Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 81 of 173
Found at i:25140700 original size:22 final size:22
Alignment explanation
Indices: 25140652--25140700 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
25140642 ATATCCAAAC
25140652 AATAACAACAAAATAGTAACAA
1 AATAACAACAAAATAGTAACAA
* * *
25140674 CATAA-AAGCAAAATGGTAGCAA
1 AATAACAA-CAAAATAGTAACAA
25140696 AATAA
1 AATAA
25140701 GGAGAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.14
Consensus pattern (22 bp):
AATAACAACAAAATAGTAACAA
Found at i:25143431 original size:26 final size:26
Alignment explanation
Indices: 25143402--25143452 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
25143392 TATTAACAAC
*
25143402 AATAAAACATGTTTGAACCCCACATT
1 AATAAAACATGTTTCAACCCCACATT
*
25143428 AATAAAACATGTTTCAACCTCACAT
1 AATAAAACATGTTTCAACCCCACAT
25143453 GGTCCAACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (26 bp):
AATAAAACATGTTTCAACCCCACATT
Found at i:25144136 original size:20 final size:21
Alignment explanation
Indices: 25144101--25144139 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25144091 TAATACATAT
*
25144101 TTAAATAATTATAATTTGATA
1 TTAAATAATAATAATTTGATA
25144122 TTAAA-AATAATAATTTGA
1 TTAAATAATAATAATTTGA
25144140 ATTTGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
TTAAATAATAATAATTTGATA
Found at i:25158143 original size:14 final size:14
Alignment explanation
Indices: 25158124--25158163 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25158114 TTGATTGGCA
25158124 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
25158138 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
25158152 GGAAAATGTTTT
1 GTAAAATGTTTT
25158164 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:25158172 original size:20 final size:20
Alignment explanation
Indices: 25158147--25158186 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25158137 CGTAAAATGA
*
25158147 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
25158167 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
25158187 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:25158176 original size:34 final size:35
Alignment explanation
Indices: 25158132--25158198 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
25158122 CAGTAAAATG
*
25158132 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
25158166 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
25158199 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:25158310 original size:20 final size:20
Alignment explanation
Indices: 25158285--25158323 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25158275 GTTTTTACAT
25158285 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
25158305 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
25158324 TTTTAAATTA
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:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:25158383 original size:15 final size:15
Alignment explanation
Indices: 25158354--25158406 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
25158344 TATTCCAATG
*
25158354 ATTTATTTATAAATAA
1 ATTT-TTTATTAATAA
25158370 ATTTTTTATTAATAAA
1 ATTTTTTATTAAT-AA
25158386 AGTTTTTTATCTAATTAA
1 A-TTTTTTAT-TAA-TAA
25158404 ATT
1 ATT
25158407 CCAAATGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 10 0.31
18 6 0.19
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATTAATAA
Found at i:25161857 original size:18 final size:18
Alignment explanation
Indices: 25161834--25161871 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25161824 TTTGCAATCC
25161834 AAGGGGAAGGGAAAAGGG
1 AAGGGGAAGGGAAAAGGG
*
25161852 AAGGGGAAGGGAAAGGGG
1 AAGGGGAAGGGAAAAGGG
25161870 AA
1 AA
25161872 AGGGTAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGAAAAGGG
Found at i:25161884 original size:24 final size:24
Alignment explanation
Indices: 25161834--25161885 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
25161824 TTTGCAATCC
* **
25161834 AAGGGGAAGGGAAAAGGGAAGGGG
1 AAGGGAAAGGGAAAAGGGAAGAAG
* *
25161858 AAGGGAAAGGGGAAAGGGTAGAAG
1 AAGGGAAAGGGAAAAGGGAAGAAG
25161882 AAGG
1 AAGG
25161886 CATCATTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.54, T:0.02
Consensus pattern (24 bp):
AAGGGAAAGGGAAAAGGGAAGAAG
Found at i:25165848 original size:26 final size:26
Alignment explanation
Indices: 25165803--25165871 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
25165793 CATTCTGACC
* *
25165803 CACAGCTCTTGTGAGCAGGCCCATTT
1 CACAGCTCTTGTGAGTAGGCACATTT
* *
25165829 CATAGCTCTTGTAAGTAGGCACATTT
1 CACAGCTCTTGTGAGTAGGCACATTT
*
25165855 CACAGCTCGTGTGAGTA
1 CACAGCTCTTGTGAGTA
25165872 ATAATGTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (26 bp):
CACAGCTCTTGTGAGTAGGCACATTT
Found at i:25169977 original size:18 final size:18
Alignment explanation
Indices: 25169941--25169983 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
25169931 TAAAAGGAAT
* **
25169941 AATAATAAAATAATTTAA
1 AATAATAAAAAAACATAA
25169959 AATAATAAAAAAACATAA
1 AATAATAAAAAAACATAA
*
25169977 AACAATA
1 AATAATA
25169984 TCTTCTTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAATAAAAAAACATAA
Found at i:25170986 original size:6 final size:7
Alignment explanation
Indices: 25170967--25170993 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25170957 TAAAAATGAT
25170967 ATAAAAA
1 ATAAAAA
25170974 ATAAAAA
1 ATAAAAA
25170981 ATAAAAA
1 ATAAAAA
25170988 ATAAAA
1 ATAAAA
25170994 TGGACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:25176250 original size:16 final size:16
Alignment explanation
Indices: 25176219--25176249 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
25176209 ATAACTATTT
25176219 CTTGTCATATAAAAAA
1 CTTGTCATATAAAAAA
25176235 CTTGT-ATATAAAAAA
1 CTTGTCATATAAAAAA
25176250 ATATTGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (16 bp):
CTTGTCATATAAAAAA
Found at i:25182129 original size:43 final size:43
Alignment explanation
Indices: 25182068--25182173 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
25182058 TCACAAATGT
25182068 CGCTATAGAACATGATCTTTAAC-GATGCTTTTACTAAAAACGC
1 CGCTATAGAACATGATCTTTAACGGAT-CTTTTACTAAAAACGC
* * *
25182111 CGCTATAGAACATAATCTTTAGCGGATCTTTTACTACAAACGC
1 CGCTATAGAACATGATCTTTAACGGATCTTTTACTAAAAACGC
*
25182154 CGCTAAAGAACATGATCTTT
1 CGCTATAGAACATGATCTTT
25182174 TGCATCGTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 54 0.95
44 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (43 bp):
CGCTATAGAACATGATCTTTAACGGATCTTTTACTAAAAACGC
Found at i:25182267 original size:43 final size:43
Alignment explanation
Indices: 25182220--25182330 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
25182210 TTCTTCCTAC
* * *
25182220 AAGTGCCGTTAAAGATCATATTCTACAGCAGCATTTGTAGGAA
1 AAGTGCCGTTAAAAATCATGTTCTAAAGCAGCATTTGTAGGAA
** * * * *
25182263 AAGTGTTGTTAAATATCATGTTCTAAAGCGGCGTTTGTATGAA
1 AAGTGCCGTTAAAAATCATGTTCTAAAGCAGCATTTGTAGGAA
* *
25182306 AAGCGCCGCTAAAAATCATGTTCTA
1 AAGTGCCGTTAAAAATCATGTTCTA
25182331 TAGCGGCGTT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (43 bp):
AAGTGCCGTTAAAAATCATGTTCTAAAGCAGCATTTGTAGGAA
Found at i:25182607 original size:17 final size:18
Alignment explanation
Indices: 25182572--25182607 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25182562 CTTGAATTTT
*
25182572 TTTAAAATATATGAAATA
1 TTTAAAAAATATGAAATA
25182590 TTTAAAAAATAT-AAATA
1 TTTAAAAAATATGAAATA
25182607 T
1 T
25182608 AAAATTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TTTAAAAAATATGAAATA
Found at i:25189961 original size:16 final size:16
Alignment explanation
Indices: 25189940--25189971 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25189930 TGATTGAAAG
*
25189940 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
25189956 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
25189972 GCAACAAAAC
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:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:25196254 original size:414 final size:414
Alignment explanation
Indices: 25195484--25196312 Score: 1568
Period size: 414 Copynumber: 2.0 Consensus size: 414
25195474 CAAAATTTGA
*
25195484 TGCAGCCACAACACTCTTCAATACCAAAACAACATGTTCAAGGACATTGACAGTAACCATACACT
1 TGCAGCCACAACACTCTTCAATACCAAAACAACACGTTCAAGGACATTGACAGTAACCATACACT
25195549 CAGGCTTGTACTTCTAACCCATTAGCAACTCTTAACAAATTAATGCGGGAGCATATTACTCGCAC
66 CAGGCTTGTACTTCTAACCCATTAGCAACTCTTAACAAATTAATGCGGGAGCATATTACTCGCAC
25195614 GGAAGCTATTGTACAAGGGAATTCATCTTCTATTCGAGCATTGGAAGTGCAATTAGGAAAACTTG
131 GGAAGCTATTGTACAAGGGAATTCATCTTCTATTCGAGCATTGGAAGTGCAATTAGGAAAACTTG
25195679 CTTCAAATTTGAATACTCGACCACCAGGCTCATTACCTAGTAACACAGAAAATCCTAGTCTGAGG
196 CTTCAAATTTGAATACTCGACCACCAGGCTCATTACCTAGTAACACAGAAAATCCTAGTCTGAGG
25195744 GGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGGTAAACAAATTGGCGAATCATTTATCGA
261 GGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGGTAAACAAATTGGCGAATCATTTATCGA
* * *
25195809 CTCTACTATAGCACCTCAAGATGCGGATGGAGTGACCGCTGCTAAGAAGGTTGAATTTGAATAGT
326 CTCTACTATAGCACCTCAAGATGCAGATGGAGTGACCACTGATAAGAAGGTTGAATTTGAATAGT
25195874 TTGTCGATGCATCAAACAAAGAAG
391 TTGTCGATGCATCAAACAAAGAAG
25195898 TGCAGCCACAACACTCTTCAATACCAAAACAACACGTTCAAGGACATTGACAGTAACCATACACT
1 TGCAGCCACAACACTCTTCAATACCAAAACAACACGTTCAAGGACATTGACAGTAACCATACACT
25195963 CAGGCTTGTACTTCTAACCCATTAGCAACTCTTAACAAATTAATGCGGGAGCATATTACTCGCAC
66 CAGGCTTGTACTTCTAACCCATTAGCAACTCTTAACAAATTAATGCGGGAGCATATTACTCGCAC
25196028 GGAAGCTATTGTACAAGGGAATTCATCTTCTATTCGAGCATTGGAAGTGCAATTAGGAAAACTTG
131 GGAAGCTATTGTACAAGGGAATTCATCTTCTATTCGAGCATTGGAAGTGCAATTAGGAAAACTTG
* * *
25196093 CTTCAAATTTGAATAGTCGACCACCGGGCTCATTACCTAGTGACACAGAAAATCCTAGTCTGAGG
196 CTTCAAATTTGAATACTCGACCACCAGGCTCATTACCTAGTAACACAGAAAATCCTAGTCTGAGG
*
25196158 GGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGGTAAACAAATTGGCGCATCATTTATCGA
261 GGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGGTAAACAAATTGGCGAATCATTTATCGA
*
25196223 CTCTACTATAGCACCTCAAGATGTAGATGGAGTGACCACTGATAAGAAGGTTGAATTTGAATAGT
326 CTCTACTATAGCACCTCAAGATGCAGATGGAGTGACCACTGATAAGAAGGTTGAATTTGAATAGT
*
25196288 TTGTCGATGCATCAAATAAAGAAG
391 TTGTCGATGCATCAAACAAAGAAG
25196312 T
1 T
25196313 TCCACAAATT
Statistics
Matches: 405, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
414 405 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (414 bp):
TGCAGCCACAACACTCTTCAATACCAAAACAACACGTTCAAGGACATTGACAGTAACCATACACT
CAGGCTTGTACTTCTAACCCATTAGCAACTCTTAACAAATTAATGCGGGAGCATATTACTCGCAC
GGAAGCTATTGTACAAGGGAATTCATCTTCTATTCGAGCATTGGAAGTGCAATTAGGAAAACTTG
CTTCAAATTTGAATACTCGACCACCAGGCTCATTACCTAGTAACACAGAAAATCCTAGTCTGAGG
GGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGGTAAACAAATTGGCGAATCATTTATCGA
CTCTACTATAGCACCTCAAGATGCAGATGGAGTGACCACTGATAAGAAGGTTGAATTTGAATAGT
TTGTCGATGCATCAAACAAAGAAG
Found at i:25202224 original size:14 final size:13
Alignment explanation
Indices: 25202191--25202224 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
25202181 ATAAAAAACT
25202191 AAAAAAGGAGGAA
1 AAAAAAGGAGGAA
25202204 AAGAAAAGGAGGAGA
1 AA-AAAAGGAGGA-A
25202219 AAAAAA
1 AAAAAA
25202225 CTTCATGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 14 0.74
15 3 0.16
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AAAAAAGGAGGAA
Found at i:25206160 original size:25 final size:27
Alignment explanation
Indices: 25206108--25206160 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
25206098 ATACATTGAA
25206108 TTTTATTACCTTGATAACCACTTATAT
1 TTTTATTACCTTGATAACCACTTATAT
* *
25206135 TTTTA-TACCTTG-TGAGCACTTATAT
1 TTTTATTACCTTGATAACCACTTATAT
25206160 T
1 T
25206161 CTCCTGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 12 0.50
26 7 0.29
27 5 0.21
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (27 bp):
TTTTATTACCTTGATAACCACTTATAT
Found at i:25211491 original size:21 final size:22
Alignment explanation
Indices: 25211461--25211503 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
25211451 TTGACTTTGG
*
25211461 TGTCACGACACA-GCCTGAAGA
1 TGTCACGACACACACCTGAAGA
*
25211482 TGTCATGACACACACCTGAAGA
1 TGTCACGACACACACCTGAAGA
25211504 CATTCTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (22 bp):
TGTCACGACACACACCTGAAGA
Found at i:25214199 original size:18 final size:18
Alignment explanation
Indices: 25214151--25214199 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
25214141 ATTTGATATA
25214151 TTTTATTATT-TTATTTC
1 TTTTATTATTATTATTTC
* *
25214168 TTGTGATT-TAATTATTTC
1 TT-TTATTATTATTATTTC
25214186 TTTTATTATTATTA
1 TTTTATTATTATTA
25214200 GTTTAGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (18 bp):
TTTTATTATTATTATTTC
Found at i:25216606 original size:26 final size:26
Alignment explanation
Indices: 25216570--25216621 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
25216560 CACCACTGAA
* *
25216570 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
25216596 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
25216622 CTTTCATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:25216795 original size:104 final size:104
Alignment explanation
Indices: 25216538--25216900 Score: 573
Period size: 104 Copynumber: 3.6 Consensus size: 104
25216528 TAACCGTTAT
* * *
25216538 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
25216602 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
25216639 ---TGGATATCGCACTTAGCACCACCAATG-A-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
25216699 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
25216738 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
25216803 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * **
25216842 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
25216901 TTATATACAA
Statistics
Matches: 244, Mismatches: 9, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
96 26 0.11
97 29 0.12
98 25 0.10
99 13 0.05
102 27 0.11
103 1 0.00
104 122 0.50
105 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:25217261 original size:29 final size:29
Alignment explanation
Indices: 25217228--25217291 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
25217218 TAATCCACCA
25217228 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
25217257 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
25217287 CCCAA
1 CCCAA
25217292 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:25217265 original size:30 final size:30
Alignment explanation
Indices: 25217235--25217291 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
25217225 CCACCCAACT
25217235 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
25217264 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
25217292 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:25224091 original size:26 final size:26
Alignment explanation
Indices: 25224055--25224106 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
25224045 CACCACTGAA
* *
25224055 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
25224081 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
25224107 CTTTCACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:25224203 original size:26 final size:26
Alignment explanation
Indices: 25224159--25224209 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
25224149 ACCAATGAAC
*
25224159 CGGGGAATCAACACTTAGCAACCCCT
1 CGGGGAATCAACACATAGCAACCCCT
*
25224185 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAACACATAGCAACCCC
25224210 CTTTCACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.22, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAACACATAGCAACCCCT
Found at i:25224370 original size:104 final size:103
Alignment explanation
Indices: 25224023--25224391 Score: 614
Period size: 103 Copynumber: 3.6 Consensus size: 103
25224013 TAACCGTTAT
* * * *
25224023 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
25224088 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
25224126 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAACACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
25224191 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
25224229 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
25224294 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * * **
25224333 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
25224392 TTTATATACA
Statistics
Matches: 253, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
103 158 0.62
104 94 0.37
105 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:25224753 original size:29 final size:29
Alignment explanation
Indices: 25224720--25224783 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
25224710 TAATCCACCA
25224720 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
25224749 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
25224779 CCCAA
1 CCCAA
25224784 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:25224757 original size:30 final size:30
Alignment explanation
Indices: 25224727--25224783 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
25224717 CCACCCAACT
25224727 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
25224756 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
25224784 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:25227187 original size:27 final size:27
Alignment explanation
Indices: 25227118--25227475 Score: 305
Period size: 27 Copynumber: 13.3 Consensus size: 27
25227108 CCCCAAAATA
* * * *
25227118 GGTAAAATAACCAAAATACCCCCA-AA
1 GGTAAAATGACCGAAATACCCTCATAG
* *
25227144 AGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
25227171 GGTAAAATAACCGAAATACCC-CTATAG
1 GGTAAAATGACCGAAATACCCTC-ATAG
* *
25227198 GGTAAAATGACTGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* * *
25227225 GATAAAATGACCAAAATACCCTCATAT
1 GGTAAAATGACCGAAATACCCTCATAG
* * * *
25227252 GGTAGAATGACCAAAATACCTTCATAT
1 GGTAAAATGACCGAAATACCCTCATAG
** * *
25227279 TATAAAATGACTGAAATACTCTCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
25227306 GGTAGAATGACCGAAATACCC-CTATAG
1 GGTAAAATGACCGAAATACCCTC-ATAG
*
25227333 GGTAGAATGACCGAAATACACC-CATAG
1 GGTAAAATGACCGAAATAC-CCTCATAG
* * * * *
25227360 CGTAAAATGATCAAAATGCCCTCATAT
1 GGTAAAATGACCGAAATACCCTCATAG
*
25227387 GGTAAAATGACTGAAATACCC-CATTAG
1 GGTAAAATGACCGAAATACCCTCA-TAG
* * * *
25227414 GGTAGAATGATCGAAAAACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* **
25227441 AGTAAAATGATTGAAATAACCCT-ATAG
1 GGTAAAATGACCGAAAT-ACCCTCATAG
*
25227468 TGTAAAAT
1 GGTAAAAT
25227476 AACTGTTATA
Statistics
Matches: 270, Mismatches: 53, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
26 27 0.10
27 234 0.87
28 9 0.03
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCTCATAG
Found at i:25228916 original size:33 final size:33
Alignment explanation
Indices: 25228874--25228940 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
25228864 TAGTGGAAGA
*
25228874 TTGAAAGATCCTACGGGGTATCAACTAGTTGAT
1 TTGAAAGATCCTACGAGGTATCAACTAGTTGAT
* * *
25228907 TTGAAAGATCCTACTAGGTATCGATTAGTTGAT
1 TTGAAAGATCCTACGAGGTATCAACTAGTTGAT
25228940 T
1 T
25228941 GAACAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (33 bp):
TTGAAAGATCCTACGAGGTATCAACTAGTTGAT
Found at i:25236044 original size:28 final size:28
Alignment explanation
Indices: 25235981--25236134 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
25235971 ATATTAAGTC
* *
25235981 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
25236008 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
25236036 CGCACACTTATTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
25236064 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
25236092 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
25236120 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25236135 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 100 0.82
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:25239975 original size:28 final size:28
Alignment explanation
Indices: 25239912--25240065 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
25239902 ATATTAAGTC
* *
25239912 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
25239939 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
25239967 CGCACACTTATTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
25239995 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
25240023 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
25240051 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25240066 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 100 0.82
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:25248234 original size:22 final size:21
Alignment explanation
Indices: 25248205--25248246 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
25248195 AAGCTGGTCA
*
25248205 TTTGTGTTGCAACATGGGGAG
1 TTTGTGTTGCAACATAGGGAG
25248226 TTTGATGTTGCAACATAGGGA
1 TTTG-TGTTGCAACATAGGGA
25248247 ATAGAATGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (21 bp):
TTTGTGTTGCAACATAGGGAG
Found at i:25249438 original size:18 final size:18
Alignment explanation
Indices: 25249415--25249449 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
25249405 CAATGTACCT
25249415 AACTA-TTTCCGTGTTTCA
1 AACTATTTTCC-TGTTTCA
25249433 AACTATTTTCCTGTTTC
1 AACTATTTTCCTGTTTC
25249450 CTCTTCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.49
Consensus pattern (18 bp):
AACTATTTTCCTGTTTCA
Found at i:25252995 original size:31 final size:29
Alignment explanation
Indices: 25252958--25253020 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
25252948 CAAAACTGTA
*
25252958 AAAAATAGACCAAAATATGCAAAATTATT-AT
1 AAAAATA-ACCAAAAT-T-CAAAATGATTCAT
*
25252989 AAAAATAACTAAAATTCAAAATGATTCAT
1 AAAAATAACCAAAATTCAAAATGATTCAT
25253018 AAA
1 AAA
25253021 TTTAGTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 9 0.31
29 6 0.21
30 7 0.24
31 7 0.24
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (29 bp):
AAAAATAACCAAAATTCAAAATGATTCAT
Found at i:25254573 original size:41 final size:41
Alignment explanation
Indices: 25254523--25254629 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 41
25254513 TCTGATTCAA
* *
25254523 TTCATCGGCAATT-AGCCTACTAGACTTAAAGTCCGAATTAT
1 TTCACCGGC-ATTAAGCCTACTAGACATAAAGTCCGAATTAT
* * *
25254564 TTCACCGGCATTAAGCCTGCTGGACATAAAGTCCGAATTAC
1 TTCACCGGCATTAAGCCTACTAGACATAAAGTCCGAATTAT
* * * *
25254605 ATCATCGGCCTTAAGCCTGCTAGAC
1 TTCACCGGCATTAAGCCTACTAGAC
25254630 TTTAGGCCTG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTACTAGACATAAAGTCCGAATTAT
Found at i:25259601 original size:18 final size:20
Alignment explanation
Indices: 25259580--25259629 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
25259570 AAAGAAAGAC
25259580 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
25259598 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
25259618 AGCAAAAAGAGA
1 AG-AAAAAGAGA
25259630 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:25269484 original size:41 final size:41
Alignment explanation
Indices: 25269438--25269533 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
25269428 ATCGGAAATT
* **
25269438 AGCCTGCAAGACTTAAAGTCCGAATTATTTCACCGGCATTA
1 AGCCTGCTAGACTTAAAGTCCGAATTACATCACCGGCATTA
* * * *
25269479 AGCCTGCTGGACATAAAGTTCGAATTACATCACCGGCCTTA
1 AGCCTGCTAGACTTAAAGTCCGAATTACATCACCGGCATTA
25269520 AGCCTGCTAGACTT
1 AGCCTGCTAGACTT
25269534 TAAGCCTAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCCGAATTACATCACCGGCATTA
Found at i:25274164 original size:18 final size:18
Alignment explanation
Indices: 25274141--25274178 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25274131 TTTAACCATA
*
25274141 AATTTCTCTACATGTGAC
1 AATTTCCCTACATGTGAC
25274159 AATTTCCCTACATGTGAC
1 AATTTCCCTACATGTGAC
25274177 AA
1 AA
25274179 AAGTGTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (18 bp):
AATTTCCCTACATGTGAC
Found at i:25280059 original size:23 final size:23
Alignment explanation
Indices: 25280023--25280067 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25280013 TCGGCCATGT
25280023 GTGTCACATGGCCATGTGACAACC
1 GTGTCACATGGCCATGTG-CAACC
*
25280047 GTGTCTCA-GGCCATGTGCAAC
1 GTGTCACATGGCCATGTGCAAC
25280068 GCAAATAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 7 0.35
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (23 bp):
GTGTCACATGGCCATGTGCAACC
Found at i:25281252 original size:13 final size:15
Alignment explanation
Indices: 25281220--25281256 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
25281210 GAAGATATTT
25281220 AAAT-AATAATTAAC
1 AAATAAATAATTAAC
25281234 AAATAAATAATT-A-
1 AAATAAATAATTAAC
25281247 AAATAAATAA
1 AAATAAATAA
25281257 ATAATGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 5 0.23
15 7 0.32
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAATAATTAAC
Found at i:25282593 original size:43 final size:42
Alignment explanation
Indices: 25282503--25282732 Score: 220
Period size: 43 Copynumber: 5.5 Consensus size: 42
25282493 CTCGGTGGAT
**
25282503 TCAGCACTTAGCAACCACC-TT-A-AATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACC-CCTTTCACAA-TCAAAGATACGGGGAA
* * *
25282544 TTAGCACATAGCAACCCCTTTCACAAACAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCCCTTTCACAATCAAAGATACGG-GGAA
* * **
25282587 TCAGCACTTAGCAACCACCTTT-ATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACC-CCTTTCACAATCAAAGATACGGGGAA
* * * *
25282629 TCAACACATAGCAACCCCTTTCACAATCAAATATACGATGGAA
1 TCAGCACTTAGCAACCCCTTTCACAATCAAAGATACG-GGGAA
* *
25282672 TCAGCACTTAGCAACCACC-TTCAGAATCAATA-ATTCGGGGAA
1 TCAGCACTTAGCAACC-CCTTTCACAATCAA-AGATACGGGGAA
25282714 TCAGCACTTAGCAACCCCT
1 TCAGCACTTAGCAACCCCT
25282733 CAGAGAATTT
Statistics
Matches: 154, Mismatches: 25, Indels: 19
0.78 0.13 0.10
Matches are distributed among these distances:
40 2 0.01
41 23 0.15
42 58 0.38
43 63 0.41
44 8 0.05
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (42 bp):
TCAGCACTTAGCAACCCCTTTCACAATCAAAGATACGGGGAA
Found at i:25282641 original size:85 final size:85
Alignment explanation
Indices: 25282495--25282732 Score: 345
Period size: 85 Copynumber: 2.8 Consensus size: 85
25282485 ATCTGTTACT
* *
25282495 CGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATTAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
25282559 CCCTTTCACAAACAAAGATA
66 CCCTTTCACAAACAAAGATA
* *
25282579 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
* *
25282644 CCCTTTCACAATCAAATATA
66 CCCTTTCACAAACAAAGATA
* * * * * *
25282664 CGATGGAATCAGCACTTAGCAACCACCTTCAGAA-TCAATAATTCGGGGAATCAGCACTTAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACGGGGAATCAGCACATAGCAA
25282728 CCCCT
65 CCCCT
25282733 CAGAGAATTT
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
84 26 0.19
85 111 0.80
86 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
CCCTTTCACAAACAAAGATA
Found at i:25282642 original size:42 final size:42
Alignment explanation
Indices: 25282503--25282729 Score: 230
Period size: 42 Copynumber: 5.4 Consensus size: 42
25282493 CTCGGTGGAT
*
25282503 TCAGCACTTAGCAACCACC-TTA-AATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAA-TCAATGATACGGGGAA
* * * *
25282544 TTAGCACATAGCAACC-CCTTTCACAAACAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GGAA
* * *
25282587 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
* * *
25282629 TCAACACATAGCAACC-CCTTTCACAATCAAAT-ATACGATGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATC-AATGATACG-GGGAA
* * * *
25282672 TCAGCACTTAGCAACCACCTTCAGAATCAATAATTCGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
25282714 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
25282730 CCTCAGAGAA
Statistics
Matches: 152, Mismatches: 24, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
40 2 0.01
41 21 0.14
42 60 0.39
43 60 0.39
44 9 0.06
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
Found at i:25286513 original size:23 final size:23
Alignment explanation
Indices: 25286483--25286535 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
25286473 ACAACATAAA
25286483 CTTTTTTTTTAACTTATGATCAT
1 CTTTTTTTTTAACTTATGATCAT
25286506 CTTTTTTTTTAACTTATGATCAT
1 CTTTTTTTTTAACTTATGATCAT
*
25286529 CTCTTTT
1 CTTTTTT
25286536 CATACATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.19, C:0.15, G:0.04, T:0.62
Consensus pattern (23 bp):
CTTTTTTTTTAACTTATGATCAT
Found at i:25288711 original size:43 final size:41
Alignment explanation
Indices: 25288661--25288853 Score: 217
Period size: 43 Copynumber: 4.6 Consensus size: 41
25288651 AGTGATATGA
*
25288661 GGAATCAGCACATAGCAACCCCTTTCACAATCAAAGATACGG
1 GGAATCAGCACTTAGCAACCCCTTT-ACAATCAAAGATACGG
* * **
25288703 TGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGG
1 -GGAATCAGCACTTAGCAACC-CCTTTACAATCAAAGATACGG
* * *
25288746 GGAATCAGCACATAGCATCCCCTTTCACAATCAAATATACGG
1 GGAATCAGCACTTAGCAACCCCTTT-ACAATCAAAGATACGG
* *
25288788 TGGAATCAGCACTTAGCAACCACCTTTAAAATCAATA-ATTCGG
1 -GGAATCAGCACTTAGCAACC-CCTTTACAATCAA-AGATACGG
*
25288831 GTAATCAGCACTTAGCAACCCCT
1 GGAATCAGCACTTAGCAACCCCT
25288854 CAGGGAATCT
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
41 8 0.06
42 48 0.38
43 61 0.48
44 11 0.09
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.23
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTTACAATCAAAGATACGG
Found at i:25288759 original size:85 final size:85
Alignment explanation
Indices: 25288616--25288853 Score: 334
Period size: 85 Copynumber: 2.8 Consensus size: 85
25288606 ATCCATTACT
* * * * * *
25288616 CGGTGGATTCAACACTTAGCAACCA-CATTAAATTTAGTGATATGAGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
25288680 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAGATA
* *
25288700 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCATC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
*
25288765 CCCTTTCACAATCAAATATA
66 CCCTTTCACAATCAAAGATA
* * * * * *
25288785 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAATCAATAATTCGGGTAATCAGCACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
25288850 CCCT
66 CCCT
25288854 CAGGGAATCT
Statistics
Matches: 136, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 23 0.17
85 113 0.83
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:25288762 original size:42 final size:42
Alignment explanation
Indices: 25288628--25288850 Score: 211
Period size: 43 Copynumber: 5.3 Consensus size: 42
25288618 GTGGATTCAA
* * * * * *
25288628 CACTTAGCAACCA-CATTAAATTTAGTGATATGAGGAATCAG
1 CACTTAGCAACCACCTTTAAAATCAATGATACGGGGAATCAG
* * *
25288669 CACATAGCAACC-CCTTTCACAATCAAAGATACGGTGGAATCAG
1 CACTTAGCAACCACCTTT-AAAATCAATGATACGG-GGAATCAG
* * *
25288712 CACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAG
1 CACTTAGCAACCACCTTTAAAATCAATGATACGGGGAATCAG
* * *
25288754 CACATAGCATCC-CCTTTCACAATCAAAT-ATACGGTGGAATCAG
1 CACTTAGCAACCACCTTT-AAAATC-AATGATACGG-GGAATCAG
* * *
25288797 CACTTAGCAACCACCTTTAAAATCAATAATTCGGGTAATCAG
1 CACTTAGCAACCACCTTTAAAATCAATGATACGGGGAATCAG
25288839 CACTTAGCAACC
1 CACTTAGCAACC
25288851 CCTCAGGGAA
Statistics
Matches: 149, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
41 19 0.13
42 59 0.40
43 61 0.41
44 10 0.07
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (42 bp):
CACTTAGCAACCACCTTTAAAATCAATGATACGGGGAATCAG
Found at i:25294608 original size:28 final size:28
Alignment explanation
Indices: 25294572--25294632 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
25294562 CAGTATCAGT
* *
25294572 ACAGTGTGGACCCCAGCCCATTATAGTA
1 ACAGTGTGGACCCAAGCCCAATATAGTA
* *
25294600 ACAGTGTGGGCCTAAGCCCAATATAGTA
1 ACAGTGTGGACCCAAGCCCAATATAGTA
*
25294628 TCAGT
1 ACAGT
25294633 ATGGTGCAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTGTGGACCCAAGCCCAATATAGTA
Found at i:25295068 original size:26 final size:26
Alignment explanation
Indices: 25295024--25295224 Score: 246
Period size: 26 Copynumber: 7.7 Consensus size: 26
25295014 TACCTTTTGG
*
25295024 GGGTATTTC-ACTAATTTTACCC-TACGG
1 GGGTATTTCGA-TAA-TTTACCCAT-CGA
*
25295051 GGGTATTTCGGTAATTTACCCA-CTGA
1 GGGTATTTCGATAATTTACCCATC-GA
25295077 GGGTATTTCGATAATTTACCCATCGA
1 GGGTATTTCGATAATTTACCCATCGA
* * *
25295103 AGGTATTTTGGTAATTTACCCATCGA
1 GGGTATTTCGATAATTTACCCATCGA
* *
25295129 GGGTATTTCAATAATTTACCCATTGA
1 GGGTATTTCGATAATTTACCCATCGA
25295155 GGGTATTTCGATAATTTACCCATCGA
1 GGGTATTTCGATAATTTACCCATCGA
* * *
25295181 GGGTATTTCGGTAATATACCCATCAA
1 GGGTATTTCGATAATTTACCCATCGA
*
25295207 GGGTATTTTGATAATTTA
1 GGGTATTTCGATAATTTA
25295225 GGCCCATTAC
Statistics
Matches: 151, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.01
26 137 0.91
27 13 0.09
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (26 bp):
GGGTATTTCGATAATTTACCCATCGA
Found at i:25295134 original size:78 final size:78
Alignment explanation
Indices: 25295051--25295224 Score: 276
Period size: 78 Copynumber: 2.2 Consensus size: 78
25295041 TACCCTACGG
* *
25295051 GGGTATTTCGGTAATTTACCCACTGAGGGTATTTCGATAATTTACCCATCGAAGGTATTTTGGTA
1 GGGTATTTCGATAATTTACCCACTGAGGGTATTTCGATAATTTACCCATCGAAGGTATTTCGGTA
* *
25295116 ATTTACCCATCGA
66 ATATACCCATCAA
* * *
25295129 GGGTATTTCAATAATTTACCCATTGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTCGGTA
1 GGGTATTTCGATAATTTACCCACTGAGGGTATTTCGATAATTTACCCATCGAAGGTATTTCGGTA
25295194 ATATACCCATCAA
66 ATATACCCATCAA
*
25295207 GGGTATTTTGATAATTTA
1 GGGTATTTCGATAATTTA
25295225 GGCCCATTAC
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 87 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (78 bp):
GGGTATTTCGATAATTTACCCACTGAGGGTATTTCGATAATTTACCCATCGAAGGTATTTCGGTA
ATATACCCATCAA
Found at i:25303124 original size:79 final size:81
Alignment explanation
Indices: 25303023--25303207 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
25303013 GCTACTCGTT
* *
25303023 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
25303086 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
25303103 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
25303167 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
25303183 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25303208 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:25303207 original size:40 final size:40
Alignment explanation
Indices: 25303023--25303207 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
25303013 GCTACTCGTT
* *
25303023 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
25303063 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
25303103 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
25303142 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
25303183 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25303208 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:25305458 original size:28 final size:28
Alignment explanation
Indices: 25305399--25305463 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 28
25305389 TAATCAGTAT
* *
25305399 CAGTAA-AGTGTGGACCCCAGCCCATTA
1 CAGTAACAGTGTGGACCCAAGCCCAATA
* * *
25305426 TAGTAACAGTGTGGGCCTAAGCCCAATA
1 CAGTAACAGTGTGGACCCAAGCCCAATA
*
25305454 CAGTATCAGT
1 CAGTAACAGT
25305464 ATCCTGCAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (28 bp):
CAGTAACAGTGTGGACCCAAGCCCAATA
Found at i:25305648 original size:27 final size:27
Alignment explanation
Indices: 25305624--25305675 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
25305614 GATCAGTATA
25305624 TGTGGCAAAGCCACCAGTAACAGTAGT
1 TGTGGCAAAGCCACCAGTAACAGTAGT
* *
25305651 TGTGGCAGAGCCACCAGTATCAGTA
1 TGTGGCAAAGCCACCAGTAACAGTA
25305676 CTTCCTCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (27 bp):
TGTGGCAAAGCCACCAGTAACAGTAGT
Found at i:25305914 original size:26 final size:26
Alignment explanation
Indices: 25305866--25306133 Score: 333
Period size: 26 Copynumber: 10.3 Consensus size: 26
25305856 GGTATTTCAG
* *
25305866 TAATGTTACCCTTC-AGGGATATTTTGG
1 TAAT-TTACCCATCGAGGG-TATTTTGA
* * *
25305893 TAATATACCCATTGAGGGTATTTTGG
1 TAATTTACCCATCGAGGGTATTTTGA
* *
25305919 TAATTTACCCATCGAGGTTATTTTGG
1 TAATTTACCCATCGAGGGTATTTTGA
** * *
25305945 TAATTTACCCATTTAAGGTATTTCGA
1 TAATTTACCCATCGAGGGTATTTTGA
25305971 TAATTTACCCATCGAGGGTATTTTGA
1 TAATTTACCCATCGAGGGTATTTTGA
* *
25305997 TAATTTGCCCATCGAGGGTATTTCGA
1 TAATTTACCCATCGAGGGTATTTTGA
25306023 TAATTTACCCATCGAGGGTATTTT-A
1 TAATTTACCCATCGAGGGTATTTTGA
* * *
25306048 GTAATTTACCTATCGAAGGTATTTCGA
1 -TAATTTACCCATCGAGGGTATTTTGA
25306075 TAATTTACCCATCGAGGGTATTTTGA
1 TAATTTACCCATCGAGGGTATTTTGA
* *
25306101 TAATTTACCCATCGAGTGTATTTCGA
1 TAATTTACCCATCGAGGGTATTTTGA
25306127 TAATTTA
1 TAATTTA
25306134 GGCCCGTTAC
Statistics
Matches: 210, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
25 1 0.00
26 200 0.95
27 9 0.04
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (26 bp):
TAATTTACCCATCGAGGGTATTTTGA
Found at i:25305948 original size:52 final size:52
Alignment explanation
Indices: 25305845--25306133 Score: 375
Period size: 52 Copynumber: 5.5 Consensus size: 52
25305835 ACAGTCATTC
* * * *
25305845 TACCCTTCGGGGGTATTTC-AGTAATGTTACCCTTC-AGGGATATTTTGGTAATA
1 TACCCATCGAGGGTATTTCGA-TAAT-TTACCCATCGAGGG-TATTTTGGTAATT
* * * *
25305898 TACCCATTGAGGGTATTTTGGTAATTTACCCATCGAGGTTATTTTGGTAATT
1 TACCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATT
** * *
25305950 TACCCATTTAAGGTATTTCGATAATTTACCCATCGAGGGTATTTTGATAATT
1 TACCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATT
* *
25306002 TGCCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTAGTAATT
1 TACCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATT
* * *
25306054 TACCTATCGAAGGTATTTCGATAATTTACCCATCGAGGGTATTTTGATAATT
1 TACCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATT
*
25306106 TACCCATCGAGTGTATTTCGATAATTTA
1 TACCCATCGAGGGTATTTCGATAATTTA
25306134 GGCCCGTTAC
Statistics
Matches: 206, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
52 184 0.89
53 22 0.11
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (52 bp):
TACCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATT
Found at i:25315229 original size:33 final size:33
Alignment explanation
Indices: 25315156--25315229 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
25315146 AATTGTAATG
*
25315156 TGGTGGTGGTGTGGTGGTGCTAAGGTGGTTGAA
1 TGGTGGTGATGTGGTGGTGCTAAGGTGGTTGAA
** *
25315189 TATTGGTGATGTGGTGGTTCTAAGGTGGTTGAA
1 TGGTGGTGATGTGGTGGTGCTAAGGTGGTTGAA
25315222 TGGTGGTG
1 TGGTGGTG
25315230 TTTCGGTTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.14, C:0.03, G:0.47, T:0.36
Consensus pattern (33 bp):
TGGTGGTGATGTGGTGGTGCTAAGGTGGTTGAA
Found at i:25316076 original size:33 final size:34
Alignment explanation
Indices: 25316034--25316133 Score: 99
Period size: 33 Copynumber: 3.1 Consensus size: 34
25316024 CCCTATCACG
*
25316034 TAGTAACAGTCTGGGCCTAAGCCCTAATCAGTAT
1 TAGTAACAGTGTGGGCCTAAGCCCTAATCAGTAT
* *
25316068 TAGT-ACAGTGTGGACCTTAGCCC--AT---TA-
1 TAGTAACAGTGTGGGCCTAAGCCCTAATCAGTAT
25316095 TAGTAACAGTGTGGGCCTAAG-CCTAATACAGTAT
1 TAGTAACAGTGTGGGCCTAAGCCCTAAT-CAGTAT
*
25316129 CAGTA
1 TAGTA
25316134 TGGCACAAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
27 6 0.12
28 16 0.31
29 2 0.04
31 2 0.04
33 18 0.35
34 8 0.15
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (34 bp):
TAGTAACAGTGTGGGCCTAAGCCCTAATCAGTAT
Found at i:25316127 original size:28 final size:28
Alignment explanation
Indices: 25316035--25316132 Score: 72
Period size: 28 Copynumber: 3.3 Consensus size: 28
25316025 CCTATCACGT
*
25316035 AGTAACAGTCTGGGCCTAAGCCCTAAT-C
1 AGTAACAGTGTGGGCCTAAG-CCTAATAC
* * * * *
25316063 AGTATTAGTACAGTGTGGACCTTAGCCCATTAT
1 AG---TA--ACAGTGTGGGCCTAAGCCTAATAC
25316096 AGTAACAGTGTGGGCCTAAGCCTAATAC
1 AGTAACAGTGTGGGCCTAAGCCTAATAC
*
25316124 AGTATCAGT
1 AGTAACAGT
25316133 ATGGCACAAG
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
28 29 0.56
30 2 0.04
31 2 0.04
32 4 0.08
33 15 0.29
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (28 bp):
AGTAACAGTGTGGGCCTAAGCCTAATAC
Found at i:25317718 original size:10 final size:10
Alignment explanation
Indices: 25317703--25317730 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
25317693 AAACGGCACA
25317703 CACACTCCCC
1 CACACTCCCC
25317713 CACACTCCCC
1 CACACTCCCC
25317723 CACACTCC
1 CACACTCC
25317731 AACTTCCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.68, G:0.00, T:0.11
Consensus pattern (10 bp):
CACACTCCCC
Found at i:25324801 original size:131 final size:131
Alignment explanation
Indices: 25324567--25324829 Score: 499
Period size: 131 Copynumber: 2.0 Consensus size: 131
25324557 GAATGGTGAT
* *
25324567 AGTATGCAACCCACCCAAATCCAGCCAAACACACCACCCGTACCAACCCTACACACCATGTGGGG
1 AGTATGCAAACCACCCAAATCCAGCCAAACACACCACCCGAACCAACCCTACACACCATGTGGGG
25324632 ACAAAGTCGACCCACCCAGCCCACACACCAATATTGCACCTTAGCTGCCAATTCAGTATATGTGG
66 ACAAAGTCGACCCACCCAGCCCACACACCAATATTGCACCTTAGCTGCCAATTCAGTATATGTGG
25324697 C
131 C
25324698 AGTATGCAAACCACCCAAATCCAGCCAAACACACCACCCGAACCAACCCTACACACCATGTGGGG
1 AGTATGCAAACCACCCAAATCCAGCCAAACACACCACCCGAACCAACCCTACACACCATGTGGGG
*
25324763 ACAAAGTCGACCCACCCAGCCCACACACCAATATTGCACCTTAGCTGCCAGTTCAGTATATGTGG
66 ACAAAGTCGACCCACCCAGCCCACACACCAATATTGCACCTTAGCTGCCAATTCAGTATATGTGG
25324828 C
131 C
25324829 A
1 A
25324830 AAGCCACCAG
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.33, C:0.38, G:0.15, T:0.15
Consensus pattern (131 bp):
AGTATGCAAACCACCCAAATCCAGCCAAACACACCACCCGAACCAACCCTACACACCATGTGGGG
ACAAAGTCGACCCACCCAGCCCACACACCAATATTGCACCTTAGCTGCCAATTCAGTATATGTGG
C
Found at i:25325073 original size:26 final size:26
Alignment explanation
Indices: 25325044--25325279 Score: 222
Period size: 26 Copynumber: 9.1 Consensus size: 26
25325034 ACAGTCATTC
* * **
25325044 TACCCTTCGGGGGTATTTCAATAATT
1 TACCCATCGAGGGTATTTCGGTAATT
**
25325070 TACCC-TTTAGGGGTATTTCGGTAATT
1 TACCCATCGA-GGGTATTTCGGTAATT
* * **
25325096 TACCCATTGAAGGTATTTTAGTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* * *
25325122 TACCCATCGAGGGAATTTTGCTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* * * *
25325148 TACCCATCAAGGATATTACAGTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
*
25325174 TACCCATTGAGGGTATTTCGGTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
*
25325200 TACCCATCGAGGATATTTCGGTAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* * * *
25325226 TAACCATCAAAGGTATTTCGATAATT
1 TACCCATCGAGGGTATTTCGGTAATT
* **
25325252 TTCCCATCGAGGGTATTTCAATAATT
1 TACCCATCGAGGGTATTTCGGTAATT
25325278 TA
1 TA
25325280 GGCCTATTAT
Statistics
Matches: 169, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
25 1 0.01
26 165 0.98
27 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (26 bp):
TACCCATCGAGGGTATTTCGGTAATT
Found at i:25333716 original size:28 final size:28
Alignment explanation
Indices: 25333662--25333717 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
25333652 CCATTGCCAC
*
25333662 ATCACTTAGTCTTTTTCTTTATTAAGAA
1 ATCACTTAGTCTTTTTCTTTATAAAGAA
*
25333690 ATCACTTAGTCTTTTTCTTTCTAAAGAA
1 ATCACTTAGTCTTTTTCTTTATAAAGAA
25333718 GTATTTATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (28 bp):
ATCACTTAGTCTTTTTCTTTATAAAGAA
Found at i:25335023 original size:28 final size:28
Alignment explanation
Indices: 25334991--25335144 Score: 218
Period size: 28 Copynumber: 5.5 Consensus size: 28
25334981 TTTAATAAGT
** * *
25334991 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
25335019 TCGCACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
25335047 TCGCACACTTAGTGATTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
25335075 TCGCGCACTTAGTGATTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
25335103 TCGCTCACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
25335131 TCGCACACTTAGTG
1 TCGCACACTTAGTG
25335145 TCGAAAGTCA
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 114 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:25338207 original size:14 final size:14
Alignment explanation
Indices: 25338173--25338206 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
25338163 TTAAAGATGA
25338173 TAAAAAACTAAGGG
1 TAAAAAACTAAGGG
*
25338187 TTAAAAACTAA-GG
1 TAAAAAACTAAGGG
25338200 TAAAAAA
1 TAAAAAA
25338207 ATTAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.18
Consensus pattern (14 bp):
TAAAAAACTAAGGG
Found at i:25354316 original size:10 final size:10
Alignment explanation
Indices: 25354301--25354327 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
25354291 TAACTCTTCT
25354301 TTTTTTTGAA
1 TTTTTTTGAA
25354311 TTTTTTTGAA
1 TTTTTTTGAA
25354321 TTTTTTT
1 TTTTTTT
25354328 TACGAACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:25355877 original size:9 final size:9
Alignment explanation
Indices: 25355863--25355888 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25355853 TAAAAACACA
25355863 AACTAAAAT
1 AACTAAAAT
25355872 AACTAAAAT
1 AACTAAAAT
25355881 AACTAAAA
1 AACTAAAA
25355889 ATTAATGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:25364306 original size:24 final size:25
Alignment explanation
Indices: 25364275--25364341 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
25364265 TACCGATATT
* *
25364275 CAGCTCGTATGACCTTACC-GTTTA
1 CAGCTCGTATGACCATACCAATTTA
* *
25364299 CAGCTCGTAAGAGCATACCAATTTA
1 CAGCTCGTATGACCATACCAATTTA
* *
25364324 GAGCTCGTATGAGCATAC
1 CAGCTCGTATGACCATAC
25364342 ATGTACAGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 16 0.44
25 20 0.56
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (25 bp):
CAGCTCGTATGACCATACCAATTTA
Found at i:25364541 original size:16 final size:17
Alignment explanation
Indices: 25364504--25364548 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
25364494 GAAATGATTT
*
25364504 TACATG-ATAT-ATTGA
1 TACATGAATATGAATGA
*
25364519 TATATGAA-ATGAATGA
1 TACATGAATATGAATGA
25364535 TACATGAATATGAA
1 TACATGAATATGAA
25364549 ATTTGAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 7 0.29
16 12 0.50
17 5 0.21
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (17 bp):
TACATGAATATGAATGA
Found at i:25365361 original size:24 final size:24
Alignment explanation
Indices: 25365334--25365382 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
25365324 GCTTGTTCTT
*
25365334 GCTTGTTTTGGATGTCTTAATATG
1 GCTTGTTTTGGATGTCTTAAGATG
25365358 GCTTGTTTTGGATGTCTTAAGATG
1 GCTTGTTTTGGATGTCTTAAGATG
25365382 G
1 G
25365383 ATGTCTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.08, G:0.29, T:0.47
Consensus pattern (24 bp):
GCTTGTTTTGGATGTCTTAAGATG
Found at i:25369924 original size:13 final size:13
Alignment explanation
Indices: 25369906--25369932 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25369896 AAGTGTGTTG
25369906 AATGAGGTAACAA
1 AATGAGGTAACAA
25369919 AATGAGGTAACAA
1 AATGAGGTAACAA
25369932 A
1 A
25369933 TAATTAGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.15
Consensus pattern (13 bp):
AATGAGGTAACAA
Found at i:25372609 original size:8 final size:8
Alignment explanation
Indices: 25372596--25372629 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
25372586 ATATCAATTT
25372596 GAACAGAA
1 GAACAGAA
25372604 GAACAGAA
1 GAACAGAA
*
25372612 GAACATAA
1 GAACAGAA
25372620 GAACA-AA
1 GAACAGAA
25372627 GAA
1 GAA
25372630 ATCTGGGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.65, C:0.12, G:0.21, T:0.03
Consensus pattern (8 bp):
GAACAGAA
Found at i:25376903 original size:14 final size:14
Alignment explanation
Indices: 25376884--25376910 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25376874 GTGGTCCAGT
25376884 TGAACTGAACTGAG
1 TGAACTGAACTGAG
25376898 TGAACTGAACTGA
1 TGAACTGAACTGA
25376911 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (14 bp):
TGAACTGAACTGAG
Found at i:25384874 original size:69 final size:69
Alignment explanation
Indices: 25384700--25384854 Score: 222
Period size: 69 Copynumber: 2.2 Consensus size: 69
25384690 TTGCCATAGT
* * *
25384700 TGAGTTATGGTCTTACACCTTATATTCCCAGTGTTTATTGTCCCAACAAACTCAATTGGTTTTCT
1 TGAGCTATGGTCTTACACCTTATATTCCCAGTGTTTATTGTCCCAACAAACTCAATTGGTTGTCA
*
25384765 TAGC
66 TAAC
* * **
25384769 TGAGCTATGGTCTTACACCTTATATTCCCTGTGTTTATTGTCCCGACGGACTCTAA-TGGTTGTC
1 TGAGCTATGGTCTTACACCTTATATTCCCAGTGTTTATTGTCCCAACAAACTC-AATTGGTTGTC
25384833 ATAAC
65 ATAAC
25384838 TGAGCTATGGTCTTACA
1 TGAGCTATGGTCTTACA
25384855 ATCTATATTT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
69 75 0.97
70 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (69 bp):
TGAGCTATGGTCTTACACCTTATATTCCCAGTGTTTATTGTCCCAACAAACTCAATTGGTTGTCA
TAAC
Found at i:25387601 original size:35 final size:35
Alignment explanation
Indices: 25387551--25387640 Score: 126
Period size: 35 Copynumber: 2.6 Consensus size: 35
25387541 TTTAACATAG
* *
25387551 TGGCATGCTTTACATGTGAATCAGAATTAGTATAC
1 TGGCATGCTTAACATGTGAATCAAAATTAGTATAC
* * *
25387586 TGGCATGCTTCACATGCGAATCAAAATTAGTATAG
1 TGGCATGCTTAACATGTGAATCAAAATTAGTATAC
*
25387621 TAGCATGCTTAACATGTGAA
1 TGGCATGCTTAACATGTGAA
25387641 ATTGATTATC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (35 bp):
TGGCATGCTTAACATGTGAATCAAAATTAGTATAC
Found at i:25395413 original size:17 final size:17
Alignment explanation
Indices: 25395391--25395423 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25395381 TCTCAGATTT
25395391 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
25395408 TGATACCCATATCTTT
1 TGATACCCATATCTTT
25395424 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:25403200 original size:41 final size:41
Alignment explanation
Indices: 25403143--25403231 Score: 169
Period size: 41 Copynumber: 2.1 Consensus size: 41
25403133 TATCTTATGC
25403143 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
25403184 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
25403225 GAATCTG
1 G-ATCTG
25403232 TTAAATTAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 42 0.89
42 5 0.11
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (41 bp):
GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
Found at i:25422819 original size:29 final size:28
Alignment explanation
Indices: 25422783--25422860 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
25422773 TCATGAGATT
25422783 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
25422813 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
25422840 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
25422861 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:25423120 original size:172 final size:174
Alignment explanation
Indices: 25422813--25423124 Score: 520
Period size: 172 Copynumber: 1.8 Consensus size: 174
25422803 AAATTGTACA
* *
25422813 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
25422878 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25422943 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
25422987 GCAC-AAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
25423051 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGTGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25423115 TTTTGGACAG
131 TTTTGGACAG
25423125 TATGTTAAGA
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
172 65 0.51
173 59 0.46
174 4 0.03
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:25430044 original size:29 final size:28
Alignment explanation
Indices: 25430008--25430085 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
25429998 TCATGAGATT
25430008 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
25430038 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
25430065 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
25430086 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:25437141 original size:24 final size:24
Alignment explanation
Indices: 25437110--25437156 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
25437100 AGTGTGATTT
25437110 TGTTAGTTAGAATGACATATTTGA
1 TGTTAGTTAGAATGACATATTTGA
*
25437134 TGTTAGTTAGAATGGCATATTTG
1 TGTTAGTTAGAATGACATATTTG
25437157 GTACCATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.43
Consensus pattern (24 bp):
TGTTAGTTAGAATGACATATTTGA
Found at i:25439575 original size:17 final size:18
Alignment explanation
Indices: 25439553--25439587 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25439543 ACCTATTAAT
*
25439553 ATGTTT-GTACGAATTTA
1 ATGTTTAGTAAGAATTTA
25439570 ATGTTTAGTAAGAATTTA
1 ATGTTTAGTAAGAATTTA
25439588 CTTATTGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (18 bp):
ATGTTTAGTAAGAATTTA
Found at i:25443068 original size:24 final size:24
Alignment explanation
Indices: 25443041--25443087 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
25443031 AGTCCTTTCG
* *
25443041 CCTTCTTTTCTGTCAAAAGCTGCT
1 CCTTCTTTTCTATCAAAAACTGCT
25443065 CCTTCTTTTCTATCAAAAACTGC
1 CCTTCTTTTCTATCAAAAACTGC
25443088 CCCATTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (24 bp):
CCTTCTTTTCTATCAAAAACTGCT
Found at i:25455585 original size:50 final size:51
Alignment explanation
Indices: 25455453--25455595 Score: 166
Period size: 51 Copynumber: 2.8 Consensus size: 51
25455443 CAAAACACCA
* *
25455453 TTTGTGGACAAGCCATCACTGATTTGCAGATAAATTGCCACTAATAACACT
1 TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACTAATAACACT
* *
25455504 TTTGTGGACAAGCCACCACTGAATTT-AAGATACACTGCCACTAATATA-A-T
1 TTTGTGGACAAGCCACCACTG-ATTTGCAGATAAACTGCCACTAATA-ACACT
* * * * *
25455554 TTTGTGAACATGCCACCAGTGATTTGCAGATATACTACCACT
1 TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACT
25455596 GCTTCCACCT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
49 4 0.05
50 32 0.41
51 38 0.48
52 5 0.06
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (51 bp):
TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACTAATAACACT
Found at i:25460566 original size:19 final size:18
Alignment explanation
Indices: 25460542--25460580 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25460532 TTGTCTTGGA
*
25460542 TTTCTCGAAATTCAACCTT
1 TTTCTCCAAA-TCAACCTT
*
25460561 TTTCTCCAAATGAACCTT
1 TTTCTCCAAATCAACCTT
25460579 TT
1 TT
25460581 GAACTCCCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTCTCCAAATCAACCTT
Found at i:25461265 original size:17 final size:17
Alignment explanation
Indices: 25461243--25461290 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
25461233 TTGATTACCC
*
25461243 AATTAAATTAATTCTAT
1 AATTAATTTAATTCTAT
25461260 AATTAATTTAATTCTAT
1 AATTAATTTAATTCTAT
25461277 AATTAATTTAATTC
1 AATTAATTTAATTC
25461291 AAGCGACAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAATTTAATTCTAT
Found at i:25471026 original size:79 final size:81
Alignment explanation
Indices: 25470890--25471074 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
25470880 TTGAATGATG
*
25470890 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
25470954 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
25470969 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
25471031 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
25471049 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25471075 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:25471088 original size:40 final size:40
Alignment explanation
Indices: 25470891--25471074 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
25470881 TGAATGATGT
* * * *
25470891 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
25470931 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
25470971 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25471009 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25471050 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
25471075 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:25471096 original size:79 final size:79
Alignment explanation
Indices: 25470891--25471107 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
25470881 TGAATGATGT
** * * * **
25470891 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
25470954 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
25470971 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
25471036 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
25471050 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
25471108 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:25478850 original size:40 final size:40
Alignment explanation
Indices: 25478766--25478989 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
25478756 TTGAATGATG
* * * *
25478766 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
25478806 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
25478846 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25478884 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25478924 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
25478965 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25478990 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 19 0.12
40 111 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25478984 original size:80 final size:80
Alignment explanation
Indices: 25478766--25478989 Score: 296
Period size: 78 Copynumber: 2.8 Consensus size: 80
25478756 TTGAATGATG
* * * * *
25478766 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
25478829 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
25478846 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
25478908 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
25478924 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
25478989 G
66 G
25478990 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 49 0.39
79 25 0.20
80 49 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:25487479 original size:43 final size:45
Alignment explanation
Indices: 25487373--25487493 Score: 156
Period size: 43 Copynumber: 2.7 Consensus size: 45
25487363 CTAAGGTAAA
* * * *
25487373 TCCAACAACCCATGTTTATCTTCTCCTCTTTTTTAAATTATTTTT
1 TCCAACAACCCAAGATTATCTTCTCCTCTTTTCTAAATTACTTTT
** *
25487418 TTGAACAACCCAAAATTATCTTCTCCTC-TTTCTAAATT-CTTTT
1 TCCAACAACCCAAGATTATCTTCTCCTCTTTTCTAAATTACTTTT
25487461 TCCAACAACCCAAGATTATCTTCTCCTCCTTTT
1 TCCAACAACCCAAGATTATCTTCTCCT-CTTTT
25487494 TAGCTAGATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 28 0.44
44 10 0.16
45 26 0.41
ACGTcount: A:0.25, C:0.28, G:0.02, T:0.45
Consensus pattern (45 bp):
TCCAACAACCCAAGATTATCTTCTCCTCTTTTCTAAATTACTTTT
Found at i:25489972 original size:41 final size:41
Alignment explanation
Indices: 25489868--25490010 Score: 164
Period size: 42 Copynumber: 3.4 Consensus size: 41
25489858 ATGTGATTAT
* *
25489868 GTGTAAGACCATGTCTGAGACATTGGCATCGTTATG-TGATTC
1 GTGTAAGACCATATCTG-GACATTGGCATCGATATGAT-ATTC
* ** *
25489910 ATGTAAGAAGATTTCTGGGACATTGGCAT-GATATGATATTC
1 GTGTAAGACCATATCT-GGACATTGGCATCGATATGATATTC
*
25489951 GTGTAAGACCATATCTAGGACATTGGCATCGATATGAGATTC
1 GTGTAAGACCATATCT-GGACATTGGCATCGATATGATATTC
*
25489993 GTGTAAGACCATAGCTGG
1 GTGTAAGACCATATCTGG
25490011 CTATTAGAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
41 35 0.41
42 50 0.58
43 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGACATTGGCATCGATATGATATTC
Found at i:25490025 original size:83 final size:84
Alignment explanation
Indices: 25489868--25490051 Score: 189
Period size: 83 Copynumber: 2.2 Consensus size: 84
25489858 ATGTGATTAT
* * * * **
25489868 GTGTAAGACCATGTCTGAGACATTGGCATCGTTATGTGATTCATGTAAGAAGATTTCTGGGACAT
1 GTGTAAGACCATATCTGAGACATTGGCATCGATATGAGATTCATGTAAGAACATAGCTGGGACAT
* * *
25489933 TGGCATG--ATATGATATTC
66 TAGAATGATATATGATA-GC
* *
25489951 GTGTAAGACCATATCT-AGGACATTGGCATCGATATGAGATTCGTGTAAGACCATAGCT-GG-CT
1 GTGTAAGACCATATCTGA-GACATTGGCATCGATATGAGATTCATGTAAGAACATAGCTGGGAC-
25490013 ATTAGAATTGATATATGATAGC
64 ATTAGAA-TGATATATGATAGC
*
25490035 ATGTAAGACCATATCTG
1 GTGTAAGACCATATCTG
25490052 GGATATGGCA
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
81 1 0.01
82 8 0.10
83 50 0.60
84 16 0.19
85 8 0.10
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (84 bp):
GTGTAAGACCATATCTGAGACATTGGCATCGATATGAGATTCATGTAAGAACATAGCTGGGACAT
TAGAATGATATATGATAGC
Found at i:25498361 original size:31 final size:30
Alignment explanation
Indices: 25498322--25498450 Score: 141
Period size: 31 Copynumber: 4.0 Consensus size: 30
25498312 AGGGTAAATC
* *
25498322 CAACAACCCATGTTTATCTTCTTCTCTTTTT
1 CAACAACCCAAGATTATCTTCTTCT-TTTTT
*
25498353 TAACAACCCAAGATTATCTTCTTCTTTTTT
1 CAACAACCCAAGATTATCTTCTTCTTTTTT
25498383 CAACAACCCAAGACCCAAGATTATCTTCTTCTTTTTT
1 ---CAA--C-A-ACCCAAGATTATCTTCTTCTTTTTT
*
25498420 CAACAACCCAAGATTATCTTCTCCTGTTTTT
1 CAACAACCCAAGATTATCTTCTTCT-TTTTT
25498451 TAGGCAGATT
Statistics
Matches: 85, Mismatches: 5, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
30 24 0.28
31 28 0.33
32 1 0.01
33 2 0.02
34 3 0.04
35 1 0.01
36 1 0.01
37 25 0.29
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.42
Consensus pattern (30 bp):
CAACAACCCAAGATTATCTTCTTCTTTTTT
Found at i:25498401 original size:37 final size:37
Alignment explanation
Indices: 25498358--25498432 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
25498348 TTTTTTAACA
25498358 ACCCAAGATTATCTTCTTCTTTTTTCAACAACCCAAG
1 ACCCAAGATTATCTTCTTCTTTTTTCAACAACCCAAG
25498395 ACCCAAGATTATCTTCTTCTTTTTTCAACAACCCAAG
1 ACCCAAGATTATCTTCTTCTTTTTTCAACAACCCAAG
25498432 A
1 A
25498433 TTATCTTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (37 bp):
ACCCAAGATTATCTTCTTCTTTTTTCAACAACCCAAG
Found at i:25505141 original size:19 final size:20
Alignment explanation
Indices: 25505099--25505145 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
25505089 GGAGACACCA
* *
25505099 AAGTGCAAACAGAGGTATTG
1 AAGTGCAAACAAAGGTACTG
25505119 AAGTGCAAACAAAGG-ACTG
1 AAGTGCAAACAAAGGTACTG
25505138 AAGTGCAA
1 AAGTGCAA
25505146 TCATAGGCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.45, C:0.13, G:0.28, T:0.15
Consensus pattern (20 bp):
AAGTGCAAACAAAGGTACTG
Found at i:25524409 original size:20 final size:20
Alignment explanation
Indices: 25524384--25524448 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
25524374 CACTTATGTG
*
25524384 CCCCTGTTTGTTCTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * *
25524404 CCCCTGATTGTACTTAC-ATG
1 CCCCTGTTTGTACTT-CGGTA
*
25524424 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
25524444 CCCCT
1 CCCCT
25524449 AATTGCATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.12, C:0.34, G:0.15, T:0.38
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:25524426 original size:40 final size:40
Alignment explanation
Indices: 25524368--25524528 Score: 196
Period size: 40 Copynumber: 4.0 Consensus size: 40
25524358 AATTATTCAA
* * *
25524368 TGATTGCACTTATGTGCCCCTGTTTGTTCTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCC
* *
25524408 TGATTGTACTTACATGCCCCTATTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * ** *
25524448 TAATTGCATTTACTTTCCCCTATTTGTACTTCAATACCCT
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCC
* *
25524488 TGATTCCACTTACGTGCCCCTACTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCC
25524528 T
1 T
25524529 TGCTGCACTT
Statistics
Matches: 99, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.16, C:0.31, G:0.14, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:25524449 original size:20 final size:19
Alignment explanation
Indices: 25524384--25524528 Score: 60
Period size: 20 Copynumber: 7.3 Consensus size: 19
25524374 CACTTATGTG
* *
25524384 CCCCTGTTTGTTCTTCGGTA
1 CCCCTATTTGTACTTC-GTA
* *
25524404 CCCCTGA-TTGTACTTACATG
1 CCCCT-ATTTGTACTT-CGTA
25524424 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTC-GTA
* * * * *
25524444 CCCCTAATTGCATTTACTTT
1 CCCCTATTTGTACTT-CGTA
*
25524464 CCCCTATTTGTACTTCAATA
1 CCCCTATTTGTACTTC-GTA
* ** *
25524484 CCCTTGA-TTCCACTTACGTG
1 CCCCT-ATTTGTACTT-CGTA
*
25524504 CCCCTACTTGTACTTCGGTA
1 CCCCTATTTGTACTTC-GTA
25524524 CCCCT
1 CCCCT
25524529 TGCTGCACTT
Statistics
Matches: 90, Mismatches: 25, Indels: 20
0.67 0.19 0.15
Matches are distributed among these distances:
19 5 0.06
20 81 0.90
21 4 0.04
ACGTcount: A:0.16, C:0.33, G:0.12, T:0.39
Consensus pattern (19 bp):
CCCCTATTTGTACTTCGTA
Found at i:25524545 original size:40 final size:41
Alignment explanation
Indices: 25524368--25524546 Score: 179
Period size: 40 Copynumber: 4.5 Consensus size: 41
25524358 AATTATTCAA
* *
25524368 TGATTGCACTTATGTGCCCCTGTTTGTTCTTCGGTACCCC-
1 TGATTGCACTTATGTGCCCCTATTTGTACTTCGGTACCCCT
* **
25524408 TGATTGTACTTACATGCCCCTATTTGTACTTCGGTACCCC-
1 TGATTGCACTTATGTGCCCCTATTTGTACTTCGGTACCCCT
* * * **
25524448 TAATTGCATTTACT-TTCCCCTATTTGTACTTCAATA-CCCT
1 TGATTGCACTTA-TGTGCCCCTATTTGTACTTCGGTACCCCT
* * *
25524488 TGATTCCACTTACGTGCCCCTACTTGTACTTCGGTACCCCT
1 TGATTGCACTTATGTGCCCCTATTTGTACTTCGGTACCCCT
* *
25524529 TG-CTGCACTTTTGTGCCC
1 TGATTGCACTTATGTGCCC
25524547 GTGGTTATAC
Statistics
Matches: 111, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 102 0.92
41 6 0.05
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.39
Consensus pattern (41 bp):
TGATTGCACTTATGTGCCCCTATTTGTACTTCGGTACCCCT
Found at i:25527840 original size:38 final size:37
Alignment explanation
Indices: 25527788--25527878 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 37
25527778 GATTTGACTA
** *
25527788 CATGTTAAACATGCCTTACAGGATATTATTCGATTTG
1 CATGTTAAACATGCCCCACAGGATATTATTCGATTCG
*
25527825 CATGTTAAAACATGCCCCACATGATATTATTCGATTCG
1 CATGTT-AAACATGCCCCACAGGATATTATTCGATTCG
*
25527863 CATGTTCAACATGCCC
1 CATGTTAAACATGCCC
25527879 AATGTGACAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 15 0.31
38 33 0.69
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (37 bp):
CATGTTAAACATGCCCCACAGGATATTATTCGATTCG
Found at i:25528812 original size:39 final size:39
Alignment explanation
Indices: 25528594--25528809 Score: 371
Period size: 39 Copynumber: 5.5 Consensus size: 39
25528584 AATTTGTATT
* *
25528594 TGAGTATTGTGATATATACTTGAATGTTCTGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
25528633 TGAGTATTGTGATATACGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
25528672 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
25528711 TGAGTA-TGTTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTG-TGATATATGCTTGAATGTTATGTGATTATA
*
25528750 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
25528789 TGAGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
25528810 AAAAGTGAAT
Statistics
Matches: 169, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
38 2 0.01
39 165 0.98
40 2 0.01
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:25530945 original size:12 final size:12
Alignment explanation
Indices: 25530928--25530961 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
25530918 ATTAATTTAA
25530928 TATTATTATTAC
1 TATTATTATTAC
*
25530940 TATTATTATTGC
1 TATTATTATTAC
25530952 TATTATTATT
1 TATTATTATT
25530962 TTTCTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:25538704 original size:16 final size:16
Alignment explanation
Indices: 25538683--25538734 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
25538673 GTGATGTTGA
25538683 TGAGTTTACTCATTTG
1 TGAGTTTACTCATTTG
*
25538699 TGAG-TT--T--GTTG
1 TGAGTTTACTCATTTG
25538710 ATGAGTTTACTCATTTG
1 -TGAGTTTACTCATTTG
25538727 TGAGTTTA
1 TGAGTTTA
25538735 ATGGTGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
11 3 0.11
12 4 0.14
13 3 0.11
15 3 0.11
16 12 0.43
17 3 0.11
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.50
Consensus pattern (16 bp):
TGAGTTTACTCATTTG
Found at i:25538710 original size:28 final size:28
Alignment explanation
Indices: 25538677--25538733 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
25538667 TTATATGTGA
25538677 TGTTGATGAGTTTACTCATTTGTGAGTT
1 TGTTGATGAGTTTACTCATTTGTGAGTT
25538705 TGTTGATGAGTTTACTCATTTGTGAGTT
1 TGTTGATGAGTTTACTCATTTGTGAGTT
25538733 T
1 T
25538734 AATGGTGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.07, G:0.25, T:0.51
Consensus pattern (28 bp):
TGTTGATGAGTTTACTCATTTGTGAGTT
Found at i:25546499 original size:30 final size:30
Alignment explanation
Indices: 25546463--25546532 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
25546453 ATCGATTATG
25546463 AAAAGGGATGGTGACGACCATCGAACTATA
1 AAAAGGGATGGTGACGACCATCGAACTATA
* *
25546493 AAAAGGGATGGTGACGACGATCGAACTATG
1 AAAAGGGATGGTGACGACCATCGAACTATA
25546523 AAAA-GGATGG
1 AAAAGGGATGG
25546533 CTTCGGCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 6 0.16
30 32 0.84
ACGTcount: A:0.40, C:0.13, G:0.31, T:0.16
Consensus pattern (30 bp):
AAAAGGGATGGTGACGACCATCGAACTATA
Found at i:25546526 original size:60 final size:59
Alignment explanation
Indices: 25546459--25546710 Score: 201
Period size: 60 Copynumber: 4.2 Consensus size: 59
25546449 GGCTATCGAT
* * *
25546459 TATGAAAAGGGATGG-TGACGACCATCGAA-CTATAAAAAGGGATGG-TGACGACGATCGAAC
1 TATGAAAAGGGATGGCT-ACGACCATC-AATCTATAAAAAGGGATGGTTCA-G-CTATCAAAC
* * * * *
25546519 TATGAAAA-GGATGGCTTCGGCTATCAATCTATGAAAAGGGATGGCTTCAGCTATCAATC
1 TATGAAAAGGGATGGCTACGACCATCAATCTATAAAAAGGGATGG-TTCAGCTATCAAAC
* * * * *
25546578 TATGAAAAGGGATGGCTTCGACTATCAATCTATAAAAGGGGATAGCTTCAGCTATCAAAT
1 TATGAAAAGGGATGGCTACGACCATCAATCTATAAAAAGGGAT-GGTTCAGCTATCAAAC
* * * * * * *
25546638 TATGAAAAGGGATGG-TGACAACCATTGAA-CTATGAAAAGGGATGGTGGCGGCCATCAAAT
1 TATGAAAAGGGATGGCT-ACGACCA-TCAATCTATAAAAAGGGATGGT-TCAGCTATCAAAC
25546698 TATGAAAAGGGAT
1 TATGAAAAGGGAT
25546711 AACTTCGGCT
Statistics
Matches: 159, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
58 2 0.01
59 44 0.28
60 107 0.67
61 6 0.04
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.23
Consensus pattern (59 bp):
TATGAAAAGGGATGGCTACGACCATCAATCTATAAAAAGGGATGGTTCAGCTATCAAAC
Found at i:25546563 original size:30 final size:30
Alignment explanation
Indices: 25546518--25546740 Score: 208
Period size: 30 Copynumber: 7.5 Consensus size: 30
25546508 GACGATCGAA
25546518 CTATGAAAA-GGATGGCTTCGGCTATCAAT
1 CTATGAAAAGGGATGGCTTCGGCTATCAAT
*
25546547 CTATGAAAAGGGATGGCTTCAGCTATCAAT
1 CTATGAAAAGGGATGGCTTCGGCTATCAAT
*
25546577 CTATGAAAAGGGATGGCTTCGACTATCAAT
1 CTATGAAAAGGGATGGCTTCGGCTATCAAT
* *
25546607 CTAT-AAAAGGGGATAGCTTCAGCTATCAAAT
1 CTATGAAAA-GGGATGGCTTCGGCTATC-AAT
* ** * *
25546638 -TATGAAAAGGGATGG-TGACAACCATTGAA-
1 CTATGAAAAGGGATGGCT-TCGGCTA-TCAAT
* *
25546667 CTATGAAAAGGGATGG-TGGCGGCCATCAAAT
1 CTATGAAAAGGGATGGCT-TCGGCTATC-AAT
** * *
25546698 -TATGAAAAGGGATAACTTCGGCTGTCAAA
1 CTATGAAAAGGGATGGCTTCGGCTATCAAT
25546727 CTATGAAAAGGGAT
1 CTATGAAAAGGGAT
25546741 AACTTCAATT
Statistics
Matches: 162, Mismatches: 21, Indels: 21
0.79 0.10 0.10
Matches are distributed among these distances:
29 17 0.10
30 136 0.84
31 9 0.06
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (30 bp):
CTATGAAAAGGGATGGCTTCGGCTATCAAT
Found at i:25546671 original size:90 final size:91
Alignment explanation
Indices: 25546449--25546740 Score: 298
Period size: 90 Copynumber: 3.3 Consensus size: 91
25546439 ATAGCCCTTT
* * * * *
25546449 GGCTATC-GATTATGAAAAGGGATGGTGACGACCATCGAACTATAAAAAGGGATGGTGACGACGA
1 GGCTATCAAATTATGAAAAGGGATGGTGACAACCATTGAACTATGAAAAGGGATGGTGACGACCA
* *
25546513 TCGAA-CTATGAAAA-GGATGGCTTC
66 TCAAATCTATGAAAAGGGATAGCTTC
* * * * *
25546537 GGCTATC-AATCTATGAAAAGGGATGGCT-TCAGCTA-TCAATCTATGAAAAGGGATGGCT-TCG
1 GGCTATCAAAT-TATGAAAAGGGATGG-TGACAACCATTGAA-CTATGAAAAGGGATGG-TGACG
*
25546598 ACTATC-AATCTAT-AAAAGGGGATAGCTTC
62 ACCATCAAATCTATGAAAA-GGGATAGCTTC
* * *
25546627 AGCTATCAAATTATGAAAAGGGATGGTGACAACCATTGAACTATGAAAAGGGATGGTGGCGGCCA
1 GGCTATCAAATTATGAAAAGGGATGGTGACAACCATTGAACTATGAAAAGGGATGGTGACGACCA
*
25546692 TCAAAT-TATGAAAAGGGATAACTTC
66 TCAAATCTATGAAAAGGGATAGCTTC
* *
25546717 GGCTGTCAAACTATGAAAAGGGAT
1 GGCTATCAAATTATGAAAAGGGAT
25546741 AACTTCAATT
Statistics
Matches: 168, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
88 17 0.10
89 46 0.27
90 92 0.55
91 13 0.08
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (91 bp):
GGCTATCAAATTATGAAAAGGGATGGTGACAACCATTGAACTATGAAAAGGGATGGTGACGACCA
TCAAATCTATGAAAAGGGATAGCTTC
Found at i:25546765 original size:30 final size:30
Alignment explanation
Indices: 25546539--25546770 Score: 116
Period size: 30 Copynumber: 7.7 Consensus size: 30
25546529 ATGGCTTCGG
** *
25546539 CTATC-AATCTATGAAAAGGGATGGCTTCAG
1 CTATCAAAT-TATGAAAAGGGATAACTTCAA
** *
25546569 CTATC-AATCTATGAAAAGGGATGGCTTCGA
1 CTATCAAAT-TATGAAAAGGGATAACTTCAA
* *
25546599 CTATC-AATCTAT-AAAAGGGGATAGCTTCAG
1 CTATCAAAT-TATGAAAA-GGGATAACTTCAA
** *
25546629 CTATCAAATTATGAAAAGGGAT-GGTGACAA
1 CTATCAAATTATGAAAAGGGATAACT-TCAA
* ** * ** * **
25546659 CCATTGAACTATGAAAAGGGAT-GGTGGCGG
1 CTATCAAATTATGAAAAGGGATAACT-TCAA
* **
25546689 CCATCAAATTATGAAAAGGGATAACTTCGG
1 CTATCAAATTATGAAAAGGGATAACTTCAA
* *
25546719 CTGTCAAACTATGAAAAGGGATAACTTCAA
1 CTATCAAATTATGAAAAGGGATAACTTCAA
* * *
25546749 TTATCGAATTACGAAAAGGGAT
1 CTATCAAATTATGAAAAGGGAT
25546771 GTGTCAACCA
Statistics
Matches: 166, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
29 6 0.04
30 152 0.92
31 8 0.05
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (30 bp):
CTATCAAATTATGAAAAGGGATAACTTCAA
Found at i:25560659 original size:14 final size:14
Alignment explanation
Indices: 25560640--25560669 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
25560630 TTATACATAC
25560640 CTAAACAAAACACT
1 CTAAACAAAACACT
25560654 CTAAACAAAACACT
1 CTAAACAAAACACT
25560668 CT
1 CT
25560670 CCAAACACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (14 bp):
CTAAACAAAACACT
Found at i:25569981 original size:30 final size:30
Alignment explanation
Indices: 25569947--25570003 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
25569937 TTTACGAGCA
* *
25569947 TAGGGGCAAAATCATAATTTTGTGAAACTT
1 TAGGGGCAAAAACATAATTTTGGGAAACTT
25569977 TAGGGGCAAAAACATAATTTTGGGAAA
1 TAGGGGCAAAAACATAATTTTGGGAAA
25570004 GTATTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAACATAATTTTGGGAAACTT
Found at i:25570355 original size:96 final size:97
Alignment explanation
Indices: 25570240--25570415 Score: 266
Period size: 96 Copynumber: 1.8 Consensus size: 97
25570230 TGATGGTCAT
* * *
25570240 GTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGTACTA
1 GTGTGTAGTACTATGTGTAGGCTACTACATGTACCAG-ATGATAATGGTCACATGTGTAGTACTA
25570303 TGTGCAGGCTACTATGCGGGTAGTTTCGATCAC
65 TGTGCAGGCTACTATGCGGGTAGTTTCGATCAC
** *
25570336 GTGTGTAGTACTATGTGTAGGCTACTACATGTATTAGATGGTAATGGTCACATGTGTAGTACTAT
1 GTGTGTAGTACTATGTGTAGGCTACTACATGTACCAGATGATAATGGTCACATGTGTAGTACTAT
*
25570401 GTGTAGGCTACTATG
66 GTGCAGGCTACTATG
25570416 TGAACCGAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
95 4 0.06
96 34 0.48
97 33 0.46
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (97 bp):
GTGTGTAGTACTATGTGTAGGCTACTACATGTACCAGATGATAATGGTCACATGTGTAGTACTAT
GTGCAGGCTACTATGCGGGTAGTTTCGATCAC
Found at i:25570475 original size:45 final size:45
Alignment explanation
Indices: 25570424--25570509 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
25570414 TGTGAACCGA
* *
25570424 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
25570469 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
25570510 TCGAGTACCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
Done.