Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_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: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 21
Found at i:695897 original size:22 final size:23
Alignment explanation
Indices: 695847--695903 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
695837 AGCAATATCC
695847 ATTACATTATATAAACGCTACAT
1 ATTACATTATATAAACGCTACAT
* *
695870 ATTACATTATATAAGCG-TACCT
1 ATTACATTATATAAACGCTACAT
*
695892 ATTACATCATAT
1 ATTACATTATAT
695904 TTTACATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (23 bp):
ATTACATTATATAAACGCTACAT
Found at i:696347 original size:23 final size:23
Alignment explanation
Indices: 696312--696358 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
696302 ATAATTTACA
*
696312 ATATAAGCACTACCTATTACATT
1 ATATAAACACTACCTATTACATT
*
696335 ATATAAACGCTACCTATTACATT
1 ATATAAACACTACCTATTACATT
696358 A
1 A
696359 AGCGTACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACACTACCTATTACATT
Found at i:696754 original size:21 final size:23
Alignment explanation
Indices: 696713--696783 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
696703 ATACTTTACA
*
696713 ATATAAGCACTATCC-ATTACATT
1 ATATAAGCGCTA-CCTATTACATT
696736 ATATAA-CGCTACCTA-TACATT
1 ATATAAGCGCTACCTATTACATT
*
696757 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
696780 ATAT
1 ATAT
696784 TTTATATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.33
22 14 0.33
23 15 0.35
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:696761 original size:23 final size:23
Alignment explanation
Indices: 696728--696783 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
696718 AGCACTATCC
*
696728 ATTACATTATAT-AACGCTACCT
1 ATTACATCATATAAACGCTACCT
* *
696750 A-TACATTATATAAGCGCTACCT
1 ATTACATCATATAAACGCTACCT
696772 ATTACATCATAT
1 ATTACATCATAT
696784 TTTATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 10 0.33
22 11 0.37
23 9 0.30
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATTACATCATATAAACGCTACCT
Found at i:696864 original size:879 final size:873
Alignment explanation
Indices: 695665--697421 Score: 2754
Period size: 879 Copynumber: 2.0 Consensus size: 873
695655 ATATATGTTT
* *
695665 TTGTTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCTTATAATTAC
1 TTGTTTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
695730 TAAATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
66 TAAATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
* *
695795 GTATGAACACTTTTATAAAATGGATAGATATTTTACAATATAAGCAATATCCATTACATTATATA
131 G-ATGAACACTTTTATAAAAGGGATAGATACTTTACAATATAAGCAATATCCATTACATTATATA
695860 AACGCTACATATTACATTATATAAGCGTACCTATTACATCATATTTTACATATTATATTAAAGTG
195 AACGCTACATATTACATTATATAAGCGTACCTATTACATCATATTTTA-ATATTATATTAAAGTG
* *
695925 TCCATATTTTTATAAAAAGATCGATATTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTA
259 TCCATAGTTTTATAAAAAGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTA
*
695990 ATAGTGTTT-ATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTT
323 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAT-ATTTCATTTACACAAAAAATTA-TT
*
696054 GA-TGTTTTGATA-TTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAA
386 AATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGAT-A
*
696117 TAATAAATATGTAATATATATGTTTATTGTTTTTTAATTTAATGATAATATATACCGTAACGTAA
450 -AATAAATATGTAATATATATGTTTATTG-TTTTTAATTTAATGATAATATATACCGTAACAT-A
* *
696182 AAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACC
512 AAAATAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCACTC-AAA-A-AACC
*
696247 TTAAATTAATATTTTCCACAGTGAAAAAA-TATGGACACTTTTATAAAAATGATAGATAATTTAC
574 TTAAATTAAT-GTTTCCACAGTGAAAAAAGTATGGACAC-TTTAT-AAAA--ATAGATAATTTAC
*
696311 AATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACA-T-TA-AGCG-TACCTATTA
634 -ATATAAGCACTACCTATTACA-T-TATAAACACTACCTATTACATTATATAGCGCTACCTATTA
* *
696372 CATCATA-TTTTACCTATTATATTGAAAGTG-CCCTAATTTTTATAAAAAGGATCGATA-TTTTT
696 CATCATATTTTTA-C-ATTATATTGAAAGTGTCCATAATTTTTAT-AAAAGGATCGACATTTTTT
*
696434 TTAAAGTTATGTAATTTATGTTTTAATTTTTTTAATAGTGTTT-A-TTTTCCACCTACAATATTA
758 TTAAAGTTATGTAATTTA--TTTCAATTTTTTT--TAGTGTTTCAGTTTTCCACCTACAATATTA
*
696497 ATTTAATAA-TTCATTTACACAAAAAATTA-TTGATTGTTTTGTTATTT-TATAAATA
819 ATTTAATAATTTCATTTACAC-AAAAATTATTTGATTG-TTTGATATTTATA-AAATA
* *
696552 TTGTTTTT-ATTTAATAATATATATACCGTAATGT-AAAAATAAATCATTATACGCCTAT-ATTA
1 TTGTTTTTAATTTAATAATA-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA
* * *
696614 CTATATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCATAGT-AAAAA
65 CTAAATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
* *
696678 AG-TGGACACTTTTAT-AAAGGGATAGATACTTTACAATATAAGCACTATCCATTACATTATAT-
130 AGATGAACACTTTTATAAAAGGGATAGATACTTTACAATATAAGCAATATCCATTACATTATATA
* *
696740 AACGCTACCTA-TACATTATATAAGCGCTACCTATTACATCATATTTT-ATATTATATTGAAGTG
195 AACGCTACATATTACATTATATAAGCG-TACCTATTACATCATATTTTAATATTATATTAAAGTG
696803 TCCATAGTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTA
259 TCCATAGTTTTATAAAAA-GATCGATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTA
696868 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATATTTCATTTACACAAAAAATTATTAA
323 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATATTTCATTTACACAAAAAATTATTAA
696933 TTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAAT
388 TTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAAT
696998 AAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAATA
453 AAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAATA
* *
697063 AATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAAACCTTAAATTAA
518 AATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCACTCAAAAAACCTTAAATTAA
*
697128 TGTTTCCACAGTGAAAAAAGTATGGACACTTTATAAAAATAGATACTTTACATATAAGCACTACC
583 TGTTTCCACAGTGAAAAAAGTATGGACACTTTATAAAAATAGATAATTTACATATAAGCACTACC
697193 TATTACATTATAAACACTACCTATTACATTATATAGCGCTACCTATTACATCATATTTTTACATT
648 TATTACATTATAAACACTACCTATTACATTATATAGCGCTACCTATTACATCATATTTTTACATT
* *
697258 ATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGACATTTTTTTTAAATTTATGTAATTTATT
713 ATATTGAAAGTGTCCATAATTTTTATAAAAGGATCGACATTTTTTTTAAAGTTATGTAATTTATT
697323 TCAATTTTTTTTAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
778 TCAATTTTTTTTAGTGTTTCA-GTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
697388 AAATTATTTGATTGTTTGATATTTATAAAATA
842 AAATTATTTGATTGTTTGATATTTATAAAATA
697420 TT
1 TT
697422 ATTTAGTTTT
Statistics
Matches: 819, Mismatches: 31, Indels: 59
0.90 0.03 0.06
Matches are distributed among these distances:
865 27 0.03
866 3 0.00
867 35 0.04
868 95 0.12
869 70 0.09
870 9 0.01
871 22 0.03
872 23 0.03
873 1 0.00
874 3 0.00
875 51 0.06
876 32 0.04
877 31 0.04
878 81 0.10
879 130 0.16
880 30 0.04
881 44 0.05
882 12 0.01
884 7 0.01
885 60 0.07
886 33 0.04
887 20 0.02
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (873 bp):
TTGTTTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
TAAATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
GATGAACACTTTTATAAAAGGGATAGATACTTTACAATATAAGCAATATCCATTACATTATATAA
ACGCTACATATTACATTATATAAGCGTACCTATTACATCATATTTTAATATTATATTAAAGTGTC
CATAGTTTTATAAAAAGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTAATA
GTGTTTCATGTTTTCCACCTACAATATTAATTTAATATTTCATTTACACAAAAAATTATTAATTG
TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAATAAA
TATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAATAAAT
CATTAGACACATATAATTACTAAATTAATATCTTAAAACTCACTCAAAAAACCTTAAATTAATGT
TTCCACAGTGAAAAAAGTATGGACACTTTATAAAAATAGATAATTTACATATAAGCACTACCTAT
TACATTATAAACACTACCTATTACATTATATAGCGCTACCTATTACATCATATTTTTACATTATA
TTGAAAGTGTCCATAATTTTTATAAAAGGATCGACATTTTTTTTAAAGTTATGTAATTTATTTCA
ATTTTTTTTAGTGTTTCAGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAT
TATTTGATTGTTTGATATTTATAAAATA
Found at i:696957 original size:404 final size:408
Alignment explanation
Indices: 696141--696957 Score: 1268
Period size: 401 Copynumber: 2.0 Consensus size: 408
696131 TATATATGTT
*
696141 TATTGTTTTTTAATTTAATGATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
1 TATTGTTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
696206 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGA
66 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGA
*
696271 AAAAATATGGACACTTTTATAAAAATGATAGATAATTTACAATATAAGCACTACCTATTACATTA
131 AAAAATATGGACACTTTTATAAAAAGGATAGATAATTTACAATATAAGCACTACCTATTACATTA
696336 TATAAACGCTACCTATTACATTAAGCGTACCTATTACATCATATTTTACCTATTATATTGAAAGT
196 TATAAACGCTACCTATTACATTAAGCGTACCTATTACATCATATTTTA-CTATTATATTGAAAGT
* * * *
696401 GCCCTAATTTTTATAAAAAGGATCGATATTTTTTTAAAGTTATGTAATTTATGTTTTAATTTTTT
260 GCCATAAGTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
*
696466 TAATAGTGTTTATTTTCCACCTACAATATTAATTTAATAATTCATTTACACAAAAAATTATTGAT
325 TAATAGTGTTTATTTTCCACCTACAATATTAATTTAATAATTCATTTACACAAAAAATTATTAAT
*
696531 TGTTTTGTTATTTTATAAA
390 TGTTTTGATATTTTATAAA
* *
696550 TATTG-TTTTT-ATTTAATAAT-ATATATACCGTAATGT-AAAAATAAATCATTATACGCCTAT-
1 TATTGTTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
* * *
696610 ATTACTATATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCATAGT-A
66 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGA
* * *
696674 AAAAA-GTGGACACTTTTAT-AAAGGGATAGATACTTTACAATATAAGCACTATCC-ATTACATT
131 AAAAATATGGACACTTTTATAAAAAGGATAGATAATTTACAATATAAGCACTA-CCTATTACATT
696736 ATAT-AACGCTACCTA-TACATTATATAAGCGCTACCTATTACATCATATTTTA-TATTATATTG
195 ATATAAACGCTACCTATTAC---AT-TAAGCG-TACCTATTACATCATATTTTACTATTATATTG
696798 -AAGTGTCCAT-AGTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTCAA
255 AAAGTG-CCATAAGTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTCAA
*
696861 -TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATATTTCATTTACACAAAAA
319 TTTTTTTAATAGTGTTT-A--TTTTCCACCTACAATATTAATTTAATAATTCATTTACACAAAAA
696925 ATTATTAATTGTTTTGATATTTTATAAAA
381 ATTATTAATTGTTTTGATATTTTAT-AAA
696954 TATT
1 TATT
696958 ATTTAGAATT
Statistics
Matches: 380, Mismatches: 17, Indels: 27
0.90 0.04 0.06
Matches are distributed among these distances:
399 3 0.01
400 27 0.07
401 97 0.26
402 30 0.08
403 78 0.21
404 88 0.23
405 23 0.06
406 15 0.04
407 9 0.02
408 5 0.01
409 5 0.01
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (408 bp):
TATTGTTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGA
AAAAATATGGACACTTTTATAAAAAGGATAGATAATTTACAATATAAGCACTACCTATTACATTA
TATAAACGCTACCTATTACATTAAGCGTACCTATTACATCATATTTTACTATTATATTGAAAGTG
CCATAAGTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
AATAGTGTTTATTTTCCACCTACAATATTAATTTAATAATTCATTTACACAAAAAATTATTAATT
GTTTTGATATTTTATAAA
Found at i:697248 original size:22 final size:21
Alignment explanation
Indices: 697175--697243 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
697165 AATAGATACT
697175 TTACA-TATAAGCACTACCTA
1 TTACATTATAAGCACTACCTA
*
697195 TTACATTATAAACACTACCTA
1 TTACATTATAAGCACTACCTA
*
697216 TTACATTATATAGCGCTACCTA
1 TTACATTATA-AGCACTACCTA
697238 TTACAT
1 TTACAT
697244 CATATTTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 5 0.11
21 24 0.55
22 15 0.34
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (21 bp):
TTACATTATAAGCACTACCTA
Found at i:697475 original size:465 final size:467
Alignment explanation
Indices: 696550--697654 Score: 1660
Period size: 465 Copynumber: 2.4 Consensus size: 467
696540 ATTTTATAAA
* * *
696550 TATTGTTTTT-ATTTAATAATATATATACCGTAATGTAAAAATAAATCATTATACGCCTAT-ATT
1 TATTGTTTTTAATTTAAT-ATATATATACCGTAACGTAAAAATAAATCATTAGACACCTATAATT
* *
696613 ACTATATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCATAGT-AAAA
65 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAA
*
696677 AAG--TGGACACTTTTATAAAGGGATAGATACTTTACAATATAAGCACTATCCATTACATTATAT
130 AAGTATGGACACTTTTATAAA--AATAGATACTTTACAATATAAGCACTATCCATTACATTATAT
* *
696740 AACGCTACCTATACATTATATAAGCGCTACCTATTACATCATATTTTATATTATATTGAAGTGTC
193 AACACTACCTATACATTATATAAGCGCTACCTATTACATCATATTTTACATTATATTGAAGTGTC
*
696805 CATAGTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTAAT
258 CATAGTTTTATAAAAAGGATCGACACTTTTTTAAAGTTATGTAATTTA-GTTTCAATTTTTTAAT
696870 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATATTTCATTTACACAAAAAATTATTAATT
322 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATATTTCATTTACACAAAAAATTATTAATT
696935 GTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAATAA
387 GTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAATAA
697000 ATATGTAATATATATGTT
452 ATATGT-A-ATATATGTT
* * *
697018 TATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAATAAATCATTAGATACATATAAT
1 TATTGTTTTTAATTTAAT-AT-ATATATACCGTAACGTAAAAATAAATCATTAGACACCTATAAT
*
697083 TACTAAATTGATATCTTAAAACTCACTC-AAA-A-AACCTTAAATTAATG-TTTCCACAGTGAAA
64 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAA
697144 AAAGTATGGACAC-TTTATAAAAATAGATACTTTAC-ATATAAGCACTA-CCTATTACATTATA-
129 AAAGTATGGACACTTTTATAAAAATAGATACTTTACAATATAAGCACTATCC-ATTACATTATAT
697205 AACACTACCTATTACATTATAT-AGCGCTACCTATTACATCATATTTTTACATTATATTGAAAGT
193 AACACTACCTA-TACATTATATAAGCGCTACCTATTACATCATA-TTTTACATTATATTG-AAGT
* * *
697269 GTCCATACTTTT-TATAAAAGGATCGACATTTTTTTTAAATTTATGTAATTTA-TTTCAATTTTT
255 GTCCATAGTTTTATA-AAAAGGATCGACA-CTTTTTTAAAGTTATGTAATTTAGTTTCAATTTTT
*
697332 T-TTAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAATTAT
318 TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAT-ATTTCATTTACACAAAAAATTA-
* **
697395 TTGATTG-TTTGATA-TTTATAAAATATTATTTAGTTTTTAAATTTAACAATATTAACCAAAGAT
381 TTAATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGAT
697458 AATAATAAATA-GTAATATATGTT
446 -A-AATAAATATGTAATATATGTT
697481 TATTGTTTTTAATTTAATATA-ATATACCGTAACGTAAAAAATAAATCATTAGACACCTATAATT
1 TATTGTTTTTAATTTAATATATATATACCGTAACGT-AAAAATAAATCATTAGACACCTATAATT
*
697545 ACTAAATTAATATCTTAAAACTTACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAA
65 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAA
*
697610 AAGTATGGACACTTTTATAAAAAGGATAAATACTTTACAATATAA
130 AAGTATGGACACTTTTAT-AAAA--ATAGATACTTTACAATATAA
697655 CAGGTAAATA
Statistics
Matches: 584, Mismatches: 27, Indels: 50
0.88 0.04 0.08
Matches are distributed among these distances:
460 13 0.02
461 52 0.09
462 5 0.01
463 28 0.05
464 63 0.11
465 116 0.20
466 93 0.16
467 53 0.09
468 53 0.09
469 30 0.05
470 50 0.09
471 28 0.05
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (467 bp):
TATTGTTTTTAATTTAATATATATATACCGTAACGTAAAAATAAATCATTAGACACCTATAATTA
CTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
AGTATGGACACTTTTATAAAAATAGATACTTTACAATATAAGCACTATCCATTACATTATATAAC
ACTACCTATACATTATATAAGCGCTACCTATTACATCATATTTTACATTATATTGAAGTGTCCAT
AGTTTTATAAAAAGGATCGACACTTTTTTAAAGTTATGTAATTTAGTTTCAATTTTTTAATAGTG
TTTCATGTTTTCCACCTACAATATTAATTTAATATTTCATTTACACAAAAAATTATTAATTGTTT
TGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAATAAATAT
GTAATATATGTT
Found at i:699010 original size:557 final size:555
Alignment explanation
Indices: 697897--698998 Score: 2023
Period size: 557 Copynumber: 2.0 Consensus size: 555
697887 TAATATCGTA
* *
697897 TATTAACTGTATATTAACCCGCATTTCCTGAAACAATCTCTGGATGTTGATATTATTAACTAAAC
1 TATTAACCGTATATTAACCCACATTTCCTGAAACAATCTCTGGATGTTGATATTATTAACTAAAC
697962 CATTGTCAGCAATTTCTTTTCGTCAGTTTCGGAGCAAGTTGTCTGTGCTACTTTTGCCATTGTCA
66 CATTGTCAGCAATTTCTTTTCGTCAGTTTCGGAGCAAGTTGTCTGTGCTACTTTTGCCATTGTCA
698027 GCAAGTTTCGTGCAATTGATTAAAATTTTCACGAGACGTATTTTAATTGATCAATTTTAAAACGG
131 GCAAGTTTCGTGCAATTGATTAAAATTTTCACGAGACGTATTTTAATTGATCAATTTTAAAACGG
698092 TATTAAAAAAATAAGGTAACGAATATAATTTTTAAAAATTTATGAGATAAAATGTCCCAAAAATA
196 TATTAAAAAAATAAGGTAACGAATATAATTTTTAAAAATTTATGAGATAAAATGTCCCAAAAATA
*
698157 TTTAAGAGTAACACGAGATAAAAAATATATTTTAAGCTAACAACTAGTTGATCTAATGAGATGAG
261 TTTAAGAGTAACACGAGATAAAAAATATATTTTAAGCTAACAACTAGTTGATCTAATGAGATAAG
*
698222 GCACTAAATCTATTAAGTAAGGTTAGTGTCCTGAATCCTAAAGTTTGTAAATGGAACAAACTGGG
326 GCACTAAATCTATTAAGTAAGGTTAGTGTCCCGAATCCTAAAGTTTGTAAATGGAACAAACTGGG
*
698287 TTGGGAGGGTCACTCTTTCTTCAGCAATACTTATCTCTGTAGATCTCATCTAAATTAGTCGGTCA
391 TTGGGAGGGTCACTCTTTCTTCAGCAATACTTACCTCTGTAGATCTCATCTAAATTAGTCGGTCA
698352 ATAGATCGGATATCAAAACATACAAAAAAATAATATATTTTAAGAACAACAAACCCACTCCCATC
456 ATAGATCGGATATC--AACATACAAAAAAATAATATATTTTAAGAACAACAAACCCACTCCCATC
698417 GAACAAAACCGACAAGCCTCTCTCTCTCTTTTTATTT
519 GAACAAAACCGACAAGCCTCTCTCTCTCTTTTTATTT
*
698454 TATTAACCGTATATTAACCCACATTTCCTGAAACAATCT-TCGGGTGTTGATATTATTAACTAAA
1 TATTAACCGTATATTAACCCACATTTCCTGAAACAATCTCT-GGATGTTGATATTATTAACTAAA
698518 CCATTGTCAGCAATTTCTTTTCGTCAGTTTCGGAGCAAGTTGTCTGTGCTACTTTTGCCATTGTC
65 CCATTGTCAGCAATTTCTTTTCGTCAGTTTCGGAGCAAGTTGTCTGTGCTACTTTTGCCATTGTC
698583 AGCAAGTTTCGTGCAATTGATTAAAATTTTCACGAGACGTATTTTAATTGATCAATTTTAAAACG
130 AGCAAGTTTCGTGCAATTGATTAAAATTTTCACGAGACGTATTTTAATTGATCAATTTTAAAACG
*
698648 GTATTAAAAAAATAAGGTAACGAATATAATTTTTAAAAATTTATGAGATAAAATGTCCTAAAAAT
195 GTATTAAAAAAATAAGGTAACGAATATAATTTTTAAAAATTTATGAGATAAAATGTCCCAAAAAT
* *
698713 ATTTAAGAGTAACATGATATAAAAAATATATTTTAAGCTAACAACTAGTTGATCTAATGAGATAA
260 ATTTAAGAGTAACACGAGATAAAAAATATATTTTAAGCTAACAACTAGTTGATCTAATGAGATAA
*
698778 GGCACTAAATCTATTAAGTAAGGTTAGTGTCCCGAATCCTAAAGTTTGTAAATGGAGCAAACTGG
325 GGCACTAAATCTATTAAGTAAGGTTAGTGTCCCGAATCCTAAAGTTTGTAAATGGAACAAACTGG
*
698843 GTTGGGAGGGTCACTCTTTCTTCTGCAATACTTACCTCTGTAGATCTCATCTAAATTAGTCGGTC
390 GTTGGGAGGGTCACTCTTTCTTCAGCAATACTTACCTCTGTAGATCTCATCTAAATTAGTCGGTC
*
698908 AATAGATCGGATATC-A-ATATAAAAAAAT-ATATATTTTAAGAACAAACAAACCTCACTCCCAT
455 AATAGATCGGATATCAACATACAAAAAAATAATATATTTTAAGAAC-AACAAACC-CACTCCCAT
698970 CGAACAAAACCGACAAGCCTCTCTCTCTC
518 CGAACAAAACCGACAAGCCTCTCTCTCTC
698999 CTCTTTTTAT
Statistics
Matches: 530, Mismatches: 12, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
552 15 0.03
553 19 0.04
554 39 0.07
556 1 0.00
557 456 0.86
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (555 bp):
TATTAACCGTATATTAACCCACATTTCCTGAAACAATCTCTGGATGTTGATATTATTAACTAAAC
CATTGTCAGCAATTTCTTTTCGTCAGTTTCGGAGCAAGTTGTCTGTGCTACTTTTGCCATTGTCA
GCAAGTTTCGTGCAATTGATTAAAATTTTCACGAGACGTATTTTAATTGATCAATTTTAAAACGG
TATTAAAAAAATAAGGTAACGAATATAATTTTTAAAAATTTATGAGATAAAATGTCCCAAAAATA
TTTAAGAGTAACACGAGATAAAAAATATATTTTAAGCTAACAACTAGTTGATCTAATGAGATAAG
GCACTAAATCTATTAAGTAAGGTTAGTGTCCCGAATCCTAAAGTTTGTAAATGGAACAAACTGGG
TTGGGAGGGTCACTCTTTCTTCAGCAATACTTACCTCTGTAGATCTCATCTAAATTAGTCGGTCA
ATAGATCGGATATCAACATACAAAAAAATAATATATTTTAAGAACAACAAACCCACTCCCATCGA
ACAAAACCGACAAGCCTCTCTCTCTCTTTTTATTT
Found at i:699398 original size:2 final size:2
Alignment explanation
Indices: 699391--699415 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
699381 TAGGTCGGCC
699391 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
699416 GTTGAGAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:701473 original size:20 final size:20
Alignment explanation
Indices: 701444--701484 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
701434 TATGGGCTAG
*
701444 GGGAATCGATACCCATTCAA
1 GGGAACCGATACCCATTCAA
*
701464 GGGAACCGATACCCCTTCAA
1 GGGAACCGATACCCATTCAA
701484 G
1 G
701485 CGATTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (20 bp):
GGGAACCGATACCCATTCAA
Found at i:701550 original size:23 final size:22
Alignment explanation
Indices: 701506--701550 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
701496 CAATGTCATG
*
701506 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
* *
701528 GGGAACTGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
701551 AAATTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:702886 original size:103 final size:103
Alignment explanation
Indices: 702706--702920 Score: 412
Period size: 103 Copynumber: 2.1 Consensus size: 103
702696 GTCGAGGGTC
*
702706 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
702771 TTGATCCGTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
702809 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
702874 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
702912 TATGTGGTC
1 TATGTGGTC
702921 CTCATGGACA
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:702987 original size:46 final size:46
Alignment explanation
Indices: 702935--703037 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
702925 TGGACATTAT
*
702935 TATATGGCACTACGTTGCAACTCTACGCGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAACTCTACGCGGCACTACGGTGCAATTC
*
702981 TATATGGCACTACGGTGCAACTCTACGTGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAACTCTACGCGGCACTACGGTGCAATTC
703027 TATATGGCACT
1 TATATGGCACT
703038 TCAGTGCATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (46 bp):
TATATGGCACTACGGTGCAACTCTACGCGGCACTACGGTGCAATTC
Found at i:703044 original size:23 final size:23
Alignment explanation
Indices: 702935--703053 Score: 134
Period size: 23 Copynumber: 5.3 Consensus size: 23
702925 TGGACATTAT
* *
702935 TATATGGCACTACGTTGCAACTC
1 TATATGGCACTACGGTGCAATTC
***
702958 TACGCGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
*
702981 TATATGGCACTACGGTGCAACTC
1 TATATGGCACTACGGTGCAATTC
**
703004 TACGTGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
* *
703027 TATATGGCACTTCAGTGC-ATT-
1 TATATGGCACTACGGTGCAATTC
703048 TATATG
1 TATATG
703054 AGATGTGGTG
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 6 0.08
22 3 0.04
23 71 0.89
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (23 bp):
TATATGGCACTACGGTGCAATTC
Found at i:706897 original size:23 final size:22
Alignment explanation
Indices: 706853--706897 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
706843 AATGTCATGG
*
706853 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
* *
706875 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
706898 AAATTGTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:708338 original size:46 final size:46
Alignment explanation
Indices: 708286--708393 Score: 189
Period size: 46 Copynumber: 2.3 Consensus size: 46
708276 TGGACATTAT
*
708286 TATATGGCACTATGGTGCAACTCTACGCGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAACTCTACGCGGCACTACGGTGCAATTC
*
708332 TATATGGCACTACGGTGCAACTCTACGTGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAACTCTACGCGGCACTACGGTGCAATTC
*
708378 TATATGGCACTTCGGT
1 TATATGGCACTACGGT
708394 TCATTTATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (46 bp):
TATATGGCACTACGGTGCAACTCTACGCGGCACTACGGTGCAATTC
Found at i:708404 original size:21 final size:23
Alignment explanation
Indices: 708286--708393 Score: 135
Period size: 23 Copynumber: 4.7 Consensus size: 23
708276 TGGACATTAT
* *
708286 TATATGGCACTATGGTGCAACTC
1 TATATGGCACTACGGTGCAATTC
***
708309 TACGCGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
*
708332 TATATGGCACTACGGTGCAACTC
1 TATATGGCACTACGGTGCAATTC
**
708355 TACGTGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
*
708378 TATATGGCACTTCGGT
1 TATATGGCACTACGGT
708394 TCATTTATAT
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (23 bp):
TATATGGCACTACGGTGCAATTC
Found at i:709250 original size:64 final size:64
Alignment explanation
Indices: 709117--709255 Score: 179
Period size: 64 Copynumber: 2.2 Consensus size: 64
709107 AGGGAGCAAA
* * * * *
709117 TGTCCAAATTATTGAACAAGATGACTATTGCGATCTATGGGGAGAAATTGTTAGAGGATTCTAT
1 TGTCCAAATTAGTGAACAAGATGACTATTGCGATCTATGGGGAGAAATCGTTAAAGGACTATAT
* ** * * *
709181 CGTCCAAATTAGTGAACAAGATGGTTATTGTGATTTATGGGGAGAAATCGTTAAAGGACTATGT
1 TGTCCAAATTAGTGAACAAGATGACTATTGCGATCTATGGGGAGAAATCGTTAAAGGACTATAT
709245 TGTCCAAATTA
1 TGTCCAAATTA
709256 ACACGATTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (64 bp):
TGTCCAAATTAGTGAACAAGATGACTATTGCGATCTATGGGGAGAAATCGTTAAAGGACTATAT
Found at i:718715 original size:60 final size:61
Alignment explanation
Indices: 718584--718721 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 61
718574 CACAAAGGCA
* *
718584 CATCCCTGGGGACGCGCTTTACCTGGGTTTTAGTTGACTGGGATGCCACGCGGGTAAGACG
1 CATCCCTGGGGACGCGCTTTACCTGGGTTTTAGTTGACTCGGATGCCACGAGGGTAAGACG
* * *
718645 CATCCTTGGGGACGCGCTTT-CAC-GGTGTTTT-GTTGAGTCGGATGCCACGAGGGTAAGGCG
1 CATCCCTGGGGACGCGCTTTAC-CTGG-GTTTTAGTTGACTCGGATGCCACGAGGGTAAGACG
*
718705 CGTCCCTGGGGACGCGC
1 CATCCCTGGGGACGCGC
718722 CTTCCATTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
60 43 0.63
61 25 0.37
ACGTcount: A:0.14, C:0.25, G:0.36, T:0.24
Consensus pattern (61 bp):
CATCCCTGGGGACGCGCTTTACCTGGGTTTTAGTTGACTCGGATGCCACGAGGGTAAGACG
Found at i:718953 original size:27 final size:27
Alignment explanation
Indices: 718875--718953 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
718865 TTTAAGTTAG
718875 TATTTTTTA--AAAATAAT-TGTTATAT
1 TATTTTTTATTAAAATAATAT-TTATAT
* * **
718900 T-TTTTATTATTATAATTATATAAATAT
1 TATTTT-TTATTAAAATAATATTTATAT
718927 TATTTTTTATTAAAATAATATTTATAT
1 TATTTTTTATTAAAATAATATTTATAT
718954 AAGTATTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
24 4 0.10
25 4 0.10
27 28 0.68
28 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (27 bp):
TATTTTTTATTAAAATAATATTTATAT
Found at i:720752 original size:42 final size:41
Alignment explanation
Indices: 720688--720788 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
720678 GATGCCATAG
* * *
720688 GGGTACATGCCCAGCCCTCCAGTTTAGATGCCATCTCTGCAA
1 GGGTACATGCCAAGCCCACCAGTTCAGATGCCATCTCTGC-A
* *
720730 GGGTATATGCCAAGCCCACCAGTTCATATGCCATCTCTGCA
1 GGGTACATGCCAAGCCCACCAGTTCAGATGCCATCTCTGCA
* *
720771 GGGTTACATTCCTAGCCC
1 GGG-TACATGCCAAGCCC
720789 GCAGGGTTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
41 4 0.08
42 46 0.92
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.25
Consensus pattern (41 bp):
GGGTACATGCCAAGCCCACCAGTTCAGATGCCATCTCTGCA
Found at i:720794 original size:21 final size:21
Alignment explanation
Indices: 720768--720838 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
720758 TGCCATCTCT
720768 GCAGGGTTACATTCCTAGCCC
1 GCAGGGTTACATTCCTAGCCC
720789 GCAGGGTTACATTCCTAGCCC
1 GCAGGGTTACATTCCTAGCCC
* *
720810 TCTA-GGTTACATGCCTAGCCC
1 GC-AGGGTTACATTCCTAGCCC
720831 GCAGGGTT
1 GCAGGGTT
720839 TTATGACACC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.25
Consensus pattern (21 bp):
GCAGGGTTACATTCCTAGCCC
Found at i:721430 original size:19 final size:19
Alignment explanation
Indices: 721392--721430 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
721382 ATTATTCCAA
*
721392 TTGAAATTCAAAATTGTAT
1 TTGAAATTCAAAATTATAT
*
721411 TTGAAATTCAAAGTTATAT
1 TTGAAATTCAAAATTATAT
721430 T
1 T
721431 CCATTAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (19 bp):
TTGAAATTCAAAATTATAT
Found at i:722770 original size:24 final size:22
Alignment explanation
Indices: 722746--722823 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
722736 TCATATAAAT
722746 TTGCACCGCAATGCCACGTAGAA
1 TTGCACCG-AATGCCACGTAGAA
* * *
722769 TTTGTC-CCAAAGGACCGCGTAGAA
1 -TTG-CACCGAATG-CCACGTAGAA
*
722793 ATGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAA-TGCCACGTAGAA
722816 TTGCACCG
1 TTGCACCG
722824 TAACGCCATA
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
22 1 0.02
23 25 0.60
24 15 0.36
25 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.18
Consensus pattern (22 bp):
TTGCACCGAATGCCACGTAGAA
Found at i:722831 original size:23 final size:23
Alignment explanation
Indices: 722786--722831 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
722776 CAAAGGACCG
*
722786 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGCGCCA
*
722809 CGTAGAATTGCACCGTAA-CGCCA
1 CGTAGAAATGCACCG-AAGCGCCA
722832 TATAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGCGCCA
Found at i:723013 original size:24 final size:24
Alignment explanation
Indices: 722945--723005 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
722935 AATACATATA
722945 TGTCCCGAAGGACCACGTAGAATT
1 TGTCCCGAAGGACCACGTAGAATT
722969 TGTCCCGAAGGACCACGTAGAATT
1 TGTCCCGAAGGACCACGTAGAATT
722993 TGTCCCGAAGGAC
1 TGTCCCGAAGGAC
723006 TGCGTAGACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (24 bp):
TGTCCCGAAGGACCACGTAGAATT
Found at i:725302 original size:24 final size:23
Alignment explanation
Indices: 725278--725355 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
725268 TCATATAAAT
725278 TTGCACCGAAGTACCACGTAGAA
1 TTGCACCGAAGTACCACGTAGAA
* * *
725301 TTTGTC-CC-AAATGACCGCGTACAA
1 -TTG-CACCGAAGT-ACCACGTAGAA
* * *
725325 ATGCACTGAAGTGCCACGTAGAA
1 TTGCACCGAAGTACCACGTAGAA
725348 TTGCACCG
1 TTGCACCG
725356 TAGTGCCATA
Statistics
Matches: 39, Mismatches: 11, Indels: 9
0.66 0.19 0.15
Matches are distributed among these distances:
22 1 0.03
23 20 0.51
24 17 0.44
25 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (23 bp):
TTGCACCGAAGTACCACGTAGAA
Found at i:725344 original size:23 final size:23
Alignment explanation
Indices: 725318--725363 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
725308 CAAATGACCG
*
725318 CGTACAAATGCACTGAAGTGCCA
1 CGTACAAATGCACCGAAGTGCCA
* * *
725341 CGTAGAATTGCACCGTAGTGCCA
1 CGTACAAATGCACCGAAGTGCCA
725364 TATAATATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTACAAATGCACCGAAGTGCCA
Found at i:725661 original size:31 final size:31
Alignment explanation
Indices: 725597--725683 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
725587 TCACATAGTG
* * *
725597 TATCTCATAGACATATTA-TTTACATACCTT
1 TATCACATAGACATATAATTTTCCATACCTT
*
725627 TATCACATAGACATATAATTTTCCATCCCTT
1 TATCACATAGACATATAATTTTCCATACCTT
*
725658 TATCACATAGCTCATATAACTTTTCC
1 TATCACATAG-ACATATAA-TTTTCC
725684 TGCATATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 16 0.33
31 20 0.41
32 7 0.14
33 6 0.12
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.40
Consensus pattern (31 bp):
TATCACATAGACATATAATTTTCCATACCTT
Found at i:726095 original size:20 final size:20
Alignment explanation
Indices: 726070--726120 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
726060 ATTTCCATGC
726070 ATCGATGCACCCCTTAGTGT
1 ATCGATGCACCCCTTAGTGT
726090 ATCGATGCACCCCTTAGTGT
1 ATCGATGCACCCCTTAGTGT
726110 ATCGATGCACC
1 ATCGATGCACC
726121 TTCAAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGATGCACCCCTTAGTGT
Found at i:727404 original size:138 final size:138
Alignment explanation
Indices: 727110--727412 Score: 412
Period size: 138 Copynumber: 2.2 Consensus size: 138
727100 ACCTGTTGCG
* * *
727110 ACCCCCAGAAATGCGCTTTCATAAC-TTGTTGCATCCCCTCAAACATAATACGTACTGACATGAA
1 ACCCCCAGAAACGCACTTTCACAACTTTGTTGCATCCCCTCAAACATAATACGTACTGACATGAA
* *
727174 TAGTGCCCCCGGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATA
66 TAATGCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATA
*
727239 GAAGACGT
131 GAAGACGC
* * * * * *
727247 GCCCCCAGAAATGCGCTTTCACAACTTTGTTG-GTCCCCTCAAACATAATAGGTACTGATATGAA
1 ACCCCCAGAAACGCACTTTCACAACTTTGTTGCATCCCCTCAAACATAATACGTACTGACATGAA
* *
727311 TAATGCCCCTAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAAT
66 TAATGCCCC-AGGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAAT
* *
727376 GGAAGGCGC
130 AGAAGACGC
** *
727385 ACCCCTGGAAACGCACTTTCACCACTTT
1 ACCCCCAGAAACGCACTTTCACAACTTT
727413 AGGTACTGAT
Statistics
Matches: 146, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
137 60 0.41
138 86 0.59
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (138 bp):
ACCCCCAGAAACGCACTTTCACAACTTTGTTGCATCCCCTCAAACATAATACGTACTGACATGAA
TAATGCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATA
GAAGACGC
Found at i:727507 original size:117 final size:117
Alignment explanation
Indices: 727295--727523 Score: 370
Period size: 117 Copynumber: 2.0 Consensus size: 117
727285 TCAAACATAA
* *
727295 TAGGTACTGATATGAATAATGCCCCTAGGGGACATGAGTGACATAATAGGGCAATGATAACATAT
1 TAGGTACTGATATAAATAATGCCCCTAAGGGACATGAGTGACATAATAGGGCAATGATAACATAT
* *
727360 TCTTTGACAAAATAATGGAAGGCGCACCCCTGGAAACGCACTTTCACCACTT
66 TCTCTGACAAAATAATGGAAGGCGCACCCCTGGAAACGCACCTTCACCACTT
*
727412 TAGGTACTGATATAAATAGTGCCCCTAAGGGACATGAGTGACATAATAGGGCAATGATAACATAT
1 TAGGTACTGATATAAATAATGCCCCTAAGGGACATGAGTGACATAATAGGGCAATGATAACATAT
* * *
727477 TCTCTGATAAAATAATGGAAGAG-GCGCCCCTGGAAATGCACCTTCAC
66 TCTCTGACAAAATAATGGAAG-GCGCACCCCTGGAAACGCACCTTCAC
727524 ATGAATAGTA
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
117 102 0.99
118 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (117 bp):
TAGGTACTGATATAAATAATGCCCCTAAGGGACATGAGTGACATAATAGGGCAATGATAACATAT
TCTCTGACAAAATAATGGAAGGCGCACCCCTGGAAACGCACCTTCACCACTT
Found at i:730651 original size:13 final size:12
Alignment explanation
Indices: 730610--730661 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
730600 TGGTTAATAT
*
730610 TATATTTATT-A
1 TATAATTATTAA
730621 TATAATTTATTAA
1 TATAA-TTATTAA
730634 TTATAATTATTGAA
1 -TATAATTATT-AA
*
730648 TATAATAATTAA
1 TATAATTATTAA
730660 TA
1 TA
730662 ATTTATTAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
11 4 0.11
12 9 0.26
13 15 0.43
14 7 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
TATAATTATTAA
Found at i:737251 original size:27 final size:28
Alignment explanation
Indices: 737212--737264 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
737202 AAATTATACG
737212 TTTAGTACTTAATTGT-TTTTATTTCGT
1 TTTAGTACTTAATTGTATTTTATTTCGT
*
737239 TTTAGTA-TCTAATTTTATTTTATTTC
1 TTTAGTACT-TAATTGTATTTTATTTC
737265 AAAATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 1 0.04
27 13 0.57
28 9 0.39
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.64
Consensus pattern (28 bp):
TTTAGTACTTAATTGTATTTTATTTCGT
Found at i:737835 original size:7 final size:7
Alignment explanation
Indices: 737823--737853 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
737813 AGGCATCATA
737823 AAATTTG
1 AAATTTG
737830 AAATTTG
1 AAATTTG
737837 AAATTTG
1 AAATTTG
737844 AAAATTTG
1 -AAATTTG
737852 AA
1 AA
737854 CCACCGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (7 bp):
AAATTTG
Found at i:737842 original size:14 final size:15
Alignment explanation
Indices: 737823--737853 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
737813 AGGCATCATA
737823 AAATTTG-AAATTTG
1 AAATTTGAAAATTTG
737837 AAATTTGAAAATTTG
1 AAATTTGAAAATTTG
737852 AA
1 AA
737854 CCACCGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (15 bp):
AAATTTGAAAATTTG
Found at i:740623 original size:25 final size:26
Alignment explanation
Indices: 740589--740637 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
740579 TTCATCTACC
740589 CTTCTAGAAA-TGCTGACTGGACTGT
1 CTTCTAGAAACTGCTGACTGGACTGT
*
740614 CTTCTAGAAACTGCTGATTGGACT
1 CTTCTAGAAACTGCTGACTGGACT
740638 ACCACGTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (26 bp):
CTTCTAGAAACTGCTGACTGGACTGT
Found at i:748344 original size:17 final size:17
Alignment explanation
Indices: 748322--748360 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
748312 CTATAAGTGA
748322 AGTTTTCAAGGATTTAG
1 AGTTTTCAAGGATTTAG
* *
748339 AGTTTTCAAGGTTTTTG
1 AGTTTTCAAGGATTTAG
748356 AGTTT
1 AGTTT
748361 CCAGAACTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (17 bp):
AGTTTTCAAGGATTTAG
Found at i:749615 original size:15 final size:15
Alignment explanation
Indices: 749597--749625 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
749587 AAGCCTAGAA
749597 ACATAAATGACAAAC
1 ACATAAATGACAAAC
749612 ACATAAATGACAAA
1 ACATAAATGACAAA
749626 TCCTAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.17, G:0.07, T:0.14
Consensus pattern (15 bp):
ACATAAATGACAAAC
Found at i:753594 original size:41 final size:41
Alignment explanation
Indices: 753511--753594 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
753501 CATAGAATTC
* * * ** *
753511 TTTTGTTTTTTCTTTAAATATCTTAGTGCTATTGTAAGCGT
1 TTTTGTTTTTTCTATAAATATCTGAGTACTATCATAAACGT
753552 TTTTGTTTTTTCTATAAATATCTGAGTACTATCATAAACGT
1 TTTTGTTTTTTCTATAAATATCTGAGTACTATCATAAACGT
753593 TT
1 TT
753595 CTACGGATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.24, C:0.11, G:0.12, T:0.54
Consensus pattern (41 bp):
TTTTGTTTTTTCTATAAATATCTGAGTACTATCATAAACGT
Found at i:758823 original size:55 final size:55
Alignment explanation
Indices: 758762--759450 Score: 769
Period size: 55 Copynumber: 12.5 Consensus size: 55
758752 CATTCTACGG
* * * *
758762 AATTCATCATGAGTTGATGAATAACCATACAGGCACTATGTGAGGAAAACCATGA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
* * * * * *
758817 AATTCATCATGAGTTGACGAATAACCGTAGATGCACTATGTGTACAAATCCACGG
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
** * * *
758872 AATTCATCATGAGTTGATGAATAACCGTACAAACACTTTGTGTACAAAACCATGA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
* * ** * * * *
758927 AATTCATTAAGAGTTGATGAATAATTGTGCAGGAACTATATGTG-AAAGACCATGA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAA-ACCACGA
* * * *
758982 AATTCATCATGAGTTGATAAATAACCGTACAGACACTATGTGTGCAAGACCA-TA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
* * * *
759036 GAATTCATCAAGAGTTGATGAATAACCGTACATGCACTATGTGTGCAAGACCACAA
1 -AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
* *
759092 AATTCATCATGAGTTGATGAATAACCGTACAAGG-ACTATGTGTACAAAACCACGG
1 AATTCATCATGAGTTGATGAATAACCGTAC-AGGCACTATGTGTGCAAAACCACGA
* ** * * *
759147 AATTCATAATGAGTTGATGAATAACAATACAAGAACTATGTGTGCAAGACCACGA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
* * * * ** *
759202 AAATCATCATGAGTTGATAAATAACCGTACAAGCACTCTGTGTGCATGACCACAA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
* * * * *
759257 AATTCATCATGAGTTGATGAATAATCGTACATGCACTATGTGTGTAAGACCACAA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
* * * *
759312 AATTCATCATGAGTTGATGAATAACTGTATAGGCACTATATGTGCAAGACCAC-A
1 AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
* *
759366 GAATTCATCATGAGTTGATGAATAACAGTACATGCACTATGTGTGCAAAACCAC-A
1 -AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
759421 TAATTCATCATGAGTTGATGAACT-ACCGTA
1 -AATTCATCATGAGTTGATGAA-TAACCGTA
759451 TAGGAGCTAC
Statistics
Matches: 539, Mismatches: 87, Indels: 16
0.84 0.14 0.02
Matches are distributed among these distances:
54 7 0.01
55 526 0.98
56 6 0.01
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (55 bp):
AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAACCACGA
Found at i:763563 original size:55 final size:55
Alignment explanation
Indices: 763492--764202 Score: 783
Period size: 55 Copynumber: 12.9 Consensus size: 55
763482 AGGGTGCATT
* * * * *
763492 CCACGGAATTCATCATGAGTTGATGAATAATCGTACAAGTATTATGTGTGAAAAA
1 CCACAGAATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGTGTGCAAGA
* * *
763547 CCACAGAATTCATCATGAGTTGATGAATAATCGTACAAACACTATGTGTACAAAA
1 CCACAGAATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGTGTGCAAGA
* * * *
763602 CCATAAAATTCATCATGAGTTGATGAATAA-CTGTACATGCACTATGTGTGCAAAA
1 CCACAGAATTCATCATGAGTTGATGAATAATC-GTACAAGCACTATGTGTGCAAGA
* * ** * * * *
763657 CCAC-GAAATTCATGAAGAGTTGATGAATAATAATATATGAACTATGTGTACAAGA
1 CCACAG-AATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGTGTGCAAGA
* * * * *
763712 CCACAGAATTCATCATGAGTTGATGAATAACCATACAAGCACTATATGTGGAAAA
1 CCACAGAATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGTGTGCAAGA
* * * *
763767 CCACTGAATTCATCA--AGTAATGATGAATAACCGTACAGGCACTATGTGTCCAAGA
1 CCACAGAATTCATCATGAGT--TGATGAATAATCGTACAAGCACTATGTGTGCAAGA
** * * *
763822 CCATGGAATTCATCAAGAGTTGATGAATAATCGTACATGCACTATTTGTGCAAGA
1 CCACAGAATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGTGTGCAAGA
* * * * * *
763877 CCACATAATTCGTCATGAGTTGATGAATAACCATACAGGCACTATGTGTGCAAAA
1 CCACAGAATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGTGTGCAAGA
* *
763932 CCACAAAATTCATCATGAGTTGATGAATAACCGTAC-AGACACTATGTGTGCAAGA
1 CCACAGAATTCATCATGAGTTGATGAATAATCGTACAAG-CACTATGTGTGCAAGA
* * * *
763987 CCCCAAAATTCATCAT-ATATTGATGAATAATCGTACAAGCACTATGTGTGGAAGA
1 CCACAGAATTCATCATGA-GTTGATGAATAATCGTACAAGCACTATGTGTGCAAGA
* ** *
764042 TCTGA-AATTCATCATGAGTTGATGAATAATCGTACATGCACTATGTGTGCAAGA
1 CCACAGAATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGTGTGCAAGA
* * *
764096 CCA-TGAAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTGCAAGA
1 CCACAG-AATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGTGTGCAAGA
* * *
764151 CCACAAAATTCATCATGAGTTGATGAACT-ATCGTATAGGCACTATGTGTGCA
1 CCACAGAATTCATCATGAGTTGATGAA-TAATCGTACAAGCACTATGTGTGCA
764203 TCTTAATAAA
Statistics
Matches: 561, Mismatches: 79, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
53 3 0.01
54 48 0.09
55 503 0.90
56 4 0.01
57 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (55 bp):
CCACAGAATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGTGTGCAAGA
Found at i:765201 original size:14 final size:14
Alignment explanation
Indices: 765182--765208 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
765172 TTTATGATTG
765182 AATTTAAATTTTTT
1 AATTTAAATTTTTT
765196 AATTTAAATTTTT
1 AATTTAAATTTTT
765209 GAAACAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTAAATTTTTT
Found at i:768774 original size:55 final size:54
Alignment explanation
Indices: 768691--769104 Score: 512
Period size: 55 Copynumber: 7.6 Consensus size: 54
768681 GAAACATTGG
* * * *
768691 ATGAGTT-TTGAATAACCGTACATGCACTATGTATGCAAAACCACAGAATTCATC
1 ATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAGACCAC-GAATTCATC
** *
768745 ATGAGTTGATGAATAACCGTACATACACTATGTGTGCAAAACCACGAAATTCATC
1 ATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAGACCACG-AATTCATC
* * *
768800 AAGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAGACCACATAATTCATT
1 ATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAGACCAC-GAATTCATC
* * * *
768855 ATGAGTTGATTAATAACCGTACATGCACTA-GTGTGCAAAACCACAAAATT-ATC
1 ATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAGACCAC-GAATTCATC
* * *
768908 CTGAGTTGATGAATAACCATACATGCACTATGTGTGCAAGACCACGAAATTCATC
1 ATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAGACCACG-AATTCATC
* * *
768963 ATGAGTTGATGAATAACCATTCAGGCACTATGTGTGCAAGACCATGGAATTCATC
1 ATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAGACCA-CGAATTCATC
* * *
769018 ATGAGTTGAGGAATAA-CGTTCAGGCACTATGTGTGTAAGACCACGAAATTCATC
1 ATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAGACCACG-AATTCATC
* *
769072 TTGAGTTGATGAATAACCTTACAGGCACTATGT
1 ATGAGTTGATGAATAACCGTACAGGCACTATGT
769105 ATGAGTTGAT
Statistics
Matches: 319, Mismatches: 32, Indels: 17
0.87 0.09 0.05
Matches are distributed among these distances:
53 30 0.09
54 90 0.28
55 198 0.62
56 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (54 bp):
ATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAGACCACGAATTCATC
Found at i:768962 original size:163 final size:165
Alignment explanation
Indices: 768700--769104 Score: 582
Period size: 163 Copynumber: 2.5 Consensus size: 165
768690 GATGAGTTTT
* * *
768700 GAATAACCGTACATGCACTATGTATGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGT
1 GAATAACCGTACATGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCAT
* *
768765 ACATACACTATGTGTGCAAAACCACGAAATTCATCAAGAGTTGATGAATAACCGTACAGGCACTA
66 ACATGCACTATGTGTGCAAAACCACGAAATTCATCAAGAGTTGATGAATAACCATACAGGCACTA
* * *
768830 TGTGTGCAAGACCACATAATTCATTATGAGTTGAT
131 TGTGTGCAAGACCACAGAATTCATCATGAGTTGAG
* *
768865 TAATAACCGTACATGCACTA-GTGTGCAAAACCACAAAATT-ATCCTGAGTTGATGAATAACCAT
1 GAATAACCGTACATGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCAT
* * *
768928 ACATGCACTATGTGTGCAAGACCACGAAATTCATCATGAGTTGATGAATAACCATTCAGGCACTA
66 ACATGCACTATGTGTGCAAAACCACGAAATTCATCAAGAGTTGATGAATAACCATACAGGCACTA
**
768993 TGTGTGCAAGACCATGGAATTCATCATGAGTTGAG
131 TGTGTGCAAGACCACAGAATTCATCATGAGTTGAG
* * * * * * *
769028 GAATAA-CGTTCAGGCACTATGTGTGTAAGACCACGAAATTCATCTTGAGTTGATGAATAACCTT
1 GAATAACCGTACATGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCAT
*
769092 ACAGGCACTATGT
66 ACATGCACTATGT
769105 ATGAGTTGAT
Statistics
Matches: 214, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
162 11 0.05
163 133 0.62
164 51 0.24
165 19 0.09
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (165 bp):
GAATAACCGTACATGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCAT
ACATGCACTATGTGTGCAAAACCACGAAATTCATCAAGAGTTGATGAATAACCATACAGGCACTA
TGTGTGCAAGACCACAGAATTCATCATGAGTTGAG
Found at i:772550 original size:20 final size:20
Alignment explanation
Indices: 772525--772572 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
772515 ATACCATGAT
772525 TGCACATATAGTGCCAAAAG
1 TGCACATATAGTGCCAAAAG
772545 TGCACATATAGTGCCAAAAG
1 TGCACATATAGTGCCAAAAG
*
772565 TACACATA
1 TGCACATA
772573 GTACTGATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (20 bp):
TGCACATATAGTGCCAAAAG
Found at i:778943 original size:153 final size:154
Alignment explanation
Indices: 778750--779057 Score: 609
Period size: 153 Copynumber: 2.0 Consensus size: 154
778740 TAACACCTAT
778750 TCCCCATATACATTTCCGTATACAAGTTACAGGTGTCACCTGATTTTTAAAAATATTTCTTTATT
1 TCCCCATATACATTTCCGTATACAAGTTACAGGTGTCACCTGATTTTTAAAAATATTTCTTTATT
778815 TGTAACCCATAAATTTTTTCCATTAATAAAACATTTTAGTGTAATAAAAATTAAAGCTTGTTAAC
66 TGTAACCCATAAATTTTTTCCATTAATAAAACATTTTAGTGTAATAAAAATTAAAGCTTGTTAAC
778880 TTTCAGTAGAT-AAATAATCTTAA
131 TTTCAGTAGATAAAATAATCTTAA
778903 TCCCCATATACATTTCCGTATACAAGTTACAGGTGTCACCTGATTTTTAAAAATATTTCTTTATT
1 TCCCCATATACATTTCCGTATACAAGTTACAGGTGTCACCTGATTTTTAAAAATATTTCTTTATT
778968 TGTAACCCATAAATTTTTTCCATTAATAAAACATTTTAGTGTAATAAAAATTAAAGCTTGTTAAC
66 TGTAACCCATAAATTTTTTCCATTAATAAAACATTTTAGTGTAATAAAAATTAAAGCTTGTTAAC
779033 TTTCAGTAGATAAAATAATCTTAA
131 TTTCAGTAGATAAAATAATCTTAA
779057 T
1 T
779058 GTTATAACAT
Statistics
Matches: 154, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
153 141 0.92
154 13 0.08
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (154 bp):
TCCCCATATACATTTCCGTATACAAGTTACAGGTGTCACCTGATTTTTAAAAATATTTCTTTATT
TGTAACCCATAAATTTTTTCCATTAATAAAACATTTTAGTGTAATAAAAATTAAAGCTTGTTAAC
TTTCAGTAGATAAAATAATCTTAA
Found at i:781224 original size:106 final size:109
Alignment explanation
Indices: 781039--781246 Score: 395
Period size: 106 Copynumber: 1.9 Consensus size: 109
781029 TACTTTAGAC
781039 TCCCTTTTTTTTCTCTTATTCCCCTTTTATTAATAACCCAACTTAAATGAATATTAAATTCATTC
1 TCCCTTTTTTTTCTCTTATTCCCCTTTTATTAATAACCCAACTTAAATGAATATTAAATTCATTC
781104 CTTCAAAAGGACT-AATTG-CCCTCTATT-TTCCATTAGACTTG
66 CTTCAAAAGGACTAAATTGCCCCTCTATTCTTCCATTAGACTTG
781145 TCCCTTTTTTTTCTCTTATTCCCCTTTTATTAATAACCCAACTTAAATGAATATTAAATTCATTC
1 TCCCTTTTTTTTCTCTTATTCCCCTTTTATTAATAACCCAACTTAAATGAATATTAAATTCATTC
781210 CTTCAAAAGGACTAAATTGCCCCTCTATTCTTCCATT
66 CTTCAAAAGGACTAAATTGCCCCTCTATTCTTCCATT
781247 CTTAATATTT
Statistics
Matches: 99, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
106 78 0.79
107 5 0.05
108 9 0.09
109 7 0.07
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (109 bp):
TCCCTTTTTTTTCTCTTATTCCCCTTTTATTAATAACCCAACTTAAATGAATATTAAATTCATTC
CTTCAAAAGGACTAAATTGCCCCTCTATTCTTCCATTAGACTTG
Found at i:795428 original size:114 final size:114
Alignment explanation
Indices: 795223--795454 Score: 383
Period size: 114 Copynumber: 2.0 Consensus size: 114
795213 CATTTCCAAC
* * *
795223 TTTGTTTTTAGAAACCAATTTATATTTTTATCCTTACTAATGCATAGGCTCCACTCATTTATCCT
1 TTTGCTTTTAGAAACCAATTTATACTTTTATCCTTACTAATACATAGGCTCCACTCATTTATCCT
* * * *
795288 AGAAAAGAACTTAGGAATTCAATTTCTTTTATTAATTATGTTTTTATAT
66 AGAAAAGAAATTAAGAATTAAATTTCTTTTATTAATTATGTATTTATAT
* *
795337 TTTGCTTTTAGAAACCAATTTATACTTTTATCCTTACTAATACATATGCTCCACTCATTTGTCCT
1 TTTGCTTTTAGAAACCAATTTATACTTTTATCCTTACTAATACATAGGCTCCACTCATTTATCCT
795402 AGAAAAGAAATTAAGAATTAAATTTCTTTTATTAATTATGTATTTATAT
66 AGAAAAGAAATTAAGAATTAAATTTCTTTTATTAATTATGTATTTATAT
795451 TTTG
1 TTTG
795455 TTTCAATAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 109 1.00
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (114 bp):
TTTGCTTTTAGAAACCAATTTATACTTTTATCCTTACTAATACATAGGCTCCACTCATTTATCCT
AGAAAAGAAATTAAGAATTAAATTTCTTTTATTAATTATGTATTTATAT
Found at i:800994 original size:139 final size:139
Alignment explanation
Indices: 800724--801146 Score: 435
Period size: 139 Copynumber: 3.1 Consensus size: 139
800714 TTTAATAAAC
* * *
800724 TATTGAGTCAAATAATCAAAATGGAACCTCGAGCATAAAAGCGAGGACCAAATAAAAAATTCTCC
1 TATTGAATCGAATAATCAAAATGGAACCTCGAGCATAAAAACGAGGACCAAATAAAAAATTCTCC
* * * ** ** ** * * *
800789 TAAATTAAAGGATTATAGTGAAATTAAAACTAAAACGGA-AGCTCTAAACGTTAGCCTA-ACTAA
66 TAAATTAAAGGACTAAAATGAAATTAAGCCTAAAGTGGAGA-CTCTAATTGTTAACCTAGTC-CA
800852 TTTTAACCAAT
129 TTTTAACCAAT
* ** *
800863 TATTGAATCTAATGGTCAAAATGGAACCTCAAGCATAAAAACGAGGACCAAATAAAAAATTCTCC
1 TATTGAATCGAATAATCAAAATGGAACCTCGAGCATAAAAACGAGGACCAAATAAAAAATTCTCC
* * * * *
800928 TAAATTAAATGAGTAAACTGAAATTAAGCCTAAAGTGGAGACTCTAATTATTAATCTAGTCCATT
66 TAAATTAAAGGACTAAAATGAAATTAAGCCTAAAGTGGAGACTCTAATTGTTAACCTAGTCCATT
*
800993 TTAACGAAT
131 TTAACCAAT
* * ** * *
801002 TATTGAATCGAATAAT-TAAATGGAACCTCGAGCA-AAAATA--AAGACCAAATTGAGAATTCCC
1 TATTGAATCGAATAATCAAAATGGAACCTCGAGCATAAAA-ACGAGGACCAAATAAAAAATTCTC
* * * *
801063 CTAAAATAAAGGACTAAATATGAAATTGAGCCTAGAGTGGAGGCTCTAATTGTTAACCTAGTCCA
65 CTAAATTAAAGGACTAAA-ATGAAATTAAGCCTAAAGTGGAGACTCTAATTGTTAACCTAGTCCA
**
801128 TTTTAACCGGT
129 TTTTAACCAAT
801139 TATTGAAT
1 TATTGAAT
801147 ATTCATCTAG
Statistics
Matches: 236, Mismatches: 44, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
136 31 0.13
137 60 0.25
138 17 0.07
139 126 0.53
140 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (139 bp):
TATTGAATCGAATAATCAAAATGGAACCTCGAGCATAAAAACGAGGACCAAATAAAAAATTCTCC
TAAATTAAAGGACTAAAATGAAATTAAGCCTAAAGTGGAGACTCTAATTGTTAACCTAGTCCATT
TTAACCAAT
Found at i:801461 original size:29 final size:29
Alignment explanation
Indices: 801392--801461 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
801382 TAAGATAGTG
* ***
801392 CAGAAAATTAAAAGCTGGAATTTGAAATA
1 CAGAAAATTAAAAGCTGAAATAAAAAATA
* *
801421 CTG-AAATATAAATGCTGAAATAAAAAATA
1 CAGAAAAT-TAAAAGCTGAAATAAAAAATA
801450 CAGAAAATTAAA
1 CAGAAAATTAAA
801462 GGGGTGAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
28 4 0.12
29 24 0.75
30 4 0.12
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (29 bp):
CAGAAAATTAAAAGCTGAAATAAAAAATA
Found at i:801824 original size:12 final size:12
Alignment explanation
Indices: 801781--801824 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
801771 AAATGTAATG
*
801781 AAATAAAAAAGT
1 AAATAAAACAGT
**
801793 AAATAAATTA-T
1 AAATAAAACAGT
801804 AAATAAAACAGT
1 AAATAAAACAGT
801816 AAATAAAAC
1 AAATAAAAC
801825 GAAAATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (12 bp):
AAATAAAACAGT
Found at i:801830 original size:23 final size:23
Alignment explanation
Indices: 801781--801830 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
801771 AAATGTAATG
**
801781 AAATAAAAAAGTAAATAAATTAT
1 AAATAAAAAAGTAAATAAACGAT
*
801804 AAATAAAACAGTAAATAAAACGA-
1 AAATAAAAAAGTAAAT-AAACGAT
801827 AAAT
1 AAAT
801831 TTAAAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (23 bp):
AAATAAAAAAGTAAATAAACGAT
Found at i:802606 original size:19 final size:20
Alignment explanation
Indices: 802570--802607 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
802560 ATACTCTTCC
*
802570 ATAAGGTTCCACATATCTCT
1 ATAAGGTTCCACACATCTCT
802590 ATAAGGTT-CACACATCTC
1 ATAAGGTTCCACACATCTC
802608 CAGAATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (20 bp):
ATAAGGTTCCACACATCTCT
Found at i:802634 original size:30 final size:30
Alignment explanation
Indices: 802598--802662 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
802588 CTATAAGGTT
802598 CACACATCTCCAGAATATTCTAGAGGATTC
1 CACACATCTCCAGAATATTCTAGAGGATTC
802628 CACACATCTCCAGAATATTCTAGAGGATTC
1 CACACATCTCCAGAATATTCTAGAGGATTC
802658 CACAC
1 CACAC
802663 TCTTCCACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (30 bp):
CACACATCTCCAGAATATTCTAGAGGATTC
Found at i:802679 original size:30 final size:30
Alignment explanation
Indices: 802598--802682 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
802588 CTATAAGGTT
* *
802598 CACACATCTCCAGAATATTCTAGAGGATTC
1 CACACATCTCCACAAGATTCTAGAGGATTC
* *
802628 CACACATCTCCAGAATATTCTAGAGGATTC
1 CACACATCTCCACAAGATTCTAGAGGATTC
*
802658 CACAC-TCTTCCACAAGCTTCTAGAG
1 CACACATC-TCCACAAGATTCTAGAG
802683 AGTTCTACAC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
29 2 0.04
30 49 0.96
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (30 bp):
CACACATCTCCACAAGATTCTAGAGGATTC
Found at i:802753 original size:40 final size:40
Alignment explanation
Indices: 802675--802762 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
802665 TTCCACAAGC
* * * *
802675 TTCTAGAGAGTTCTACACTTCTCTAGAGTTCTTCAGAATA
1 TTCTAGAAAATTCTACACTTCTCCAGAGCTCTTCAGAATA
*
802715 TTCTAGAAAATTCTACACTTCTCCAGAAAGCTC-T-AGAATT
1 TTCTAGAAAATTCTACACTTCTCCAG--AGCTCTTCAGAATA
802755 TTCTAGAA
1 TTCTAGAA
802763 CCTCTCCAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 36 0.88
41 1 0.02
42 4 0.10
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (40 bp):
TTCTAGAAAATTCTACACTTCTCCAGAGCTCTTCAGAATA
Found at i:803907 original size:25 final size:23
Alignment explanation
Indices: 803857--803915 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
803847 AGAGAAATAA
* *
803857 AAAAGTAAAAAATGTATAAAATTT
1 AAAA-TAAAAAATGAAGAAAATTT
*
803881 AATAATAAAAAATGAAGAATATGTT
1 AA-AATAAAAAATGAAGAAAAT-TT
*
803906 AAAATTAAAA
1 AAAATAAAAA
803916 TAAATAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.27
Consensus pattern (23 bp):
AAAATAAAAAATGAAGAAAATTT
Found at i:803909 original size:32 final size:31
Alignment explanation
Indices: 803813--803924 Score: 90
Period size: 32 Copynumber: 3.5 Consensus size: 31
803803 ATTTCAAAGG
* *
803813 AAATGAAATATAATAAAATATAAAAAATGT-TA
1 AAATTAAA-ATAA-AAAATGTAAAAAATGTATA
*
803845 AAA-GAGAAATAAAAAA-GTAAAAAATGTATA
1 AAATTA-AAATAAAAAATGTAAAAAATGTATA
*
803875 AAATTTAATAATAAAAAATG-AAGAATATGT-TA
1 AAA-TTAA-AATAAAAAATGTAA-AAAATGTATA
803907 AAATTAAAATAAATAAAT
1 AAATTAAAATAAA-AAAT
803925 AAAAATTTAA
Statistics
Matches: 69, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
29 10 0.14
30 15 0.22
31 15 0.22
32 22 0.32
33 7 0.10
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (31 bp):
AAATTAAAATAAAAAATGTAAAAAATGTATA
Found at i:805166 original size:13 final size:13
Alignment explanation
Indices: 805145--805233 Score: 63
Period size: 13 Copynumber: 7.5 Consensus size: 13
805135 TAACATATTA
*
805145 ATAAAATAATAAT
1 ATAATATAATAAT
805158 ATAATATAA-ATAT
1 ATAATATAATA-AT
805171 ATAATA-AAT-AT
1 ATAATATAATAAT
805182 A-AATAT-ATAAT
1 ATAATATAATAAT
805193 A-AATA-AA-AAT
1 ATAATATAATAAT
*
805203 A-AATAATATTAAT
1 ATAAT-ATAATAAT
*
805216 ATAATTTAAT-AT
1 ATAATATAATAAT
805228 ATAATA
1 ATAATA
805234 AAAACTATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
10 13 0.21
11 12 0.19
12 11 0.18
13 23 0.37
14 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:805168 original size:17 final size:18
Alignment explanation
Indices: 805143--805247 Score: 105
Period size: 17 Copynumber: 6.0 Consensus size: 18
805133 ATTAACATAT
805143 TAATA-AAATA-ATAATA
1 TAATATAAATATATAATA
805159 TAATATAAATATATAATA
1 TAATATAAATATATAATA
805177 -AATATAAATATATAATA
1 TAATATAAATATATAATA
* *
805194 -AATAAAAATAAATAATA
1 TAATATAAATATATAATA
*
805211 TTAATAT-AATTTA-ATATA
1 -TAATATAAATATATA-ATA
*
805229 TAATAAAAACTATATAATA
1 TAATATAAA-TATATAATA
805248 ATATGTTTCC
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.07
17 43 0.58
18 15 0.20
19 10 0.14
20 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATATAAATATATAATA
Found at i:805192 original size:30 final size:31
Alignment explanation
Indices: 805139--805235 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 31
805129 ATCAATTAAC
805139 ATAT-TAATAAA-AT-AATAATATAATATAA
1 ATATATAATAAATATAAATAATATAATATAA
805167 ATATATAATAAATATAAAT-ATAT-A-ATAA
1 ATATATAATAAATATAAATAATATAATATAA
* * *
805195 ATA-AAAATAAATA-ATATTAATATAAT-TTA
1 ATATATAATAAATATA-AATAATATAATATAA
805224 ATATATAATAAA
1 ATATATAATAAA
805236 AACTATATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
26 1 0.02
27 11 0.19
28 15 0.26
29 14 0.25
30 13 0.23
31 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATATAATAAATATAAATAATATAATATAA
Found at i:805224 original size:10 final size:11
Alignment explanation
Indices: 805139--805228 Score: 63
Period size: 10 Copynumber: 9.0 Consensus size: 11
805129 ATCAATTAAC
*
805139 ATATTAATAAA
1 ATATTAATATA
*
805150 ATAATAATATA
1 ATATTAATATA
805161 ATA-TAA-AT-
1 ATATTAATATA
805169 ATA-TAATA-A
1 ATATTAATATA
*
805178 ATATAAATAT-
1 ATATTAATATA
*
805188 ATAATAA-ATA
1 ATATTAATATA
* *
805198 AAAATAA-ATA
1 ATATTAATATA
805208 ATATTAATATA
1 ATATTAATATA
805219 AT-TTAATATA
1 ATATTAATATA
805229 TAATAAAAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
8 6 0.09
9 8 0.12
10 34 0.52
11 17 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATTAATATA
Found at i:805267 original size:25 final size:26
Alignment explanation
Indices: 805233--805288 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
805223 AATATATAAT
805233 AAAAACTATATAATA-ATATGTTTCC
1 AAAAACTATATAATATATATGTTTCC
* *
805258 AAAAATTATATATTATATATGTTTCC
1 AAAAACTATATAATATATATGTTTCC
805284 AAAAA
1 AAAAA
805289 ATTCGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.38
Consensus pattern (26 bp):
AAAAACTATATAATATATATGTTTCC
Found at i:805388 original size:36 final size:35
Alignment explanation
Indices: 805305--805486 Score: 165
Period size: 34 Copynumber: 5.1 Consensus size: 35
805295 TTTAAAAACT
* *
805305 AAATATGTTTTCAAAACTATATTATGTACGTTTTTCAA
1 AAAT-TGTTTTCAAAACTATA-TATATATG-TTTTCAA
* * *
805343 AAATCGTTTTTAAAACTATATATATATGTTTTAAA
1 AAATTGTTTTCAAAACTATATATATATGTTTTCAA
805378 AAATGTGTTTTCAAAAC--TATATATATGTTTTCAA
1 AAAT-TGTTTTCAAAACTATATATATATGTTTTCAA
* * * *
805412 AAACGTATTTTCAAAACCATATATATAT-ATTTC-A
1 AAA-TTGTTTTCAAAACTATATATATATGTTTTCAA
* *
805446 AAATTGATTTTTAAAAACTATATATTATATGCTTTCAA
1 AAATTG--TTTTCAAAACTATATA-TATATGTTTTCAA
805484 AAA
1 AAA
805487 CTATATTTAT
Statistics
Matches: 119, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
33 1 0.01
34 34 0.29
35 28 0.24
36 30 0.25
37 18 0.15
38 8 0.07
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (35 bp):
AAATTGTTTTCAAAACTATATATATATGTTTTCAA
Found at i:805475 original size:34 final size:36
Alignment explanation
Indices: 805312--805486 Score: 155
Period size: 35 Copynumber: 4.9 Consensus size: 36
805302 ACTAAATATG
* * *
805312 TTTTCAAAACTATATTATGTACGTTTTTCAAAAATCGT-
1 TTTTCAAAACTATA-TATATATG-ATTTCAAAAAT-GTA
* * *
805350 TTTT-AAAACTATATATATATGTTTTAAAAAATGTG
1 TTTTCAAAACTATATATATATGATTTCAAAAATGTA
* *
805385 TTTTCAAAAC--TATATATATGTTTTCAAAAACGTA
1 TTTTCAAAACTATATATATATGATTTCAAAAATGTA
* *
805419 TTTTCAAAACCATATATATAT-ATTTCAAAATTG-A
1 TTTTCAAAACTATATATATATGATTTCAAAAATGTA
* *
805453 TTTTTAAAAACTATATATTATATGCTTTCAAAAA
1 -TTTTCAAAACTATATA-TATATGATTTCAAAAA
805487 CTATATTTAT
Statistics
Matches: 117, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
34 34 0.29
35 37 0.32
36 25 0.21
37 17 0.15
38 4 0.03
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (36 bp):
TTTTCAAAACTATATATATATGATTTCAAAAATGTA
Found at i:805502 original size:21 final size:22
Alignment explanation
Indices: 805466--805506 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
805456 TTAAAAACTA
805466 TATATTATATGCTTTCAAAAAC
1 TATATTATATGCTTTCAAAAAC
*
805488 TATATT-TATGTTTTCAAAA
1 TATATTATATGCTTTCAAAA
805507 TATTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (22 bp):
TATATTATATGCTTTCAAAAAC
Found at i:816380 original size:30 final size:30
Alignment explanation
Indices: 816344--816404 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
816334 AGTCGAGGGT
816344 TACCTATGTCCTTCAGG-ACATATGGACAGG
1 TACCTATGTCCTT-AGGAACATATGGACAGG
*
816374 TACCTATGTCCTTAGGAACATATGGATAGG
1 TACCTATGTCCTTAGGAACATATGGACAGG
816404 T
1 T
816405 CCTTTGGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 3 0.10
30 26 0.90
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (30 bp):
TACCTATGTCCTTAGGAACATATGGACAGG
Found at i:821547 original size:30 final size:30
Alignment explanation
Indices: 821511--821571 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
821501 AGTCGAGGGT
*
821511 TACCTATGTCCTTCGGGATATATGGATAGG
1 TACCTATGTCCTTCGGGACATATGGATAGG
* *
821541 TACCTATGTCTTTCGGGGCATATGGATAGG
1 TACCTATGTCCTTCGGGACATATGGATAGG
821571 T
1 T
821572 CATTCGGGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (30 bp):
TACCTATGTCCTTCGGGACATATGGATAGG
Found at i:821872 original size:3 final size:3
Alignment explanation
Indices: 821856--821935 Score: 133
Period size: 3 Copynumber: 26.7 Consensus size: 3
821846 GATATGATTG
* * *
821856 ATA ATA ATG TTA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
821904 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
821936 GAAATGCTAT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:824678 original size:108 final size:108
Alignment explanation
Indices: 824473--824721 Score: 282
Period size: 108 Copynumber: 2.3 Consensus size: 108
824463 AAACGGTAAG
* * * * * *
824473 AAAATAAGTTAATTACTTATTTTGTTATTAATATTTTCAACATATTAGGTTGCGCCTAATATATT
1 AAAATAAGTTAATTACTTATTTTATTATAAATATTATCAACAAATTAAGTTGCGCCTAAAATATT
** * * * * * * *
824538 ATGAGAGTTTAAGTTGAAAAGGCTTTATAAATTCTATGATAAC
66 ACCAAAGTTTAAGCTGAAAAGGCCTTAGAAATTCCACGACAAC
* * *
824581 AAAATAGGTTAATTACTTATTTTATTATAAATATTATCAATAAATTAAGTTGCGCCTAAAATGTT
1 AAAATAAGTTAATTACTTATTTTATTATAAATATTATCAACAAATTAAGTTGCGCCTAAAATATT
* *** *
824646 GCCAAAGTTTAAGCTGACGGGGCCTTAGAAATTCCACGGCAAC
66 ACCAAAGTTTAAGCTGAAAAGGCCTTAGAAATTCCACGACAAC
*
824689 AAAATAAGTTAAATACTTATTTTATTATAAATA
1 AAAATAAGTTAATTACTTATTTTATTATAAATA
824722 AAAATTGCGC
Statistics
Matches: 116, Mismatches: 25, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
108 116 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (108 bp):
AAAATAAGTTAATTACTTATTTTATTATAAATATTATCAACAAATTAAGTTGCGCCTAAAATATT
ACCAAAGTTTAAGCTGAAAAGGCCTTAGAAATTCCACGACAAC
Found at i:825616 original size:100 final size:100
Alignment explanation
Indices: 825450--825738 Score: 443
Period size: 100 Copynumber: 2.9 Consensus size: 100
825440 ATGGTTAAGT
* * *
825450 TGTAAATATTTTACCATTTACATTATTATTATATCATTAAACAAACTGCTAGCTAGTTTAACGTA
1 TGTAAATATTTTACCGTTTACATTATTATTATATCTTTAAACAAACTGATAGCTAGTTTAACGTA
* * *
825515 ATAGGTTGCGCCTATTTTATTTTAACTAGTTAAAC
66 ATAGGTTGTGCCTATTTTATTTTAACCAATTAAAC
*
825550 TGTAAATATTTTACCGTTTACATTATTATTATATCTTTAAACAAACTGATAGCTAGTTTAATGTA
1 TGTAAATATTTTACCGTTTACATTATTATTATATCTTTAAACAAACTGATAGCTAGTTTAACGTA
* **
825615 ATAGGATGTGCCTATTTTATTTTAACCAATTAAGT
66 ATAGGTTGTGCCTATTTTATTTTAACCAATTAAAC
* * * * *
825650 TGTAAATATTTTATCGTTTTCATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGTA
1 TGTAAATATTTTACCGTTTACATTATTATTATATCTTTAAACAAACTGATAGCTAGTTTAACGTA
825715 ATAGGTTGTGCCTATTTTATTTTA
66 ATAGGTTGTGCCTATTTTATTTTA
825739 CCGTTTACAT
Statistics
Matches: 172, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 172 1.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (100 bp):
TGTAAATATTTTACCGTTTACATTATTATTATATCTTTAAACAAACTGATAGCTAGTTTAACGTA
ATAGGTTGTGCCTATTTTATTTTAACCAATTAAAC
Found at i:825792 original size:75 final size:76
Alignment explanation
Indices: 825656--825889 Score: 362
Period size: 76 Copynumber: 3.1 Consensus size: 76
825646 AAGTTGTAAA
* *
825656 TATTTTATCGTTTTCATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGT
1 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGT
825721 TGTGCCTATTT
66 TGTGCCTATTT
* * * * * *
825732 TATTTTACCGTTTACATTATTATTA-AACTTTAAACAAACTAGTAGTTAGTTTAACCTAATAAGT
1 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGT
**
825796 TGCACCTATTT
66 TGTGCCTATTT
*
825807 TATTTTATCGTTTACATTATTATTATACCTTTAAAAAAACTGGTAGCTAGTTTAACGTAATAGGT
1 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGT
825872 TGTGCCTATTT
66 TGTGCCTATTT
825883 TATTTTA
1 TATTTTA
825890 ACCAATTAAG
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
75 66 0.48
76 72 0.52
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (76 bp):
TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGT
TGTGCCTATTT
Found at i:825913 original size:175 final size:174
Alignment explanation
Indices: 825732--826063 Score: 477
Period size: 175 Copynumber: 1.9 Consensus size: 174
825722 GTGCCTATTT
* *
825732 TATTTTACCGTTTACATTATTATTA-AACTTTAAACAAACTAGTAGTTAGTTTAACCTAATAAGT
1 TATTTTACCGTTTACATTATTATTATAACTTTAAACAAACCAGTAGCTAGTTTAACCT-ATAAGT
* * **
825796 TGCACCTATTTTATTTTATCGTTTACATTATTATTATACCTTTAAAAAAACTGGTAGCTAGTTTA
65 TGCACCTATTTTATTTTACCATTTACATTATTATTA-ACCTTTAAAAAAACCAGTAGCTAGTTTA
* ** *
825861 ACGTAATAGGTTGTGCCTATTTTATTTTAACCAATTAAGTTGTAAA
129 ACGTAATAAGTTGCACATATTTTATTTTAACCAATTAAGTTGTAAA
* * * * * *
825907 TATTTTATCGTTTACATTATTATTATACCTTTAAACATACCGGTAGCTAGTTTAACGTATATGTT
1 TATTTTACCGTTTACATTATTATTATAACTTTAAACAAACCAGTAGCTAGTTTAACCTATAAGTT
* *
825972 GCACCTATTTTATTTTACCATTTACATTATTATTAACCTTTAAACAAACCAGTAGTTAGTTTAAC
66 GCACCTATTTTATTTTACCATTTACATTATTATTAACCTTTAAAAAAACCAGTAGCTAGTTTAAC
826037 GTAATAAGTTGCACATATTTTATTTTA
131 GTAATAAGTTGCACATATTTTATTTTA
826064 TCGTTTACAT
Statistics
Matches: 138, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
174 49 0.36
175 63 0.46
176 26 0.19
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.44
Consensus pattern (174 bp):
TATTTTACCGTTTACATTATTATTATAACTTTAAACAAACCAGTAGCTAGTTTAACCTATAAGTT
GCACCTATTTTATTTTACCATTTACATTATTATTAACCTTTAAAAAAACCAGTAGCTAGTTTAAC
GTAATAAGTTGCACATATTTTATTTTAACCAATTAAGTTGTAAA
Found at i:825930 original size:100 final size:99
Alignment explanation
Indices: 825807--825988 Score: 301
Period size: 100 Copynumber: 1.8 Consensus size: 99
825797 GCACCTATTT
*
825807 TATTTTATCGTTTACATTATTATTATACCTTTAAAAAAACTGGTAGCTAGTTTAACGTAATAGGT
1 TATTTTATCGTTTACATTATTATTATACCTTTAAAAAAACCGGTAGCTAGTTTAACGT-ATAGGT
**
825872 TGTGCCTATTTTATTTTAACCAATTAAGTTGTAAA
65 TGCACCTATTTTATTTTAACCAATTAAGTTGTAAA
* * *
825907 TATTTTATCGTTTACATTATTATTATACCTTTAAACATACCGGTAGCTAGTTTAACGTATATGTT
1 TATTTTATCGTTTACATTATTATTATACCTTTAAAAAAACCGGTAGCTAGTTTAACGTATAGGTT
825972 GCACCTATTTTATTTTA
66 GCACCTATTTTATTTTA
825989 CCATTTACAT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 21 0.28
100 55 0.72
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.46
Consensus pattern (99 bp):
TATTTTATCGTTTACATTATTATTATACCTTTAAAAAAACCGGTAGCTAGTTTAACGTATAGGTT
GCACCTATTTTATTTTAACCAATTAAGTTGTAAA
Found at i:826048 original size:75 final size:76
Alignment explanation
Indices: 825907--826139 Score: 344
Period size: 75 Copynumber: 3.1 Consensus size: 76
825897 AAGTTGTAAA
* *
825907 TATTTTATCGTTTACATTATTATTATACCTTTAAACATACCGGTAGCTAGTTTAACGT-ATATGT
1 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAAGT
825971 TGCACCTATTT
66 TGCACCTATTT
* * * *
825982 TATTTTACCATTTACATTATTATTA-ACCTTTAAACAAACCAGTAGTTAGTTTAACGTAATAAGT
1 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAAGT
*
826046 TGCACATATTT
66 TGCACCTATTT
* * *
826057 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGC
1 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAAGT
**
826122 TGTGCCTATTT
66 TGCACCTATTT
826133 TATTTTA
1 TATTTTA
826140 ACAGGTTAAG
Statistics
Matches: 139, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
74 29 0.21
75 61 0.44
76 49 0.35
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (76 bp):
TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAAGT
TGCACCTATTT
Found at i:826099 original size:250 final size:251
Alignment explanation
Indices: 825556--826202 Score: 1093
Period size: 250 Copynumber: 2.6 Consensus size: 251
825546 AAACTGTAAA
* * * *
825556 TATTTTACCGTTTACATTATTATTATATCTTTAAACAAACTGATAGCTAGTTTAATGTAATAGGA
1 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGA
*
825621 TGTGCCTATTTTATTTTAACCAATTAAGTTGTAAATATTTTATCGTTTTCATTATTATTATACCT
66 TGTGCCTATTTTATTTTAACCAATTAAGTTGTAAATATTTTATCGTTTACATTATTATTATACCT
** *
825686 TTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGTGCCTATTTTATTTTACCGTTTACATTA
131 TTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTACCATTTACATTA
* *
825751 TTATTAAACTTTAAACAAACTAGTAGTTAGTTTAACCTAATAAGTTGCACCTATTT
196 TTATTAAACTTTAAACAAACCAGTAGTTAGTTTAACCTAATAAGTTGCACATATTT
* *
825807 TATTTTATCGTTTACATTATTATTATACCTTTAAAAAAACTGGTAGCTAGTTTAACGTAATAGGT
1 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGA
825872 TGTGCCTATTTTATTTTAACCAATTAAGTTGTAAATATTTTATCGTTTACATTATTATTATACCT
66 TGTGCCTATTTTATTTTAACCAATTAAGTTGTAAATATTTTATCGTTTACATTATTATTATACCT
* *
825937 TTAAACATACCGGTAGCTAGTTTAACGT-ATATGTTGCACCTATTTTATTTTACCATTTACATTA
131 TTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTACCATTTACATTA
* *
826001 TTATTAACCTTTAAACAAACCAGTAGTTAGTTTAACGTAATAAGTTGCACATATTT
196 TTATTAAACTTTAAACAAACCAGTAGTTAGTTTAACCTAATAAGTTGCACATATTT
*
826057 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGC
1 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGA
* *
826122 TGTGCCTATTTTATTTTAA-CAGGTTAAGTTGTAAATATTTTACCGTTTACATTA-TATTATACC
66 TGTGCCTATTTTATTTTAACCA-ATTAAGTTGTAAATATTTTATCGTTTACATTATTATTATACC
826185 TTTAAACAAACCGGTAGC
130 TTTAAACAAACCGGTAGC
826203 GTAATAGGAT
Statistics
Matches: 374, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
249 28 0.07
250 196 0.52
251 150 0.40
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (251 bp):
TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGA
TGTGCCTATTTTATTTTAACCAATTAAGTTGTAAATATTTTATCGTTTACATTATTATTATACCT
TTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTACCATTTACATTA
TTATTAAACTTTAAACAAACCAGTAGTTAGTTTAACCTAATAAGTTGCACATATTT
Found at i:826202 original size:99 final size:100
Alignment explanation
Indices: 826057--826344 Score: 391
Period size: 90 Copynumber: 3.0 Consensus size: 100
826047 GCACATATTT
* * *
826057 TATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTGGTAGCTAGTTTAACGTAATAGGC
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGA
826122 TGTGCCTATTTTATTTTAACAGGTTAAGTTGTAAA
66 TGTGCCTATTTTATTTTAACAGGTTAAGTTGTAAA
826157 TATTTTACCGTTTACATTA-TATTATACCTTTAAACAAACC-G--G-TAG-----CGTAATAGGA
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGA
* * * *
826212 TGCGTCTATTTTATTTTTACTGGTTAAGTTG-AAA
66 TGTGCCTATTTTATTTTAACAGGTTAAGTTGTAAA
* ** *
826246 TATTTTACCGTTTACATTATTATTGTACCTTTAAACAAACCGGTAGCTAGTTTAACAAAATAGGT
1 TATTTTACCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGA
*
826311 TGTGCCTATTTTATTTTAACCGGTTAAGTTGTAA
66 TGTGCCTATTTTATTTTAACAGGTTAAGTTGTAA
826345 TTGTTATTTC
Statistics
Matches: 162, Mismatches: 15, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
89 22 0.14
90 56 0.35
91 1 0.01
93 1 0.01
94 3 0.02
95 3 0.02
96 1 0.01
98 1 0.01
99 54 0.33
100 20 0.12
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (100 bp):
TATTTTACCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGA
TGTGCCTATTTTATTTTAACAGGTTAAGTTGTAAA
Found at i:827592 original size:11 final size:11
Alignment explanation
Indices: 827576--827602 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
827566 TGGGGTAACA
827576 TCGATTCATCG
1 TCGATTCATCG
827587 TCGATTCATCG
1 TCGATTCATCG
827598 TCGAT
1 TCGAT
827603 CGTTCACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (11 bp):
TCGATTCATCG
Found at i:828378 original size:18 final size:19
Alignment explanation
Indices: 828344--828393 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
828334 AATAAATTAT
** *
828344 TTAATATATAGAAAGTAAG
1 TTAATATATAGTTAGTAAA
828363 TTAAT-TATAGTTAGTAAA
1 TTAATATATAGTTAGTAAA
828381 TTAATATATAGTT
1 TTAATATATAGTT
828394 GATTAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (19 bp):
TTAATATATAGTTAGTAAA
Found at i:828422 original size:37 final size:36
Alignment explanation
Indices: 828322--828431 Score: 105
Period size: 37 Copynumber: 3.0 Consensus size: 36
828312 AAAAAGTTCT
828322 TTAAAATATATTAATAAATTATTTAATATATAGAAA
1 TTAAAATATATTAATAAATTATTTAATATATAGAAA
* ** * * * * **
828358 GTAAGTTA-ATTATAGTTAGTAAATTAATATATAGTTGA
1 TTAAAATATATTA-A-TAAATTATTTAATATATAG-AAA
828396 TTAAAATATATTAATAAATTATTTAATATATAGAAA
1 TTAAAATATATTAATAAATTATTTAATATATAGAAA
828432 GTATGTTAAT
Statistics
Matches: 52, Mismatches: 18, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
35 4 0.08
36 7 0.13
37 30 0.58
38 7 0.13
39 4 0.08
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (36 bp):
TTAAAATATATTAATAAATTATTTAATATATAGAAA
Found at i:829755 original size:41 final size:41
Alignment explanation
Indices: 829676--829777 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
829666 ATTCGAGCTG
829676 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
* * * *
829717 CATTTCGCGTTGCGATAGTCT-ACAGT-GTCGTTGTGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCG-CATTGCGATTTTC
*
829758 CATTTCGTGTTGCGATAGTT
1 CATTTCGCGTTGCGATAGTT
829778 TTAAAAATGG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 2 0.04
41 51 0.94
42 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.40
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
Found at i:830768 original size:20 final size:20
Alignment explanation
Indices: 830702--830772 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
830692 TTTTAAAACT
*
830702 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCAAAATGGAAA
* *** * **
830722 ATCACAACGACACCGTAGACT
1 ATCGCAACG-CAAAATGGAAA
830743 ATCGCAACGCAAAATGGAAA
1 ATCGCAACGCAAAATGGAAA
830763 ATCGCAACGC
1 ATCGCAACGC
830773 GATTTTCAAC
Statistics
Matches: 35, Mismatches: 15, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
20 23 0.66
21 12 0.34
ACGTcount: A:0.42, C:0.27, G:0.20, T:0.11
Consensus pattern (20 bp):
ATCGCAACGCAAAATGGAAA
Found at i:830785 original size:41 final size:40
Alignment explanation
Indices: 830698--830799 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 40
830688 CCATTTTTAA
830698 AACTATCGCAACGCGAAATGGAAAATCACAACGACACCGT
1 AACTATCGCAACGCGAAATGGAAAATCACAACGACACCGT
* * ***
830738 AGACTATCGCAACGCAAAATGGAAAATCGCAACG-CGATTTT
1 A-ACTATCGCAACGCGAAATGGAAAATCACAACGAC-ACCGT
830779 CAACTATCGCAACGCGAAATG
1 -AACTATCGCAACGCGAAATG
830800 CAACGCGAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 2 0.04
41 50 0.94
42 1 0.02
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (40 bp):
AACTATCGCAACGCGAAATGGAAAATCACAACGACACCGT
Found at i:830803 original size:21 final size:21
Alignment explanation
Indices: 830740--830803 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
830730 GACACCGTAG
* *
830740 ACTATCGCAACGCAAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
830761 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
830781 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
830802 AC
1 AC
830804 GCGAATTTGC
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:834032 original size:3 final size:3
Alignment explanation
Indices: 834024--834052 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
834014 TATATAATTA
834024 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
834053 AATTAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:836107 original size:193 final size:191
Alignment explanation
Indices: 835650--836126 Score: 476
Period size: 193 Copynumber: 2.5 Consensus size: 191
835640 ATTATATATG
* * * * * * * *
835650 GTGACGTTATGCATAATCATCATTCATAATATTATCAGGTAACCA-TATATTATGTCACTAAAAA
1 GTGACGTTATACATAAACGTCATCCATAATACTATTAAGTAA-CATTATA-TAAGTCACTAAAAA
* *
835714 TGTGACAATATCTCTTTCGTCACATATAGTTGATTTTAATGCATTATTTGTGACAATATAAATTA
64 TGTGACAATATCTCTTTCGTCACATATAGTTGATTTTAATGCATTATATGTGACAATATAAATCA
* ** * **
835779 TCAATTACGAAATCTTATTTAATTTATTAATGTAACCAACTGTCATAGAATATAAATTATAAA
129 TCAATAACGAAATCTTACATAATTTAGTAACATAACCAACTGTCATAGAATATAAATTATAAA
* * * *
835842 GTGACGTTATGCATAAACGTCATTCATAATATTATTAAGTAACATTTATATATGTCACTAAAAAT
1 GTGACGTTATACATAAACGTCATCCATAATACTATTAAGTAACA-TTATATAAGTCACTAAAAAT
* * *
835907 TTGACAATATCTCTTTCGTCACATATTGGTTGATTTTAATGCATTATATGTGACGATATAAATCA
65 GTGACAATATCTCTTTCGTCACATA-TAGTTGATTTTAATGCATTATATGTGACAATATAAATCA
* * ** ** * * *
835972 TCAATAACGAAATTTTACATAATTTAGTGACATAATTAGTTGTCATTGAATATTAATTATATA
129 TCAATAACGAAATCTTACATAATTTAGTAACATAACCAACTGTCATAGAATATAAATTATAAA
* * * * * * * *
836035 TTGACGTTATATATAAATGTCATCCATGCA-ACTATTAGGTGACGA-TATACTAAGTTACTAACA
1 GTGACGTTATACATAAACGTCATCCAT-AATACTATTAAGTAAC-ATTATA-TAAGTCACTAAAA
* *
836098 ATGTGACAAT-TTTCTTTTCGTCACGTATA
63 ATGTGACAATATCTC-TTTCGTCACATATA
836127 CAATGAAATT
Statistics
Matches: 238, Mismatches: 40, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
191 2 0.01
192 85 0.36
193 149 0.63
194 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (191 bp):
GTGACGTTATACATAAACGTCATCCATAATACTATTAAGTAACATTATATAAGTCACTAAAAATG
TGACAATATCTCTTTCGTCACATATAGTTGATTTTAATGCATTATATGTGACAATATAAATCATC
AATAACGAAATCTTACATAATTTAGTAACATAACCAACTGTCATAGAATATAAATTATAAA
Found at i:850746 original size:24 final size:24
Alignment explanation
Indices: 850686--850751 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
850676 ATATCAAAAT
* * *
850686 ATAATTCATGTCAGATATTAGAAC
1 ATAATCCAAGTCAGGTATTAGAAC
* *
850710 AGAATGCAAGTCAGGTATTAGAAC
1 ATAATCCAAGTCAGGTATTAGAAC
* *
850734 ATAATCCAGGTCATGTAT
1 ATAATCCAAGTCAGGTAT
850752 CATAACCGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (24 bp):
ATAATCCAAGTCAGGTATTAGAAC
Found at i:854632 original size:14 final size:13
Alignment explanation
Indices: 854606--854630 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
854596 AAAGATACAG
854606 ATATTTTTAAAAC
1 ATATTTTTAAAAC
854619 ATATTTTTAAAA
1 ATATTTTTAAAA
854631 ACCATAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATTTTTAAAAC
Found at i:854849 original size:24 final size:24
Alignment explanation
Indices: 854822--854902 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 24
854812 TATAATTCAT
* *
854822 GTCAGATATCAGAACAGAATGCAA
1 GTCAGATATCAGAACAAAATCCAA
* * *
854846 GTCAGGTATCAGAACATAATCCAG
1 GTCAGATATCAGAACAAAATCCAA
* *
854870 GTCA-AGTATCAAAACAAAATTCAA
1 GTCAGA-TATCAGAACAAAATCCAA
*
854894 ATCAGATAT
1 GTCAGATAT
854903 TAGATAAAAC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
24 44 0.98
25 1 0.02
ACGTcount: A:0.46, C:0.17, G:0.16, T:0.21
Consensus pattern (24 bp):
GTCAGATATCAGAACAAAATCCAA
Found at i:858402 original size:21 final size:21
Alignment explanation
Indices: 858376--858422 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
858366 TTGCTCGAAG
* * *
858376 TCATCTCCTGAAATGGATAAA
1 TCATCTCCTAAAATAGAGAAA
858397 TCATCTCCTAAAATAGAGAAA
1 TCATCTCCTAAAATAGAGAAA
858418 TCATC
1 TCATC
858423 CATGAATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (21 bp):
TCATCTCCTAAAATAGAGAAA
Found at i:863852 original size:61 final size:62
Alignment explanation
Indices: 863771--863891 Score: 165
Period size: 61 Copynumber: 2.0 Consensus size: 62
863761 GGTGTCCTCC
*
863771 TGTAACACCCCCAACCCGTACCCGACCCAGATACAAAT-TCGAGGTGTCACATGGACTTTTCA
1 TGTAACACCCCCAACCCGTACCCGACCCAGATACAAATCT-GAGATGTCACATGGACTTTTCA
* * * * *
863833 TGTAACA-CCCCAACTCGTACTCGACCCGGATACGAATCTGAGATGTCACATTGACTTTT
1 TGTAACACCCCCAACCCGTACCCGACCCAGATACAAATCTGAGATGTCACATGGACTTTT
863892 AAAAACAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 44 0.85
62 8 0.15
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (62 bp):
TGTAACACCCCCAACCCGTACCCGACCCAGATACAAATCTGAGATGTCACATGGACTTTTCA
Found at i:864060 original size:15 final size:15
Alignment explanation
Indices: 864040--864068 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
864030 TGAACAGTAT
864040 CGTATGAATAGTAGC
1 CGTATGAATAGTAGC
864055 CGTATGAATAGTAG
1 CGTATGAATAGTAG
864069 TGAACAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (15 bp):
CGTATGAATAGTAGC
Found at i:865675 original size:24 final size:24
Alignment explanation
Indices: 865648--865697 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
865638 TGGTGGTTGA
*
865648 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
865672 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
865696 TT
1 TT
865698 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:870255 original size:13 final size:13
Alignment explanation
Indices: 870237--870261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
870227 GGACATGCTG
870237 GATTCTATAGAAT
1 GATTCTATAGAAT
870250 GATTCTATAGAA
1 GATTCTATAGAA
870262 GGTTTATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATTCTATAGAAT
Found at i:872569 original size:26 final size:25
Alignment explanation
Indices: 872538--872608 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 25
872528 CCTCTTAAAT
872538 TTTTAACTTTTTCTTTTCTCTTTC-
1 TTTTAACTTTTTCTTTTCTCTTTCA
*
872562 -TTT-A-TTAATT-TTTTCTCTTTCA
1 TTTTAACTT-TTTCTTTTCTCTTTCA
*
872584 TTTTAACTTTTACTTTTTCTCTTTC
1 TTTTAACTTTTTC-TTTTCTCTTTC
872609 CTTCATTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
21 13 0.35
22 3 0.08
23 6 0.16
24 2 0.05
25 2 0.05
26 11 0.30
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTAACTTTTTCTTTTCTCTTTCA
Found at i:872628 original size:47 final size:46
Alignment explanation
Indices: 872538--872628 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 46
872528 CCTCTTAAAT
* * * *
872538 TTTTAACTTTTTCTTTTCTCTTTCTTTATTAATTTTTTCTCTTTCA
1 TTTTAACTTTTACTTTTCTCTTTCTTCATTAATCTTCTCTCTTTCA
*
872584 TTTTAACTTTTACTTTTTCTCTTTCCTTCATTCATCTTCT-TCTTT
1 TTTTAACTTTTAC-TTTTCTCTTT-CTTCATTAATCTTCTCTCTTT
872629 TGTTATTCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
46 12 0.32
47 15 0.39
48 11 0.29
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (46 bp):
TTTTAACTTTTACTTTTCTCTTTCTTCATTAATCTTCTCTCTTTCA
Found at i:875886 original size:24 final size:24
Alignment explanation
Indices: 875859--875908 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
875849 TGGTGGTTAA
*
875859 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
875883 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
875907 TT
1 TT
875909 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:876942 original size:32 final size:32
Alignment explanation
Indices: 876791--876947 Score: 135
Period size: 32 Copynumber: 5.0 Consensus size: 32
876781 AACCTCGGCA
* * * *
876791 ACTGTCCATAGGTCCCGAAGAACCTAGGTAA-
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
* **
876822 ACTGTTCATATGTTCATTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
***
876853 ACTGTCCATATGTCTCAAAAG-ACATAGGTAAT
1 ACTGTCCATATGT-TCCGTAGAACATAGGTAAT
* *
876885 TCTGTCCATATG-TCC-TGAAAGACATAGGTAAT
1 ACTGTCCATATGTTCCGT-AGA-ACATAGGTAAT
*
876917 TCTGTCCATATGTTCCGTAGAACATAGGTAA
1 ACTGTCCATATGTTCCGTAGAACATAGGTAA
876948 ACCCTCGAAT
Statistics
Matches: 103, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
30 4 0.04
31 42 0.41
32 51 0.50
33 5 0.05
34 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (32 bp):
ACTGTCCATATGTTCCGTAGAACATAGGTAAT
Found at i:879233 original size:21 final size:21
Alignment explanation
Indices: 879178--879240 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
879168 CATATAAATT
* * *
879178 TGTCCCAAAGGACATCATATA
1 TGTCCCGAAGGACCTCGTATA
879199 TGTCCCGAAGGACCTCGTATA
1 TGTCCCGAAGGACCTCGTATA
879220 TGTCCCGAAGGACCTCGTATA
1 TGTCCCGAAGGACCTCGTATA
879241 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (21 bp):
TGTCCCGAAGGACCTCGTATA
Found at i:879811 original size:15 final size:15
Alignment explanation
Indices: 879791--879840 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
879781 ATTCTAAACC
879791 TTATAAATAAATCAT
1 TTATAAATAAATCAT
* *
879806 TTATAATCTAAA-C-C
1 TTATAA-ATAAATCAT
879820 TTATAAATAAATCAT
1 TTATAAATAAATCAT
*
879835 CTATAA
1 TTATAA
879841 TCTAAAATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
13 4 0.15
14 7 0.26
15 12 0.44
16 4 0.15
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (15 bp):
TTATAAATAAATCAT
Found at i:879816 original size:29 final size:29
Alignment explanation
Indices: 879783--879846 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
879773 ATATTAGAAT
*
879783 TCTAAACCTTATAAATAAATCATTTATAA
1 TCTAAACCTTATAAATAAATCATCTATAA
879812 TCTAAACCTTATAAATAAATCATCTATAA
1 TCTAAACCTTATAAATAAATCATCTATAA
879841 TCTAAA
1 TCTAAA
879847 ATACAAGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (29 bp):
TCTAAACCTTATAAATAAATCATCTATAA
Found at i:886289 original size:21 final size:21
Alignment explanation
Indices: 886237--886299 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
886227 ATATAAAATT
**
886237 TGTCCCAAAGGATATCATATA
1 TGTCCCAAAGGACCTCATATA
*
886258 T-TCCCCGAAGGACCTCATATA
1 TGT-CCCAAAGGACCTCATATA
*
886279 TGTCCCAAAGGACCTCGTATA
1 TGTCCCAAAGGACCTCATATA
886300 ACCCTCGACT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (21 bp):
TGTCCCAAAGGACCTCATATA
Found at i:886944 original size:19 final size:19
Alignment explanation
Indices: 886920--886967 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
886910 AGTATCGATG
886920 TTGGTATCGACACCGAACC
1 TTGGTATCGACACCGAACC
* **
886939 TTGGTATCAACATTGAACC
1 TTGGTATCGACACCGAACC
886958 TTGGTATCGA
1 TTGGTATCGA
886968 TACCCTTTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (19 bp):
TTGGTATCGACACCGAACC
Found at i:902010 original size:8 final size:8
Alignment explanation
Indices: 901970--902016 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
901960 TCAAAGTTTT
901970 GGTCAACAG
1 GGTCAAC-G
901979 TGGTCAACG
1 -GGTCAACG
901988 CCGGTCAAC-
1 --GGTCAACG
901997 GGTCAACG
1 GGTCAACG
902005 GGTCAACG
1 GGTCAACG
902013 GGTC
1 GGTC
902017 GGGTCGGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 12 0.35
9 1 0.03
10 14 0.41
ACGTcount: A:0.23, C:0.28, G:0.34, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:902010 original size:15 final size:16
Alignment explanation
Indices: 901980--902013 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
901970 GGTCAACAGT
901980 GGTCAACGCCGGTCAAC
1 GGTCAACG-CGGTCAAC
901997 GGTCAACG-GGTCAAC
1 GGTCAACGCGGTCAAC
902012 GG
1 GG
902014 GTCGGGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (16 bp):
GGTCAACGCGGTCAAC
Found at i:919407 original size:23 final size:23
Alignment explanation
Indices: 919380--919467 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
919370 TCAGGACAAG
**
919380 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAAAT
* * *
919403 TATGTGGCATTTTGGTGCAAATT
1 TATGTGGCACTTCGGTGCAAAAT
*
919426 TATGTGGTCA-TTTGG-G-AAAAT
1 TATGTGG-CACTTCGGTGCAAAAT
*
919447 TATGTGGCACTTCTGTGCAAA
1 TATGTGGCACTTCGGTGCAAA
919468 TTACGAGCTG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
20 2 0.04
21 14 0.26
22 2 0.04
23 34 0.63
24 2 0.04
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAAAT
Found at i:923128 original size:17 final size:17
Alignment explanation
Indices: 923093--923130 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
923083 TTTCCTGTAA
*
923093 TTTAATTTGTTTTTAAT
1 TTTAATTTGTTTCTAAT
923110 TTTAATTTTGTTTCT-AT
1 TTTAA-TTTGTTTCTAAT
923127 TTTA
1 TTTA
923131 GTCACTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTAATTTGTTTCTAAT
Found at i:924061 original size:16 final size:17
Alignment explanation
Indices: 924036--924069 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
924026 TTTAAAAAAC
*
924036 TAAAATTTATTTAAATA
1 TAAAATTTATTCAAATA
924053 TAAAA-TTATTCAAATA
1 TAAAATTTATTCAAATA
924069 T
1 T
924070 TTCAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATTCAAATA
Found at i:924525 original size:24 final size:25
Alignment explanation
Indices: 924462--924529 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
924452 TAAAACATAG
* *
924462 TAAATTTCGACTAATCTAAAATTTA
1 TAAATCTCGAGTAATCTAAAATTTA
* * * *
924487 TAACTCTCGATTAATTTAAATTTTA
1 TAAATCTCGAGTAATCTAAAATTTA
924512 TAAATCTC-AGTAATCTAA
1 TAAATCTCGAGTAATCTAA
924530 TAAGAATATT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 8 0.23
25 27 0.77
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.41
Consensus pattern (25 bp):
TAAATCTCGAGTAATCTAAAATTTA
Found at i:924646 original size:2 final size:2
Alignment explanation
Indices: 924641--924704 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
924631 TTTTAATGTC
924641 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
924683 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
924705 ATAATTTCTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:925000 original size:21 final size:21
Alignment explanation
Indices: 924974--925030 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 21
924964 ATATTAAATT
924974 TTTTTAATAATTTAATATTTA-
1 TTTTTAAT-ATTTAATATTTAC
* *
924995 TTTTTAGTATTTTATATTTAC
1 TTTTTAATATTTAATATTTAC
925016 TTTTTTGAATATTTA
1 -TTTTT-AATATTTA
925031 TATGATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.38
21 7 0.24
22 5 0.17
23 6 0.21
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (21 bp):
TTTTTAATATTTAATATTTAC
Found at i:927722 original size:16 final size:16
Alignment explanation
Indices: 927701--927731 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
927691 AAATTCATAT
927701 TTGAAAGTACAAAAAA
1 TTGAAAGTACAAAAAA
*
927717 TTGAAATTACAAAAA
1 TTGAAAGTACAAAAA
927732 TTACAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.23
Consensus pattern (16 bp):
TTGAAAGTACAAAAAA
Found at i:927740 original size:17 final size:17
Alignment explanation
Indices: 927720--927756 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
927710 CAAAAAATTG
927720 AAATTACAAAAATTACA
1 AAATTACAAAAATTACA
927737 AAATTACAAAAATTACA
1 AAATTACAAAAATTACA
927754 AAA
1 AAA
927757 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATTACAAAAATTACA
Found at i:927741 original size:8 final size:9
Alignment explanation
Indices: 927720--927757 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
927710 CAAAAAATTG
927720 AAATTACAA
1 AAATTACAA
927729 AAATTAC-A
1 AAATTACAA
927737 AAATTACAA
1 AAATTACAA
927746 AAATTACAA
1 AAATTACAA
927755 AAA
1 AAA
927758 AAATAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATTACAA
Found at i:939989 original size:18 final size:20
Alignment explanation
Indices: 939940--939991 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
939930 TGATTTTGAA
* *
939940 AAATTGAAAGTTTAGGTATT
1 AAATTGATAGTTTAGGTACT
939960 AAATTGATAGTTTAGGTACT
1 AAATTGATAGTTTAGGTACT
939980 AAA-T-ATAGTTTA
1 AAATTGATAGTTTA
939992 TCCAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 8 0.27
19 1 0.03
20 21 0.70
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (20 bp):
AAATTGATAGTTTAGGTACT
Found at i:940956 original size:176 final size:178
Alignment explanation
Indices: 940607--940983 Score: 541
Period size: 176 Copynumber: 2.1 Consensus size: 178
940597 TTTCCTAATT
* * *
940607 TATATAA-ATTAAATATTTTTTAATTCAAAAAAGTTTATAATTAATTTAAATAATAAATAATTAT
1 TATATAATATTTAATATTTTTTAATTAAAAAAAGTTTACAATTAATTTAAATAATAAATAATTAT
*
940671 AAAATAAAAATTTTAGATAAAAGTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGA
66 AAAATAAAAATTTTA-AT-AAAGTTTTAATTAATT-ATATTGATTTAAGTTTAAAAGTTATTAGA
**
940736 TCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTA
128 TCTTAAATTATTAATTGGGTTTTAAATCATTTGGGCTTAGCCCATATGTTA
*
940787 TATATAATATTTAATATTTTTTAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAATTA
1 TATATAATATTTAATATTTTTTAATTAAAAAA-AGTTTACAATTAATTTAAATAATAAATAATTA
**
940852 TAAAATAAAAAATTTT-AT-ATTTTTTAATTAATT-TATTGATTTAAGTTT-AAAGTTATTAGAT
65 TAAAAT-AAAAATTTTAATAAAGTTTTAATTAATTATATTGATTTAAGTTTAAAAGTTATTAGAT
* *
940913 TTTAAATTATTAATTGGGTTTTTAATCATTTGGG-TTGAGCCCATATGTTA
129 CTTAAATTATTAATTGGGTTTTAAATCATTTGGGCTT-AGCCCATATGTTA
940963 TATATAATATATTTAATATTT
1 TATAT-A-ATATTTAATATTT
940984 AAAATTTAAT
Statistics
Matches: 180, Mismatches: 11, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
175 2 0.01
176 60 0.33
177 16 0.09
178 13 0.07
179 13 0.07
180 7 0.04
181 24 0.13
182 36 0.20
183 9 0.05
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (178 bp):
TATATAATATTTAATATTTTTTAATTAAAAAAAGTTTACAATTAATTTAAATAATAAATAATTAT
AAAATAAAAATTTTAATAAAGTTTTAATTAATTATATTGATTTAAGTTTAAAAGTTATTAGATCT
TAAATTATTAATTGGGTTTTAAATCATTTGGGCTTAGCCCATATGTTA
Found at i:943828 original size:31 final size:31
Alignment explanation
Indices: 943788--943854 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
943778 CCTGACCATG
*
943788 TCTTAATTAAATAAAAACGACAATAACCAAA
1 TCTTAATTAAATAAAAACGAAAATAACCAAA
* * * *
943819 TCTTGATTAAATAAAAATGAAAATGACTAAA
1 TCTTAATTAAATAAAAACGAAAATAACCAAA
943850 TCTTA
1 TCTTA
943855 TATTTACTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (31 bp):
TCTTAATTAAATAAAAACGAAAATAACCAAA
Found at i:944259 original size:20 final size:20
Alignment explanation
Indices: 944152--944320 Score: 92
Period size: 20 Copynumber: 8.4 Consensus size: 20
944142 GAACTCTAAT
* *
944152 TTCGCAACTCAGTTTCCAAA
1 TTCGCAACTCAATTTTCAAA
** * * *
944172 TTCATAACGCGATTTCCAAA
1 TTCGCAACTCAATTTTCAAA
* * *
944192 TTCGCAACGCGATTTCCAAA
1 TTCGCAACTCAATTTTCAAA
*
944212 TTCGCAACACTGAA-TTTCAAA
1 TTCGC-A-ACTCAATTTTCAAA
* *
944233 TTTGCAACTCAATTTTTAAA
1 TTCGCAACTCAATTTTCAAA
* ***
944253 TTCGCAACGCGAATTTT-GTT
1 TTCGCAACTC-AATTTTCAAA
* *
944273 TTCGCAACTCGATTTTCGAA
1 TTCGCAACTCAATTTTCAAA
* *
944293 TTCGCAACACGAATTTT-AAT
1 TTCGCAACTC-AATTTTCAAA
944313 TTCGCAAC
1 TTCGCAAC
944321 ATGTTTTAGT
Statistics
Matches: 116, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
19 10 0.09
20 81 0.70
21 22 0.19
22 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (20 bp):
TTCGCAACTCAATTTTCAAA
Done.