Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 124 of 127
Found at i:24711575 original size:6 final size:6
Alignment explanation
Indices: 24711556--24711590 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
24711546 AACCGCTAGT
*
24711556 CTTCTG CTTGTG CTTCTG CTTCTG CTTCTG CTTCT
1 CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CTTCT
24711591 TCATCTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.17, T:0.51
Consensus pattern (6 bp):
CTTCTG
Found at i:24715890 original size:8 final size:8
Alignment explanation
Indices: 24715877--24715907 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
24715867 CATAGTGTTC
24715877 ATAAATAT
1 ATAAATAT
24715885 ATAAATAT
1 ATAAATAT
*
24715893 ATAAATAA
1 ATAAATAT
24715901 ATAAATA
1 ATAAATA
24715908 GGAAACTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
ATAAATAT
Found at i:24722060 original size:17 final size:17
Alignment explanation
Indices: 24722038--24722073 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24722028 TTTTTTTATA
24722038 TTCAAAAGATATTCTTG
1 TTCAAAAGATATTCTTG
24722055 TTCAAAAGATATTCTTG
1 TTCAAAAGATATTCTTG
24722072 TT
1 TT
24722074 TACTTGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (17 bp):
TTCAAAAGATATTCTTG
Found at i:24723725 original size:371 final size:371
Alignment explanation
Indices: 24723028--24723853 Score: 1582
Period size: 371 Copynumber: 2.2 Consensus size: 371
24723018 CAGACCCAAG
24723028 TGTCACGGACCTAA-GGGGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
1 TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
*
24723092 AAAAAGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCAAGGG
66 AAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCAAGGG
24723157 AGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGGTCAGGCTGATCCGGGACGCCG
131 AGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGGTCAGGCTGATCCGGGACGCCG
24723222 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAG
196 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAG
24723287 TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCGAGGGAGGTAGGCAGGGT
261 TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCGAGGGAGGTAGGCAGGGT
24723352 GGCCGGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
326 GGCCGGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
24723398 TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
1 TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
*
24723463 AAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGG
66 AAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCAAGGG
24723528 AGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGGTCAGGCTGATCCGGGACGCCG
131 AGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGGTCAGGCTGATCCGGGACGCCG
24723593 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAG
196 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAG
*
24723658 TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCGCCTCGAGGGAGGTAGGCAGGGT
261 TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCGAGGGAGGTAGGCAGGGT
24723723 GGCCGGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
326 GGCCGGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
* * * *
24723769 TGTCATGGACCCAAGGGAGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCACTGGGGTAT
1 TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
24723834 AAAAGGGTTCACACCATCTC
66 AAAAGGGTTCACACCATCTC
24723854 TTGTGAGGGC
Statistics
Matches: 448, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
370 14 0.03
371 434 0.97
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (371 bp):
TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
AAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCAAGGG
AGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGGTCAGGCTGATCCGGGACGCCG
GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAG
TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCGAGGGAGGTAGGCAGGGT
GGCCGGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
Found at i:24735898 original size:40 final size:40
Alignment explanation
Indices: 24735839--24735920 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
24735829 GTATCAGAGC
24735839 ATTAAATAGTATGACACTAAGCCAAAGTTAAAATGTCGCA
1 ATTAAATAGTATGACACTAAGCCAAAGTTAAAATGTCGCA
*
24735879 ATTAAATAGTATGAGACTAAGCCAAAGTTAAAATGTCGCA
1 ATTAAATAGTATGACACTAAGCCAAAGTTAAAATGTCGCA
24735919 AT
1 AT
24735921 GAAACCTGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (40 bp):
ATTAAATAGTATGACACTAAGCCAAAGTTAAAATGTCGCA
Found at i:24739012 original size:27 final size:27
Alignment explanation
Indices: 24738974--24739098 Score: 196
Period size: 27 Copynumber: 4.6 Consensus size: 27
24738964 GGACAAGGAG
* * * *
24738974 AGCGAGGGATGAACTGGTGAGCCAGTA
1 AGCGATGGATGAAGTGGTGAACCAGCA
24739001 AGCGATGGATGAAGTGGTGAACCAGCA
1 AGCGATGGATGAAGTGGTGAACCAGCA
*
24739028 AGCGATGGATGAAGTGGTGAACCGGCA
1 AGCGATGGATGAAGTGGTGAACCAGCA
*
24739055 AGCGATGGATGAAGTGGTGAACCTGCA
1 AGCGATGGATGAAGTGGTGAACCAGCA
24739082 AGCGATGGATGAAGTGG
1 AGCGATGGATGAAGTGG
24739099 GGTTGAATTC
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.30, C:0.14, G:0.40, T:0.16
Consensus pattern (27 bp):
AGCGATGGATGAAGTGGTGAACCAGCA
Found at i:24747137 original size:19 final size:19
Alignment explanation
Indices: 24747113--24747155 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
24747103 ATTTTTATTT
* *
24747113 TATAAAATTTTAAAAAATA
1 TATAAAAATTAAAAAAATA
24747132 TATAAAAATTAAAAAAATA
1 TATAAAAATTAAAAAAATA
24747151 TATAA
1 TATAA
24747156 TTCTGTTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATTAAAAAAATA
Found at i:24747232 original size:13 final size:13
Alignment explanation
Indices: 24747195--24747233 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
24747185 TCATCTTTTG
24747195 ATCTAAACTTAAT
1 ATCTAAACTTAAT
* * *
24747208 ATATACATTTAAT
1 ATCTAAACTTAAT
24747221 ATCTAAACTTAAT
1 ATCTAAACTTAAT
24747234 CCAAACGGAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (13 bp):
ATCTAAACTTAAT
Found at i:24749605 original size:20 final size:20
Alignment explanation
Indices: 24749580--24749618 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24749570 GTACTAGACC
24749580 AGATTCCGTATCATTTAAAA
1 AGATTCCGTATCATTTAAAA
*
24749600 AGATTCCTTATCATTTAAA
1 AGATTCCGTATCATTTAAA
24749619 TGCTATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (20 bp):
AGATTCCGTATCATTTAAAA
Found at i:24758526 original size:6 final size:6
Alignment explanation
Indices: 24758511--24758546 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
24758501 ATCGCCAGTA
*
24758511 TTTTGTT TTTTGT TTTTGT TTTTGT TTTTTT TTTTG
1 TTTTG-T TTTTGT TTTTGT TTTTGT TTTTGT TTTTG
24758547 CAAGATCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:24758535 original size:19 final size:18
Alignment explanation
Indices: 24758511--24758546 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
24758501 ATCGCCAGTA
24758511 TTTTGTTTTTTGTTTTTGT
1 TTTTGTTTTTT-TTTTTGT
24758530 TTTTGTTTTTTTTTTTG
1 TTTTGTTTTTTTTTTTG
24758547 CAAGATCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (18 bp):
TTTTGTTTTTTTTTTTGT
Found at i:24760212 original size:5 final size:5
Alignment explanation
Indices: 24760202--24760241 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
24760192 TCCTTTTGTC
24760202 TTCTT TTCTT TTCTT TTCTT TTCCTT TT-TT TT-TT TT-TT TT
1 TTCTT TTCTT TTCTT TTCTT TT-CTT TTCTT TTCTT TTCTT TT
24760242 GGGTTTCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 12 0.35
5 17 0.50
6 5 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTCTT
Found at i:24760238 original size:15 final size:16
Alignment explanation
Indices: 24760191--24760237 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
24760181 TTTGGATTCC
* *
24760191 TTCCTTTTGTCTTCTT
1 TTCCTTTTCTTTTCTT
24760207 TT-CTTTTCTTTTCTT
1 TTCCTTTTCTTTTCTT
24760222 TTCCTTTT-TTTT-TT
1 TTCCTTTTCTTTTCTT
24760236 TT
1 TT
24760238 TTTTGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.14
15 17 0.61
16 7 0.25
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (16 bp):
TTCCTTTTCTTTTCTT
Found at i:24763436 original size:42 final size:42
Alignment explanation
Indices: 24763377--24763463 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
24763367 AGAAGGATTT
*
24763377 AGACACTGACCTTTTAAAAGATCTAGCAGATACAAATGACAA
1 AGACACTGACCTTTTAAAAGATCTAGCAGACACAAATGACAA
24763419 AGACACTGACCTTTTAAAAGATCTAGCAGACACAAATGACAA
1 AGACACTGACCTTTTAAAAGATCTAGCAGACACAAATGACAA
24763461 AGA
1 AGA
24763464 TAAATTTACA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (42 bp):
AGACACTGACCTTTTAAAAGATCTAGCAGACACAAATGACAA
Found at i:24766034 original size:7 final size:8
Alignment explanation
Indices: 24766018--24766042 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24766008 ATTAAATTTT
24766018 AAATTAAA
1 AAATTAAA
24766026 AAATTAAA
1 AAATTAAA
24766034 AAATTAAA
1 AAATTAAA
24766042 A
1 A
24766043 CAAATTAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATTAAA
Found at i:24766082 original size:17 final size:20
Alignment explanation
Indices: 24766062--24766100 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
24766052 TTATATATTT
24766062 TTAA-AATTTT-TAT-AAAA
1 TTAATAATTTTATATCAAAA
24766079 TTAATAATTTTATATCAAAA
1 TTAATAATTTTATATCAAAA
24766099 TT
1 TT
24766101 TAATTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 6 0.32
19 3 0.16
20 6 0.32
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAATAATTTTATATCAAAA
Found at i:24766190 original size:5 final size:5
Alignment explanation
Indices: 24766182--24766215 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
24766172 AAACTAAAAA
24766182 AATTC AATTC AATTC AATTC AATTC AATTC AATT
1 AATTC AATTC AATTC AATTC AATTC AATTC AATT
24766216 TGCATTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTC
Found at i:24776215 original size:15 final size:15
Alignment explanation
Indices: 24776181--24776215 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24776171 AGATGTAACA
*
24776181 ATTCTCATTTATTTT
1 ATTCTCATTTATTTC
*
24776196 GTTCTCATTTATTTC
1 ATTCTCATTTATTTC
24776211 ATTCT
1 ATTCT
24776216 TATAGGATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.03, T:0.63
Consensus pattern (15 bp):
ATTCTCATTTATTTC
Found at i:24778223 original size:26 final size:26
Alignment explanation
Indices: 24778187--24778241 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
24778177 TCTAAAGAGC
24778187 ACTTAAAGCTTCTATATATCTTTTTT
1 ACTTAAAGCTTCTATATATCTTTTTT
*
24778213 ACTTAAAGCTTCTATGTATCTTTTTT
1 ACTTAAAGCTTCTATATATCTTTTTT
24778239 ACT
1 ACT
24778242 GTAAGGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.53
Consensus pattern (26 bp):
ACTTAAAGCTTCTATATATCTTTTTT
Found at i:24780964 original size:2 final size:2
Alignment explanation
Indices: 24780952--24780985 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
24780942 AAAGAAACGT
*
24780952 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24780986 ATCCCTCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:24783067 original size:24 final size:24
Alignment explanation
Indices: 24783035--24783090 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
24783025 AAAGATAAAT
*
24783035 TCCATCATAATCTAACAGGCCACA
1 TCCATCATAATCTAACAGGCCAAA
24783059 TCCATCATAATCTAACAGGCCAAA
1 TCCATCATAATCTAACAGGCCAAA
24783083 TCCATCAT
1 TCCATCAT
24783091 CAACAAGAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.38, C:0.32, G:0.07, T:0.23
Consensus pattern (24 bp):
TCCATCATAATCTAACAGGCCAAA
Found at i:24784202 original size:79 final size:79
Alignment explanation
Indices: 24784071--24784222 Score: 259
Period size: 79 Copynumber: 1.9 Consensus size: 79
24784061 CAGTGTGGAA
* *
24784071 TTGGCACAGTTAAAGGGTGCCATTCAGTTTGTTAATCAATAGTCAGACAATGCACCTAGCACTTA
1 TTGGCACAGTTAAAGGGTGCCATTCACTTTGTTAATCAATAGTCAGACAATGCACCCAGCACTTA
24784136 AATGCAGGATGATG
66 AATGCAGGATGATG
* * *
24784150 TTGGCACAGTTAAAGGTTGCTATTCACTTTGTTAATCAATAGTCAGGCAATGCACCCAGCACTTA
1 TTGGCACAGTTAAAGGGTGCCATTCACTTTGTTAATCAATAGTCAGACAATGCACCCAGCACTTA
24784215 AATGCAGG
66 AATGCAGG
24784223 TAACTGTCTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (79 bp):
TTGGCACAGTTAAAGGGTGCCATTCACTTTGTTAATCAATAGTCAGACAATGCACCCAGCACTTA
AATGCAGGATGATG
Found at i:24790331 original size:18 final size:18
Alignment explanation
Indices: 24790308--24790345 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
24790298 CATTCCCAAT
24790308 TCCCAGTCATCTCACAAC
1 TCCCAGTCATCTCACAAC
24790326 TCCCAGTCATCTCACAAC
1 TCCCAGTCATCTCACAAC
24790344 TC
1 TC
24790346 GTTCACTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.45, G:0.05, T:0.24
Consensus pattern (18 bp):
TCCCAGTCATCTCACAAC
Found at i:24790734 original size:24 final size:23
Alignment explanation
Indices: 24790687--24790742 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
24790677 AACATATACG
*
24790687 ATATAAAAATAATATAACTAAAAA
1 ATATAAAAATAACATAACT-AAAA
* *
24790711 ATATAAAAATAACATAATTTAAA
1 ATATAAAAATAACATAACTAAAA
*
24790734 ATTTAAAAA
1 ATATAAAAA
24790743 ATTTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (23 bp):
ATATAAAAATAACATAACTAAAA
Found at i:24790753 original size:10 final size:9
Alignment explanation
Indices: 24790731--24790769 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
24790721 AACATAATTT
*
24790731 AAAATTTAA
1 AAAAATTAA
*
24790740 AAAATTTAA
1 AAAAATTAA
24790749 AAAAATTAA
1 AAAAATTAA
24790758 ATAAAATTAA
1 A-AAAATTAA
24790768 AA
1 AA
24790770 TATTATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATTAA
Found at i:24790813 original size:25 final size:27
Alignment explanation
Indices: 24790755--24790829 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 27
24790745 TTAAAAAAAT
*
24790755 TAAATAAAATTAAAATAT-TATATTTTA
1 TAAAT-AAATTATAATATATATATTTTA
24790782 TAAATAAATTATAATATATA-ATTTT-
1 TAAATAAATTATAATATATATATTTTA
* ** *
24790807 TATATAAAACATAATATAAATAT
1 TAAATAAATTATAATATATATAT
24790830 AACATTTTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 16 0.39
26 18 0.44
27 7 0.17
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
TAAATAAATTATAATATATATATTTTA
Found at i:24791082 original size:21 final size:20
Alignment explanation
Indices: 24791045--24791084 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
24791035 AGATTTTTTT
*
24791045 TTTTAAATTATACATGATAA
1 TTTTAAATTAAACATGATAA
*
24791065 TTTTAAATATAAATATGATA
1 TTTTAAAT-TAAACATGATA
24791085 TGATAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTTAAATTAAACATGATAA
Found at i:24791117 original size:22 final size:23
Alignment explanation
Indices: 24791089--24791132 Score: 72
Period size: 22 Copynumber: 1.9 Consensus size: 23
24791079 ATGATATGAT
24791089 AATAAAATATA-AAAATAATACG
1 AATAAAATATACAAAATAATACG
24791111 AATAAAATATACGAAAATAATA
1 AATAAAATATAC-AAAATAATA
24791133 TGATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.55
24 9 0.45
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (23 bp):
AATAAAATATACAAAATAATACG
Found at i:24794074 original size:75 final size:75
Alignment explanation
Indices: 24793973--24794118 Score: 256
Period size: 75 Copynumber: 1.9 Consensus size: 75
24793963 GATGGGAAGT
*
24793973 AAATAATCAATCCAAGAAGGAAGTTATGACTAGTACAAACCCACAAATTTCAAGATATTTATTAA
1 AAATAATCAATCCAACAAGGAAGTTATGACTAGTACAAACCCACAAATTTCAAGATATTTATTAA
24794038 AATCATTTGC
66 AATCATTTGC
** *
24794048 AAATAATCAATCCAACAAGGGTGTTATGACTGGTACAAACCCACAAATTTCAAGATATTTATTAA
1 AAATAATCAATCCAACAAGGAAGTTATGACTAGTACAAACCCACAAATTTCAAGATATTTATTAA
24794113 AATCAT
66 AATCAT
24794119 CTGCCATATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (75 bp):
AAATAATCAATCCAACAAGGAAGTTATGACTAGTACAAACCCACAAATTTCAAGATATTTATTAA
AATCATTTGC
Found at i:24796171 original size:33 final size:36
Alignment explanation
Indices: 24796107--24796183 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 36
24796097 ACGTCCCCTT
24796107 TTTCTTTTCATTTATCTCCGTATTTCCATATTTT-A
1 TTTCTTTTCATTTATCTCCGTATTTCCATATTTTAA
*
24796142 TTTCTTTTC-TTT-TCTCTC-TATTTCTATATTTTAA
1 TTTCTTTTCATTTATCTC-CGTATTTCCATATTTTAA
*
24796176 TTTATTTT
1 TTTCTTTT
24796184 TATTAATTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 17 0.45
34 12 0.32
35 9 0.24
ACGTcount: A:0.16, C:0.17, G:0.01, T:0.66
Consensus pattern (36 bp):
TTTCTTTTCATTTATCTCCGTATTTCCATATTTTAA
Found at i:24805388 original size:3 final size:3
Alignment explanation
Indices: 24805380--24805414 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
24805370 CGCTCTGCAA
24805380 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24805415 ACAGTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24811494 original size:24 final size:25
Alignment explanation
Indices: 24811444--24811501 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
24811434 AAATAATAAT
24811444 AAAAA-TTATTATAATTATGATTAA
1 AAAAATTTATTATAATTATGATTAA
* *
24811468 AAAAATTTATTGTAATTGTGATTAA
1 AAAAATTTATTATAATTATGATTAA
24811493 AAAAATTTA
1 AAAAATTTA
24811502 ATAAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (25 bp):
AAAAATTTATTATAATTATGATTAA
Found at i:24812894 original size:116 final size:116
Alignment explanation
Indices: 24812690--24812902 Score: 354
Period size: 116 Copynumber: 1.8 Consensus size: 116
24812680 TATTTAAGAC
* *
24812690 ATCTCATTCAGATTTTCTATTGATATGAGATTTTTTACTCACATGTGAACCATATCCCAACAATC
1 ATCTCATTCAGATTTTCTACTGATATGAGATTTTTTACTCACATGTAAACCATATCCCAACAATC
* *
24812755 TCTCCCGTTTACTTGTGAGTTCTAATCAAGTCTCACCTTAGCTCCCTTGTG
66 TCTCCCGTTCACTTATGAGTTCTAATCAAGTCTCACCTTAGCTCCCTTGTG
* * **
24812806 ATCTCATTCAGATTTTCTACTGATGTGAGATTTTTTACTGACATGTAAACCATATTTCAACAATC
1 ATCTCATTCAGATTTTCTACTGATATGAGATTTTTTACTCACATGTAAACCATATCCCAACAATC
24812871 TCTCCCGTTCACTTATGAGTTCTAATCAAGTC
66 TCTCCCGTTCACTTATGAGTTCTAATCAAGTC
24812903 CCACATCGGC
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 89 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (116 bp):
ATCTCATTCAGATTTTCTACTGATATGAGATTTTTTACTCACATGTAAACCATATCCCAACAATC
TCTCCCGTTCACTTATGAGTTCTAATCAAGTCTCACCTTAGCTCCCTTGTG
Found at i:24813507 original size:232 final size:233
Alignment explanation
Indices: 24813101--24813544 Score: 651
Period size: 232 Copynumber: 1.9 Consensus size: 233
24813091 TGGGCAGGCT
* *
24813101 ACACCACTCAACCTTACCACTTAGATTGTCTCAGTGCTCCCTAAAGCTTACATTAAAGGTTGACT
1 ACACCACTCAACCTTACCACTTAAATTGTCTCAGTGCTCACTAAAGCTTACATTAAAGGTTGACT
* * ** * **
24813166 CAACACATCGTCCACTTGGGTGTTTTGATTCTGCATATTATCATATACTCGCTGTATTTAAGTTG
66 CAACACATCCTCCACTTGGGTGTTTTGATTCTACATATTATCATATACTCGCTACATTCAAGTCA
* *
24813231 AATCTTTTAATATCAACATTCGAGCACATAGAGTTGATGGACGTGACTAACCTTCGATCTACCAA
131 AATATTTTAATATCAACATTCGAGCACATAGAGTTGATGGACGTGACCAACCTTCGATCTACCAA
24813296 CAATCT-CTTTAATACCAATATTTTTTTAGAACAGGTC
196 CAATCTCCTTTAATACCAATATTTTTTTAGAACAGGTC
* * **
24813333 ACACCACTCAACCTTACCACTTAAATTGTCTCAGTGTTCATTCAAA-CTTACATTCTAGGTTGAC
1 ACACCACTCAACCTTACCACTTAAATTGTCTCAGTGCTCACT-AAAGCTTACATTAAAGGTTGAC
* *
24813397 TCAACACATCACT-CACTTGGGTGTTTTGATTCTACATATTATTATATACTTGCTACATTCAAGT
65 TCAACACATC-CTCCACTTGGGTGTTTTGATTCTACATATTATCATATACTCGCTACATTCAAGT
* ** *
24813461 CAAATATTTTAATATCGATGTTCGAGCACATGGAGTTGATGGACGTGACCAACCTTCGATCTACC
129 CAAATATTTTAATATCAACATTCGAGCACATAGAGTTGATGGACGTGACCAACCTTCGATCTACC
*
24813526 AATAATCTCCTTTAATACC
194 AACAATCTCCTTTAATACC
24813545 GGTGTTCAAG
Statistics
Matches: 187, Mismatches: 22, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
232 173 0.93
233 14 0.07
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (233 bp):
ACACCACTCAACCTTACCACTTAAATTGTCTCAGTGCTCACTAAAGCTTACATTAAAGGTTGACT
CAACACATCCTCCACTTGGGTGTTTTGATTCTACATATTATCATATACTCGCTACATTCAAGTCA
AATATTTTAATATCAACATTCGAGCACATAGAGTTGATGGACGTGACCAACCTTCGATCTACCAA
CAATCTCCTTTAATACCAATATTTTTTTAGAACAGGTC
Found at i:24821641 original size:19 final size:19
Alignment explanation
Indices: 24821617--24821653 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
24821607 CTGAAGATGC
24821617 GGAAGA-GGAAGCAAGGAGA
1 GGAAGATGGAAGC-AGGAGA
24821636 GGAAGATGGAAGCAGGAG
1 GGAAGATGGAAGCAGGAG
24821654 GTATGGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.43, C:0.05, G:0.49, T:0.03
Consensus pattern (19 bp):
GGAAGATGGAAGCAGGAGA
Found at i:24864652 original size:12 final size:12
Alignment explanation
Indices: 24864635--24864659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24864625 GGCTGTACGA
24864635 ACCCTTGAAATG
1 ACCCTTGAAATG
24864647 ACCCTTGAAATG
1 ACCCTTGAAATG
24864659 A
1 A
24864660 TTTCCTTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ACCCTTGAAATG
Found at i:24871456 original size:21 final size:19
Alignment explanation
Indices: 24871416--24871458 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
24871406 TATCATTATG
* *
24871416 TATATATATAATTTATATA
1 TATATATATAAATGATATA
24871435 TATATATATAAAATGATA-A
1 TATATATAT-AAATGATATA
24871454 TATAT
1 TATAT
24871459 TGATTCACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TATATATATAAATGATATA
Found at i:24881861 original size:2 final size:2
Alignment explanation
Indices: 24881854--24881883 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24881844 CACAGCCAAC
24881854 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
24881884 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24881888 original size:2 final size:2
Alignment explanation
Indices: 24881883--24881911 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24881873 ATATATATAT
24881883 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
24881912 TGAAACAAGT
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:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24888695 original size:22 final size:22
Alignment explanation
Indices: 24888670--24888713 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
24888660 CTATATTTTT
24888670 ATATTTGTATCGTTAAAATTAA
1 ATATTTGTATCGTTAAAATTAA
*
24888692 ATATTTGTATCTTTAAAATTAA
1 ATATTTGTATCGTTAAAATTAA
24888714 GGATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (22 bp):
ATATTTGTATCGTTAAAATTAA
Found at i:24892758 original size:20 final size:22
Alignment explanation
Indices: 24892731--24892774 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24892721 TGTATATTTA
* *
24892731 TATTTTTATCTCTAGAATTAAG
1 TATTTATATCCCTAGAATTAAG
24892753 TATTTATATCCCTAGAATTAAG
1 TATTTATATCCCTAGAATTAAG
24892775 GATAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (22 bp):
TATTTATATCCCTAGAATTAAG
Found at i:24907425 original size:11 final size:12
Alignment explanation
Indices: 24907389--24907425 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
24907379 AAATTAATAT
24907389 TTAATTATTTTA
1 TTAATTATTTTA
24907401 -TAATTTATTTTA
1 TTAA-TTATTTTA
24907413 TTAATT-TTTTA
1 TTAATTATTTTA
24907424 TT
1 TT
24907426 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 10 0.43
12 10 0.43
13 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTATTTTA
Found at i:24908547 original size:369 final size:366
Alignment explanation
Indices: 24907783--24908729 Score: 1313
Period size: 369 Copynumber: 2.6 Consensus size: 366
24907773 GTTTCAAAAT
* * *
24907783 CCGGACATTCACCCTTCCGATATCTCAGATCAGCCTTCCGCCATGGTTCACATCCTTGTGAGGTA
1 CCGGACATTCACCCTTCCGGTATCTCAGATCAGCCTTCCGTCATGGTTCACACCCTTGTGAGGTA
* * * * * *
24907848 TTATCCGCTCTGACCCCCTGACCTCACGGTTTTATCCTACAAAAGGTACCTCATAAGACGGAGAT
66 TTGTCCACTCTGACCCCCTGACCTCACGGTTTTGTCCTACAAAAGGTGCCTCAAAAG-C-AAGAT
* * *
24907913 GGTGTGAACCTTTTTATACCCCAATGACCTTCTTATTATATTCGATATGGGATTCAGGACTCCCC
129 GGTGTGAACCCTTTTATACCCCAGTGACCTTCTTATTATATTCGATGT-GGATTCAGGACTCCCC
*
24907978 -TTAGGTCCGTGACATTCTTCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGACTGATCACCC
193 TTTAGGTCCGTGACATTCTTCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGACTGACCACCC
* * *
24908042 TGCCTACCTCCCTCGAGATGCTTGACGTGGATCAAACGGTTTATGGCTGGTTCTGATACCACTTG
258 TGCCTACCTCCCTCGAGATGCTTGACGTGGATCAAACGGGTTAGGGCTGGCTCTGATACCACTTG
* * *
24908107 TCACGGGTTGAGACTTAAGCTCCAAACTTGCACGGCTCCGGGAC
323 TCACGGGTCGAGACTTAAGCTCCAAACTCGCACGACTCCGGGAC
* * *
24908151 CTGGGCATTCACCCTTCCGGTATCTCAGATCAGCCTTCCATCATGGTTCACACCCTTGTGAGGTA
1 CCGGACATTCACCCTTCCGGTATCTCAGATCAGCCTTCCGTCATGGTTCACACCCTTGTGAGGTA
* *
24908216 TTGTCCACTCTGACCCCCTGGCCTCACGGTTTTGTCCTACAAAAGGTGCCTCACAAAGCATAAAT
66 TTGTCCACTCTGACCCCCTGACCTCACGGTTTTGTCCTACAAAAGGTGCCTCA-AAAGCA-AGAT
*
24908281 GGTGTGAACCCTTTTATACCCCAGTGACCTTCTTATTATATTCGATGTGAGATTCATGACTCCCC
129 GGTGTGAACCCTTTTATACCCCAGTGACCTTCTTATTATATTCGATGTG-GATTCAGGACTCCCC
* * *
24908346 TTTAGGTCCGTGACATTC-TCTCGCACCCAACCTCGTGACGCCCTTGTCACGGAGGCTGGCCACC
193 TTTAGGTCCGTGACATTCTTC-CGCACCCAACCTCGTGACGCCCTCGTCACGGAGACTGACCACC
* * * *
24908410 CTGCCTACCTCCCTCGAGGTGTTTGGCGTGGATCGAACGGGTTAGGGCTGGCTCTGATACCACTT
257 CTGCCTACCTCCCTCGAGATGCTTGACGTGGATCAAACGGGTTAGGGCTGGCTCTGATACCACTT
* **
24908475 GTCACGGGTCGAGACTTAAGCTCCTAACTCGCGTGACTCCGGGAC
322 GTCACGGGTCGAGACTTAAGCTCCAAACTCGCACGACTCCGGGAC
* * * * * *
24908520 CCGGACATTCACCTTTCCGGCATCTCAGATCAGTCTTTCGTCACGATTCACACCCTTGTGAGGTA
1 CCGGACATTCACCCTTCCGGTATCTCAGATCAGCCTTCCGTCATGGTTCACACCCTTGTGAGGTA
* * * * *
24908585 TTGTCTACTCTGGCCCCTCATGACCTCACGGTTTTGTCTTAAAAAAGGTGCCTCATAAGGCGAAG
66 TTGTCCACTCTGACCCC-C-TGACCTCACGGTTTTGTCCTACAAAAGGTGCCTCA-AAAGC-AAG
* * * *
24908650 ATAGTGTGAACCCTTTTATATCCAAGTGACCTTTTTATTATATTCGATGTGGCATTCAGGACTCC
127 ATGGTGTGAACCCTTTTATACCCCAGTGACCTTCTTATTATATTCGATGTGG-ATTCAGGACTCC
*
24908715 CCTTTAAGTCCGTGA
191 CCTTTAGGTCCGTGA
24908730 AACATGACTT
Statistics
Matches: 512, Mismatches: 58, Indels: 15
0.88 0.10 0.03
Matches are distributed among these distances:
367 1 0.00
368 172 0.34
369 227 0.44
370 2 0.00
371 109 0.21
372 1 0.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.29
Consensus pattern (366 bp):
CCGGACATTCACCCTTCCGGTATCTCAGATCAGCCTTCCGTCATGGTTCACACCCTTGTGAGGTA
TTGTCCACTCTGACCCCCTGACCTCACGGTTTTGTCCTACAAAAGGTGCCTCAAAAGCAAGATGG
TGTGAACCCTTTTATACCCCAGTGACCTTCTTATTATATTCGATGTGGATTCAGGACTCCCCTTT
AGGTCCGTGACATTCTTCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGACTGACCACCCTGC
CTACCTCCCTCGAGATGCTTGACGTGGATCAAACGGGTTAGGGCTGGCTCTGATACCACTTGTCA
CGGGTCGAGACTTAAGCTCCAAACTCGCACGACTCCGGGAC
Found at i:24910456 original size:18 final size:17
Alignment explanation
Indices: 24910432--24910472 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
24910422 TCATCATGTA
*
24910432 TAAATTTTATATAATTT
1 TAAATTTTACATAATTT
24910449 TGAAATTTTACATAATTT
1 T-AAATTTTACATAATTT
24910467 TAAATT
1 TAAATT
24910473 ATAACAGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TAAATTTTACATAATTT
Found at i:24911992 original size:7 final size:7
Alignment explanation
Indices: 24911971--24912005 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
24911961 GGATATTTGA
24911971 CACCATTG
1 CACCA-TG
*
24911979 CAGCATG
1 CACCATG
24911986 CACCATG
1 CACCATG
24911993 CACCATG
1 CACCATG
24912000 CACCAT
1 CACCAT
24912006 CATTCCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.29, C:0.40, G:0.14, T:0.17
Consensus pattern (7 bp):
CACCATG
Found at i:24912355 original size:19 final size:19
Alignment explanation
Indices: 24912331--24912374 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
24912321 GACGTACGGA
24912331 AAGGGACCAGTTGTGATAG
1 AAGGGACCAGTTGTGATAG
24912350 AAGGGACCAGTTGTGATAG
1 AAGGGACCAGTTGTGATAG
24912369 AGAGGG
1 A-AGGG
24912375 GCTCTCTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.32, C:0.09, G:0.41, T:0.18
Consensus pattern (19 bp):
AAGGGACCAGTTGTGATAG
Found at i:24918469 original size:1 final size:1
Alignment explanation
Indices: 24918463--24918492 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
24918453 TGGGGTGGGC
24918463 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24918493 ATAAATTCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:24919916 original size:22 final size:22
Alignment explanation
Indices: 24919891--24919935 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
24919881 CTTAACTTTT
24919891 TATACAAAAT-GAATTTAAATCC
1 TATACAAAATAG-ATTTAAATCC
*
24919913 TATACAAAATAGATTTAATTCC
1 TATACAAAATAGATTTAAATCC
24919935 T
1 T
24919936 TAATATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (22 bp):
TATACAAAATAGATTTAAATCC
Found at i:24955322 original size:6 final size:6
Alignment explanation
Indices: 24955311--24955336 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24955301 AGAATGCCCA
24955311 TGTTGC TGTTGC TGTTGC TGTTGC TG
1 TGTTGC TGTTGC TGTTGC TGTTGC TG
24955337 CTGTAAGAAC
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:0.00, C:0.15, G:0.35, T:0.50
Consensus pattern (6 bp):
TGTTGC
Found at i:24957743 original size:36 final size:36
Alignment explanation
Indices: 24957696--24957767 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
24957686 CAATGGCCAA
24957696 CCTTGATTTGATGCCTCAAAACGTATGATTCATCAT
1 CCTTGATTTGATGCCTCAAAACGTATGATTCATCAT
24957732 CCTTGATTTGATGCCTCAAAACGTATGATTCATCAT
1 CCTTGATTTGATGCCTCAAAACGTATGATTCATCAT
24957768 GTAAACTATA
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:0.14, T:0.36
Consensus pattern (36 bp):
CCTTGATTTGATGCCTCAAAACGTATGATTCATCAT
Found at i:24958644 original size:27 final size:28
Alignment explanation
Indices: 24958606--24958658 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
24958596 TTTTATAGAA
*
24958606 ACTATTAATAGTT-GAAAAATGATACAC
1 ACTATTAATAGTTAAAAAAATGATACAC
24958633 ACTATTAATAGTTAAAAAAATGATAC
1 ACTATTAATAGTTAAAAAAATGATAC
24958659 TATTAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.30
Consensus pattern (28 bp):
ACTATTAATAGTTAAAAAAATGATACAC
Found at i:24962285 original size:3 final size:3
Alignment explanation
Indices: 24962277--24962306 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24962267 AGAAGTTGAG
24962277 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
24962307 CCGTTAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:24969742 original size:51 final size:50
Alignment explanation
Indices: 24969642--24969742 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
24969632 GAAGATCGAT
*
24969642 GTTGATCCACTACGTGTTCGTATCACAAGCTTCCCAATTCGTACATTTCA
1 GTTGATCCACTACGTGTTCGTATCACAAGCTTCCCAATTCATACATTTCA
*
24969692 GTTGATCCACTACGTGTTCGTATCGCCAAGCTTCCCAATTCATACATTTCA
1 GTTGATCCACTACGTGTTCGTATC-ACAAGCTTCCCAATTCATACATTTCA
24969743 ATGCTTACGT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 24 0.50
51 24 0.50
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.34
Consensus pattern (50 bp):
GTTGATCCACTACGTGTTCGTATCACAAGCTTCCCAATTCATACATTTCA
Found at i:24976915 original size:59 final size:59
Alignment explanation
Indices: 24976780--24977225 Score: 523
Period size: 59 Copynumber: 7.6 Consensus size: 59
24976770 TTTTGCAGGA
* * * *
24976780 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTCTTTTGAAACTTTAATTTT-GAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAACTTTGATTTTCAAGG
*
24976837 AAAATTGATACTTTCAACTTTT-CTCCAAAAATGTTTTTTTAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTAAAACTTTGATTTTCAAGG
* * * *
24976896 AAAATTGATACTTTCAACTTCTCCTCAAAAATATTTTTTTGAAATTTTAATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAACTTTGATTTTCAAGG
* * * * *
24976955 AAAATTAACACTTTCAACTTTT-CTCAAAAAAATATTTTTTTGAAACTTTGATTTTCATGA
1 AAAATTGATACTTTCAACTTTTCCTC--AAAAATATTTTTTTAAAACTTTGATTTTCAAGG
* * * *
24977015 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTTTAAA-TTT-ATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA---TATTTTTTTAAAACTTTGATTTTCAAGG
* *
24977075 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTCTTTGAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTAAAACTTTGATTTTCAAGG
** * *
24977134 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAA-TTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTAAAACTTTGATTTTCAAGG
* *
24977192 AAAACTGATACTTTCAATTTTTCCTCAAAAATAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT
24977226 ATATTTTTTA
Statistics
Matches: 337, Mismatches: 37, Indels: 30
0.83 0.09 0.07
Matches are distributed among these distances:
56 1 0.00
57 32 0.09
58 75 0.22
59 113 0.34
60 93 0.28
61 12 0.04
62 11 0.03
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAACTTTGATTTTCAAGG
Found at i:24977027 original size:119 final size:117
Alignment explanation
Indices: 24976778--24977234 Score: 571
Period size: 119 Copynumber: 3.9 Consensus size: 117
24976768 TTTTTTGCAG
* * *
24976778 GAAAAATTGATACTTTCAACTTTTCC-CAAAAATATTCTTTTGAAACTTTAATTTTGAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-TTTATTTTTAAGGAAAAT
* * *
24976842 TGATACTTTCAACTTTTCTC-CAAAAATGTTTTTTTAAAACTTTGATTTTCAA
65 TGATACTTTCAACTTTTCTCAAAAAAATATTTTTTTGAAACTTTGATTTTCAA
* * *
24976894 GGAAAATTGATACTTTCAACTTCTCCTCAAAAATATTTTTTTGAAATTTTAATTTTCAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-TTT-ATTTTTAAGGAAAA
* * *
24976959 TTAACACTTTCAACTTTTCTCAAAAAAATATTTTTTTGAAACTTTGATTTTCAT
64 TTGATACTTTCAACTTTTCTCAAAAAAATATTTTTTTGAAACTTTGATTTTCAA
* * *
24977013 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTTTAAATTTATTTTTAAGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA---TATTTTTTTGAAATTTATTTTTAAGGAAA
** *
24977078 ATTGATACTTTCAACTTTT-TCCCAAAAATA-TTCTTTGAAAACTTTGATTTTCAA
63 ATTGATACTTTCAACTTTTCTCAAAAAAATATTTTTTTG-AAACTTTGATTTTCAA
* *** *
24977132 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAAC
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAATTTATTTTTAAGGAAAAT
* *
24977197 TGATACTTTCAATTTTTCCTCAAAAATATATATTTTTT
65 TGATACTTTCAACTTTT-CTCAAAAAAATAT-TTTTTT
24977235 ATTTTTATTT
Statistics
Matches: 292, Mismatches: 37, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
116 30 0.10
117 56 0.19
118 36 0.12
119 123 0.42
120 28 0.10
121 8 0.03
122 11 0.04
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (117 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTTTAAGGAAAATT
GATACTTTCAACTTTTCTCAAAAAAATATTTTTTTGAAACTTTGATTTTCAA
Found at i:24977221 original size:238 final size:236
Alignment explanation
Indices: 24976778--24977234 Score: 652
Period size: 238 Copynumber: 1.9 Consensus size: 236
24976768 TTTTTTGCAG
* *
24976778 GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTCTTTTGAAACTTTAATTTTGAGGAAAATT
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTCTTTTGAAACTTTAATTTTAAGAAAAATT
* * *
24976843 GATACTTTCAACTTTTCTCCAAAAATGTTTTTTTAAAACTTTGATTTTCAAGGAAAATTGATACT
66 GATACTTTCAACTTTTCTCCAAAAATATTCTTTGAAAACTTTGATTTTCAAGGAAAATTGATACT
* * * *
24976908 TTCAACTTCTCCTCAAAAATATTTTTTTGAAATTTTAATTTTCAAGGAAAATTAACACTTTCAAC
131 TTCAACTTCTCCTCAAAAACACTTTTTTGAAAATTTAATTTTCAAGGAAAACTAACACTTTCAAC
24976973 TTTTCTCAAAAAAATAT-TTTTTTGAAACTTTGATTTTCAT
196 TTTTCTCAAAAAAATATATTTTTTGAAACTTTGATTTTCAT
* * * *
24977013 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTTTAAA-TTTATTTTTAAGAAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAA---TATTCTTTTGAAACTTTAATTTTAAGAAA
24977077 AATTGATACTTTCAACTTTT-TCCCAAAAATATTCTTTGAAAACTTTGATTTTCAAGGAAAATTG
62 AATTGATACTTTCAACTTTTCT-CCAAAAATATTCTTTGAAAACTTTGATTTTCAAGGAAAATTG
* * * * *
24977141 ATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTT-ATTTTTAAGGAAAACTGATACTT
126 ATACTTTCAACTTCTCCTCAAAAACACTTTTTTGAAAATTTAATTTTCAAGGAAAACTAACACTT
* *
24977205 TCAATTTTTCCTCAAAAATATATATTTTTT
191 TCAACTTTT-CTCAAAAAAATATATTTTTT
24977235 ATTTTTATTT
Statistics
Matches: 195, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
235 26 0.13
236 6 0.03
237 28 0.14
238 119 0.61
239 16 0.08
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (236 bp):
GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTCTTTTGAAACTTTAATTTTAAGAAAAATT
GATACTTTCAACTTTTCTCCAAAAATATTCTTTGAAAACTTTGATTTTCAAGGAAAATTGATACT
TTCAACTTCTCCTCAAAAACACTTTTTTGAAAATTTAATTTTCAAGGAAAACTAACACTTTCAAC
TTTTCTCAAAAAAATATATTTTTTGAAACTTTGATTTTCAT
Found at i:24977294 original size:12 final size:12
Alignment explanation
Indices: 24977279--24977411 Score: 60
Period size: 12 Copynumber: 10.8 Consensus size: 12
24977269 AATAAAAGTG
24977279 AAAATAAATAAA
1 AAAATAAATAAA
*
24977291 AAAA-AAAGAAAA
1 AAAATAAA-TAAA
*
24977303 GAAAAGTAAA-ACA
1 -AAAA-TAAATAAA
*
24977316 AAAATAAA-AAT
1 AAAATAAATAAA
24977327 AAAATAAAGATAAA
1 AAAAT-AA-ATAAA
*
24977341 AAGAAT-ATTAAA
1 AA-AATAAATAAA
* * *
24977353 TAAACT-AATCTAT
1 -AAAATAAAT-AAA
24977366 AAAATAAATAAA
1 AAAATAAATAAA
*
24977378 TAAATAAATAAA
1 AAAATAAATAAA
*
24977390 ACAAATAAACAAA
1 A-AAATAAATAAA
*
24977403 TAAATAAAT
1 AAAATAAAT
24977412 TCAAAAAAAA
Statistics
Matches: 91, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
11 13 0.14
12 44 0.48
13 24 0.26
14 4 0.04
15 6 0.07
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:24977374 original size:4 final size:4
Alignment explanation
Indices: 24977367--24977411 Score: 63
Period size: 4 Copynumber: 11.0 Consensus size: 4
24977357 CTAATCTATA
* *
24977367 AAAT AAAT AAAT AAAT AAAT AAAAC AAAT AAAC AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
24977412 TCAAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
4 33 0.92
5 3 0.08
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:24977375 original size:21 final size:22
Alignment explanation
Indices: 24977349--24977410 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 22
24977339 AAAAGAATAT
**
24977349 TAAATAAACT-AATCTATAAAA
1 TAAATAAACTAAATAAATAAAA
24977370 TAAATAAA-TAAATAAATAAAA
1 TAAATAAACTAAATAAATAAAA
*
24977391 CAAATAAAC-AAATAAATAAA
1 TAAATAAACTAAATAAATAAA
24977411 TTCAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 1 0.03
21 35 0.97
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAATAAACTAAATAAATAAAA
Found at i:24977424 original size:25 final size:23
Alignment explanation
Indices: 24977280--24977424 Score: 69
Period size: 25 Copynumber: 5.8 Consensus size: 23
24977270 ATAAAAGTGA
*
24977280 AAATAAATAAAAAAAAAAGAAA-
1 AAATAAATAAAAAAAAAACAAAT
* *
24977302 AGAA-AAGTAAAACAAAAATAAAAAT
1 A-AATAAATAAAA-AAAAA-ACAAAT
* **
24977327 AAAATAAAGATAAAAAGAATATTAAAT
1 -AAAT-AA-ATAAAAA-AAAAACAAAT
* * * *
24977354 AAACTAATCTATAAAATAAATAAAT
1 AAA-TAA-ATAAAAAAAAAACAAAT
24977379 AAATAAATAAAACAAATAAACAAAT
1 AAATAAATAAAA-AAA-AAACAAAT
24977404 AAATAAATTCAAAAAAAAAAC
1 AAATAAA-T-AAAAAAAAAAC
24977425 CTGGAGCCGC
Statistics
Matches: 93, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
22 8 0.09
23 11 0.12
24 9 0.10
25 30 0.32
26 15 0.16
27 12 0.13
28 8 0.09
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.17
Consensus pattern (23 bp):
AAATAAATAAAAAAAAAACAAAT
Found at i:24978291 original size:28 final size:27
Alignment explanation
Indices: 24978240--24978309 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 27
24978230 GCCCAAAAAA
* *
24978240 AAAAAAAAAAAAAGAAATCTGATAAACG
1 AAAAAAGAAAAAA-AAATCAGATAAACG
*
24978268 AGAAAGAGAAAAAAAAATCAGATAAACG
1 A-AAAAAGAAAAAAAAATCAGATAAACG
24978296 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
24978310 TAAAAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 12 0.32
28 15 0.41
29 10 0.27
ACGTcount: A:0.74, C:0.06, G:0.13, T:0.07
Consensus pattern (27 bp):
AAAAAAGAAAAAAAAATCAGATAAACG
Found at i:24978320 original size:28 final size:28
Alignment explanation
Indices: 24978260--24978320 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
24978250 AAAGAAATCT
* **
24978260 GATAAACGAGAAAGAGAAAAAAAAATCA
1 GATAAACGAGAAAAAGAAAAAAAAAAAA
24978288 GATAAACGA-AAAAAGAAAAAAATAAAAA
1 GATAAACGAGAAAAAGAAAAAAA-AAAAA
*
24978316 TATAA
1 GATAA
24978321 CAGATAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.72, C:0.05, G:0.13, T:0.10
Consensus pattern (28 bp):
GATAAACGAGAAAAAGAAAAAAAAAAAA
Found at i:24978348 original size:21 final size:20
Alignment explanation
Indices: 24978307--24978373 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
24978297 AAAAAGAAAA
*
24978307 AAATAAAAAT-ATAACAGAT
1 AAATAAAAATAATAAAAGAT
*
24978326 AATTAAAAATAATAATAAGAT
1 AAATAAAAATAATAA-AAGAT
* *
24978347 AAATAAAAATACTACAAGAT
1 AAATAAAAATAATAAAAGAT
24978367 AAATAAA
1 AAATAAA
24978374 GAAAAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.22
20 16 0.39
21 16 0.39
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
AAATAAAAATAATAAAAGAT
Found at i:24978372 original size:4 final size:4
Alignment explanation
Indices: 24978365--24978530 Score: 61
Period size: 4 Copynumber: 40.2 Consensus size: 4
24978355 ATACTACAAG
* * *
24978365 ATAA ATAA AGAA AAAA AT-A ATAA ATAA ATTATA AT-A ATAA ATAT ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A-TA-A ATAA ATAA ATAA ATAA
* * * * * * * *
24978413 CTAG GTAA ATAAA ATAC ATAT ATAGA TATTA ACAA AAAA ATAA ATAA ATAA
1 ATAA ATAA AT-AA ATAA ATAA ATA-A -ATAA ATAA ATAA ATAA ATAA ATAA
* * * * * * *
24978464 ATAA ATAT ATAC ATAT ATTA ATAC ATAGTA AT-A ATAA ATACA AAAA ATAC
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATA-A ATAA ATAA
24978514 A-AA ATAA ATAAA ATAA A
1 ATAA ATAA AT-AA ATAA A
24978531 AATACAAAAT
Statistics
Matches: 119, Mismatches: 30, Indels: 26
0.68 0.17 0.15
Matches are distributed among these distances:
3 11 0.09
4 87 0.73
5 15 0.13
6 6 0.05
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:24978384 original size:41 final size:38
Alignment explanation
Indices: 24978307--24978392 Score: 95
Period size: 41 Copynumber: 2.2 Consensus size: 38
24978297 AAAAAGAAAA
* *
24978307 AAATAAAAATATAACAGATAATTAAAAATAATAATAAGAT
1 AAATAAAAATATAACAGATAAATAAAAATAAAAAT-A-AT
24978347 AAATAAAAATACT-ACAAGATAAATAAAGAA-AAAAATAAT
1 AAATAAAAATA-TAAC-AGATAAATAAA-AATAAAAATAAT
24978386 AAATAAA
1 AAATAAA
24978393 TTATAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
39 9 0.22
40 14 0.34
41 16 0.39
42 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (38 bp):
AAATAAAAATATAACAGATAAATAAAAATAAAAATAAT
Found at i:24978407 original size:71 final size:70
Alignment explanation
Indices: 24978303--24978543 Score: 168
Period size: 72 Copynumber: 3.2 Consensus size: 70
24978293 ACGAAAAAAG
**
24978303 AAAAAAATAAAAATATAACAGATAATTAA-AAATA-ATAATAAGATAAATAAAAATACTACAAGA
1 AAAAAAATAAAAATA-AA-TTATAA-TAATAAATACATAATAAGATAAATAAAAATACTACAAGA
24978366 TAAATAAA
63 TAAATAAA
* * *
24978374 GAAAAAAATAATAAATAAATTATAATAATAAATATATAACT-AGGTAAAT-AAAATACATATATA
1 -AAAAAAATAA-AAATAAATTATAATAATAAATACATAA-TAAGATAAATAAAAATAC-TACA-A
*
24978437 GATATTAACAAA
61 GATA--AATAAA
* * * *
24978449 AAAATAAATAAATAAATAAATATATACATATATTAATACATAGTAATAATAAATACAAAA-AATA
1 AAAA-AAAT-AA-AAATAAAT-TATA-ATA-ATAAATACATAATAA-GATAAATA-AAAATACTA
*
24978513 CAAAATAAATAAA
58 CAAGATAAATAAA
*
24978526 ATAAAAATACAAAATAAA
1 AAAAAAATA-AAAATAAA
24978544 AAATCAAATT
Statistics
Matches: 136, Mismatches: 15, Indels: 33
0.74 0.08 0.18
Matches are distributed among these distances:
70 3 0.02
71 16 0.12
72 26 0.19
73 11 0.08
74 4 0.03
75 17 0.12
76 16 0.12
77 12 0.09
78 4 0.03
79 14 0.10
80 8 0.06
81 1 0.01
82 4 0.03
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (70 bp):
AAAAAAATAAAAATAAATTATAATAATAAATACATAATAAGATAAATAAAAATACTACAAGATAA
ATAAA
Found at i:24978422 original size:72 final size:70
Alignment explanation
Indices: 24978299--24978486 Score: 172
Period size: 71 Copynumber: 2.6 Consensus size: 70
24978289 ATAAACGAAA
* *
24978299 AAAGAAAAAAATAAAAATATAACAGATAATTAA-AAATA-ATAATAAGATAAATAAAAATAC-TA
1 AAAGAAAAAAATAATAA-ATAA-ATATAA-TAATAAATATATAATAAGATAAAT-AAAATACATA
24978361 CA-AGATAAAT
62 CATAGAT--AT
* *
24978371 AAAGAAAAAAATAATAAATAAATTATAATAATAAATATATAACT-AGGTAAATAAAATACATATA
1 AAAGAAAAAAATAATAAATAAA-TATAATAATAAATATATAA-TAAGATAAATAAAATACATACA
24978435 TAGATAT
64 TAGATAT
* * *
24978442 TAACAAAAAAATAAATAAATAAATA-AATATATACATATATTAATA
1 AAAGAAAAAAAT-AATAAATAAATATAATA-ATAAATATA-TAATA
24978487 CATAGTAATA
Statistics
Matches: 99, Mismatches: 7, Indels: 20
0.79 0.06 0.16
Matches are distributed among these distances:
70 8 0.08
71 43 0.43
72 43 0.43
73 5 0.05
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (70 bp):
AAAGAAAAAAATAATAAATAAATATAATAATAAATATATAATAAGATAAATAAAATACATACATA
GATAT
Found at i:24978528 original size:29 final size:30
Alignment explanation
Indices: 24978496--24978557 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
24978486 ACATAGTAAT
* *
24978496 AATAAATACAAAAAATACAAAAT-AAATAA
1 AATAAAAACAAAAAATAAAAAATCAAATAA
* * *
24978525 AATAAAAATACAAAATAAAAAATCAAATTA
1 AATAAAAACAAAAAATAAAAAATCAAATAA
24978555 AAT
1 AAT
24978558 TTATCTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (30 bp):
AATAAAAACAAAAAATAAAAAATCAAATAA
Found at i:24978541 original size:13 final size:13
Alignment explanation
Indices: 24978506--24978545 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
24978496 AATAAATACA
24978506 AAAAATACAAAAT
1 AAAAATACAAAAT
24978519 --AAAT--AAAAT
1 AAAAATACAAAAT
24978528 AAAAATACAAAAT
1 AAAAATACAAAAT
24978541 AAAAA
1 AAAAA
24978546 ATCAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
9 5 0.22
11 8 0.35
13 10 0.43
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATACAAAAT
Found at i:24981964 original size:16 final size:17
Alignment explanation
Indices: 24981943--24981989 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
24981933 AATATTATTT
24981943 TTTAAAATATA-AAATA
1 TTTAAAATATATAAATA
*
24981959 TTTAAAA-ATATAATTA
1 TTTAAAATATATAAATA
24981975 TTTAAATATATATAA
1 TTTAAA-ATATATAA
24981990 TTAAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 3 0.11
16 17 0.63
17 1 0.04
18 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAAATATATAAATA
Found at i:24984393 original size:33 final size:33
Alignment explanation
Indices: 24984342--24984436 Score: 145
Period size: 33 Copynumber: 2.9 Consensus size: 33
24984332 TGCAAGCTCA
* *
24984342 TATCATAAACCTCGGACTTGAAATTACTTCTTT
1 TATCATAAACCTCAGACTTCAAATTACTTCTTT
* *
24984375 TATCATAAATCTCAGACTTCAAGTTACTTCTTT
1 TATCATAAACCTCAGACTTCAAATTACTTCTTT
*
24984408 TACCATAAACCTCAGACTTCAAATTACTT
1 TATCATAAACCTCAGACTTCAAATTACTT
24984437 GTCTTCCCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (33 bp):
TATCATAAACCTCAGACTTCAAATTACTTCTTT
Found at i:24996380 original size:2 final size:2
Alignment explanation
Indices: 24996373--24996409 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
24996363 AGCAATTGTA
*
24996373 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24996410 AGATGGAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:24996613 original size:115 final size:115
Alignment explanation
Indices: 24996410--24996638 Score: 413
Period size: 115 Copynumber: 2.0 Consensus size: 115
24996400 TATATATATA
* **
24996410 AGATGGAGCAGTGAAAGCATGACTCACCTCAACACGTGTAACCGACTGCTCGGTTGGCTATGTTG
1 AGATGGAGCAATGAAAGCATGACTCACCTCAACACGTGTAACCGACTGCAAGGTTGGCTATGTTG
24996475 CAGCGTTTAGGGATTGTTATGTCAATTTCAGGCTTAATTCTGGATGATTT
66 CAGCGTTTAGGGATTGTTATGTCAATTTCAGGCTTAATTCTGGATGATTT
*
24996525 AGATGGAGCAATGAAATCATGACTCACCTCAACACGTGTAACCGACTGCAAGGTTGGCTATGTTG
1 AGATGGAGCAATGAAAGCATGACTCACCTCAACACGTGTAACCGACTGCAAGGTTGGCTATGTTG
*
24996590 CAGCGTTTAGGGATTGTTTTGTCAATTTCAGGCTTAATTCTGGATGATT
66 CAGCGTTTAGGGATTGTTATGTCAATTTCAGGCTTAATTCTGGATGATT
24996639 AAGAAGTGAT
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 109 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (115 bp):
AGATGGAGCAATGAAAGCATGACTCACCTCAACACGTGTAACCGACTGCAAGGTTGGCTATGTTG
CAGCGTTTAGGGATTGTTATGTCAATTTCAGGCTTAATTCTGGATGATTT
Found at i:25002222 original size:23 final size:22
Alignment explanation
Indices: 25002183--25002238 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 22
25002173 TGGACCACTT
*
25002183 CCCCTCCCCCCCACCCCCCCCC
1 CCCCCCCCCCCCACCCCCCCCC
*
25002205 CCCCGCCCCCCCCGCCCCCCCCC
1 CCCC-CCCCCCCCACCCCCCCCC
25002228 CCCCCCCCCCC
1 CCCCCCCCCCC
25002239 TTTTTTCACT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.02, C:0.93, G:0.04, T:0.02
Consensus pattern (22 bp):
CCCCCCCCCCCCACCCCCCCCC
Found at i:25002253 original size:1 final size:1
Alignment explanation
Indices: 25002183--25002238 Score: 76
Period size: 1 Copynumber: 56.0 Consensus size: 1
25002173 TGGACCACTT
* * * *
25002183 CCCCTCCCCCCCACCCCCCCCCCCCCGCCCCCCCCGCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
25002239 TTTTTTCACT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.02, C:0.93, G:0.04, T:0.02
Consensus pattern (1 bp):
C
Found at i:25007861 original size:15 final size:15
Alignment explanation
Indices: 25007836--25007876 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
25007826 TAATTCATAA
25007836 ATAAT-AAATAAATT
1 ATAATCAAATAAATT
25007850 ATAATCAAATAAATT
1 ATAATCAAATAAATT
*
25007865 -TAAACAAATAAA
1 ATAATCAAATAAA
25007877 CTTTAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATCAAATAAATT
Found at i:25007881 original size:15 final size:14
Alignment explanation
Indices: 25007841--25007883 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
25007831 CATAAATAAT
*
25007841 AAATAAATTATAATC
1 AAATAAATT-TAAAC
25007856 AAATAAATTTAAAC
1 AAATAAATTTAAAC
25007870 AAATAAACTTTAAA
1 AAATAAA-TTTAAA
25007884 TGAACATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAATTTAAAC
Found at i:25009434 original size:21 final size:19
Alignment explanation
Indices: 25009406--25009462 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
25009396 ATTAATAAAG
25009406 TATTATTTTAAATATAAAAT
1 TATTATTTT-AATATAAAAT
*
25009426 TTTTAATTTTTAATAT-AAAT
1 TATT-A-TTTTAATATAAAAT
25009446 TATTATTTTAATATAAA
1 TATTATTTTAATATAAA
25009463 TATAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 9 0.28
19 3 0.09
20 10 0.31
21 6 0.19
22 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTATTTTAATATAAAAT
Found at i:25009456 original size:18 final size:18
Alignment explanation
Indices: 25009400--25009463 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 18
25009390 CCTTAAATTA
*
25009400 ATAAAGTATTATTTTAAAT
1 ATAAATTATTATTTT-AAT
*
25009419 ATAAAATTTTTAATTTTTAAT
1 AT-AAATTATT-A-TTTTAAT
25009440 ATAAATTATTATTTTAAT
1 ATAAATTATTATTTTAAT
25009458 ATAAAT
1 ATAAAT
25009464 ATAAAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 13 0.33
19 3 0.08
20 13 0.33
21 6 0.15
22 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
ATAAATTATTATTTTAAT
Found at i:25009500 original size:20 final size:21
Alignment explanation
Indices: 25009450--25009507 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
25009440 ATAAATTATT
25009450 ATTTT-AATATAAATATAAAA
1 ATTTTAAATATAAATATAAAA
* *
25009470 ATTATATAATATTAA-ATAAAA
1 ATTTTA-AATATAAATATAAAA
*
25009491 ATTTTAAATATATATAT
1 ATTTTAAATATAAATAT
25009508 CATGTTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 10 0.33
21 13 0.43
22 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTTAAATATAAATATAAAA
Found at i:25009579 original size:26 final size:26
Alignment explanation
Indices: 25009536--25009585 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
25009526 ATTTATCAAA
*
25009536 AATCAAACTCTAACCTTTTTTTTTTT
1 AATCAAACTCCAACCTTTTTTTTTTT
* *
25009562 AATCGAACTCCAATCTTTTTTTTT
1 AATCAAACTCCAACCTTTTTTTTT
25009586 AACTATTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.20, G:0.02, T:0.52
Consensus pattern (26 bp):
AATCAAACTCCAACCTTTTTTTTTTT
Found at i:25011802 original size:27 final size:28
Alignment explanation
Indices: 25011728--25011804 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
25011718 TGTAAGAAAA
*
25011728 AATTTAAATATAAATAAAT-TATTTAATC
1 AATTTAAA-ATAAATAATTATATTTAATC
25011756 --TCTTAAAATAAACTATATTATATTTAA-C
1 AAT-TTAAAATAAA-TA-ATTATATTTAATC
25011784 AATTTAAAATAAATAATTATA
1 AATTTAAAATAAATAATTATA
25011805 AATTATATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
26 6 0.14
27 13 0.31
28 5 0.12
29 17 0.40
30 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (28 bp):
AATTTAAAATAAATAATTATATTTAATC
Found at i:25013789 original size:20 final size:20
Alignment explanation
Indices: 25013753--25013791 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25013743 TATTTTAATT
25013753 AATAAAATATATCAAATTTG
1 AATAAAATATATCAAATTTG
*
25013773 AATATAAATA-ATTAAATTT
1 AATA-AAATATATCAAATTT
25013792 TTATCGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATAAAATATATCAAATTTG
Found at i:25031829 original size:15 final size:15
Alignment explanation
Indices: 25031809--25031838 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25031799 TAGATTCTTC
25031809 AAATTTTGACAGCTA
1 AAATTTTGACAGCTA
*
25031824 AAATTTTGACTGCTA
1 AAATTTTGACAGCTA
25031839 GACAGAGCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (15 bp):
AAATTTTGACAGCTA
Found at i:25041091 original size:21 final size:20
Alignment explanation
Indices: 25041054--25041093 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25041044 TTAAATCAAA
*
25041054 CAAATAATTGAATATAAAAC
1 CAAATAATTGAACATAAAAC
*
25041074 CAAATAAATTTAACATAAAA
1 CAAAT-AATTGAACATAAAA
25041094 TTAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (20 bp):
CAAATAATTGAACATAAAAC
Found at i:25042682 original size:14 final size:14
Alignment explanation
Indices: 25042663--25042693 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25042653 TTATATTTAC
25042663 TTGTGCATCCCCAG
1 TTGTGCATCCCCAG
25042677 TTGTGCATCCCCAG
1 TTGTGCATCCCCAG
25042691 TTG
1 TTG
25042694 CACTCAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.23, T:0.32
Consensus pattern (14 bp):
TTGTGCATCCCCAG
Found at i:25048876 original size:11 final size:11
Alignment explanation
Indices: 25048862--25048886 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25048852 AAGAGAAGAG
25048862 TGGGAGAACAA
1 TGGGAGAACAA
25048873 TGGGAGAACAA
1 TGGGAGAACAA
25048884 TGG
1 TGG
25048887 CATGTCTGAT
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:0.40, C:0.08, G:0.40, T:0.12
Consensus pattern (11 bp):
TGGGAGAACAA
Found at i:25071480 original size:16 final size:16
Alignment explanation
Indices: 25071459--25071490 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25071449 GTCTATAGAG
25071459 AGTGAATGAAGTGTGA
1 AGTGAATGAAGTGTGA
25071475 AGTGAATGAAGTGTGA
1 AGTGAATGAAGTGTGA
25071491 GAGAAGGAAC
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:0.38, C:0.00, G:0.38, T:0.25
Consensus pattern (16 bp):
AGTGAATGAAGTGTGA
Found at i:25082379 original size:24 final size:23
Alignment explanation
Indices: 25082344--25082395 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
25082334 AACTTAAGAA
*
25082344 AATA-TATAATTATATAATTATT
1 AATATTATAATTAAATAATTATT
* *
25082366 AATATTATCAATTAAATATTTTTT
1 AATATTAT-AATTAAATAATTATT
25082390 AATATT
1 AATATT
25082396 CTCATTTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.16
23 3 0.12
24 18 0.72
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTATAATTAAATAATTATT
Found at i:25097966 original size:93 final size:93
Alignment explanation
Indices: 25097807--25097994 Score: 340
Period size: 93 Copynumber: 2.0 Consensus size: 93
25097797 TTGCTGGTTG
* *
25097807 GGTCCCCTAACAATACTGAAACTGGTACTGTATAATTCAGTTGACACCAAATCTCACGAGAAATC
1 GGTCCCCTAACAAAACTGAAACTGGTACTGTATAATTCAGCTGACACCAAATCTCACGAGAAATC
25097872 AGAAACCATAAGATTTCTCAGCCCTGTA
66 AGAAACCATAAGATTTCTCAGCCCTGTA
*
25097900 GGTCCCCTAACAAAACTGAAACTGGTACTGTATAATTCAGCTGACACCAAATCTCATGAGAAATC
1 GGTCCCCTAACAAAACTGAAACTGGTACTGTATAATTCAGCTGACACCAAATCTCACGAGAAATC
*
25097965 AGAAACCGTAAGATTTCTCAGCCCTGTA
66 AGAAACCATAAGATTTCTCAGCCCTGTA
25097993 GG
1 GG
25097995 CCTCTGCTGC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (93 bp):
GGTCCCCTAACAAAACTGAAACTGGTACTGTATAATTCAGCTGACACCAAATCTCACGAGAAATC
AGAAACCATAAGATTTCTCAGCCCTGTA
Found at i:25103646 original size:30 final size:31
Alignment explanation
Indices: 25103612--25103709 Score: 91
Period size: 30 Copynumber: 3.3 Consensus size: 31
25103602 TATAGTCAAT
25103612 AATTTAATTTGA-GTGAAAA-AAATATTTAAA
1 AATTTAATTT-ATGTGAAAATAAATATTTAAA
*
25103642 AATTTAA-TTATGTGAAAATAAATGTTTAAA
1 AATTTAATTTATGTGAAAATAAATATTTAAA
* * * *
25103672 ATTTTAATTAAT-TG-AAATAAAAAAATT-AA
1 AATTTAATTTATGTGAAAAT-AAATATTTAAA
25103701 AATTTAATT
1 AATTTAATT
25103710 GATTATAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.02
29 23 0.40
30 30 0.53
31 3 0.05
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTTAATTTATGTGAAAATAAATATTTAAA
Found at i:25103707 original size:25 final size:28
Alignment explanation
Indices: 25103679--25103730 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
25103669 AAAATTTTAA
25103679 TTAATTGA-AATAA-AAAA-ATTAAAAT
1 TTAATTGATAATAATAAAATATTAAAAT
*
25103704 TTAATTGATTATAATAAAATATTAAAA
1 TTAATTGATAATAATAAAATATTAAAA
25103731 AGTTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 4 0.17
27 4 0.17
28 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (28 bp):
TTAATTGATAATAATAAAATATTAAAAT
Found at i:25103719 original size:29 final size:29
Alignment explanation
Indices: 25103667--25103730 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
25103657 AAATAAATGT
25103667 TTAAAATTTTAATTAATTGAAATAAAAAAA
1 TTAAAATTTTAATTAATTGAAAT-AAAAAA
* *
25103697 TTAAAA-TTTAATTGATT-ATAATAAAATA
1 TTAAAATTTTAATTAATTGA-AATAAAAAA
25103725 TTAAAA
1 TTAAAA
25103731 AGTTAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 12 0.39
29 13 0.42
30 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
TTAAAATTTTAATTAATTGAAATAAAAAA
Found at i:25103731 original size:29 final size:28
Alignment explanation
Indices: 25103625--25103742 Score: 91
Period size: 30 Copynumber: 4.0 Consensus size: 28
25103615 TTAATTTGAG
25103625 TGAAA-AAAATATTTAAAAATTTAATTAT
1 TGAAATAAAATA-TTAAAAATTTAATTAT
* *
25103653 GTGAAA-ATAAATGTTTAAAATTTTAATTAAT
1 -TGAAATA-AAAT-ATTAAAAATTTAATT-AT
*
25103684 TGAAATAAAAAAATT-AAAATTTAATTGAT
1 TGAAAT-AAAATATTAAAAATTTAATT-AT
*
25103713 T-ATAATAAAATATTAAAAAGTTAAATTAT
1 TGA-AATAAAATATTAAAAA-TTTAATTAT
25103742 T
1 T
25103743 TTTTATTTTG
Statistics
Matches: 73, Mismatches: 8, Indels: 16
0.75 0.08 0.16
Matches are distributed among these distances:
28 8 0.11
29 29 0.40
30 30 0.41
31 5 0.07
32 1 0.01
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (28 bp):
TGAAATAAAATATTAAAAATTTAATTAT
Found at i:25105960 original size:3 final size:3
Alignment explanation
Indices: 25105952--25105978 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25105942 TTCTGTTGTG
25105952 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
25105979 CAGTAATAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:25107510 original size:2 final size:2
Alignment explanation
Indices: 25107503--25107533 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25107493 ACATTGAGTA
25107503 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25107534 ACGGAGAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25111569 original size:16 final size:17
Alignment explanation
Indices: 25111533--25111570 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
25111523 ATATAGTCCT
* *
25111533 ATTTTATTAGCTCATTC
1 ATTTTATTAGATCAATC
25111550 ATTTTATT-GATCAATC
1 ATTTTATTAGATCAATC
25111566 ATTTT
1 ATTTT
25111571 GTTCTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (17 bp):
ATTTTATTAGATCAATC
Found at i:25122852 original size:30 final size:31
Alignment explanation
Indices: 25122818--25122880 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
25122808 ATGGTGTGGA
*
25122818 TAAACTCTAAAACCAACTGGT-AAATGGCAG
1 TAAACTCCAAAACCAACTGGTAAAATGGCAG
* *
25122848 TAAACTCCAAAATCAACTGGTAAAATGGTAG
1 TAAACTCCAAAACCAACTGGTAAAATGGCAG
25122879 TA
1 TA
25122881 GATCAAGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.22
Consensus pattern (31 bp):
TAAACTCCAAAACCAACTGGTAAAATGGCAG
Found at i:25123216 original size:2 final size:2
Alignment explanation
Indices: 25123209--25123239 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25123199 ACATATACAC
25123209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25123240 AAATAGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25124783 original size:2 final size:2
Alignment explanation
Indices: 25124778--25124816 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
25124768 GTGTGTGTGT
25124778 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
25124817 CATAAGTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:25127833 original size:14 final size:15
Alignment explanation
Indices: 25127804--25127836 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25127794 CACATAAATG
*
25127804 TTTTTAAATTTGTAA
1 TTTTTAAATATGTAA
25127819 TTTTTAAATAT-TAA
1 TTTTTAAATATGTAA
25127833 TTTT
1 TTTT
25127837 AATGACATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTTTAAATATGTAA
Found at i:25129118 original size:11 final size:11
Alignment explanation
Indices: 25129102--25129150 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
25129092 ATAAAATTAA
*
25129102 AAATTTAATTT
1 AAATTTAAATT
25129113 AAATTTAAATT
1 AAATTTAAATT
**
25129124 AAATTTTCATT
1 AAATTTAAATT
* *
25129135 GAATTTAAACT
1 AAATTTAAATT
25129146 AAATT
1 AAATT
25129151 GAATTAATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (11 bp):
AAATTTAAATT
Found at i:25129270 original size:18 final size:19
Alignment explanation
Indices: 25129247--25129288 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
25129237 AATTTTCTTT
*
25129247 TATAAAAATTTAAAAA-TA
1 TATAAAAATTAAAAAACTA
25129265 TATAAAAATTAAAAAACTA
1 TATAAAAATTAAAAAACTA
25129284 TATAA
1 TATAA
25129289 TTCAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
TATAAAAATTAAAAAACTA
Found at i:25134869 original size:52 final size:53
Alignment explanation
Indices: 25134791--25134902 Score: 181
Period size: 52 Copynumber: 2.1 Consensus size: 53
25134781 AGAAATGCAG
*
25134791 ATATCTGAACATTATCGATATTCACTGGTATTTTGTTGTTCCATGTGTAACT-
1 ATATCTGAACATTATCGAAATTCACTGGTATTTTGTTGTTCCATGTGTAACTA
* * *
25134843 ATATCTGAACCTTGTCTAAATTCACTGGTATTTTGTTGTTCCATGTGTAACTA
1 ATATCTGAACATTATCGAAATTCACTGGTATTTTGTTGTTCCATGTGTAACTA
25134896 ATATCTG
1 ATATCTG
25134903 CTAATTATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
52 48 0.87
53 7 0.13
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (53 bp):
ATATCTGAACATTATCGAAATTCACTGGTATTTTGTTGTTCCATGTGTAACTA
Found at i:25148286 original size:8 final size:7
Alignment explanation
Indices: 25148267--25148303 Score: 51
Period size: 6 Copynumber: 5.4 Consensus size: 7
25148257 TTATTTTCAC
25148267 TTTCTTT
1 TTTCTTT
25148274 TTTCTTCT
1 TTTCTT-T
25148282 TTTCTTT
1 TTTCTTT
25148289 TTT-TTT
1 TTTCTTT
25148295 TTT-TTT
1 TTTCTTT
25148301 TTT
1 TTT
25148304 TGGATTCGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.41
7 10 0.34
8 7 0.24
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTCTTT
Found at i:25148287 original size:15 final size:13
Alignment explanation
Indices: 25148267--25148304 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
25148257 TTATTTTCAC
25148267 TTTCTTTTTTCTTCT
1 TTTCTTTTTT-TT-T
25148282 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
25148295 TTT-TTTTTTT
1 TTTCTTTTTTT
25148305 GGATTCGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 2 0.09
15 10 0.43
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:25169026 original size:21 final size:21
Alignment explanation
Indices: 25169000--25169047 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
25168990 AGGTTTTCCC
*
25169000 TTGATGCAGGGAGGATGTCAT
1 TTGATGCAGGAAGGATGTCAT
* *
25169021 TTGATGCAGTAAGGATGTCGT
1 TTGATGCAGGAAGGATGTCAT
25169042 TTGATG
1 TTGATG
25169048 ACCCAAGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.08, G:0.35, T:0.33
Consensus pattern (21 bp):
TTGATGCAGGAAGGATGTCAT
Found at i:25169082 original size:21 final size:21
Alignment explanation
Indices: 25169041--25169083 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25169031 AAGGATGTCG
*
25169041 TTTGATGACCCAAGATATTCT
1 TTTGATGACCCAAGAGATTCT
* *
25169062 TTTGATGAGCCAAGAGCTTCT
1 TTTGATGACCCAAGAGATTCT
25169083 T
1 T
25169084 GGGATGGGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (21 bp):
TTTGATGACCCAAGAGATTCT
Found at i:25173340 original size:15 final size:15
Alignment explanation
Indices: 25173322--25173352 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25173312 AGTATATACT
25173322 CGGATCCTGAAGTCG
1 CGGATCCTGAAGTCG
*
25173337 CGGATCCTGGAGTCG
1 CGGATCCTGAAGTCG
25173352 C
1 C
25173353 ACGGGTCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.29, G:0.35, T:0.19
Consensus pattern (15 bp):
CGGATCCTGAAGTCG
Found at i:25173465 original size:279 final size:279
Alignment explanation
Indices: 25172965--25173524 Score: 1084
Period size: 279 Copynumber: 2.0 Consensus size: 279
25172955 GAGGTTAGAA
25172965 GAGTTAGAGCGAATAATACCTCATAAGAGTGTGAACTATGATAGATAGGTTGATCTAAGAAACTG
1 GAGTTAGAGCGAATAATACCTCATAAGAGTGTGAACTATGATAGATAGGTTGATCTAAGAAACTG
25173030 GATAGTATATACTCGGATCCTAAAGTCGCGGATCCTGGAGTCGCACGGGTCGAAGTTTAAGACTC
66 GATAGTATATACTCGGATCCTAAAGTCGCGGATCCTGGAGTCGCACGGGTCGAAGTTTAAGACTC
25173095 GACCCGTGACAAGTGGTATTAGAGCCAGTCCTAAACCATTTGATTCACGTTAAGTGTCTCGAGAG
131 GACCCGTGACAAGTGGTATTAGAGCCAGTCCTAAACCATTTGATTCACGTTAAGTGTCTCGAGAG
25173160 AGATAGATAGGGTGACTAGCCTCCATGACGAGGGTGTCACGAGGTTGGATAGAAGAGAATATCAC
196 AGATAGATAGGGTGACTAGCCTCCATGACGAGGGTGTCACGAGGTTGGATAGAAGAGAATATCAC
*
25173225 ATACCTAAAGAGGAGTCAT
261 AGACCTAAAGAGGAGTCAT
25173244 GAGTTAGAGCGAATAATACCTCATAAGAGTGTGAACTATGATAGATAGGTTGATCTAAGAAACTG
1 GAGTTAGAGCGAATAATACCTCATAAGAGTGTGAACTATGATAGATAGGTTGATCTAAGAAACTG
*
25173309 GATAGTATATACTCGGATCCTGAAGTCGCGGATCCTGGAGTCGCACGGGTCGAAGTTTAAGACTC
66 GATAGTATATACTCGGATCCTAAAGTCGCGGATCCTGGAGTCGCACGGGTCGAAGTTTAAGACTC
*
25173374 GACCCGTGACAAGTGGTATTAGAGCCAGTCCTAAACCATTTGATTCACGTTAAGTGTCTCGAGGG
131 GACCCGTGACAAGTGGTATTAGAGCCAGTCCTAAACCATTTGATTCACGTTAAGTGTCTCGAGAG
*
25173439 AGATAGATAGGGTGACTAGCCTCCATGACGAGGGTGTCACGAGGTTGGGTAGAAGAGAATATCAC
196 AGATAGATAGGGTGACTAGCCTCCATGACGAGGGTGTCACGAGGTTGGATAGAAGAGAATATCAC
25173504 AGACCTAAAGAGGAGTCAT
261 AGACCTAAAGAGGAGTCAT
25173523 GA
1 GA
25173525 ATCTCATATC
Statistics
Matches: 277, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
279 277 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (279 bp):
GAGTTAGAGCGAATAATACCTCATAAGAGTGTGAACTATGATAGATAGGTTGATCTAAGAAACTG
GATAGTATATACTCGGATCCTAAAGTCGCGGATCCTGGAGTCGCACGGGTCGAAGTTTAAGACTC
GACCCGTGACAAGTGGTATTAGAGCCAGTCCTAAACCATTTGATTCACGTTAAGTGTCTCGAGAG
AGATAGATAGGGTGACTAGCCTCCATGACGAGGGTGTCACGAGGTTGGATAGAAGAGAATATCAC
AGACCTAAAGAGGAGTCAT
Found at i:25176561 original size:93 final size:93
Alignment explanation
Indices: 25176367--25176552 Score: 318
Period size: 93 Copynumber: 2.0 Consensus size: 93
25176357 GAATTAGAAA
*
25176367 TCAGAAATTTGATGCTTTGAAGCTGGAAATGTTAAAACTGGAAAAGCAACCTTTCGGAGCCATTT
1 TCAGAAATTTGATGCTTTGAAGCTGGAAATGTTAAAACTGGAAAAGCAACCTTTCGGAGCCAGTT
25176432 TCAAGTGAGAAACTCTTCCAAGGCATGG
66 TCAAGTGAGAAACTCTTCCAAGGCATGG
* * * *
25176460 TCAGAAATTTTATGCTTTGAAGCTTGAAATGTTAAAACTGGAAAAGCAACCTTTTGGAGTCAGTT
1 TCAGAAATTTGATGCTTTGAAGCTGGAAATGTTAAAACTGGAAAAGCAACCTTTCGGAGCCAGTT
*
25176525 TCAAGTGAGAAACTCTTCTAAGGCATGG
66 TCAAGTGAGAAACTCTTCCAAGGCATGG
25176553 CTTGAAATTG
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (93 bp):
TCAGAAATTTGATGCTTTGAAGCTGGAAATGTTAAAACTGGAAAAGCAACCTTTCGGAGCCAGTT
TCAAGTGAGAAACTCTTCCAAGGCATGG
Found at i:25179658 original size:24 final size:23
Alignment explanation
Indices: 25179627--25179672 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
25179617 AGGGAATTCC
25179627 AAAATGAAAAACAAAAAAAAAAA
1 AAAATGAAAAACAAAAAAAAAAA
** *
25179650 AAAAGTGAAGGACAAAAATAAAA
1 AAAA-TGAAAAACAAAAAAAAAA
25179673 TGGCCCATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.78, C:0.04, G:0.11, T:0.07
Consensus pattern (23 bp):
AAAATGAAAAACAAAAAAAAAAA
Found at i:25182516 original size:23 final size:23
Alignment explanation
Indices: 25182472--25182516 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25182462 TTATTGAGTA
* *
25182472 TTTTCAACCTAAATAAATACATC
1 TTTTCAACCTAAACAAACACATC
25182495 TTTTCAACAC-AAACAAACACAT
1 TTTTCAAC-CTAAACAAACACAT
25182517 ACTCATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (23 bp):
TTTTCAACCTAAACAAACACATC
Found at i:25183453 original size:20 final size:20
Alignment explanation
Indices: 25183428--25183470 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
25183418 CAAATAAATA
*
25183428 CATATCTATATGTACCTATT
1 CATATCCATATGTACCTATT
25183448 CATATCCATATGTACCTATT
1 CATATCCATATGTACCTATT
25183468 CAT
1 CAT
25183471 CGTTATACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (20 bp):
CATATCCATATGTACCTATT
Found at i:25183699 original size:17 final size:17
Alignment explanation
Indices: 25183671--25183704 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
25183661 TTAAATTTAC
25183671 CTTTTAAAAATTATTTTT
1 CTTTTAAAAATT-TTTTT
25183689 CTTTT-AAAATTTTTTT
1 CTTTTAAAAATTTTTTT
25183705 TTGTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
CTTTTAAAAATTTTTTT
Found at i:25187599 original size:16 final size:16
Alignment explanation
Indices: 25187578--25187609 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25187568 CAAAAGAAAG
25187578 AATTCCCTATTTCTTT
1 AATTCCCTATTTCTTT
25187594 AATTCCCTATTTCTTT
1 AATTCCCTATTTCTTT
25187610 TTGTTTCTTT
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:0.19, C:0.25, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTCCCTATTTCTTT
Found at i:25188736 original size:16 final size:16
Alignment explanation
Indices: 25188715--25188746 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25188705 CAGATAGATC
25188715 GAGAGAGAAAGAGAAA
1 GAGAGAGAAAGAGAAA
*
25188731 GAGAGAGAAGGAGAAA
1 GAGAGAGAAAGAGAAA
25188747 AAGAAATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (16 bp):
GAGAGAGAAAGAGAAA
Found at i:25196772 original size:3 final size:3
Alignment explanation
Indices: 25196764--25196788 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25196754 TTGTTTTAAC
25196764 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
25196789 ACGTGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:25199623 original size:29 final size:29
Alignment explanation
Indices: 25199579--25199635 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
25199569 AAAAGACTCC
*
25199579 TGATTCTTCAACCCCCCTTTT-ATGGTCAT
1 TGATTCTTCAA-ACCCCTTTTAATGGTCAT
25199608 TGATTCTTCAAACCCCTTTTAATGGTCA
1 TGATTCTTCAAACCCCTTTTAATGGTCA
25199636 AAATAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (29 bp):
TGATTCTTCAAACCCCTTTTAATGGTCAT
Found at i:25202453 original size:2 final size:2
Alignment explanation
Indices: 25202446--25202471 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25202436 TTAAAGATTT
25202446 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
25202472 AAAGGTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.