GTTTTCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.12
12 18 0.69
13 5 0.19
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:26119798 original size:3 final size:3
Alignment explanation
Indices: 26119790--26119819 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
26119780 TTAATTTAGT
26119790 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
26119820 GAAATAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:26122638 original size:21 final size:23
Alignment explanation
Indices: 26122606--26122663 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
26122596 ATATATATAC
26122606 TTAATATATATTT-A-ATATATT
1 TTAATATATATTTAACATATATT
26122627 TTAAT-TATTATTTAACATATATT
1 TTAATATA-TATTTAACATATATT
*
26122650 TTAAAATTATATTT
1 TTAATA-TATATTT
26122664 TTTATTAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.06
21 10 0.32
22 1 0.03
23 11 0.35
24 5 0.16
25 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTAATATATATTTAACATATATT
Found at i:26122649 original size:11 final size:11
Alignment explanation
Indices: 26122598--26122650 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
26122588 TAATTTTGAT
*
26122598 ATATATACTTA
1 ATATATATTTA
26122609 ATATATATTTA
1 ATATATATTTA
26122620 ATATAT-TTTA
1 ATATATATTTA
26122630 AT-TATTATTTA
1 ATATA-TATTTA
*
26122641 ACATATATTT
1 ATATATATTT
26122651 TAAAATTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 2 0.05
10 7 0.19
11 26 0.70
12 2 0.05
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATATATTTA
Found at i:26126038 original size:156 final size:154
Alignment explanation
Indices: 26125653--26126100 Score: 577
Period size: 156 Copynumber: 2.9 Consensus size: 154
26125643 TTTTTTCTGC
* * *
26125653 TGATTCTGAAAAAATAATTTTGAG-ATA--ATTCTAAAAAAATATCCTGGGATTCCCAGGAAATT
1 TGATTCTGAAAAAATAATTTTGAGAATATGGTTCTGAAAAAATATCCTGGGATTCCGA-GAAATT
* * * *
26125715 TGATAGTTGGGGTTGAAAAACGCTTCAAGTAGGATGTACTGTCAGCAAAAGTACTGAAAAAGCTT
65 TGATAGTTGGGGTTGAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAGCTC
** **
26125780 TTAGCTGGA--CTTTTTTTGTACGT
130 ACAGCTGGATGCTCATTTTGTACGT
* * *
26125803 TGATTCTG-AAAAATAATTTTGAGAAGATGGTTCTGCAAAAACATCCTGGGATTCTCGAGAAATT
1 TGATTCTGAAAAAATAATTTTGAGAATATGGTTCTGAAAAAATATCCTGGGATTC-CGAGAAATT
* * * *
26125867 TGATCGTTGGAGTTGAAAAATGCTTCAAGCAAGATGCACTGTCAGCAAAAGTATTGAAAAAGCTC
65 TGATAGTTGGGGTTGAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAGCTC
26125932 ACAGCTGGATGCTCATTTTGTACTGT
130 ACAGCTGGATGCTCATTTTGTAC-GT
** *
26125958 TGATTCTGAAAAAATAATTTTGAGAATATGGTTCTGAAAAAATAT-CTCAAGATTCACGAAAAAT
1 TGATTCTGAAAAAATAATTTTGAGAATATGGTTCTGAAAAAATATCCT-GGGATTC-CGAGAAAT
* *
26126022 CTGATAGTTGGGGTTGAAAAACGCTTCAAACAAGATGCACTGTCAGCAAAAGTACTGAAAAAGCT
64 TTGATAGTTGGGGTTGAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAGCT
* *
26126087 CCCAACTGGATGCT
129 CACAGCTGGATGCT
26126101 TTTTTCAATA
Statistics
Matches: 256, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
149 15 0.06
150 10 0.04
152 91 0.36
153 2 0.01
154 10 0.04
155 12 0.05
156 116 0.45
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (154 bp):
TGATTCTGAAAAAATAATTTTGAGAATATGGTTCTGAAAAAATATCCTGGGATTCCGAGAAATTT
GATAGTTGGGGTTGAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAGCTCA
CAGCTGGATGCTCATTTTGTACGT
Found at i:26129270 original size:59 final size:59
Alignment explanation
Indices: 26129187--26129352 Score: 264
Period size: 59 Copynumber: 2.8 Consensus size: 59
26129177 TAACTCCTAA
* *
26129187 TTTATTAAATGAAACAATGA-AAAAATAATTTGTACAAACATATTCAAAATAACTTATAT
1 TTTATTAAATGAAACAAT-ATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTATAT
* *
26129246 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTCTGT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTATAT
*
26129305 TTTATTAAATGAAACAATATAAAAA-AATTTGTACAAATATATTCAAAA
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAA
26129353 ATAAATCAAT
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
58 23 0.23
59 78 0.77
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (59 bp):
TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTATAT
Found at i:26129753 original size:18 final size:18
Alignment explanation
Indices: 26129727--26129763 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
26129717 AAGGAAACAT
26129727 ATAAAGGTTAGAATACAC
1 ATAAAGGTTAGAATACAC
*
26129745 ATAAGGGTTAGAATACAC
1 ATAAAGGTTAGAATACAC
26129763 A
1 A
26129764 CCTGGCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (18 bp):
ATAAAGGTTAGAATACAC
Found at i:26140080 original size:37 final size:39
Alignment explanation
Indices: 26139996--26140080 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 39
26139986 ACTCCAACTG
* *
26139996 CCCTATACACCACAACTGGGCTATGGTAGGCCCATCCAA
1 CCCTACACACCACAACAGGGCTATGGTAGGCCCATCCAA
* ***
26140035 CCC-GCACACCACAA-AGGGCTATGGTAGTTTCATCC-A
1 CCCTACACACCACAACAGGGCTATGGTAGGCCCATCCAA
26140071 CCCTACACAC
1 CCCTACACAC
26140081 TACGATAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
36 4 0.11
37 22 0.58
38 9 0.24
39 3 0.08
ACGTcount: A:0.28, C:0.38, G:0.16, T:0.18
Consensus pattern (39 bp):
CCCTACACACCACAACAGGGCTATGGTAGGCCCATCCAA
Found at i:26141023 original size:17 final size:17
Alignment explanation
Indices: 26140997--26141043 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
26140987 ATGAGAAATG
*
26140997 AAAACCAAAAGAAAGAA-
1 AAAACAAAAAGAAA-AAC
*
26141014 AAAACAAAAACAAAAAC
1 AAAACAAAAAGAAAAAC
*
26141031 AAAATAAAAAGAA
1 AAAACAAAAAGAA
26141044 GAAGCTACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (17 bp):
AAAACAAAAAGAAAAAC
Found at i:26148606 original size:18 final size:17
Alignment explanation
Indices: 26148563--26148607 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
26148553 TTAATATTCA
* *
26148563 AATTTAAATATATTTTT
1 AATTAAAATTTATTTTT
26148580 AATTAAAATTTATTTTAT
1 AATTAAAATTTATTTT-T
*
26148598 AATTGAAATT
1 AATTAAAATT
26148608 GCATCAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTAAAATTTATTTTT
Found at i:26153263 original size:44 final size:44
Alignment explanation
Indices: 26153184--26153336 Score: 141
Period size: 44 Copynumber: 3.5 Consensus size: 44
26153174 TCCGGGACGT
* * * * *
26153184 GGTCTTACATG-TACTTCA-ATATCGATGCCTCTGTCCTAGACAG
1 GGTCTTACACGATATTTCAGATA-CGATGCCTATGTCCCAGACAC
* *
26153227 GGTCTTACACGATATTTCAGATACGATGTCTATGTCCCAGACAT
1 GGTCTTACACGATATTTCAGATACGATGCCTATGTCCCAGACAC
* * * * ** *
26153271 GGTCTTACACGTAAATCTCAAAT-CGAGGCCCGTGTCCCAAACAC
1 GGTCTTACACG-ATATTTCAGATACGATGCCTATGTCCCAGACAC
26153315 GGTCTTACACGATATTTCAGAT
1 GGTCTTACACGATATTTCAGAT
26153337 TAATGTCAAC
Statistics
Matches: 89, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
43 18 0.20
44 60 0.67
45 11 0.12
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
GGTCTTACACGATATTTCAGATACGATGCCTATGTCCCAGACAC
Done.