Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003132.1 Hibiscus syriacus cultivar Beakdansim tig00006570_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: 1555756
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:553599 original size:87 final size:87
Alignment explanation
Indices: 553453--553615 Score: 308
Period size: 87 Copynumber: 1.9 Consensus size: 87
553443 TATGTTATAT
553453 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
553518 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* *
553540 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
553605 AGCGCTTATAT
66 AGCGCTTATAT
553616 TGACCTATTT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:554018 original size:162 final size:162
Alignment explanation
Indices: 553751--554047 Score: 513
Period size: 162 Copynumber: 1.8 Consensus size: 162
553741 TGCATTCACC
* *
553751 TTTTGTCATTTATAGATCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTAGAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
*
553816 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
553881 CACTTTCAACATATCCGGTAGCGCTTTACCTG
131 CACTTTCAACATATCCGGTAGCGCTTTACCTG
* * * * *
553913 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATT
1 TTTTGTCATTTAGAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
553978 TTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
554043 TACTT
131 CACTT
554048 ATAATAAATT
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 126 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (162 bp):
TTTTGTCATTTAGAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
TTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
CACTTTCAACATATCCGGTAGCGCTTTACCTG
Found at i:554100 original size:162 final size:159
Alignment explanation
Indices: 553768--554103 Score: 390
Period size: 162 Copynumber: 2.1 Consensus size: 159
553758 ATTTATAGAT
* *
553768 CGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACA
1 CGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATTTTTATAAAATATCGACA
* * *
553833 CTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGACACTTTCAACATATCCG
66 CTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGACACTTTAAAAATATCCA
* * * * * ***
553898 GTAGCGCTTTACCTGTTTTGTCATTTCGAGAC
131 CTAGCACATAACCGGTAGCGTCATTT---GAC
* * *
553930 CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATTTTTATAAAATATCGACA
1 CGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATTTTTATAAAATATCGACA
*
553995 CTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTAT
66 CTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGACACTT-TAA-AAA-TAT
**
554060 CGACACTTTCAACATAACCGGTAGCG-C-TTT-AC
128 C--CACTAGC-ACATAACCGGTAGCGTCATTTGAC
*
554092 CTGTTTTGTCAT
1 CGGTTTTGTCAT
554104 TTCGAGACCG
Statistics
Matches: 148, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
162 125 0.84
163 2 0.01
164 2 0.01
165 4 0.03
166 3 0.02
167 4 0.03
168 8 0.05
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (159 bp):
CGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATTTTTATAAAATATCGACA
CTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGACACTTTAAAAATATCCA
CTAGCACATAACCGGTAGCGTCATTTGAC
Found at i:554101 original size:182 final size:182
Alignment explanation
Indices: 553877--554570 Score: 1234
Period size: 182 Copynumber: 3.8 Consensus size: 182
553867 TCCAAAAGTG
*
553877 TCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
1 TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
* * *
553942 ATTTTTACCTGTTATATTGTTATGTATCGATACATTTTTATAAAATATCGACACTTTATTGGCGC
66 ATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGC
554007 TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTA
131 TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTA
554059 TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
1 TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
* *
554124 ATTTTTACATGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACGTTATTGGCGC
66 ATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGC
554189 TATAACTTCTTCTCTTATT-AATTCCAAAA--GTCGATACTTATAATAAATTA
131 TATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCGATACTTATAATAAATTA
554239 TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
1 TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
554304 ATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGC
66 ATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGC
*
554369 TATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGATACGTATAATAAATTA
131 TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTA
*
554420 TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGATTTTGTCAT
1 TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
* * * * *
554485 ATTTTTACCTGTTATATTGTTATAGATCGATATATTTTTATAAAGTATCGACACTTTATTGACGA
66 ATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGC
554550 TATAACTTCTTCTCTTTTAAA
131 TATAACTTCTTCTCTTTTAAA
554571 AAAGGTAAAA
Statistics
Matches: 492, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
178 2 0.00
179 19 0.04
180 155 0.32
181 150 0.30
182 164 0.33
183 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (182 bp):
TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
ATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGC
TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTA
Found at i:554556 original size:361 final size:361
Alignment explanation
Indices: 553877--554569 Score: 1271
Period size: 361 Copynumber: 1.9 Consensus size: 361
553867 TCCAAAAGTG
*
553877 TCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
1 TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
* *
553942 ATTTTTACCTGTTATATTGTTATGTATCGATACATTTTTATAAAATATCGACACTTTATTGGCGC
66 ATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGCGC
*
554007 TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAA
131 TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAA
*
554072 CATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTT
196 CATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTT
* * *
554137 ATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCT
261 ATATTGTTATAGATCGATATATTTTTATAAAGTATCGACACGTTATTGACGATATAACTTCTTCT
554202 CTTATTAATTCCAAAAGTCGATACTTATAATAAATTA
326 CTT-TTAATTCCAAAAGTCGATACTTATAATAAATTA
554239 TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
1 TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
*
554304 ATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGC
66 ATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGCGC
554369 TATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAA
131 TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAA
*
554433 CATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTT
196 CATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTT
*
554498 ATATTGTTATAGATCGATATATTTTTATAAAGTATCGACACTTTATTGACGATATAACTTCTTCT
261 ATATTGTTATAGATCGATATATTTTTATAAAGTATCGACACGTTATTGACGATATAACTTCTTCT
554563 CTTTTAA
326 CTTTTAA
554570 AAAAGGTAAA
Statistics
Matches: 320, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
360 4 0.01
361 184 0.57
362 132 0.41
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (361 bp):
TCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCAT
ATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGCGC
TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAA
CATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTT
ATATTGTTATAGATCGATATATTTTTATAAAGTATCGACACGTTATTGACGATATAACTTCTTCT
CTTTTAATTCCAAAAGTCGATACTTATAATAAATTA
Found at i:557582 original size:179 final size:182
Alignment explanation
Indices: 557277--557611 Score: 568
Period size: 179 Copynumber: 1.8 Consensus size: 182
557267 AAAAGTATGA
* * *
557277 ACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGATATATTTAT
1 ACACAATATTAAAAAGTGTCGATATAGG-TGTA-ACCTATTCTCTCACAAAACAGATATATCTAT
* *
557342 ACCGGTTATATTAAAAAATTACCTATTACATTATAATTGTGGGTTCCGATGTTTTTTCAATCGAC
64 ACCGATTATATTAAAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAATCGAC
557407 ACTTTTTGAAAAGGTATCGACACTTTTTTCATCTATTCTGGACATAAAGTAGCG
129 ACTTTTTGAAAAGGTATCGACACTTTTTTCATCTATTCTGGACATAAAGTAGCG
*
557461 ACACAATATTAAAAAGTGTCGATATA-G-GT-ACCTATTCTCTCACAAAACAGGTATATCTATAC
1 ACACAATATTAAAAAGTGTCGATATAGGTGTAACCTATTCTCTCACAAAACAGATATATCTATAC
*
557523 CGATTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAATCGACAC
66 CGATTATATTAAAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAATCGACAC
557588 TTTTTGAAAAGGTATCGACACTTT
131 TTTTTGAAAAGGTATCGACACTTT
557612 ATGCTGATAT
Statistics
Matches: 144, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
179 115 0.80
181 2 0.01
183 1 0.01
184 26 0.18
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (182 bp):
ACACAATATTAAAAAGTGTCGATATAGGTGTAACCTATTCTCTCACAAAACAGATATATCTATAC
CGATTATATTAAAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAATCGACAC
TTTTTGAAAAGGTATCGACACTTTTTTCATCTATTCTGGACATAAAGTAGCG
Found at i:558919 original size:12 final size:12
Alignment explanation
Indices: 558898--558937 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
558888 GTTTGGATCA
*
558898 TCATCATCATCG
1 TCATCTTCATCG
558910 TCATCTTCATCG
1 TCATCTTCATCG
* *
558922 TCAGCTTCATCT
1 TCATCTTCATCG
558934 TCAT
1 TCAT
558938 TGACCGCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:560784 original size:200 final size:200
Alignment explanation
Indices: 560435--561422 Score: 1832
Period size: 200 Copynumber: 4.9 Consensus size: 200
560425 GATATTTAAA
*
560435 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTATACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
560500 GTATACTTATACCGGTTAGATTGAAAAATTATCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
* *
560565 TGGGATCGACACATTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTTT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
560630 GGACC
196 GGACC
*
560635 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATGTATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
560700 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTT
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
*
560765 TGGGATTGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
560830 GGACC
196 GGACC
560835 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
560900 ATATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
*
560965 TAGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
561030 GGACC
196 GGACC
*
561035 AATAGTATCGACACAAAATTAAAAAGTTTCGATACATATATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
561100 ATATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
*
561165 TGGGATCGACACCTTATATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
561230 GGACC
196 GGACC
*
561235 AATAGTATCGACACAAAATTAAAAAGTGTCGATAGATATATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
561300 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
* * *
561365 TGGGATTGACACCTTTTATATATGGATCGACACTTTATGGTTGTACCCTGTTTTCCAT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
561423 ATTGTAAATT
Statistics
Matches: 766, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 766 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:561681 original size:19 final size:19
Alignment explanation
Indices: 561657--561705 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
561647 TTACATTCAC
561657 ATACAAAATTATAAATCGT-
1 ATACAAAATTATAAATC-TA
561676 ATACAAAATTATAAATCTA
1 ATACAAAATTATAAATCTA
*
561695 ATATAAAATTA
1 ATACAAAATTA
561706 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 1 0.04
19 27 0.96
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCTA
Found at i:563309 original size:33 final size:33
Alignment explanation
Indices: 563257--563344 Score: 142
Period size: 33 Copynumber: 2.7 Consensus size: 33
563247 ATAACATCGA
*
563257 CTTCCTTCCT-CCTCATTTCTTCCATCTCTTCTT
1 CTTCC-TCCTCCCTCTTTTCTTCCATCTCTTCTT
563290 CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
1 CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
*
563323 CTTCTTCCTCCCTCTTTTCTTC
1 CTTCCTCCTCCCTCTTTTCTTC
563345 TTCATATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
32 4 0.08
33 48 0.92
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.52
Consensus pattern (33 bp):
CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
Found at i:563569 original size:33 final size:33
Alignment explanation
Indices: 563532--563597 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
563522 CATCTTAAGA
*
563532 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
563565 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
563598 CCATCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:563658 original size:21 final size:21
Alignment explanation
Indices: 563634--563674 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
563624 CTTATGCCTC
563634 TCAAGTGTATCTTCGACTCTA
1 TCAAGTGTATCTTCGACTCTA
* *
563655 TCAAGTTTCTCTTCGACTCT
1 TCAAGTGTATCTTCGACTCT
563675 TGATTGTCTT
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:564232 original size:12 final size:12
Alignment explanation
Indices: 564215--564239 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
564205 TTATTGATCC
564215 AATCAATCTCGA
1 AATCAATCTCGA
564227 AATCAATCTCGA
1 AATCAATCTCGA
564239 A
1 A
564240 TGAATATATT
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:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (12 bp):
AATCAATCTCGA
Found at i:566256 original size:181 final size:182
Alignment explanation
Indices: 565900--566373 Score: 698
Period size: 182 Copynumber: 2.6 Consensus size: 182
565890 CGTACTTACG
* * * * * *
565900 AAAGTATCGACACTTTTAGTATATCCGATATCATTTTACCGATTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
565965 TATCATATTTTTACTTGTTATATCGTTGTTTGATCGATACATTTTTTTAAAGTATCGACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTG-TTGATCGATACATTTTTTGAAAGTATCGACACTTTA
*
566030 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
130 TAGGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * * *
566082 AAAGTTTCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCAGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
566147 TATCATATTTTTACCTGTTATATCGTTGTTGATCGGTATATTTTTTGAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTGAAAGTATCGACACTTTAT
*
566212 AGGCGCTAAAACTGCTTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATT
131 AGGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * ** *
566264 AAAGTACCGACACTTTAAATATATTCGGTACCGCTTTACCGGTTTTATCATTTCAATACTGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
566329 TGTCATAGTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTT
566374 AATTTGGATC
Statistics
Matches: 260, Mismatches: 31, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
181 82 0.32
182 178 0.68
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTGAAAGTATCGACACTTTAT
AGGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
Found at i:567146 original size:20 final size:19
Alignment explanation
Indices: 567100--567158 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
567090 TCCGGTAGCG
* *
567100 TTTTACCGGTTTCATCATT
1 TTTTACCAGTTTTATCATT
*
567119 TTGATACCAGTTTTATCATAT
1 TT-TTACCAGTTTTATCAT-T
* *
567140 TTTTACCTGTTATATCATT
1 TTTTACCAGTTTTATCATT
567159 GTTGATCGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (19 bp):
TTTTACCAGTTTTATCATT
Found at i:567264 original size:182 final size:181
Alignment explanation
Indices: 566885--567358 Score: 689
Period size: 182 Copynumber: 2.6 Consensus size: 181
566875 CATACTTACG
* * * * *
566885 AAAGTATCGGCACTTTTAATATATCTGGTATCATTTTACCGGTTTTATCATTTTGATACTGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACTGGTTT
*
566950 TATCATATTTTTACCTGTTATATCGTTGTTTGATCGATACATTTTTTTAAAGTATCGACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTG-TTGATCGATACATTTTTTGAAAGTATCGACACTTTA
*
567015 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAATGTGTCGATCCTTATAT
130 TAGGCGCTAAAACTGCTTCTCTTTTAAATTAACAATGTGTCGATCCTTATAT
* * * * * **
567067 AAAGTTTCAACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCAGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACTGGTTT
* *
567132 TATCATATTTTTACCTGTTATATCATTGTTGATCGATATATTTTTTGAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTGAAAGTATCGACACTTTAT
567197 AGGCGCTAAAACTGCTTCTCTTTTAAATTAACGAA-GTGTCGATCCTTATATT
131 AGGCGCTAAAACTGCTTCTCTTTTAAATTAAC-AATGTGTCGATCCTTATA-T
* * * * **
567249 AAAGTACCGACACTTTAAATATATTCGATACCGCTTTACCGGTTTTATCATTTCAATACTGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACTGGTTT
* * *
567314 TGTCATAGTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTT
567359 AATTTGGATC
Statistics
Matches: 258, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
181 81 0.31
182 177 0.69
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACTGGTTT
TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTGAAAGTATCGACACTTTAT
AGGCGCTAAAACTGCTTCTCTTTTAAATTAACAATGTGTCGATCCTTATAT
Found at i:567490 original size:985 final size:985
Alignment explanation
Indices: 565577--567525 Score: 3601
Period size: 985 Copynumber: 2.0 Consensus size: 985
565567 TAAAAACCCT
* *
565577 ATCGCGATTACTGTAATAATAAAAAATTAGGGTTTCGACAACATACTTTTCGATTCGACTGCAGC
1 ATCGCGATTACTGTAATAATAAAAAATTAGGGTTTCAAAAACATACTTTTCGATTCGACTGCAGC
*
565642 AACAAACAAACAAACTTCGCTTTAGAAACGCCTTCTGAAATACAGCAACAATTACACTTCGATTT
66 AACAAACAAACAAACTTCACTTTAGAAACGCCTTCTGAAATACAGCAACAATTACACTTCGATTT
* *
565707 CAAAAAGTCGTCCGTTCTATCTATTTTCAGAGGATATTTAGCTATGACCTTTATATTTTTATCAC
131 CAAAAACTCGTCCGTTCTATCTATTTTCAGAGGATATTTAGCTATGACCTTTATATTTTCATCAC
565772 ATATGTTATTTATATTTAATCGATACAAATACAAAAGTGTCGATACTTTTATGTCAGCTGTCGAT
196 ATATGTTATTTATATTTAATCGATACAAATACAAAAGTGTCGATACTTTTATGTCAGCTGTCGAT
* *
565837 ACTTTCGAAAGGATAATTACTTATTTATTTGAAAGTATCGATAATTTATTACACGTACTTACGAA
261 ACTTTCGAAAGGATAATTACGTATTTATTTGAAAGTATCGATAATTTATTACACATACTTACGAA
*
565902 AGTATCGACACTTTTAGTATATCCGATATCATTTTACCGATTTTATCATTTTGATACCGGTTTTA
326 AGTATCGACACTTTTAATATATCCGATATCATTTTACCGATTTTATCATTTTGATACCGGTTTTA
*
565967 TCATATTTTTACTTGTTATATCGTTGTTTGATCGATACATTTTTTTAAAGTATCGACACTTTATA
391 TCATATTTTTACCTGTTATATCGTTGTTTGATCGATACATTTTTTTAAAGTATCGACACTTTATA
*
566032 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTTTCGACACTT
456 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTTTCAACACTT
566097 TCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCAGTTTTATCATATTTTTACC
521 TCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCAGTTTTATCATATTTTTACC
* *
566162 TGTTATATCGTTGTTGATCGGTATATTTTTTGAAAGTATCGACACTTTATAGGCGCTAAAACTGC
586 TGTTATATCATTGTTGATCGATATATTTTTTGAAAGTATCGACACTTTATAGGCGCTAAAACTGC
*
566227 TTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATTAAAGTACCGACACTTTAAATATATTCGG
651 TTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATTAAAGTACCGACACTTTAAATATATTCGA
566292 TACCGCTTTACCGGTTTTATCATTTCAATACTGGTTTTGTCATAGTTTTACCTGTTATATCGTTG
716 TACCGCTTTACCGGTTTTATCATTTCAATACTGGTTTTGTCATAGTTTTACCTGTTATATCGTTG
* *
566357 TGGATCGATACATTTTTAATTTGGATCGACACGAACCGACAAGTTAAGTTTGCCGGTTGCACACT
781 TGGATCGATACATTTTTAATTTGGATCGACACGAACCGACAAGTTAAGTTTGCAGGTTGCACAAT
566422 TTTTTAATATTTCTTCATGACTTAGACCTACTACATTATTATTAGTCAACATTTCCGATAGCGCT
846 TTTTTAATATTTCTTCATGACTTAGACCTACTACATTATTATTAGTCAACATTTCCGATAGCGCT
*
566487 AAACCGAATTTGTTAAATATATTTTAATATATCCAGTAACGCCGTATATTAACCTGTCGTTCCTG
911 AAACCGAATTTATTAAATATATTTTAATATATCCAGTAACGCCGTATATTAACCTGTCGTTCCTG
566552 ATACATTCCC
976 ATACATTCCC
566562 ATCGCGATTACTGTAATAATAAAAAATTAGGGTTTCAAAAACATACTTTTCGATTCGACTGCAGC
1 ATCGCGATTACTGTAATAATAAAAAATTAGGGTTTCAAAAACATACTTTTCGATTCGACTGCAGC
* *
566627 AACAAACAAACAAACTTCACTTTAGAAACGCCTTCTGAAATGCAGCAACAATTACGCTTCGATTT
66 AACAAACAAACAAACTTCACTTTAGAAACGCCTTCTGAAATACAGCAACAATTACACTTCGATTT
* **
566692 CAAAAACTCGTCCGTTCTATCTATTTTTAGAGGATATTTAGCTATGACCTTTATATTTTCATCGG
131 CAAAAACTCGTCCGTTCTATCTATTTTCAGAGGATATTTAGCTATGACCTTTATATTTTCATCAC
*
566757 ATATGTTATTTATATTTAATCGATACAAATACAAAAGTGTCGATACTTTTATGTCAGGTGTCGAT
196 ATATGTTATTTATATTTAATCGATACAAATACAAAAGTGTCGATACTTTTATGTCAGCTGTCGAT
*
566822 ACTTTCGAAAGGATAATTACGTATTTCTTTGAAAGTATCGATAATTTATTACACATACTTACGAA
261 ACTTTCGAAAGGATAATTACGTATTTATTTGAAAGTATCGATAATTTATTACACATACTTACGAA
* * * * *
566887 AGTATCGGCACTTTTAATATATCTGGTATCATTTTACCGGTTTTATCATTTTGATACTGGTTTTA
326 AGTATCGACACTTTTAATATATCCGATATCATTTTACCGATTTTATCATTTTGATACCGGTTTTA
566952 TCATATTTTTACCTGTTATATCGTTGTTTGATCGATACATTTTTTTAAAGTATCGACACTTTATA
391 TCATATTTTTACCTGTTATATCGTTGTTTGATCGATACATTTTTTTAAAGTATCGACACTTTATA
*
567017 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAATGTGTCGATCCTTATATAAAGTTTCAACACTT
456 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTTTCAACACTT
567082 TCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCAGTTTTATCATATTTTTACC
521 TCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCAGTTTTATCATATTTTTACC
567147 TGTTATATCATTGTTGATCGATATATTTTTTGAAAGTATCGACACTTTATAGGCGCTAAAACTGC
586 TGTTATATCATTGTTGATCGATATATTTTTTGAAAGTATCGACACTTTATAGGCGCTAAAACTGC
567212 TTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATTAAAGTACCGACACTTTAAATATATTCGA
651 TTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATTAAAGTACCGACACTTTAAATATATTCGA
567277 TACCGCTTTACCGGTTTTATCATTTCAATACTGGTTTTGTCATAGTTTTACCTGTTATATCGTTG
716 TACCGCTTTACCGGTTTTATCATTTCAATACTGGTTTTGTCATAGTTTTACCTGTTATATCGTTG
* *
567342 TGGATCGATACATTTTTAATTTGGATCGACACGAACCGATAAGTTAAGTTTGCAGGTTGCATAAT
781 TGGATCGATACATTTTTAATTTGGATCGACACGAACCGACAAGTTAAGTTTGCAGGTTGCACAAT
*
567407 TTTTTAATATTTCTTCATGACTTAGACCTACTACATTATTATTAGTCAACATTTCCGGTAGCGCT
846 TTTTTAATATTTCTTCATGACTTAGACCTACTACATTATTATTAGTCAACATTTCCGATAGCGCT
*
567472 AAACCGAATTTATTAAATATCTTTTAATATATCCAGTAACGCCGTATATTAACC
911 AAACCGAATTTATTAAATATATTTTAATATATCCAGTAACGCCGTATATTAACC
567526 GTATATTAAC
Statistics
Matches: 931, Mismatches: 33, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
985 931 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (985 bp):
ATCGCGATTACTGTAATAATAAAAAATTAGGGTTTCAAAAACATACTTTTCGATTCGACTGCAGC
AACAAACAAACAAACTTCACTTTAGAAACGCCTTCTGAAATACAGCAACAATTACACTTCGATTT
CAAAAACTCGTCCGTTCTATCTATTTTCAGAGGATATTTAGCTATGACCTTTATATTTTCATCAC
ATATGTTATTTATATTTAATCGATACAAATACAAAAGTGTCGATACTTTTATGTCAGCTGTCGAT
ACTTTCGAAAGGATAATTACGTATTTATTTGAAAGTATCGATAATTTATTACACATACTTACGAA
AGTATCGACACTTTTAATATATCCGATATCATTTTACCGATTTTATCATTTTGATACCGGTTTTA
TCATATTTTTACCTGTTATATCGTTGTTTGATCGATACATTTTTTTAAAGTATCGACACTTTATA
GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTTTCAACACTT
TCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCAGTTTTATCATATTTTTACC
TGTTATATCATTGTTGATCGATATATTTTTTGAAAGTATCGACACTTTATAGGCGCTAAAACTGC
TTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATTAAAGTACCGACACTTTAAATATATTCGA
TACCGCTTTACCGGTTTTATCATTTCAATACTGGTTTTGTCATAGTTTTACCTGTTATATCGTTG
TGGATCGATACATTTTTAATTTGGATCGACACGAACCGACAAGTTAAGTTTGCAGGTTGCACAAT
TTTTTAATATTTCTTCATGACTTAGACCTACTACATTATTATTAGTCAACATTTCCGATAGCGCT
AAACCGAATTTATTAAATATATTTTAATATATCCAGTAACGCCGTATATTAACCTGTCGTTCCTG
ATACATTCCC
Found at i:571703 original size:20 final size:20
Alignment explanation
Indices: 571666--571704 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
571656 AGATTGAGTG
* * *
571666 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
571686 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
571705 AGTTTTTGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:571922 original size:20 final size:21
Alignment explanation
Indices: 571876--571936 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
571866 TTCCCCTGTG
571876 GGGGGAATCGGTTTCCCTTCAAA
1 GGGGGAATCGG-TTCCC-TCAAA
571899 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
571919 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
571937 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 5 0.14
23 11 0.31
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:581115 original size:23 final size:23
Alignment explanation
Indices: 581085--581146 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
581075 ATGACCCGAA
*
581085 TTGGACTTGGATGACCACTGGAT
1 TTGGACTTGGATGACCACTGGAC
581108 TTGGACTTGGATGACCACTGGAC
1 TTGGACTTGGATGACCACTGGAC
581131 TTGGACTTGGATGACC
1 TTGGACTTGGATGACC
581147 CGAACCTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (23 bp):
TTGGACTTGGATGACCACTGGAC
Found at i:581174 original size:3 final size:3
Alignment explanation
Indices: 581156--581204 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
581146 CCGAACCTTG
*
581156 TAA TAA AAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
581203 TA
1 TA
581205 TCAGGACGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:581984 original size:34 final size:34
Alignment explanation
Indices: 581944--582009 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
581934 TCGTATTATT
*
581944 TATGTTTTAATTATCAAATATTTCATTATTTTGG
1 TATGTTTTAATTATCAAATATTGCATTATTTTGG
*
581978 TATGTTTTAATTTTCAAATATTGCATTATTTT
1 TATGTTTTAATTATCAAATATTGCATTATTTT
582010 CGTCAAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.58
Consensus pattern (34 bp):
TATGTTTTAATTATCAAATATTGCATTATTTTGG
Found at i:588520 original size:19 final size:17
Alignment explanation
Indices: 588479--588510 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
588469 ACACATTCAA
588479 TTAATTTAGTCTTAATT
1 TTAATTTAGTCTTAATT
588496 TTAATTTA-TCTTAAT
1 TTAATTTAGTCTTAAT
588511 AAATTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (17 bp):
TTAATTTAGTCTTAATT
Found at i:589476 original size:18 final size:19
Alignment explanation
Indices: 589441--589477 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
589431 CACGGAATGT
589441 AAGATTATCAGTGGGAATAA
1 AAGATTATCAG-GGGAATAA
589461 AAGATTATCA-GGGAATA
1 AAGATTATCAGGGGAATA
589478 GGATTACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.24
Consensus pattern (19 bp):
AAGATTATCAGGGGAATAA
Found at i:589899 original size:3 final size:3
Alignment explanation
Indices: 589891--589928 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
589881 ATTTTAGTCA
*
589891 AAC AAC AAC AAC AAT AAC AAC AAC AAC AA- AACC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA-C AAC AA
589929 AACCCTATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.68, C:0.29, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:589911 original size:15 final size:14
Alignment explanation
Indices: 589890--589928 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
589880 CATTTTAGTC
589890 AAACAACAACAACA
1 AAACAACAACAACA
589904 ATAACAACAACAACA
1 A-AACAACAACAACA
589919 AAACCAACAA
1 AAA-CAACAA
589929 AACCCTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.69, C:0.28, G:0.00, T:0.03
Consensus pattern (14 bp):
AAACAACAACAACA
Found at i:607368 original size:22 final size:22
Alignment explanation
Indices: 607317--607358 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
607307 ATTGAATAAA
*
607317 TACAACTA-GTTTTATTATTAT
1 TACAAATATGTTTTATTATTAT
607338 TACAAATATGTTTATATTATT
1 TACAAATATGTTT-TATTATT
607359 TTAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (22 bp):
TACAAATATGTTTTATTATTAT
Found at i:612656 original size:15 final size:16
Alignment explanation
Indices: 612636--612668 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
612626 ATTAAAAAAA
612636 TATCATA-TTTGTAAT
1 TATCATACTTTGTAAT
*
612651 TATCATACTTTTTAAT
1 TATCATACTTTGTAAT
612667 TA
1 TA
612669 ATCGATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (16 bp):
TATCATACTTTGTAAT
Found at i:613325 original size:16 final size:17
Alignment explanation
Indices: 613275--613326 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
613265 ATAAAAAATA
613275 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
613292 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
613307 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
613323 AATT
1 AATT
613327 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:616244 original size:15 final size:15
Alignment explanation
Indices: 616220--616255 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
616210 GTATCATTAA
*
616220 ATTAATTTATAAAAC
1 ATTAAATTATAAAAC
*
616235 ATTAAATTATAAAAT
1 ATTAAATTATAAAAC
616250 ATTAAA
1 ATTAAA
616256 CGTATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTAAATTATAAAAC
Found at i:629087 original size:229 final size:229
Alignment explanation
Indices: 628634--629353 Score: 1291
Period size: 229 Copynumber: 3.1 Consensus size: 229
628624 GTTATATTGT
* * * * * * *
628634 AAAGTATCTATCTTTTTTATAAAAATGTCCATACTTATTTAACTGT-AAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
628698 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAA
*
628763 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-
130 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
628827 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
*
628862 AAAGTATATATCATTTTTATAAAAGTGTTTATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
628927 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
628992 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
629057 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
* *
629091 AAAGTATATATCATTTTTATAAAAGTATACATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
629156 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
*
629221 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
629286 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
629320 GAAGTATATATCATTTTTATAAAAGTGTTCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTTCATAC
629354 GTATAAAAGT
Statistics
Matches: 473, Mismatches: 17, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
228 112 0.24
229 361 0.76
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:629425 original size:20 final size:19
Alignment explanation
Indices: 629402--629448 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
629392 CGATATACCA
629402 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
629422 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
629442 GGTAAAA
1 GGTAAAA
629449 CTTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:629606 original size:20 final size:19
Alignment explanation
Indices: 629583--629629 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
629573 CGATATAACA
629583 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
629603 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
629623 GGTAAAA
1 GGTAAAA
629630 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:629631 original size:17 final size:19
Alignment explanation
Indices: 629592--629634 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
629582 AGGTAAAAAT
629592 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
629612 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
629629 ATGATA
1 ATGATA
629635 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:630323 original size:23 final size:23
Alignment explanation
Indices: 630292--630355 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
630282 ATAGGTAAAA
*
630292 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
630315 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
630338 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
630356 TTGTAAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:630805 original size:23 final size:23
Alignment explanation
Indices: 630774--630837 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
630764 ATAGGTAAAA
*
630774 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
630797 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
630820 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
630838 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:631284 original size:23 final size:23
Alignment explanation
Indices: 631254--631317 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
631244 TAGGTAAAAA
*
631254 ATATAATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
631277 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
631300 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
631318 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:631471 original size:480 final size:481
Alignment explanation
Indices: 630235--633150 Score: 5358
Period size: 480 Copynumber: 6.1 Consensus size: 481
630225 CAATTGCTTC
* *
630235 AAAATGTATCGATCCATTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
1 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
*
630300 TAATAGGTAGCGCTTATATAATGTAATATGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
66 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
* *
630365 ATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATC
131 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
630430 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
196 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
630495 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
261 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA-TTATTATTATCTTT
*
630560 GATTAATATTGTTAAATTTAAAATT-TAAATATTATTTTATAAAATATCAAAACAATCAAATAAT
325 GGTTAATATTGTTAAATTT-AAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAAT
630624 TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA
389 TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA
630689 AATTGAAACATAAATTACATAACTTTAA
454 AATTGAAACATAAATTACATAACTTTAA
630717 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
1 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
630782 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
66 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
630847 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
131 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
630912 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
196 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
630977 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA-T-TTATTATCTTTG
261 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTATTATTATCTTTG
631040 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
326 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
631105 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
391 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
631170 TTGAAACATAAATTACATAACTTTAA
456 TTGAAACATAAATTACATAACTTTAA
*
631196 AAAGAA-TATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAATATAA
1 AAA-AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGT-AAAAATATGA
*
631260 TGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAA
64 TGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAA
* * *
631325 GTATCTATCTTTTTTATAAAAGTGTCCATATTTTTTTCATTGTGGAAAACATTAATTTAAGGTTA
129 GTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
*
631390 TCTTTTGAGTGAGTTTTAAGAAATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
194 TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
631455 TTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
259 TTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA-TTATTATTATCT
*
631520 TTGGTTAATATTGTTAAATTTAAAATCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
323 TTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
*
631585 TTTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAA
388 -TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
631650 AAAATTGAAACATAAATTACATAACTTTAA
452 AAAATTGAAACATAAATTACATAACTTTAA
*
631680 AAAGAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
1 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
631745 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
66 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
*
631810 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATC
131 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
631875 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
196 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
*
631940 ACG--ATATA-TATTATTAAATTAAAAACAATAAAC--ATATA-TACATATTTATTA-TAT-ATT
261 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA-TTATTATTATCTTT
631997 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA-T
325 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
632061 TTTT-TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
390 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
632125 ATTGAAACATAAATTACATAACTTTAA
455 ATTGAAACATAAATTACATAACTTTAA
*
632152 AAAGAGTATCGATCCTTTTTAT-AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
1 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
632216 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
66 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
*
632281 ATCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTCACTGTAGAAAACATTAATTTAAGGTTATC
131 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
632345 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
196 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
*
632410 ACG--ATATA-TATTATTAAATTAAAAACAATAAACATATATA-TACATATTTATTATTATATTT
261 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA-TTATTATTATCTTT
632471 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
325 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
632536 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
390 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
632601 ATTGAAACATAAATTACATAACTTTAA
455 ATTGAAACATAAATTACATAACTTTAA
632628 AAAAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
1 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
632692 TAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TAT-ATGTAATAGGTAGTTGTAAAGT
66 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
*
632754 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATC
131 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
632819 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
196 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
632884 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATATTACATATTTATTATTATCT
261 ACGATATATATTATTATTAAATTAAAAACAATAAAC--ATATATATTACATA-TTATTATTATCT
*
632949 TTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAAGCAAATAA
323 TTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
633014 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
388 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
633079 AAATTGAAACATAAATTACATAACTTTAA
453 AAATTGAAACATAAATTACATAACTTTAA
*
633108 AAAAATTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
1 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
633151 CATATTATAA
Statistics
Matches: 2379, Mismatches: 32, Indels: 47
0.97 0.01 0.02
Matches are distributed among these distances:
470 133 0.06
471 136 0.06
472 126 0.05
473 59 0.02
474 169 0.07
475 77 0.03
476 186 0.08
477 38 0.02
478 10 0.00
479 218 0.09
480 469 0.20
481 32 0.01
482 306 0.13
483 277 0.12
484 143 0.06
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (481 bp):
AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTATTATTATCTTTG
GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
TTGAAACATAAATTACATAACTTTAA
Found at i:631768 original size:23 final size:23
Alignment explanation
Indices: 631737--631800 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
631727 ATAGGTAAAA
*
631737 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
631760 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
631783 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
631801 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:632239 original size:23 final size:23
Alignment explanation
Indices: 632208--632271 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
632198 ATAGGTAAAA
*
632208 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
632231 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
632254 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
632272 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:632737 original size:20 final size:23
Alignment explanation
Indices: 632684--632744 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
632674 ATAGGTAAAA
*
632684 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
632707 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
632729 -TAT-ATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
632745 TTGTAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.34
21 3 0.09
22 2 0.06
23 18 0.51
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:633799 original size:18 final size:19
Alignment explanation
Indices: 633776--633816 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
633766 AAGTTCACTT
633776 ATATT-ACTTATAATAAAA
1 ATATTAACTTATAATAAAA
*
633794 ATATTAGATTTATAATAAAA
1 ATATTA-ACTTATAATAAAA
633814 ATA
1 ATA
633817 ATAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
20 15 0.75
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
ATATTAACTTATAATAAAA
Found at i:634705 original size:3 final size:3
Alignment explanation
Indices: 634697--634735 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
634687 TACCTCATAC
634697 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
634736 AAAAAACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:639158 original size:23 final size:23
Alignment explanation
Indices: 639130--639176 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
639120 TTATTGAATC
639130 AGACATATACTAGTTTTCATGAT
1 AGACATATACTAGTTTTCATGAT
639153 AGACATATACTAGTTTTCATGAT
1 AGACATATACTAGTTTTCATGAT
639176 A
1 A
639177 ATTTGGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (23 bp):
AGACATATACTAGTTTTCATGAT
Found at i:643535 original size:214 final size:215
Alignment explanation
Indices: 643166--643595 Score: 853
Period size: 214 Copynumber: 2.0 Consensus size: 215
643156 TTGTAGAATC
643166 CATTCAGCCTTGGTTACGAGAATAGGTTAATAAAGCGATAACATATCTCAGTTTCATTTATGAAG
1 CATTCAGCCTTGGTTACGAGAATAGGTTAATAAAGCGATAACATATCTCAGTTTCATTTATGAAG
643231 TCGAGTCAGAATTTCTCGAATGAGAAACTCTCATATTACTCGTAAGATACTTTATAGAATTTAGA
66 TCGAGTCAGAATTTCTCGAATGAGAAACTCTCATATTACTCGTAAGATACTTTATAGAATTTAGA
643296 AAAATGTTATTAGTATTCCTTTATGCAAAGGTAGAGACCTAACGGATTGAAAACTTAGGTTATAT
131 AAAATGTTATTAGTATTCCTTTATGCAAAGGTAGAGACCTAACGGATTGAAAACTTAGGTTATAT
643361 CATTAC-GAGAGGGACTCAA
196 CATTACAGAGAGGGACTCAA
643380 CATTCAGCCTTGGTTACGAGAATAGGTTAATAAAGCGATAACATATCTCAGTTTCATTTATGAAG
1 CATTCAGCCTTGGTTACGAGAATAGGTTAATAAAGCGATAACATATCTCAGTTTCATTTATGAAG
643445 TCGAGTCAGAATTTCTCGAATGAGAAACTCTCATATTACTCGTAAGATACTTTATAGAATTTAGA
66 TCGAGTCAGAATTTCTCGAATGAGAAACTCTCATATTACTCGTAAGATACTTTATAGAATTTAGA
643510 AAAATGTTATTAGTATTCCTTTATGCAAAGGTAGAGACCTAACGGATTGAAAACTTAGGTTATAT
131 AAAATGTTATTAGTATTCCTTTATGCAAAGGTAGAGACCTAACGGATTGAAAACTTAGGTTATAT
643575 CATTACAGAGAGGGACTCAA
196 CATTACAGAGAGGGACTCAA
643595 C
1 C
643596 CTTAGAGTTC
Statistics
Matches: 215, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
214 201 0.93
215 14 0.07
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (215 bp):
CATTCAGCCTTGGTTACGAGAATAGGTTAATAAAGCGATAACATATCTCAGTTTCATTTATGAAG
TCGAGTCAGAATTTCTCGAATGAGAAACTCTCATATTACTCGTAAGATACTTTATAGAATTTAGA
AAAATGTTATTAGTATTCCTTTATGCAAAGGTAGAGACCTAACGGATTGAAAACTTAGGTTATAT
CATTACAGAGAGGGACTCAA
Found at i:648718 original size:21 final size:21
Alignment explanation
Indices: 648692--648731 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
648682 CAGAACCCCA
*
648692 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
648713 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
648732 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:652615 original size:22 final size:21
Alignment explanation
Indices: 652573--652612 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
652563 GAGTTTGTTT
*
652573 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
652594 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
652613 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:658094 original size:25 final size:28
Alignment explanation
Indices: 658055--658108 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
658045 TCATAAAATG
658055 ATTTATCAGTACTCAGAAATA-AAACAA
1 ATTTATCAGTACTCAGAAATATAAACAA
* *
658082 ATTT-TCA-TACTCATATATATAAACAA
1 ATTTATCAGTACTCAGAAATATAAACAA
658108 A
1 A
658109 ATACAATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.42
26 10 0.42
27 4 0.17
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (28 bp):
ATTTATCAGTACTCAGAAATATAAACAA
Found at i:671227 original size:5 final size:5
Alignment explanation
Indices: 671217--671242 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
671207 ACTTTCATGT
671217 TGATA TGATA TGATA TGATA TGATA T
1 TGATA TGATA TGATA TGATA TGATA T
671243 AACTTGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (5 bp):
TGATA
Found at i:671352 original size:2 final size:2
Alignment explanation
Indices: 671345--671422 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
671335 TTCTGTTGAA
671345 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
671387 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
671423 CAACTGGTGT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:672074 original size:19 final size:19
Alignment explanation
Indices: 672008--672076 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
671998 CAAATTACAC
*
672008 TAACTCATTACCATTCCAG
1 TAACTCATTAACATTCCAG
* *
672027 TAACTCATTAAAATT-TA-
1 TAACTCATTAACATTCCAG
* *
672044 -AACACTTTAACATTCCAG
1 TAACTCATTAACATTCCAG
672062 TAACTCATTAACATT
1 TAACTCATTAACATT
672077 ATTCAAATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
16 11 0.29
17 1 0.03
18 1 0.03
19 25 0.66
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (19 bp):
TAACTCATTAACATTCCAG
Found at i:674560 original size:10 final size:10
Alignment explanation
Indices: 674542--674575 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
674532 AATACGCTTT
674542 TTGAAATATG
1 TTGAAATATG
*
674552 TTGAGATATG
1 TTGAAATATG
674562 TTGAAATATG
1 TTGAAATATG
674572 TTGA
1 TTGA
674576 GAGATACAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (10 bp):
TTGAAATATG
Found at i:678028 original size:22 final size:22
Alignment explanation
Indices: 677994--678036 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
677984 ACAAGTACAT
*
677994 ATCACTCATATGACTCATGTAG
1 ATCACTCAAATGACTCATGTAG
*
678016 ATCACTTAAATGACTCATGTA
1 ATCACTCAAATGACTCATGTA
678037 CCTTTGTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACTCAAATGACTCATGTAG
Found at i:678127 original size:65 final size:65
Alignment explanation
Indices: 678016--678333 Score: 438
Period size: 65 Copynumber: 4.9 Consensus size: 65
678006 ACTCATGTAG
* * * *
678016 ATCACTTAAATGACTCATGTACCTTTGTGGTGCATGAGGTGAAGTGATAATTGAATACAATACAA
1 ATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACAATACAT
* *
678081 ATCACTCATATGACTCATGTACCTTTGTGGTGCATGGGGTGGAGTGATAATTGAATACAGTACAT
1 ATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACAATACAT
* ** * * * *
678146 ATCACTCATATGATTCATGTATTTTTATGGTGCATGAGGTGGAGTGATAATTAAATATAGTACAT
1 ATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACAATACAT
** * * *
678211 ATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTAAAATGATAATTGAATATAATGCAT
1 ATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACAATACAT
* * * *
678276 ATAACTTATATGACTCATGTACCTTTGTGGTGTATGAGGTGGAATGATAATTGAATAC
1 ATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATAC
678334 TGCAAAAATC
Statistics
Matches: 224, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 224 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (65 bp):
ATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATACAATACAT
Found at i:678869 original size:5 final size:5
Alignment explanation
Indices: 678850--678973 Score: 96
Period size: 5 Copynumber: 23.8 Consensus size: 5
678840 TATATTTACT
* *
678850 TTTTA TTTT- TCTTA TTTTA TTTTA TTTTA TTTTA TTTGT- TTTT- TTTTC
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA
*
678898 TTTTA TTTT- TTTTA TTTTTTA TTTTA TTTTTTA TATTA GTTTTA -TTTA
1 TTTTA TTTTA TTTTA --TTTTA TTTTA --TTTTA TTTTA -TTTTA TTTTA
678946 TTTATA TATTTA TTTTCA TTTGTA TTTT
1 TTT-TA T-TTTA TTTT-A TTT-TA TTTT
678974 CCTCTTGTTT
Statistics
Matches: 100, Mismatches: 5, Indels: 28
0.75 0.04 0.21
Matches are distributed among these distances:
4 16 0.16
5 52 0.52
6 19 0.19
7 13 0.13
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:678902 original size:34 final size:33
Alignment explanation
Indices: 678855--678948 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 33
678845 TTACTTTTTA
*
678855 TTTTTCTTATTTTATTTTATTTTATTTTATT-TGT
1 TTTTTTTTATTTTATTTTATTTTATTTT-TTAT-T
*
678889 TTTTTTTTCTTTTATTTT-TTTTATTTTTTATT
1 TTTTTTTTATTTTATTTTATTTTATTTTTTATT
*
678921 TTATTTTTTATATTAGTTTTA-TTTATTT
1 TT-TTTTTTATTTTA-TTTTATTTTATTT
678949 ATATATTTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
32 5 0.10
33 20 0.38
34 27 0.52
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (33 bp):
TTTTTTTTATTTTATTTTATTTTATTTTTTATT
Found at i:678904 original size:39 final size:39
Alignment explanation
Indices: 678861--678973 Score: 115
Period size: 39 Copynumber: 2.8 Consensus size: 39
678851 TTTATTTTTC
*
678861 TTATTTTATTTTATTTTATTTTATTTGTTTTTTTTTCTT
1 TTATTTTATTTTATTTTATTTTATTTGTTTTTTTTACTT
* * *
678900 TTATTTT-TTTTATTTTTTATTTTATTT-TTTATATTAGTT
1 TTATTTTATTTTA--TTTTATTTTATTTGTTTTTTTTACTT
*
678939 TTA-TTTATTTATATATTTATTTTCATTTGTATTTT
1 TTATTTTATTT-TAT-TTTATTTT-ATTTGTTTTTT
678974 CCTCTTGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
38 9 0.15
39 29 0.48
40 19 0.32
41 3 0.05
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.78
Consensus pattern (39 bp):
TTATTTTATTTTATTTTATTTTATTTGTTTTTTTTACTT
Found at i:678907 original size:16 final size:15
Alignment explanation
Indices: 678849--678929 Score: 67
Period size: 16 Copynumber: 5.1 Consensus size: 15
678839 ATATATTTAC
*
678849 TTTTTA-TTTTTCTT
1 TTTTTATTTTTTTTT
*
678863 ATTTTATTTTATTTTAT
1 TTTTTATTTT-TTTT-T
678880 TTTATT-TGTTTTTTTT
1 TTT-TTAT-TTTTTTTT
678896 TCTTTTATTTTTTTTAT
1 T-TTTTATTTTTTTT-T
678913 TTTTTATTTTATTTTT
1 TTTTTATTTT-TTTTT
678929 T
1 T
678930 ATATTAGTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
14 5 0.09
15 3 0.05
16 25 0.45
17 17 0.31
18 5 0.09
ACGTcount: A:0.12, C:0.02, G:0.01, T:0.84
Consensus pattern (15 bp):
TTTTTATTTTTTTTT
Found at i:678928 original size:19 final size:19
Alignment explanation
Indices: 678844--678966 Score: 80
Period size: 19 Copynumber: 6.4 Consensus size: 19
678834 TTTCCATATA
*
678844 TTTACTTTTTATTTTTCTTAT
1 TTTATTTTTTA-TTTT-TTAT
678865 TTTA--TTTTA--TTTTAT
1 TTTATTTTTTATTTTTTAT
*
678880 TTTATTTGTTT-TTTTTTCT
1 TTTATTT-TTTATTTTTTAT
678899 TTTATTTTTTTTATTTTTTAT
1 TTTA--TTTTTTATTTTTTAT
*
678920 TTTATTTTTTA--TATTAGT
1 TTTATTTTTTATTTTTTA-T
*
678938 TTTATTTATTTATATATTTAT
1 TTTATTT-TTTAT-TTTTTAT
678959 TTTCATTT
1 TTT-ATTT
678967 GTATTTTCCT
Statistics
Matches: 83, Mismatches: 5, Indels: 27
0.72 0.04 0.23
Matches are distributed among these distances:
15 8 0.10
16 2 0.02
17 5 0.06
18 11 0.13
19 25 0.30
20 3 0.04
21 22 0.27
22 7 0.08
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTATTTTTTATTTTTTAT
Found at i:679036 original size:5 final size:5
Alignment explanation
Indices: 679026--679161 Score: 54
Period size: 5 Copynumber: 26.6 Consensus size: 5
679016 AGTATTTTCC
* * *
679026 TTTAT TTTAT TCTTATT TTTAT TTTAT TTTAT TTTGCT CGTTGT CTTTAT
1 TTTAT TTTAT T-TTA-T TTTAT TTTAT TTTAT TTT-AT -TTTAT -TTTAT
*
679076 TTTA- TTTA- TTTAT TTT-T CTTCA- TTT-T TTTAT TTCT-T TTGT-T
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TT-TAT TT-TAT
* * *
679117 TTTAT GTT-C TTTAT TTTAT TTAGTTT TTTAT CTTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TT--TAT TTTAT -TTTAT TTTAT TTT
679162 TTATATATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 30
0.70 0.10 0.21
Matches are distributed among these distances:
4 17 0.17
5 59 0.58
6 18 0.18
7 8 0.08
ACGTcount: A:0.14, C:0.07, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:679047 original size:12 final size:11
Alignment explanation
Indices: 679026--679162 Score: 50
Period size: 11 Copynumber: 12.3 Consensus size: 11
679016 AGTATTTTCC
679026 TTTATTTTATT
1 TTTATTTTATT
*
679037 CTTATTTT-TAT
1 TTTATTTTAT-T
679048 TTTATTTTATT
1 TTTATTTTATT
** * * *
679059 TTGCTCGTTGTC
1 TTTAT-TTTATT
679071 TTTATTTTATTT
1 TTTATTTTA-TT
*
679083 ATTTATTTT-TC
1 -TTTATTTTATT
* *
679094 TTCATTTTTTT
1 TTTATTTTATT
* *
679105 ATTTCTTTTGTT
1 -TTTATTTTATT
* *
679117 TTTA-TGT-TC
1 TTTATTTTATT
679126 TTTATTTTATT
1 TTTATTTTATT
*
679137 TAGTT-TTTTATC
1 T--TTATTTTATT
679149 TTTATTTTATT
1 TTTATTTTATT
679160 TTT
1 TTT
679163 TATATATTTT
Statistics
Matches: 89, Mismatches: 25, Indels: 24
0.64 0.18 0.17
Matches are distributed among these distances:
9 5 0.06
10 14 0.16
11 37 0.42
12 23 0.26
13 10 0.11
ACGTcount: A:0.14, C:0.07, G:0.04, T:0.75
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:679048 original size:17 final size:16
Alignment explanation
Indices: 679026--679060 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
679016 AGTATTTTCC
679026 TTTATTTTATTCTTATT
1 TTTATTTTATT-TTATT
679043 TTTATTTTATTTTATT
1 TTTATTTTATTTTATT
679059 TT
1 TT
679061 GCTCGTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTTTATTTTATT
Found at i:679085 original size:9 final size:9
Alignment explanation
Indices: 679071--679239 Score: 68
Period size: 9 Copynumber: 18.6 Consensus size: 9
679061 GCTCGTTGTC
679071 TTTATTTTA
1 TTTATTTTA
679080 TTTA-TTTA
1 TTTATTTTA
679088 TTT-TTCTTCA
1 TTTATT-TT-A
679098 TTT-TTTTA
1 TTTATTTTA
* *
679106 TTTCTTTTGTT
1 TTT-ATTT-TA
* *
679117 TTTATGTTC
1 TTTATTTTA
679126 TTTATTTTA
1 TTTATTTTA
*
679135 TTTAGTTT-
1 TTTATTTTA
679143 TTTATCTTTA
1 TTTAT-TTTA
679153 TTT-TATTT-
1 TTTAT-TTTA
*
679161 TTTA-TATA
1 TTTATTTTA
679169 TTT-TCTTTA
1 TTTAT-TTTA
*
679178 TCTTATTTTC
1 T-TTATTTTA
*
679188 CTT-TTTTA
1 TTTATTTTA
679196 TTTATTTTTA
1 TTTA-TTTTA
**
679206 TTTCCTTTA
1 TTTATTTTA
*
679215 TATTATTTGTC
1 T-TTATTT-TA
*
679226 TTTAGTTTA
1 TTTATTTTA
679235 TTTAT
1 TTTAT
679240 CTTCACTGCA
Statistics
Matches: 119, Mismatches: 23, Indels: 36
0.67 0.13 0.20
Matches are distributed among these distances:
7 2 0.02
8 28 0.24
9 46 0.39
10 36 0.30
11 7 0.06
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:679107 original size:59 final size:56
Alignment explanation
Indices: 679041--679165 Score: 130
Period size: 55 Copynumber: 2.2 Consensus size: 56
679031 TTTATTCTTA
* *
679041 TTTTTATTTTATTTTATTTTGCTCGTTGTCTTTATTTTATTTA-TTTATTTTTCTTCATT
1 TTTTTATTTTATTTTATTTTGAT-G-T-TCTTTATTTTATTTAGTTT-TTTATCTTCATT
* * * *
679100 TTTTTA-TTTCTTTTGTTTTTATGTTCTTTATTTTATTTAGTTTTTTATCTTTATT
1 TTTTTATTTTATTTTATTTTGATGTTCTTTATTTTATTTAGTTTTTTATCTTCATT
*
679155 TTATT-TTTTAT
1 TTTTTATTTTAT
679166 ATATTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
55 33 0.59
56 4 0.07
57 1 0.02
58 12 0.21
59 6 0.11
ACGTcount: A:0.14, C:0.06, G:0.05, T:0.75
Consensus pattern (56 bp):
TTTTTATTTTATTTTATTTTGATGTTCTTTATTTTATTTAGTTTTTTATCTTCATT
Found at i:679181 original size:31 final size:30
Alignment explanation
Indices: 679071--679204 Score: 107
Period size: 30 Copynumber: 4.4 Consensus size: 30
679061 GCTCGTTGTC
*
679071 TTTATTTTATTTATTTAT-TT-TTCTTCATTTT
1 TTTA-TTTATTTTTTTATCTTATT-TTCA-TTT
* * * *
679102 TTTATTTCTTTTGTT-T-TTATGTTCTTTAT
1 TTTATTTATTTTTTTATCTTATTTTCATT-T
*
679131 TTTATTTAGTTTTTTATCTTTATTTT-ATTT
1 TTTATTTATTTTTTTATC-TTATTTTCATTT
* *
679161 TTTATATATTTTCTTTATCTTATTTTCCTTT
1 TTTATTTATTTT-TTTATCTTATTTTCATTT
679192 TTTATTTATTTTT
1 TTTATTTATTTTT
679205 ATTTCCTTTA
Statistics
Matches: 82, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
28 2 0.02
29 19 0.23
30 29 0.35
31 26 0.32
32 6 0.07
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (30 bp):
TTTATTTATTTTTTTATCTTATTTTCATTT
Found at i:679184 original size:30 final size:31
Alignment explanation
Indices: 679098--679204 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 31
679088 TTTTTCTTCA
* * * *
679098 TTTT-TTTATTTCTTTTGTTTTTATGTTCTTT
1 TTTTATTTATTT-TTTTATCTTTATTTTCATT
*
679129 ATTTTATTTAGTTTTTTATCTTTATTTT-ATT
1 -TTTTATTTATTTTTTTATCTTTATTTTCATT
* *
679160 TTTTATATATTTTCTTTATC-TTATTTTCCTT
1 TTTTATTTATTTT-TTTATCTTTATTTTCATT
679191 TTTTATTTATTTTT
1 TTTTATTTATTTTT
679205 ATTTCCTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
30 19 0.30
31 22 0.35
32 16 0.25
33 6 0.10
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.77
Consensus pattern (31 bp):
TTTTATTTATTTTTTTATCTTTATTTTCATT
Found at i:679186 original size:14 final size:13
Alignment explanation
Indices: 679071--679242 Score: 72
Period size: 14 Copynumber: 12.8 Consensus size: 13
679061 GCTCGTTGTC
*
679071 TTTATTTTATTTA
1 TTTATTTTCTTTA
*
679084 TTTATTTTTCTTCA
1 TTTA-TTTTCTTTA
* *
679098 TTT-TTTTATTTCT
1 TTTATTTTCTTT-A
* * *
679111 TTTGTTTTTATGTTC
1 TTT-ATTTTCT-TTA
*
679126 TTTATTTTATTTA
1 TTTATTTTCTTTA
679139 GTTT-TTTATCTTTA
1 -TTTATTT-TCTTTA
679153 TTT-TATTT-TTTA
1 TTTAT-TTTCTTTA
*
679165 TATATTTTCTTTA
1 TTTATTTTCTTTA
679178 TCTTATTTTCCTTT-
1 T-TTATTTT-CTTTA
*
679192 TTTA-TTT-ATT-
1 TTTATTTTCTTTA
*
679202 TTTATTTCCTTTA
1 TTTATTTTCTTTA
679215 TATTATTTGTCTTTA
1 T-TTATTT-TCTTTA
679230 GTTTATTTATCTT
1 -TTTATTT-TCTT
679243 CACTGCATTT
Statistics
Matches: 125, Mismatches: 16, Indels: 34
0.71 0.09 0.19
Matches are distributed among these distances:
10 6 0.05
11 2 0.02
12 20 0.16
13 27 0.22
14 39 0.31
15 28 0.22
16 3 0.02
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTATTTTCTTTA
Found at i:679193 original size:48 final size:49
Alignment explanation
Indices: 679076--679238 Score: 124
Period size: 48 Copynumber: 3.2 Consensus size: 49
679066 TTGTCTTTAT
* * * *
679076 TTTATTTATTTA-TTTTTCTTCA-TT-TTTTTATTTCTTTTGTTTTTATGTTC
1 TTTATTTATTTACCTTTT-TT-ATTTATTTTTATTTC-TTT-ATATTATTTTC
*
679126 TTTATTTTATTTA-GTTTTTTATCTT-TATTTTATTT-TTTATA-TATTTTC
1 TTTA-TTTATTTACCTTTTTTAT-TTAT-TTTTATTTCTTTATATTATTTTC
*
679174 TTTATCTTATTTTCCTTTTTTATTTATTTTTATTTCCTTTATATTATTTGTC
1 TTTAT-TTATTTACCTTTTTTATTTATTTTTATTT-CTTTATATTATTT-TC
679226 TTTAGTTTATTTA
1 TTTA-TTTATTTA
679239 TCTTCACTGC
Statistics
Matches: 94, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
47 1 0.01
48 26 0.28
49 11 0.12
50 15 0.16
51 20 0.21
52 20 0.21
53 1 0.01
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (49 bp):
TTTATTTATTTACCTTTTTTATTTATTTTTATTTCTTTATATTATTTTC
Found at i:679199 original size:22 final size:23
Alignment explanation
Indices: 679169--679227 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
679159 TTTTTATATA
*
679169 TTTTCTTTATCTTAT-TTTCCTT
1 TTTTATTTATCTTATATTTCCTT
*
679191 TTTTATTTAT-TTTTATTTCCTT
1 TTTTATTTATCTTATATTTCCTT
*
679213 TATATTATTTGTCTT
1 T-T-TTATTTATCTT
679228 TAGTTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 17 0.57
23 1 0.03
24 7 0.23
25 2 0.07
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTATTTATCTTATATTTCCTT
Found at i:679214 original size:37 final size:39
Alignment explanation
Indices: 679153--679239 Score: 101
Period size: 37 Copynumber: 2.3 Consensus size: 39
679143 TTTATCTTTA
* *
679153 TTTTATTT-TTTATATATTTTCTTTATCTTATTT-TCCTT
1 TTTTATTTATTTATATATTTCCTTTATATTATTTGT-CTT
679191 TTTTATTTATTT-T-TATTTCCTTTATATTATTTGTCTT
1 TTTTATTTATTTATATATTTCCTTTATATTATTTGTCTT
679228 TAGTTTATTTAT
1 T--TTTATTTAT
679240 CTTCACTGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
37 21 0.49
38 10 0.23
39 12 0.28
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.72
Consensus pattern (39 bp):
TTTTATTTATTTATATATTTCCTTTATATTATTTGTCTT
Found at i:681227 original size:22 final size:22
Alignment explanation
Indices: 681199--681255 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
681189 TCTGGACAAG
681199 GTGCATCGATGCACATTCATAA
1 GTGCATCGATGCACATTCATAA
681221 GTGCATCGATGCACATTCATAA
1 GTGCATCGATGCACATTCATAA
681243 GTGCATCGATGCA
1 GTGCATCGATGCA
681256 TTCCTTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCATAA
Found at i:681328 original size:64 final size:64
Alignment explanation
Indices: 681244--681512 Score: 221
Period size: 64 Copynumber: 4.2 Consensus size: 64
681234 CATTCATAAG
* * **
681244 TGCATCGATGCATTCCT-TTAA-AAGAAGAACATCGAATGCCTTTGATGCATCGATGCAT-AGCT
1 TGCATCAATGCA-TCCTATTAATAAGAAGAACATCAAATGCAATT-ATGCATCGATGCATAAG-T
681306 AA
63 AA
* * * * * *
681308 TGCATCAATGCATCCTTTTAA-AATAATAACATCAAATGCAATCAATGCATCGATGCATAAGGAG
1 TGCATCAATGCATCCTATTAATAAGAAGAACATCAAATGCAAT-TATGCATCGATGCATAAGTAA
* *
681372 TGCATCAATGCATCCCATTAATAA-TAGAACATCAAATGCAATTAGTGCATCGATGCATAAGGT-
1 TGCATCAATGCATCCTATTAATAAGAAGAACATCAAATGCAATTA-TGCATCGATGCATAA-GTA
681435 A
64 A
* * * * * * *
681436 TGCATCGATGCAT-CTCATTAATAAGGA-AACATCGAATTCATTTTATGCACCGATGCACAAGTA
1 TGCATCAATGCATCCT-ATTAATAAGAAGAACATCAAATGCA-ATTATGCATCGATGCATAAGTA
*
681499 G
64 A
*
681500 TGCATCGATGCAT
1 TGCATCAATGCAT
681513 ACCTTCATTG
Statistics
Matches: 170, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
63 8 0.05
64 153 0.90
65 9 0.05
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (64 bp):
TGCATCAATGCATCCTATTAATAAGAAGAACATCAAATGCAATTATGCATCGATGCATAAGTAA
Found at i:682225 original size:30 final size:30
Alignment explanation
Indices: 682191--682254 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
682181 AAGGAACATA
*
682191 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * * *
682221 TGGATAGTTGCCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
682251 TGGA
1 TGGA
682255 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:683786 original size:19 final size:19
Alignment explanation
Indices: 683749--683811 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
683739 TTCTTGCAAT
*
683749 TCAATACAAAAGAAAAAAAA
1 TCAATGCAAAAG-AAAAAAA
683769 TCAATGCAAAAGAAAAAAA
1 TCAATGCAAAAGAAAAAAA
*
683788 TCAATGCAAAAGGGAAAAAA
1 TCAATGCAAAA-GAAAAAAA
683808 TCAA
1 TCAA
683812 ATAAACCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 18 0.45
20 22 0.55
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (19 bp):
TCAATGCAAAAGAAAAAAA
Found at i:684487 original size:112 final size:114
Alignment explanation
Indices: 684287--684513 Score: 370
Period size: 112 Copynumber: 2.0 Consensus size: 114
684277 GAGGATCCAT
* *
684287 CCAAACAAAAAAATGACATTTTTTACTCATCTTTTTTTCCATTATTTTGGCAACCAAAAAACATC
1 CCAAACAAAAAAATGACATTTTGTACTCATCTTTTTTTCCATTATTTCGGCAACCAAAAAACATC
* *
684352 CTCCCACAATTTTAATTCGTCCAAGCCGTGACCACCTTAGCTGGTTGTC
66 ATCCCACAATTTTAATTCATCCAAGCCGTGACCACCTTAGCTGGTTGTC
*
684401 CCAAAC-AAAAAATGACATTTTGTACTCATC-TTTTTTCCATTATTTCGGTAACCAAAAAATC-T
1 CCAAACAAAAAAATGACATTTTGTACTCATCTTTTTTTCCATTATTTCGGCAACCAAAAAA-CAT
*
684463 CATCCCACAATTTTTATTCATCCAAGCCGTGACCACCTTAGCTGGTTGTC
65 CATCCCACAATTTTAATTCATCCAAGCCGTGACCACCTTAGCTGGTTGTC
684513 C
1 C
684514 ACAATTGCAA
Statistics
Matches: 106, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
112 76 0.72
113 24 0.23
114 6 0.06
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.33
Consensus pattern (114 bp):
CCAAACAAAAAAATGACATTTTGTACTCATCTTTTTTTCCATTATTTCGGCAACCAAAAAACATC
ATCCCACAATTTTAATTCATCCAAGCCGTGACCACCTTAGCTGGTTGTC
Found at i:689335 original size:35 final size:35
Alignment explanation
Indices: 689289--689364 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
689279 AAAACGGTCC
* *
689289 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
689324 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
689359 TCAATT
1 TCAATT
689365 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:689896 original size:125 final size:127
Alignment explanation
Indices: 689760--690002 Score: 382
Period size: 130 Copynumber: 1.9 Consensus size: 127
689750 TATTTATATA
* *
689760 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTT-TAGGATCTGACA-TGTTA
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTACAGGATCTGACAGTGTTA
** *
689823 GTACATGATCATGACATGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 ACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
689885 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTT-A-CAGGATCTGACA-GTG
* *
689950 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
63 TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTA
690003 GAAGAAAATT
Statistics
Matches: 106, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
125 45 0.42
128 11 0.10
130 50 0.47
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (127 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTACAGGATCTGACAGTGTTA
ACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:690033 original size:130 final size:124
Alignment explanation
Indices: 689774--690033 Score: 263
Period size: 130 Copynumber: 2.0 Consensus size: 124
689764 ATTTGGTCCT
* * **
689774 AAATTAAATAGAATTTAATAAATTAATCATTTTAGGATCTGACATGTTAGTACATGATCATGACA
1 AAATTAAATAAAATTTAATAAATTAATCATTTCAGGATCTGACATGTTAACACATGATCATGACA
* *** * * **** *
689839 TGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
689899 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTT---CAGGATCTGACA--TGTTAACACATGATCA
* * *
689964 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
61 TGACATATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
690028 -A
123 CA
690029 AAATT
1 AAATT
690034 TGGGTCTTGG
Statistics
Matches: 109, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
125 31 0.28
128 11 0.10
130 54 0.50
132 8 0.07
133 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (124 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTCAGGATCTGACATGTTAACACATGATCATGACA
TATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:692197 original size:20 final size:21
Alignment explanation
Indices: 692152--692191 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
692142 AGTAGTGCAT
*
692152 GTACCAAGCACTAGGGTATCA
1 GTACTAAGCACTAGGGTATCA
692173 GTACTAAGCA-TAGGGTATC
1 GTACTAAGCACTAGGGTATC
692192 GATACTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (21 bp):
GTACTAAGCACTAGGGTATCA
Found at i:698546 original size:20 final size:22
Alignment explanation
Indices: 698521--698563 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
698511 AATTTTATAA
698521 TTAATA-T-AACTATAAATATT
1 TTAATATTAAACTATAAATATT
*
698541 TTAATATTAAATTATAAATATT
1 TTAATATTAAACTATAAATATT
698563 T
1 T
698564 GAATTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAATATTAAACTATAAATATT
Found at i:698554 original size:31 final size:31
Alignment explanation
Indices: 698494--698554 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
698484 ATATTTGAAT
* *
698494 TATAATTATAAATATTAAATTTTATAATTAA
1 TATAACTATAAATATTAAATATTATAATTAA
*
698525 TATAACTATAAATATTTTAATATTA-AATTA
1 TATAACTATAAATA-TTAAATATTATAATTA
698555 TAAATATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (31 bp):
TATAACTATAAATATTAAATATTATAATTAA
Found at i:698559 original size:22 final size:22
Alignment explanation
Indices: 698531--698596 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
698521 TTAATATAAC
698531 TATAAATATTTTAATATTAAAT
1 TATAAATATTTTAATATTAAAT
* *
698553 TATAAATATTTGAAT-TAAAAT
1 TATAAATATTTTAATATTAAAT
698574 TCATAGAAATATTTTAATTATTA
1 T-AT--AAATATTTTAA-TATTA
698597 CACTATCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 6 0.17
22 16 0.46
24 10 0.29
25 1 0.03
26 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (22 bp):
TATAAATATTTTAATATTAAAT
Found at i:699141 original size:20 final size:19
Alignment explanation
Indices: 699103--699147 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
699093 TTCTCAATAT
*
699103 TTTAATAAAAAATTGTTAC
1 TTTAATAAAAAATTATTAC
* *
699122 TATTAATAATAATTTATTAC
1 T-TTAATAAAAAATTATTAC
699142 TTTAAT
1 TTTAAT
699148 GATATTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTAATAAAAAATTATTAC
Found at i:702138 original size:31 final size:31
Alignment explanation
Indices: 702100--702193 Score: 143
Period size: 31 Copynumber: 3.0 Consensus size: 31
702090 AGGGTCGAGG
*
702100 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCAGGACATATGGACT
702131 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCAGGACATATGGACT
* * * *
702162 GATTACCTAGGTTCTTCAGAATATATGGACT
1 GTTTACCTATGTTCTTCAGGACATATGGACT
702193 G
1 G
702194 GTCATTCGGG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCAGGACATATGGACT
Found at i:703087 original size:19 final size:20
Alignment explanation
Indices: 703041--703091 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
703031 TAATGTTCAC
703041 TACTGTTCATATGATATTGT
1 TACTGTTCATATGATATTGT
703061 TCACTGTTCATATTG-TATT-T
1 T-ACTGTTCATA-TGATATTGT
703081 TACTGTTCATA
1 TACTGTTCATA
703092 AAACGTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.34
20 3 0.10
21 14 0.48
22 2 0.07
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.51
Consensus pattern (20 bp):
TACTGTTCATATGATATTGT
Found at i:706034 original size:31 final size:31
Alignment explanation
Indices: 705996--706073 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
705986 GGGTCGAGGG
*
705996 TTTACCTATGTTTTTCGAGACATATGGACTA
1 TTTACCTATGTTCTTCGAGACATATGGACTA
* *
706027 TTTACCTATGTTCTTCGGGACATATGGATTGA
1 TTTACCTATGTTCTTCGAGACATATGGACT-A
*
706059 -TTACCTAGGTTCTTC
1 TTTACCTATGTTCTTC
706074 AGAATCTATG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 41 0.98
32 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (31 bp):
TTTACCTATGTTCTTCGAGACATATGGACTA
Found at i:706982 original size:19 final size:20
Alignment explanation
Indices: 706936--706986 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
706926 TAATGTTCAC
706936 TACTGTTCATATGATATTGT
1 TACTGTTCATATGATATTGT
706956 TCACTGTTCATATTG-TATT-T
1 T-ACTGTTCATA-TGATATTGT
706976 TACTGTTCATA
1 TACTGTTCATA
706987 AAACGTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.34
20 3 0.10
21 14 0.48
22 2 0.07
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.51
Consensus pattern (20 bp):
TACTGTTCATATGATATTGT
Found at i:707623 original size:23 final size:22
Alignment explanation
Indices: 707596--707674 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
707586 GCCTGTGCCC
* *
707596 TAAATTGTATATTTACTATTCA
1 TAAAATGTATATTTACTATTAA
*
707618 TAAAATGTATATTT--TATGAA
1 TAAAATGTATATTTACTATTAA
*
707638 TAAAATGTATATTTTACTATTTA
1 TAAAATGTATA-TTTACTATTAA
707661 TAAAATGTATATTT
1 TAAAATGTATATTT
707675 TCTTAAATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
20 15 0.31
21 3 0.06
22 16 0.33
23 15 0.31
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (22 bp):
TAAAATGTATATTTACTATTAA
Found at i:707675 original size:23 final size:22
Alignment explanation
Indices: 707596--707675 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 22
707586 GCCTGTGCCC
*
707596 TAAATTGTATA-TTTACTATTCA
1 TAAAATGTATATTTTACTATT-A
707618 TAAAATGTATATTTTA-TGA--A
1 TAAAATGTATATTTTACT-ATTA
707638 TAAAATGTATATTTTACTATTTA
1 TAAAATGTATATTTTACTA-TTA
707661 TAAAATGTATATTTT
1 TAAAATGTATATTTT
707676 CTTAAATTGG
Statistics
Matches: 51, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
20 18 0.35
21 1 0.02
22 11 0.22
23 21 0.41
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (22 bp):
TAAAATGTATATTTTACTATTA
Found at i:708944 original size:36 final size:36
Alignment explanation
Indices: 708894--709143 Score: 360
Period size: 36 Copynumber: 7.0 Consensus size: 36
708884 TGAATAAGAA
* *
708894 GAACGAAAGAAAGCATCGGCACTTCCGATTCAAGTC
1 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
*
708930 GAACGGAATGAAGCATCGGCACTTCCGATTCAAGTC
1 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
708966 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
1 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
*
709002 GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
1 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
* *
709038 GAACGGAAAGAAGCATCGACACTTCCGATTCAAGTC
1 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
* *
709074 GAACGGAAGGAAGCATCGACACTTTCGATTCAAGTC
1 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
* * * * *
709110 TACCGGAA-GAATGTATC-GCACTTTCGTTTCAAGT
1 GAACGGAAGGAA-GCATCGGCACTTCCGATTCAAGT
709144 GTTTGTCTTT
Statistics
Matches: 200, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
35 18 0.09
36 182 0.91
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (36 bp):
GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
Found at i:709251 original size:22 final size:22
Alignment explanation
Indices: 709225--709272 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
709215 TTAGTATTTA
709225 TTATTAGTTAGGACTTAGTTTG
1 TTATTAGTTAGGACTTAGTTTG
709247 TTATTAGTTAGGACTTAGTTTG
1 TTATTAGTTAGGACTTAGTTTG
709269 TTAT
1 TTAT
709273 GATTTGTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.04, G:0.21, T:0.52
Consensus pattern (22 bp):
TTATTAGTTAGGACTTAGTTTG
Found at i:712356 original size:16 final size:17
Alignment explanation
Indices: 712335--712375 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
712325 CATAAAATTA
*
712335 TAAATAATT-AATATAT
1 TAAATAATTAAAAATAT
712351 TAAAT-ATTAAAAATAT
1 TAAATAATTAAAAATAT
*
712367 AAAATAATT
1 TAAATAATT
712376 TTAGCCACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 15 0.71
17 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATAATTAAAAATAT
Found at i:714773 original size:20 final size:20
Alignment explanation
Indices: 714712--714940 Score: 230
Period size: 20 Copynumber: 11.4 Consensus size: 20
714702 AATTTTCCAG
* ** *
714712 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
714732 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
714752 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
714772 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
714792 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
714812 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
714832 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
714852 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
714872 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
714892 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
714912 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
714932 AATCACAAC
1 AATCGCAAC
714941 ACTGAAATTT
Statistics
Matches: 175, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 171 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:715672 original size:24 final size:24
Alignment explanation
Indices: 715633--715679 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
715623 AAATTTGGTC
715633 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
715657 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
715680 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:715871 original size:12 final size:12
Alignment explanation
Indices: 715854--715878 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
715844 ATATAATCCT
715854 GAAGAAGAAAAA
1 GAAGAAGAAAAA
715866 GAAGAAGAAAAA
1 GAAGAAGAAAAA
715878 G
1 G
715879 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:718211 original size:33 final size:35
Alignment explanation
Indices: 718141--718467 Score: 181
Period size: 34 Copynumber: 9.3 Consensus size: 35
718131 GCATTTGACT
** * * * *
718141 ATCGCAACACGGAAATTACAATCGCAACGA-GAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAATGAAA
718175 ATCGCAATGC-GAAATGAAAATAC-CAAC-ATGAAA
1 ATCGCAATGCGGAAATGAAAAT-CGCAACAATGAAA
718208 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATG-AA
1 ATCGCAATGCGGAAATGAAAATCGCAA--C--AATGAAA
* * *
718246 A-CGCAATGC-GAAATGAAAATCGTAACGA-GAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAATGAAA
718278 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--C--AATGAAA
* *
718317 ATCGCAA--CGAGAGAATCG-CAAT-GCGTA-AATGAAA
1 ATCGCAATGCG-GA-AAT-GAAAATCGC-AACAATGAAA
* *
718351 ATCGCAA--CGAGAGAATCG-CAAT-GCGGA-AATGAAA
1 ATCGCAATGCG-GA-AAT-GAAAATCGC-AACAATGAAA
* *
718385 ATCGCAATGC-GAAATGAAAATCGCAACGA-GAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAATGAAA
718418 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--C--AATGAAA
*
718457 ATCGCATTGCG
1 ATCGCAATGCG
718468 ATTCTCTCGT
Statistics
Matches: 240, Mismatches: 21, Indels: 59
0.75 0.07 0.18
Matches are distributed among these distances:
31 1 0.00
32 5 0.02
33 55 0.23
34 107 0.45
36 19 0.08
37 10 0.04
38 9 0.04
39 33 0.14
40 1 0.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (35 bp):
ATCGCAATGCGGAAATGAAAATCGCAACAATGAAA
Found at i:718237 original size:53 final size:54
Alignment explanation
Indices: 718174--718462 Score: 308
Period size: 53 Copynumber: 5.5 Consensus size: 54
718164 GCAACGAGAG
718174 AATCGCAATGCGAAATGAAAATAC-CAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAAT-CGCAACGATGAAAATCGCAATGCGGAAATGAA
* *
718227 AATCGCAATGCGAAATG-AAA-CGCAATGCGAAATGAAAATCGTAA--C-G--A-GAG
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAAAATCGCAATGCGGAAATGAA
*
718277 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--C-G--A-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAA--CG--ATGAAAATCGCAATGCGGAAATGAA
*
718330 AATCGCAATGCGTAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCG-AAATGAAAATCGCAACGATGAAAATCGCAATGCGGAAATGAA
*
718384 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGGAAATGAA
718437 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
718463 TTGCGATTCT
Statistics
Matches: 215, Mismatches: 5, Indels: 32
0.85 0.02 0.13
Matches are distributed among these distances:
48 10 0.05
49 1 0.00
50 15 0.07
51 13 0.06
52 7 0.03
53 142 0.66
54 15 0.07
56 12 0.06
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (54 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGGAAATGAA
Found at i:718360 original size:87 final size:86
Alignment explanation
Indices: 718202--718444 Score: 405
Period size: 87 Copynumber: 2.8 Consensus size: 86
718192 AAATACCAAC
* *
718202 ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAACGCAATGCGAAATGAAAATC
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAA--CGAGA-GAATCGCAATGCGAAATGAAAATC
*
718267 GTAACGAGAGAATCGCAATGCGGAA
62 GCAACGAGAGAATCGCAATGCGGAA
718292 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGTAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCG-AAATGAAAATCGCA
718357 ACGAGAGAATCGCAATGCGGAA
65 ACGAGAGAATCGCAATGCGGAA
718379 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCA
718444 A
65 A
718445 TGCGAAATGA
Statistics
Matches: 148, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
86 12 0.08
87 103 0.70
88 1 0.01
89 16 0.11
90 16 0.11
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (86 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA
CGAGAGAATCGCAATGCGGAA
Found at i:718502 original size:53 final size:52
Alignment explanation
Indices: 718439--718554 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
718429 GAAATGAAAA
*
718439 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
718491 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
718544 TCGCATTGCGA
1 TCGCATTGCGA
718555 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:718517 original size:19 final size:19
Alignment explanation
Indices: 718477--718574 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
718467 GATTCTCTCG
718477 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
718497 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
718516 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
718530 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
718549 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
718568 TTACGAT
1 TTGCGAT
718575 AGTCATTTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 35 0.50
20 15 0.21
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:718580 original size:19 final size:19
Alignment explanation
Indices: 718539--718582 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
718529 GTTGCGATTT
* **
718539 TCATTTCGCATTGCGATTT
1 TCATTTCGCATTACGATAG
718558 TCATTTCGCATTACGATAG
1 TCATTTCGCATTACGATAG
718577 TCATTT
1 TCATTT
718583 TTGCCTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTACGATAG
Found at i:718700 original size:14 final size:14
Alignment explanation
Indices: 718681--718717 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
718671 CATCAATTAC
718681 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
718695 ACAAATCATCTTTT
1 ACAAATCAACTTTT
718709 ACAAATCAA
1 ACAAATCAA
718718 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:720717 original size:19 final size:19
Alignment explanation
Indices: 720695--720736 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
720685 GAAATGAAAA
720695 TCGCAATGCGATTTTGGTT
1 TCGCAATGCGATTTTGGTT
**
720714 TCGCGTTGCGATTTTGGTT
1 TCGCAATGCGATTTTGGTT
720733 TCGC
1 TCGC
720737 GTTGCGATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.43
Consensus pattern (19 bp):
TCGCAATGCGATTTTGGTT
Found at i:720737 original size:19 final size:19
Alignment explanation
Indices: 720701--720745 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
720691 AAAATCGCAA
720701 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
720720 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
720739 TGCGATT
1 TGCGATT
720746 CTGTCGTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.07, C:0.16, G:0.31, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:720755 original size:14 final size:14
Alignment explanation
Indices: 720736--720773 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
720726 TTTGGTTTCG
*
720736 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
720750 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
720764 CGTTGCGATT
1 CGTTGCGATT
720774 TTAAGTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.08, C:0.24, G:0.26, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:720955 original size:83 final size:87
Alignment explanation
Indices: 720839--721111 Score: 333
Period size: 93 Copynumber: 3.1 Consensus size: 87
720829 ATGGATTGCA
* **
720839 TTAC-TTCAACCAATAGACAAAACAAAGACAAATACTGACTT-CA-TG-G-TA-TTAGTTTAGCA
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT-ACTTACAGTGAGATACACAGTTTAGCA
720898 GAATTGGCAGCAACCGAACAAAT
65 GAATTGGCAGCAACCGAACAAAT
*
720921 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
720986 TAGCAGAATTGGCAGCAACCGAACAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
*
721014 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
*
721079 TAGCAGAATTGGCAGCAACCGAATAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
721107 TTACT
1 TTACT
721112 AAGCAATCTA
Statistics
Matches: 174, Mismatches: 5, Indels: 13
0.91 0.03 0.07
Matches are distributed among these distances:
82 7 0.04
83 31 0.18
84 2 0.01
85 2 0.01
90 1 0.01
92 2 0.01
93 129 0.74
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (87 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTTACAGTGAGATACACAGTTTAGCAG
AATTGGCAGCAACCGAACAAAT
Found at i:721048 original size:93 final size:93
Alignment explanation
Indices: 720889--721111 Score: 437
Period size: 93 Copynumber: 2.4 Consensus size: 93
720879 TCATGGTATT
720889 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
720954 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
720982 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
721047 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
721075 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
721112 AAGCAATCTA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 129 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:722829 original size:20 final size:20
Alignment explanation
Indices: 722798--722894 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
722788 TTTTGGTTAA
722798 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
722818 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
722838 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
722857 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
722872 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
722892 AAT
1 AAT
722895 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:722842 original size:41 final size:35
Alignment explanation
Indices: 722797--722918 Score: 144
Period size: 33 Copynumber: 3.4 Consensus size: 35
722787 CTTTTGGTTA
722797 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGAG
1 AAATGAAAATCGCAACGAGAGAAT-A---TCGCAAC--GAG
*
722838 AAATGAAAATCGCAACGAGAG-A-ATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATATCGCAACGAG
*
722871 AAATGAAAATCGCAACGAGAG-A-ATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATATCGCAACGAG
722904 AAATGAAAATCGCAA
1 AAATGAAAATCGCAA
722919 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 21 0.26
ACGTcount: A:0.47, C:0.19, G:0.24, T:0.11
Consensus pattern (35 bp):
AAATGAAAATCGCAACGAGAGAATATCGCAACGAG
Found at i:722850 original size:21 final size:21
Alignment explanation
Indices: 722797--722860 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
722787 CTTTTGGTTA
722797 AAATGAAAATCGCAACGAGAG
1 AAATGAAAATCGCAACGAGAG
***
722818 -AATGACTGTCGCAACGAGAG
1 AAATGAAAATCGCAACGAGAG
722838 AAATGAAAATCGCAACGAGAG
1 AAATGAAAATCGCAACGAGAG
722859 AA
1 AA
722861 TCGCAACGCG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.48, C:0.16, G:0.25, T:0.11
Consensus pattern (21 bp):
AAATGAAAATCGCAACGAGAG
Found at i:722864 original size:14 final size:14
Alignment explanation
Indices: 722845--722901 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
722835 GAGAAATGAA
722845 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
722859 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
722878 AATCGCAACGAGAG
1 AATCGCAACGAGAG
722892 AATCGCAACG
1 AATCGCAACG
722902 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:722877 original size:33 final size:33
Alignment explanation
Indices: 722837--722918 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
722827 CGCAACGAGA
722837 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
722870 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
722903 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
722919 TGCGATTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:722954 original size:14 final size:14
Alignment explanation
Indices: 722935--722991 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
722925 TTTGGTTTCG
722935 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
722949 CGTTGCGATTTTCGTTTCG
1 CGTTGCGA--TTC---TCT
*
722968 CGTTGCAATTCTCT
1 CGTTGCGATTCTCT
722982 CGTTGCGATT
1 CGTTGCGATT
722992 TTCATTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:722966 original size:33 final size:33
Alignment explanation
Indices: 722919--722994 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
722909 AAAATCGCAA
* *
722919 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCGTTTCGCGTTGCAATTCTCTCGT
722952 TGCGATTTTCGTTTCGCGTTGCAATTCTCTCGT
1 TGCGATTTTCGTTTCGCGTTGCAATTCTCTCGT
722985 TGCGATTTTC
1 TGCGATTTTC
722995 ATTTTTCTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.08, C:0.22, G:0.24, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCGTTTCGCGTTGCAATTCTCTCGT
Found at i:722973 original size:19 final size:19
Alignment explanation
Indices: 722919--722973 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
722909 AAAATCGCAA
*
722919 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCGTTTCGCGT
*
722938 TGCGA--TTC---TCTCGT
1 TGCGATTTTCGTTTCGCGT
722952 TGCGATTTTCGTTTCGCGT
1 TGCGATTTTCGTTTCGCGT
722971 TGC
1 TGC
722974 AATTCTCTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 10
0.68 0.07 0.24
Matches are distributed among these distances:
14 10 0.36
16 3 0.11
17 2 0.07
19 13 0.46
ACGTcount: A:0.05, C:0.22, G:0.27, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCGTTTCGCGT
Found at i:723003 original size:21 final size:21
Alignment explanation
Indices: 722979--723052 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
722969 GTTGCAATTC
722979 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
723000 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
723021 TCACGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTT
723042 TCTCGTTGCGA
1 TCTCGTTGCGA
723053 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:723174 original size:33 final size:33
Alignment explanation
Indices: 723132--723202 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
723122 AATACTAACT
723132 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
723165 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
723198 TGAAA
1 TGAAA
723203 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:723607 original size:20 final size:20
Alignment explanation
Indices: 723582--723774 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
723572 CTTTAAAAAT
*
723582 CGCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
*
723602 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
723622 TGTCGTTGCGATTTACAGATA
1 CG-CGTTGCGATTTACGGATA
* *
723643 CGCGTTGCGATATACGGATG
1 CGCGTTGCGATTTACGGATA
*
723663 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
723683 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
723703 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
723723 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
723743 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
723763 CGCGTTGCGATT
1 CGCGTTGCGATT
723775 CTGGAAAATC
Statistics
Matches: 147, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
20 130 0.88
21 17 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:731901 original size:598 final size:598
Alignment explanation
Indices: 730766--731965 Score: 2355
Period size: 598 Copynumber: 2.0 Consensus size: 598
730756 TCTGCTGGTG
*
730766 CAGCTGAGGATGAACCGGAAGCACCTGCTCTCCGTCCACGAGTCGGGGGACGATGGTGCTATATC
1 CAGCTGAGGATGAACCGGAAGCACCTGCTCTCCGTCCACGAGTCGAGGGACGATGGTGCTATATC
730831 AGATCACGTCTCTATCGACGTCGTGGAAAGGTCTGCCCTCGTGCATCCTCGGGAAGCAGAAACGG
66 AGATCACGTCTCTATCGACGTCGTGGAAAGGTCTGCCCTCGTGCATCCTCGGGAAGCAGAAACGG
*
730896 TTTTCCGTGACTGTTGATCCACTTATAATAACTGTCAGCATACATCAAGAAGTAAGTAAAAATGG
131 TTTCCCGTGACTGTTGATCCACTTATAATAACTGTCAGCATACATCAAGAAGTAAGTAAAAATGG
730961 GCTCTCTACGGGGAAGACGCCGATGTCGATCCTCCCACAACACGACCCACTCATGATGCCTCACC
196 GCTCTCTACGGGGAAGACGCCGATGTCGATCCTCCCACAACACGACCCACTCATGATGCCTCACC
*
731026 AGCCAATTTGTATTTGTCTTGTCGCGTCTATCTAAGCTATGCAACTCGTCCATATTGCGAGATGA
261 AGCCAATTTGTATTTGTCTTATCGCGTCTATCTAAGCTATGCAACTCGTCCATATTGCGAGATGA
731091 TTCCGGAATTGGTTGAAAACAACCAAACTGCCGAAGCACGCGATCAGTGGAGTGCTACTCGACGG
326 TTCCGGAATTGGTTGAAAACAACCAAACTGCCGAAGCACGCGATCAGTGGAGTGCTACTCGACGG
731156 TCGCATAACAGATCAGAGTGACCATCGCCATCCAAACATTTGATGGACTCCTCAACTCAGGTGAG
391 TCGCATAACAGATCAGAGTGACCATCGCCATCCAAACATTTGATGGACTCCTCAACTCAGGTGAG
731221 ATCACCGCCCTCACATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAATAATATATAAT
456 ATCACCGCCCTCACATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAATAATATATAAT
731286 TTTTATCAAAATAATAATCTAATTATATAACTATAATCTAAAATCGATTTTTAAACATTAAAATT
521 TTTTATCAAAATAATAATCTAATTATATAACTATAATCTAAAATCGATTTTTAAACATTAAAATT
731351 CATATCTGTGTGT
586 CATATCTGTGTGT
*
731364 CAGCTGAGGATGAACCGGAAGCACCTGCTCTCCGTCCACGAGTCGAGGGACGATGGTGCTATGTC
1 CAGCTGAGGATGAACCGGAAGCACCTGCTCTCCGTCCACGAGTCGAGGGACGATGGTGCTATATC
*
731429 GGATCACGTCTCTATCGACGTCGTGGAAAGGTCTGCCCTCGTGCATCCTCGGGAAGCAGAAACGG
66 AGATCACGTCTCTATCGACGTCGTGGAAAGGTCTGCCCTCGTGCATCCTCGGGAAGCAGAAACGG
731494 TTTCCCGTGACTGTTGATCCACTTATAATAACTGTCAGCATACATCAAGAAGTAAGTAAAAATGG
131 TTTCCCGTGACTGTTGATCCACTTATAATAACTGTCAGCATACATCAAGAAGTAAGTAAAAATGG
731559 GCTCTCTACGGGGAAGACGCCGATGTCGATCCTCCCACAACACGACCCACTCATGATGCCTCACC
196 GCTCTCTACGGGGAAGACGCCGATGTCGATCCTCCCACAACACGACCCACTCATGATGCCTCACC
731624 AGCCAATTTGTATTTGTCTTATCGCGTCTATCTAAGCTATGCAACTCGTCCATATTGCGAGATGA
261 AGCCAATTTGTATTTGTCTTATCGCGTCTATCTAAGCTATGCAACTCGTCCATATTGCGAGATGA
731689 TTCCGGAATTGGTTGAAAACAACCAAACTGCCGAAGCACGCGATCAGTGGAGTGCTACTCGACGG
326 TTCCGGAATTGGTTGAAAACAACCAAACTGCCGAAGCACGCGATCAGTGGAGTGCTACTCGACGG
731754 TCGCATAACAGATCAGAGTGACCATCGCCATCCAAACATTTGATGGACTCCTCAACTCAGGTGAG
391 TCGCATAACAGATCAGAGTGACCATCGCCATCCAAACATTTGATGGACTCCTCAACTCAGGTGAG
731819 ATCACCGCCCTCACATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAATAATATATAAT
456 ATCACCGCCCTCACATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAATAATATATAAT
731884 TTTTATCAAAATAATAATCTAATTATATAACTATAATCTAAAATCGATTTTTAAACATTAAAATT
521 TTTTATCAAAATAATAATCTAATTATATAACTATAATCTAAAATCGATTTTTAAACATTAAAATT
731949 CATATCTGTGTGT
586 CATATCTGTGTGT
731962 CAGC
1 CAGC
731966 CTTCTGATCG
Statistics
Matches: 597, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
598 597 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (598 bp):
CAGCTGAGGATGAACCGGAAGCACCTGCTCTCCGTCCACGAGTCGAGGGACGATGGTGCTATATC
AGATCACGTCTCTATCGACGTCGTGGAAAGGTCTGCCCTCGTGCATCCTCGGGAAGCAGAAACGG
TTTCCCGTGACTGTTGATCCACTTATAATAACTGTCAGCATACATCAAGAAGTAAGTAAAAATGG
GCTCTCTACGGGGAAGACGCCGATGTCGATCCTCCCACAACACGACCCACTCATGATGCCTCACC
AGCCAATTTGTATTTGTCTTATCGCGTCTATCTAAGCTATGCAACTCGTCCATATTGCGAGATGA
TTCCGGAATTGGTTGAAAACAACCAAACTGCCGAAGCACGCGATCAGTGGAGTGCTACTCGACGG
TCGCATAACAGATCAGAGTGACCATCGCCATCCAAACATTTGATGGACTCCTCAACTCAGGTGAG
ATCACCGCCCTCACATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAATAATATATAAT
TTTTATCAAAATAATAATCTAATTATATAACTATAATCTAAAATCGATTTTTAAACATTAAAATT
CATATCTGTGTGT
Found at i:732980 original size:17 final size:18
Alignment explanation
Indices: 732937--732977 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
732927 AAATTATGTT
732937 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
732954 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
732972 ATTAAA
1 AGTAAA
732978 TACATAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Done.