Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 76 of 356
Found at i:23807723 original size:18 final size:17
Alignment explanation
Indices: 23807674--23807724 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
23807664 TGAAAACGCG
23807674 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
23807691 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
23807709 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
23807725 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:23808248 original size:26 final size:26
Alignment explanation
Indices: 23808209--23808265 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
23808199 CCTTTTTTTT
*
23808209 CTGCTGCAGGATTCGGGCCTGGGGGC
1 CTGCTGCAGAATTCGGGCCTGGGGGC
*
23808235 CTGCTGCCGAATTCGGGCCTGGGGGC
1 CTGCTGCAGAATTCGGGCCTGGGGGC
23808261 CTGCT
1 CTGCT
23808266 TGGTCTGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.07, C:0.30, G:0.42, T:0.21
Consensus pattern (26 bp):
CTGCTGCAGAATTCGGGCCTGGGGGC
Found at i:23808397 original size:20 final size:19
Alignment explanation
Indices: 23808372--23808415 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23808362 TCGCTGTGGC
23808372 CTGCTTCTATTTTATTTTTT
1 CTGCTT-TATTTTATTTTTT
* *
23808392 CTGCTTTGTTTTGTTTTTT
1 CTGCTTTATTTTATTTTTT
*
23808411 TTGCT
1 CTGCT
23808416 GCTTTGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.05, C:0.14, G:0.11, T:0.70
Consensus pattern (19 bp):
CTGCTTTATTTTATTTTTT
Found at i:23808417 original size:22 final size:20
Alignment explanation
Indices: 23808381--23808429 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 20
23808371 CCTGCTTCTA
*
23808381 TTTTATTTTTTCTGCTTTGT
1 TTTTTTTTTTTCTGCTTTGT
23808401 TTTGTTTTTTTTGCTGCTTTGT
1 TTT-TTTTTTTT-CTGCTTTGT
23808423 TTTTTTT
1 TTTTTTT
23808430 CAAAAACCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 11 0.42
22 12 0.46
ACGTcount: A:0.02, C:0.08, G:0.12, T:0.78
Consensus pattern (20 bp):
TTTTTTTTTTTCTGCTTTGT
Found at i:23808620 original size:14 final size:14
Alignment explanation
Indices: 23808584--23808622 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
23808574 TTCTTTGCTA
*
23808584 TTTTTTTTGTTGTT
1 TTTTTTTTGCTGTT
* *
23808598 TCTTGTTTGCTGTT
1 TTTTTTTTGCTGTT
23808612 TTTTTTTTGCT
1 TTTTTTTTGCT
23808623 TATGCTTGCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (14 bp):
TTTTTTTTGCTGTT
Found at i:23809010 original size:29 final size:29
Alignment explanation
Indices: 23808977--23809093 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
23808967 TGTAATTTTT
*
23808977 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
23809006 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
23809036 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
23809065 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
23809094 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:23809032 original size:30 final size:30
Alignment explanation
Indices: 23808992--23809093 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
23808982 ATTTAGGATT
*
23808992 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
23809022 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
23809052 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
23809082 AAAATGCAATTT
1 AAAATGAAATTT
23809094 TTATTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:23809109 original size:15 final size:15
Alignment explanation
Indices: 23809089--23809117 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23809079 GTCAAAATGC
23809089 AATTTTTATTTTTTA
1 AATTTTTATTTTTTA
23809104 AATTTTTATTTTTT
1 AATTTTTATTTTTT
23809118 TTTTGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
AATTTTTATTTTTTA
Found at i:23809115 original size:20 final size:20
Alignment explanation
Indices: 23809090--23809129 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23809080 TCAAAATGCA
*
23809090 ATTTTTATTTTTTAAATTTTT
1 ATTTTT-TTTTTGAAATTTTT
23809111 ATTTTTTTTTTGAAATTTT
1 ATTTTTTTTTTGAAATTTT
23809130 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (20 bp):
ATTTTTTTTTTGAAATTTTT
Found at i:23811299 original size:87 final size:86
Alignment explanation
Indices: 23811191--23811512 Score: 255
Period size: 87 Copynumber: 3.7 Consensus size: 86
23811181 GAGAGTAGAT
* * *
23811191 ACATAGTAGATCTAACCTTCAGATGTTTTTATTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
23811256 GTTTACAAGGAGCAAATCTAAG
66 GTTTACAAGGAGCAAATC-AAG
* * * * * *
23811278 ACATAACAGATCTAACTTTCAGATGTTT-TCACGTCAAAGTAGATCCAAGATAACAAATCTGGC-
1 ACATAGCAGATCTAACCTTCAGATGTTTAT-AC-T-GAAGCAGATCCAAGAT----GATTTGGCA
* ** * * * *
23811341 GTCTCCAT-ATT-CGACGGAG---AGCAGAC
59 TTCT-TGTGTTTAC-AAGGAGCAAATCA-AG
23811367 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
*
23811432 GTTTACAAGGAACAAATCGAAG
66 GTTTACAAGGAGCAAATC-AAG
* ** * * * *
23811454 ACATAGCAGATTTGGCTTTCACG-TGTTTATGCTGAAGCAAATCTAAGATGATTTGGCAT
1 ACATAGCAGATCTAACCTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCAT
23811513 CTCTGTATTG
Statistics
Matches: 180, Mismatches: 36, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
83 7 0.04
84 9 0.05
85 1 0.01
86 1 0.01
87 93 0.52
88 5 0.03
89 45 0.25
90 1 0.01
91 1 0.01
92 10 0.06
93 7 0.04
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (86 bp):
ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAGCAAATCAAG
Found at i:23811405 original size:176 final size:177
Alignment explanation
Indices: 23811087--23811464 Score: 569
Period size: 176 Copynumber: 2.1 Consensus size: 177
23811077 TTTCGACGGA
* * * **
23811087 GAGCAAATCGAAGACATAGATATATCTGACTTTTGGATGTTCTCACATCAAAGCAGATCCAAGAT
1 GAGCAAATCGAAGACATA-ACAGATCTAACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGAT
* * * *
23811152 AACAGATCTGGCATCTCCATATTCAAACGGAGAGTAGATACATAGTAGATCTAACCTTCAGATGT
65 AACAAATCTGGCATCTCCATATTCAAACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGT
* *
23811217 TTTTATTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
130 TTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
* * * *
23811265 GAGCAAATCTAAGACATAACAGATCTAACTTTCAGATGTTTTCACGTCAAAGTAGATCCAAGATA
1 GAGCAAATCGAAGACATAACAGATCTAACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATA
* *
23811330 ACAAATCTGGCGTCTCCATATTC-GACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTT
66 ACAAATCTGGCATCTCCATATTCAAACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTT
23811394 TATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
131 TATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
* *
23811441 GAACAAATCGAAGACATAGCAGAT
1 GAGCAAATCGAAGACATAACAGAT
23811465 TTGGCTTTCA
Statistics
Matches: 180, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 103 0.57
177 60 0.33
178 17 0.09
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (177 bp):
GAGCAAATCGAAGACATAACAGATCTAACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATA
ACAAATCTGGCATCTCCATATTCAAACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTT
TATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
Found at i:23811531 original size:87 final size:84
Alignment explanation
Indices: 23811390--23811553 Score: 215
Period size: 87 Copynumber: 1.9 Consensus size: 84
23811380 AACCTTCAGA
* * *
23811390 TGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGA
1 TGTTTATACTGAAGCAAATCCAAGATGATTTGGCATTCTTGTATTTACAAGGAACAAACCGAAG-
23811455 CATAGCAGATTTGGCTTTCACG
65 -A-AGCAGATTTGGCTTTCACG
* * *
23811477 TGTTTATGCTGAAGCAAATCTAAGATGATTTGGCA-TCTCTGTATTGT-CAGGGAACAAACCGAA
1 TGTTTATACTGAAGCAAATCCAAGATGATTTGGCATTCT-TGTATT-TACAAGGAACAAACCGAA
23811540 GAAGCAGATTTGGC
64 GAAGCAGATTTGGC
23811554 GTCTCTGTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
84 12 0.17
85 1 0.01
86 3 0.04
87 52 0.75
88 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (84 bp):
TGTTTATACTGAAGCAAATCCAAGATGATTTGGCATTCTTGTATTTACAAGGAACAAACCGAAGA
AGCAGATTTGGCTTTCACG
Found at i:23812919 original size:46 final size:46
Alignment explanation
Indices: 23812875--23813147 Score: 438
Period size: 46 Copynumber: 5.9 Consensus size: 46
23812865 TTTCTGTCAT
* * *
23812875 GTTGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* ** *** *
23812921 GCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
**
23812967 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
23813013 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
23813059 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
23813105 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
23813148 TAGAGAGCAC
Statistics
Matches: 213, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 213 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:23816875 original size:12 final size:12
Alignment explanation
Indices: 23816858--23816941 Score: 72
Period size: 12 Copynumber: 7.2 Consensus size: 12
23816848 TAAAAAATAG
23816858 TATATATTATTT
1 TATATATTATTT
23816870 TATATATTA-TT
1 TATATATTATTT
23816881 TATTATATTATTT
1 TA-TATATTATTT
**
23816894 T-TACT-TATAAAT
1 TATA-TAT-TATTT
23816906 TATAT-TTA-TT
1 TATATATTATTT
*
23816916 TATATATT-TTA
1 TATATATTATTT
23816927 TATATATTATTT
1 TATATATTATTT
23816939 TAT
1 TAT
23816942 CACTCATTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
10 6 0.10
11 20 0.34
12 28 0.47
13 5 0.08
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATATTATTT
Found at i:23816886 original size:19 final size:19
Alignment explanation
Indices: 23816862--23816931 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
23816852 AAATAGTATA
*
23816862 TATTATTTTATATATTATT
1 TATTATATTATATATTATT
* *
23816881 TATTATATTAT-TTTTACT
1 TATTATATTATATATTATT
*
23816899 TA-TAAATTATAT-TTATT
1 TATTATATTATATATTATT
*
23816916 TATATATTTTATATAT
1 TAT-TATATTATATAT
23816932 ATTATTTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
17 13 0.32
18 8 0.20
19 18 0.45
20 1 0.03
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTATATTATATATTATT
Found at i:23820378 original size:26 final size:26
Alignment explanation
Indices: 23820349--23820413 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 26
23820339 AGATCAACAT
*
23820349 AAATTGTCCATCAAAATACAACCATC
1 AAATTGTCCATCAAAATAAAACCATC
* * *
23820375 AAATTGATCTAACAAAATAAAACTATC
1 AAATTG-TCCATCAAAATAAAACCATC
* *
23820402 AAACTATCCATC
1 AAATTGTCCATC
23820414 GTATGTTAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.25
Consensus pattern (26 bp):
AAATTGTCCATCAAAATAAAACCATC
Found at i:23826361 original size:19 final size:18
Alignment explanation
Indices: 23826334--23826372 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23826324 AGCCCCACCA
23826334 TTAACTCTTTCATTACAAT
1 TTAACTC-TTCATTACAAT
* *
23826353 TTAATTCTTCATTATAAT
1 TTAACTCTTCATTACAAT
23826371 TT
1 TT
23826373 GGTTCCCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAACTCTTCATTACAAT
Found at i:23833728 original size:19 final size:19
Alignment explanation
Indices: 23833704--23833751 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
23833694 CACCAACAAT
23833704 TTTTTTAAAGGTA-AATTTA
1 TTTTTTAAA-GTATAATTTA
*
23833723 TTTTTTATAATTATAATTTA
1 TTTTTTA-AAGTATAATTTA
23833743 TTTGTTTAA
1 TTT-TTTAA
23833752 TATTTTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.36
20 12 0.48
21 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTTTAAAGTATAATTTA
Found at i:23837994 original size:18 final size:17
Alignment explanation
Indices: 23837968--23838001 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23837958 AAGATATTCA
23837968 AAACAAAATTATAATTAT
1 AAACAAAATT-TAATTAT
*
23837986 AAACTAAATTTAATTA
1 AAACAAAATTTAATTA
23838002 ATTAACCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
AAACAAAATTTAATTAT
Found at i:23839695 original size:20 final size:20
Alignment explanation
Indices: 23839661--23839698 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23839651 TATAAACAAA
**
23839661 TTTTTATAATGTTTTAAATT
1 TTTTTATAAAATTTTAAATT
23839681 TTTTTATAAAATTTTAAA
1 TTTTTATAAAATTTTAAA
23839699 AAGTCAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTTATAAAATTTTAAATT
Found at i:23839856 original size:18 final size:19
Alignment explanation
Indices: 23839833--23839872 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
23839823 CTTTTTTAAA
23839833 TTACAATTTTT-TATAATT
1 TTACAATTTTTATATAATT
*
23839851 TTACAATTTTTATATATTT
1 TTACAATTTTTATATAATT
23839870 TTA
1 TTA
23839873 ATAATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTACAATTTTTATATAATT
Found at i:23840913 original size:26 final size:26
Alignment explanation
Indices: 23840884--23840939 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
23840874 TGATACAAAT
23840884 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23840910 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23840936 TGAT
1 TGAT
23840940 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:23842132 original size:8 final size:8
Alignment explanation
Indices: 23842119--23842148 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23842109 AGATTGGCAC
23842119 AAGCCGAA
1 AAGCCGAA
23842127 AAGCCGAA
1 AAGCCGAA
*
23842135 ATGCCGAA
1 AAGCCGAA
23842143 AAGCCG
1 AAGCCG
23842149 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:23842594 original size:27 final size:27
Alignment explanation
Indices: 23842537--23842651 Score: 162
Period size: 27 Copynumber: 4.2 Consensus size: 27
23842527 AGGAAGCGTC
* *
23842537 CTGGTGGCTATGCCACAATTTATCTAAT
1 CTGGTGGCTCTGCCACAA-TTATCTGAT
23842565 CTGGTGGCTCTGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
23842592 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
23842619 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
23842646 CTGGTG
1 CTGGTG
23842652 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 8 0.10
27 54 0.68
28 18 0.22
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:23842662 original size:27 final size:27
Alignment explanation
Indices: 23842537--23842669 Score: 157
Period size: 27 Copynumber: 4.9 Consensus size: 27
23842527 AGGAAGCGTC
* *
23842537 CTGGTGGCTATGCCACAATTTATCT-AAT
1 CTGGTGGCTCTGCCACAA--TATCTGTAT
23842565 CTGGTGGCTCTGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
23842592 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
23842619 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
23842646 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
23842670 GCAGCCTTGC
Statistics
Matches: 97, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.09
27 70 0.72
28 18 0.19
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:23844500 original size:35 final size:35
Alignment explanation
Indices: 23844416--23844500 Score: 84
Period size: 35 Copynumber: 2.4 Consensus size: 35
23844406 GTTTGGCAAA
* * *
23844416 ATAAATTA-TCTACAGTCTTTACGGAGTGACACCGT
1 ATAAA-TAGTCTACAGACTTTACGGAGCGACACCAT
* *
23844451 ATAATTAGTATACAGACTTTACGGAGCGACACCAT
1 ATAAATAGTCTACAGACTTTACGGAGCGACACCAT
*
23844486 GA-AAATGGTCTACAG
1 -ATAAATAGTCTACAG
23844501 GCTCTACAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
34 2 0.05
35 37 0.93
36 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (35 bp):
ATAAATAGTCTACAGACTTTACGGAGCGACACCAT
Found at i:23846490 original size:26 final size:26
Alignment explanation
Indices: 23846461--23846511 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
23846451 ATAGGGAAAA
23846461 ATCATTTTATCTTTTTAATTTCATTT
1 ATCATTTTATCTTTTTAATTTCATTT
23846487 ATCATTTTATCTTTTTAATTTCATT
1 ATCATTTTATCTTTTTAATTTCATT
23846512 CTTTCCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (26 bp):
ATCATTTTATCTTTTTAATTTCATTT
Found at i:23847987 original size:25 final size:26
Alignment explanation
Indices: 23847959--23848009 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
23847949 ATATTAACAT
23847959 TTATATTTATATTAAA-AAAATAAAA
1 TTATATTTATATTAAACAAAATAAAA
23847984 TTATATTTATATTAAACAAAATAAAA
1 TTATATTTATATTAAACAAAATAAAA
23848010 ATCCCCTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TTATATTTATATTAAACAAAATAAAA
Found at i:23848261 original size:15 final size:15
Alignment explanation
Indices: 23848241--23848273 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23848231 AAGGAAGTGA
23848241 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
*
23848256 AAAAAGAAAAAGAAG
1 AAAAAGAAAAAAAAG
23848271 AAA
1 AAA
23848274 GGCACCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:23848416 original size:33 final size:34
Alignment explanation
Indices: 23848369--23848436 Score: 111
Period size: 33 Copynumber: 2.0 Consensus size: 34
23848359 ATAGTACTTG
*
23848369 TCTGAAAACTCAAAGGGAGAACA-TTTTGGCTCA
1 TCTGAAAACCCAAAGGGAGAACATTTTTGGCTCA
*
23848402 TCTGAAAACCCAAAGGGAGGACATTTTTGGCTCA
1 TCTGAAAACCCAAAGGGAGAACATTTTTGGCTCA
23848436 T
1 T
23848437 ACTTTGATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (34 bp):
TCTGAAAACCCAAAGGGAGAACATTTTTGGCTCA
Found at i:23850075 original size:63 final size:63
Alignment explanation
Indices: 23849998--23850146 Score: 183
Period size: 63 Copynumber: 2.4 Consensus size: 63
23849988 TCGTGTGCCT
* * * *
23849998 CAAAATAGTGAGTTACACGGTCTGGACACACACTCATGTCTCTGGCCCATGTGTCC-CTAGTTC
1 CAAAATAGTGAGTTACACGGCCTGGACACACACCCATGTCTCTAGCCCATGTG-CCTCTAATTC
* * * *** *
23850061 CAAAACAGTGAGTTACACTGCCTGGACACACGCCCATGTCTCTATTTCGTGTGCCTCTAATTC
1 CAAAATAGTGAGTTACACGGCCTGGACACACACCCATGTCTCTAGCCCATGTGCCTCTAATTC
23850124 CAAAATAGTGAGTTACACGGCCT
1 CAAAATAGTGAGTTACACGGCCT
23850147 ACCACACGGC
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
62 2 0.03
63 70 0.97
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (63 bp):
CAAAATAGTGAGTTACACGGCCTGGACACACACCCATGTCTCTAGCCCATGTGCCTCTAATTC
Found at i:23856139 original size:30 final size:30
Alignment explanation
Indices: 23856064--23856139 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
23856054 TGATTGATGA
* *
23856064 TATTTTATAATTATTTAATTAGAAAATTAT
1 TATTTTATTATTATTTAATAAGAAAATTAT
* * *
23856094 TATTTTATTAATATTTAATAAGATATTTAT
1 TATTTTATTATTATTTAATAAGAAAATTAT
23856124 TATTATT-TTATTATTT
1 TATT-TTATTATTATTT
23856140 TATTTAGTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 37 0.95
31 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
TATTTTATTATTATTTAATAAGAAAATTAT
Found at i:23865304 original size:30 final size:30
Alignment explanation
Indices: 23865229--23865304 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
23865219 TGATTGATGA
* *
23865229 TATTTTATAATTATTTAATTAGAAAATTAT
1 TATTTTATTATTATTTAATAAGAAAATTAT
* * *
23865259 TATTTTATTAATATTTAATAAGATATTTAT
1 TATTTTATTATTATTTAATAAGAAAATTAT
23865289 TATTATT-TTATTATTT
1 TATT-TTATTATTATTT
23865305 TATTTAGTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 37 0.95
31 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
TATTTTATTATTATTTAATAAGAAAATTAT
Found at i:23868783 original size:10 final size:10
Alignment explanation
Indices: 23868762--23868805 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
23868752 AAATTTTAAC
23868762 TTTTATATATT
1 TTTTATA-ATT
23868773 TTTTATAATT
1 TTTTATAATT
*
23868783 TTTCATAA--
1 TTTTATAATT
23868791 TTTTATAATT
1 TTTTATAATT
23868801 TTTTA
1 TTTTA
23868806 AAAATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 7 0.24
10 15 0.52
11 7 0.24
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:23868803 original size:9 final size:9
Alignment explanation
Indices: 23868744--23868803 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
23868734 TATTTTAGAA
23868744 AATTTTTA-
1 AATTTTTAT
*
23868752 AAATTTTA-
1 AATTTTTAT
*
23868760 ACTTTTATAT
1 AATTTT-TAT
*
23868770 ATTTTTTAT
1 AATTTTTAT
23868779 AATTTTTCAT
1 AATTTTT-AT
23868789 AA-TTTTAT
1 AATTTTTAT
23868797 AATTTTT
1 AATTTTT
23868804 TAAAAATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
8 15 0.35
9 19 0.44
10 9 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
AATTTTTAT
Found at i:23868846 original size:18 final size:18
Alignment explanation
Indices: 23868815--23868865 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
23868805 AAAAATATAA
23868815 ATTTTGAGATTTTTATAAA-T
1 ATTTTGA-A-TTTTA-AAATT
23868835 ATTTTGAATTTTAAAATTT
1 ATTTTGAATTTTAAAA-TT
*
23868854 ATTTTAAATTTT
1 ATTTTGAATTTT
23868866 TGAAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.11
18 5 0.18
19 13 0.46
20 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (18 bp):
ATTTTGAATTTTAAAATT
Found at i:23869194 original size:48 final size:48
Alignment explanation
Indices: 23869116--23869207 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
23869106 ACAATAATTT
* * * *
23869116 TATCTCAAGCTTATTATGATTAGATTCACCT-GAAGTTGCAAGATCTTC
1 TATCTAAAGCTTATTATGATCAAATGCACCTAG-AGTTGCAAGATCTTC
*
23869164 TATCTAAAGCTTTTTATGATCAAATGCACCTAGAGTTGCAAGAT
1 TATCTAAAGCTTATTATGATCAAATGCACCTAGAGTTGCAAGAT
23869208 TTTGAAATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (48 bp):
TATCTAAAGCTTATTATGATCAAATGCACCTAGAGTTGCAAGATCTTC
Found at i:23871826 original size:48 final size:48
Alignment explanation
Indices: 23871736--23871831 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
23871726 TGGCCACAGT
* *
23871736 ACTGATAGCATAAGTGGCAATGAAAAACCACGAGATGCGAAGCAGGGA
1 ACTGATAGCACAAGTGGCAATGAAAAACCACGAGATACGAAGCAGGGA
* * * *
23871784 ACTGATAGCACAAGTGGCAATGAGAGACCACGAGATATGAAGCGGGGA
1 ACTGATAGCACAAGTGGCAATGAAAAACCACGAGATACGAAGCAGGGA
23871832 TCCAACAACC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.40, C:0.17, G:0.31, T:0.12
Consensus pattern (48 bp):
ACTGATAGCACAAGTGGCAATGAAAAACCACGAGATACGAAGCAGGGA
Found at i:23878190 original size:21 final size:21
Alignment explanation
Indices: 23878140--23878206 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
23878130 GACTGCGGGT
*
23878140 TGTAACTTGGAGAGGTAGGG-C
1 TGTAACTTGGTGAGGT-GGGAC
* * *
23878161 TATAGCTTGGTGATGTGGGAC
1 TGTAACTTGGTGAGGTGGGAC
*
23878182 TGTAACTTGGTGAGGTTGGAC
1 TGTAACTTGGTGAGGTGGGAC
23878203 TGTA
1 TGTA
23878207 CCCAGGAGAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 3 0.08
21 34 0.92
ACGTcount: A:0.21, C:0.09, G:0.39, T:0.31
Consensus pattern (21 bp):
TGTAACTTGGTGAGGTGGGAC
Found at i:23878236 original size:42 final size:42
Alignment explanation
Indices: 23878190--23878308 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
23878180 ACTGTAACTT
* * * *
23878190 GGTGAGGTTGGACTGTACCCAGGAGATGTGGGGCTATAAGCA
1 GGTGAAGTAGGACTATACCAAGGAGATGTGGGGCTATAAGCA
* ** *
23878232 GGTGAAGTAGGGCTATATGAAGGAGATGTGGGGCTAT-AGGA
1 GGTGAAGTAGGACTATACCAAGGAGATGTGGGGCTATAAGCA
* * * *
23878273 CGGTGAAGTAGGGCTGTACGAAGGAGATGTCGGGCT
1 -GGTGAAGTAGGACTATACCAAGGAGATGTGGGGCT
23878309 GTACGATGGA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 3 0.05
42 62 0.95
ACGTcount: A:0.25, C:0.11, G:0.43, T:0.21
Consensus pattern (42 bp):
GGTGAAGTAGGACTATACCAAGGAGATGTGGGGCTATAAGCA
Found at i:23878244 original size:21 final size:21
Alignment explanation
Indices: 23878220--23878413 Score: 106
Period size: 21 Copynumber: 9.2 Consensus size: 21
23878210 AGGAGATGTG
*
23878220 GGGCTATAAGCAGGTGAAGTA
1 GGGCTATATGCAGGTGAAGTA
* * * *
23878241 GGGCTATATGAAGGAGATGTG
1 GGGCTATATGCAGGTGAAGTA
*
23878262 GGGCTATA-GGACGGTGAAGTA
1 GGGCTATATGCA-GGTGAAGTA
* * * * * *
23878283 GGGCTGTACGAAGGAGATGTC
1 GGGCTATATGCAGGTGAAGTA
* * * *
23878304 GGGCTGTACG-ATGGAGATGTA
1 GGGCTATATGCA-GGTGAAGTA
* * *
23878325 GGGCTGTATG-ATGGAGAAGTG
1 GGGCTATATGCA-GGTGAAGTA
* *
23878346 GGGCTGTATGCAGGTGAAGTG
1 GGGCTATATGCAGGTGAAGTA
* *
23878367 GGGCTATATGCTGGTGAGGTA
1 GGGCTATATGCAGGTGAAGTA
* * *
23878388 GGGCTATATACGGGTGAAGTG
1 GGGCTATATGCAGGTGAAGTA
23878409 GGGCT
1 GGGCT
23878414 GTAGCTGGGT
Statistics
Matches: 142, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
20 3 0.02
21 136 0.96
22 3 0.02
ACGTcount: A:0.24, C:0.09, G:0.44, T:0.23
Consensus pattern (21 bp):
GGGCTATATGCAGGTGAAGTA
Found at i:23878278 original size:84 final size:84
Alignment explanation
Indices: 23878190--23878350 Score: 189
Period size: 84 Copynumber: 1.9 Consensus size: 84
23878180 ACTGTAACTT
* * * * *
23878190 GGTGAGGTTGGACTGTACCCAGGAGATGTGGGGCTATAAGCA-GGTGAAGTAGGGCTATATGAAG
1 GGTGAAGTAGGACTGTACCAAGGAGATGTCGGGCTATAAG-ATGGAGAAGTAGGGCTATATGAAG
*
23878254 GAGATGTGGGGCTATAGGAC
65 GAGAAGTGGGGCTATAGGAC
* * * * * * *
23878274 GGTGAAGTAGGGCTGTACGAAGGAGATGTCGGGCTGTACGATGGAGATGTAGGGCTGTATGATGG
1 GGTGAAGTAGGACTGTACCAAGGAGATGTCGGGCTATAAGATGGAGAAGTAGGGCTATATGAAGG
23878339 AGAAGTGGGGCT
66 AGAAGTGGGGCT
23878351 GTATGCAGGT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
83 1 0.02
84 62 0.98
ACGTcount: A:0.25, C:0.10, G:0.43, T:0.22
Consensus pattern (84 bp):
GGTGAAGTAGGACTGTACCAAGGAGATGTCGGGCTATAAGATGGAGAAGTAGGGCTATATGAAGG
AGAAGTGGGGCTATAGGAC
Found at i:23878329 original size:63 final size:62
Alignment explanation
Indices: 23878217--23878416 Score: 166
Period size: 63 Copynumber: 3.2 Consensus size: 62
23878207 CCCAGGAGAT
* * * * * * * *
23878217 GTGGGGCTATAAGCAGGTGAAGTAGGGCTATATGAAGGAGATGTGGGGCTATAGGACGGTGAA
1 GTGGGGCTGTACGAAGGAGAAGTCGGGCTATACGATGGAGATGTAGGGCTATA-GACGGTGAA
* * * * * *
23878280 GTAGGGCTGTACGAAGGAGATGTCGGGCTGTACGATGGAGATGTAGGGCTGTATGATGGAGAA
1 GTGGGGCTGTACGAAGGAGAAGTCGGGCTATACGATGGAGATGTAGGGCTATA-GACGGTGAA
* * * * * * * * *
23878343 GTGGGGCTGTATGCAGGTGAAGTGGGGCTATATGCTGGTGAGGTAGGGCTATATACGGGTGAA
1 GTGGGGCTGTACGAAGGAGAAGTCGGGCTATACGATGGAGATGTAGGGCTATAGAC-GGTGAA
23878406 GTGGGGCTGTA
1 GTGGGGCTGTA
23878417 GCTGGGTGAA
Statistics
Matches: 106, Mismatches: 30, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
62 1 0.01
63 105 0.99
ACGTcount: A:0.24, C:0.09, G:0.44, T:0.23
Consensus pattern (62 bp):
GTGGGGCTGTACGAAGGAGAAGTCGGGCTATACGATGGAGATGTAGGGCTATAGACGGTGAA
Found at i:23878371 original size:42 final size:42
Alignment explanation
Indices: 23878210--23878416 Score: 184
Period size: 42 Copynumber: 4.9 Consensus size: 42
23878200 GACTGTACCC
* *
23878210 AGGAGATGTGGGGCTATAAGCAGGTGAAGTAGGGCTATATGA
1 AGGAGATGTGGGGCTATATGCAGGTGAAGTAGGGCTGTATGA
* *
23878252 AGGAGATGTGGGGCTATA-GGACGGTGAAGTAGGGCTGTACGA
1 AGGAGATGTGGGGCTATATGCA-GGTGAAGTAGGGCTGTATGA
* * * * *
23878294 AGGAGATGTCGGGCTGTACG-ATGGAGATGTAGGGCTGTATGA
1 AGGAGATGTGGGGCTATATGCA-GGTGAAGTAGGGCTGTATGA
* * * * * *
23878336 TGGAGAAGTGGGGCTGTATGCAGGTGAAGTGGGGCTATATGC
1 AGGAGATGTGGGGCTATATGCAGGTGAAGTAGGGCTGTATGA
* * * * * * *
23878378 TGGTGAGGTAGGGCTATATACGGGTGAAGTGGGGCTGTA
1 AGGAGATGTGGGGCTATATGCAGGTGAAGTAGGGCTGTA
23878417 GCTGGGTGAA
Statistics
Matches: 137, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
41 2 0.01
42 133 0.97
43 2 0.01
ACGTcount: A:0.25, C:0.09, G:0.44, T:0.23
Consensus pattern (42 bp):
AGGAGATGTGGGGCTATATGCAGGTGAAGTAGGGCTGTATGA
Found at i:23878423 original size:21 final size:22
Alignment explanation
Indices: 23878340--23878443 Score: 110
Period size: 21 Copynumber: 5.0 Consensus size: 22
23878330 GTATGATGGA
* *
23878340 GAAGTGGGGCTGTATGC-AGGT
1 GAAGTGGGGCTATATGCTGGGT
23878361 GAAGTGGGGCTATATGCT-GGT
1 GAAGTGGGGCTATATGCTGGGT
* * *
23878382 GAGGTAGGGCTATATAC-GGGT
1 GAAGTGGGGCTATATGCTGGGT
*
23878403 GAAGTGGGGCTGTA-GCTGGGT
1 GAAGTGGGGCTATATGCTGGGT
*
23878424 GAAGTGGGACTATA-GCTGGG
1 GAAGTGGGGCTATATGCTGGG
23878444 GGATCTGGGA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
20 1 0.01
21 69 0.99
ACGTcount: A:0.20, C:0.10, G:0.46, T:0.24
Consensus pattern (22 bp):
GAAGTGGGGCTATATGCTGGGT
Found at i:23878437 original size:42 final size:41
Alignment explanation
Indices: 23878325--23878437 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 41
23878315 TGGAGATGTA
* * * * *
23878325 GGGCTGTATGATGGAGAAGTGGGGCTGTATGCAGGTGAAGTG
1 GGGCTATATGCTGGTGAAGT-GGGCTATATACAGGTGAAGTG
* *
23878367 GGGCTATATGCTGGTGAGGTAGGGCTATATACGGGTGAAGTG
1 GGGCTATATGCTGGTGAAGT-GGGCTATATACAGGTGAAGTG
*
23878409 GGGCTGTA-GCTGGGTGAAGTGGGACTATA
1 GGGCTATATGCT-GGTGAAGTGGG-CTATA
23878438 GCTGGGGGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 6 0.10
42 53 0.90
ACGTcount: A:0.21, C:0.09, G:0.45, T:0.25
Consensus pattern (41 bp):
GGGCTATATGCTGGTGAAGTGGGCTATATACAGGTGAAGTG
Found at i:23878470 original size:63 final size:63
Alignment explanation
Indices: 23878322--23878442 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 63
23878312 CGATGGAGAT
* *
23878322 GTAGGGCTGTATGA-TGGAGAAGTGGGGCTGTATGCAGGTGAAGTGGGGCTATATGCTGGTGAG
1 GTAGGGCTATAT-ACTGGAGAAGTGGGGCTGTATGCAGGTGAAGTGGGACTATATGCTGGTGAG
* * *
23878385 GTAGGGCTATATACGGGTGAAGTGGGGCTGTA-GCTGGGTGAAGTGGGACTATA-GCTGG
1 GTAGGGCTATATACTGGAGAAGTGGGGCTGTATGC-AGGTGAAGTGGGACTATATGCTGG
23878443 GGGATCTGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
62 8 0.16
63 43 0.84
ACGTcount: A:0.21, C:0.09, G:0.45, T:0.25
Consensus pattern (63 bp):
GTAGGGCTATATACTGGAGAAGTGGGGCTGTATGCAGGTGAAGTGGGACTATATGCTGGTGAG
Found at i:23878516 original size:21 final size:21
Alignment explanation
Indices: 23878454--23878533 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
23878444 GGATCTGGGA
* *
23878454 CTGTAACTTGGAGAAGTAGGA
1 CTGTAACTTGGAGAGGTAGGG
*
23878475 CTGTAACTTGGAGATGTAGGG
1 CTGTAACTTGGAGAGGTAGGG
23878496 CTGTAACTTGGAGAGGTAGGG
1 CTGTAACTTGGAGAGGTAGGG
* * *
23878517 CTATAGCTTGGTGAGGT
1 CTGTAACTTGGAGAGGT
23878534 TGGAGAATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.25, C:0.10, G:0.38, T:0.28
Consensus pattern (21 bp):
CTGTAACTTGGAGAGGTAGGG
Found at i:23878640 original size:21 final size:21
Alignment explanation
Indices: 23878577--23878737 Score: 128
Period size: 21 Copynumber: 7.7 Consensus size: 21
23878567 TGGACTTGTC
* * * *
23878577 GGACTGTATCCTGGTGAGCTA
1 GGACTGTAACCAGGAGAGGTA
** * * *
23878598 GGACTGTAAGTAGGTGATGTG
1 GGACTGTAACCAGGAGAGGTA
* *
23878619 GGGCTGTAACCAGGAGAGGTG
1 GGACTGTAACCAGGAGAGGTA
* *
23878640 GGACTGTACCCAGGAGATGTA
1 GGACTGTAACCAGGAGAGGTA
23878661 GGACTGTAACCAGGAGAGGTA
1 GGACTGTAACCAGGAGAGGTA
* *
23878682 GGACTGTAACCAGGTGATG-A
1 GGACTGTAACCAGGAGAGGTA
* *
23878702 CGGACTGTATCCAGGAGATG-A
1 -GGACTGTAACCAGGAGAGGTA
*
23878723 TGGGCTGTAACCAGG
1 -GGACTGTAACCAGG
23878738 GGATGACGTA
Statistics
Matches: 114, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
20 1 0.01
21 113 0.99
ACGTcount: A:0.26, C:0.16, G:0.38, T:0.20
Consensus pattern (21 bp):
GGACTGTAACCAGGAGAGGTA
Found at i:23878644 original size:42 final size:42
Alignment explanation
Indices: 23878598--23878742 Score: 168
Period size: 42 Copynumber: 3.5 Consensus size: 42
23878588 TGGTGAGCTA
** * *
23878598 GGACTGTAAGTAGGTGATGTGGGGCTGTAACCAGGAGAGGTG
1 GGACTGTAACCAGGTGATGTAGGACTGTAACCAGGAGAGGTG
* * *
23878640 GGACTGTACCCAGGAGATGTAGGACTGTAACCAGGAGAGGTA
1 GGACTGTAACCAGGTGATGTAGGACTGTAACCAGGAGAGGTG
* *
23878682 GGACTGTAACCAGGTGATG-ACGGACTGTATCCAGGAGATGATG
1 GGACTGTAACCAGGTGATGTA-GGACTGTAACCAGGAGA-GGTG
*
23878725 GG-CTGTAACCAGGGGATG
1 GGACTGTAACCAGGTGATG
23878743 ACGTAGGAGA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 83 0.94
43 4 0.05
ACGTcount: A:0.27, C:0.14, G:0.39, T:0.19
Consensus pattern (42 bp):
GGACTGTAACCAGGTGATGTAGGACTGTAACCAGGAGAGGTG
Found at i:23883658 original size:14 final size:14
Alignment explanation
Indices: 23883612--23883647 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
23883602 AAAAAAAAAG
*
23883612 ATTAACAAAGCCAA
1 ATTAACAAAACCAA
23883626 ATTAACAAAACCAA
1 ATTAACAAAACCAA
23883640 ATTAACAA
1 ATTAACAA
23883648 CACAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.61, C:0.19, G:0.03, T:0.17
Consensus pattern (14 bp):
ATTAACAAAACCAA
Found at i:23884962 original size:15 final size:16
Alignment explanation
Indices: 23884944--23884976 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23884934 AAAAGACTGC
23884944 AAGAAAAA-TGGAGAA
1 AAGAAAAAGTGGAGAA
23884959 AAGAAAAAGTTGGAGAA
1 AAGAAAAAG-TGGAGAA
23884976 A
1 A
23884977 TTGAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (16 bp):
AAGAAAAAGTGGAGAA
Found at i:23890981 original size:35 final size:35
Alignment explanation
Indices: 23890942--23891016 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
23890932 TGTCGCCCCT
*
23890942 AAGGAATCGTATACCATTTACACAATGTCACCTCA
1 AAGGAATCATATACCATTTACACAATGTCACCTCA
* * * ** *
23890977 AAGGACTTATATACCATTTAGACGGTGTTACCTCA
1 AAGGAATCATATACCATTTACACAATGTCACCTCA
23891012 AAGGA
1 AAGGA
23891017 CCAATAAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (35 bp):
AAGGAATCATATACCATTTACACAATGTCACCTCA
Found at i:23891017 original size:35 final size:35
Alignment explanation
Indices: 23890951--23891017 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
23890941 TAAGGAATCG
23890951 TATACCATTTACACAATGTCACCTCAAAGGACTTA
1 TATACCATTTACACAATGTCACCTCAAAGGACTTA
* ** *
23890986 TATACCATTTAGACGGTGTTACCTCAAAGGAC
1 TATACCATTTACACAATGTCACCTCAAAGGAC
23891018 CAATAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (35 bp):
TATACCATTTACACAATGTCACCTCAAAGGACTTA
Found at i:23894445 original size:21 final size:21
Alignment explanation
Indices: 23894420--23894477 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
23894410 TACACGACCT
23894420 AACCACACGGGCGTGTCCCTA
1 AACCACACGGGCGTGTCCCTA
23894441 AACCACACGGGCGTGTCCCTA
1 AACCACACGGGCGTGTCCCTA
23894462 AACCACACGGGCGTGT
1 AACCACACGGGCGTGT
23894478 GAGCCTTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.24, C:0.36, G:0.26, T:0.14
Consensus pattern (21 bp):
AACCACACGGGCGTGTCCCTA
Found at i:23894667 original size:22 final size:22
Alignment explanation
Indices: 23894633--23894676 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
23894623 TTTTGATTCG
23894633 ATTTTTCTATAATTAATCTGTAA
1 ATTTTTCTATAA-TAATCTGTAA
* *
23894656 ATTTTT-TGTAATACTCTGTAA
1 ATTTTTCTATAATAATCTGTAA
23894677 CCCTATTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (22 bp):
ATTTTTCTATAATAATCTGTAA
Found at i:23908455 original size:20 final size:20
Alignment explanation
Indices: 23908427--23908465 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23908417 CCCTTACAAT
*
23908427 TTTGCAAGAGTTTTAGTAAA
1 TTTGCAAGAATTTTAGTAAA
*
23908447 TTTGTAAGAATTTTAGTAA
1 TTTGCAAGAATTTTAGTAA
23908466 TATCATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (20 bp):
TTTGCAAGAATTTTAGTAAA
Found at i:23908552 original size:19 final size:20
Alignment explanation
Indices: 23908528--23908576 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
23908518 ACAAAGTCAT
23908528 AAGCAATTCAATAA-TTTGC
1 AAGCAATTCAATAATTTTGC
*
23908547 AAGCAATTCAATAATTTTGT
1 AAGCAATTCAATAATTTTGC
23908567 AAG-AATTCAA
1 AAGCAATTCAA
23908577 GGAATTAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
AAGCAATTCAATAATTTTGC
Found at i:23909584 original size:22 final size:22
Alignment explanation
Indices: 23909559--23909655 Score: 72
Period size: 22 Copynumber: 4.4 Consensus size: 22
23909549 TGCACCATGA
*
23909559 TGCCTACTGATTTGCACTACAG
1 TGCCTACTAATTTGCACTACAG
** *
23909581 TGCCTACTAATTCACACTTC-G
1 TGCCTACTAATTTGCACTACAG
*
23909602 ATACCTAC-AATTTTGCACTACAG
1 -TGCCTACTAA-TTTGCACTACAG
* ** * *
23909625 TGCCTATTGTTTTGCACTTCGG
1 TGCCTACTAATTTGCACTACAG
23909647 TGCCTACTA
1 TGCCTACTA
23909656 TTAAAATACT
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
21 3 0.05
22 51 0.93
23 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (22 bp):
TGCCTACTAATTTGCACTACAG
Found at i:23912359 original size:30 final size:30
Alignment explanation
Indices: 23912324--23912381 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
23912314 TTGGCACTTC
23912324 CACACGGGT-GATCCACACGCCCATGTGTGA
1 CACACGGGTAGA-CCACACGCCCATGTGTGA
23912354 CACACGGGTAGACCACACGCCCATGTGT
1 CACACGGGTAGACCACACGCCCATGTGT
23912382 CATGGCCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.24, C:0.34, G:0.26, T:0.16
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCATGTGTGA
Found at i:23918857 original size:39 final size:39
Alignment explanation
Indices: 23918804--23918929 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
23918794 CCGGCAATTA
* *
23918804 GCCTACTAGATATAAACCTGAACTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
* *
23918843 GCCTGCTAGGTATAAACCTGAGCTTATCACCGGCACTAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
23918882 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
23918921 GCCTGCTAG
1 GCCTGCTAG
23918930 ACATTAAGTC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
Found at i:23924336 original size:48 final size:47
Alignment explanation
Indices: 23924281--23924455 Score: 208
Period size: 48 Copynumber: 3.7 Consensus size: 47
23924271 GGTGAATTTT
* *
23924281 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATGTTGAGGC
* * * * *
23924329 CGATGCCATGTCCCAGTCATGGTCTTACACTAGCT-CTTGTCTCATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATGT-TGA-GGC
* * * *
23924377 TGATGCCATGTCCCAGACATGGCCTTACACTGGCTCTCATGATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATGTTGAGGC
23924425 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
23924456 AGTACACATA
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 4 0.04
47 2 0.02
48 95 0.90
49 1 0.01
50 3 0.03
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATGTTGAGGC
Found at i:23924446 original size:96 final size:96
Alignment explanation
Indices: 23924282--23924457 Score: 289
Period size: 96 Copynumber: 1.8 Consensus size: 96
23924272 GTGAATTTTC
* * * *
23924282 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCCAGTC
1 GATGCCATGTCCCAAACATGGCCTTACACTGGCTCACATGATGAGGCCGATGCCATGTCCCAGAC
23924347 ATGGTCTTACACTAGCTCTTGTCTCATTGCT
66 ATGGTCTTACACTAGCTCTTGTCTCATTGCT
* * *
23924378 GATGCCATGTCCCAGACATGGCCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGCCTTACACTGGCTCACATGATGAGGCCGATGCCATGTCCCAGAC
23924443 ATGGTCTTACACTAG
66 ATGGTCTTACACTAG
23924458 TACACATATC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGCCTTACACTGGCTCACATGATGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTTGTCTCATTGCT
Found at i:23932345 original size:35 final size:35
Alignment explanation
Indices: 23932306--23932373 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
23932296 CCATGGTTGT
23932306 TCCATGGAAAAG-TGTGAAATGTAGGTATGGTATCA
1 TCCAT-GAAAAGTTGTGAAATGTAGGTATGGTATCA
***
23932341 TCCATGCTGAGTTGTGAAATGTAGGTATGGTAT
1 TCCATGAAAAGTTGTGAAATGTAGGTATGGTAT
23932374 TATCAAATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 3 0.10
35 26 0.90
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (35 bp):
TCCATGAAAAGTTGTGAAATGTAGGTATGGTATCA
Found at i:23932384 original size:40 final size:35
Alignment explanation
Indices: 23932318--23932448 Score: 111
Period size: 35 Copynumber: 3.6 Consensus size: 35
23932308 CATGGAAAAG
*
23932318 TGTGAAATGTAGGTATGGTATCATCCATGCTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
23932353 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** ** * * *
23932393 TAAGAAATGTAGGTACAGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
* *
23932428 TGTAAAATGTAGGTATAGTAT
1 TGTGAAATGTAGGTATGGTAT
23932449 TTCAATGAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
34 1 0.01
35 44 0.57
37 2 0.03
38 4 0.05
40 26 0.34
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:23934238 original size:48 final size:47
Alignment explanation
Indices: 23934183--23934452 Score: 218
Period size: 48 Copynumber: 5.6 Consensus size: 47
23934173 GTGAATTACC
* * * * *
23934183 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC-ATGCT
** * * * *
23934231 GATGCCATGTCCCAGTCATGGTATTACACTAGCTCTCGTTTCATTGTT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA-TGCT
* *
23934279 GATGCCATGTCCCAAACATGGTCTTACACTAGCGT-ACATATCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGC-TCTCATATC-ATGCT
* * * * * * *
23934327 GATGTCATGTCTCAGACATGGTTTTACACTAGCTCTCACAACATTGTT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA-TGCT
* * * * * *
23934375 GATGCCATGTTCCAAACATTGTCTTACATTGGCTCTCATATCGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAT-GCT
* * *
23934423 GATTCCATGTCCCAGACATAGTCTTACACT
1 GATGCCATGTCCCAAACATGGTCTTACACT
23934453 GGCACATATT
Statistics
Matches: 171, Mismatches: 45, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
47 4 0.02
48 165 0.96
49 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (47 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGCT
Found at i:23934347 original size:96 final size:96
Alignment explanation
Indices: 23934183--23934452 Score: 317
Period size: 96 Copynumber: 2.8 Consensus size: 96
23934173 GTGAATTACC
* * * * *
23934183 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCAGAC
****
23934248 ATGGTATTACACTAGCTCTCGTTTCATTGTT
66 ATGGTATTACACTAGCTCTCACAACATTGTT
* * * *
23934279 GATGCCATGTCCCAAACATGGTCTTACACTAGCGT-ACATATCAATGCCGATGTCATGTCTCAGA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGC-TCACATATCAAGGCCGATGCCATGTCCCAGA
*
23934343 CATGGTTTTACACTAGCTCTCACAACATTGTT
65 CATGGTATTACACTAGCTCTCACAACATTGTT
* * * * ** *
23934375 GATGCCATGTTCCAAACATTGTCTTACATTGGCTCTCATATCGTGGCCGATTCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCAGAC
* *
23934440 ATAGTCTTACACT
66 ATGGTATTACACT
23934453 GGCACATATT
Statistics
Matches: 145, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
95 1 0.01
96 143 0.99
97 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (96 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCAGAC
ATGGTATTACACTAGCTCTCACAACATTGTT
Found at i:23947422 original size:17 final size:17
Alignment explanation
Indices: 23947367--23947422 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
23947357 TAATTTTTAA
*
23947367 TAATTTATAAATTATAT
1 TAATTTAAAAATTATAT
23947384 TAATTT---AATTAT-T
1 TAATTTAAAAATTATAT
*
23947397 CACATTTAAAAATTATAT
1 TA-ATTTAAAAATTATAT
23947415 TAATTTAA
1 TAATTTAA
23947423 TCTTCAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 2 0.06
14 10 0.31
17 18 0.56
18 2 0.06
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTTAAAAATTATAT
Found at i:23948473 original size:20 final size:20
Alignment explanation
Indices: 23948450--23948488 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23948440 AAGAAAATAG
23948450 CAACAAAACAATAAAAAAAT
1 CAACAAAACAATAAAAAAAT
* *
23948470 CAACAAAATAGTAAAAAAA
1 CAACAAAACAATAAAAAAA
23948489 AATCCGGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.13, G:0.03, T:0.10
Consensus pattern (20 bp):
CAACAAAACAATAAAAAAAT
Found at i:23963154 original size:9 final size:9
Alignment explanation
Indices: 23963126--23963162 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
23963116 TGATTAAAAC
23963126 AATATTTAA
1 AATATTTAA
23963135 AA-A-TTATA
1 AATATTTA-A
23963143 AATATTTAA
1 AATATTTAA
23963152 AATATTTAA
1 AATATTTAA
23963161 AA
1 AA
23963163 AAATAGTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 3 0.12
8 4 0.16
9 15 0.60
10 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AATATTTAA
Found at i:23966312 original size:20 final size:19
Alignment explanation
Indices: 23966284--23966329 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
23966274 AATCACCTAA
* *
23966284 TTCTCCTTTTTTTCTTTTCT
1 TTCTTCTTTCTTTC-TTTCT
23966304 TTCTTCTTTCTTTCTTTCT
1 TTCTTCTTTCTTTCTTTCT
23966323 TTGCTTC
1 TT-CTTC
23966330 CCCTGCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (19 bp):
TTCTTCTTTCTTTCTTTCT
Found at i:23966319 original size:15 final size:16
Alignment explanation
Indices: 23966294--23966323 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23966284 TTCTCCTTTT
23966294 TTTCTTTTCTTTCTTC
1 TTTCTTTTCTTTCTTC
23966310 TTTC-TTTCTTTCTT
1 TTTCTTTTCTTTCTT
23966324 TGCTTCCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTTCTTTCTTC
Found at i:23966387 original size:14 final size:14
Alignment explanation
Indices: 23966355--23966396 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
23966345 GCCTATTCTG
23966355 TTTCTTTTATTTGTTC
1 TTTCTTTTA-TT-TTC
23966371 TTTAC-TTTATTTTC
1 TTT-CTTTTATTTTC
23966385 TTTCTTTTATTT
1 TTTCTTTTATTT
23966397 GTTTTAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.04
14 13 0.54
15 2 0.08
16 7 0.29
17 1 0.04
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTATTTTC
Found at i:23968015 original size:29 final size:31
Alignment explanation
Indices: 23967983--23968042 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
23967973 TTAAAAATTA
23967983 GAAATTTAGTC-TCTATATTTTC-ATTTCAT
1 GAAATTTAGTCTTCTATATTTTCAATTTCAT
*
23968012 GAAATTTAGTCTTTCTATTTTTTCAATTTCA
1 GAAATTTAGTC-TTCTATATTTTCAATTTCA
23968043 AAATTCAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.41
31 10 0.37
32 6 0.22
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (31 bp):
GAAATTTAGTCTTCTATATTTTCAATTTCAT
Found at i:23972523 original size:6 final size:6
Alignment explanation
Indices: 23972509--23972547 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
23972499 CACTAATCTC
*
23972509 TCTCCT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCT
23972548 TTGGCTGCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (6 bp):
TCTCTT
Found at i:23978370 original size:18 final size:18
Alignment explanation
Indices: 23978332--23978364 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23978322 ACTTGTAAGA
23978332 AATTGTAACCTATCTCAC
1 AATTGTAACCTATCTCAC
23978350 AATTGT-ACCT-TCTCA
1 AATTGTAACCTATCTCA
23978365 TCCAATCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (18 bp):
AATTGTAACCTATCTCAC
Found at i:23990261 original size:30 final size:31
Alignment explanation
Indices: 23990189--23990267 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 31
23990179 TACTATTCAT
* * *
23990189 TTCAGGTTATTTATGTACATAATAAAAAAAA
1 TTCAAGTTATTTTTGTAAATAATAAAAAAAA
* * *
23990220 GT-GAGTCATTTTTGTAAATAAT-AAAAAAA
1 TTCAAGTTATTTTTGTAAATAATAAAAAAAA
*
23990249 TTCAAGTTATTTTTATAAA
1 TTCAAGTTATTTTTGTAAA
23990268 AAAAACACAT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
29 8 0.22
30 28 0.76
31 1 0.03
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (31 bp):
TTCAAGTTATTTTTGTAAATAATAAAAAAAA
Found at i:23997762 original size:19 final size:19
Alignment explanation
Indices: 23997726--23997763 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23997716 ATTCCATCAA
*
23997726 TTATAAAATTTTTATTAAT
1 TTATAAAATTATTATTAAT
23997745 TTATAAAAGTTATT-TTAAT
1 TTATAAAA-TTATTATTAAT
23997764 ATCTATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTATAAAATTATTATTAAT
Found at i:23999061 original size:30 final size:30
Alignment explanation
Indices: 23999022--23999078 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
23999012 TTTTATAAGT
23999022 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
23999052 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
23999079 AACGACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:24008047 original size:27 final size:27
Alignment explanation
Indices: 24008014--24008095 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
24008004 TTTAAAATTG
24008014 TTTAAAATTTTTAAAAAATCATAAAAT
1 TTTAAAATTTTTAAAAAATCATAAAAT
* * * *
24008041 TTTAAAAATTATACTAAAATC-TAGAAT
1 TTTAAAATTTTTA-AAAAATCATAAAAT
* * *
24008068 TTTGAAATTTTAAAAAAATTATAAAAT
1 TTTAAAATTTTTAAAAAATCATAAAAT
24008095 T
1 T
24008096 ATAAGAGAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
26 5 0.12
27 31 0.74
28 6 0.14
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (27 bp):
TTTAAAATTTTTAAAAAATCATAAAAT
Found at i:24009668 original size:46 final size:47
Alignment explanation
Indices: 24009593--24009694 Score: 129
Period size: 46 Copynumber: 2.2 Consensus size: 47
24009583 TAAATTTATA
* *
24009593 TAAT-TTTTTACAATTCTTATAATAATTTTAATAGT-TTTTATATTTT
1 TAATATTTTTACAATTCTTATAATAATTTTAATA-TATTTAATATATT
* * *
24009639 TAATATTTTTGCAATT-TTATATTATTTTTAATATATTTAATATATT
1 TAATATTTTTACAATTCTTATAATAATTTTAATATATTTAATATATT
24009685 TAATATTTTT
1 TAATATTTTT
24009695 TATAACTTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.02
46 38 0.78
47 10 0.20
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (47 bp):
TAATATTTTTACAATTCTTATAATAATTTTAATATATTTAATATATT
Found at i:24016748 original size:8 final size:8
Alignment explanation
Indices: 24016735--24016768 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
24016725 TTGTTTTAGT
24016735 TATAATAA
1 TATAATAA
24016743 TATAATAA
1 TATAATAA
24016751 TATAATAA
1 TATAATAA
24016759 TATAATAA
1 TATAATAA
24016767 TA
1 TA
24016769 ATTTCTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAATAA
Found at i:24017816 original size:50 final size:50
Alignment explanation
Indices: 24017554--24017813 Score: 292
Period size: 50 Copynumber: 5.2 Consensus size: 50
24017544 CCTAAATGAC
* * * * * *
24017554 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * * *
24017604 CTTGAATATTCGACCATGAAAGTGT--GCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCAT-ATAG-GTAAGCACATATGTGATATTATATTTG-AT
* * * *
24017655 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * *
24017704 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGTT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * *
24017754 CTTGCATATTTGGCCATATAGGTAAGCACATATGTGATATTATATCTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
24017804 CTTGTATATT
1 CTTGTATATT
24017814 TGGTCAAATG
Statistics
Matches: 177, Mismatches: 27, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.01
49 4 0.02
50 164 0.93
51 5 0.03
52 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:24021651 original size:48 final size:50
Alignment explanation
Indices: 24021562--24021656 Score: 124
Period size: 48 Copynumber: 1.9 Consensus size: 50
24021552 AGTAAAAGAG
* *
24021562 TATTAATTAAAAAGATAAATTAAAAATAAATAATTTGAAAACAATATATT
1 TATTAATTAAAAAGATAAATTAAAAATAAAAAACTTGAAAACAATATATT
* *
24021612 TATTAATTAAAAA-A-CAGTTAAAAATAAAAAAGCTT-AAAACAATAT
1 TATTAATTAAAAAGATAAATTAAAAATAAAAAA-CTTGAAAACAATAT
24021657 CAAATAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
48 24 0.60
49 3 0.08
50 13 0.32
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (50 bp):
TATTAATTAAAAAGATAAATTAAAAATAAAAAACTTGAAAACAATATATT
Found at i:24028195 original size:55 final size:54
Alignment explanation
Indices: 24028115--24028225 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 54
24028105 TTGAAAATAC
*
24028115 ATTTTATTTTCAAAAACTTTGAAAATTTAAATTTAAACTTTAAAGATGAAAGAA
1 ATTTTATTTTCAAAAACTTTAAAAATTTAAATTTAAACTTTAAAGATGAAAGAA
24028169 ATTTCTATTTTCAAAAACTTTAAAAATTTAAATTTAAACTTTAAAGATGAAAGAA
1 ATTT-TATTTTCAAAAACTTTAAAAATTTAAATTTAAACTTTAAAGATGAAAGAA
24028224 AT
1 AT
24028226 AATCATGAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 4 0.07
55 51 0.93
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (54 bp):
ATTTTATTTTCAAAAACTTTAAAAATTTAAATTTAAACTTTAAAGATGAAAGAA
Found at i:24028899 original size:42 final size:43
Alignment explanation
Indices: 24028787--24028909 Score: 153
Period size: 42 Copynumber: 2.9 Consensus size: 43
24028777 AACAAACTCA
* *
24028787 AAATAAATAAGCAAAAAATTAAATTTATAATTATATTTTGGTAC
1 AAATAAATAA-TAAAAAATTAAATTTAAAATTATATTTTGGTAC
* **
24028831 AAATAAATAATAAAAAAATATTTTTAAAATTAGT-TTTT-GTAC
1 AAATAAATAATAAAAAATTAAATTTAAAATTA-TATTTTGGTAC
*
24028873 AAATATATAATAAAAAATTAAATTTAAAA-TATATTTT
1 AAATAAATAATAAAAAATTAAATTTAAAATTATATTTT
24028910 AAGATTAACT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
40 1 0.01
41 6 0.09
42 29 0.43
43 21 0.31
44 11 0.16
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (43 bp):
AAATAAATAATAAAAAATTAAATTTAAAATTATATTTTGGTAC
Found at i:24033707 original size:16 final size:16
Alignment explanation
Indices: 24033686--24033752 Score: 84
Period size: 16 Copynumber: 4.2 Consensus size: 16
24033676 AATCTTTCTT
24033686 TTTATTTTTAT-TTTTA
1 TTTATTTTT-TCTTTTA
24033702 TTTATTTTTTCTTTTA
1 TTTATTTTTTCTTTTA
*
24033718 TTTATTTTTTCTTTTC
1 TTTATTTTTTCTTTTA
* *
24033734 TTT-TCTTTTATTTTA
1 TTTATTTTTTCTTTTA
24033749 TTTA
1 TTTA
24033753 AATATTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.29
16 32 0.71
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTTCTTTTA
Found at i:24033726 original size:26 final size:27
Alignment explanation
Indices: 24033680--24033751 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 27
24033670 CAACCCAATC
24033680 TTTCTTTTTATTTTTATTTTTAT-TTATT-T
1 TTTC-TTTTA-TTTTATTTTT-TCTT-TTCT
24033709 TTTCTTTTA-TTTATTTTTTCTTTTCT
1 TTTCTTTTATTTTATTTTTTCTTTTCT
24033735 TTTCTTTTATTTTATTT
1 TTTCTTTTATTTTATTT
24033752 AAATATTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
25 3 0.08
26 21 0.52
27 7 0.17
28 5 0.12
29 4 0.10
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (27 bp):
TTTCTTTTATTTTATTTTTTCTTTTCT
Found at i:24033932 original size:42 final size:42
Alignment explanation
Indices: 24033830--24033934 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
24033820 ATCCATGGTA
* *
24033830 CCAAACAGTTCTATTCCAACCCAAAATGCCATATCCCTGCTG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAG
** *
24033872 CCAAACAGTTCTATTCCAGCCCAGGATGCCATATCTCTGCAG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAG
*
24033914 CCAAACAGTCCTATTCCAGCC
1 CCAAACAGTTCTATTCCAGCC
24033935 GTAGAATCCC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.29, C:0.36, G:0.12, T:0.23
Consensus pattern (42 bp):
CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAG
Found at i:24038442 original size:41 final size:40
Alignment explanation
Indices: 24038387--24038504 Score: 96
Period size: 41 Copynumber: 2.9 Consensus size: 40
24038377 AAGCCTTGTG
* *
24038387 CTGGTGAATTAAATCGGGCTTTATGCCTAGCAGGCTTATTA
1 CTGGTGTATAAAATCGGGCTTTATGCCTAGCAGGCTTA-TA
* * * * *
24038428 CTGGTGTATAAAATCAGACTTTGA-GTCTAGCAGGCCTCATG
1 CTGGTGTATAAAATCGGGCTTT-ATGCCTAGCAGG-CTTATA
* * * *
24038469 CCGGTGTGTGATA-CGGGCTTTATGCCTAGCAGGCTT
1 CTGGTGTATAAAATCGGGCTTTATGCCTAGCAGGCTT
24038505 TATGCCGGTG
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
39 3 0.05
40 15 0.25
41 37 0.63
42 4 0.07
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
CTGGTGTATAAAATCGGGCTTTATGCCTAGCAGGCTTATA
Found at i:24041225 original size:33 final size:33
Alignment explanation
Indices: 24041182--24041350 Score: 196
Period size: 33 Copynumber: 5.1 Consensus size: 33
24041172 TGTACGTTTC
* *
24041182 TTTCTGAGTGGTACATACAAAGTATACCTTTCCT
1 TTTCT-AGTGGTATACACAAAGTATACCTTTCCT
**
24041216 TTTCTAGTGGTATACACAAAGTATACCTAACCT
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCT
* * * * * **
24041249 TTCCAAGT-GTACACACAAAGTGTACATAACCT
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCT
* *
24041281 TTTCAAATGGTATACACAAAGTATACCTTTCCT
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCT
*
24041314 TTTCTAGTGGTATGCACAAAGTATACCTTTCCT
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCT
24041347 TTTC
1 TTTC
24041351 ACATTTGATA
Statistics
Matches: 115, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
32 27 0.23
33 83 0.72
34 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (33 bp):
TTTCTAGTGGTATACACAAAGTATACCTTTCCT
Found at i:24041261 original size:65 final size:66
Alignment explanation
Indices: 24041188--24041351 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 66
24041178 TTTCTTTCTG
* * *
24041188 AGTGGTACATACAAAGTATACCTTTCCTTTTCTAGTGGTATACACAAAGTATACCTAACCTTTCC
1 AGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCC
24041253 A
66 A
* * ** ** *
24041254 AGT-GTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTTTCCTTTTC
1 AGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCC
*
24041318 T
66 A
**
24041319 AGTGGTATGCACAAAGTATACCTTTCCTTTTCA
1 AGTGGTACACACAAAGTATACCTTTCCTTTTCA
24041352 CATTTGATAA
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
65 54 0.68
66 26 0.32
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (66 bp):
AGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCC
A
Found at i:24041400 original size:29 final size:29
Alignment explanation
Indices: 24041344--24041558 Score: 322
Period size: 29 Copynumber: 7.4 Consensus size: 29
24041334 GTATACCTTT
* * * *
24041344 CCTTTTCACATTTGATAACTGAAACTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
24041373 CCTTTTCACATTCAATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
24041402 CCTTTTCACATTCGATAGCTGAAGGTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
24041431 CCTTTTCACATTCAATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* * *
24041460 CCTTTTTATATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
24041489 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
24041518 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
24041547 CCTTTTCACATT
1 CCTTTTCACATT
24041559 GTACACACAA
Statistics
Matches: 167, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 167 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:24049894 original size:10 final size:10
Alignment explanation
Indices: 24049876--24049906 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24049866 AATTTTCTTG
*
24049876 CTTTAAAAAT
1 CTTTGAAAAT
24049886 CTTTGAAAAT
1 CTTTGAAAAT
24049896 CTTTGAAAAT
1 CTTTGAAAAT
24049906 C
1 C
24049907 AGGGTGGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (10 bp):
CTTTGAAAAT
Found at i:24051728 original size:33 final size:33
Alignment explanation
Indices: 24051690--24051755 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
24051680 GAGGTGTACG
* *
24051690 TTTCTTTCCGAGTGGTACACACAAAGTATACCT
1 TTTCTTTCCAAATGGTACACACAAAGTATACCT
* *
24051723 TTTCTTTTCAAATGGTATACACAAAGTATACCT
1 TTTCTTTCCAAATGGTACACACAAAGTATACCT
24051756 AACCTTTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (33 bp):
TTTCTTTCCAAATGGTACACACAAAGTATACCT
Found at i:24051824 original size:84 final size:85
Alignment explanation
Indices: 24051702--24051857 Score: 260
Period size: 84 Copynumber: 1.8 Consensus size: 85
24051692 TCTTTCCGAG
* *
24051702 TGGTACACACAAAGTATACCTTTTCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAA
1 TGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATAACTAACCTTTCCAA
24051767 GTGTACATAACCTTTTTAAA
66 GTGTACATAACCTTTTTAAA
* * *
24051787 TGGTATAC-CAAAGTATACCTTTCCTTTTCTAGTGGTATACACAAAGTATAACTAACCTTTCCAA
1 TGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATAACTAACCTTTCCAA
24051851 GTGTACA
66 GTGTACA
24051858 CACAAAGTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 59 0.89
85 7 0.11
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (85 bp):
TGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATAACTAACCTTTCCAA
GTGTACATAACCTTTTTAAA
Found at i:24051935 original size:33 final size:33
Alignment explanation
Indices: 24051777--24051947 Score: 184
Period size: 33 Copynumber: 5.2 Consensus size: 33
24051767 GTGTACATAA
* *
24051777 CCTTTTTAAATGGTATAC-CAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
* * **
24051809 CCTTTTCTAGTGGTATACACAAAGTATAACTAA
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
* * * * **
24051842 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
* * *
24051874 CCTTTGCAAATGGTATATACAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
*
24051907 CCTTTTCTAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
24051940 CCTTTTCA
1 CCTTTTCA
24051948 CATTCGATAG
Statistics
Matches: 112, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
32 41 0.37
33 71 0.63
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATACCTTT
Found at i:24051986 original size:29 final size:29
Alignment explanation
Indices: 24051940--24052096 Score: 260
Period size: 29 Copynumber: 5.4 Consensus size: 29
24051930 GTATACCTTT
* *
24051940 CCTTTTCACATTCGATAGCTGAAGGTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
24051969 CCTTTTCACATTCAATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* * *
24051998 CCTTTTTATATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
24052027 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
24052056 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
24052085 CCTTTTCACATT
1 CCTTTTCACATT
24052097 GTACACACAA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:24055022 original size:40 final size:40
Alignment explanation
Indices: 24054967--24055172 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
24054957 GGACTAATAT
* *
24054967 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
24055007 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
24055047 CTGAAGGCATTTGTACGAGTTACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
24055087 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
** *
24055127 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
24055166 CCGAAGG
1 CCGAAGG
24055173 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 15 0.10
40 140 0.90
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:24057212 original size:179 final size:179
Alignment explanation
Indices: 24056907--24057269 Score: 663
Period size: 179 Copynumber: 2.0 Consensus size: 179
24056897 ATTTATACCC
*
24056907 TTTTTGTGAATGCCTATGAGATTTAGGGTTTTGTTTACAAGTGTTCTCTTTGGGATTTTGAGCTT
1 TTTTTGTGAATGCCTATGAGATTTAGAGTTTTGTTTACAAGTGTTCTCTTTGGGATTTTGAGCTT
* *
24056972 CGTATTCGAGGTTTTGGGTAATGTACATTTGGTACATTTATGTTAATTTTCTCCATATTTTACTC
66 CGTATTCGAGGTTTTAGGTAATGTACATTTAGTACATTTATGTTAATTTTCTCCATATTTTACTC
*
24057037 TCATTTGTTTGCTCATTTAGTTAAAAGCTGAAGCCTCCTTTACCTATGG
131 TCATTTGTTTGCTCATTTAGTTAAAAGCCGAAGCCTCCTTTACCTATGG
* *
24057086 TTTTTGTGAATGCCTATGAGATTTAGAGTTTTGTTTACCAGTTTTCTCTTTGGGATTTTGAGCTT
1 TTTTTGTGAATGCCTATGAGATTTAGAGTTTTGTTTACAAGTGTTCTCTTTGGGATTTTGAGCTT
*
24057151 CGTATTCGAGGTTTTAGGTAATGTACATTTAGTACATTTATGTTAATTTTCTCCTTATTTTACTC
66 CGTATTCGAGGTTTTAGGTAATGTACATTTAGTACATTTATGTTAATTTTCTCCATATTTTACTC
24057216 TCATTTGTTTGCTCATTTAGTTAAAAGCCGAAGCCTCCTTTACCTATGG
131 TCATTTGTTTGCTCATTTAGTTAAAAGCCGAAGCCTCCTTTACCTATGG
24057265 TTTTT
1 TTTTT
24057270 CCTTCTTTGA
Statistics
Matches: 177, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
179 177 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.47
Consensus pattern (179 bp):
TTTTTGTGAATGCCTATGAGATTTAGAGTTTTGTTTACAAGTGTTCTCTTTGGGATTTTGAGCTT
CGTATTCGAGGTTTTAGGTAATGTACATTTAGTACATTTATGTTAATTTTCTCCATATTTTACTC
TCATTTGTTTGCTCATTTAGTTAAAAGCCGAAGCCTCCTTTACCTATGG
Found at i:24063480 original size:20 final size:20
Alignment explanation
Indices: 24063455--24063506 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
24063445 CACCATTGTT
* *
24063455 TCTAATATCACTCTACAGTA
1 TCTAATCTCACGCTACAGTA
24063475 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCA-CGCTACAGTA
*
24063496 ACTAATCTCAC
1 TCTAATCTCAC
24063507 CGCCACCGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.31
Consensus pattern (20 bp):
TCTAATCTCACGCTACAGTA
Found at i:24063493 original size:21 final size:21
Alignment explanation
Indices: 24063467--24063509 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
24063457 TAATATCACT
*
24063467 CTACAGTATCTAATCTCACCG
1 CTACAGTAACTAATCTCACCG
24063488 CTACAGTAACTAATCTCACCG
1 CTACAGTAACTAATCTCACCG
24063509 C
1 C
24063510 CACCGCTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.35, G:0.09, T:0.26
Consensus pattern (21 bp):
CTACAGTAACTAATCTCACCG
Found at i:24064089 original size:29 final size:27
Alignment explanation
Indices: 24064055--24064151 Score: 81
Period size: 27 Copynumber: 3.4 Consensus size: 27
24064045 AATTTTAGAA
24064055 ATTTTTTTATATTTTAAAAATAGTTTTT
1 ATTTTTTTATATTTTAAAAATA-TTTTT
* *
24064083 A-TTTTTTAAATTTTAAAGAGTTATTTTT
1 ATTTTTTTATATTTTAAA-A-ATATTTTT
*
24064111 CATAATTTTTAT-TTTTAAAAATAAATTTTT
1 -AT-TTTTTTATATTTTAAAAAT--ATTTTT
24064141 ATGTTTTTTAT
1 AT-TTTTTTAT
24064152 TTAAAATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
27 15 0.27
28 8 0.15
29 13 0.24
30 13 0.24
31 6 0.11
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (27 bp):
ATTTTTTTATATTTTAAAAATATTTTT
Found at i:24064152 original size:29 final size:27
Alignment explanation
Indices: 24064055--24064153 Score: 90
Period size: 30 Copynumber: 3.4 Consensus size: 27
24064045 AATTTTAGAA
*
24064055 ATTTTTTTATATTTTAAAAATAGTTTTT
1 ATTTTTTTAT-TTTTAAAAATAATTTTT
* * * *
24064083 ATTTTTTAAATTTTAAAGAGTTATTTTT
1 ATTTTTTTATTTTTAAA-AATAATTTTT
*
24064111 CATAATTTTTATTTTTAAAAATAAATTTTT
1 -AT-TTTTTTATTTTTAAAAAT-AATTTTT
24064141 ATGTTTTTTATTT
1 AT-TTTTTTATTT
24064154 AAAATATAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
27 7 0.13
28 15 0.27
29 15 0.27
30 18 0.33
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (27 bp):
ATTTTTTTATTTTTAAAAATAATTTTT
Found at i:24064345 original size:35 final size:35
Alignment explanation
Indices: 24064287--24064360 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
24064277 CATTTTAACC
24064287 TACTAAATTACATAGTATATATTATAAATTATTTA
1 TACTAAATTACATAGTATATATTATAAATTATTTA
* * *
24064322 TACTAAATTAGAT-GATATTTATTATTAATTATTTA
1 TACTAAATTACATAG-TATATATTATAAATTATTTA
24064357 TACT
1 TACT
24064361 TAATCAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (35 bp):
TACTAAATTACATAGTATATATTATAAATTATTTA
Found at i:24066825 original size:15 final size:15
Alignment explanation
Indices: 24066805--24066834 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24066795 AGGACTATAA
24066805 GTATGTTATAACCAT
1 GTATGTTATAACCAT
24066820 GTATGTTATAACCAT
1 GTATGTTATAACCAT
24066835 ATTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
GTATGTTATAACCAT
Found at i:24070597 original size:589 final size:589
Alignment explanation
Indices: 24069481--24070662 Score: 2184
Period size: 589 Copynumber: 2.0 Consensus size: 589
24069471 GGGATTTGAA
24069481 ACTTTAACCACAAATTCAGTGAATTCAACAGGTAAATTTTTAACAGACACTAAGTTCATGCATAT
1 ACTTTAACCACAAATTCAGTGAATTCAACAGGTAAATTTTTAACAGACACTAAGTTCATGCATAT
* *
24069546 GTGTGAATGCGTTGAATCAGGATCAATCAAAGCAGTAATATCAGTATCAAGTAGAGAAAATGTAC
66 GTATGAATGCGTTGAATCAGGATCAATCAAAGCAGTAATATCAGTATCAAGTAGAGAAAATATAC
*
24069611 CAGTAATGACGTCTGGTGCAGAGGCATCCTCTCTTGCACGTATAGTATATGTCCTAGCCGGTGAT
131 CAGTAATGACGTCTGGTGCAGAGGCATCCTCTCTTGCACGTATAGCATATGTCCTAGCCGGTGAT
*
24069676 CGTGCCTCAGATTTAACTGTTGAATCTTTTGTAGCACTTCGACTACCACTGACATTTCCAGGATA
196 CGTGCCTCAGATTTAACTGTTGAATCTTTTGTAGCACTTCAACTACCACTGACATTTCCAGGATA
24069741 TCGAGGAGGTCTACCTCTCGCACTAGGGTTGCTTGGCTTTAAAGTCTGATCAGTATCTTTTTCAA
261 TCGAGGAGGTCTACCTCTCGCACTAGGGTTGCTTGGCTTTAAAGTCTGATCAGTATCTTTTTCAA
24069806 TCCTTTCCGAACAATCTTTAAGAAAACGATCAAGAGAACCACATTTATAACATGCTCCAGTTCTC
326 TCCTTTCCGAACAATCTTTAAGAAAACGATCAAGAGAACCACATTTATAACATGCTCCAGTTCTC
* * *
24069871 AAATAGCATTCCCTAAAATAAAATTTATTATAGTGTTTACACCTCAATTTGGGGTTACCGACACT
391 AAACAGCATTCCCCAAAATAAAATTTATTACAGTGTTTACACCTCAATTTGGGGTTACCGACACT
* *
24069936 TCCCATACTTGTTACAAATAGAGACCAAGATCTCGGGTTAGAACGTTGAGAGCTTCGCTTTTTCC
456 TCCCACACTTGTTACAAATAGAGACCAAGATCTCGGGTTAGAACGTTGAGAGCCTCGCTTTTTCC
24070001 CAAAATATCCCGTAAAGGTGGTAGAACGATCATGGTACTTCTTTGATTTCTTTGAAATAGATGAT
521 CAAAATATCCCGTAAAGGTGGTAGAACGATCATGGTACTTCTTTGATTTCTTTGAAATAGATGAT
24070066 TGTG
586 TGTG
24070070 ACTTTAACCACAAATTCAGTGAATTCAACAGGTAAATTTTTAACAGACACTAAGTTCATGCATAT
1 ACTTTAACCACAAATTCAGTGAATTCAACAGGTAAATTTTTAACAGACACTAAGTTCATGCATAT
* *
24070135 GTATGAATGCGTTGAATTAGGATCAATCAAAGTAGTAATATCAGTATCAAGTAGAGAAAATATAC
66 GTATGAATGCGTTGAATCAGGATCAATCAAAGCAGTAATATCAGTATCAAGTAGAGAAAATATAC
*
24070200 CAGTAATGACGTCTGGTGCAGAGGCATCCTCTCTTGCACGTATAGCATATGTCCTAGCCGGTGTT
131 CAGTAATGACGTCTGGTGCAGAGGCATCCTCTCTTGCACGTATAGCATATGTCCTAGCCGGTGAT
*
24070265 CGTGCCTCAGATTTAACTGTTGAATCTTTTGTAGCACTTCAACTATCACTGACATTTCCAGGATA
196 CGTGCCTCAGATTTAACTGTTGAATCTTTTGTAGCACTTCAACTACCACTGACATTTCCAGGATA
24070330 TCGAGGAGGTCTACCTCTCGCACTAGGGTTGCTTGGCTTTAAAGTCTGATCAGTATCTTTTTCAA
261 TCGAGGAGGTCTACCTCTCGCACTAGGGTTGCTTGGCTTTAAAGTCTGATCAGTATCTTTTTCAA
* *
24070395 TCCTTTCCGAACAATCTTTAAGAAAATGATTAAGAGAACCACATTTATAACATGCTCCAGTTCTC
326 TCCTTTCCGAACAATCTTTAAGAAAACGATCAAGAGAACCACATTTATAACATGCTCCAGTTCTC
*
24070460 AAACAGCATTCCCCAAAATAAAATTTATTGCAGTGTTTACACCTCAATTTGGGGTTACCGACACT
391 AAACAGCATTCCCCAAAATAAAATTTATTACAGTGTTTACACCTCAATTTGGGGTTACCGACACT
** * *
24070525 TCTTACACTTGTTACAAATGGAGACGAAGATCTCGGGTTAGAACGTTGAGAGCCTCGCTTTTTCC
456 TCCCACACTTGTTACAAATAGAGACCAAGATCTCGGGTTAGAACGTTGAGAGCCTCGCTTTTTCC
24070590 CAAAATATCCCGTAAAGGTGGTAGAACGATCATGGTACTTCTTTGATTTCTTTGAAATAGATGAT
521 CAAAATATCCCGTAAAGGTGGTAGAACGATCATGGTACTTCTTTGATTTCTTTGAAATAGATGAT
24070655 TGTG
586 TGTG
24070659 ACTT
1 ACTT
24070663 ATCCATAAAT
Statistics
Matches: 573, Mismatches: 20, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
589 573 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (589 bp):
ACTTTAACCACAAATTCAGTGAATTCAACAGGTAAATTTTTAACAGACACTAAGTTCATGCATAT
GTATGAATGCGTTGAATCAGGATCAATCAAAGCAGTAATATCAGTATCAAGTAGAGAAAATATAC
CAGTAATGACGTCTGGTGCAGAGGCATCCTCTCTTGCACGTATAGCATATGTCCTAGCCGGTGAT
CGTGCCTCAGATTTAACTGTTGAATCTTTTGTAGCACTTCAACTACCACTGACATTTCCAGGATA
TCGAGGAGGTCTACCTCTCGCACTAGGGTTGCTTGGCTTTAAAGTCTGATCAGTATCTTTTTCAA
TCCTTTCCGAACAATCTTTAAGAAAACGATCAAGAGAACCACATTTATAACATGCTCCAGTTCTC
AAACAGCATTCCCCAAAATAAAATTTATTACAGTGTTTACACCTCAATTTGGGGTTACCGACACT
TCCCACACTTGTTACAAATAGAGACCAAGATCTCGGGTTAGAACGTTGAGAGCCTCGCTTTTTCC
CAAAATATCCCGTAAAGGTGGTAGAACGATCATGGTACTTCTTTGATTTCTTTGAAATAGATGAT
TGTG
Found at i:24079695 original size:13 final size:13
Alignment explanation
Indices: 24079677--24079701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24079667 ATAACAGTAC
24079677 ATATAAAATACCT
1 ATATAAAATACCT
24079690 ATATAAAATACC
1 ATATAAAATACC
24079702 AGAAGAGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
ATATAAAATACCT
Found at i:24082218 original size:57 final size:57
Alignment explanation
Indices: 24082125--24082281 Score: 190
Period size: 57 Copynumber: 2.8 Consensus size: 57
24082115 ATCAAATAAC
* ** * *
24082125 AGGATTACCAGTCCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGAGCTTAATT
1 AGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCACAAAAGCTCAATT
* * * * *
24082182 AGGATTACCAATCCAAGCTGAATCCTTTCTGTAACATATGCTCAGAAAAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCACAAAAGCTCAATT
* *
24082239 AGGATTACTAGTCCAGGCTAAATCCTAAT-TGTAGCATATGCTC
1 AGGATTACCAGTCCAGGCTAAATCCT-ATCTGTAACATATGCTC
24082282 GAGAGGGATT
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
57 83 0.99
58 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCACAAAAGCTCAATT
Found at i:24086336 original size:21 final size:21
Alignment explanation
Indices: 24086310--24086353 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
24086300 CTTAGAGCGA
*
24086310 AGGCAGCAGCGAGGGAGGCGG
1 AGGCAGCAGAGAGGGAGGCGG
24086331 AGGCAGCAGAGAGGGAGGCGG
1 AGGCAGCAGAGAGGGAGGCGG
24086352 AG
1 AG
24086354 CAGAACAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.57, T:0.00
Consensus pattern (21 bp):
AGGCAGCAGAGAGGGAGGCGG
Found at i:24095404 original size:130 final size:129
Alignment explanation
Indices: 24094992--24095455 Score: 417
Period size: 131 Copynumber: 3.6 Consensus size: 129
24094982 AGAAAATCGA
* * * **
24094992 AACCCAGCAC-AGTAGGGCACGACTCCTTGAATTTCTAAACATTCG-ACATTGCCTT-ATTTTAG
1 AACCCAGCACGA-TAGGGCACGATTCC-CGAATTTCCAAACA-TCGAACATCACCTTCATTTTAG
* * * * *
24095054 -G-A-TTTGAAGAACAT-GAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAA-CAGGAG
63 AGAATTTTTAAAAACATGGA-TGAAATTCTAAAGGAATATTCGATTA-TTTGAGCAAATGA-GAA
*
24095114 ATCGC
125 ATTGC
* * *
24095119 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACATTACCTTCATTTTAGAG
1 AACCCAGCACGATAGGGCACGATT-CCCGAATTTCCAAACATCGAACATCACCTTCATTTTAGAG
* * * * * * * *
24095184 AATTTTTAAAGACATGGGTGAAATTCCAAAGGAATACTCAATTGTTTAGAGCGAATGGGAAATTG
65 AATTTTTAAAAACATGGATGAAATTCTAAAGGAATATTCGATTATTT-GAGCAAATGAGAAATTG
*
24095249 A
129 C
* * ** * *
24095250 AACCCAGCACGATAGGGCACGATTCCCTAATTTCCAAACATTGAGTATCACTTTCGTTTT-GAAG
1 AACCCAGCACGATAGGGCACGATTCCCGAATTTCCAAACATCGAACATCACCTTCATTTTAG-AG
* *
24095314 AATTTTTAGAAAACATGGATGAAATTCTAAAGGGACATTCGATTATTTGAGCAAATGAGAAATTG
65 AATTTTTA-AAAACATGGATGAAATTCTAAAGGAATATTCGATTATTTGAGCAAATGAGAAATTG
24095379 C
129 C
* ** ** *
24095380 AACCCAGCAC-ATTAGGGCACGATTCCGCGAATTTCCAAATATCGAACATCGTCTTTGTTTTAAA
1 AACCCAGCACGA-TAGGGCACGATTCC-CGAATTTCCAAACATCGAACATCACCTTCATTTTAGA
24095444 GAATTTTTAAAA
64 GAATTTTTAAAA
24095456 GAATGATTAT
Statistics
Matches: 273, Mismatches: 49, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
126 3 0.01
127 42 0.15
128 10 0.04
129 3 0.01
130 83 0.30
131 131 0.48
132 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (129 bp):
AACCCAGCACGATAGGGCACGATTCCCGAATTTCCAAACATCGAACATCACCTTCATTTTAGAGA
ATTTTTAAAAACATGGATGAAATTCTAAAGGAATATTCGATTATTTGAGCAAATGAGAAATTGC
Found at i:24097854 original size:4 final size:4
Alignment explanation
Indices: 24097845--24097870 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24097835 GGACTGTGGG
24097845 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
24097871 TATATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:24104463 original size:131 final size:129
Alignment explanation
Indices: 24104246--24104639 Score: 477
Period size: 131 Copynumber: 3.0 Consensus size: 129
24104236 ATAATCATTC
* ** * * * *
24104246 TTTTAAAAATTCTTTAAAACGAAGACGATGTTTGATATTTGGCAATTCGTAGAATCGTGCCCTAA
1 TTTTAAAAATTCTTCAAAACGAAGGTGATGTTCGATGTTTGGCAATTCG-GGAATCGTGCCCTAT
* * * * * *
24104311 CGTGCTAGGTTGCAATTTCTCATTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCATCCATG
65 CGTGCTGGGTTGCGATTTCTCATTT-TTCAAAATAATCGAATATTCCTTTAGAATTTCACCCATG
24104376 T
129 T
** *
24104377 TTTCTAAAAATTCTTCAAAACGAAGGTGATACTCGATGTTTGTCAATTCGGGAATCGTGCCCTAT
1 TTT-TAAAAATTCTTCAAAACGAAGGTGATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTAT
* *
24104442 CGTGTTGGGTTGCGATTTCTCATTCTTTCAAAACAATCGAATATTCCTTT-GAAATTTCACCCAT
65 CGTGCTGGGTTGCGATTTCTCATT-TTTCAAAATAATCGAATATTCCTTTAG-AATTTCACCCAT
24104506 GT
128 GT
* *
24104508 CTTTAAAAATTC-TCTAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTA
1 TTTTAAAAATTCTTC-AAAACGAAGGTGATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTA
* * ** *
24104572 TCGTGCTGGATTGCGATCTCTTGTTTATTTAAAATAATCGAATATTCCTTTAGAATTTCACCCAT
64 TCGTGCTGGGTTGCGATTTCTCATTT-TTCAAAATAATCGAATATTCCTTTAGAATTTCACCCAT
24104637 GT
128 GT
24104639 T
1 T
24104640 CTTCAAATCC
Statistics
Matches: 225, Mismatches: 31, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
129 2 0.01
130 40 0.18
131 143 0.64
132 40 0.18
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (129 bp):
TTTTAAAAATTCTTCAAAACGAAGGTGATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATC
GTGCTGGGTTGCGATTTCTCATTTTTCAAAATAATCGAATATTCCTTTAGAATTTCACCCATGT
Found at i:24114137 original size:31 final size:30
Alignment explanation
Indices: 24114080--24114138 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
24114070 TTGATATATG
*
24114080 AATTTTGATATGGTTCAACTGCATACATGA
1 AATTTTGATATGGTTCAACTACATACATGA
*
24114110 AATTTTGA-ATGTGATTCAACTATATACAT
1 AATTTTGATATG-G-TTCAACTACATACAT
24114139 CACTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 3 0.12
30 9 0.36
31 13 0.52
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.39
Consensus pattern (30 bp):
AATTTTGATATGGTTCAACTACATACATGA
Found at i:24114318 original size:19 final size:19
Alignment explanation
Indices: 24114294--24114331 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24114284 GTTTACATTT
24114294 CACATTTAACCAAATTTGA
1 CACATTTAACCAAATTTGA
24114313 CACATTTAACCAAATTTGA
1 CACATTTAACCAAATTTGA
24114332 TGTATGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (19 bp):
CACATTTAACCAAATTTGA
Found at i:24116895 original size:52 final size:53
Alignment explanation
Indices: 24116817--24116923 Score: 162
Period size: 52 Copynumber: 2.0 Consensus size: 53
24116807 TAATCTCACC
* * *
24116817 ATTTTTTTTTCTTTTTCCCTTCAATCTG-TTTACCTTTTAACTTTTAGGCTTT
1 ATTTTTTTTTCCTCTTCCCTTCAATCTGTTTTACCCTTTAACTTTTAGGCTTT
* *
24116869 ATTTTTTTTTCCTCTTCCCTTCAATCTGTTTTGCCCTTTAACTTTTATGCTTT
1 ATTTTTTTTTCCTCTTCCCTTCAATCTGTTTTACCCTTTAACTTTTAGGCTTT
24116922 AT
1 AT
24116924 CCCCATCTGC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 26 0.53
53 23 0.47
ACGTcount: A:0.13, C:0.21, G:0.06, T:0.60
Consensus pattern (53 bp):
ATTTTTTTTTCCTCTTCCCTTCAATCTGTTTTACCCTTTAACTTTTAGGCTTT
Found at i:24126973 original size:31 final size:31
Alignment explanation
Indices: 24126938--24127031 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
24126928 TAGTCTAGTG
*
24126938 ATTTAAATAAAAATTTTCAAATAATTCAATA
1 ATTTAAATAAAAATTTTTAAATAATTCAATA
* * * * *
24126969 ATTTAAATTAAATTTTTTGAATAGTTTAATA
1 ATTTAAATAAAAATTTTTAAATAATTCAATA
* * * *
24127000 ATTTAAATGAATATTTTTAAATGATCCAATA
1 ATTTAAATAAAAATTTTTAAATAATTCAATA
24127031 A
1 A
24127032 CCATCTTGTG
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (31 bp):
ATTTAAATAAAAATTTTTAAATAATTCAATA
Found at i:24127761 original size:21 final size:20
Alignment explanation
Indices: 24127710--24127771 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
24127700 CTTTATAAAA
24127710 TTTTACAAATTTTT-ATACTTT
1 TTTTA-AAATTTTTAATA-TTT
**
24127731 TTTTCTAATTTTTAATATTT
1 TTTTAAAATTTTTAATATTT
**
24127751 TTATTAAAATTAATAATATTT
1 TT-TTAAAATTTTTAATATTT
24127772 ATAGCTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAAATTTTTAATATTT
Found at i:24127942 original size:83 final size:84
Alignment explanation
Indices: 24127854--24128017 Score: 233
Period size: 83 Copynumber: 2.0 Consensus size: 84
24127844 GTTTAAGGAT
* * * *
24127854 TTTTTTATACATTTTAAAAATTTAAATATCTAATTGAGTG-AAAAAATAAGGACTTAATTA-AAT
1 TTTTTTATACATTTTAAAAATTTAAATATCCAAATGAATGAAAAAAACAAGGACTTAATTATAAT
24127917 TTTTTAAAATATTTGAGGGC
66 TTTTTAAAA-ATTTGAGGGC
* * * *
24127937 TTTTTTATATATTTTAAAATTTTAAATATCCAAATGAATGAAAAAAACAATGACTTAATTATTAT
1 TTTTTTATACATTTTAAAAATTTAAATATCCAAATGAATGAAAAAAACAAGGACTTAATTATAAT
24128002 TTTTTAAAAATTTGAG
66 TTTTTAAAAATTTGAG
24128018 AATCTTTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
83 35 0.49
84 25 0.35
85 11 0.15
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (84 bp):
TTTTTTATACATTTTAAAAATTTAAATATCCAAATGAATGAAAAAAACAAGGACTTAATTATAAT
TTTTTAAAAATTTGAGGGC
Found at i:24129314 original size:21 final size:21
Alignment explanation
Indices: 24129288--24129330 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24129278 TAAATCCGAA
*
24129288 CTCGAACATTGTACCATAAAC
1 CTCGAACATTGGACCATAAAC
* *
24129309 CTCGAACTTTGGATCATAAAC
1 CTCGAACATTGGACCATAAAC
24129330 C
1 C
24129331 CTAAATTATG
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:0.35, C:0.28, G:0.12, T:0.26
Consensus pattern (21 bp):
CTCGAACATTGGACCATAAAC
Done.