Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007076.1 Hibiscus syriacus cultivar Beakdansim tig00018465_pilon, whole genome shotgun sequence
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: 140777
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:2269 original size:23 final size:23
Alignment explanation
Indices: 2239--2287 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
2229 CCCATGACTC
2239 ACGGTGGTTGCTAAAGTGCGCCG
1 ACGGTGGTTGCTAAAGTGCGCCG
2262 ACGGTGGTTGCTAAAGTGCGCCG
1 ACGGTGGTTGCTAAAGTGCGCCG
2285 ACG
1 ACG
2288 ACCTCATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.22, G:0.39, T:0.20
Consensus pattern (23 bp):
ACGGTGGTTGCTAAAGTGCGCCG
Found at i:10576 original size:4 final size:4
Alignment explanation
Indices: 10567--10593 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10557 AGCAAGTGGT
10567 TACA TACA TACA TACA TACA TACA TAC
1 TACA TACA TACA TACA TACA TACA TAC
10594 TGTTACACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:11378 original size:2 final size:2
Alignment explanation
Indices: 11371--11399 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11361 ATCTTCCCAT
11371 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
11400 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:16180 original size:23 final size:23
Alignment explanation
Indices: 16162--16222 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
16152 CTCATATAAA
*
16162 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
16185 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
16208 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
16223 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:16409 original size:103 final size:103
Alignment explanation
Indices: 16238--16455 Score: 436
Period size: 103 Copynumber: 2.1 Consensus size: 103
16228 TAATGTCCAT
16238 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
16303 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
16341 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
16406 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
16444 AAGGACCACATA
1 AAGGACCACATA
16456 GACCCTCGAC
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 115 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:20121 original size:40 final size:40
Alignment explanation
Indices: 20077--20174 Score: 187
Period size: 40 Copynumber: 2.5 Consensus size: 40
20067 TGAACGAATG
*
20077 TACTAAAATAAAACAAAAATTAAAGTTTTTAATGGCAGTA
1 TACTAAAATGAAACAAAAATTAAAGTTTTTAATGGCAGTA
20117 TACTAAAATGAAACAAAAATTAAAGTTTTTAATGGCAGTA
1 TACTAAAATGAAACAAAAATTAAAGTTTTTAATGGCAGTA
20157 TACTAAAATGAAACAAAA
1 TACTAAAATGAAACAAAA
20175 GCTAAACTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (40 bp):
TACTAAAATGAAACAAAAATTAAAGTTTTTAATGGCAGTA
Found at i:29218 original size:17 final size:17
Alignment explanation
Indices: 29196--29228 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29186 TTTATTGATG
29196 GTATTCATCT-TGAAATC
1 GTATTCA-CTATGAAATC
29213 GTATTCACTATGAAAT
1 GTATTCACTATGAAAT
29229 TTTATTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (17 bp):
GTATTCACTATGAAATC
Found at i:31979 original size:23 final size:23
Alignment explanation
Indices: 31905--32004 Score: 83
Period size: 23 Copynumber: 4.3 Consensus size: 23
31895 GCGAACAAGA
* *
31905 ACGAACACTAAACGAGCATGTTC
1 ACGAACACTAAACAAACATGTTC
* * * *
31928 ACAAACGCTAAATAAACATGTTT
1 ACGAACACTAAACAAACATGTTC
** *
31951 GTGAACCCTAAACAAACATGTTC
1 ACGAACACTAAACAAACATGTTC
* * *
31974 ACGAACATTTAAACGAATATGTTC
1 ACGAACA-CTAAACAAACATGTTC
31998 ACGAACA
1 ACGAACA
32005 TGTTCGCGAA
Statistics
Matches: 58, Mismatches: 18, Indels: 1
0.75 0.23 0.01
Matches are distributed among these distances:
23 38 0.66
24 20 0.34
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (23 bp):
ACGAACACTAAACAAACATGTTC
Found at i:32001 original size:12 final size:12
Alignment explanation
Indices: 31965--32015 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
31955 ACCCTAAACA
31965 AACATGTTCACG
1 AACATGTTCACG
*
31977 AACAT-TTAAACG
1 AACATGTT-CACG
*
31989 AATATGTTCACG
1 AACATGTTCACG
*
32001 AACATGTTCGCG
1 AACATGTTCACG
32013 AAC
1 AAC
32016 GTTAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 2 0.06
12 28 0.88
13 2 0.06
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (12 bp):
AACATGTTCACG
Found at i:32014 original size:24 final size:24
Alignment explanation
Indices: 31959--32005 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
31949 TTGTGAACCC
* *
31959 TAAACAAACATGTTCACGAACATT
1 TAAACGAATATGTTCACGAACATT
31983 TAAACGAATATGTTCACGAACAT
1 TAAACGAATATGTTCACGAACAT
32006 GTTCGCGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (24 bp):
TAAACGAATATGTTCACGAACATT
Found at i:41241 original size:21 final size:21
Alignment explanation
Indices: 41201--41242 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41191 TCAACAAATC
* **
41201 CTTCGTCAAACGGTTTTAACT
1 CTTCGTCAAAAGGTCATAACT
41222 CTTCGTCAAAAGGTCATAACT
1 CTTCGTCAAAAGGTCATAACT
41243 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (21 bp):
CTTCGTCAAAAGGTCATAACT
Found at i:45562 original size:25 final size:25
Alignment explanation
Indices: 45528--45575 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
45518 ATAGTGGCCA
*
45528 GATACCACAACGGGATGGTGCTTAG
1 GATACCACAACGAGATGGTGCTTAG
45553 GATACCACAACGAGATGGTGCTT
1 GATACCACAACGAGATGGTGCTT
45576 GGGGGTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (25 bp):
GATACCACAACGAGATGGTGCTTAG
Found at i:49220 original size:2 final size:2
Alignment explanation
Indices: 49213--49240 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
49203 ATCAGAAAAT
49213 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49241 CCGTTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50019 original size:29 final size:29
Alignment explanation
Indices: 49974--50031 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
49964 GTGTTGGCCG
49974 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCGGGCGACCTAC
* *
50003 TAGGTCGCCATGTCTTCCGGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCGGGCGACCTAC
50032 AAGAGATTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.34, G:0.29, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCGGGCGACCTAC
Found at i:50101 original size:10 final size:10
Alignment explanation
Indices: 50088--50141 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
50078 GACCATCTGA
50088 CCGAGGCCAT
1 CCGAGGCCAT
50098 CCGAGAG-CAT
1 CCGAG-GCCAT
*
50108 CCGATGCCAT
1 CCGAGGCCAT
50118 CCGAGAG-CAT
1 CCGAG-GCCAT
*
50128 CTGAGGCCAT
1 CCGAGGCCAT
50138 CCGA
1 CCGA
50142 ACGAGCTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.24, C:0.35, G:0.28, T:0.13
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:50116 original size:20 final size:20
Alignment explanation
Indices: 50088--50141 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
50078 GACCATCTGA
50088 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
*
50108 CCGATGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
*
50128 CTGAGGCCATCCGA
1 CCGAGGCCATCCGA
50142 ACGAGCTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.35, G:0.28, T:0.13
Consensus pattern (20 bp):
CCGAGGCCATCCGAGAGCAT
Found at i:50168 original size:10 final size:10
Alignment explanation
Indices: 50088--50200 Score: 55
Period size: 10 Copynumber: 10.7 Consensus size: 10
50078 GACCATCTGA
*
50088 CCGAGGCCAT
1 CCGAGGGCAT
*
50098 CCGAGAGCAT
1 CCGAGGGCAT
* *
50108 CCGATGCCAT
1 CCGAGGGCAT
*
50118 CCGAGAGCAT
1 CCGAGGGCAT
* *
50128 CTGAGGCCAT
1 CCGAGGGCAT
*
50138 CCGAACGAGCTAT
1 CCG-A-GGGC-AT
**
50151 GAGAGGGCAT
1 CCGAGGGCAT
*
50161 CCGAGGGCAA
1 CCGAGGGCAT
50171 CCGAGCGAGCTAT
1 CCGAG-G-GC-AT
* *
50184 GCGAGGGAAT
1 CCGAGGGCAT
50194 CCGAGGG
1 CCGAGGG
50201 AAGCCGAGCG
Statistics
Matches: 73, Mismatches: 24, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
10 53 0.73
11 6 0.08
12 6 0.08
13 8 0.11
ACGTcount: A:0.26, C:0.28, G:0.35, T:0.12
Consensus pattern (10 bp):
CCGAGGGCAT
Found at i:50180 original size:33 final size:33
Alignment explanation
Indices: 50124--50212 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 33
50114 CCATCCGAGA
* * * *
50124 GCATCTGAGGCCATCCGAACGAGCTATGAGAGG
1 GCATCCGAGGGCAACCGAGCGAGCTATGAGAGG
*
50157 GCATCCGAGGGCAACCGAGCGAGCTATGCGAGG
1 GCATCCGAGGGCAACCGAGCGAGCTATGAGAGG
*
50190 GAATCCGAGGG-AAGCCGAGCGAG
1 GCATCCGAGGGCAA-CCGAGCGAG
50213 GGTAGGTCGC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
32 2 0.04
33 47 0.96
ACGTcount: A:0.27, C:0.25, G:0.38, T:0.10
Consensus pattern (33 bp):
GCATCCGAGGGCAACCGAGCGAGCTATGAGAGG
Found at i:50249 original size:29 final size:29
Alignment explanation
Indices: 50216--50271 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
50206 GAGCGAGGGT
*
50216 AGGTCGCCCGGAGGGCATGGCGACCTACA
1 AGGTCGCCCGGAGGACATGGCGACCTACA
*
50245 AGGTCGCCCGGAGGACATGTCGACCTA
1 AGGTCGCCCGGAGGACATGGCGACCTA
50272 TGTGTTGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.30, G:0.36, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGACATGGCGACCTACA
Found at i:50372 original size:29 final size:29
Alignment explanation
Indices: 50330--50415 Score: 163
Period size: 29 Copynumber: 3.0 Consensus size: 29
50320 GAGCAAGGGT
50330 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
50359 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
*
50388 AGGTCGTCCGGAGTGCATGGCGACCTAC
1 AGGTCGCCCGGAGTGCATGGCGACCTAC
50416 GGCTAACACT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.20, C:0.30, G:0.35, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:51314 original size:21 final size:21
Alignment explanation
Indices: 51288--51341 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
51278 TATTTTTTCA
*
51288 ATAAACCCTAAACTCTAAATC
1 ATAAACCCTAAACCCTAAATC
** *
51309 ATAAACTATAAACCCTAAGTC
1 ATAAACCCTAAACCCTAAATC
* *
51330 CTAAAACCTAAA
1 ATAAACCCTAAA
51342 TATGATTATA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.22
Consensus pattern (21 bp):
ATAAACCCTAAACCCTAAATC
Found at i:53935 original size:37 final size:37
Alignment explanation
Indices: 53894--53971 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
53884 AATTATATGC
*
53894 TTAATTTACAACTATGATTATAAATATTTTTTGTAAT
1 TTAATTTACAACTATAATTATAAATATTTTTTGTAAT
*
53931 TTAATTTACATCTATAATTATAAATATTTTTTGTAAT
1 TTAATTTACAACTATAATTATAAATATTTTTTGTAAT
53968 TTAA
1 TTAA
53972 GATATTTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (37 bp):
TTAATTTACAACTATAATTATAAATATTTTTTGTAAT
Found at i:54899 original size:2 final size:2
Alignment explanation
Indices: 54892--54938 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
54882 CCCGATCCTA
54892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54934 AT AT A
1 AT AT A
54939 GAGGTAAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61810 original size:179 final size:179
Alignment explanation
Indices: 61510--61881 Score: 744
Period size: 179 Copynumber: 2.1 Consensus size: 179
61500 GCACAATTTA
61510 CCCTTGATAATAAGGATTTTTTTTTATTAATCTGGGGTAAGTACAAGGTAGTATTTGTTCAAAGA
1 CCCTTGATAATAAGGATTTTTTTTTATTAATCTGGGGTAAGTACAAGGTAGTATTTGTTCAAAGA
61575 TAACACTCTGCCGTTTGACATTGAACGCTAACATTCTTGATATTTCTGATGCTCGAACTTGGGAC
66 TAACACTCTGCCGTTTGACATTGAACGCTAACATTCTTGATATTTCTGATGCTCGAACTTGGGAC
61640 CTCAAACAATAACAACAATTCATTTATCATCGAGGTCGTTTGATTCGTG
131 CTCAAACAATAACAACAATTCATTTATCATCGAGGTCGTTTGATTCGTG
61689 CCCTTGATAATAAGGATTTTTTTTTATTAATCTGGGGTAAGTACAAGGTAGTATTTGTTCAAAGA
1 CCCTTGATAATAAGGATTTTTTTTTATTAATCTGGGGTAAGTACAAGGTAGTATTTGTTCAAAGA
61754 TAACACTCTGCCGTTTGACATTGAACGCTAACATTCTTGATATTTCTGATGCTCGAACTTGGGAC
66 TAACACTCTGCCGTTTGACATTGAACGCTAACATTCTTGATATTTCTGATGCTCGAACTTGGGAC
61819 CTCAAACAATAACAACAATTCATTTATCATCGAGGTCGTTTGATTCGTG
131 CTCAAACAATAACAACAATTCATTTATCATCGAGGTCGTTTGATTCGTG
61868 CCCTTGATAATAAG
1 CCCTTGATAATAAG
61882 TTGTATAAAA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 193 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (179 bp):
CCCTTGATAATAAGGATTTTTTTTTATTAATCTGGGGTAAGTACAAGGTAGTATTTGTTCAAAGA
TAACACTCTGCCGTTTGACATTGAACGCTAACATTCTTGATATTTCTGATGCTCGAACTTGGGAC
CTCAAACAATAACAACAATTCATTTATCATCGAGGTCGTTTGATTCGTG
Found at i:62973 original size:195 final size:191
Alignment explanation
Indices: 62494--63089 Score: 464
Period size: 191 Copynumber: 3.1 Consensus size: 191
62484 CTTGTCTCAT
* * * * * * * * *
62494 TAAACCAACTGATTGTTGGTTTCTTTGTACATA-ATTTTTTCATAACTACCGGTATCCGATCTAT
1 TAAACCAATTGGTTGTTGGTTTATTCGTACATATTTTTTTTTATAACCACCAGTATTCGATCTAT
* * * * * * * * * * *
62558 TGATCGACTAATCCAGATTGAGTACTGCAGAGGCAAGGGCAACTCTCCCAACCCAATTTGTTTCA
66 TAATCAACTAATACAGATCGGGAACTGCAGAGGCAAAGGCGACACTCCCAACCCAATTTGCTCCA
* * ** * * * ** * * * ** * *
62623 TTCGCAATCGA-CATGATTCGAA-CCTCAAACCTTACCTAAAAGATCTATTGCATCGTTC-TAT
131 TTCACAATC-ACCAAGATTCGAATCC-CTGACATTGCTTAAGGGATATAGTGCCTC-ACCACAC
* * * * *
62684 TAAACCAATTGGTTGTTAGTTTCTTCTTGCATATTTTTTTTTATAACCAGCAGTATTCGATCTAT
1 TAAACCAATTGGTTGTTGGTTTATTCGTACATATTTTTTTTTATAACCACCAGTATTCGATCTAT
* * * * * * * * *
62749 TGATCAACTAATATAGATCGGGTACTGCAGAGGGAAATGCGACATTCTCAACCCAGTTTGCTCTA
66 TAATCAACTAATACAGATCGGGAACTGCAGAGGCAAAGGCGACACTCCCAACCCAATTTGCTCCA
* * * * *
62814 TTCGCAATCACCAGGATTCGAA-CTCCTGACCTTGCTTAAAGGGATATAGTGTCTCACCCCAC
131 TTCACAATCACCAAGATTCGAATC-CCTGACATTGCTT-AAGGGATATAGTGCCTCACCACAC
* * * *
62876 TATACCAACTGGTTGTTGGTTTATTCGTACATAATTTTTTTTTGTATAACCACCGGTATTTGATC
1 TAAACCAATTGGTTGTTGGTTTATTCGTACAT-A-TTTTTTTT-TATAACCACCAGTATTCGATC
** * * *
62941 TATTAATTGACTAATCCAGATCGGGAACTGCAGAGGCAAGGGCGACCCTCCCAACCCAATTTGCT
63 TATTAATCAACTAATACAGATCGGGAACTGCAGAGGCAAAGGCGACACTCCCAACCCAATTTGCT
** * * *
63006 CCATTCACAATCGTCAAGATTCGAATCCCTGACATTGCTTAAGGGATTTAGTGCCTTATCACAC
128 CCATTCACAATCACCAAGATTCGAATCCCTGACATTGCTTAAGGGATATAGTGCCTCACCACAC
63070 TAAACCAATTGGTTGTTGGT
1 TAAACCAATTGGTTGTTGGT
63090 GGTTTCTTAG
Statistics
Matches: 319, Mismatches: 78, Indels: 14
0.78 0.19 0.03
Matches are distributed among these distances:
190 28 0.09
191 103 0.32
192 39 0.12
193 1 0.00
194 45 0.14
195 102 0.32
196 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (191 bp):
TAAACCAATTGGTTGTTGGTTTATTCGTACATATTTTTTTTTATAACCACCAGTATTCGATCTAT
TAATCAACTAATACAGATCGGGAACTGCAGAGGCAAAGGCGACACTCCCAACCCAATTTGCTCCA
TTCACAATCACCAAGATTCGAATCCCTGACATTGCTTAAGGGATATAGTGCCTCACCACAC
Found at i:63313 original size:18 final size:18
Alignment explanation
Indices: 63290--63359 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
63280 CGACTGACCC
63290 AAAATAATATATTTATTA
1 AAAATAATATATTTATTA
*
63308 AAAATATTACT-TTTATTTA
1 AAAATAATA-TATTTA-TTA
*
63327 ATAAA-AATAGAAATTTAATTA
1 A-AAATAAT--ATATTT-ATTA
63348 AAAATAATATAT
1 AAAATAATATAT
63360 ATAGAGGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
18 12 0.30
19 10 0.25
20 6 0.15
21 11 0.28
22 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (18 bp):
AAAATAATATATTTATTA
Found at i:65092 original size:121 final size:122
Alignment explanation
Indices: 64935--65234 Score: 403
Period size: 121 Copynumber: 2.5 Consensus size: 122
64925 TTAAGTTTTG
* * * * * *
64935 AAAAAATTAAAAGTTTATG-TACTAAAACGGATCAAAACTACTAGTTTAGTTATTAAATGTGTTA
1 AAAAAATAAAAAATTTA-GCTACTAAAACGAACCAAAACTAATAGTTTAGTTACTAAATGTGTTA
*
64999 AG-TTTTAACG-ACGACTACTAAAATGAAATGAAAACTAAGCGTTATTTATGGTCTTGA
65 AGTTTTTAACGAACGA-TACTAAAATGAAATGAAAACTAAGCGTTATGTATGGTCTTGA
*
65056 AAAAAATAAAAAATTTAGCTACTAAAACGAACCAAAACTAATAGTTTA-TGTACTAAACGTGTTA
1 AAAAAATAAAAAATTTAGCTACTAAAACGAACCAAAACTAATAGTTTAGT-TACTAAATGTGTTA
* * * *
65120 AGTTTTTAACGAATGATACTAAAATGAAATGGAAACTAAGCTTTATGTATGGTTTTGA
65 AGTTTTTAACGAACGATACTAAAATGAAATGAAAACTAAGCGTTATGTATGGTCTTGA
* * *
65178 AAAAATTAAAAGA-TTAGCTACTAAAACGAACCAAAACTAATAGTTTAGATACTAAAT
1 AAAAAATAAAAAATTTAGCTACTAAAACGAACCAAAACTAATAGTTTAGTTACTAAAT
65235 ATATAGTTTA
Statistics
Matches: 158, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
120 2 0.01
121 96 0.61
122 57 0.36
123 3 0.02
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (122 bp):
AAAAAATAAAAAATTTAGCTACTAAAACGAACCAAAACTAATAGTTTAGTTACTAAATGTGTTAA
GTTTTTAACGAACGATACTAAAATGAAATGAAAACTAAGCGTTATGTATGGTCTTGA
Found at i:65643 original size:28 final size:28
Alignment explanation
Indices: 65603--65660 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
65593 AAGCTCAAAG
*
65603 ATTATCATATTGAATATGATATGATAAA
1 ATTAACATATTGAATATGATATGATAAA
* *
65631 ATTAACATGTTGACTATGATATGATAAA
1 ATTAACATATTGAATATGATATGATAAA
65659 AT
1 AT
65661 CTGATTCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (28 bp):
ATTAACATATTGAATATGATATGATAAA
Found at i:69142 original size:60 final size:59
Alignment explanation
Indices: 69072--69227 Score: 195
Period size: 60 Copynumber: 2.6 Consensus size: 59
69062 TATTTAAATG
* * * * *
69072 AATTTGGGGATAAAATTAGAATATTTAAAAGTTTAGGGACCAATTTAGAAAGAGGGTCA
1 AATTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGAGAGTCA
* *** * *
69131 TAATTTAGGGATGAAATTAGAATGTTCAAAAGTTTAAGGACTGGTTTAGAATGAGAGTTA
1 -AATTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGAGAGTCA
69191 AAGTTTAGGGATGAAATTAGAATATTCAAAAGTTTAA
1 AA-TTTAGGGATGAAATTAGAATATTCAAAAGTTTAA
69228 ACATCAATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
59 2 0.02
60 81 0.98
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.31
Consensus pattern (59 bp):
AATTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGAGAGTCA
Found at i:69244 original size:60 final size:60
Alignment explanation
Indices: 69078--69258 Score: 165
Period size: 60 Copynumber: 3.0 Consensus size: 60
69068 AATGAATTTG
* * *** * * *
69078 GGGATAAAATTAGAATATTTAAAAGTTTAGGGACCAATTTAGAAA-GAGGGTCATAA-TTTA
1 GGGATGAAATTAGAATATTCAAAAGTTTAAACATCAATTTA-AAATGAGAGTTA-AAGTTTA
* ** *
69138 GGGATGAAATTAGAATGTTCAAAAGTTTAAGGAC-T-GGTTTAGAATGAGAGTTAAAGTTTA
1 GGGATGAAATTAGAATATTCAAAAGTTTAA--ACATCAATTTAAAATGAGAGTTAAAGTTTA
*
69198 GGGATGAAATTAGAATATTCAAAAGTTTAAACATCAATTTAAAATGATGA-TTATAGTTTA
1 GGGATGAAATTAGAATATTCAAAAGTTTAAACATCAATTTAAAATGA-GAGTTAAAGTTTA
69258 G
1 G
69259 AGAAATATGA
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
58 2 0.02
59 5 0.05
60 88 0.91
61 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (60 bp):
GGGATGAAATTAGAATATTCAAAAGTTTAAACATCAATTTAAAATGAGAGTTAAAGTTTA
Found at i:69479 original size:3 final size:3
Alignment explanation
Indices: 69466--69499 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
69456 TTTCTTGACG
69466 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69500 TAAATTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:70048 original size:29 final size:29
Alignment explanation
Indices: 69988--70051 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
69978 AAGTTTCTCA
* * *
69988 ACTATTACAAGTTACAAAATGGTCCTTTG
1 ACTATTAAAAGTTACAAAACGGTCCTTCG
*
70017 ACTATTAAAAGTTATAAAACGGTCAC-TCG
1 ACTATTAAAAGTTACAAAACGGTC-CTTCG
70046 ACTATT
1 ACTATT
70052 CATTATGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (29 bp):
ACTATTAAAAGTTACAAAACGGTCCTTCG
Found at i:71825 original size:37 final size:37
Alignment explanation
Indices: 71763--71859 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
71753 TCTTTTCGTC
* * **
71763 CTACTAGTATTCAAACTTTTAAAAATAAGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAAGATAGAATT
* * * *
71800 TTATTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAAGATAGAATT
*
71837 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTTAAACTCCTAAA
71860 GATAGGATCC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAAGATAGAATT
Found at i:72546 original size:64 final size:62
Alignment explanation
Indices: 72370--72546 Score: 141
Period size: 64 Copynumber: 2.8 Consensus size: 62
72360 TTTTTCTCTA
** * *
72370 TTTTTATACGTTATTATTCATATATATATATTTA-TTTTCTTTGCATTTTTATTATTAATATTAT
1 TTTTTATATTTTATTATT-AT-TATAT-TTTTTACTTTTCTTTAC-TTTTTA-TATTAATATTAT
72434 AG
61 AG
* * * *
72436 TTATTAT-TTTT-TTACTATTATA--TTTTCCTTTTATTCTACTTATTTATATTATATATGTATA
1 TTTTTATATTTTATTATTATTATATTTTTTACTTTTCTT-TACTT-TTTATATTA-ATAT-TATA
*
72497 T
62 G
72498 TTTTTATATTTTATTATTATTATATTTTTTACTTTCTCTTT-CTTTTTAT
1 TTTTTATATTTTATTATTATTATATTTTTTACTTT-TCTTTACTTTTTAT
72547 TATTCTTGTA
Statistics
Matches: 88, Mismatches: 13, Indels: 22
0.72 0.11 0.18
Matches are distributed among these distances:
59 3 0.03
60 13 0.15
61 10 0.11
62 14 0.16
63 6 0.07
64 19 0.22
65 5 0.06
66 15 0.17
67 3 0.03
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (62 bp):
TTTTTATATTTTATTATTATTATATTTTTTACTTTTCTTTACTTTTTATATTAATATTATAG
Found at i:72588 original size:2 final size:2
Alignment explanation
Indices: 72581--72613 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
72571 TTTATTTTGT
72581 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72614 GCGTATGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:73217 original size:26 final size:26
Alignment explanation
Indices: 73141--73221 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 26
73131 TATTATTTTG
* *
73141 TTTTATTTATTTTCTTTTTCTTTTTCTT
1 TTTTA-TTATTAT-TTTTTCTTTGTCTT
*
73169 TTTTA-TATATATTTTATTATTTGT-TT
1 TTTTATTAT-TATTTT-TTCTTTGTCTT
73195 TTTTACTTATTATTTTTTCTTTG-CTT
1 TTTTA-TTATTATTTTTTCTTTGTCTT
73221 T
1 T
73222 CTTCATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
26 22 0.50
27 14 0.32
28 8 0.18
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTTATTATTATTTTTTCTTTGTCTT
Found at i:79895 original size:25 final size:25
Alignment explanation
Indices: 79867--79917 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
79857 AATAATAACG
79867 TGTTATTAATTCAT-TTGGCATTGCA
1 TGTTATTAATTCATGTT-GCATTGCA
79892 TGTTATTAATTCATGTTGCATTGCA
1 TGTTATTAATTCATGTTGCATTGCA
79917 T
1 T
79918 ACTAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.49
Consensus pattern (25 bp):
TGTTATTAATTCATGTTGCATTGCA
Found at i:82684 original size:7 final size:7
Alignment explanation
Indices: 82674--82704 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
82664 TACAAACGAC
82674 CTAACTG
1 CTAACTG
82681 CTAACTG
1 CTAACTG
82688 CTAACTG
1 CTAACTG
82695 CTAACTG
1 CTAACTG
82702 CTA
1 CTA
82705 CTCTTTCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (7 bp):
CTAACTG
Found at i:83440 original size:3 final size:3
Alignment explanation
Indices: 83432--83502 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
83422 ATTCAATAGT
83432 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
83480 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
83503 GAGGAATTCG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:87673 original size:2 final size:2
Alignment explanation
Indices: 87666--87705 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
87656 CACTTTTGTT
87666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87706 AACTTATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:97631 original size:4 final size:4
Alignment explanation
Indices: 97622--97646 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
97612 GGAACGATCC
97622 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
97647 ACGTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:99786 original size:3 final size:3
Alignment explanation
Indices: 99778--99820 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
99768 GTTATTGTAC
*
99778 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
99821 TTGTCTCTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:103784 original size:11 final size:11
Alignment explanation
Indices: 103746--103790 Score: 63
Period size: 12 Copynumber: 3.9 Consensus size: 11
103736 TTTAAACGGA
103746 TATTGGGCCGTG
1 TATTGGGCCG-G
*
103758 TATTGGGTCGGG
1 TATTGGG-CCGG
103770 TATTGGGCCGG
1 TATTGGGCCGG
103781 TATTGGGCCG
1 TATTGGGCCG
103791 AGAATCGGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 13 0.43
12 15 0.50
13 2 0.07
ACGTcount: A:0.09, C:0.16, G:0.44, T:0.31
Consensus pattern (11 bp):
TATTGGGCCGG
Found at i:103800 original size:23 final size:23
Alignment explanation
Indices: 103750--103803 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
103740 AACGGATATT
* * * *
103750 GGGCCGTGTATTGGGTCGGGTATT
1 GGGCCG-GTATTGGGCCGAGAATC
103774 GGGCCGGTATTGGGCCGAGAATC
1 GGGCCGGTATTGGGCCGAGAATC
103797 GGGCCGG
1 GGGCCGG
103804 GTATATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.11, C:0.19, G:0.48, T:0.22
Consensus pattern (23 bp):
GGGCCGGTATTGGGCCGAGAATC
Found at i:104935 original size:20 final size:20
Alignment explanation
Indices: 104897--104935 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
104887 AGTTTTCAAA
* **
104897 TTCGCGTTGTGATTTTCCAT
1 TTCGCGTTGCGATAGTCCAT
104917 TTCGCGTTGCGATAGTCCA
1 TTCGCGTTGCGATAGTCCA
104936 AGATATTGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCCAT
Found at i:105075 original size:41 final size:41
Alignment explanation
Indices: 104979--105154 Score: 214
Period size: 41 Copynumber: 4.3 Consensus size: 41
104969 AGTTTTCAAA
104979 TTCGCGTTGCGATAGTCCAAAATC-TATTGCGA-TTTTCTAT
1 TTCGCGTTGCGATAGTCCAAAATCGTATTGCGATTTTTC-AT
* *
105019 TTCGCGTTACGATAGTCCAAAATCGTATTACGATTTTTCAT
1 TTCGCGTTGCGATAGTCCAAAATCGTATTGCGATTTTTCAT
*** * * * * *
105060 TTTATGTTGCAATAGTCTAAATTCGCATTGCGATTTTTTAT
1 TTCGCGTTGCGATAGTCCAAAATCGTATTGCGATTTTTCAT
**
105101 TTCGCGTTGCGATAGTCCAAAAT-GTATTGTAATTTTTCAT
1 TTCGCGTTGCGATAGTCCAAAATCGTATTGCGATTTTTCAT
105141 TTCGCGTTGCGATA
1 TTCGCGTTGCGATA
105155 ATCTTGTTCT
Statistics
Matches: 112, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
40 50 0.45
41 57 0.51
42 5 0.04
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTCCAAAATCGTATTGCGATTTTTCAT
Found at i:105472 original size:20 final size:20
Alignment explanation
Indices: 105420--105481 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
105410 AAACAAATGC
*
105420 AATGGAAAATCGCAATGCGA
1 AATGGAAAATCGCAAAGCGA
* **
105440 ATTTGGACTATCGCAAAGCGA
1 A-ATGGAAAATCGCAAAGCGA
*
105461 AATGGAAAATCGCAACGCGA
1 AATGGAAAATCGCAAAGCGA
105481 A
1 A
105482 TTTCGACTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (20 bp):
AATGGAAAATCGCAAAGCGA
Found at i:105511 original size:63 final size:63
Alignment explanation
Indices: 105428--105622 Score: 302
Period size: 63 Copynumber: 3.1 Consensus size: 63
105418 GCAATGGAAA
* * *
105428 ATCGC-AATGCGAATTTGGACTATCGCAAAGCGAAATGGAAAATCGCAACGCGAATTTCGACT
1 ATCGCAAATGCGATTTTGGACTATCGCAACGTGAAATGGAAAATCGCAACGCGAATTTCGACT
* *
105490 ATCGCAAATGCGATTTTGGACTATCGCAACTTAAAATGGAAAATCGCAACGCGAATTTCGACT
1 ATCGCAAATGCGATTTTGGACTATCGCAACGTGAAATGGAAAATCGCAACGCGAATTTCGACT
* * * *
105553 ATCGCAAATGCGATTTTGGACTATCGCAACGTGAAATGGTAAATCGCAATGCGATTTTGGACT
1 ATCGCAAATGCGATTTTGGACTATCGCAACGTGAAATGGAAAATCGCAACGCGAATTTCGACT
105616 ATCGCAA
1 ATCGCAA
105623 CGCGAAATGG
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
62 5 0.04
63 116 0.96
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (63 bp):
ATCGCAAATGCGATTTTGGACTATCGCAACGTGAAATGGAAAATCGCAACGCGAATTTCGACT
Found at i:105604 original size:104 final size:105
Alignment explanation
Indices: 105420--105676 Score: 328
Period size: 104 Copynumber: 2.5 Consensus size: 105
105410 AAACAAATGC
** *
105420 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAAA-GCGAAATGGAAAATCGCAACGCGAATT
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAAATGCGATTTGGAAAATCGCAACGCGAATA
* **
105484 TCGACTATCGCAAATGCGATTTTGGACTATCGCAACTTAA
66 TCGACAATCGCAAATGCGATTTTGGACTATCGCAACGCAA
* * ** *
105524 AATGGAAAATCGCAACGCGAATTTCGACTATCGCAAATGCGATTTTGGACTATCGCAACGTGAA-
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAAATGCGA-TTTGGAAAATCGCAACGCGAAT
* *
105588 ATGGTA-AATCGC-AATGCGATTTTGGACTATCGCAACGCGA
65 ATCG-ACAATCGCAAATGCGATTTTGGACTATCGCAACGCAA
105628 AATGGAAAATC-CAATGCGAATTTGGACTATCGC-AATGCGAATTTGGAAA
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAAATGCG-ATTTGGAAA
105677 CTGAGTTGCG
Statistics
Matches: 132, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
102 12 0.09
103 21 0.16
104 71 0.54
105 11 0.08
106 17 0.13
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (105 bp):
AATGGAAAATCGCAATGCGAATTTGGACTATCGCAAATGCGATTTGGAAAATCGCAACGCGAATA
TCGACAATCGCAAATGCGATTTTGGACTATCGCAACGCAA
Found at i:105676 original size:41 final size:41
Alignment explanation
Indices: 105420--105668 Score: 234
Period size: 41 Copynumber: 6.0 Consensus size: 41
105410 AAACAAATGC
*
105420 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAAAGCGA
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAACGCGA
* * *
105461 AATGGAAAATCGCAACGCGAATTTCGACTATCGCAAATGCGA
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGC-AACGCGA
** ** * ** **
105503 TTTTGGACTATCGCAA--CTTAAAATGGAAAATCGCAACGCGA
1 -AATGGAAAATCGCAATGC-GAATTTGGACTATCGCAACGCGA
* * ** * *
105544 ATTTCGACTATCGCAAATGCGATTTTGGACTATCGCAACGTGA
1 A-ATGGAAAATCGC-AATGCGAATTTGGACTATCGCAACGCGA
* *
105587 AATGGTAAATCGCAATGCGATTTTGGACTATCGCAACGCGA
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAACGCGA
*
105628 AATGGAAAATC-CAATGCGAATTTGGACTATCGCAATGCGA
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAACGCGA
105668 A
1 A
105669 TTTGGAAACT
Statistics
Matches: 169, Mismatches: 32, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
40 28 0.17
41 87 0.51
42 25 0.15
43 28 0.17
44 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (41 bp):
AATGGAAAATCGCAATGCGAATTTGGACTATCGCAACGCGA
Found at i:105733 original size:21 final size:21
Alignment explanation
Indices: 105707--105768 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
105697 CTCGTTGCGA
**
105707 TATCGCAATACGAATTTGGAC
1 TATCGCAACGCGAATTTGGAC
105728 TATCGCAACGCGAATTTGGAC
1 TATCGCAACGCGAATTTGGAC
105749 TATCGCAACGCGAATTTGGA
1 TATCGCAACGCGAATTTGGA
105769 AACTGAGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (21 bp):
TATCGCAACGCGAATTTGGAC
Found at i:106732 original size:53 final size:51
Alignment explanation
Indices: 106668--106767 Score: 123
Period size: 53 Copynumber: 1.9 Consensus size: 51
106658 AATTTATTGT
* *
106668 ATTTTTACACAAATAATTTAATAT-TAT-TTCTATTATATATATTTTTAATAAAA
1 ATTTGTACACAAATAACTTAATATATATATT-T-TTAT-TAT-TTTTTAATAAAA
*
106721 ATTTGTACACAACTAACTTAATATATATATTTTTATTATTTTTTAAT
1 ATTTGTACACAAATAACTTAATATATATATTTTTATTATTTTTTAAT
106768 TTTTTTTCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
51 8 0.19
52 3 0.07
53 25 0.60
54 4 0.10
55 2 0.05
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (51 bp):
ATTTGTACACAAATAACTTAATATATATATTTTTATTATTTTTTAATAAAA
Found at i:106999 original size:51 final size:52
Alignment explanation
Indices: 106866--106999 Score: 137
Period size: 51 Copynumber: 2.6 Consensus size: 52
106856 CTTACATCGG
* * * * **
106866 TGTAAGTATATGTTAAGTGCTACACTTTTTTATTTTATTTTATTTACTCCGA
1 TGTAATTATGTGTTAAGTGCTACACTTTTTTATTTTATATCATTTAAACCGA
** * *
106918 TGTAATTATGTGTTAAGTATTATACATTTTTATTTTA-ATCATTTAAACC-A
1 TGTAATTATGTGTTAAGTGCTACACTTTTTTATTTTATATCATTTAAACCGA
* *
106968 GTTTAATTATGTGTTAAGTGCTACATTTTTTT
1 -TGTAATTATGTGTTAAGTGCTACACTTTTTT
107000 TGTAGTATGT
Statistics
Matches: 65, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
50 1 0.02
51 33 0.51
52 31 0.48
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (52 bp):
TGTAATTATGTGTTAAGTGCTACACTTTTTTATTTTATATCATTTAAACCGA
Found at i:108191 original size:2 final size:2
Alignment explanation
Indices: 108184--108211 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
108174 TGGTCTTAAG
108184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108212 TCTAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115499 original size:30 final size:30
Alignment explanation
Indices: 115465--115521 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
115455 CAGTTAAAGT
*
115465 TCTAGATCTACTTTTATAAACTAAAAAAAA
1 TCTAGATCTACTTTTAAAAACTAAAAAAAA
115495 TCTAGATCTACTTTTAAAAACTAAAAA
1 TCTAGATCTACTTTTAAAAACTAAAAA
115522 CAAGTGCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (30 bp):
TCTAGATCTACTTTTAAAAACTAAAAAAAA
Found at i:117834 original size:20 final size:21
Alignment explanation
Indices: 117798--117843 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
117788 ATTGCCAAAT
117798 TATTATAAAATTATCATTAAA
1 TATTATAAAATTATCATTAAA
117819 TATTATAAAA-TATCATTAAA
1 TATTATAAAATTATCATTAAA
117839 T-TTAT
1 TATTAT
117844 CGAAATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TATTATAAAATTATCATTAAA
Found at i:119457 original size:20 final size:21
Alignment explanation
Indices: 119432--119470 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
119422 ATTTTTATTC
*
119432 AATAAAAACAAG-AATTTAAT
1 AATAAAAAAAAGTAATTTAAT
119452 AATAAAAAAAAGTAATTTA
1 AATAAAAAAAAGTAATTTA
119471 TGAAGGGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (21 bp):
AATAAAAAAAAGTAATTTAAT
Found at i:128256 original size:4 final size:4
Alignment explanation
Indices: 128247--128271 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
128237 AATTATGCAT
128247 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
128272 TACTAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:128420 original size:17 final size:17
Alignment explanation
Indices: 128395--128427 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
128385 AAATTAAATA
128395 AAATATTAAA-AAATTT
1 AAATATTAAATAAATTT
128411 AAATACTTAAATAAATT
1 AAATA-TTAAATAAATT
128428 AAAAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATTAAATAAATTT
Found at i:128429 original size:17 final size:16
Alignment explanation
Indices: 128389--128446 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 16
128379 TAAAAAAAAT
*
128389 TAAATAAAATATTAAA
1 TAAATTAAATATTAAA
128405 -AAATTTAAATACTTAAA
1 TAAA-TTAAATA-TTAAA
*
128422 TAAATTAAA-AATAAA
1 TAAATTAAATATTAAA
128437 T--ATTAAATAT
1 TAAATTAAATAT
128447 AATAAAATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
13 6 0.17
14 1 0.03
15 8 0.23
16 7 0.20
17 10 0.29
18 3 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATTAAATATTAAA
Found at i:128437 original size:29 final size:30
Alignment explanation
Indices: 128388--128445 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
128378 GTAAAAAAAA
*
128388 TTAAATAAAATATTAAAAAAT-TTAAATAC
1 TTAAATAAAATATAAAAAAATATTAAATAC
*
128417 TTAAATAAATTA-AAAATAAATATTAAATA
1 TTAAATAAAATATAAAA-AAATATTAAATA
128446 TAATAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 15 0.60
30 7 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (30 bp):
TTAAATAAAATATAAAAAAATATTAAATAC
Found at i:128445 original size:22 final size:23
Alignment explanation
Indices: 128410--128453 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
128400 TTAAAAAATT
128410 TAAATACTTAAATA-AATTAAAAA
1 TAAATACTTAAATATAA-TAAAAA
128433 TAAATA-TTAAATATAATAAAA
1 TAAATACTTAAATATAATAAAA
128454 TACCTTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAATACTTAAATATAATAAAAA
Found at i:128455 original size:40 final size:39
Alignment explanation
Indices: 128382--128479 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 39
128372 ATATCTGTAA
* *
128382 AAAAAATTAAATA-AAATATTAAAAAATTTAAATA-CTT
1 AAAAAATTAAAAATAAATATTAAAAAATTAAAATACCTT
128419 AAATAAATTAAAAATAAATATTAAATATAA-TAAAATACCTT
1 AAA-AAATTAAAAATAAATATTAAA-A-AATTAAAATACCTT
*
128460 AAACAATT-AAAATAGAATAT
1 AAAAAATTAAAAATA-AATAT
128480 AAGAGTATTG
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
37 3 0.06
38 9 0.17
39 16 0.31
40 16 0.31
41 8 0.15
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (39 bp):
AAAAAATTAAAAATAAATATTAAAAAATTAAAATACCTT
Found at i:128472 original size:39 final size:38
Alignment explanation
Indices: 128385--128479 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 38
128375 TCTGTAAAAA
*
128385 AAATT-AAATAAAATATTAAAAAATTTAAATACTTAAAT
1 AAATTAAAAT-AAATATTAAAAAATTAAAATACTTAAAT
128423 AAATTAAAAATAAATATTAAATATAA-TAAAATACCTTAAA-
1 AAATT-AAAATAAATATTAAA-A-AATTAAAATA-CTTAAAT
*
128463 CAATTAAAATAGAATAT
1 AAATTAAAATA-AATAT
128480 AAGAGTATTG
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
38 5 0.10
39 16 0.33
40 20 0.41
41 8 0.16
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (38 bp):
AAATTAAAATAAATATTAAAAAATTAAAATACTTAAAT
Found at i:129242 original size:16 final size:16
Alignment explanation
Indices: 129221--129251 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
129211 TTTAAAATAT
129221 TGAACTTATTATTATA
1 TGAACTTATTATTATA
129237 TGAACTTATTATTAT
1 TGAACTTATTATTAT
129252 TTATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
TGAACTTATTATTATA
Found at i:131621 original size:16 final size:15
Alignment explanation
Indices: 131592--131626 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
131582 AAATAATAAT
131592 AAATAAATTATATTA
1 AAATAAATTATATTA
*
131607 AAATAAAATTTTATTA
1 AAAT-AAATTATATTA
131623 AAAT
1 AAAT
131627 CATTTAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATAAATTATATTA
Found at i:131687 original size:11 final size:11
Alignment explanation
Indices: 131673--131702 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
131663 TTAATATTTA
131673 TTTAAATTATT
1 TTTAAATTATT
131684 TTTAAAATTATT
1 TTT-AAATTATT
131696 TTTAAAT
1 TTTAAAT
131703 AATAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAAATTATT
Found at i:131693 original size:12 final size:12
Alignment explanation
Indices: 131676--131701 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
131666 ATATTTATTT
131676 AAATTATTTTTA
1 AAATTATTTTTA
131688 AAATTATTTTTA
1 AAATTATTTTTA
131700 AA
1 AA
131702 TAATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAATTATTTTTA
Found at i:131770 original size:113 final size:114
Alignment explanation
Indices: 131564--131773 Score: 300
Period size: 113 Copynumber: 1.8 Consensus size: 114
131554 ACGATTTTAA
*
131564 TATTTTTAAACTATTTTTAAATAATAATAAATAAATTATATTAAAATAAAATTTTATTAAAATCA
1 TATTTTTAAACTATTTTTAAATAATAAT-AATAAA-TATATTAAAATAAAATTATATTAAAATCA
*
131629 TTTAAAGAATCCAAATCGCAAAAAAAAAATAAATTTAATATTTATTTAAAT
64 TTTAAAGAATCCAAATCACAAAAAAAAAATAAATTTAATATTTATTTAAAT
* *
131680 TATTTTTAAAATTATTTTTAAATAATAAT-ATAAA-ATATTATAAATAAAATTATATT-AAATTA
1 TATTTTT-AAACTATTTTTAAATAATAATAATAAATATATTA-AAATAAAATTATATTAAAATCA
* * *
131742 TTTAGAGAATTCAAATCACAAAATAAAAATAA
64 TTTAAAGAATCCAAATCACAAAAAAAAAATAA
131774 TTAACTTAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
113 39 0.46
114 14 0.16
115 5 0.06
116 7 0.08
117 20 0.24
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (114 bp):
TATTTTTAAACTATTTTTAAATAATAATAATAAATATATTAAAATAAAATTATATTAAAATCATT
TAAAGAATCCAAATCACAAAAAAAAAATAAATTTAATATTTATTTAAAT
Found at i:131886 original size:2 final size:2
Alignment explanation
Indices: 131881--131908 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
131871 TTAATAATTA
131881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131909 GTATGTGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:133443 original size:26 final size:26
Alignment explanation
Indices: 133407--133464 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
133397 TGAAATGAAA
133407 TGAAAACTAAACGTTATGTATGGTTT
1 TGAAAACTAAACGTTATGTATGGTTT
133433 TGAAAACTAAACGTTATGTATGGTTT
1 TGAAAACTAAACGTTATGTATGGTTT
133459 TGAAAA
1 TGAAAA
133465 AATTGCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (26 bp):
TGAAAACTAAACGTTATGTATGGTTT
Found at i:134310 original size:31 final size:31
Alignment explanation
Indices: 134272--134378 Score: 92
Period size: 31 Copynumber: 3.4 Consensus size: 31
134262 CATTCTGAAT
134272 CATTCAGAGCCAGTTATCAAAAAACATGTCA
1 CATTCAGAGCCAGTTATCAAAAAACATGTCA
* * * * * * * *
134303 CATTCAGAGCCA--AACCATTCAGAGCCTCTGAA
1 CATTCAGAGCCAGTTATCA--AAAAACATGT-CA
134335 TCATTCAGAGCCAGTTATCAAAAAACATGTCA
1 -CATTCAGAGCCAGTTATCAAAAAACATGTCA
134367 CATTCAGAGCCA
1 CATTCAGAGCCA
134379 ACCATTCAGA
Statistics
Matches: 54, Mismatches: 16, Indels: 12
0.66 0.20 0.15
Matches are distributed among these distances:
29 3 0.06
31 29 0.54
32 2 0.04
33 17 0.31
35 3 0.06
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.21
Consensus pattern (31 bp):
CATTCAGAGCCAGTTATCAAAAAACATGTCA
Found at i:134393 original size:63 final size:64
Alignment explanation
Indices: 134265--134401 Score: 267
Period size: 64 Copynumber: 2.2 Consensus size: 64
134255 AGAAGTACAT
134265 TCTGAATCATTCAGAGCCAGTTATCAAAAAACATGTCACATTCAGAGCCAAACCATTCAGAGCC
1 TCTGAATCATTCAGAGCCAGTTATCAAAAAACATGTCACATTCAGAGCCAAACCATTCAGAGCC
134329 TCTGAATCATTCAGAGCCAGTTATCAAAAAACATGTCACATTCAGAGCC-AACCATTCAGAGCC
1 TCTGAATCATTCAGAGCCAGTTATCAAAAAACATGTCACATTCAGAGCCAAACCATTCAGAGCC
134392 TCTGAATCAT
1 TCTGAATCAT
134402 CCAGCGCTTA
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 24 0.33
64 49 0.67
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.23
Consensus pattern (64 bp):
TCTGAATCATTCAGAGCCAGTTATCAAAAAACATGTCACATTCAGAGCCAAACCATTCAGAGCC
Found at i:135516 original size:2 final size:2
Alignment explanation
Indices: 135511--135553 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
135501 TCTCTCTCTC
135511 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
135553 T
1 T
135554 GTAGTTCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:135918 original size:16 final size:16
Alignment explanation
Indices: 135872--135919 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
135862 TTCATATAAA
* *
135872 AATAAATATTCAAATT
1 AATAAATATTTAATTT
*
135888 AATAAATATAATAATTT
1 AATAAATAT-TTAATTT
*
135905 ATTAAATATTTAATT
1 AATAAATATTTAATT
135920 AGATAGGGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATATTTAATTT
Done.