Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009614.1 Hibiscus syriacus cultivar Beakdansim tig00117000_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: 2129691
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 10
Found at i:517023 original size:19 final size:19
Alignment explanation
Indices: 516997--517045 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
516987 AAATGCATGG
516997 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
517015 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
517034 ATAATTTTGTAT
1 TTAATTTTGTAT
517046 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:518466 original size:198 final size:194
Alignment explanation
Indices: 517988--518698 Score: 660
Period size: 198 Copynumber: 3.6 Consensus size: 194
517978 ATACATATGT
* * * * *
517988 AAGAAT-ATGTGTCGATACATTTTCAAAA-AGTATCGACCCCAAAAACATCGAAAC-AAATATTT
1 AAGAATAAAGTGTCGATACA-TTT-AAAATTGTATCGATCCAAAAAACATCAAAACGAAA-A-TT
* ** * * * * * * * *
518050 ATAATATAATATTTAAATTAACAATGTAACCAGTATACATATACC-GATTAATTATAAAACATGT
62 ATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGT
* * * * *
518114 CAACATAAAGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCA-AAAGAAAGAACAAAC
127 CAA-ATAAAGTATCGACACTTTATAA-TTTGTGTCGATACTTTTTTCCATAATGAATG-CCCAAC
* *
518178 AAGTTC
189 GAGTGC
* * ** * *
518184 ACGCATAAAGTGTCGATACATTTAAAATTGTATCGATGAAAAAAAACATCGAAACCGATAATTAT
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGAT-CCAAAAAACATC-AAAACGAAAATTAT
* * * *
518249 AATGTAATAGGTCAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCA
64 AATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTCA
* *
518314 GAATAAAGTATCGACACTTGTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGA
129 -AATAAAGTATCGACACTT-TATAATTTGTGTCGATAC-TTTTTTCCATAATGAATGCCCAACGA
518379 GATGC
191 G-TGC
* * *
518384 AAGAATAACGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACGAAAATTACAA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAAACATCAAAACGAAAATTATAA
* * * * * *
518449 TGTTATAGGTAAATTTACAATGTACCCAGTATAAATATATCGATTTTATGAGAAAATATGTTTAA
66 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATA-GGTCAA
* * * *
518514 ATAATGTATCGACACCTTTATAGTTTGTGTCAATATTTTTTTCCAGAATGAATTAGGAATGCCCA
130 ATAAAGTATCGACA-CTTTATAATTTGTGTCGATACTTTTTTCC---AT-AA-T--GAATGCCCA
518579 ACGAGGTGC
187 ACGA-GTGC
* * * *
518588 AAGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAAACAACGAAACCAATAATTATA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAAACATCAAAACGAA-AATTATA
* * *
518653 ATGCAATAGGTAAATTTGCAATGCT-ACCGGTATAAATATACCGGTT
65 ATGTAATAGGTAAATTTACAATG-TAACCAGTATAAATATACCGGTT
518699 AAATGCCTAT
Statistics
Matches: 419, Mismatches: 73, Indels: 37
0.79 0.14 0.07
Matches are distributed among these distances:
195 4 0.01
196 14 0.03
197 66 0.16
198 140 0.33
199 36 0.09
200 44 0.11
201 2 0.00
202 1 0.00
204 67 0.16
205 44 0.11
206 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (194 bp):
AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAAACATCAAAACGAAAATTATAA
TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTCAAA
TAAAGTATCGACACTTTATAATTTGTGTCGATACTTTTTTCCATAATGAATGCCCAACGAGTGC
Found at i:533509 original size:29 final size:30
Alignment explanation
Indices: 533448--533511 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
533438 TATGATTTCA
* * *
533448 ATTTTTCTTAATATTTATTATTATGGGCTT
1 ATTTTTCTCAATATTAATTATTATGGGCCT
533478 ATTTTT-TCAATATTAATTATTA-GAGGCCT
1 ATTTTTCTCAATATTAATTATTATG-GGCCT
533507 ATTTT
1 ATTTT
533512 ATAATTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 23 0.77
30 6 0.20
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.56
Consensus pattern (30 bp):
ATTTTTCTCAATATTAATTATTATGGGCCT
Found at i:533779 original size:15 final size:15
Alignment explanation
Indices: 533759--533793 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
533749 TATTATGAAC
533759 ATATTTTTAAAATTT
1 ATATTTTTAAAATTT
*
533774 ATATTTTTAATATTT
1 ATATTTTTAAAATTT
*
533789 TTATT
1 ATATT
533794 AGGGACTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTTTTAAAATTT
Found at i:534390 original size:5 final size:5
Alignment explanation
Indices: 534380--534407 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
534370 TACTTAAGAG
534380 TCTAA TCTAA TCTAA TCTAA TCTAA TCT
1 TCTAA TCTAA TCTAA TCTAA TCTAA TCT
534408 CTAACGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (5 bp):
TCTAA
Found at i:539373 original size:15 final size:14
Alignment explanation
Indices: 539348--539377 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
539338 CACCAAACAC
539348 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
539362 TAAAAAACATAAAAA
1 TAAAAAA-ATAAAAA
539377 T
1 T
539378 GAAAGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:540854 original size:24 final size:24
Alignment explanation
Indices: 540827--540879 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
540817 TTTTTAATAA
540827 TTTAATTTAAAAAATATTTTGTAT
1 TTTAATTTAAAAAATATTTTGTAT
* *
540851 TTTAATTTAAAATATATTTTTTAT
1 TTTAATTTAAAAAATATTTTGTAT
*
540875 GTTAA
1 TTTAA
540880 AATATTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTAATTTAAAAAATATTTTGTAT
Found at i:540932 original size:27 final size:27
Alignment explanation
Indices: 540902--541026 Score: 80
Period size: 27 Copynumber: 4.4 Consensus size: 27
540892 TTAAGATAAG
*
540902 AATAAAATATATTTAATAATTTAAAGT
1 AATAAAATATATTTAATAAATTAAAGT
*
540929 AATAATCTAATATATTTAGTAAATT-AAGAT
1 AATAA---AATATATTTAATAAATTAAAG-T
* *
540959 AA-AACATATAATTTAA-AAAGTTAAAAT
1 AATAAAATAT-ATTTAATAAA-TTAAAGT
*
540986 AATATTAAA-ATATTTAA-AAATTAAATT
1 AATA--AAATATATTTAATAAATTAAAGT
541013 AGAATAAAATATAT
1 --AATAAAATATAT
541027 ATTATTTTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
26 7 0.09
27 24 0.31
28 16 0.21
29 11 0.14
30 20 0.26
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (27 bp):
AATAAAATATATTTAATAAATTAAAGT
Found at i:541025 original size:57 final size:59
Alignment explanation
Indices: 540876--541025 Score: 143
Period size: 57 Copynumber: 2.6 Consensus size: 59
540866 ATTTTTTATG
** * * * * *
540876 TTAAAATATTTTGAAGTTAAGATAAGAATAAAATAT-ATTTAATAATTTAAAGTAATAA
1 TTAAAATATTTAAAAATTAAGATTAGAATAAAATATAATTTAAAAAGTTAAAATAATAA
* * *
540934 TCTAATATATTTAGTAAATTAAGA-T--AA-AACATATAATTTAAAAAGTTAAAATAAT-A
1 T-TAAAATATTTA-AAAATTAAGATTAGAATAAAATATAATTTAAAAAGTTAAAATAATAA
540990 TTAAAATATTTAAAAATTAA-ATTAGAATAAAATATA
1 TTAAAATATTTAAAAATTAAGATTAGAATAAAATATA
541026 TATTATTTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
53 1 0.01
54 8 0.11
55 10 0.14
56 10 0.14
57 26 0.36
58 1 0.01
59 9 0.12
60 8 0.11
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (59 bp):
TTAAAATATTTAAAAATTAAGATTAGAATAAAATATAATTTAAAAAGTTAAAATAATAA
Found at i:541944 original size:15 final size:15
Alignment explanation
Indices: 541924--541955 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
541914 ACTTGGATTT
541924 TTAGAAAGGGAAGTG
1 TTAGAAAGGGAAGTG
*
541939 TTAGAAAGGGGAGTG
1 TTAGAAAGGGAAGTG
541954 TT
1 TT
541956 TTTCCACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.41, T:0.25
Consensus pattern (15 bp):
TTAGAAAGGGAAGTG
Found at i:543512 original size:23 final size:22
Alignment explanation
Indices: 543470--543516 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
543460 GTTCTTTTAA
*
543470 TTCTAAATTATCAATTTTTTTG
1 TTCTAAATTATCAATCTTTTTG
543492 TTCTAAATTAGT-AATCCTTTTTG
1 TTCTAAATTA-TCAAT-CTTTTTG
543515 TT
1 TT
543517 TTCTATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (22 bp):
TTCTAAATTATCAATCTTTTTG
Found at i:562591 original size:663 final size:651
Alignment explanation
Indices: 560487--562715 Score: 2499
Period size: 663 Copynumber: 3.4 Consensus size: 651
560477 GGAGAAATGG
* * * * * *
560487 TAAGTTGTAACATGTTTCATGATTGTGGTTTGTAATATAAAAGTTGAGA-TTCTAAACCAGACCT
1 TAAGATGTAATATGTTTCATGATTGCGGTTTCTAATATAAAAGTAGA-ATTTCTAAACCAAACCT
* * * *
560551 GTTTCATGTGAATTAAGATCAAGATGCTCAGTAACCACATTATTTGACTCAGTTGAATCGTCGTG
65 GTTTCATGTGAATTAGGATCAAGATGCTCAGCAACCACATTATTTGACTCACTTGAATCCTCGTG
* * * *
560616 AATATTTTCAGTCCCATGAAAGCTTTCAGGTATCTAATTTGGAAACCAAGCCATATTTCTCTCAA
130 AATGTTTTCAGTCCCAAGAAAGCTTTCAGGTATCTAATTTGGAAACCAAACCATATTTCTGTCAA
* *
560681 AACCATCCCAAAAATGCATCGCA-ATATATAAATCTTACAACCCTGATCCAATAAATGGGTGATA
195 AACCATCCCAAAAATGCATCGCATATATAT-AATCTTACAACCCTGATACAAGAAAT-GGTGATA
* * * *** * *
560745 TTCGTACCTGATGACCCTGATTGTTATCACTTGGATCAACATGCTTATGTGATACCAGCAGATCC
258 CTCGTACCTGA-CACCCTGACTGTTATCACTCAAATCAACATGCTTATGTGATACAAGCAAATCC
* * * * * * * * *
560810 AGTGAGTCCTAGAGAGGGCAAGAAATGTTGTCAA-ATG-AAAAAAGGCTAAAGGTTAATTTTGAT
322 AATAAGTCCTAGAGAAGGCAAAAAATGTTGTCAAGAGGAAAAAAAAGCTAATGGTCAATTTTGAC
* *
560873 ATTAATACAG-AATATAGAACAAACACTAACCTCATTGTTTTCACCAAGCTGTTGACATGGCTGC
387 ATTAATACAGAAATATAGAACAGACACTAACCTCATTGTTTTCACCAAGCTGTTGACATGACTGC
* * * * * **
560937 ACAGATGTACAACTTTCATCGCCTGAAAGTCTAACTGCAAAATGTGAAAGG-TTAATATTTGTCA
452 ACAGATGCACTACTTCCATTGCCTGAAAGTCTAACTACAAAACATGAAAGGCTTAA-ATTTGTCA
* * * * ** * * *
561001 TATAGGTGAAACAATAGATTGAA--AGAA-ATAACCACCTCCCATCTTAACACA-CACA-CC-AA
516 TATAAGTGAAACAATATACTGAAGGAGAAGGTAATAACCCCCCA-C-TACCCCACCACACCCAAA
* * ** * * * * **
561060 ACAAATCGGCAGAACATATATGATAGGTC-GTTATCTAGTTTGCAAACATAGGAGAAATGGAAAC
579 AAAAAACAACAAAACATATATGATAGG-CAGTTATCTAGTTTACAAACACAGGAAAAACAGAAAC
* *
561124 AAGGGGCCTA
643 AA-GGACCAA
* * * *
561134 TATGATGTAACATGTTTTATGATTGC-G------AT-T---AGT--AA--TATAAA-C--A--TG
1 TAAGATGTAATATGTTTCATGATTGCGGTTTCTAATATAAAAGTAGAATTTCTAAACCAAACCTG
*
561179 TTTCATGTGAATTAGGATCAAGATGCTCAGCAACCACATTATTTGACTCACTTGAAACCTCGTGA
66 TTTCATGTGAATTAGGATCAAGATGCTCAGCAACCACATTATTTGACTCACTTGAATCCTCGTGA
* *
561244 ATGTTTTCAGTCCCAAGAAAGCTTTCAGGTATCTAATTTTGAAACCAAACC-----TCTGTCAGA
131 ATGTTTTCAGTCCCAAGAAAGCTTTCAGGTATCTAATTTGGAAACCAAACCATATTTCTGTCAAA
* * * * *
561304 ACCATCCCAAAAACGCATCACATGTATATAAATCTTACAACCCTGATCCAAGAAATGGGTCATAC
196 ACCATCCCAAAAATGCATCGCATATATAT-AATCTTACAACCCTGATACAAGAAAT-GGTGATAC
* **
561369 TCGTACCTGACGACCCTGATTGTTATCACTTGAATCAACATGCTTATGTGATACAAGCAAATCCA
259 TCGTACCTGAC-ACCCTGACTGTTATCACTCAAATCAACATGCTTATGTGATACAAGCAAATCCA
* * * * *** *
561434 ATAAGTCCTATAGAGGGCAAGAAATGTTGTCAAGGGGGGGAAAAGGCTAATGGTCAATTTTGACA
323 ATAAGTCCTAGAGAAGGCAAAAAATGTTGTCAAGAGGAAAAAAAAGCTAATGGTCAATTTTGACA
* * * * *
561499 TTAATACAGAAATATAGAACATACACTGACCTCATTGTTTTCACCAAGCTGTTGATATGGCTTCA
388 TTAATACAGAAATATAGAACAGACACTAACCTCATTGTTTTCACCAAGCTGTTGACATGACTGCA
* * * * * *
561564 CAGTTGCACTACTTCCATTTCCTGAGAGTCTAACTACAAATCGTGAAAGGCTTAAATTTTTCATA
453 CAGATGCACTACTTCCATTGCCTGAAAGTCTAACTACAAAACATGAAAGGCTTAAATTTGTCATA
* * * *
561629 TAAGTGAAACAATATACTGAAGGAGAAGGTAATAACCCCCCAGTTCCCCACCCCACCCAAAACAA
518 TAAGTGAAACAATATACTGAAGGAGAAGGTAATAACCCCCCACTACCCCACCACACCCAAAAAAA
* * * *
561694 AGCAACAAAATATATATGATAGGCTGTTATCTAGTTTACAAACACAGGAAAAACAGTAACAAGGA
583 AACAACAAAACATATATGATAGGCAGTTATCTAGTTTACAAACACAGGAAAAACAGAAACAAGGA
561759 CCAA
648 CCAA
* * * * * *
561763 TAAGATGTATTATGTTTCATGATTGTGGTTTCTATTATAAAAGTCGAGTTTCTAAACTAAACCTG
1 TAAGATGTAATATGTTTCATGATTGCGGTTTCTAATATAAAAGTAGAATTTCTAAACCAAACCTG
* * *
561828 TTTCATGTGAATTAAGATCAAGATGCTCAGCAACCACATTATTTGAATAACTTGAATCCTCGTGA
66 TTTCATGTGAATTAGGATCAAGATGCTCAGCAACCACATTATTTGACTCACTTGAATCCTCGTGA
*
561893 ATGTTTTCAGTCCCAGGAAAGCTTTCAGGTATCTAATTTGGAAACCAAACCATATTTCTGTCAAA
131 ATGTTTTCAGTCCCAAGAAAGCTTTCAGGTATCTAATTTGGAAACCAAACCATATTTCTGTCAAA
* *
561958 ACCTTTCCAAAAATGCATCGCATATATATATATCTTACAACCCTGATACAAGAAATGAGTGATAC
196 ACCATCCCAAAAATGCATCGCATATATATA-ATCTTACAACCCTGATACAAGAAATG-GTGATAC
* * *
562023 TCGTACCTGACAACCCTGACTGTTATCACTCAAATCAACTTGCTTATGTGATACGAGCAGATCCA
259 TCGTACCTGAC-ACCCTGACTGTTATCACTCAAATCAACATGCTTATGTGATACAAGCAAATCCA
* *
562088 GTGAGTCCTAGAGAAGGCAAAAAATGTTGTCAA-AGGAAAAACAAAGCTAATGGTCAATTTTGAC
323 ATAAGTCCTAGAGAAGGCAAAAAATGTTGTCAAGAGGAAAAA-AAAGCTAATGGTCAATTTTGAC
* * *
562152 ATTAATACA-TAATGTGGAACAGACACTAACCTCATTGTTTTCACCAAGCTGTTGACATGACTGC
387 ATTAATACAGAAATATAGAACAGACACTAACCTCATTGTTTTCACCAAGCTGTTGACATGACTGC
* * * *
562216 ACAGATGTACTACTTTCATTGCCTGAAAGTCTAACTGCAAAACATTAAAGGCTTAAATTTGTCAT
452 ACAGATGCACTACTTCCATTGCCTGAAAGTCTAACTACAAAACATGAAAGGCTTAAATTTGTCAT
* * *
562281 ATAGGTGAAACAATATATTGAAGGAGAAGG-AA-ACCCACCCCACCTACCACCACCACACCCCAA
517 ATAAGTGAAACAATATACTGAAGGAGAAGGTAATAACC-CCCCA-CTACC-CCACCACA-CCC-A
* * *
562344 AAAAAAACACAAATCAGCAGAACATATATGATAGGCAGTTATCTATTTTGCAAACACAGGAGAAA
577 AAAAAAA-AC-AA-CA--A-AACATATATGATAGGCAGTTATCTAGTTTACAAACACAGGAAAAA
** * *
562409 TGGAAACAAGGGGCCTA
636 CAGAAACAA-GGACCAA
* * *
562426 TAAGATGTAATATGTTTCATGATTGCGGTTTGTAATATAAAAGTATAATTTCTAAACCAGACCTG
1 TAAGATGTAATATGTTTCATGATTGCGGTTTCTAATATAAAAGTAGAATTTCTAAACCAAACCTG
562491 TTTCATGTGAATTAGGATCAAGATGCTCAGCAACCACATTATTTGACTCACTTGAATCCTCGTGA
66 TTTCATGTGAATTAGGATCAAGATGCTCAGCAACCACATTATTTGACTCACTTGAATCCTCGTGA
* * *
562556 ATATTTTCAGTACCAAGAAAGCTTTCAGGTATCTAATTTGGAAACCAAACCATATTTCTATCAAA
131 ATGTTTTCAGTCCCAAGAAAGCTTTCAGGTATCTAATTTGGAAACCAAACCATATTTCTGTCAAA
* * * * * * *
562621 GCAAACCCAATAATGCATCGCATATATATCAATCTTACAGCCGTGATTCAAGAAATGGATGATAC
196 ACCATCCCAAAAATGCATCGCATATATAT-AATCTTACAACCCTGATACAAGAAATGG-TGATAC
* *
562686 TCGTACCTTATCACTCTGACTGTTATCACT
259 TCGTACCTGA-CACCCTGACTGTTATCACT
562716 TGAATCACAA
Statistics
Matches: 1347, Mismatches: 179, Indels: 96
0.83 0.11 0.06
Matches are distributed among these distances:
622 27 0.02
623 128 0.10
624 1 0.00
625 31 0.02
626 118 0.09
627 117 0.09
628 7 0.01
629 40 0.03
630 56 0.04
631 1 0.00
632 5 0.00
633 1 0.00
634 1 0.00
636 4 0.00
637 1 0.00
639 1 0.00
640 5 0.00
642 1 0.00
644 5 0.00
646 1 0.00
647 23 0.02
649 112 0.08
651 3 0.00
652 7 0.01
653 139 0.10
654 185 0.14
655 3 0.00
656 7 0.01
657 1 0.00
658 2 0.00
659 2 0.00
661 1 0.00
662 47 0.03
663 262 0.19
664 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (651 bp):
TAAGATGTAATATGTTTCATGATTGCGGTTTCTAATATAAAAGTAGAATTTCTAAACCAAACCTG
TTTCATGTGAATTAGGATCAAGATGCTCAGCAACCACATTATTTGACTCACTTGAATCCTCGTGA
ATGTTTTCAGTCCCAAGAAAGCTTTCAGGTATCTAATTTGGAAACCAAACCATATTTCTGTCAAA
ACCATCCCAAAAATGCATCGCATATATATAATCTTACAACCCTGATACAAGAAATGGTGATACTC
GTACCTGACACCCTGACTGTTATCACTCAAATCAACATGCTTATGTGATACAAGCAAATCCAATA
AGTCCTAGAGAAGGCAAAAAATGTTGTCAAGAGGAAAAAAAAGCTAATGGTCAATTTTGACATTA
ATACAGAAATATAGAACAGACACTAACCTCATTGTTTTCACCAAGCTGTTGACATGACTGCACAG
ATGCACTACTTCCATTGCCTGAAAGTCTAACTACAAAACATGAAAGGCTTAAATTTGTCATATAA
GTGAAACAATATACTGAAGGAGAAGGTAATAACCCCCCACTACCCCACCACACCCAAAAAAAAAC
AACAAAACATATATGATAGGCAGTTATCTAGTTTACAAACACAGGAAAAACAGAAACAAGGACCA
A
Found at i:575309 original size:3 final size:3
Alignment explanation
Indices: 575298--575358 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
575288 TTTTTTTCCG
** *
575298 TTA TT- TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
575343 TTA TTA TTTA TTA TTA
1 TTA TTA -TTA TTA TTA
575359 CATTTTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 5 0.10
3 40 0.83
4 3 0.06
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:583500 original size:4 final size:4
Alignment explanation
Indices: 583491--583536 Score: 78
Period size: 4 Copynumber: 12.0 Consensus size: 4
583481 AAAAGTATAC
583491 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
583537 GATACATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
4 38 0.95
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:583623 original size:5 final size:5
Alignment explanation
Indices: 583614--583661 Score: 78
Period size: 5 Copynumber: 9.6 Consensus size: 5
583604 GACAAATTCA
* *
583614 AAAAA AAAAA AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
583662 TTTCATATTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:584205 original size:105 final size:102
Alignment explanation
Indices: 584018--584256 Score: 281
Period size: 105 Copynumber: 2.3 Consensus size: 102
584008 TGAGAATTTT
* * *
584018 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
584083 AAAAACAAAATTAATCTCACCTT-AGATTCTTGTTTCTTTC-
66 AAAAACAAAATTAATCTCA-CTTGAGA-TC--GTTT-TCTCA
* *
584123 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGAT-CAAAATTTCGAATTTGTTTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATAC-AAATTTCGAATTTGATTCAC
* * *
584187 -ATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
65 TA-AAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
584225 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
584257 TCTAAAAACA
Statistics
Matches: 118, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
101 3 0.03
102 30 0.25
103 3 0.03
104 7 0.06
105 75 0.64
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
AAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:584247 original size:36 final size:36
Alignment explanation
Indices: 584202--584321 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
584192 ACAAAGTTGA
**
584202 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
584238 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
584274 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
584308 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
584322 TCATTTTTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:584614 original size:29 final size:26
Alignment explanation
Indices: 584580--584647 Score: 93
Period size: 25 Copynumber: 2.5 Consensus size: 26
584570 CTCTTGAGAT
584580 AAATCTTTGAGTCTGTTCCTTTTGAATAA
1 AAATCTTTGAGTCTGTTCCTTTTG---AA
*
584609 AAATCTTTGAGT-TGTTTCTTTTGAA
1 AAATCTTTGAGTCTGTTCCTTTTGAA
584634 AAATCTTTGAGTCT
1 AAATCTTTGAGTCT
584648 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 14 0.38
26 1 0.03
28 10 0.27
29 12 0.32
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (26 bp):
AAATCTTTGAGTCTGTTCCTTTTGAA
Found at i:584641 original size:25 final size:26
Alignment explanation
Indices: 584566--584660 Score: 102
Period size: 28 Copynumber: 3.5 Consensus size: 26
584556 TCTGGAGACA
*
584566 GTTTCTCTTGAGATAAATCTTTGAGTCT
1 GTTTCTTTTGA-A-AAATCTTTGAGTCT
*
584594 GTTCCTTTTGAATAAAAATCTTTGAGT-T
1 GTTTCTTTTG---AAAAATCTTTGAGTCT
584622 GTTTCTTTTGAAAAATCTTTGAGTCT
1 GTTTCTTTTGAAAAATCTTTGAGTCT
* *
584648 ATTTATTTTGAAA
1 GTTTCTTTTGAAA
584661 CAAAGTTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
25 14 0.24
26 12 0.21
28 18 0.31
29 12 0.21
30 1 0.02
31 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (26 bp):
GTTTCTTTTGAAAAATCTTTGAGTCT
Found at i:584734 original size:52 final size:53
Alignment explanation
Indices: 584656--584758 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 53
584646 CTATTTATTT
584656 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCCTTGAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCCTTGAGTC
* *
584708 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCCTTGAG
584759 ATTGTTTCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 36 0.75
53 12 0.25
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCCTTGAGTC
Found at i:585402 original size:43 final size:42
Alignment explanation
Indices: 585300--585671 Score: 256
Period size: 43 Copynumber: 8.7 Consensus size: 42
585290 CTAAAGATGG
* * * ** *
585300 CCAGCCGTCCTCATCATGTAGGAACCGTGTCATCCCCAGATCA
1 CCAGCC-TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* *
585343 -GAG-CTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGCCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* * * **
585383 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGCC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATAA
* * * * * *
585429 CCAGAACTCTTCATCACGTATGAGCCGTGTC-ATC--AGCTGA
1 CCAG-CCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
*
585469 CCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAG-CCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* * * **
585512 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGCC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATAA
* * * * **
585558 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAGAT--
1 CCAG-CCTCCTCATCACGTAGGAGCCGTGTCA-ACCATAGATAA
*
585600 -CAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAG-CCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
*
585642 CCAGCCGTCCTCATCACGTAGGAACCGTGT
1 CCAGCC-TCCTCATCACGTAGGAGCCGTGT
585672 TATCACCTTA
Statistics
Matches: 258, Mismatches: 52, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
40 67 0.26
41 33 0.13
42 5 0.02
43 80 0.31
44 4 0.02
45 8 0.03
46 59 0.23
47 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (42 bp):
CCAGCCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
Found at i:585524 original size:129 final size:127
Alignment explanation
Indices: 585341--585760 Score: 660
Period size: 130 Copynumber: 3.2 Consensus size: 127
585331 ATCCCCAGAT
* *
585341 CAGAGCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGA
1 CAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGA
585406 ACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGAC
66 ACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATC--CTGAC
585470 CAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGA
1 CAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGA
* *
585535 ACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAGAT
66 ACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCA-T--CCTGAC
585600 CAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGA
1 CAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGA
* * **
585665 ACCGTGTTATCACCTTAAGATGGCCAAGAACTCTTCATCATGTATGAGTAGTGTCATCCTTCGAC
66 ACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTGTCATCC-T-GAC
* * * *
585730 CAGATGTCTTCATCACGTAGGAACCATGTCA
1 CAGATCTCCTCATCACGTAGGAGCCGTGTCA
585761 CCCTTAGACG
Statistics
Matches: 271, Mismatches: 14, Indels: 11
0.92 0.05 0.04
Matches are distributed among these distances:
128 2 0.01
129 118 0.44
130 123 0.45
131 27 0.10
132 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (127 bp):
CAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGA
ACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCTGAC
Found at i:585791 original size:130 final size:128
Alignment explanation
Indices: 585310--585760 Score: 679
Period size: 129 Copynumber: 3.5 Consensus size: 128
585300 CCAGCCGTCC
* * * * * * *
585310 TCATCATGTAGGAACCGTGTCATCCCCAGATCAGAGCTCTTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATCCTC-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
585375 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
65 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
585439 TCATCACGTATGAGCCGTGTCATCAGCT-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCATC--CTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
585503 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
64 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* *
585568 TCATCACGTATGAGCCGTGTCATTCCCCAGATCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCA-TCCTC-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
*
585633 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTC
64 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTC
585698 T
128 T
* ** * * * *
585699 TCATCATGTATGAGTAGTGTCATCCTTCGACCAGATGTCTTCATCACGTAGGAACCATGTCA
1 TCATCACGTATGAGCCGTGTCATCC-TCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
585761 CCCTTAGACG
Statistics
Matches: 296, Mismatches: 19, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
128 1 0.00
129 141 0.48
130 125 0.42
131 29 0.10
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (128 bp):
TCATCACGTATGAGCCGTGTCATCCTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCA
TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:585973 original size:3 final size:3
Alignment explanation
Indices: 585962--586019 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
585952 TTTTTTTCCG
** *
585962 TTA TT- TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
586007 TTA TTTA TTA TTA
1 TTA -TTA TTA TTA
586020 CATTTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 5 0.11
3 37 0.82
4 3 0.07
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:590951 original size:21 final size:22
Alignment explanation
Indices: 590914--590956 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
590904 CCGAATTATG
*
590914 CCCCCCTTTGTTGAAAATCACT
1 CCCCCCTTTGTTAAAAATCACT
590936 CCCCCCTTTGTTAAAAATCAC
1 CCCCCCTTTGTTAAAAATCAC
590957 CCGGCGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.37, G:0.07, T:0.30
Consensus pattern (22 bp):
CCCCCCTTTGTTAAAAATCACT
Found at i:595117 original size:10 final size:10
Alignment explanation
Indices: 595102--595131 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
595092 ACTATTCACG
595102 TGAATAGTAA
1 TGAATAGTAA
595112 TGAATAGTAA
1 TGAATAGTAA
595122 TGAATAGTAA
1 TGAATAGTAA
595132 CCTCGTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (10 bp):
TGAATAGTAA
Found at i:595651 original size:15 final size:15
Alignment explanation
Indices: 595631--595667 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
595621 TGCCAGCAAA
595631 CCACCAAACATTTGC
1 CCACCAAACATTTGC
595646 CCACCAAACATTTGC
1 CCACCAAACATTTGC
595661 CCACCAA
1 CCACCAA
595668 TTTGAATTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.35, C:0.43, G:0.05, T:0.16
Consensus pattern (15 bp):
CCACCAAACATTTGC
Found at i:597582 original size:15 final size:15
Alignment explanation
Indices: 597562--597593 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
597552 TCAATTTTAT
597562 TTGTGTCTACCCATA
1 TTGTGTCTACCCATA
597577 TTGTGTCTACCCATA
1 TTGTGTCTACCCATA
597592 TT
1 TT
597594 AAAAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (15 bp):
TTGTGTCTACCCATA
Found at i:598934 original size:14 final size:14
Alignment explanation
Indices: 598883--598936 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
598873 CTTTTTAAGG
598883 TTAGAGTTTAGGAT
1 TTAGAGTTTAGGAT
* *
598897 TTA-AGGTTTAAGAC
1 TTAGA-GTTTAGGAT
* *
598911 TTAAACTTTAGGAT
1 TTAGAGTTTAGGAT
598925 TTAGAGTTTAGG
1 TTAGAGTTTAGG
598937 TTATAGGATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
13 1 0.03
14 29 0.94
15 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.41
Consensus pattern (14 bp):
TTAGAGTTTAGGAT
Found at i:599202 original size:2 final size:2
Alignment explanation
Indices: 599195--599231 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
599185 TTTTACATAC
599195 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
599232 TAAATCCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:607574 original size:17 final size:18
Alignment explanation
Indices: 607549--607593 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
607539 TTGCTCAATG
*
607549 ATAACTTAAAG-AAATTA
1 ATAATTTAAAGTAAATTA
**
607566 ATAATTTAAAGTTGATTA
1 ATAATTTAAAGTAAATTA
607584 ATAATTTAAA
1 ATAATTTAAA
607594 CAAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (18 bp):
ATAATTTAAAGTAAATTA
Found at i:609669 original size:4 final size:4
Alignment explanation
Indices: 609662--609855 Score: 104
Period size: 4 Copynumber: 45.8 Consensus size: 4
609652 ATATTCATTC
* ** * * *
609662 AAAT AAAT AAAT AAAT AAAT AATT TCA- AAAC AAAC AAAT AAAC AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* ** *
609709 AAAT AATTT CGAAAT ATCT AAAT AAAT AAATT CAAGT GAAAT AAAT AAAT
1 AAAT AA-AT --AAAT AAAT AAAT AAAT AAA-T -AAAT -AAAT AAAT AAAT
** * * *
609759 AAAT CTA- AAAT AAAT AAAT AAAC AAAT AAATTT GAAAT AAAT GAAT ACAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA--T -AAAT AAAT AAAT AAAT
* *
609809 AAATTT GAAAT AAAT AAAA AAACG AAAT AAAT AAAT AAAT AAAT AAA
1 AAA--T -AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAA
609856 AATTACCGCC
Statistics
Matches: 145, Mismatches: 31, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
3 2 0.01
4 119 0.82
5 11 0.08
6 5 0.03
7 8 0.06
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:609732 original size:31 final size:32
Alignment explanation
Indices: 609661--609739 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 32
609651 TATATTCATT
609661 CAAA-TAAATAAATAAATAAATAATTTCAAAA
1 CAAACTAAATAAATAAATAAATAATTTCAAAA
* *
609692 CAAAC-AAATAAACAAATAAATAATTTCGAAA
1 CAAACTAAATAAATAAATAAATAATTTCAAAA
* *
609723 -TATCTAAATAAATAAAT
1 CAAACTAAATAAATAAAT
609740 TCAAGTGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.65, C:0.09, G:0.01, T:0.25
Consensus pattern (32 bp):
CAAACTAAATAAATAAATAAATAATTTCAAAA
Found at i:609777 original size:27 final size:27
Alignment explanation
Indices: 609747--609812 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
609737 AATTCAAGTG
609747 AAATAAATAAATAAATCTAAAATAAAT
1 AAATAAATAAATAAATCTAAAATAAAT
* * *
609774 AAATAAACAAATAAATTTGAAATAAAT
1 AAATAAATAAATAAATCTAAAATAAAT
* *
609801 GAATACATAAAT
1 AAATAAATAAAT
609813 TTGAAATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (27 bp):
AAATAAATAAATAAATCTAAAATAAAT
Found at i:609796 original size:23 final size:22
Alignment explanation
Indices: 609697--609855 Score: 115
Period size: 23 Copynumber: 6.9 Consensus size: 22
609687 CAAAACAAAC
* *
609697 AAATAAACAAATAAATAATTTCG
1 AAATAAATAAATAAATAAATT-G
** *
609720 AAATATCTAAATAAATAAATTC
1 AAATAAATAAATAAATAAATTG
* *
609742 AAGTGAAATAAATAAATAAATCTA
1 AAAT-AAATAAATAAATAAAT-TG
609766 AAATAAATAAATAAACAAATAAATTTG
1 AAATAAATAAAT----AAATAAA-TTG
* *
609793 AAATAAATGAATACATAAATTTG
1 AAATAAATAAATAAATAAA-TTG
* *
609816 AAATAAATAAAAAAACGAAA-T-
1 AAATAAATAAATAAA-TAAATTG
609837 AAATAAATAAATAAATAAA
1 AAATAAATAAATAAATAAA
609856 AATTACCGCC
Statistics
Matches: 109, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
20 3 0.03
21 14 0.13
22 4 0.04
23 61 0.56
24 7 0.06
27 19 0.17
28 1 0.01
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.25
Consensus pattern (22 bp):
AAATAAATAAATAAATAAATTG
Found at i:618010 original size:3 final size:3
Alignment explanation
Indices: 618002--618063 Score: 72
Period size: 3 Copynumber: 19.3 Consensus size: 3
617992 CGGGTCTTTT
618002 TTA TTA TTA TT- TATA TATA TTTA TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA
618050 TTTA TTA TTA TTA T
1 -TTA TTA TTA TTA T
618064 GTTTATTAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
2 1 0.02
3 40 0.74
4 12 0.22
5 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:618022 original size:10 final size:10
Alignment explanation
Indices: 618001--618061 Score: 99
Period size: 10 Copynumber: 6.2 Consensus size: 10
617991 CCGGGTCTTT
618001 TTTATTATTA
1 TTTATTATTA
618011 TTTA-TATATA
1 TTTATTAT-TA
618021 TTTATTATTA
1 TTTATTATTA
618031 TTTATTATTA
1 TTTATTATTA
618041 -TTATTATTA
1 TTTATTATTA
618050 TTTATTATTA
1 TTTATTATTA
618060 TT
1 TT
618062 ATGTTTATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
9 12 0.25
10 33 0.69
11 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATTATTA
Found at i:618070 original size:19 final size:19
Alignment explanation
Indices: 618002--618063 Score: 99
Period size: 19 Copynumber: 3.2 Consensus size: 19
617992 CGGGTCTTTT
618002 TTATTATTATTTA-TATATA
1 TTATTATTATTTATTAT-TA
618021 TTTATTATTATTTATTATTA
1 -TTATTATTATTTATTATTA
618041 TTATTATTATTTATTATTA
1 TTATTATTATTTATTATTA
618060 TTAT
1 TTAT
618064 GTTTATTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
19 23 0.56
20 15 0.37
21 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATTATTTATTATTA
Found at i:618075 original size:16 final size:15
Alignment explanation
Indices: 618005--618071 Score: 84
Period size: 16 Copynumber: 4.4 Consensus size: 15
617995 GTCTTTTTTA
618005 TTATTATTTATATATAT
1 TTATTA-TTAT-TATAT
618022 TTATTATTATT-TA-
1 TTATTATTATTATAT
618035 TTATTATTATTATTAT
1 TTATTATTATTA-TAT
*
618051 TTATTATTATTATGT
1 TTATTATTATTATAT
618066 TTATTA
1 TTATTA
618072 ATTACATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
13 11 0.24
14 2 0.04
15 11 0.24
16 16 0.35
17 6 0.13
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (15 bp):
TTATTATTATTATAT
Found at i:618075 original size:19 final size:17
Alignment explanation
Indices: 618002--618075 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 17
617992 CGGGTCTTTT
618002 TTATTATTATTTATATATA
1 TTATTATTATTTAT-TA-A
618021 TTTATTATTATTTATTATTA
1 -TTATTATTATTTATTA--A
618041 TTATTATTATTTATT-A
1 TTATTATTATTTATTAA
*
618057 TTATTA-TGTTTATTAA
1 TTATTATTATTTATTAA
618073 TTA
1 TTA
618076 CATATTACAA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
15 7 0.14
16 11 0.22
19 17 0.33
20 16 0.31
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (17 bp):
TTATTATTATTTATTAA
Found at i:629682 original size:166 final size:164
Alignment explanation
Indices: 629447--630151 Score: 659
Period size: 167 Copynumber: 4.2 Consensus size: 164
629437 AATTCCCCAT
* * * * * *
629447 AAAACATTCTTAAATAATGCAGTTGAGGAAACAAATTCCAGAACCAGTAA-CACAATATCGTTCG
1 AAAAAATTCTTAAATAATGCAGTTAAGAAAATAAATT-CTGAACCAGTAATC-CAAGATCGTTCG
* * * * * * *
629511 GTAATTAGTATAAAAACTTAGGT-AAAAAATATTTTGACATCTCTCTTCAAGAAAAAAAACAAGA
64 GTAATCAGTATACAAGCTTAGATAAAAAAATCTTTTGAGATCTCTCTTCAAGAAAAAAAATAA-A
* *
629575 AGATTCGAAATCCCCAACAAAATTTTTGAAATCACC-A
128 AGATTCGAAATCACC-ACAAAATTTTTGAAATCACCGG
* * * * *
629612 AAAAACATTATGAAACAATGCAGTTGAGAAAATAAATTCTGAAACCAGTAATCCAAGATCGTTAG
1 AAAAA-ATTCTTAAATAATGCAGTTAAGAAAATAAATTCTG-AACCAGTAATCCAAGATCGTTCG
* * * *
629677 GTAATTAGTATGCAAGCTTAGATAAAAAAATCTTTTGAGATCTTTCTCTTCAAGAAAGAAGATAA
64 GTAATCAGTATACAAGCTTAGATAAAAAAATCTTTTGAGATC--TCTCTTCAAGAAAAAAAATAA
* * * *
629742 AAGATTCGAAATCTCTCGCAAAAATTTGGAAATCACCGG
127 AAGATTCGAAATCAC-CACAAAATTTTTGAAATCACCGG
* * * * * *
629781 TAAAAATTCTTAAATAATGAAGTTAAGAAAATAAACTCCCGAACTAGTAACCCAAGATCGTTCGG
1 AAAAAATTCTTAAATAATGCAGTTAAGAAAATAAA-TTCTGAACCAGTAATCCAAGATCGTTCGG
* * * * *
629846 TAATCAGTATACAAGTTTAGAT-CAAAAATCTTTTGAGATAATTCTCTTCAAGAATAAAGATAAA
65 TAATCAGTATACAAGCTTAGATAAAAAAATCTTTTGAGAT--CTCTCTTCAAGAAAAAAAATAAA
* * *
629910 ATATTCGAAATCACCTACAAAATTTTTGAAATTACCTG
128 AGATTCGAAATCACC-ACAAAATTTTTGAAATCACCGG
* ** *
629948 CAAAAATTCTTAAATAAAACAGTTAAGAAAATAAATTCTCGAACAAGTAATCCAAGATCGTTC--
1 AAAAAATTCTTAAATAATGCAGTTAAGAAAATAAATTCT-GAACCAGTAATCCAAGATCGTTCGG
* * * * *
630011 TAATCAGTATACCAGCTTAGATAAAAAAATCTTTTGAAATCTCTCTTGAAGAAAGAAAATAGAAG
65 TAATCAGTATACAAGCTTAGATAAAAAAATCTTTTGAGATCTCTCTTCAAGAAAAAAAATAAAAG
* * * * *
630076 ATTCAAAAGCAACGACAAGATTTTTGAAATCAGCGGG
130 ATTCGAAATC-ACCACAAAATTTTTGAAATCA-CCGG
* * * *
630113 AAAAAAATC-TAAGATTAATGCAGCTGAGAAAACAAATTC
1 AAAAAATTCTTAA-A-TAATGCAGTTAAGAAAATAAATTC
630152 CCCGTAAAAC
Statistics
Matches: 441, Mismatches: 81, Indels: 35
0.79 0.15 0.06
Matches are distributed among these distances:
164 45 0.10
165 38 0.09
166 102 0.23
167 134 0.30
168 96 0.22
169 26 0.06
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (164 bp):
AAAAAATTCTTAAATAATGCAGTTAAGAAAATAAATTCTGAACCAGTAATCCAAGATCGTTCGGT
AATCAGTATACAAGCTTAGATAAAAAAATCTTTTGAGATCTCTCTTCAAGAAAAAAAATAAAAGA
TTCGAAATCACCACAAAATTTTTGAAATCACCGG
Found at i:629940 original size:21 final size:21
Alignment explanation
Indices: 629907--629956 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
629897 GAATAAAGAT
629907 AAAATATTCGAAATCACCTAC
1 AAAATATTCGAAATCACCTAC
* * * *
629928 AAAATTTTTGAAATTACCTGC
1 AAAATATTCGAAATCACCTAC
629949 AAAA-ATTC
1 AAAATATTC
629957 TTAAATAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (21 bp):
AAAATATTCGAAATCACCTAC
Found at i:630398 original size:541 final size:543
Alignment explanation
Indices: 629613--630624 Score: 1524
Period size: 541 Copynumber: 1.9 Consensus size: 543
629603 AAATCACCAA
* * *
629613 AAAACATTATGAAACAATGCAGTTGAGAAAATAAATTCTGAAACCAGTAATCCAAGATCGTTAGG
1 AAAACATTATAAAACAATGCAGTTGAGAAAACAAATTCAGAAACCAGTAATCCAAGATCGTTAGG
* * ** * * *
629678 TAATTAGTATGCAAGCTTAGATAAAAAAATCTTTTGAGATCTTTCTCTTCAAGAAAGAAGATAAA
66 TAATCAATATAAAAACTTAGATAAAAAAATCTTTTGACATC-TTCTCTTCAAGAAAGAAAATAAA
* *
629743 AGATTCGAAATCTCTCGCAAAAATTTGGAAATCACCGGTAAAAATTCTTAAATAATGAAGTTAAG
130 AGATTCGAAATCTCCCGCAAAAATTTCGAAATCACCGGTAAAAATTCTTAAATAATGAAGTTAAG
* * * *
629808 AAAATAAACTCCCGAACTAGTAACCCAAGATCGTTCGGTAATCAGTATACAAG-TTTAGATCAAA
195 AAAATAAACTCCCGAACCAGTAACCCAAGACCATTCGGTAATCAGTATACAAGCTTT-GATAAAA
*
629872 AATCTTTTGAGATAATTCTCTTCAAGAATAAAGATAAAATATTCGAAATCACCTACAAAATTTTT
259 AATCTTTTGAGATAATTCTCTTCAAGAATAAAGATAAAAGATTCGAAATCACCTACAAAATTTTT
* * * *
629937 GAAATTACCTGCAAAAATTCTTAAATAAAACAGTTAAGAAAATAAATTCTCGAACAAGTAA-TCC
324 GAAATCACCCGCAAAAATTCTTAAATAAAACAGTTAAGAAAATAAATTCCCAAACAAGTAACT-C
* * *
630001 AAGATCGTTC-TAATCAGTATACCAGCTTAGATAAAAAAATCTTTTGAAATCTCTCTTGAAGAAA
388 AAGATCGTTCGTAATCAGTATACAAGCTTAGAT-AAAAAATCTTTTGAAATATCTCTTCAAGAAA
630065 GAAAATAGAAGATTCAAAAGCAACGACAAGATTTTTGAAATCAGCGGGAAAAAAATCTAAGATTA
452 GAAAATAGAAGATTCAAAAGCAACGACAAGATTTTTGAAATCAGCGGGAAAAAAATCTAAGATTA
630130 ATGCAGCTGAGAAAACAAATTCCCCGT
517 ATGCAGCTGAGAAAACAAATTCCCCGT
* * *
630157 AAAACATTATAAAATAATGCAGTTGAGGAAACAAATTCCAG-AACCAGTAA-CACAAGATCGTTC
1 AAAACATTATAAAACAATGCAGTTGAGAAAACAAATT-CAGAAACCAGTAATC-CAAGATCGTTA
*
630220 GGTAATCAATATAAAAACTTAGAT-AAAAAATCTTTTGACATC-TCTCTTCAAGAAAGAAAATAG
64 GGTAATCAATATAAAAACTTAGATAAAAAAATCTTTTGACATCTTCTCTTCAAGAAAGAAAATAA
*
630283 AAGATTCGAAATC-CCCAG-AAAAATTTTCGAAATCACC-G-AAAATCATTCTTAAATAATGCAG
129 AAGATTCGAAATCTCCC-GCAAAAA-TTTCGAAATCACCGGTAAAA--ATTCTTAAATAATGAAG
* * * *
630344 TTAAGAAAATAAACTCCCGAACCAGTAACCTAATACCATTCGGTAATTAGTATACAGGCTTTGAT
190 TTAAGAAAATAAACTCCCGAACCAGTAACCCAAGACCATTCGGTAATCAGTATACAAGCTTTGAT
* *
630409 AAAAAATCTTTTGAGATAATTCTCTTCAAGAATGAAGATAAAAGATTCGAAATCACCTGCAAAAT
255 AAAAAATCTTTTGAGATAATTCTCTTCAAGAATAAAGATAAAAGATTCGAAATCACCTACAAAAT
*
630474 TTTTGAAATCACCCGCAAAAATTCTTAAATAAAGCAGTTAAGAAAATAAATTCCCAAACAAGTAA
320 TTTTGAAATCACCCGCAAAAATTCTTAAATAAAACAGTTAAGAAAATAAATTCCCAAACAAGTAA
*
630539 CTCGAGATCGTTCGTAATCAGTATACAAGCTTAGATAAAAAATCTTTTGAAATATCTCTTCAAGA
385 CTCAAGATCGTTCGTAATCAGTATACAAGCTTAGATAAAAAATCTTTTGAAATATCTCTTCAAGA
630604 AAGAAAATAGAAGATTCAAAA
450 AAGAAAATAGAAGATTCAAAA
630625 CCAGAGGTAA
Statistics
Matches: 422, Mismatches: 37, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
539 4 0.01
540 8 0.02
541 294 0.70
542 25 0.06
543 18 0.04
544 71 0.17
545 2 0.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (543 bp):
AAAACATTATAAAACAATGCAGTTGAGAAAACAAATTCAGAAACCAGTAATCCAAGATCGTTAGG
TAATCAATATAAAAACTTAGATAAAAAAATCTTTTGACATCTTCTCTTCAAGAAAGAAAATAAAA
GATTCGAAATCTCCCGCAAAAATTTCGAAATCACCGGTAAAAATTCTTAAATAATGAAGTTAAGA
AAATAAACTCCCGAACCAGTAACCCAAGACCATTCGGTAATCAGTATACAAGCTTTGATAAAAAA
TCTTTTGAGATAATTCTCTTCAAGAATAAAGATAAAAGATTCGAAATCACCTACAAAATTTTTGA
AATCACCCGCAAAAATTCTTAAATAAAACAGTTAAGAAAATAAATTCCCAAACAAGTAACTCAAG
ATCGTTCGTAATCAGTATACAAGCTTAGATAAAAAATCTTTTGAAATATCTCTTCAAGAAAGAAA
ATAGAAGATTCAAAAGCAACGACAAGATTTTTGAAATCAGCGGGAAAAAAATCTAAGATTAATGC
AGCTGAGAAAACAAATTCCCCGT
Found at i:630501 original size:167 final size:163
Alignment explanation
Indices: 630168--630688 Score: 579
Period size: 167 Copynumber: 3.2 Consensus size: 163
630158 AAACATTATA
* * * * * *
630168 AAATAATGCAGTTGAGGAAACAAATTCCAGAACCAGTAACACAAGATCGTTCGGTAATCAATATA
1 AAATAATGCAGTTAAGAAAATAAATTCCCGAACCAGTAACACAATA-CGTTCGGTAATCAGTATA
* * * * *
630233 AAAACTTAGATAAAAAATCTTTTGACATCTCTCTTCAAGAAAGAAAATAGAAGATTCGAAATCCC
65 CAAGCTTAGATAAAAAATCTTTTGAAATATCTCTTCAAGAAAGAAAATAGAAGATTCGAAATCAC
*
630298 CAGAAAAATTTTCGAAATCACCG-AAAATCATTCTT
130 CAGAAAAATTTTTGAAATCACCGCAAAA--ATTCTT
* * *
630333 AAATAATGCAGTTAAGAAAATAAACTCCCGAACCAGTAAC-CTAATACCATTCGGTAATTAGTAT
1 AAATAATGCAGTTAAGAAAATAAATTCCCGAACCAGTAACAC-AATA-CGTTCGGTAATCAGTAT
* * * * * *
630397 ACAGGCTTTGATAAAAAATCTTTTGAGATAATTCTCTTCAAGAATGAAGATAAAAGATTCGAAAT
64 ACAAGCTTAGATAAAAAATCTTTTGAAAT-A-TCTCTTCAAGAAAGAAAATAGAAGATTCGAAAT
* *
630462 CACCTGCAAAATTTTTGAAATCACCCGCAAAAATTCTT
127 CACCAGAAAAATTTTTGAAATCA-CCGCAAAAATTCTT
* * * *
630500 AAATAAAGCAGTTAAGAAAATAAATTCCCAAACAAGTAACTCGAGAT-CGTTC-GTAATCAGTAT
1 AAATAATGCAGTTAAGAAAATAAATTCCCGAACCAGTAACAC-A-ATACGTTCGGTAATCAGTAT
630563 ACAAGCTTAGATAAAAAATCTTTTGAAATATCTCTTCAAGAAAGAAAATAGAAGATTC-AAA--A
64 ACAAGCTTAGATAAAAAATCTTTTGAAATATCTCTTCAAGAAAGAAAATAGAAGATTCGAAATCA
* ** *
630625 CCAGAGGTAAAACTTTTGAAATCATAGCAAAAGTTCTT
129 CCAGA---AAAATTTTTGAAATCACCGCAAAAATTCTT
* *
630663 AAATAATGCCGTTCAGAAAATAAATT
1 AAATAATGCAGTTAAGAAAATAAATT
630689 TCCCATTACC
Statistics
Matches: 301, Mismatches: 45, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
161 4 0.01
163 37 0.12
164 41 0.14
165 77 0.26
166 36 0.12
167 95 0.32
168 5 0.02
169 6 0.02
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (163 bp):
AAATAATGCAGTTAAGAAAATAAATTCCCGAACCAGTAACACAATACGTTCGGTAATCAGTATAC
AAGCTTAGATAAAAAATCTTTTGAAATATCTCTTCAAGAAAGAAAATAGAAGATTCGAAATCACC
AGAAAAATTTTTGAAATCACCGCAAAAATTCTT
Found at i:630503 original size:21 final size:21
Alignment explanation
Indices: 630457--630503 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
630447 TAAAAGATTC
* *
630457 GAAATCACCTGCAAAATTTTT
1 GAAATCACCCGCAAAATTCTT
630478 GAAATCACCCGCAAAAATTCTT
1 GAAATCACCCGC-AAAATTCTT
630500 -AAAT
1 GAAAT
630504 AAAGCAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (21 bp):
GAAATCACCCGCAAAATTCTT
Found at i:639894 original size:13 final size:13
Alignment explanation
Indices: 639878--639913 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
639868 CTTAATTGCG
639878 AAAATTAAAAAAT
1 AAAATTAAAAAAT
639891 AAAATT-AAAAAT
1 AAAATTAAAAAAT
639903 AAAATTTAAAA
1 AAAA-TTAAAA
639914 CTTAATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.48
13 8 0.38
14 3 0.14
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATTAAAAAAT
Found at i:639902 original size:12 final size:12
Alignment explanation
Indices: 639878--639913 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
639868 CTTAATTGCG
639878 AAAATTAAAAAAT
1 AAAATT-AAAAAT
639891 AAAATTAAAAAT
1 AAAATTAAAAAT
639903 AAAATTTAAAA
1 AAAA-TTAAAA
639914 CTTAATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAATTAAAAAT
Found at i:641350 original size:13 final size:14
Alignment explanation
Indices: 641334--641392 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 14
641324 AAATTTGGAT
641334 TGAAAATAAG-AAA
1 TGAAAATAAGAAAA
*
641347 TG-AAATAAGTAAA
1 TGAAAATAAGAAAA
641360 TG-AAATAAG--AA
1 TGAAAATAAGAAAA
641371 TGGAAAAT-AGAAAA
1 T-GAAAATAAGAAAA
641385 T-AAAATAA
1 TGAAAATAA
641393 AATAATAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.08
12 15 0.38
13 19 0.47
14 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (14 bp):
TGAAAATAAGAAAA
Found at i:641354 original size:12 final size:12
Alignment explanation
Indices: 641337--641370 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
641327 TTTGGATTGA
641337 AAATAAGAAATG
1 AAATAAGAAATG
641349 AAATAAGTAAATG
1 AAATAAG-AAATG
641362 AAATAAGAA
1 AAATAAGAA
641371 TGGAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.18
Consensus pattern (12 bp):
AAATAAGAAATG
Found at i:641501 original size:30 final size:32
Alignment explanation
Indices: 641430--641493 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
641420 ATGCATTTCC
641430 AAAACTATATGTTTTCAAAAAATCATTTTTAA
1 AAAACTATATGTTTTCAAAAAATCATTTTTAA
*
641462 AAAACTATATGTTTT-TAAAAATCA-TTTTAA
1 AAAACTATATGTTTTCAAAAAATCATTTTTAA
641492 AA
1 AA
641494 CCTTATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 8 0.26
31 8 0.26
32 15 0.48
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (32 bp):
AAAACTATATGTTTTCAAAAAATCATTTTTAA
Found at i:641557 original size:23 final size:25
Alignment explanation
Indices: 641531--641582 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
641521 TTTTTTTAAA
*
641531 AAAACTATA-CAT-TATATGTTTTC
1 AAAACTATATCATATATACGTTTTC
*
641554 AAAACTATATTATATATACGTTTTC
1 AAAACTATATCATATATACGTTTTC
641579 AAAA
1 AAAA
641583 ATATTTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.36
24 2 0.08
25 14 0.56
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (25 bp):
AAAACTATATCATATATACGTTTTC
Found at i:641557 original size:25 final size:27
Alignment explanation
Indices: 641524--641583 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 27
641514 AAGATATTTT
* *
641524 TTTTAAAAAAACTATA-CAT-TATATG
1 TTTTCAAAAAACTATATCATATATACG
*
641549 TTTTC--AAAACTATATTATATATACG
1 TTTTCAAAAAACTATATCATATATACG
641574 TTTTCAAAAA
1 TTTTCAAAAA
641584 TATTTTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 9 0.32
24 2 0.07
25 14 0.50
27 3 0.11
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (27 bp):
TTTTCAAAAAACTATATCATATATACG
Found at i:641702 original size:36 final size:36
Alignment explanation
Indices: 641619--641801 Score: 179
Period size: 36 Copynumber: 5.0 Consensus size: 36
641609 ACTATATATA
* * **
641619 TATATTATATACATTTTCAAAAATATGTTTTCAAAA-
1 TATATAATATATATTTTCAAAAA-CCGTTTTCAAAAC
* *
641655 TCATATTATATATATTTTCTAAAACCGTTTTCAAAAC
1 T-ATATAATATATATTTTCAAAAACCGTTTTCAAAAC
* * **
641692 TATCTAATATATACTTTCAAAAAATGTTTTCAAAAC
1 TATATAATATATATTTTCAAAAACCGTTTTCAAAAC
** *
641728 TATATAATATATATATATTCTTAAACCGTTTTTAAAAC
1 TATATAATATATAT-T-TTCAAAAACCGTTTTCAAAAC
**
641766 TATATAATATATATTTTTCAAAAATTGTTTTCAAAA
1 TATATAATATATA-TTTTCAAAAACCGTTTTCAAAA
641802 ATCGTTTTTT
Statistics
Matches: 120, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
36 52 0.43
37 37 0.31
38 30 0.25
39 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.44
Consensus pattern (36 bp):
TATATAATATATATTTTCAAAAACCGTTTTCAAAAC
Found at i:641754 original size:74 final size:75
Alignment explanation
Indices: 641619--641801 Score: 241
Period size: 74 Copynumber: 2.5 Consensus size: 75
641609 ACTATATATA
* * *
641619 TATATTATATACAT-TTTCAAAAATATGTTTTCAAAA-TCATAT--TATATATATTTTCTAAAAC
1 TATATAATATATATCTTTCAAAAA-ATGTTTTCAAAACT-ATATAATATATATATATTCTAAAAC
641680 CGTTTTCAAAAC
64 CGTTTTCAAAAC
* *
641692 TATCTAATATATA-CTTTCAAAAAATGTTTTCAAAACTATATAATATATATATATTCTTAAACCG
1 TATATAATATATATCTTTCAAAAAATGTTTTCAAAACTATATAATATATATATATTCTAAAACCG
*
641756 TTTTTAAAAC
66 TTTTCAAAAC
* *
641766 TATATAATATATATTTTTCAAAAATTGTTTTCAAAA
1 TATATAATATATATCTTTCAAAAAATGTTTTCAAAA
641802 ATCGTTTTTT
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
72 16 0.17
73 20 0.21
74 40 0.42
75 20 0.21
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.44
Consensus pattern (75 bp):
TATATAATATATATCTTTCAAAAAATGTTTTCAAAACTATATAATATATATATATTCTAAAACCG
TTTTCAAAAC
Found at i:641809 original size:50 final size:50
Alignment explanation
Indices: 641756--641852 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 50
641746 TCTTAAACCG
* *
641756 TTTTT-AAAACTATATAATATATATTTTTCAAAAATTGTTTTCAAAAATCGT
1 TTTTTAAAAACCATATAATATAT-TTTTTCAAAAA-TATTTTCAAAAATCGT
*
641807 TTTTTAAAAACCATATATTATATTTTTTCAAAAATATTTTCAAAAA
1 TTTTTAAAAACCATATAATATATTTTTTCAAAAATATTTTCAAAAA
641853 CTATACTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 11 0.26
51 16 0.38
52 15 0.36
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.46
Consensus pattern (50 bp):
TTTTTAAAAACCATATAATATATTTTTTCAAAAATATTTTCAAAAATCGT
Found at i:641810 original size:14 final size:14
Alignment explanation
Indices: 641779--641816 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
641769 ATAATATATA
*
641779 TTTTTCAAAAATTG
1 TTTTTCAAAAATCG
641793 -TTTTCAAAAATCG
1 TTTTTCAAAAATCG
*
641806 TTTTTTAAAAA
1 TTTTTCAAAAA
641817 CCATATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (14 bp):
TTTTTCAAAAATCG
Found at i:644844 original size:2 final size:2
Alignment explanation
Indices: 644837--644862 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
644827 ATTATATGTA
644837 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
644863 TTTCATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:645865 original size:39 final size:36
Alignment explanation
Indices: 645802--646145 Score: 226
Period size: 38 Copynumber: 9.0 Consensus size: 36
645792 AGTATATAGT
* * * *
645802 ACATGTTTTAAAAACGTATAATATA-AGGTTTTGAAA
1 ACATTTTTTGAAAACATATATTATATA-GTTTTGAAA
*
645838 ACATTTTTTAGAAAACATATATTATATAGTTTTAAAAA
1 ACATTTTTT-GAAAACATATATTATATAGTTTT-GAAA
* *
645876 AAATATAATTTTGAAAACATATAATATATAGTTTTTTTAGAAA
1 ACAT-T--TTTTGAAAACATATATTATATAG---TTTT-GAAA
*
645919 ACACATTTTTGAAAACATATATTATATAGTTTTGAAAA
1 ACA-TTTTTTGAAAACATATATTATATAGTTTTG-AAA
* **
645957 ACAATTTTTTTTAAAACATATATTATATAGTTGCGAAAA
1 AC-A-TTTTTTGAAAACATATATTATATAGTTTTG-AAA
* * *
645996 ACAATTTTTGAAAACGTGTATTATATAGTTTTGAAA
1 ACATTTTTTGAAAACATATATTATATAGTTTTGAAA
**** * *
646032 A-AAAAATTGAGAACATATA-TATTATGGTTTTGGAAA
1 ACATTTTTTGAAAACATATATTA-TATAGTTTT-GAAA
* *
646068 GCAATTTTTTGAAAACATATATATTATATATTTTTGAAA
1 AC-ATTTTTTGAAAAC--ATATATTATATAGTTTTGAAA
* * * * *
646107 ATAATTTTTGAAATCATATGTAATATATAGTTTTTAAA
1 ACATTTTTTGAAAACATA--TATTATATAGTTTTGAAA
646145 A
1 A
646146 ATGATTTTTT
Statistics
Matches: 243, Mismatches: 44, Indels: 40
0.74 0.13 0.12
Matches are distributed among these distances:
34 2 0.01
35 20 0.08
36 19 0.08
37 43 0.18
38 52 0.21
39 38 0.16
40 30 0.12
41 28 0.12
43 11 0.05
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (36 bp):
ACATTTTTTGAAAACATATATTATATAGTTTTGAAA
Found at i:645945 original size:41 final size:38
Alignment explanation
Indices: 645807--646146 Score: 247
Period size: 39 Copynumber: 8.9 Consensus size: 38
645797 ATAGTACATG
* * * * *
645807 TTTTAAAAACGTATAATATA-AGGTTTTG-AAAACATT
1 TTTTGAAAACATATATTATATAGTTTTTGAAAAACAAT
* *
645843 TTTTAGAAAACATATATTATATAG-TTTTAAAAAAAATAT
1 TTTT-GAAAACATATATTATATAGTTTTTGAAAAACA-AT
* *
645882 AATTTTGAAAACATATAATATATAGTTTTTTTAGAAAACACAT
1 --TTTTGAAAACATATATTATATAG-TTTTTGA-AAAACA-AT
645925 TTTTGAAAACATATATTATATAG-TTTTGAAAAACAATTT
1 TTTTGAAAACATATATTATATAGTTTTTGAAAAACAA--T
* **
645964 TTTTTAAAACATATATTATATAG-TTGCGAAAAACAAT
1 TTTTGAAAACATATATTATATAGTTTTTGAAAAACAAT
* *
646001 TTTTGAAAACGTGTATTATATAG-TTTTGAAAAA-AA-
1 TTTTGAAAACATATATTATATAGTTTTTGAAAAACAAT
** * * * *
646036 AATTGAGAACATATA-TAT-TATGGTTTTGGAAAGCAATT
1 TTTTGAAAACATATATTATATA-GTTTTTGAAAAACAA-T
*
646074 TTTTGAAAACATATATATTATATA-TTTTTG-AAAATAAT
1 TTTTGAAAAC--ATATATTATATAGTTTTTGAAAAACAAT
* *
646112 TTTTGAAATCATATGTAATATATAGTTTTT-AAAAA
1 TTTTGAAAACATA--TATTATATAGTTTTTGAAAAA
646147 TGATTTTTTT
Statistics
Matches: 245, Mismatches: 35, Indels: 45
0.75 0.11 0.14
Matches are distributed among these distances:
33 2 0.01
34 4 0.02
35 18 0.07
36 11 0.04
37 47 0.19
38 38 0.16
39 54 0.22
40 28 0.11
41 29 0.12
42 7 0.03
43 7 0.03
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (38 bp):
TTTTGAAAACATATATTATATAGTTTTTGAAAAACAAT
Found at i:646147 original size:39 final size:38
Alignment explanation
Indices: 645842--646183 Score: 143
Period size: 39 Copynumber: 8.8 Consensus size: 38
645832 TTGAAAACAT
*
645842 TTTTTAGAAAACATATAT--TATATAGTTTTAAAAAAAATATA
1 TTTTT-GAAAACATATATAATATATA-TTTT--TAAAAATA-A
* * *
645883 ATTTTGAAAACATATA-ATATATAGTTTTTTTAGAAAACACA
1 TTTTTGAAAACATATATA-ATATA-TATTTTTA-AAAATA-A
* *
645924 TTTTTGAAAACATATAT--TATATAGTTTTGAAAAACAA
1 TTTTTGAAAACATATATAATATATA-TTTTTAAAAATAA
* *** *
645961 TTTTTTTTAAAACATATAT--TATATAGTTGCGAAAAACAA
1 --TTTTTGAAAACATATATAATATATA-TTTTTAAAAATAA
* * *
646000 TTTTTGAAAACGTGTAT--TATATAGTTTTGAAAAA-AA
1 TTTTTGAAAACATATATAATATATA-TTTTTAAAAATAA
** * * ** **
646036 -AATTGAGAACATATAT-AT-TATGGTTTTGGAAAGCAA
1 TTTTTGAAAACATATATAATATAT-ATTTTTAAAAATAA
* *
646072 TTTTTTGAAAACATATATATTATATATTTTTGAAAATAA
1 -TTTTTGAAAACATATATAATATATATTTTTAAAAATAA
* * *
646111 TTTTTGAAATCATATGTAATATATAGTTTTTAAAAATGATT
1 TTTTTGAAAACATATATAATATATA-TTTTTAAAAAT-A-A
* *
646152 TTTTTCGGAAACCTATATAATATATAATTTTT
1 TTTTT-GAAAACATATATAATATAT-ATTTTT
646184 GAAGACATGT
Statistics
Matches: 239, Mismatches: 41, Indels: 41
0.74 0.13 0.13
Matches are distributed among these distances:
35 22 0.09
36 5 0.02
37 30 0.13
38 42 0.18
39 64 0.27
40 16 0.07
41 30 0.13
42 28 0.12
43 2 0.01
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (38 bp):
TTTTTGAAAACATATATAATATATATTTTTAAAAATAA
Found at i:646575 original size:21 final size:21
Alignment explanation
Indices: 646550--646589 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
646540 GCCCTAACGG
646550 GGGAACGAC-CCTGAAACAACC
1 GGGAACGACTCC-GAAACAACC
*
646571 GGGAATGACTCCGAAACAA
1 GGGAACGACTCCGAAACAA
646590 TTGGAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.40, C:0.28, G:0.25, T:0.07
Consensus pattern (21 bp):
GGGAACGACTCCGAAACAACC
Found at i:672952 original size:36 final size:36
Alignment explanation
Indices: 672911--673237 Score: 284
Period size: 36 Copynumber: 9.2 Consensus size: 36
672901 ATTTTGCATC
* *
672911 GATTCAAGTCGAACGGAGGGAAGCATCAACACTTCT
1 GATTCAAGTCGAACGGAAGGAAGCATCGACACTTCT
* * *
672947 GATTCAAGTCGAACGGATGGAAGCATCGGCACTTCC
1 GATTCAAGTCGAACGGAAGGAAGCATCGACACTTCT
* * *
672983 GATTCAAATCGAACGAAATGAAGCATCGACACTT-T
1 GATTCAAGTCGAACGGAAGGAAGCATCGACACTTCT
* * * *
673018 CGATGCAAATCGAA-TGAATGAAGCATC-AGCACTTCT
1 -GATTCAAGTCGAACGGAAGGAAGCATCGA-CACTTCT
** *
673054 GATTCAAG-CGAAC---A-GAAGCATCGGTACTTCC
1 GATTCAAGTCGAACGGAAGGAAGCATCGACACTTCT
* *
673085 GATTCAAGTTGAACGGAGGGAAGCATCGACACTT-T
1 GATTCAAGTCGAACGGAAGGAAGCATCGACACTTCT
*
673120 CGATTCGAA-TCGAACGGAAGGAAGCGTCGACACTT-T
1 -GATTC-AAGTCGAACGGAAGGAAGCATCGACACTTCT
* *
673156 CGATTCGAA-TCGAACGGAAGGAAGCATCGATA-TTTT
1 -GATTC-AAGTCGAACGGAAGGAAGCATCGACACTTCT
* * * *
673192 CGATTCAAATCGAATGGAATGAAGCATCGACACTTTT
1 -GATTCAAGTCGAACGGAAGGAAGCATCGACACTTCT
673229 GATTCAAGT
1 GATTCAAGT
673238 TTTAATCTCT
Statistics
Matches: 244, Mismatches: 32, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
31 21 0.09
32 5 0.02
34 5 0.02
35 26 0.11
36 181 0.74
37 6 0.02
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (36 bp):
GATTCAAGTCGAACGGAAGGAAGCATCGACACTTCT
Found at i:673031 original size:72 final size:72
Alignment explanation
Indices: 672910--673235 Score: 317
Period size: 72 Copynumber: 4.6 Consensus size: 72
672900 AATTTTGCAT
* * * *
672910 CGATTCAAGTCGAACGGAGGGAAGCATCAACAC-TTCTGATTCAAGTCGAACGGATGGAAGCATC
1 CGATTCAAATCGAACGGAAGGAAGCATCGACACTTTC-GATTCAAATCGAACGGATGGAAGCATC
*
672974 GGCACTTC
65 GACACTTC
* * * * *
672982 CGATTCAAATCGAACGAAATGAAGCATCGACACTTTCGATGCAAATCGAATGAAT-GAAGCATC-
1 CGATTCAAATCGAACGGAAGGAAGCATCGACACTTTCGATTCAAATCGAACGGATGGAAGCATCG
673045 AGCACTTC
66 A-CACTTC
* * ** * * * *
673053 TGATTC-AAGCGAAC---A-GAAGCATCGGTACTTCCGATTCAAGTTGAACGGAGGGAAGCATCG
1 CGATTCAAATCGAACGGAAGGAAGCATCGACACTTTCGATTCAAATCGAACGGATGGAAGCATCG
*
673113 ACACTTT
66 ACACTTC
* * * *
673120 CGATTCGAATCGAACGGAAGGAAGCGTCGACACTTTCGATTCGAATCGAACGGAAGGAAGCATCG
1 CGATTCAAATCGAACGGAAGGAAGCATCGACACTTTCGATTCAAATCGAACGGATGGAAGCATCG
* * *
673185 ATATTTT
66 ACACTTC
* * *
673192 CGATTCAAATCGAATGGAATGAAGCATCGACACTTTTGATTCAA
1 CGATTCAAATCGAACGGAAGGAAGCATCGACACTTTCGATTCAA
673236 GTTTTAATCT
Statistics
Matches: 205, Mismatches: 40, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
66 26 0.13
67 19 0.09
68 8 0.04
70 7 0.03
71 20 0.10
72 122 0.60
73 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (72 bp):
CGATTCAAATCGAACGGAAGGAAGCATCGACACTTTCGATTCAAATCGAACGGATGGAAGCATCG
ACACTTC
Found at i:673203 original size:174 final size:175
Alignment explanation
Indices: 672910--673236 Score: 482
Period size: 174 Copynumber: 1.9 Consensus size: 175
672900 AATTTTGCAT
*
672910 CGATTCAAGTCGAACGGAGGGAAGCATCAACACTTCTGATTCAAGTCGAACGGATGGAAGCATCG
1 CGATTCAAGTCGAACGGAGGGAAGCATCAACACTTCTGATTCAAGTCGAACGGAAGGAAGCATCG
* *
672975 GCACTTCCGATTCAAATCGAACGAAATGAAGCATCGACACTTTCGATGCAAATCGAAT-GAATGA
66 ACACTTCCGATTCAAATCGAACGAAAGGAAGCATCGACACTTTCGATGCAAATCGAATGGAATGA
673039 AGCATC-AGCACTTCTGATTCAAGCGAACAGAAGCATCGGTACTTC
131 AGCATCGA-CACTTCTGATTCAAGCGAACAGAAGCATCGGTACTTC
* * *
673084 CGATTCAAGTTGAACGGAGGGAAGCATCGACACTT-TCGATTCGAA-TCGAACGGAAGGAAGCGT
1 CGATTCAAGTCGAACGGAGGGAAGCATCAACACTTCT-GATTC-AAGTCGAACGGAAGGAAGCAT
* * * * * *
673147 CGACACTTTCGATTCGAATCGAACGGAAGGAAGCATCGATATTTTCGATTCAAATCGAATGGAAT
64 CGACACTTCCGATTCAAATCGAACGAAAGGAAGCATCGACACTTTCGATGCAAATCGAATGGAAT
*
673212 GAAGCATCGACACTTTTGATTCAAG
129 GAAGCATCGACACTTCTGATTCAAG
673237 TTTTAATCTC
Statistics
Matches: 136, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
173 1 0.01
174 106 0.78
175 28 0.21
176 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (175 bp):
CGATTCAAGTCGAACGGAGGGAAGCATCAACACTTCTGATTCAAGTCGAACGGAAGGAAGCATCG
ACACTTCCGATTCAAATCGAACGAAAGGAAGCATCGACACTTTCGATGCAAATCGAATGGAATGA
AGCATCGACACTTCTGATTCAAGCGAACAGAAGCATCGGTACTTC
Found at i:673932 original size:36 final size:35
Alignment explanation
Indices: 673851--673985 Score: 159
Period size: 35 Copynumber: 3.8 Consensus size: 35
673841 AGATGAATAA
673851 TTGAATCGAAAGTG-CTGATG-TATCCTTTCGTTCAC
1 TTGAATCGAAAGTGTC-GATGCT-TCCTTTCGTTCAC
*
673886 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTC-AC
* *
673922 TTGAATCGAAAGTGAT-GATGCTTCATTCCGTTCAC
1 TTGAATCGAAAGTG-TCGATGCTTCCTTTCGTTCAC
* * *
673957 TTGAATAGAGAGTGTCGATGCTTTCTTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTTC
673986 ATTCTTCTTA
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
34 1 0.01
35 52 0.60
36 32 0.37
37 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (35 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCAC
Found at i:673971 original size:71 final size:71
Alignment explanation
Indices: 673851--673994 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 71
673841 AGATGAATAA
* * * * *
673851 TTGAATCGAAAGTGCTGATGTATCCTTTCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
1 TTGAATCGAAAGTGATGATGTATCATTCCGTTCACTTGAATAGAAAGTGTCGATGCTTCCTTTCA
673916 TTCTTC
66 TTCTTC
* *
673922 TTGAATCGAAAGTGATGATGCT-TCATTCCGTTCACTTGAATAGAGAGTGTCGATGCTTTCTTTC
1 TTGAATCGAAAGTGATGATG-TATCATTCCGTTCACTTGAATAGAAAGTGTCGATGCTTCCTTTC
673986 ATTCTTC
65 ATTCTTC
673993 TT
1 TT
673995 ATTCACCTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 64 0.98
72 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (71 bp):
TTGAATCGAAAGTGATGATGTATCATTCCGTTCACTTGAATAGAAAGTGTCGATGCTTCCTTTCA
TTCTTC
Found at i:676712 original size:10 final size:10
Alignment explanation
Indices: 676697--676733 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
676687 GTCTAAAAGC
676697 TCATATAGGA
1 TCATATAGGA
676707 TCATATA-GA
1 TCATATAGGA
676716 TGCAT-TAGGA
1 T-CATATAGGA
676726 TCATATAG
1 TCATATAG
676734 TTGTATGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (10 bp):
TCATATAGGA
Found at i:678986 original size:163 final size:164
Alignment explanation
Indices: 678715--679041 Score: 647
Period size: 163 Copynumber: 2.0 Consensus size: 164
678705 TTTGGTGGTG
678715 CTCCTTATGAGGATGCAAGGCAACATGTTCGGCATTTTTAGAGGTCCGTGACTCCTTTCGACAAT
1 CTCCTTATGAGGATGCAAGGCAACATGTTCGGCATTTTTAGAGGTCCGTGACTCCTTTCGACAAT
678780 AAGGTGTGTATGAAGATGTGCTGAAATTGAAGTTATTTCCATATTCTTTGAAAGATCACGCCAGG
66 AAGGTGTGTATGAAGATGTGCTGAAATTGAAGTTATTTCCATATTCTTTGAAAGATCACGCCAGG
678845 GCATGGCTCAATGGATTACCTTCTGGCTCGATAA
131 GCATGGCTCAATGGATTACCTTCTGGCTCGATAA
678879 CTCCTTATGAGGATGCAAGGCAACATGTTCGGCA-TTTTAGAGGTCCGTGACTCCTTTCGACAAT
1 CTCCTTATGAGGATGCAAGGCAACATGTTCGGCATTTTTAGAGGTCCGTGACTCCTTTCGACAAT
678943 AAGGTGTGTATGAAGATGTGCTGAAATTGAAGTTATTTCCATATTCTTTGAAAGATCACGCCAGG
66 AAGGTGTGTATGAAGATGTGCTGAAATTGAAGTTATTTCCATATTCTTTGAAAGATCACGCCAGG
679008 GCATGGCTCAATGGATTACCTTCTGGCTCGATAA
131 GCATGGCTCAATGGATTACCTTCTGGCTCGATAA
679042 GGTCTTGGAC
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
163 129 0.79
164 34 0.21
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (164 bp):
CTCCTTATGAGGATGCAAGGCAACATGTTCGGCATTTTTAGAGGTCCGTGACTCCTTTCGACAAT
AAGGTGTGTATGAAGATGTGCTGAAATTGAAGTTATTTCCATATTCTTTGAAAGATCACGCCAGG
GCATGGCTCAATGGATTACCTTCTGGCTCGATAA
Found at i:702637 original size:92 final size:92
Alignment explanation
Indices: 702480--702663 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
702470 TAAAGCTAAA
702480 ATAAATAAAGGACAAGATTAAAAAAACTTGTAACTAGACGCAAAACCGTTTCGATTACGTTAAAG
1 ATAAATAAAGGACAAGATTAAAAAAACTTGTAACTAGACGCAAAACCGTTTCGATTACGTTAAAG
702545 GACTGCCGCCACCACCTCATGCAGCTG
66 GACTGCCGCCACCACCTCATGCAGCTG
702572 ATAAATAAAGGACAAGATTAAAAAAACTTGTAACTAGACGCAAAACCGTTTCGATTACGTTAAAG
1 ATAAATAAAGGACAAGATTAAAAAAACTTGTAACTAGACGCAAAACCGTTTCGATTACGTTAAAG
702637 GACTGCCGCCACCACCTCATGCAGCTG
66 GACTGCCGCCACCACCTCATGCAGCTG
702664 CCTGCATTGG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (92 bp):
ATAAATAAAGGACAAGATTAAAAAAACTTGTAACTAGACGCAAAACCGTTTCGATTACGTTAAAG
GACTGCCGCCACCACCTCATGCAGCTG
Found at i:703732 original size:84 final size:84
Alignment explanation
Indices: 703591--703766 Score: 282
Period size: 84 Copynumber: 2.1 Consensus size: 84
703581 AGAAAACTCA
** *
703591 CCACGGCCGCCTTGGGGAGGGCCTTCGTAATTGTAGCCACCATCTTCCAGCCTATCAACCTGAGA
1 CCACGGCCAACTTGGGGAGGGCCTTCATAATTGTAGCCACCATCTTCCAGCCTATCAACCTGAGA
703656 ACCATTGTATCCTCCACGT
66 ACCATTGTATCCTCCACGT
*
703675 CCACGGCCAACTTGGGGAGGGGCTTCATAATTGTAGCCTA-CATCTTCCAGCCTATCAACCTGAG
1 CCACGGCCAACTTGGGGAGGGCCTTCATAATTGTAGCC-ACCATCTTCCAGCCTATCAACCTGAG
**
703739 GTCCATTGTATCCTCCACGT
65 AACCATTGTATCCTCCACGT
703759 CCACGGCC
1 CCACGGCC
703767 TCGGGAACCA
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
84 84 0.99
85 1 0.01
ACGTcount: A:0.20, C:0.34, G:0.22, T:0.24
Consensus pattern (84 bp):
CCACGGCCAACTTGGGGAGGGCCTTCATAATTGTAGCCACCATCTTCCAGCCTATCAACCTGAGA
ACCATTGTATCCTCCACGT
Found at i:706380 original size:208 final size:208
Alignment explanation
Indices: 706022--706440 Score: 784
Period size: 208 Copynumber: 2.0 Consensus size: 208
706012 AACAACGCTC
*
706022 TATTGGTAAGATTCAAATCAGCAACTCCCAAGCCTCCACCACTCAACGACTTACATATTTTTTTC
1 TATTGGTAAGATTCAAATCAGCAACTCCCAAGCCTCCACCACTCAACGACTTACATATCTTTTTC
*
706087 CAACTAACCCAATGCATTCTCTTCTTCTCATCCCCTTCTCCCCATAAAAAATTCGACATCAAAGA
66 CAACTAACCCAATGCATTCTCTTCTTCTCATCCCCTCCTCCCCATAAAAAATTCGACATCAAAGA
*
706152 ATTTAACCGTTGACAAATAATAGAAGGCATCTTGAAAATAGATAAGTAGAAGATAAGTAAGGATG
131 ATTTAAACGTTGACAAATAATAGAAGGCATCTTGAAAATAGATAAGTAGAAGATAAGTAAGGATG
706217 AAAGAACCGACTT
196 AAAGAACCGACTT
*
706230 TATTGGTAAGATTCAAATCAGCAACTCCCAAGCCTCCACCACTCAACGGCTTACATATCTTTTTC
1 TATTGGTAAGATTCAAATCAGCAACTCCCAAGCCTCCACCACTCAACGACTTACATATCTTTTTC
**
706295 CAACTAACCCAATGCATTCTCTTCTTCTCATTTCCTCCTCCCCATAAAAAATTCGACATCAAAGA
66 CAACTAACCCAATGCATTCTCTTCTTCTCATCCCCTCCTCCCCATAAAAAATTCGACATCAAAGA
706360 ATTTAAACGTTGACAAATAATAGAAGGCATCTTGAAAATAGATAAGTAGAAGATAAGTAAGGATG
131 ATTTAAACGTTGACAAATAATAGAAGGCATCTTGAAAATAGATAAGTAGAAGATAAGTAAGGATG
706425 AAAGAACCGACTT
196 AAAGAACCGACTT
706438 TAT
1 TAT
706441 AAGCACCAAT
Statistics
Matches: 205, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
208 205 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (208 bp):
TATTGGTAAGATTCAAATCAGCAACTCCCAAGCCTCCACCACTCAACGACTTACATATCTTTTTC
CAACTAACCCAATGCATTCTCTTCTTCTCATCCCCTCCTCCCCATAAAAAATTCGACATCAAAGA
ATTTAAACGTTGACAAATAATAGAAGGCATCTTGAAAATAGATAAGTAGAAGATAAGTAAGGATG
AAAGAACCGACTT
Found at i:711444 original size:13 final size:13
Alignment explanation
Indices: 711394--711437 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
711384 TCGATATAAA
711394 CAGTTAATCAAAT
1 CAGTTAATCAAAT
**
711407 CAGTTTCTCAAAT
1 CAGTTAATCAAAT
*
711420 CAGCTAATCAAAT
1 CAGTTAATCAAAT
711433 CAGTT
1 CAGTT
711438 GGTCAAACCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (13 bp):
CAGTTAATCAAAT
Found at i:714183 original size:15 final size:14
Alignment explanation
Indices: 714159--714204 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
714149 CGGAAAAATT
*
714159 TATTATTTTAGAGAG
1 TATTAATTTA-AGAG
714174 TATTAATTTAACGAG
1 TATTAATTTAA-GAG
714189 TATTAATTTAAAGAG
1 TATTAATTT-AAGAG
714204 T
1 T
714205 TTCTACTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 25 0.89
16 2 0.07
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.43
Consensus pattern (14 bp):
TATTAATTTAAGAG
Found at i:719453 original size:2 final size:2
Alignment explanation
Indices: 719446--719500 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
719436 TCGATTAATT
719446 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
719488 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
719501 TACATTTAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:719640 original size:15 final size:15
Alignment explanation
Indices: 719616--719651 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
719606 ATAATAAATA
719616 ATTA-TAAATATATT
1 ATTATTAAATATATT
719630 ATTATTAAATATATT
1 ATTATTAAATATATT
719645 ATT-TTAA
1 ATTATTAA
719652 TTATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATTAAATATATT
Found at i:721141 original size:68 final size:70
Alignment explanation
Indices: 721012--721146 Score: 175
Period size: 68 Copynumber: 2.0 Consensus size: 70
721002 ATGACTATAT
* *
721012 TTATAATTAATTTAAAAAACAATTGTTTGTTAGACGAAATATTATGTCATATCGTAGCTTACATC
1 TTATAATTAATTTAAAAAACAATTGTTTGTTAGACGAAATATTATGTCATACCATAGCTTACATC
721077 TACAA
66 TACAA
* * * * * * *
721082 TTATATTTGATTTAAAAAA-TATTTTTTGTT-TACGAGATATTATGTCATACCATATCTTACATC
1 TTATAATTAATTTAAAAAACAATTGTTTGTTAGACGAAATATTATGTCATACCATAGCTTACATC
721145 TA
66 TA
721147 TAAACATTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 30 0.54
69 9 0.16
70 17 0.30
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (70 bp):
TTATAATTAATTTAAAAAACAATTGTTTGTTAGACGAAATATTATGTCATACCATAGCTTACATC
TACAA
Found at i:723502 original size:2 final size:2
Alignment explanation
Indices: 723495--723529 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
723485 AATATCTCAT
723495 TA TA TA TA TA 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 TA TA TA TA TA T
723530 TCCAATTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:724021 original size:17 final size:18
Alignment explanation
Indices: 723999--724046 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
723989 ATATGTAATT
* *
723999 AGATTTCAATTCC-TGAC
1 AGATTTTAATTCCTTCAC
724016 AGATTTTAATTCCTTCAC
1 AGATTTTAATTCCTTCAC
724034 AGATTTTAATTCC
1 AGATTTTAATTCC
724047 CTCAGAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (18 bp):
AGATTTTAATTCCTTCAC
Found at i:724338 original size:21 final size:21
Alignment explanation
Indices: 724312--724352 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
724302 GAATATCACA
724312 TTGCGATTTCCCAAATTCGCG
1 TTGCGATTTCCCAAATTCGCG
* *
724333 TTGCGATTTTCCTAATTCGC
1 TTGCGATTTCCCAAATTCGC
724353 AATGCGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGCG
Found at i:724358 original size:21 final size:21
Alignment explanation
Indices: 724313--724359 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
724303 AATATCACAT
**
724313 TGCGATTTCCCAAATTCGCGT
1 TGCGATTTCCCAAATTCGCAA
* *
724334 TGCGATTTTCCTAATTCGCAA
1 TGCGATTTCCCAAATTCGCAA
724355 TGCGA
1 TGCGA
724360 ATACGTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TGCGATTTCCCAAATTCGCAA
Found at i:724374 original size:20 final size:20
Alignment explanation
Indices: 724349--724438 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
724339 TTTTCCTAAT
724349 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
724369 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
724389 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
724409 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
724430 TCGCAATGC
1 TCGCAATGC
724439 AAATCTGACT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
20 48 0.76
21 15 0.24
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:725079 original size:21 final size:21
Alignment explanation
Indices: 725018--725096 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
725008 TTCTAAACTT
725018 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
725038 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
725058 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
725079 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
725097 TCACAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:725110 original size:33 final size:33
Alignment explanation
Indices: 725073--725153 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
725063 CGCAACGAGA
*
725073 GAAATGAAAATCGCAACGAGAGAATCACAACGC
1 GAAATCAAAATCGCAACGAGAGAATCACAACGC
* * ** *
725106 GAAATTAAAATCGCAACGAGATAATTGCAATGC
1 GAAATCAAAATCGCAACGAGAGAATCACAACGC
*
725139 GAAACCAAAATCGCA
1 GAAATCAAAATCGCA
725154 TTGCAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.14
Consensus pattern (33 bp):
GAAATCAAAATCGCAACGAGAGAATCACAACGC
Found at i:725176 original size:19 final size:19
Alignment explanation
Indices: 725149--725280 Score: 94
Period size: 19 Copynumber: 7.1 Consensus size: 19
725139 GAAACCAAAA
* *
725149 TCGCATTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
725168 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
**
725187 TTACGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
725201 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
725220 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* * **
725239 TCCGCATTGAGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
725259 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
725279 TC
1 TC
725281 AACCAAAAGA
Statistics
Matches: 88, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
14 9 0.10
16 3 0.03
17 2 0.02
19 44 0.50
20 29 0.33
21 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:725277 original size:20 final size:19
Alignment explanation
Indices: 725201--725271 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
725191 GTTGCGATTC
**
725201 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATAGTCATT
*
725220 TCGCGTTGCGATAGTCATT
1 TCTCGTTGCGATAGTCATT
*
725239 TC-CGCATTGAGATAGTCATT
1 TCTCG--TTGCGATAGTCATT
725259 CTCTCGTTGCGAT
1 -TCTCGTTGCGAT
725272 TTTCATTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 2 0.05
19 18 0.42
20 19 0.44
21 2 0.05
22 2 0.05
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (19 bp):
TCTCGTTGCGATAGTCATT
Found at i:727183 original size:21 final size:21
Alignment explanation
Indices: 727159--727225 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
727149 TCATTCCTCG
727159 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
727180 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
727201 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
727222 AGAG
1 AGAG
727226 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:727184 original size:42 final size:42
Alignment explanation
Indices: 727132--727225 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
727122 ATACTCCTAT
* *
727132 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCAC
* * *
727174 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
*
727216 CATTCAAGAG
1 CGTTCAAGAG
727226 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.09
42 38 0.86
43 2 0.05
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:728730 original size:19 final size:17
Alignment explanation
Indices: 728714--728764 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
728704 AAAAATGACT
728714 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
728733 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
728747 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
728764 A
1 A
728765 AATCGCAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
16 5 0.19
17 7 0.26
19 7 0.26
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:728756 original size:33 final size:33
Alignment explanation
Indices: 728714--728793 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
728704 AAAAATGACT
* *
728714 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
728747 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
728780 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
728794 CTAAATTCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:728770 original size:19 final size:19
Alignment explanation
Indices: 728714--728772 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
728704 AAAAATGACT
728714 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
728733 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
728747 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
728766 ATCGCAA
1 ATCGCAA
728773 CGACAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:728915 original size:20 final size:19
Alignment explanation
Indices: 728799--728941 Score: 99
Period size: 19 Copynumber: 7.9 Consensus size: 19
728789 CGAAACTAAA
*
728799 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATATTCAT
*
728818 TTCGCTTTGCG--ATTC--
1 TTCGCGTTGCGATATTCAT
* * *
728833 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATATTCAT
*
728851 TTCGCATTGCG--ATTC--
1 TTCGCGTTGCGATATTCAT
* *
728866 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATATTCAT
* *
728884 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATATTCAT
728903 TTCCGCGTTGCGATATTCAT
1 TT-CGCGTTGCGATATTCAT
*
728923 ATTCGCGTTGCGATTTTCA
1 -TTCGCGTTGCGATATTCA
728942 CATTACGATT
Statistics
Matches: 92, Mismatches: 20, Indels: 23
0.68 0.15 0.17
Matches are distributed among these distances:
14 15 0.16
16 6 0.07
17 6 0.07
19 33 0.36
20 30 0.33
21 2 0.02
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATATTCAT
Found at i:728992 original size:33 final size:33
Alignment explanation
Indices: 728803--728983 Score: 218
Period size: 33 Copynumber: 5.3 Consensus size: 33
728793 ACTAAATTCG
* *
728803 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
728836 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
728869 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CT
* * * *
728908 CGTTGCGATATTCATATTCGCGTTGCGATTTTCA
1 CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCT
* *
728942 CATTACGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
728975 CGTTGCGAT
1 CGTTGCGAT
728984 AGTAATTTCC
Statistics
Matches: 126, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
33 81 0.64
34 13 0.10
35 3 0.02
38 2 0.02
39 15 0.12
40 12 0.10
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:728992 original size:106 final size:106
Alignment explanation
Indices: 728801--729010 Score: 289
Period size: 106 Copynumber: 2.0 Consensus size: 106
728791 AAACTAAATT
* * * * *
728801 CGCGTTGCGATTTTCATTTCGCTTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
1 CGCGTTGCGATATTCATTTCGCGTTGCGATTCCCACATTACGATTTTCATTTCGCATTGCGATTC
** * *
728866 TCTCGTTGCGATTTTCATTT-CGCA-TTGCGATAGTCATTTC
66 TCTCGTTGCGATAGTAATTTCCG-AGTTGCGATAGACATTTC
**
728906 CGCGTTGCGATATTCATATTCGCGTTGCGATTTTCACATTACGATTTTCATTTCGCATTGCGATT
1 CGCGTTGCGATATTCAT-TTCGCGTTGCGATTCCCACATTACGATTTTCATTTCGCATTGCGATT
728971 CTCTCGTTGCGATAGTAATTTCCGAGTTGCGATAGACATT
65 CTCTCGTTGCGATAGTAATTTCCGAGTTGCGATAGACATT
729011 AAGATGATTG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
105 16 0.18
106 60 0.66
107 15 0.16
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (106 bp):
CGCGTTGCGATATTCATTTCGCGTTGCGATTCCCACATTACGATTTTCATTTCGCATTGCGATTC
TCTCGTTGCGATAGTAATTTCCGAGTTGCGATAGACATTTC
Found at i:729049 original size:20 final size:20
Alignment explanation
Indices: 728976--729049 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
728966 CGATTCTCTC
* * *
728976 GTTGCGATAGTAATTTCCGA
1 GTTGCGATAGTCATTTACGT
* *
728996 GTTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTACG-T
729016 GATTGCGA-ACGTCATTTACGT
1 G-TTGCGATA-GTCATTTACGT
729037 GTTGCGATAGTCA
1 GTTGCGATAGTCA
729050 AATGAATGCC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 23 0.55
21 12 0.29
22 4 0.10
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCATTTACGT
Found at i:729633 original size:21 final size:21
Alignment explanation
Indices: 729609--729661 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
729599 GAATACGTAT
*
729609 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
729630 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
729651 TCGCAATGCGA
1 TCGCAATGCGA
729662 TAATCAGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:731608 original size:20 final size:19
Alignment explanation
Indices: 731585--731630 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
731575 CGATATACCA
731585 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
731605 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
731625 GGTAAA
1 GGTAAA
731631 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:731772 original size:20 final size:19
Alignment explanation
Indices: 731749--731795 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
731739 CGATATAACA
731749 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
731769 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
731789 GGTAAAA
1 GGTAAAA
731796 TGATACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:731797 original size:17 final size:18
Alignment explanation
Indices: 731753--731800 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
731743 ATAACAGGTA
731753 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
731772 AACAAAATGATAAAACCGGT
1 -A-AAAATGATAAAACCGGT
731792 -AAAATGATA
1 AAAAATGATA
731801 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:734053 original size:21 final size:21
Alignment explanation
Indices: 734006--734070 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
733996 AAGACAATCA
* *
734006 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
734028 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
734048 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
734069 AG
1 AG
734071 GCATAGGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:734145 original size:33 final size:33
Alignment explanation
Indices: 734103--734168 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
734093 AAATAGATGG
*
734103 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
734136 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
734169 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:735987 original size:18 final size:18
Alignment explanation
Indices: 735964--736006 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
735954 TCGAGTTAAT
735964 TTTGTATAAGATTTATAA
1 TTTGTATAAGATTTATAA
* *
735982 TTTGTATACGATTTATAT
1 TTTGTATAAGATTTATAA
736000 TTTGTAT
1 TTTGTAT
736007 GTGAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (18 bp):
TTTGTATAAGATTTATAA
Found at i:736508 original size:199 final size:199
Alignment explanation
Indices: 736125--737691 Score: 2869
Period size: 199 Copynumber: 7.9 Consensus size: 199
736115 CAATATGGCC
* * *
736125 AACAGGGTGCAGCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
736190 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
736255 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
736320 ATGGAA
194 ATGGAA
736326 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAA
736390 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
736454 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
736519 TGGAA
195 TGGAA
736524 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAA
736589 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
736654 G-ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
736718 TGGAA
195 TGGAA
*
736723 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCAAAATCATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAA
736788 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
736853 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
*
736917 TGAAA
195 TGGAA
*
736922 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAC
736987 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
737052 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
737117 GGAA
196 GGAA
* *
737121 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAC
737186 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
**
737250 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTCCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
737314 GGAA
196 GGAA
* * *
737318 AACAAGGTGCAGCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAC
737382 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
737447 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCATAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
737512 GGAA
196 GGAA
* *
737516 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAC
*
737581 CAAAAATATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
737646 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
737692 CTAATTTAAA
Statistics
Matches: 1343, Mismatches: 16, Indels: 16
0.98 0.01 0.01
Matches are distributed among these distances:
196 52 0.04
197 142 0.11
198 400 0.30
199 629 0.47
200 86 0.06
201 34 0.03
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:739173 original size:18 final size:18
Alignment explanation
Indices: 739152--739219 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
739142 AGCGGTCGCA
739152 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
739170 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
739191 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
739212 GAAGATGA
1 GAAGATGA
739220 TGATGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:739176 original size:6 final size:6
Alignment explanation
Indices: 739152--739231 Score: 61
Period size: 6 Copynumber: 13.3 Consensus size: 6
739142 AGCGGTCGCA
* * * * * *
739152 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * *
739200 GAAGCT GGCGAT GAAGAT GATGAT GATGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
739232 TGAAGATGAT
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:739187 original size:3 final size:3
Alignment explanation
Indices: 739167--739244 Score: 75
Period size: 3 Copynumber: 26.0 Consensus size: 3
739157 TGAAGCTGAC
* * * * * ** *
739167 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
739215 GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
739245 CCAAACAAGT
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.36, C:0.05, G:0.35, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:739202 original size:42 final size:42
Alignment explanation
Indices: 739155--739243 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
739145 GGTCGCAGAA
*
739155 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGATGATGATGATGAAGAC
* * *
739197 GATGAAGCTGGCGATGAAGATGATGATGATGATGATGAAGAT
1 GATGAAGCTGACGATGAAGATGACGATGATGATGATGAAGAC
739239 GATGA
1 GATGA
739244 TCCAAACAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGATGATGATGATGAAGAC
Found at i:739230 original size:18 final size:18
Alignment explanation
Indices: 739155--739244 Score: 81
Period size: 18 Copynumber: 5.0 Consensus size: 18
739145 GGTCGCAGAA
* * *
739155 GATGAAGCTGACGATGAA
1 GATGAAGATGATGATGAT
*
739173 GATGACGATGATGATGAT
1 GATGAAGATGATGATGAT
* * * **
739191 GATGACGATGAAGCTGGC
1 GATGAAGATGATGATGAT
739209 GATGAAGATGATGATGAT
1 GATGAAGATGATGATGAT
* *
739227 GATGATGAAGATGATGAT
1 GATGAAGATGATGATGAT
739245 CCAAACAAGT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.23
Consensus pattern (18 bp):
GATGAAGATGATGATGAT
Found at i:741018 original size:184 final size:184
Alignment explanation
Indices: 740709--741192 Score: 923
Period size: 184 Copynumber: 2.6 Consensus size: 184
740699 CTTTCAACAT
** * * *
740709 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
740774 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
740839 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
740893 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
740958 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
741023 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
741077 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
741142 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTC
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTC
741193 TACAATTGTA
Statistics
Matches: 295, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 295 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:741827 original size:25 final size:25
Alignment explanation
Indices: 741793--741857 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
741783 TTATCATTAA
741793 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
741818 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
741843 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
741858 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:742176 original size:23 final size:23
Alignment explanation
Indices: 742145--742208 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
742135 ATAGGTAAAC
*
742145 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
742168 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
742191 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
742209 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:742215 original size:23 final size:23
Alignment explanation
Indices: 742145--742217 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
742135 ATAGGTAAAC
* **
742145 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
742168 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
742191 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
742214 ATAT
1 ATAT
742218 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:742520 original size:25 final size:25
Alignment explanation
Indices: 742486--742536 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
742476 ACAACAAATC
*
742486 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
742511 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
742536 A
1 A
742537 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:742852 original size:18 final size:18
Alignment explanation
Indices: 742831--742867 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
742821 GTAATTGGAG
742831 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
742849 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
742867 T
1 T
742868 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:742875 original size:24 final size:24
Alignment explanation
Indices: 742823--742869 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
742813 TTTCACATGT
* *
742823 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
742847 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
742870 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:743170 original size:39 final size:39
Alignment explanation
Indices: 743127--743213 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
743117 TCCGATGCTC
*
743127 ATCAAAATCCAAAGCTCATATGGTGCCAAGAAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGAAAAAGGAA
* *
743166 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGAAAAAGGAA
743205 ATCAAAATC
1 ATCAAAATC
743214 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGAAAAAGGAA
Found at i:743648 original size:23 final size:23
Alignment explanation
Indices: 743617--743680 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
743607 ATAGGTAAAC
*
743617 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
743640 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
743663 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
743681 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:743687 original size:23 final size:23
Alignment explanation
Indices: 743617--743689 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
743607 ATAGGTAAAC
* **
743617 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
743640 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
743663 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
743686 ATAT
1 ATAT
743690 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:744705 original size:24 final size:24
Alignment explanation
Indices: 744669--744714 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
744659 TAAAAATATA
*
744669 TTTTAAAAGTATTTAATCAAATAG
1 TTTTAAAAGTATTTAATAAAATAG
744693 TTTTGAAAA-TATTTAATAAAAT
1 TTTT-AAAAGTATTTAATAAAAT
744715 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (24 bp):
TTTTAAAAGTATTTAATAAAATAG
Found at i:745264 original size:17 final size:18
Alignment explanation
Indices: 745237--745271 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
745227 CTTATATTTT
745237 TTATTTATATATATCTCA
1 TTATTTATATATATCTCA
*
745255 TTATTT-TATATCTCTCA
1 TTATTTATATATATCTCA
745272 AAATAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTTATATATATCTCA
Found at i:750332 original size:50 final size:50
Alignment explanation
Indices: 750238--750375 Score: 131
Period size: 50 Copynumber: 2.8 Consensus size: 50
750228 TCACAACGAC
* * * *
750238 GTGATAAATTTTTATAAATAATATTTTTTATTCAAACTCGTCATATCAAT
1 GTGACAAATTTTAATAAATAATATTTTTTATTAAAACTCATCATATCAAT
* * *
750288 GTGACAAATTTTAATAAAATAAT-TTTTTTATTAAAATTTATCATATTAGA-
1 GTGACAAATTTTAAT-AAATAATATTTTTTATTAAAACTCATCATATCA-AT
* * *
750338 ATGA-AAAGTTTGAATAAA-AATATATTTTATTAAAACTC
1 GTGACAAA-TTTTAATAAATAATATTTTTTATTAAAACTC
750376 GTCACTGTAT
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
48 3 0.04
49 19 0.26
50 42 0.58
51 8 0.11
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (50 bp):
GTGACAAATTTTAATAAATAATATTTTTTATTAAAACTCATCATATCAAT
Done.