Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008803.1 Hibiscus syriacus cultivar Beakdansim tig00111954_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: 1826237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:646230 original size:22 final size:23
Alignment explanation
Indices: 646205--646247 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
646195 TTTTAACGCA
646205 TTATG-AAAT-ATTTTCATTAAGT
1 TTATGAAAATGATTTT-ATTAAGT
646227 TTATGAAAATGATTTTATTAA
1 TTATGAAAATGATTTTATTAA
646248 AGGATTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (23 bp):
TTATGAAAATGATTTTATTAAGT
Found at i:648545 original size:2 final size:2
Alignment explanation
Indices: 648538--648565 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
648528 ACGGTGGATG
648538 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
648566 GAGACGGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:649713 original size:193 final size:194
Alignment explanation
Indices: 649322--649756 Score: 560
Period size: 193 Copynumber: 2.2 Consensus size: 194
649312 TTGCAAAGAA
* * * * **
649322 GTATCGATGCATAACAATATAAAAGGTTGAAATTTGACAAAACCGGTTTCAATTTGACAAAACCG
1 GTATCGATACATGACAATATAAAAGGTTAAAATATGACAAAACCGGTTTCAATAAGACAAAACCG
* * *
649387 GTAGAAATACATGAATTATTGAAATTTGTATCAATACTTTTCTAAGTATATGCACCAAATTATCG
66 GTAGAAATACATGAATTATTGAAA-TGGTATCAATACTTTTATAAATATATGCACCAAATTATCG
* *
649452 ATACTTTAGGAATTTAAAAAAATTATAATAATAGCGTCTATAAAGTATCGATACTTTATAAACAT
130 ATACTTTAGGAATTTAAAAAAATTATAATAATAGCGCCTATAAAGTATCGATACTTTAGAAACAT
* *
649517 GTATCGATACATGACAATATAATAGGTAAAAATATGACAAAACCGGTTTCAATAAGACAAAACCG
1 GTATCGATACATGACAATATAAAAGGTTAAAATATGACAAAACCGGTTTCAATAAGACAAAACCG
** * * *
649582 GTA-AAGAGCTACCA-G-ATATATTG-AA-GGTATTGATACTTTTATAAATATATGTATCATATT
66 GTAGAA-A--TA-CATGAAT-TATTGAAATGGTATCAATACTTTTATAAATATATGCACCAAATT
* * * *
649642 ATCGATAC-TTAGGAATTTAAAAGAATTGTAATAATAGTGCCTATAAAGTATCGATATTTTAGAA
126 ATCGATACTTTAGGAATTTAAAAAAATTATAATAATAGCGCCTATAAAGTATCGATACTTTAGAA
649706 ACAT
191 ACAT
649710 GTATCGATACATGACAATATAACAA-GTTAAAATATGACAAAACCGGT
1 GTATCGATACATGACAATATAA-AAGGTTAAAATATGACAAAACCGGT
649757 AAAGCGCTAT
Statistics
Matches: 210, Mismatches: 24, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
193 97 0.46
194 38 0.18
195 61 0.29
196 4 0.02
197 8 0.04
198 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (194 bp):
GTATCGATACATGACAATATAAAAGGTTAAAATATGACAAAACCGGTTTCAATAAGACAAAACCG
GTAGAAATACATGAATTATTGAAATGGTATCAATACTTTTATAAATATATGCACCAAATTATCGA
TACTTTAGGAATTTAAAAAAATTATAATAATAGCGCCTATAAAGTATCGATACTTTAGAAACAT
Found at i:650533 original size:230 final size:226
Alignment explanation
Indices: 650079--650539 Score: 631
Period size: 230 Copynumber: 2.0 Consensus size: 226
650069 TATGTTGTCA
* * *
650079 AAACCCTAGTTTTTTTTATTATTACAGTAATCGAAAATAGAGGTTTTATGGGTTTGGGGTTTTCA
1 AAACCCTAGTTTTTTTTAGTATTACAGTAATCGAAAATAGAGGGTTTATGGGTTTGGGATTTTCA
* * * *
650144 AAGTAAAGAAGCATTTGGGACCGATTACAGGTAGAAAGTGATATTCTAGGTAGAAAATAAATATT
66 AAGCAAAGAAGAATTTGGGACCGATTACAGCTAGAAAGTGATATTCTAGGTAGAAAATAAATATC
*
650209 GACACTCTTATAAAATATTATATGTAGAAAATGATATTGTAAGATGTATAAATGTACCGATACTT
131 GACACTCTTATAAAATATTATAGGTAGAAAATGATATTGTAAGATGTATAAATGTACCGATACTT
*
650274 GTAGTAGAGAGTATTCCCATTCGTTTGAAGG
196 GTAGTAGAGAATATTCCCATTCGTTTGAAGG
* *
650305 AAACCCTAG-TTTTTTTAGTATTATAGTAATTGAAAATAGGGATTAGGGTTTATGGGTTTGAGGA
1 AAACCCTAGTTTTTTTTAGTATTACAGTAATCGAAAATA--G---AGGGTTTATGGGTTTG-GGA
* * * * *
650369 TTTT-GATGCAAAGAAGAATTTGGGACCGATTATAGCTAGAAAGTGATATTGTGGGTAGAAAATA
60 TTTTCAAAGCAAAGAAGAATTTGGGACCGATTACAGCTAGAAAGTGATATTCTAGGTAGAAAATA
* * * * *
650433 AATATCGATACT-TGTATATAATATTATAGGTAGAAAATGATATTGTAGGTTGTATAAATGTATC
125 AATATCGACACTCT-TATAAAATATTATAGGTAGAAAATGATATTGTAAGATGTATAAATGTACC
* *
650497 GATACTTGTAGTAGAGAATATTCCGATTCTTTTGAAGG
189 GATACTTGTAGTAGAGAATATTCCCATTCGTTTGAAGG
650535 AAACC
1 AAACC
650540 GTTTTACTAT
Statistics
Matches: 205, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
225 26 0.13
226 9 0.04
227 1 0.00
229 1 0.00
230 162 0.79
231 6 0.03
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (226 bp):
AAACCCTAGTTTTTTTTAGTATTACAGTAATCGAAAATAGAGGGTTTATGGGTTTGGGATTTTCA
AAGCAAAGAAGAATTTGGGACCGATTACAGCTAGAAAGTGATATTCTAGGTAGAAAATAAATATC
GACACTCTTATAAAATATTATAGGTAGAAAATGATATTGTAAGATGTATAAATGTACCGATACTT
GTAGTAGAGAATATTCCCATTCGTTTGAAGG
Found at i:651568 original size:29 final size:29
Alignment explanation
Indices: 651523--651587 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
651513 AACAAACGCT
* *
651523 CTGAATGTTGAATGGTTTAGTATTCAGCG
1 CTGAATGTTGAACGGTTTAGCATTCAGCG
* *
651552 GTGAATGTTGAACGGTTTAGCATTTAGCG
1 CTGAATGTTGAACGGTTTAGCATTCAGCG
651581 CTGAATG
1 CTGAATG
651588 GTTCCATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (29 bp):
CTGAATGTTGAACGGTTTAGCATTCAGCG
Found at i:651899 original size:19 final size:20
Alignment explanation
Indices: 651870--651911 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
651860 TAGAAATTCT
651870 AAACTGGTTAAAAT-TTGACA
1 AAACTGGTTAAAATGTT-ACA
651890 AAAC-GGTTAAAATGTTACA
1 AAACTGGTTAAAATGTTACA
651909 AAA
1 AAA
651912 TCGATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (20 bp):
AAACTGGTTAAAATGTTACA
Found at i:652709 original size:35 final size:35
Alignment explanation
Indices: 652670--652761 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 35
652660 ATTGGTGGTT
652670 ATATAGGCGTGAAATGGTGATAGAAGATGGTAATG
1 ATATAGGCGTGAAATGGTGATAGAAGATGGTAATG
* * * *
652705 ATATAGGCGTGCAATGGTAATGGAAGATGGTGATG
1 ATATAGGCGTGAAATGGTGATAGAAGATGGTAATG
*
652740 TTATAGGC-TGAAAATGGTGATA
1 ATATAGGCGTG-AAATGGTGATA
652762 AAGGAGCTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 2 0.04
35 46 0.96
ACGTcount: A:0.35, C:0.04, G:0.34, T:0.27
Consensus pattern (35 bp):
ATATAGGCGTGAAATGGTGATAGAAGATGGTAATG
Found at i:654045 original size:20 final size:20
Alignment explanation
Indices: 654000--654045 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
653990 ATTAACATAA
* *
654000 AGTATCGATACTTTTTGTAT
1 AGTATCGATACTTTTAGTAC
*
654020 ATGTATCGATACTTTTAGTCC
1 A-GTATCGATACTTTTAGTAC
654041 AGTAT
1 AGTAT
654046 GCTTCCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (20 bp):
AGTATCGATACTTTTAGTAC
Found at i:655328 original size:445 final size:447
Alignment explanation
Indices: 653985--655578 Score: 2480
Period size: 445 Copynumber: 3.6 Consensus size: 447
653975 GGATCACATC
* * *
653985 AATACATTAACATAAAGTATCGATACTTTTTGTATATGTATCGATACTTTTAGTCCAGTATGCTT
1 AATACGTTAACATAAAGTATCGATACTTTGTGTATATGTATCGATACTTTTTGTCCAGTATGCTT
* * *
654050 CCCAAACTAGATGTACGTAGAAAGTATCGATACCTAATACACATGTATCGATACATGAAAATATA
66 CCCAAACTAGATGCACGCAGAAAGTATCGATACCTAATACACATGTATCGATACATGACAATATA
* *
654115 ACAGGTTGAAAATTGATAAAACCAATTTCAATATGACAAAACGGGTAAAAAGATATCGGTTTACA
131 ACAGGTTGAAAATTGATAAAACCGATTTCAATATGACAAAACAGGTAAAAAGATATCGGTTTACA
* * * *
654180 AAAAAATGAAACGTCTCGAAAGTATCGATGCCTTACAAAAAAGTATTGATACTTAAGTAAGGGTA
196 AAAAAATGAAACATCTCGAAAGTATCGATACCATACAAAAAAGTATCGATACTTAAGTAAGGGTA
*
654245 ATGGTATCGATTAAATATAAATAACTTAACAGGTTCAAAATTGACAAAACCACTTTCCATAATTG
261 ATGGTATCGATTAAATATAAATAACTTAACAGGTTCAAAATTGACAAAACCAGTTTCCATAATTG
* * * * *
654310 CGCCTATAAAGTATCGATACACGTACGAGAAGTATCGATTTTTGAAAGTTTGAAACAGA-TACTT
326 CGCCTATAAAGTATCGATACACGTACGAGAAATATCGATTCTTAAAAGTTCGAAACAAATTACTT
* *
654374 TAAAGTAGTAGGTAAATTTAAAATGTAAGTGGTAAAAATATACGAGTTTAATGACAA
391 TAAAGTAATAGGTAAATTTAAAATGTAAGCGGTAAAAATATACGAGTTTAATGACAA
*
654431 AATACGTTAACATAAAGTATCGATACTTTGTGTATATGTATCGATACTTTTTGTCCAGTATGCTA
1 AATACGTTAACATAAAGTATCGATACTTTGTGTATATGTATCGATACTTTTTGTCCAGTATGCTT
* * *
654496 CCCAAACTAGATGCATGTAGAAAATATCGATACCTAATACACATGTATCGATACATGACAATATA
66 CCCAAACTAGATGCACGCAGAAAGTATCGATACCTAATACACATGTATCGATACATGACAATATA
** *
654561 ACAGGTTGAAAATTGATAAATTCGATTTCAATATGACAAAATAGGTAAAAAGATATCGGTTTACA
131 ACAGGTTGAAAATTGATAAAACCGATTTCAATATGACAAAACAGGTAAAAAGATATCGGTTTAC-
*
654626 AAAAAAATGAAACATCTCGAAAGCATCGATACCATACAAAAAAGTATCGATACTTAAGTAAGGGT
195 AAAAAAATGAAACATCTCGAAAGTATCGATACCATACAAAAAAGTATCGATACTTAAGTAAGGGT
* * * *
654691 AATGGTATCTATTAAATATAAATAACTTAACAGGTTTAAAACTGACAAAACCCGTTTCCATAATT
260 AATGGTATCGATTAAATATAAATAACTTAACAGGTTCAAAATTGACAAAACCAGTTTCCATAATT
** * * **
654756 GCAACTATAAAGTATCGATACACGTACGAGAATTATCGATTCTTAAAAGTTCAAAATGAATTACT
325 GCGCCTATAAAGTATCGATACACGTACGAGAAATATCGATTCTTAAAAGTTCGAAACAAATTACT
* *
654821 TTAAAGTAATAGGTAAATTTAAAATGTAAGCGGTAAAAATATACCAGTTTAATGAAAA
390 TTAAAGTAATAGGTAAATTTAAAATGTAAGCGGTAAAAATATACGAGTTTAATGACAA
* *
654879 AATACGTTAACATAACGTATCGATACTTTGTGTATATGTATCGATATTTTTTGTCCAGTATGCTT
1 AATACGTTAACATAAAGTATCGATACTTTGTGTATATGTATCGATACTTTTTGTCCAGTATGCTT
*
654944 CCCAAACTAGATGCACACAGAAAGTATCGATACCTAATACACATGTATCGATACATGACAATATA
66 CCCAAACTAGATGCACGCAGAAAGTATCGATACCTAATACACATGTATCGATACATGACAATATA
* ** * * * **
655009 ATAGGTTGAAAATTGATAAATTCGGTTTCAATATGACAAAATAGGTAAAAATATATTAGTTTACA
131 ACAGGTTGAAAATTGATAAAACCGATTTCAATATGACAAAACAGGTAAAAAGATATCGGTTTACA
* *
655074 AAAAAA-GAAATATCTCGAAAGTATCGATACCATAC-AAAAAGTATTGATACTTAAGTAAGGGTA
196 AAAAAATGAAACATCTCGAAAGTATCGATACCATACAAAAAAGTATCGATACTTAAGTAAGGGTA
*
655137 ATGGTATCGATTAAATATAAATAACTTAACAGGTTCAAAATTGACAAAACCAGTTTCCATAATTA
261 ATGGTATCGATTAAATATAAATAACTTAACAGGTTCAAAATTGACAAAACCAGTTTCCATAATTG
* * * *
655202 CGCCTATAAAGTATCGGTGCACGTACGAGAAATATTGATTCTTAAAACTTCGAAACAAATTACTT
326 CGCCTATAAAGTATCGATACACGTACGAGAAATATCGATTCTTAAAAGTTCGAAACAAATTACTT
*
655267 TAAAGTAATAGGTAAATTTACAATGTAAGCGGTAAAAATATAACGA-TTTAATGACAA
391 TAAAGTAATAGGTAAATTTAAAATGTAAGCGGTAAAAATAT-ACGAGTTTAATGACAA
* * * *
655324 AATACGTTAACATAAAGTATCGATACTTTTTGTATATGTATCGATACTTTTTGTCTAATATACTT
1 AATACGTTAACATAAAGTATCGATACTTTGTGTATATGTATCGATACTTTTTGTCCAGTATGCTT
*
655389 CCCAAACTAGATGCACGCAGAAAGTATCGATACATAATACACATGTATCGATACATGACAATATA
66 CCCAAACTAGATGCACGCAGAAAGTATCGATACCTAATACACATGTATCGATACATGACAATATA
* * *
655454 ACATGTTGAAAATTGATAAAACCGATTTCAATATGACAAAACAGGTAAAAAGATACCGATTTACA
131 ACAGGTTGAAAATTGATAAAACCGATTTCAATATGACAAAACAGGTAAAAAGATATCGGTTTACA
* * * *
655519 CAAAAATGAAACGTCTCAAAAGTATCGATATCATAC-AAAAAGTATCGATACATT-AGTAAG
196 AAAAAATGAAACATCTCGAAAGTATCGATACCATACAAAAAAGTATCGATAC-TTAAGTAAG
655579 AGTATTCAAT
Statistics
Matches: 1048, Mismatches: 95, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
445 373 0.36
446 256 0.24
447 179 0.17
448 240 0.23
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (447 bp):
AATACGTTAACATAAAGTATCGATACTTTGTGTATATGTATCGATACTTTTTGTCCAGTATGCTT
CCCAAACTAGATGCACGCAGAAAGTATCGATACCTAATACACATGTATCGATACATGACAATATA
ACAGGTTGAAAATTGATAAAACCGATTTCAATATGACAAAACAGGTAAAAAGATATCGGTTTACA
AAAAAATGAAACATCTCGAAAGTATCGATACCATACAAAAAAGTATCGATACTTAAGTAAGGGTA
ATGGTATCGATTAAATATAAATAACTTAACAGGTTCAAAATTGACAAAACCAGTTTCCATAATTG
CGCCTATAAAGTATCGATACACGTACGAGAAATATCGATTCTTAAAAGTTCGAAACAAATTACTT
TAAAGTAATAGGTAAATTTAAAATGTAAGCGGTAAAAATATACGAGTTTAATGACAA
Found at i:657872 original size:268 final size:274
Alignment explanation
Indices: 657389--657915 Score: 829
Period size: 268 Copynumber: 1.9 Consensus size: 274
657379 TACTTATTAT
657389 TTAATTCCACATAAAGGCTCAAACAATCTGCACGTAAAATGTATCGACACACACACACACACACA
1 TTAATTCCACATAAAGGCTCAAACAATCTGCACGTAAAATGTATCGA-ACACACACACACACACA
* * *
657454 TATATATATATTTCATACTTATAATTATGAAACCTATTACTTTTAAGTAATAGGTTAATTGACAA
65 -ATATATATATTCCATACTTATAATTATGAAACCTATTACTTTAAAGTAATAGATTAATTGACAA
*
657519 TGAAAACGGTTAAAGTCAATCGGTATCATGATAATATGAGTAAACAATGTACACGATAATATGTT
129 TGAAAACGGTTAAAGTCAATCGATATCATGATAATATGAGTAAACAATGTACACGATAATATGTT
* *
657584 GATAAAGTTTGATAACAAATCAAGTAATTAATCGGTTATGTTATCGTCGG-TT-CTAAGGCTCCA
194 GATAAAGCTTGATAACAAATCAAGTAATTAATCAGTTATGTTATCGTCGGATTCCTAAGGCTCCA
657647 TCAACTTTAACTTTGG
259 TCAACTTTAACTTTGG
* *
657663 TTAATTCCACTTAAAGGCTCAAGCAATCTGCACGTAAAATGTATCG-ACACACA-A-ACACAC-A
1 TTAATTCCACATAAAGGCTCAAACAATCTGCACGTAAAATGTATCGAACACACACACACACACAA
* **
657724 TATATATATTCCATACTTATAATT-TCGAAGCCTATTACTTTAAAGTAATAGATTAATTTCCAAT
66 TATATATATTCCATACTTATAATTAT-GAAACCTATTACTTTAAAGTAATAGATTAATTGACAAT
* *
657788 GAAAATGGTTAAAGTCAATCGATATCATGATAATATGCA-TAAACAATGTACATTG-TAATATGT
130 GAAAACGGTTAAAGTCAATCGATATCATGATAATATG-AGTAAACAATGTACA-CGATAATATGT
657851 TGATAAAGCTTGATAACAAATCAAGTAATTAATCAGTTATGTTATCGTCGGATTCCTAAGGCTCC
193 TGATAAAGCTTGATAACAAATCAAGTAATTAATCAGTTATGTTATCGTCGGATTCCTAAGGCTCC
657916 TCAGCTTAAA
Statistics
Matches: 235, Mismatches: 13, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
267 1 0.00
268 162 0.69
269 4 0.02
270 16 0.07
271 1 0.00
272 7 0.03
274 44 0.19
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (274 bp):
TTAATTCCACATAAAGGCTCAAACAATCTGCACGTAAAATGTATCGAACACACACACACACACAA
TATATATATTCCATACTTATAATTATGAAACCTATTACTTTAAAGTAATAGATTAATTGACAATG
AAAACGGTTAAAGTCAATCGATATCATGATAATATGAGTAAACAATGTACACGATAATATGTTGA
TAAAGCTTGATAACAAATCAAGTAATTAATCAGTTATGTTATCGTCGGATTCCTAAGGCTCCATC
AACTTTAACTTTGG
Found at i:658167 original size:23 final size:24
Alignment explanation
Indices: 658136--658181 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
658126 CACAGCTTTA
658136 ATAATGCGCTACATAATATGTTAC
1 ATAATGCGCTACATAATATGTTAC
658160 ATAA-GCGCTACATAATATGTTA
1 ATAATGCGCTACATAATATGTTA
658182 TTATGATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (24 bp):
ATAATGCGCTACATAATATGTTAC
Found at i:658176 original size:117 final size:118
Alignment explanation
Indices: 657967--658252 Score: 351
Period size: 117 Copynumber: 2.4 Consensus size: 118
657957 GAAAAAATTA
* * * * * * * *
657967 AGTAATTAATCTATTTTGTTATCGTTGGATTTCTAAGTCCCCATCAGCTTTAATAATGAGTTACC
1 AGTAATTAACCAATTATATTATCGTCGGATTTCTAAGGCCCCATCAGCTTTAATAATGAGCTACA
* * *
658032 TATTACGTTACATATACGCTACCTAATATGTTATTATGGTTGAAAATGTTTCC
66 TAATACGTTACATATACGCTACATAATATGTTATTATGATTGAAAATGTTTCC
** * *
658085 AGTAATTAACCGGTTATATTATCGTCAGATTTCTAAGGCCCCA-CAGCTTTAATAATGCGCTACA
1 AGTAATTAACCAATTATATTATCGTCGGATTTCTAAGGCCCCATCAGCTTTAATAATGAGCTACA
* *
658149 TAATATGTTACATA-AGCGCTACATAATATGTTATTATGATTGATAATGTTTCC
66 TAATACGTTACATATA-CGCTACATAATATGTTATTATGATTGAAAATGTTTCC
* * * *
658202 AGTAATTAACCAATTATGTTATCGTCGGATTTTCTAAAGCTCCATGAGCTT
1 AGTAATTAACCAATTATATTATCGTCGGA-TTTCTAAGGCCCCATCAGCTT
658253 AAACTTTGGT
Statistics
Matches: 142, Mismatches: 23, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
116 1 0.01
117 89 0.63
118 47 0.33
119 5 0.04
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (118 bp):
AGTAATTAACCAATTATATTATCGTCGGATTTCTAAGGCCCCATCAGCTTTAATAATGAGCTACA
TAATACGTTACATATACGCTACATAATATGTTATTATGATTGAAAATGTTTCC
Found at i:659986 original size:12 final size:12
Alignment explanation
Indices: 659969--659996 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
659959 AGCTGATAAC
659969 GAAGATTTCGAG
1 GAAGATTTCGAG
659981 GAAGATTTCGAG
1 GAAGATTTCGAG
659993 GAAG
1 GAAG
659997 TAGTAGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.07, G:0.36, T:0.21
Consensus pattern (12 bp):
GAAGATTTCGAG
Found at i:662948 original size:35 final size:34
Alignment explanation
Indices: 662863--662949 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
662853 ATTTGGTATT
*
662863 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
662897 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
662935 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
662950 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:665189 original size:18 final size:17
Alignment explanation
Indices: 665157--665202 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
665147 GAATTATATT
665157 AGTAAAATATTAAATAA
1 AGTAAAATATTAAATAA
665174 AGTAAAATACTTAAATAA
1 AGTAAAATA-TTAAATAA
*
665192 ATTAAATATAT
1 AGTAAA-ATAT
665203 AATATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 14 0.54
19 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
AGTAAAATATTAAATAA
Found at i:665416 original size:50 final size:50
Alignment explanation
Indices: 665362--665479 Score: 132
Period size: 50 Copynumber: 2.3 Consensus size: 50
665352 CCCCCTGTAC
* * * *
665362 CGCGCTATACGCCACGTGTCA-GATAACCAG-GTATAGCGCGGATCAGGGGT
1 CGCGCTATAC-CCACGTGTAACCAT-ACCAGCGTATAGCGCGGAGCAGGGGG
** *
665412 CGCGCTATACCCACGTGTAACCATGTCAGCGTATAGCGCGGGGCAGGGGG
1 CGCGCTATACCCACGTGTAACCATACCAGCGTATAGCGCGGAGCAGGGGG
665462 CGCGCTATACCCCACGTG
1 CGCGCTATA-CCCACGTG
665480 ACGCTAAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
49 12 0.21
50 38 0.66
51 8 0.14
ACGTcount: A:0.21, C:0.30, G:0.32, T:0.17
Consensus pattern (50 bp):
CGCGCTATACCCACGTGTAACCATACCAGCGTATAGCGCGGAGCAGGGGG
Found at i:666608 original size:2 final size:2
Alignment explanation
Indices: 666596--666642 Score: 76
Period size: 2 Copynumber: 23.0 Consensus size: 2
666586 AACTTGAAAA
*
666596 AT AT GT 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
666638 GAT AT
1 -AT AT
666643 TTTTGAGTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:682503 original size:32 final size:31
Alignment explanation
Indices: 682430--682512 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
682420 CTAATGTGAC
* * *
682430 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGTGGCCCTAAGATCAT
**
682461 TC-TAGGGTAGGCCCTGTGGCCCTAAGATGTGT
1 TCTTA-GGTAGGCCCTGTGGCCCTAAGAT-CAT
*
682493 TCTTAGGTAGGCCCCGTGGC
1 TCTTAGGTAGGCCCTGTGGC
682513 TCCGAACTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 2 0.05
31 22 0.51
32 17 0.40
33 2 0.05
ACGTcount: A:0.14, C:0.25, G:0.33, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGTGGCCCTAAGATCAT
Found at i:683547 original size:23 final size:23
Alignment explanation
Indices: 683517--683560 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
683507 GGAATACATT
683517 GCACCATGTACTATATTGTGCAG
1 GCACCATGTACTATATTGTGCAG
*
683540 GCACCATGTACTATTTTGTGC
1 GCACCATGTACTATATTGTGC
683561 CATATAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (23 bp):
GCACCATGTACTATATTGTGCAG
Found at i:703760 original size:21 final size:21
Alignment explanation
Indices: 703731--703771 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
703721 AAGAAGTGGA
* *
703731 AGTAAATGAATTACTTTGGTT
1 AGTAAATGAAGTACCTTGGTT
*
703752 AGTAGATGAAGTACCTTGGT
1 AGTAAATGAAGTACCTTGGT
703772 AAGTGTCTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (21 bp):
AGTAAATGAAGTACCTTGGTT
Found at i:704601 original size:12 final size:12
Alignment explanation
Indices: 704584--704609 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
704574 AAAATACGAA
704584 ACCTCACAAATC
1 ACCTCACAAATC
704596 ACCTCACAAATC
1 ACCTCACAAATC
704608 AC
1 AC
704610 TTCAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (12 bp):
ACCTCACAAATC
Found at i:705395 original size:23 final size:22
Alignment explanation
Indices: 705344--705394 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
705334 AATTTTTGGA
*
705344 TTTTTTTGGCTTTTTCTTCTTC
1 TTTTTTTGCCTTTTTCTTCTTC
* *
705366 TTCTTTTTGCCTTTTTATT-TCC
1 TT-TTTTTGCCTTTTTCTTCTTC
705388 TTTTTTT
1 TTTTTTT
705395 TATCTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 5 0.20
22 6 0.24
23 14 0.56
ACGTcount: A:0.02, C:0.18, G:0.06, T:0.75
Consensus pattern (22 bp):
TTTTTTTGCCTTTTTCTTCTTC
Found at i:712596 original size:26 final size:27
Alignment explanation
Indices: 712541--712596 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 27
712531 AGCAACTCAT
*
712541 TATTTATTTCAATTACCCCATATACTATAA
1 TATTTATTTCAATTACCCC--A-ACCATAA
712571 TATTTATTTCAATTACCCC-ACCATAA
1 TATTTATTTCAATTACCCCAACCATAA
712597 ATCTTGTGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 6 0.24
30 19 0.76
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (27 bp):
TATTTATTTCAATTACCCCAACCATAA
Found at i:724043 original size:2 final size:2
Alignment explanation
Indices: 724038--724062 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
724028 AGAAGCATGA
724038 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
724063 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:728077 original size:29 final size:30
Alignment explanation
Indices: 728027--728083 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
728017 GATGAACTCA
*
728027 TCAAGTGGTTAAAAAAAGTTATGTACATTG
1 TCAAGTGGTTAAAAAAAGTTATGAACATTG
728057 TCAA-TGGTT-AAAAAAGATTATGAACAT
1 TCAAGTGGTTAAAAAAAG-TTATGAACAT
728084 ATATTATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 14 0.56
30 4 0.16
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.32
Consensus pattern (30 bp):
TCAAGTGGTTAAAAAAAGTTATGAACATTG
Found at i:729461 original size:21 final size:21
Alignment explanation
Indices: 729419--729461 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
729409 TTTCTGGGCT
* *
729419 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
729440 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
729461 A
1 A
729462 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:730411 original size:32 final size:32
Alignment explanation
Indices: 730370--730466 Score: 128
Period size: 32 Copynumber: 3.1 Consensus size: 32
730360 AGAGTCGAGG
730370 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
730402 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
730433 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
730465 TT
1 TT
730467 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:730442 original size:31 final size:31
Alignment explanation
Indices: 730369--730469 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 31
730359 AAGAGTCGAG
730369 GTTTACCTATGTTCT-ACGGAACATATGGACA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
730400 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
730432 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
730463 GTTTACC
1 GTTTACC
730470 GAGGATCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:730501 original size:30 final size:30
Alignment explanation
Indices: 730457--730550 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
730447 AAGGAACATA
730457 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
730488 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
730518 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
730547 TGGA
1 TGGA
730551 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.29
30 35 0.59
31 7 0.12
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:734461 original size:21 final size:21
Alignment explanation
Indices: 734419--734461 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
734409 TTTCTGGGCT
* *
734419 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
734440 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
734461 A
1 A
734462 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:735421 original size:32 final size:32
Alignment explanation
Indices: 735380--735476 Score: 128
Period size: 32 Copynumber: 3.1 Consensus size: 32
735370 GAGTCGAGGG
735380 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
735412 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
735443 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
735475 TT
1 TT
735477 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:735452 original size:31 final size:31
Alignment explanation
Indices: 735379--735479 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 31
735369 AGAGTCGAGG
735379 GTTTACCTATGTTCT-ACGGAACATATGGACA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
735410 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
735442 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
735473 GTTTACC
1 GTTTACC
735480 GAGGATCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:735511 original size:30 final size:30
Alignment explanation
Indices: 735467--735560 Score: 127
Period size: 30 Copynumber: 3.1 Consensus size: 30
735457 AAGGAACATA
735467 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
735498 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * * *
735528 TGGATAGTTACAG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
735557 TGGA
1 TGGA
735561 TAGGTCCTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 17 0.29
30 34 0.59
31 7 0.12
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:736334 original size:20 final size:19
Alignment explanation
Indices: 736305--736344 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
736295 ACGCATTTAG
*
736305 TATCTAAACTATTAGTTTT
1 TATCTAAACTATTAATTTT
*
736324 TATCTTAAACTTTTAATTTT
1 TATC-TAAACTATTAATTTT
736344 T
1 T
736345 TCAAAACCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (19 bp):
TATCTAAACTATTAATTTT
Found at i:738920 original size:20 final size:21
Alignment explanation
Indices: 738895--738952 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
738885 TAATTTATTA
738895 TTATGGATTTCAAGTTT-TTG
1 TTATGGATTTCAAGTTTGTTG
738915 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
*
738936 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
738953 ATTAGATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.21, C:0.05, G:0.22, T:0.52
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:738934 original size:18 final size:19
Alignment explanation
Indices: 738895--738952 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 19
738885 TAATTTATTA
738895 TTATGGATTTCAAGTTTTTG
1 TTATGGATTTCAAG-TTTTG
738915 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAG-TT-TTG
*
738936 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
738953 ATTAGATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 1 0.03
20 19 0.53
21 16 0.44
ACGTcount: A:0.21, C:0.05, G:0.22, T:0.52
Consensus pattern (19 bp):
TTATGGATTTCAAGTTTTG
Found at i:739244 original size:14 final size:14
Alignment explanation
Indices: 739195--739243 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 14
739185 CGTTCGATTA
739195 TATGTTCATTCATT
1 TATGTTCATTCATT
739209 TATGTTCATTCATT
1 TATGTTCATTCATT
* *
739223 TATGTTCGTCCATT
1 TATGTTCATTCATT
739237 TATGTTC
1 TATGTTC
739244 GAACAAAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.55
Consensus pattern (14 bp):
TATGTTCATTCATT
Found at i:739535 original size:23 final size:24
Alignment explanation
Indices: 739506--739563 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
739496 TTGTTTGTGT
*
739506 TGTTCGTTTATGTTCATTTATT-G
1 TGTTCGTTTATGTTCATTCATTCG
* *
739529 TGTTCGTTTATGTTCGTTCGTTCG
1 TGTTCGTTTATGTTCATTCATTCG
739553 TGTTCGTTTAT
1 TGTTCGTTTAT
739564 TTATTAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.59
Consensus pattern (24 bp):
TGTTCGTTTATGTTCATTCATTCG
Found at i:739650 original size:16 final size:16
Alignment explanation
Indices: 739629--739661 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
739619 AAAAAAATTT
739629 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
739645 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
739661 T
1 T
739662 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:741233 original size:33 final size:33
Alignment explanation
Indices: 741180--741242 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
741170 TTTTACAAAC
* * *
741180 TCCCTAGTTTTTCACGGGCTAAACTAGAACTTT
1 TCCCTAGCTTTTAACAGGCTAAACTAGAACTTT
*
741213 TCCCTAGCTTTTAACAGGCTAAGCTAGAAC
1 TCCCTAGCTTTTAACAGGCTAAACTAGAAC
741243 CAAAACCCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (33 bp):
TCCCTAGCTTTTAACAGGCTAAACTAGAACTTT
Found at i:741637 original size:20 final size:20
Alignment explanation
Indices: 741609--741646 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
741599 TTGATTCTAC
741609 TGTAGCAGTATCAATACTAT
1 TGTAGCAGTATCAATACTAT
* *
741629 TGTATCAGTATCGATACT
1 TGTAGCAGTATCAATACT
741647 CATTTTGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTAGCAGTATCAATACTAT
Found at i:741719 original size:20 final size:19
Alignment explanation
Indices: 741686--741774 Score: 106
Period size: 20 Copynumber: 4.6 Consensus size: 19
741676 TATTGTTCAT
* *
741686 TACTGTTCACACAGTATCGG
1 TACTATTCATACAGTAT-GG
* *
741706 TACTATGCATACAGTATATG
1 TACTATTCATACAGTAT-GG
741726 TACTATTCATACAGTATGG
1 TACTATTCATACAGTATGG
* *
741745 TACTATTCATATAATATGG
1 TACTATTCATACAGTATGG
741764 TACTATTCATA
1 TACTATTCATA
741775 AAAAAATTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 29 0.48
20 31 0.52
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (19 bp):
TACTATTCATACAGTATGG
Found at i:746754 original size:64 final size:64
Alignment explanation
Indices: 746638--746843 Score: 213
Period size: 64 Copynumber: 3.2 Consensus size: 64
746628 ATTCAAGGTG
* * * * * *
746638 ATGCACCGATGCATCAAACCATGCATCGATGCACCTATGAT-TTAATT-GAACATCGAATGCATT
1 ATGCATCGATGCA-CAAGCAATGCATCGATGCACC-AGGATATT-TTTCAAACATCGAATGCATT
746701 TC
63 TC
* *** *
746703 ATGCACCGATGCACTCTCCATGCATCGATGCACTC-GGA-ATATTTTCAAACATCGAATGCATTT
1 ATGCATCGATGCACAAGCAATGCATCGATGCAC-CAGGATAT-TTTTCAAACATCGAATGCATTT
*
746766 G
64 C
* *
746767 ATGCATCGATGCACAAGCAATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCATTTT
1 ATGCATCGATGCACAAGCAATGCATCGATGCACCAGGATATTTTTCAAACATCGAATGCATTTC
746831 ATGCATCGATGCA
1 ATGCATCGATGCA
746844 TCCTTAGTGC
Statistics
Matches: 121, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
63 6 0.05
64 99 0.82
65 16 0.13
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (64 bp):
ATGCATCGATGCACAAGCAATGCATCGATGCACCAGGATATTTTTCAAACATCGAATGCATTTC
Found at i:748927 original size:20 final size:21
Alignment explanation
Indices: 748894--748933 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
748884 TTTTAACGTA
748894 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
748914 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
748934 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:748941 original size:22 final size:20
Alignment explanation
Indices: 748893--748937 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
748883 ATTTTAACGT
748893 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
748913 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
748934 AATT
1 AATT
748938 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:755038 original size:64 final size:64
Alignment explanation
Indices: 754923--755128 Score: 197
Period size: 64 Copynumber: 3.2 Consensus size: 64
754913 ATTCAAGGTG
* * * *
754923 ATGCACCGATGCATCAAACCATGCATCGATGCACCTATG-AT-TTAATT-AAACATCGAATGCAT
1 ATGCATCGATGCA-CAAGCAATGCATCGATGCACC-A-GAATATT-TTTCAAACATCGAATGCAT
754985 TTC
62 TTC
* *** *
754988 ATGCACCGATGCACTCTCCATGCATCGATGCACTC-GAA-ATATTTTCAAACATCGAATGCATTT
1 ATGCATCGATGCACAAGCAATGCATCGATGCAC-CAGAATAT-TTTTCAAACATCGAATGCATTT
*
755051 G
64 C
* ** *
755052 ATGCATCAATGCACAAGCAATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCATTTT
1 ATGCATCGATGCACAAGCAATGCATCGATGCACCAGAATATTTTTCAAACATCGAATGCATTTC
755116 ATGCATCGATGCA
1 ATGCATCGATGCA
755129 TCCTTAGTGC
Statistics
Matches: 119, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 97 0.82
65 16 0.13
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (64 bp):
ATGCATCGATGCACAAGCAATGCATCGATGCACCAGAATATTTTTCAAACATCGAATGCATTTC
Found at i:760149 original size:23 final size:23
Alignment explanation
Indices: 760122--760167 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
760112 ACATTTTATA
*
760122 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
*
760145 TGGCACTACGGTGCATTTATACG
1 TGGCACTACGGTGCAATTATACG
760168 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:761586 original size:64 final size:64
Alignment explanation
Indices: 761470--761659 Score: 190
Period size: 64 Copynumber: 3.0 Consensus size: 64
761460 ATTCAAGGTG
* * * * *
761470 ATGCACCGATGCATCAAACCATGCATCGATGCACCTATGAT-TTAATT-GAACATCGAATGCATT
1 ATGCACCGATGCA-CAAGCAATGCATCGATGCACC-AGGATATT-TTTCAAACATCGAATGCATT
761533 TC
63 TC
*** *
761535 ATGCACCGATGCACTCTCCATGCATCGATGCACTC-GGA-ATATTTTCAAACATCGAATGCATTT
1 ATGCACCGATGCACAAGCAATGCATCGATGCAC-CAGGATAT-TTTTCAAACATCGAATGCATTT
*
761598 G
64 C
* * *
761599 ATGCATCGATGGACAAGCAATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCAT
1 ATGCACCGATGCACAAGCAATGCATCGATGCACCAGGATATTTTTCAAACATCGAATGCAT
761660 GATTATTAGT
Statistics
Matches: 105, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
63 6 0.06
64 83 0.79
65 16 0.15
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (64 bp):
ATGCACCGATGCACAAGCAATGCATCGATGCACCAGGATATTTTTCAAACATCGAATGCATTTC
Found at i:764289 original size:20 final size:20
Alignment explanation
Indices: 764266--764341 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
764256 TTTCACACAA
* *
764266 TATCGGTACTATTCATATAT
1 TATCGGTACTATTCATACAG
764286 TATCGGTACTATTCATACAG
1 TATCGGTACTATTCATACAG
**
764306 TATCAATACTATTCATACAG
1 TATCGGTACTATTCATACAG
764326 TAT-GGTACTATTCATA
1 TATCGGTACTATTCATA
764342 GAAAAATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
19 11 0.22
20 39 0.78
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
TATCGGTACTATTCATACAG
Found at i:765258 original size:21 final size:21
Alignment explanation
Indices: 765233--765273 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
765223 CCGTGAACAG
*
765233 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCACCGATGCAT
765254 TGCTACAGTGCACCGATGCA
1 TGCTACAGTGCACCGATGCA
765274 CTAAAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (21 bp):
TGCTACAGTGCACCGATGCAT
Found at i:766210 original size:32 final size:31
Alignment explanation
Indices: 766170--766295 Score: 155
Period size: 32 Copynumber: 3.9 Consensus size: 31
766160 CATAGTTATA
*
766170 CTGTCCATATATCTCAAAAGACATAGGTAATT
1 CTGTCCATATATC-CGAAAGACATAGGTAATT
*
766202 CTATCCATATATCCTGAAAGACATAGGTAATT
1 CTGTCCATATATCC-GAAAGACATAGGTAATT
*
766234 CTGTCCATATGTCCCGAAAGACATAGGTAATT
1 CTGTCCATATAT-CCGAAAGACATAGGTAATT
* *
766266 ATGTCCATATATTCCGTACA-ACATAGGTAA
1 CTGTCCATATA-TCCG-AAAGACATAGGTAA
766296 ACCCTCGACT
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
31 1 0.01
32 77 0.93
33 5 0.06
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (31 bp):
CTGTCCATATATCCGAAAGACATAGGTAATT
Found at i:766290 original size:64 final size:62
Alignment explanation
Indices: 766107--766295 Score: 170
Period size: 64 Copynumber: 3.0 Consensus size: 62
766097 AACCTCGGCA
* * * * * *
766107 ACTGTCCATAGGTCCCAAAGAACCTAGGTAA--ACTGTTCATATGTTCCTTAGAACATA-GTTAT
1 ACTGTCCATATGTCCCAAAG-ACATAGGTAATTA-TGTCCATATATTCC-TAAAACATAGGTAAT
* * * *
766169 ACTGTCCATATATCTCAAAAGACATAGGTAATTCTATCCATATA-TCCTGAAAGACATAGGTAAT
1 ACTGTCCATATGTC-CCAAAGACATAGGTAATTATGTCCATATATTCCT-AAA-ACATAGGTAAT
* *
766233 TCTGTCCATATGTCCCGAAAGACATAGGTAATTATGTCCATATATTCCGTACAACATAGGTAA
1 ACTGTCCATATGTCCC-AAAGACATAGGTAATTATGTCCATATATTCC-TAAAACATAGGTAA
766296 ACCCTCGACT
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
61 1 0.01
62 26 0.25
63 18 0.18
64 51 0.50
65 5 0.05
66 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (62 bp):
ACTGTCCATATGTCCCAAAGACATAGGTAATTATGTCCATATATTCCTAAAACATAGGTAAT
Found at i:767284 original size:20 final size:20
Alignment explanation
Indices: 767259--767313 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
767249 CGAAATATCC
767259 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
767279 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
767299 ATGCATCGATGCACC
1 ATGCATCGATGCACC
767314 TACCCATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (20 bp):
ATGCATCGATGCACCCCTTA
Found at i:769423 original size:45 final size:45
Alignment explanation
Indices: 769374--769682 Score: 339
Period size: 45 Copynumber: 6.8 Consensus size: 45
769364 AGTATAACAT
* * * *
769374 CTTTTCTGTTGATAATGCACTCATATGCATTTCAACTATTGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
* * * * * * *
769419 CTTTTATATTGATGACGTACCTATATACATCTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
* * *
769464 CTTTTTCTGTTGAGAATGTACCCATATACATTTCAACTCTAGCATA
1 C-TTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
** * *
769510 CTTTTCTGTTGATAATCCACCCATATGCATTTCAACTCTAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
* * * * *
769555 CTTTTATGTTGATGATGTACCCATATACATCTCAACCATAATATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
** * *
769600 CTTTTTCTGTTGCGAATGTACCCATATACATTTCAACCATATTATA
1 C-TTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
* *
769646 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACT
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACT
769683 CTGGCATCCT
Statistics
Matches: 216, Mismatches: 46, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
45 142 0.66
46 74 0.34
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
Found at i:769490 original size:91 final size:90
Alignment explanation
Indices: 769374--769682 Score: 320
Period size: 91 Copynumber: 3.4 Consensus size: 90
769364 AGTATAACAT
* * * * * *
769374 CTTTTCTGTTGATAATGCACTCATATGCATTTCAACTATTGTATACTTTTATATTGATGACGTAC
1 CTTTTCTGTTGAGAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGATGACGTAC
* *
769439 CTATATACATCTCAACCATAGTATA
66 CCATATACATTTCAACCATAGTATA
* * * * *
769464 CTTTTTCTGTTGAGAATGTACCCATATACATTTCAACTCTAGCATACTTTTCTGTTGATAATC-C
1 C-TTTTCTGTTGAGAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGATGA-CGT
*
769528 ACCCATATGCATTTCAACTC-TAGTATA
64 ACCCATATACATTTCAAC-CATAGTATA
* * * * * * *
769555 CTTTTATGTTGATG-ATGTACCCATATACATCTCAACCATAATATACTTTTTCTGTTG-CGAATG
1 CTTTTCTGTTGA-GAATGCACCCATATACATTTCAACTATAGTATAC-TTTTCTGTTGATG-ACG
*
769618 TACCCATATACATTTCAACCATATTATA
63 TACCCATATACATTTCAACCATAGTATA
* *
769646 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACT
1 CTTTTCTGTTGAGAATGCACCCATATACATTTCAACT
769683 CTGGCATCCT
Statistics
Matches: 178, Mismatches: 32, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
90 39 0.22
91 137 0.77
92 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (90 bp):
CTTTTCTGTTGAGAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGATGACGTAC
CCATATACATTTCAACCATAGTATA
Found at i:769716 original size:136 final size:136
Alignment explanation
Indices: 769374--769684 Score: 507
Period size: 136 Copynumber: 2.3 Consensus size: 136
769364 AGTATAACAT
* * * * *
769374 CTTTTCTGTTGATAATGCACTCATATGCATTTCAACTATTGTATACTTTTATATTGATGACGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTATGTTGATGATGTAC
* *
769439 CTATATACATCTCAACCATAGTATACTTTTTCTGTTGAGAATGTACCCATATACATTTCAACTCT
66 CCATATACATCTCAACCATAATATACTTTTTCTGTTGAGAATGTACCCATATACATTTCAACTCT
769504 AGCATA
131 AGCATA
*
769510 CTTTTCTGTTGATAATCCACCCATATGCATTTCAACTCTAGTATACTTTTATGTTGATGATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTATGTTGATGATGTAC
*
769575 CCATATACATCTCAACCATAATATACTTTTTCTGTTGCGAATGTACCCATATACATTTCAAC-CA
66 CCATATACATCTCAACCATAATATACTTTTTCTGTTGAGAATGTACCCATATACATTTCAACTC-
**
769639 TATTATA
130 TAGCATA
769646 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCT
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCT
769685 GGCATCCTTT
Statistics
Matches: 162, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
135 1 0.01
136 161 0.99
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.40
Consensus pattern (136 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTATGTTGATGATGTAC
CCATATACATCTCAACCATAATATACTTTTTCTGTTGAGAATGTACCCATATACATTTCAACTCT
AGCATA
Found at i:770819 original size:24 final size:24
Alignment explanation
Indices: 770792--770847 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
770782 TTAGTTTTAA
*
770792 TCCCCTC-TAAACCTTTATTAAGCT
1 TCCCCTCAT-AACCTTTATTAAGAT
770816 T-CCCTCATAACCTTTATTAAGAT
1 TCCCCTCATAACCTTTATTAAGAT
770839 T-CCCTCATA
1 TCCCCTCATA
770848 GGAAAAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 28 0.93
24 2 0.07
ACGTcount: A:0.27, C:0.32, G:0.04, T:0.38
Consensus pattern (24 bp):
TCCCCTCATAACCTTTATTAAGAT
Found at i:770820 original size:23 final size:23
Alignment explanation
Indices: 770801--770847 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
770791 ATCCCCTCTA
*
770801 AACCTTTATTAAGCTTCCCTCAT
1 AACCTTTATTAAGATTCCCTCAT
770824 AACCTTTATTAAGATTCCCTCAT
1 AACCTTTATTAAGATTCCCTCAT
770847 A
1 A
770848 GGAAAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.38
Consensus pattern (23 bp):
AACCTTTATTAAGATTCCCTCAT
Found at i:770993 original size:2 final size:2
Alignment explanation
Indices: 770988--771014 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
770978 CTTATTCCTC
770988 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
771015 ATAAATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:775791 original size:21 final size:22
Alignment explanation
Indices: 775752--775793 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
775742 ACATAATGAT
* *
775752 AACATTATCATTATTAACATTC
1 AACATCATCATTAGTAACATTC
775774 AACATCATC-TTAGTAACATT
1 AACATCATCATTAGTAACATT
775794 ATCATCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (22 bp):
AACATCATCATTAGTAACATTC
Found at i:776542 original size:88 final size:88
Alignment explanation
Indices: 776430--776634 Score: 218
Period size: 88 Copynumber: 2.3 Consensus size: 88
776420 TGATATTGCA
* * * * *
776430 CTATGCATTTCAACTATTGTATACTTTTATGTTGATGATGTACCCATATACATCTCAAC-CATAG
1 CTATACATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATCTCAACTC-TAG
776494 TATACTTTTCTATTGAGAATATAC
65 TATACTTTTCTATTGAGAATATAC
* * * * *
776518 CTATACATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTTAACTCTAGT
1 CTATACATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATCTCAACTCTAGT
* * *
776583 ATACTTTTATGTTGATG-ATGTACC
66 ATACTTTTCTATTGA-GAATATA-C
* *
776607 CATATACATCTCAAC-ATAGTATACTTTT
1 C-TATACATTTCAACTATAGCATACTTTT
776635 TCTGTTGTGA
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
88 70 0.72
89 15 0.15
90 12 0.12
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.41
Consensus pattern (88 bp):
CTATACATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATCTCAACTCTAGT
ATACTTTTCTATTGAGAATATAC
Found at i:776641 original size:45 final size:45
Alignment explanation
Indices: 776439--776641 Score: 225
Period size: 45 Copynumber: 4.6 Consensus size: 45
776429 ACTATGCATT
* *
776439 TCAACTATTGTATACTTTTATGTTGATGATGTACCCATATACATC
1 TCAACTATAGTATACTTTTCTGTTGATGATGTACCCATATACATC
* * * *
776484 TCAACCATAGTATACTTTTCTATTGA-GAATATA-CC-TATACATT
1 TCAACTATAGTATACTTTTCTGTTGATG-ATGTACCCATATACATC
* * * * * *
776527 TCAACTCTAGCATACTTTTCTGTTGATAATGCACCCATATGCATT
1 TCAACTATAGTATACTTTTCTGTTGATGATGTACCCATATACATC
* * *
776572 TTAACTCTAGTATACTTTTATGTTGATGATGTACCCATATACATC
1 TCAACTATAGTATACTTTTCTGTTGATGATGTACCCATATACATC
776617 TCAAC-ATAGTATACTTTTTCTGTTG
1 TCAACTATAGTATAC-TTTTCTGTTG
776642 TGAATGTTCC
Statistics
Matches: 129, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
43 32 0.25
44 13 0.10
45 84 0.65
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.41
Consensus pattern (45 bp):
TCAACTATAGTATACTTTTCTGTTGATGATGTACCCATATACATC
Found at i:777322 original size:19 final size:21
Alignment explanation
Indices: 777271--777326 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
777261 TATCCTCACC
777271 ATGGTATCGATACCCCTATACT
1 ATGGTATCGATACCCC-ATACT
*
777293 ATGGTACCGATACCTCC-T-CT
1 ATGGTATCGATACC-CCATACT
777313 A-GGTATCGATACCC
1 ATGGTATCGATACCC
777327 AATTTAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
19 11 0.35
20 3 0.10
21 1 0.03
22 13 0.42
23 2 0.06
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGGTATCGATACCCCATACT
Found at i:777322 original size:95 final size:95
Alignment explanation
Indices: 777223--777400 Score: 216
Period size: 95 Copynumber: 1.9 Consensus size: 95
777213 CCTTAATGCC
* * ** * * *
777223 TCGATACCTAAATTA-ACTTCGATATAGGCTTGTATCGATATCCTCACCATGGTATCGATACCCC
1 TCGATACCCAAATTAGA-TTCGATATAGACGGGTATCGATACCCTCACCATGGTATCAATAACCC
777287 TATACTAT-GGTACCGATACCTCCTCTAGGTA
65 TATACT-TGGGTACCGATACCTCCTCTAGGTA
* ** *
777318 TCGATACCCAATTTAGATTCGATATTTACGGGTATCGATACCCTTACCATGGTATCAATAACCCT
1 TCGATACCCAAATTAGATTCGATATAGACGGGTATCGATACCCTCACCATGGTATCAATAACCCT
*
777383 ATGCTTGGGTACCGATAC
66 ATACTTGGGTACCGATAC
777401 TTGTTGAATA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
94 1 0.01
95 67 0.97
96 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (95 bp):
TCGATACCCAAATTAGATTCGATATAGACGGGTATCGATACCCTCACCATGGTATCAATAACCCT
ATACTTGGGTACCGATACCTCCTCTAGGTA
Found at i:778010 original size:2 final size:2
Alignment explanation
Indices: 778005--778033 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
777995 ATTCCTCAAA
778005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
778034 CTAAATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:793175 original size:88 final size:88
Alignment explanation
Indices: 793026--793199 Score: 294
Period size: 88 Copynumber: 2.0 Consensus size: 88
793016 CCTAACACAC
* *
793026 CCTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTTAAATTAATTAAATCTATAT
1 CCTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTATTATTTCAAATTAATTAAATCTATAT
* *
793091 TTAATTAATTAGAATTTAATAAT
66 TTAATTAATTAAAATTAAATAAT
* *
793114 CCTTTATATCCAAGTTACCCTAATCATATTAGGGATTTATTATTTCAAATTATTTAAATCTATAT
1 CCTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTATTATTTCAAATTAATTAAATCTATAT
793179 TTAATTAATTAAAATTAAATA
66 TTAATTAATTAAAATTAAATA
793200 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.45
Consensus pattern (88 bp):
CCTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTATTATTTCAAATTAATTAAATCTATAT
TTAATTAATTAAAATTAAATAAT
Found at i:794801 original size:14 final size:16
Alignment explanation
Indices: 794771--794808 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
794761 TTAATATGAC
794771 TAAAATTAAATAAATA
1 TAAAATTAAATAAATA
794787 TAAAA-TAAA-AAATA
1 TAAAATTAAATAAATA
794801 TAATAATT
1 TAA-AATT
794809 TGAATAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.40
15 6 0.30
16 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAATTAAATAAATA
Found at i:794949 original size:2 final size:2
Alignment explanation
Indices: 794942--794969 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
794932 TTATTTAATC
794942 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
794970 GAATAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:795453 original size:149 final size:152
Alignment explanation
Indices: 795237--795537 Score: 547
Period size: 149 Copynumber: 2.0 Consensus size: 152
795227 ATATATAAAT
795237 AAACAGGCAATGATTAAATTATAAATAAAACAAAATTTAAAAACCAAATTGAAATGCACAGAAAG
1 AAACAGGCAATGATTAAATTATAAATAAAACAAAATTTAAAAACCAAATTGAAATGCACAGAAAG
795302 TCAAATCCAGTGACTAAAA-GTAAAAGCTACAAATTTGGGAGTACTGCCAGAG-GGG-TTCCCA-
66 TCAAATCCAGTGACTAAAATGTAAAAGCTACAAATTTGGGAGTACTG-CAGAGAGGGTTTCCCAG
795363 TGTGAAATTACACAAGCACCCTC
130 TGTGAAATTACACAAGCACCCTC
795386 AAACAGGCAATGATTAAATTATAAATAAAACAAAATTTAAAAACCAAATTGAAATGCACAGAAAG
1 AAACAGGCAATGATTAAATTATAAATAAAACAAAATTTAAAAACCAAATTGAAATGCACAGAAAG
795451 TCAAATCCAGTGACTAAAATGTAAAAGCTACAAATTTGGGAGTACTGCAGAGAGGGTTTTCCCAT
66 TCAAATCCAGTGACTAAAATGTAAAAGCTACAAATTTGGGAGTACTGCAGAGAGGG-TTTCCCA-
795516 GTGTGAAATTACACAAGCACCC
129 GTGTGAAATTACACAAGCACCC
795538 CTCATCAAAA
Statistics
Matches: 146, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
149 89 0.61
150 30 0.21
152 6 0.04
154 21 0.14
ACGTcount: A:0.46, C:0.17, G:0.16, T:0.22
Consensus pattern (152 bp):
AAACAGGCAATGATTAAATTATAAATAAAACAAAATTTAAAAACCAAATTGAAATGCACAGAAAG
TCAAATCCAGTGACTAAAATGTAAAAGCTACAAATTTGGGAGTACTGCAGAGAGGGTTTCCCAGT
GTGAAATTACACAAGCACCCTC
Found at i:796402 original size:3 final size:3
Alignment explanation
Indices: 796394--796453 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
796384 AATATATATT
796394 TAA TAA TAA TAAA TAA TAA -AA -AA TAA -AA T-A TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
796436 TAA TAA -AA GTAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA
796454 AAGTAAAATG
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
2 10 0.20
3 36 0.71
4 5 0.10
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:796443 original size:27 final size:29
Alignment explanation
Indices: 796396--796452 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 29
796386 TATATATTTA
796396 ATAATAATAAATAATAAAAAA-TAA-AAT
1 ATAATAATAAATAATAAAAAAGTAATAAT
796423 ATAATAAT-AATAATAATAAAAGTAATAAT
1 ATAATAATAAATAATAA-AAAAGTAATAAT
796452 A
1 A
796453 AAAGTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 8 0.30
27 12 0.44
28 3 0.11
29 4 0.15
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (29 bp):
ATAATAATAAATAATAAAAAAGTAATAAT
Found at i:796454 original size:12 final size:11
Alignment explanation
Indices: 796394--796468 Score: 63
Period size: 10 Copynumber: 7.1 Consensus size: 11
796384 AATATATATT
*
796394 TAATAATAATA
1 TAATAATAAAA
796405 -AATAATAAAA
1 TAATAATAAAA
*
796415 -AATAA-AATA
1 TAATAATAAAA
796424 TAATAAT--AA
1 TAATAATAAAA
796433 TAATAATAAAA
1 TAATAATAAAA
796444 GTAATAATAAAA
1 -TAATAATAAAA
796456 GTAA-AATGAAAA
1 -TAATAAT-AAAA
796468 T
1 T
796469 TAGTCTACAA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
9 11 0.20
10 19 0.35
11 6 0.11
12 19 0.35
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:797503 original size:16 final size:16
Alignment explanation
Indices: 797482--797513 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
797472 TAATGGCATT
797482 AATGAAACTTGTTTAA
1 AATGAAACTTGTTTAA
797498 AATGAAACTTGTTTAA
1 AATGAAACTTGTTTAA
797514 CTGTTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (16 bp):
AATGAAACTTGTTTAA
Found at i:798681 original size:37 final size:36
Alignment explanation
Indices: 798640--798725 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 36
798630 ATGCGCTCCT
798640 GGTCTGTAGCTCATTTGTTCGGAGAGAATACGCTACG
1 GGTCT-TAGCTCATTTGTTCGGAGAGAATACGCTACG
* * *
798677 GGTCTCTAGCTCATTTGTTCTGAGAGAATACTCTCCG
1 GGTCT-TAGCTCATTTGTTCGGAGAGAATACGCTACG
798714 GGTC-TAGCTCAT
1 GGTCTTAGCTCAT
798726 GTTTCATTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 8 0.18
37 37 0.82
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (36 bp):
GGTCTTAGCTCATTTGTTCGGAGAGAATACGCTACG
Found at i:801710 original size:20 final size:21
Alignment explanation
Indices: 801685--801723 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
801675 GGCTGCTGGA
801685 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
801705 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTAACCGGTTT
801724 GACCAGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:801721 original size:10 final size:9
Alignment explanation
Indices: 801686--801784 Score: 63
Period size: 10 Copynumber: 10.3 Consensus size: 9
801676 GCTGCTGGAA
*
801686 ACCGGTTTA
1 ACCGGTTTG
*
801695 ACCGGTTTTCA
1 ACCGG-TTT-G
801706 ACCGGTTCTG
1 ACCGGTT-TG
801716 ACCGGTTTG
1 ACCGGTTTG
* *
801725 ACCAGTTTCA
1 ACCGGTTT-G
*
801735 ACCGGTTCG
1 ACCGGTTTG
*
801744 AACCAGTTTG
1 -ACCGGTTTG
*
801754 ACCGGTCTG
1 ACCGGTTTG
*
801763 AACTGGTTTG
1 -ACCGGTTTG
*
801773 ACCGGTCTG
1 ACCGGTTTG
801782 ACC
1 ACC
801785 CGACCCGACC
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
9 31 0.44
10 32 0.46
11 7 0.10
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:801737 original size:29 final size:29
Alignment explanation
Indices: 801686--801784 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
801676 GCTGCTGGAA
*
801686 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTCTG
*
801716 ACCGGTTTGACCAGTTTCAACCGGTTC-G
1 ACCGGTTTGACCGGTTTCAACCGGTTCTG
* * * *
801744 AACCAGTTTGACCGGTCTGAACTGGTT-TG
1 -ACCGGTTTGACCGGTTTCAACCGGTTCTG
*
801773 ACCGGTCTGACC
1 ACCGGTTTGACC
801785 CGACCCGACC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
28 11 0.19
29 35 0.60
30 12 0.21
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.29
Consensus pattern (29 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:801757 original size:19 final size:19
Alignment explanation
Indices: 801714--801778 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
801704 CAACCGGTTC
*
801714 TGACCGGTTTG-ACCAGTT
1 TGACCGGTTCGAACCAGTT
*
801732 TCAACCGGTTCGAACCAGTT
1 T-GACCGGTTCGAACCAGTT
**
801752 TGACCGG-TCTGAACTGGTT
1 TGACCGGTTC-GAACCAGTT
801771 TGACCGGT
1 TGACCGGT
801779 CTGACCCGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 3 0.08
19 27 0.71
20 8 0.21
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.29
Consensus pattern (19 bp):
TGACCGGTTCGAACCAGTT
Found at i:801802 original size:17 final size:17
Alignment explanation
Indices: 801780--801818 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
801770 TTGACCGGTC
801780 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
801797 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
801814 TGACC
1 TGACC
801819 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:808605 original size:19 final size:19
Alignment explanation
Indices: 808580--808695 Score: 146
Period size: 19 Copynumber: 6.1 Consensus size: 19
808570 ACCGGTTTTC
*
808580 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
808600 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
*
808619 AACCAGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
808638 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
808657 AACCGGTTTCACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
808676 AACCGGTTTCACCGGTCTG
1 AACCGGTTTGACCGGTCTG
808695 A
1 A
808696 CCCGACCCGA
Statistics
Matches: 87, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.02
19 77 0.89
20 8 0.09
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:808627 original size:29 final size:28
Alignment explanation
Indices: 808561--808691 Score: 129
Period size: 29 Copynumber: 4.5 Consensus size: 28
808551 GCTGCTGGAA
808561 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTAACCGG-TTTCAACCGGTT-TG
* *
808591 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTAACCGGTTTCAACCGGTTTG
* * * *
808619 AACCAGTTTGACCGGTCTGAACCGGTTTG
1 -ACCGGTTTAACCGGTTTCAACCGGTTTG
* *
808648 ACCGGTCTGAACCGGTTTC-ACCGGTCTG
1 ACCGGT-TTAACCGGTTTCAACCGGTTTG
*
808676 AACCGGTTTCACCGGT
1 -ACCGGTTTAACCGGT
808692 CTGACCCGAC
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
28 21 0.25
29 50 0.60
30 13 0.15
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.28
Consensus pattern (28 bp):
ACCGGTTTAACCGGTTTCAACCGGTTTG
Found at i:808692 original size:38 final size:38
Alignment explanation
Indices: 808560--808695 Score: 159
Period size: 38 Copynumber: 3.5 Consensus size: 38
808550 GGCTGCTGGA
* * * *
808560 AACCGGTTTAACCGGTTTTCAACCGGTTCTGACCGGTTTG
1 AACCGGTTTCACCGG-TCTGAACCGGTT-TGACCGGTCTG
*
808600 -ACCGGTTTCAACCGGT-TCGAACCAGTTTGACCGGTCTG
1 AACCGGTTTC-ACCGGTCT-GAACCGGTTTGACCGGTCTG
* *
808638 AACCGGTTTGACCGGTCTGAACCGGTTTCACCGGTCTG
1 AACCGGTTTCACCGGTCTGAACCGGTTTGACCGGTCTG
808676 AACCGGTTTCACCGGTCTGA
1 AACCGGTTTCACCGGTCTGA
808696 CCCGACCCGA
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
38 54 0.64
39 25 0.30
40 5 0.06
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (38 bp):
AACCGGTTTCACCGGTCTGAACCGGTTTGACCGGTCTG
Found at i:808704 original size:5 final size:5
Alignment explanation
Indices: 808694--808752 Score: 55
Period size: 5 Copynumber: 10.8 Consensus size: 5
808684 TCACCGGTCT
* *
808694 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
808743 GACCCC GACC
1 GA-CCC GACC
808753 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 32 0.71
6 5 0.11
7 8 0.18
ACGTcount: A:0.19, C:0.53, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:808708 original size:57 final size:57
Alignment explanation
Indices: 808590--808708 Score: 134
Period size: 57 Copynumber: 2.1 Consensus size: 57
808580 AACCGGTTCT
* * ****
808590 GACCGGTTTGACCGGTTTCAACCGGTTCGAACCAGTTTGACCGGTCTGAACCGGTTT
1 GACCGGTCTGACCGGTTTCAACCGGTTCGAACCAGTTTCACCGGTCTGAACCGACCC
* *
808647 GACCGGTCTGAACCGGTTTC-ACCGG-TCTGAACCGGTTTCACCGGTCTGACCCGACCC
1 GACCGGTCTG-ACCGGTTTCAACCGGTTC-GAACCAGTTTCACCGGTCTGAACCGACCC
808704 GACCG
1 GACCG
808709 TTGACCCGAC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
56 2 0.04
57 41 0.79
58 9 0.17
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.24
Consensus pattern (57 bp):
GACCGGTCTGACCGGTTTCAACCGGTTCGAACCAGTTTCACCGGTCTGAACCGACCC
Found at i:808719 original size:22 final size:22
Alignment explanation
Indices: 808694--808759 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
808684 TCACCGGTCT
808694 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
808716 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
808738 GACCCGACCCCGACCGTTGACC
1 GACCCGA-CCCGACCGTTGACC
808760 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 29 0.67
23 14 0.33
ACGTcount: A:0.18, C:0.50, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:808761 original size:7 final size:7
Alignment explanation
Indices: 808749--808779 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
808739 ACCCGACCCC
808749 GACCGTT
1 GACCGTT
808756 GACCGTT
1 GACCGTT
808763 GACCGTT
1 GACCGTT
808770 GACCGTT
1 GACCGTT
808777 GAC
1 GAC
808780 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:822181 original size:15 final size:15
Alignment explanation
Indices: 822158--822192 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
822148 TTCAATTGCT
*
822158 CTATCCAAATATAAC
1 CTATGCAAATATAAC
822173 CTATGCAAATATAAC
1 CTATGCAAATATAAC
822188 CTATG
1 CTATG
822193 AGACTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.29
Consensus pattern (15 bp):
CTATGCAAATATAAC
Found at i:826650 original size:24 final size:24
Alignment explanation
Indices: 826621--826686 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
826611 GAGATATTAA
* *
826621 AAATCAAAACAGAATTCAGAACAT
1 AAATCATAACAGAATTCAGAACAG
* * * *
826645 ATATCATAACATAATCCAGATCAG
1 AAATCATAACAGAATTCAGAACAG
826669 AAATCATAACAGAATTCA
1 AAATCATAACAGAATTCA
826687 AGTCATGTAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.53, C:0.18, G:0.08, T:0.21
Consensus pattern (24 bp):
AAATCATAACAGAATTCAGAACAG
Found at i:826722 original size:24 final size:24
Alignment explanation
Indices: 826670--826730 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
826660 CCAGATCAGA
*
826670 AATCATAACAGAATTCAAGTCATGT
1 AATCA-AACAAAATTCAAGTCATGT
826695 -ATCAGAACAAAATTCAAGTC-TGT
1 AATCA-AACAAAATTCAAGTCATGT
*
826718 AATCAAATAAAAT
1 AATCAAACAAAAT
826731 ATTTATATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (24 bp):
AATCAAACAAAATTCAAGTCATGT
Found at i:840830 original size:105 final size:105
Alignment explanation
Indices: 840621--840822 Score: 269
Period size: 105 Copynumber: 1.9 Consensus size: 105
840611 GACTATATAT
* * * *
840621 AAATTCCTTAAGAACCATATACATATACCAAGGATCAAGTAAGTGTCTCAAAAGACCTCATACAT
1 AAATTACTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAAAAGACCTCATACAT
840686 GCTCCAAAGAATACATATACGTCCCAAAGGACCACGTAGA
66 GCTCCAAAGAATACATATACGTCCCAAAGGACCACGTAGA
* * * * *
840726 AAATTACTTAAGAATCATATACATATACTAAGGACCAAATATGTGTCGCAAAGGACCTCATAGAT
1 AAATTACTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAAAAGACCTCATACAT
* * * * * *
840791 GTTCCATAGGATACCTATATGTCCCGAAGGAC
66 GCTCCAAAGAATACATATACGTCCCAAAGGAC
840823 TGCGTAGACC
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
105 82 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (105 bp):
AAATTACTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAAAAGACCTCATACAT
GCTCCAAAGAATACATATACGTCCCAAAGGACCACGTAGA
Found at i:844077 original size:30 final size:30
Alignment explanation
Indices: 844041--844157 Score: 85
Period size: 30 Copynumber: 3.7 Consensus size: 30
844031 TTTGTCTCTC
*
844041 TTGAGATAGTTTCTCTTGAAACATAAACCT
1 TTGAGATAGTTTCTCTCGAAACATAAACCT
* * *
844071 TTGAGATTGTTTCTCTCAAAACA-AAGTTTCGTCTCGT
1 TTGAGATAGTTTCTCTCGAAACATAA------AC-C-T
* *
844108 TTGAGATATTTTCTCTTGAAACATAAACCT
1 TTGAGATAGTTTCTCTCGAAACATAAACCT
*
844138 TTGAGATTGTTT-TCTCGAAA
1 TTGAGATAGTTTCTCTCGAAA
844158 TAAAGTTTCG
Statistics
Matches: 66, Mismatches: 12, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
29 9 0.14
30 31 0.47
31 1 0.02
32 1 0.02
35 1 0.02
36 1 0.02
37 20 0.30
38 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (30 bp):
TTGAGATAGTTTCTCTCGAAACATAAACCT
Found at i:844124 original size:67 final size:67
Alignment explanation
Indices: 844013--844193 Score: 260
Period size: 66 Copynumber: 2.7 Consensus size: 67
844003 CCTTGAGACA
* * *
844013 GTTTCTCTTGAAACAAA-TTTTGTCTC-TCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAG
1 GTTTCTCTCGAAACAAAGTTTCGTCTCGT-TTGAGATAATTTCTCTTGAAACATAAACCTTTGAG
844076 ATT
65 ATT
* *
844079 GTTTCTCTCAAAACAAAGTTTCGTCTCGTTTGAGATATTTTCTCTTGAAACATAAACCTTTGAGA
1 GTTTCTCTCGAAACAAAGTTTCGTCTCGTTTGAGATAATTTCTCTTGAAACATAAACCTTTGAGA
844144 TT
66 TT
* * *
844146 GTTT-TCTCGAAATAAAGTTTCGTCTCGCTTGAGACAATTTCTCTTGAA
1 GTTTCTCTCGAAACAAAGTTTCGTCTCGTTTGAGATAATTTCTCTTGAA
844194 GCCCAAATTT
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
66 54 0.52
67 49 0.47
68 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (67 bp):
GTTTCTCTCGAAACAAAGTTTCGTCTCGTTTGAGATAATTTCTCTTGAAACATAAACCTTTGAGA
TT
Found at i:846016 original size:18 final size:18
Alignment explanation
Indices: 845980--846013 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
845970 TTTAATCTAT
845980 TTCATTTGATCTTATTTA
1 TTCATTTGATCTTATTTA
*
845998 TTCATTT-ATTTTATTT
1 TTCATTTGATCTTATTT
846014 TATAAAATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.68
Consensus pattern (18 bp):
TTCATTTGATCTTATTTA
Found at i:852033 original size:2 final size:2
Alignment explanation
Indices: 852028--852080 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
852018 TATAAATAAC
852028 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
852070 TA TA TA TA TA T
1 TA TA TA TA TA T
852081 TTACATATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:853471 original size:222 final size:224
Alignment explanation
Indices: 853076--853511 Score: 813
Period size: 222 Copynumber: 2.0 Consensus size: 224
853066 GACTCGCGTG
853076 TTTATAAAAGAAAATGGGATAATTCCCATTTAGTCCCCTTTGTCTTTAAAACCTTTATTTTCCCT
1 TTTATAAAAGAAAATGGGATAATTCCCATTTAGTCCCCTTTGTCTTTAAAACCTTTATTTTCCCT
* *
853141 CTTTAATCAATTTTAATTGAATTTCCTTTTAAATTCACCCCCTAATTTTGTTTCCCTTTTAACTT
66 CTTTAATCAATTTTAACTGAATTTCCTTTTAAATTCACCCCCTAATTTTGTTTCCCTTTTAACTC
*
853206 AATCCTTTTATTTTTTATTTTTTCTTATTATTTTTTTATTTTATTTATACGATATTATATATACT
131 AATCCTTTTATTTTTTATTTTTTCTTATTATTTTTTGATTTTATTTATACGATATTATATATACT
853271 TTTAATCCTTTTATTATTTGTTTATTTTA
196 TTTAATCCTTTTATTATTTGTTTATTTTA
*
853300 TTTA-AAAAGAAAATGGGATAATTCCCTTTTAGTCCCCTTTGTCTTTAAAACCTTTATTTTCCCT
1 TTTATAAAAGAAAATGGGATAATTCCCATTTAGTCCCCTTTGTCTTTAAAACCTTTATTTTCCCT
853364 CTTTAATCAATTTTAACTG-ATTTCCTTTTAAATTCACCCCCTAATTTTGTTTCCCTTTTAACTC
66 CTTTAATCAATTTTAACTGAATTTCCTTTTAAATTCACCCCCTAATTTTGTTTCCCTTTTAACTC
*
853428 AATCCTTTTATTTTTTATTTTTTCTTATTATTTTTTGATTTTATTTATATGATATTATATATACT
131 AATCCTTTTATTTTTTATTTTTTCTTATTATTTTTTGATTTTATTTATACGATATTATATATACT
853493 TTTAATCCTTTTATTATTT
196 TTTAATCCTTTTATTATTT
853512 TATTTTTTTT
Statistics
Matches: 207, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
222 126 0.61
223 77 0.37
224 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.54
Consensus pattern (224 bp):
TTTATAAAAGAAAATGGGATAATTCCCATTTAGTCCCCTTTGTCTTTAAAACCTTTATTTTCCCT
CTTTAATCAATTTTAACTGAATTTCCTTTTAAATTCACCCCCTAATTTTGTTTCCCTTTTAACTC
AATCCTTTTATTTTTTATTTTTTCTTATTATTTTTTGATTTTATTTATACGATATTATATATACT
TTTAATCCTTTTATTATTTGTTTATTTTA
Found at i:853475 original size:20 final size:20
Alignment explanation
Indices: 853435--853475 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
853425 CTCAATCCTT
*
853435 TTATTTTTTATTTTTTCTTA
1 TTATTTTTTATTTTATCTTA
853455 TTATTTTTTGATTTTAT-TTA
1 TTATTTTTT-ATTTTATCTTA
853475 T
1 T
853476 ATGATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (20 bp):
TTATTTTTTATTTTATCTTA
Found at i:853524 original size:15 final size:15
Alignment explanation
Indices: 853501--853567 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 15
853491 CTTTTAATCC
*
853501 TTTTATTATTTTATT
1 TTTTTTTATTTTATT
853516 TTTTTTTATTTTATT
1 TTTTTTTATTTTATT
853531 TCTATTATATATATTTTATT
1 T-T-TT-T-T-TATTTTATT
* *
853551 TATTTAT-TTTTATT
1 TTTTTTTATTTTATT
853565 TTT
1 TTT
853568 ATCATTATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 9 0.21
15 16 0.37
16 1 0.02
17 3 0.07
18 3 0.07
19 1 0.02
20 10 0.23
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTATTTTATT
Found at i:853548 original size:43 final size:44
Alignment explanation
Indices: 853501--853597 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 44
853491 CTTTTAATCC
* *
853501 TTTTATTATTTTA-TTTT-TTTTTAT-TTTATTTCTATTATATAT
1 TTTTATTATTTTATTTTTATTTTTATCATTATTCCTATTAT-TAT
853543 ATTTTATT-TATTTATTTTTATTTTTATCATTATTCCTATTATTAT
1 -TTTTATTAT-TTTATTTTTATTTTTATCATTATTCCTATTATTAT
*
853588 TTTTTTTATT
1 TTTTATTATT
853598 CTACTTATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
42 1 0.02
43 11 0.24
44 11 0.24
45 11 0.24
46 12 0.26
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (44 bp):
TTTTATTATTTTATTTTTATTTTTATCATTATTCCTATTATTAT
Found at i:853597 original size:15 final size:15
Alignment explanation
Indices: 853503--853597 Score: 54
Period size: 15 Copynumber: 6.1 Consensus size: 15
853493 TTTAATCCTT
853503 TTATTATTTTATTTT-
1 TTATTATTTT-TTTTA
*
853518 TTTTTATTTTATTTCTA
1 TTATTATTTT-TTT-TA
853535 TTATATATATTTTATTTA
1 TTAT-TAT-TTTT-TTTA
853553 -T-TTATTTTTATTT-
1 TTATTATTTTT-TTTA
* * **
853566 TTATCATTATTCCTA
1 TTATTATTTTTTTTA
853581 TTATTATTTTTTTTA
1 TTATTATTTTTTTTA
853596 TT
1 TT
853598 CTACTTATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
14 10 0.16
15 35 0.56
16 2 0.03
17 4 0.06
18 6 0.10
19 5 0.08
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTATTTTTTTTA
Found at i:853818 original size:11 final size:11
Alignment explanation
Indices: 853781--853820 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
853771 TTTAATCCAC
*
853781 TTTTCTTTTCT
1 TTTTATTTTCT
* *
853792 TTTTTTTTTTT
1 TTTTATTTTCT
853803 TTTTATTTTCT
1 TTTTATTTTCT
853814 TTTTATT
1 TTTTATT
853821 GTTATGTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.05, C:0.07, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTATTTTCT
Found at i:853961 original size:24 final size:24
Alignment explanation
Indices: 853933--853991 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
853923 GTTTTTTTTA
*
853933 TAATTT-ATTTATTTTTATCTATTT
1 TAATTTAATTTA-ATTTATCTATTT
*
853957 TAATTTAATTTAATTTATTTATTT
1 TAATTTAATTTAATTTATCTATTT
* *
853981 TATTTTCATTT
1 TAATTTAATTT
853992 TTTACTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (24 bp):
TAATTTAATTTAATTTATCTATTT
Found at i:857716 original size:21 final size:21
Alignment explanation
Indices: 857683--857723 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
857673 GCGAAGAAGA
* *
857683 TGGAAGAGAAGATTAAAATGT
1 TGGAAGACAAGATGAAAATGT
*
857704 TGGAAGACTAGATGAAAATG
1 TGGAAGACAAGATGAAAATG
857724 GTCAAAGGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.22
Consensus pattern (21 bp):
TGGAAGACAAGATGAAAATGT
Found at i:864264 original size:1 final size:1
Alignment explanation
Indices: 864254--864332 Score: 50
Period size: 1 Copynumber: 79.0 Consensus size: 1
864244 TCCTAAGTCG
* * * * * * * * * *
864254 AAAAAGAAAAAAGAAAAAGAAAAAGAAAAAGAGAAGAAAAAGAAAAAGAAAAAGAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
864319 AAGAAAAAGAAAAA
1 AAAAAAAAAAAAAA
864333 CATTTAGGGT
Statistics
Matches: 54, Mismatches: 24, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (1 bp):
A
Found at i:864264 original size:6 final size:6
Alignment explanation
Indices: 864253--864332 Score: 108
Period size: 6 Copynumber: 13.0 Consensus size: 6
864243 GTCCTAAGTC
*
864253 GAAAAA GAAAAAA GAAAAA GAAAAA GAAAAA G-AGAA GAAAAA GAAAAA
1 GAAAAA G-AAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
*
864301 GAAAAA GAAAAAAA AAAAAA GAAAAA GAAAAA
1 GAAAAA G--AAAAA GAAAAA GAAAAA GAAAAA
864333 CATTTAGGGT
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
5 4 0.06
6 51 0.77
7 6 0.09
8 5 0.08
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:864294 original size:23 final size:22
Alignment explanation
Indices: 864263--864330 Score: 113
Period size: 23 Copynumber: 3.1 Consensus size: 22
864253 GAAAAAGAAA
864263 AAAGAAAAAGAAAAAGAAAAAG
1 AAAGAAAAAGAAAAAGAAAAAG
864285 AGAAGAAAAAGAAAAAGAAAAAG
1 A-AAGAAAAAGAAAAAGAAAAAG
864308 AAA-AAAAA-AAAAAGAAAAAG
1 AAAGAAAAAGAAAAAGAAAAAG
864328 AAA
1 AAA
864331 AACATTTAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.33
21 5 0.11
22 3 0.07
23 22 0.49
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAGAAAAAGAAAAAG
Found at i:865423 original size:121 final size:121
Alignment explanation
Indices: 865279--865697 Score: 572
Period size: 121 Copynumber: 3.4 Consensus size: 121
865269 AAATTGGTGA
* *
865279 AACTTACGCAAGATTGGATTTCAACTTCACAACAAAGGATATCCAATTCAAAGCTCAACTTCACA
1 AACTTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACA
* * * * * *
865344 ACGAATGAGTCATCCATAATTTTAACTTCACGAAGAAGGATATCGTGCCCACAACC
66 ACGAATGAGCCATCCACAATTTCAACTTCACGACGAAGGATATCGTGCCCAAAAGC
* * * * *
865400 AACTTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGTTTAAATTCACA
1 AACTTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACA
*
865465 ATGAATGAGCCATCCACAATTTCAACTTCACGACGAAGGATATCGTGCCCAAAAGC
66 ACGAATGAGCCATCCACAATTTCAACTTCACGACGAAGGATATCGTGCCCAAAAGC
* *
865521 ATAC-AACTCAAGATTGGATTTCAGCTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCAC
1 A-ACTTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCAC
* * *
865585 AACGAATGAGCCACCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCATAAGC
65 AACGAATGAGCCATCCACAATTTCAACTTCACGACGAAGGATATCGTGCCCAAAAGC
* * * *
865642 AACATCCCT-CTCTAGACTGGATTTCAACTTCACGACGAAGGATTTCCAATTCAAAG
1 AAC-T---TACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAG
865698 GAGTGTTTGT
Statistics
Matches: 261, Mismatches: 31, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
120 2 0.01
121 215 0.82
122 2 0.01
124 42 0.16
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (121 bp):
AACTTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACA
ACGAATGAGCCATCCACAATTTCAACTTCACGACGAAGGATATCGTGCCCAAAAGC
Found at i:867311 original size:15 final size:14
Alignment explanation
Indices: 867291--867348 Score: 64
Period size: 15 Copynumber: 4.0 Consensus size: 14
867281 AACCTAATCC
867291 TTTTATTTTTTCTAT
1 TTTTATTTTTT-TAT
867306 TTTTATTTTTATTAT
1 TTTTATTTTT-TTAT
*
867321 TTTT-TCTTTTTAT
1 TTTTATTTTTTTAT
*
867334 TTTTTTATTTTTTAT
1 TTTTAT-TTTTTTAT
867349 ACGATATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
13 8 0.21
14 5 0.13
15 24 0.63
16 1 0.03
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:867323 original size:8 final size:8
Alignment explanation
Indices: 867291--867346 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
867281 AACCTAATCC
867291 TTTTATTT
1 TTTTATTT
867299 TTTCTA--T
1 TTT-TATTT
867306 TTTTA--T
1 TTTTATTT
867312 TTTTATTAT
1 TTTTATT-T
*
867321 TTTT-TCT
1 TTTTATTT
867328 TTTTATTT
1 TTTTATTT
867336 TTTTATTT
1 TTTTATTT
867344 TTT
1 TTT
867347 ATACGATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
6 8 0.20
7 9 0.22
8 17 0.41
9 7 0.17
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTATTT
Found at i:867346 original size:21 final size:22
Alignment explanation
Indices: 867291--867346 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
867281 AACCTAATCC
867291 TTTTATTTTTTCTATTTTTATTT
1 TTTTATTTTTTC-ATTTTTATTT
867314 TTATTATTTTTTC-TTTTTATTT
1 TT-TTATTTTTTCATTTTTATTT
867336 TTTTATTTTTT
1 TTTTATTTTTT
867347 ATACGATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 9 0.28
22 11 0.34
23 2 0.06
24 10 0.31
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTATTTTTTCATTTTTATTT
Found at i:867377 original size:19 final size:19
Alignment explanation
Indices: 867355--867406 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
867345 TTATACGATA
*
867355 TTATATATTTTTAATCCTT
1 TTATATATTTTTAATCATT
* *
867374 TTAT-TATTATTTTATTATT
1 TTATATATT-TTTAATCATT
867393 TTATTATATTTTTA
1 TTA-TATATTTTTA
867407 TTATATGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 4 0.15
19 14 0.54
20 4 0.15
21 4 0.15
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATATATTTTTAATCATT
Found at i:867382 original size:3 final size:3
Alignment explanation
Indices: 867374--867460 Score: 58
Period size: 3 Copynumber: 29.7 Consensus size: 3
867364 TTTAATCCTT
*
867374 TTA TTA TTA TT- TTA TTA TT- TTA TTA -TA TTT TTA TTA -TA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * *
867416 TT- TTA TTTA TTTA TTT TTA TTT TTA TCA TTA TTC CTA TTA TTA TT
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
867461 TTCTTTTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
2 10 0.15
3 45 0.69
4 10 0.15
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:867390 original size:8 final size:8
Alignment explanation
Indices: 867377--867427 Score: 59
Period size: 8 Copynumber: 6.1 Consensus size: 8
867367 AATCCTTTTA
867377 TTATTATT
1 TTATTATT
867385 TTATTATT
1 TTATTATT
867393 TTATTATAT
1 TTATTAT-T
867402 TT-TTATT
1 TTATTATT
*
867409 ATATGTATT
1 TTAT-TATT
867418 TTATTTATT
1 TTA-TTATT
867427 T
1 T
867428 ATTTTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
7 2 0.05
8 20 0.54
9 14 0.38
10 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
TTATTATT
Found at i:867436 original size:19 final size:19
Alignment explanation
Indices: 867372--867438 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
867362 TTTTTAATCC
867372 TTTTATTATTATTTTATTA-
1 TTTTATT-TTATTTTATTAT
*
867391 TTTTATTATATTTTTATTAT
1 TTTTATTTTA-TTTTATTAT
* *
867411 ATGTATTTTA-TTTATTTAT
1 TTTTATTTTATTTTA-TTAT
867430 TTTTATTTT
1 TTTTATTTT
867439 TATCATTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 6 0.15
19 26 0.67
20 7 0.18
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (19 bp):
TTTTATTTTATTTTATTAT
Found at i:867834 original size:17 final size:17
Alignment explanation
Indices: 867814--867851 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
867804 TTTATCTATT
*
867814 ATTTTATTTA-TTTTTTC
1 ATTTT-TTTACTTTGTTC
867831 ATTTTTTTACTTTGTTC
1 ATTTTTTTACTTTGTTC
867848 ATTT
1 ATTT
867852 AACACTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTTTACTTTGTTC
Found at i:870304 original size:3 final size:3
Alignment explanation
Indices: 870278--870333 Score: 78
Period size: 3 Copynumber: 18.3 Consensus size: 3
870268 GGGCCTACAA
*
870278 AAT AAT TAT AAT ATAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
870323 AAT AAAT AAT A
1 AAT -AAT AAT A
870334 TTCTTTAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:872641 original size:15 final size:15
Alignment explanation
Indices: 872621--872653 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
872611 TCTTCTTGCT
872621 TTTAACTAACCCACG
1 TTTAACTAACCCACG
872636 TTTAACTAACCCACG
1 TTTAACTAACCCACG
872651 TTT
1 TTT
872654 GAGGATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.33
Consensus pattern (15 bp):
TTTAACTAACCCACG
Found at i:874476 original size:84 final size:84
Alignment explanation
Indices: 873443--874474 Score: 1101
Period size: 84 Copynumber: 12.4 Consensus size: 84
873433 ACTTTATTGA
* * * * * * * **
873443 CAGATAACCCTTTTTGCCTTGAGCTATGTTGTAAAATTTGATATGCCTTTGAGCTAAATGTAATC
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTG-CAAA--TGATGTGCCTTGGAGCTGAGCGTAATC
* *
873508 GAACTCGAATGTCTTTTTTTGG
63 GAACTCGAAGGTCTTTTGTTGG
* * ** * * * * **
873530 AAAATAACCCTTCTCACCTAGAGTTATGTTGTAAATGATGTGCCTTTGAGCTGATTGTAATCGAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
** *
873595 CTATAAGGTCTTTTGTTGC
66 CTCGAAGGTCTTTTGTTGG
* * * * * * * * * *
873614 CAAATAACCATTCTCGACTTGAGTTATACCGCAAATGATGTTCCTTTGAGCTGAGTGTAATCAAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
* *
873679 CTCGAAGGTATTTTGTTGA
66 CTCGAAGGTCTTTTGTTGG
* *** * ** * *
873698 CAGATAACCCTTCTAGCCTTGAGTTATGCAATAAATGATCTGCCTTTCAGCTAAGTGTAATCGAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
873763 CTCGAAGGTC---T-TTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * *
873778 CAGATATCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGCCGT-GAGCTGAGTGTAATCGAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
873842 CTCGAAGGTC---T-TTGG
66 CTCGAAGGTCTTTTGTTGG
* *
873857 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
*
873922 CTCGAAGGCCTTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * *
873941 CAGATAGCCCTTCTTTCCTTGAGCTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAATCGAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
* *
874006 ATCGAAGGTCTTTTGGTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * * * *
874025 CAAATATCCCTTCTTGCCTTGAGTTATGTTGCAAATGATATGCCTTGGAGTTGAGCGTAGTTGAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
* *
874090 CTCGAAGGTCTTTGGTTAG
66 CTCGAAGGTCTTTTGTTGG
* * * * *
874109 CAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTTGGAGCTAAGCGTAGTCGAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
*
874174 CTCGAAGGTCTTTTGGTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * * * * *
874193 CAGATAACCCTTCTTGCCTTGAGCTATACTGCAAATGACGTGTCTTTGAGTTGAGTGTAATTGAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
*
874258 CTCGAAGGTATTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * ** * *
874277 CAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
874342 CTCGAAGGTCTTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * *
874361 CAGATAACCCTTCTTGCCTTGAGCTATGCTACAAATGTTGTACCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
874426 CTCGAAGGTCTTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
**
874445 CAGATAACCCTTCTAACCTTGAGTTATGCT
1 CAGATAACCCTTCTTGCCTTGAGTTATGCT
874475 ACCAATAGTT
Statistics
Matches: 802, Mismatches: 138, Indels: 13
0.84 0.14 0.01
Matches are distributed among these distances:
79 73 0.09
80 64 0.08
81 1 0.00
83 1 0.00
84 636 0.79
86 3 0.00
87 24 0.03
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (84 bp):
CAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
CTCGAAGGTCTTTTGTTGG
Found at i:875807 original size:95 final size:95
Alignment explanation
Indices: 875596--875854 Score: 351
Period size: 95 Copynumber: 2.7 Consensus size: 95
875586 AGCTAGATCT
* * *
875596 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATATCATTGTATAG-ATATTA
1 ATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTC-A-AGC-TT-TATTGTATATTA
* *
875660 TAATCACCTTTATCAGGCTAGCTGAATATTATCC
62 TAATCAACTTTATCAAGCTAGCTGAATATTATCC
*
875694 ATAAAG-TCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAA
1 ATAAAGCT-GGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAA
* *
875758 TCAATTTTATCAAGCTAGCTGAATCTTATCC
65 TCAACTTTATCAAGCTAGCTGAATATTATCC
* * *
875789 ATAAAGCTGGGGTGTTTAATCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATATATAA
1 ATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-TATAA
875854 T
65 T
875855 ATTATAATAT
Statistics
Matches: 145, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
94 4 0.03
95 91 0.63
96 9 0.06
97 1 0.01
98 40 0.28
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (95 bp):
ATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAAT
CAACTTTATCAAGCTAGCTGAATATTATCC
Found at i:881963 original size:21 final size:22
Alignment explanation
Indices: 881917--881965 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
881907 TAATGCACTA
* *
881917 AAATCCCTAAATCTCAATGTTC
1 AAATCCCTAAATCTAAATGCTC
881939 AAATCCCTAAATCTAAAT-CTC
1 AAATCCCTAAATCTAAATGCTC
881960 AAATCC
1 AAATCC
881966 TATTTTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.29
Consensus pattern (22 bp):
AAATCCCTAAATCTAAATGCTC
Found at i:882827 original size:20 final size:20
Alignment explanation
Indices: 882802--882841 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
882792 TAAGTAACAG
882802 ATAACATATGTTATTGACAT
1 ATAACATATGTTATTGACAT
882822 ATAACATATGTTATTGACAT
1 ATAACATATGTTATTGACAT
882842 GACTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
ATAACATATGTTATTGACAT
Done.