Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008311.1 Hibiscus syriacus cultivar Beakdansim tig00111002_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: 1790494
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:622398 original size:32 final size:32
Alignment explanation
Indices: 622320--622386 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
622310 CTGAAAACTG
622320 TCTAAAAAAATGCCCCAACATTTGATGTTAAA
1 TCTAAAAAAATGCCCCAACATTTGATGTTAAA
*
622352 TCTAAAAAAATGCCCCAACATTTGATGTTGAA
1 TCTAAAAAAATGCCCCAACATTTGATGTTAAA
622384 TCT
1 TCT
622387 TCAAAGATGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (32 bp):
TCTAAAAAAATGCCCCAACATTTGATGTTAAA
Found at i:623435 original size:69 final size:69
Alignment explanation
Indices: 623320--623454 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
623310 TGTCTCTCTC
* *
623320 TTGATGCTCTATGATCTTCGAGTGAAGTGATTTAGTGATTCAAAAATGATTGTTCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
623385 TAAT
66 TAAT
*
623389 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGAAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
623454 T
66 T
623455 CATAGTTTGA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
TAAT
Found at i:626602 original size:31 final size:32
Alignment explanation
Indices: 626559--626619 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
626549 ATGTTAGATA
* * *
626559 AAAATGTAAGAAATAAATAAATTAATTAAATT
1 AAAATGTAAGAAAAAAACAAATTAAATAAATT
626591 AAAATG-AAGAAAAAAACAAATTAAATAAA
1 AAAATGTAAGAAAAAAACAAATTAAATAAA
626620 AGATAAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.23
Consensus pattern (32 bp):
AAAATGTAAGAAAAAAACAAATTAAATAAATT
Found at i:626766 original size:49 final size:46
Alignment explanation
Indices: 626657--626807 Score: 139
Period size: 47 Copynumber: 3.2 Consensus size: 46
626647 ATAGTAAGTA
* * *
626657 AAATAAATATAAAAAAATAAAGGAAAAGAAGAAAAAAATATAAATA-AAAC
1 AAATAAATA-AAAAAAAT-AA--AAAAGTA-AAAATAATATATATATAAAC
*
626707 AAATAAATAAAATAATAATAAAAAAGTAAAAATAATATATATATATAC
1 AAATAAATAAAA-AA-AATAAAAAAGTAAAAATAATATATATATAAAC
*
626755 ATAATAAATAAAAAAAATAAAAAA-TAGTAAAT-ATATATATATAAATC
1 A-AATAAATAAAAAAAATAAAAAAGTA-AAAATAATATATATATAAA-C
626802 -AATAAA
1 AAATAAA
626808 ACTGATAATA
Statistics
Matches: 89, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
45 6 0.07
46 14 0.16
47 27 0.30
48 12 0.13
49 14 0.16
50 13 0.15
51 3 0.03
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (46 bp):
AAATAAATAAAAAAAATAAAAAAGTAAAAATAATATATATATAAAC
Found at i:626775 original size:13 final size:13
Alignment explanation
Indices: 626688--626775 Score: 52
Period size: 13 Copynumber: 5.9 Consensus size: 13
626678 GGAAAAGAAG
626688 AAAAAAATATAAAT
1 AAAAAAA-ATAAAT
*
626702 AAAACAAATAAAT
1 AAAAAAAATAAAT
626715 AAAATAATAATAAA-
1 AAAA-AA-AATAAAT
626729 AAAGTAAAAATAATAT
1 AAA--AAAAATAA-AT
626745 ATATATATACATAATAAAT
1 A-A-A-A-A-A-AATAAAT
626764 AAAAAAAATAAA
1 AAAAAAAATAAA
626776 AAATAGTAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 23
0.71 0.02 0.27
Matches are distributed among these distances:
13 16 0.26
14 16 0.26
15 10 0.16
16 3 0.05
17 4 0.07
18 3 0.05
19 4 0.07
20 5 0.08
ACGTcount: A:0.74, C:0.02, G:0.01, T:0.23
Consensus pattern (13 bp):
AAAAAAAATAAAT
Found at i:626778 original size:40 final size:41
Alignment explanation
Indices: 626716--626864 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 41
626706 CAAATAAATA
626716 AAAT-AATAATAAAAAAGT-AAAAATAATATATATATATACAT
1 AAATAAATAA-AAAAAA-TAAAAAATAATATATATATATACAT
* * *
626757 -AATAAATAAAAAAAATAAAAAATAGTAAATATATATATAT
1 AAATAAATAAAAAAAATAAAAAATAATATATATATATACAT
* *** *
626797 AAATCAATAAAACTGATAATAAAATAATATATATATATATAT
1 AAATAAATAAAAAAAATAA-AAAATAATATATATATATACAT
*
626839 ATATATATAATCTAAAAAAATAAAAA
1 A-A-ATA-AAT-AAAAAAAATAAAAA
626865 TATATACTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 29 0.34
41 19 0.22
42 21 0.24
43 1 0.01
44 2 0.02
45 6 0.07
46 7 0.08
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (41 bp):
AAATAAATAAAAAAAATAAAAAATAATATATATATATACAT
Found at i:626821 original size:42 final size:42
Alignment explanation
Indices: 626720--626864 Score: 136
Period size: 42 Copynumber: 3.4 Consensus size: 42
626710 TAAATAAAAT
*
626720 AATAATAAAAAAGT-AAAAATAAT--ATATATATATACATAATA
1 AATAA-AAAAAA-TAAAAAATAATAAATATATATATATATAATA
* *
626761 AATAAAAAAAATAAAAAATAGTAAATATATATATATA-AATC
1 AATAAAAAAAATAAAAAATAATAAATATATATATATATAATA
*** *
626802 AATAAAACTGATAATAAAATAATATATATATATATATATATATA
1 AATAAAAAAAATAA-AAAATAATAAATATATATATATATA-ATA
*
626846 TAATCTAAAAAAATAAAAA
1 -AAT-AAAAAAAATAAAAA
626865 TATATACTAA
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 14 0.17
41 19 0.23
42 33 0.40
43 1 0.01
44 2 0.02
45 6 0.07
46 7 0.08
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (42 bp):
AATAAAAAAAATAAAAAATAATAAATATATATATATATAATA
Found at i:626830 original size:2 final size:2
Alignment explanation
Indices: 626823--626847 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
626813 TAATAAAATA
626823 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 A
626848 ATCTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:627625 original size:8 final size:7
Alignment explanation
Indices: 627585--627712 Score: 55
Period size: 7 Copynumber: 17.4 Consensus size: 7
627575 GAAAAAGGGC
627585 AAAAGAA
1 AAAAGAA
*
627592 AAAATTAA
1 AAAA-GAA
*
627600 AAAAAAA
1 AAAAGAA
627607 TCAAAAGAA
1 --AAAAGAA
*
627616 AAAAGCA
1 AAAAGAA
627623 AAAAGAA
1 AAAAGAA
627630 AATCAA-AGA
1 AA--AAGA-A
*
627639 AAAAGTA
1 AAAAGAA
627646 AAAA-AA
1 AAAAGAA
*
627652 CAAAGAA
1 AAAAGAA
627659 GAAGAA-AA
1 -AA-AAGAA
*
627667 AAAACAA
1 AAAAGAA
*
627674 AAAAAAA
1 AAAAGAA
*
627681 AAAAGAG
1 AAAAGAA
*
627688 CAAAGAAA
1 AAAAG-AA
*
627696 AAAAGAG
1 AAAAGAA
*
627703 CAAAGAA
1 AAAAGAA
627710 AAA
1 AAA
627713 TAGAGGACAA
Statistics
Matches: 90, Mismatches: 19, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
6 6 0.07
7 56 0.62
8 15 0.17
9 13 0.14
ACGTcount: A:0.79, C:0.05, G:0.12, T:0.04
Consensus pattern (7 bp):
AAAAGAA
Found at i:627626 original size:25 final size:25
Alignment explanation
Indices: 627584--627681 Score: 87
Period size: 24 Copynumber: 4.0 Consensus size: 25
627574 GGAAAAAGGG
**
627584 CAAAAGAAAAAA-TTAAAAAAAAAT
1 CAAAAGAAAAAAGCAAAAAAAAAAT
*
627608 CAAAAGAAAAAAGCAAAAAGAAAAT
1 CAAAAGAAAAAAGCAAAAAAAAAAT
*
627633 C-AAAG-AAAAAGTAAAAAAACAAA-
1 CAAAAGAAAAAAGCAAAAAAA-AAAT
* *
627656 GAAGAAGAAAAAAAACAAAAAAAAAA
1 CAA-AAG-AAAAAAGCAAAAAAAAAA
627682 AAAGAGCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
23 12 0.20
24 20 0.33
25 13 0.22
26 3 0.05
27 12 0.20
ACGTcount: A:0.80, C:0.06, G:0.09, T:0.05
Consensus pattern (25 bp):
CAAAAGAAAAAAGCAAAAAAAAAAT
Found at i:627650 original size:19 final size:18
Alignment explanation
Indices: 627585--627697 Score: 74
Period size: 19 Copynumber: 6.2 Consensus size: 18
627575 GAAAAAGGGC
** *
627585 AAAAGAAAAAATTAAAAA
1 AAAAGAAAAAAACAAAGA
*
627603 AAAATCAAAAGAAA-AAAGCA
1 AAAA-GAAAA-AAACAAAG-A
*
627623 AAAAG--AAAATCAAAGA
1 AAAAGAAAAAAACAAAGA
627639 AAAAGTAAAAAAACAAAGA
1 AAAAG-AAAAAAACAAAGA
*
627658 AGAAGAAAAAAAACAAA-A
1 AAAAG-AAAAAAACAAAGA
*
627676 AAAA-AAAAAGAGCAAAGA
1 AAAAGAAAAA-AACAAAGA
627694 AAAA
1 AAAA
627698 AAGAGCAAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
16 13 0.17
17 11 0.14
18 13 0.17
19 32 0.42
20 7 0.09
ACGTcount: A:0.80, C:0.05, G:0.11, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAAAACAAAGA
Found at i:627681 original size:15 final size:17
Alignment explanation
Indices: 627663--627712 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 17
627653 AAAGAAGAAG
627663 AAAAAAA-A-CAAAAAA
1 AAAAAAAGAGCAAAAAA
*
627678 AAAAAAAGAGC--AAAG
1 AAAAAAAGAGCAAAAAA
627693 AAAAAAAGAGCAAAGAAA
1 AAAAAAAGAGCAAA-AAA
627711 AA
1 AA
627713 TAGAGGACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 21 0.75
16 1 0.04
17 2 0.07
18 4 0.14
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAGCAAAAAA
Found at i:627698 original size:19 final size:17
Alignment explanation
Indices: 627617--627699 Score: 78
Period size: 19 Copynumber: 4.6 Consensus size: 17
627607 TCAAAAGAAA
* * *
627617 AAAGCAAAAAGAAAATC
1 AAAGAAAAAAAAAAAAC
627634 AAAGAAAAAGTAAAAAAAC
1 AAAGAAAAA--AAAAAAAC
627653 AAAGAAGAAGAAAAAAAAC
1 AAAGAA-AA-AAAAAAAAC
*
627672 AAA-AAAAAAAAAAGAGC
1 AAAGAAAAAAAAAA-AAC
627689 AAAGAAAAAAA
1 AAAGAAAAAAA
627700 GAGCAAAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
16 6 0.11
17 15 0.27
18 9 0.16
19 23 0.41
20 2 0.04
21 1 0.02
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAAAAAAAAC
Found at i:627707 original size:51 final size:50
Alignment explanation
Indices: 627614--627709 Score: 115
Period size: 49 Copynumber: 1.9 Consensus size: 50
627604 AAATCAAAAG
* * *
627614 AAAAAAGCAAAAAGAAAATCAAAGAAAAAGTAAAAAAACAAAGAAGAAGA
1 AAAAAAACAAAAAGAAAATAAAAGAAAAAGAAAAAAAACAAAGAAGAAGA
*
627664 AAAAAAACAAAAA-AAAA-AAAAGAGCAAAGAAAAAAAGAGCAAAGAA
1 AAAAAAACAAAAAGAAAATAAAAGA-AAAAGAAAAAAA-A-CAAAGAA
627710 AAATAGAGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
48 5 0.13
49 14 0.36
50 13 0.33
51 7 0.18
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.02
Consensus pattern (50 bp):
AAAAAAACAAAAAGAAAATAAAAGAAAAAGAAAAAAAACAAAGAAGAAGA
Found at i:627717 original size:15 final size:15
Alignment explanation
Indices: 627678--627717 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
627668 AAACAAAAAA
627678 AAAAAAAGAGCAAAG
1 AAAAAAAGAGCAAAG
627693 AAAAAAAGAGCAAAG
1 AAAAAAAGAGCAAAG
*
627708 AAAAATAGAG
1 AAAAAAAGAG
627718 GACAAAAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.72, C:0.05, G:0.20, T:0.03
Consensus pattern (15 bp):
AAAAAAAGAGCAAAG
Found at i:628866 original size:65 final size:63
Alignment explanation
Indices: 628728--628867 Score: 172
Period size: 63 Copynumber: 2.2 Consensus size: 63
628718 ACAAAATTTG
* * * **
628728 TCTCTCGAGACAGTTTCTTTTGAAAAAAAATCTTCGAGTCTGTTTCTGGAAAAAAGTTTTGTC
1 TCTCTTGAGACAATTTATTTTGAAAAAAAATCTTCGAGTCTGTTTCTGGAAAAAAGTTTAATC
* * * * *
628791 TTTCTTGAGACAATTTATTTTGAGAAAAAATCTTTGAGTCTGTTTCCTTTGAAACAAGTTTAATC
1 TCTCTTGAGACAATTTATTTTGAAAAAAAATCTTCGAGTCTGTTT-C-TGGAAAAAAGTTTAATC
628856 TCTCTTGAGACA
1 TCTCTTGAGACA
628868 GTTTCTCTTG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 39 0.61
64 1 0.02
65 24 0.38
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (63 bp):
TCTCTTGAGACAATTTATTTTGAAAAAAAATCTTCGAGTCTGTTTCTGGAAAAAAGTTTAATC
Found at i:628999 original size:66 final size:65
Alignment explanation
Indices: 628715--629040 Score: 278
Period size: 65 Copynumber: 5.1 Consensus size: 65
628705 AGTTTTCTTA
* * * ** * *
628715 GAAACAAAATTTGTCTCTC--GAGACAGTTTCTTTTGAAA-AAAAATCTTCGAGTCTGTTT--CT
1 GAAATAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAG-ATGTTTCCCT
*
628775 G
65 T
* * * * * *
628776 GAAA-AAAGTTTTGTCTTTCTTGAGACAATTTATTTTGAGAA-A-AAATCTTTGAGTCTGTTTCC
1 GAAATAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGA-AACACCAATCTTTGAG-ATGTTTCC
*
628838 TTT
63 CTT
* * ** * *
628841 GAAACAAGTTTAATCTCTCTTGAGACAGTTTCTCTTGAAACACCTATCTTTGAG-TCATTTCCCT
1 GAAATAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAGAT-GTTTCCCT
628905 T
65 T
* *
628906 GAAATAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACACCAATCTTTGAGAATGTTTCCCT
1 GAAATAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAG-ATGTTTCCCT
628971 T
65 T
* *
628972 GAAATGAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATC-ATCTTTGAG-TCAGTTTCCC
1 GAAATAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAGAT--GTTTCCC
629035 TT
64 TT
629037 GAAA
1 GAAA
629041 CCATTATCCC
Statistics
Matches: 221, Mismatches: 30, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
60 3 0.01
61 13 0.06
63 33 0.15
64 6 0.03
65 106 0.48
66 59 0.27
67 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (65 bp):
GAAATAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAGATGTTTCCCTT
Found at i:629372 original size:128 final size:126
Alignment explanation
Indices: 629046--629384 Score: 398
Period size: 128 Copynumber: 2.6 Consensus size: 126
629036 TGAAACCATT
*
629046 ATCCCTAAAGATGGCAT-TCCATCCTCATCGCGTAGGAACCGTGTCATCCGCCGACTAGACCTCC
1 ATCCCTAAAGATGTC-TGT-CATCCTCATCGCGTAGGAACCGTGTCATCC-CCGACTAGACCTCC
* * * *
629110 TCATCACGTAGGAGCCTTGTCACCCCTAGATAACCAGCTTTCCTCATCATGTAGGAATATTGTTA
63 TCATCACGTAGGAGCC---ACACCCCTAGATAACCAGCTGTCCTCATCATGTAGGAACAGTGTTA
629175 TC
125 TC
* * *
629177 ATCCCTAAAGATGGAT-TGTCATCCTTATCACGTAGGAACCGTGTCATCCCCGACCAGACCTCCT
1 ATCCCTAAAGAT-G-TCTGTCATCCTCATCGCGTAGGAACCGTGTCATCCCCGACTAGACCTCCT
* * *
629241 CATCACGTAGGAGCCACACCCCTAGATAACTAG-TCGTCCTCATCGTGTA-GAACCGTGTTATC
64 CATCACGTAGGAGCCACACCCCTAGATAACCAGCT-GTCCTCATCATGTAGGAACAGTGTTATC
* * * *
629303 ACCCTCCCTAAAGATGTCTGTCATCCTCATCGTGTAGGAACCGTGTCATCCCTGACTAGATCTCG
1 A---TCCCTAAAGATGTCTGTCATCCTCATCGCGTAGGAACCGTGTCATCCCCGACTAGACCTCC
*
629368 TCATCACATAGGAGCCA
63 TCATCACGTAGGAGCCA
629385 TGTCACCCTT
Statistics
Matches: 181, Mismatches: 19, Indels: 19
0.83 0.09 0.09
Matches are distributed among these distances:
126 12 0.07
127 29 0.16
128 57 0.31
129 11 0.06
130 29 0.16
131 41 0.23
132 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (126 bp):
ATCCCTAAAGATGTCTGTCATCCTCATCGCGTAGGAACCGTGTCATCCCCGACTAGACCTCCTCA
TCACGTAGGAGCCACACCCCTAGATAACCAGCTGTCCTCATCATGTAGGAACAGTGTTATC
Found at i:632482 original size:24 final size:25
Alignment explanation
Indices: 632422--632482 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
632412 TCGGGCCGGG
632422 TATATA-TATA-TATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
*
632445 TATATATT-TGTTATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
632469 T-T-TATTAATATTAT
1 TATATATT-ATATTAT
632483 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 20 0.62
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TATATATTATATTATTTAAATTAAA
Found at i:638518 original size:30 final size:30
Alignment explanation
Indices: 638484--638564 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
638474 ATTACAAGAA
*
638484 AAAATAGCAAAAACATAAACTCAAAGGACC
1 AAAATAGCAAAAACAGAAACTCAAAGGACC
* * * * * *
638514 AAAATAGTACAAACAGGAATTTAAAGGACT
1 AAAATAGCAAAAACAGAAACTCAAAGGACC
* *
638544 AAAATGGCAAAAATAGAAACT
1 AAAATAGCAAAAACAGAAACT
638565 TAACAGGCTA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.15
Consensus pattern (30 bp):
AAAATAGCAAAAACAGAAACTCAAAGGACC
Found at i:640367 original size:3 final size:3
Alignment explanation
Indices: 640338--640407 Score: 90
Period size: 3 Copynumber: 23.3 Consensus size: 3
640328 AATATGTAAA
* *
640338 AAT AA- AAT AAAT ATT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
640383 AAAT AAT AAT AAT AAT AA- AAT AAT A
1 -AAT AAT AAT AAT AAT AAT AAT AAT A
640408 TTTTTGTAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.07
3 49 0.83
4 6 0.10
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:641318 original size:18 final size:18
Alignment explanation
Indices: 641294--641336 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
641284 ATGATATGTA
*
641294 TTATATGTTATGTGATATG
1 TTATATGTTATAT-ATATG
641313 -TATATGTTATATATATG
1 TTATATGTTATATATATG
641330 TTATATG
1 TTATATG
641337 ATGATGATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (18 bp):
TTATATGTTATATATATG
Found at i:641574 original size:15 final size:15
Alignment explanation
Indices: 641550--641580 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
641540 GAATTATATA
*
641550 AAGTGTTCTACGTGT
1 AAGTGATCTACGTGT
641565 AAGTGATCTACGTGT
1 AAGTGATCTACGTGT
641580 A
1 A
641581 TATATGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (15 bp):
AAGTGATCTACGTGT
Found at i:641712 original size:21 final size:21
Alignment explanation
Indices: 641679--641718 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
641669 TTCTACTTGG
*
641679 TCCTTCGGGACATATATGTAA
1 TCCTTCGGAACATATATGTAA
*
641700 TCCTTTGGAACATATATGT
1 TCCTTCGGAACATATATGT
641719 GGTAATTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:644762 original size:21 final size:21
Alignment explanation
Indices: 644729--644768 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
644719 TTCTACGTGG
*
644729 TCCTTCGGGACATATATGTAA
1 TCCTTCGGAACATATATGTAA
*
644750 TCCTTTGGAACATATATGT
1 TCCTTCGGAACATATATGT
644769 GGTAATTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:646207 original size:33 final size:33
Alignment explanation
Indices: 646170--646238 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
646160 CTTGAATCCC
*
646170 CAAAGATGCCCCAACATTTGACGTTGATTACTT
1 CAAAGATGCCCCAACATTCGACGTTGATTACTT
* * *
646203 CAAAGATGCCCCAATATTCGATGTTGATTGCTT
1 CAAAGATGCCCCAACATTCGACGTTGATTACTT
646236 CAA
1 CAA
646239 CATTGATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (33 bp):
CAAAGATGCCCCAACATTCGACGTTGATTACTT
Found at i:650626 original size:30 final size:30
Alignment explanation
Indices: 650562--650626 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
650552 ATTACAAGAA
*
650562 AAAATAGCAAAAACATAAACTCAAAGGACC
1 AAAATAGCAAAAACATAAACTCAAAGGAAC
* * * * *
650592 AAAATAGCACAAACATGAATTTAAAGGAAT
1 AAAATAGCAAAAACATAAACTCAAAGGAAC
650622 AAAAT
1 AAAAT
650627 GGAAAAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.15
Consensus pattern (30 bp):
AAAATAGCAAAAACATAAACTCAAAGGAAC
Found at i:651330 original size:14 final size:14
Alignment explanation
Indices: 651311--651357 Score: 69
Period size: 14 Copynumber: 3.3 Consensus size: 14
651301 AATATCAACA
651311 TTTTCTTTATTTAT
1 TTTTCTTTATTTAT
651325 TTTTCTTTATTTAT
1 TTTTCTTTATTTAT
651339 TTTTCATTT-TTTCAT
1 TTTTC-TTTATTT-AT
651354 TTTT
1 TTTT
651358 AAATAAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 22 0.71
15 9 0.29
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTATTTAT
Found at i:651742 original size:2 final size:2
Alignment explanation
Indices: 651735--651800 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
651725 TCTTGTTAAA
651735 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
651777 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
651801 TTTTGAATAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:652537 original size:3 final size:3
Alignment explanation
Indices: 652508--652583 Score: 93
Period size: 3 Copynumber: 25.3 Consensus size: 3
652498 AATATGTAAA
* *
652508 AAT AA- AAT AAAT ATT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
652554 AAT AAT AAT TAT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
652584 TTTTTGTAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 4 0.06
3 53 0.84
4 6 0.10
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:654916 original size:20 final size:21
Alignment explanation
Indices: 654877--654918 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
654867 TTAGGGTAGA
654877 TTAGGGTTTGGTTGGTTTGGGC
1 TTAGGGTTT-GTTGGTTTGGGC
*
654899 TTAGGGTTT-TTTGTTTGGGC
1 TTAGGGTTTGTTGGTTTGGGC
654919 CCAATTTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.05, C:0.05, G:0.40, T:0.50
Consensus pattern (21 bp):
TTAGGGTTTGTTGGTTTGGGC
Found at i:654983 original size:3 final size:3
Alignment explanation
Indices: 654975--655012 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
654965 GAATATGAAT
* *
654975 ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG GTG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
655013 AATAATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:654984 original size:12 final size:13
Alignment explanation
Indices: 654969--655004 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
654959 TAATATGAAT
654969 ATGAAT-ATGATG
1 ATGAATGATGATG
654981 ATG-ATGATGATG
1 ATGAATGATGATG
654993 AT-AATGATGATG
1 ATGAATGATGATG
655005 GTGATGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 20 0.91
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (13 bp):
ATGAATGATGATG
Found at i:655658 original size:45 final size:42
Alignment explanation
Indices: 655609--655728 Score: 132
Period size: 45 Copynumber: 2.7 Consensus size: 42
655599 AACAATAAGA
*
655609 GTGATGTTGATCCAACTCCTAATATGATGGAATCGAGTGAAAAAT
1 GTGAT-TTGATCCAACTCCTTATATGATGGAATCGA--GAAAAAT
* * * *
655654 GTGATTCTGATCCAATTACTTATTTGATGGAATCGAGCAAAAT
1 GTGATT-TGATCCAACTCCTTATATGATGGAATCGAGAAAAAT
*
655697 GATGATCCTGATCCAACTCCTTATATGATGGA
1 G-TGAT-TTGATCCAACTCCTTATATGATGGA
655729 TACTGAATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 7 0.11
44 26 0.41
45 30 0.48
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (42 bp):
GTGATTTGATCCAACTCCTTATATGATGGAATCGAGAAAAAT
Found at i:655720 original size:44 final size:44
Alignment explanation
Indices: 655616--655728 Score: 147
Period size: 44 Copynumber: 2.5 Consensus size: 44
655606 AGAGTGATGT
* *
655616 TGATCCAACTCCTAATATGATGGAATCGAGTGAAAAATGTGATTC
1 TGATCCAACTCCTTATATGATGGAATCGAG-GAAAAATGTGATCC
* * * *
655661 TGATCCAATTACTTATTTGATGGAATCGA-GCAAAATGATGATCC
1 TGATCCAACTCCTTATATGATGGAATCGAGGAAAAATG-TGATCC
655705 TGATCCAACTCCTTATATGATGGA
1 TGATCCAACTCCTTATATGATGGA
655729 TACTGAATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 7 0.12
44 26 0.45
45 25 0.43
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (44 bp):
TGATCCAACTCCTTATATGATGGAATCGAGGAAAAATGTGATCC
Found at i:658017 original size:13 final size:13
Alignment explanation
Indices: 657995--658027 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
657985 TGTTTCTTTA
657995 AATAAAATAGTTT
1 AATAAAATAGTTT
*
658008 AATAAGATAGTTT
1 AATAAAATAGTTT
658021 -ATAAAAT
1 AATAAAAT
658028 GTTCTTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (13 bp):
AATAAAATAGTTT
Found at i:658118 original size:13 final size:13
Alignment explanation
Indices: 658100--658132 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
658090 AACGTAATAT
658100 AATACTACAACCA
1 AATACTACAACCA
658113 AATACTACAACCA
1 AATACTACAACCA
658126 AATACTA
1 AATACTA
658133 AGTATCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (13 bp):
AATACTACAACCA
Found at i:661331 original size:75 final size:75
Alignment explanation
Indices: 661208--661360 Score: 288
Period size: 75 Copynumber: 2.0 Consensus size: 75
661198 CCTTAAGAAA
**
661208 TACCTTATCACCCACTTGATATTTAATTTTTTTTATGTACAACTCAACATATTTATCCATAGAAT
1 TACCTTATCACCCACTTGATATTTAAAATTTTTTATGTACAACTCAACATATTTATCCATAGAAT
661273 AATCTCTTCG
66 AATCTCTTCG
661283 TACCTTATCACCCACTTGATATTTAAAATTTTTTATGTACAACTCAACATATTTATCCATAGAAT
1 TACCTTATCACCCACTTGATATTTAAAATTTTTTATGTACAACTCAACATATTTATCCATAGAAT
661348 AATCTCTTCG
66 AATCTCTTCG
661358 TAC
1 TAC
661361 TAGAATAAAG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (75 bp):
TACCTTATCACCCACTTGATATTTAAAATTTTTTATGTACAACTCAACATATTTATCCATAGAAT
AATCTCTTCG
Found at i:664709 original size:131 final size:131
Alignment explanation
Indices: 664462--664829 Score: 470
Period size: 131 Copynumber: 2.8 Consensus size: 131
664452 ATAATTTTAA
* * * *
664462 GAGAGAAAACGATAATATCTAATTATTTCCAATTGAGAATAAATGACCTTTTATGCCTTGAAA-C
1 GAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTT-AAAGC
* * * * * * * *
664526 AATCATTTATTACCCCAATTAAAATGAAGAGATATCATTATTTTGTCATAAAATTCAATATTGAT
65 AATCATTTATTACTCAAATCAAAATGAAGAGATATCACTATTATGTCATAAAAATCAATATTAAC
664591 TC
130 TC
* * * *
664593 GAGTGAAAACAATGATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTTAAGCA
1 GAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * *
664658 GTCATTTATTACTCAAATCGAAATGAAGAGATATCACTATTATGTCTTAAAAATCAATATTAACT
66 ATCATTTATTACTCAAATCAAAATGAAGAGATATCACTATTATGTCATAAAAATCAATATTAACT
664723 C
131 C
* * *
664724 GAGAGAAAACAATAATATCTGATTATTTCCAATCAAGAATAAATGACCTCTCATACCTTAAAGCA
1 GAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * *
664789 ATCATATATTACTCTAA-CAAAAATGAGGAGATATTACTATT
66 ATCATTTATTACTCAAATC-AAAATGAAGAGATATCACTATT
664830 TTCATTATAG
Statistics
Matches: 203, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
130 3 0.01
131 200 0.99
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.32
Consensus pattern (131 bp):
GAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
ATCATTTATTACTCAAATCAAAATGAAGAGATATCACTATTATGTCATAAAAATCAATATTAACT
C
Found at i:665110 original size:3 final size:3
Alignment explanation
Indices: 665090--665148 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
665080 TTTTCGTCCG
* *
665090 ATT ATTT ATT ATT GTT ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
*
665137 ATT TTT ATT ATT
1 ATT ATT ATT ATT
665149 TAGGCCCATT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 43 0.90
4 5 0.10
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:665146 original size:22 final size:22
Alignment explanation
Indices: 665105--665146 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
665095 TTATTATTGT
665105 TATTATTATTATTATTATTAAA
1 TATTATTATTATTATTATTAAA
*
665127 TATTATTATTATTTTTATTA
1 TATTATTATTATTATTATTA
665147 TTTAGGCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATTATTATTATTATTAAA
Found at i:673066 original size:54 final size:54
Alignment explanation
Indices: 672779--673071 Score: 388
Period size: 54 Copynumber: 5.4 Consensus size: 54
672769 CATGGTTCTT
* * * * *
672779 CACACATAGTGCCAATACGGTAATTCACAAACTCATTGTGAATTACTTAGGTTG
1 CACACATAGTGCCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTA
* ** * * * *
672833 CACACATAGTGCTGATATAGTAATTCACAAACTCATTGTGAATTACTTAGGTTT
1 CACACATAGTGCCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTA
* *
672887 CACACATAGTACCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTG
1 CACACATAGTGCCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTA
* * *
672941 CATACATAGTGCTGATAAGGTAATTCACAAACTCATTATGAATTACGTGGGTTA
1 CACACATAGTGCCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTA
* * * *
672995 CACACATAGCGCTGATACGATAATTCATAAACTCATTATGAATTACGTGGGTTA
1 CACACATAGTGCCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTA
*
673049 CACACATAGTACCGATACGGTAA
1 CACACATAGTGCCGATACGGTAA
673072 ATACAACATA
Statistics
Matches: 212, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 212 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (54 bp):
CACACATAGTGCCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTA
Found at i:681228 original size:22 final size:21
Alignment explanation
Indices: 681196--681236 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
681186 TCGGTCCATA
681196 ATAGAGTATCGATACCATGAT
1 ATAGAGTATCGATACCATGAT
681217 ATAGTAGTATCGATACCATG
1 ATAG-AGTATCGATACCATG
681237 GTGGGGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (21 bp):
ATAGAGTATCGATACCATGAT
Found at i:681676 original size:55 final size:54
Alignment explanation
Indices: 681617--681734 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
681607 ACACTAGGTA
* * * *
681617 TATGAATTTCTATATGAGTACT-TTGTGAGTAAAACTAAGAAATTCATACCAAGTT
1 TATGAATTTCTATATGAGCACTATT-TGAGT-AAACTAAAAAATCCATACCAAGTG
* * * *
681672 TATGAATTTCTGTATGAGCACTATTTGTGTGAACTAAAAAATCCATACTAAGTG
1 TATGAATTTCTATATGAGCACTATTTGAGTAAACTAAAAAATCCATACCAAGTG
681726 TATGAATTT
1 TATGAATTT
681735 TTGTATGGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 28 0.52
55 24 0.44
56 2 0.04
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (54 bp):
TATGAATTTCTATATGAGCACTATTTGAGTAAACTAAAAAATCCATACCAAGTG
Found at i:681731 original size:54 final size:55
Alignment explanation
Indices: 681591--681741 Score: 153
Period size: 55 Copynumber: 2.7 Consensus size: 55
681581 TAAGTGTGCA
* * * * *
681591 AAAACTTAAGAAATCCACACTAGGTATATGAATTTCTATATGAGTACTTTGTGAGT
1 AAAAC-TAAAAAATCCATACTAAGTATATGAATTTCTGTATGAGCACTTTGTGAGT
* * * * *
681647 AAAACTAAGAAATTCATACCAAGTTTATGAATTTCTGTATGAGCACTATT-TGTGT
1 AAAACTAAAAAATCCATACTAAGTATATGAATTTCTGTATGAGCACT-TTGTGAGT
* * *
681702 -GAACTAAAAAATCCATACTAAGTGTATGAATTTTTGTATG
1 AAAACTAAAAAATCCATACTAAGTATATGAATTTCTGTATG
681742 GGAAATATAT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 34 0.43
55 39 0.49
56 7 0.09
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (55 bp):
AAAACTAAAAAATCCATACTAAGTATATGAATTTCTGTATGAGCACTTTGTGAGT
Found at i:682173 original size:67 final size:67
Alignment explanation
Indices: 681899--682219 Score: 365
Period size: 67 Copynumber: 4.8 Consensus size: 67
681889 TAAAAGATTA
* * * * *
681899 TGAGGCCTAATTGTGCATTGACATAAAGGTGTCAATTGTGCCTGTTAGATGAAAGGATAAGTGCC
1 TGAGGCCTAACTGTGCATTGACAGAAATGTGTCAATTGTGCCAGTTAGATGAAAGGCTAAGTGCC
681964 TT
66 TT
* * * * * * * **
681966 TGAGGCTTATCTGTGCATTCACATACATGTGTCAATTATGCCAGTTATATGAAAACCTAAGTGCC
1 TGAGGCCTAACTGTGCATTGACAGAAATGTGTCAATTGTGCCAGTTAGATGAAAGGCTAAGTGCC
682031 TT
66 TT
* * * * *
682033 TGAGGCCTAATTGTGCATTGATAGAAAGGTGTCAATTGTGCGAGTTAGATGAAAGGCAAAGTGCC
1 TGAGGCCTAACTGTGCATTGACAGAAATGTGTCAATTGTGCCAGTTAGATGAAAGGCTAAGTGCC
682098 TT
66 TT
* * *
682100 TGAGGCCTAAATGTGCATTGATAGAAATGTGTCAATTGTTCCAGTTAGATGAAAGGCTAAGTGTC
1 TGAGGCCTAACTGTGCATTGACAGAAATGTGTCAATTGTGCCAGTTAGATGAAAGGCTAAGTG-C
682165 C-T
65 CTT
** * * * * *
682167 TGAGGCCTAACTGTATATTGAAAGAAATGTGTTAATTATGTCAGTTAAATGAA
1 TGAGGCCTAACTGTGCATTGACAGAAATGTGTCAATTGTGCCAGTTAGATGAA
682220 CGGTTAAAGA
Statistics
Matches: 213, Mismatches: 40, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
67 211 0.99
68 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (67 bp):
TGAGGCCTAACTGTGCATTGACAGAAATGTGTCAATTGTGCCAGTTAGATGAAAGGCTAAGTGCC
TT
Found at i:682325 original size:81 final size:81
Alignment explanation
Indices: 682189--682550 Score: 363
Period size: 81 Copynumber: 4.5 Consensus size: 81
682179 GTATATTGAA
* * * *
682189 AGAAATGTGTTAATTATG-TCAGTTAAATGAACGGTTAAAGACCATTGAA-TGAAAGATAAATGG
1 AGAAAGGTGTTAATTATGCT-AGTTAGATGAACGGTTAAAGACCGTT-AAGTAAAAGATAAATGG
682252 ACTAGCTGTGCATTTGGC
64 ACTAGCTGTGCATTTGGC
* * * * * ** * *
682270 AGAAAGGTGTTGATTATGCCAGTTAGATAAACGGTTATAGATCGTTTTGTAAAAGATAAACGAAC
1 AGAAAGGTGTTAATTATGCTAGTTAGATGAACGGTTAAAGACCGTTAAGTAAAAGATAAATGGAC
*
682335 TAGCTGTGTATTTGGC
66 TAGCTGTGCATTTGGC
* * * * *
682351 ATAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAAGACCATTGAGTGAAAGATAAATGG-C
1 AGAAAGGTGTTAATTATGCTAGTTAGATGAACGGTTAAAGACCGTTAAGTAAAAGATAAATGGAC
*
682415 TAGCTGTGCAATTGGC
66 TAGCTGTGCATTTGGC
* ** *
682431 ATG-AATGTGTTAATTATGCTAGTTAGATGAACTATTAAAGACCGTTAAGTAAAAGATAAATGGC
1 A-GAAAGGTGTTAATTATGCTAGTTAGATGAACGGTTAAAGACCGTTAAGTAAAAGATAAATGGA
** **
682495 CTAATTGTGCATTTCAC
65 CTAGCTGTGCATTTGGC
* * * ** *
682512 AGAAAAGTGTCAATCATGGAAGTTAGATGAAAGGTTAAA
1 AGAAAGGTGTTAATTATGCTAGTTAGATGAACGGTTAAA
682551 TGCCTTTGGA
Statistics
Matches: 226, Mismatches: 50, Indels: 10
0.79 0.17 0.03
Matches are distributed among these distances:
80 70 0.31
81 156 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (81 bp):
AGAAAGGTGTTAATTATGCTAGTTAGATGAACGGTTAAAGACCGTTAAGTAAAAGATAAATGGAC
TAGCTGTGCATTTGGC
Found at i:682524 original size:161 final size:161
Alignment explanation
Indices: 682189--682550 Score: 422
Period size: 161 Copynumber: 2.2 Consensus size: 161
682179 GTATATTGAA
* * *
682189 AGAAATGTGTTAATTATGTCAGTTAAATGAACGGTTAAAGACCATTGAATGAAAGATAAATGGAC
1 AGAAAAGTGTCAATTATGT-AGTTAGATGAACGGTTAAAGACCATTGAATGAAAGATAAATGGAC
* * * * * **
682254 TAGCTGTGCATTTGGCAGAAAGGTGTTGATTATGCCAGTTAGATAAACGGTTATAGATCGTTTTG
65 TAGCTGTGCAATTGGCAGAAAGGTGTTAATTATGCCAGTTAGATAAACGATTAAAGACCGTTAAG
* * **
682319 TAAAAGATAAACGAACTAGCTGTGTATTTGGC
130 TAAAAGATAAACGAACTAACTGTGCATTTCAC
* * *
682351 ATAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAAGACCATTGAGTGAAAGATAAATGG-C
1 AGAAAAGTGTCAATTATG-TAGTTAGATGAACGGTTAAAGACCATTGAATGAAAGATAAATGGAC
* * * *
682415 TAGCTGTGCAATTGGCATG-AATGTGTTAATTATGCTAGTTAGATGAACTATTAAAGACCGTTAA
65 TAGCTGTGCAATTGGCA-GAAAGGTGTTAATTATGCCAGTTAGATAAACGATTAAAGACCGTTAA
* ** *
682479 GTAAAAGATAAATGGCCTAATTGTGCATTTCAC
129 GTAAAAGATAAACGAACTAACTGTGCATTTCAC
* * *
682512 AGAAAAGTGTCAATCATGGAAGTTAGATGAAAGGTTAAA
1 AGAAAAGTGTCAATTAT-GTAGTTAGATGAACGGTTAAA
682551 TGCCTTTGGA
Statistics
Matches: 168, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
161 109 0.65
162 58 0.35
163 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (161 bp):
AGAAAAGTGTCAATTATGTAGTTAGATGAACGGTTAAAGACCATTGAATGAAAGATAAATGGACT
AGCTGTGCAATTGGCAGAAAGGTGTTAATTATGCCAGTTAGATAAACGATTAAAGACCGTTAAGT
AAAAGATAAACGAACTAACTGTGCATTTCAC
Found at i:682702 original size:45 final size:45
Alignment explanation
Indices: 682651--682793 Score: 223
Period size: 45 Copynumber: 3.2 Consensus size: 45
682641 TGTTCAACAA
*
682651 TGCATTATAGGCATGAAATGATGCCATAATTGAAATGCATATGGG
1 TGCATTATAGGCATGAAAAGATGCCATAATTGAAATGCATATGGG
* * **
682696 TGCATTATCGGGATGAAAAGATGCCATAATTGAAATGTGTATGGG
1 TGCATTATAGGCATGAAAAGATGCCATAATTGAAATGCATATGGG
* *
682741 TGCATTATAGGTATGAAAGGATGCCATAATTGAAATGCATATGGG
1 TGCATTATAGGCATGAAAAGATGCCATAATTGAAATGCATATGGG
682786 TGCATTAT
1 TGCATTAT
682794 CAGTATGAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 88 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (45 bp):
TGCATTATAGGCATGAAAAGATGCCATAATTGAAATGCATATGGG
Found at i:682764 original size:90 final size:90
Alignment explanation
Indices: 682651--682814 Score: 274
Period size: 90 Copynumber: 1.8 Consensus size: 90
682641 TGTTCAACAA
* *
682651 TGCATTATAGGCATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGGGATGAAAAG
1 TGCATTATAGGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCAGGATGAAAAG
682716 ATGCCATAATTGAAATGTGTATGGG
66 ATGCCATAATTGAAATGTGTATGGG
* * *
682741 TGCATTATAGGTATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCAGTATGAAAAT
1 TGCATTATAGGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCAGGATGAAAAG
*
682806 ATGCTATAA
66 ATGCCATAA
682815 ATAAAAAGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (90 bp):
TGCATTATAGGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCAGGATGAAAAG
ATGCCATAATTGAAATGTGTATGGG
Found at i:682800 original size:45 final size:45
Alignment explanation
Indices: 682663--682814 Score: 216
Period size: 45 Copynumber: 3.4 Consensus size: 45
682653 CATTATAGGC
* * *
682663 ATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGGG
1 ATGAAAAGATGCCATAATTGAAATGCATATGGGTGCATTATCAGT
**
682708 ATGAAAAGATGCCATAATTGAAATGTGTATGGGTGCATTAT-AGGT
1 ATGAAAAGATGCCATAATTGAAATGCATATGGGTGCATTATCA-GT
*
682753 ATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCAGT
1 ATGAAAAGATGCCATAATTGAAATGCATATGGGTGCATTATCAGT
* *
682798 ATGAAAATATGCTATAA
1 ATGAAAAGATGCCATAA
682815 ATAAAAAGAT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
45 93 0.99
46 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (45 bp):
ATGAAAAGATGCCATAATTGAAATGCATATGGGTGCATTATCAGT
Found at i:691270 original size:19 final size:19
Alignment explanation
Indices: 691230--691283 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
691220 TGCAAAAATG
*
691230 GTATCGGTACCATAATAGA
1 GTATCGATACCATAATAGA
691249 GTATCGATACCATAGTATAGTA
1 GTATCGATACCATA--ATAG-A
*
691271 GTATCCATACCAT
1 GTATCGATACCAT
691284 GGTGGGGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 13 0.43
21 4 0.13
22 13 0.43
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (19 bp):
GTATCGATACCATAATAGA
Found at i:691280 original size:22 final size:19
Alignment explanation
Indices: 691237--691283 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
691227 ATGGTATCGG
*
691237 TACCATAATAGAGTATCGA
1 TACCATAATAGAGTATCCA
691256 TACCATAGTATAGTAGTATCCA
1 TACCATA--ATAG-AGTATCCA
691278 TACCAT
1 TACCAT
691284 GGTGGGGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
21 4 0.17
22 13 0.54
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (19 bp):
TACCATAATAGAGTATCCA
Found at i:691722 original size:55 final size:55
Alignment explanation
Indices: 691639--691791 Score: 200
Period size: 55 Copynumber: 2.8 Consensus size: 55
691629 TAAGTGTGAA
* * * *
691639 AAAACTTAAGAAATCCATATTAGGTGTATGAATTTTTGTATGGGCACTTTGTGTAC
1 AAAAC-TAAGAAATCCATACTAAGTGTATGAATTTTTGTATGGGCACTATATGTAC
* * * *
691695 AAAACTAAGAAATTCATACTAACTGTATGAATTTTCGTATGGGCACTATATGTGC
1 AAAACTAAGAAATCCATACTAAGTGTATGAATTTTTGTATGGGCACTATATGTAC
* *
691750 -GAACTAAGAAATCCATACTAAGTGTATGAATTTATGTATGGG
1 AAAACTAAGAAATCCATACTAAGTGTATGAATTTTTGTATGGG
691792 AAAAATATGT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 37 0.44
55 42 0.50
56 5 0.06
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (55 bp):
AAAACTAAGAAATCCATACTAAGTGTATGAATTTTTGTATGGGCACTATATGTAC
Found at i:691802 original size:54 final size:54
Alignment explanation
Indices: 691639--691791 Score: 191
Period size: 54 Copynumber: 2.8 Consensus size: 54
691629 TAAGTGTGAA
* * * * *
691639 AAAACTTAAGAAATCCATATTAGGTGTATGAATTTTTGTATGGGCACTTTGTGTAC
1 AAAAC-TAAGAAATCCATACTAAGTGTATGAA-TTTTGTATGGGCACTATATGTGC
* *
691695 AAAACTAAGAAATTCATACTAACTGTATGAATTTTCGTATGGGCACTATATGTGC
1 AAAACTAAGAAATCCATACTAAGTGTATGAATTTT-GTATGGGCACTATATGTGC
*
691750 -GAACTAAGAAATCCATACTAAGTGTATGAATTTATGTATGGG
1 AAAACTAAGAAATCCATACTAAGTGTATGAATTT-TGTATGGG
691792 AAAAATATGT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
54 41 0.48
55 39 0.46
56 5 0.06
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (54 bp):
AAAACTAAGAAATCCATACTAAGTGTATGAATTTTGTATGGGCACTATATGTGC
Found at i:692109 original size:67 final size:67
Alignment explanation
Indices: 692001--692254 Score: 359
Period size: 67 Copynumber: 3.8 Consensus size: 67
691991 TAAAAGATTA
692001 TGAGGCCTAACTGTGCATTGAGAGAAAGGTATCAATTGTGGCAGTTAGATGAAAGGCTAAGTGCC
1 TGAGGCCTAACTGTGCATTGAGAGAAAGGTATCAATTGTGGCAGTTAGATGAAAGGCTAAGTGCC
692066 TT
66 TT
*
692068 TGAGGCCTAACTGTGCATTGAGAGAAAGGTATCAATTGTGGCAGTTAGATGAAAGGTTAAGTGCC
1 TGAGGCCTAACTGTGCATTGAGAGAAAGGTATCAATTGTGGCAGTTAGATGAAAGGCTAAGTGCC
692133 TT
66 TT
* * * * * * *
692135 TGAGGCCTAACTAT-CTATTGACAAAAAGGTGTCAATTGTGCCAATTAGATGAAACGCTAAGTGC
1 TGAGGCCTAACTGTGC-ATTGAGAGAAAGGTATCAATTGTGGCAGTTAGATGAAAGGCTAAGTGC
692199 CTT
65 CTT
* * * * *
692202 TGAGGCCTAACTGTGCATTG-GCATAAAGGTTTCAATTATCGCAGGTAGATGAA
1 TGAGGCCTAACTGTGCATTGAG-AGAAAGGTATCAATTGTGGCAGTTAGATGAA
692255 CGGTTAAAGA
Statistics
Matches: 166, Mismatches: 18, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
66 1 0.01
67 164 0.99
68 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (67 bp):
TGAGGCCTAACTGTGCATTGAGAGAAAGGTATCAATTGTGGCAGTTAGATGAAAGGCTAAGTGCC
TT
Found at i:692339 original size:81 final size:81
Alignment explanation
Indices: 692205--692544 Score: 400
Period size: 81 Copynumber: 4.2 Consensus size: 81
692195 GTGCCTTTGA
* * * * * *
692205 GGCCTAACTGTGCA-TTGGCATAAAGGTTTCAATTAT-CGCAGGTAGATGAACGGTTAAAGATCA
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTTTCAATTATGC-CAGTTAGATGAACGATTAAAGACCG
*
692268 TTGAGTAAAAGATAAAT
65 TTAAGTAAAAGATAAAT
* *
692285 GGCCTAGCTGTGCATTTGGAAGAAAGGTTTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTTTCAATTATGCCAGTTAGATGAACGATTAAAGACCGT
692350 TAAGTAAAAGATAAAT
66 TAAGTAAAAGATAAAT
* * * *
692366 -GCATTAGTTGTGCATTTGGCAGAAAGGTTTCAATTATGCCAGTTAGATGAACGATTAAACATCG
1 GGC-CTAGCTGTGCATTTGGCAGAAAGGTTTCAATTATGCCAGTTAGATGAACGATTAAAGACCG
*
692430 TTGAGTAAAAGATAAAT
65 TTAAGTAAAAGATAAAT
* * * * * * * * *
692447 GGCCTAGCTGTGCAATTGGTAGAAATGTGTT-ATTTTTTCTAGATAGATGAACAATTAAAGACCG
1 GGCCTAGCTGTGCATTTGGCAGAAAGGT-TTCAATTATGCCAGTTAGATGAACGATTAAAGACCG
692511 TTAAGTAAAAGATAAAT
65 TTAAGTAAAAGATAAAT
**
692528 GGCCTAATTGTGCATTT
1 GGCCTAGCTGTGCATTT
692545 CACAGAAAAA
Statistics
Matches: 224, Mismatches: 31, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
80 15 0.07
81 204 0.91
82 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGGCAGAAAGGTTTCAATTATGCCAGTTAGATGAACGATTAAAGACCGT
TAAGTAAAAGATAAAT
Found at i:692541 original size:162 final size:162
Alignment explanation
Indices: 692205--692544 Score: 463
Period size: 162 Copynumber: 2.1 Consensus size: 162
692195 GTGCCTTTGA
* * * *
692205 GGCCTAACTGTGCA-TTGGCATAAAGGTTTCAATTATCGCAGGTAGATGAACGGTTAAAGATCAT
1 GGCCTAATTGTGCATTTGGCAGAAAGGTTTCAATTATCGCAGGTAGATGAACGATTAAACATCAT
* *
692269 TGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGAAGAAAGGTTTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGATAAATGGCCTAGCTGTGCAATTGGAAGAAAGGTTTCAATTATGCCAGATAGATG
**
692334 AACGGTTAAAGACCGTTAAGTAAAAGATAAAT
131 AACAATTAAAGACCGTTAAGTAAAAGATAAAT
* * *
692366 -GCATTAGTTGTGCATTTGGCAGAAAGGTTTCAATTAT-GCCAGTTAGATGAACGATTAAACATC
1 GGC-CTAATTGTGCATTTGGCAGAAAGGTTTCAATTATCG-CAGGTAGATGAACGATTAAACATC
* * * * * * *
692429 GTTGAGTAAAAGATAAATGGCCTAGCTGTGCAATTGGTAGAAATGTGTT-ATTTTTTCTAGATAG
64 ATTGAGTAAAAGATAAATGGCCTAGCTGTGCAATTGGAAGAAAGGT-TTCAATTATGCCAGATAG
692493 ATGAACAATTAAAGACCGTTAAGTAAAAGATAAAT
128 ATGAACAATTAAAGACCGTTAAGTAAAAGATAAAT
692528 GGCCTAATTGTGCATTT
1 GGCCTAATTGTGCATTT
692545 CACAGAAAAA
Statistics
Matches: 154, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
160 2 0.01
161 9 0.06
162 139 0.90
163 4 0.03
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (162 bp):
GGCCTAATTGTGCATTTGGCAGAAAGGTTTCAATTATCGCAGGTAGATGAACGATTAAACATCAT
TGAGTAAAAGATAAATGGCCTAGCTGTGCAATTGGAAGAAAGGTTTCAATTATGCCAGATAGATG
AACAATTAAAGACCGTTAAGTAAAAGATAAAT
Found at i:692576 original size:162 final size:162
Alignment explanation
Indices: 692247--692578 Score: 427
Period size: 162 Copynumber: 2.0 Consensus size: 162
692237 TTATCGCAGG
* * *
692247 TAGATGAACGGTTAAAGATCATTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGAAGAAAGG
1 TAGATGAACGATTAAACATCATTGAGTAAAAGATAAATGGCCTAGCTGTGCAATTGGAAGAAAGG
* ** * *
692312 TTTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTAAGTAAAAGATAAATGCATTAGTTGT
66 TTTCAATTATGCCAGATAGATGAACAATTAAAGACCGTTAAGTAAAAGATAAATGCACTAATTGT
** ** * *
692377 GCATTTGGCAGAAAGGTTTCAATTATGCCAGT
131 GCATTTCACAGAAAAATGTCAATCATGCCAGT
* * *
692409 TAGATGAACGATTAAACATCGTTGAGTAAAAGATAAATGGCCTAGCTGTGCAATTGGTAGAAATG
1 TAGATGAACGATTAAACATCATTGAGTAAAAGATAAATGGCCTAGCTGTGCAATTGGAAGAAAGG
* * * *
692474 TGTT-ATTTTTTCTAGATAGATGAACAATTAAAGACCGTTAAGTAAAAGATAAATGGC-CTAATT
66 T-TTCAATTATGCCAGATAGATGAACAATTAAAGACCGTTAAGTAAAAGATAAAT-GCACTAATT
692537 GTGCATTTCACAGAAAAATGTCAATCATG-CAGAT
129 GTGCATTTCACAGAAAAATGTCAATCATGCCAG-T
692571 TAGATGAA
1 TAGATGAA
692579 AGGTTAAATG
Statistics
Matches: 146, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
161 3 0.02
162 139 0.95
163 4 0.03
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (162 bp):
TAGATGAACGATTAAACATCATTGAGTAAAAGATAAATGGCCTAGCTGTGCAATTGGAAGAAAGG
TTTCAATTATGCCAGATAGATGAACAATTAAAGACCGTTAAGTAAAAGATAAATGCACTAATTGT
GCATTTCACAGAAAAATGTCAATCATGCCAGT
Found at i:692586 original size:81 final size:81
Alignment explanation
Indices: 692205--692586 Score: 369
Period size: 81 Copynumber: 4.7 Consensus size: 81
692195 GTGCCTTTGA
* * * * * * *
692205 GGCCTAACTGTGCA-TTGGCATAAAGGTTTCAATTAT-CGCAGGTAGATGAACGGTTAAAGATCA
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC-CAGTTAGATGAACGGTTAAAGACCG
*
692268 TTGAGTAAAAGATAAAT
65 TTAAGTAAAAGATAAAT
*
692285 GGCCTAGCTGTGCATTTGGA-AGAAAGGTTTCAATTATGCCAGTTAGATGAACGGTTAAAGACCG
1 GGCCTAGCTGTGCATTT-GACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCG
692349 TTAAGTAAAAGATAAAT
65 TTAAGTAAAAGATAAAT
* * * * * * *
692366 -GCATTAGTTGTGCATTTGGCAGAAAGGTTTCAATTATGCCAGTTAGATGAACGATTAAACATCG
1 GGC-CTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCG
*
692430 TTGAGTAAAAGATAAAT
65 TTAAGTAAAAGATAAAT
* ** * * * * * * * **
692447 GGCCTAGCTGTGCAATTGGTAGAAATGTGTTATTTTTTCTAGATAGATGAACAATTAAAGACCGT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
692512 TAAGTAAAAGATAAAT
66 TAAGTAAAAGATAAAT
** * ** * *
692528 GGCCTAATTGTGCATTTCACAGAAAAATGTCAATCATG-CAGATTAGATGAAAGGTTAAA
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAG-TTAGATGAACGGTTAAA
692587 TGCCTTTGGG
Statistics
Matches: 247, Mismatches: 48, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
80 18 0.07
81 225 0.91
82 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.29
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
TAAGTAAAAGATAAAT
Found at i:692747 original size:45 final size:45
Alignment explanation
Indices: 692686--692883 Score: 279
Period size: 45 Copynumber: 4.4 Consensus size: 45
692676 TGTATAACAA
* * * *
692686 TGCATTATAGGCATGAAAGGATTCCATAGTTGAAATGCATATGGG
1 TGCATTATCGGTATGAAAGGATGCCATAATTGAAATGCATATGGG
* * *
692731 TGCAATATCGGTATGAAATGATGCCATAATTGAAATACATATGGG
1 TGCATTATCGGTATGAAAGGATGCCATAATTGAAATGCATATGGG
** **
692776 TGCATTATCGACATGAAAGGATGCCATAATTGAAATGCATATGAA
1 TGCATTATCGGTATGAAAGGATGCCATAATTGAAATGCATATGGG
* *
692821 TGCATTATAGGTATGAAAGGATGCAATAATTGAAATGCATATGGG
1 TGCATTATCGGTATGAAAGGATGCCATAATTGAAATGCATATGGG
692866 TGCATTATCGGTATGAAA
1 TGCATTATCGGTATGAAA
692884 ATATGCTATA
Statistics
Matches: 132, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 132 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (45 bp):
TGCATTATCGGTATGAAAGGATGCCATAATTGAAATGCATATGGG
Found at i:692882 original size:90 final size:89
Alignment explanation
Indices: 692686--692920 Score: 290
Period size: 90 Copynumber: 2.6 Consensus size: 89
692676 TGTATAACAA
* * * * * * *
692686 TGCATTATAGGCATGAAAGGATTCCATAGTTGAAATGCATATGGGTGCAATATCGGTATGAAATG
1 TGCATTATCGGCATGAAAGGATGCCATAATTGAAATGCATAT-GATGCATTATAGGTATGAAAGG
*
692751 ATGCCATAATTGAAATACATATGGG
65 ATGCAATAATTGAAATACATATGGG
*
692776 TGCATTATCGACATGAAAGGATGCCATAATTGAAATGCATATGAATGCATTATAGGTATGAAAGG
1 TGCATTATCGGCATGAAAGGATGCCATAATTGAAATGCATATG-ATGCATTATAGGTATGAAAGG
*
692841 ATGCAATAATTGAAATGCATATGGG
65 ATGCAATAATTGAAATACATATGGG
* ** * * *
692866 TGCATTATCGGTATGAAAATATGCTATAAATGAAAAGGCATAATGATGCATTATA
1 TGCATTATCGGCATGAAAGGATGCCATAATTG-AAATGCAT-ATGATGCATTATA
692921 AATATTAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
89 1 0.01
90 104 0.83
91 17 0.14
92 3 0.02
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (89 bp):
TGCATTATCGGCATGAAAGGATGCCATAATTGAAATGCATATGATGCATTATAGGTATGAAAGGA
TGCAATAATTGAAATACATATGGG
Found at i:694809 original size:54 final size:55
Alignment explanation
Indices: 694655--694821 Score: 196
Period size: 55 Copynumber: 3.0 Consensus size: 55
694645 TTACCAAATA
* * *
694655 GCACTAAGTGTACAAAAACATAAGAAATCCATTCTATGTGTATGAATTTCTGTATGG
1 GCACTATGTGTGC-AAAAC-TAAGAAATCCATACTATGTGTATGAATTTCTGTATGG
* * * *
694712 GCACTTTGTGTTCAAAACTAAGAAATTCATACCATGTGTATGAATTTCCT-TATGG
1 GCACTATGTGTGCAAAACTAAGAAATCCATACTATGTGTATGAATTT-CTGTATGG
* *
694767 GCACTATGTGTGC-GAACTAATAAATCCATACTAAT-TGTATGAATTTCTGTATGG
1 GCACTATGTGTGCAAAACTAAGAAATCCATACT-ATGTGTATGAATTTCTGTATGG
694821 G
1 G
694822 AAATATATGT
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.02
54 32 0.34
55 44 0.46
56 7 0.07
57 10 0.11
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (55 bp):
GCACTATGTGTGCAAAACTAAGAAATCCATACTATGTGTATGAATTTCTGTATGG
Found at i:695140 original size:67 final size:67
Alignment explanation
Indices: 695032--695481 Score: 572
Period size: 67 Copynumber: 6.8 Consensus size: 67
695022 AAAATATTAC
*
695032 GAGGCCTAACTGTGCATTGACAGAAAGGTGTT-AATTGTGCCAGTTAGATGAAAGGCTAAGCACC
1 GAGGCCTAACTGTGCATTGACAGAAAGGT-TTCAATTGTGCCAGTTAGATGAAAGGCTAAGTACC
*
695096 TTA
65 TTT
* * *
695099 GAGGCCTAACTCTGCATTAACAGAAAGGTTTCAATTGTGCCAGTTAGATGAAAGGCTAAGTTCCT
1 GAGGCCTAACTGTGCATTGACAGAAAGGTTTCAATTGTGCCAGTTAGATGAAAGGCTAAGTACCT
695164 TT
66 TT
* * * *
695166 GAGGCCTAATTATGCATTGACAGAAAGGTGTT-AATTGTGCCAGTTAAATGAAAGGCTAAGTGCC
1 GAGGCCTAACTGTGCATTGACAGAAAGGT-TTCAATTGTGCCAGTTAGATGAAAGGCTAAGTACC
695230 TTT
65 TTT
* * * * *
695233 GAGGCCTAACTGTGCATTTATAGAAAGGTGTCAATTGTGCTAGTTAGATGAAAGGCTAAGTGCCT
1 GAGGCCTAACTGTGCATTGACAGAAAGGTTTCAATTGTGCCAGTTAGATGAAAGGCTAAGTACCT
695298 TT
66 TT
* * * * *
695300 GAGGCCTAACTGTTCATTGAAAGAAAGGTGTCAATTGTGTCAGTTAAATGAAAGGCTAAGTACCT
1 GAGGCCTAACTGTGCATTGACAGAAAGGTTTCAATTGTGCCAGTTAGATGAAAGGCTAAGTACCT
695365 TT
66 TT
* * * *
695367 GAGGCCTAACTGTGCATTTACAGAAAGGTGTCAATTGTGCCTGTTAGAT---A-GCTAAGTTCCT
1 GAGGCCTAACTGTGCATTGACAGAAAGGTTTCAATTGTGCCAGTTAGATGAAAGGCTAAGTACCT
695428 TT
66 TT
* * * * *
695430 GAGGCTTAACTCTGGATTGACAGAAAGGTGTT-AATTATGCCAATTAGATGAA
1 GAGGCCTAACTGTGCATTGACAGAAAGGT-TTCAATTGTGCCAGTTAGATGAA
695482 TGGTTAAAGA
Statistics
Matches: 337, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
63 51 0.15
64 2 0.01
66 3 0.01
67 279 0.83
68 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (67 bp):
GAGGCCTAACTGTGCATTGACAGAAAGGTTTCAATTGTGCCAGTTAGATGAAAGGCTAAGTACCT
TT
Found at i:695272 original size:134 final size:134
Alignment explanation
Indices: 695032--695481 Score: 665
Period size: 134 Copynumber: 3.4 Consensus size: 134
695022 AAAATATTAC
* *
695032 GAGGCCTAACTGTGCATTGACAGAAAGGTGTTAATTGTGCCAGTTAGATGAAAGGCTAAGCACCT
1 GAGGCCTAACTGTGCATTGACAGAAAGGTGTTAATTGTGCCAGTTAAATGAAAGGCTAAGTACCT
* * * *
695097 TAGAGGCCTAACTCTGCATTAACAGAAAGGTTTCAATTGTGCCAGTTAGATGAAAGGCTAAGTTC
66 TTGAGGCCTAACTGTGCATTTACAGAAAGGTGTCAATTGTGCCAGTTAGATGAAAGGCTAAGTTC
695162 CTTT
131 CTTT
* * *
695166 GAGGCCTAATTATGCATTGACAGAAAGGTGTTAATTGTGCCAGTTAAATGAAAGGCTAAGTGCCT
1 GAGGCCTAACTGTGCATTGACAGAAAGGTGTTAATTGTGCCAGTTAAATGAAAGGCTAAGTACCT
* * *
695231 TTGAGGCCTAACTGTGCATTTATAGAAAGGTGTCAATTGTGCTAGTTAGATGAAAGGCTAAGTGC
66 TTGAGGCCTAACTGTGCATTTACAGAAAGGTGTCAATTGTGCCAGTTAGATGAAAGGCTAAGTTC
695296 CTTT
131 CTTT
* * * *
695300 GAGGCCTAACTGTTCATTGAAAGAAAGGTGTCAATTGTGTCAGTTAAATGAAAGGCTAAGTACCT
1 GAGGCCTAACTGTGCATTGACAGAAAGGTGTTAATTGTGCCAGTTAAATGAAAGGCTAAGTACCT
*
695365 TTGAGGCCTAACTGTGCATTTACAGAAAGGTGTCAATTGTGCCTGTTAGAT---A-GCTAAGTTC
66 TTGAGGCCTAACTGTGCATTTACAGAAAGGTGTCAATTGTGCCAGTTAGATGAAAGGCTAAGTTC
695426 CTTT
131 CTTT
* * * * * *
695430 GAGGCTTAACTCTGGATTGACAGAAAGGTGTTAATTATGCCAATTAGATGAA
1 GAGGCCTAACTGTGCATTGACAGAAAGGTGTTAATTGTGCCAGTTAAATGAA
695482 TGGTTAAAGA
Statistics
Matches: 283, Mismatches: 33, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
130 54 0.19
131 1 0.00
134 228 0.81
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (134 bp):
GAGGCCTAACTGTGCATTGACAGAAAGGTGTTAATTGTGCCAGTTAAATGAAAGGCTAAGTACCT
TTGAGGCCTAACTGTGCATTTACAGAAAGGTGTCAATTGTGCCAGTTAGATGAAAGGCTAAGTTC
CTTT
Found at i:695591 original size:81 final size:81
Alignment explanation
Indices: 695450--695812 Score: 460
Period size: 81 Copynumber: 4.5 Consensus size: 81
695440 TCTGGATTGA
* * *
695450 CAGAAAGGTGTTAATTATGCCAATTAGATGAATGGTTAAAGACCATTGAGTAAAAGATAAATGGC
1 CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAATGGC
695515 CTAGCTGTGCATTTGG
66 CTAGCTGTGCATTTGG
* * * *
695531 TAGAATGGTGTCAATTATACCAGTTAGAT-AAAGAGTTAAAGACCATTGAGTAAAAGATAAATGG
1 CAGAAAGGTGTCAATTATGCCAGTTAGATGAACG-GTTAAAGACCATTGAGTAAAAGATAAATGG
* **
695595 ACTAGCTGTGCATTTCA
65 CCTAGCTGTGCATTTGG
* * * *
695612 CAGAAAAGTGTCAATTATGCCAGTTAAATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATTGC
1 CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAATGGC
* *
695677 CTAGCTGTGCAATAGG
66 CTAGCTGTGCATTTGG
* * * *
695693 CAAAAAGGTGCCAA-TATGCCAGTTAGATGAACGGTTAAAGACCGTTAAGTAAAAGATAAATGGC
1 CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAATGGC
*
695757 CTAACTGTGCATTTGG
66 CTAGCTGTGCATTTGG
* * * * * *
695773 CATAAAAGTGCCAATCATGCAAGTTAGATGAAAGGTTAAA
1 CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
695813 TGACTTTGGG
Statistics
Matches: 243, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
80 75 0.31
81 165 0.68
82 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (81 bp):
CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAATGGC
CTAGCTGTGCATTTGG
Found at i:695782 original size:161 final size:162
Alignment explanation
Indices: 695449--695812 Score: 471
Period size: 161 Copynumber: 2.3 Consensus size: 162
695439 CTCTGGATTG
* * * *
695449 ACAGAAAGGTGTTAATTATGCCAATTAGATGAATGGTTAAAGACCATTGAGTAAAAGATAAATGG
1 ACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAGACCATTGAGTAAAAGATAAATGG
* * * * * * *
695514 CCTAGCTGTGCATTTGGTAGAATGGTGTCAATTATACCAGTTAGATAAAGAGTTAAAGACCATTG
66 CCTAGCTGTGCAATAGGCAAAAAGGTGCCAATTATACCAGTTAGATAAAGAGTTAAAGACCATTA
*
695579 AGTAAAAGATAAATGGACTAGCTGTGCATTTC
131 AGTAAAAGATAAATGGACTAACTGTGCATTTC
* * * *
695611 ACAGAAAAGTGTCAATTATGCCAGTTAAATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATTG
1 ACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAGACCATTGAGTAAAAGATAAATGG
* * *
695676 CCTAGCTGTGCAATAGGCAAAAAGGTGCCAA-TATGCCAGTTAGATGAACG-GTTAAAGACCGTT
66 CCTAGCTGTGCAATAGGCAAAAAGGTGCCAATTATACCAGTTAGAT-AAAGAGTTAAAGACCATT
* *
695739 AAGTAAAAGATAAATGGCCTAACTGTGCATTTG
130 AAGTAAAAGATAAATGGACTAACTGTGCATTTC
* * * * *
695772 GCATAAAAGTGCCAATCATGCAAGTTAGATGAAAGGTTAAA
1 ACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGTTAAA
695813 TGACTTTGGG
Statistics
Matches: 174, Mismatches: 27, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
161 88 0.51
162 86 0.49
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (162 bp):
ACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAGACCATTGAGTAAAAGATAAATGG
CCTAGCTGTGCAATAGGCAAAAAGGTGCCAATTATACCAGTTAGATAAAGAGTTAAAGACCATTA
AGTAAAAGATAAATGGACTAACTGTGCATTTC
Found at i:696033 original size:90 final size:90
Alignment explanation
Indices: 695913--696161 Score: 247
Period size: 90 Copynumber: 2.8 Consensus size: 90
695903 TGTACAACAA
* * *
695913 TGTATTAT-AGCATGAAATGATGTCATAATTGAAATGCATATGGGTGCATTA-ACGGCT-TGAAA
1 TGTATTATCGGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATA-GG-TATGAAA
** * *
695975 GGATGCTTTAATTGAAATGCATATAGG
64 GGATGCCATAATTAAAATGAATATAGG
* *
696002 TGTATTATCGGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGTATTATATGTATGAAAGG
1 TGTATTATCGGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATAGGTATGAAAGG
*
696067 ATGCCATAATTAAAATGAATATGGG
66 ATGCCATAATTAAAATGAATATAGG
* * * * * * **
696092 TGCATTATCGGTATGAAAAGG-TGCTATAAATGAAAAGGCATAAT-GATGCATTATAAATATGAA
1 TGTATTATCGGCATG-AAAGGATGCCATAATTG-AAATGCAT-ATGGGTGCATTATAGGTATGAA
*
696155 TGGATGC
63 AGGATGC
696162 TATCAATGAA
Statistics
Matches: 134, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
89 9 0.07
90 89 0.66
91 34 0.25
92 2 0.01
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (90 bp):
TGTATTATCGGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATAGGTATGAAAGG
ATGCCATAATTAAAATGAATATAGG
Found at i:696099 original size:45 final size:45
Alignment explanation
Indices: 695916--696161 Score: 223
Period size: 45 Copynumber: 5.5 Consensus size: 45
695906 ACAACAATGT
* * *
695916 ATTATA-GCATGAAATGATGTCATAATTGAAATGCATATGGGTGC
1 ATTATAGGTATGAAAGGATGCCATAATTGAAATGCATATGGGTGC
** * *
695960 ATTA-ACGGCT-TGAAAGGATGCTTTAATTGAAATGCATATAGGTGT
1 ATTATA-GG-TATGAAAGGATGCCATAATTGAAATGCATATGGGTGC
* * *
696005 ATTATCGGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGT
1 ATTATAGGTATGAAAGGATGCCATAATTGAAATGCATATGGGTGC
* * *
696050 ATTATATGTATGAAAGGATGCCATAATTAAAATGAATATGGGTGC
1 ATTATAGGTATGAAAGGATGCCATAATTGAAATGCATATGGGTGC
* * * * *
696095 ATTATCGGTATGAAAAGG-TGCTATAAATGAAAAGGCATAAT-GATGC
1 ATTATAGGTATG-AAAGGATGCCATAATTG-AAATGCAT-ATGGGTGC
** *
696141 ATTATAAATATGAATGGATGC
1 ATTATAGGTATGAAAGGATGC
696162 TATCAATGAA
Statistics
Matches: 163, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
43 1 0.01
44 4 0.02
45 129 0.79
46 27 0.17
47 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (45 bp):
ATTATAGGTATGAAAGGATGCCATAATTGAAATGCATATGGGTGC
Found at i:697390 original size:2 final size:2
Alignment explanation
Indices: 697383--697413 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
697373 CGTCAGAACG
697383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
697414 GCTTTTATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:714019 original size:10 final size:10
Alignment explanation
Indices: 714004--714043 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
713994 TACGCCTAAG
714004 AAAAAGAAAA
1 AAAAAGAAAA
714014 AAAAAGAAAA
1 AAAAAGAAAA
714024 AAGAAA-AAAA
1 AA-AAAGAAAA
*
714034 GAAAAGAAAA
1 AAAAAGAAAA
714044 TAAGGGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:714023 original size:8 final size:8
Alignment explanation
Indices: 714001--714038 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
713991 TATTACGCCT
714001 AAGAAAAA
1 AAGAAAAA
714009 GAA-AAAAA
1 -AAGAAAAA
714017 AAG-AAAA
1 AAGAAAAA
714024 AAGAAAAA
1 AAGAAAAA
714032 AAGAAAA
1 AAGAAAA
714039 GAAAATAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 9 0.33
8 16 0.59
9 2 0.07
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:715366 original size:139 final size:139
Alignment explanation
Indices: 715090--715740 Score: 835
Period size: 139 Copynumber: 4.7 Consensus size: 139
715080 GGATAAACCA
* ** *
715090 ATCAACATTTCCTA-TGGAAGTGTTCATAATGAGAAGAACTCATCTAATGAGGGATAAGAAGTTC
1 ATCAACATTTCC-AGTGG-AGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTC
* * * * * * * *
715154 ATAATGAGAAAAAGTTGTTCAACCTT-GACTTGATTAATTACATATAGACTTGAAACAGCAACAC
64 ATAATGAGAAGAACTTGTTCAACCTTAG-CTCGATTCATTGCATATAGAGTTGAATCAGCGACAC
*
715218 CTCATTCGAGGG
128 CTCACTCGAGGG
*
715230 ATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * *
715295 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATTGCATATGGAGTTTAATCAACGACACCTT
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATTGCATATAGAGTTGAATCAGCGACACCTC
715360 ACTCGAGGG
131 ACTCGAGGG
* * * *
715369 ATCAACATTTCTAGTAGAGAGTTCATAATGACAAGAACTCATCCGATGAGGGAGAATAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * *
715434 AATGAGAAGAACTTATT-ACACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCT
66 AATGAGAAGAACTTGTTCA-ACCTTAGCTCGATTCATTGCATATAGAGTTGAATCAGCGACACCT
*
715498 CACTTGAGGG
130 CACTCGAGGG
* ** * * * * * *
715508 ATCAATATTTCTGGTGGATAGTTCATCATGAGAAAAACTCATCCGATAAGAGAGAAGAATTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * *
715573 AATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATTGCATATAAAATTGAATCAGTGACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATTGCATATAGAGTTGAATCAGCGACACCTC
*
715638 GCTCGAGGG
131 ACTCGAGGG
*
715647 ATTAACATTTCCAG-GAGAGAGTTCATAATGAGAAGAACTCATCCGATGA-GGAGAAGAAGTTCA
1 ATCAACATTTCCAGTG-GAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
*
715710 TAATGAGAAGAACTTATTCAACCTTAGCTCG
65 TAATGAGAAGAACTTGTTCAACCTTAGCTCG
715741 TTTCCATCAT
Statistics
Matches: 445, Mismatches: 61, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
138 43 0.10
139 386 0.87
140 16 0.04
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (139 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATTGCATATAGAGTTGAATCAGCGACACCTC
ACTCGAGGG
Found at i:717118 original size:109 final size:109
Alignment explanation
Indices: 716863--717124 Score: 296
Period size: 109 Copynumber: 2.4 Consensus size: 109
716853 TAACGCATAG
* * * * **
716863 GTCCCCCTGAGTTTAGCATGTTTTTACATTTTGGTCACCTGTAGGGATCAAATCTGGTATTTCCC
1 GTCCCTCTGAGTTTAGCATGTTTTTGCATTTTAGTCATCTGTAGGGATCAAAAATGGTATTTCCC
*
716928 CTTTTATATGCATGTTATGTAATTATTGGTTTATTCATTGTTTA
66 CTTTTATATGCATGTTATGTAATTATTGGCTTATTCATTGTTTA
* ** * * *
716972 GTCCCTCTAAGTTTAGCACATTTTTGCATTCTAGTCATCTGT-GAGGA-CTAAAAATGTTATTTT
1 GTCCCTCTGAGTTTAGCATGTTTTTGCATTTTAGTCATCTGTAG-GGATC-AAAAATGGTATTTC
* * **
717035 CCCTTTTCCT-TGCATGTTATGTAATTATTTGCTTATTTGTTGTTTA
64 CCCTTTT-ATATGCATGTTATGTAATTATTGGCTTATTCATTGTTTA
* * *
717081 GTCCCTCTGTGTTTAGCATGTTTTTGCATTTTTGTCATATGTAG
1 GTCCCTCTGAGTTTAGCATGTTTTTGCATTTTAGTCATCTGTAG
717125 TGATTGCTTA
Statistics
Matches: 125, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
108 2 0.02
109 121 0.97
110 2 0.02
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.47
Consensus pattern (109 bp):
GTCCCTCTGAGTTTAGCATGTTTTTGCATTTTAGTCATCTGTAGGGATCAAAAATGGTATTTCCC
CTTTTATATGCATGTTATGTAATTATTGGCTTATTCATTGTTTA
Found at i:725128 original size:52 final size:52
Alignment explanation
Indices: 725049--725343 Score: 353
Period size: 52 Copynumber: 5.7 Consensus size: 52
725039 TTTAACATTA
* * * *
725049 CATCTAACTTGCATTATTGGTACCTTTATACCAAATGCACAATTAGACTTTT
1 CATCTAACTTGCATTATTGGTACCTTTATGCCAAATGCACAGTTAGGCCTTT
* * * **
725101 TATCTAACTTTCATTACTGGTACCTTTATGCCAAATGCACAGTTAGGCCAAT
1 CATCTAACTTGCATTATTGGTACCTTTATGCCAAATGCACAGTTAGGCCTTT
* *
725153 CATCTAACTTACATTATTGGCACCTTTATGCCAAATAG-ACAGTTAGGCCTTT
1 CATCTAACTTGCATTATTGGTACCTTTATGCCAAAT-GCACAGTTAGGCCTTT
* * * * *
725205 CATCTAACTTGAATTATTGGAACCTTTCTTCCAAATGCACACTTAGGCCTTT
1 CATCTAACTTGCATTATTGGTACCTTTATGCCAAATGCACAGTTAGGCCTTT
** * *
725257 CATCTAACTTG-ATTTATTGACATCTTTATGCCAAATGCACGGTTAGGCCTTT
1 CATCTAACTTGCA-TTATTGGTACCTTTATGCCAAATGCACAGTTAGGCCTTT
**
725309 CATCTAACTTGCATTATTGACACCTTTATG-CAAAT
1 CATCTAACTTGCATTATTGGTACCTTTATGCCAAAT
725344 ATGCATAATT
Statistics
Matches: 210, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
51 7 0.03
52 201 0.96
53 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (52 bp):
CATCTAACTTGCATTATTGGTACCTTTATGCCAAATGCACAGTTAGGCCTTT
Found at i:725239 original size:156 final size:155
Alignment explanation
Indices: 725049--725344 Score: 405
Period size: 156 Copynumber: 1.9 Consensus size: 155
725039 TTTAACATTA
* * * *
725049 CATCTAACTTGCATTATTGGTACCTTTATACCAAATGCACAATTAGACTTTTTATCTAACTTTCA
1 CATCTAACTTGAATTATTGGAACCTTTATACCAAATGCACAATTAGACCTTTCATCTAAC-TTCA
** *
725114 -TTACTGGTACCTTTATGCCAAATGCACAGTTAGGCCAATCATCTAACTTACATTATTGGCACCT
65 TTTACTGACACCTTTATGCCAAATGCACAGTTAGGCCAATCATCTAACTTACATTATTGACACCT
725178 TTATGCCAAATAGACAGTTAGGCCTTT
130 TTATG-CAAATAGACAGTTAGGCCTTT
* * * * *
725205 CATCTAACTTGAATTATTGGAACCTTTCTTCCAAATGCACACTTAGGCCTTTCATCTAACTTGAT
1 CATCTAACTTGAATTATTGGAACCTTTATACCAAATGCACAATTAGACCTTTCATCTAACTTCAT
* * * ** *
725270 TTATTGACATCTTTATGCCAAATGCACGGTTAGGCCTTTCATCTAACTTGCATTATTGACACCTT
66 TTACTGACACCTTTATGCCAAATGCACAGTTAGGCCAATCATCTAACTTACATTATTGACACCTT
725335 TATGCAAATA
131 TATGCAAATA
725345 TGCATAATTA
Statistics
Matches: 121, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
155 9 0.07
156 112 0.93
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (155 bp):
CATCTAACTTGAATTATTGGAACCTTTATACCAAATGCACAATTAGACCTTTCATCTAACTTCAT
TTACTGACACCTTTATGCCAAATGCACAGTTAGGCCAATCATCTAACTTACATTATTGACACCTT
TATGCAAATAGACAGTTAGGCCTTT
Found at i:725378 original size:59 final size:59
Alignment explanation
Indices: 725311--725424 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
725301 AGGCCTTTCA
* * * *
725311 TCTAACTTGCATTATTGACACCTTTATG-CAAATATGCATAATTAGACATTTAACTGATT
1 TCTAACTTGCATTAATGAAACCTTTATGAC-AATATACACAATTAGACATTTAACTGATT
*
725370 TCTAACTTGCATTAATGAAACCTTTATGACAATATACACAGTTAGACATTTAACT
1 TCTAACTTGCATTAATGAAACCTTTATGACAATATACACAATTAGACATTTAACT
725425 TTTCTTCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 48 0.98
60 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.37
Consensus pattern (59 bp):
TCTAACTTGCATTAATGAAACCTTTATGACAATATACACAATTAGACATTTAACTGATT
Found at i:732107 original size:52 final size:52
Alignment explanation
Indices: 732025--732447 Score: 553
Period size: 52 Copynumber: 8.0 Consensus size: 52
732015 TTAACATATA
* * *
732025 TTTCATCTAACTTGCATTATTGGCAGCTTTCTGCCAAATG-AGCAATTAGGTC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCA-CAGTTAGGCC
* *
732077 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATCCACAGTTAGTCC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCC
* *
732129 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATACATAGTTAGGCC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCC
* * *
732181 TTTCATCTAACTTGCATTATTGGCACATTTCTACCAAATGCACAGTTAGACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCC
* *
732233 TTTCATCTAACTTGCATTATTGACACCTTTCTACCAAATGCACAGTTAGGCC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCC
**
732285 TTTCATCTAACTTGCATTATTAACACCTTTCTGCCAAATGCACAGTTAGGCC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCC
* *
732337 TTTCATCTAACTTGCATTATTGACACCTTTCAT-CTAATATGCACAGTTAGGCATTTAC
1 TTTCATCTAACTTGCATTATTGGCACCTTTC-TGCCAA-ATGCACAGTTAGGC-----C
* * * * *
732395 TGATCATCTAACTTGCATTAATGGTACCTTTATGCCAATATCCACAGTTAGGC
1 T-TTCATCTAACTTGCATTATTGGCACCTTTCTGCCAA-ATGCACAGTTAGGC
732448 ATTTAACTTT
Statistics
Matches: 334, Mismatches: 27, Indels: 13
0.89 0.07 0.03
Matches are distributed among these distances:
52 273 0.82
53 16 0.05
58 3 0.01
59 42 0.13
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (52 bp):
TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCC
Found at i:732379 original size:27 final size:26
Alignment explanation
Indices: 732127--732373 Score: 95
Period size: 27 Copynumber: 9.5 Consensus size: 26
732117 CACAGTTAGT
*
732127 CCTTTCATCTAACTTGCATTATTGGCA
1 CCTTTCATCTAACTTGCATTATT-ACA
* * * **
732154 CCTTTC-TGCCAA-ATACA-TAGTTAGG
1 CCTTTCAT-CTAACTTGCATTA-TTACA
*
732179 CCTTTCATCTAACTTGCATTATTGGCA
1 CCTTTCATCTAACTTGCATTATT-ACA
* * * * *
732206 CATTTC-TACCAA-ATGCA-CAGTTAGA
1 CCTTTCAT-CTAACTTGCATTA-TTACA
732231 CCTTTCATCTAACTTGCATTATTGACA
1 CCTTTCATCTAACTTGCATTATT-ACA
* * * **
732258 CCTTTC-TACCAA-ATGCA-CAGTTAGG
1 CCTTTCAT-CTAACTTGCATTA-TTACA
732283 CCTTTCATCTAACTTGCATTATTAACA
1 CCTTTCATCTAACTTGCATTATT-ACA
* * * **
732310 CCTTTC-TGCCAA-ATGCA-CAGTTAGG
1 CCTTTCAT-CTAACTTGCATTA-TTACA
732335 CCTTTCATCTAACTTGCATTATTGACA
1 CCTTTCATCTAACTTGCATTATT-ACA
732362 CCTTTCATCTAA
1 CCTTTCATCTAA
732374 TATGCACAGT
Statistics
Matches: 153, Mismatches: 43, Indels: 48
0.63 0.18 0.20
Matches are distributed among these distances:
25 43 0.28
26 54 0.35
27 56 0.37
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (26 bp):
CCTTTCATCTAACTTGCATTATTACA
Found at i:732991 original size:12 final size:12
Alignment explanation
Indices: 732974--732998 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
732964 TCGATACCTT
732974 TCTCTTAGTACC
1 TCTCTTAGTACC
732986 TCTCTTAGTACC
1 TCTCTTAGTACC
732998 T
1 T
732999 AAGTATCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.08, T:0.44
Consensus pattern (12 bp):
TCTCTTAGTACC
Found at i:733656 original size:28 final size:28
Alignment explanation
Indices: 733616--733669 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
733606 TTTCCCTTCT
733616 TAAATCCCTAATAAGGAAATGAATTTTA
1 TAAATCCCTAATAAGGAAATGAATTTTA
733644 TAAATCCCTAATAAGGAAATGAATTT
1 TAAATCCCTAATAAGGAAATGAATTT
733670 AAAATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (28 bp):
TAAATCCCTAATAAGGAAATGAATTTTA
Found at i:736734 original size:31 final size:31
Alignment explanation
Indices: 736667--736726 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
736657 CAATTTAAGG
*
736667 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
736698 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
736727 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:736818 original size:19 final size:19
Alignment explanation
Indices: 736791--736857 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
736781 AATGTTTTTA
* *
736791 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
*
736810 TGAAGAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
*
736829 TGAACAATAAATTACTATT
1 TGAACAGTAAATTACTATT
736848 TGAACAGTAA
1 TGAACAGTAA
736858 CCCGAGGCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.37
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:736987 original size:20 final size:21
Alignment explanation
Indices: 736962--737002 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
736952 ATTTGAATAT
*
736962 TATGAA-GGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
736982 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
737003 CCCATTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:749951 original size:31 final size:30
Alignment explanation
Indices: 749850--749989 Score: 138
Period size: 30 Copynumber: 4.6 Consensus size: 30
749840 AGTAAATATT
* * *
749850 TAAAATTACAAGGACCAAAATAGCAAAAACA
1 TAAACTTA-AAGGACTAAAATAGAAAAAACA
* * * *
749881 TAAACTCAAAGGACCAAAATAGTACAAACA
1 TAAACTTAAAGGACTAAAATAGAAAAAACA
* * *
749911 TGAATTTAAAGGACTAAAATGACAAAAAACA
1 TAAACTTAAAGGACTAAAAT-AGAAAAAACA
*
749942 TAAACTTAAATGGA-TAAAATAGAAAAATCA
1 TAAACTTAAA-GGACTAAAATAGAAAAAACA
*
749972 GAAACTTAAAGGACTAAA
1 TAAACTTAAAGGACTAAA
749990 CAGCAAAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
29 3 0.03
30 57 0.63
31 27 0.30
32 3 0.03
ACGTcount: A:0.59, C:0.13, G:0.11, T:0.17
Consensus pattern (30 bp):
TAAACTTAAAGGACTAAAATAGAAAAAACA
Found at i:749961 original size:61 final size:61
Alignment explanation
Indices: 749874--749989 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 61
749864 CCAAAATAGC
* *
749874 AAAAACATAAACTCAAAGGACCAAAATAGTACAAA-CATG-AATTTAAAGGACTAAAATGACA
1 AAAAACATAAACTCAAAGGACCAAAATAG-AAAAATCA-GAAACTTAAAGGACTAAAATGACA
* *
749935 AAAAACATAAACTTAAATGGA-TAAAATAGAAAAATCAGAAACTTAAAGGACTAAA
1 AAAAACATAAACTCAAA-GGACCAAAATAGAAAAATCAGAAACTTAAAGGACTAAA
749990 CAGCAAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
60 5 0.10
61 40 0.83
62 3 0.06
ACGTcount: A:0.59, C:0.12, G:0.11, T:0.17
Consensus pattern (61 bp):
AAAAACATAAACTCAAAGGACCAAAATAGAAAAATCAGAAACTTAAAGGACTAAAATGACA
Found at i:749999 original size:30 final size:29
Alignment explanation
Indices: 749916--749999 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 29
749906 AAACATGAAT
* *
749916 TTAAAGGACTAAAATGACAAAAAACATAAAC
1 TTAAAGGACTAAAA-G-CAAAAATCAGAAAC
749947 TTAAATGGA-TAAAATAG-AAAAATCAGAAAC
1 TTAAA-GGACT-AAA-AGCAAAAATCAGAAAC
749977 TTAAAGGACTAAACAGCAAAAAT
1 TTAAAGGACTAAA-AGCAAAAAT
750000 AGACATTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
29 8 0.18
30 23 0.51
31 6 0.13
32 7 0.16
33 1 0.02
ACGTcount: A:0.60, C:0.11, G:0.12, T:0.18
Consensus pattern (29 bp):
TTAAAGGACTAAAAGCAAAAATCAGAAAC
Found at i:750830 original size:13 final size:13
Alignment explanation
Indices: 750812--750836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
750802 CAAGGTAACA
750812 TTTCTCTCTTTTT
1 TTTCTCTCTTTTT
750825 TTTCTCTCTTTT
1 TTTCTCTCTTTT
750837 GTTCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTCTCTTTTT
Found at i:750851 original size:22 final size:21
Alignment explanation
Indices: 750818--750867 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
750808 AACATTTCTC
*
750818 TCTTTTTTTTCTCTCTTTTGT-
1 TCTTTTTGTTCTCTCTTTT-TA
*
750839 TCTTTTTAGTTCTCTGTTTTTA
1 TCTTTTT-GTTCTCTCTTTTTA
750861 TCTTTTT
1 TCTTTTT
750868 TCTAGAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.04, C:0.16, G:0.06, T:0.74
Consensus pattern (21 bp):
TCTTTTTGTTCTCTCTTTTTA
Found at i:752108 original size:130 final size:132
Alignment explanation
Indices: 751844--752334 Score: 474
Period size: 130 Copynumber: 3.7 Consensus size: 132
751834 GGTCTGGTCG
* * * ** * *
751844 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTAGTCGGTGGATGACACGGCTCATATGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTATGGTCGGTGGATGACACGATTCCTACGT
* * * * * * * *
751909 GATGAAGAGTTC-TGACCATCTTTAGGAAAGGCGATAACACTGTTCCTACGCGATGAGGACGGTT
66 GATGAGGA-TGCATG-CCATCTTTAGG-GATGAGATAACACAGTTCCTACGTGATGAGGACGATT
751973 GGTTA
128 GGTTA
* * * * *
751978 TCTAGGGGTGACATGGCTCCTACGTGATGAGGAGGTATGGTCGG-GGATGACATGATTCCTATGC
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTATGGTCGGTGGATGACACGATTCCTACGT
*
752042 GATGAGGATGACATGCCATCTTTAGGGATG-G-TAACACGGTTCCTACGTGATGAGGACGATTGG
66 GATGAGGATG-CATGCCATCTTTAGGGATGAGATAACACAGTTCCTACGTGATGAGGACGATTGG
752105 TTA
130 TTA
* * * *
752108 TC-ATGGGTGACACGACTCTTACGTGATGAGGAGGTCTGGTCGAG-GGATGACAC-AGTTCCTAC
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTATGGTCG-GTGGATGACACGA-TTCCTAC
* * ** ** *
752170 ATGATCAGGATGTTTGGCCATCTTTATTGATAAGGTAGATAACAAAGTTCCTACGTGATGAGGAC
64 GTGATGAGGATGCAT-GCCATCTTTAGGGAT---G-AGATAACACAGTTCCTACGTGATGAGGAC
*
752235 GACTGGTTA
124 GATTGGTTA
* * * * *
752244 TCTAAGGGTGATATGGCTACTACGTGATGAAGAGGTATGGTCGGTGGATGACACGGTTCCTACGT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTATGGTCGGTGGATGACACGATTCCTACGT
*
752309 GATGAGGACGGCATGCCATCTTTAGG
66 GATGAGGA-TGCATGCCATCTTTAGG
752335 AATTTTGGTT
Statistics
Matches: 292, Mismatches: 50, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
129 37 0.13
130 71 0.24
131 1 0.00
132 3 0.01
133 35 0.12
134 41 0.14
135 1 0.00
136 35 0.12
137 66 0.23
138 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.27
Consensus pattern (132 bp):
TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTATGGTCGGTGGATGACACGATTCCTACGT
GATGAGGATGCATGCCATCTTTAGGGATGAGATAACACAGTTCCTACGTGATGAGGACGATTGGT
TA
Found at i:752479 original size:66 final size:64
Alignment explanation
Indices: 752342--752498 Score: 170
Period size: 66 Copynumber: 2.4 Consensus size: 64
752332 AGGAATTTTG
* * * *
752342 GTTTCAAGAGAAACCGACTCAAAGATGATGCTTCAAGAGAAGCTGTCTCAAGAGAGACAAAATTC
1 GTTTCAAGAGAAA-CGACTCAAAGATGATGCTTCAAAAGAAACAGTCTAAAGAGAGACAAAATTC
* * * * * **
752407 ATTTCAAGGGAAACGATCTCAAAGATAGGTGTTTCAAAAGAAACAGTCTAAAGGGAGATGAAATT
1 GTTTCAAGAGAAACGA-CTCAAAGAT-GATGCTTCAAAAGAAACAGTCTAAAGAGAGACAAAATT
*
752472 T
64 C
752473 GTTTCAAGAGAAACAGACTCAAAGAT
1 GTTTCAAGAGAAAC-GACTCAAAGAT
752499 TTTTTTCTCA
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
64 3 0.04
65 20 0.27
66 50 0.67
67 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (64 bp):
GTTTCAAGAGAAACGACTCAAAGATGATGCTTCAAAAGAAACAGTCTAAAGAGAGACAAAATTC
Found at i:752510 original size:66 final size:65
Alignment explanation
Indices: 752440--752582 Score: 155
Period size: 66 Copynumber: 2.2 Consensus size: 65
752430 GATAGGTGTT
* **
752440 TCAAAAGAAACAGTCTAAAGGGAGATGAAA-TTTGTTT-CAAGAGAAACAGACTCAAAGATTTTT
1 TCAAAAGAAACA-TCTAAAGAGAGACAAAACTTTGTTTCCAA-A-AAACAGACTCAAAGATTTTT
752503 TTC
63 TTC
* * * *
752506 TCAAAAGAAATTATCTCAAGAGAGACAAAACTTTGTTTCCAAATAACATACTCAAAGATTTTTTT
1 TCAAAAGAAA-CATCTAAAGAGAGACAAAACTTTGTTTCCAAAAAACAGACTCAAAGATTTTTTT
*
752571 T
65 C
*
752572 TGAAAAGAAAC
1 TCAAAAGAAAC
752583 TGCCTCGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
66 52 0.81
67 9 0.14
68 3 0.05
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (65 bp):
TCAAAAGAAACATCTAAAGAGAGACAAAACTTTGTTTCCAAAAAACAGACTCAAAGATTTTTTTC
Found at i:753380 original size:39 final size:39
Alignment explanation
Indices: 753326--753434 Score: 182
Period size: 39 Copynumber: 2.8 Consensus size: 39
753316 GTTTATGTGC
*
753326 GTTTATTTATTAAATGAATGAACATGAACAAGATTTTGT
1 GTTTATTTATTAAATGAACGAACATGAACAAGATTTTGT
753365 GTTTATTTATTAAATGAACGAACATGAACAAGATTTTGT
1 GTTTATTTATTAAATGAACGAACATGAACAAGATTTTGT
**
753404 GTTCGTTTAATTAAATGAACGAACATGAACA
1 GTTTATTT-ATTAAATGAACGAACATGAACA
753435 TAGGTCTCGT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
39 44 0.67
40 22 0.33
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (39 bp):
GTTTATTTATTAAATGAACGAACATGAACAAGATTTTGT
Found at i:753483 original size:24 final size:24
Alignment explanation
Indices: 753456--753506 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
753446 CTTTCATTTA
*
753456 CGTTCGTGAACGTTCGGTTATGTT
1 CGTTCATGAACGTTCGGTTATGTT
* **
753480 CGTTTATGTTCGTTCGGTTATGTT
1 CGTTCATGAACGTTCGGTTATGTT
753504 CGT
1 CGT
753507 ATATGTTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.16, G:0.27, T:0.47
Consensus pattern (24 bp):
CGTTCATGAACGTTCGGTTATGTT
Found at i:753494 original size:14 final size:14
Alignment explanation
Indices: 753466--753506 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
753456 CGTTCGTGAA
753466 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
753480 CG-T---TTATGTT
1 CGTTCGGTTATGTT
753490 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
753504 CGT
1 CGT
753507 ATATGTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
10 9 0.39
11 1 0.04
13 1 0.04
14 12 0.52
ACGTcount: A:0.07, C:0.15, G:0.27, T:0.51
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:753511 original size:24 final size:24
Alignment explanation
Indices: 753466--753514 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
753456 CGTTCGTGAA
*
753466 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTATATGTT
753490 CGTTCGGTTATGTTCGTATATGTT
1 CGTTCGGTTATGTTCGTATATGTT
753514 C
1 C
753515 ATTCATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.10, C:0.14, G:0.24, T:0.51
Consensus pattern (24 bp):
CGTTCGGTTATGTTCGTATATGTT
Found at i:753524 original size:24 final size:24
Alignment explanation
Indices: 753472--753527 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
753462 TGAACGTTCG
* * *
753472 GTTATGTTCGTTTATGTTCGTTCG
1 GTTATGTTCGTATATGTTCATTCA
753496 GTTATGTTCGTATATGTTCATTCA
1 GTTATGTTCGTATATGTTCATTCA
*
753520 TTTATGTT
1 GTTATGTT
753528 TAACCCAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.14, C:0.11, G:0.20, T:0.55
Consensus pattern (24 bp):
GTTATGTTCGTATATGTTCATTCA
Found at i:759916 original size:30 final size:30
Alignment explanation
Indices: 759882--759951 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 30
759872 AAACATGAAT
759882 TTAAAGGACTAAAAT-GACAAAAATAGAAAC
1 TTAAAGGACTAAAATAGA-AAAAATAGAAAC
*
759912 TTAAACGG-CTAAAATAGAAAAATTAGAAAC
1 TTAAA-GGACTAAAATAGAAAAAATAGAAAC
759942 TTAAAGGACT
1 TTAAAGGACT
759952 TTACAGCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 2 0.06
30 30 0.83
31 4 0.11
ACGTcount: A:0.56, C:0.10, G:0.14, T:0.20
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGAAAAAATAGAAAC
Found at i:761587 original size:3 final size:3
Alignment explanation
Indices: 761581--761652 Score: 64
Period size: 3 Copynumber: 24.7 Consensus size: 3
761571 GATGTATTAT
* *
761581 TAA TAA TAA TTCA TAA TAA TAA TAA CAA TAAA TAA TAA TAAA TAA T-A
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA T-AA TAA TAA
761628 TAA T-A TAA T-A TAA T-A TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
761653 TTTTTATATA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
2 10 0.18
3 39 0.68
4 8 0.14
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:761626 original size:10 final size:10
Alignment explanation
Indices: 761582--761647 Score: 66
Period size: 10 Copynumber: 6.7 Consensus size: 10
761572 ATGTATTATT
*
761582 AATAATAATT
1 AATAATAATA
*
761592 CATAATAAT-
1 AATAATAATA
*
761601 AATAACAATA
1 AATAATAATA
761611 AATAATAATA
1 AATAATAATA
761621 AATAAT-ATA
1 AATAATAATA
761630 ATATAAT-ATA
1 A-ATAATAATA
761640 ATATAATA
1 A-ATAATA
761648 TAATATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
9 11 0.22
10 38 0.78
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AATAATAATA
Found at i:761632 original size:5 final size:5
Alignment explanation
Indices: 761608--761653 Score: 69
Period size: 5 Copynumber: 9.4 Consensus size: 5
761598 AATAATAACA
761608 ATAA- ATAAT AATAA- ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
761654 TTTTATATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.21
5 27 0.69
6 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:763430 original size:29 final size:29
Alignment explanation
Indices: 763387--763470 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 29
763377 CTCACCTAAC
763387 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
763417 TAAATGATGTAAGCAATGACATCTTTTAAT
1 TAAATGATGTAAGCAATGACATC-ATTAAT
*
763447 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
763471 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
29 19 0.38
30 31 0.62
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:768197 original size:29 final size:29
Alignment explanation
Indices: 768154--768236 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
768144 CTCACCTAAC
768154 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
768184 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
768213 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
768237 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:775645 original size:13 final size:13
Alignment explanation
Indices: 775627--775653 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
775617 GTCCTTCAAA
775627 GACATCGTCTTTG
1 GACATCGTCTTTG
775640 GACATCGTCTTTG
1 GACATCGTCTTTG
775653 G
1 G
775654 GAGGAAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (13 bp):
GACATCGTCTTTG
Found at i:782680 original size:19 final size:19
Alignment explanation
Indices: 782656--782700 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
782646 GCACTCATCA
* *
782656 ACATGACCCCGCAAGCAGT
1 ACATGACCCCACAAGCAGC
782675 ACATGACCCCACAAGCAGC
1 ACATGACCCCACAAGCAGC
782694 ACATGAC
1 ACATGAC
782701 TTAATTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.36, C:0.38, G:0.18, T:0.09
Consensus pattern (19 bp):
ACATGACCCCACAAGCAGC
Found at i:787305 original size:18 final size:18
Alignment explanation
Indices: 787284--787324 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
787274 TTAATCTTAA
787284 TTTTCTT-TTTCATTTTAT
1 TTTTCTTATTTC-TTTTAT
*
787302 TTTTATTATTTCTTTTAT
1 TTTTCTTATTTCTTTTAT
787320 TTTTC
1 TTTTC
787325 CTCTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCTTATTTCTTTTAT
Found at i:787323 original size:6 final size:6
Alignment explanation
Indices: 787258--787306 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
787248 TGTTTCGATC
* ** * *
787258 AATTTT AATTTT AATTTT AATCTT AATTTT CTTTTT CATTTT ATTTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
787306 A
1 A
787307 TTATTTCTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (6 bp):
AATTTT
Found at i:787619 original size:20 final size:20
Alignment explanation
Indices: 787594--787645 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
787584 ACGCGATATC
* *
787594 AAAATCGCAACGTTGAAAAG
1 AAAATCGCAACGGTCAAAAG
787614 AAAATCGCAACGGTCAAAAG
1 AAAATCGCAACGGTCAAAAG
787634 AAAATCGCAACG
1 AAAATCGCAACG
787646 CGATATTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGGTCAAAAG
Found at i:787664 original size:22 final size:22
Alignment explanation
Indices: 787636--787713 Score: 90
Period size: 22 Copynumber: 3.6 Consensus size: 22
787626 GTCAAAAGAA
787636 AATCGCAACGCGATATTCCAAG
1 AATCGCAACGCGATATTCCAAG
* *
787658 AATCGCAATGCG--ATT-AAGAG
1 AATCGCAACGCGATATTCCA-AG
*
787678 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATATTCCAAG
*
787700 AATCGCAATGCGAT
1 AATCGCAACGCGAT
787714 TCAGAAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.02
20 16 0.35
22 28 0.61
23 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (22 bp):
AATCGCAACGCGATATTCCAAG
Found at i:787681 original size:20 final size:20
Alignment explanation
Indices: 787656--787738 Score: 105
Period size: 20 Copynumber: 4.0 Consensus size: 20
787646 CGATATTCCA
*
787656 AGAATCGCAATGCGATTAAG
1 AGAATCGCAATGCGATTCAG
*
787676 AGAATCGCAACGCGATCTTCCA-
1 AGAATCGCAATGCGA--TT-CAG
787698 AGAATCGCAATGCGATTCAG
1 AGAATCGCAATGCGATTCAG
*
787718 AAAATCGCAATGCGATTCAG
1 AGAATCGCAATGCGATTCAG
787738 A
1 A
787739 AAATGAGTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.04
20 36 0.65
22 16 0.29
23 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (20 bp):
AGAATCGCAATGCGATTCAG
Found at i:787682 original size:42 final size:42
Alignment explanation
Indices: 787631--787733 Score: 170
Period size: 42 Copynumber: 2.5 Consensus size: 42
787621 CAACGGTCAA
787631 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
* *
787673 AAGAGAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
* *
787715 CAGAAAATCGCAATGCGAT
1 AAGAAAATCGCAACGCGAT
787734 TCAGAAAATG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (42 bp):
AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
Found at i:787849 original size:6 final size:6
Alignment explanation
Indices: 787838--787898 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
787828 GACACGTATT
*
787838 ACCACG ACCACG ACCACG ACCACG ACCCACG ACC-CG ACGACCG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG A-CCACG ACCACG ACCA-CG ACCACG
787886 ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACC
787899 CGAGACGACG
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
5 19 0.38
6 21 0.42
7 10 0.20
ACGTcount: A:0.28, C:0.54, G:0.18, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:787867 original size:25 final size:24
Alignment explanation
Indices: 787839--787898 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
787829 ACACGTATTA
787839 CCACGACCACGACCA-CGACCACGAC
1 CCACGACC-CGACCACCGACC-CGAC
*
787864 CCACGACCCGACGACCGACCCGA-
1 CCACGACCCGACCACCGACCCGAC
787887 CC-CGACCCGACC
1 CCACGACCCGACC
787899 CGAGACGACG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 9 0.28
23 2 0.06
24 8 0.25
25 13 0.41
ACGTcount: A:0.27, C:0.55, G:0.18, T:0.00
Consensus pattern (24 bp):
CCACGACCCGACCACCGACCCGAC
Found at i:787886 original size:5 final size:5
Alignment explanation
Indices: 787842--787901 Score: 57
Period size: 5 Copynumber: 10.6 Consensus size: 5
787832 CGTATTACCA
787842 CGACC ACGACC ACGACC ACGACCC ACGACC CGACGAC CGACC CGACC CGACC
1 CGACC -CGACC -CGACC -CGA-CC -CGACC CGAC--C CGACC CGACC CGACC
787894 CGACC CGA
1 CGACC CGA
787902 GACGACGACG
Statistics
Matches: 51, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.45
6 17 0.33
7 11 0.22
ACGTcount: A:0.27, C:0.53, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:788412 original size:6 final size:6
Alignment explanation
Indices: 788391--788451 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
788381 TCTCGTCTCG
788391 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
788437 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
788452 AATACGTGTC
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.18
6 45 0.82
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:788585 original size:20 final size:20
Alignment explanation
Indices: 788554--788892 Score: 378
Period size: 20 Copynumber: 16.8 Consensus size: 20
788544 CTCATTTTCT
*
788554 GAATCGCATTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
* *
788574 GAATCACGTTGCGATT-TTCT
1 GAATCGCGTTGCGATTCTT-G
*
788594 GAATCGCGTTGCGATT-TTCT
1 GAATCGCGTTGCGATTCTT-G
788614 GAATCGCGTTGCGATTTTCTT-
1 GAATCGCGTTGCGA--TTCTTG
*
788635 -AATCACGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
788654 GAATCGCGTTGCGATTTTCTT-
1 GAATCGCGTTGCGA--TTCTTG
788675 -AATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
788694 GAATCGCGTTGCGATTTTCTT-
1 GAATCGCGTTGCGA--TTCTTG
788715 -AATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
788734 GAATCGCGTTGCGATTTTCTT-
1 GAATCGCGTTGCGA--TTCTTG
788755 -AATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
788774 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
*
788794 GAATCGCGTTGCGATT-TTCT
1 GAATCGCGTTGCGATTCTT-G
788814 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
*
788834 GAAGATCGCGTTGCGATT-TTAT
1 G-A-ATCGCGTTGCGATTCTT-G
*
788856 GAATCGCATTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
788876 GAAGATCGCGTTGCGAT
1 G-A-ATCGCGTTGCGAT
788893 CTTCTTTTCA
Statistics
Matches: 281, Mismatches: 12, Indels: 50
0.82 0.03 0.15
Matches are distributed among these distances:
18 20 0.07
19 4 0.01
20 202 0.72
21 9 0.03
22 44 0.16
23 2 0.01
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
GAATCGCGTTGCGATTCTTG
Found at i:788606 original size:40 final size:40
Alignment explanation
Indices: 788547--788954 Score: 438
Period size: 40 Copynumber: 10.1 Consensus size: 40
788537 GAATTTACTC
* *
788547 ATTTTCTGAATCGCATTGCGATTCTTGGAATCACGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
788587 ATTTTCTGAATCGCGTTGCGATT-TTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTT-GGAATCGCGTTGCG
* *
788627 ATTTTCTTAATCACGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
788667 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
788707 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
788747 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
* *
788787 ATTCTT-GGAATCGCGTTGCGATT-TTCTGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCGATTCTT-GGAATCGCGTTGCG
* * *
788827 ATTCTT-GGAAGATCGCGTTGCGATT-TTATGAATCGCATTGCG
1 ATT-TTCTG-A-ATCGCGTTGCGATTCTT-GGAATCGCGTTGCG
* **** * *
788869 ATTCTT-GGAAGATCGCGTTGCGA-TCTTCTTTTCAACGTTGTG
1 ATT-TTCTG-A-ATCGCGTTGCGATTCTTGGAATC-GCGTTGCG
* * *
788911 CTTTTCTAAATCGCGTTGCGGTT-TT-GATATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGA-ATCGCGTTGCG
788950 ATTTT
1 ATTTT
788955 GTTGGTCATT
Statistics
Matches: 328, Mismatches: 29, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
39 14 0.04
40 241 0.73
41 12 0.04
42 61 0.19
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (40 bp):
ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
Found at i:790079 original size:20 final size:19
Alignment explanation
Indices: 790054--790105 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
790044 TGATGCAATC
* *
790054 AGTATCGATACCGAGGGGGT
1 AGTATCGATACCGA-AGGGA
790074 AGTATCGATACCGAAGGGA
1 AGTATCGATACCGAAGGGA
790093 ATGTATCGATACC
1 A-GTATCGATACC
790106 ATTCAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTATCGATACCGAAGGGA
Found at i:792585 original size:3 final size:3
Alignment explanation
Indices: 792579--792611 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
792569 TATTATTATT
*
792579 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
792612 AAAATAGGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:793036 original size:123 final size:123
Alignment explanation
Indices: 792779--793194 Score: 532
Period size: 123 Copynumber: 3.4 Consensus size: 123
792769 TTATTCTTCT
* * * * **
792779 TCTTCGGATGAGTTCTTCTCATTA-TGAACTCTTTCACTGGAAATGACGATGCTGCTCTATCTCC
1 TCTTCAGATGAGTTCTTCTTATTACT-AACTCCTT--CTAGAAATGTTGATGCTGCTCTATCTCC
* * *
792843 TTCTGCGATAGAGTCGATCAAAAAGGTTAAATATGTTCTTCAGATTATGAACTTCTT-TTTCC
63 TTCTGCGATAGAGTCGAGC-AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTT-C
* * **
792905 TCTTCAGATGAGTTCCTCTTATTACTAACTCCTTCTGGAAATGTTGATGCTGCTCTATCTTTTTC
1 TCTTCAGATGAGTTCTTCTTATTACTAACTCCTTCTAGAAATGTTGATGCTGCTCTATCTCCTTC
** * * * * * *
792970 TATGATAGAATCGAGCAAAAGGTTGAATACGTTCTTCAGAGTGTAAACTTCTTCTTTA
66 TGCGATAGAGTCGAGCAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTTC
* *
793028 TCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGATCCTGCTCTATCTCCTTC
1 TCTTCAGATGAGTTCTTCTTATTACTAACTCCTTCTAGAAATGTTGATGCTGCTCTATCTCCTTC
* *
793093 TGCGATAGAGTCTAGCAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCC
66 TGCGATAGAGTCGAGCAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTTC
793151 TCGTT-AGATGAGTTCTTCTTATTACTAACTCCTTCTAGAAATGT
1 TC-TTCAGATGAGTTCTTCTTATTACTAACTCCTTCTAGAAATGT
793195 CCCTATTTTT
Statistics
Matches: 252, Mismatches: 35, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
123 179 0.71
124 44 0.17
126 28 0.11
127 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (123 bp):
TCTTCAGATGAGTTCTTCTTATTACTAACTCCTTCTAGAAATGTTGATGCTGCTCTATCTCCTTC
TGCGATAGAGTCGAGCAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTTC
Done.