Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold232
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: 1304497
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.30
Warning! 90120 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:658736 original size:35 final size:35
Alignment explanation
Indices: 658686--658794 Score: 146
Period size: 35 Copynumber: 3.1 Consensus size: 35
658676 TGCCCTGCCT
658686 GACCTATATATCATTTACATGGTGTCACCTTGAAG
1 GACCTATATATCATTTACATGGTGTCACCTTGAAG
* * * * *
658721 GACCTATATACCATTTACACGGTGCCACCTTAAAT
1 GACCTATATATCATTTACATGGTGTCACCTTGAAG
* * *
658756 GACCTATATATCGTTTACATGGTGTCCCCTCGAAG
1 GACCTATATATCATTTACATGGTGTCACCTTGAAG
658791 GACC
1 GACC
658795 AGTTGATAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 61 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (35 bp):
GACCTATATATCATTTACATGGTGTCACCTTGAAG
Found at i:661439 original size:21 final size:21
Alignment explanation
Indices: 661394--661453 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
661384 CACAATTGGC
* *
661394 AATAAAAATTAAAAGAAA-AA
1 AATAAAAATTGAAACAAATAA
661414 AATAAAAATTGAAACAAATAA
1 AATAAAAATTGAAACAAATAA
*
661435 CATAAAAATTGAAACAAAT
1 AATAAAAATTGAAACAAAT
661454 TTTCTATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (21 bp):
AATAAAAATTGAAACAAATAA
Found at i:664088 original size:40 final size:40
Alignment explanation
Indices: 664043--664251 Score: 184
Period size: 40 Copynumber: 5.4 Consensus size: 40
664033 ATTGTATGAA
*
664043 TGCACATATGTGCCCCTATTTGTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAT
* *
664083 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGA-
1 TGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAT
* * *
664122 T----AT--GTACCCCTATTTGTACTTAGGTACCCCTGAT
1 TGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAT
* * *
664156 TGCACATACGTTCCCCT-GTTGTACTT-GAGTGCCCCTGAT
1 TGCACATACGTGCCCCTATTTGTACTTCGA-TACCCCTGAT
* * * * ** *
664195 TGCACATACATGCCCTTGTTTGTACTTCGGTACTTCTGAA
1 TGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAT
* *
664235 CGCACTTACGTGCCCCT
1 TGCACATACGTGCCCCT
664252 GATTATATTC
Statistics
Matches: 136, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
33 27 0.20
34 1 0.01
35 2 0.01
38 3 0.02
39 32 0.24
40 70 0.51
41 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.34
Consensus pattern (40 bp):
TGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAT
Found at i:664118 original size:20 final size:20
Alignment explanation
Indices: 664055--664120 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
664045 CACATATGTG
* *
664055 CCCCTATTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGGTA
* * * *
664075 CCCCTGATTGCACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
664095 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
664115 CCCCTG
1 CCCCTG
664121 ATATGTACCC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.15, C:0.35, G:0.17, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:664137 original size:73 final size:72
Alignment explanation
Indices: 664048--664194 Score: 224
Period size: 73 Copynumber: 2.0 Consensus size: 72
664038 ATGAATGCAC
* *
664048 ATATGTGCCCCTATTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCG-
1 ATATGTACCCCTATTTGTACTTAGATACCCCTGATTGCACATACGTGCCCCTG-TTGTACTT-GA
664112 GTACCCCTG
64 GTACCCCTG
* *
664121 ATATGTACCCCTATTTGTACTTAGGTACCCCTGATTGCACATACGTTCCCCTGTTGTACTTGAGT
1 ATATGTACCCCTATTTGTACTTAGATACCCCTGATTGCACATACGTGCCCCTGTTGTACTTGAGT
*
664186 GCCCCTG
66 ACCCCTG
664193 AT
1 AT
664195 TGCACATACA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 1 0.01
72 18 0.26
73 49 0.72
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.35
Consensus pattern (72 bp):
ATATGTACCCCTATTTGTACTTAGATACCCCTGATTGCACATACGTGCCCCTGTTGTACTTGAGT
ACCCCTG
Found at i:664171 original size:20 final size:20
Alignment explanation
Indices: 664148--664209 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
664138 TACTTAGGTA
*
664148 CCCCTGATTGCACATACGTT
1 CCCCTGATTGCACATACGTG
* *
664168 CCCCTG-TTGTACTTGA-GTG
1 CCCCTGATTGCACAT-ACGTG
*
664187 CCCCTGATTGCACATACATG
1 CCCCTGATTGCACATACGTG
664207 CCC
1 CCC
664210 TTGTTTGTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.18, C:0.35, G:0.18, T:0.29
Consensus pattern (20 bp):
CCCCTGATTGCACATACGTG
Found at i:664191 original size:39 final size:40
Alignment explanation
Indices: 664128--664227 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 40
664118 CTGATATGTA
* * *
664128 CCCCTATTTGTACTTAGGTACCCCTGATTGCACATACGTT
1 CCCCTGTTTGTACTTAGGTACCCCTGATTGCACATACATG
*
664168 CCCCTG-TTGTACTT-GAGTGCCCCTGATTGCACATACATG
1 CCCCTGTTTGTACTTAG-GTACCCCTGATTGCACATACATG
* *
664207 CCCTTGTTTGTACTTCGGTAC
1 CCCCTGTTTGTACTTAGGTAC
664228 TTCTGAACGC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
38 1 0.02
39 33 0.65
40 16 0.31
41 1 0.02
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.35
Consensus pattern (40 bp):
CCCCTGTTTGTACTTAGGTACCCCTGATTGCACATACATG
Found at i:669793 original size:39 final size:38
Alignment explanation
Indices: 669750--671497 Score: 929
Period size: 39 Copynumber: 44.4 Consensus size: 38
669740 ATTATATGAA
* *
669750 TGCACATACGTGCCCGTATTGTATTTCGGTACCCTAGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTACCCT-GAT
* * *
669789 TGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAT
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTA-CCCTGAT
* * *
669829 TGCACGTACGTGCCCCTGTTGTCCTTCGGTACACCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTAC-CCTGAT
* * *
669868 TGCACATACGTGCCCCTGTTGTACTTAGATACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* * * *
669907 TGCACATACGTGCCCTTGTTTGTACTTCAGTACACTTGAT
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTAC-CCTGAT
* *
669947 TACACATACGTGCCCCTGTTGTACTTCGGTACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
*
669986 TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* * **
670025 TGTACATACATGCCCCTATTTGTACTTCAATACCCTTGAT
1 TGCACATACGTGCCCCTA-TTGTACTTCGGTACCC-TGAT
* * *
670065 TGCACATACGTGCCCCTGTTGTACTTTGGTGCCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGT-ACCCTGAT
* * *
670104 TACACATACGTGCCCCTATTTGTACTTCGATACCCCTAAT
1 TGCACATACGTGCCCCTA-TTGTACTTCGGTA-CCCTGAT
* * *
670144 TGTACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAT
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTA-CCCTGAT
* * *
670184 TACACATACGTGCCCCTGTTGTACTTCGGTGCCCTTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTACCC-TGAT
* * **
670223 TGCACATACTTGCCCCTGTTTGTACTTCCATACTCCTGAT
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTAC-CCTGAT
* *
670263 TGCACATACGTGCCCCTGTTGTTCTTCGGTACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* *
670302 TGTACATACGTGCCCCTATTTGTACTTCGATACCCTTGAT
1 TGCACATACGTGCCCCTA-TTGTACTTCGGTACCC-TGAT
* *
670342 TGCACATACGTGCCCCTATTTGTACTTCGATACCTCTAAT
1 TGCACATACGTGCCCCTA-TTGTACTTCGGTACC-CTGAT
* * ** **
670382 TGCACATACGTGCCACTGTTTGTACTTTAGTA-TGTGAT
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTACCCTGAT
* * *
670420 TACACATACGTGCCCCTATTTTACCTCGGTACCCTTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTACCC-TGAT
* *
670459 TGCACATACGTGCCCTTATTGTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* * * *
670498 TGCACATACATGCCCTTGTTGTACTTCAGTACCCCTG-T
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* ** * * * * *
670536 TGTAC-TTTGATACCCCTGATTGCACATAC-ATGCCCTTG-T
1 TGCACATACG-TGCCCCT-ATTGTAC-TTCGGTACCC-TGAT
* * ** * * *
670575 T-CTTAC-TTCGGTACCGTTGATTGCACATAC-GTGCCCCT--T
1 TGC--ACATAC-GTGCCCCT-ATTGTAC-TTCGGT-ACCCTGAT
* * * * * *
670614 TGTAC-TTCGATGCCCCTGATTGCACATAC-GTGCCCCTGTT
1 TGCACATACG-TGCCCCT-ATTGTAC-TTCGGT-ACCCTGAT
* * * * * * * * *
670654 TGTACTTCCATACTCCTGATTGCACATAC-GTGCCCCT-AT
1 TGCACATACGTGCCCCT-ATTGTAC-TTCGGT-ACCCTGAT
* * * * * * *
670693 TGTACAT-CGGTACCTCTGATTGCACATAC-GTGCCCCTGTT
1 TGCACATAC-GTGCCCCT-ATTGTAC-TTCGGT-ACCCTGAT
* ** * * * * *
670733 TGTAC-TTTGATACCCCTGATTGCACATAC-GTGCCCCTGTT
1 TGCACATACG-TGCCCCT-ATTGTAC-TTCGGT-ACCCTGAT
* * * * * *
670773 TGTAC-TTCGGTACCCCTGATTGCACATAC-GTGCCCTTG-T
1 TGCACATAC-GTGCCCCT-ATTGTAC-TTCGGTACCC-TGAT
* * * * * * * *
670812 TGTAC-TTCGATACCCCTGATTGCACATAC-ATGCCTTTG-T
1 TGCACATACG-TGCCCCT-ATTGTAC-TTCGGTACC-CTGAT
* * * * *
670851 TGTAC-TTCAGTACCCCTATTGTACTTTGATACCCTTGAT
1 TGCACATAC-GTGCCCCTATTGTACTTCGGTACCC-TGAT
* * * *
670890 TGCACATACATGCCCTTGTTCTTACTTCGGTACCCTTGAT
1 TGCACATACGTGCCCCTATT-GTACTTCGGTACCC-TGAT
* * *
670930 TGCACATACGTGCCCCTGTTGTACTTCGATGCCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGT-ACCCTGAT
* * **
670969 TGCACATACGTACCCCTGTTTGTACTTCCATACTCCTGAT
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTAC-CCTGAT
*
671009 TGCACATACATGCCCCTATTGTACTTCGGTACCCTTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTACCC-TGAT
* *
671048 TGCACATACGTGCCCCTGTTTGTACTTCGATACCCTTGAT
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTACCC-TGAT
* * * **
671088 TGCACATGCGTGGCACTATTTGTACTTTAGTACCCGTGAT
1 TGCACATACGTGCCCCTA-TTGTACTTCGGTACCC-TGAT
** *
671128 AACACATACGTGGCCCTATTGTACTTCGGTACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* * * *
671167 TGCACATACTTGCCCTTGTTGTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* * * *
671206 TGCACATACATG-CCATGTTGTACTTCAGTACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* * * * *
671244 TACACATACATGCCCCTATTTTACTTTGATACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* * * * *
671283 TGCACATACATGCCCTTGTTCTTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCCTATT-GTACTTCGGTA-CCCTGAT
* *
671323 TGCACATACGTGCCACTATTGTACTTTGGTACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* * * ** * *
671362 TGCACGTATGTGCCCCTGTTTGTACTTCCATACTGCTAAT
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTAC-CCTGAT
* *
671402 TGCACATACGTGTCCCTATTGTACTTTGGTACCCCTGAT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAT
* * * *
671441 TGCACATACGTACCCCTGTTTGTACTACGGTACTCCTGAA
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTAC-CCTGAT
* *
671481 TGCACTTACATGCCCCT
1 TGCACATACGTGCCCCT
671498 GATTATATTC
Statistics
Matches: 1408, Mismatches: 236, Indels: 129
0.79 0.13 0.07
Matches are distributed among these distances:
37 12 0.01
38 114 0.08
39 643 0.46
40 625 0.44
41 14 0.01
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (38 bp):
TGCACATACGTGCCCCTATTGTACTTCGGTACCCTGAT
Found at i:669840 original size:79 final size:76
Alignment explanation
Indices: 669750--671495 Score: 893
Period size: 79 Copynumber: 22.2 Consensus size: 76
669740 ATTATATGAA
* *
669750 TGCACATACGTGCCCGTATTGTATTTCGGTACCCTAGATTGCACATATGTGCCCCTGTTTGTACT
1 TGCACATACGTGCCCGT-TTGTACTTCGGTACCCT-GATTGCACATACGTGCCCCTG-TTGTACT
*
669815 TCGGTACCCCTAAT
63 TCGGTACCCCTGAT
* * *
669829 TGCACGTACGTGCCCCTGTTGTCCTTCGGTACACCTGATTGCACATACGTGCCCCTGTTGTACTT
1 TGCACATACGTGCCCGT-TTGTACTTCGGTAC-CCTGATTGCACATACGTGCCCCTGTTGTACTT
* *
669894 AGATACCCCTGAT
64 CGGTACCCCTGAT
* * *
669907 TGCACATACGTGCCCTTGTTTGTACTTCAGTACACTTGATTACACATACGTGCCCCTGTTGTACT
1 TGCACATACGTGCCC--GTTTGTACTTCGGTAC-CCTGATTGCACATACGTGCCCCTGTTGTACT
669972 TCGGTACCCCTGAT
63 TCGGTACCCCTGAT
* * * * *
669986 TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGATTGTACATACATGCCCCTATTTGTACT
1 TGCACATACGTGCCCGT-TTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCT-GTTGTACT
** *
670051 TCAATACCCTTGAT
63 TCGGTACCCCTGAT
* * * * *
670065 TGCACATACGTGCCCCTGTTGTACTTTGGTGCCCCTGATTACACATACGTGCCCCTATTTGTACT
1 TGCACATACGTGCCCGT-TTGTACTTCGGT-ACCCTGATTGCACATACGTGCCCCT-GTTGTACT
* *
670130 TCGATACCCCTAAT
63 TCGGTACCCCTGAT
* * *
670144 TGTACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGATTACACATACGTGCCCCTGTTGTACT
1 TGCACATACGTG-CCC-GTTTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTGTTGTACT
* *
670209 TCGGTGCCCTTGAT
63 TCGGTACCCCTGAT
* ** *
670223 TGCACATACTTGCCCCTGTTTGTACTTCCATACTCCTGATTGCACATACGTGCCCCTGTTGTTCT
1 TGCACATACGTG-CCC-GTTTGTACTTCGGTAC-CCTGATTGCACATACGTGCCCCTGTTGTACT
670288 TCGGTACCCCTGAT
63 TCGGTACCCCTGAT
* * * *
670302 TGTACATACGTGCCCCTATTTGTACTTCGATACCCTTGATTGCACATACGTGCCCCTATTTGTAC
1 TGCACATACGTG-CCC-GTTTGTACTTCGGTACCC-TGATTGCACATACGTGCCCCT-GTTGTAC
* * *
670367 TTCGATACCTCTAAT
62 TTCGGTACCCCTGAT
** ** * * * *
670382 TGCACATACGTGCCACTGTTTGTACTTTAGTA-TGTGATTACACATACGTGCCCCTATTTTACCT
1 TGCACATACGTGCC-C-GTTTGTACTTCGGTACCCTGATTGCACATACGTGCCCCTGTTGTACTT
*
670446 CGGTACCCTTGAT
64 CGGTACCCCTGAT
* * * *
670459 TGCACATACGTGCCCTTATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTT
1 TGCACATACGTGCCCGT-TTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTGTTGTACTT
*
670524 CAGTACCCCTG-T
64 CGGTACCCCTGAT
* ** * * * * * * * * **
670536 TGTAC-TTTGATACCCCTGATTGCACATAC-ATGCCCTTG-TT-CTTAC-TTCGGTACCGTTGAT
1 TGCACATACG-T-GCCC-GTTTGTAC-TTCGGTACCC-TGATTGC--ACATAC-GTGCCCCTG-T
* * *
670596 TGCACATAC-GTGCCCCT--T
57 TGTAC-TTCGGTACCCCTGAT
* * * * * * * * * * * * * *
670614 TGTAC-TTCGATGCCCCTGATTGCACATAC-GTGCCCCTGTTTGTACTTCCATACTCCTGATTGC
1 TGCACATACG-TG-CCC-GTTTGTAC-TTCGGT-ACCCTGATTGCACATACGTGCCCCTG-TTGT
* *
670677 ACATAC-GTGCCCCT-AT
60 AC-TTCGGTACCCCTGAT
* * * * * * * * ** *
670693 TGTACAT-CGGTACCTCTGATTGCACATAC-GTGCCCCTGTTTGTAC-TTTGATACCCCTGATTG
1 TGCACATAC-GTGCC-C-GTTTGTAC-TTCGGT-ACCCTGATTGCACATACG-TGCCCCTG-TTG
* * * *
670755 CACATAC-GTGCCCCTGTT
59 TAC-TTCGGTACCCCTGAT
* * * * * * * * * *
670773 TGTAC-TTCGGTACCCCTGATTGCACATAC-GTGCCCTTG-TTGTAC-TTCGATACCCCTGATTG
1 TGCACATAC-GT-GCCC-GTTTGTAC-TTCGGTACCC-TGATTGCACATACG-TGCCCCTG-TTG
* * * * **
670834 CACATAC-ATGCCTTTG-T
59 TAC-TTCGGTACCCCTGAT
* * * * * * * * *
670851 TGTAC-TTCAGTACCCCTATTGTACTTTGATACCCTTGATTGCACATACATGCCCTTGTTCTTAC
1 TGCACATAC-GTGCCCGT-TTGTACTTCGGTACCC-TGATTGCACATACGTGCCCCTGTT-GTAC
*
670915 TTCGGTACCCTTGAT
62 TTCGGTACCCCTGAT
* * * *
670930 TGCACATACGTGCCCCTGTTGTACTTCGATGCCCCTGATTGCACATACGTACCCCTGTTTGTACT
1 TGCACATACGTGCCCGT-TTGTACTTCGGT-ACCCTGATTGCACATACGTGCCCCTG-TTGTACT
** *
670995 TCCATACTCCTGAT
63 TCGGTACCCCTGAT
* *
671009 TGCACATACATGCCCCTATTGTACTTCGGTACCCTTGATTGCACATACGTGCCCCTGTTTGTACT
1 TGCACATACGTGCCCGT-TTGTACTTCGGTACCC-TGATTGCACATACGTGCCCCTG-TTGTACT
* *
671074 TCGATACCCTTGAT
63 TCGGTACCCCTGAT
* ** ** ** * *
671088 TGCACATGCGTGGCACTATTTGTACTTTAGTACCCGTGATAACACATACGTGGCCCTATTGTACT
1 TGCACATACGT-GC-CCGTTTGTACTTCGGTACCC-TGATTGCACATACGTGCCCCTGTTGTACT
671153 TCGGTACCCCTGAT
63 TCGGTACCCCTGAT
* * * * *
671167 TGCACATACTTGCCCTTGTTGTACTTCGATACCCCTGATTGCACATACATG-CCATGTTGTACTT
1 TGCACATACGTGCCCGT-TTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTGTTGTACTT
*
671231 CAGTACCCCTGAT
64 CGGTACCCCTGAT
* * * * * * * * *
671244 TACACATACATGCCCCTATTTTACTTTGATACCCCTGATTGCACATACATGCCCTTGTTCTTACT
1 TGCACATACGTGCCCGT-TTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTGTT-GTACT
*
671309 TCGATACCCCTGAT
63 TCGGTACCCCTGAT
* * *
671323 TGCACATACGTGCCAC-TATTGTACTTTGGTACCCCTGATTGCACGTATGTGCCCCTGTTTGTAC
1 TGCACATACGTGCC-CGT-TTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTG-TTGTAC
** ** *
671387 TTCCATACTGCTAAT
62 TTCGGTACCCCTGAT
* *
671402 TGCACATACGTGTCCC-TATTGTACTTTGGTACCCCTGATTGCACATACGTACCCCTGTTTGTAC
1 TGCACATACGTG-CCCGT-TTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTG-TTGTAC
* * *
671466 TACGGTACTCCTGAA
62 TTCGGTACCCCTGAT
* *
671481 TGCACTTACATGCCC
1 TGCACATACGTGCCC
671496 CTGATTATAT
Statistics
Matches: 1372, Mismatches: 234, Indels: 123
0.79 0.14 0.07
Matches are distributed among these distances:
75 1 0.00
76 15 0.01
77 132 0.10
78 264 0.19
79 795 0.58
80 160 0.12
81 5 0.00
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (76 bp):
TGCACATACGTGCCCGTTTGTACTTCGGTACCCTGATTGCACATACGTGCCCCTGTTGTACTTCG
GTACCCCTGAT
Found at i:669922 original size:19 final size:19
Alignment explanation
Indices: 669862--669922 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
669852 CTTCGGTACA
669862 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTG-C
* * *
669882 CCTG-TTGTACTTA-GATACC
1 CCTGATTGCACATACG-T-GC
669901 CCTGATTGCACATACGTGC
1 CCTGATTGCACATACGTGC
669920 CCT
1 CCT
669923 TGTTTGTACT
Statistics
Matches: 31, Mismatches: 6, Indels: 9
0.67 0.13 0.20
Matches are distributed among these distances:
18 1 0.03
19 17 0.55
20 12 0.39
21 1 0.03
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.30
Consensus pattern (19 bp):
CCTGATTGCACATACGTGC
Found at i:669958 original size:118 final size:118
Alignment explanation
Indices: 669750--671498 Score: 1277
Period size: 119 Copynumber: 14.8 Consensus size: 118
669740 ATTATATGAA
* * * *
669750 TGCACATACGTGCCCGTATTGTATTTCGGTA-CCCTAGATTGCACATATGTGCCCCTGTTTGTAC
1 TGCACATACGTGCCCCTATTGTACTTCGATACCCCT-GATTGCACATACGTGCCCCTGTTTGTAC
* * * * *
669814 TTCGGTACCCCTAATTGCACGTACGTGCCCCTGTTGTCCTTCGGTACACC-TGAT
65 TTCAGTACCCCTGATTACACATACGTGCCCCTGTTGTACTTCGGTAC-CCTTGAT
* * *
669868 TGCACATACGTGCCCCTGTTGTACTTAGATACCCCTGATTGCACATACGTGCCCTTGTTTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACT
* * *
669933 TCAGTACACTTGATTACACATACGTGCCCCTGTTGTACTTCGGTACCCCTGAT
66 TCAGTACCCCTGATTACACATACGTGCCCCTGTTGTACTTCGGTACCCTTGAT
* * *
669986 TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGATTGTACATACATGCCCCTATTTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACT
* * * * * *
670051 TCAATACCCTTGATTGCACATACGTGCCCCTGTTGTACTTTGGTGCCCCTGAT
66 TCAGTACCCCTGATTACACATACGTGCCCCTGTTGTACTTCGGTACCCTTGAT
* * *
670104 TACACATACGTGCCCCTATTTGTACTTCGATACCCCTAATTGTACATACGTGCCCCTGTTTGTAC
1 TGCACATACGTGCCCCTA-TTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTAC
*
670169 TTCAGTACCCCTGATTACACATACGTGCCCCTGTTGTACTTCGGTGCCCTTGAT
65 TTCAGTACCCCTGATTACACATACGTGCCCCTGTTGTACTTCGGTACCCTTGAT
* * * * *
670223 TGCACATACTTGCCCCTGTTTGTACTTCCATACTCCTGATTGCACATACGTGCCCCTG-TTGTTC
1 TGCACATACGTGCCCCT-ATTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTAC
* ** * *
670287 TTCGGTACCCCTGATTGTACATACGTGCCCCTATTTGTACTTCGATACCCTTGAT
65 TTCAGTACCCCTGATTACACATACGTGCCCCT-GTTGTACTTCGGTACCCTTGAT
* * *
670342 TGCACATACGTGCCCCTATTTGTACTTCGATACCTCTAATTGCACATACGTGCCACTGTTTGTAC
1 TGCACATACGTGCCCCTA-TTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTAC
* ** * * *
670407 TTTAGTA--TGTGATTACACATACGTGCCCCTATTTTACCTCGGTACCCTTGAT
65 TTCAGTACCCCTGATTACACATACGTGCCCCTGTTGTACTTCGGTACCCTTGAT
* * *
670459 TGCACATACGTGCCCTTATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTG-TTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACT
** ** * * * * *
670523 TCAGTACCCCTG-TTGTAC-TTTGATACCCCTGATTGCACATAC-ATGCCCTTG-T
66 TCAGTACCCCTGATTACACATACG-TGCCCCTG-TTGTAC-TTCGGTACCCTTGAT
* * ** * * * * * *
670575 T-CTTAC-TTCGGTACCGTTGATTGCACATACG-TGCCCCT--TTGTAC-TTCGATGCCCCTGAT
1 TGC--ACATAC-GTGCCCCT-ATTGTAC-TTCGATACCCCTGATTGCACATACG-TGCCCCTGTT
* * * * ** * * * * * * * * *
670634 TGCACAT-ACGTGCCCCTGTTTGTACTTCCATACTCCTGATTGCACATAC-GTGCCCCT-AT
60 TGTACTTCA-GTACCCCTGATTACACATACGTGCCCCTG-TTGTAC-TTCGGTACCCTTGAT
* * * * * * * * ** * *
670693 TGTACAT-CGGTACCTCTGATTGCACATACG-TGCCCCTGTTTGTAC-TTTGATACCCCTGATTG
1 TGCACATAC-GTGCCCCT-ATTGTAC-TTCGATACCCCTGATTGCACATACG-TGCCCCTGTTTG
* * * * ** * * * * *
670755 CACAT-ACGTGCCCCTGTTTGTAC-TTCGGTACCCCTGATTGCACATAC-GTGCCCTTG-T
62 TACTTCA-GTACCCCTGATTACACATAC-GTGCCCCTG-TTGTAC-TTCGGTACCCTTGAT
* * * * * * ** * * * *
670812 TGTAC-TTCGATACCCCTGATTGCACATAC-ATGCCTTTG-TTGTAC-TTCAGTACCCCT-ATTG
1 TGCACATACG-TGCCCCT-ATTGTAC-TTCGATACCCCTGATTGCACATAC-GTGCCCCTGTTTG
* * * * * *
670872 TACTT-TGATACCCTTGATTGCACATACATGCCCTTGTTCTTACTTCGGTACCCTTGAT
62 TACTTCAG-TACCCCTGATTACACATACGTGCCCCTGTT-GTACTTCGGTACCCTTGAT
* * *
670930 TGCACATACGTGCCCCTGTTGTACTTCGATGCCCCTGATTGCACATACGTACCCCTGTTTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACT
* * * *
670995 TCCA-TACTCCTGATTGCACATACATGCCCCTATTGTACTTCGGTACCCTTGAT
66 T-CAGTACCCCTGATTACACATACGTGCCCCTGTTGTACTTCGGTACCCTTGAT
* * * * * *
671048 TGCACATACGTGCCCCTGTTTGTACTTCGATACCCTTGATTGCACATGCGTGGCACTATTTGTAC
1 TGCACATACGTGCCCCT-ATTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTAC
* * * * * *
671113 TTTAGTACCCGTGATAACACATACGTGGCCCTATTGTACTTCGGTACCCCTGAT
65 TTCAGTACCCCTGATTACACATACGTGCCCCTGTTGTACTTCGGTACCCTTGAT
* * * * *
671167 TGCACATACTTGCCCTTGTTGTACTTCGATACCCCTGATTGCACATACATG-CCATG-TTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACT
* * * * * *
671230 TCAGTACCCCTGATTACACATACATGCCCCTATTTTACTTTGATACCCCTGAT
66 TCAGTACCCCTGATTACACATACGTGCCCCTGTTGTACTTCGGTACCCTTGAT
* * * * * *
671283 TGCACATACATGCCCTTGTTCTTACTTCGATACCCCTGATTGCACATACGTGCCACT-ATTGTAC
1 TGCACATACGTGCCCCTATT-GTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTAC
** * * * ** * *
671347 TTTGGTACCCCTGATTGCACGTATGTGCCCCTGTTTGTACTTCCATACTGC-TAAT
65 TTCAGTACCCCTGATTACACATACGTGCCCCTG-TTGTACTTCGGTAC-CCTTGAT
* * * *
671402 TGCACATACGTGTCCCTATTGTACTTTGGTACCCCTGATTGCACATACGTACCCCTGTTTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACT
* * * * * * *
671467 ACGGTACTCCTGAATGCACTTACATGCCCCTG
66 TCAGTACCCCTGATTACACATACGTGCCCCTG
671499 ATTATATTCA
Statistics
Matches: 1360, Mismatches: 218, Indels: 105
0.81 0.13 0.06
Matches are distributed among these distances:
115 17 0.01
116 139 0.10
117 179 0.13
118 495 0.36
119 519 0.38
120 11 0.01
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (118 bp):
TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACT
TCAGTACCCCTGATTACACATACGTGCCCCTGTTGTACTTCGGTACCCTTGAT
Found at i:669983 original size:19 final size:20
Alignment explanation
Indices: 669801--671089 Score: 174
Period size: 20 Copynumber: 65.5 Consensus size: 20
669791 CACATATGTG
*
669801 CCCCTGTTTGTACTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* * * *
669821 CCCCTAATTGCACGTAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
*
669841 CCCCTG-TTGTCCTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* * * *
669860 CACCTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* *
669880 CCCCTG-TTGTACTTAGATA
1 CCCCTGATTGTACTTCGGTA
* * *
669899 CCCCTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* * *
669919 CCCTTGTTTGTACTTCAGTA
1 CCCCTGATTGTACTTCGGTA
* * ** * *
669939 CACTTGATTACACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
669959 CCCCTG-TTGTACTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* * *
669978 CCCCTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
*
669998 CCCCT-ATTGTACTTCGATA
1 CCCCTGATTGTACTTCGGTA
* * *
670017 CCCCTGATTGTACATAC-ATG
1 CCCCTGATTGTAC-TTCGGTA
**
670037 CCCCT-ATTTGTACTTCAATA
1 CCCCTGA-TTGTACTTCGGTA
* * * *
670057 CCCTTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* *
670077 CCCCTG-TTGTACTTTGGTG
1 CCCCTGATTGTACTTCGGTA
** * *
670096 CCCCTGATTACACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
*
670116 CCCCT-ATTTGTACTTCGATA
1 CCCCTGA-TTGTACTTCGGTA
* * *
670136 CCCCTAATTGTACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* *
670156 CCCCTGTTTGTACTTCAGTA
1 CCCCTGATTGTACTTCGGTA
** * *
670176 CCCCTGATTACACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
*
670196 CCCCTG-TTGTACTTCGGTG
1 CCCCTGATTGTACTTCGGTA
* * * * *
670215 CCCTTGATTGCACATAC-TTG
1 CCCCTGATTGTAC-TTCGGTA
* **
670235 CCCCTGTTTGTACTTCCATA
1 CCCCTGATTGTACTTCGGTA
* * * *
670255 CTCCTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
*
670275 CCCCTG-TTGTTCTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* *
670294 CCCCTGATTGTACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
*
670314 CCCCT-ATTTGTACTTCGATA
1 CCCCTGA-TTGTACTTCGGTA
* * * *
670334 CCCTTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
*
670354 CCCCT-ATTTGTACTTCGATA
1 CCCCTGA-TTGTACTTCGGTA
* * * * *
670374 CCTCTAATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* * **
670394 CCACTGTTTGTACTTTAGTA
1 CCCCTGATTGTACTTCGGTA
** ** * *
670414 --TGTGATTACACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* *
670432 CCCCT-ATTTTACCTCGGTA
1 CCCCTGATTGTACTTCGGTA
* * *
670451 CCCTTGATTGCACATAC-GT-
1 CCCCTGATTGTAC-TTCGGTA
* * *
670470 GCCCTTATTGTACTTCGATA
1 CCCCTGATTGTACTTCGGTA
* * * *
670490 CCCCTGATTGCACATAC-ATG
1 CCCCTGATTGTAC-TTCGGTA
* *
670510 CCCTTG-TTGTACTTCAGTA
1 CCCCTGATTGTACTTCGGTA
* *
670529 CCCCTG-TTGTACTTTGATA
1 CCCCTGATTGTACTTCGGTA
* * * *
670548 CCCCTGATTGCACATAC-ATG
1 CCCCTGATTGTAC-TTCGGTA
* *
670568 CCCTTG-TTCTTACTTCGGTA
1 CCCCTGATT-GTACTTCGGTA
** * * *
670588 CCGTTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* *
670608 CCCCT--TTGTACTTCGATG
1 CCCCTGATTGTACTTCGGTA
* * *
670626 CCCCTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* **
670646 CCCCTGTTTGTACTTCCATA
1 CCCCTGATTGTACTTCGGTA
* * * *
670666 CTCCTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
*
670686 CCCCT-ATTGTACATCGGTA
1 CCCCTGATTGTACTTCGGTA
* * * *
670705 CCTCTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* * *
670725 CCCCTGTTTGTACTTTGATA
1 CCCCTGATTGTACTTCGGTA
* * *
670745 CCCCTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
*
670765 CCCCTGTTTGTACTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* * *
670785 CCCCTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* *
670805 CCCTTG-TTGTACTTCGATA
1 CCCCTGATTGTACTTCGGTA
* * * *
670824 CCCCTGATTGCACATAC-ATG
1 CCCCTGATTGTAC-TTCGGTA
** *
670844 CCTTTG-TTGTACTTCAGTA
1 CCCCTGATTGTACTTCGGTA
* *
670863 CCCCT-ATTGTACTTTGATA
1 CCCCTGATTGTACTTCGGTA
* * * * *
670882 CCCTTGATTGCACATAC-ATG
1 CCCCTGATTGTAC-TTCGGTA
* *
670902 CCCTTG-TTCTTACTTCGGTA
1 CCCCTGATT-GTACTTCGGTA
* * * *
670922 CCCTTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* *
670942 CCCCTG-TTGTACTTCGATG
1 CCCCTGATTGTACTTCGGTA
* *
670961 CCCCTGATTGCACATAC-GTA
1 CCCCTGATTGTAC-TTCGGTA
* **
670981 CCCCTGTTTGTACTTCCATA
1 CCCCTGATTGTACTTCGGTA
* * * * *
671001 CTCCTGATTGCACATAC-ATG
1 CCCCTGATTGTAC-TTCGGTA
671021 CCCCT-ATTGTACTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* * * *
671040 CCCTTGATTGCACATAC-GTG
1 CCCCTGATTGTAC-TTCGGTA
* *
671060 CCCCTGTTTGTACTTCGATA
1 CCCCTGATTGTACTTCGGTA
*
671080 CCCTTGATTG
1 CCCCTGATTG
671090 CACATGCGTG
Statistics
Matches: 866, Mismatches: 309, Indels: 188
0.64 0.23 0.14
Matches are distributed among these distances:
17 2 0.00
18 46 0.05
19 240 0.28
20 517 0.60
21 61 0.07
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (20 bp):
CCCCTGATTGTACTTCGGTA
Found at i:670596 original size:40 final size:39
Alignment explanation
Indices: 670529--670871 Score: 440
Period size: 40 Copynumber: 8.7 Consensus size: 39
670519 TACTTCAGTA
* *
670529 CCCCTGTTGTACTTTGATACCCCTGATTGCACATACATG
1 CCCCTGTTGTACTTCGATACCCCTGATTGCACATACGTG
* * * **
670568 CCCTTGTTCTTACTTCGGTACCGTTGATTGCACATACGTG
1 CCCCTGTT-GTACTTCGATACCCCTGATTGCACATACGTG
*
670608 CCCCT-TTGTACTTCGATGCCCCTGATTGCACATACGTG
1 CCCCTGTTGTACTTCGATACCCCTGATTGCACATACGTG
* *
670646 CCCCTGTTTGTACTTCCATACTCCTGATTGCACATACGTG
1 CCCCTG-TTGTACTTCGATACCCCTGATTGCACATACGTG
* * * *
670686 CCCCTATTGTACATCGGTACCTCTGATTGCACATACGTG
1 CCCCTGTTGTACTTCGATACCCCTGATTGCACATACGTG
*
670725 CCCCTGTTTGTACTTTGATACCCCTGATTGCACATACGTG
1 CCCCTG-TTGTACTTCGATACCCCTGATTGCACATACGTG
*
670765 CCCCTGTTTGTACTTCGGTACCCCTGATTGCACATACGTG
1 CCCCTG-TTGTACTTCGATACCCCTGATTGCACATACGTG
* *
670805 CCCTTGTTGTACTTCGATACCCCTGATTGCACATACATG
1 CCCCTGTTGTACTTCGATACCCCTGATTGCACATACGTG
**
670844 CCTTTGTTGTACTTC-AGTACCCCT-ATTG
1 CCCCTGTTGTACTTCGA-TACCCCTGATTG
670872 TACTTTGATA
Statistics
Matches: 266, Mismatches: 33, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
38 36 0.14
39 94 0.35
40 136 0.51
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (39 bp):
CCCCTGTTGTACTTCGATACCCCTGATTGCACATACGTG
Found at i:670882 original size:58 final size:59
Alignment explanation
Indices: 670811--671042 Score: 181
Period size: 59 Copynumber: 3.9 Consensus size: 59
670801 CGTGCCCTTG
*
670811 TTGTACTTCGATACCCCTGATTGCACATACATGCCTTTGTT-GTACTTCAGTACCCCTA
1 TTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTCGTACTTCAGTACCCCTA
* * * * *
670869 TTGTACTTTGATACCCTTGATTGCACATACATGCCCTTGTTCTTACTTCGGTACCCTTGA
1 TTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTCGTACTTCAGTACCCCT-A
* * * * * * * * *
670929 TTGCACATACG-TGCCCCTG-TTGTAC-TTCGATGCCCCTGATT-GCACAT-ACGTACCCCTGT
1 TTGTAC-TTCGATACCCCTGATTGCACATAC-ATGCCCTTG-TTCGTACTTCA-GTACCCCT-A
* * * * *
670988 TTGTACTTCCATACTCCTGATTGCACATACATGCCCCTATT-GTACTTCGGTACCC
1 TTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTCGTACTTCAGTACCC
671043 TTGATTGCAC
Statistics
Matches: 133, Mismatches: 31, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
58 42 0.32
59 60 0.45
60 27 0.20
61 4 0.03
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (59 bp):
TTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTCGTACTTCAGTACCCCTA
Found at i:670965 original size:98 final size:98
Alignment explanation
Indices: 670471--670970 Score: 335
Period size: 98 Copynumber: 5.1 Consensus size: 98
670461 CACATACGTG
*
670471 CCCTTATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTTC-AGTACCCCTG
1 CCCTGATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTTCGA-TACCCCTG
* * ** * * *
670535 -TTGTACTTTGATACCCCTGATTGCACATACA-TGC
65 ATTGCACATACATGCCCCTG-TTGTAC-TTCAGTGC
* * * ** * * *
670569 CCTTG-TTCTTACTTCGGTACCGTTGATTGCACATACGTGCCCCT-TTGTACTTCGATGCCCCTG
1 CCCTGATT-GTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTTCGATACCCCTG
* *
670632 ATTGCACATACGTGCCCCTGTTTGTACTTCCA-TAC
65 ATTGCACATACATGCCCCTG-TTGTACTT-CAGTGC
* * * * * * * * * *
670667 TCCTGATTGCACATACG-TGCCCCT-ATTGTACAT-C-GGTACCTCTGATTGCACATACG-TGCC
1 CCCTGATTGTAC-TTCGATACCCCTGATTGCACATACATG-CCCT-TG-TTGTAC-TTCGATACC
* * * ** * * *
670727 CCTGTTTGTACTTTGATACCCCTGATTGCACAT-ACGTGC
61 CCTGATTGCACATACATGCCCCTG-TTGTACTTCA-GTGC
* * *
670766 CCCTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCTTGTTGTACTTCGATACCCCTGA
1 CCCTGATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTTCGATACCCCTGA
** *
670831 TTGCACATACATGCCTTTGTTGTACTTCAGTAC
66 TTGCACATACATGCCCCTGTTGTACTTCAGTGC
* * * * *
670864 CCCT-ATTGTACTTTGATACCCTTGATTGCACATACATGCCCTTGTTCTTACTTCGGTACCCTTG
1 CCCTGATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTT-GTACTTCGATACCCCTG
*
670928 ATTGCACATACGTGCCCCTGTTGTACTTC-GATGC
65 ATTGCACATACATGCCCCTGTTGTACTTCAG-TGC
670962 CCCTGATTG
1 CCCTGATTG
670971 CACATACGTA
Statistics
Matches: 302, Mismatches: 78, Indels: 43
0.71 0.18 0.10
Matches are distributed among these distances:
95 1 0.00
96 3 0.01
97 67 0.22
98 130 0.43
99 83 0.27
100 13 0.04
101 4 0.01
102 1 0.00
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (98 bp):
CCCTGATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTTCGATACCCCTGA
TTGCACATACATGCCCCTGTTGTACTTCAGTGC
Found at i:670994 original size:177 final size:177
Alignment explanation
Indices: 670686--671042 Score: 504
Period size: 177 Copynumber: 2.0 Consensus size: 177
670676 CACATACGTG
* * *
670686 CCCCTATTGTACATCGGTACCTCTGATTGCACATACGTGCCCCTGTTTGTACTTTGATACCCCTG
1 CCCCTATTGTACATCGATACCTCTGATTGCACATACATGCCCCTGTTTGTACTTCGATACCCCTG
* * *
670751 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCTTGTTGTA
66 ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTACCCCTGTTGTA
* ** *
670816 CTTCGATACCCCTGATTGCACATACATGCCTTTGTTGTACTTCAGTA
131 CTTCCATACCCCTGATTGCACATACATGCCCCTATTGTACTTCAGTA
* * * * *
670863 CCCCTATTGTACTTTGATACC-CTTGATTGCACATACATGCCCTTGTTCT-TACTTCGGTACCCT
1 CCCCTATTGTACATCGATACCTC-TGATTGCACATACATGCCCCTGTT-TGTACTTCGATACCCC
*
670926 TGATTGCACATACGTGCCCCTG-TTGTACTTCGATGCCCCTGATTGCACATACGTACCCCTGTTT
64 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTACCCCTG-TT
* *
670990 GTACTTCCATACTCCTGATTGCACATACATGCCCCTATTGTACTTCGGTA
128 GTACTTCCATACCCCTGATTGCACATACATGCCCCTATTGTACTTCAGTA
671040 CCC
1 CCC
671043 TTGATTGCAC
Statistics
Matches: 159, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
176 36 0.23
177 122 0.77
178 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.34
Consensus pattern (177 bp):
CCCCTATTGTACATCGATACCTCTGATTGCACATACATGCCCCTGTTTGTACTTCGATACCCCTG
ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTACCCCTGTTGTA
CTTCCATACCCCTGATTGCACATACATGCCCCTATTGTACTTCAGTA
Found at i:671377 original size:20 final size:19
Alignment explanation
Indices: 671315--671379 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
671305 TACTTCGATA
*
671315 CCCCTGATTGCACATACGTG
1 CCCCTGATTGCAC-TATGTG
* * * *
671335 CCACT-ATTGTACTTTGGTA
1 CCCCTGATTGCACTAT-GTG
671354 CCCCTGATTGCACGTATGTG
1 CCCCTGATTGCAC-TATGTG
671374 CCCCTG
1 CCCCTG
671380 TTTGTACTTC
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 1 0.03
19 12 0.36
20 18 0.55
21 2 0.06
ACGTcount: A:0.17, C:0.32, G:0.20, T:0.31
Consensus pattern (19 bp):
CCCCTGATTGCACTATGTG
Found at i:683873 original size:45 final size:45
Alignment explanation
Indices: 683809--683898 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
683799 ATTACCAAGA
* *
683809 TAGATTTGATAGAGATGAAGCTCAGAATGGGTGATCAAGGACTAC
1 TAGATTTGATAGAGATGAAGCTCAAAATGGGTGATCAAAGACTAC
*
683854 TAGATTTGATAGAGATGAAGCTCAAAATGTGTGATCAAAGACTAC
1 TAGATTTGATAGAGATGAAGCTCAAAATGGGTGATCAAAGACTAC
683899 ACGTTTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (45 bp):
TAGATTTGATAGAGATGAAGCTCAAAATGGGTGATCAAAGACTAC
Found at i:693542 original size:21 final size:20
Alignment explanation
Indices: 693495--693545 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
693485 GAGCAAGTAG
*
693495 TGTTGAGTTTTGAAAACAGAA
1 TGTTGAG-TTTGAAAACACAA
* *
693516 TATTGAGTTTGAAAACACTA
1 TGTTGAGTTTGAAAACACAA
693536 TCGTTGAGTT
1 T-GTTGAGTT
693546 GAATTATCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (20 bp):
TGTTGAGTTTGAAAACACAA
Found at i:693690 original size:19 final size:19
Alignment explanation
Indices: 693649--693692 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
693639 CATAATAAAT
**
693649 CCAAAGTCCAAAACAAAGT
1 CCAAAGTCCAAAACAAAAC
693668 CCAAA-TCCAAAACCAAAAC
1 CCAAAGTCCAAAA-CAAAAC
693687 CCAAAG
1 CCAAAG
693693 CAATTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.55, C:0.32, G:0.07, T:0.07
Consensus pattern (19 bp):
CCAAAGTCCAAAACAAAAC
Found at i:694171 original size:39 final size:38
Alignment explanation
Indices: 694106--694187 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 38
694096 GTCTAGCTGC
* *
694106 CAGA-AACAGAATATTGTGGTCGAGCCACCAGATAATTTG
1 CAGATAACAGAATATTGTAGTCAAGCCACCAGATAA--TG
*
694145 CAGATAAC-GAATATTGTAGTCAAGCCACTAGATAATG
1 CAGATAACAGAATATTGTAGTCAAGCCACCAGATAATG
694182 CAGATA
1 CAGATA
694188 TACTGCCAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
37 8 0.21
39 28 0.72
40 3 0.08
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (38 bp):
CAGATAACAGAATATTGTAGTCAAGCCACCAGATAATG
Found at i:698122 original size:41 final size:40
Alignment explanation
Indices: 698075--698228 Score: 157
Period size: 41 Copynumber: 3.8 Consensus size: 40
698065 AGGGGTACCA
* *
698075 AAGTACAAAGAAGGGCACGTATGTGAAATTCAGGGGCATTG
1 AAGTACAAA-AAGGGCACGTATGTGCAATTCAGGGGCACTG
* * * * *
698116 AAGTACAAACAGGGGCATGAATGAGCAATTCAGTGGCACTG
1 AAGTACAAA-AAGGGCACGTATGTGCAATTCAGGGGCACTG
* * * *
698157 AAGTACAAATAGGGGCATGTATGTGCAATTCAGGGGTACCG
1 AAGTACAAA-AAGGGCACGTATGTGCAATTCAGGGGCACTG
*
698198 AAGTAC-AAAAGAGGCACGTTTGTGCAATTCA
1 AAGTACAAAAAG-GGCACGTATGTGCAATTCA
698229 ACGGTATTCA
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
39 2 0.02
40 19 0.20
41 74 0.78
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (40 bp):
AAGTACAAAAAGGGCACGTATGTGCAATTCAGGGGCACTG
Found at i:698128 original size:20 final size:20
Alignment explanation
Indices: 698105--698174 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
698095 ATGTGAAATT
698105 CAGGGGCATTGAAGTACAAA
1 CAGGGGCATTGAAGTACAAA
*
698125 CAGGGGCA-TGAA-TGAGCAATT
1 CAGGGGCATTGAAGT-A-CAA-A
* *
698146 CAGTGGCACTGAAGTACAAA
1 CAGGGGCATTGAAGTACAAA
*
698166 TAGGGGCAT
1 CAGGGGCAT
698175 GTATGTGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 17 0.44
21 10 0.26
22 5 0.13
23 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.17
Consensus pattern (20 bp):
CAGGGGCATTGAAGTACAAA
Found at i:698693 original size:26 final size:27
Alignment explanation
Indices: 698643--698696 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
698633 AACTTTTATC
*
698643 ATTTTCACAAATAAATCCCTAAATACA
1 ATTTTCACAAATAAATCACTAAATACA
* *
698670 ATTTTCATAAA-AAATCACTTAATACA
1 ATTTTCACAAATAAATCACTAAATACA
698696 A
1 A
698697 CTTGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (27 bp):
ATTTTCACAAATAAATCACTAAATACA
Found at i:707471 original size:12 final size:12
Alignment explanation
Indices: 707446--707484 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
707436 ACTCGCTTCT
* *
707446 TTACTTACTCAC
1 TTACTTGCTTAC
*
707458 TTACTTGTTTAC
1 TTACTTGCTTAC
707470 TTACTTGCTTAC
1 TTACTTGCTTAC
707482 TTA
1 TTA
707485 AATAACTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:707807 original size:50 final size:50
Alignment explanation
Indices: 707732--707929 Score: 171
Period size: 50 Copynumber: 3.8 Consensus size: 50
707722 TTTTCTGTAC
* * * **
707732 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * **** * *
707782 TGCCCATGCCATGTCCCAGACATGGTCATGTGGGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
707832 TGCCAACGCCATGTCCCAGAAATGGCCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
707888 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
707930 TTACCCAAAT
Statistics
Matches: 112, Mismatches: 30, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
50 72 0.64
53 2 0.02
56 38 0.34
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:708301 original size:30 final size:29
Alignment explanation
Indices: 708265--708325 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
708255 CCTTGACTCG
708265 AACTTTGGAAAAATTACGA-TTTTGCCTCTA
1 AACTTTGGAAAAATTAC-ACTTTTGCC-CTA
* *
708295 AACTTTGGTATAATTACACTTTTGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCTA
708324 AA
1 AA
708326 GCTCGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTGCCCTA
Found at i:715042 original size:24 final size:24
Alignment explanation
Indices: 715010--715056 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
715000 CTAAATTTAT
*
715010 AACACTTTCCTTTC-CTTTCTCTTC
1 AACACTTTCC-ATCACTTTCTCTTC
*
715034 AACATTTTCCATCACTTTCTCTT
1 AACACTTTCCATCACTTTCTCTT
715057 ATTTCCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (24 bp):
AACACTTTCCATCACTTTCTCTTC
Found at i:718133 original size:33 final size:33
Alignment explanation
Indices: 718095--718316 Score: 116
Period size: 33 Copynumber: 6.4 Consensus size: 33
718085 GTAGAATCTC
718095 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
* * * *
718128 TACTTAGCAACCCCTTTCACATTTAAGATACAGTGGG-ATCTG
1 CACTTAGCAACCAC---CA-A--TGA-AT-C-G-GGGAATCAG
718170 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
* * * *
718203 CACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATTAG
1 CACTTAGCAA-CCAC--CA-A--T-GAAT-CGG-GGAATCAG
* *
718245 CACTTAGCAACCACCAATGAATTGGGGAATCAA
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
* *
718278 AACTTAGCAACC-CC--T---TGGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
718305 CACTTAGCAACC
1 CACTTAGCAACC
718317 CCCTTTATAT
Statistics
Matches: 149, Mismatches: 20, Indels: 46
0.69 0.09 0.21
Matches are distributed among these distances:
27 21 0.14
30 1 0.01
32 5 0.03
33 44 0.30
34 7 0.05
35 5 0.03
36 7 0.05
37 2 0.01
38 2 0.01
39 7 0.05
40 5 0.03
41 6 0.04
42 34 0.23
43 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGAATCGGGGAATCAG
Found at i:718198 original size:75 final size:75
Alignment explanation
Indices: 718018--718293 Score: 401
Period size: 75 Copynumber: 3.7 Consensus size: 75
718008 GGTGGATTTA
* * *
718018 GCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAA-GATA
*
718083 CGGTAGAATCT
65 CGGTGGAATCT
* *
718094 CCACTTAGCAACCACCAATGAATCGGGGAATCAGTACTTAGCAACCCCTTTCACATTTAAGATAC
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATAC
* *
718159 AGTGGGATCT
66 GGTGGAATCT
* * *
718169 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATAC
718234 GGTGGAAT-T
66 GGTGGAATCT
* **
718243 AGCACTTAGCAACCACCAATGAATTGGGGAATCAAAACTTAGCAACCCCTT
1 -GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
718294 GGGGGAATCA
Statistics
Matches: 180, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
74 1 0.01
75 124 0.69
76 55 0.31
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (75 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATAC
GGTGGAATCT
Found at i:718504 original size:93 final size:94
Alignment explanation
Indices: 718344--718514 Score: 260
Period size: 93 Copynumber: 1.8 Consensus size: 94
718334 TACCAGTTCA
* *
718344 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
718409 CATAGTACTACACGAAGCTATTCGGTACG
66 CATAGTACTACACGAAGCTATTCGGTACG
*
718438 CATAGTAGCCTGCACATAAGTACTACAC-TGCGCCCTATCA-T-TCTAG-TACACGTAGTAGCCT
1 CATAGTAGCCTGCACAT-AGTACTACACATGCGACC-ATCACTATC-AGATACACGTAGTAGCCT
718499 GCACATAGTACTACAC
63 GCACATAGTACTACAC
718515 ACGTGACCAT
Statistics
Matches: 71, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
93 33 0.46
94 24 0.34
95 14 0.20
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (94 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
CATAGTACTACACGAAGCTATTCGGTACG
Found at i:722815 original size:20 final size:20
Alignment explanation
Indices: 722790--722831 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
722780 TTTTCTACTA
*
722790 TAGGCTCTGAGGTTCGCACT
1 TAGGCTCAGAGGTTCGCACT
722810 TAGGCTCAGAGGTTCGCACT
1 TAGGCTCAGAGGTTCGCACT
722830 TA
1 TA
722832 TGATGCGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (20 bp):
TAGGCTCAGAGGTTCGCACT
Found at i:723638 original size:21 final size:20
Alignment explanation
Indices: 723614--723662 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
723604 TACTTCTCTG
* *
723614 TTTTTATTTTTTTCTTTTCT
1 TTTTTATTGTTTTCTTTTAT
* *
723634 CTTTTAAATGTTTTCTTTTAT
1 -TTTTTATTGTTTTCTTTTAT
723655 TTTTTATT
1 TTTTTATT
723663 ATTATTGTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTTATTGTTTTCTTTTAT
Found at i:725928 original size:16 final size:16
Alignment explanation
Indices: 725902--725942 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
725892 AGGAGGAAAG
725902 AGGGTTT-GAAG-GATA
1 AGGGTTTAGAAGAG-TA
725917 AGGGTTTAGAAGAGTA
1 AGGGTTTAGAAGAGTA
*
725933 AGTGTTTAGA
1 AGGGTTTAGA
725943 TGAAGTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (16 bp):
AGGGTTTAGAAGAGTA
Found at i:731465 original size:27 final size:27
Alignment explanation
Indices: 731426--731894 Score: 365
Period size: 27 Copynumber: 17.4 Consensus size: 27
731416 GGCCATAACA
*
731426 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
731453 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *** ***
731480 GTCATTTTACCCTTTTTACCCTATGGGG
1 GTCATTTTACCC-TATGAGGGTATTTCG
* **
731508 GT-ATTCTACCCTATGAGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
731534 GTCATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * *
731561 ATAATTCTACCCTATG-GAGGTATTTTG
1 GTCATTTTACCCTATGAG-GGTATTTCG
* * * *
731588 ATCATTTTAGCCTAAGGGGGGTATTTCG
1 GTCATTTTACCCT-ATGAGGGTATTTCG
* *
731616 ATCAGTTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
731643 ATCATTTTACCCTAAGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
731670 GTCATTTTACCCTAT-AGGGGTATTTCT
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
731697 GTCATTTTCCCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
731724 ATCATTCTACCCTATGAAGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * *
731751 ATCATTCTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* **
731778 GTCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * * * **
731805 GTTATTTT-TCTTACGTGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
731831 GTCATTTTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
731858 GTCATTTTACCCTAT-AGAGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
731884 GTCATTTTACC
1 GTCATTTTACC
731895 TATTTTAGGG
Statistics
Matches: 358, Mismatches: 74, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
26 49 0.14
27 278 0.78
28 30 0.08
29 1 0.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:731519 original size:18 final size:18
Alignment explanation
Indices: 731496--731530 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
731486 TTACCCTTTT
*
731496 TACCCTATGGGGGTATTC
1 TACCCTATGAGGGTATTC
731514 TACCCTATGAGGGTATT
1 TACCCTATGAGGGTATT
731531 TTAGTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (18 bp):
TACCCTATGAGGGTATTC
Found at i:739417 original size:48 final size:48
Alignment explanation
Indices: 739339--739432 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
739329 AAGACACCAT
* *
739339 TTGTGGACAAGCCACCACATAGTTGTCGATAACGACCACATAATCACA
1 TTGTGGACAAGCCACCACATAATTGCCGATAACGACCACATAATCACA
*
739387 TTGTGGACAAGCCACCACATAATTGCCGATAACGGCCACATAATCA
1 TTGTGGACAAGCCACCACATAATTGCCGATAACGACCACATAATCA
739433 ATTTATGTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (48 bp):
TTGTGGACAAGCCACCACATAATTGCCGATAACGACCACATAATCACA
Found at i:743119 original size:19 final size:19
Alignment explanation
Indices: 743092--743128 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
743082 TCCTTCAAAG
* *
743092 AATATATGAACAAAATGTT
1 AATACATGAAAAAAATGTT
743111 AATACATGAAAAAAATGT
1 AATACATGAAAAAAATGT
743129 GTCTTCATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (19 bp):
AATACATGAAAAAAATGTT
Found at i:748282 original size:8 final size:8
Alignment explanation
Indices: 748260--748298 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
748250 AATACAAATT
748260 TTTTCTTTC
1 TTTT-TTTC
*
748269 TATTTTTC
1 TTTTTTTC
748277 TTTTTTTC
1 TTTTTTTC
748285 -TTTTTTC
1 TTTTTTTC
748292 TTTTTTT
1 TTTTTTT
748299 GCTGTCGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 7 0.26
8 17 0.63
9 3 0.11
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:748291 original size:15 final size:16
Alignment explanation
Indices: 748260--748298 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 16
748250 AATACAAATT
748260 TTTTCTTTCTATTTTTC
1 TTTT-TTTCTATTTTTC
748277 TTTTTTTCT-TTTTTC
1 TTTTTTTCTATTTTTC
748292 TTTTTTT
1 TTTTTTT
748299 GCTGTCGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 13 0.59
16 5 0.23
17 4 0.18
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTCTATTTTTC
Found at i:749075 original size:44 final size:43
Alignment explanation
Indices: 748979--749318 Score: 245
Period size: 44 Copynumber: 7.8 Consensus size: 43
748969 ACTTGATGCG
* * * * * *
748979 ATCTACTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGACTTCA
* * * *
749023 ATCCGCTCCACTACAACTTCAAGGAGATAGGATTATCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GACTTCA
* * ** *
749067 ATCTGCTCCACTGCAACTTCAGGGGGATAAGACT-TGTTTTCTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGACTTC-A
* * * ** * *
749110 AGCTTGCTTCACTGCAACCTCAGGGAGATAAGA-CCTGA-TACG
1 ATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTATGACTTCA
** * * * * *
749152 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGACTTCA
* * * *
749196 ATCTGCTCTACTACAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GACTTCA
* * *
749240 ATCTACTCCACTGCAACCTCAGGGAGATAAGATTTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAT-GACTTCA
* *
749285 ATCTGCTCCACTGCAACCTCAGAGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
749319 TGCCATCTTC
Statistics
Matches: 231, Mismatches: 56, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
41 23 0.10
42 6 0.03
43 13 0.06
44 147 0.64
45 42 0.18
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGACTTCA
Found at i:749340 original size:45 final size:45
Alignment explanation
Indices: 749156--749343 Score: 155
Period size: 45 Copynumber: 4.2 Consensus size: 45
749146 GATACGATCC
* * * ** * *
749156 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTA-TTTTAATCT
1 ACTCCACTGCAACCTCAGAGAGATAAGATTTACCAGCTTCAATCT
* * * * * * * *
749200 GCTCTACTACAACTTCAGGGAGATAGGA-TTATCGGCTTCAATCT
1 ACTCCACTGCAACCTCAGAGAGATAAGATTTACCAGCTTCAATCT
* * *
749244 ACTCCACTGCAACCTCAGGGAGATAAGATTTATCGGCTTCAATCT
1 ACTCCACTGCAACCTCAGAGAGATAAGATTTACCAGCTTCAATCT
* * * *
749289 GCTCCACTGCAACCTCAGAGAGATAAGATTTGCCATCTTCGATCT
1 ACTCCACTGCAACCTCAGAGAGATAAGATTTACCAGCTTCAATCT
*
749334 ATTCCACTGC
1 ACTCCACTGC
749344 TGACCAGGGA
Statistics
Matches: 119, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
43 3 0.03
44 54 0.45
45 62 0.52
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (45 bp):
ACTCCACTGCAACCTCAGAGAGATAAGATTTACCAGCTTCAATCT
Found at i:760483 original size:14 final size:14
Alignment explanation
Indices: 760466--760498 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
760456 TTTCTTTCTA
760466 TTTTTCTTATTTTC
1 TTTTTCTTATTTTC
760480 TTTTTCTTATTTTC
1 TTTTTCTTATTTTC
760494 TTTTT
1 TTTTT
760499 TTTTTTGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTATTTTC
Found at i:760485 original size:22 final size:21
Alignment explanation
Indices: 760452--760504 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
760442 AAGAATACAA
760452 ATTTTTTCTTTC-TATTTTTCTT
1 ATTTTTT-TTTCTTA-TTTTCTT
760474 ATTTTCTTTTTCTTATTTTCTT
1 ATTTT-TTTTTCTTATTTTCTT
760496 -TTTTTTTTT
1 ATTTTTTTTT
760505 GCTGCCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.17
21 4 0.14
22 16 0.55
23 4 0.14
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (21 bp):
ATTTTTTTTTCTTATTTTCTT
Found at i:763920 original size:38 final size:39
Alignment explanation
Indices: 763878--764150 Score: 113
Period size: 38 Copynumber: 7.2 Consensus size: 39
763868 ACTTCGAGGA
* *
763878 GACACCGAGTTGACGGTTATCTACTAATCCTTT-GGGGC
1 GACACCGAGTTGACAGTTATCTACTGATCCTTTCGGGGC
* *
763916 GACACC-ATGTTAACCA-TTATCTACTGGT-CTTTCGGGGC
1 GACACCGA-GTTGA-CAGTTATCTACTGATCCTTTCGGGGC
* * * *
763954 -AGCACCGTGTTGATAGTTATCTACTGATCCTTT-AGGGT
1 GA-CACCGAGTTGACAGTTATCTACTGATCCTTTCGGGGC
* * * * * *
763992 AACACC-ATGTTGA-TGATGATCTACT-AGCCTTTCAGGGT
1 GACACCGA-GTTGACAG-TTATCTACTGATCCTTTCGGGGC
* * * * *
764030 GACAACGTGTTGACAGTTATCTACTGGTCC-TTCGAGGA
1 GACACCGAGTTGACAGTTATCTACTGATCCTTTCGGGGC
* * * * * * * *
764068 AACACCGTGTTAACGGTTATCTATTGGTCC-TTCAGGGT
1 GACACCGAGTTGACAGTTATCTACTGATCCTTTCGGGGC
* * * * *
764106 GACA-TGATGTTGACAATTATCTACTGTTCC-TTCGAGGT
1 GACACCGA-GTTGACAGTTATCTACTGATCCTTTCGGGGC
764144 GACACCG
1 GACACCG
764151 TGTAAACTGT
Statistics
Matches: 176, Mismatches: 43, Indels: 31
0.70 0.17 0.12
Matches are distributed among these distances:
37 15 0.09
38 151 0.86
39 10 0.06
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (39 bp):
GACACCGAGTTGACAGTTATCTACTGATCCTTTCGGGGC
Found at i:763984 original size:76 final size:76
Alignment explanation
Indices: 763886--764137 Score: 199
Period size: 76 Copynumber: 3.3 Consensus size: 76
763876 GAGACACCGA
* * * * * * *
763886 GTTGACGGTTATCTACTAATCCTTTGGGGCGACACCATGTTAACCATTATCTACTGGTCTTTC-G
1 GTTGACAGTTATCTACTGATCCTTTAGGGCAACACCATGTTAACCATGATCTACTAGCCTTTCAG
*
763950 GG-GCAGCACCGT
66 GGTG-A-CAACGT
* * * **
763962 GTTGATAGTTATCTACTGATCCTTTAGGGTAACACCATGTTGATGATGATCTACTAGCCTTTCAG
1 GTTGACAGTTATCTACTGATCCTTTAGGGCAACACCATGTTAACCATGATCTACTAGCCTTTCAG
764027 GGTGACAACGT
66 GGTGACAACGT
* * * * ** * * *
764038 GTTGACAGTTATCTACTGGTCC-TTCGAGGAAACACCGTGTTAACGGTTATCTATTGGTCC-TTC
1 GTTGACAGTTATCTACTGATCCTTTAG-GGCAACACCATGTTAACCATGATCTACTAG-CCTTTC
*
764101 AGGGTGAC-ATGAT
64 AGGGTGACAACG-T
* *
764114 GTTGACAATTATCTACTGTTCCTT
1 GTTGACAGTTATCTACTGATCCTT
764138 CGAGGTGACA
Statistics
Matches: 143, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
75 5 0.03
76 130 0.91
77 7 0.05
78 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (76 bp):
GTTGACAGTTATCTACTGATCCTTTAGGGCAACACCATGTTAACCATGATCTACTAGCCTTTCAG
GGTGACAACGT
Found at i:778777 original size:17 final size:19
Alignment explanation
Indices: 778752--778786 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
778742 TATATTAAAT
778752 AAATATATTAT-ATATTTA
1 AAATATATTATAATATTTA
778770 AAAT-TATTATAATATTT
1 AAATATATTATAATATTT
778787 TAATTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATATTATAATATTTA
Found at i:779864 original size:199 final size:199
Alignment explanation
Indices: 779517--779909 Score: 705
Period size: 199 Copynumber: 2.0 Consensus size: 199
779507 TATTGAGTTG
*
779517 ATGGAAACCTTGCTGTGTAACACCCCTAACCTGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
1 ATGGAAACCTTGCTGTGTAACACCCCTAACCCGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
*
779582 ACCGCAAAAACGTAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
66 ACCGCAAAAACATAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
779647 ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGGT
131 ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGGT
779712 TACA
196 TACA
* * * *
779716 ATGGAAGCCTTGCTGTGTAACACCCTTAACCCGTACCCGTCGCCGGAATAGGTTTACAGAGCATC
1 ATGGAAACCTTGCTGTGTAACACCCCTAACCCGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
* *
779781 ACCGCAAAAACATAACTCAAATCATTCATGTCTAACATTTTATAATAATTCCAAAATCTAATCAA
66 ACCGCAAAAACATAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
*
779846 ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACACTTTAGAAACGATTCGG
131 ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGG
779910 GACTAAATCG
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
199 185 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (199 bp):
ATGGAAACCTTGCTGTGTAACACCCCTAACCCGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
ACCGCAAAAACATAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGGT
TACA
Found at i:782531 original size:11 final size:11
Alignment explanation
Indices: 782517--782546 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
782507 ACATTTTTTC
782517 AAAATTTTCCT
1 AAAATTTTCCT
782528 AAAATTTTCCT
1 AAAATTTTCCT
782539 AAAATTTT
1 AAAATTTT
782547 ACTTTTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATTTTCCT
Found at i:784646 original size:40 final size:40
Alignment explanation
Indices: 784591--784670 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
784581 ATAATCTTTA
784591 ATTTCCTCTTTACTTAATCTCTTACTCATTCACTTACTTG
1 ATTTCCTCTTTACTTAATCTCTTACTCATTCACTTACTTG
784631 ATTTCCTCTTTACTTAATCTCTTACTCATTCACTTACTTG
1 ATTTCCTCTTTACTTAATCTCTTACTCATTCACTTACTTG
784671 TATACTTAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.28, G:0.03, T:0.50
Consensus pattern (40 bp):
ATTTCCTCTTTACTTAATCTCTTACTCATTCACTTACTTG
Found at i:784665 original size:20 final size:20
Alignment explanation
Indices: 784602--784666 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
784592 TTTCCTCTTT
784602 ACTTAATCTCTTACTCATTC
1 ACTTAATCTCTTACTCATTC
* * * *
784622 ACTTACT-TGATTTCCTC-TTT
1 ACTTAATCT--CTTACTCATTC
784642 ACTTAATCTCTTACTCATTC
1 ACTTAATCTCTTACTCATTC
784662 ACTTA
1 ACTTA
784667 CTTGTATACT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 6 0.18
20 21 0.64
21 6 0.18
ACGTcount: A:0.23, C:0.28, G:0.02, T:0.48
Consensus pattern (20 bp):
ACTTAATCTCTTACTCATTC
Found at i:784676 original size:20 final size:19
Alignment explanation
Indices: 784612--784676 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
784602 ACTTAATCTC
784612 TTACTCATTCACTTACTTG
1 TTACTCATTCACTTACTTG
* * * *
784631 ATTTCCTC-TTTACTTAATCTC
1 --TTACTCATTCACTTACT-TG
784652 TTACTCATTCACTTACTTG
1 TTACTCATTCACTTACTTG
784671 TATACT
1 T-TACT
784677 TAGATAACTC
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
19 7 0.21
20 20 0.61
21 6 0.18
ACGTcount: A:0.22, C:0.26, G:0.03, T:0.49
Consensus pattern (19 bp):
TTACTCATTCACTTACTTG
Found at i:785144 original size:56 final size:50
Alignment explanation
Indices: 784880--785177 Score: 235
Period size: 50 Copynumber: 5.9 Consensus size: 50
784870 TGATAATAAC
* ** * *
784880 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGT--
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCGTCTCG
* * * * * * * * *
784928 ACTGCGAATGCGATATCCCAGATATGGTCTTACATGGGA-GTTCACATATTG
1 A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCGTCTCG
* * ** * * *
784979 GTGCCCATGCCATGTCTAAGACATGGTCTTAC-GGGAGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GACCTTTCGTCTCG
* * *
785029 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCGTCTCG
*
785079 ATGCCAATGCCATGTCCCATACATGGTCTTACATGGGACCTTTCATGATCTCAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTC--G-TCTC---G
* * *
785135 ATGTCAATGCCATGTCCCAGACGTGGTCTTACATGGGATCTTT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTT
785178 TTACCCAAAT
Statistics
Matches: 202, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
48 4 0.02
49 38 0.19
50 112 0.55
51 3 0.01
52 1 0.00
53 4 0.02
56 40 0.20
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCGTCTCG
Found at i:800592 original size:16 final size:17
Alignment explanation
Indices: 800573--800606 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
800563 ATTTTCACAA
800573 TCTAGAGTTTTCT-TAG
1 TCTAGAGTTTTCTATAG
*
800589 TCTATAGTTTTCTATAG
1 TCTAGAGTTTTCTATAG
800606 T
1 T
800607 TTTCATAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (17 bp):
TCTAGAGTTTTCTATAG
Found at i:800609 original size:26 final size:26
Alignment explanation
Indices: 800573--800624 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
800563 ATTTTCACAA
*
800573 TCTAGAGTTTTCTTAGTCTATAGTTT
1 TCTAGAGTTTTCATAGTCTATAGTTT
*
800599 TCTATAGTTTTCATAGTCTATAGTTT
1 TCTAGAGTTTTCATAGTCTATAGTTT
800625 CACATCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.13, T:0.54
Consensus pattern (26 bp):
TCTAGAGTTTTCATAGTCTATAGTTT
Found at i:801676 original size:50 final size:51
Alignment explanation
Indices: 801534--801677 Score: 166
Period size: 50 Copynumber: 2.8 Consensus size: 51
801524 TAAAACAACA
* * *
801534 TTTGTGGATAA-CCAACCACTAATTTGCAGATAAACTACCACTAATAACACT
1 TTTGTGGACAAGCC-ACCACTAATTTGCAGATATACTACCACTAATAACAAT
* * * * * *
801585 TTTGTGGACAAGCCACCCCTAATATGCAGATTTCCTGCCACTGAT-ACAAT
1 TTTGTGGACAAGCCACCACTAATTTGCAGATATACTACCACTAATAACAAT
* *
801635 TTTGTGGACATGCCACCACTGATTTGCAGATATACTACCACTA
1 TTTGTGGACAAGCCACCACTAATTTGCAGATATACTACCACTA
801678 CTTCGACCTT
Statistics
Matches: 75, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
50 39 0.52
51 34 0.45
52 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (51 bp):
TTTGTGGACAAGCCACCACTAATTTGCAGATATACTACCACTAATAACAAT
Found at i:806780 original size:7 final size:7
Alignment explanation
Indices: 806768--806811 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
806758 AATGTTACAT
806768 TTTATTA
1 TTTATTA
806775 TTTATTA
1 TTTATTA
806782 TTTATTA
1 TTTATTA
806789 TTTATTA
1 TTTATTA
806796 TTTATTA
1 TTTATTA
806803 TTTATTA
1 TTTATTA
806810 TT
1 TT
806812 GTACTAATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:807714 original size:51 final size:49
Alignment explanation
Indices: 807556--807736 Score: 263
Period size: 49 Copynumber: 3.7 Consensus size: 49
807546 AAGCAGTGGT
* * *
807556 AGTATATCTGCAAGTTAGTGATGGCTTGTCCACAAAATTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
*
807605 AATATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
* * * *
807654 AGTATATCTGCATATTAGTGGTGGCTTTTCCACAAAAGAGTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCAC-AAA-ATTTATCAATGGC
*
807705 AGTTTATCTGCAAATCAGTGGTGGCTTGTCCA
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCA
807737 TAAATGGTGT
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
49 74 0.63
50 3 0.03
51 40 0.34
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (49 bp):
AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
Found at i:807724 original size:100 final size:98
Alignment explanation
Indices: 807556--807736 Score: 283
Period size: 100 Copynumber: 1.8 Consensus size: 98
807546 AAGCAGTGGT
*
807556 AGTATATCTGCAAGTTAGTGATGGCTTGTCCACAAAATTTATCAATGGCAATATATCTGCAAATC
1 AGTATATCTGCAAGTTAGTGATGGCTTGTCCACAAAAGTTATCAATGGCAATATATCTGCAAATC
807621 AGTGGTGGCTTGTCCACAAAATTTATCAATGGC
66 AGTGGTGGCTTGTCCACAAAATTTATCAATGGC
* * * *
807654 AGTATATCTGCATA-TTAGTGGTGGCTTTTCCACAAAAGAGTTATCAATGGCAGTTTATCTGCAA
1 AGTATATCTGCA-AGTTAGTGATGGCTTGTCCAC-AAA-AGTTATCAATGGCAATATATCTGCAA
807718 ATCAGTGGTGGCTTGTCCA
63 ATCAGTGGTGGCTTGTCCA
807737 TAAATGGTGT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
98 29 0.39
99 4 0.05
100 42 0.56
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (98 bp):
AGTATATCTGCAAGTTAGTGATGGCTTGTCCACAAAAGTTATCAATGGCAATATATCTGCAAATC
AGTGGTGGCTTGTCCACAAAATTTATCAATGGC
Found at i:808101 original size:29 final size:29
Alignment explanation
Indices: 808044--808105 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
808034 TTTAAATAAA
*
808044 TATGGACTTTTATTTATGATTTGGATTTT
1 TATGGACTTTTATTGATGATTTGGATTTT
*
808073 TATGGAC-TTTATTGCT-ATTTAGGACTTTT
1 TATGGACTTTTATTGATGATTT-GGA-TTTT
808102 TATG
1 TATG
808106 TTCAATTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.14
28 10 0.34
29 15 0.52
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (29 bp):
TATGGACTTTTATTGATGATTTGGATTTT
Found at i:813592 original size:21 final size:20
Alignment explanation
Indices: 813553--813593 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
813543 ACTTTAAAAT
*
813553 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATGATATTAAC
*
813573 CAAGTTCAAAATTATATTAAC
1 CAAGTT-AAAATGATATTAAC
813594 AACTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (20 bp):
CAAGTTAAAATGATATTAAC
Found at i:823639 original size:52 final size:52
Alignment explanation
Indices: 823444--823639 Score: 187
Period size: 52 Copynumber: 3.8 Consensus size: 52
823434 CAACACTTGA
* * *
823444 TGTGCCCATATGCGAGTTGTAGTCAATGTGCAAGCTATGCTAATGTGT-ATT
1 TGTGCCCATATGCGAGTTGTAGTCAATATGCGAGCTATGCTAATGTGTGAGT
* * * ** * * * *
823495 TGCGCCTATCTATGAGTTGTAGTCAATATACGCGAGCTATGCTATTATGCGTGT
1 TGTGCCCATATGCGAGTTGTAGTCAATAT--GCGAGCTATGCTAATGTGTGAGT
* * *
823549 TGTGCCCATATGCGAGCTGTAGTCAATATGTGAACTATGCTAATGTGTGAGT
1 TGTGCCCATATGCGAGTTGTAGTCAATATGCGAGCTATGCTAATGTGTGAGT
* * * * *
823601 TGTACCCATGTGTGAGTTGTGGTCAATGTGCGAGCTATG
1 TGTGCCCATATGCGAGTTGTAGTCAATATGCGAGCTATG
823640 ACATGTGTAA
Statistics
Matches: 110, Mismatches: 32, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
51 23 0.21
52 48 0.44
53 15 0.14
54 24 0.22
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.34
Consensus pattern (52 bp):
TGTGCCCATATGCGAGTTGTAGTCAATATGCGAGCTATGCTAATGTGTGAGT
Found at i:823979 original size:22 final size:22
Alignment explanation
Indices: 823953--823997 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
823943 ACCATCCTTT
823953 TTGTAATTTTTGTAAATGTAAA
1 TTGTAATTTTTGTAAATGTAAA
823975 TTGTAATTTTTGTAAATGTAAA
1 TTGTAATTTTTGTAAATGTAAA
823997 T
1 T
823998 ATCGGGGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (22 bp):
TTGTAATTTTTGTAAATGTAAA
Found at i:834119 original size:13 final size:13
Alignment explanation
Indices: 834101--834130 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
834091 AACCAGTAGA
834101 ATATTTTATATCT
1 ATATTTTATATCT
*
834114 ATATTTTGTATCT
1 ATATTTTATATCT
834127 ATAT
1 ATAT
834131 AACTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (13 bp):
ATATTTTATATCT
Found at i:834197 original size:13 final size:13
Alignment explanation
Indices: 834179--834207 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
834169 TAACTACTAT
834179 TATTTTGTATCTA
1 TATTTTGTATCTA
834192 TATTTTGTATCTA
1 TATTTTGTATCTA
834205 TAT
1 TAT
834208 AACTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (13 bp):
TATTTTGTATCTA
Found at i:835411 original size:42 final size:42
Alignment explanation
Indices: 835365--835470 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
835355 AATTGATATT
*
835365 TGATTTGCATGTTAAACATGCCAACAATGAT-AAACTGAGATA
1 TGATTTGCATGTTAAGCATGCCAACAATGATGAAA-TGAGATA
* * * * * * * *
835407 TGATTTGTATGTTAAGTATGCCGACTATGTTGATATTAGATT
1 TGATTTGCATGTTAAGCATGCCAACAATGATGAAATGAGATA
835449 TGATTTGCATGTTAAGCATGCC
1 TGATTTGCATGTTAAGCATGCC
835471 TACTGATAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 50 0.96
43 2 0.04
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (42 bp):
TGATTTGCATGTTAAGCATGCCAACAATGATGAAATGAGATA
Found at i:836759 original size:23 final size:23
Alignment explanation
Indices: 836733--836799 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
836723 GTGCCACACT
836733 GATATGTAGCCGAAGCTACCACC
1 GATATGTAGCCGAAGCTACCACC
* * *
836756 GATATGTAACCGTAGCTACCACT
1 GATATGTAGCCGAAGCTACCACC
* *
836779 AAAATGTAGCCGAAGCTACCA
1 GATATGTAGCCGAAGCTACCA
836800 TTGATTAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (23 bp):
GATATGTAGCCGAAGCTACCACC
Found at i:838248 original size:24 final size:24
Alignment explanation
Indices: 838170--838262 Score: 86
Period size: 24 Copynumber: 3.9 Consensus size: 24
838160 TACTACAAAA
*
838170 ATTGAGTGGCTT-ATCCACAATGAT
1 ATTGAGTGGCTTGA-CCACAACGAT
* *
838194 A-TGAATGGCTTGTCCACAAC-ACT
1 ATTGAGTGGCTTGACCACAACGA-T
*
838217 AACT-AGTGGCTTGACCACAACGAT
1 -ATTGAGTGGCTTGACCACAACGAT
*
838241 ATTGAGTGGCTTGGCCACAACG
1 ATTGAGTGGCTTGACCACAACG
838263 TGGAGTGTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
22 1 0.02
23 18 0.32
24 35 0.62
25 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
ATTGAGTGGCTTGACCACAACGAT
Found at i:840733 original size:15 final size:15
Alignment explanation
Indices: 840710--840750 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
840700 TTCAGATTGT
840710 GATTGTGAAACTATA
1 GATTGTGAAACTATA
*
840725 GATTTTGAAACTATA
1 GATTGTGAAACTATA
*
840740 GACTGTGAAAC
1 GATTGTGAAAC
840751 AAATAGACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (15 bp):
GATTGTGAAACTATA
Found at i:845582 original size:30 final size:30
Alignment explanation
Indices: 845526--845583 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
845516 TCTGAGCTTT
*
845526 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
1 GGGGCAAAAGTGTAATTATGCAAAAGTTTA
* * *
845556 GGGGCAAAATTGTAATTTTGCCAAAGTT
1 GGGGCAAAAGTGTAATTATGCAAAAGTT
845584 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAGTGTAATTATGCAAAAGTTTA
Found at i:846017 original size:41 final size:43
Alignment explanation
Indices: 845932--846019 Score: 108
Period size: 47 Copynumber: 2.0 Consensus size: 43
845922 GATCCCATGT
845932 AAGACCATGTCTGGGACATGACATTGGCATCATTGAGATTATGAGAG
1 AAGACCATGTCTGGGACATGACATTGGCATC--TGAG--TATGAGAG
* *
845979 AAGACCATGTTTGGGACATGGCATTGGCATC-GAG-ATGAGAG
1 AAGACCATGTCTGGGACATGACATTGGCATCTGAGTATGAGAG
846020 GTCCCTCGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
41 7 0.18
44 3 0.08
47 29 0.74
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (43 bp):
AAGACCATGTCTGGGACATGACATTGGCATCTGAGTATGAGAG
Found at i:846045 original size:50 final size:50
Alignment explanation
Indices: 845924--846156 Score: 178
Period size: 50 Copynumber: 4.7 Consensus size: 50
845914 GGTAAAGAGA
* * *
845924 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATC-A-TTGAGATTA-
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA--AC
*** * * **
845973 TGAGA-G-AAGACCATGTTTGGGACATGGCATTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * *
846021 TCCC-TCGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * *
846071 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC
* * * *
846119 ATCCCATGTAAGAACATGTCTAGGACATAGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
846157 TGTTATTATC
Statistics
Matches: 147, Mismatches: 28, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
47 29 0.20
48 7 0.05
49 44 0.30
50 66 0.45
51 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
Found at i:855472 original size:20 final size:20
Alignment explanation
Indices: 855447--855485 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
855437 TACTTTCTTC
855447 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
855467 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
855486 AAATAACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:855795 original size:50 final size:49
Alignment explanation
Indices: 855674--855800 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
855664 AATAACATGC
* *
855674 CAAA-GCCATGTCCCAAACATGGTCTTACATGAGATGTTTCCTATACTA
1 CAAATGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATATACTA
* * *
855722 CAAATGCCATATCCCAGATATGGTCTTACATGAGA-GTTCTCATAT-CGGTG
1 CAAATGCCATGTCCCAGACATGGTCTTACATGAGATGTT-TCATATAC--TA
**
855772 CCCATGCCATGTCCCAGACATGGTCTTAC
1 CAAATGCCATGTCCCAGACATGGTCTTAC
855801 GTGGGACCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
48 8 0.12
49 32 0.48
50 26 0.39
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (49 bp):
CAAATGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATATACTA
Found at i:857386 original size:13 final size:14
Alignment explanation
Indices: 857368--857408 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
857358 GATACAGATA
857368 CAGATA-ACAAAAT
1 CAGATATACAAAAT
* *
857381 CAGATATGCAGAA-
1 CAGATATACAAAAT
857394 CAGATATACAAAAT
1 CAGATATACAAAAT
857408 C
1 C
857409 CTATCCCCCG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.54, C:0.17, G:0.12, T:0.17
Consensus pattern (14 bp):
CAGATATACAAAAT
Found at i:868337 original size:43 final size:43
Alignment explanation
Indices: 868276--868381 Score: 140
Period size: 43 Copynumber: 2.5 Consensus size: 43
868266 GTGTTCTTGT
* * *
868276 GTAAGACCCTATGTGGGACAGAGGCAACGAGATGTGATTTCGA
1 GTAAGACCCTGTGTGGGACAGAGGCAACGAGATGTAATTGCGA
* * ** *
868319 GTAAGACCCTGTGTGGGACAGTGGCATCGATTTGTAATTGGGA
1 GTAAGACCCTGTGTGGGACAGAGGCAACGAGATGTAATTGCGA
868362 GTAAGACCCTGTGTGGGACA
1 GTAAGACCCTGTGTGGGACA
868382 TCGACAATGT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (43 bp):
GTAAGACCCTGTGTGGGACAGAGGCAACGAGATGTAATTGCGA
Found at i:873511 original size:48 final size:48
Alignment explanation
Indices: 873440--873533 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
873430 AGAGGCCAAG
873440 CAACTAAGAAACAAAAGTATTGCACTTGTGAAAGTATTATGGAATAAA
1 CAACTAAGAAACAAAAGTATTGCACTTGTGAAAGTATTATGGAATAAA
873488 CAACTAAGAAACAAAAGTATTGCACTTGTGAAAGTATTATGGAATA
1 CAACTAAGAAACAAAAGTATTGCACTTGTGAAAGTATTATGGAATA
873534 GGCATGGGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.26
Consensus pattern (48 bp):
CAACTAAGAAACAAAAGTATTGCACTTGTGAAAGTATTATGGAATAAA
Found at i:874960 original size:50 final size:50
Alignment explanation
Indices: 874914--875046 Score: 160
Period size: 50 Copynumber: 2.7 Consensus size: 50
874904 TTATGAGAGG
*
874914 TCCCACATAAGACCATATCTAGGACATGGCATTGGTACCGAGATGAGAAC
1 TCCCACATAAGACCATATCTAGGACATGGCATTGGCACCGAGATGAGAAC
* * * *
874964 TCCC-CTTTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCAC-ATAAGACCATATCTAGGACATGGCATTGGCACCGAGATGAGAAC
* ** * *
875014 TCTCATGTAAGACCATATCTGGGATATGGCATT
1 TCCCACATAAGACCATATCTAGGACATGGCATT
875047 TGCAATACAG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 1 0.01
50 68 0.99
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (50 bp):
TCCCACATAAGACCATATCTAGGACATGGCATTGGCACCGAGATGAGAAC
Found at i:885127 original size:9 final size:9
Alignment explanation
Indices: 885113--885147 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
885103 ATTCATTAAT
885113 TTTTAGTTA
1 TTTTAGTTA
885122 TTTTAGTTA
1 TTTTAGTTA
885131 TTTTAGTTA
1 TTTTAGTTA
885140 TTTTAGTT
1 TTTTAGTT
885148 TGTGTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (9 bp):
TTTTAGTTA
Found at i:890054 original size:27 final size:27
Alignment explanation
Indices: 890040--890243 Score: 257
Period size: 27 Copynumber: 7.6 Consensus size: 27
890030 GGAATAGCCT
*
890040 CATAGGGTAAAATGATCGAAATACCCC
1 CATAGGGTAAAATGACCGAAATACCCC
* *
890067 CATAGGGTAGAATGACCTAAATACCCC
1 CATAGGGTAAAATGACCGAAATACCCC
* *
890094 CATAGGGTAGAATGACCAAAATA-CCC
1 CATAGGGTAAAATGACCGAAATACCCC
* * *
890120 CATAAGGTAAAATAACTGAAATACCCC
1 CATAGGGTAAAATGACCGAAATACCCC
* * *
890147 CATAGGGTAGAATGACAGAAATACCTC
1 CATAGGGTAAAATGACCGAAATACCCC
* *
890174 CATAAGGTAAAATGACCAAAATACCCC
1 CATAGGGTAAAATGACCGAAATACCCC
* * *
890201 CATAAGGTAAAATGATCAAAATACCCC
1 CATAGGGTAAAATGACCGAAATACCCC
890228 CATAGGGTAAAATGAC
1 CATAGGGTAAAATGAC
890244 TATTCTACCC
Statistics
Matches: 154, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 21 0.14
27 133 0.86
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.18
Consensus pattern (27 bp):
CATAGGGTAAAATGACCGAAATACCCC
Found at i:890188 original size:80 final size:81
Alignment explanation
Indices: 890040--890243 Score: 304
Period size: 80 Copynumber: 2.5 Consensus size: 81
890030 GGAATAGCCT
* ** * *
890040 CATAGGGTAAAATGATCGAAATACCCCCATAGGGTAGAATGACCTAAATACCCCCATAGGGTAGA
1 CATAAGGTAAAATGATCGAAATACCCCCATAGGGTAGAATGACAGAAATACCCCCATAAGGTAAA
890105 ATGACCAAAATA-CCC
66 ATGACCAAAATACCCC
* *
890120 CATAAGGTAAAAT-AACTGAAATACCCCCATAGGGTAGAATGACAGAAATACCTCCATAAGGTAA
1 CATAAGGTAAAATGATC-GAAATACCCCCATAGGGTAGAATGACAGAAATACCCCCATAAGGTAA
890184 AATGACCAAAATACCCC
65 AATGACCAAAATACCCC
* *
890201 CATAAGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGAC
1 CATAAGGTAAAATGATCGAAATACCCCCATAGGGTAGAATGAC
890244 TATTCTACCC
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.02
80 67 0.60
81 40 0.36
82 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.18
Consensus pattern (81 bp):
CATAAGGTAAAATGATCGAAATACCCCCATAGGGTAGAATGACAGAAATACCCCCATAAGGTAAA
ATGACCAAAATACCCC
Found at i:892840 original size:27 final size:27
Alignment explanation
Indices: 892788--893221 Score: 442
Period size: 27 Copynumber: 16.2 Consensus size: 27
892778 TTACACAGTT
* * *
892788 ATGACGGAAATA-CTCCATAGAGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
892814 ATGACCAAAATACCCCCATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * * * * *
892841 ATAATCAAAATCCCCCCACAGGATAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
892868 ATGACTGAAATATCCCCATACGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * *
892895 ATCACCGAAATACCCCCAGAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
892922 ATGACCGAAATA-CCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
892948 ATGACCGAAATACCCCCATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
** *
892975 ATGAGTGAAATACCCCCATATGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
893002 ATGATCGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * **
893029 ATGATCGAAATACCCTCATAGGGTTGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
893056 TTGACCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* **
893083 ATGATCGAAATACCCCCATAAAGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
893110 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * * *
893137 CTAACAGAAATACCCTCATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
893164 ATGTCTGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
893191 TTGACCGAAATA-CCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
893217 ATGAC
1 ATGAC
893222 TGTTATACCC
Statistics
Matches: 333, Mismatches: 73, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
26 51 0.15
27 282 0.85
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:902327 original size:250 final size:246
Alignment explanation
Indices: 901839--902327 Score: 642
Period size: 250 Copynumber: 2.0 Consensus size: 246
901829 ATAATTATAT
* * *
901839 TTATTATAATATGTATTAATTATCATCAACTCTGCATAGAATTAGGATTAGTTTAAATTTTATCA
1 TTATTATAATATATATTAATTATCATCAACTCTGCATAGAATTAGGATTAGTTAAAACTTTATCA
* * *** *
901904 TCTTTTAATAAAATTTGACTTAACAAATAAAGTAATAGCAAATAATATTTTAATATACATTGTAT
66 TATTTTAATAAAATTTGACTTAACAAATAAAGCAATAGCAAATAATACAATAATATACATTATAT
* * * *
901969 TATTTATTAATTGTCATTAACTTTATATTACATTAGGACTTAGAATATTTTATTATTAATTTGTT
131 TATTTATTAATTGTCATTAACTGTATATGACATTAGGACCTAGAATATTTTATTATTAATTTATT
* *
902034 CTAAGAAATTCTAATTGAAGTACTACCGTCTTCACTATAAATACAACCAAC
196 CTAAGAAATTCTAATTGAACTACTACCCTCTTCACTATAAATACAACCAAC
* *
902085 TTATTATAAT-TATATTAATTATTATCAACTTTGCATAGAATTA-GAGTTAGTTAATAACTTTAT
1 TTATTATAATATATATTAATTATCATCAACTCTGCATAGAATTAGGA-TTAGTTAA-AACTTTAT
* * * *
902148 CATATTTTAATTGAGAGATTTTATTTCAATAAATAAAGCAATAGCAAATAATACAATAATATACA
64 CATATTTTAA-T-A-AAATTTGACTT-AACAAATAAAGCAATAGCAAATAATACAATAATATACA
* * *
902213 TTATATTATTTATTAATTGTTATTTACTGTATATGACATTAGGACCTAGAATATTTTATTGTTAA
125 TTATATTATTTATTAATTGTCATTAACTGTATATGACATTAGGACCTAGAATATTTTATTATTAA
* * * *
902278 TTTATTCTAAG-AATTCTAGTTGAACTTCTTCCCTCTATCACTTTAAATAC
190 TTTATTCTAAGAAATTCTAATTGAACTACTACCCTCT-TCACTATAAATAC
902328 CACACTTACC
Statistics
Matches: 208, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
244 2 0.01
245 37 0.18
246 26 0.12
247 1 0.00
248 1 0.00
249 28 0.13
250 113 0.54
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (246 bp):
TTATTATAATATATATTAATTATCATCAACTCTGCATAGAATTAGGATTAGTTAAAACTTTATCA
TATTTTAATAAAATTTGACTTAACAAATAAAGCAATAGCAAATAATACAATAATATACATTATAT
TATTTATTAATTGTCATTAACTGTATATGACATTAGGACCTAGAATATTTTATTATTAATTTATT
CTAAGAAATTCTAATTGAACTACTACCCTCTTCACTATAAATACAACCAAC
Found at i:903000 original size:73 final size:74
Alignment explanation
Indices: 902903--903051 Score: 291
Period size: 73 Copynumber: 2.0 Consensus size: 74
902893 AATTAAATTT
902903 TTGAGAAAATATTTGTTTCCATCTTATGTTCAAGTTAATCATGGCTCGCAAAAGAACTCCTGCCT
1 TTGAGAAAATATTTGTTTCCATCTTATGTTCAAGTTAATCATGGCTCGCAAAAGAACTCCTGCCT
902968 CTGTCCAAG
66 CTGTCCAAG
902977 TTGAGAAAATA-TTGTTTCCATCTTATGTTCAAGTTAATCATGGCTCGCAAAAGAACTCCTGCCT
1 TTGAGAAAATATTTGTTTCCATCTTATGTTCAAGTTAATCATGGCTCGCAAAAGAACTCCTGCCT
903041 CTGTCCAAG
66 CTGTCCAAG
903050 TT
1 TT
903052 CAAGAATCAC
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 64 0.85
74 11 0.15
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (74 bp):
TTGAGAAAATATTTGTTTCCATCTTATGTTCAAGTTAATCATGGCTCGCAAAAGAACTCCTGCCT
CTGTCCAAG
Found at i:915529 original size:16 final size:16
Alignment explanation
Indices: 915508--915541 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
915498 TAAATAAGCT
*
915508 TAATAAAATCCCAAAA
1 TAATAAAATACCAAAA
915524 TAATAAAATACCAAAA
1 TAATAAAATACCAAAA
915540 TA
1 TA
915542 TAGTTGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.21
Consensus pattern (16 bp):
TAATAAAATACCAAAA
Found at i:916071 original size:21 final size:21
Alignment explanation
Indices: 916045--916106 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
916035 TCAGATACAG
*
916045 ATATTGTGGACAAGCCACCAA
1 ATATTGTGGATAAGCCACCAA
* * *
916066 ATATTGTAGATAAACTACCAA
1 ATATTGTGGATAAGCCACCAA
* *
916087 AAATTGTGGTTAAGCCACCA
1 ATATTGTGGATAAGCCACCA
916107 GAATGTTCAG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (21 bp):
ATATTGTGGATAAGCCACCAA
Found at i:917322 original size:24 final size:24
Alignment explanation
Indices: 917295--917387 Score: 102
Period size: 24 Copynumber: 3.9 Consensus size: 24
917285 CTTTTTCCTT
917295 TTTTAATTTTTATTCTCTCATCTA
1 TTTTAATTTTTATTCTCTCATCTA
* **
917319 TTTT-ATTTCTT-TTATGAACA-CTA
1 TTTTAATTT-TTATTCT-CTCATCTA
* *
917342 ATTCAATTTTTATTCTCTCATCTA
1 TTTTAATTTTTATTCTCTCATCTA
917366 TTTTAATTTTTATTCTCTCATC
1 TTTTAATTTTTATTCTCTCATC
917388 CATTAAATTT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
23 16 0.30
24 38 0.70
ACGTcount: A:0.23, C:0.17, G:0.01, T:0.59
Consensus pattern (24 bp):
TTTTAATTTTTATTCTCTCATCTA
Found at i:917393 original size:22 final size:23
Alignment explanation
Indices: 917346--917397 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
917336 ACACTAATTC
*
917346 AATTTTTATTCTCTCATCTATTTT
1 AATTTTTATTCTCTCATCCA-TTT
*
917370 AATTTTTATTCTCTCATCCATTA
1 AATTTTTATTCTCTCATCCATTT
917393 AATTT
1 AATTT
917398 AGAAGTGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (23 bp):
AATTTTTATTCTCTCATCCATTT
Found at i:921880 original size:49 final size:49
Alignment explanation
Indices: 921827--922105 Score: 170
Period size: 50 Copynumber: 5.5 Consensus size: 49
921817 CAAAGCTATG
* * *
921827 TCCCAGACATAGTCTTACATGGGATGTTTTCCGTA-C-TGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCT-CATACCGTGCCAATGCCATA
* * *
921876 TCCCAGATATGGTCTTACATGGGAGTTCTCATACCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATACC-GTGCCAATGCCATA
** ** * * * *
921926 TCCCAGACATGGTCTTACGGGGGACCTCTCAT-CTTGGTGCCCACGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATAC--CGTGCCAATGCCATA
* * ** * *
921976 TCCTAGACATGGTCTTACATGAGACCTCTCAT-CTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATAC-C-GTGCCAATGCCATA
* ** * *
922026 TCACAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATTCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCAT-A-C-C---G-TGCCAATGCCATA
*
922082 TCCCAGACATGGTCATACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
922106 TCTCATTCCC
Statistics
Matches: 191, Mismatches: 27, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
47 3 0.02
48 5 0.03
49 24 0.13
50 122 0.64
53 3 0.02
55 1 0.01
56 33 0.17
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATACCGTGCCAATGCCATA
Found at i:921931 original size:50 final size:51
Alignment explanation
Indices: 921863--922105 Score: 258
Period size: 50 Copynumber: 4.7 Consensus size: 51
921853 TTTTCCGTAC
* * * **
921863 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAC-CGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGG
* * ** *
921913 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCAT-CTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGG
* * *
921963 TGCCCACGCCATGTCCTAGACATGGTCTTACATGAGACCTCTCAT-CTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGG
* *
922013 TGCCAACGCCATGTCACAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A-CTC---GG
** *
922069 TGCCAATTCCATGTCCCAGACATGGTCATACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
922106 TCTCATTCCC
Statistics
Matches: 163, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.01
50 125 0.77
53 3 0.02
56 34 0.21
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (51 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGG
Found at i:929566 original size:50 final size:49
Alignment explanation
Indices: 929473--929668 Score: 169
Period size: 50 Copynumber: 3.9 Consensus size: 49
929463 CTTTCTGTAC
* * * * **
929473 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTTCCAGACATGGTCTTA-ATGGGACCTCTCATATCGG
* * * * *
929523 TGCCCATGCCATGTTCCAGACATGGTCTTAAGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTTCCAGACATGGTCTTAA-TGGGACCTCTCATATCGG
* * * * * * *
929573 TGCCAACGCCGTG-TCTCAAATATGGTTTTCCATGGGACCTGTCATCTCGG
1 TGCCAACGCCATGTTC-CAGACATGGTCTT-AATGGGACCTCTCATATCGG
*
929623 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAACGCCATGTTCCAGACATGGTCTTA-ATGGGACCTCTCATA
929669 ATCTCAATGA
Statistics
Matches: 114, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
49 3 0.03
50 109 0.96
51 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (49 bp):
TGCCAACGCCATGTTCCAGACATGGTCTTAATGGGACCTCTCATATCGG
Found at i:935189 original size:50 final size:50
Alignment explanation
Indices: 935131--935324 Score: 169
Period size: 50 Copynumber: 3.9 Consensus size: 50
935121 TATTAAGGTT
* * *
935131 ATGAGAGGTCCCATGTAAGACCATGCCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
* * * * * *
935181 ATGAGAGGTTCCC-CGCAAGACTATGTCTGGGACATGGCATAGGCACCTAT
1 ATGAGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * * *
935231 ATGAGAACTCTCATGTAAGACCATATCTGGGATATGGTATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * ** *
935280 AGGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
935325 TTTTATTATC
Statistics
Matches: 112, Mismatches: 29, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
49 40 0.36
50 68 0.61
51 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:940140 original size:40 final size:39
Alignment explanation
Indices: 940096--940536 Score: 435
Period size: 40 Copynumber: 11.1 Consensus size: 39
940086 ATTCTATTTG
* *
940096 ATTCAGGGTTACC-AGAGTATAAACAGTGGCACGTAAGTGC
1 ATTCAGGGGTACCGA-AGTACAAACAG-GGCACGTAAGTGC
* *
940136 ATTCAGGGGTACCGAAGTACAAACAAGGGAAC-AAATGTGC
1 ATTCAGGGGTACCGAAGTACAAAC-AGGGCACGTAA-GTGC
* *
940176 AATCAGGGGTATCGAAGTACAAACAGGCGCACGTAAGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGG-GCACGTAAGTGC
* * *
940216 ATCCAGGGGTACTGAAGTACAAACAGAGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAG-GGCACGTAAGTGC
* * *
940256 AATCAGGGGTATCGAAGTAC-AACAGGGGCACTTAAGTGC
1 ATTCAGGGGTACCGAAGTACAAACA-GGGCACGTAAGTGC
* * * * *
940295 ATTCAGGGGTACCAAACTACAAACAAGGGCATGTATGTCC
1 ATTCAGGGGTACCGAAGTACAAAC-AGGGCACGTAAGTGC
* * * *
940335 AATCAGGGGTATCAAAGTAC-AACTAGGGCATGTAAGTGC
1 ATTCAGGGGTACCGAAGTACAAAC-AGGGCACGTAAGTGC
*
940374 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACA-GGGCACGTAAGTGC
* * *
940414 AGTCAAGGGTACCGAAGTAC-AACAGGGGCACGTAAGTGT
1 ATTCAGGGGTACCGAAGTACAAACA-GGGCACGTAAGTGC
* *
940453 AGTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACA-GGGCACGTAAGTGC
* * * * *
940493 AATCAAGGGTATCGAAGTA-TAATAGAGGCACGTAAGTGC
1 ATTCAGGGGTACCGAAGTACAAACAG-GGCACGTAAGTGC
940532 ATTCA
1 ATTCA
940537 TACAATAATT
Statistics
Matches: 336, Mismatches: 52, Indels: 27
0.81 0.13 0.07
Matches are distributed among these distances:
38 1 0.00
39 125 0.37
40 203 0.60
41 7 0.02
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.18
Consensus pattern (39 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGCACGTAAGTGC
Found at i:940331 original size:79 final size:79
Alignment explanation
Indices: 940117--940536 Score: 574
Period size: 79 Copynumber: 5.3 Consensus size: 79
940107 CCAGAGTATA
* * **
940117 AACAGTGGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAAGGGAACAAATGTGCAATCAG
1 AACAGGGGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAG
940182 GGGTATCGAAGTAC
66 GGGTATCGAAGTAC
* * *
940196 AAACAGGCGCACGTAAGTGCATCCAGGGGTACTGAAGTACAAAC-AGAGGCACGTATGTGCAATC
1 -AACAGGGGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAAG-GGCACGTATGTGCAATC
940260 AGGGGTATCGAAGTAC
64 AGGGGTATCGAAGTAC
* * * * *
940276 AACAGGGGCACTTAAGTGCATTCAGGGGTACCAAACTACAAACAAGGGCATGTATGTCCAATCAG
1 AACAGGGGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAG
*
940341 GGGTATCAAAGTAC
66 GGGTATCGAAGTAC
* * *
940355 AACTA-GGGCATGTAAGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAGTCA
1 AAC-AGGGGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCA
* *
940419 AGGGTACCGAAGTAC
65 GGGGTATCGAAGTAC
* * * *
940434 AACAGGGGCACGTAAGTGTAGTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAA
1 AACAGGGGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAG
*
940499 GGGTATCGAAGTAT
66 GGGTATCGAAGTAC
* *
940513 AATAGAGGCACGTAAGTGCATTCA
1 AACAGGGGCACGTAAGTGCATTCA
940537 TACAATAATT
Statistics
Matches: 299, Mismatches: 37, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
78 1 0.00
79 226 0.76
80 72 0.24
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.18
Consensus pattern (79 bp):
AACAGGGGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAG
GGGTATCGAAGTAC
Found at i:940400 original size:20 final size:20
Alignment explanation
Indices: 940377--940481 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 20
940367 TAAGTGCATT
940377 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * **
940397 CAGGGGCA-CGTATGTGCAGT
1 CAGGGGTACCG-AAGTACAAA
*
940417 CAAGGGTACCGAAGTAC-AA
1 CAGGGGTACCGAAGTACAAA
* ** **
940436 CAGGGGCA-CGTAAGTGTAGT
1 CAGGGGTACCG-AAGTACAAA
940456 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
940476 CAGGGG
1 CAGGGG
940482 CACGTATGTG
Statistics
Matches: 58, Mismatches: 22, Indels: 10
0.64 0.24 0.11
Matches are distributed among these distances:
18 2 0.03
19 12 0.21
20 40 0.69
21 4 0.07
ACGTcount: A:0.32, C:0.19, G:0.35, T:0.13
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:943265 original size:33 final size:33
Alignment explanation
Indices: 943217--943376 Score: 133
Period size: 33 Copynumber: 4.8 Consensus size: 33
943207 GCATCTATAG
* *
943217 AGAGAAAGT-CTATCGGAACAGTAAACACAGAAT
1 AGAGAAAGTAC-ATCGGGACAGTAAACACAGAAC
* **
943250 AGAGATAGTACATCGGGACAGTAAACATGGAAC
1 AGAGAAAGTACATCGGGACAGTAAACACAGAAC
* * * * * *
943283 AGAAAAATTTCATCGGGACAATAAACACAAAAT
1 AGAGAAAGTACATCGGGACAGTAAACACAGAAC
* * * * ** *
943316 AGAGATAGTCCACCGAGAGGGTAAACACGGAAC
1 AGAGAAAGTACATCGGGACAGTAAACACAGAAC
*
943349 AAAGAAAGTACATCGGGACAGTAAACAC
1 AGAGAAAGTACATCGGGACAGTAAACAC
943377 GAGGCAAGTC
Statistics
Matches: 93, Mismatches: 33, Indels: 2
0.73 0.26 0.02
Matches are distributed among these distances:
33 92 0.99
34 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.14
Consensus pattern (33 bp):
AGAGAAAGTACATCGGGACAGTAAACACAGAAC
Found at i:943340 original size:66 final size:66
Alignment explanation
Indices: 943219--943376 Score: 185
Period size: 66 Copynumber: 2.4 Consensus size: 66
943209 ATCTATAGAG
* * * * *
943219 AGAAAGT-CTATCGGAACAGTAAACACAGAATAGAGATAGTACATCGGGACAGTAAACATGGAAC
1 AGAAAGTAC-ATCGGGACAGTAAACACAAAATAGAGATAGTACACCGAGACAGTAAACACGGAAC
943283 AGA
65 A-A
* * * * **
943286 A-AAATTTCATCGGGACAATAAACACAAAATAGAGATAGTCCACCGAGAGGGTAAACACGGAACA
1 AGAAAGTACATCGGGACAGTAAACACAAAATAGAGATAGTACACCGAGACAGTAAACACGGAACA
943350 A
66 A
943351 AGAAAGTACATCGGGACAGTAAACAC
1 AGAAAGTACATCGGGACAGTAAACAC
943377 GAGGCAAGTC
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
65 2 0.03
66 72 0.95
67 2 0.03
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (66 bp):
AGAAAGTACATCGGGACAGTAAACACAAAATAGAGATAGTACACCGAGACAGTAAACACGGAACA
A
Found at i:947229 original size:13 final size:13
Alignment explanation
Indices: 947211--947246 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
947201 TTAGTTTTCT
*
947211 AAAAACCTTAGTA
1 AAAAACATTAGTA
947224 AAAAACATTAGTA
1 AAAAACATTAGTA
947237 AAAAACATTA
1 AAAAACATTA
947247 CCGATAAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.61, C:0.11, G:0.06, T:0.22
Consensus pattern (13 bp):
AAAAACATTAGTA
Found at i:950978 original size:30 final size:32
Alignment explanation
Indices: 950927--950986 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
950917 TGGGTCGCAT
*
950927 CCAAAACAGAATCAATTGGGCCT-AGCCCAAA
1 CCAAAACAGAATCAAGTGGGCCTAAGCCCAAA
*
950958 CCAATACAGAA-CAAGTGGGCCTAAGCCCA
1 CCAAAACAGAATCAAGTGGGCCTAAGCCCA
950987 GTATAGTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.40, C:0.30, G:0.18, T:0.12
Consensus pattern (32 bp):
CCAAAACAGAATCAAGTGGGCCTAAGCCCAAA
Found at i:959355 original size:84 final size:84
Alignment explanation
Indices: 959252--959781 Score: 834
Period size: 84 Copynumber: 6.4 Consensus size: 84
959242 CAAAGGATCC
* **
959252 CGGTGGAATCAGCACTTAGCTACCACCTTATAATCAATGATACGGGGAATCAAAACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
*
959317 CCTTTCACAATCAATGATA
66 CCTTTCACAATCAAGGATA
*
959336 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
959401 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
959420 CGATGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
*
959485 CCTTTCACAATCTAGGATA
66 CCTTTCACAATCAAGGATA
* * * *
959504 CAGTGGAATCAGCACTTAGCAACCACCTTATAATTAATGATACGGGGAATCAGCACATAGTAATC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
959569 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*** * *
959588 ATTTGGAATTAGCACTTAGCAACCACCTTATAATCAATTATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
959653 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
959672 CGATGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
** * *
959737 CCTTT--TTATCAATGATT
66 CCTTTCACAATCAAGGATA
*
959754 CGG-GGAATCTGCACTTAGCAACC-CCTTA
1 CGGTGGAATCAGCACTTAGCAACCACCTTA
959782 CATTCAAAGA
Statistics
Matches: 413, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
80 5 0.01
81 19 0.05
82 10 0.02
84 379 0.92
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:962501 original size:42 final size:42
Alignment explanation
Indices: 962421--962502 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
962411 CATTTTCTCT
**
962421 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
* *
962463 ATGCCATAG-CCTAGCTATTGTCTTACACAGTA-GCACATAT
1 ATGCCATAGTCC-AACTATGGTCTTACACA-TATGCACATAT
962503 CACACCGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
41 2 0.06
42 30 0.88
43 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (42 bp):
ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
Found at i:965273 original size:41 final size:40
Alignment explanation
Indices: 965216--965490 Score: 309
Period size: 41 Copynumber: 6.6 Consensus size: 40
965206 GGACCCCGGT
*
965216 GGAATCACCACTTAGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* *
965257 GGAATCAGCACATAGCAACCCCTT-TCACATTCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCCTTAT-A-A-TCAATGATACGG
*
965299 TGGAATCAGCACTTAGCAACCACTTTATAATCAATGATACGG
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * * *
965341 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGACACGG
1 GGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGATACGG
* *
965383 TGGAATCAGCACTTAGCAACCACTTTATAATCAATGATACGA
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * * *
965425 GGAATCAGCACATAGCAACCCCTTTTTGATCAATGATTCGG
1 GGAATCAGCACTTAGCAACCCC-TTATAATCAATGATACGG
*
965466 GGAATCTGCACTTAGCAACCCCTTA
1 GGAATCAGCACTTAGCAACCCCTTA
965491 CATTCAAAGA
Statistics
Matches: 197, Mismatches: 26, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 9 0.05
41 93 0.47
42 47 0.24
43 41 0.21
44 5 0.03
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCTTATAATCAATGATACGG
Found at i:965316 original size:84 final size:83
Alignment explanation
Indices: 965212--965490 Score: 427
Period size: 84 Copynumber: 3.4 Consensus size: 83
965202 CAAAGGACCC
*
965212 CGGTGGAATCACCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
965277 CCTTTCACATTCAAGGATA
66 CCTTTCACA-TCAAGGATA
*
965296 CGGTGGAATCAGCACTTAGCAACCACTTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
*
965361 CCTTTCACAATCAAGGACA
66 CCTTTCAC-ATCAAGGATA
* *
965380 CGGTGGAATCAGCACTTAGCAACCACTTTATAATCAATGATACGAGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
*** * *
965445 CCTTTTTGATCAATGATT
66 CCTTTCACATCAAGGATA
*
965463 CGG-GGAATCTGCACTTAGCAACC-CCTTA
1 CGGTGGAATCAGCACTTAGCAACCACCTTA
965491 CATTCAAAGA
Statistics
Matches: 182, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
81 4 0.02
82 19 0.10
83 10 0.05
84 148 0.81
85 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (83 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACATCAAGGATA
Found at i:965434 original size:125 final size:125
Alignment explanation
Indices: 965216--965497 Score: 347
Period size: 125 Copynumber: 2.3 Consensus size: 125
965206 GGACCCCGGT
* * * * *
965216 GGAATCACCACTTAGCAACCACC-TTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
1 GGAATCAGCACTTAGCAACC-CCTTTACAATCAAGGACACGGGGAATCAGCACATAGCAACCACT
* * *
965280 TTCACATTCAAGGATACGGTGGAATCAGCACTTAGCAACCACTTTATAATCAATGATACGG
65 TTCACAATCAAGGATACGGAGGAATCAGCACATAGCAACCACTTTATAATCAATGATACGG
* *
965341 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGACACGGTGGAATCAGCACTTAGCAACCAC
1 GGAATCAGCACTTAGCAACCCCTTT-ACAATCAAGGACACGG-GGAATCAGCACATAGCAACCAC
* * * * * *
965406 TTT-ATAATCAATGATAC-GAGGAATCAGCACATAGCAACCCCTTTTTGATCAATGATTCGG
64 TTTCACAATCAAGGATACGGAGGAATCAGCACATAGCAACCACTTTATAATCAATGATACGG
* *
965466 GGAATCTGCACTTAGCAACCCC-TTACATTCAA
1 GGAATCAGCACTTAGCAACCCCTTTACAATCAA
965498 AGAATCCCAA
Statistics
Matches: 135, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
123 7 0.05
124 4 0.03
125 77 0.57
126 24 0.18
127 23 0.17
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (125 bp):
GGAATCAGCACTTAGCAACCCCTTTACAATCAAGGACACGGGGAATCAGCACATAGCAACCACTT
TCACAATCAAGGATACGGAGGAATCAGCACATAGCAACCACTTTATAATCAATGATACGG
Found at i:986164 original size:17 final size:18
Alignment explanation
Indices: 986125--986165 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
986115 TTTTATAAAT
986125 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGATA
986143 TGTGAATTA-ATATTGA-A
1 TGTGAATTATAT-TTGATA
986160 TGTGAA
1 TGTGAA
986166 AAGAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (18 bp):
TGTGAATTATATTTGATA
Found at i:986432 original size:23 final size:23
Alignment explanation
Indices: 986402--986452 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
986392 AGTGGTAGCT
986402 TCAG-GGTAGCTACGGCTACATA
1 TCAGTGGTAGCTACGGCTACATA
*
986424 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTACGGCTACATA
986447 TCAGTG
1 TCAGTG
986453 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (23 bp):
TCAGTGGTAGCTACGGCTACATA
Found at i:987661 original size:50 final size:51
Alignment explanation
Indices: 987535--987665 Score: 162
Period size: 51 Copynumber: 2.6 Consensus size: 51
987525 TGCCTATAAA
* * *
987535 CACGTGTGTAGTACTAAGTGCAGGCTACT-TCGTGTATCGATAGATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATCGTGTACCGAAAGAT-ATGGT
*
987586 CACATGTGTAGTACTATGTGCAGGCTACTAT-GTGTACCGGAAAG-T-TGGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATCGTGTACC-GAAAGATATGG-T
*
987636 CACGTGTGTAGTACTATGTGAAGGCTACTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTA
987666 CGTATTGAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
49 3 0.04
50 29 0.41
51 34 0.48
52 5 0.07
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTATCGTGTACCGAAAGATATGGT
Found at i:991241 original size:12 final size:12
Alignment explanation
Indices: 991224--991250 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
991214 TAGCATTTAT
991224 TATTGTATGTTG
1 TATTGTATGTTG
991236 TATTGTATGTTG
1 TATTGTATGTTG
991248 TAT
1 TAT
991251 CAAATGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (12 bp):
TATTGTATGTTG
Found at i:1000577 original size:44 final size:44
Alignment explanation
Indices: 1000529--1000623 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
1000519 ATATCTCAAG
*
1000529 GTCCATGTTTATAACATGGCAATTAAGGAAGAATTGACGAAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGAAAAA
*
1000573 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGAAAAA
*
1000617 GACCATG
1 GTCCATG
1000624 GTTGGACCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (44 bp):
GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGAAAAA
Found at i:1000738 original size:30 final size:30
Alignment explanation
Indices: 1000702--1000761 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1000692 GAGTGCCTGT
*
1000702 GTAAGACCATGTCTGGGACATGGCTTCGGC
1 GTAAGACCATGTCTGGGACATGGCATCGGC
1000732 GTAAGACCATGTCTGGGACATGGCATCGGC
1 GTAAGACCATGTCTGGGACATGGCATCGGC
1000762 ACAGACTGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (30 bp):
GTAAGACCATGTCTGGGACATGGCATCGGC
Found at i:1000745 original size:80 final size:80
Alignment explanation
Indices: 1000652--1000811 Score: 268
Period size: 80 Copynumber: 2.0 Consensus size: 80
1000642 GTGTGCCAGT
1000652 GTAAGACCATGTCTAGGACATGGCATCGGCACAGACCGAGGAGTGCCT-GTGTAAGACCATGTCT
1 GTAAGACCATGTCTAGGACATGGCATCGGCACAGACCGAGGAGTG-CTAGTGTAAGACCATGTCT
*
1000716 GGGACATGGCTTCGGC
65 GGGACATGGCATCGGC
* * *
1000732 GTAAGACCATGTCTGGGACATGGCATCGGCACAGACTGGGGAGTGCTAGTGTAAGACCATGTCTG
1 GTAAGACCATGTCTAGGACATGGCATCGGCACAGACCGAGGAGTGCTAGTGTAAGACCATGTCTG
1000797 GGACATGGCATCGGC
66 GGACATGGCATCGGC
1000812 ACGGACAAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
79 2 0.03
80 73 0.97
ACGTcount: A:0.24, C:0.23, G:0.34, T:0.20
Consensus pattern (80 bp):
GTAAGACCATGTCTAGGACATGGCATCGGCACAGACCGAGGAGTGCTAGTGTAAGACCATGTCTG
GGACATGGCATCGGC
Found at i:1000786 original size:50 final size:50
Alignment explanation
Indices: 1000732--1000861 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 50
1000722 TGGCTTCGGC
*** * *
1000732 GTAAGACCATGTCTGGGACATGGCATCGGCACAGACTGGGGAGTGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACAGACAAAGAAGAGCTAGT
* *
1000782 GTAAGACCATGTCTGGGACATGGCATCGGCACGGACAAAGAAGAGTTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACAGACAAAGAAGAGCTAGT
* *
1000832 ATAAGACCATGTTTGGGACATGGCATCGGC
1 GTAAGACCATGTCTGGGACATGGCATCGGC
1000862 TAGAGATGTG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.28, C:0.19, G:0.33, T:0.20
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCACAGACAAAGAAGAGCTAGT
Found at i:1010578 original size:26 final size:27
Alignment explanation
Indices: 1010537--1010587 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
1010527 CAAACAGATC
*
1010537 CCAAATACCCACTTAACCTAGCCCAAA
1 CCAAATACCCAATTAACCTAGCCCAAA
1010564 CCAAA-ACCCAATTAACCTAGCCCA
1 CCAAATACCCAATTAACCTAGCCCA
1010588 GCTAATGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.41, C:0.41, G:0.04, T:0.14
Consensus pattern (27 bp):
CCAAATACCCAATTAACCTAGCCCAAA
Found at i:1016546 original size:6 final size:6
Alignment explanation
Indices: 1016535--1016615 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
1016525 AATTCAAAAA
* * ** **
1016535 AAAATC AAAATC AAAATC AAAATC AAAAAC AAAAT- AGAAGA AAAAGA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
* * *
1016582 AAAATC AAAATC AAAGTC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
1016616 AAGAGAGAAG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
5 3 0.05
6 61 0.95
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:1016610 original size:41 final size:39
Alignment explanation
Indices: 1016532--1016617 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 39
1016522 TCCAATTCAA
**
1016532 AAAAAAATCAAAATCAAAATCAAAATCAAAAACAAAATAG
1 AAAAAAAGAAAAATCAAAATCAAAATCAAAAACAAAAT-G
* **
1016572 AAGAAAAAGAAAAATCAAAATCAAAGTCAAAATGAAAATG
1 AA-AAAAAGAAAAATCAAAATCAAAATCAAAAACAAAATG
1016612 AAAAAA
1 AAAAAA
1016618 GAGAGAAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 4 0.10
40 5 0.12
41 31 0.77
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.12
Consensus pattern (39 bp):
AAAAAAAGAAAAATCAAAATCAAAATCAAAAACAAAATG
Found at i:1016632 original size:47 final size:46
Alignment explanation
Indices: 1016530--1016624 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 46
1016520 GATCCAATTC
*
1016530 AAAAAAAAATCAAAATCAAAATCAAAATCAAAAACAAAATAGAAGA
1 AAAAAAAAATCAAAATCAAAATCAAAATCAAAAACAAAAAAGAAGA
* * **
1016576 AAAAGAAAAATCAAAATCAAAGTCAAAATGAAAATGAAAAAAGAGAGA
1 AAAA-AAAAATCAAAATCAAAATCAAAATCAAAAACAAAAAAGA-AGA
1016624 A
1 A
1016625 GGAAAAAAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 4 0.10
47 34 0.81
48 4 0.10
ACGTcount: A:0.72, C:0.08, G:0.09, T:0.11
Consensus pattern (46 bp):
AAAAAAAAATCAAAATCAAAATCAAAATCAAAAACAAAAAAGAAGA
Found at i:1016648 original size:7 final size:8
Alignment explanation
Indices: 1016623--1016647 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1016613 AAAAAGAGAG
1016623 AAGGAAAA
1 AAGGAAAA
1016631 AAGGAAAA
1 AAGGAAAA
1016639 AAGGAAAA
1 AAGGAAAA
1016647 A
1 A
1016648 GAAAAGGCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AAGGAAAA
Found at i:1017515 original size:8 final size:8
Alignment explanation
Indices: 1017496--1017547 Score: 65
Period size: 9 Copynumber: 6.6 Consensus size: 8
1017486 CTTTGAGTAA
1017496 AAAAAATG
1 AAAAAATG
1017504 -AAAAATG
1 AAAAAATG
1017511 AAAAAAATG
1 -AAAAAATG
1017520 --AAAATG
1 AAAAAATG
1017526 AAAAAATG
1 AAAAAATG
1017534 AAAAAAATG
1 -AAAAAATG
1017543 AAAAA
1 AAAAA
1017548 GTAAAAATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
6 6 0.15
7 7 0.18
8 11 0.28
9 15 0.38
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:1017516 original size:16 final size:16
Alignment explanation
Indices: 1017495--1017538 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
1017485 ACTTTGAGTA
1017495 AAAAAAATGAAAAATG
1 AAAAAAATGAAAAATG
1017511 AAAAAAATG-AAAATG
1 AAAAAAATGAAAAATG
1017526 -AAAAAATGAAAAA
1 AAAAAAATGAAAAA
1017539 AATGAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.30
15 10 0.37
16 9 0.33
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAAAAATGAAAAATG
Found at i:1017523 original size:23 final size:24
Alignment explanation
Indices: 1017497--1017558 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 24
1017487 TTTGAGTAAA
1017497 AAAAATG-AAAAATGAAAAAAATG
1 AAAAATGAAAAAATGAAAAAAATG
1017520 AA-AATGAAAAAATGAAAAAAATG
1 AAAAATGAAAAAATGAAAAAAATG
*
1017543 AAAAA-GTAAAAATGAA
1 AAAAATGAAAAAATGAA
1017559 GAAGAGGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 4 0.11
23 30 0.83
24 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (24 bp):
AAAAATGAAAAAATGAAAAAAATG
Done.