Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008314.1 Hibiscus syriacus cultivar Beakdansim tig00111008_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: 2414839
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 10
Found at i:2144908 original size:15 final size:15
Alignment explanation
Indices: 2144888--2144917 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2144878 TATCACAATC
2144888 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
2144903 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
2144918 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:2151202 original size:16 final size:15
Alignment explanation
Indices: 2151131--2151214 Score: 61
Period size: 15 Copynumber: 5.7 Consensus size: 15
2151121 AGAGGTCATT
2151131 TTTAT-TTTTAATCTA
1 TTTATATTTTAAT-TA
*
2151146 TTT-TATTTTAGTTA
1 TTTATATTTTAATTA
* **
2151160 -TTAT-TTTAAAAAA
1 TTTATATTTTAATTA
*
2151173 TTTATATATTAATTA
1 TTTATATTTTAATTA
2151188 TTTATATTTTCAATT-
1 TTTATATTTT-AATTA
2151203 TATTATATTTTA
1 T-TTATATTTTA
2151215 TTTAATAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
13 7 0.13
14 8 0.15
15 25 0.47
16 13 0.25
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (15 bp):
TTTATATTTTAATTA
Found at i:2151310 original size:25 final size:24
Alignment explanation
Indices: 2151282--2151366 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 24
2151272 AAATTGATCT
2151282 CTTAATTTAATAAAATTCTTTATCC
1 CTTAATTTAA-AAAATTCTTTATCC
** * *
2151307 CTT-A-TTAAAAAGGTATTTGATCT
1 CTTAATTTAAAAAATTCTTT-ATCC
*
2151330 CTTAATTTTAAAAGATTCTTTATCC
1 CTTAA-TTTAAAAAATTCTTTATCC
2151355 CTT-A-TTAAAAAA
1 CTTAATTTAAAAAA
2151367 GTCTCTTGAC
Statistics
Matches: 46, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
22 14 0.30
23 10 0.22
24 3 0.07
25 9 0.20
26 10 0.22
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.45
Consensus pattern (24 bp):
CTTAATTTAAAAAATTCTTTATCC
Found at i:2151671 original size:87 final size:86
Alignment explanation
Indices: 2151521--2151687 Score: 280
Period size: 87 Copynumber: 1.9 Consensus size: 86
2151511 CGGTTATGTT
*
2151521 ATATTATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACTCTTATATAATGTAAT
1 ATATTATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAAT
2151586 AGATAGCACTTATATAATAAA
66 AGATAGCACTTATATAATAAA
* *
2151607 ATATGTATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAA
1 ATAT-TATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAA
* *
2151672 TAGGTAGCGCTTATAT
65 TAGATAGCACTTATAT
2151688 TGACCTATTT
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 4 0.05
87 71 0.95
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (86 bp):
ATATTATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAAT
AGATAGCACTTATATAATAAA
Found at i:2152130 original size:182 final size:182
Alignment explanation
Indices: 2151823--2153025 Score: 2094
Period size: 182 Copynumber: 6.6 Consensus size: 182
2151813 TGCGTTCACC
** * *
2151823 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
2151888 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
*
2151952 ATACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
2152005 TTTTGTCATTTCGAGACCGATTTTGTCATATTGTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
2152070 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* *
2152135 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCACTTTACATG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
2152187 TTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACATGTTATATTGTTATGGATCGGTACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
2152252 TTTATCAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
2152317 TACTTATAATAAATTATCGTCACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
2152369 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
2152434 TTTATAAAGTATCGACACGTTATTGACGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
2152496 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
2152549 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
2152614 TTTATAAAGTATCGACACTTTATTGGCGTTATAAC-TCTTCTCTTCTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* * * *
2152678 TACGTATAATAAATTATCTACACTTTCAACATAACCAGTAGCGCTTTACCTA
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
2152730 TTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
2152795 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
2152860 TACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
2152912 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
2152977 TTTATAAAGTATCGACACTTTATTGGCGATATAAC-TCTTCTCTTTTAAA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAA
2153026 AAAAGTAAAA
Statistics
Matches: 970, Mismatches: 45, Indels: 13
0.94 0.04 0.01
Matches are distributed among these distances:
178 1 0.00
179 19 0.02
180 152 0.16
181 165 0.17
182 631 0.65
183 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:2152853 original size:543 final size:545
Alignment explanation
Indices: 2151823--2153024 Score: 2133
Period size: 543 Copynumber: 2.2 Consensus size: 545
2151813 TGCGTTCACC
** * *
2151823 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
2151888 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAG-GTCGA
*
2151953 TACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCG
130 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
*
2152018 AGACCGATTTTGTCATATTGTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
195 AGACCGATTTTGTCATATTGTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
* *
2152083 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAA
260 GACACTTTATTGGCGCTATAACTTCTTCTCTTCTAAATTCCAAAAGTGTCGATACGTATAATAAA
* *
2152148 TTATCGACACTTTCAACATAACCGGTAGCACTTTACATGTTTTGTCATTTCGAGACCGGTTTTGT
325 TTATCGACACTTTCAACATAACCAGTAGCACTTTACATATTTTGTCATTTCGAGACCGGTTTTGT
* *
2152213 CATATTATTACATGTTATATTGTTATGGATCGGTACATTTTTATCAAGTATCGACACTTTATTGG
390 CATATTATTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGG
*
2152278 CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGTCACTTT
455 CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTT
2152343 CAACATAACCGGTAGCGCTTTACCTG
520 CAACATAACCGGTAGCGCTTTACCTG
2152369 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
2152434 TTTATAAAGTATCGACACGTTATTGACGCTATAACTTCTTCTCTTATTAATTCCAAAA-GTCGAT
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGGTCGAT
2152498 ACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
131 ACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
*
2152563 GACCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
196 GACCGATTTTGTCATATTGTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
*
2152628 ACACTTTATTGGCGTTATAAC-TCTTCTCTTCTAAATTCCAAAAGTGTCGATACGTATAATAAAT
261 ACACTTTATTGGCGCTATAACTTCTTCTCTTCTAAATTCCAAAAGTGTCGATACGTATAATAAAT
* * * *
2152692 TATCTACACTTTCAACATAACCAGTAGCGCTTTACCTATTTTGTCATTTTGAGACCGGTTTTGTC
326 TATCGACACTTTCAACATAACCAGTAGCACTTTACATATTTTGTCATTTCGAGACCGGTTTTGTC
* *
2152757 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGC
391 ATATTATTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGC
2152822 GCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTC
456 GCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTC
*
2152887 AACATATCCGGTAGCGCTTTACCTG
521 AACATAACCGGTAGCGCTTTACCTG
*
2152912 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
2152977 TTTATAAAGTATCGACACTTTATTGGCGATATAAC-TCTTCTCTT-TTAA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAA
2153025 AAAAAGTAAA
Statistics
Matches: 628, Mismatches: 28, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
541 4 0.01
542 9 0.01
543 345 0.55
544 153 0.24
546 117 0.19
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (545 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGGTCGAT
ACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
GACCGATTTTGTCATATTGTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
ACACTTTATTGGCGCTATAACTTCTTCTCTTCTAAATTCCAAAAGTGTCGATACGTATAATAAAT
TATCGACACTTTCAACATAACCAGTAGCACTTTACATATTTTGTCATTTCGAGACCGGTTTTGTC
ATATTATTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGC
GCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTC
AACATAACCGGTAGCGCTTTACCTG
Found at i:2156037 original size:184 final size:184
Alignment explanation
Indices: 2155720--2156068 Score: 637
Period size: 184 Copynumber: 1.9 Consensus size: 184
2155710 ACGTTACTTA
*
2155720 AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACTTATTCTCTCATAAAACCGG
1 AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
* *
2155785 TATATTTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTGTGGGTTCCGATGTTTTT
66 TATATCTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
2155850 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
*
2155904 AAAGTA-GCGACACAATATTAAAAAGTGTCGATATAGGTTGTATACCTATTCTCTCATAAAACCG
1 AAAGTATG-GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCG
*
2155968 GTATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
65 GTATATCTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
2156033 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTT
130 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTT
2156069 ATGCTGATAT
Statistics
Matches: 159, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 1 0.01
184 158 0.99
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (184 bp):
AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
TATATCTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
Found at i:2158939 original size:200 final size:200
Alignment explanation
Indices: 2158589--2159571 Score: 1777
Period size: 200 Copynumber: 4.9 Consensus size: 200
2158579 GATATTTAAA
*
2158589 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACATATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
2158654 GTATACTTATACCGGTTAGATTGAAAAATTACCTATAACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
* *
2158719 TGGGATCGACACCTTTTATATATGGATCGGCACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
2158784 GGACC
196 GGACC
* * *
2158789 AATAGTATCGATACAAAATTAAAAAGTGGCGATACATGTATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
2158854 GTATACTTATACCGGTTAAATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
* *
2158919 TGGGATTGACACCATTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
2158984 GGACC
196 GGACC
2158989 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
* *
2159054 GTATATTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGAGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
* *
2159119 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTAT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
2159184 GGACC
196 GGACC
* * *
2159189 AATAGTATCGACACAAAATTAAAATGTGTCGATACATATATTACACATATTCTCTTATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
2159254 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
* * *
2159319 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTTCACCTTATTTGCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
2159384 GGACC
196 GGACC
2159389 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
2159454 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
*
2159519 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGTACCCTGTTT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTT
2159572 ATCATATTGT
Statistics
Matches: 747, Mismatches: 36, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
200 747 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
GGACC
Found at i:2159835 original size:19 final size:19
Alignment explanation
Indices: 2159811--2159859 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
2159801 TTACATTCAC
2159811 ATACAAAATTATAAATCGT-
1 ATACAAAATTATAAATC-TA
2159830 ATACAAAATTATAAATCTA
1 ATACAAAATTATAAATCTA
2159849 ATACAAAATTA
1 ATACAAAATTA
2159860 ACCCTACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCTA
Found at i:2161493 original size:33 final size:33
Alignment explanation
Indices: 2161419--2161496 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
2161409 CTTCCTTCCT
*
2161419 CCTCATTTT-TTCCATCTCTTCTTCTTCCTCCTC
1 CCTC-TTTTCTTCCATCTCTTCTTCTTCCTCATC
** *
2161452 TGTTTTTTCTTCCATCTCTTCTTCTTCCTCATC
1 CCTCTTTTCTTCCATCTCTTCTTCTTCCTCATC
2161485 CCTCTTTTCTTC
1 CCTCTTTTCTTC
2161497 TTCATATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.05, C:0.38, G:0.01, T:0.55
Consensus pattern (33 bp):
CCTCTTTTCTTCCATCTCTTCTTCTTCCTCATC
Found at i:2161730 original size:33 final size:33
Alignment explanation
Indices: 2161684--2161749 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2161674 CATCTTAAGA
*
2161684 TCACCCCTTAACACCTCAACTGCTTTCACCACT
1 TCACCCCTCAACACCTCAACTGCTTTCACCACT
* *
2161717 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTGCTTTCACCACT
2161750 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.47, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTGCTTTCACCACT
Found at i:2161810 original size:21 final size:21
Alignment explanation
Indices: 2161786--2161826 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2161776 CTTATGCCTC
2161786 TCAAGTGTATCTTCGACTCTA
1 TCAAGTGTATCTTCGACTCTA
* *
2161807 TCAAGTTTCTCTTCGACTCT
1 TCAAGTGTATCTTCGACTCT
2161827 TGATTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (21 bp):
TCAAGTGTATCTTCGACTCTA
Found at i:2161928 original size:15 final size:15
Alignment explanation
Indices: 2161908--2161940 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2161898 ACTCTGTTTT
*
2161908 CCCTCACCGTCGTCC
1 CCCTCACCGTCATCC
2161923 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
2161938 CCC
1 CCC
2161941 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.64, G:0.09, T:0.18
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:2164280 original size:20 final size:20
Alignment explanation
Indices: 2164252--2164308 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
2164242 GCGTTTATCG
*
2164252 GTTTCATCATTTTGATACCA
1 GTTTTATCATTTTGATACCA
*
2164272 GTTTTATCATATTTG-TACCT
1 GTTTTATCAT-TTTGATACCA
*
2164292 GTTATATCATTGTTGAT
1 GTTTTATCATT-TTGAT
2164309 CGATATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.03
20 25 0.81
21 5 0.16
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.51
Consensus pattern (20 bp):
GTTTTATCATTTTGATACCA
Found at i:2165074 original size:2 final size:2
Alignment explanation
Indices: 2165067--2165111 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
2165057 AAAATAGTTC
2165067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2165108 AT AT
1 AT AT
2165112 TGCTTTTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2167698 original size:27 final size:28
Alignment explanation
Indices: 2167651--2167709 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 28
2167641 ATCCTTCATC
*
2167651 ATCGTGTCCTGTAATTCTATTCCAATCAAT
1 ATCGTGTCCTGTAATTAT-TTCC-ATCAAT
2167681 ATCGTGTCCTGTAA-TATTTCCATCAAT
1 ATCGTGTCCTGTAATTATTTCCATCAAT
2167708 AT
1 AT
2167710 TTTTATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 8 0.29
28 4 0.14
29 2 0.07
30 14 0.50
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (28 bp):
ATCGTGTCCTGTAATTATTTCCATCAAT
Found at i:2170802 original size:2 final size:2
Alignment explanation
Indices: 2170795--2170820 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2170785 TTGCTGAGTA
2170795 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
2170821 GGGTTAAATC
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:2181235 original size:30 final size:30
Alignment explanation
Indices: 2181199--2181267 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
2181189 TCCTCCAGTG
2181199 AAGCCACCAGTTGAACTCCCTCCAACTGTA
1 AAGCCACCAGTTGAACTCCCTCCAACTGTA
2181229 AAGCCACCAGTTGAACTCCCTCCAACTGTA
1 AAGCCACCAGTTGAACTCCCTCCAACTGTA
2181259 AAGCCACCA
1 AAGCCACCA
2181268 ATTAGCCTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.32, C:0.38, G:0.13, T:0.17
Consensus pattern (30 bp):
AAGCCACCAGTTGAACTCCCTCCAACTGTA
Found at i:2181297 original size:15 final size:15
Alignment explanation
Indices: 2181275--2181327 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
2181265 CCAATTAGCC
2181275 TGCCTCCAGTGACTG
1 TGCCTCCAGTGACTG
* ** *
2181290 TTCCTCCAAAGATTG
1 TGCCTCCAGTGACTG
2181305 TGCCTCCAGTGACTG
1 TGCCTCCAGTGACTG
2181320 TGCCTCCA
1 TGCCTCCA
2181328 AAGATTGTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.17, C:0.34, G:0.21, T:0.28
Consensus pattern (15 bp):
TGCCTCCAGTGACTG
Found at i:2181309 original size:30 final size:30
Alignment explanation
Indices: 2181275--2181344 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
2181265 CCAATTAGCC
*
2181275 TGCCTCCAGTGACTGTTCCTCCAAAGATTG
1 TGCCTCCAGTGACTGTGCCTCCAAAGATTG
2181305 TGCCTCCAGTGACTGTGCCTCCAAAGATTG
1 TGCCTCCAGTGACTGTGCCTCCAAAGATTG
*
2181335 TACCTCCAGT
1 TGCCTCCAGT
2181345 TGTAAAGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (30 bp):
TGCCTCCAGTGACTGTGCCTCCAAAGATTG
Found at i:2181340 original size:15 final size:15
Alignment explanation
Indices: 2181292--2181342 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
2181282 AGTGACTGTT
2181292 CCTCCAAAGATTGTG
1 CCTCCAAAGATTGTG
** *
2181307 CCTCCAGTGACTGTG
1 CCTCCAAAGATTGTG
*
2181322 CCTCCAAAGATTGTA
1 CCTCCAAAGATTGTG
2181337 CCTCCA
1 CCTCCA
2181343 GTTGTAAAGC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (15 bp):
CCTCCAAAGATTGTG
Found at i:2181399 original size:30 final size:30
Alignment explanation
Indices: 2181365--2181584 Score: 77
Period size: 30 Copynumber: 7.3 Consensus size: 30
2181355 CCAATTAACC
* *
2181365 TGCCTCCGGTGGCTGTTCCTCCAAAGATTG
1 TGCCTCCAGTGGCTGTGCCTCCAAAGATTG
* ** * ** ***
2181395 TGCCTCCAGTTG-TAAAGCCACCAATCAACC
1 TGCCTCCAGTGGCT-GTGCCTCCAAAGATTG
* *
2181425 TGCCTCCGGTGGCTGTTCCTCCAAAGATTG
1 TGCCTCCAGTGGCTGTGCCTCCAAAGATTG
* ** * ** ***
2181455 TGCCTCCAGTTG-TAAAGCCACCAATCAACC
1 TGCCTCCAGTGGCT-GTGCCTCCAAAGATTG
* *
2181485 TGCCTCCGGTGGCTGTTCCTCCAAAGATTG
1 TGCCTCCAGTGGCTGTGCCTCCAAAGATTG
* ** * ** ***
2181515 TGCCTCCAGTTG-TAAAGCCACCAATCAACC
1 TGCCTCCAGTGGCT-GTGCCTCCAAAGATTG
* *
2181545 TGCCTCCGGTGGCTGTTCCTCCAAAGATTG
1 TGCCTCCAGTGGCTGTGCCTCCAAAGATTG
2181575 TGCCTCCAGT
1 TGCCTCCAGT
2181585 TGTGAAGCCA
Statistics
Matches: 117, Mismatches: 67, Indels: 12
0.60 0.34 0.06
Matches are distributed among these distances:
29 3 0.03
30 111 0.95
31 3 0.03
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (30 bp):
TGCCTCCAGTGGCTGTGCCTCCAAAGATTG
Found at i:2181431 original size:90 final size:88
Alignment explanation
Indices: 2181255--2181431 Score: 212
Period size: 90 Copynumber: 2.0 Consensus size: 88
2181245 TCCCTCCAAC
*
2181255 TGTAAAGCCACCAATTAGCCTGCCTCCAGTGACTGTTCCTCCAAAGATTGTGCCTCCAGTGACTG
1 TGTAAAGCCACCAATTAACCTGCCTCCAGTGACTGTTCCTCCAAAGATTGTGCCTCCAGT-A-TG
* * ***
2181320 TGCCTCCAAAGATTGTACCTCCAGT
64 TGCCACCAAACAACCTACCTCCAGT
* *
2181345 TGTAAAGCCACCAATTAACCTGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGT-TGTA
1 TGTAAAGCCACCAATTAACCTGCCTCCAGTGACTGTTCCTCCAAAGATTGTGCCTCCAGTATGT-
* *
2181409 AAGCCACCAATCAACCTGCCTCC
65 --GCCACCAAACAACCTACCTCC
2181432 GGTGGCTGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
87 3 0.04
90 71 0.96
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (88 bp):
TGTAAAGCCACCAATTAACCTGCCTCCAGTGACTGTTCCTCCAAAGATTGTGCCTCCAGTATGTG
CCACCAAACAACCTACCTCCAGT
Found at i:2181627 original size:60 final size:60
Alignment explanation
Indices: 2181305--2181599 Score: 536
Period size: 60 Copynumber: 4.9 Consensus size: 60
2181295 CCAAAGATTG
* * * * *
2181305 TGCCTCCAGTGACTGTGCCTCCAAAGATTGTACCTCCAGTTGTAAAGCCACCAATTAACC
1 TGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGTTGTAAAGCCACCAATCAACC
2181365 TGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGTTGTAAAGCCACCAATCAACC
1 TGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGTTGTAAAGCCACCAATCAACC
2181425 TGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGTTGTAAAGCCACCAATCAACC
1 TGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGTTGTAAAGCCACCAATCAACC
2181485 TGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGTTGTAAAGCCACCAATCAACC
1 TGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGTTGTAAAGCCACCAATCAACC
*
2181545 TGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGTTGTGAAGCCACCAAT
1 TGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGTTGTAAAGCCACCAAT
2181600 TAACGTCCCT
Statistics
Matches: 229, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 229 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (60 bp):
TGCCTCCGGTGGCTGTTCCTCCAAAGATTGTGCCTCCAGTTGTAAAGCCACCAATCAACC
Found at i:2181654 original size:45 final size:45
Alignment explanation
Indices: 2181577--2181662 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
2181567 AAAGATTGTG
* *
2181577 CCTCCAGTTGTGAAGCCACCAATTAACGTCCCTCCAGTGACTATC
1 CCTCCAGTTGTAAAGCCACCAATCAACGTCCCTCCAGTGACTATC
* *
2181622 CCTCCAGTTGTAAAGCCACCGATCAA-GCTCCCTCCTGTGAC
1 CCTCCAGTTGTAAAGCCACCAATCAACG-TCCCTCCAGTGAC
2181663 AGTGCCACCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.23
Consensus pattern (45 bp):
CCTCCAGTTGTAAAGCCACCAATCAACGTCCCTCCAGTGACTATC
Found at i:2182777 original size:19 final size:19
Alignment explanation
Indices: 2182753--2182790 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2182743 TATTATAGAG
2182753 AATGATAAATCATAAATGT
1 AATGATAAATCATAAATGT
2182772 AATGATAAATCATAAATGT
1 AATGATAAATCATAAATGT
2182791 TTATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (19 bp):
AATGATAAATCATAAATGT
Found at i:2188065 original size:20 final size:22
Alignment explanation
Indices: 2188040--2188081 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
2188030 AAATTAAAAG
2188040 TTATAAAA-ATGATTTT-TTGA
1 TTATAAAATATGATTTTATTGA
*
2188060 TTATAAAATATTATTTTATTGA
1 TTATAAAATATGATTTTATTGA
2188082 ATCTTTCGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
TTATAAAATATGATTTTATTGA
Found at i:2191024 original size:72 final size:73
Alignment explanation
Indices: 2190804--2191041 Score: 451
Period size: 73 Copynumber: 3.3 Consensus size: 73
2190794 AACCGAAGAG
*
2190804 CTTGTCACATGGCGCAAGTAAGACCGACTATAAACGAAAGAAGAAAATTTGCGATTAATTAGGTC
1 CTTGTCACATGGCGCAAGTAAGACTGACTATAAACGAAAGAAGAAAATTTGCGATTAATTAGGTC
2190869 AAAGTAAA
66 AAAGTAAA
2190877 CTTGTCACATGGCGCAAGTAAGACTGACTATAAACGAAAGAAGAAAATTTGCGATTAATTAGGTC
1 CTTGTCACATGGCGCAAGTAAGACTGACTATAAACGAAAGAAGAAAATTTGCGATTAATTAGGTC
2190942 AAAGTAAA
66 AAAGTAAA
2190950 CTTGTCACATGGCGCAAGTAAGACTGACT-TAAACGAAAGAAGAAAATTTGCGATTAATTAGGTC
1 CTTGTCACATGGCGCAAGTAAGACTGACTATAAACGAAAGAAGAAAATTTGCGATTAATTAGGTC
2191014 AAAGTAAA
66 AAAGTAAA
*
2191022 CTTGTCACATGACGCAAGTA
1 CTTGTCACATGGCGCAAGTA
2191042 TTCAACTTGA
Statistics
Matches: 163, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
72 62 0.38
73 101 0.62
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (73 bp):
CTTGTCACATGGCGCAAGTAAGACTGACTATAAACGAAAGAAGAAAATTTGCGATTAATTAGGTC
AAAGTAAA
Found at i:2198132 original size:31 final size:31
Alignment explanation
Indices: 2198092--2198154 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
2198082 AATGTCCTAC
2198092 ATCGCCAAAGTAATGATATAACAAGTGACAT
1 ATCGCCAAAGTAATGATATAACAAGTGACAT
* *
2198123 ATCGTCAAAGTAATGATGTAACAAGTGACAT
1 ATCGCCAAAGTAATGATATAACAAGTGACAT
2198154 A
1 A
2198155 CCACAACATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.24
Consensus pattern (31 bp):
ATCGCCAAAGTAATGATATAACAAGTGACAT
Found at i:2200852 original size:30 final size:30
Alignment explanation
Indices: 2200673--2200835 Score: 290
Period size: 30 Copynumber: 5.4 Consensus size: 30
2200663 TCCGAATGAC
*
2200673 CTATCCAGAGGTCCTAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2200703 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2200733 CTATCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2200763 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2200793 CTATCCAGAGGTCATAAACATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2200823 CTATCCATAGGTC
1 CTATCCAGAGGTC
2200836 CCGAAGAACC
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 128 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2200852 original size:90 final size:91
Alignment explanation
Indices: 2200673--2200860 Score: 297
Period size: 90 Copynumber: 2.1 Consensus size: 91
2200663 TCCGAATGAC
* *
2200673 CTATCCAGAGGTCCTAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAACATCCTCGGTAACTATC
* * *
2200738 CAAAGGTCATAAAGATCCTCGGT-AA
66 CAAAGGTCACAAAGAACCTAGGTAAA
2200763 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAACATCCTCGGTAACTATC
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAACATCCTCGGTAACTATC
* * *
2200828 CATAGGTCCCGAAGAACCTAGGTAAA
66 CAAAGGTCACAAAGAACCTAGGTAAA
2200854 CTATCCA
1 CTATCCA
2200861 TATGTTCCTT
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
90 80 0.90
91 9 0.10
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (91 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAACATCCTCGGTAACTATC
CAAAGGTCACAAAGAACCTAGGTAAA
Found at i:2200875 original size:31 final size:31
Alignment explanation
Indices: 2200821--2200902 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
2200811 CATCCTCGGT
* *
2200821 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
2200852 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
2200883 TACTGTCCATATGTCTCGAA
1 AACTATCCATATGTCCCGAA
2200903 AGACCTCGAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:2201585 original size:21 final size:21
Alignment explanation
Indices: 2201561--2201603 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2201551 TCATATTCGT
* *
2201561 TTGAGTGGGGATCGATTCCCC
1 TTGAATGGGGACCGATTCCCC
*
2201582 TTGAATGGGTACCGATTCCCC
1 TTGAATGGGGACCGATTCCCC
2201603 T
1 T
2201604 AGCCCAGAAA
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:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAATGGGGACCGATTCCCC
Found at i:2205812 original size:30 final size:30
Alignment explanation
Indices: 2205663--2205795 Score: 248
Period size: 30 Copynumber: 4.4 Consensus size: 30
2205653 TCCGAATGAC
*
2205663 CTATCCAGAGGTCCTAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2205693 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2205723 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2205753 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2205783 CTATCCATAGGTC
1 CTATCCAGAGGTC
2205796 CCGAAGAACC
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 101 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2206529 original size:21 final size:21
Alignment explanation
Indices: 2206505--2206547 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2206495 TCATATTCGT
*
2206505 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGATCGATTCCCC
* * *
2206526 TTGAATGGGTATTGATTCCCC
1 TTGAAGGGGGATCGATTCCCC
2206547 T
1 T
2206548 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGGATCGATTCCCC
Found at i:2209499 original size:21 final size:23
Alignment explanation
Indices: 2209473--2209514 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2209463 ACGAGTCACA
2209473 TCTTCA-AT-TAATTGAATCTCC
1 TCTTCATATATAATTGAATCTCC
*
2209494 TCTTCATCTATAATTGAATCT
1 TCTTCATATATAATTGAATCT
2209515 TCAACGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (23 bp):
TCTTCATATATAATTGAATCTCC
Found at i:2211209 original size:17 final size:20
Alignment explanation
Indices: 2211187--2211228 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 20
2211177 ATTAACAACA
2211187 AATTTATTC-T-TTTT-TTC
1 AATTTATTCATATTTTATTC
2211204 AATTTATTCATATTTTATTC
1 AATTTATTCATATTTTATTC
2211224 AATTT
1 AATTT
2211229 GGTCCATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 1 0.05
19 4 0.18
20 8 0.36
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTTATTCATATTTTATTC
Found at i:2214387 original size:218 final size:218
Alignment explanation
Indices: 2214005--2214442 Score: 786
Period size: 218 Copynumber: 2.0 Consensus size: 218
2213995 TATTCTTTGC
* *
2214005 TACTCACTTTATAATTTATGTTTAAAGTTTTTAGTTGTTAGAGATTTTGGATTCAAACAGTTATG
1 TACTCACTTTATAATTTATGTTTAAAGTTTTTAGTTGTTAGAGATTTTAGATTCAAACAGTTAGG
* *
2214070 TTTATAGAGTGCGTATATTGACAATAAAAAACTTTTGACCAGATATTACTTTGTAATCATCTTAG
66 TTTATAGAGTGCGTACATTGACAATAAAAAACTTTTGACCAGATACTACTTTGTAATCATCTTAG
* * *
2214135 ACTATTAAAAAATATATATCTTAAAAATTCCAATGTGAGACACTTGTATGTCTATTTTTTTTATC
131 AATATTAAAAAATATACATCTTAAAAAATCCAATGTGAGACACTTGTATGTCTATTTTTTTTATC
2214200 ATTATTGTATTCTTATTATATTT
196 ATTATTGTATTCTTATTATATTT
2214223 TACTCACTTTATAATTTATGTTTAAAGTTTTTAGTTGTTAGAGATTTTAGATTCAAACAGTTAGG
1 TACTCACTTTATAATTTATGTTTAAAGTTTTTAGTTGTTAGAGATTTTAGATTCAAACAGTTAGG
*
2214288 TTTATAGAGTGCGTACATTGACAATAAAAAACTTTTGATCAGATACTACTTTGTAATCATCTTAG
66 TTTATAGAGTGCGTACATTGACAATAAAAAACTTTTGACCAGATACTACTTTGTAATCATCTTAG
* *
2214353 AATATTAAAAAATGTACATCTTAAAAAATCCAATGTGAGACGCTTGTATGTCTATTTTTTTTATC
131 AATATTAAAAAATATACATCTTAAAAAATCCAATGTGAGACACTTGTATGTCTATTTTTTTTATC
2214418 ATTATTGTATTCTTATTATATTT
196 ATTATTGTATTCTTATTATATTT
2214441 TA
1 TA
2214443 TAATAATTAA
Statistics
Matches: 210, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
218 210 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (218 bp):
TACTCACTTTATAATTTATGTTTAAAGTTTTTAGTTGTTAGAGATTTTAGATTCAAACAGTTAGG
TTTATAGAGTGCGTACATTGACAATAAAAAACTTTTGACCAGATACTACTTTGTAATCATCTTAG
AATATTAAAAAATATACATCTTAAAAAATCCAATGTGAGACACTTGTATGTCTATTTTTTTTATC
ATTATTGTATTCTTATTATATTT
Found at i:2215394 original size:14 final size:15
Alignment explanation
Indices: 2215375--2215403 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2215365 TGAAATTTTT
2215375 TAAG-TTTTAAAAAA
1 TAAGTTTTTAAAAAA
2215389 TAAGTTTTTAAAAAA
1 TAAGTTTTTAAAAAA
2215404 ATATAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
TAAGTTTTTAAAAAA
Found at i:2215541 original size:22 final size:23
Alignment explanation
Indices: 2215503--2215546 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2215493 CTTAAAATGA
*
2215503 TAACGATAAAAATATTAAACACT
1 TAACGATAAAAAAATTAAACACT
*
2215526 TAACGA-AAAAAAATTAGACAC
1 TAACGATAAAAAAATTAAACAC
2215547 CAAAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.20
Consensus pattern (23 bp):
TAACGATAAAAAAATTAAACACT
Found at i:2230656 original size:24 final size:24
Alignment explanation
Indices: 2230629--2230683 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
2230619 GTCGCCGCTT
2230629 GCTTGTACCGGAATGTCCTCATAA
1 GCTTGTACCGGAATGTCCTCATAA
2230653 GCTTGTACCGGAATGTCCTCATAA
1 GCTTGTACCGGAATGTCCTCATAA
2230677 GCTTGTA
1 GCTTGTA
2230684 GATTGTTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (24 bp):
GCTTGTACCGGAATGTCCTCATAA
Found at i:2232403 original size:16 final size:16
Alignment explanation
Indices: 2232366--2232404 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
2232356 CCTATGTGCT
2232366 TATTAATTTTTCATCA
1 TATTAATTTTTCATCA
**
2232382 CGTTAATTTTTCATCA
1 TATTAATTTTTCATCA
2232398 TATTAAT
1 TATTAAT
2232405 ATTAATATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (16 bp):
TATTAATTTTTCATCA
Found at i:2234988 original size:184 final size:187
Alignment explanation
Indices: 2234577--2235153 Score: 909
Period size: 186 Copynumber: 3.1 Consensus size: 187
2234567 AGATCACTAA
* *
2234577 TTCTTAATTTGTATTCTTGTTGACCAAGT-TGAATC-TAGGTAAGTCTATCAATGAAGAATGATT
1 TTCTTAATTTGTATTCTTGTTGACCAA-TATGAATCGT-GGTAAGTCTATCAATGAAGATTGGTT
* *
2234640 TTCAAGACCCCCACTAGATGTTGAAGCATTAGTTATCATAG-GGAGAACATTAATTTTTTTCTTC
64 TTCAAGACCCCCACCAGATGTTGAAGCATTAGTTATCAGAGAGGAGAACATTAATTTTTTT-TTC
* * * * *
2234704 TTTTTGTTCTCCTATTTTATCTGAGTTTTACCCTGATTAAT-TGGTTCCCATAGTATTAG
128 TTTCTGTTCTCCTAGTTTCTCTGAGTTTTACCCTAATTAATCCGGTTCCCATAGTATTAG
* *
2234763 TTCTTAATTTATATTCTTGTTGACCAAGATGAATCGTGGTAAGTCTATCAATGAAGATTGGTTTT
1 TTCTTAATTTGTATTCTTGTTGACCAATATGAATCGTGGTAAGTCTATCAATGAAGATTGGTTTT
* *
2234828 CAAGACCCCCACCAGATGTTGAAGCATTAGTTATGAGAGAGGAGAACATTAAATTTTTTTTCTTT
66 CAAGACCCCCACCAGATGTTGAAGCATTAGTTATCAGAGAGGAGAACATTAATTTTTTTTTCTTT
2234893 CTG-T-T-CTAGTTTCTCTGAGTTTTACCCTAATTAATCCGGTTCCCATAGTATTAG
131 CTGTTCTCCTAGTTTCTCTGAGTTTTACCCTAATTAATCCGGTTCCCATAGTATTAG
2234947 TTCTTAATTTGTATTCTTGTTGACCAATATGAATCGTGGTAAGTCTATCAATGAAGATTGGTTTT
1 TTCTTAATTTGTATTCTTGTTGACCAATATGAATCGTGGTAAGTCTATCAATGAAGATTGGTTTT
* * *
2235012 CAAGACTCTCACCAGATGTTGAAGCATTAGTTATCAGAGAGGATAACATT-ATTTTTTTTTCTTT
66 CAAGACCCCCACCAGATGTTGAAGCATTAGTTATCAGAGAGGAGAACATTAATTTTTTTTTCTTT
* *
2235076 CTGTTCTCCTAGTTTCTCTAAGTTTTTCCCTAATTAATCCGGTTCCCATAGTATTAG
131 CTGTTCTCCTAGTTTCTCTGAGTTTTACCCTAATTAATCCGGTTCCCATAGTATTAG
2235133 TTCTTAATTTGTATTCTTGTT
1 TTCTTAATTTGTATTCTTGTT
2235154 CATTATTAAA
Statistics
Matches: 362, Mismatches: 22, Indels: 14
0.91 0.06 0.04
Matches are distributed among these distances:
183 43 0.12
184 128 0.35
185 2 0.01
186 170 0.47
187 19 0.05
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (187 bp):
TTCTTAATTTGTATTCTTGTTGACCAATATGAATCGTGGTAAGTCTATCAATGAAGATTGGTTTT
CAAGACCCCCACCAGATGTTGAAGCATTAGTTATCAGAGAGGAGAACATTAATTTTTTTTTCTTT
CTGTTCTCCTAGTTTCTCTGAGTTTTACCCTAATTAATCCGGTTCCCATAGTATTAG
Found at i:2238280 original size:35 final size:35
Alignment explanation
Indices: 2238230--2238416 Score: 109
Period size: 35 Copynumber: 5.3 Consensus size: 35
2238220 ATTAAAATTT
* *
2238230 AAAGAGATAA-TATCTTTTAATTTGAAATATTCAA
1 AAAGATATAATTATCTTTTAATTTAAAATATTCAA
* *
2238264 AAAGATATAGTTATCTTTTAATATTCAAAT-TT-AA
1 AAAGATATAATTATCTTTTAAT-TTAAAATATTCAA
* * *
2238298 AGAA-ATAATAAATATATTTTAAATTAAAATATTCAA
1 A-AAGAT-ATAATTATCTTTTAATTTAAAATATTCAA
* * * * *
2238334 AATGATATAATTAGTCTATTAA--TAATCACATTTAA
1 AAAGATATAATTA-TCTTTTAATTTAA-AATATTCAA
* * * *
2238369 AAATATAATAAATGTATTTTAATTTAAAATATT-AA
1 AAAGAT-ATAATTATCTTTTAATTTAAAATATTCAA
*
2238404 AAGGATATGAATT
1 AAAGATAT-AATT
2238417 TAATTTAAGG
Statistics
Matches: 114, Mismatches: 26, Indels: 25
0.69 0.16 0.15
Matches are distributed among these distances:
34 24 0.21
35 61 0.54
36 26 0.23
37 3 0.03
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (35 bp):
AAAGATATAATTATCTTTTAATTTAAAATATTCAA
Found at i:2238300 original size:32 final size:31
Alignment explanation
Indices: 2238213--2238307 Score: 93
Period size: 35 Copynumber: 2.9 Consensus size: 31
2238203 GATTATTCTT
*
2238213 TTTTTATATTAAAATTTAAAGAGATAATATC
1 TTTTAATATTAAAATTTAAAGAGATAATATC
* *
2238244 TTTTAAT-TTGAAATATTCAAAAAGATATAGTTATC
1 TTTTAATATT-AAA-ATTTAAAGAGATA-A--TATC
* *
2238279 TTTTAATATTCAAATTTAAAGAAATAATA
1 TTTTAATATTAAAATTTAAAGAGATAATA
2238308 AATATATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
30 2 0.04
31 11 0.22
32 11 0.22
33 2 0.04
34 10 0.20
35 13 0.25
36 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (31 bp):
TTTTAATATTAAAATTTAAAGAGATAATATC
Found at i:2238334 original size:70 final size:71
Alignment explanation
Indices: 2238238--2238416 Score: 229
Period size: 71 Copynumber: 2.5 Consensus size: 71
2238228 TTAAAGAGAT
* * * * *
2238238 AATATCTTTTAATTTGAAATATTCAAAAAGATATAGTTA-TCTTTTAATATTCAAATTTAAAGAA
1 AATATATTTTAATTTAAAATATTCAAAAAGATATAATTAGTCTATTAATAATCAAATTTAAA-AA
2238302 -ATAATA
65 TATAATA
* * *
2238308 AATATATTTTAAATTAAAATATTCAAAATGATATAATTAGTCTATTAATAATCACATTTAAAAAT
1 AATATATTTTAATTTAAAATATTCAAAAAGATATAATTAGTCTATTAATAATCAAATTTAAAAAT
2238373 ATAATA
66 ATAATA
* *
2238379 AATGTATTTTAATTTAAAATATT-AAAAGGATATGAATT
1 AATATATTTTAATTTAAAATATTCAAAAAGATAT-AATT
2238417 TAATTTAAGG
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
70 45 0.47
71 50 0.53
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (71 bp):
AATATATTTTAATTTAAAATATTCAAAAAGATATAATTAGTCTATTAATAATCAAATTTAAAAAT
ATAATA
Found at i:2239947 original size:24 final size:24
Alignment explanation
Indices: 2239920--2239994 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
2239910 TATATCAAAA
* *
2239920 ATCAAAACATAATCCAGGTCAAGT
1 ATCAAATCAAAATCCAGGTCAAGT
* *
2239944 ATCATATCAAAATACAGGTCAAGT
1 ATCAAATCAAAATCCAGGTCAAGT
** *
2239968 ATCCGATCAGAATCCAGGTCAAGT
1 ATCAAATCAAAATCCAGGTCAAGT
2239992 ATC
1 ATC
2239995 CGATTAGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (24 bp):
ATCAAATCAAAATCCAGGTCAAGT
Found at i:2239995 original size:24 final size:24
Alignment explanation
Indices: 2239930--2240009 Score: 115
Period size: 24 Copynumber: 3.3 Consensus size: 24
2239920 ATCAAAACAT
** *
2239930 AATCCAGGTCAAGTATCATATCAA
1 AATCCAGGTCAAGTATCCGATCAG
*
2239954 AATACAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
2239978 AATCCAGGTCAAGTATCCGATTAG
1 AATCCAGGTCAAGTATCCGATCAG
2240002 AATCCAGG
1 AATCCAGG
2240010 CCAGGTATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:2244358 original size:6 final size:6
Alignment explanation
Indices: 2244297--2244339 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
2244287 AGAGCTTCTC
*
2244297 CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CTTCAT C
1 CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT C
2244340 ATCGACACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.16, C:0.49, G:0.00, T:0.35
Consensus pattern (6 bp):
CCTCAT
Found at i:2245917 original size:2 final size:2
Alignment explanation
Indices: 2245904--2245944 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
2245894 CATCACTTAT
2245904 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2245945 ATCTAACCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2247720 original size:30 final size:30
Alignment explanation
Indices: 2247684--2247744 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
2247674 TGAAAACAAC
2247684 AATGCTGAAGCAATGAGAGCAACGAGGGTT
1 AATGCTGAAGCAATGAGAGCAACGAGGGTT
2247714 AATGCTGAAGCAATGAGAGCAACGAGGGTT
1 AATGCTGAAGCAATGAGAGCAACGAGGGTT
2247744 A
1 A
2247745 CTCCGATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.33, T:0.16
Consensus pattern (30 bp):
AATGCTGAAGCAATGAGAGCAACGAGGGTT
Found at i:2247825 original size:50 final size:50
Alignment explanation
Indices: 2247750--2247849 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
2247740 GGTTACTCCG
*
2247750 ATTGTTTTTCAAGGTTGAAACATCAGTAAATTTACGACGACTTTTCAAAT
1 ATTGTTTTTCAAGGTTGAAACATCAGTAAATTTACCACGACTTTTCAAAT
2247800 ATTGTTTTTCAAGGTTGAAACATCAGTAAATTTACCACGACTTTTCAAAT
1 ATTGTTTTTCAAGGTTGAAACATCAGTAAATTTACCACGACTTTTCAAAT
2247850 GGGATTTGGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (50 bp):
ATTGTTTTTCAAGGTTGAAACATCAGTAAATTTACCACGACTTTTCAAAT
Found at i:2254361 original size:3 final size:3
Alignment explanation
Indices: 2254350--2254388 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
2254340 AATTATTAAA
2254350 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2254389 AATTATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2254541 original size:16 final size:17
Alignment explanation
Indices: 2254500--2254567 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 17
2254490 TTTGTTTTAA
2254500 GTTCGGGTTGCTTTCAG
1 GTTCGGGTTGCTTTCAG
* * *
2254517 ATT-GAGTTGCTTT-TG
1 GTTCGGGTTGCTTTCAG
2254532 GTTCGGGTTGCTTTCA-
1 GTTCGGGTTGCTTTCAG
**
2254548 GTTTTGGTTGCTTTC-G
1 GTTCGGGTTGCTTTCAG
2254564 GTTC
1 GTTC
2254568 AACTAAAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
15 3 0.08
16 34 0.87
17 2 0.05
ACGTcount: A:0.06, C:0.15, G:0.31, T:0.49
Consensus pattern (17 bp):
GTTCGGGTTGCTTTCAG
Found at i:2254567 original size:32 final size:32
Alignment explanation
Indices: 2254469--2254567 Score: 103
Period size: 32 Copynumber: 3.1 Consensus size: 32
2254459 GTAAATAAAA
* * * **
2254469 TTCGGGTTACTTTC-GATTCGATTTGTTTTAAG
1 TTCGGGTTGCTTTCAGATT-GAGTTGCTTTCGG
*
2254501 TTCGGGTTGCTTTCAGATTGAGTTGCTTTTGG
1 TTCGGGTTGCTTTCAGATTGAGTTGCTTTCGG
*
2254533 TTCGGGTTGCTTTCAGTTTTG-GTTGCTTTCGG
1 TTCGGGTTGCTTTCAG-ATTGAGTTGCTTTCGG
2254565 TTC
1 TTC
2254568 AACTAAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 51 0.88
33 7 0.12
ACGTcount: A:0.09, C:0.14, G:0.27, T:0.49
Consensus pattern (32 bp):
TTCGGGTTGCTTTCAGATTGAGTTGCTTTCGG
Found at i:2257023 original size:16 final size:16
Alignment explanation
Indices: 2257004--2257038 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2256994 CGGACAAAAA
2257004 ATATAAATAACTATAC
1 ATATAAATAACTATAC
*
2257020 ATATAATTAACTATAC
1 ATATAAATAACTATAC
2257036 ATA
1 ATA
2257039 CAATTGGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATAACTATAC
Found at i:2257043 original size:16 final size:16
Alignment explanation
Indices: 2257011--2257043 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2257001 AAAATATAAA
*
2257011 TAACTATACATATAAT
1 TAACTATACATACAAT
2257027 TAACTATACATACAAT
1 TAACTATACATACAAT
2257043 T
1 T
2257044 GGCCCTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (16 bp):
TAACTATACATACAAT
Found at i:2258380 original size:12 final size:12
Alignment explanation
Indices: 2258350--2258385 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
2258340 TTAGTTAAAA
2258350 AATATTAAAATT
1 AATATTAAAATT
*
2258362 -TTATTAAAATT
1 AATATTAAAATT
2258373 AATATTAAAATT
1 AATATTAAAATT
2258385 A
1 A
2258386 TTTAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AATATTAAAATT
Found at i:2259745 original size:16 final size:16
Alignment explanation
Indices: 2259712--2259750 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2259702 GTCAAAATAT
* *
2259712 TTTTATATTATATTAA
1 TTTTAAATTATATAAA
*
2259728 TTTTAAATTTTATAAA
1 TTTTAAATTATATAAA
2259744 TTTTAAA
1 TTTTAAA
2259751 AAAATTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAAATTATATAAA
Found at i:2269497 original size:22 final size:24
Alignment explanation
Indices: 2269471--2269523 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
2269461 CAAGCGAATG
2269471 AAAACATT-CCATAAA-ACAAAGA
1 AAAACATTCCCATAAAGACAAAGA
* *
2269493 AAAAC-TTCCCATAAAGATAGAGA
1 AAAACATTCCCATAAAGACAAAGA
2269516 AAAACATT
1 AAAACATT
2269524 TTATAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 2 0.08
22 12 0.46
23 10 0.38
24 2 0.08
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (24 bp):
AAAACATTCCCATAAAGACAAAGA
Found at i:2269592 original size:30 final size:28
Alignment explanation
Indices: 2269528--2269593 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 28
2269518 AACATTTTAT
2269528 AAAAA-TAAAATCATTAAAAATTAAAAA
1 AAAAACTAAAATCATTAAAAATTAAAAA
*
2269555 ACTAAAACTAAAATCGATATAAAAATTAAAGA
1 A--AAAACTAAAATC-AT-TAAAAATTAAAAA
2269587 AAAAACT
1 AAAAACT
2269594 TATATTGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 1 0.03
29 4 0.12
30 13 0.39
31 2 0.06
32 13 0.39
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.21
Consensus pattern (28 bp):
AAAAACTAAAATCATTAAAAATTAAAAA
Found at i:2271389 original size:3 final size:3
Alignment explanation
Indices: 2271381--2271440 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
2271371 TCTCAAATTC
2271381 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2271429 TAT TAT TAT TAT
1 TAT TAT TAT TAT
2271441 ATTTTAACAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2274067 original size:15 final size:15
Alignment explanation
Indices: 2274041--2274077 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
2274031 ATTTGATATG
2274041 ATTTTGACATTTAATT
1 ATTTT-ACATTTAATT
2274057 ATTTTACATTTAATT
1 ATTTTACATTTAATT
2274072 ATTTTA
1 ATTTTA
2274078 AGTAGATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (15 bp):
ATTTTACATTTAATT
Found at i:2280264 original size:12 final size:12
Alignment explanation
Indices: 2280249--2280278 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2280239 ATAAAATAGA
2280249 GAAGAGGAAGAT
1 GAAGAGGAAGAT
*
2280261 GAAGATGAAGAT
1 GAAGAGGAAGAT
2280273 GAAGAG
1 GAAGAG
2280279 AATAGACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.40, T:0.10
Consensus pattern (12 bp):
GAAGAGGAAGAT
Found at i:2280660 original size:16 final size:16
Alignment explanation
Indices: 2280630--2280659 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2280620 CTTTCCCTTA
2280630 AAAAAAGAAAGAAAAG
1 AAAAAAGAAAGAAAAG
2280646 AAAAAAG-AAGAAAA
1 AAAAAAGAAAGAAAA
2280660 ATTGGCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAGAAAAG
Found at i:2282334 original size:59 final size:58
Alignment explanation
Indices: 2282271--2282383 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 58
2282261 TGATTTTTTG
* * *
2282271 ATTATAAGACATTATTTTATTGAATCTACTC-ATTATTAAAAGTTACAAAATGATCTCTA
1 ATTATAAGA-ATTATTTTATCGAATCT-CCCAATTATTAAAACTTACAAAATGATCTCTA
* * * *
2282330 ATTATAAGAGTTGTTTTGTCGAGTCTCCCAATTATTAAAACTTACAAAATGATC
1 ATTATAAGAATTATTTTATCGAATCTCCCAATTATTAAAACTTACAAAATGATC
2282384 ACTCGATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 2 0.04
58 35 0.76
59 9 0.20
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (58 bp):
ATTATAAGAATTATTTTATCGAATCTCCCAATTATTAAAACTTACAAAATGATCTCTA
Found at i:2282565 original size:28 final size:28
Alignment explanation
Indices: 2282533--2282587 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
2282523 TTATGTTTAC
2282533 ATTATGACATCAAGTCAGTGCTTGAAAT
1 ATTATGACATCAAGTCAGTGCTTGAAAT
* ** *
2282561 ATTATGTCATTGAGTCAGTGTTTGAAA
1 ATTATGACATCAAGTCAGTGCTTGAAA
2282588 GTAACAACCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (28 bp):
ATTATGACATCAAGTCAGTGCTTGAAAT
Found at i:2291665 original size:18 final size:18
Alignment explanation
Indices: 2291644--2291681 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2291634 AAATGTATAA
2291644 AGGGAGACAGAGAGAGGG
1 AGGGAGACAGAGAGAGGG
**
2291662 AGGGAGGGAGAGAGAGGG
1 AGGGAGACAGAGAGAGGG
2291680 AG
1 AG
2291682 CTCCTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.61, T:0.00
Consensus pattern (18 bp):
AGGGAGACAGAGAGAGGG
Found at i:2291916 original size:17 final size:17
Alignment explanation
Indices: 2291874--2291908 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2291864 TTCAAGAAAA
* *
2291874 TCTAAAAGATATAGATC
1 TCTAAAGGATATAGAGC
2291891 TCTAAAGGATATAGAGC
1 TCTAAAGGATATAGAGC
2291908 T
1 T
2291909 TTGAAGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (17 bp):
TCTAAAGGATATAGAGC
Found at i:2307454 original size:42 final size:42
Alignment explanation
Indices: 2307358--2307440 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
2307348 TATTTATTTT
*
2307358 AATAGTGATAAAAACAATTGTCGTCATAAATCATCAACTAAA
1 AATAGTGATAAAAACAATTGTCGTCATAAATCACCAACTAAA
* *
2307400 AATAGTGATAAAAATAATTGTCGTCATAGATCACCAACTAA
1 AATAGTGATAAAAACAATTGTCGTCATAAATCACCAACTAA
2307441 GGCTGATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (42 bp):
AATAGTGATAAAAACAATTGTCGTCATAAATCACCAACTAAA
Found at i:2308697 original size:16 final size:16
Alignment explanation
Indices: 2308672--2308714 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
2308662 AAATCATTTT
2308672 TAAAACATTTTAGAAA
1 TAAAACATTTTAGAAA
* * *
2308688 TAAAATATTTTATATA
1 TAAAACATTTTAGAAA
2308704 TAAAACATTTT
1 TAAAACATTTT
2308715 CTTCCACTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (16 bp):
TAAAACATTTTAGAAA
Found at i:2309800 original size:12 final size:12
Alignment explanation
Indices: 2309783--2309809 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2309773 TATAGTAAAG
2309783 AAATTTTCCCCT
1 AAATTTTCCCCT
2309795 AAATTTTCCCCT
1 AAATTTTCCCCT
2309807 AAA
1 AAA
2309810 GAAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATTTTCCCCT
Found at i:2311342 original size:12 final size:12
Alignment explanation
Indices: 2311325--2311349 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2311315 TATTAGCATA
2311325 ATATAGAATATT
1 ATATAGAATATT
2311337 ATATAGAATATT
1 ATATAGAATATT
2311349 A
1 A
2311350 ACACTCACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
ATATAGAATATT
Found at i:2313946 original size:26 final size:28
Alignment explanation
Indices: 2313888--2313947 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
2313878 GAGTTTATGA
2313888 TTTTTTTGAGATTTTTAGAAATTTATTAG
1 TTTTTTTGAGATTTTTAGAAATTTA-TAG
2313917 -TTTTTTGAGA-TTTT-GAAATTTA-AG
1 TTTTTTTGAGATTTTTAGAAATTTATAG
*
2313941 GTTTTTT
1 TTTTTTT
2313948 ATAATTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 2 0.07
25 6 0.20
26 8 0.27
27 4 0.13
28 10 0.33
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (28 bp):
TTTTTTTGAGATTTTTAGAAATTTATAG
Found at i:2317966 original size:21 final size:20
Alignment explanation
Indices: 2317932--2317970 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2317922 CAATCATAAA
*
2317932 ATATGAAATATATTAATTTT
1 ATATAAAATATATTAATTTT
2317952 ATATAAAATTATATTAATT
1 ATATAAAA-TATATTAATT
2317971 GAGTTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
ATATAAAATATATTAATTTT
Found at i:2323781 original size:13 final size:13
Alignment explanation
Indices: 2323763--2323792 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2323753 CCCCATTCTA
*
2323763 TTTATTTTTTTAC
1 TTTATTTTGTTAC
2323776 TTTATTTTGTTAC
1 TTTATTTTGTTAC
2323789 TTTA
1 TTTA
2323793 AATGTGCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTATTTTGTTAC
Found at i:2332821 original size:30 final size:31
Alignment explanation
Indices: 2332785--2332846 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
2332775 TACCTTCTTA
2332785 CATCGGTCCATAGA-TTTTCGAGTTAACCCT
1 CATCGGTCCATAGATTTTTCGAGTTAACCCT
2332815 CATCGGTCCATAGATTTTTCGAGTTAACCCT
1 CATCGGTCCATAGATTTTTCGAGTTAACCCT
2332846 C
1 C
2332847 GTACATTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (31 bp):
CATCGGTCCATAGATTTTTCGAGTTAACCCT
Found at i:2334398 original size:18 final size:19
Alignment explanation
Indices: 2334369--2334415 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
2334359 GGGATCTTCC
2334369 TCTTCTTCTTCCTCCTCTT
1 TCTTCTTCTTCCTCCTCTT
*
2334388 TCTTC-TCTTCCTCTTC-T
1 TCTTCTTCTTCCTCCTCTT
*
2334405 TCATCTTCTTC
1 TCTTCTTCTTC
2334416 TGGGGGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 15 0.60
19 5 0.20
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (19 bp):
TCTTCTTCTTCCTCCTCTT
Found at i:2340950 original size:14 final size:14
Alignment explanation
Indices: 2340931--2340958 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2340921 AGAATATTCT
2340931 TATTACCCTACAAG
1 TATTACCCTACAAG
2340945 TATTACCCTACAAG
1 TATTACCCTACAAG
2340959 ACAAGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
TATTACCCTACAAG
Found at i:2344269 original size:19 final size:20
Alignment explanation
Indices: 2344241--2344283 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
2344231 TCTTGTTCGT
*
2344241 TTGAAGGGGT-CGGTTCCCC
1 TTGAAGGGGTACGATTCCCC
*
2344260 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTA-CGATTCCCC
2344281 TTG
1 TTG
2344284 CCCCAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.30
Consensus pattern (20 bp):
TTGAAGGGGTACGATTCCCC
Found at i:2354709 original size:64 final size:63
Alignment explanation
Indices: 2354614--2354754 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 63
2354604 CACATTGAAT
* *
2354614 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAAATGGTACATCGATGCATAAGG-A
1 GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTACATCGATGCAT-AGGTA
* * * * **
2354677 GTGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATAGGTA
1 GTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAGGCAAATGGTACATCGATGCATAGGTA
2354741 GTGCATCGATGCAC
1 GTGCATCGATGCAC
2354755 ATGTTAAAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 19 0.28
64 48 0.72
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTACATCGATGCATAGGTA
Found at i:2355516 original size:31 final size:31
Alignment explanation
Indices: 2355478--2355539 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
2355468 AGATTCGAGG
*
2355478 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
2355509 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
2355540 ATTGCTGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:2355562 original size:30 final size:30
Alignment explanation
Indices: 2355528--2355597 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
2355518 GGTTCTTCGG
* * * *
2355528 GACCTATGGACAATTGCTGAGGTTCTTTAT
1 GACCTCTGGACAATTACCGAGGATCTTTAT
* *
2355558 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAATTACCGAGGATCTTTAT
2355588 GACCTCTGGA
1 GACCTCTGGA
2355598 TAGGTCCTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (30 bp):
GACCTCTGGACAATTACCGAGGATCTTTAT
Found at i:2355617 original size:30 final size:30
Alignment explanation
Indices: 2355546--2355602 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
2355536 GACAATTGCT
* *
2355546 GAGGTTCTTTATGACCTCTGGATAGTTACC
1 GAGGATCTTTATGACCTCTGGATAGGTACC
2355576 GAGGATCTTTATGACCTCTGGATAGGT
1 GAGGATCTTTATGACCTCTGGATAGGT
2355603 CCTTCGGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (30 bp):
GAGGATCTTTATGACCTCTGGATAGGTACC
Found at i:2375630 original size:23 final size:23
Alignment explanation
Indices: 2375600--2375648 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
2375590 ATAAGAACTC
2375600 CAACATGGAATAAATGAATAATA
1 CAACATGGAATAAATGAATAATA
*
2375623 CAACATGGAATAATTGAATAATA
1 CAACATGGAATAAATGAATAATA
2375646 CAA
1 CAA
2375649 TAATATGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.22
Consensus pattern (23 bp):
CAACATGGAATAAATGAATAATA
Found at i:2378163 original size:58 final size:59
Alignment explanation
Indices: 2378071--2378260 Score: 183
Period size: 59 Copynumber: 3.2 Consensus size: 59
2378061 TAGGGTAAAG
* * ** *
2378071 TACACAAATGGTCCCCTGACTATA-GGATACTACTTT-TTTAGT-CATTGACTATTAAAAGT
1 TACA-AAATGGTCCCCTAACTATAGGGAT--TACTTTGTTGAGTCCATCAACTATTAAAAAT
* * * *
2378130 TATAAAATAGTCCCCTAACTATAGGGAGTTACTTTGTTGAGTCCCTCAACTTTTAAAAAT
1 TACAAAATGGTCCCCTAACTATAGGGA-TTACTTTGTTGAGTCCATCAACTATTAAAAAT
* * *
2378190 TACAAAATGGCCCCCTAA-TATAGGGAATTACTTTGTTGAGTCTC-TCAACTACTAAAAGT
1 TACAAAATGGTCCCCTAACTATAGGG-ATTACTTTGTTGAGTC-CATCAACTATTAAAAAT
2378249 TACAAAATGGTC
1 TACAAAATGGTC
2378261 ACATGATAAT
Statistics
Matches: 109, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
58 23 0.21
59 56 0.51
60 30 0.28
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (59 bp):
TACAAAATGGTCCCCTAACTATAGGGATTACTTTGTTGAGTCCATCAACTATTAAAAAT
Found at i:2378226 original size:59 final size:60
Alignment explanation
Indices: 2378118--2378258 Score: 203
Period size: 59 Copynumber: 2.4 Consensus size: 60
2378108 TTAGTCATTG
* * * *
2378118 ACTATTAAAAGTTATAAAATAGTCCCCTAACTATAGGGAGTTACTTTGTTGAGTCCCTCA
1 ACTATTAAAAGTTACAAAATGGCCCCCTAACTATAGGGAATTACTTTGTTGAGTCCCTCA
* * *
2378178 ACTTTTAAAAATTACAAAATGGCCCCCTAA-TATAGGGAATTACTTTGTTGAGTCTCTCA
1 ACTATTAAAAGTTACAAAATGGCCCCCTAACTATAGGGAATTACTTTGTTGAGTCCCTCA
*
2378237 ACTACTAAAAGTTACAAAATGG
1 ACTATTAAAAGTTACAAAATGG
2378259 TCACATGATA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 46 0.65
60 25 0.35
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (60 bp):
ACTATTAAAAGTTACAAAATGGCCCCCTAACTATAGGGAATTACTTTGTTGAGTCCCTCA
Found at i:2379792 original size:19 final size:20
Alignment explanation
Indices: 2379751--2379793 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2379741 TAATTATACT
* *
2379751 AATTTTTTTGTACTATTTCA
1 AATTTTTTTATACTATTTAA
*
2379771 AATTTTTTTATA-TTTTTAA
1 AATTTTTTTATACTATTTAA
2379790 AATT
1 AATT
2379794 AATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
AATTTTTTTATACTATTTAA
Found at i:2380032 original size:22 final size:22
Alignment explanation
Indices: 2379991--2380032 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2379981 CTAAATCACT
*
2379991 ATTTTATTATTAATTTTAATTA
1 ATTTTATTATTAATTATAATTA
2380013 ATTTTATTAATTAA-TATAAT
1 ATTTTATT-ATTAATTATAAT
2380033 GGTAACACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTATTATTAATTATAATTA
Found at i:2380558 original size:20 final size:20
Alignment explanation
Indices: 2380533--2380683 Score: 221
Period size: 20 Copynumber: 7.5 Consensus size: 20
2380523 AAATGACCAA
*
2380533 CAAATTCGCAACACAGATGT
1 CAAATTCGCAACACAGAAGT
*
2380553 CAAATTTGCAACACAGAAGT
1 CAAATTCGCAACACAGAAGT
* *
2380573 CAAATTCGTAACACAAAAGT
1 CAAATTCGCAACACAGAAGT
*
2380593 CAAATTCGCAACATAGAAGT
1 CAAATTCGCAACACAGAAGT
*
2380613 CAAATTCGCAACACATAAGT
1 CAAATTCGCAACACAGAAGT
* *
2380633 CAAATTTGCAACACAAAAGT
1 CAAATTCGCAACACAGAAGT
*
2380653 CAAATTCGCAACACATAAGT
1 CAAATTCGCAACACAGAAGT
2380673 CAAATTCGCAA
1 CAAATTCGCAA
2380684 AGCGCGTTTA
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 117 1.00
ACGTcount: A:0.46, C:0.23, G:0.12, T:0.20
Consensus pattern (20 bp):
CAAATTCGCAACACAGAAGT
Found at i:2380749 original size:19 final size:19
Alignment explanation
Indices: 2380725--2380771 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
2380715 TTTCGAATTC
2380725 GAAACACAATATTAATTGA
1 GAAACACAATATTAATTGA
2380744 GAAACACAATATTAATTGA
1 GAAACACAATATTAATTGA
2380763 GAAACACAA
1 GAAACACAA
2380772 ATGTAAACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (19 bp):
GAAACACAATATTAATTGA
Found at i:2380882 original size:22 final size:22
Alignment explanation
Indices: 2380857--2380907 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
2380847 CTACGGCGAC
*
2380857 ATCCGTCCCCATCTCCGATGAA
1 ATCCGTCCCCATCTCCGACGAA
*
2380879 ATCCGTTCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
2380901 ATCCGTC
1 ATCCGTC
2380908 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:2382215 original size:20 final size:20
Alignment explanation
Indices: 2382187--2382224 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2382177 TTTTCTCGTT
*
2382187 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
2382207 GCGAAAGTCAAATTCGCA
1 GCGAAAGTCAAATTCGCA
2382225 TTGCGGTTTT
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:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:2382540 original size:18 final size:18
Alignment explanation
Indices: 2382517--2382552 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2382507 AAGCCGGTTG
*
2382517 TGATTGGGATTTTAATTT
1 TGATTGCGATTTTAATTT
*
2382535 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTAATTT
2382553 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTAATTT
Found at i:2385813 original size:19 final size:19
Alignment explanation
Indices: 2385791--2385831 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
2385781 TCAAAAATCG
2385791 AGTTGCGAATTTGAAATTC
1 AGTTGCGAATTTGAAATTC
2385810 AGTTGCGAATTTGAAATTC
1 AGTTGCGAATTTGAAATTC
2385829 AGT
1 AGT
2385832 GTTGCGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (19 bp):
AGTTGCGAATTTGAAATTC
Found at i:2385855 original size:20 final size:20
Alignment explanation
Indices: 2385811--2385878 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
2385801 TTGAAATTCA
* * *
2385811 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAAATTG-ACTTCTGT
* *
2385832 GTTGCGAAATTGATTTTTGT
1 GTTGCGAAATTGACTTCTGT
*
2385852 GTTGCGAATTTGACTTCTGT
1 GTTGCGAAATTGACTTCTGT
2385872 GTTGCGA
1 GTTGCGA
2385879 TTTATAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 29 0.73
21 11 0.28
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.43
Consensus pattern (20 bp):
GTTGCGAAATTGACTTCTGT
Found at i:2385896 original size:20 final size:20
Alignment explanation
Indices: 2385873--2385918 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2385863 GACTTCTGTG
*
2385873 TTGCGATTTATAAATTCGCA
1 TTGCGATTTACAAATTCGCA
*
2385893 TTGCGATTTACAAATTCGCG
1 TTGCGATTTACAAATTCGCA
2385913 TTGCGA
1 TTGCGA
2385919 ATTTGGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACAAATTCGCA
Found at i:2386932 original size:39 final size:39
Alignment explanation
Indices: 2386878--2386959 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
2386868 TTTTAATCTA
* *
2386878 AAATCTATTTTTTCTCTCCCTCTAAATAATATTAGGATT
1 AAATCTATTTTTTCTCTCACTCTAAATAAGATTAGGATT
2386917 AAATCTATTTTTTCTCTCACTCTAAATAAGATTAGGATT
1 AAATCTATTTTTTCTCTCACTCTAAATAAGATTAGGATT
2386956 AAAT
1 AAAT
2386960 TTAGAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (39 bp):
AAATCTATTTTTTCTCTCACTCTAAATAAGATTAGGATT
Found at i:2390189 original size:19 final size:20
Alignment explanation
Indices: 2390157--2390202 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
2390147 ACCCGACCCA
*
2390157 AAATAATATATTTATT-AAT
1 AAATATTATATTTATTCAAT
*
2390176 AAATATTATTTTTATTCAAT
1 AAATATTATATTTATTCAAT
2390196 AATATAT
1 AA-ATAT
2390203 AGATGAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 14 0.61
20 5 0.22
21 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATATTATATTTATTCAAT
Found at i:2395049 original size:2 final size:2
Alignment explanation
Indices: 2395042--2395082 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2395032 TGTGTAATAA
2395042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2395083 GGTATAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2395094 original size:11 final size:12
Alignment explanation
Indices: 2395043--2395096 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 12
2395033 GTGTAATAAA
2395043 TATATATATA--
1 TATATATATAGG
2395053 TATATATATA--
1 TATATATATAGG
2395063 TATATATATA--
1 TATATATATAGG
2395073 TATATATATAGG
1 TATATATATAGG
2395085 TATA-ATATAGG
1 TATATATATAGG
2395096 T
1 T
2395097 TATGTAATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
10 30 0.71
11 8 0.19
12 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (12 bp):
TATATATATAGG
Found at i:2395860 original size:23 final size:23
Alignment explanation
Indices: 2395834--2395883 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2395824 TCTTATATGG
*
2395834 CACTATGGTGCATTTCTACACGA
1 CACTATGGTGCAATTCTACACGA
* * *
2395857 CACTTTGGTGTAATTCTACATGA
1 CACTATGGTGCAATTCTACACGA
2395880 CACT
1 CACT
2395884 CCAATGCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (23 bp):
CACTATGGTGCAATTCTACACGA
Found at i:2396203 original size:2 final size:2
Alignment explanation
Indices: 2396196--2396221 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2396186 TATGTACCTG
2396196 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
2396222 TTGGATGCAT
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:2401837 original size:13 final size:13
Alignment explanation
Indices: 2401819--2401861 Score: 77
Period size: 13 Copynumber: 3.2 Consensus size: 13
2401809 GTCAAAGAAA
2401819 GTCAACGGTCACG
1 GTCAACGGTCACG
2401832 GTCAACGGTCACG
1 GTCAACGGTCACG
2401845 GTCAACGGTCAACG
1 GTCAACGGTC-ACG
2401859 GTC
1 GTC
2401862 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 23 0.79
14 6 0.21
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (13 bp):
GTCAACGGTCACG
Found at i:2401852 original size:20 final size:19
Alignment explanation
Indices: 2401823--2401878 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
2401813 AAGAAAGTCA
2401823 ACGGTCACGGTCAACGGTC
1 ACGGTCACGGTCAACGGTC
2401842 ACGGTCAACGGTCAACGGTC
1 ACGGTC-ACGGTCAACGGTC
* *
2401862 -GGGTC-GGGTCAACGGTC
1 ACGGTCACGGTCAACGGTC
2401879 GGGTCGGGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 11 0.32
19 10 0.29
20 13 0.38
ACGTcount: A:0.20, C:0.29, G:0.36, T:0.16
Consensus pattern (19 bp):
ACGGTCACGGTCAACGGTC
Found at i:2401873 original size:17 final size:17
Alignment explanation
Indices: 2401851--2401908 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
2401841 CACGGTCAAC
2401851 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
2401868 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
2401885 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
2401902 GGTCAAC
1 GGTCAAC
2401909 CCGGTTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.43, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:2401878 original size:7 final size:7
Alignment explanation
Indices: 2401819--2401861 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
2401809 GTCAAAGAAA
2401819 GTCAACG
1 GTCAACG
2401826 GTC-ACG
1 GTCAACG
2401832 GTCAACG
1 GTCAACG
2401839 GTC-ACG
1 GTCAACG
2401845 GTCAACG
1 GTCAACG
2401852 GTCAACG
1 GTCAACG
2401859 GTC
1 GTC
2401862 GGGTCGGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.35
7 22 0.65
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:2401926 original size:19 final size:19
Alignment explanation
Indices: 2401902--2401992 Score: 103
Period size: 19 Copynumber: 4.7 Consensus size: 19
2401892 AGTCGGGTCG
*
2401902 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
2401921 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* *
2401940 GGTCAAACCCGATTC-GAACT
1 GGTCAAA-CCGGTTCAG-ACC
* *
2401960 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
2401980 GGTCAAACCGGTT
1 GGTCAAACCGGTT
2401993 TTCCAGCAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
19 32 0.51
20 31 0.49
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:2401940 original size:10 final size:10
Alignment explanation
Indices: 2401909--2401942 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2401899 TCGGGTCAAC
2401909 CCGGTTCAGA
1 CCGGTTCAGA
*
2401919 CCGG-TCAAA
1 CCGGTTCAGA
2401928 CCGGTTCAGA
1 CCGGTTCAGA
2401938 CCGGT
1 CCGGT
2401943 CAAACCCGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.18
Consensus pattern (10 bp):
CCGGTTCAGA
Found at i:2401950 original size:39 final size:40
Alignment explanation
Indices: 2401902--2401992 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 40
2401892 AGTCGGGTCG
*
2401902 GGTC-AACCCGGTTC-AGACCGGTCAAACCGGTTC-AGACC
1 GGTCAAACCCGGTTCGA-ACCGGTCAAACCGGTTCAAAACC
* * *
2401940 GGTCAAACCCGATTCGAACTGGTCAAACCGGTTCAAAACT
1 GGTCAAACCCGGTTCGAACCGGTCAAACCGGTTCAAAACC
2401980 GGTCAAA-CCGGTT
1 GGTCAAACCCGGTT
2401993 TTCCAGCAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
38 4 0.09
39 30 0.67
40 11 0.24
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (40 bp):
GGTCAAACCCGGTTCGAACCGGTCAAACCGGTTCAAAACC
Found at i:2401989 original size:20 final size:19
Alignment explanation
Indices: 2401902--2401992 Score: 101
Period size: 20 Copynumber: 4.7 Consensus size: 19
2401892 AGTCGGGTCG
* *
2401902 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAAACC
*
2401921 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAAACC
* * *
2401940 GGTCAAACCCGATTCGAACT
1 GGTCAAA-CCGGTTCAAACC
*
2401960 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AAACC
2401980 GGTCAAACCGGTT
1 GGTCAAACCGGTT
2401993 TTCCAGCAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
19 31 0.49
20 32 0.51
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (19 bp):
GGTCAAACCGGTTCAAACC
Found at i:2409119 original size:13 final size:14
Alignment explanation
Indices: 2409101--2409130 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2409091 GTCAAAGAAA
2409101 GTCAACGGTC-ACG
1 GTCAACGGTCAACG
2409114 GTCAACGGTCAACG
1 GTCAACGGTCAACG
2409128 GTC
1 GTC
2409131 GGGTCGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:2409142 original size:17 final size:17
Alignment explanation
Indices: 2409120--2409177 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
2409110 CACGGTCAAC
2409120 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
2409137 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
* *
2409154 GGTCAACAGTCGGGTCA
1 GGTCAACGGTCGGGTCG
2409171 GGTCAAC
1 GGTCAAC
2409178 CCAGTTCAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:2409147 original size:7 final size:7
Alignment explanation
Indices: 2409101--2409130 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2409091 GTCAAAGAAA
2409101 GTCAACG
1 GTCAACG
2409108 GTC-ACG
1 GTCAACG
2409114 GTCAACG
1 GTCAACG
2409121 GTCAACG
1 GTCAACG
2409128 GTC
1 GTC
2409131 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:2409218 original size:9 final size:9
Alignment explanation
Indices: 2409187--2409259 Score: 65
Period size: 9 Copynumber: 7.7 Consensus size: 9
2409177 CCCAGTTCAG
2409187 ACCGGTCAA
1 ACCGGTCAA
* *
2409196 ATCGGTTCAG
1 ACCGG-TCAA
2409206 ACCGGTCAA
1 ACCGGTCAA
*
2409215 ACCGGTTCGA
1 ACCGG-TCAA
*
2409225 ACTGGTCAA
1 ACCGGTCAA
2409234 ACCGGTTCAAA
1 ACCGG-TC-AA
*
2409245 ACTGGTCAA
1 ACCGGTCAA
2409254 ACCGGT
1 ACCGGT
2409260 TTTCATGCAG
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
9 26 0.52
10 18 0.36
11 6 0.12
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.19
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:2409249 original size:20 final size:19
Alignment explanation
Indices: 2409171--2409260 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
2409161 AGTCGGGTCA
* * * *
2409171 GGTCAACCCAGTTCAGACC
1 GGTCAAACCGGTTCAAACT
* * *
2409190 GGTCAAATCGGTTCAGACC
1 GGTCAAACCGGTTCAAACT
*
2409209 GGTCAAACCGGTTCGAACT
1 GGTCAAACCGGTTCAAACT
2409228 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AAACT
2409248 GGTCAAACCGGTT
1 GGTCAAACCGGTT
2409261 TTCATGCAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
19 45 0.73
20 17 0.27
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (19 bp):
GGTCAAACCGGTTCAAACT
Done.