Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 33
Found at i:2174489 original size:31 final size:31
Alignment explanation
Indices: 2174446--2174504 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2174436 GTATGATCAC
*
2174446 TTTTGTTTTTATTTAATTAAGATATGGTTAG
1 TTTTATTTTTATTTAATTAAGATATGGTTAG
*
2174477 TTTTATTTTTATTTAATTAAGATGTGGT
1 TTTTATTTTTATTTAATTAAGATATGGT
2174505 CATCATGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.59
Consensus pattern (31 bp):
TTTTATTTTTATTTAATTAAGATATGGTTAG
Found at i:2174707 original size:25 final size:25
Alignment explanation
Indices: 2174633--2174710 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 25
2174623 AAATTTTAAC
** *
2174633 ATAAAATATATATTTTTAAA-TAAAA
1 ATAAAATATAT-TTAATAAATTAATA
* * *
2174658 ATAAAAAATCTTTAAATTAAGTTAATA
1 ATAAAATATATTT-AA-TAAATTAATA
2174685 ATAAAATATATTTAATAAATTAATA
1 ATAAAATATATTTAATAAATTAATA
2174710 A
1 A
2174711 AAATATTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
24 2 0.05
25 19 0.46
26 5 0.12
27 15 0.37
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (25 bp):
ATAAAATATATTTAATAAATTAATA
Found at i:2176476 original size:16 final size:16
Alignment explanation
Indices: 2176455--2176486 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2176445 TGTTCCAAAA
2176455 GTTCACGAATATACTT
1 GTTCACGAATATACTT
2176471 GTTCACGAATATACTT
1 GTTCACGAATATACTT
2176487 ACGTTGACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
GTTCACGAATATACTT
Found at i:2182506 original size:32 final size:32
Alignment explanation
Indices: 2182470--2182559 Score: 171
Period size: 32 Copynumber: 2.8 Consensus size: 32
2182460 TTAAAGTTTG
*
2182470 GCCACCAATCAAGATGAAATTTCCAATAAGTT
1 GCCACCAACCAAGATGAAATTTCCAATAAGTT
2182502 GCCACCAACCAAGATGAAATTTCCAATAAGTT
1 GCCACCAACCAAGATGAAATTTCCAATAAGTT
2182534 GCCACCAACCAAGATGAAATTTCCAA
1 GCCACCAACCAAGATGAAATTTCCAA
2182560 CTTGCCAACT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (32 bp):
GCCACCAACCAAGATGAAATTTCCAATAAGTT
Found at i:2184924 original size:36 final size:36
Alignment explanation
Indices: 2184853--2184973 Score: 165
Period size: 36 Copynumber: 3.3 Consensus size: 36
2184843 ATCCTATTAT
* *
2184853 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
2184889 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
*
2184925 CA-TTTTCAAAAAACACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAA-ACATTTACCAAACTTTGAAAAC
2184961 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
2184974 TTGGTTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
35 10 0.13
36 37 0.49
37 20 0.27
38 8 0.11
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:2189064 original size:16 final size:17
Alignment explanation
Indices: 2189037--2189068 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2189027 TCACCGACTG
2189037 AATTTCACTATTCACGA
1 AATTTCACTATTCACGA
2189054 AATTT-ACTATTCACG
1 AATTTCACTATTCACG
2189069 TGAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (17 bp):
AATTTCACTATTCACGA
Found at i:2196884 original size:176 final size:175
Alignment explanation
Indices: 2196561--2196886 Score: 460
Period size: 176 Copynumber: 1.9 Consensus size: 175
2196551 TAAATAATAA
* * *
2196561 TATTTATTTATATTTTAATATTAAGAAAGTGGTTGTCTTAAAACAACTAGATGTCCTATTCTGAT
1 TATTTATTTATATTTTAAAATTAAGAAAGGGGTTGTCTTAAAACAACTAGATATCCTATTCTGAT
* *
2196626 ATTTTTAAATAAATAAATATAATGCTTATAAATATATATACATATATATATATATATTTACTTTA
66 ATTTTTAAATAAATAAATATAATACTTATAAATACATATACATATATATATATATATTTACTTTA
** *
2196691 GTTTTATTTATATTATTTTAGGAAATATTATCATATTATTATTAG
131 GTTTTATAAAAATTATTTTAGGAAATATTATCATATTATTATTAG
* ** *
2196736 TATTTATTTATTTTTTAAAATTAAAGAAAGGGGTTGTCTTAAAGTAACTAGATATCCTTTTCTGA
1 TATTTATTTATATTTTAAAATT-AAGAAAGGGGTTGTCTTAAAACAACTAGATATCCTATTCTGA
* * *
2196801 TATTTTTAAATAAATAAATATAATATTTATAAA-ACCCTA-A-GTATATATATATACTTATTTAC
65 TATTTTTAAATAAATAAATATAATACTTATAAATA-CATATACATATATATATATA--TATTTAC
2196863 TTTAGTTTTATAAAAATTATTTTA
127 TTTAGTTTTATAAAAATTATTTTA
2196887 ATATATATTT
Statistics
Matches: 132, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
174 12 0.09
175 22 0.17
176 98 0.74
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.47
Consensus pattern (175 bp):
TATTTATTTATATTTTAAAATTAAGAAAGGGGTTGTCTTAAAACAACTAGATATCCTATTCTGAT
ATTTTTAAATAAATAAATATAATACTTATAAATACATATACATATATATATATATATTTACTTTA
GTTTTATAAAAATTATTTTAGGAAATATTATCATATTATTATTAG
Found at i:2199458 original size:75 final size:76
Alignment explanation
Indices: 2199300--2199506 Score: 283
Period size: 76 Copynumber: 2.7 Consensus size: 76
2199290 CCGTTGTACA
* * * *
2199300 AGGGGGGAATCGGTACCCCCT-TGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
* ** *
2199364 TAAAACTGTTT
66 CAAAACCATTC
*
2199375 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
*
2199440 CCAAACCATTC
66 CAAAACCATTC
* *
2199451 A-GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAA
2199507 TTTTTGGCTT
Statistics
Matches: 118, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
75 40 0.34
76 78 0.66
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
CAAAACCATTC
Found at i:2200127 original size:17 final size:16
Alignment explanation
Indices: 2200107--2200148 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
2200097 CAACATTCAT
2200107 AAATCCAACAATCCACA
1 AAATCCAACAATCCA-A
*
2200124 AAATCAAACAATCCAA
1 AAATCCAACAATCCAA
2200140 AATATCCAA
1 AA-ATCCAA
2200149 AATGTTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (16 bp):
AAATCCAACAATCCAA
Found at i:2202120 original size:22 final size:24
Alignment explanation
Indices: 2202069--2202120 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
2202059 GATTCCCCTG
2202069 TGGGGGGGAATCGGTTCCCCTTCA
1 TGGGGGGGAATCGGTTCCCCTTCA
**
2202093 -AAGGGGGAATCGGTT-CCC-TCA
1 TGGGGGGGAATCGGTTCCCCTTCA
2202114 TGGGGGG
1 TGGGGGG
2202121 ATCGATTCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.13
22 7 0.30
23 13 0.57
ACGTcount: A:0.15, C:0.21, G:0.42, T:0.21
Consensus pattern (24 bp):
TGGGGGGGAATCGGTTCCCCTTCA
Found at i:2209713 original size:10 final size:9
Alignment explanation
Indices: 2209686--2209716 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
2209676 TTTTTTTATT
2209686 ATTTCAAAA
1 ATTTCAAAA
2209695 ATTTCAAAA
1 ATTTCAAAA
2209704 ATTTCGAAAA
1 ATTTC-AAAA
2209714 ATT
1 ATT
2209717 CTTGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (9 bp):
ATTTCAAAA
Found at i:2210103 original size:20 final size:19
Alignment explanation
Indices: 2210080--2210116 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2210070 AGAACCCCAG
*
2210080 GGGGGTATCGATTCCCCTA
1 GGGGGAATCGATTCCCCTA
*
2210099 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
2210117 TCAAAGGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.27, G:0.35, T:0.24
Consensus pattern (19 bp):
GGGGGAATCGATTCCCCTA
Found at i:2220695 original size:22 final size:24
Alignment explanation
Indices: 2220667--2220710 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
2220657 CTCATTTATC
*
2220667 ATAAAAAA-AGAAGA-GAAAAAAA
1 ATAAAAAACAAAAGATGAAAAAAA
2220689 ATAAAAAACAAAAGATGAAAAA
1 ATAAAAAACAAAAGATGAAAAA
2220711 GATGAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (24 bp):
ATAAAAAACAAAAGATGAAAAAAA
Found at i:2223926 original size:152 final size:153
Alignment explanation
Indices: 2223714--2224129 Score: 649
Period size: 152 Copynumber: 2.7 Consensus size: 153
2223704 TGGAAAGATG
* * *
2223714 AAAGATATAACTTTACATGAGAAAAAAGAAAGATTTTCCATGTATATCAATACGGTTAACAACTT
1 AAAGATATACCTTTACATGAG-AAAAAGAAAGATTTTCCATGTATGTCAATGCGGTTAACAACTT
* *
2223779 AATTGAAGGTGAATGATAATGAGATAAATTCATCGATATTTAATGTGATCGTAACCTTTAATCAT
65 AATTGAAAGTGAATGATAATGAGATAAATTCATCGATATTTAATGTGATCGTAACCTTTAACCAT
*
2223844 ACT-AAAAAATCATAATTCAAATC
130 ACTAAAAAAATCATAATCCAAATC
* * *
2223867 AAAGATATACCTTTACATGAGTAAAAGAAAGATTTTTCATGTATGTCAATGCGGGTAACAACTTA
1 AAAGATATACCTTTACATGAGAAAAAGAAAGATTTTCCATGTATGTCAATGCGGTTAACAACTTA
* *
2223932 ATTGAAAGTGAATGATAATGAGACAAATTCATCGATATTTAATGTTATCGTAACCTTTAACCATA
66 ATTGAAAGTGAATGATAATGAGATAAATTCATCGATATTTAATGTGATCGTAACCTTTAACCATA
2223997 CTAAAAAAATCATAATCCAAATC
131 CTAAAAAAATCATAATCCAAATC
* * * * *
2224020 AATGATATGCCTTTGCATGAGAAAAAGAGAGATTTTCCATGTATGTC-ATGCTGTTAACAACTTA
1 AAAGATATACCTTTACATGAGAAAAAGAAAGATTTTCCATGTATGTCAATGCGGTTAACAACTTA
2224084 ATTGAAAGTGAATGATAATGACG-TAAATTCATCGATATTTAATGTG
66 ATTGAAAGTGAATGATAATGA-GATAAATTCATCGATATTTAATGTG
2224130 GTTGTAGCCA
Statistics
Matches: 240, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
152 159 0.66
153 81 0.34
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (153 bp):
AAAGATATACCTTTACATGAGAAAAAGAAAGATTTTCCATGTATGTCAATGCGGTTAACAACTTA
ATTGAAAGTGAATGATAATGAGATAAATTCATCGATATTTAATGTGATCGTAACCTTTAACCATA
CTAAAAAAATCATAATCCAAATC
Found at i:2224591 original size:90 final size:91
Alignment explanation
Indices: 2224477--2224647 Score: 245
Period size: 93 Copynumber: 1.9 Consensus size: 91
2224467 GGGACTCGGA
** *
2224477 CAGCCCAAACATGATTTTT-TTTTTTACTTCAAAATTTCCAGAAGCTCTCTAATTCACCCAACTC
1 CAGCCCAAACATGATTTTTGTTTTTTACTTCAAAATTGACAAAAGCTCTCTAATTCACCCAACTC
*
2224541 TCCCTTAACCTTCCGGAGATTTCCAT
66 TCACTTAACCTTCCGGAGATTTCCAT
* * *
2224567 CAGCCCAAACATTATTTTTGTTTTTTTTACTTCAAAATTGACAAAAGCTCTGTAATTCTCCCAAC
1 CAGCCCAAACATGATTTTTG--TTTTTTACTTCAAAATTGACAAAAGCTCTCTAATTCACCCAAC
*
2224632 TTTCACTTAACCTTCC
64 TCTCACTTAACCTTCC
2224648 ATTTTTTTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
90 18 0.26
93 52 0.74
ACGTcount: A:0.27, C:0.28, G:0.07, T:0.37
Consensus pattern (91 bp):
CAGCCCAAACATGATTTTTGTTTTTTACTTCAAAATTGACAAAAGCTCTCTAATTCACCCAACTC
TCACTTAACCTTCCGGAGATTTCCAT
Found at i:2230873 original size:21 final size:22
Alignment explanation
Indices: 2230844--2230884 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
2230834 TGAGAAATTA
2230844 TTTCTAAAATAT-AAAAATGATG
1 TTTCTAAAAT-TGAAAAATGATG
2230866 TTTC-AAAATTGAAAAATGA
1 TTTCTAAAATTGAAAAATGA
2230885 AAATAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 13 0.72
22 4 0.22
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (22 bp):
TTTCTAAAATTGAAAAATGATG
Found at i:2233090 original size:64 final size:63
Alignment explanation
Indices: 2232996--2233182 Score: 161
Period size: 64 Copynumber: 2.9 Consensus size: 63
2232986 TACACTGATA
* *
2232996 GTGCATCGATGCATAAATATGC-TTCGATGTTTTGAA-AAAGCCTGG-GTGCATCGATGCATGGC
1 GTGCATCGGTGCATAAA-AT-CATTCGATGTTTT-AATAAA-CATGGAGTGCATCGATGCATGG-
2233058 T-T
61 TAT
* * *
2233060 GTGCATCGGTGCATAAAATCAATTCAATGTTTTAATATATATGGAGTGCATCGATGCATGGTAT
1 GTGCATCGGTGCATAAAATC-ATTCGATGTTTTAATAAACATGGAGTGCATCGATGCATGGTAT
* * * * *
2233124 GTGCATTGGTACACAAAATCCATTCGATG-TTCAATTAAAACAAGG-GTGCATCGATGCAT
1 GTGCATCGGTGCATAAAAT-CATTCGATGTTTTAA-T-AAACATGGAGTGCATCGATGCAT
2233183 TGATTCATGC
Statistics
Matches: 102, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
62 1 0.01
63 12 0.12
64 83 0.81
65 6 0.06
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (63 bp):
GTGCATCGGTGCATAAAATCATTCGATGTTTTAATAAACATGGAGTGCATCGATGCATGGTAT
Found at i:2233543 original size:18 final size:16
Alignment explanation
Indices: 2233520--2233558 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
2233510 TTTTGAAATT
2233520 ACTTCCCCTTACTTTAAC
1 ACTTCCCC--ACTTTAAC
*
2233538 ACTTCCCCCCTTTAAC
1 ACTTCCCCACTTTAAC
2233554 ACTTC
1 ACTTC
2233559 TCCCCCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.36
Consensus pattern (16 bp):
ACTTCCCCACTTTAAC
Found at i:2233552 original size:16 final size:17
Alignment explanation
Indices: 2233531--2233567 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
2233521 CTTCCCCTTA
2233531 CTTTAACACTTC-CCCC
1 CTTTAACACTTCTCCCC
2233547 CTTTAACACTTCTCCCC
1 CTTTAACACTTCTCCCC
2233564 CTTT
1 CTTT
2233568 TTGTTAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.16, C:0.46, G:0.00, T:0.38
Consensus pattern (17 bp):
CTTTAACACTTCTCCCC
Found at i:2235868 original size:21 final size:23
Alignment explanation
Indices: 2235814--2235871 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
2235804 CGGTGCATCT
2235814 ATGTATCGATGCACATTCAAAGGG
1 ATGTATCGATGCACATTCAAA-GG
* * *
2235838 ATGCATCGATGCACTTTCATA-G
1 ATGTATCGATGCACATTCAAAGG
2235860 -TGTATCGATGCA
1 ATGTATCGATGCA
2235872 TTAAGCACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 11 0.37
22 1 0.03
24 18 0.60
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (23 bp):
ATGTATCGATGCACATTCAAAGG
Found at i:2242395 original size:46 final size:45
Alignment explanation
Indices: 2242343--2242431 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
2242333 GAAAAATCCA
* * *
2242343 GAGTGCATCGATGCATTGTCTTGTGCATCGATGCATCAAATGCACT
1 GAGTGCATCGATGCATAGT-ATGTGCATCGATGCATAAAATGCACT
* *
2242389 GAGTGCATCGATGCATAGTATGTGTATCGATGTATAAAATGCA
1 GAGTGCATCGATGCATAGTATGTGCATCGATGCATAAAATGCA
2242432 TTCGATGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
45 20 0.53
46 18 0.47
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
GAGTGCATCGATGCATAGTATGTGCATCGATGCATAAAATGCACT
Found at i:2242476 original size:20 final size:20
Alignment explanation
Indices: 2242451--2242488 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2242441 TGAAAAATTA
2242451 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
2242471 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
2242489 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:2250953 original size:21 final size:21
Alignment explanation
Indices: 2250928--2250967 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2250918 CAATGGGATT
*
2250928 AGGATTAGGAATTGGATTTTG
1 AGGATTAGGAAGTGGATTTTG
*
2250949 AGGATTTGGAAGTGGATTT
1 AGGATTAGGAAGTGGATTT
2250968 GGTTGATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.38
Consensus pattern (21 bp):
AGGATTAGGAAGTGGATTTTG
Found at i:2251673 original size:21 final size:21
Alignment explanation
Indices: 2251647--2251686 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2251637 CAGAACCCCA
*
2251647 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2251668 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2251687 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2251721 original size:20 final size:21
Alignment explanation
Indices: 2251667--2251729 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
2251657 GATTCCCCTG
2251667 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
2251691 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
2251711 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
2251730 TGCACTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:2257564 original size:76 final size:75
Alignment explanation
Indices: 2257455--2257651 Score: 308
Period size: 76 Copynumber: 2.6 Consensus size: 75
2257445 CCATTATACA
* *
2257455 AGGGGGGAATCGGTA-CCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCATAGC
1 AGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCATACTGGAATTCTCAGAGC
2257519 CAAACCATTC
66 CAAACCATTC
*
2257529 AGGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCATACTGGAATTCTCGGAG
1 A-GGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCATACTGGAATTCTCAGAG
*
2257594 CCTAACCATTC
65 CCAAACCATTC
* *
2257605 A-GGGGGAATCAGTACCCCTTGAGGGGGGAATCGGTTCCCTCTGAGCA
1 AGGGGGGAATCGGTACCCCCTG-GGGGGGAATCGGTTCCCTCTGAGCA
2257652 ATCTGAAATT
Statistics
Matches: 114, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
74 19 0.17
75 39 0.34
76 56 0.49
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.20
Consensus pattern (75 bp):
AGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCATACTGGAATTCTCAGAGC
CAAACCATTC
Found at i:2257644 original size:21 final size:23
Alignment explanation
Indices: 2257606--2257649 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2257596 TAACCATTCA
2257606 GGGGGAATCAGTACCCCT-TGAG
1 GGGGGAATCAGTACCCCTCTGAG
* *
2257628 GGGGGAATCGGT-TCCCTCTGAG
1 GGGGGAATCAGTACCCCTCTGAG
2257650 CAATCTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.18, C:0.23, G:0.39, T:0.20
Consensus pattern (23 bp):
GGGGGAATCAGTACCCCTCTGAG
Found at i:2260283 original size:45 final size:46
Alignment explanation
Indices: 2260206--2260292 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 46
2260196 GAAAAAGCCA
* * * *
2260206 GAGTTCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCACT
1 GAGTGCATCGATGCATGATCATGTGCATCGATGCATAAAATGCACT
2260252 GAGTGCATCGATGCATGAT-ATGTGCATCGATGCATAAAATG
1 GAGTGCATCGATGCATGATCATGTGCATCGATGCATAAAATG
2260293 AATTCGATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 20 0.54
46 17 0.46
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (46 bp):
GAGTGCATCGATGCATGATCATGTGCATCGATGCATAAAATGCACT
Found at i:2260339 original size:20 final size:20
Alignment explanation
Indices: 2260314--2260351 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2260304 TGAAAAATTA
2260314 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
2260334 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
2260352 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:2262601 original size:20 final size:20
Alignment explanation
Indices: 2262563--2262600 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2262553 CTCAAAATCA
*
2262563 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATCTCATTTTG
2262583 TTTTTCAAAATCT-ATTTT
1 TTTTTCAAAATCTCATTTT
2262601 TACTTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTTCAAAATCTCATTTTG
Found at i:2264419 original size:3 final size:3
Alignment explanation
Indices: 2264411--2264447 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2264401 CTTAAAAGAT
2264411 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2264448 ATTTCCCCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2267511 original size:20 final size:20
Alignment explanation
Indices: 2267486--2267523 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2267476 ATAACATTAA
2267486 TAATAATAATAATAATATAG
1 TAATAATAATAATAATATAG
* *
2267506 TAATAATATTTATAATAT
1 TAATAATAATAATAATAT
2267524 TTTTTTAAAG
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:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TAATAATAATAATAATATAG
Found at i:2274139 original size:11 final size:11
Alignment explanation
Indices: 2274123--2274148 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2274113 AATTAGTGGC
2274123 ATGTAATTATT
1 ATGTAATTATT
2274134 ATGTAATTATT
1 ATGTAATTATT
2274145 ATGT
1 ATGT
2274149 TTTATTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (11 bp):
ATGTAATTATT
Found at i:2274310 original size:23 final size:22
Alignment explanation
Indices: 2274284--2274327 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2274274 AGATTACAAA
*
2274284 AGGGTAACCGATTCCCCTACTAC
1 AGGG-AACCGATTCCCCCACTAC
*
2274307 AGGGAATCGATTCCCCCACTA
1 AGGGAACCGATTCCCCCACTA
2274328 TTCACTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.20
Consensus pattern (22 bp):
AGGGAACCGATTCCCCCACTAC
Found at i:2275176 original size:29 final size:29
Alignment explanation
Indices: 2275134--2275495 Score: 154
Period size: 29 Copynumber: 12.1 Consensus size: 29
2275124 TTATTATTCC
* *
2275134 TGACTCCCTCGTGAAGAGGAA-CCAATCTT
1 TGACTTCCTCGTGAAGA-GAAGTCAATCTT
*
2275163 TGACTTCCTCGTGAGGAGAAGTCAATCTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTT
** * * *
2275192 TG--TTATTCATGAAGAGGAGTCAATCCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTT
* *
2275219 TGACTTTCTCATGAAGAGAAGTCAATCTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTT
* * *
2275248 TGTTATTCCTGACTCCCTCATTAAGAGGAA-CCAATCTT
1 TG--A---CT---T-CCTCGTGAAGA-GAAGTCAATCTT
*
2275286 TGACTTCCTCATGAAGAGAAGTCAATCTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTT
* ** * * *
2275315 T--TTTATTCTTGAAGAGGAGTCAATCCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTT
* *
2275342 TGACTTTCTCGTGAAGAGAATTCAATCTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTT
* *
2275371 TGTTATTCTTGACTCCCTCGTGAAGAGGAA-CCAATCAT
1 TG--A--C-T---T-CCTCGTGAAGA-GAAGTCAATCTT
*
2275409 TGATTTCCTCGTGAAGAGAAGTCAATCTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTT
**
2275438 TGTTA-TT--TC-TGAAGATG-AGTCAATAAT
1 TG--ACTTCCTCGTGAAGA-GAAGTCAATCTT
* * *
2275465 TGACATCCTCATGAAGAGAAGTCAATTTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTT
2275494 TG
1 TG
2275496 TTATTCCTAA
Statistics
Matches: 256, Mismatches: 42, Indels: 70
0.70 0.11 0.19
Matches are distributed among these distances:
25 1 0.00
26 1 0.00
27 58 0.23
28 15 0.06
29 121 0.47
30 4 0.02
31 3 0.01
33 4 0.02
34 3 0.01
36 2 0.01
37 2 0.01
38 36 0.14
39 6 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (29 bp):
TGACTTCCTCGTGAAGAGAAGTCAATCTT
Found at i:2275238 original size:56 final size:56
Alignment explanation
Indices: 2275145--2275501 Score: 275
Period size: 56 Copynumber: 6.0 Consensus size: 56
2275135 GACTCCCTCG
* * *
2275145 TGAAGAGGAACCAATCTTTGACTTCCTCGTGAGGAGAAGTCAATCTTTGTTATTCA
1 TGAAGAGGAACCAATCATTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCA
** * *
2275201 TGAAGAGGAGTCAATCCTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCT
1 TGAAGAGGAACCAATCATTGACTTCCTCATGAAGAGAAGTCAATCTTTG----T--T-A-T---T
2275266 CA
55 CA
* * * *
2275268 TTAAGAGGAACCAATCTTTGACTTCCTCATGAAGAGAAGTCAATCTTTTTTATTCT
1 TGAAGAGGAACCAATCATTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCA
** * * * *
2275324 TGAAGAGGAGTCAATCCTTGACTTTCTCGTGAAGAGAATTCAATCTTTGTTATTCTTGA
1 TGAAGAGGAACCAATCATTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTC---A
* *
2275383 CTCCCTCGTGAAGAGGAACCAATCATTGATTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTTC-
1 --------TGAAGAGGAACCAATCATTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTA-TTCA
* ** * * *
2275447 TGAAGATGAGTCAATAATTGACATCCTCATGAAGAGAAGTCAATTTTTGTTATTC
1 TGAAGAGGAACCAATCATTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTC
2275502 CTAAAGAGAA
Statistics
Matches: 242, Mismatches: 36, Indels: 47
0.74 0.11 0.14
Matches are distributed among these distances:
55 3 0.01
56 136 0.56
59 1 0.00
60 2 0.01
61 1 0.00
62 1 0.00
63 2 0.01
64 1 0.00
67 92 0.38
68 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (56 bp):
TGAAGAGGAACCAATCATTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCA
Found at i:2275311 original size:67 final size:67
Alignment explanation
Indices: 2275198--2275449 Score: 274
Period size: 67 Copynumber: 3.9 Consensus size: 67
2275188 TCTTTGTTAT
** *
2275198 TCATGAAGAGGAGTCAATCCTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTATTCCTGACTC
1 TCATGAAGAGGAACCAATCCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTGACTC
2275263 CC
66 CC
* *
2275265 TCATTAAGAGGAACCAATCTTTGACTTCCTCATGAAGAGAAGTCAATC--T-TT-TT--T-A-T-
1 TCATGAAGAGGAACCAATCCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTGACTC
2275321 --
66 CC
* ** * * * *
2275321 TCTTGAAGAGGAGTCAATCCTTGACTTTCTCGTGAAGAGAATTCAATCTTTGTTATTCTTGACTC
1 TCATGAAGAGGAACCAATCCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTGACTC
2275386 CC
66 CC
* * * * *
2275388 TCGTGAAGAGGAACCAATCATTGATTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTTCTGA
1 TCATGAAGAGGAACCAATCCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTGA
2275450 AGATGAGTCA
Statistics
Matches: 152, Mismatches: 22, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
56 40 0.26
58 1 0.01
59 3 0.02
60 3 0.02
61 1 0.01
62 1 0.01
63 3 0.02
64 3 0.02
65 1 0.01
67 96 0.63
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (67 bp):
TCATGAAGAGGAACCAATCCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTGACTC
CC
Found at i:2275314 original size:123 final size:122
Alignment explanation
Indices: 2275107--2275503 Score: 596
Period size: 123 Copynumber: 3.2 Consensus size: 122
2275097 GACTTCCTTG
* * *
2275107 TGAAGAGAATTCAATATTTATTATTCCTGACTCCCTCGTGAAGAGGAACCAATCTTTGACTTCCT
1 TGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGGAACCAATCTTTGACTTCCT
*
2275172 CGTGAGGAGAAGTCAATCTTTGTTATTCATGAAGAGGAGTCAATCCTTGACTTTCTCA
66 CGTGAAGAGAAGTCAATCTTTGTTATTC-TGAAGAGGAGTCAATCCTTGACTTTCTCA
* *
2275230 TGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCATTAAGAGGAACCAATCTTTGACTTCCT
1 TGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGGAACCAATCTTTGACTTCCT
* * *
2275295 CATGAAGAGAAGTCAATCTTTTTTATTCTTGAAGAGGAGTCAATCCTTGACTTTCTCG
66 CGTGAAGAGAAGTCAATCTTTGTTATTC-TGAAGAGGAGTCAATCCTTGACTTTCTCA
* * * *
2275353 TGAAGAGAATTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGGAACCAATCATTGATTTCCT
1 TGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGGAACCAATCTTTGACTTCCT
* ** * *
2275418 CGTGAAGAGAAGTCAATCTTTGTTATTTCTGAAGATGAGTCAATAATTGACATCCTCA
66 CGTGAAGAGAAGTCAATCTTTGTTA-TTCTGAAGAGGAGTCAATCCTTGACTTTCTCA
*
2275476 TGAAGAGAAGTCAATTTTTGTTATTCCT
1 TGAAGAGAAGTCAATCTTTGTTATTCCT
2275504 AAAGAGAAAT
Statistics
Matches: 246, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
123 243 0.99
124 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (122 bp):
TGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGGAACCAATCTTTGACTTCCT
CGTGAAGAGAAGTCAATCTTTGTTATTCTGAAGAGGAGTCAATCCTTGACTTTCTCA
Found at i:2275511 original size:27 final size:27
Alignment explanation
Indices: 2275478--2275530 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
2275468 CATCCTCATG
* * * *
2275478 AAGAGAAGTCAATTTTTGTTATTCCTA
1 AAGAGAAATAAATCTTTGTTAGTCCTA
2275505 AAGAGAAATAAATCTTTGTTAGTCCT
1 AAGAGAAATAAATCTTTGTTAGTCCT
2275531 GACTCCCTCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (27 bp):
AAGAGAAATAAATCTTTGTTAGTCCTA
Found at i:2275865 original size:82 final size:82
Alignment explanation
Indices: 2275672--2275995 Score: 388
Period size: 82 Copynumber: 4.0 Consensus size: 82
2275662 GTCTGATTTT
*
2275672 CCCTGAAAGAA-AAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCC-AAAAAGAGG-A
1 CCCTGAAAGAAGAA-TGGAGCAGACCCGTCTTCCAAAATTGATCTGACTACCCAAAAAAGAGGAA
2275734 TCAGATCAAGTTTGATCTC
65 T-AGATCAAGTTTGATCTC
* * * *
2275753 CCCTAAAAGAAGAATAGAGCAGACCCGTCTTCCGAAATTGATCTGATTACCCAAAAAAGAGGAAT
1 CCCTGAAAGAAGAATGGAGCAGACCCGTCTTCCAAAATTGATCTGACTACCCAAAAAAGAGGAAT
*
2275818 AGGTCAAGTCTT-ATCTC
66 AGATCAAGT-TTGATCTC
* ** * * *
2275835 CCCTGAAAGAAGAGA-GGAGTAGACTTGTCTTTCAAAATTGATATGACTACCTAAAAAAGAGGAA
1 CCCTGAAAGAAGA-ATGGAGCAGACCCGTCTTCCAAAATTGATCTGACTACCCAAAAAAGAGGAA
* *
2275899 CAAATCAAGTTTGATCTC
65 TAGATCAAGTTTGATCTC
* * * * *
2275917 CCTTGAAAGAAGAATGTAGCAAACCCGTCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAA
1 CCCTGAAAGAAGAATGGAGCAGACCCGTCTTCCAAAATTGATCTGACTACCCAAAAAAGAGGAAT
* *
2275982 AAATCAAGTCTGAT
66 AGATCAAGTTTGAT
2275996 TTGCTCTGGA
Statistics
Matches: 205, Mismatches: 31, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
81 47 0.23
82 153 0.75
83 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (82 bp):
CCCTGAAAGAAGAATGGAGCAGACCCGTCTTCCAAAATTGATCTGACTACCCAAAAAAGAGGAAT
AGATCAAGTTTGATCTC
Found at i:2275945 original size:164 final size:163
Alignment explanation
Indices: 2275672--2275980 Score: 449
Period size: 164 Copynumber: 1.9 Consensus size: 163
2275662 GTCTGATTTT
* * * *
2275672 CCCTGAAAGAAAAGTGGAGCAGACACGTCTTCCAAAATTGATCTGACTACCCAAAAAGAGGATCA
1 CCCTGAAAGAAAAGAGGAGCAGACACGTCTTCCAAAATTGATATGACTACCAAAAAAGAGGAACA
* * * *
2275737 GATCAAGTTTGATCTCCCCTAAAAGAAGAATAGAGCAGACCCGTCTTCCGAAATTGATCTGATTA
66 AATCAAGTTTGATCTCCCCTAAAAGAAGAATAGAGCAAACCCGTCTTCCAAAATTGATCTGACTA
2275802 CCCAAAAAAGAGGAATAGGTCAAGTCTTATCTC
131 CCCAAAAAAGAGGAATAGGTCAAGTCTTATCTC
* * ** *
2275835 CCCTGAAAGAAGAGAGGAGTAGACTTGTCTTTCAAAATTGATATGACTACCTAAAAAAGAGGAAC
1 CCCTGAAAGAAAAGAGGAGCAGACACGTCTTCCAAAATTGATATGACTACC-AAAAAAGAGGAAC
* *
2275900 AAATCAAGTTTGATCTCCCTTGAAAGAAGAAT-GTAGCAAACCCGTCTTCCAAAATTGATCTGAC
65 AAATCAAGTTTGATCTCCCCTAAAAGAAGAATAG-AGCAAACCCGTCTTCCAAAATTGATCTGAC
*
2275964 TACCCGAAAAAGAGGAA
129 TACCCAAAAAAGAGGAA
2275981 AAAATCAAGT
Statistics
Matches: 128, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
163 45 0.35
164 83 0.65
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (163 bp):
CCCTGAAAGAAAAGAGGAGCAGACACGTCTTCCAAAATTGATATGACTACCAAAAAAGAGGAACA
AATCAAGTTTGATCTCCCCTAAAAGAAGAATAGAGCAAACCCGTCTTCCAAAATTGATCTGACTA
CCCAAAAAAGAGGAATAGGTCAAGTCTTATCTC
Found at i:2278085 original size:17 final size:16
Alignment explanation
Indices: 2278056--2278097 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
2278046 TGGTCAAATC
2278056 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
2278073 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
2278088 AATTATTTTA
1 AATTATTTTA
2278098 AAATGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:2283142 original size:56 final size:56
Alignment explanation
Indices: 2283052--2283164 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
2283042 AAAATAGAAT
2283052 TCATAATATTTTCATTGATAATTTCATTTGATTACAACTGAATTATTTTATAGGAA
1 TCATAATATTTTCATTGATAATTTCATTTGATTACAACTGAATTATTTTATAGGAA
2283108 TCATAATATTTTCATTGATAATTTCATCTT-ATTACAACTGAATTATTTTATAGGAA
1 TCATAATATTTTCATTGATAATTTCAT-TTGATTACAACTGAATTATTTTATAGGAA
2283164 T
1 T
2283165 TAGTTCATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 54 0.96
57 2 0.04
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (56 bp):
TCATAATATTTTCATTGATAATTTCATTTGATTACAACTGAATTATTTTATAGGAA
Found at i:2286430 original size:16 final size:16
Alignment explanation
Indices: 2286409--2286439 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2286399 GAACTAAAGG
2286409 TATGTGAATGTGTGAA
1 TATGTGAATGTGTGAA
2286425 TATGTGAATGTGTGA
1 TATGTGAATGTGTGA
2286440 TAACATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (16 bp):
TATGTGAATGTGTGAA
Found at i:2288976 original size:23 final size:23
Alignment explanation
Indices: 2288950--2289002 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
2288940 AGCACTTCGA
2288950 TGCATTTCTACATGGCACTATGG
1 TGCATTTCTACATGGCACTATGG
* * *
2288973 TGCAATTCTACGTGGCACTTTGG
1 TGCATTTCTACATGGCACTATGG
2288996 TGCATTT
1 TGCATTT
2289003 ATATTAGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (23 bp):
TGCATTTCTACATGGCACTATGG
Found at i:2297175 original size:18 final size:18
Alignment explanation
Indices: 2297149--2297186 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2297139 TCACAGATAA
*
2297149 AATGTAATCTTATAACGT
1 AATGCAATCTTATAACGT
2297167 AATGCAATCTTATAACGT
1 AATGCAATCTTATAACGT
2297185 AA
1 AA
2297187 CTTTTCGTGA
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:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (18 bp):
AATGCAATCTTATAACGT
Found at i:2299304 original size:2 final size:2
Alignment explanation
Indices: 2299297--2299334 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2299287 GAAAATGAAA
2299297 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2299335 TGGAGAAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2305190 original size:58 final size:58
Alignment explanation
Indices: 2305099--2305216 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
2305089 AACCTTGCAA
2305099 GAACTACAAACAATTAATCTGTTCGATTCTTTTCTGGTATCACCCGTGCAACAAAAAT
1 GAACTACAAACAATTAATCTGTTCGATTCTTTTCTGGTATCACCCGTGCAACAAAAAT
*
2305157 GAACTACAAACAATTAATCTGTTCGATTTTTTTCTGGTATCACCCGTGCAACAAAAAT
1 GAACTACAAACAATTAATCTGTTCGATTCTTTTCTGGTATCACCCGTGCAACAAAAAT
2305215 GA
1 GA
2305217 CATAAAGATG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (58 bp):
GAACTACAAACAATTAATCTGTTCGATTCTTTTCTGGTATCACCCGTGCAACAAAAAT
Found at i:2309875 original size:20 final size:21
Alignment explanation
Indices: 2309850--2309894 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
2309840 AATATGAAGC
2309850 ATTTGAG-TTGAATTAAATGG
1 ATTTGAGTTTGAATTAAATGG
2309870 ATTTGAGTTTGAATTAAATGG
1 ATTTGAGTTTGAATTAAATGG
2309891 ATTT
1 ATTT
2309895 TCGGGCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (21 bp):
ATTTGAGTTTGAATTAAATGG
Found at i:2310061 original size:64 final size:63
Alignment explanation
Indices: 2309945--2310085 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
2309935 CACATTGAAT
* * *
2309945 GTGCATCGATGCACTCTTTAAAAAAGAAATATCGAATGCAAATGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCTTTAAAAAAGAAACATCGAAGGCAAATGGTGCATCGATGCAT-AGGTA
* * * * * *
2310008 GTGCATCGATGCATCCCTTT-AAAATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCA-CCCTTTAAAAAAG-AAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
2310072 GTGCATCGATGCAC
1 GTGCATCGATGCAC
2310086 ATGTTAAAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 21 0.32
64 45 0.68
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAAAAGAAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
Found at i:2311394 original size:31 final size:31
Alignment explanation
Indices: 2311356--2311421 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
2311346 AGAGTCGAGG
*
2311356 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
2311387 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
2311418 GTTT
1 GTTT
2311422 TCGAGGTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:2311431 original size:30 final size:31
Alignment explanation
Indices: 2311370--2311432 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
2311360 ACCTATGTCT
*
2311370 TTCGAGACATATGGACAGTTTACCTAGGTTC
1 TTCGAGACATATGGACAGTTTACCGAGGTTC
* * *
2311401 TTCGGGACCTATGGACAGTTT-TCGAGGTTC
1 TTCGAGACATATGGACAGTTTACCGAGGTTC
2311431 TT
1 TT
2311433 TATGACCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (31 bp):
TTCGAGACATATGGACAGTTTACCGAGGTTC
Found at i:2311684 original size:2 final size:2
Alignment explanation
Indices: 2311677--2311722 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2311667 ACATGACATG
2311677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2311719 AT AT
1 AT AT
2311723 GTTATATGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2311881 original size:4 final size:4
Alignment explanation
Indices: 2311874--2311900 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2311864 TAATGACATA
2311874 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
2311901 TTGTTACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:2312437 original size:34 final size:33
Alignment explanation
Indices: 2312382--2312468 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
2312372 TTTAAAAAAT
* * *
2312382 TTCGGGTTCAGGTCGGGTTTTTTTAAGTTTGATA
1 TTCGGG-TCGGGTCAGGTTTTTTTAAGTGTGATA
2312416 TTCGGGTCGGGTCAGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCAGGTTTTTTTAAGTGTGATA
*
2312449 TTCGGGTCGGATTCAGGTTT
1 TTCGGGTCGG-GTCAGGTTT
2312469 AGGGTGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 34 0.71
34 14 0.29
ACGTcount: A:0.14, C:0.10, G:0.32, T:0.44
Consensus pattern (33 bp):
TTCGGGTCGGGTCAGGTTTTTTTAAGTGTGATA
Found at i:2314483 original size:96 final size:96
Alignment explanation
Indices: 2314318--2314499 Score: 292
Period size: 96 Copynumber: 1.9 Consensus size: 96
2314308 TCTAGGCCGG
* * *
2314318 GCCTAGGAGGTTACATCTTCGTTACATTTTTAGGTGTTTACCGTTAAAAAACCGTTAAGTGACAC
1 GCCTAAGAGGTTACATCTTCATTACATTTTTAGGTGTTTACCGTTAAAAAACCATTAAGTGACAC
*
2314383 GTGTCACGTCTATATTTTTTTATTCAGGCGA
66 GTGTCACATCTATATTTTTTTATTCAGGCGA
* * *
2314414 GCCTAAGAGGTTACATCTTCATTACATTTTTAGGTGTTTATCGTTAAAAAATCATTAAGTGACAT
1 GCCTAAGAGGTTACATCTTCATTACATTTTTAGGTGTTTACCGTTAAAAAACCATTAAGTGACAC
*
2314479 GTGTCACATTTATATTTTTTT
66 GTGTCACATCTATATTTTTTT
2314500 TAAATAACAA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (96 bp):
GCCTAAGAGGTTACATCTTCATTACATTTTTAGGTGTTTACCGTTAAAAAACCATTAAGTGACAC
GTGTCACATCTATATTTTTTTATTCAGGCGA
Found at i:2320618 original size:25 final size:24
Alignment explanation
Indices: 2320590--2320653 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
2320580 ATTCAATATT
*
2320590 CAAACCATTCAAAATAAAATAAATC
1 CAAA-CATTCAAAATAAAACAAATC
* *
2320615 CAAACATTCAAAA-CACACAAATC
1 CAAACATTCAAAATAAAACAAATC
2320638 CAAAAACATTCAAAAT
1 C--AAACATTCAAAAT
2320654 GTTTTAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 8 0.24
24 9 0.27
25 16 0.48
ACGTcount: A:0.59, C:0.23, G:0.00, T:0.17
Consensus pattern (24 bp):
CAAACATTCAAAATAAAACAAATC
Found at i:2325790 original size:117 final size:117
Alignment explanation
Indices: 2325624--2325840 Score: 294
Period size: 117 Copynumber: 1.9 Consensus size: 117
2325614 TAAAAATGAT
* *
2325624 ATTCTTTTGAAAGCTAAAATAGACTTGGAAAATCAAAATGAAATTTTGAAAAAAGAGTTAGAGCT
1 ATTCTTTAGAAAGCTAAAATAGACTTGGAAAATCAAAATGAAATATTGAAAAAAGAGTTAGAGCT
2325689 TTCAAAAATGAAATCTTAAAACT-TTGAAAAAGAAATGTTCAAATTAAACAAA
66 TTCAAAAATGAAAT-TTAAAACTATTGAAAAAGAAATGTTCAAATTAAACAAA
* * * * * * *
2325741 ATTCTTCTAGAAA-CTAAAATGGATTTTGAAATTCAAAATGAAATATTGAAGAAGGATTTAGAGC
1 ATTCTT-TAGAAAGCTAAAATAGACTTGGAAAATCAAAATGAAATATTGAAAAAAGAGTTAGAGC
* * *
2325805 TTTCAAAAATGAACTTTGAAAGTATTGAAAAAGAAA
65 TTTCAAAAATGAAATTTAAAACTATTGAAAAAGAAA
2325841 ATTTTGATTT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
116 6 0.07
117 75 0.87
118 5 0.06
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (117 bp):
ATTCTTTAGAAAGCTAAAATAGACTTGGAAAATCAAAATGAAATATTGAAAAAAGAGTTAGAGCT
TTCAAAAATGAAATTTAAAACTATTGAAAAAGAAATGTTCAAATTAAACAAA
Found at i:2328128 original size:19 final size:19
Alignment explanation
Indices: 2328104--2328149 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
2328094 TAGTGAGGAA
*
2328104 CAAGGCTAGACTTGTTGCT
1 CAAGGCTAGACTTATTGCT
2328123 CAAGGCTAGACTTATTGCT
1 CAAGGCTAGACTTATTGCT
2328142 CAAGGCTA
1 CAAGGCTA
2328150 TACTCAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (19 bp):
CAAGGCTAGACTTATTGCT
Found at i:2329749 original size:21 final size:21
Alignment explanation
Indices: 2329723--2329779 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
2329713 TTTGTGCACC
2329723 AGGTATCGATACCCCCTTTA-T
1 AGGTATCGATACCCCC-TTACT
2329744 AGGTATCGATACCCCCTTACT
1 AGGTATCGATACCCCCTTACT
*
2329765 AGGTATCAATACCCC
1 AGGTATCGATACCCC
2329780 TTCAATGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.09
21 31 0.91
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (21 bp):
AGGTATCGATACCCCCTTACT
Found at i:2330302 original size:13 final size:13
Alignment explanation
Indices: 2330286--2330323 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2330276 TACATATTAA
2330286 TTTTCAAACATTG
1 TTTTCAAACATTG
*
2330299 TTTTCAAACATAG
1 TTTTCAAACATTG
2330312 TTTTCAAA-ATTG
1 TTTTCAAACATTG
2330324 CTCATTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 3 0.13
13 20 0.87
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (13 bp):
TTTTCAAACATTG
Found at i:2332085 original size:13 final size:13
Alignment explanation
Indices: 2332067--2332093 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2332057 GTAGTTGAAA
2332067 CAGTCTTCATATG
1 CAGTCTTCATATG
2332080 CAGTCTTCATATG
1 CAGTCTTCATATG
2332093 C
1 C
2332094 GCGTATGTAA
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:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:2336917 original size:18 final size:19
Alignment explanation
Indices: 2336875--2336914 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2336865 AAATAGAATG
*
2336875 CCCTATAGGTACTGATACC
1 CCCTAGAGGTACTGATACC
2336894 CCCTAGAGGTA-TCGATACC
1 CCCTAGAGGTACT-GATACC
2336913 CC
1 CC
2336915 TAGTCATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
CCCTAGAGGTACTGATACC
Found at i:2362882 original size:17 final size:17
Alignment explanation
Indices: 2362860--2362898 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2362850 AGTAAGTTTG
*
2362860 ATGCTTTGCCAATTTCA
1 ATGCTTCGCCAATTTCA
*
2362877 ATGCTTCGCTAATTTCA
1 ATGCTTCGCCAATTTCA
2362894 ATGCT
1 ATGCT
2362899 GCAGGCACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (17 bp):
ATGCTTCGCCAATTTCA
Found at i:2370442 original size:51 final size:51
Alignment explanation
Indices: 2370387--2370483 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
2370377 ACTTACACCG
*
2370387 GTGTAAATATATAATAAGTGCTACACTTTTTTATTTTATTCACTTAAACAA
1 GTGTAAATATATAATAAGTGCTACACTTTTTTATTTTAGTCACTTAAACAA
* * * *
2370438 GTGTAAATATGTATTAAGTGTTATACTTTTTTATTTTAGTCACTTA
1 GTGTAAATATATAATAAGTGCTACACTTTTTTATTTTAGTCACTTA
2370484 CAGTATGTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.47
Consensus pattern (51 bp):
GTGTAAATATATAATAAGTGCTACACTTTTTTATTTTAGTCACTTAAACAA
Found at i:2370497 original size:42 final size:42
Alignment explanation
Indices: 2370445--2370527 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
2370435 CAAGTGTAAA
*
2370445 TATGTATTAAGTGTTATACTTTTTTATTTTAGTCACTTACAG
1 TATGTATTAAGTGTTACACTTTTTTATTTTAGTCACTTACAG
* * *
2370487 TATGTGTTAAGTGTTACATTTTTTTATTTTATTCACTTACA
1 TATGTATTAAGTGTTACACTTTTTTATTTTAGTCACTTACA
2370528 TGGTATAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.54
Consensus pattern (42 bp):
TATGTATTAAGTGTTACACTTTTTTATTTTAGTCACTTACAG
Found at i:2371656 original size:21 final size:21
Alignment explanation
Indices: 2371630--2371672 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2371620 TTTTCGGGCT
* *
2371630 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
2371651 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
2371672 A
1 A
2371673 CGAAATGAAT
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:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:2371790 original size:68 final size:67
Alignment explanation
Indices: 2371652--2371789 Score: 190
Period size: 67 Copynumber: 2.1 Consensus size: 67
2371642 ACCCATTCAA
* * *
2371652 GGGGAACCGATACCCCTTCAACGAAATGAATTTCCAGAATGTTAGAGGGGAATCGGTACCCCCAG
1 GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGTTAGAGGGGAATCGATACCCCCAG
2371717 GG
66 GG
* * *
2371719 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTT-GAGGGGAATCGATA-CCCC
1 GGGGAACCGATACCCCCTCAACG-AAATGAAATTCCAGAATG-TTAGAGGGGAATCGATACCCCC
2371782 AGGG
64 AGGG
2371786 GGGG
1 GGGG
2371790 GGGGAACCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
67 33 0.52
68 28 0.44
69 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.19
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGTTAGAGGGGAATCGATACCCCCAG
GG
Found at i:2372207 original size:30 final size:31
Alignment explanation
Indices: 2372165--2372224 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
2372155 AGAAAAAGTT
*
2372165 ATATGCACTATGTGATAAAGATATGTAAATG
1 ATATGCACTATGTGATAAAGATATGGAAATG
* *
2372196 ATATGC-CTATGTGTTAAAGCTATGGAAAT
1 ATATGCACTATGTGATAAAGATATGGAAAT
2372225 ACTATGTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGATATGGAAATG
Found at i:2372518 original size:22 final size:22
Alignment explanation
Indices: 2372444--2372510 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
2372434 TTATGGACAT
2372444 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2372466 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2372488 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2372510 A
1 A
2372511 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:2378580 original size:21 final size:21
Alignment explanation
Indices: 2378554--2378596 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2378544 TTTTCGGGCT
* *
2378554 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
2378575 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
2378596 A
1 A
2378597 CGAAATGAAT
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:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:2378708 original size:67 final size:68
Alignment explanation
Indices: 2378576--2378728 Score: 195
Period size: 68 Copynumber: 2.2 Consensus size: 68
2378566 ACCCATTCAA
* * *
2378576 GGGGAACCGATACCCCTTCAACGAAATGAATTTCCAGAATGTTAGAGGGGAATCGGTACCCCCA-
1 GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGTTAGAGGGGAATCGATACCCCCAG
2378640 GGG
66 GGG
* * *
2378643 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTT-GAGGGGAATCGATA-CCCC
1 GGGGAACCGATACCCCCTCAACG-AAATGAAATTCCAGAATG-TTAGAGGGGAATCGATACCCCC
2378706 AGGGGG
64 A-GGGG
*
2378712 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
2378729 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
67 26 0.35
68 28 0.37
69 21 0.28
ACGTcount: A:0.27, C:0.26, G:0.29, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGTTAGAGGGGAATCGATACCCCCAG
GGG
Found at i:2379130 original size:30 final size:31
Alignment explanation
Indices: 2379088--2379147 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
2379078 AGAAAAAGTT
* *
2379088 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGCTATGGAAATG
*
2379119 ATATGC-CTATGTGTTAAAGCTATGGAAAT
1 ATATGCACTATGTGATAAAGCTATGGAAAT
2379148 ACTATGTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGCTATGGAAATG
Found at i:2379441 original size:22 final size:22
Alignment explanation
Indices: 2379367--2379433 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
2379357 TTATGGACAT
2379367 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2379389 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2379411 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2379433 A
1 A
2379434 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:2383271 original size:41 final size:42
Alignment explanation
Indices: 2383226--2383314 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 42
2383216 AAGAATAATG
* * * * * *
2383226 TTAAGATTTTTGGA-CATGATATTTATACTTTCGAGTCATTT
1 TTAAGATTATTCGAGCATGATATTAAAACATTCGAGTCACTT
*
2383267 TTAAGA-TATTCGAGCATGATATTAAAACATTCGATTCACTT
1 TTAAGATTATTCGAGCATGATATTAAAACATTCGAGTCACTT
2383308 TTAAGAT
1 TTAAGAT
2383315 CTTTAGATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
40 5 0.13
41 34 0.87
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (42 bp):
TTAAGATTATTCGAGCATGATATTAAAACATTCGAGTCACTT
Found at i:2393504 original size:2 final size:2
Alignment explanation
Indices: 2393497--2393522 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2393487 TTAATAAATC
2393497 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2393523 TATTTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2395417 original size:20 final size:21
Alignment explanation
Indices: 2395371--2395421 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
2395361 TTTAAGGCAC
*
2395371 AAGGGATCGATTCTTTTACCA
1 AAGGGATCGATCCTTTTACCA
* *
2395392 AAGGGATCGATCCTTTT-TCT
1 AAGGGATCGATCCTTTTACCA
2395412 AAGGGATCGA
1 AAGGGATCGA
2395422 GTATGTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (21 bp):
AAGGGATCGATCCTTTTACCA
Found at i:2396309 original size:130 final size:131
Alignment explanation
Indices: 2395950--2396318 Score: 508
Period size: 130 Copynumber: 2.8 Consensus size: 131
2395940 ACAATCTTAA
** * * *
2395950 GAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAGTAAATGACCTTTCATGCCTTAAAAAT
1 GAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTT-AAAGT
* * * * *
2396015 AGTCCTTTATTACCCCAATTGAAATGAAAAGATATCACTATTTCGTCTTAAAATTCAATATTGAT
65 AGTCATTTATTACTCCAATAGAAATGAAAAGATATCACTATTTCGTCTTAAAAATCAATATTGAC
2396080 TC
130 TC
* * * * *
2396082 GAGTGAAAATGATAATATCTAATGATTTCCAATCAAGAATAAATGACATCTCATGCCTTAAAGCA
1 GAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTA
* *
2396147 GTCATTTATCACTCTAATAGAAATGAAAAGATATCACTA-TTCTGTCTTAAAAATCAATATTGAC
66 GTCATTTATTACTCCAATAGAAATGAAAAGATATCACTATTTC-GTCTTAAAAATCAATATTGAC
2396211 TC
130 TC
* *
2396213 GAGAGAAAATGATAATA-CTGATTATTTCCAATCGAGAATAAATGACCTCTCATGCATTAAAGTA
1 GAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTA
* * *
2396277 GTCATTTATTACTCCAATCGAAATGAGAAGATATTACTATTT
66 GTCATTTATTACTCCAATAGAAATGAAAAGATATCACTATTT
2396319 TCAATATTGA
Statistics
Matches: 206, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
130 78 0.38
131 77 0.37
132 51 0.25
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (131 bp):
GAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTA
GTCATTTATTACTCCAATAGAAATGAAAAGATATCACTATTTCGTCTTAAAAATCAATATTGACT
C
Found at i:2396801 original size:10 final size:10
Alignment explanation
Indices: 2396786--2396815 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2396776 CAACATGCAA
2396786 AAATTAAAAT
1 AAATTAAAAT
2396796 AAATTAAAAT
1 AAATTAAAAT
*
2396806 AAAATAAAAT
1 AAATTAAAAT
2396816 GAAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:2397385 original size:109 final size:108
Alignment explanation
Indices: 2397145--2397374 Score: 250
Period size: 109 Copynumber: 2.1 Consensus size: 108
2397135 TAAATAGTCA
* * * * *
2397145 CTACATATGACCAAAATGAAAAAACACGCTAAACATAGGGGACTAAAAGGCAAATAACCTTAAAA
1 CTACATATGACTAACATGTAAAAACACGCTAAACATAGGGGACTAAAAAGCAAATAACCTAAAAA
* * *
2397210 GTATATAACAAATACAAAAGTGGGTAAATTATAGAAACAATCC
66 GTACAAAACAAACACAAAAGTGGGTAAATTATAGAAACAATCC
* * ** *
2397253 CTATATGTGACTAACATGTAAAAACACGCTAAAGTTAGGGGGACTAAAAAGCAATTCAA-CTAAA
1 CTACATATGACTAACATGTAAAAACACGCTAAACATA-GGGGACTAAAAAGCAAAT-AACCTAAA
* * **
2397317 AATTACAAAACATACACGAAAA-TGGGTAAATTATA-AAATCGGTCC
64 AAGTACAAAACAAACAC-AAAAGTGGGTAAATTATAGAAA-CAATCC
2397362 CTACATATGACTA
1 CTACATATGACTA
2397375 TTTTGTAAAA
Statistics
Matches: 99, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
108 33 0.33
109 60 0.61
110 6 0.06
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.21
Consensus pattern (108 bp):
CTACATATGACTAACATGTAAAAACACGCTAAACATAGGGGACTAAAAAGCAAATAACCTAAAAA
GTACAAAACAAACACAAAAGTGGGTAAATTATAGAAACAATCC
Found at i:2398325 original size:3 final size:3
Alignment explanation
Indices: 2398317--2398378 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
2398307 TGCACAAAGA
2398317 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2398365 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
2398379 AATGGGACAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2398757 original size:135 final size:137
Alignment explanation
Indices: 2398549--2399260 Score: 365
Period size: 132 Copynumber: 5.3 Consensus size: 137
2398539 ATCGAGAAAC
** * * *
2398549 GTTGATTTGTTCCACTATTCTTCAGGGAAGATTGAATCGAGGCAAACTTGTTCCAGTGTTTCTCA
1 GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCAGTGTTGCTCA
2398614 GGGAAGATC-AAATCTGGAAAGAAAGATG-GA-TCTGTTCCGCTGCTTCTTGAGGAAAAATCATA
66 GGGAAGATCAAAATCTGGAAAGAAAGA-GAGACT-TGTTCCGCTGCTTCTTGAGGAAAAATCATA
2398676 TATGAAAAT
129 TATGAAAAT
** * * * *
2398685 GTTG-TTTTTTCCATTGTTCTTCAGAGAATATTTAATCTAGGCAAACTTGTTCC-GT-TACTGCT
1 GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCAGTGT--TGCT
* * * * * * * *
2398747 CATGGTAGATCAAAATTTGGAAAGAAATAGAGACTTGTTTCGTTGTTTCTTGAGGGAAAATCATA
64 CAGGGAAGATCAAAATCTGGAAAGAAAGAGAGACTTGTTCCGCTGCTTCTTGAGGAAAAATCATA
* *
2398812 TCTGGAAAT
129 TATGAAAAT
* * * ** * * *
2398821 GTTGATTCATTCCACTGTTCTTCATG-GAAGATTGAAT-TATGGTAGACTCATTTCACTGTTCCT
1 GTTGATTCATTCCACTGTTCTTCA-GAGAAGATTGAATCGA-GGCAAACTTGTTCCAGTGTTGCT
* * * ** * *
2398884 CGGGGAAGATC-AAATCTGG-AA-AAAGAGGGATTTGTTCTACTGCTTCTTGAGGGAAAATCAGA
64 CAGGGAAGATCAAAATCTGGAAAGAAAGAGAGACTTGTTCCGCTGCTTCTTGAGGAAAAATCATA
* *** *
2398946 TTTGGGGAC
129 TATGAAAAT
* * * * * * * * * *
2398955 ATTGATTGATTCCACTATTCTTCAGGGAATATTGAATCAAGGCAGACATGTTCCA---CTACTCA
1 GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCAGTGTTGCTCA
* * * ** * * *
2399017 GGGAAGAT-AAAATCTGGAAAGAGAG-GGGATTTGTTCTACTGTTTCTTCAAGG-AAAATCAGAT
66 GGGAAGATCAAAATCTGGAAAGAAAGAGAGACTTGTTCCGCTGCTTCTT-GAGGAAAAATCATAT
* ** *
2399079 CTTG-GGAC
130 -ATGAAAAT
* * * * * * * * *
2399087 GTTGATTAATTACACTGTTCTTCGGGGAAGATTGAATCGA-TCTAGACTTGTTCCACTGCTACTC
1 GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAGGC-AAACTTGTTCCAGTGTTGCTC
* * * ** * ** * * *
2399151 AGGGAATAT-AAAATCTAGAAAG--AG-GGGTTTTGTTCCGTTATTTCTTCAGGGAAAATCAAAT
65 AGGGAAGATCAAAATCTGGAAAGAAAGAGAGACTTGTTCCGCTGCTTCTTGAGGAAAAATCATAT
* **
2399212 CT-AGGGAT
130 ATGA-AAAT
* * *
2399220 GTTGATTCATTCCACTGTTCTTAAGGGAAGATTAAATCGAG
1 GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAG
2399261 TTCGATTTCC
Statistics
Matches: 463, Mismatches: 88, Indels: 52
0.77 0.15 0.09
Matches are distributed among these distances:
131 21 0.05
132 85 0.18
133 77 0.17
134 80 0.17
135 84 0.18
136 67 0.14
137 46 0.10
138 2 0.00
139 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (137 bp):
GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCAGTGTTGCTCA
GGGAAGATCAAAATCTGGAAAGAAAGAGAGACTTGTTCCGCTGCTTCTTGAGGAAAAATCATATA
TGAAAAT
Found at i:2398823 original size:136 final size:136
Alignment explanation
Indices: 2398549--2399260 Score: 366
Period size: 135 Copynumber: 5.3 Consensus size: 136
2398539 ATCGAGAAAC
** * * *
2398549 GTTGATTTGTTCCACTATTCTTCAGGGAAGATTGAATCGAGGCAAACTTGTTCCAGTGTTTCTCA
1 GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCAGTGTTGCTCA
2398614 GGGAAGATCAAATCTGGAAAGAAAGATGGATCTGTTCCGCTGCTTCTTGAGGAAAAATCATATAT
66 GGGAAGATCAAATCTGGAAAGAAAGATGGATCTGTTCCGCTGCTTCTTGAGGAAAAATCATATAT
2398679 GAAAAT
131 GAAAAT
** * * * *
2398685 GTTG-TTTTTTCCATTGTTCTTCAGAGAATATTTAATCTAGGCAAACTTGTTCC-GT-TACTGCT
1 GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCAGTGT--TGCT
* * * * * * * *
2398747 CATGGTAGATCAAAATTTGGAAAGAAATA-GAGA-CTTGTTTCGTTGTTTCTTGAGGGAAAATCA
64 CAGGGAAGATC-AAATCTGGAAAGAAAGATG-GATC-TGTTCCGCTGCTTCTTGAGGAAAAATCA
* *
2398810 TATCTGGAAAT
126 TATATGAAAAT
* * * ** * * *
2398821 GTTGATTCATTCCACTGTTCTTCATG-GAAGATTGAAT-TATGGTAGACTCATTTCACTGTTCCT
1 GTTGATTCATTCCACTGTTCTTCA-GAGAAGATTGAATCGA-GGCAAACTTGTTCCAGTGTTGCT
* * * ** * *
2398884 CGGGGAAGATCAAATCTGG-AA-AAAGAGGGATTTGTTCTACTGCTTCTTGAGGGAAAATCAGAT
64 CAGGGAAGATCAAATCTGGAAAGAAAGATGGATCTGTTCCGCTGCTTCTTGAGGAAAAATCATAT
* *** *
2398947 TTGGGGAC
129 ATGAAAAT
* * * * * * * * * *
2398955 ATTGATTGATTCCACTATTCTTCAGGGAATATTGAATCAAGGCAGACATGTTCCA---CTACTCA
1 GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCAGTGTTGCTCA
* * * * ** * * *
2399017 GGGAAGATAAAATCTGGAAAGAGAG-GGGATTTGTTCTACTGTTTCTTCAAGG-AAAATCAGATC
66 GGGAAGATCAAATCTGGAAAGAAAGATGGATCTGTTCCGCTGCTTCTT-GAGGAAAAATCATAT-
* ** *
2399080 TTG-GGAC
129 ATGAAAAT
* * * * * * * * *
2399087 GTTGATTAATTACACTGTTCTTCGGGGAAGATTGAATCGA-TCTAGACTTGTTCCACTGCTACTC
1 GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAGGC-AAACTTGTTCCAGTGTTGCTC
* * * * * * * ** * * * *
2399151 AGGGAATATAAAATCTAGAAAG--AG-GGGTTTTGTTCCGTTATTTCTTCAGGGAAAATCAAATC
65 AGGGAAGATCAAATCTGGAAAGAAAGATGGATCTGTTCCGCTGCTTCTTGAGGAAAAATCATATA
**
2399213 T-AGGGAT
130 TGA-AAAT
* * *
2399220 GTTGATTCATTCCACTGTTCTTAAGGGAAGATTAAATCGAG
1 GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAG
2399261 TTCGATTTCC
Statistics
Matches: 462, Mismatches: 88, Indels: 54
0.76 0.15 0.09
Matches are distributed among these distances:
131 21 0.05
132 85 0.18
133 77 0.17
134 78 0.17
135 86 0.19
136 67 0.15
137 45 0.10
138 2 0.00
139 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (136 bp):
GTTGATTCATTCCACTGTTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCAGTGTTGCTCA
GGGAAGATCAAATCTGGAAAGAAAGATGGATCTGTTCCGCTGCTTCTTGAGGAAAAATCATATAT
GAAAAT
Found at i:2399224 original size:133 final size:132
Alignment explanation
Indices: 2398790--2399259 Score: 455
Period size: 132 Copynumber: 3.5 Consensus size: 132
2398780 CTTGTTTCGT
* * * * *
2398790 TGTTTCTTGAGGGAAAATCATATCTGGAAATGTTGATTCATTCCACTGTTCTTCATGGAAGATTG
1 TGTTTCTTCAGGGAAAATCAGATCTGG-GACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTG
* * ** * * * * * *
2398855 AAT-TATGGTAGACTCATTTCACTGTTCCTCGGGGAAGATCAAATCTGGAAAAAGAGGGATTTGT
65 AATCGAT-CTAGACTTGTTCCACTGCTACTCAGGGAAGATAAAATCTGGAAAGAG-GGGATTTGT
*
2398919 TCTAC
128 TCCAC
* * * * * * *
2398924 TGCTTCTTGAGGGAAAATCAGATTTGGGGACATTGATTGATTCCACTATTCTTCAGGGAATATTG
1 TGTTTCTTCAGGGAAAATCAGATCT-GGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTG
* * *
2398989 AATCAAGGC-AGACATGTTCCA---CTACTCAGGGAAGATAAAATCTGGAAAGAGAGGGGATTTG
65 AATCGA-TCTAGACTTGTTCCACTGCTACTCAGGGAAGATAAAATCTGG-AA-AGAGGGGATTTG
*
2399050 TTCTAC
127 TTCCAC
* * * *
2399056 TGTTTCTTCAAGGAAAATCAGATCTTGGGACGTTGATTAATTACACTGTTCTTCGGGGAAGATTG
1 TGTTTCTTCAGGGAAAATCAGATC-TGGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTG
* * *
2399121 AATCGATCTAGACTTGTTCCACTGCTACTCAGGGAATATAAAATCTAGAAAGAGGGGTTTTGTTC
65 AATCGATCTAGACTTGTTCCACTGCTACTCAGGGAAGATAAAATCTGGAAAGAGGGGATTTGTTC
**
2399186 CGT
130 CAC
* * * * *
2399189 TATTTCTTCAGGGAAAATCAAATCTAGGGATGTTGATTCATTCCACTGTTCTTAAGGGAAGATTA
1 TGTTTCTTCAGGGAAAATCAGATCT-GGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTG
2399254 AATCGA
65 AATCGA
2399260 GTTCGATTTC
Statistics
Matches: 275, Mismatches: 50, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
131 21 0.08
132 86 0.31
133 78 0.28
134 65 0.24
135 25 0.09
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (132 bp):
TGTTTCTTCAGGGAAAATCAGATCTGGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGA
ATCGATCTAGACTTGTTCCACTGCTACTCAGGGAAGATAAAATCTGGAAAGAGGGGATTTGTTCC
AC
Found at i:2400766 original size:130 final size:131
Alignment explanation
Indices: 2400442--2400792 Score: 438
Period size: 131 Copynumber: 2.7 Consensus size: 131
2400432 AATAAAAATG
* * * *
2400442 TCTAATTATTTCCAATCGAGAGTAAATGACCTTTCATGCCTTAAAATAGTCCTTTATTACCCCAA
1 TCTAATTATTTCCAATCGAGAATAAATGACCTTTCATGCCTTAAAGTAGTCATTTATTACTCCAA
* * * ** * *
2400507 TTGAAATAAAGAGATGTCACTATTTCAACTTAAAATTCAATATTGATTCGAGTGAAAACGATAAT
66 TCGAAATAAAGAGATATCACTATTTCAACTTAAAAATCAATATTGACCCCAGTAAAAACGATAAT
2400572 A
131 A
* *
2400573 TCTAATGATTTCCAATAGAGAATAAATGACCTTTCATGCCTTAAAGTAGTCATTTATTACTCCAA
1 TCTAATTATTTCCAATCGAGAATAAATGACCTTTCATGCCTTAAAGTAGTCATTTATTACTCCAA
* * *
2400638 TCGAAATAAAGAGATATCACTATTTCATCTTAAAAATCAATATTGACCCCAG-AAAAATGGTAAT
66 TCGAAATAAAGAGATATCACTATTTCAACTTAAAAATCAATATTGACCCCAGTAAAAACGATAAT
2400702 A
131 A
* * * * * *
2400703 TTTGATTATTTCCAATCGAGAATAAATAACCTCTT-ATGTCTTAAAGTAGTAATTTATTTCTCCA
1 TCTAATTATTTCCAATCGAGAATAAATGACCT-TTCATGCCTTAAAGTAGTCATTTATTACTCCA
* * *
2400767 ATCTAAACT-AGGAGATATTACTATTT
65 ATCGAAA-TAAAGAGATATCACTATTT
2400793 TCAATATCGA
Statistics
Matches: 191, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
130 84 0.44
131 107 0.56
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (131 bp):
TCTAATTATTTCCAATCGAGAATAAATGACCTTTCATGCCTTAAAGTAGTCATTTATTACTCCAA
TCGAAATAAAGAGATATCACTATTTCAACTTAAAAATCAATATTGACCCCAGTAAAAACGATAAT
A
Found at i:2403072 original size:136 final size:135
Alignment explanation
Indices: 2402846--2403532 Score: 718
Period size: 134 Copynumber: 5.1 Consensus size: 135
2402836 ATCAGATCAA
* *
2402846 GAAATGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATTGAGGCAAACTTGTTCCACTGCT
1 GAAATGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGCT
* * * *
2402911 GCTCAGGGAAGATCAAATCTAGAAAGAGAAAGGGATTTGTTCCGTTTCTTCTTGAGGGAAAAACA
66 ACTCAGGGAAGATCAAATCTGGAAAGAGAAAGGGATCTGTTCCGTTT-TTCTTGAGGGAAAATCA
*
2402976 AATATG
130 GATATG
* * * * ** * *
2402982 AAAATGTTGATTCATTCTATTGTTCTTTAGGGAAGATTGAATCTATACAAACTTGTTCCACTGTT
1 GAAATGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGCT
* * * * * *
2403047 GCTCAGGGAAGATCAAATCTGGAAAGAAAAAGGGATATGTTCCAATGTTTCTTGAGAGAAAATCA
66 ACTCAGGGAAGATCAAATCTGGAAAGAGAAAGGGATCTGTTCC-GTTTTTCTTGAGGGAAAATCA
* *
2403112 GATCTT
130 GATATG
* ** **
2403118 GAAATGTTGATTCATTCCACTGTTCTTCATAGAAGATTGAATCGAGGCAGACTTGTTCCACTATT
1 GAAATGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGCT
* * * * ** * *
2403183 CCTTAGGGAAGATCAAATCTGGAAA-A-AGAGGGATCTATTCCGCTACTTCTTAAGGGAAAATTA
66 ACTCAGGGAAGATCAAATCTGGAAAGAGAAAGGGATCTGTTCCG-TTTTTCTTGAGGGAAAATCA
2403246 GATATG
130 GATATG
** * * * *
2403252 GGTACGTTGATTTATTCAACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCATTGCT
1 GAAATGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGCT
* * * * * * **
2403317 ACTCAGGGAAGATTAAATCTGGAAAGAG-AGGGGATCTGTTCTGTTGTTTTTTTAGGG-AATTTT
66 ACTCAGGGAAGATCAAATCTGGAAAGAGAAAGGGATCTGTTCCGTT-TTTCTTGAGGGAAAATCA
*
2403380 GATTTG
130 GATATG
** *
2403386 GGGACGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGCT
1 GAAATGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGCT
* * * * * * *
2403451 ACTCAGGGAATATCAAATCTGGAAAGA-CAGGGGATCTATTCTGTTGTTTCATCAGGGAAAATCA
66 ACTCAGGGAAGATCAAATCTGGAAAGAGAAAGGGATCTGTTCCGTT-TTTCTTGAGGGAAAATCA
*
2403515 AATATG
130 GATATG
* *
2403521 GAGACGTTGATT
1 GAAATGTTGATT
2403533 GTTTCCAATG
Statistics
Matches: 462, Mismatches: 82, Indels: 15
0.83 0.15 0.03
Matches are distributed among these distances:
134 229 0.50
135 39 0.08
136 192 0.42
137 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (135 bp):
GAAATGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGCT
ACTCAGGGAAGATCAAATCTGGAAAGAGAAAGGGATCTGTTCCGTTTTTCTTGAGGGAAAATCAG
ATATG
Found at i:2404839 original size:18 final size:18
Alignment explanation
Indices: 2404818--2404852 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2404808 TTTTATATAT
2404818 TCTT-TTTATTTCTTTTTC
1 TCTTCTTTATTT-TTTTTC
2404836 TCTTCTTTATTTTTTTT
1 TCTTCTTTATTTTTTTT
2404853 TAATTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (18 bp):
TCTTCTTTATTTTTTTTC
Found at i:2404912 original size:22 final size:22
Alignment explanation
Indices: 2404832--2404912 Score: 59
Period size: 22 Copynumber: 3.8 Consensus size: 22
2404822 TTTATTTCTT
2404832 TTTCTCTTCTTTATTTTTTTT-
1 TTTCTCTTCTTTATTTTTTTTC
*
2404853 TAATT-T-TTCATTCATTTTTTCTT-
1 T--TTCTCTTC-TTTATTTTTT-TTC
2404876 TTTCT-TT-TTTATTTTTTTTC
1 TTTCTCTTCTTTATTTTTTTTC
2404896 TTTCTCTATCTTT-TTTT
1 TTTCTCT-TCTTTATTTT
2404913 CTTCAGAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
19 2 0.04
20 14 0.29
21 7 0.14
22 18 0.37
23 8 0.16
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCTCTTCTTTATTTTTTTTC
Found at i:2408400 original size:2 final size:2
Alignment explanation
Indices: 2408393--2408452 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
2408383 CGAACGAGAT
2408393 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2408435 TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA
2408453 CACACAAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2414651 original size:16 final size:16
Alignment explanation
Indices: 2414630--2414666 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2414620 ATCCTAACCT
*
2414630 CATGCCATCTAGTTCG
1 CATGCCATCTAGTTCA
*
2414646 CATGCCATGTAGTTCA
1 CATGCCATCTAGTTCA
2414662 CATGC
1 CATGC
2414667 TTGTTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (16 bp):
CATGCCATCTAGTTCA
Found at i:2416144 original size:131 final size:130
Alignment explanation
Indices: 2415923--2416291 Score: 468
Period size: 131 Copynumber: 2.8 Consensus size: 130
2415913 TAATATTAAG
* * * *
2415923 AGAGAAAATGATAATATCTAATTATTTCCAATCGAGAGTAAATGACTTTTTATGCCTTAAAACAG
1 AGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGAC-TCTCATGCCTTAAAGCAG
* * * * * *
2415988 TCCTTTATTACCCCAATTGTAATGAAGAGATATCACTATTTTGTCTTAAAATTAAATATTAATTC
65 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTTGTCTTAAAAATAAATATTAACTC
2416053 A
130 A
* * * *
2416054 AGTGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGATCTCTCATGCCTTAAAGTAG
1 AGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGA-CTCTCATGCCTTAAAGCAG
* * * * *
2416119 TCATTTATCACTCCAATCGAAATGAAGAGATACCACTATTCTGTCTTAAAAATCAATATTGACTC
65 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTTGTCTTAAAAATAAATATTAACTC
2416184 A
130 A
* * *
2416185 AGAGAAAATGGTAATATCTGATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTAAAGCAG
1 AGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGA-CTCTCATGCCTTAAAGCAG
* ** * *
2416250 TTATTTATTACTCCAATCGAACCGAGGAGATATTACTATTTT
65 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTT
2416292 CAATATTGAT
Statistics
Matches: 202, Mismatches: 35, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
131 201 1.00
132 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (130 bp):
AGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACTCTCATGCCTTAAAGCAGT
CATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTTGTCTTAAAAATAAATATTAACTCA
Found at i:2418494 original size:18 final size:18
Alignment explanation
Indices: 2418456--2418495 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2418446 TTCCATTACC
* *
2418456 TTTGGTATCGGTACCCCT
1 TTTGGTACCGGTACCACT
*
2418474 TTTGGTACCGGTACCATT
1 TTTGGTACCGGTACCACT
2418492 TTTG
1 TTTG
2418496 CATTCTGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (18 bp):
TTTGGTACCGGTACCACT
Found at i:2418602 original size:107 final size:107
Alignment explanation
Indices: 2418416--2418678 Score: 350
Period size: 107 Copynumber: 2.5 Consensus size: 107
2418406 ACCAAAGCTT
* ** *
2418416 GTATCGATACTACCTTGTGAGTATCAATACTTCC-ATTACCTTTGGTATCGGTACCCCTTTTGGT
1 GTATCGATACTACCTTGTGAGTATCGATACTTCCGA-TACCTTTGGTATCAATACCACTTTTGGT
*
2418480 ACCGGTACCATTTTTGCATTCTGGAATTTGAACAATATTGGTA
65 ACCAGTACCATTTTTGCATTCTGGAATTTGAACAATATTGGTA
* * *
2418523 GTATCGATACTACCTTGTGAGTATTGATACTTCCGATACTTTTGGTATCAATATCAC-TTTGGAT
1 GTATCGATACTACCTTGTGAGTATCGATACTTCCGATACCTTTGGTATCAATACCACTTTTGG-T
* * * * *
2418587 ATCAGTACTATTTTTGTATTCTGGAATTTGAGCAATGTTGGTA
65 ACCAGTACCATTTTTGCATTCTGGAATTTGAACAATATTGGTA
* * *
2418630 GTATCAATACTACCTTGTGAGTATCGATACTTCTGATACCTTTAGTATC
1 GTATCGATACTACCTTGTGAGTATCGATACTTCCGATACCTTTGGTATC
2418679 GGTACCATAT
Statistics
Matches: 136, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
106 5 0.04
107 130 0.96
108 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (107 bp):
GTATCGATACTACCTTGTGAGTATCGATACTTCCGATACCTTTGGTATCAATACCACTTTTGGTA
CCAGTACCATTTTTGCATTCTGGAATTTGAACAATATTGGTA
Found at i:2421004 original size:3 final size:3
Alignment explanation
Indices: 2420996--2421043 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
2420986 GGCATGCACA
2420996 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2421044 GGGACGAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2421325 original size:21 final size:21
Alignment explanation
Indices: 2421301--2421340 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2421291 ACTACATGGG
*
2421301 TTAAAATTTAAACCTTAAATC
1 TTAAAATTTAAAACTTAAATC
*
2421322 TTAAATTTTAAAACTTAAA
1 TTAAAATTTAAAACTTAAA
2421341 ATCCTCCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAATTTAAAACTTAAATC
Found at i:2424066 original size:2 final size:2
Alignment explanation
Indices: 2424061--2424098 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2424051 AAAAAAATTA
2424061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2424099 TACTTTTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2425603 original size:22 final size:22
Alignment explanation
Indices: 2425574--2425622 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
2425564 ATTTATATCC
* *
2425574 TTAAAATTTTATAAGTTCATCT
1 TTAAATTTTTATAAATTCATCT
2425596 ATTAAATTTTTATAAATTCATCT
1 -TTAAATTTTTATAAATTCATCT
2425619 TTAA
1 TTAA
2425623 GCGTAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAAATTTTTATAAATTCATCT
Found at i:2430161 original size:20 final size:20
Alignment explanation
Indices: 2430136--2430430 Score: 188
Period size: 20 Copynumber: 14.7 Consensus size: 20
2430126 GATTTTCCAG
*
2430136 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
2430156 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* *
2430176 AATCGCAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * *
2430196 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * *
2430217 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
**
2430237 AATCGCAACGATAATACGTAA
1 AATCGCAACGCGAATACG-AA
* * *
2430258 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
2430278 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
2430298 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* *
2430318 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * * *
2430338 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
2430358 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
2430379 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
*
2430399 AATCGTAACGC-AAT-CGATA
1 AATCGCAACGCGAATACGA-A
*
2430418 ATTCGCAACGCGA
1 AATCGCAACGCGA
2430431 TCTCCGGTAC
Statistics
Matches: 216, Mismatches: 46, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
18 2 0.01
19 15 0.07
20 146 0.68
21 53 0.25
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:2430228 original size:41 final size:41
Alignment explanation
Indices: 2430197--2430408 Score: 347
Period size: 41 Copynumber: 5.2 Consensus size: 41
2430187 GATTCTGACT
* *
2430197 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
2430238 ATCGCAACGATAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
2430279 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
2430319 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
2430359 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
2430400 ATCGTAACG
1 ATCGCAACG
2430409 CAATCGATAA
Statistics
Matches: 160, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 76 0.47
41 84 0.52
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:2430312 original size:40 final size:40
Alignment explanation
Indices: 2430136--2430429 Score: 335
Period size: 40 Copynumber: 7.3 Consensus size: 40
2430126 GATTTTCCAG
* ** * * * **
2430136 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * * *
2430176 AATCGCAACGCG-ATTC-TGACTATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGTATCCGT-A-AATCGCAACGAGAATACGT-A
*
2430217 AATCGCAACGCGTATCCGTAAATCGCAACGATAATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT-A
2430258 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
*
2430298 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* *
2430338 AATCGCAATGCGTATCCGTAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT-A
* *
2430379 AATCGCAACGCGTATCCGTAAATCGTAACG-CAAT-CGATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACG-TA
*
2430418 ATTCGCAACGCG
1 AATCGCAACGCG
2430430 ATCTCCGGTA
Statistics
Matches: 224, Mismatches: 23, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
39 17 0.08
40 105 0.47
41 97 0.43
42 4 0.02
43 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
Found at i:2430511 original size:21 final size:21
Alignment explanation
Indices: 2430479--2430566 Score: 140
Period size: 21 Copynumber: 4.2 Consensus size: 21
2430469 GATTCTGACA
*
2430479 TCGCATTGCGATTTCCCAAAT
1 TCGCGTTGCGATTTCCCAAAT
*
2430500 TCGCGTTACGATTTCCCAAAT
1 TCGCGTTGCGATTTCCCAAAT
2430521 TCGCGTTGCGATTTCCCAAAT
1 TCGCGTTGCGATTTCCCAAAT
* *
2430542 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTCCCAAAT
2430563 TCGC
1 TCGC
2430567 AACGCGATTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATTTCCCAAAT
Found at i:2430588 original size:20 final size:20
Alignment explanation
Indices: 2430563--2430655 Score: 143
Period size: 20 Copynumber: 4.7 Consensus size: 20
2430553 TTTTCCTAAT
2430563 TCGCAACGCGATTACGTAAA
1 TCGCAACGCGATTACGTAAA
2430583 TCGCAACGCGATTACGTAAA
1 TCGCAACGCGATTACGTAAA
*
2430603 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGATTACGTAAA
*
2430623 TCGCAACGCGAAT-CTGTAAA
1 TCGCAACGCGATTAC-GTAAA
*
2430643 TCGCAACGAGATT
1 TCGCAACGCGATT
2430656 CTAACTATCG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 1 0.01
20 68 0.99
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGATTACGTAAA
Found at i:2431016 original size:20 final size:18
Alignment explanation
Indices: 2430991--2431084 Score: 107
Period size: 20 Copynumber: 4.8 Consensus size: 18
2430981 GACATTCATT
2430991 TGACTATCGCAACGTGAATA
1 TGACTATCGCAACG-GAA-A
2431011 TGACTATCGCAACACGGAAA
1 TGACTATCGC-A-ACGGAAA
*
2431031 TGACTATCGCAATGCGGAAT
1 TGACTATCGCAA--CGGAAA
2431051 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAA--CGGAAA
2431071 TGACTATCGCAACG
1 TGACTATCGCAACG
2431085 AGAGAATCGC
Statistics
Matches: 67, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
18 3 0.04
19 1 0.01
20 56 0.84
21 4 0.06
22 3 0.04
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (18 bp):
TGACTATCGCAACGGAAA
Found at i:2431055 original size:40 final size:40
Alignment explanation
Indices: 2430991--2431084 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
2430981 GACATTCATT
2430991 TGACTATCGCAACGTGAATATGACTATCGCAACACGGAAA
1 TGACTATCGCAACGTGAATATGACTATCGCAACACGGAAA
*
2431031 TGACTATCGCAATGCG-GAAT-TGACTATCGCAACGCGGAAA
1 TGACTATCGCAA--CGTGAATATGACTATCGCAACACGGAAA
2431071 TGACTATCGCAACG
1 TGACTATCGCAACG
2431085 AGAGAATCGC
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
38 2 0.04
40 43 0.84
41 4 0.08
42 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (40 bp):
TGACTATCGCAACGTGAATATGACTATCGCAACACGGAAA
Found at i:2431106 original size:33 final size:33
Alignment explanation
Indices: 2431056--2431151 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
2431046 GGAATTGACT
* **
2431056 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
2431090 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
2431123 ATCGCAATGAGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
2431152 CGAAATTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2431228 original size:33 final size:33
Alignment explanation
Indices: 2431161--2431241 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
2431151 GCGAAATTAG
* **
2431161 TTTCGCATTGCGATTCACTCGTTGCGCTTTTCA
1 TTTCGCATTGCGATTCACTCGTTGCGATAGTCA
*
2431194 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 TTTCGCATTGCGATTCACTCGTTGCGATAGTCA
*
2431227 TTTCCGCGTTGCGAT
1 TTT-CGCATTGCGAT
2431242 AGTCTGTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 32 0.76
34 10 0.24
ACGTcount: A:0.12, C:0.26, G:0.21, T:0.41
Consensus pattern (33 bp):
TTTCGCATTGCGATTCACTCGTTGCGATAGTCA
Found at i:2431362 original size:14 final size:14
Alignment explanation
Indices: 2431343--2431379 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2431333 CATAAATTAA
2431343 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
2431357 ACAAATCATCTTTT
1 ACAAATCAACATTT
2431371 ACAAATCAA
1 ACAAATCAA
2431380 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:2432829 original size:42 final size:42
Alignment explanation
Indices: 2432750--2432840 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
2432740 CCTCTTCAAC
* * *
2432750 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
2432792 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
2432834 GATGACA
1 GATGACA
2432841 TGTGAACCGG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 37 0.93
43 3 0.08
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:2433344 original size:20 final size:20
Alignment explanation
Indices: 2433319--2433405 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
2433309 GAAACTTAAA
* *
2433319 ATCGCAACGCAAAAATGACT
1 ATCGCAATGCGAAAATGACT
2433339 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
2433359 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
2433379 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
2433399 ATCGCAA
1 ATCGCAA
2433406 CGAGAGAATC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:2433462 original size:19 final size:19
Alignment explanation
Indices: 2433440--2433483 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
2433430 AAATCGCAAC
2433440 GCGATTATAGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
* *
2433459 GCGATTTTGGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
2433478 GCGATT
1 GCGATT
2433484 TTGTCGTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.30, T:0.43
Consensus pattern (19 bp):
GCGATTATAGTTTCGCGTT
Found at i:2433484 original size:19 final size:19
Alignment explanation
Indices: 2433449--2433516 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
2433439 CGCGATTATA
2433449 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
2433468 GTTTCGCGTTGCGATTTT-
1 GTTTCGCGTTGCGATTTTG
2433486 G--T--CGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
*
2433501 GTTTCACGTTGCGATT
1 GTTTCGCGTTGCGATT
2433517 CTCTCGTTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 12 0.27
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 28 0.64
ACGTcount: A:0.07, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:2433493 original size:14 final size:14
Alignment explanation
Indices: 2433474--2433532 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
2433464 TTTGGTTTCG
2433474 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
2433488 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
* *
2433505 CACGTTGCGATTCTCT
1 --CGTTGCGATTTTGT
2433521 CGTTGCGATTTT
1 CGTTGCGATTTT
2433533 CATTTCTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 23 0.62
15 1 0.03
16 1 0.03
17 1 0.03
19 11 0.30
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2433497 original size:33 final size:33
Alignment explanation
Indices: 2433455--2433579 Score: 146
Period size: 33 Copynumber: 3.8 Consensus size: 33
2433445 TATAGTTTCG
* * *
2433455 CGTTGCGATTTTGGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTGGTTTCACGTTGCGATTCTCT
2433488 CGTTGCGATTTTGGTTTCACGTTGCGATTCTCT
1 CGTTGCGATTTTGGTTTCACGTTGCGATTCTCT
** * * *
2433521 CGTTGCGATTTTCATTTCTCATTGCGATTCACT
1 CGTTGCGATTTTGGTTTCACGTTGCGATTCTCT
**
2433554 CGTTGCGA--TTCATTTCACGTTGCGAT
1 CGTTGCGATTTTGGTTTCACGTTGCGAT
2433580 AGTCATTTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
31 16 0.20
33 66 0.80
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTGGTTTCACGTTGCGATTCTCT
Found at i:2433561 original size:14 final size:14
Alignment explanation
Indices: 2433507--2433565 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
2433497 TTTGGTTTCA
*
2433507 CGTTGCGATTCTCT
1 CGTTGCGATTCACT
2433521 CGTTGCGATTTTCATTTCT
1 CGTTGCGA--TTCA---CT
*
2433540 CATTGCGATTCACT
1 CGTTGCGATTCACT
2433554 CGTTGCGATTCA
1 CGTTGCGATTCA
2433566 TTTCACGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 21 0.57
16 3 0.08
17 4 0.11
19 9 0.24
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCACT
Found at i:2433813 original size:94 final size:94
Alignment explanation
Indices: 2433667--2434046 Score: 647
Period size: 94 Copynumber: 4.1 Consensus size: 94
2433657 ATGGATTGCA
* *
2433667 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
2433731 TTAACAGAATTGGCAGCAATCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
2433760 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
2433825 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
2433854 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACACT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
2433919 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
2433948 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
2434012 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
2434042 TTACT
1 TTACT
2434047 AAGCAATCTA
Statistics
Matches: 273, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
93 23 0.08
94 250 0.92
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:2435751 original size:20 final size:20
Alignment explanation
Indices: 2435728--2435783 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
2435718 TGAAATGAAA
2435728 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
2435748 ATCGCAATGCG-GA-AATGACT
1 ATCGCAA--CGAGAGAATGACT
2435768 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
2435784 CGCAACGCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 24 0.75
21 2 0.06
22 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:2435843 original size:14 final size:14
Alignment explanation
Indices: 2435824--2435880 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2435814 TTTGGTTTCG
2435824 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
2435838 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
2435857 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
2435871 CGTTGCGATT
1 CGTTGCGATT
2435881 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:2435856 original size:33 final size:33
Alignment explanation
Indices: 2435808--2435888 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
2435798 AAAATCGCAA
**
2435808 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
2435841 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
2435874 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
2435889 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:2435891 original size:21 final size:20
Alignment explanation
Indices: 2435872--2435943 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
2435862 CGATTCTCTC
2435872 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
2435892 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
2435913 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
2435933 GTTGCGATTTT
1 GTTGCGATTTT
2435944 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:2436526 original size:20 final size:20
Alignment explanation
Indices: 2436501--2436673 Score: 179
Period size: 20 Copynumber: 8.6 Consensus size: 20
2436491 CTTTAAAAAT
2436501 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2436521 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* * *
2436541 TGTCGTTGCGATTTACGTATT
1 CG-CGTTGCGATTTACGGATA
* *
2436562 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* * *
2436582 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
2436602 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2436622 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
2436642 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
2436663 CTCGTTGCGAT
1 CGCGTTGCGAT
2436674 AGTCAGAATC
Statistics
Matches: 125, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
20 93 0.74
21 32 0.26
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Done.