Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007770.1 Hibiscus syriacus cultivar Beakdansim tig00110050_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1450453
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:837927 original size:83 final size:83
Alignment explanation
Indices: 837801--838106 Score: 283
Period size: 83 Copynumber: 3.7 Consensus size: 83
837791 CTATTTGTTG
* * * * ** * * * *
837801 AAAAATGCCACTATAGATGAACCTTATTGCGGCGTTTGTATAAAAATGCCACTAAAATACTACTT
1 AAAAACGCCACTATAGATAAACCATATTACAACATTTATATAAAAACGCCACTAAAGTACTACTT
*
837866 TGTTGCGGCATTTATTGA
66 TGTTGCGGCGTTTATTGA
* * * *
837884 AAAAACGTCACTATAGATAAACCCTATTACGATATTTATATAAAAACGCCACTAAAGTACTACTT
1 AAAAACGCCACTATAGATAAACCATATTACAACATTTATATAAAAACGCCACTAAAGTACTACTT
* * *
837949 TGTTTGCAGTGTTTTTTG-
66 TG-TTGCGGCGTTTATTGA
* ** * * *
837967 AAAAACGCCACTATAGATGAACCATATTGTAACATTTTTATACAAACGCCACTAAAGTACAACTT
1 AAAAACGCCACTATAGATAAACCATATTACAACATTTATATAAAAACGCCACTAAAGTACTACTT
** *
838032 TGTCACGACGTTTATTGA
66 TGTTGCGGCGTTTATTGA
* * * * * * *
838050 AAAAATGCCACTATAGATGAATC-TATTGCAACGTTTGTATAAAAACGCCGCTAAAGT
1 AAAAACGCCACTATAGATAAACCATATTACAACATTTATATAAAAACGCCACTAAAGT
838107 TACCATTTTG
Statistics
Matches: 183, Mismatches: 38, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
82 38 0.21
83 134 0.73
84 11 0.06
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (83 bp):
AAAAACGCCACTATAGATAAACCATATTACAACATTTATATAAAAACGCCACTAAAGTACTACTT
TGTTGCGGCGTTTATTGA
Found at i:838987 original size:24 final size:24
Alignment explanation
Indices: 838955--839008 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
838945 TGAAATCTCT
838955 TATTATCCTTAACTTTTTGAAAGA
1 TATTATCCTTAACTTTTTGAAAGA
838979 TATTATCCTTAACTTTTTGAAAGA
1 TATTATCCTTAACTTTTTGAAAGA
839003 TATTAT
1 TATTAT
839009 TATTAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.48
Consensus pattern (24 bp):
TATTATCCTTAACTTTTTGAAAGA
Found at i:839028 original size:24 final size:24
Alignment explanation
Indices: 838955--839020 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
838945 TGAAATCTCT
*
838955 TATTATCCTTAACTTTTTGAAAGA
1 TATTATCATTAACTTTTTGAAAGA
*
838979 TATTATCCTTAACTTTTTGAAAGA
1 TATTATCATTAACTTTTTGAAAGA
* *
839003 TATTATTATTAAATTTTT
1 TATTATCATTAACTTTTT
839021 CAACGATAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (24 bp):
TATTATCATTAACTTTTTGAAAGA
Found at i:841683 original size:23 final size:23
Alignment explanation
Indices: 841633--841683 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
841623 CCTCCACAAT
* *
841633 GAATGGTGGAGATTACTTACATC
1 GAATGGTGGAGATTAATTACATA
*
841656 CAATGGTGGAGATTAATTATC-TA
1 GAATGGTGGAGATTAATTA-CATA
841679 GAATG
1 GAATG
841684 CTCCACAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (23 bp):
GAATGGTGGAGATTAATTACATA
Found at i:841695 original size:25 final size:25
Alignment explanation
Indices: 841667--841715 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
841657 AATGGTGGAG
841667 ATTAATTATCTAGAATGCTCCACAA
1 ATTAATTATCTAGAATGCTCCACAA
841692 ATTAATTATCTAGAATGCTCCACA
1 ATTAATTATCTAGAATGCTCCACA
841716 TACTCTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
ATTAATTATCTAGAATGCTCCACAA
Found at i:842416 original size:3 final size:3
Alignment explanation
Indices: 842410--842442 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
842400 CTAAAAAAAC
842410 ATT ATT AATT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
842443 TAATTTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:842854 original size:2 final size:2
Alignment explanation
Indices: 842847--842900 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
842837 CCTTTTCGAA
842847 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
842889 AT AT AT AT AT AT
1 AT AT AT AT AT AT
842901 TTGCAATAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:843934 original size:78 final size:78
Alignment explanation
Indices: 843846--844011 Score: 323
Period size: 78 Copynumber: 2.1 Consensus size: 78
843836 CCATGAATGT
*
843846 ATATTTATATTTGTATGTATGTATACATTATATCATATTATGTGTAGATATATTTATTTAATATT
1 ATATTTATATTTGTATGTATGTATACATTATATCATATTATGTGTAGATACATTTATTTAATATT
843911 TATTAACCTTTGG
66 TATTAACCTTTGG
843924 ATATTTATATTTGTATGTATGTATACATTATATCATATTATGTGTAGATACATTTATTTAATATT
1 ATATTTATATTTGTATGTATGTATACATTATATCATATTATGTGTAGATACATTTATTTAATATT
843989 TATTAACCTTTGG
66 TATTAACCTTTGG
844002 ATATTTATAT
1 ATATTTATAT
844012 ATTATCAGTG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 87 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (78 bp):
ATATTTATATTTGTATGTATGTATACATTATATCATATTATGTGTAGATACATTTATTTAATATT
TATTAACCTTTGG
Found at i:845190 original size:17 final size:17
Alignment explanation
Indices: 845168--845217 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
845158 AAATTCTTCT
845168 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
*
845185 AACA-T--T-GATACTCA
1 AACATTCATAGAAAC-CA
845199 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
845216 AA
1 AA
845218 ACATGAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 4 0.15
14 7 0.27
15 1 0.04
16 1 0.04
17 9 0.35
18 4 0.15
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.20
Consensus pattern (17 bp):
AACATTCATAGAAACCA
Found at i:845544 original size:20 final size:20
Alignment explanation
Indices: 845518--845559 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
845508 TATATAATAT
845518 AATATATATATATGGATGGATG
1 AATATAT-TA-ATGGATGGATG
*
845540 AATATATTAATGGGTGGATG
1 AATATATTAATGGATGGATG
845560 GATGCTGCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (20 bp):
AATATATTAATGGATGGATG
Found at i:848683 original size:2 final size:2
Alignment explanation
Indices: 848676--848720 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
848666 CTTATCAGTT
848676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
848718 TA T
1 TA T
848721 CATTTAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:851382 original size:40 final size:40
Alignment explanation
Indices: 851291--851386 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
851281 TCTCAAGATT
* * *
851291 CAAACCAAAATATTAACTCTATAACAATAAAATCCATAGA
1 CAAACCATAATATTAACTCTAAAACAATAAAATCCATAAA
* *
851331 GAAACCATAATATTAAGTCTAAAACAATAAAATCCATAAA
1 CAAACCATAATATTAACTCTAAAACAATAAAATCCATAAA
* *
851371 CAAATCGTAATATTAA
1 CAAACCATAATATTAA
851387 AGTATCAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.55, C:0.17, G:0.04, T:0.24
Consensus pattern (40 bp):
CAAACCATAATATTAACTCTAAAACAATAAAATCCATAAA
Found at i:854896 original size:32 final size:32
Alignment explanation
Indices: 854858--854924 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
854848 CATAAGGTGA
* *
854858 CCCTTGGTTAGGCTCTTAGGCCCTAAGGTACT
1 CCCTTGGGTAGGCTCTAAGGCCCTAAGGTACT
854890 CCCTTGGGTAGGCTCTAAGGCCCTAAGGTACT
1 CCCTTGGGTAGGCTCTAAGGCCCTAAGGTACT
854922 CCC
1 CCC
854925 CTTAGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.16, C:0.31, G:0.25, T:0.27
Consensus pattern (32 bp):
CCCTTGGGTAGGCTCTAAGGCCCTAAGGTACT
Found at i:859696 original size:36 final size:34
Alignment explanation
Indices: 859648--859766 Score: 127
Period size: 36 Copynumber: 3.5 Consensus size: 34
859638 TATTTTATGT
* *
859648 ATGCATGTTTACTTATGTTTCATTTCATCTTAAGTC
1 ATGCATATTTACTTATGTTTCATTTCATC-TAA-AC
* *
859684 GTGCATATTTACTTATGTTTCATTTCA---AACC
1 ATGCATATTTACTTATGTTTCATTTCATCTAAAC
859715 ATGCATATTTACTTATGTTTCATATTCATCCTAAAC
1 ATGCATATTTACTTATGTTTCAT-TTCAT-CTAAAC
* *
859751 TTGCATTTTTACTTAT
1 ATGCATATTTACTTAT
859767 ATGTTTGTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
31 23 0.32
32 6 0.08
36 42 0.59
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (34 bp):
ATGCATATTTACTTATGTTTCATTTCATCTAAAC
Found at i:862335 original size:37 final size:37
Alignment explanation
Indices: 862244--862323 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
862234 CCTTTTCGTC
* *
862244 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
1 CTACTAGGACTCAAACTCCTAAAAATAGGATAGAATT
* * *
862281 TTGCTAGGACTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGACTCAAACTCCTAAAAATAGGATAGAATT
862318 CTACTA
1 CTACTA
862324 TTATTTAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (37 bp):
CTACTAGGACTCAAACTCCTAAAAATAGGATAGAATT
Found at i:862865 original size:11 final size:11
Alignment explanation
Indices: 862821--862865 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
862811 CTTTGCGTTA
862821 TATTATATTAT
1 TATTATATTAT
* *
862832 TTTTCTATTAT
1 TATTATATTAT
862843 TA-TATA-TA-
1 TATTATATTAT
862851 TATTATATTAT
1 TATTATATTAT
862862 TATT
1 TATT
862866 TTTTATCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
8 2 0.07
9 6 0.22
10 5 0.19
11 14 0.52
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTATATTAT
Found at i:863060 original size:22 final size:19
Alignment explanation
Indices: 863033--863087 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 19
863023 CTATTTAGTA
863033 TTTTATTTTATTATACATACAT
1 TTTTATTTTATTAT--AT-CAT
*
863055 TTTTATATTT-TTATATCTT
1 TTTTAT-TTTATTATATCAT
863074 TTTTATTTTATTAT
1 TTTTATTTTATTAT
863088 TTTATTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.10
19 12 0.40
20 2 0.07
22 10 0.33
23 3 0.10
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATTTTATTATATCAT
Found at i:863092 original size:13 final size:14
Alignment explanation
Indices: 863064--863109 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
863054 TTTTTATATT
*
863064 TTTATATCTTTTTTA
1 TTTATA-CTATTTTA
*
863079 TTT-TATTATTTTA
1 TTTATACTATTTTA
863092 TTTATACTA-TTTA
1 TTTATACTATTTTA
863105 TTTAT
1 TTTAT
863110 TTTCATTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 18 0.67
14 6 0.22
15 3 0.11
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATACTATTTTA
Found at i:864419 original size:19 final size:19
Alignment explanation
Indices: 864395--864431 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
864385 ACCTTACTAA
864395 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
864414 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
864432 ATCATATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:867781 original size:14 final size:14
Alignment explanation
Indices: 867755--867802 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
867745 AAGGGCAAAA
867755 AAAAAAGAAAAGAAGC
1 AAAAAAG-AAAGAA-C
*
867771 AAAAAAG-AAGAAA
1 AAAAAAGAAAGAAC
867784 AAAAAAGAAAGAAC
1 AAAAAAGAAAGAAC
867798 AAAAA
1 AAAAA
867803 TCAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 7 0.24
14 15 0.52
16 7 0.24
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAGAAC
Found at i:867814 original size:28 final size:29
Alignment explanation
Indices: 867751--867815 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
867741 CAAAAAGGGC
*
867751 AAAAAAAAAAGAAAAGAAGCAAAAAAGAA
1 AAAAAAAAAAGAAAAGAAGCAAAAAACAA
* *
867780 GAAAAAAAAAG-AAAGAA-CAAAAATCAA
1 AAAAAAAAAAGAAAAGAAGCAAAAAACAA
*
867807 AAAGAAAAA
1 AAAAAAAAA
867816 TGGACAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 15 0.48
28 6 0.19
29 10 0.32
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.02
Consensus pattern (29 bp):
AAAAAAAAAAGAAAAGAAGCAAAAAACAA
Found at i:868438 original size:22 final size:22
Alignment explanation
Indices: 868410--868464 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
868400 GCTACCCCAT
868410 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
868432 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
868454 CAAACCTTTGA
1 CAAACCTTTGA
868465 CCAAACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:868900 original size:18 final size:19
Alignment explanation
Indices: 868877--868913 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
868867 TCAACATCAA
*
868877 ATATTGGGGTATT-TTTGG
1 ATATTGGGGCATTATTTGG
868895 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
868914 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:869125 original size:119 final size:119
Alignment explanation
Indices: 868914--869130 Score: 416
Period size: 119 Copynumber: 1.8 Consensus size: 119
868904 CATTATTTGG
868914 GGATTCAACATCATAACGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
1 GGATTCAACATCATAACGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
868979 TACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGA
66 TACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGA
* *
869033 GGATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
1 GGATTCAACATCATAACGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
869098 TACATGCATCTTATGCATACATTTTAGAGCATC
66 TACATGCATCTTATGCATACATTTTAGAGCATC
869131 GCACAATCCA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 96 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (119 bp):
GGATTCAACATCATAACGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
TACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGA
Found at i:869233 original size:22 final size:22
Alignment explanation
Indices: 869205--869260 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
869195 AGCTATCCCA
869205 TCAAACCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
869227 TCAAACCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
*
869249 CCAAACCTTTGA
1 TCAAACCTTTGA
869261 CCAAACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (22 bp):
TCAAACCTTTGAGCATCAAATG
Found at i:869696 original size:18 final size:19
Alignment explanation
Indices: 869673--869709 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
869663 TCAACATCAA
*
869673 ATATTGGGGTATT-TTTGG
1 ATATTGGGGCATTATTTGG
869691 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
869710 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:869862 original size:796 final size:796
Alignment explanation
Indices: 868330--870597 Score: 4249
Period size: 796 Copynumber: 2.9 Consensus size: 796
868320 CCTTGATAAG
868330 GCATCGCACAATCCAAATGTGACTATGAAAGCTGGGAGTTGGAGAACACTTCCAGTAGAGGAGCA
1 GCATCGCACAATCCAAATGTGACTATGAAAGCTGGGAGTTGGAGAACACTTCCAGTAGAGGAGCA
*
868395 TGCAAGCTACCCCATCAAACCTTTGAGCATCAAATGCCAAACCTTTGAGCATCAAATGCCAAACC
66 TGCAAGCTA-CCCATCAAACCTTTGAGCATCAAATGTCAAACCTTTGAGCATCAAATGCCAAACC
868460 TTTGACCAAACACAATAACCTGAGACCTTTTTATCCTTTCCTTACTTAACCATTTCCCAAAGATA
130 TTTGACCAAACACAATAACCTGAGACCTTTTTATCCTTTCCTTACTTAACCATTTCCCAAAGATA
868525 TCTTTGATCTTGGCACGTGTCAAATAGCTATAATTTATTGAAGGATTAACATTATAATTAAACAT
195 TCTTTGATCTTGGCACGTGTCAAATAGCTATAATTTATTGAAGGATTAACATTATAATTAAACAT
868590 TTGATATCCAATGAACTCTAGTTTTATGATTCGTCTCAATTGTAAAACCGTGAAAGAGACAATAT
260 TTGATATCCAATGAACTCTAGTTTTATGATTCGTCTCAATTGTAAAACCGTGAAAGAGACAATAT
*
868655 TTTCAAAACTTTTGATTAAACATTTTTCGAAACTCTTTATTGATATTTTTAGAACTTTGAAAATA
325 TTTCAAAACTTTTGATTAAACATTTTTCGAAACTCTTTATTGATATTTTCAGAACTTTGAAAATA
868720 AAAGAGAAAGAAAAAC-ATTTTTTTCAAACAAGACAGTCTCTCTAGAGTGGATCTTGGTAAATGA
390 AAAGAGAAAGAAAAACAATTTTTTTCAAACAAGACAGTCTCTCTAGAGTGGATCTTGGTAAATGA
* *
868784 CGTGTGACTCTTAGACACAAAACTCATGCTCAGAATCAATGTTGAAGCAAGAAATGAGGAACATT
455 CGTGTGACTCTTAGACACAAAACTCATGCTCAGAATCAATGCTGAAGCAAGAAATGAGGAATATT
868849 TGGGGCATCTTTGGAGATTCAACATCAAATATTGGGGTATTTTTGGATATTGGGGCATTATTTGG
520 TGGGGCATCTTTGGAGATTCAACATCAAATATTGGGGTATTTTTGGATATTGGGGCATTATTTGG
* *
868914 GGATTCAACATCATAACGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
585 GGATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
868979 TACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGAGGATTCAACAT
650 TACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGAGGATTCAACAT
869044 CCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGTTACATGCATCT
715 CCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGTTACATGCATCT
869109 TATGCATACATTTTAGA
780 TATGCATACATTTTAGA
869126 GCATCGCACAATCCAAATGTGACTATGAAAGCTGGGAGTTGGAGAACACTTCCAGTAGAGGAGCA
1 GCATCGCACAATCCAAATGTGACTATGAAAGCTGGGAGTTGGAGAACACTTCCAGTAGAGGAGCA
869191 TGCAAGCTATCCCATCAAACCTTTGAGCATCAAATGTCAAACCTTTGAGCATCAAATGCCAAACC
66 TGCAAGCTA-CCCATCAAACCTTTGAGCATCAAATGTCAAACCTTTGAGCATCAAATGCCAAACC
*
869256 TTTGACCAAACACAATAACCTGAGACCTTTTTATCCTTTCCTTACTTAACCATTTTCCAAAGATA
130 TTTGACCAAACACAATAACCTGAGACCTTTTTATCCTTTCCTTACTTAACCATTTCCCAAAGATA
*
869321 TCTTTGATCTTGGCACGTGTCAAATAGCTATAATTTATTCAAGGATTAACATTATAATTAAACAT
195 TCTTTGATCTTGGCACGTGTCAAATAGCTATAATTTATTGAAGGATTAACATTATAATTAAACAT
* *
869386 TTGATATCCAATGAACTCTAGTTTTATGATTAGTCTCAATTGTAAAACCGTGAAAGAGACAATAA
260 TTGATATCCAATGAACTCTAGTTTTATGATTCGTCTCAATTGTAAAACCGTGAAAGAGACAATAT
869451 TTTC-AAACTTTTGATTAAACATTTTTCGAAACTCTTTATTGATATTTTCAGAACTTTGAAAATA
325 TTTCAAAACTTTTGATTAAACATTTTTCGAAACTCTTTATTGATATTTTCAGAACTTTGAAAATA
869515 AAAGAGAAAGAAAAACAATTTTTTTCAAACAAGACAGTCTCTCTAGAGTGGATCTTGGTAAATGA
390 AAAGAGAAAGAAAAACAATTTTTTTCAAACAAGACAGTCTCTCTAGAGTGGATCTTGGTAAATGA
869580 CGTGTGACTCTTAGACACAAAACTCATGCTCAGAATCAATGCTGAAGCAAGAAATGAGGAATATT
455 CGTGTGACTCTTAGACACAAAACTCATGCTCAGAATCAATGCTGAAGCAAGAAATGAGGAATATT
869645 TGGGGCATCTTTGGAGATTCAACATCAAATATTGGGGTATTTTTGGATATTGGGGCATTATTTGG
520 TGGGGCATCTTTGGAGATTCAACATCAAATATTGGGGTATTTTTGGATATTGGGGCATTATTTGG
869710 GGATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
585 GGATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
869775 TACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGAGGATTCAACAT
650 TACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGAGGATTCAACAT
869840 CCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGTTACATGCATCT
715 CCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGTTACATGCATCT
869905 TATGCATACATTTTAGA
780 TATGCATACATTTTAGA
869922 GCATCGCACAATCCAAATGTGACTATGAAAGCTGGGAGTTGGAGAACACTTCCAGTAGAGGAGCA
1 GCATCGCACAATCCAAATGTGACTATGAAAGCTGGGAGTTGGAGAACACTTCCAGTAGAGGAGCA
869987 TGCAAG-----C-T---ACC------C--C--A--TCAAACCTTTGAGCATCAAATGCCAAACCT
66 TGCAAGCTACCCATCAAACCTTTGAGCATCAAATGTCAAACCTTTGAGCATCAAATGCCAAACCT
870031 TTGACCAAACACAATAACCTGAGACCTTTTTATCCTTTCCTTACTTAACCATTTCCCAAAGATAT
131 TTGACCAAACACAATAACCTGAGACCTTTTTATCCTTTCCTTACTTAACCATTTCCCAAAGATAT
*
870096 CTTTGATCTTGGCACGTGTCAAATAGCTATAATTTATTGAAGGATTAACATTATAATTAAATATT
196 CTTTGATCTTGGCACGTGTCAAATAGCTATAATTTATTGAAGGATTAACATTATAATTAAACATT
870161 TGATATCCAATGAACTCTAGTTTTATGATTCGTCTCAATTGTAAAACCGTGAAAGAGACAATATT
261 TGATATCCAATGAACTCTAGTTTTATGATTCGTCTCAATTGTAAAACCGTGAAAGAGACAATATT
870226 TTCAAAACTTTTGATTAAACATTTTTCGAAACTCTTTATTGATATTTTCAGAACTTTGAAAATAA
326 TTCAAAACTTTTGATTAAACATTTTTCGAAACTCTTTATTGATATTTTCAGAACTTTGAAAATAA
*
870291 AAGAGAAAGAAAAACATTTTTTTTCAAACAAGACAGTCTCTCTAGAGTGGATCTTGGTAAATGAC
391 AAGAGAAAGAAAAACAATTTTTTTCAAACAAGACAGTCTCTCTAGAGTGGATCTTGGTAAATGAC
870356 GTGTGACTCTTAGACACAAAACTCATGCTCAGAATCAATGCTGAAGCAAGAAATGAGGAATATTT
456 GTGTGACTCTTAGACACAAAACTCATGCTCAGAATCAATGCTGAAGCAAGAAATGAGGAATATTT
870421 GGGGCATCTTTGGAGATTCAACATCAAATATTGGGGTATTTTTGGATATTGGGGCATTATTTGGG
521 GGGGCATCTTTGGAGATTCAACATCAAATATTGGGGTATTTTTGGATATTGGGGCATTATTTGGG
870486 GATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGTT
586 GATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGTT
870551 ACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTC
651 ACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTC
870598 CACATACATA
Statistics
Matches: 1453, Mismatches: 17, Indels: 25
0.97 0.01 0.02
Matches are distributed among these distances:
774 223 0.15
775 367 0.25
776 1 0.00
778 1 0.00
780 1 0.00
786 3 0.00
789 1 0.00
790 1 0.00
795 75 0.05
796 780 0.54
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (796 bp):
GCATCGCACAATCCAAATGTGACTATGAAAGCTGGGAGTTGGAGAACACTTCCAGTAGAGGAGCA
TGCAAGCTACCCATCAAACCTTTGAGCATCAAATGTCAAACCTTTGAGCATCAAATGCCAAACCT
TTGACCAAACACAATAACCTGAGACCTTTTTATCCTTTCCTTACTTAACCATTTCCCAAAGATAT
CTTTGATCTTGGCACGTGTCAAATAGCTATAATTTATTGAAGGATTAACATTATAATTAAACATT
TGATATCCAATGAACTCTAGTTTTATGATTCGTCTCAATTGTAAAACCGTGAAAGAGACAATATT
TTCAAAACTTTTGATTAAACATTTTTCGAAACTCTTTATTGATATTTTCAGAACTTTGAAAATAA
AAGAGAAAGAAAAACAATTTTTTTCAAACAAGACAGTCTCTCTAGAGTGGATCTTGGTAAATGAC
GTGTGACTCTTAGACACAAAACTCATGCTCAGAATCAATGCTGAAGCAAGAAATGAGGAATATTT
GGGGCATCTTTGGAGATTCAACATCAAATATTGGGGTATTTTTGGATATTGGGGCATTATTTGGG
GATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGTT
ACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGAGGATTCAACATC
CTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGTTACATGCATCTT
ATGCATACATTTTAGA
Found at i:869921 original size:119 final size:119
Alignment explanation
Indices: 869710--869926 Score: 434
Period size: 119 Copynumber: 1.8 Consensus size: 119
869700 CATTATTTGG
869710 GGATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
1 GGATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
869775 TACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGA
66 TACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGA
869829 GGATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
1 GGATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
869894 TACATGCATCTTATGCATACATTTTAGAGCATC
66 TACATGCATCTTATGCATACATTTTAGAGCATC
869927 GCACAATCCA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 98 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (119 bp):
GGATTCAACATCCTAATGCAAATTATCAGACCTTTTTCAGGAGATAAAATATAACCAATTCATGT
TACATGCATCTTATGCATACATTTTAGAGCATCATATTTATCATTTTCAGTAGA
Found at i:870471 original size:18 final size:19
Alignment explanation
Indices: 870448--870484 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
870438 TCAACATCAA
*
870448 ATATTGGGGTATT-TTTGG
1 ATATTGGGGCATTATTTGG
870466 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
870485 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:871125 original size:106 final size:106
Alignment explanation
Indices: 870965--871904 Score: 1366
Period size: 106 Copynumber: 8.8 Consensus size: 106
870955 GCTATCCGCG
* * * * * *
870965 ATTTCAACTCCAC-GACGAAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAATGA
1 ATTTCAACTTCACAG-CGAAGGATAT--TG-AACTCCAGACAACGCAAGTTCAACTTCACGACGA
* *
871029 AGGGACGGCTGGTTGTCAACAAACAACTTCCCAAATTCAGAGCCA
62 AGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
871074 ATTTCAACTTCACAGCGAAGGATATTGAACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
871139 ACCGTTGGTTGTCAACAAACAACTTCTCAATTTCAGAGACA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * *
871180 ATTTCAATTTCACAACGAAGGATATT-AGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGG
1 ATTTCAACTTCACAGCGAAGGATATTGA-ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
871244 GACCGCTGGTTGTCAACAAACAACTTCCCAAATTCAGAGCCA
65 GACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
871286 ATTTCAACTTCACAGCGAAGGATATTGAACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
871351 ACCGTTGGTTGTCAACAAACAACTTCTCAATTTCAGAGACA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* ** *
871392 ATTTCAATTTCACAATGAAGGATATT-AGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGG
1 ATTTCAACTTCACAGCGAAGGATATTGA-ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
871456 GACCGCTGGTTGTCAATAAATAATTTCCCAATTTCATAGCCA
65 GACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * * *
871498 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCCAGTTCAACTTCATGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
871563 ATCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
871604 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
871669 ACCTCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * * *
871710 ATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACACAAGTTCAACTTCATGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
871775 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
871816 ATTTAAACTTCACAGCGAAGGATATT-AGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGG
1 ATTTCAACTTCACAGCGAAGGATATTGA-ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
871880 GACCGCTGGTTGTCAACAAACAACT
65 GACCGCTGGTTGTCAACAAACAACT
871905 CGAGACAACG
Statistics
Matches: 752, Mismatches: 73, Indels: 15
0.90 0.09 0.02
Matches are distributed among these distances:
105 2 0.00
106 724 0.96
107 3 0.00
109 22 0.03
110 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (106 bp):
ATTTCAACTTCACAGCGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
Found at i:871934 original size:58 final size:58
Alignment explanation
Indices: 871844--871962 Score: 229
Period size: 58 Copynumber: 2.1 Consensus size: 58
871834 AGGATATTAG
871844 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
871902 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATA
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
871960 ACT
1 ACT
871963 TCTCAATTTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.17
Consensus pattern (58 bp):
ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
Found at i:871965 original size:270 final size:270
Alignment explanation
Indices: 871632--872172 Score: 956
Period size: 270 Copynumber: 2.0 Consensus size: 270
871622 AGGATATTGG
*
871632 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCTCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
*
871697 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACACAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
*
871762 TCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTAAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTAAACTTC
* * *
871827 ACAGCGAAGGATATTAGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
196 ACAGCGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
871892 TCAACAAACA
261 TCAACAAACA
* *
871902 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
*
871967 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
* * * *
872032 TCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTAAACTTC
*
872097 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
196 ACAGCGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
872162 TCAACAAACA
261 TCAACAAACA
872172 A
1 A
872173 ATTCTCAATT
Statistics
Matches: 257, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
270 257 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (270 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTAAACTTC
ACAGCGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
TCAACAAACA
Found at i:872019 original size:164 final size:164
Alignment explanation
Indices: 871743--872066 Score: 567
Period size: 164 Copynumber: 2.0 Consensus size: 164
871733 ATTGGATTCC
*
871743 AGACAACACAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
871808 CAGAGCCAATTTAAACTTCACAGCGAAGGATATTAGACTCGAGACAACGCAAGTTCAACTTCACG
66 CAGAGCCAATTTAAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACG
871873 ACGAAGGGACCGCTGGTTGTCAACAAACAACTCG
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTCG
* * *
871907 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
871972 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
66 CAGAGCCAATTTAAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACG
*
872037 ATGAAGGGACCGCTGGTTGTCAACAAACAA
131 ACGAAGGGACCGCTGGTTGTCAACAAACAA
872067 TTTCCCAATT
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
164 151 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (164 bp):
AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
CAGAGCCAATTTAAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACAACTCG
Found at i:872026 original size:588 final size:588
Alignment explanation
Indices: 871313--872487 Score: 1929
Period size: 588 Copynumber: 2.0 Consensus size: 588
871303 AAGGATATTG
*
871313 AACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGTTGGTTGTCAACAAACAACTTCT
1 AACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* * *
871378 CAATTTCAGAGACAATTTCAATTTCACAATGAAGGATATTAGACTCTAGACAACGCAAGTTCAAC
66 CAATTTCAGAGACAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAAC
* * *
871443 TTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCATAGCCAATTTCAACTT
131 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
* * ** * *
871508 CACAGCGAAGGATATTGGACTCAAGACAATGCCAGTTCAACTTCATGACGAAGGGATCGCTGGTT
196 CACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATT
* * * *
871573 GTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCA
261 GTCAACAAACAAATTCCCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
* *
871638 GACAACGCAAGTTCAACTTCACGACGAAGGGACCTCTGGTTGTCAACAAACAACTTCTCAATTTC
326 GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * * *
871703 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACACAAGTTCAACTTCATGA
391 AGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGTTCAAATTCACGA
* *
871768 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTAAACTTCACAGCG
456 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTAAACTTCACAACA
* *
871833 AAGGATATTAGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAAC
521 AAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAAC
871897 AAAC
585 AAAC
* * * *
871901 AACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCT
1 AACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* *
871966 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
66 CAATTTCAGAGACAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAAC
* *
872031 TTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTT
131 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
*
872096 CACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATT
196 CACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATT
*
872161 GTCAACAAACAAATTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
261 GTCAACAAACAAATTCCCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
872226 GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
326 GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * *
872291 AGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACGCAAGTTCAAATTCACGA
391 AGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGTTCAAATTCACGA
* * * *
872356 CGAAGGGACTGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAACA
456 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTAAACTTCACAACA
*
872421 AAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACA
521 AAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACA
872486 AA
586 AA
872488 TAATTTCCCG
Statistics
Matches: 541, Mismatches: 45, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
587 2 0.00
588 539 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (588 bp):
AACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
CAATTTCAGAGACAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAAC
TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
CACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATT
GTCAACAAACAAATTCCCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
AGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGTTCAAATTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTAAACTTCACAACA
AAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACA
AAC
Found at i:872029 original size:482 final size:482
Alignment explanation
Indices: 871420--872384 Score: 1696
Period size: 482 Copynumber: 2.0 Consensus size: 482
871410 AGGATATTAG
* * *
871420 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCCC
* * * *
871485 AATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCCAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
* * *
871550 TCATGACGAAGGGATCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* * *
871615 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCTCTGGTTG
196 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
* * *
871680 TCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAG
261 TCAACAAACAAATTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
*
871745 ACAACACAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA
326 ACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA
*
871810 GAGCCAATTTAAACTTCACAGCGAAGGATATTAGACTCGAGACAACGCAAGTTCAACTTCACGAC
391 GAGCCAATTTAAACTTCACAGCGAAGGATATTAGACTCGAGACAACGCAAGTTCAAATTCACGAC
871875 GAAGGGACCGCTGGTTGTCAACAAACA
456 GAAGGGACCGCTGGTTGTCAACAAACA
*
871902 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCCC
*
871967 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
* * *
872032 TCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
872097 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
196 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
872162 TCAACAAACAAATTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
261 TCAACAAACAAATTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
*
872227 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA
326 ACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA
*
872292 GAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACGCAAGTTCAAATTCACGAC
391 GAGCCAATTTAAACTTCACAGCGAAGGATATTAGACTCGAGACAACGCAAGTTCAAATTCACGAC
*
872357 GAAGGGACTGCTGGTTGTCAACAAACA
456 GAAGGGACCGCTGGTTGTCAACAAACA
872384 A
1 A
872385 TTTCCCAATT
Statistics
Matches: 457, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
482 457 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (482 bp):
ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
TCAACAAACAAATTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
ACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA
GAGCCAATTTAAACTTCACAGCGAAGGATATTAGACTCGAGACAACGCAAGTTCAAATTCACGAC
GAAGGGACCGCTGGTTGTCAACAAACA
Found at i:872234 original size:376 final size:376
Alignment explanation
Indices: 871526--872280 Score: 1267
Period size: 376 Copynumber: 2.0 Consensus size: 376
871516 AGGATATTGG
* * * * *
871526 ACTCAAGACAATGCCAGTTCAACTTCATGACGAAGGGATCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
871591 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* *
871656 TCACGACGAAGGGACCTCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* ** *
871721 ACAACGAAGGATATTGGATTCCAGACAACACAAGTTCAACTTCATGACGAAGGGACCGCTGGTTG
196 ACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
* * * *
871786 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTAAACTTCACAGCGAAGGATATTAGACTCGAG
261 TCAACAAACAAATTCCCAATTTCAAAGCCAATTTAAACTTCACAACGAAGGATATTAGACTCCAG
871851 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
326 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * *
871902 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
871967 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * *
872032 TCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* *
872097 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
196 ACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
* * *
872162 TCAACAAACAAATTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
261 TCAACAAACAAATTCCCAATTTCAAAGCCAATTTAAACTTCACAACGAAGGATATTAGACTCCAG
872227 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
326 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
872278 ACT
1 ACT
872281 TCCCAATTTC
Statistics
Matches: 352, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
376 352 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (376 bp):
ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
ACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGATTG
TCAACAAACAAATTCCCAATTTCAAAGCCAATTTAAACTTCACAACGAAGGATATTAGACTCCAG
ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
Found at i:872542 original size:106 final size:106
Alignment explanation
Indices: 871902--872542 Score: 1014
Period size: 106 Copynumber: 6.0 Consensus size: 106
871892 TCAACAAACA
* * *
871902 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
871967 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
872008 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
872073 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
872114 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGATTGTCAACAAACAAATTCTC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
872179 AATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
872220 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
872285 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
872326 ACTCGAGACAACGCAAGTTCAAATTCACGACGAAGGGACTGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
872391 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
872432 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAATAATTTCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCC
* * * *
872496 CGATTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
872538 ACTCG
1 ACTCG
872543 GAACAATGCT
Statistics
Matches: 493, Mismatches: 41, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
105 1 0.00
106 492 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:877156 original size:37 final size:37
Alignment explanation
Indices: 877106--877210 Score: 165
Period size: 37 Copynumber: 2.8 Consensus size: 37
877096 CCTTTTCGTC
*
877106 CTACTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
877143 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
** * *
877180 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
877211 CCACAAGTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
Found at i:877677 original size:22 final size:19
Alignment explanation
Indices: 877650--877704 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 19
877640 CTATTTAGTA
877650 TTTTATTTTATTATACATACAT
1 TTTTATTTTATTAT--ATA-AT
*
877672 TTTTATATTT-TTATATATT
1 TTTTAT-TTTATTATATAAT
877691 TTTTATTTTATTAT
1 TTTTATTTTATTAT
877705 TTTATTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.10
19 11 0.37
20 3 0.10
22 10 0.33
23 3 0.10
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATTTTATTATATAAT
Found at i:877709 original size:13 final size:14
Alignment explanation
Indices: 877685--877726 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
877675 TATATTTTTA
877685 TATATT-TTTTATT
1 TATATTATTTTATT
877698 T-TATTATTTTATT
1 TATATTATTTTATT
*
877711 TATACTA-TTTATT
1 TATATTATTTTATT
877724 TAT
1 TAT
877727 TTTCATTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TATATTATTTTATT
Found at i:878424 original size:14 final size:15
Alignment explanation
Indices: 878395--878470 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 15
878385 AAATAATTAA
878395 AATAATATATTTTAT
1 AATAATATATTTTAT
878410 AATAATATA-TTTAT
1 AATAATATATTTTAT
* * *
878424 AATCATTTATTATAT
1 AATAATATATTTTAT
** *
878439 TTTAA-AT-TATTA-
1 AATAATATATTTTAT
878451 AATTAATATATTTTAT
1 AA-TAATATATTTTAT
878467 AATA
1 AATA
878471 TTTTTAATAA
Statistics
Matches: 44, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
13 6 0.14
14 15 0.34
15 21 0.48
16 2 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (15 bp):
AATAATATATTTTAT
Found at i:878495 original size:32 final size:33
Alignment explanation
Indices: 878429--878497 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
878419 TTTATAATCA
* *
878429 TTTATTATATTTTAAATTATTAAATTAATATAT
1 TTTATAATATTTTAAATAATTAAATTAATATAT
*
878462 TTTATAATATTTTTAATAATTAAA-TAATATAT
1 TTTATAATATTTTAAATAATTAAATTAATATAT
878494 TTTA
1 TTTA
878498 ACATTATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.36
33 21 0.64
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTATAATATTTTAAATAATTAAATTAATATAT
Found at i:878511 original size:57 final size:57
Alignment explanation
Indices: 878392--878508 Score: 143
Period size: 55 Copynumber: 2.1 Consensus size: 57
878382 TTAAAATAAT
** *
878392 TAAAA-TAATATATTTTATAATAATATATTTATAATCATTTATTATATTTTAAATTA
1 TAAAATTAATATATTTTATAATAATATATTTATAATCAAATAATATATTTTAAATTA
* *
878448 TTAAATTAATATATTTTATAAT-AT-T-TTTAATAATTAAATAATATATTTTAACATTA
1 TAAAATTAATATATTTTATAATAATATATTT-ATAATCAAATAATATATTTTAA-ATTA
878504 TAAAA
1 TAAAA
878509 ATTTAAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
54 3 0.06
55 19 0.37
56 14 0.27
57 16 0.31
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (57 bp):
TAAAATTAATATATTTTATAATAATATATTTATAATCAAATAATATATTTTAAATTA
Found at i:879201 original size:3 final size:3
Alignment explanation
Indices: 879195--879246 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
879185 GGACAACAAT
879195 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
879243 ATA A
1 ATA A
879247 ATAAGAGGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:882558 original size:2 final size:2
Alignment explanation
Indices: 882551--882596 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
882541 TCTGATTCAA
882551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
882593 AT AT
1 AT AT
882597 CTTTAACCGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:883011 original size:17 final size:17
Alignment explanation
Indices: 882989--883046 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
882979 CTTAAATAAT
882989 TAAAAATTATCTTTAAA
1 TAAAAATTATCTTTAAA
* *** *
883006 TAAAAACTAATAAATAAT
1 TAAAAA-TTATCTTTAAA
*
883024 TTAAAATTATCTTTAAA
1 TAAAAATTATCTTTAAA
883041 TAAAAA
1 TAAAAA
883047 CTAATAAATA
Statistics
Matches: 28, Mismatches: 12, Indels: 2
0.67 0.29 0.05
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAAATTATCTTTAAA
Found at i:883030 original size:35 final size:35
Alignment explanation
Indices: 882981--883127 Score: 206
Period size: 35 Copynumber: 4.2 Consensus size: 35
882971 TAATTGTTCT
882981 TAAATAATTAAAAATTATCTTTAAATAAAAACTAA
1 TAAATAATTAAAAATTATCTTTAAATAAAAACTAA
*
883016 TAAATAATTTAAAATTATCTTTAAATAAAAACTAA
1 TAAATAATTAAAAATTATCTTTAAATAAAAACTAA
* * * * *
883051 TAAATAATTAAAAAATATATTTAAATAGAGACGAA
1 TAAATAATTAAAAATTATCTTTAAATAAAAACTAA
* * *
883086 TAAATAATT-AAAATTATCTTTAAATATATAGTAA
1 TAAATAATTAAAAATTATCTTTAAATAAAAACTAA
883120 TAAATAAT
1 TAAATAAT
883128 ATTTTATATT
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
34 27 0.27
35 72 0.73
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (35 bp):
TAAATAATTAAAAATTATCTTTAAATAAAAACTAA
Found at i:883064 original size:18 final size:18
Alignment explanation
Indices: 883006--883064 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
882996 TATCTTTAAA
883006 TAAAAACTAATAAATAAT
1 TAAAAACTAATAAATAAT
* * *** *
883024 TTAAAA-TTATCTTTAAA
1 TAAAAACTAATAAATAAT
883041 TAAAAACTAATAAATAAT
1 TAAAAACTAATAAATAAT
883059 TAAAAA
1 TAAAAA
883065 ATATATTTAA
Statistics
Matches: 28, Mismatches: 12, Indels: 2
0.67 0.29 0.05
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAACTAATAAATAAT
Found at i:883173 original size:24 final size:25
Alignment explanation
Indices: 883146--883207 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 25
883136 TTTACTCCAA
883146 ATTTATAAAA-AAAAATCATAATCT
1 ATTTATAAAATAAAAATCATAATCT
*
883170 ATTTATAAAATTGAATAATCATAATCT
1 ATTTATAAAA-T-AAAAATCATAATCT
*
883197 ATTTATGAAAT
1 ATTTATAAAAT
883208 GATTCAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 10 0.30
26 1 0.03
27 22 0.67
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (25 bp):
ATTTATAAAATAAAAATCATAATCT
Found at i:889871 original size:2 final size:2
Alignment explanation
Indices: 889866--889938 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
889856 TTTTCGTGTG
889866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
889907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
889939 CACATCTTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 69 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:892123 original size:21 final size:21
Alignment explanation
Indices: 892097--892141 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
892087 TATTTGGCTC
892097 ATTAGGACACCTCACAAATTA
1 ATTAGGACACCTCACAAATTA
892118 ATTAGGACACCTCACAAATTA
1 ATTAGGACACCTCACAAATTA
892139 ATT
1 ATT
892142 TGAGATTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (21 bp):
ATTAGGACACCTCACAAATTA
Found at i:896345 original size:23 final size:23
Alignment explanation
Indices: 896319--896399 Score: 117
Period size: 23 Copynumber: 3.5 Consensus size: 23
896309 ACAAAAAAAT
896319 ATGTCACAAAGGCATAGATAAAC
1 ATGTCACAAAGGCATAGATAAAC
896342 ATGTCACAAAGGCATAGATAAAC
1 ATGTCACAAAGGCATAGATAAAC
* * *
896365 ATGCCACAAAGGCAAAGAAAAAC
1 ATGTCACAAAGGCATAGATAAAC
* *
896388 GTATCACAAAGG
1 ATGTCACAAAGG
896400 TAAATTATTC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.14
Consensus pattern (23 bp):
ATGTCACAAAGGCATAGATAAAC
Found at i:899002 original size:22 final size:21
Alignment explanation
Indices: 898972--899014 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
898962 GGTCTATTTC
898972 TCACCAAAA-TCAATTCAAAACA
1 TCACCAAAACTC-A-TCAAAACA
*
898994 TCACTAAAACTCATCAAAACA
1 TCACCAAAACTCATCAAAACA
899015 CGAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 9 0.47
23 2 0.11
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (21 bp):
TCACCAAAACTCATCAAAACA
Found at i:903144 original size:19 final size:19
Alignment explanation
Indices: 903120--903158 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
903110 TCGAATGCAT
903120 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
903139 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
903158 T
1 T
903159 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:903237 original size:64 final size:63
Alignment explanation
Indices: 903102--903264 Score: 195
Period size: 64 Copynumber: 2.6 Consensus size: 63
903092 AATGAATAAG
* * ** *
903102 TTCAAACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGATTTAA
1 TTCAAACATCGAATGCATTTCATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTT-A
* * *
903166 TTAAAACATCGAATGTATTTGATGCATCGATGCACAATCCATGCATCGATGCACCAGGCT-ATTT
1 TTCAAACATCGAATGCATTTCATGCATCGATGCACAATCCATGCATCGATGCA-C--GCTGATTT
903230 -
63 A
*
903230 TTCAAACATCGAATGCACTTCATGCATCGATGCAC
1 TTCAAACATCGAATGCATTTCATGCATCGATGCAC
903265 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
64 77 0.92
65 1 0.01
66 4 0.05
67 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (63 bp):
TTCAAACATCGAATGCATTTCATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTTA
Found at i:903264 original size:17 final size:19
Alignment explanation
Indices: 903236--903284 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
903226 ATTTTTCAAA
903236 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
903254 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
903273 CACCGATGCACT
1 CATCGATGCACT
903285 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:903280 original size:64 final size:62
Alignment explanation
Indices: 903102--903283 Score: 183
Period size: 64 Copynumber: 2.8 Consensus size: 62
903092 AATGAATAAG
* *
903102 TTCAAACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCA-CTCTGATTTAA
1 TTCAAACATCGAATGCATT-CATGCATCGATGCACTCT-CATGCATCGATGCACCGCTGATTT-A
* * *
903166 TTAAAACATCGAATGTATTTGATGCATCGATGCACAATC-CATGCATCGATGCACCAGGCT-ATT
1 TTCAAACATCGAATGCA-TTCATGCATCGATGCAC--TCTCATGCATCGATGCACC--GCTGATT
903229 T-
61 TA
* *
903230 TTCAAACATCGAATGCACTTCATGCATCGATGCACTCTTAGTGCACCGATGCAC
1 TTCAAACATCGAATGCA-TTCATGCATCGATGCACTCTCA-TGCATCGATGCAC
903284 TAGGAGTCCA
Statistics
Matches: 99, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
62 2 0.02
63 1 0.01
64 85 0.86
65 3 0.03
66 6 0.06
67 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (62 bp):
TTCAAACATCGAATGCATTCATGCATCGATGCACTCTCATGCATCGATGCACCGCTGATTTA
Found at i:909106 original size:24 final size:22
Alignment explanation
Indices: 909074--909154 Score: 85
Period size: 24 Copynumber: 3.6 Consensus size: 22
909064 GGACTTAACA
909074 ATGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATGCAT-CC-TTGAAT
*
909098 ATGCATCGATGCATCC--GCAT
1 ATGCATCGATGCATCCTTGAAT
*
909118 GATGCACCGATGCATGCCTTGAAT
1 -ATGCATCGATGCAT-CCTTGAAT
*
909142 GTGCATCGATGCA
1 ATGCATCGATGCA
909155 CAAGATCATG
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.06
21 13 0.27
22 2 0.04
23 13 0.27
24 17 0.35
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (22 bp):
ATGCATCGATGCATCCTTGAAT
Found at i:911688 original size:21 final size:21
Alignment explanation
Indices: 911664--911703 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
911654 TTTTCAAAGG
911664 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
911685 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
911704 GAATAAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:911753 original size:19 final size:19
Alignment explanation
Indices: 911729--911767 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
911719 TCGAATGCAT
911729 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
911748 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
911767 T
1 T
911768 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:911792 original size:64 final size:64
Alignment explanation
Indices: 911664--911893 Score: 215
Period size: 64 Copynumber: 3.5 Consensus size: 64
911654 TTTTCAAAGG
*
911664 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGA-ATAAGTTCAAACATCGAATG
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGATTTAA-TTCAAACATCGAATG
911726 CATT
61 CATT
*
911730 CCATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATT
1 -CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTCAAACATCGAATGCA-T
911794 T
64 T
* * ** *
911795 GATGCATCGATGCACAATCCATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATG--ATTTAATTCAAACATCGAATGCA-
911857 TT
63 TT
* * *
911859 CATGCATCGATGCACTCT-TAGTGCACCGATGCACT
1 CATGCACCGATGCACTCTCCA-TGCATCGATGCACT
911894 AGGAGTCCAA
Statistics
Matches: 140, Mismatches: 14, Indels: 20
0.80 0.08 0.11
Matches are distributed among these distances:
63 2 0.01
64 95 0.68
65 20 0.14
66 7 0.05
67 14 0.10
68 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTCAAACATCGAATGCATT
Found at i:911873 original size:17 final size:19
Alignment explanation
Indices: 911845--911893 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
911835 ATTTTTCAAA
911845 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
911863 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
911882 CACCGATGCACT
1 CATCGATGCACT
911894 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:912895 original size:14 final size:13
Alignment explanation
Indices: 912876--912910 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
912866 ATGGTGTATG
912876 ATTTAGGGTTTATA
1 ATTTAGGGTTT-TA
912890 ATTTAGGGTTTTA
1 ATTTAGGGTTTTA
*
912903 AGTTAGGG
1 ATTTAGGG
912911 GTAGGGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (13 bp):
ATTTAGGGTTTTA
Found at i:912912 original size:14 final size:14
Alignment explanation
Indices: 912878--912910 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
912868 GGTGTATGAT
*
912878 TTAGGGTTTATAAT
1 TTAGGGTTTATAAG
912892 TTAGGGTTT-TAAG
1 TTAGGGTTTATAAG
912905 TTAGGG
1 TTAGGG
912911 GTAGGGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTATAAG
Found at i:920478 original size:31 final size:31
Alignment explanation
Indices: 920393--920483 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
920383 CACGTATTGG
* * * *
920393 TCATTTATATTACCAATTTATTCTATTTTGA
1 TCATTTATGTTATCAATTTATTATATTTTAA
* * **
920424 TCACTTATGTTATTAATCAATTATATTTTAA
1 TCATTTATGTTATCAATTTATTATATTTTAA
* *
920455 TCTTTTATGTTATCAATTTATTATGTTTT
1 TCATTTATGTTATCAATTTATTATATTTT
920484 GGTCATTAGA
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.57
Consensus pattern (31 bp):
TCATTTATGTTATCAATTTATTATATTTTAA
Found at i:920867 original size:26 final size:26
Alignment explanation
Indices: 920831--920880 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
920821 GGTGTAAACC
* *
920831 AGTCGAGCTCGAGTATCGTTGAGCCG
1 AGTCAAGCTCGAGTATCGCTGAGCCG
920857 AGTCAAGCTCGAGTATCGCTGAGC
1 AGTCAAGCTCGAGTATCGCTGAGC
920881 TCGAATCGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.22
Consensus pattern (26 bp):
AGTCAAGCTCGAGTATCGCTGAGCCG
Found at i:921515 original size:18 final size:18
Alignment explanation
Indices: 921492--921530 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
921482 AGACATCAAA
921492 AATCTAAATTTATATCAT
1 AATCTAAATTTATATCAT
*
921510 AATCTAAATTTGTATCAT
1 AATCTAAATTTATATCAT
921528 AAT
1 AAT
921531 ACATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (18 bp):
AATCTAAATTTATATCAT
Found at i:922156 original size:15 final size:16
Alignment explanation
Indices: 922124--922156 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
922114 TTTTACATGG
*
922124 ATTAAAATACTATTAA
1 ATTAAAATACTATCAA
922140 ATTAAAAT-CTATCAA
1 ATTAAAATACTATCAA
922155 AT
1 AT
922157 ATATAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAAAATACTATCAA
Found at i:922978 original size:15 final size:17
Alignment explanation
Indices: 922952--922983 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
922942 ATAAATTATA
922952 ATATACAATTTA-ATTT
1 ATATACAATTTATATTT
922968 ATATA-AATTTATATTT
1 ATATACAATTTATATTT
922984 TTGTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATACAATTTATATTT
Found at i:927542 original size:44 final size:46
Alignment explanation
Indices: 927467--927556 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 46
927457 TTTATTTTTG
**
927467 TTTTTTGAATAAATGCATGCGAACTAGATATCATGTGGTTAGGTTTA
1 TTTTTTGAAT-AATGCATGCGAACTAGATATCATACGGTTAGGTTTA
* *
927514 TTTTTTGAAT-A-GCATGCGAATTATATATCATACGGTTAGGTTT
1 TTTTTTGAATAATGCATGCGAACTAGATATCATACGGTTAGGTTT
927557 TTTAATGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
44 28 0.72
45 1 0.03
47 10 0.26
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (46 bp):
TTTTTTGAATAATGCATGCGAACTAGATATCATACGGTTAGGTTTA
Found at i:930198 original size:19 final size:19
Alignment explanation
Indices: 930174--930213 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
930164 TTGGGAGATT
930174 TAGGCATTAATGTTATAAC
1 TAGGCATTAATGTTATAAC
930193 TAGGCATTAATGTTATAAC
1 TAGGCATTAATGTTATAAC
930212 TA
1 TA
930214 ATGATGAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TAGGCATTAATGTTATAAC
Found at i:934069 original size:22 final size:23
Alignment explanation
Indices: 934032--934106 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 23
934022 ATATTTTGCT
*
934032 TGAAGAATAGATGAAAAAATGAAA
1 TGAA-AATAGATGAAAAAAAGAAA
934056 TGAAAAT-GATGAAAAAAAGAAA
1 TGAAAATAGATGAAAAAAAGAAA
* *
934078 -GAAAAAAAATGAAAAATGAA-AAA
1 TGAAAATAGATGAAAAA--AAGAAA
934101 TGAAAA
1 TGAAAA
934107 AAATAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
21 5 0.11
22 22 0.50
23 6 0.14
24 11 0.25
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.13
Consensus pattern (23 bp):
TGAAAATAGATGAAAAAAAGAAA
Found at i:934090 original size:31 final size:30
Alignment explanation
Indices: 934053--934155 Score: 78
Period size: 26 Copynumber: 3.6 Consensus size: 30
934043 TGAAAAAATG
934053 AAATGAAAATGATGAAAAAAAGAAAGAAAAA
1 AAATGAAAATGA-GAAAAAAAGAAAGAAAAA
* *
934084 AAATGAAAA--ATG-AAAAATGAAA-AAAAT
1 AAATGAAAATGA-GAAAAAAAGAAAGAAAAA
* * *
934111 AAA--AAAGTGA-AAAAAAAGAATG-AGAA
1 AAATGAAAATGAGAAAAAAAGAAAGAAAAA
934137 AAATGAAAAATGAGAAAAA
1 AAATG-AAAATGAGAAAAA
934156 GGAAATAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
25 3 0.05
26 13 0.23
27 8 0.14
28 9 0.16
29 9 0.16
30 5 0.09
31 9 0.16
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (30 bp):
AAATGAAAATGAGAAAAAAAGAAAGAAAAA
Found at i:934099 original size:6 final size:7
Alignment explanation
Indices: 934082--934154 Score: 60
Period size: 7 Copynumber: 9.7 Consensus size: 7
934072 AAGAAAGAAA
934082 AAAAATG
1 AAAAATG
934089 AAAAATG
1 AAAAATG
934096 AAAAATG
1 AAAAATG
*
934103 AAAAAAATA
1 --AAAAATG
934112 AAAAAGTG
1 AAAAA-TG
934120 AAAAA--
1 AAAAATG
934125 AAAGAATGAG
1 AAA-AAT--G
934135 AAAAATG
1 AAAAATG
934142 AAAAATG
1 AAAAATG
934149 AGAAAA
1 A-AAAA
934155 AGGAAATAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
5 3 0.05
6 2 0.04
7 28 0.51
8 10 0.18
9 9 0.16
10 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (7 bp):
AAAAATG
Found at i:934124 original size:39 final size:38
Alignment explanation
Indices: 934042--934155 Score: 96
Period size: 36 Copynumber: 3.0 Consensus size: 38
934032 TGAAGAATAG
*
934042 ATGAAAAAATG--AAATGAAAATGATGAAAAAAAGAAAGA
1 ATGAAAAAATGAAAAATGAAAA--ATGAAAAAAAGAAAAA
*
934080 A--AAAAAATGAAAAATGAAAAATGAAAAAAATAAAAA
1 ATGAAAAAATGAAAAATGAAAAATGAAAAAAAGAAAAA
* *
934116 AGTGAAAAAA--AAGAATGAGAAAAATGAAAAATGAGAAAAA
1 A-TGAAAAAATGAAAAAT--GAAAAATGAAAAA-AAGAAAAA
934156 GGAAATAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
36 23 0.37
37 5 0.08
38 10 0.16
39 19 0.30
40 6 0.10
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (38 bp):
ATGAAAAAATGAAAAATGAAAAATGAAAAAAAGAAAAA
Found at i:935480 original size:37 final size:37
Alignment explanation
Indices: 935429--935538 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
935419 ACCTTCGAAA
* * *
935429 CAATTCAATATTAAGCCTTCACGAAAGAGCAGTGAAG
1 CAATTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
935466 CAATTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
1 CAATTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
*
935503 CAAATC-ATCTATAAGCCTTCACGGAAGAGTAGTGAA
1 CAATTCAATCT-TAAGCCTTCACGGAAGAGTAGTGAA
935539 AGAAACTCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 4 0.06
37 64 0.94
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (37 bp):
CAATTCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
Found at i:935738 original size:55 final size:55
Alignment explanation
Indices: 935564--935971 Score: 336
Period size: 55 Copynumber: 7.6 Consensus size: 55
935554 GAAGATCAAT
* *
935564 TTCTATACTCTCTGAAGGAATAGAGAGCGG-ACACGTTTGTT-AA-A-TATT-GAG
1 TTCTATACTCTCTGAAGGAATAGGGAGCGGAAC-CGTTTGTTGAAGATTGTTCGAG
* * * *
935615 -TCTTATACTCTCTGAATGAATAGGGAGC-GTACACGTTTATTG-A-A-T-ATCGAG
1 TTC-TATACTCTCTGAAGGAATAGGGAGCGGAAC-CGTTTGTTGAAGATTGTTCGAG
*
935666 TCCTATACTCTCTGAAGGAATAGGGAGCGGAACCGTTTGTTGAAGATTGTTCGAG
1 TTCTATACTCTCTGAAGGAATAGGGAGCGGAACCGTTTGTTGAAGATTGTTCGAG
*
935721 TTCTATACTCTCTGAAGGAAT-GGAGAGCGGACCCGTTT-TATGAAGATTGTTCGAG
1 TTCTATACTCTCTGAAGGAATAGG-GAGCGGAACCGTTTGT-TGAAGATTGTTCGAG
* * * *
935776 TTATATACTCTCTGAAGGAAT-GGAGAGCGG-ACCCTATT-TATAAAGATTATTCGAG
1 TTCTATACTCTCTGAAGGAATAGG-GAGCGGAACCGT-TTGT-TGAAGATTGTTCGAG
* * * * * **
935831 TTCTATACTCCCTAAACGAATAGGGAGCAGACCCGTTTACTGAAGATTGTTCGAG
1 TTCTATACTCTCTGAAGGAATAGGGAGCGGAACCGTTTGTTGAAGATTGTTCGAG
* * *
935886 -TCTTATACTC-CTTGAACGAATAGGGAGC--ATACACGTTTGCTGAAGATTGTTTGAG
1 TTC-TATACTCTC-TGAAGGAATAGGGAGCGGA-AC-CGTTTGTTGAAGATTGTTCGAG
* *
935941 -TCTTATACTCTTTGAAGGAATAGGGAACGGA
1 TTC-TATACTCTCTGAAGGAATAGGGAGCGGA
935972 CCTGTCATTC
Statistics
Matches: 301, Mismatches: 33, Indels: 40
0.80 0.09 0.11
Matches are distributed among these distances:
50 4 0.01
51 71 0.24
52 5 0.02
53 2 0.01
54 11 0.04
55 202 0.67
56 5 0.02
57 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (55 bp):
TTCTATACTCTCTGAAGGAATAGGGAGCGGAACCGTTTGTTGAAGATTGTTCGAG
Found at i:935895 original size:165 final size:159
Alignment explanation
Indices: 935564--935972 Score: 429
Period size: 165 Copynumber: 2.5 Consensus size: 159
935554 GAAGATCAAT
* *
935564 TTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTGTT-AA-A-TATTGAGTCTTATACTCT
1 TTCTATACTCTCTGAAGGAATGGAGAGCGGACACGTTT-TTGAAGATTGTTGAGTCTTATACTCT
* * * * * * *
935626 CTGAATGAATAGGGAGCGTACACGTTTATTGAATATCGAGTCCTATACTCTCTGAAGGAATAGGG
65 CTGAAGGAATAGGGAGCGGACACATTTATAGAATATCGAGTCCTATACTCCCTAAACGAATAGGG
* **
935691 AGCGGAACCGTTTGTTGAAGATTGTTCGAG
130 AGCAGAACCGTTTACTGAAGATTGTTCGAG
*
935721 TTCTATACTCTCTGAAGGAATGGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGT-TATATACT
1 TTCTATACTCTCTGAAGGAATGGAGAGCGGACACGTTTT-TGAAGATTGTT-GAGTCT-TATACT
* * *
935785 CTCTGAAGGAAT-GGAGAGCGGACCCTATTTATAAAGATTATTCGAGTTCTATACTCCCTAAACG
63 CTCTGAAGGAATAGG-GAGCGGACAC-ATTTAT--AGAATA-TCGAGTCCTATACTCCCTAAACG
*
935849 AATAGGGAGCAGACCCGTTTACTGAAGATTGTTCGAG
123 AATAGGGAGCAGAACCGTTTACTGAAGATTGTTCGAG
* ** *
935886 -TCTTATACTC-CTTGAACGAATAGG-GAGCATACACGTTTGCTGAAGATTGTTTGAGTCTTATA
1 TTC-TATACTCTC-TGAAGGAAT-GGAGAGCGGACACGTTT-TTGAAGATTG-TTGAGTCTTATA
* *
935948 CTCTTTGAAGGAATAGGGAACGGAC
61 CTCTCTGAAGGAATAGGGAGCGGAC
935973 CTGTCATTCG
Statistics
Matches: 210, Mismatches: 24, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
156 1 0.00
157 37 0.18
158 2 0.01
159 1 0.00
160 6 0.03
161 29 0.14
162 5 0.02
164 7 0.03
165 115 0.55
166 7 0.03
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (159 bp):
TTCTATACTCTCTGAAGGAATGGAGAGCGGACACGTTTTTGAAGATTGTTGAGTCTTATACTCTC
TGAAGGAATAGGGAGCGGACACATTTATAGAATATCGAGTCCTATACTCCCTAAACGAATAGGGA
GCAGAACCGTTTACTGAAGATTGTTCGAG
Found at i:938600 original size:12 final size:12
Alignment explanation
Indices: 938583--938619 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
938573 TTTATTTTTA
938583 AATTAAAAATAT
1 AATTAAAAATAT
938595 AATTAAAAAATAT
1 AATT-AAAAATAT
938608 AATTAAAAATAT
1 AATTAAAAATAT
938620 GTGTTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTAAAAATAT
Found at i:938605 original size:13 final size:13
Alignment explanation
Indices: 938583--938616 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
938573 TTTATTTTTA
938583 AATT-AAAAATAT
1 AATTAAAAAATAT
938595 AATTAAAAAATAT
1 AATTAAAAAATAT
938608 AATTAAAAA
1 AATTAAAAA
938617 TATGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATTAAAAAATAT
Found at i:939565 original size:25 final size:25
Alignment explanation
Indices: 939537--939596 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
939527 ATAATGCCAG
*
939537 GAGTACACAAAT-GTA-TAAAATACAT
1 GAGTACACAAATGGTACT--AATACAA
939562 GAGTACAC-AATGGTACTAATACAA
1 GAGTACACAAATGGTACTAATACAA
939586 GAGTACACAAA
1 GAGTACACAAA
939597 ACAATAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 17 0.55
25 13 0.42
26 1 0.03
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (25 bp):
GAGTACACAAATGGTACTAATACAA
Found at i:939648 original size:24 final size:24
Alignment explanation
Indices: 939621--939747 Score: 78
Period size: 24 Copynumber: 5.3 Consensus size: 24
939611 GTGTGTATTC
*
939621 GCACTAATACATGAGTGCATAATT
1 GCACTAATACAGGAGTGCATAATT
* * * *
939645 GCACTGATTCAGGAGTGCACAAAT
1 GCACTAATACAGGAGTGCATAATT
** * * *
939669 GCACTGGTTCAGCAGTGCACGAA-T
1 GCACTAATACAGGAGTGCA-TAATT
*
939693 GCACTAATATAGGAGTGCAT-ATT
1 GCACTAATACAGGAGTGCATAATT
* * * **
939716 CACACTGATACAAGAGTGCATGTTT
1 -GCACTAATACAGGAGTGCATAATT
939741 GCACTAA
1 GCACTAA
939748 CATGTGATCA
Statistics
Matches: 78, Mismatches: 21, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 72 0.92
25 4 0.05
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (24 bp):
GCACTAATACAGGAGTGCATAATT
Found at i:951943 original size:45 final size:44
Alignment explanation
Indices: 951892--951992 Score: 157
Period size: 45 Copynumber: 2.3 Consensus size: 44
951882 AATGCATGGT
* * *
951892 ACGCCGCTAAATGTTTGGTATATTGTGGCATTTTGTAGTATACAA
1 ACGCCGCTAAATGTTTGGTATATTGCGGC-GTTTCTAGTATACAA
*
951937 ACGCCGCTAAATGTTTGGTATATTGCGGCGTTTCTAGTTTACAA
1 ACGCCGCTAAATGTTTGGTATATTGCGGCGTTTCTAGTATACAA
951981 ACGCCGCTAAAT
1 ACGCCGCTAAAT
951993 AACACAGGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 24 0.46
45 28 0.54
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (44 bp):
ACGCCGCTAAATGTTTGGTATATTGCGGCGTTTCTAGTATACAA
Found at i:952371 original size:21 final size:21
Alignment explanation
Indices: 952313--952372 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
952303 GCTGATATGT
* *
952313 TGCTTCTCTCTATGCTACCGA
1 TGCTTCTCTCTCTGCTTCCGA
* *
952334 TGCTTCTTTCTCTGCTTCCGC
1 TGCTTCTCTCTCTGCTTCCGA
*
952355 TGCTACTCTCTCTGCTTC
1 TGCTTCTCTCTCTGCTTC
952373 TCTTGCTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.07, C:0.37, G:0.13, T:0.43
Consensus pattern (21 bp):
TGCTTCTCTCTCTGCTTCCGA
Found at i:962330 original size:52 final size:52
Alignment explanation
Indices: 962262--962472 Score: 404
Period size: 52 Copynumber: 4.1 Consensus size: 52
962252 TAACAACAAA
962262 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
962314 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
*
962366 ATACATTATAATTTAGAAACATTAAAGTATTTATGCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
*
962418 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAATAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
962470 ATA
1 ATA
962473 TTGTTCAGTA
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 156 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.34
Consensus pattern (52 bp):
ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
Found at i:963617 original size:42 final size:41
Alignment explanation
Indices: 963544--963671 Score: 120
Period size: 41 Copynumber: 3.1 Consensus size: 41
963534 TATACAAAAG
* * * *
963544 GCCG-TAAATTTACCACTCTATTGCGGCGTTTTTTGTATAAAC
1 GCCGCTAAA-TTA-CACTATATTACGACGTTTTTAGTATAAAC
963586 GCCGCTAAATTAACACTATATTACGACG-TTTTAGCTA-AAAC
1 GCCGCTAAATT-ACACTATATTACGACGTTTTTAG-TATAAAC
* *
963627 GCCGCTACATGT-CTACTATATTACGACGTTTTTACTATAAAC
1 GCCGCTAAAT-TAC-ACTATATTACGACGTTTTTAGTATAAAC
963669 GCC
1 GCC
963672 ACTATTGTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
40 1 0.01
41 34 0.47
42 33 0.45
43 5 0.07
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (41 bp):
GCCGCTAAATTACACTATATTACGACGTTTTTAGTATAAAC
Found at i:963628 original size:41 final size:42
Alignment explanation
Indices: 963570--963671 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 42
963560 TCTATTGCGG
**
963570 CGTTTTTTGTATAAACGCCGCTAAAT-TAAC-ACTATATTACGA
1 CGTTTTTACTATAAACGCCGCTAAATGT--CTACTATATTACGA
*
963612 CG-TTTTAGCTA-AAACGCCGCTACATGTCTACTATATTACGA
1 CGTTTTTA-CTATAAACGCCGCTAAATGTCTACTATATTACGA
963653 CGTTTTTACTATAAACGCC
1 CGTTTTTACTATAAACGCC
963672 ACTATTGTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
40 1 0.02
41 34 0.65
42 17 0.33
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (42 bp):
CGTTTTTACTATAAACGCCGCTAAATGTCTACTATATTACGA
Found at i:972040 original size:111 final size:111
Alignment explanation
Indices: 971846--972175 Score: 576
Period size: 111 Copynumber: 3.0 Consensus size: 111
971836 ATTACAAAAA
*
971846 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
971911 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
971957 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
972022 AAATAAGACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
972068 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAAATAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
972133 AATTAAAACTTTAAAATGTTA---TATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
972176 ATGATTTCCA
Statistics
Matches: 210, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
108 21 0.10
111 189 0.90
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:972518 original size:50 final size:50
Alignment explanation
Indices: 972460--972595 Score: 157
Period size: 50 Copynumber: 2.7 Consensus size: 50
972450 TGTCAGATAC
* *
972460 TCAT-GTATAGCGCGGATCAGGGGGCGCGCTATACTGACGTGGCGCCAGA
1 TCATCGTATAACGCGGATCAGGGGGCGCGCTATACTGACGTGGCGCCAAA
* ** ** *
972509 TCATCGTATATCGCGGGGCAGGGGGCGCGCTATACCCACGTGGCGTCAAA
1 TCATCGTATAACGCGGATCAGGGGGCGCGCTATACTGACGTGGCGCCAAA
* * * *
972559 TCAACGTATAACGCTGTTCAGGGGGCGCGCTTTACTG
1 TCATCGTATAACGCGGATCAGGGGGCGCGCTATACTG
972596 CTACAGGTGT
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 4 0.06
50 67 0.94
ACGTcount: A:0.20, C:0.26, G:0.34, T:0.21
Consensus pattern (50 bp):
TCATCGTATAACGCGGATCAGGGGGCGCGCTATACTGACGTGGCGCCAAA
Found at i:974491 original size:10 final size:10
Alignment explanation
Indices: 974478--974550 Score: 65
Period size: 10 Copynumber: 7.0 Consensus size: 10
974468 CGAACGGATG
974478 TAAACGAACA
1 TAAACGAACA
*
974488 TAAATGAACACAA
1 TAAACG-A-AC-A
*
974501 TAAACGAACG
1 TAAACGAACA
*
974511 TAAACTAACA
1 TAAACGAACA
* *
974521 TAAATGAACG
1 TAAACGAACA
974531 TAAACGAACA
1 TAAACGAACA
*
974541 CAAACGAACA
1 TAAACGAACA
974551 AACATAAACA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
10 37 0.76
11 3 0.06
12 3 0.06
13 6 0.12
ACGTcount: A:0.58, C:0.19, G:0.11, T:0.12
Consensus pattern (10 bp):
TAAACGAACA
Found at i:974529 original size:20 final size:20
Alignment explanation
Indices: 974500--974549 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
974490 AATGAACACA
*
974500 ATAAACGAACGTAAACTAAC
1 ATAAACGAACGTAAACGAAC
*
974520 ATAAATGAACGTAAACGAAC
1 ATAAACGAACGTAAACGAAC
*
974540 ACAAACGAAC
1 ATAAACGAAC
974550 AAACATAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.12
Consensus pattern (20 bp):
ATAAACGAACGTAAACGAAC
Found at i:974600 original size:20 final size:20
Alignment explanation
Indices: 974500--974601 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
974490 AATGAACACA
* *
974500 ATAAACGAACGTAAACTAAC
1 ATAAACAAACGTAAACGAAC
**
974520 ATAAATGAACGTAAACGAAC
1 ATAAACAAACGTAAACGAAC
*
974540 ----ACAAACG--AACAAAC
1 ATAAACAAACGTAAACGAAC
* * *
974554 ATAAACAAACACAATAAATGAAG
1 ATAAAC-AA-AC-GTAAACGAAC
974577 ATAAACAAACGTAAACGAAC
1 ATAAACAAACGTAAACGAAC
974597 ATAAA
1 ATAAA
974602 TGAAAATATA
Statistics
Matches: 61, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
14 6 0.10
16 5 0.08
18 2 0.03
19 2 0.03
20 32 0.52
21 2 0.03
22 2 0.03
23 10 0.16
ACGTcount: A:0.61, C:0.18, G:0.10, T:0.12
Consensus pattern (20 bp):
ATAAACAAACGTAAACGAAC
Found at i:974817 original size:14 final size:14
Alignment explanation
Indices: 974798--974835 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
974788 ATAAAAGAAT
* *
974798 ATAAACGAATGACC
1 ATAAACGAACGAAC
974812 ATAAACGAACGAAC
1 ATAAACGAACGAAC
974826 ATAAACGAAC
1 ATAAACGAAC
974836 ATAAATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.55, C:0.21, G:0.13, T:0.11
Consensus pattern (14 bp):
ATAAACGAACGAAC
Found at i:976362 original size:18 final size:18
Alignment explanation
Indices: 976319--976355 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
976309 TATAACATTC
*
976319 CCAGTAATTTTATTCCCA
1 CCAGTAATTCTATTCCCA
976337 CCAGTAATTCTATTCCCA
1 CCAGTAATTCTATTCCCA
976355 C
1 C
976356 TGATAATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.35
Consensus pattern (18 bp):
CCAGTAATTCTATTCCCA
Found at i:977077 original size:16 final size:16
Alignment explanation
Indices: 977056--977086 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
977046 TGATACTTTT
*
977056 TTTATTATATTTATTG
1 TTTATTATAATTATTG
977072 TTTATTATAATTATT
1 TTTATTATAATTATT
977087 TGAAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTATTATAATTATTG
Found at i:984252 original size:21 final size:22
Alignment explanation
Indices: 984205--984252 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
984195 TTTCAATAGA
* *
984205 AATAAAGAAAATTGATATATTC
1 AATAAAAAAAAGTGATATATTC
*
984227 TATAAAAAAAAGTGATATA-TC
1 AATAAAAAAAAGTGATATATTC
984248 AATAA
1 AATAA
984253 GGATTATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (22 bp):
AATAAAAAAAAGTGATATATTC
Found at i:984808 original size:18 final size:18
Alignment explanation
Indices: 984785--984821 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
984775 CTATTCCATA
984785 TGTTAATTGAATGTAAAG
1 TGTTAATTGAATGTAAAG
984803 TGTTAATTGAATGTAAAG
1 TGTTAATTGAATGTAAAG
984821 T
1 T
984822 AATATGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (18 bp):
TGTTAATTGAATGTAAAG
Found at i:986445 original size:21 final size:21
Alignment explanation
Indices: 986407--986446 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
986397 TTGTTTTTGT
*
986407 TGTTGATGATGATATTGATAC
1 TGTTGATGAAGATATTGATAC
* *
986428 TGTTGTTGAAGATGTTGAT
1 TGTTGATGAAGATATTGAT
986447 GATGATAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.28, T:0.45
Consensus pattern (21 bp):
TGTTGATGAAGATATTGATAC
Found at i:987837 original size:15 final size:15
Alignment explanation
Indices: 987817--987856 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
987807 ATACTATTTT
987817 AATATTATTTTTAAA
1 AATATTATTTTTAAA
*
987832 AATATTAATTATTAAA
1 AATATT-ATTTTTAAA
987848 AATA-TATTT
1 AATATTATTT
987857 ATCAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 7 0.32
16 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTATTTTTAAA
Found at i:987858 original size:15 final size:16
Alignment explanation
Indices: 987817--987858 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
987807 ATACTATTTT
987817 AATATTATTT-TTAAA
1 AATATTATTTATTAAA
*
987832 AATATTAATTATTAAA
1 AATATTATTTATTAAA
987848 AATA-TATTTAT
1 AATATTATTTAT
987859 CAATAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATTATTTATTAAA
Found at i:988217 original size:17 final size:18
Alignment explanation
Indices: 988192--988225 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
988182 TACAATTTAA
988192 TATTATAATAA-TAATTT
1 TATTATAATAAGTAATTT
*
988209 TATTTTAATAAGTAATT
1 TATTATAATAAGTAATT
988226 AATACAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATTATAATAAGTAATTT
Found at i:988926 original size:2 final size:2
Alignment explanation
Indices: 988919--988947 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
988909 TAATTATTAA
988919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
988948 CTATTTTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:992450 original size:3 final size:3
Alignment explanation
Indices: 992442--992466 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
992432 TTAAATGTTT
992442 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
992467 GTCTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:993189 original size:14 final size:15
Alignment explanation
Indices: 993170--993205 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
993160 CATGATTGAA
993170 AATTTTTA-TTTATG
1 AATTTTTACTTTATG
993184 AATTTTTACTTTTATG
1 AATTTTTAC-TTTATG
993200 AATTTT
1 AATTTT
993206 CTATCTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
16 12 0.60
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (15 bp):
AATTTTTACTTTATG
Found at i:993457 original size:22 final size:22
Alignment explanation
Indices: 993432--993473 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
993422 ACAAAAGATT
993432 TATAATAAA-ATTAAATTTAAAA
1 TATAA-AAAGATTAAATTTAAAA
*
993454 TATAAAAAGTTTAAATTTAA
1 TATAAAAAGATTAAATTTAA
993474 GATTTTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TATAAAAAGATTAAATTTAAAA
Found at i:993592 original size:7 final size:7
Alignment explanation
Indices: 993580--993609 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
993570 ATTTTAATTT
993580 TAAAATA
1 TAAAATA
993587 TAAAATA
1 TAAAATA
993594 TAAAATA
1 TAAAATA
993601 TAAAATA
1 TAAAATA
993608 TA
1 TA
993610 GTTTATGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAAATA
Found at i:995237 original size:27 final size:27
Alignment explanation
Indices: 995188--995239 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
995178 TTAAAAGAAT
*
995188 ACATCGATTTTGCCACTAAACTTTTAA
1 ACATCGATTTTGCCACCAAACTTTTAA
* * *
995215 ACATCTATTTTGGCACCATACTTTT
1 ACATCGATTTTGCCACCAAACTTTT
995240 CTGATTTTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
ACATCGATTTTGCCACCAAACTTTTAA
Found at i:996275 original size:68 final size:69
Alignment explanation
Indices: 996163--996294 Score: 169
Period size: 68 Copynumber: 1.9 Consensus size: 69
996153 CAAAACCAGT
* * * *
996163 AAAAAATGACTGGAAATATTATTAGGCGCTATCAATTTTTTTATTATTGGGCA-TTTTACCGGAT
1 AAAAAATGACCGAAAATATTATTAGGCGCTATCAATTTTGTTATTATTGCGCATTTTTACCGGAT
996227 TTGG
66 TTGG
** * *
996231 AAAAAATGACCGAAAATATTATTAGTTGCTA-CTGATTTTGTTATTGTTGCGCATTTTTACCGGA
1 AAAAAATGACCGAAAATATTATTAGGCGCTATC-AATTTTGTTATTATTGCGCATTTTTACCGGA
996295 AATATTAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
67 1 0.02
68 43 0.80
69 10 0.19
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (69 bp):
AAAAAATGACCGAAAATATTATTAGGCGCTATCAATTTTGTTATTATTGCGCATTTTTACCGGAT
TTGG
Found at i:996744 original size:20 final size:20
Alignment explanation
Indices: 996708--996745 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
996698 CAACACGAAT
*
996708 TTTTCAAATTTGCAACTCAG
1 TTTTCAAATTCGCAACTCAG
*
996728 TTTTCAAATTCGTAACTC
1 TTTTCAAATTCGCAACTC
996746 GAATTCGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (20 bp):
TTTTCAAATTCGCAACTCAG
Found at i:996750 original size:62 final size:60
Alignment explanation
Indices: 996613--996750 Score: 131
Period size: 62 Copynumber: 2.3 Consensus size: 60
996603 ATAACCAACG
* *
996613 AATTCGTAACTC-AATTTCGAATTCGCAACACGAAAGTCAAATTCGTAACATAGTTTTCG
1 AATTCGTAACTCGAATTTCGAATTCGCAACACGAAAGTCAAATTCGCAACATAGTTTTCA
* * * ** *
996672 AATTCGCAA-TAAGAATTTAC-ATTTCGCAACACGAATTTTTCAAATTTGCAAC-TCAGTTTTCA
1 AATTCGTAACT-CGAATTT-CGAATTCGCAACACGAA--AGTCAAATTCGCAACAT-AGTTTTCA
996734 AATTCGTAACTCGAATT
1 AATTCGTAACTCGAATT
996751 CGCCAATTTC
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
58 1 0.02
59 8 0.13
60 19 0.31
61 2 0.03
62 31 0.50
63 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (60 bp):
AATTCGTAACTCGAATTTCGAATTCGCAACACGAAAGTCAAATTCGCAACATAGTTTTCA
Found at i:997528 original size:3 final size:3
Alignment explanation
Indices: 997522--997592 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
997512 ATAAAGAGAC
997522 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
997570 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
997593 CATTAAGTAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1001406 original size:17 final size:17
Alignment explanation
Indices: 1001381--1001419 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1001371 GATGTGATAT
*
1001381 AAATTATATAATATTCA
1 AAATAATATAATATTCA
* *
1001398 AAATAATATTATATTTA
1 AAATAATATAATATTCA
1001415 AAATA
1 AAATA
1001420 CATGATGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAATATAATATTCA
Found at i:1004834 original size:20 final size:20
Alignment explanation
Indices: 1004799--1004846 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
1004789 TAAATAAAAC
*
1004799 TTTCTTTTCTTTTCTTTA-T
1 TTTCTTTTCATTTCTTTATT
1004818 TTTCTTTTCAATTTCTTTATT
1 TTTCTTTTC-ATTTCTTTATT
1004839 TTTCTTTT
1 TTTCTTTT
1004847 AATATCAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 9 0.35
20 8 0.31
21 9 0.35
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTTTTCATTTCTTTATT
Found at i:1038676 original size:35 final size:35
Alignment explanation
Indices: 1038626--1038698 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
1038616 TCATAACTAA
* *
1038626 TTATGTGATAAGATTTAGGGTTT-AGGATTTAGAGT
1 TTATGTGATAAGATTTAAGGTTTAAAG-TTTAGAGT
*
1038661 TTATGTGATAGGATTTAAGGTTTAAAGTTTAGAGT
1 TTATGTGATAAGATTTAAGGTTTAAAGTTTAGAGT
1038696 TTA
1 TTA
1038699 GGGTTATGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 32 0.94
36 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (35 bp):
TTATGTGATAAGATTTAAGGTTTAAAGTTTAGAGT
Found at i:1038683 original size:21 final size:21
Alignment explanation
Indices: 1038647--1038741 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
1038637 GATTTAGGGT
1038647 TTAGGATTT-AGAGTTTATGTG
1 TTAGGATTTAAG-GTTTATGTG
* *
1038668 ATAGGATTTAAGGTTTAAAGT-
1 TTAGGATTTAAGGTTT-ATGTG
*
1038689 TTA-GAGTTT-AGGGTTATGTG
1 TTAGGA-TTTAAGGTTTATGTG
* *
1038709 TTAAGATTTAGGGTTTATGTG
1 TTAGGATTTAAGGTTTATGTG
*
1038730 TTAGGGTTTAAG
1 TTAGGATTTAAG
1038742 TTATGCCATG
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.05
20 13 0.22
21 37 0.64
22 5 0.09
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.44
Consensus pattern (21 bp):
TTAGGATTTAAGGTTTATGTG
Found at i:1040275 original size:19 final size:19
Alignment explanation
Indices: 1040240--1040277 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1040230 ATAAAACATT
*
1040240 ATTATAAAATTTAAATTTA
1 ATTATAAAATCTAAATTTA
1040259 ATTATGAAAATCT-AATTTA
1 ATTAT-AAAATCTAAATTTA
1040278 CTAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTATAAAATCTAAATTTA
Found at i:1041350 original size:31 final size:29
Alignment explanation
Indices: 1041285--1041351 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
1041275 TGATTTGATA
* *
1041285 TATATATATATATATTTAAATAATAAAAT
1 TATATATATACATATTAAAATAATAAAAT
* * *
1041314 AATATATATCACATCATTAAAATAATGACAT
1 TATATATAT-ACAT-ATTAAAATAATAAAAT
1041345 TATATAT
1 TATATAT
1041352 TAAATTATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 8 0.27
30 3 0.10
31 19 0.63
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.40
Consensus pattern (29 bp):
TATATATATACATATTAAAATAATAAAAT
Found at i:1041728 original size:59 final size:59
Alignment explanation
Indices: 1041603--1041733 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 59
1041593 AATTACAACT
* * * * * * *
1041603 TTCATTTTATATTAGTCATTAAATTTTTGAATGTTTTAATTTTATCCCTAAACTATGAC
1 TTCATTCTAAATTAGTCATTAAACTTTTGAATATTTCAATTTCATCCCTAAACAATGAC
1041662 TATCATTCTAAATTAGTTC-TTAAACTTTTG-ATATTTCAATTTCATCCCTAAACAATGATC
1 T-TCATTCTAAATTAG-TCATTAAACTTTTGAATATTTCAATTTCATCCCTAAACAATGA-C
1041722 TTCATTCTAAAT
1 TTCATTCTAAAT
1041734 CGGTTCCCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
59 36 0.58
60 24 0.39
61 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.47
Consensus pattern (59 bp):
TTCATTCTAAATTAGTCATTAAACTTTTGAATATTTCAATTTCATCCCTAAACAATGAC
Found at i:1043437 original size:4 final size:4
Alignment explanation
Indices: 1043428--1043456 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
1043418 ATTTTGCATT
1043428 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1043457 GGGTTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:1049042 original size:21 final size:21
Alignment explanation
Indices: 1049016--1049057 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1049006 ATTCCATCAG
1049016 GTTTTTTATCAAAGAGACTAC
1 GTTTTTTATCAAAGAGACTAC
1049037 GTTTTTTATCAAAGAGACTAC
1 GTTTTTTATCAAAGAGACTAC
1049058 CGGTCTATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (21 bp):
GTTTTTTATCAAAGAGACTAC
Done.