Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 29 of 84
Found at i:6566879 original size:27 final size:27
Alignment explanation
Indices: 6566841--6566893 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
6566831 TTGGTTAGCT
*
6566841 TGATTGTTTCTTTTACAAAAAAATTCC
1 TGATTATTTCTTTTACAAAAAAATTCC
*
6566868 TGATTATTTCTTTTACAAAACAATTC
1 TGATTATTTCTTTTACAAAAAAATTC
6566894 TCTTTAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (27 bp):
TGATTATTTCTTTTACAAAAAAATTCC
Found at i:6568367 original size:2 final size:2
Alignment explanation
Indices: 6568360--6568395 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6568350 TGATTCTGTA
6568360 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6568396 AGTTGCTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6569438 original size:2 final size:2
Alignment explanation
Indices: 6569433--6569460 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6569423 CATAAGAGTA
6569433 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6569461 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6569465 original size:2 final size:2
Alignment explanation
Indices: 6569460--6569486 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6569450 TCTCTCTCTC
6569460 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 T
6569487 CCCAAGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6569741 original size:2 final size:2
Alignment explanation
Indices: 6569736--6569764 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6569726 TATATATATA
6569736 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
6569765 ATTCTAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:6572353 original size:2 final size:2
Alignment explanation
Indices: 6572346--6572372 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6572336 AGTTAGTCCA
6572346 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6572373 ACTACATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6584942 original size:26 final size:26
Alignment explanation
Indices: 6584906--6584958 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6584896 TTACTTAATC
6584906 CATAAATATATAATTCATCAAGGAAA
1 CATAAATATATAATTCATCAAGGAAA
6584932 CATAAATATATAATTCATCAAGGAAA
1 CATAAATATATAATTCATCAAGGAAA
6584958 C
1 C
6584959 TTGACATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (26 bp):
CATAAATATATAATTCATCAAGGAAA
Found at i:6598039 original size:32 final size:32
Alignment explanation
Indices: 6597996--6598056 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
6597986 GCTATAGCCC
6597996 AACATACTTCACTTCC-TTCTACGTGCTTACCT
1 AACATACTTCACTTCCATT-TACGTGCTTACCT
* *
6598028 AACATATTTCACTTCCATTTACGTTCTTA
1 AACATACTTCACTTCCATTTACGTGCTTA
6598057 GTATATGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.25, C:0.30, G:0.05, T:0.41
Consensus pattern (32 bp):
AACATACTTCACTTCCATTTACGTGCTTACCT
Found at i:6602400 original size:24 final size:24
Alignment explanation
Indices: 6602368--6602416 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
6602358 TCAACAATCA
6602368 TAACCTATTTTTGCTTACGTTCTT
1 TAACCTATTTTTGCTTACGTTCTT
* *
6602392 TAACCTATTTTTGTTTATGTTCTT
1 TAACCTATTTTTGCTTACGTTCTT
6602416 T
1 T
6602417 TAAGCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.59
Consensus pattern (24 bp):
TAACCTATTTTTGCTTACGTTCTT
Found at i:6606236 original size:4 final size:4
Alignment explanation
Indices: 6606227--6606251 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6606217 TTATGCTTGC
6606227 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
6606252 CATTGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:6607673 original size:2 final size:2
Alignment explanation
Indices: 6607666--6607690 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6607656 TTGTGATACT
6607666 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6607691 TCAACCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6615340 original size:97 final size:97
Alignment explanation
Indices: 6615223--6615416 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
6615213 CCATGATTTG
6615223 CAGCTATTAAGTTGGTTAGAAGATCAGCTTGAAATGCTGGATTGTTTGGCTGTTGAATTGAAGAG
1 CAGCTATTAAGTTGGTTAGAAGATCAGCTTGAAATGCTGGATTGTTTGGCTGTTGAATTGAAGAG
6615288 TACCGTGACTAATATATATATATATATATATA
66 TACCGTGACTAATATATATATATATATATATA
6615320 CAGCTATTAAGTTGGTTAGAAGATCAGCTTGAAATGCTGGATTGTTTGGCTGTTGAATTGAAGAG
1 CAGCTATTAAGTTGGTTAGAAGATCAGCTTGAAATGCTGGATTGTTTGGCTGTTGAATTGAAGAG
6615385 TACCGTGACTAATATATATATATATATATATA
66 TACCGTGACTAATATATATATATATATATATA
6615417 GAGAGAGAGA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (97 bp):
CAGCTATTAAGTTGGTTAGAAGATCAGCTTGAAATGCTGGATTGTTTGGCTGTTGAATTGAAGAG
TACCGTGACTAATATATATATATATATATATA
Found at i:6615421 original size:2 final size:2
Alignment explanation
Indices: 6615416--6615453 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6615406 ATATATATAT
6615416 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6615454 TAGGGAATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6632607 original size:60 final size:61
Alignment explanation
Indices: 6632497--6632612 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 61
6632487 AAATTTGGAC
*** * *
6632497 TCAAGGTTGACTCAATACATCGCTTATTTAAGTGTTTTGTTTTTATATATTATCATGCACT
1 TCAAGGTTGACTCAATACATCGCTTATTTAAGTGTTACCTTTCTACATATTATCATGCACT
* ***
6632558 TCAA-GTTGATTCAATACATTTTTTATTTAAGTGTTACCTTTCTACATATTATCAT
1 TCAAGGTTGACTCAATACATCGCTTATTTAAGTGTTACCTTTCTACATATTATCAT
6632613 ATGTTCACTG
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
60 42 0.91
61 4 0.09
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (61 bp):
TCAAGGTTGACTCAATACATCGCTTATTTAAGTGTTACCTTTCTACATATTATCATGCACT
Found at i:6639180 original size:24 final size:23
Alignment explanation
Indices: 6639152--6639214 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
6639142 TATAAAAATG
*
6639152 ATATAATTTAAAATTTTGATAAA
1 ATATAATATAAAATTTTGATAAA
*
6639175 AT-TATATATCTAAA-TTTGATAAA
1 ATATA-ATAT-AAAATTTTGATAAA
6639198 A-ATAATATAATAATTTT
1 ATATAATATAA-AATTTT
6639215 TATTATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
21 1 0.03
22 8 0.25
23 20 0.62
24 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (23 bp):
ATATAATATAAAATTTTGATAAA
Found at i:6639181 original size:26 final size:25
Alignment explanation
Indices: 6639143--6639208 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 25
6639133 AACAAAAAAT
* *
6639143 ATAAAAATGATATAATTTAAAATTTTG
1 ATAAAAATAATATAATCT-AAA-TTTG
*
6639170 AT-AAAATTATAT-ATCTAAATTTG
1 ATAAAAATAATATAATCTAAATTTG
6639193 ATAAAAATAATATAAT
1 ATAAAAATAATATAAT
6639209 AATTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 6 0.18
24 12 0.35
25 5 0.15
26 9 0.26
27 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (25 bp):
ATAAAAATAATATAATCTAAATTTG
Found at i:6647254 original size:22 final size:21
Alignment explanation
Indices: 6647201--6647256 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
6647191 AATATTTTTA
6647201 AATA-TTTAT-ATTTAAAAAT
1 AATATTTTATAATTTAAAAAT
6647220 AATATTTTATAATTTAAAAAT
1 AATATTTTATAATTTAAAAAT
6647241 AATATTTTATTAATTT
1 AATATTTTA-TAATTT
6647257 CAATCGGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 19 0.56
22 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTTTATAATTTAAAAAT
Found at i:6647594 original size:29 final size:29
Alignment explanation
Indices: 6647560--6647615 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
6647550 TAAATTATAA
6647560 TAAAATATTTAATATAATATATAAATTTT
1 TAAAATATTTAATATAATATATAAATTTT
* *
6647589 TAAAATTTTTAATATAATATTTAAATT
1 TAAAATATTTAATATAATATATAAATT
6647616 ATAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TAAAATATTTAATATAATATATAAATTTT
Found at i:6647622 original size:20 final size:20
Alignment explanation
Indices: 6647548--6647624 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
6647538 GTCTTTCAAT
*
6647548 TTTAAATTAT-AATAAAATA
1 TTTAAATTATAAATATAATA
*
6647567 TTT-AA-TATAATATATAAATT
1 TTTAAATTATAA-ATAT-AATA
* *
6647587 TTTAAAATTTTTAATATAATA
1 TTT-AAATTATAAATATAATA
6647608 TTTAAATTATAAATATA
1 TTTAAATTATAAATATA
6647625 TTAATTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
17 3 0.07
18 3 0.07
19 6 0.13
20 18 0.40
21 6 0.13
22 6 0.13
23 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAAATTATAAATATAATA
Found at i:6647759 original size:27 final size:27
Alignment explanation
Indices: 6647725--6647778 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
6647715 TTAATTCAAT
*
6647725 AATTTAAATATTATATTAAAAATTTTA
1 AATTTAAATATCATATTAAAAATTTTA
*
6647752 AATTTAAATATCATATTAAATATTTTA
1 AATTTAAATATCATATTAAAAATTTTA
6647779 TTATAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
AATTTAAATATCATATTAAAAATTTTA
Found at i:6649829 original size:4 final size:4
Alignment explanation
Indices: 6649820--6649850 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
6649810 GAAGGGATAG
6649820 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGA
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGA
6649851 GAGAGAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.23
Consensus pattern (4 bp):
AGAT
Found at i:6652468 original size:42 final size:42
Alignment explanation
Indices: 6652412--6652496 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
6652402 TGAGATGGTT
* * * * *
6652412 AGAGATGTATGCTAATTAAATTTTATTGTACTGTTTGAGAAA
1 AGAGATGGAGGCTAATTAAATTTTATTGCACTATTTGAAAAA
6652454 AGAGATGGAGGCTAATTAAATTTTATTGCACTATTTGAAAAA
1 AGAGATGGAGGCTAATTAAATTTTATTGCACTATTTGAAAAA
6652496 A
1 A
6652497 AAAATCCTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (42 bp):
AGAGATGGAGGCTAATTAAATTTTATTGCACTATTTGAAAAA
Found at i:6653223 original size:2 final size:2
Alignment explanation
Indices: 6653216--6653246 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6653206 CGGCTTGAGC
6653216 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 T
6653247 TATGCATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6654831 original size:2 final size:2
Alignment explanation
Indices: 6654818--6654850 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6654808 GATGATCAAC
*
6654818 TA TA TC 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 T
6654851 TTTAACAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6662324 original size:24 final size:25
Alignment explanation
Indices: 6662296--6662350 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
6662286 TTTTTATTCG
* *
6662296 ATATATTATTAATGTA-TAAATTTT
1 ATATATTATTAATGAATTAAATTAT
6662320 ATATATTATTAATGAATTAAATTAT
1 ATATATTATTAATGAATTAAATTAT
6662345 AT-TATT
1 ATATATT
6662351 TCATTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
ATATATTATTAATGAATTAAATTAT
Found at i:6680810 original size:24 final size:24
Alignment explanation
Indices: 6680780--6680826 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6680770 AAAAAAATTT
*
6680780 TAAAAAACTT-TTCAATTTACATAA
1 TAAAAAA-TTCTTAAATTTACATAA
6680804 TAAAAAATTCTTAAATTTACATA
1 TAAAAAATTCTTAAATTTACATA
6680827 TCGAAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAAAATTCTTAAATTTACATAA
Found at i:6689146 original size:2 final size:2
Alignment explanation
Indices: 6689139--6689163 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6689129 GCTTGAAGTT
6689139 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6689164 GCTAATACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6691154 original size:15 final size:15
Alignment explanation
Indices: 6691134--6691164 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6691124 AATTGCTAGG
6691134 TAATTGGTATTGGTT
1 TAATTGGTATTGGTT
6691149 TAATTGGTATTGGTT
1 TAATTGGTATTGGTT
6691164 T
1 T
6691165 CCAAAGGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
TAATTGGTATTGGTT
Found at i:6699113 original size:15 final size:15
Alignment explanation
Indices: 6699071--6699121 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
6699061 ATTTATAAGT
*
6699071 AATAAA-AAATTATA
1 AATAAATAAATTTTA
*
6699085 ATTAAATAAA-TTTA
1 AATAAATAAATTTTA
6699099 AATAAATAAATTTTA
1 AATAAATAAATTTTA
*
6699114 AACAAATA
1 AATAAATA
6699122 TAGATGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 17 0.55
15 14 0.45
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAATAAATTTTA
Found at i:6703688 original size:16 final size:16
Alignment explanation
Indices: 6703667--6703697 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6703657 GTGTCCATAA
6703667 GAGGAAAAGAAAATCC
1 GAGGAAAAGAAAATCC
6703683 GAGGAAAAGAAAATC
1 GAGGAAAAGAAAATC
6703698 TTACTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.26, T:0.06
Consensus pattern (16 bp):
GAGGAAAAGAAAATCC
Found at i:6723166 original size:21 final size:21
Alignment explanation
Indices: 6723128--6723167 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6723118 TAATTAATTT
* *
6723128 TAATTTTATCATTGTAATATC
1 TAATTTCATCATTATAATATC
*
6723149 TAATTTCATCGTTATAATA
1 TAATTTCATCATTATAATA
6723168 ATTAATCTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATTTCATCATTATAATATC
Found at i:6723173 original size:21 final size:20
Alignment explanation
Indices: 6723122--6723183 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
6723112 TTCTCATAAT
* * *
6723122 TAATTTTAATTTTATCATTG
1 TAATATTAATTTCATCATTA
*
6723142 TAATATCTAATTTCATCGTTA
1 TAATAT-TAATTTCATCATTA
* *
6723163 TAATAATTAATCTCATTATTA
1 TAAT-ATTAATTTCATCATTA
6723184 ATTATCATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
20 5 0.15
21 26 0.79
22 2 0.06
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (20 bp):
TAATATTAATTTCATCATTA
Found at i:6724646 original size:14 final size:13
Alignment explanation
Indices: 6724603--6724653 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 13
6724593 TTTTATTCAG
*
6724603 TAATTTTTTAAATT
1 TAATTTTTT-AATA
6724617 TAATTTTTT-ATA
1 TAATTTTTTAATA
6724629 -AATTATTTTAATA
1 TAATT-TTTTAATA
6724642 TAA-TTTTTAATA
1 TAATTTTTTAATA
6724654 CATTTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
11 4 0.12
12 14 0.42
13 4 0.12
14 11 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TAATTTTTTAATA
Found at i:6733919 original size:21 final size:22
Alignment explanation
Indices: 6733877--6733928 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
6733867 CTCGAAATTA
*
6733877 ATAAAATAATATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
6733899 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
6733920 AT-AAATATT
1 ATAAAATATT
6733929 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:6733963 original size:30 final size:30
Alignment explanation
Indices: 6733895--6733964 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
6733885 ATATTTTTTA
* * *
6733895 AAATATAAAATATTATTTTTTAAATATAAAT
1 AAATA-AAAATATCATTATATAAATATAAAT
** *
6733926 ATTTAAAAATATCATTATATAAATATATAT
1 AAATAAAAATATCATTATATAAATATAAAT
6733956 AAATAAAAA
1 AAATAAAAA
6733965 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATAAAAATATCATTATATAAATATAAAT
Found at i:6753409 original size:19 final size:19
Alignment explanation
Indices: 6753385--6753425 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
6753375 AATATATCCC
6753385 TTTTGTTTTTTTCTTTTTT
1 TTTTGTTTTTTTCTTTTTT
*
6753404 TTTTGTTTTTTTGTTTTTT
1 TTTTGTTTTTTTCTTTTTT
6753423 TTT
1 TTT
6753426 CTTCTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.90
Consensus pattern (19 bp):
TTTTGTTTTTTTCTTTTTT
Found at i:6753433 original size:18 final size:18
Alignment explanation
Indices: 6753399--6753433 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6753389 GTTTTTTTCT
* *
6753399 TTTTTTTTTGTTTTTTTG
1 TTTTTTTTTCTTCTTTTG
6753417 TTTTTTTTTCTTCTTTT
1 TTTTTTTTTCTTCTTTT
6753434 TATGCCCCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (18 bp):
TTTTTTTTTCTTCTTTTG
Found at i:6754497 original size:195 final size:196
Alignment explanation
Indices: 6754159--6754546 Score: 667
Period size: 195 Copynumber: 2.0 Consensus size: 196
6754149 TTTATTTTTT
6754159 AAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTTCA
1 AAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTTCA
6754224 GTACGTTGGTAACATTAAAAGAACTCTCTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
66 GTACGTTGGTAACATTAAAAGAACTCTCTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
* * *
6754289 ATACTTTTAGAATCTCATCTTT-GGAGG-CTCGAATTTATTTTTCGTAAGAAA-ATGTCATGTTA
131 ATACTTTTAGAATCTCATCTTTGGGAGGTCT-AAATTTACTTTTCGTAAAAAATATGTCATGTTA
6754351 AA
195 AA
*
6754353 AAAAAATTTATTCTCGAGAAAAAATAAATTAAAACCTTTTTATTGAAATAATTCTTAAAATG-TT
1 AAAAAA-TTATTCTCGAG-AAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTT
*
6754417 CAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCG
64 CAGTACGTTGGTAACATTAAAAGAACTCTCTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCG
6754482 GAATACTTTTAGAATCTCATCTTTGGGAGGTCTAAATTTACTTTTCGTAAAAAATTATGTCATGT
129 GAATACTTTTAGAATCTCATCTTTGGGAGGTCTAAATTTACTTTTCGTAAAAAA-TATGTCATGT
6754547 ATGCAATGCA
Statistics
Matches: 183, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
194 6 0.03
195 101 0.55
196 65 0.36
197 2 0.01
198 9 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (196 bp):
AAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTTCA
GTACGTTGGTAACATTAAAAGAACTCTCTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
ATACTTTTAGAATCTCATCTTTGGGAGGTCTAAATTTACTTTTCGTAAAAAATATGTCATGTTAA
A
Found at i:6755060 original size:204 final size:206
Alignment explanation
Indices: 6754666--6755056 Score: 492
Period size: 204 Copynumber: 1.9 Consensus size: 206
6754656 AATTTAATCA
* * * *
6754666 TATTGAAGATTTTCTATAAATATTCCAATACGCTGGTAATATTTTACAAAAAATCTTCTCACCTA
1 TATTGAAAATTTTCTATAAATACTCCAATACACTGGTAATATCTTACAAAAAATCTTCTCACCTA
* * * * *
6754731 GAGATTTCTTAAAGCATCTCTACTCGAATACTTTTAGAATCCCATCATTGGATTAAATTTCTTTT
66 GAGATTTCGTAAAGCATCACTACTCGAATACCTTTAGAATCCCATCATCGGATAAAATTTCTTTT
* *
6754796 CTTCCTATTTTTATTACTTATATTTTTAATTTATTAATCAATTTTTATTTATTATTTTAAAAAAA
131 CTTCCTATTTTTATTACTTATAGTATTAATTTATTAATCAATTTTTATTTATTATTTTAAAAAAA
6754861 AATCTTTACTG
196 AATCTTTACTG
* *
6754872 TATTGAAAATTTTTTATAAATACTCCAATACACTGGTAGTA-CTTA-AAAAAATCTTCTCACCTA
1 TATTGAAAATTTTCTATAAATACTCCAATACACTGGTAATATCTTACAAAAAATCTTCTCACCTA
* * *
6754935 GAGATTTCGT-AGGCATCACTACTCGGAATACCTTT-GAATCTCATCGTCGGATAAAAATTTCCT
66 GAGATTTCGTAAAGCATCACTACTC-GAATACCTTTAGAATCCCATCATCGGAT-AAAATTT-CT
* * ** *
6754998 TTTC-TCTTATTTTTATTAGTT-TAGTATT-A-TTATTAAATTTATTTTTATATTATTGTTTT
128 TTTCTTCCTATTTTTATTACTTATAGTATTAATTTATT-AATCAATTTTTAT-TTATTATTTT
6755057 TAAAGTTTAT
Statistics
Matches: 159, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
201 5 0.03
202 12 0.08
203 40 0.25
204 57 0.36
205 9 0.06
206 36 0.23
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.46
Consensus pattern (206 bp):
TATTGAAAATTTTCTATAAATACTCCAATACACTGGTAATATCTTACAAAAAATCTTCTCACCTA
GAGATTTCGTAAAGCATCACTACTCGAATACCTTTAGAATCCCATCATCGGATAAAATTTCTTTT
CTTCCTATTTTTATTACTTATAGTATTAATTTATTAATCAATTTTTATTTATTATTTTAAAAAAA
AATCTTTACTG
Found at i:6756095 original size:12 final size:12
Alignment explanation
Indices: 6756078--6756128 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
6756068 TGTAGGGTGA
6756078 CTGGTCGGGAGG
1 CTGGTCGGGAGG
*
6756090 CTGGTCGGGGGG
1 CTGGTCGGGAGG
*
6756102 CTGGTAGGGTA-G
1 CTGGTCGGG-AGG
*
6756114 TTGGTCGGG-GG
1 CTGGTCGGGAGG
6756125 CTGG
1 CTGG
6756129 CGACAGCGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
11 4 0.13
12 27 0.87
ACGTcount: A:0.06, C:0.14, G:0.59, T:0.22
Consensus pattern (12 bp):
CTGGTCGGGAGG
Found at i:6756406 original size:49 final size:49
Alignment explanation
Indices: 6756350--6756780 Score: 603
Period size: 47 Copynumber: 9.0 Consensus size: 49
6756340 ATTCTCTTAG
*
6756350 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGA
1 AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGA
** *
6756399 AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATT-TTTTCTTAAA
1 AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTT-GA
* *
6756448 AAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TCTCAT-TTGG
1 AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGA
* * *
6756495 AAAAGCTCCTCTCAACAAAGGCTCCACAACTTTAAAATTCTCATCCT-A
1 AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGA
* * *
6756543 GAAAAGCTCCTCTCAGCAGAGGTTCCACAATTTTAAAATTCTCATCTTGG
1 -AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGA
* * * *
6756593 AAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAA-TCTCATC-TGG
1 AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGA
*
6756640 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTG-
1 AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGA
*
6756687 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT-TC-TCTTGA
1 AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGA
*
6756734 AAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTT
1 AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTT
6756781 TTCAAATTTG
Statistics
Matches: 344, Mismatches: 27, Indels: 22
0.88 0.07 0.06
Matches are distributed among these distances:
46 5 0.01
47 157 0.46
48 26 0.08
49 156 0.45
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (49 bp):
AAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGA
Found at i:6756517 original size:47 final size:48
Alignment explanation
Indices: 6756344--6756780 Score: 594
Period size: 49 Copynumber: 9.1 Consensus size: 48
6756334 AAATAAATTC
* *
6756344 TCTTAGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCA
1 TCTTGGAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAA-TCTCA
* * **
6756393 TCTTGAAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTTTT
1 TCTTGGAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATCTCA
** *
6756441 TCTTAAAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCA
1 TCTT-GGAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATCTCA
* *
6756490 T-TTGGAAAAGCTCCTCTCAACAAAGGCTCCACAACTTTAAAATTCTCA
1 TCTTGGAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAA-TCTCA
* * * *
6756538 TCCTAGAAAAGCTCCTCTCAGCAGAGGTTCCACAATTTTAAAATTCTCA
1 TCTTGGAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAA-TCTCA
* * *
6756587 TCTTGGAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCTCA
1 TCTTGGAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATCTCA
*
6756635 TC-TGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCA
1 TCTTGGAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATCTCA
* *
6756682 TCTT-GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTC-
1 TCTTGGAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATCTCA
* *
6756728 TCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCA
1 TCTTGGAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAA-TCTCA
6756777 TCTT
1 TCTT
6756781 TTCAAATTTG
Statistics
Matches: 347, Mismatches: 34, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
46 4 0.01
47 157 0.45
48 25 0.07
49 161 0.46
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (48 bp):
TCTTGGAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATCTCA
Found at i:6756612 original size:145 final size:142
Alignment explanation
Indices: 6756349--6756779 Score: 675
Period size: 145 Copynumber: 3.0 Consensus size: 142
6756339 AATTCTCTTA
6756349 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAAGCTCCTCTCAG
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTG-AAAAGCTCCTCTCAG
* *
6756414 CAGAGGCTCCACAACTTTAAAATTTTTTCTTAAAAAAAGCTCCTCTCAACAGAGGCTCCACAACT
65 CAGAGGCTCCACAACTTTAAAA-TTTCTCTT-GAAAAAGCTCCTCTCAACAGAGGCTCCACAACT
*
6756479 TTAAAATCTCATTTG
128 TTAAAATCTCATCTG
* * * *
6756494 GAAAAGCTCCTCTCAACAAAGGCTCCACAACTTTAAAATTCTCATCCTAGAAAAGCTCCTCTCAG
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCAT-CTTGAAAAGCTCCTCTCAG
* * * * *
6756559 CAGAGGTTCCACAATTTTAAAATTCTCATCTTGGAAAAGCTCATCTCAACAGAGGCTCAACAACT
65 CAGAGGCTCCACAACTTTAAAATT-TC-TCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACT
6756624 TTAAAATCTCATCTG
128 TTAAAATCTCATCTG
6756639 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTGAAAAGCTCCTCTCAGC
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAGCTCCTCTCAGC
*
6756703 AGAGGCTCAACAACTTTAAAATTTCTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTA
66 AGAGGCTCCACAACTTTAAAATTTCTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTA
6756768 AAATTCTCATCT
131 AAA-TCTCATCT
6756780 TTTCAAATTT
Statistics
Matches: 260, Mismatches: 22, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
141 40 0.15
142 10 0.04
143 39 0.15
144 8 0.03
145 156 0.60
146 7 0.03
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (142 bp):
GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAGCTCCTCTCAGC
AGAGGCTCCACAACTTTAAAATTTCTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTA
AAATCTCATCTG
Found at i:6768657 original size:193 final size:192
Alignment explanation
Indices: 6768312--6768693 Score: 669
Period size: 193 Copynumber: 2.0 Consensus size: 192
6768302 TTTATTTATT
6768312 AAAAATTATTCTCGAGAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCAGT
1 AAAAATTATTCTCGAGAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCAGT
6768377 ACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGAAT
66 ACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGAAT
* * *
6768442 ACTTTTAGAATCTCATCTTTGGAGG-CTCGAATTTATTTTTCGTAAGAAA-ATGTCATGTTAA
131 ACTTTTAGAATCTCATCTTTGGAGGTCT-AAACTTACTTTTCGTAAGAAATATGTCATGTTAA
*
6768503 AAAAATTTATTCTCGAGAAAAATAAATTAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCA
1 AAAAA-TTATTCTCGAG-AAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCA
*
6768568 GTACGTTGGTAACATTAAAAGAATTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
64 GTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
6768633 ATACTTTTAGAATCTCATCTTTGGAGGTCTAAACTTACTTTTCGTAAGAAATTATGTCATG
129 ATACTTTTAGAATCTCATCTTTGGAGGTCTAAACTTACTTTTCGTAAGAAA-TATGTCATG
6768694 CATGCCATGC
Statistics
Matches: 181, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
191 5 0.03
192 11 0.06
193 155 0.86
194 2 0.01
195 8 0.04
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (192 bp):
AAAAATTATTCTCGAGAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCAGT
ACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGAAT
ACTTTTAGAATCTCATCTTTGGAGGTCTAAACTTACTTTTCGTAAGAAATATGTCATGTTAA
Found at i:6769189 original size:207 final size:205
Alignment explanation
Indices: 6768808--6769190 Score: 506
Period size: 207 Copynumber: 1.8 Consensus size: 205
6768798 AATTTAATCA
*
6768808 TATTGAAAATTTTCTATAAATATTCCAATACGCTGGTAATATTTTAAAAAAATCTTCTCACCTAG
1 TATTGAAAATTTTCTATAAATACTCCAATACGCTGGTAATATTTTAAAAAAATCTTCTCACCTAG
* * * * *
6768873 AGATTTCTTAAAGCATCTCTACTCGGAATACTTTTAGAATCTCATCATTGGATTAAATTTTTTTC
66 AGATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAATCTCATCATCGGATAAAATTTTTTTC
* * * *
6768938 TTCCTATTTTATTACTTATATTTTTAATATATTCATCAATTTTTATTTATTATTCTTAAAAAAGA
131 TTCATATTTTATCACTTATATTATTAATAAATT-AT-AATTTTTATTTATTATTCTTAAAAAAGA
6769003 AAATCTTTACTG
194 AAATCTTTACTG
* *
6769015 TATTGAAAAATTTTTTATAAATACTCCAATACGCTGGTAGTA-TTTAAAAAAATCTTCTCACCTA
1 TATTG-AAAATTTTCTATAAATACTCCAATACGCTGGTAATATTTTAAAAAAATCTTCTCACCTA
* *
6769079 GAGATTTCGT-AGGCATCACTACTCGGAATACCTTTA-AATCTCATCGTCGGATAAAAATTTTCT
65 GAGATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAATCTCATCATCGGAT-AAAA-TTT-T
* *
6769142 TTTCTTTCATTTTTTATCACTTTAGTATTATTATTAAATT-T-ATTTTTAT
127 TTTC-TTCATATTTTATCAC-TTA-TATTATTAATAAATTATAATTTTTAT
6769191 ATAATTGTTT
Statistics
Matches: 153, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
205 14 0.09
206 26 0.17
207 47 0.31
208 38 0.25
209 13 0.08
210 3 0.02
211 12 0.08
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.45
Consensus pattern (205 bp):
TATTGAAAATTTTCTATAAATACTCCAATACGCTGGTAATATTTTAAAAAAATCTTCTCACCTAG
AGATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAATCTCATCATCGGATAAAATTTTTTTC
TTCATATTTTATCACTTATATTATTAATAAATTATAATTTTTATTTATTATTCTTAAAAAAGAAA
ATCTTTACTG
Found at i:6769422 original size:11 final size:10
Alignment explanation
Indices: 6769405--6769434 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
6769395 GGTCCAGTAC
6769405 CGGTTCGGTT
1 CGGTTCGGTT
6769415 CGGTTTCGGTT
1 CGG-TTCGGTT
6769426 CGGTTCGGT
1 CGGTTCGGT
6769435 CTGGGCGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.00, C:0.20, G:0.40, T:0.40
Consensus pattern (10 bp):
CGGTTCGGTT
Found at i:6769450 original size:5 final size:5
Alignment explanation
Indices: 6769405--6769434 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
6769395 GGTCCAGTAC
6769405 CGGTT CGGTT CGGTTT CGGTT CGGTT CGGT
1 CGGTT CGGTT CGG-TT CGGTT CGGTT CGGT
6769435 CTGGGCGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.20, G:0.40, T:0.40
Consensus pattern (5 bp):
CGGTT
Found at i:6770267 original size:12 final size:12
Alignment explanation
Indices: 6770250--6770300 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
6770240 TGTAGGGTGA
6770250 CTGGTCGGGAGG
1 CTGGTCGGGAGG
*
6770262 CTGGTCGGGGGG
1 CTGGTCGGGAGG
*
6770274 CTGGTAGGGTA-G
1 CTGGTCGGG-AGG
*
6770286 TTGGTCGGG-GG
1 CTGGTCGGGAGG
6770297 CTGG
1 CTGG
6770301 CGACAGCGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
11 4 0.13
12 27 0.87
ACGTcount: A:0.06, C:0.14, G:0.59, T:0.22
Consensus pattern (12 bp):
CTGGTCGGGAGG
Found at i:6770365 original size:13 final size:13
Alignment explanation
Indices: 6770343--6770382 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6770333 TATCTTATTC
*
6770343 TGTTTCTTTTGTT
1 TGTTTATTTTGTT
6770356 TGTTTATTTTGTT
1 TGTTTATTTTGTT
* *
6770369 TTTTTGTTTTGTT
1 TGTTTATTTTGTT
6770382 T
1 T
6770383 ATTAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.03, C:0.03, G:0.15, T:0.80
Consensus pattern (13 bp):
TGTTTATTTTGTT
Found at i:6770368 original size:22 final size:22
Alignment explanation
Indices: 6770337--6770385 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
6770327 GACTTCTATC
6770337 TTATTCTGTTTCTTTTG-TTTGT
1 TTATTCTGTTT-TTTTGTTTTGT
*
6770359 TTATTTTGTTTTTTTGTTTTGT
1 TTATTCTGTTTTTTTGTTTTGT
6770381 TTATT
1 TTATT
6770386 AATAAAATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.06, C:0.04, G:0.12, T:0.78
Consensus pattern (22 bp):
TTATTCTGTTTTTTTGTTTTGT
Found at i:6770646 original size:24 final size:25
Alignment explanation
Indices: 6770601--6770649 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6770591 ACCTTCTAAC
*
6770601 CATAATTACGAAAATATCATCTTAT
1 CATAATTACAAAAATATCATCTTAT
6770626 CATAATTACAAAAATAT-ATCTTAT
1 CATAATTACAAAAATATCATCTTAT
6770650 AATATAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (25 bp):
CATAATTACAAAAATATCATCTTAT
Found at i:6771515 original size:26 final size:26
Alignment explanation
Indices: 6771462--6771516 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
6771452 TTTCCTATAA
* *
6771462 TTAACAAATTTATTATAATGGCCCTT
1 TTAACAAATTTATTAAAATGACCCTT
*
6771488 TTAACATATTTATTAAAAT-ACCCATT
1 TTAACAAATTTATTAAAATGACCC-TT
6771514 TTA
1 TTA
6771517 TCCTAATTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.44
Consensus pattern (26 bp):
TTAACAAATTTATTAAAATGACCCTT
Found at i:6772397 original size:18 final size:19
Alignment explanation
Indices: 6772374--6772413 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6772364 TTTTTTATGA
*
6772374 AAATATTATAATTATA-AT
1 AAATATTACAATTATATAT
*
6772392 AAATATTACATTTATATAT
1 AAATATTACAATTATATAT
6772411 AAA
1 AAA
6772414 AATCATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATATTACAATTATATAT
Found at i:6772878 original size:37 final size:37
Alignment explanation
Indices: 6772825--6772905 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
6772815 TATTTCACGG
* *
6772825 GTAATTATTATTTATTATTAAAGTTTTGATTTAACAC
1 GTAATTATTATATATTATTAAAGTTTAGATTTAACAC
*
6772862 GTAATTATTATATATTATTAAAGTTTAGGTTTAACAC
1 GTAATTATTATATATTATTAAAGTTTAGATTTAACAC
*
6772899 GTTATTA
1 GTAATTA
6772906 CATGAGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (37 bp):
GTAATTATTATATATTATTAAAGTTTAGATTTAACAC
Found at i:6775312 original size:33 final size:34
Alignment explanation
Indices: 6775264--6775340 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
6775254 AACTTTTTGA
*
6775264 AAAAGTTTATGAAAA-TTTATTTCTAATAAGTTAT
1 AAAA-TTTATCAAAATTTTATTTCTAATAAGTTAT
* *
6775298 AAAATTTATCAAAATTTTATTTTTGATAAGTTAT
1 AAAATTTATCAAAATTTTATTTCTAATAAGTTAT
6775332 AAAATTTAT
1 AAAATTTAT
6775341 TGAATATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 9 0.23
34 30 0.77
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (34 bp):
AAAATTTATCAAAATTTTATTTCTAATAAGTTAT
Found at i:6786944 original size:13 final size:13
Alignment explanation
Indices: 6786926--6786951 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6786916 CAAAAAGAAT
6786926 TTTAAAATATAAA
1 TTTAAAATATAAA
6786939 TTTAAAATATAAA
1 TTTAAAATATAAA
6786952 AAATAAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAAAATATAAA
Found at i:6803115 original size:29 final size:29
Alignment explanation
Indices: 6803071--6803136 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
6803061 TCGATAGGGG
* *
6803071 ATTGAATAGTGTACTAGTTTGGTTTCCAT
1 ATTGAATAGTGGACTAGTTTGCTTTCCAT
*
6803100 ATTGAATAGTGGACTAGTTTGCTTTCCTT
1 ATTGAATAGTGGACTAGTTTGCTTTCCAT
6803129 ATTGAATA
1 ATTGAATA
6803137 ACTACAGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.44
Consensus pattern (29 bp):
ATTGAATAGTGGACTAGTTTGCTTTCCAT
Found at i:6804145 original size:43 final size:43
Alignment explanation
Indices: 6804082--6804168 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
6804072 ATGAGAGAAC
* * *
6804082 TCTTAAACCGCTTCTGTGTGGTCAAGTTCACTTACACAACTTG
1 TCTTAAACCCCCTCTATGTGGTCAAGTTCACTTACACAACTTG
* *
6804125 TCTTAAACCCCCTCTATGTGGTCAAGTTCACTTGCACAATTTG
1 TCTTAAACCCCCTCTATGTGGTCAAGTTCACTTACACAACTTG
6804168 T
1 T
6804169 TATACTTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (43 bp):
TCTTAAACCCCCTCTATGTGGTCAAGTTCACTTACACAACTTG
Found at i:6812712 original size:2 final size:2
Alignment explanation
Indices: 6812707--6812756 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
6812697 AGTGTGTACA
6812707 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
6812748 AG AC AG AG A
1 AG AG AG AG A
6812757 ATAGGAAGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.52, C:0.02, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6818392 original size:20 final size:21
Alignment explanation
Indices: 6818340--6818392 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
6818330 ATTTTAATTT
6818340 TTTATATATTAATTTAATAAAAA
1 TTTATATA-T-ATTTAATAAAAA
*
6818363 TTT-TATTATATTTAA-ATAAA
1 TTTATA-TATATTTAATAAAAA
6818383 TTTATATATA
1 TTTATATATA
6818393 AATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 11 0.41
21 8 0.30
22 3 0.11
23 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTATATATATTTAATAAAAA
Found at i:6821440 original size:33 final size:33
Alignment explanation
Indices: 6821379--6821454 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 33
6821369 AGTCAAAGGA
* * ** *
6821379 AAAAATTTAAATAAAATTTTTTAGATGAAATTC
1 AAAAATTAAAAAAAAATGATTTAGATGAAAATC
6821412 ATAAAATTAAAAAAAAATGATTTA-ATGAAAATC
1 A-AAAATTAAAAAAAAATGATTTAGATGAAAATC
6821445 AAAAA-TAAAA
1 AAAAATTAAAA
6821455 TCAAAATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 5 0.14
32 4 0.11
33 10 0.27
34 18 0.49
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (33 bp):
AAAAATTAAAAAAAAATGATTTAGATGAAAATC
Found at i:6822744 original size:26 final size:25
Alignment explanation
Indices: 6822715--6822771 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
6822705 TTTTTTTATC
*
6822715 CAAAAATACCTTCAATAATCTCTTTA
1 CAAAAACACCTTCAATAATCT-TTTA
* *
6822741 CAAAAACGCCTTTAATAATCTTTTA
1 CAAAAACACCTTCAATAATCTTTTA
*
6822766 TAAAAA
1 CAAAAA
6822772 ATTTTTGAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (25 bp):
CAAAAACACCTTCAATAATCTTTTA
Found at i:6822770 original size:24 final size:26
Alignment explanation
Indices: 6822723--6822771 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6822713 TCCAAAAATA
6822723 CCTTCAATAATCTCTTTACAAAAACG
1 CCTTCAATAATCTCTTTACAAAAACG
* *
6822749 CCTTTAATAATCT-TTTATAAAAA
1 CCTTCAATAATCTCTTTACAAAAA
6822772 ATTTTTGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (26 bp):
CCTTCAATAATCTCTTTACAAAAACG
Found at i:6824575 original size:2 final size:2
Alignment explanation
Indices: 6824568--6824611 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
6824558 GCTTGATAAG
6824568 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6824609 TA T
1 TA T
6824612 GCTTTGTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6826881 original size:16 final size:17
Alignment explanation
Indices: 6826854--6826887 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6826844 ATTTTTGTTC
*
6826854 TAATTATATTTAATATT
1 TAATTATATTTAAAATT
6826871 TAATT-TATTTAAAATT
1 TAATTATATTTAAAATT
6826887 T
1 T
6826888 TCATTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTATATTTAAAATT
Found at i:6829583 original size:19 final size:20
Alignment explanation
Indices: 6829561--6829606 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
6829551 TTAAAATTTT
* *
6829561 TATTTTTATTATGAT-TTGA
1 TATTTTAATTATAATATTGA
*
6829580 TATTTTAATTATAATATTTA
1 TATTTTAATTATAATATTGA
6829600 TATTTTA
1 TATTTTA
6829607 TATATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TATTTTAATTATAATATTGA
Found at i:6829600 original size:37 final size:38
Alignment explanation
Indices: 6829544--6829615 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
6829534 AAGTTTATTA
* *
6829544 ATTTTCATTAAAATTTTTAT-TTTTAT-TATGATTTGAT
1 ATTTTAATTAAAATATTTATATTTTATATAT-ATTTGAT
*
6829581 ATTTTAATTATAATATTTATATTTTATATATATTT
1 ATTTTAATTAAAATATTTATATTTTATATATATTT
6829616 TGAACAGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 17 0.57
38 10 0.33
39 3 0.10
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (38 bp):
ATTTTAATTAAAATATTTATATTTTATATATATTTGAT
Found at i:6829612 original size:20 final size:19
Alignment explanation
Indices: 6829558--6829616 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
6829548 TCATTAAAAT
*
6829558 TTTTAT-TTTTAT-TATGA
1 TTTTATATTTTATATATAA
*
6829575 TTTGATATTTTA-ATTATAA
1 TTTTATATTTTATA-TATAA
6829594 TATTTATATTTTATATAT-A
1 T-TTTATATTTTATATATAA
6829613 TTTT
1 TTTT
6829617 GAACAGGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
17 5 0.15
18 8 0.24
19 7 0.21
20 13 0.38
21 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATATTTTATATATAA
Found at i:6836308 original size:25 final size:25
Alignment explanation
Indices: 6836259--6836324 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
6836249 CAACAACAAC
* * *
6836259 AATAATAAT-AAT-AATATCATCAA
1 AATAAAAATAAATAAATAGCATAAA
6836282 AATAAAAATAAATAAATAGCATAAA
1 AATAAAAATAAATAAATAGCATAAA
*
6836307 AATAACACA-AAATAAATA
1 AATAA-AAATAAATAAATA
6836325 AATTCAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.22
24 3 0.08
25 23 0.64
26 2 0.06
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.23
Consensus pattern (25 bp):
AATAAAAATAAATAAATAGCATAAA
Found at i:6838885 original size:34 final size:34
Alignment explanation
Indices: 6838846--6838910 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
6838836 TTATATTTTA
6838846 ATCTTATTAGATGTTGTGTTTTAAGAATGATAAC
1 ATCTTATTAGATGTTGTGTTTTAAGAATGATAAC
6838880 ATCTTATTAGATGTTGTGTTTTAAGAATGAT
1 ATCTTATTAGATGTTGTGTTTTAAGAATGAT
6838911 TGTATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (34 bp):
ATCTTATTAGATGTTGTGTTTTAAGAATGATAAC
Found at i:6838939 original size:10 final size:10
Alignment explanation
Indices: 6838924--6838949 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6838914 ATAAATTAAT
6838924 TTAATTATAA
1 TTAATTATAA
6838934 TTAATTATAA
1 TTAATTATAA
6838944 TTAATT
1 TTAATT
6838950 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTAATTATAA
Found at i:6840626 original size:414 final size:414
Alignment explanation
Indices: 6839856--6840627 Score: 1088
Period size: 414 Copynumber: 1.9 Consensus size: 414
6839846 AAAATTATTC
*
6839856 TTAAATTATAATAAAATATTTAAAATAATATCTAAATTTTTAAAATTTTTATTATGATATTTAAA
1 TTAAATTATAATAAAATATTTAAAATAATATCTAAATTTTTAAAATTTTTATTATAATATTTAAA
* * * * *
6839921 TTATAGATTTATTAATTAATTTAATATTTAAAAATTATTTATCTATCACGTATTATAATTTGAAA
66 TTATAAATTTATTAATTAATATAATATTTAAAAATTATTTATCTATCACATATCATAATTTAAAA
* **
6839986 TTATTTACATTAGTAAAAGTATCAAATTAATTAAAAAATTATATTTCAGATTTAATATTAAAAAA
131 TTATTTACATTAGTAAAAGTATCAAATTAATTAAAAAATTATATTTCAAATACAATATTAAAAAA
* * * *
6840051 TTAAGTCTCATTTTTTTGTGTGGAGAAATAAAAAACTGAAGCAATATTATTCAATATTTGGACCT
196 TTAAGTCCCATTTTTTTGTGTGGAGAAATAAAAAACTGAAGCAATATCATTCAATATGTGAACCT
** * * *
6840116 AACTCATCTTAATTTCTCTTAATGTATTTCTAACTAACGTACTCACTCAATGGTTGATATTAAGA
261 AACTCATCTTAATTTCTCTTAACATAGTTCTAACTAACGTACTCACTCAATGCTTGATATTAAAA
6840181 AGTTGAAAATTCCAAAGGAAGGGCTCCATCCTTCTTTTATGCCGAATTATAAATAGGATTAAACT
326 AGTTGAAAATTCCAAAGGAAGGGCTCCATCCTTCTTTTATGCCGAATTATAAATAGGATTAAACT
6840246 TTACTTGGATTAAACAAATAAAGA
391 TTACTTGGATTAAACAAATAAAGA
** * * *
6840270 TTAAATTATAATAAAATATTTAATTTGATATTTAAA-TTTTAAAATTTTTGTTATAATATTTAAA
1 TTAAATTATAATAAAATATTTAAAATAATATCTAAATTTTTAAAATTTTTATTATAATATTTAAA
* *
6840334 TTATAAATTTATTAATTAATATAATATTTAAAAAATTATTTATTTATCACATATCATCATTTAAA
66 TTATAAATTTATTAATTAATATAATATTT-AAAAATTATTTATCTATCACATATCATAATTTAAA
* * * * * *
6840399 ATTATTTATATTAG-AGAGAA-TCTCATATTAATTAAAAATTTTATATTTTAAATACAATATTAG
130 ATTATTTACATTAGTA-A-AAGTATCAAATTAATTAAAAA-ATTATATTTCAAATACAATATTAA
** * *
6840462 AAAATTAAGTCCCATTTTTTTGTGTGGAGCGGA-AAAATATTGAAGCAATATCATT-AATATGTG
192 AAAATTAAGTCCCATTTTTTTGTGTGGAG-AAATAAAAAACTGAAGCAATATCATTCAATATGTG
* * *
6840525 AACCTAACTCATCTTAATTTCT-TGTCACATCGTTCTAAGTAACGTACTCACTCAATGCTTGATA
256 AACCTAACTCATCTTAATTTCTCT-TAACATAGTTCTAACTAACGTACTCACTCAATGCTTGATA
**
6840589 TTAAAAAGTTGAAAATTCCAAAGGGCGGGCTCCATCCTT
320 TTAAAAAGTTGAAAATTCCAAAGGAAGGGCTCCATCCTT
6840628 TGCTTACGCA
Statistics
Matches: 312, Mismatches: 40, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
413 55 0.18
414 189 0.61
415 67 0.21
416 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (414 bp):
TTAAATTATAATAAAATATTTAAAATAATATCTAAATTTTTAAAATTTTTATTATAATATTTAAA
TTATAAATTTATTAATTAATATAATATTTAAAAATTATTTATCTATCACATATCATAATTTAAAA
TTATTTACATTAGTAAAAGTATCAAATTAATTAAAAAATTATATTTCAAATACAATATTAAAAAA
TTAAGTCCCATTTTTTTGTGTGGAGAAATAAAAAACTGAAGCAATATCATTCAATATGTGAACCT
AACTCATCTTAATTTCTCTTAACATAGTTCTAACTAACGTACTCACTCAATGCTTGATATTAAAA
AGTTGAAAATTCCAAAGGAAGGGCTCCATCCTTCTTTTATGCCGAATTATAAATAGGATTAAACT
TTACTTGGATTAAACAAATAAAGA
Found at i:6841914 original size:52 final size:53
Alignment explanation
Indices: 6841831--6841936 Score: 178
Period size: 52 Copynumber: 2.0 Consensus size: 53
6841821 AATGACAGCC
* *
6841831 TGCCATACATTTAAAGCAAATAAGGAATGCAGTTACAAATCTGAATGAATAAT
1 TGCCATACATTTAAAGCAAATAAGAAATGCAGTTACAAATCTGAATAAATAAT
*
6841884 TGCCATATATTT-AAGCAAATAAGAAATGCAGTTACAAATCTGAATAAATAAT
1 TGCCATACATTTAAAGCAAATAAGAAATGCAGTTACAAATCTGAATAAATAAT
6841936 T
1 T
6841937 TTCTTTCTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
52 39 0.78
53 11 0.22
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.28
Consensus pattern (53 bp):
TGCCATACATTTAAAGCAAATAAGAAATGCAGTTACAAATCTGAATAAATAAT
Found at i:6842969 original size:16 final size:18
Alignment explanation
Indices: 6842950--6842986 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6842940 ATTATCGTTT
6842950 TTTAAAATA-T-ATATAA
1 TTTAAAATATTAATATAA
*
6842966 TTTAAATTATTAATATAA
1 TTTAAAATATTAATATAA
6842984 TTT
1 TTT
6842987 TTAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTAAAATATTAATATAA
Found at i:6842999 original size:20 final size:19
Alignment explanation
Indices: 6842948--6843000 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 19
6842938 AAATTATCGT
6842948 TTTTTAAAATAT-ATATAA
1 TTTTTAAAATATAATATAA
*
6842966 --TTTAAATTATTAATATAA
1 TTTTTAAAATA-TAATATAA
6842984 TTTTTAAAAATATAATA
1 TTTTT-AAAATATAATA
6843001 AGATATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 8 0.29
17 1 0.04
18 6 0.21
20 8 0.29
21 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTTAAAATATAATATAA
Found at i:6843882 original size:31 final size:30
Alignment explanation
Indices: 6843847--6843915 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
6843837 ATTCAAGAAT
* *
6843847 TTAATTGGGATGAAAATAAATATTCAAAGA
1 TTAATTGAGATAAAAATAAATATTCAAAGA
* *
6843877 GTTAATT-ATATAAAAATAAATATTTAAAGA
1 -TTAATTGAGATAAAAATAAATATTCAAAGA
6843907 TTGAATTGA
1 TT-AATTGA
6843916 TATGAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 2 0.06
30 23 0.72
31 7 0.22
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (30 bp):
TTAATTGAGATAAAAATAAATATTCAAAGA
Found at i:6843937 original size:30 final size:30
Alignment explanation
Indices: 6843890--6843946 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
6843880 AATTATATAA
*
6843890 AAATAAATATTTAAAGA-TTGAATTGATATG
1 AAATAAAAATTTAAAGATTTG-ATTGATATG
6843920 AAATAAAAAATTT-AAGATTTGATTGAT
1 AAAT-AAAAATTTAAAGATTTGATTGAT
6843947 TATAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (30 bp):
AAATAAAAATTTAAAGATTTGATTGATATG
Found at i:6851932 original size:22 final size:22
Alignment explanation
Indices: 6851904--6851945 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6851894 AAGGTCATTG
* *
6851904 GGCCTTGAGTTTGCTGAAGAAA
1 GGCCTTGAGATAGCTGAAGAAA
6851926 GGCCTTGAGATAGCTGAAGA
1 GGCCTTGAGATAGCTGAAGA
6851946 GAAAAGTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (22 bp):
GGCCTTGAGATAGCTGAAGAAA
Found at i:6857518 original size:27 final size:28
Alignment explanation
Indices: 6857479--6857531 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
6857469 AATTTTATTT
** *
6857479 AAAATTATTATTTTAAT-TTTAATCACC
1 AAAATTAAAATTTTAATGTTCAATCACC
6857506 AAAATTAAAATTTTAATGTTCAATCA
1 AAAATTAAAATTTTAATGTTCAATCA
6857532 AGGATCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (28 bp):
AAAATTAAAATTTTAATGTTCAATCACC
Found at i:6858214 original size:10 final size:10
Alignment explanation
Indices: 6858190--6858219 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6858180 TATTTTATTG
6858190 ATTAAAATA-
1 ATTAAAATAT
6858199 ATTAAAATAT
1 ATTAAAATAT
6858209 ATTAAAATAT
1 ATTAAAATAT
6858219 A
1 A
6858220 AAAACTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:6858231 original size:19 final size:19
Alignment explanation
Indices: 6858186--6858231 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
6858176 AAAATATTTT
*
6858186 ATTGATTAAAATAATTAAA
1 ATTGATTAAAATAATAAAA
6858205 ATAT-ATTAAAAT-ATAAAA
1 AT-TGATTAAAATAATAAAA
6858223 ACTTGATTA
1 A-TTGATTA
6858232 GGTTCGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 7 0.30
19 15 0.65
20 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (19 bp):
ATTGATTAAAATAATAAAA
Found at i:6860665 original size:2 final size:2
Alignment explanation
Indices: 6860652--6860690 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
6860642 CATCATATTT
*
6860652 GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
6860691 GGTAGCTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6861445 original size:22 final size:21
Alignment explanation
Indices: 6861403--6861447 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
6861393 GGAAGCATTT
6861403 TATCTATAATTTTTATTATAA
1 TATCTATAATTTTTATTATAA
6861424 TATC-ATAATTATTTAATTATAA
1 TATCTATAATT-TTT-ATTATAA
6861446 TA
1 TA
6861448 AAAAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 9 0.41
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TATCTATAATTTTTATTATAA
Found at i:6864113 original size:2 final size:2
Alignment explanation
Indices: 6864106--6864139 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6864096 ACCAATTGAA
* *
6864106 AT AT AT AT AT AT AT AT GT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6864140 TTATTTATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6864126 original size:12 final size:12
Alignment explanation
Indices: 6864106--6864139 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
6864096 ACCAATTGAA
*
6864106 ATATATATATAT
1 ATATGTATATAT
6864118 ATATGTATATAT
1 ATATGTATATAT
6864130 ATATGTATAT
1 ATATGTATAT
6864140 TTATTTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:6864828 original size:52 final size:52
Alignment explanation
Indices: 6864742--6864898 Score: 210
Period size: 52 Copynumber: 3.0 Consensus size: 52
6864732 TATAACCATA
* * *
6864742 CAAACTTGTCAATTAAAAATCTTTTTTCTCTTAGAATTTTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAAAATCTTTTTTCTCTTAGAATTTTTCTCTTGCAAGT
* * *
6864794 CAAACTTGCCTATTAAGAATATCTTTCTT-T-TTAGAATTCTTCTCTTACAAGT
1 CAAACTTGCCTATTAA-AA-ATCTTTTTTCTCTTAGAATTTTTCTCTTGCAAGT
* *
6864846 CAAACTTACCTATTAAAAATCTTTTTTCTCTTAGAATTTTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAAAATCTTTTTTCTCTTAGAATTTTTCTCTTGCAAGT
6864898 C
1 C
6864899 TTCTTGTCCA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
50 8 0.09
51 3 0.03
52 68 0.76
53 3 0.03
54 8 0.09
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (52 bp):
CAAACTTGCCTATTAAAAATCTTTTTTCTCTTAGAATTTTTCTCTTGCAAGT
Found at i:6864958 original size:11 final size:11
Alignment explanation
Indices: 6864925--6864964 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
6864915 AATATTTGAT
*
6864925 AAATCTCAATC
1 AAATCTCAAAC
*
6864936 AAATCTCTAAC
1 AAATCTCAAAC
6864947 AAATCTCAAAC
1 AAATCTCAAAC
*
6864958 AACTCTC
1 AAATCTC
6864965 TTATAAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:6876264 original size:3 final size:3
Alignment explanation
Indices: 6876256--6876295 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6876246 GCAAGCCTTC
6876256 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6876296 CTTGCTTGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6879715 original size:2 final size:2
Alignment explanation
Indices: 6879708--6879738 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6879698 TAATTTCATA
6879708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6879739 CAAAACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6881492 original size:6 final size:6
Alignment explanation
Indices: 6881475--6881508 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6881465 GTGGGAGGGG
* *
6881475 ATGGAA ACGGAA ATGGAA ATGGAA AGGGAA ATGG
1 ATGGAA ATGGAA ATGGAA ATGGAA ATGGAA ATGG
6881509 TGGGATGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.03, G:0.38, T:0.12
Consensus pattern (6 bp):
ATGGAA
Found at i:6884427 original size:29 final size:29
Alignment explanation
Indices: 6884369--6884427 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
6884359 ATGTTACGAA
* *
6884369 TTTAAAAGTTTGGAGATCAATAAGTGATT
1 TTTAAAAGTTTGGAGACCAATAAATGATT
6884398 TTTAATAA-TTTGGAGACCAATATAAT-ATT
1 TTTAA-AAGTTTGGAGACCAATA-AATGATT
6884427 T
1 T
6884428 CGCCAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (29 bp):
TTTAAAAGTTTGGAGACCAATAAATGATT
Found at i:6884868 original size:18 final size:19
Alignment explanation
Indices: 6884841--6884876 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6884831 TAATATTAAG
*
6884841 TTCAAGTTCGA-GTTCAAT
1 TTCAAATTCGAGGTTCAAT
6884859 TTCAAATTCGAGGTTCAA
1 TTCAAATTCGAGGTTCAA
6884877 AATTCGGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (19 bp):
TTCAAATTCGAGGTTCAAT
Found at i:6886906 original size:16 final size:15
Alignment explanation
Indices: 6886870--6886944 Score: 62
Period size: 16 Copynumber: 4.8 Consensus size: 15
6886860 TTTTTTAAAT
6886870 AATAATAAAAAATAA
1 AATAATAAAAAATAA
* *
6886885 AATAATAATAAAGTAG
1 AATAATAA-AAAATAA
*
6886901 AATAATAACAAAAAAA
1 AATAATAA-AAAATAA
**
6886917 AATGCTAAAAAA-AA
1 AATAATAAAAAATAA
6886931 CAATAATATAAAAA
1 -AATAATA-AAAAA
6886945 GTGATAATGA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
14 2 0.04
15 17 0.36
16 28 0.60
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (15 bp):
AATAATAAAAAATAA
Found at i:6887075 original size:18 final size:17
Alignment explanation
Indices: 6887049--6887098 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
6887039 ATTATAAAAA
6887049 AAAAATAAAAAGATAAT
1 AAAAATAAAAAGATAAT
6887066 AAATAATAAAACA-ATAAT
1 AAA-AATAAAA-AGATAAT
*
6887084 AAAAATAAATAGATA
1 AAAAATAAAAAGATA
6887099 TTATTAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 1 0.03
17 12 0.41
18 15 0.52
19 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAAGATAAT
Found at i:6887322 original size:22 final size:22
Alignment explanation
Indices: 6887297--6887340 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6887287 TCATAAAATC
*
6887297 AAAATCGTAAA-CCTCAAACCTT
1 AAAATCG-AAACCCTAAAACCTT
*
6887319 AAAATTGAAACCCTAAAACCTT
1 AAAATCGAAACCCTAAAACCTT
6887341 TCAAACCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.48, C:0.25, G:0.05, T:0.23
Consensus pattern (22 bp):
AAAATCGAAACCCTAAAACCTT
Found at i:6887329 original size:14 final size:14
Alignment explanation
Indices: 6887310--6887389 Score: 61
Period size: 14 Copynumber: 5.5 Consensus size: 14
6887300 ATCGTAAACC
*
6887310 TCAAACCTTAAAAT
1 TCAAACCCTAAAAT
*
6887324 TGAAACCCTAAAACCTT
1 TCAAACCCTAAAA---T
*
6887341 TCAAACCCTAAAAC
1 TCAAACCCTAAAAT
* * *
6887355 TAAAAACTTAAAAT
1 TCAAACCCTAAAAT
*
6887369 CCAAACCCTAAAAT
1 TCAAACCCTAAAAT
*
6887383 TGAAACC
1 TCAAACC
6887390 TGAAACCATT
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
14 36 0.73
17 13 0.27
ACGTcount: A:0.50, C:0.26, G:0.03, T:0.21
Consensus pattern (14 bp):
TCAAACCCTAAAAT
Found at i:6887381 original size:59 final size:58
Alignment explanation
Indices: 6887252--6887417 Score: 167
Period size: 58 Copynumber: 2.9 Consensus size: 58
6887242 TTAAAATCCA
* * * * *
6887252 CCAAACCCTAAAACTAAAACCCTAAACCCTTT-AAATCATAAAA-TCAAAATCGTAAAC
1 CCAAACCCTAAAATTGAAACCCTAAAACCTTTCAAACCATAAAACT-AAAAACGTAAAC
* * * *
6887309 CTCAAACCTTAAAATTGAAACCCTAAAACCTTTCAAACCCTAAAACTAAAAACTTAAAAT
1 C-CAAACCCTAAAATTGAAACCCTAAAACCTTTCAAACCATAAAACTAAAAACGT-AAAC
* * **
6887369 CCAAACCCTAAAATTGAAA-CCTGAAACCATTCAAACGTTAAAACTAAAA
1 CCAAACCCTAAAATTGAAACCCTAAAACCTTTCAAACCATAAAACTAAAA
6887418 CCTTGTGAAC
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
57 1 0.01
58 53 0.58
59 32 0.35
60 5 0.05
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.20
Consensus pattern (58 bp):
CCAAACCCTAAAATTGAAACCCTAAAACCTTTCAAACCATAAAACTAAAAACGTAAAC
Found at i:6887434 original size:17 final size:17
Alignment explanation
Indices: 6887412--6887450 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
6887402 AACGTTAAAA
*
6887412 CTAAAA-CCTTGTGAACC
1 CTAAAACCCTT-TAAACC
6887429 CTAAAACCCTTTAAACC
1 CTAAAACCCTTTAAACC
6887446 CTAAA
1 CTAAA
6887451 TCGAAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.41, C:0.31, G:0.05, T:0.23
Consensus pattern (17 bp):
CTAAAACCCTTTAAACC
Found at i:6887546 original size:9 final size:9
Alignment explanation
Indices: 6887508--6887549 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
6887498 CTAAACTTCG
6887508 AAACCC-TA
1 AAACCCTTA
*
6887516 AAATCCTTA
1 AAACCCTTA
*
6887525 AAATCCTTA
1 AAACCCTTA
6887534 AAACCCTTA
1 AAACCCTTA
6887543 AAACCCT
1 AAACCCT
6887550 AAGATTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 5 0.16
9 26 0.84
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (9 bp):
AAACCCTTA
Found at i:6887624 original size:24 final size:24
Alignment explanation
Indices: 6887602--6887649 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6887592 ACCCCAAAAT
* *
6887602 CTTTCAAACCCTAAAATCTAAAACC
1 CTTT-AAACCATAAAATCCAAAACC
6887627 CTTTAAACCATAAAATCCAAAAC
1 CTTTAAACCATAAAATCCAAAAC
6887650 TCCAAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (24 bp):
CTTTAAACCATAAAATCCAAAACC
Found at i:6890150 original size:2 final size:2
Alignment explanation
Indices: 6890143--6890170 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6890133 CTGGCAGATC
6890143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6890171 TTTTCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6890827 original size:12 final size:11
Alignment explanation
Indices: 6890802--6890826 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6890792 GATAGATTAT
6890802 AAATTTAAAAA
1 AAATTTAAAAA
6890813 AAATTTAAAAA
1 AAATTTAAAAA
6890824 AAA
1 AAA
6890827 AAACACAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTTAAAAA
Found at i:6890934 original size:45 final size:45
Alignment explanation
Indices: 6890866--6890957 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
6890856 AAGACAAAAT
*
6890866 TAATCTGGTTGATTAAAAACAGAGTAACAAGTTCTTACAATATGA
1 TAATCTGATTGATTAAAAACAGAGTAACAAGTTCTTACAATATGA
* *
6890911 TAATCTGATTGATTAAAAGCAGAGTAACAAGTTCTTACAGTATGA
1 TAATCTGATTGATTAAAAACAGAGTAACAAGTTCTTACAATATGA
6890956 TA
1 TA
6890958 GTCAGAGTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (45 bp):
TAATCTGATTGATTAAAAACAGAGTAACAAGTTCTTACAATATGA
Found at i:6893930 original size:81 final size:81
Alignment explanation
Indices: 6893795--6893955 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
6893785 ATTTAAATTT
6893795 ATTTTAGCTGTTGGGTTATATTGCTCTAAAATGTTGAATTCTCTCTACATTGCGATCTTACCTAA
1 ATTTTAGCTGTTGGGTTATATTGCTCTAAAATGTTGAATTCTCTCTACATTGCGATCTTACCTAA
*
6893860 ATTTTCACTTTCTCTC
66 ATTTTCACTTCCTCTC
6893876 ATTTTAGCTGTTGGGTTATATTGCTCTAAAATGTTGAATTCTCTCTACATTGCGATCTTACCTAA
1 ATTTTAGCTGTTGGGTTATATTGCTCTAAAATGTTGAATTCTCTCTACATTGCGATCTTACCTAA
6893941 ATTTTCACTTCCTCT
66 ATTTTCACTTCCTCT
6893956 AAATTGTAAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.45
Consensus pattern (81 bp):
ATTTTAGCTGTTGGGTTATATTGCTCTAAAATGTTGAATTCTCTCTACATTGCGATCTTACCTAA
ATTTTCACTTCCTCTC
Found at i:6894874 original size:18 final size:18
Alignment explanation
Indices: 6894851--6894888 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6894841 TCATCAGCAA
6894851 TCATTAGAATGTTATATT
1 TCATTAGAATGTTATATT
6894869 TCATTAGAATGTTATATT
1 TCATTAGAATGTTATATT
6894887 TC
1 TC
6894889 GAGCAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (18 bp):
TCATTAGAATGTTATATT
Found at i:6896090 original size:2 final size:2
Alignment explanation
Indices: 6896085--6896127 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
6896075 AACTAGATCT
* * *
6896085 TA TA TA AA TA AA TA AA 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
6896127 T
1 T
6896128 TCCTGATATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:6898864 original size:53 final size:53
Alignment explanation
Indices: 6898802--6898907 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
6898792 AAAAACAGTT
6898802 TAATAATAGATTGTTTCAGTAGGCACACAATTATCACGCACGGAATTTTTTAA
1 TAATAATAGATTGTTTCAGTAGGCACACAATTATCACGCACGGAATTTTTTAA
*
6898855 TAATAATAGATTGTTTCAGTAGGCACACAATTATCACGCGCGGAATTTTTTAA
1 TAATAATAGATTGTTTCAGTAGGCACACAATTATCACGCACGGAATTTTTTAA
6898908 CTTCTGAGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (53 bp):
TAATAATAGATTGTTTCAGTAGGCACACAATTATCACGCACGGAATTTTTTAA
Found at i:6913439 original size:31 final size:32
Alignment explanation
Indices: 6913404--6913480 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
6913394 TACAAATAAA
* *
6913404 ATCAAATGAAATCCAA-GTGTATTAATATTTT
1 ATCAAATGAAATCAAACATGTATTAATATTTT
*
6913435 ATCAAATGAAATCAAACATGTATTAGTATTTT
1 ATCAAATGAAATCAAACATGTATTAATATTTT
*
6913467 ACCAAATGAAATCA
1 ATCAAATGAAATCA
6913481 TATTTAATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 15 0.37
32 26 0.63
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (32 bp):
ATCAAATGAAATCAAACATGTATTAATATTTT
Found at i:6914394 original size:24 final size:24
Alignment explanation
Indices: 6914348--6914396 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6914338 TTTATAATTG
*
6914348 TAATTATAGTATTTATTAATTAAT
1 TAATTATAGTATTGATTAATTAAT
*
6914372 TAATTATA-TATTGATTGATTTAAT
1 TAATTATAGTATTGATT-AATTAAT
6914396 T
1 T
6914397 TGTCAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (24 bp):
TAATTATAGTATTGATTAATTAAT
Found at i:6914517 original size:11 final size:12
Alignment explanation
Indices: 6914494--6914556 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
6914484 ATAATTAATT
6914494 TAATTTATTAAA
1 TAATTTATTAAA
6914506 TAATTT-TTAAA
1 TAATTTATTAAA
6914517 TTAAAAATTTATTAAA
1 -T---AATTTATTAAA
*
6914533 TAAATTA--AAA
1 TAATTTATTAAA
6914543 TACATTTATTAAA
1 TA-ATTTATTAAA
6914556 T
1 T
6914557 GTCATGTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
10 5 0.12
11 9 0.22
12 12 0.29
13 4 0.10
15 6 0.15
16 5 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
TAATTTATTAAA
Found at i:6914521 original size:16 final size:17
Alignment explanation
Indices: 6914500--6914537 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
6914490 AATTTAATTT
6914500 ATTAAATAATTT-TTAA
1 ATTAAATAATTTATTAA
6914516 ATTAAA-AATTTATTAA
1 ATTAAATAATTTATTAA
6914532 A-TAAAT
1 ATTAAAT
6914538 TAAAATACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAATAATTTATTAA
Found at i:6915115 original size:20 final size:20
Alignment explanation
Indices: 6915051--6915116 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
6915041 TCAAGATAAA
**
6915051 TTATTAA-TTTATAAGAAAAT
1 TTATTAATTTTATAA-ATTAT
* *
6915071 TTA-TAAATTTAT-AATTTT
1 TTATTAATTTTATAAATTAT
*
6915089 TTTTTAATTTTATAAATTAT
1 TTATTAATTTTATAAATTAT
6915109 TTATTAAT
1 TTATTAAT
6915117 AAAAGATCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 4 0.11
19 12 0.33
20 20 0.56
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTATTAATTTTATAAATTAT
Found at i:6915844 original size:17 final size:18
Alignment explanation
Indices: 6915822--6915856 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6915812 AAATTTTTTA
6915822 TTAAATTT-TTTATAATT
1 TTAAATTTATTTATAATT
*
6915839 TTAAATTTATTTTTAATT
1 TTAAATTTATTTATAATT
6915857 ATTTATCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAAATTTATTTATAATT
Found at i:6916020 original size:19 final size:19
Alignment explanation
Indices: 6915982--6916017 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
6915972 ATTTTCAAGA
6915982 ATTATAAAAATATTTTTTC
1 ATTATAAAAATATTTTTTC
6916001 ATTA-AAAAATATTTTTT
1 ATTATAAAAATATTTTTT
6916018 TCAATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAAAAATATTTTTTC
Found at i:6917187 original size:26 final size:26
Alignment explanation
Indices: 6917136--6917197 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
6917126 AATCATATTG
*
6917136 ATTTCAATTTAAATAATTATCCAAAAT
1 ATTT-AATTTAAATAATTATCCAAAAA
*
6917163 ATTTAATTTAAATAATTTAT-TAAAAA
1 ATTTAATTTAAATAA-TTATCCAAAAA
*
6917189 ATTTTATTT
1 ATTTAATTT
6917198 GATAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 23 0.74
27 8 0.26
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTAATTTAAATAATTATCCAAAAA
Found at i:6921594 original size:24 final size:24
Alignment explanation
Indices: 6921566--6921611 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6921556 ACATTTTTAA
6921566 TATATATATTTTTA-GTTATTATCT
1 TATAT-TATTTTTATGTTATTATCT
*
6921590 TATATTATTTTTATTTTATTAT
1 TATATTATTTTTATGTTATTAT
6921612 TATTAATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TATATTATTTTTATGTTATTATCT
Found at i:6925887 original size:19 final size:19
Alignment explanation
Indices: 6925865--6925901 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6925855 AAATATTAAT
6925865 TATTATATATAATAAATAA
1 TATTATATATAATAAATAA
*
6925884 TATTATATTTAATAAATA
1 TATTATATATAATAAATA
6925902 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTATATATAATAAATAA
Found at i:6925909 original size:32 final size:33
Alignment explanation
Indices: 6925868--6925940 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 33
6925858 TATTAATTAT
*
6925868 TATATATAATAAATAATATTATATTTAAT-AAA
1 TATAAATAATAAATAATATTATATTTAATAAAA
* * *
6925900 TATAAATAATAATTATTATTATATTTATTAAAA
1 TATAAATAATAAATAATATTATATTTAATAAAA
6925933 TATAAATA
1 TATAAATA
6925941 TTATTTCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 25 0.69
33 11 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
TATAAATAATAAATAATATTATATTTAATAAAA
Found at i:6925931 original size:26 final size:26
Alignment explanation
Indices: 6925863--6925945 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
6925853 ATAAATATTA
*
6925863 ATTATTATATATAATAAATAAT-ATT
1 ATTATTATATATATTAAATAATAATT
*
6925888 A-TATT-TAATAAATATAAATAATAATT
1 ATTATTAT-ATATAT-TAAATAATAATT
* *
6925914 ATTATTATATTTATTAAA-ATATAAAT
1 ATTATTATATATATTAAATA-ATAATT
6925940 ATTATT
1 ATTATT
6925946 TCTAACTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
23 1 0.02
24 8 0.17
25 10 0.21
26 19 0.40
27 8 0.17
28 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTATTATATATATTAAATAATAATT
Found at i:6926059 original size:26 final size:27
Alignment explanation
Indices: 6926030--6926083 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
6926020 TTATGAATTT
6926030 TATATTTTAAAATTTACAG-TTTATGA
1 TATATTTTAAAATTTACAGTTTTATGA
*
6926056 TATATTTTAAAATTTATAGTTTTATGA
1 TATATTTTAAAATTTACAGTTTTATGA
6926083 T
1 T
6926084 TGAATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (27 bp):
TATATTTTAAAATTTACAGTTTTATGA
Done.