Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007490.1 Hibiscus syriacus cultivar Beakdansim tig00020682_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: 795028
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:605587 original size:30 final size:28
Alignment explanation
Indices: 605546--605609 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
605536 TTATATAAAT
* *
605546 ATTATTTTTTATTAAAATAATATTTATATA
1 ATTATTATTTATTAAAATAA-ATTAAT-TA
* *
605576 ATTATTATTTATTTAAATTAATTAATTA
1 ATTATTATTTATTAAAATAAATTAATTA
605604 ATTATT
1 ATTATT
605610 TTTTTTACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.27
29 5 0.17
30 17 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTATTATTTATTAAAATAAATTAATTA
Found at i:605748 original size:19 final size:19
Alignment explanation
Indices: 605720--605756 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
605710 TAATATATTT
605720 TTTATAATTATTGTTAATA
1 TTTATAATTATTGTTAATA
* *
605739 TTTATTATTATTTTTAAT
1 TTTATAATTATTGTTAAT
605757 TTAAATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTATAATTATTGTTAATA
Found at i:607418 original size:21 final size:21
Alignment explanation
Indices: 607392--607432 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
607382 GCCATCTCCG
607392 CAGGGTTACATTCCTAGCCCT
1 CAGGGTTACATTCCTAGCCCT
607413 CAGGGTTACATTCCTAGCCC
1 CAGGGTTACATTCCTAGCCC
607433 GCCATGTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.27
Consensus pattern (21 bp):
CAGGGTTACATTCCTAGCCCT
Found at i:607441 original size:21 final size:21
Alignment explanation
Indices: 607392--607461 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
607382 GCCATCTCCG
*
607392 CAGGGTTACATTCCTAGCCCT
1 CAGGGTTACATTCCTAGCCCC
607413 CAGGGTTACATTCCTAGCCCGC
1 CAGGGTTACATTCCTAGCCC-C
* * **
607435 CA-TGTTACATGCCTAGCCTG
1 CAGGGTTACATTCCTAGCCCC
607455 CAGGGTT
1 CAGGGTT
607462 TTATGACACC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 37 0.90
22 2 0.05
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (21 bp):
CAGGGTTACATTCCTAGCCCC
Found at i:611567 original size:190 final size:189
Alignment explanation
Indices: 611235--611700 Score: 585
Period size: 190 Copynumber: 2.4 Consensus size: 189
611225 CTAACTTTAT
* * * * *
611235 ACATATAGCAGCGTTTTGGTAACAAACG-TCGCAAATAATTTGTACTTTAGTGGCGTTTTGTCAA
1 ACATATAGCGGCGTTTTGGTAACAAACGCT-GCAAATTATTCGTACATTAGTGGCGTTTTGACAA
* * *
611299 AAAATGCCGCAAATGGTTTTTTTATTTAAACACCATTAACTTTAGACACATAGCAGAGTTTTTTA
65 AAAATGCCGCATAT-G-TTTTTTATTTAAACACCATTAAATTTAGACACACAGCAGAGTTTTTTA
* ** *
611364 ATAAACATCGCAACAGATTAGTACTTTAGTGGTGTTTTAACAAAAATGCCACAAAAGGGTTC
128 ATAAACATCGCAACAGATTAGTACTTTAGCGACGTTTTAACAAAAACGCCACAAAAGGGTTC
* **
611426 ACATATAGTGGCGTTTTGGTAACAAACGCTGCAAATTATTCAAATCATTAGTGGCGTTTTGACAA
1 ACATATAGCGGCGTTTTGGTAACAAACGCTGCAAATTATTCGTA-CATTAGTGGCGTTTTGACAA
** * **
611491 AAAATGCCGCATATGTTTTTTATTTAAACGTCATTAAATTTAGACATACAGGGGCA-TTTTTTAA
65 AAAATGCCGCATATGTTTTTTATTTAAACACCATTAAATTTAGACACACAGCAG-AGTTTTTTAA
* * ** * *
611555 TAAACGTCGCAACAGATTAGTACTTTAGCGACGTTTTTACAAAAACGCTGCAATATGGTTC
129 TAAACATCGCAACAGATTAGTACTTTAGCGACGTTTTAACAAAAACGCCACAAAAGGGTTC
* * * *
611616 ACATATACCGGCGTTTTGGTAACAAACACTACAAATTATTCGTACATTAGTGGCGTTTTGGCAAA
1 ACATATAGCGGCGTTTTGGTAACAAACGCTGCAAATTATTCGTACATTAGTGGCGTTTTGAC-AA
*
611681 AAAATGCCACATATGTTTTT
65 AAAATGCCGCATATGTTTTT
611701 AACATTAGTT
Statistics
Matches: 237, Mismatches: 34, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
189 17 0.07
190 150 0.63
191 38 0.16
192 32 0.14
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (189 bp):
ACATATAGCGGCGTTTTGGTAACAAACGCTGCAAATTATTCGTACATTAGTGGCGTTTTGACAAA
AAATGCCGCATATGTTTTTTATTTAAACACCATTAAATTTAGACACACAGCAGAGTTTTTTAATA
AACATCGCAACAGATTAGTACTTTAGCGACGTTTTAACAAAAACGCCACAAAAGGGTTC
Found at i:612493 original size:14 final size:14
Alignment explanation
Indices: 612474--612500 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
612464 GTTAATCGGA
612474 TTGCTTCTCATAAT
1 TTGCTTCTCATAAT
612488 TTGCTTCTCATAA
1 TTGCTTCTCATAA
612501 GTTTTTATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (14 bp):
TTGCTTCTCATAAT
Found at i:614620 original size:5 final size:5
Alignment explanation
Indices: 614610--614660 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
614600 GGATGAAACA
* ** *
614610 AAAAT AAAAT AAAAT GAAAT TGAAT AAAAT AAAAT -AAAT GAAGAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
614660 A
1 A
614661 TATATACAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 4 0.11
5 30 0.81
6 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:614644 original size:30 final size:30
Alignment explanation
Indices: 614576--614647 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
614566 AAATGAAACC
*
614576 AATAATAATAAACATAAAATAATTGGATGAA
1 AATAA-AATAAACATAAAATAATTGAATGAA
614607 ACA-AAAATAAA-ATAAAATGAAATTGAAT-AA
1 A-ATAAAATAAACATAAAAT--AATTGAATGAA
614637 AATAAAATAAA
1 AATAAAATAAA
614648 TGAAGATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
29 8 0.22
30 17 0.47
31 10 0.28
32 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.22
Consensus pattern (30 bp):
AATAAAATAAACATAAAATAATTGAATGAA
Found at i:614660 original size:20 final size:20
Alignment explanation
Indices: 614612--614648 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
614602 ATGAAACAAA
614612 AATAAAATAAAATGAAATTG
1 AATAAAATAAAATGAAATTG
614632 AATAAAATAAAAT-AAAT
1 AATAAAATAAAATGAAAT
614649 GAAGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AATAAAATAAAATGAAATTG
Found at i:614780 original size:2 final size:2
Alignment explanation
Indices: 614768--614803 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
614758 GTATAAATAA
*
614768 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
614804 AAAATGTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:615630 original size:37 final size:37
Alignment explanation
Indices: 615589--615673 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
615579 GGATCCAATC
* *
615589 TTTAGGAGTTTAAATAATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCATATT
* ** * *
615626 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCATATT
615663 TTTAGGAGTTT
1 TTTAGGAGTTT
615674 GAATCCTAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (37 bp):
TTTAGGAGTTTAAATAATAGCAAAACTCTATCATATT
Found at i:616627 original size:106 final size:106
Alignment explanation
Indices: 616435--617743 Score: 1963
Period size: 106 Copynumber: 12.3 Consensus size: 106
616425 GCATTGTTCC
* * * * * * * *
616435 GAGTCTAATATCCTCCATCGTGAATTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
616500 CCAGCAGTCCCTTTGTTGTGAAGTTGAACTT-CTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC-GTTGTCTG
* * * * *
616541 GAGTCCAATATCTTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
616606 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
616647 AAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
616712 CCAGCGGTACCTTCGGCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
616753 GATTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
616818 CCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
616859 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACTA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
616924 CTAACTGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
616965 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
617030 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
617071 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
617136 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
617177 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
617242 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
617283 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
617348 CCAACGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
617389 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTATGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
617454 CCAGCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
617495 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
617560 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* **
617601 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGATTTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* ** * * *
617666 CCAGCCGTCCCTTCGTTATGAAGTTGAACTTGTGTTATCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
617707 GAGTGGCACGATATCCTCCGTCGTGGAGTTGAAATTG
1 GAGT--C-CAATATCCTTCGTTGTGAAGTTGAAATTG
617744 CGGATAGCCA
Statistics
Matches: 1101, Mismatches: 98, Indels: 5
0.91 0.08 0.00
Matches are distributed among these distances:
106 1075 0.98
107 1 0.00
108 1 0.00
109 24 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:619360 original size:16 final size:14
Alignment explanation
Indices: 619319--619368 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 14
619309 TTCTTTTTGA
619319 TTTTTGTTCTTTCT
1 TTTTTGTTCTTTCT
619333 TTTTT-TTC-TTCT
1 TTTTTGTTCTTTCT
619345 TTTTTGCTTCTTTTCT
1 TTTTTG-TTC-TTTCT
619361 TTTTTGTT
1 TTTTTGTT
619369 TTTGCCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.28
13 3 0.09
14 8 0.25
15 2 0.06
16 10 0.31
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (14 bp):
TTTTTGTTCTTTCT
Found at i:623798 original size:27 final size:27
Alignment explanation
Indices: 623743--623798 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
623733 AAGTGTTTTT
*
623743 AAAAAAAGAAAAATAATAATAAGAGTA
1 AAAAAAAGAAAAATAATAATAAGAATA
*
623770 AAAAAAACTAAAAAT-ATAATGAA-AATA
1 AAAAAAA-GAAAAATAATAAT-AAGAATA
623797 AA
1 AA
623799 TAAATAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (27 bp):
AAAAAAAGAAAAATAATAATAAGAATA
Found at i:623809 original size:22 final size:19
Alignment explanation
Indices: 623778--623898 Score: 72
Period size: 20 Copynumber: 6.2 Consensus size: 19
623768 TAAAAAAAAC
*
623778 TAAAAATATAATGAAAATAAA
1 TAAATATATAAT-AAAAT-AA
623799 TAAATAGTATAAATAAAATAA
1 TAAATA-TAT-AATAAAATAA
*
623820 TAAATATAT-ATATATATATA
1 TAAATATATAATA-AAATA-A
*
623840 TATATATATAA-AAATATAA
1 TAAATATATAATAAA-ATAA
* *
623859 -AAATGTATATATAATATAA
1 TAAATATATA-ATAAAATAA
*
623878 TAAA-ATACTAA-ATAATAA
1 TAAATATA-TAATAAAATAA
623896 TAA
1 TAA
623899 CAGTAATAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
18 18 0.22
19 14 0.17
20 23 0.29
21 14 0.17
22 8 0.10
23 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAATATATAATAAAATAA
Found at i:623830 original size:2 final size:2
Alignment explanation
Indices: 623823--623876 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
623813 AAAATAATAA
* * * * *
623823 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AA AT AT AA AA AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
623865 AT AT AT A- AT AT A
1 AT AT AT AT AT AT A
623877 ATAAAATACT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:624053 original size:2 final size:2
Alignment explanation
Indices: 624046--624087 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
624036 CATAGATAAA
624046 AT AT AT AT AT AT A- 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
624087 A
1 A
624088 GGAAAATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:624106 original size:10 final size:10
Alignment explanation
Indices: 624045--624187 Score: 57
Period size: 12 Copynumber: 13.9 Consensus size: 10
624035 ACATAGATAA
624045 AATAT-ATAT
1 AATATAATAT
624054 -ATATAATAT
1 AATATAATAT
624063 -ATAT-ATAT
1 AATATAATAT
624071 ATATATATATAT
1 A-ATATA-ATAT
* *
624083 ATATAGGAAAAT
1 A-ATA-TAATAT
624095 AATATAATAT
1 AATATAATAT
* * *
624105 AATGCAAAAAAA
1 AAT--ATAATAT
* *
624117 AAGAGAACTAT
1 AATATAA-TAT
624128 AATA-AATA-
1 AATATAATAT
*
624136 AATAAAATAT
1 AATATAATAT
*
624146 AATAAAATAT
1 AATATAATAT
624156 ATATATATATAT
1 A-ATATA-ATAT
624168 ATATATAGATAT
1 A-ATATA-ATAT
624180 -ATATAATA
1 AATATAATA
624188 AGGGTTAAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 26
0.73 0.10 0.18
Matches are distributed among these distances:
8 12 0.11
9 17 0.16
10 32 0.30
11 11 0.10
12 34 0.32
13 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (10 bp):
AATATAATAT
Found at i:624159 original size:2 final size:2
Alignment explanation
Indices: 624152--624184 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
624142 ATATAATAAA
*
624152 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
624185 ATAAGGGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:624718 original size:37 final size:37
Alignment explanation
Indices: 624625--624726 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
624615 ATGCTTGTGG
* * ** * * *
624625 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
*
624662 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
624699 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
624727 TAGGATGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
Found at i:630526 original size:21 final size:21
Alignment explanation
Indices: 630502--630560 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
630492 AGGAAAATGA
630502 AGCAAGGGAAACAGAGAGAGC
1 AGCAAGGGAAACAGAGAGAGC
* *
630523 AGCAACGGAAACA-ACCAGAGC
1 AGCAAGGGAAACAGA-GAGAGC
*
630544 AGC-AGCGGAAGCAGAGA
1 AGCAAG-GGAAACAGAGA
630561 AAGAAGCAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.46, C:0.20, G:0.34, T:0.00
Consensus pattern (21 bp):
AGCAAGGGAAACAGAGAGAGC
Found at i:630568 original size:21 final size:21
Alignment explanation
Indices: 630544--630610 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
630534 CAACCAGAGC
*
630544 AGCAGCGGAAGCAGAGAAAGA
1 AGCAGCGGAAGCACAGAAAGA
* * *
630565 AGCAGTGGTAGCACAGAGAGA
1 AGCAGCGGAAGCACAGAAAGA
* * *
630586 AGCAGCGGCATCACAGAGAGA
1 AGCAGCGGAAGCACAGAAAGA
630607 AGCA
1 AGCA
630611 ACATATCAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.42, C:0.18, G:0.36, T:0.04
Consensus pattern (21 bp):
AGCAGCGGAAGCACAGAAAGA
Found at i:631210 original size:43 final size:42
Alignment explanation
Indices: 631077--631314 Score: 147
Period size: 43 Copynumber: 5.3 Consensus size: 42
631067 CGTTTGTGGC
* * * ***
631077 AAAAACGCCACTAAA-AACATCACCTACTGCGGCGTTTATGGG
1 AAAAACGCCGCTAAATATCAACACCTACTGCGGCGTTT-TTCT
* * * * *
631119 AAAAACGTCGCAAAATATCAAAACCTACTGCGGTGTTTTT-A
1 AAAAACGCCGCTAAATATCAACACCTACTGCGGCGTTTTTCT
*
631160 AGTAAAACGCCGCTAAATCTCAACACCTACTGCGGCGTTTTTCCT
1 A--AAAACGCCGCTAAATATCAACACCTACTGCGGCGTTTTT-CT
* * * *
631205 AAAAACGGAAAAACGCCGCTAAACATCAACATCTATTGAGGCGTTTTTCT
1 --------AAAAACGCCGCTAAATATCAACACCTACTGCGGCGTTTTTCT
* * *
631255 AACAAACGCCGCTAAATAACAACACCTATTGCGGCGTTTGTTTTT
1 AA-AAACGCCGCTAAATATCAACACCTACTGCGGCG-TT-TTTCT
631300 AAAAAACGCCGCTAA
1 -AAAAACGCCGCTAA
631315 CTTTAGCGGC
Statistics
Matches: 154, Mismatches: 25, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
41 1 0.01
42 15 0.10
43 81 0.53
44 2 0.01
45 16 0.10
46 2 0.01
50 2 0.01
51 34 0.22
53 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAATATCAACACCTACTGCGGCGTTTTTCT
Found at i:631248 original size:51 final size:51
Alignment explanation
Indices: 631163--631262 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
631153 GTTTTTAAGT
*
631163 AAAACGCCGCTAAATCTCAACACCTACTGCGGCGTTTTTCCTAA-AAACGGA
1 AAAACGCCGCTAAATCTCAACACCTACTGAGGCGTTTTT-CTAACAAACGGA
* *
631214 AAAACGCCGCTAAA-CATCAACATCTATTGAGGCGTTTTTCTAACAAACG
1 AAAACGCCGCTAAATC-TCAACACCTACTGAGGCGTTTTTCTAACAAACG
631263 CCGCTAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 5 0.11
51 39 0.89
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (51 bp):
AAAACGCCGCTAAATCTCAACACCTACTGAGGCGTTTTTCTAACAAACGGA
Found at i:633249 original size:7 final size:7
Alignment explanation
Indices: 633233--633468 Score: 105
Period size: 7 Copynumber: 32.4 Consensus size: 7
633223 TTTTGGTTTT
633233 TATATGTA
1 TATAT-TA
633241 TATATTA
1 TATATTA
*
633248 TATAGTA
1 TATATTA
*
633255 TATATGGTG
1 TATAT--TA
*
633264 TATAGTA
1 TATATTA
633271 TATA-TA
1 TATATTA
*
633277 T-TATAA
1 TATATTA
633283 TATATTA
1 TATATTA
*
633290 TATAGTA
1 TATATTA
633297 TTATATTA
1 -TATATTA
633305 TATACATGT-
1 TAT--AT-TA
*
633314 TATA-GA
1 TATATTA
633320 TTATATTA
1 -TATATTA
*
633328 TATAGTA
1 TATATTA
633335 TATATATA
1 TATAT-TA
633343 TATATTA
1 TATATTA
633350 GTATCAGTTTTA
1 -TAT-A---TTA
633362 TATCATTA
1 TAT-ATTA
633370 TATATTA
1 TATATTA
633377 TA-A-TA
1 TATATTA
633382 TTATATTA
1 -TATATTA
*
633390 TATAGTA
1 TATATTA
633397 TAT-TATA
1 TATAT-TA
633404 TATATTA
1 TATATTA
633411 T-TATTA
1 TATATTA
**
633417 CGTATTA
1 TATATTA
*
633424 TAATAAATA
1 T-AT-ATTA
*
633433 TATATCA
1 TATATTA
633440 TATATTA
1 TATATTA
*
633447 TTTATTA
1 TATATTA
*
633454 TGT-TTA
1 TATATTA
633460 T-TATTA
1 TATATTA
633466 TAT
1 TAT
633469 TATATTTATT
Statistics
Matches: 177, Mismatches: 24, Indels: 55
0.69 0.09 0.21
Matches are distributed among these distances:
5 5 0.03
6 21 0.12
7 93 0.53
8 34 0.19
9 15 0.08
10 1 0.01
11 5 0.03
12 3 0.02
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (7 bp):
TATATTA
Found at i:633251 original size:2 final size:2
Alignment explanation
Indices: 633233--633444 Score: 81
Period size: 2 Copynumber: 111.5 Consensus size: 2
633223 TTTTGGTTTT
* * *
633233 TA TA TG TA TA TA T- TA TA TA GTA TA TA TGG TG TA TA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA T-A TA TA TA -TA TA TA
* *
633275 TA T- TA TA -A TA TA T- TA TA TA GTA T- TA TA T- TA TA TA CA TG
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
633313 T- TA TA GA T- TA TA T- TA TA TA GTA TA TA TA TA TA TA T- TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA
*
633353 TCA GT- TT TA TA TCA T- TA TA TA T- TA TA -A TA T- TA TA T- TA
1 T-A -TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
**
633390 TA TA GTA TA T- TA TA TA TA T- TA T- TA T- TA CG TA T- TA TA -A
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
633427 TA AA TA TA TA TCA TA TA T
1 TA TA TA TA TA T-A TA TA T
633445 TATTTATTAT
Statistics
Matches: 161, Mismatches: 16, Indels: 66
0.66 0.07 0.27
Matches are distributed among these distances:
1 22 0.14
2 120 0.75
3 18 0.11
4 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (2 bp):
TA
Found at i:633292 original size:5 final size:5
Alignment explanation
Indices: 633264--633492 Score: 97
Period size: 5 Copynumber: 44.6 Consensus size: 5
633254 ATATATGGTG
* * * *
633264 TATAG TATA- TATAT TATAA TATAT TATA- TAGTAT TATAT TATAT ACATGT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT -TATAT
* *
633314 TATAGAT TATAT TATA- TAGTAT ATATAT ATATAT TAGTAT CAGTTT TATAT
1 TAT--AT TATAT TATAT TA-TAT -TATAT -TATAT TA-TAT TA-TAT TATAT
*
633365 CAT-T ATATAT TATA- -ATAT TATAT TATAT AGTATAT TATA- TATAT
1 TATAT -TATAT TATAT TATAT TATAT TATAT --TATAT TATAT TATAT
* * * *
633409 TATTAT TACGTAT TATAA TAAAT ATATAT CATA- TATTAT T-TAT TATGTT
1 TA-TAT TA--TAT TATAT TATAT -TATAT TATAT TA-TAT TATAT TAT-AT
633458 TATTAT TATAT TATAT T-TAT TAT-T TA-AT TAT-T TAT
1 TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
633493 TGCAGGTCCA
Statistics
Matches: 175, Mismatches: 21, Indels: 57
0.69 0.08 0.23
Matches are distributed among these distances:
3 3 0.02
4 32 0.18
5 84 0.48
6 39 0.22
7 17 0.10
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:633387 original size:62 final size:60
Alignment explanation
Indices: 633264--633425 Score: 181
Period size: 62 Copynumber: 2.7 Consensus size: 60
633254 ATATATGGTG
* * *
633264 TATAGTATATA-TAT-TATA-ATATATTATATAGTATTATATTATATACATGTTATAGAT
1 TATATTATATAGTATATATATATATATTATATAGTATTATATCATATACATATTATAGAT
* * *
633321 TATATTATATAGTATATATATATATATTAGTATCAGTTTTATATCAT-TATATATTATAATAT
1 TATATTATATAGTATATATATATATATTA-TAT-AGTATTATATCATATACATATTAT-AGAT
633383 TATATTATATAGTATAT-TATATATATTATTATTACGTATTATA
1 TATATTATATAGTATATATATATATATTA-TA-TA-GTATTATA
633426 ATAAATATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
57 10 0.11
58 3 0.03
59 4 0.04
60 8 0.09
61 25 0.28
62 39 0.44
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (60 bp):
TATATTATATAGTATATATATATATATTATATAGTATTATATCATATACATATTATAGAT
Found at i:633396 original size:44 final size:39
Alignment explanation
Indices: 633240--633477 Score: 95
Period size: 39 Copynumber: 6.2 Consensus size: 39
633230 TTTTATATGT
** *
633240 ATATATTATATAGTATATATGGT-GTATAGTATATATATT
1 ATATATTATATA-TATATATATTAGTATATTATATATATT
*
633279 ATA-A-TATAT-TATATAGTA-T--TATATTATATACATGT
1 ATATATTATATATATATA-TATTAGTATATTATATATAT-T
*
633314 -TATA-GAT-TATAT-TATA-TAGTATATATATATATATT
1 ATATATTATATATATATATATTAGTATAT-TATATATATT
*
633349 AGTATCAGTTTTATATCATTATATATTA-TAATATTATAT-TATAT
1 A-TAT-A-TTATATAT-A-TATATATTAGT-ATATTATATATAT-T
*
633393 AGTATATTATATATAT-TATTATTACG--TATTATA-ATAAAT
1 A-TATATTATATATATATA-TATTA-GTATATTATATAT-ATT
* * *
633432 ATATATCATATAT-TATTTATTATGTTTATTAT-TATATT
1 ATATATTATATATATATATATTA-GTATATTATATATATT
633470 ATAT-TTAT
1 ATATATTAT
633478 TATTTAATTA
Statistics
Matches: 157, Mismatches: 14, Indels: 58
0.69 0.06 0.25
Matches are distributed among these distances:
33 3 0.02
34 17 0.11
35 20 0.13
36 9 0.06
37 18 0.11
38 20 0.13
39 23 0.15
40 8 0.05
41 4 0.03
42 8 0.05
43 5 0.03
44 16 0.10
45 6 0.04
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (39 bp):
ATATATTATATATATATATATTAGTATATTATATATATT
Found at i:633425 original size:27 final size:26
Alignment explanation
Indices: 633370--633435 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
633360 TATATCATTA
*
633370 TATATTATA-ATATTATATTATATAG
1 TATATTATATATATTATATTACATAG
* *
633395 TATATTATATATATTATTATTACGTAT
1 TATATTATATATATTA-TATTACATAG
* *
633422 TATAATAAATATAT
1 TATATTATATATAT
633436 ATCATATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 9 0.26
26 6 0.18
27 19 0.56
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TATATTATATATATTATATTACATAG
Found at i:633435 original size:36 final size:32
Alignment explanation
Indices: 633395--633481 Score: 86
Period size: 36 Copynumber: 2.6 Consensus size: 32
633385 TATTATATAG
633395 TATATTATATATATTATTATTACGTATTA-TAA
1 TATATTATATATATTATTATTACGT-TTATTAA
* *
633427 TAAATATATATCATATATTATTTATTATGTTTATTAT
1 T--ATAT-TAT-ATATATTA-TTATTACGTTTATTAA
*
633464 TATATTATATTTATTATT
1 TATATTATATATATTATT
633482 TAATTATTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
32 3 0.07
33 7 0.15
34 7 0.15
35 7 0.15
36 11 0.24
37 11 0.24
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (32 bp):
TATATTATATATATTATTATTACGTTTATTAA
Found at i:633443 original size:97 final size:96
Alignment explanation
Indices: 633271--633446 Score: 218
Period size: 97 Copynumber: 1.8 Consensus size: 96
633261 GTGTATAGTA
* * *
633271 TATATATTATAATATATTATATAGTATTATATTATATACATGTTATAGATTATATTATATAGTAT
1 TATATATTATAATATATTATATAGTAGTATATTATATA-ATATTATAGATTATATTATATAGAAT
633336 ATATATATATATTAGTATCAGTTTTATATCAT
65 ATATATATATATTAGTATCAGTTTTATATCAT
*
633368 TATATATTATAATAT-TATATTATA-TAGTATATTATAT-ATATTAT-TATTACGTATTATAATA
1 TATATATTATAATATAT-TA-TATAGTAGTATATTATATAATATTATAGATTA--TATTAT-ATA
633429 -AATATATATCATATATTA
61 GAATATATAT-ATATATTA
633447 TTTATTATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
94 4 0.06
95 6 0.09
96 15 0.22
97 40 0.58
98 4 0.06
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (96 bp):
TATATATTATAATATATTATATAGTAGTATATTATATAATATTATAGATTATATTATATAGAATA
TATATATATATTAGTATCAGTTTTATATCAT
Found at i:633468 original size:26 final size:25
Alignment explanation
Indices: 633445--633493 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
633435 TATCATATAT
*
633445 TATTTATTATGTTTATTATTATATTA
1 TATTTATTAT-TTAATTATTATATTA
633471 TATTTATTATTTAATTATT-TATT
1 TATTTATTATTTAATTATTATATT
633494 GCAGGTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 8 0.36
26 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TATTTATTATTTAATTATTATATTA
Found at i:635695 original size:15 final size:16
Alignment explanation
Indices: 635650--635697 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
635640 GATTAAAACC
635650 AAATCCCTAAAATTAT
1 AAATCCCTAAAATTAT
635666 AAATCCCTAAAATTAT
1 AAATCCCTAAAATTAT
635682 AAATCCCT-AAATTAT
1 AAATCCCTAAAATTAT
635697 A
1 A
635698 CGAAAGCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 8 0.25
16 24 0.75
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATCCCTAAAATTAT
Found at i:636269 original size:22 final size:21
Alignment explanation
Indices: 636243--636296 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
636233 GCCGGTCAGC
*
636243 TGAGCTGAGTCG-AGCCATAAGT
1 TGAGCTGAGCCGAAG-C-TAAGT
636265 TGAGCTGAGCCGCAAGCTAAGT
1 TGAGCTGAGCCG-AAGCTAAGT
636287 TGAGCTGAGC
1 TGAGCTGAGC
636297 TGTTGACTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 26 0.90
23 1 0.03
24 2 0.07
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.20
Consensus pattern (21 bp):
TGAGCTGAGCCGAAGCTAAGT
Found at i:636381 original size:23 final size:23
Alignment explanation
Indices: 636354--636410 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
636344 ATCGACCATT
*
636354 GACCACCTATTGACTTTTTACGA
1 GACCACCTATCGACTTTTTACGA
636377 GACCACCTATCGACTTTTTACGA
1 GACCACCTATCGACTTTTTACGA
636400 GACCACCTATC
1 GACCACCTATC
636411 CTGGAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (23 bp):
GACCACCTATCGACTTTTTACGA
Found at i:639812 original size:14 final size:14
Alignment explanation
Indices: 639793--639868 Score: 80
Period size: 14 Copynumber: 5.4 Consensus size: 14
639783 AAGTCAACAG
*
639793 GTTGACTCAGACGA
1 GTTGACTCAAACGA
* *
639807 GTTGACTCAAATGG
1 GTTGACTCAAACGA
* *
639821 GTTGATTCAAGCGA
1 GTTGACTCAAACGA
*
639835 GTTGACTCAAACGG
1 GTTGACTCAAACGA
*
639849 GTTGACTCAGATCGA
1 GTTGACTCA-AACGA
639864 GTTGA
1 GTTGA
639869 GTTGGTCGGG
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
14 41 0.84
15 8 0.16
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (14 bp):
GTTGACTCAAACGA
Found at i:639825 original size:28 final size:29
Alignment explanation
Indices: 639792--639868 Score: 113
Period size: 28 Copynumber: 2.7 Consensus size: 29
639782 AAAGTCAACA
*
639792 GGTTGACTCAGA-CGAGTTGACTCAAATG
1 GGTTGACTCAGAGCGAGTTGACTCAAACG
*
639820 GGTTGATTCA-AGCGAGTTGACTCAAACG
1 GGTTGACTCAGAGCGAGTTGACTCAAACG
*
639848 GGTTGACTCAGATCGAGTTGA
1 GGTTGACTCAGAGCGAGTTGA
639869 GTTGGTCGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.02
28 33 0.77
29 9 0.21
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (29 bp):
GGTTGACTCAGAGCGAGTTGACTCAAACG
Found at i:647807 original size:3 final size:3
Alignment explanation
Indices: 647793--647888 Score: 63
Period size: 3 Copynumber: 32.0 Consensus size: 3
647783 ATGGGGCATG
* * * *
647793 TAA TATA TAA TAA TAA TATT TAT TAA TAT TAA TAA AAA T-A TAA TAA
1 TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
647839 TAA TAA TAA -ATA TAA CAA TTA TAA TAA TTA TAA TTA TAA T-A TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
647883 AAA TAA
1 TAA TAA
647889 AATGGACCAA
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
2 5 0.07
3 60 0.85
4 6 0.08
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:648163 original size:39 final size:39
Alignment explanation
Indices: 648113--648211 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 39
648103 TTTGAACAAG
* * *
648113 TTCTTATTATGAACTTCTTCTTTATCCTTAGATGAGTTC
1 TTCTCATTATGAACTCCTTCTTTATCCTTAGATAAGTTC
*
648152 TTCTCATTATGAACTCCTTCTTTATCTTTAGATAAGTTC
1 TTCTCATTATGAACTCCTTCTTTATCCTTAGATAAGTTC
*
648191 TTCTCATTATGAAGTCCTTCT
1 TTCTCATTATGAACTCCTTCT
648212 GGAAATACTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.21, C:0.20, G:0.09, T:0.49
Consensus pattern (39 bp):
TTCTCATTATGAACTCCTTCTTTATCCTTAGATAAGTTC
Found at i:648449 original size:139 final size:138
Alignment explanation
Indices: 648147--648483 Score: 355
Period size: 139 Copynumber: 2.4 Consensus size: 138
648137 TCCTTAGATG
* * * *
648147 AGTTCTTCTCATTATGAA-CTCCTTCTTTATCTTTAGATAAGTTCTTCTCATTATGAA-GTCCTT
1 AGTTCATCTCATTATGAACCT-CTTCTTCATCTTCAGAT-AGTTCTTCTCATTATGAACTTCCTT
* * * * * * *
648210 CTGGAAATACTGATCCTTAAAAAGAGGTGTCGTTGATTCAACTTCATATGTCATGAATTAAGGCA
64 CTGAAAATACTGATCCTCAAAAAGAGGTGTCCTTCATTCAACTCCATAGGTCATGAATCAAGGCA
* *
648275 AGGTTGAACA
129 AAGTTAAACA
* * * *
648285 AGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTTTCATTATGAACTTCC-TC
1 AGTTCATCTCATTATGAACCTCTTCTTCATCTTCAGAT-AGTTCTTCTCATTATGAACTTCCTTC
* * *
648349 TGAAAATATTGATCCTCAAATA-AGGT-TCTTCTTCCATTCAACTCCATAGGTGATGAATCAA-G
65 TGAAAATACTGATCCTCAAAAAGAGGTGTC--CTT-CATTCAACTCCATAGGTCATGAATCAAGG
648411 CTAAAGTTAAACCA
127 C-AAAGTTAAA-CA
*
648425 A-TTCATCTCATTATGAACCTCTTCTTCATCTTCAGATATGTTATTCTCATTATGAACTT
1 AGTTCATCTCATTATGAACCTCTTCTTCATCTTCAGATA-GTTCTTCTCATTATGAACTT
648484 TATCTTGAAA
Statistics
Matches: 167, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
136 2 0.01
137 4 0.02
138 74 0.44
139 84 0.50
140 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (138 bp):
AGTTCATCTCATTATGAACCTCTTCTTCATCTTCAGATAGTTCTTCTCATTATGAACTTCCTTCT
GAAAATACTGATCCTCAAAAAGAGGTGTCCTTCATTCAACTCCATAGGTCATGAATCAAGGCAAA
GTTAAACA
Found at i:648753 original size:113 final size:113
Alignment explanation
Indices: 648526--648976 Score: 680
Period size: 113 Copynumber: 4.0 Consensus size: 113
648516 TCTGTGATAG
*
648526 ATTCAAGCAAAAGGTTGAACATGTTCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATGAGTT
1 ATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT
* * * *
648590 CTTCTCATTATGAACT-TCCTCTAGAAAAGTTGATCCATCGAGTGATGA
66 CTTCTCATTATGAACTCTAC-CTAGCAATGTTGATCCATCAAGTGATGA
* * *
648638 ATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTT
1 ATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT
648703 CTTCTCATTATGAACTCTACCTAGCAATGTTGATCCATCAAGTGATGA
66 CTTCTCATTATGAACTCTACCTAGCAATGTTGATCCATCAAGTGATGA
* *
648751 ATTCGAGCAAAAGGTTGAACAAGGTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT
1 ATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT
* * *
648816 TTTCTCATTATGAACTCTACCTGGCAATGATGATCCATCAAGTGATGA
66 CTTCTCATTATGAACTCTACCTAGCAATGTTGATCCATCAAGTGATGA
* *
648864 ATTCGAGCAAAGGGTTGAACAAGTTCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTT
1 ATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT
* ** *
648926 CTTCTCATTATGAACTCTACCTGGC-ATGTTGATCCATTGAGTGATGG
66 CTTCTCATTATGAACTCTACCTAGCAATGTTGATCCATCAAGTGATGA
648973 ATTC
1 ATTC
648977 GAATCTTTGC
Statistics
Matches: 314, Mismatches: 23, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
109 22 0.07
110 47 0.15
112 49 0.16
113 194 0.62
114 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (113 bp):
ATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT
CTTCTCATTATGAACTCTACCTAGCAATGTTGATCCATCAAGTGATGA
Found at i:660194 original size:3 final size:3
Alignment explanation
Indices: 660186--660276 Score: 85
Period size: 3 Copynumber: 30.3 Consensus size: 3
660176 TTGTAATATG
* * *
660186 TAA TAA TAA TATT TAT TAA TAA TAA TAA T-A TAA TAA TAA TTA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
660231 TAA TTA TAA TAA TTA TAA CAA TTA TAA TAA TTA TAA TTA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
660277 TAAAATAAAA
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.03
3 66 0.94
4 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:660230 original size:9 final size:9
Alignment explanation
Indices: 660186--660284 Score: 107
Period size: 9 Copynumber: 11.3 Consensus size: 9
660176 TTGTAATATG
*
660186 TAATAATAA
1 TAATTATAA
*
660195 TATTTATTAA
1 TAATTA-TAA
*
660205 TAATAATAA
1 TAATTATAA
*
660214 T-ATAATAA
1 TAATTATAA
660222 TAATTATAA
1 TAATTATAA
660231 TAATTATAA
1 TAATTATAA
660240 TAATTATAA
1 TAATTATAA
*
660249 CAATTATAA
1 TAATTATAA
660258 TAA-T-T-A
1 TAATTATAA
660264 TAATTATAA
1 TAATTATAA
*
660273 TAATTAAAA
1 TAATTATAA
660282 TAA
1 TAA
660285 AATGGGCTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
6 4 0.05
7 2 0.03
8 10 0.13
9 54 0.70
10 7 0.09
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (9 bp):
TAATTATAA
Found at i:662820 original size:45 final size:45
Alignment explanation
Indices: 662756--663118 Score: 600
Period size: 45 Copynumber: 8.1 Consensus size: 45
662746 AATTATACAC
* *
662756 TTTCAACTATAGAATACTTTTCTGTTGATAATGCACCCATTTGCA
1 TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
*
662801 TTTCAACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCA
1 TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
* * *
662846 TTTCAACTATAGCATACTTGTATGTTGATAATGCACCCATATACA
1 TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
* *
662891 TTTTAACTATAGCATGCTTTTCTGTTGATAATGCACCCATATGCA
1 TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
**
662936 TTTCAACTATAATATACTTTTCTGTTGATAATGCACCCATATGCA
1 TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
* * *
662981 TTTCAACTATAGCATATTTTTCTGTTGATAATGTACCCATATACA
1 TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
663026 TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
1 TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
*
663071 TTTCAACTATAGCATACTTTTCTGTTGATAATGTACCCATATGCA
1 TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
663116 TTT
1 TTT
663119 TTATTTTCAT
Statistics
Matches: 294, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 294 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (45 bp):
TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
Found at i:663555 original size:20 final size:20
Alignment explanation
Indices: 663527--663568 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
663517 CTGGTTCCAA
* *
663527 AGTATCGATACTACTACCCT
1 AGTACCGATACTACTACACT
*
663547 AGTACCGATACTTCTACACT
1 AGTACCGATACTACTACACT
663567 AG
1 AG
663569 GGTATCGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (20 bp):
AGTACCGATACTACTACACT
Found at i:663789 original size:96 final size:95
Alignment explanation
Indices: 663589--663789 Score: 203
Period size: 96 Copynumber: 2.1 Consensus size: 95
663579 CCCCTTCATG
*
663589 GTATCGATACCAAAATTAAGTTCGATGTTTCATGGTATCGATACCCTTAACATGGTACCAATACT
1 GTATCGATACCAAAATTAAGTTCGATGTTTCATGGTATCGATACCCTTAACATGGTACCAATAAT
* * * * *
663654 ACCCTTCTATGGTACTGATACTCCTTTACG
66 ACCCTTCAACGGTACTGATACTCATTAACA
* * * * *
663684 GTATAGATACCAAAATTATA-TTCGATGTTTTCTTGGTATCGATACCCTT-CCGATGGTATCGAT
1 GTATCGATACCAAAATTA-AGTTCGATG-TTTCATGGTATCGATACCCTTAAC-ATGGTACCAAT
* * *
663747 AAT-GCC-TCAACGGTATTGATACTTATTGAATCA
63 AATACCCTTCAACGGTACTGATACTCATT-AA-CA
663780 GTATCGATAC
1 GTATCGATAC
663790 TATCCAACAA
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
94 16 0.19
95 28 0.33
96 42 0.49
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (95 bp):
GTATCGATACCAAAATTAAGTTCGATGTTTCATGGTATCGATACCCTTAACATGGTACCAATAAT
ACCCTTCAACGGTACTGATACTCATTAACA
Found at i:669846 original size:45 final size:45
Alignment explanation
Indices: 669765--670101 Score: 523
Period size: 45 Copynumber: 7.5 Consensus size: 45
669755 ATTGATATTT
*
669765 ATAATGCA-CCATTATGCACTTTCAACTATAGAATACTTTTCTGTTG
1 ATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTTCTGTTG
*
669811 ATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTGTTG
1 ATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTG
* **
669856 ATAATGCACCCGTATGCATTTCAACTATAATATACTTTTCTGTTG
1 ATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTG
* **
669901 ATAATACACCCATATGCATTTCAACTATAATATACTTTTCTGTTG
1 ATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTG
669946 ATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTG
1 ATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTG
* * *
669991 ATAATGTACCCATATACATTTCAACTATAGCATACTTTTCAGTTG
1 ATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTG
*
670036 ATAATGCACCCATATGCATTTCAACTATAACATACTTTTCTGTTG
1 ATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTG
* *
670081 ATAATGTACCCGTATGCATTT
1 ATAATGCACCCATATGCATTT
670102 TTATTTTCAT
Statistics
Matches: 273, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
45 256 0.94
46 14 0.05
47 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTG
Found at i:670648 original size:22 final size:21
Alignment explanation
Indices: 670621--670661 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
670611 TACCCTAAAC
670621 ATGGTACCAATACTACCCTTCT
1 ATGGTACCAATACT-CCCTTCT
* *
670643 ATGGTATCGATACTCCCTT
1 ATGGTACCAATACTCCCTT
670662 ACGGTATCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.34
Consensus pattern (21 bp):
ATGGTACCAATACTCCCTTCT
Found at i:670725 original size:20 final size:20
Alignment explanation
Indices: 670700--670749 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
670690 TGTTTTTTTG
670700 GTATCGATACCCTTACGATA
1 GTATCGATACCCTTACGATA
*
670720 GTATCGATACCCTTACGATG
1 GTATCGATACCCTTACGATA
670740 GTATCGATAC
1 GTATCGATAC
670750 TGCCTCAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (20 bp):
GTATCGATACCCTTACGATA
Found at i:672936 original size:28 final size:27
Alignment explanation
Indices: 672905--672973 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
672895 TATGGACATC
*
672905 TTACACTTCAAGGGTATTTTGGTTATTT
1 TTACACTT-AAGGGCATTTTGGTTATTT
* *
672933 TTACGCTTTAGGGCATTTTGGTTATTT
1 TTACACTTAAGGGCATTTTGGTTATTT
*
672960 TTACGCTTATAGGG
1 TTACACTTA-AGGG
672974 GTAATTTCGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 25 0.69
28 11 0.31
ACGTcount: A:0.19, C:0.12, G:0.22, T:0.48
Consensus pattern (27 bp):
TTACACTTAAGGGCATTTTGGTTATTT
Found at i:672945 original size:27 final size:28
Alignment explanation
Indices: 672915--672973 Score: 102
Period size: 27 Copynumber: 2.1 Consensus size: 28
672905 TTACACTTCA
*
672915 AGGGTATTTTGGTTATTTTTACGCTT-T
1 AGGGCATTTTGGTTATTTTTACGCTTAT
672942 AGGGCATTTTGGTTATTTTTACGCTTAT
1 AGGGCATTTTGGTTATTTTTACGCTTAT
672970 AGGG
1 AGGG
672974 GTAATTTCGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.49
Consensus pattern (28 bp):
AGGGCATTTTGGTTATTTTTACGCTTAT
Found at i:673957 original size:12 final size:12
Alignment explanation
Indices: 673940--673968 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
673930 TTATTTTAGT
673940 CCTTAACTTTTC
1 CCTTAACTTTTC
673952 CCTTAACTTTTC
1 CCTTAACTTTTC
673964 CCTTA
1 CCTTA
673969 TTACGACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.48
Consensus pattern (12 bp):
CCTTAACTTTTC
Found at i:675334 original size:15 final size:16
Alignment explanation
Indices: 675306--675337 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
675296 GATTAGAACG
675306 AAATCCCTAAAATTAT
1 AAATCCCTAAAATTAT
675322 AAATCCC-AAAATTAT
1 AAATCCCTAAAATTAT
675337 A
1 A
675338 CGAAAGCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATCCCTAAAATTAT
Found at i:682766 original size:20 final size:20
Alignment explanation
Indices: 682743--682781 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
682733 AAATCCTCAA
*
682743 TTTAATCCATACCAATCACT
1 TTTAATCCACACCAATCACT
* *
682763 TTTATTCCACATCAATCAC
1 TTTAATCCACACCAATCAC
682782 CATTTTCAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAATCCACACCAATCACT
Found at i:683764 original size:3 final size:3
Alignment explanation
Indices: 683756--683814 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
683746 TGTATGTATG
683756 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
683804 TAT TAT TAT TA
1 TAT TAT TAT TA
683815 AATACACCCG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:684655 original size:23 final size:24
Alignment explanation
Indices: 684625--684671 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
684615 AGAAGCCAGA
684625 GAGAAAAA-TTCTCTCTTTTTAGG
1 GAGAAAAATTTCTCTCTTTTTAGG
684648 GAGAAAAATTTTCTCTCTTTTTAG
1 GAGAAAAA-TTTCTCTCTTTTTAG
684672 AGTGAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.36
25 14 0.64
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (24 bp):
GAGAAAAATTTCTCTCTTTTTAGG
Found at i:687042 original size:45 final size:47
Alignment explanation
Indices: 686960--687049 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 47
686950 GTAGTATAAT
*
686960 TTTACTTTTCGAATAAATGTATGAGAACTAGAAATCATGCAGTTAGG
1 TTTACTTTTCAAATAAATGTATGAGAACTAGAAATCATGCAGTTAGG
* * * * *
687007 TTTATTTTTCAAAT-AA-GTATGCGAATTAGATATCATGCGGTTA
1 TTTACTTTTCAAATAAATGTATGAGAACTAGAAATCATGCAGTTA
687050 AGATTGTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
45 23 0.62
46 2 0.05
47 12 0.32
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (47 bp):
TTTACTTTTCAAATAAATGTATGAGAACTAGAAATCATGCAGTTAGG
Found at i:694193 original size:18 final size:18
Alignment explanation
Indices: 694170--694205 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
694160 CTGAGTCATC
*
694170 GGATGCTCCACAGCATTG
1 GGATGCTACACAGCATTG
*
694188 GGATGCTACATAGCATTG
1 GGATGCTACACAGCATTG
694206 AAATGCTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (18 bp):
GGATGCTACACAGCATTG
Found at i:701894 original size:27 final size:27
Alignment explanation
Indices: 701856--701917 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
701846 TGTTTCATAT
*
701856 GCTTCATTGTATGATTTATCTAGTAAA
1 GCTTCATTGTATGATTTATCTAGCAAA
*
701883 GCTTCATTGTATGATTTATGTAGCAAA
1 GCTTCATTGTATGATTTATCTAGCAAA
*
701910 GCTCCATT
1 GCTTCATT
701918 TGCTGAAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (27 bp):
GCTTCATTGTATGATTTATCTAGCAAA
Found at i:703736 original size:90 final size:90
Alignment explanation
Indices: 703620--703797 Score: 329
Period size: 90 Copynumber: 2.0 Consensus size: 90
703610 TAATCCCGAA
* *
703620 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
703685 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
703710 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
*
703775 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
703798 GTGTGTTAGG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (90 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
TAGGGTAACTTGGATATAAAAGGAT
Found at i:705291 original size:18 final size:18
Alignment explanation
Indices: 705265--705299 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
705255 CCGAGTCATC
*
705265 GGATGCTCCACAGCATTA
1 GGATACTCCACAGCATTA
*
705283 GGATACTCCATAGCATT
1 GGATACTCCACAGCATT
705300 GAAATGCTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (18 bp):
GGATACTCCACAGCATTA
Found at i:712400 original size:21 final size:21
Alignment explanation
Indices: 712376--712415 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
712366 CAAAGAGATT
*
712376 AGGATTAGGAATTGGATTTTG
1 AGGATTAGGAAGTGGATTTTG
*
712397 AGGATTTGGAAGTGGATTT
1 AGGATTAGGAAGTGGATTT
712416 GGTTGACAGT
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:0.00, G:0.35, T:0.38
Consensus pattern (21 bp):
AGGATTAGGAAGTGGATTTTG
Found at i:717039 original size:22 final size:21
Alignment explanation
Indices: 716997--717036 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
716987 GAGCTTATTT
*
716997 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
717018 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
717037 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:724742 original size:58 final size:58
Alignment explanation
Indices: 724588--725331 Score: 1148
Period size: 58 Copynumber: 12.7 Consensus size: 58
724578 ATTAAGTGTA
* * * * *
724588 CAAAAAGTTAAGAAATTCATACCAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTG
1 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
* * * *
724646 CAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGAACTTTATGTG
1 CAAAAA-GATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
* *
724705 CAAAAAGACAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGACACTTTATGTG
1 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
*
724763 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTATGTG
1 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
724821 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
1 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
* *
724879 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTCATGTG
1 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
* * * * *
724937 CAAAAAGATAAGAAACTCATACAAAGTGTCTAAATTTTCGTATTGGGCACTTTGTGTG
1 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
* * * * * *
724995 CAAAAATGTTAAAAAATTCATACTAAGTGTCTGAATTTCCGTATTGGGCACTTTGTGTA
1 CAAAAA-GATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
* *
725054 CAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
1 CAAAAA-GATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
725113 -AAAAATGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
1 CAAAAA-GATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
*
725171 CAAAAAGATAAGAAACTCATGCTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
1 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
* *
725229 CAAAAAGATAAGAAACTCATGCTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTA
1 CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
*
725287 CAAAAAGATAAAAAAAACTCATACTAAGTGTATGAATTTCCGTAT
1 CAAAAAGAT--AAGAAACTCATACTAAGTGTATGAATTTCCGTAT
725332 GGGAAATATA
Statistics
Matches: 640, Mismatches: 41, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
58 450 0.70
59 158 0.25
60 32 0.05
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.32
Consensus pattern (58 bp):
CAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG
Found at i:725470 original size:408 final size:405
Alignment explanation
Indices: 724600--725338 Score: 1140
Period size: 408 Copynumber: 1.8 Consensus size: 405
724590 AAAAGTTAAG
* ** * * * * *
724600 AAATTCATACCAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAATGTTAAGAAATTC
1 AAATTCATACTAAGTGTCGGAATTTCCGCACTGGGCACTTTGTATACAAAAATGTTAAGAAATTC
*
724665 ATACTAAGTGTATGAATTTCTGTATTGGGAACTTTATGTGCAAAAAGACAAGAAACTCATACTAA
66 ATACTAAGTGTATGAATTTCCGTATTGGGAACTTTATGTGCAAAAAGACAAGAAACTCATACTAA
724730 GTGTATGAATTTCCGTATTGGACACTTTATGTGCAAAAAGATAAGAAACTCATACTAAGTGTATG
131 GTGTATGAATTTCCGTATTGGACACTTTATGTGCAAAAAGATAAGAAACTCATACTAAGTGTATG
724795 AATTTCCATATTGGGCACTTTATGTGCAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCC
196 AATTTCCATATTGGGCACTTTATGTGCAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCC
* * *
724860 GTATTGGGCACTTTATGTGCAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCTGTATTGG
261 GTATTGGGCACTTTATGTACAAAAAGATAAAAAACTCATACTAAGTGTATGAATTTCCGTATTGG
* * * * * * *
724925 GCACTTCATGTGCAAAAAGATAAGAAACTCATACAAAGTGTCTAAATTTTCGTATTGGGCACTTT
326 GAAATTCATGTGCAAAAAGATAAGAAACTCATACAAAGAGTCTAAATTGTCATATT-GGCACGTG
*
724990 GTGTGCAAAAATGTTAAA
390 GTGAGCAAAAATGTT--A
* * * *
725008 AAATTCATACTAAGTGTCTGAATTTCCGTATTGGGCACTTTGTGTACAAAAATGTTAAGAAATTC
1 AAATTCATACTAAGTGTCGGAATTTCCGCACTGGGCACTTTGTATACAAAAATGTTAAGAAATTC
* *
725073 ATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTG-AAAAATGATAAGAAACTCATACTA
66 ATACTAAGTGTATGAATTTCCGTATTGGGAACTTTATGTGCAAAAA-GACAAGAAACTCATACTA
* *
725137 AGTGTATGAATTTCCGTATTGGGCACTTTATGTGCAAAAAGATAAGAAACTCATGCTAAGTGTAT
130 AGTGTATGAATTTCCGTATTGGACACTTTATGTGCAAAAAGATAAGAAACTCATACTAAGTGTAT
* *
725202 GAATTTCCGTATTGGGCACTTTATGTGCAAAAAGATAAGAAACTCATGCTAAGTGTATGAATTTC
195 GAATTTCCATATTGGGCACTTTATGTGCAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTC
725267 CGTATTGGGCACTTTATGTACAAAAAGATAAAAAAAACTCATACTAAGTGTATGAATTTCCGTA-
260 CGTATTGGGCACTTTATGTACAAAAAGAT--AAAAAACTCATACTAAGTGTATGAATTTCCGTAT
725331 TGGGAAAT
323 TGGGAAAT
725339 ATATGTGAAA
Statistics
Matches: 312, Mismatches: 16, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
407 5 0.02
408 270 0.87
409 6 0.02
410 31 0.10
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (405 bp):
AAATTCATACTAAGTGTCGGAATTTCCGCACTGGGCACTTTGTATACAAAAATGTTAAGAAATTC
ATACTAAGTGTATGAATTTCCGTATTGGGAACTTTATGTGCAAAAAGACAAGAAACTCATACTAA
GTGTATGAATTTCCGTATTGGACACTTTATGTGCAAAAAGATAAGAAACTCATACTAAGTGTATG
AATTTCCATATTGGGCACTTTATGTGCAAAAAGATAAGAAACTCATACTAAGTGTATGAATTTCC
GTATTGGGCACTTTATGTACAAAAAGATAAAAAACTCATACTAAGTGTATGAATTTCCGTATTGG
GAAATTCATGTGCAAAAAGATAAGAAACTCATACAAAGAGTCTAAATTGTCATATTGGCACGTGG
TGAGCAAAAATGTTA
Found at i:725658 original size:68 final size:68
Alignment explanation
Indices: 725549--725683 Score: 234
Period size: 68 Copynumber: 2.0 Consensus size: 68
725539 ATTAATAGGA
* *
725549 CTAACTGTGCATTTGACAGAAAGTTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
1 CTAACTGTGCATTTGACAGAAAATTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
725614 GGC
66 GGC
* *
725617 CTAACTGTGCATTTGACAGAAAATTGTAATTTATGCCAGTTAGATGAAAGGTTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAATTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
725682 GG
66 GG
725684 TCTTTGTAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAAATTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
GGC
Found at i:727654 original size:26 final size:26
Alignment explanation
Indices: 727625--727685 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
727615 GAAGGAGAAT
727625 ATAAATGATGTGAATACAAGTATAGA
1 ATAAATGATGTGAATACAAGTATAGA
727651 ATAAATGATGTGAATACAAGTATAGA
1 ATAAATGATGTGAATACAAGTATAGA
*
727677 AAAAATGAT
1 ATAAATGAT
727686 ATATATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.52, C:0.03, G:0.18, T:0.26
Consensus pattern (26 bp):
ATAAATGATGTGAATACAAGTATAGA
Found at i:728243 original size:23 final size:23
Alignment explanation
Indices: 728175--728243 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
728165 CAATCTTATA
728175 TGGCACTTTGGTGCATTTCTACG
1 TGGCACTTTGGTGCATTTCTACG
* * ** * *
728198 CGACACTACGGTACAATTCTACG
1 TGGCACTTTGGTGCATTTCTACG
*
728221 TGGCACTTTGGTGCATTTATACG
1 TGGCACTTTGGTGCATTTCTACG
728244 AGTTGTGGTG
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (23 bp):
TGGCACTTTGGTGCATTTCTACG
Found at i:729223 original size:81 final size:80
Alignment explanation
Indices: 729084--729325 Score: 274
Period size: 81 Copynumber: 3.0 Consensus size: 80
729074 GTGCCTTTGA
* * * **
729084 GGCCTAACTGTGCAATTGACAAAAAAGTGTTAATTATGCTAGTTAGATGAACGGTTAAATACTGT
1 GGCCTAACTGTGCAATTGACAGAAAAGTGTCAATTATGCAAGTTAGATGAA-AATTAAATACTGT
729149 TGAGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
* * * *
729165 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATAATTAAACACTGT
1 GGCCTAACTGTGCAATTGACAGAAAAGTGTCAATTATGCAAGTTAGATGAA-AATTAAATACTGT
729230 TGAGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
* * * * *
729246 GGACTATA-TGTGCATTTGACAGAAAAGTGTCAAATATTCAAGTTA-AGTGAAAAGCTAAATACC
1 GGCCTA-ACTGTGCAATTGACAGAAAAGTGTCAATTATGCAAGTTAGA-TGAAAA-TTAAATA-C
*
729309 T-TTGGGTAAAAGAATAA
62 TGTTGAGTAAAAGAATAA
729326 AGAAATTATA
Statistics
Matches: 138, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
80 3 0.02
81 132 0.96
82 3 0.02
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (80 bp):
GGCCTAACTGTGCAATTGACAGAAAAGTGTCAATTATGCAAGTTAGATGAAAATTAAATACTGTT
GAGTAAAAGAATAAT
Found at i:741668 original size:24 final size:24
Alignment explanation
Indices: 741641--741694 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
741631 TTCTCATTTT
* * *
741641 CTAATTCCTCCTCTTTCAAAATCC
1 CTAACTCCTCCCCGTTCAAAATCC
741665 CTAACTCCTCCCCGTTCAAAATCC
1 CTAACTCCTCCCCGTTCAAAATCC
741689 CTAACT
1 CTAACT
741695 GAGGTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.41, G:0.02, T:0.31
Consensus pattern (24 bp):
CTAACTCCTCCCCGTTCAAAATCC
Found at i:746827 original size:24 final size:24
Alignment explanation
Indices: 746795--746848 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
746785 TTCTCATTTT
746795 CTAACTCATCCTCGTTCAAAATCC
1 CTAACTCATCCTCGTTCAAAATCC
746819 CTAACTCATCCTCGTTCAAAATCC
1 CTAACTCATCCTCGTTCAAAATCC
746843 CTAACT
1 CTAACT
746849 GAGGTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.37, G:0.04, T:0.30
Consensus pattern (24 bp):
CTAACTCATCCTCGTTCAAAATCC
Found at i:748097 original size:30 final size:30
Alignment explanation
Indices: 748063--748149 Score: 156
Period size: 30 Copynumber: 2.9 Consensus size: 30
748053 AAAAAATATC
748063 AATTTGAAACCTATATTGCCTCATGTATAA
1 AATTTGAAACCTATATTGCCTCATGTATAA
748093 AATTTGAAACCTATATTGCCTCATGTATAA
1 AATTTGAAACCTATATTGCCTCATGTATAA
* *
748123 AATTTGAAACCTATATTACCACATGTA
1 AATTTGAAACCTATATTGCCTCATGTA
748150 CCATTTCATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (30 bp):
AATTTGAAACCTATATTGCCTCATGTATAA
Found at i:753086 original size:30 final size:30
Alignment explanation
Indices: 753045--753108 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
753035 CAACACAATC
753045 CCCCAACATTTA-TTCTGTTTGCAATATGGT
1 CCCCAACATTTAGTT-TGTTTGCAATATGGT
*
753075 CCCCAATATTTAGTTTGTTTGCAATATGGT
1 CCCCAACATTTAGTTTGTTTGCAATATGGT
753105 CCCC
1 CCCC
753109 GATCGTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (30 bp):
CCCCAACATTTAGTTTGTTTGCAATATGGT
Found at i:755087 original size:30 final size:31
Alignment explanation
Indices: 755048--755112 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
755038 CAAACGGCCA
* *
755048 GGGACCATATTGCAAACAAACTATATGTTG-
1 GGGAACATATTGCAAACAAACTAAATGTTGT
**
755078 GGGAACATATTGCAAACGGACTAAATGTTGT
1 GGGAACATATTGCAAACAAACTAAATGTTGT
755109 GGGA
1 GGGA
755113 CTGTATTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (31 bp):
GGGAACATATTGCAAACAAACTAAATGTTGT
Found at i:755136 original size:29 final size:29
Alignment explanation
Indices: 755099--755197 Score: 94
Period size: 29 Copynumber: 3.3 Consensus size: 29
755089 GCAAACGGAC
*
755099 TAAATGTTGTGGGACTGTATTGCAAGTTT
1 TAAAAGTTGTGGGACTGTATTGCAAGTTT
* * *
755128 TAAAAGTTG-GGAGACCT-AAATGAAAGCTTT
1 TAAAAGTTGTGG-GA-CTGTATTGCAAG-TTT
*
755158 AGAAAAGTTTGTGGGACTGTATTGCAAGTTT
1 -TAAAAG-TTGTGGGACTGTATTGCAAGTTT
755189 TAAAAGTTG
1 TAAAAGTTG
755198 GGAGACCTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
28 2 0.04
29 19 0.35
30 10 0.19
31 10 0.19
32 11 0.20
33 2 0.04
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (29 bp):
TAAAAGTTGTGGGACTGTATTGCAAGTTT
Found at i:755165 original size:31 final size:31
Alignment explanation
Indices: 755129--755227 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 31
755119 TGCAAGTTTT
755129 AAAAGTTGGGAGACCTAAATGAAAGCTTTAG
1 AAAAGTTGGGAGACCTAAATGAAAGCTTTAG
* * * *
755160 AAAAGTTTGTGG-GA-CTGTATTGCAAG-TTT-T
1 AAAAG-TTG-GGAGACCT-AAATGAAAGCTTTAG
755190 AAAAGTTGGGAGACCTAAATGAAAGCTTTAG
1 AAAAGTTGGGAGACCTAAATGAAAGCTTTAG
755221 AAAAGTT
1 AAAAGTT
755228 CAATGACCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
28 2 0.04
29 11 0.21
30 10 0.19
31 17 0.32
32 11 0.21
33 2 0.04
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAAGTTGGGAGACCTAAATGAAAGCTTTAG
Found at i:755170 original size:61 final size:61
Alignment explanation
Indices: 755105--755227 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
755095 GGACTAAATG
755105 TTGTGGGACTGTATTGCAAGTTTTAAAAGTTGGGAGACCTAAATGAAAGCTTTAGAAAAGT
1 TTGTGGGACTGTATTGCAAGTTTTAAAAGTTGGGAGACCTAAATGAAAGCTTTAGAAAAGT
755166 TTGTGGGACTGTATTGCAAGTTTTAAAAGTTGGGAGACCTAAATGAAAGCTTTAGAAAAGT
1 TTGTGGGACTGTATTGCAAGTTTTAAAAGTTGGGAGACCTAAATGAAAGCTTTAGAAAAGT
755227 T
1 T
755228 CAATGACCAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (61 bp):
TTGTGGGACTGTATTGCAAGTTTTAAAAGTTGGGAGACCTAAATGAAAGCTTTAGAAAAGT
Found at i:764265 original size:15 final size:15
Alignment explanation
Indices: 764241--764270 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
764231 TCAAACAATG
764241 CAGTGCAGAAAAAAA
1 CAGTGCAGAAAAAAA
*
764256 CAGTGTAGAAAAAAA
1 CAGTGCAGAAAAAAA
764271 TAGATTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.10, G:0.20, T:0.10
Consensus pattern (15 bp):
CAGTGCAGAAAAAAA
Found at i:767046 original size:21 final size:21
Alignment explanation
Indices: 767011--767065 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 21
767001 AAGTCTTCTA
*
767011 TATCTCAATTTATTTTATTTTTT
1 TATCTC-A-TTATTTAATTTTTT
767034 TAT-TCACTTATTTAATTTTTT
1 TATCTCA-TTATTTAATTTTTT
767055 TATCTCATTAT
1 TATCTCATTAT
767066 ATTTCTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 21 0.72
22 5 0.17
23 3 0.10
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (21 bp):
TATCTCATTATTTAATTTTTT
Found at i:767069 original size:18 final size:19
Alignment explanation
Indices: 767025--767074 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
767015 TCAATTTATT
767025 TTATTTTTTTATTCACTTA
1 TTATTTTTTTATTCACTTA
767044 TTTAATTTTTTTATCTCA-TTA
1 -TT-ATTTTTTTAT-TCACTTA
*
767065 -TATTTCTTTA
1 TTATTTTTTTA
767075 AACAATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.30
19 1 0.04
20 2 0.07
21 13 0.48
22 3 0.11
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTTTTATTCACTTA
Found at i:779988 original size:139 final size:139
Alignment explanation
Indices: 779692--780335 Score: 1024
Period size: 139 Copynumber: 4.6 Consensus size: 139
779682 TACTATTCAC
* * *
779692 GTGAAGGCGCGTTCCCGGGGGTGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTTCCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTTCCCT
* * *
779757 ATTATGTCACTCATGT-CCTCGGGGGCACTATTCATATCAGTACATATTATTTCTGAGCGTACTT
66 ATTATGTCACTCATGTCCCTCGGGGGCACTATTCATATCAGTACCTATTATTTCTGAGGGGACTT
779821 GGCAAAGTG
131 GGCAAAGTG
* *
779830 GTGAAAGCGCGTTCCCGGGGGCGAGCCTTCAATTATTTTTTCAGAGAATATGTTATCATTTCCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTTCCCT
* *
779895 ATTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTT
66 ATTATGTCACTCATGTCCCTCGGGGGCACTATTCATATCAGTACCTATTATTTCTGAGGGGACTT
*
779960 GGTAAAGTG
131 GGCAAAGTG
* * **
779969 GTGAAAGCGAGTTCTCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGACCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTTCCCT
* * *
780034 ATTATGTCACTCATGTCCCTTGGGGACACTATTCATATCAGTACCTATTATTTCTAAGGGGACTT
66 ATTATGTCACTCATGTCCCTCGGGGGCACTATTCATATCAGTACCTATTATTTCTGAGGGGACTT
780099 GGCAAAGTG
131 GGCAAAGTG
* * *
780108 GTGAAAGCGCGTTCTCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGCACT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTTCCCT
* * *
780173 ATTATGTCACTCATGTCCCTC-GGGGCACTATTCATGTCAGTACCTATTATTTATGAGGAGACTT
66 ATTATGTCACTCATGTCCCTCGGGGGCACTATTCATATCAGTACCTATTATTTCTGAGGGGACTT
780237 GGCAAAGTG
131 GGCAAAGTG
*
780246 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGT-TC
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATT-TCCC
*
780310 TATTATGTCACTCATGTCCCCCGGGG
65 TATTATGTCACTCATGTCCCTCGGGG
780336 AACTATAGAT
Statistics
Matches: 467, Mismatches: 36, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
138 204 0.44
139 263 0.56
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (139 bp):
GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTTCCCT
ATTATGTCACTCATGTCCCTCGGGGGCACTATTCATATCAGTACCTATTATTTCTGAGGGGACTT
GGCAAAGTG
Found at i:780222 original size:277 final size:278
Alignment explanation
Indices: 779692--780341 Score: 1054
Period size: 277 Copynumber: 2.3 Consensus size: 278
779682 TACTATTCAC
* * * **
779692 GTGAAGGCGCGTTCCCGGGGGTGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTTCCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGACCT
* * *
779757 ATTATGTCACTCATGT-CCTCGGGGGCACTATTCATATCAGTACATATTATTTCTGAGCGTACTT
66 ATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACATATTATTTCTAAGCGGACTT
*
779821 GGCAAAGTGGTGAAAGCGCGTTCCCGGGGGCGAGCCTTCAATTATTTTTTCAGAGAATATGTTAT
131 GGCAAAGTGGTGAAAGCGCGTTCCCGGGGGCGAGCCTTCAATTATTTTGTCAGAGAATATGTTAT
* * *
779886 CATTTCCCTATTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATTTCTG
196 CATTGCACTATTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATTTATG
* *
779951 AGGGGACTTGGTAAAGTG
261 AGGAGACTTGGCAAAGTG
* *
779969 GTGAAAGCGAGTTCTCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGACCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGACCT
* * *
780034 ATTATGTCACTCATGTCCCTTGGGGACACTATTCATATCAGTACCTATTATTTCTAAGGGGACTT
66 ATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACATATTATTTCTAAGCGGACTT
* *
780099 GGCAAAGTGGTGAAAGCGCGTTCTCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTAT
131 GGCAAAGTGGTGAAAGCGCGTTCCCGGGGGCGAGCCTTCAATTATTTTGTCAGAGAATATGTTAT
*
780164 CATTGCACTATTATGTCACTCATGTCCCTC-GGGGCACTATTCATGTCAGTACCTATTATTTATG
196 CATTGCACTATTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATTTATG
780228 AGGAGACTTGGCAAAGTG
261 AGGAGACTTGGCAAAGTG
**
780246 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGTTCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGACCT
*
780311 ATTATGTCACTCATGTCCCCCGGGGA-ACTAT
66 ATTATGTCACTCATGTCCCTCGGGGACACTAT
780342 AGATGGATGG
Statistics
Matches: 344, Mismatches: 28, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
276 5 0.01
277 208 0.60
278 131 0.38
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (278 bp):
GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTTGTCAGAGAATATGTTATCATTGACCT
ATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACATATTATTTCTAAGCGGACTT
GGCAAAGTGGTGAAAGCGCGTTCCCGGGGGCGAGCCTTCAATTATTTTGTCAGAGAATATGTTAT
CATTGCACTATTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATTTATG
AGGAGACTTGGCAAAGTG
Found at i:780514 original size:23 final size:23
Alignment explanation
Indices: 780478--780578 Score: 65
Period size: 23 Copynumber: 4.7 Consensus size: 23
780468 GTGAAGTTTA
* *
780478 AATAAGTTGGATAAAATGTTATG
1 AATAAATTGAATAAAATGTTATG
780501 AATAAATTGAAT-AAATGTTAAGTG
1 AATAAATTGAATAAAATGTT-A-TG
* *
780525 -ATCAATTG-GT----TGTT-TG
1 AATAAATTGAATAAAATGTTATG
* *
780541 AATATATTGGATAAAATGTTATG
1 AATAAATTGAATAAAATGTTATG
*
780564 GATAAATTGAATAAA
1 AATAAATTGAATAAA
780579 TGTGAAGTGA
Statistics
Matches: 59, Mismatches: 10, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
16 2 0.03
17 6 0.10
18 1 0.02
19 4 0.07
22 12 0.20
23 32 0.54
24 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.37
Consensus pattern (23 bp):
AATAAATTGAATAAAATGTTATG
Found at i:780572 original size:40 final size:41
Alignment explanation
Indices: 780494--780572 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 41
780484 TTGGATAAAA
*
780494 TGTTATGAATAAATTGAATAAATGTTAAGTGATCAATTGGT
1 TGTTATGAATAAATTGAATAAATGTTAAGTGATAAATTGGT
* * *
780535 TGTT-TGAATATATTGGATAAAATGTTATG-GATAAATTG
1 TGTTATGAATAAATTGAAT-AAATGTTAAGTGATAAATTG
780573 AATAAATGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 20 0.61
41 13 0.39
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.41
Consensus pattern (41 bp):
TGTTATGAATAAATTGAATAAATGTTAAGTGATAAATTGGT
Found at i:780829 original size:34 final size:34
Alignment explanation
Indices: 780790--780862 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
780780 TTAAGTTGAA
*
780790 TTTAATGTTAAATTTTGAATACCATAATTTGTAT
1 TTTAATGTTAAATTTGGAATACCATAATTTGTAT
* *
780824 TTTAATTTTAAATTTGGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTGGAATACCATAATTTGTAT
*
780858 ATTAA
1 TTTAA
780863 AAACATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (34 bp):
TTTAATGTTAAATTTGGAATACCATAATTTGTAT
Found at i:781395 original size:21 final size:22
Alignment explanation
Indices: 781371--781418 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
781361 GGTGTCATAA
**
781371 AACCCT-GCCGGCTAGTCATGT
1 AACCCTGGCCGGCTAGGAATGT
*
781392 AA-CCTGGCGGGCTAGGAATGT
1 AACCCTGGCCGGCTAGGAATGT
781413 AACCCT
1 AACCCT
781419 ACGGAGATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 16 0.73
22 3 0.14
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (22 bp):
AACCCTGGCCGGCTAGGAATGT
Found at i:783044 original size:28 final size:30
Alignment explanation
Indices: 782980--783046 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
782970 TCATTTTCCT
782980 AAATAATATGCATTATAAAAATTTATAATTA
1 AAATAATATGCATTAT-AAAATTTATAATTA
* *
783011 ATATAA-ATTCATTAT-AAATTTA-AATTAA
1 AAATAATATGCATTATAAAATTTATAATT-A
783039 AAATAATA
1 AAATAATA
783047 ATAAATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 4 0.13
28 13 0.42
29 1 0.03
30 8 0.26
31 5 0.16
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (30 bp):
AAATAATATGCATTATAAAATTTATAATTA
Found at i:786294 original size:26 final size:26
Alignment explanation
Indices: 786264--786347 Score: 118
Period size: 26 Copynumber: 3.3 Consensus size: 26
786254 CCTATTTCAT
786264 TTAAAAAACTCTAAATTATTTTAATA
1 TTAAAAAACTCTAAATTATTTTAATA
* ** *
786290 TTAAAAAATTCTAAACCATTTTAACA
1 TTAAAAAACTCTAAATTATTTTAATA
786316 -T-AAAAACTCTAAATTATTTTAATA
1 TTAAAAAACTCTAAATTATTTTAATA
786340 TTAAAAAA
1 TTAAAAAA
786348 ATTCTAAACC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 19 0.40
25 2 0.04
26 27 0.56
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (26 bp):
TTAAAAAACTCTAAATTATTTTAATA
Found at i:786328 original size:50 final size:51
Alignment explanation
Indices: 786267--786375 Score: 211
Period size: 51 Copynumber: 2.2 Consensus size: 51
786257 ATTTCATTTA
786267 AAAAACTCTAAATTATTTTAATATT-AAAAAATTCTAAACCATTTTAACAT
1 AAAAACTCTAAATTATTTTAATATTAAAAAAATTCTAAACCATTTTAACAT
786317 AAAAACTCTAAATTATTTTAATATTAAAAAAATTCTAAACCATTTTAACAT
1 AAAAACTCTAAATTATTTTAATATTAAAAAAATTCTAAACCATTTTAACAT
786368 AAAAACTC
1 AAAAACTC
786376 AACCTTAAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 25 0.43
51 33 0.57
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (51 bp):
AAAAACTCTAAATTATTTTAATATTAAAAAAATTCTAAACCATTTTAACAT
Found at i:786370 original size:26 final size:26
Alignment explanation
Indices: 786266--786372 Score: 110
Period size: 26 Copynumber: 4.2 Consensus size: 26
786256 TATTTCATTT
** * *
786266 AAAAAACTCTAAATTATTTTAATATT
1 AAAAAACTCTAAACCATTTTAACATA
*
786292 AAAAAATTCTAAACCATTTTAACAT-
1 AAAAAACTCTAAACCATTTTAACATA
** *
786317 -AAAAACTCTAAATTATTTTAATATTA
1 AAAAAACTCTAAACCATTTTAACA-TA
*
786343 AAAAAATTCTAAACCATTTTAACATA
1 AAAAAACTCTAAACCATTTTAACATA
786369 AAAA
1 AAAA
786373 CTCAACCTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
24 19 0.29
25 1 0.02
26 27 0.41
27 19 0.29
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAAAACTCTAAACCATTTTAACATA
Found at i:786825 original size:21 final size:21
Alignment explanation
Indices: 786777--786826 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
786767 ATGACTATCT
786777 CAATGCGATTTTCCAATTTCG
1 CAATGCGATTTTCCAATTTCG
**
786798 CGTTGCGATTTTCCCAA-TTCG
1 CAATGCGATTTT-CCAATTTCG
786819 CAATGCGA
1 CAATGCGA
786827 ATAAGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (21 bp):
CAATGCGATTTTCCAATTTCG
Found at i:786841 original size:20 final size:21
Alignment explanation
Indices: 786816--786867 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
786806 TTTTCCCAAT
*
786816 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
786836 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
786857 TCGCAATGCGA
1 TCGCAATGCGA
786868 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:786880 original size:41 final size:41
Alignment explanation
Indices: 786853--787030 Score: 155
Period size: 40 Copynumber: 4.4 Consensus size: 41
786843 GCGAATTTGG
*
786853 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATTC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATTC
* *
786894 AAAATCGCAACGCGATACTGACTTTCGCAACGCGAT-ATTG
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATTC
*** * * * *
786934 ACTTTCGCAACGCGATTCTGACTTTCGTAACGCGAT--TCTG
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAAT-TC
*** * * * *
786974 ACTTTCGCAACGAGATTCTGACTATCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATTC
* *
787015 AGAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
787031 TTTCAAAGTT
Statistics
Matches: 115, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 68 0.59
41 45 0.39
42 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATTC
Found at i:786881 original size:20 final size:20
Alignment explanation
Indices: 786856--787010 Score: 157
Period size: 20 Copynumber: 7.7 Consensus size: 20
786846 AATTTGGAAA
*
786856 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * **
786876 ATCGCAACGCGATAATTCAAA
1 ATCGCAACGCGAT-ACTGACT
786897 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
786917 TTCGCAACGCGATATTGACT
1 ATCGCAACGCGATACTGACT
* *
786937 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
786957 TTCGTAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
786977 TTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
786997 ATCGCAACGAGATA
1 ATCGCAACGCGATA
787011 ATACAGAATC
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
20 100 0.86
21 16 0.14
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:786955 original size:40 final size:40
Alignment explanation
Indices: 786857--787010 Score: 175
Period size: 40 Copynumber: 3.8 Consensus size: 40
786847 ATTTGGAAAA
* * ***
786857 TCGCAATGCGATACTGACTATCGCAACGCGATAATTCAAAA
1 TCGCAACGCGATACTGACTATCGCAACGCGAT-ATTGACTT
*
786898 TCGCAACGCGATACTGACTTTCGCAACGCGATATTGACTT
1 TCGCAACGCGATACTGACTATCGCAACGCGATATTGACTT
* * *
786938 TCGCAACGCGATTCTGACTTTCGTAACGCGAT-TCTGACTT
1 TCGCAACGCGATACTGACTATCGCAACGCGATAT-TGACTT
* * *
786978 TCGCAACGAGATTCTGACTATCGCAACGAGATA
1 TCGCAACGCGATACTGACTATCGCAACGCGATA
787011 ATACAGAATC
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 68 0.69
41 30 0.30
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (40 bp):
TCGCAACGCGATACTGACTATCGCAACGCGATATTGACTT
Found at i:787767 original size:24 final size:24
Alignment explanation
Indices: 787740--787793 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
787730 GTATTCGAAA
*
787740 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
787764 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
787788 TTTGAT
1 TTTGAT
787794 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:787985 original size:12 final size:12
Alignment explanation
Indices: 787968--787992 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
787958 ATATAATCCT
787968 GAAGAAGAAAAA
1 GAAGAAGAAAAA
787980 GAAGAAGAAAAA
1 GAAGAAGAAAAA
787992 G
1 G
787993 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:788589 original size:20 final size:20
Alignment explanation
Indices: 788522--788614 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
788512 GGCAATCATT
788522 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACACGGAAA
**
788542 TGACGT-TCGCAATCATC-TTAA
1 TGAC-TATCGCAA-CA-CGGAAA
* *
788563 TGTCTATCGCAACGCGGAAA
1 TGACTATCGCAACACGGAAA
*
788583 TGACTATCGCAATAC-GAAA
1 TGACTATCGCAACACGGAAA
**
788602 TGAAAATCGCAAC
1 TGACTATCGCAAC
788615 GAGAGAATCG
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
19 15 0.27
20 26 0.46
21 14 0.25
22 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (20 bp):
TGACTATCGCAACACGGAAA
Found at i:788625 original size:14 final size:14
Alignment explanation
Indices: 788606--788660 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
788596 ACGAAATGAA
788606 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
788620 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
788639 AATCGCAACGAGAG
1 AATCGCAACGAGAG
788653 AATCGCAA
1 AATCGCAA
788661 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:788634 original size:33 final size:33
Alignment explanation
Indices: 788588--788714 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
788578 GGAAATGACT
*
788588 ATCGCAATACGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
788621 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
788654 ATCGCAATGCGAAATGAAAATCGCAACAAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
788687 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
788715 CGAATTTAGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:788710 original size:19 final size:19
Alignment explanation
Indices: 788568--788718 Score: 82
Period size: 19 Copynumber: 8.7 Consensus size: 19
788558 CTTAATGTCT
* **
788568 ATCGCAACGCGGAAATGACT
1 ATCGCAAAGC-GAAATGAAA
788588 ATCGCAATA-CGAAATGAAA
1 ATCGCAA-AGCGAAATGAAA
*
788607 ATCGC-AA-CG--A-GAGA
1 ATCGCAAAGCGAAATGAAA
*
788621 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
788640 ATCGC-AA-CG--A-GAGA
1 ATCGCAAAGCGAAATGAAA
*
788654 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
**
788673 ATCGC-AA-C--AA-GGGA
1 ATCGCAAAGCGAAATGAAA
788687 ATCGCAAAGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
788706 ATCGCAACGCGAA
1 ATCGCAAAGCGAA
788719 TTTAGTTTCG
Statistics
Matches: 99, Mismatches: 16, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
14 23 0.23
15 8 0.08
16 5 0.05
17 6 0.06
18 7 0.07
19 42 0.42
20 8 0.08
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
ATCGCAAAGCGAAATGAAA
Found at i:788746 original size:19 final size:19
Alignment explanation
Indices: 788724--788822 Score: 92
Period size: 19 Copynumber: 5.7 Consensus size: 19
788714 GCGAATTTAG
*
788724 TTTCGCGTTGCAATTTTCA
1 TTTCGCGTTGCGATTTTCA
788743 TTTCGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
788759 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
788776 TTTCGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
788792 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
788809 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
788823 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.31
16 6 0.09
17 6 0.09
19 32 0.50
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:788767 original size:14 final size:14
Alignment explanation
Indices: 788748--788804 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
788738 TTTCATTTCG
788748 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
788762 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
788781 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
788795 CGTTGCGATT
1 CGTTGCGATT
788805 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:788773 original size:33 final size:33
Alignment explanation
Indices: 788729--788822 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
788719 TTTAGTTTCG
*
788729 CGTTGCAATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
788762 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
788795 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
788823 AGTCATTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:788948 original size:14 final size:14
Alignment explanation
Indices: 788929--788965 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
788919 CATCAATTAA
788929 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
788943 ACAAATCATCTTTT
1 ACAAATCAACTTTT
788957 ACAAATCAA
1 ACAAATCAA
788966 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:790090 original size:12 final size:12
Alignment explanation
Indices: 790073--790097 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
790063 CAAATAGATA
790073 TCATCGTTGAGC
1 TCATCGTTGAGC
790085 TCATCGTTGAGC
1 TCATCGTTGAGC
790097 T
1 T
790098 TGCATATGTC
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:0.24, G:0.24, T:0.36
Consensus pattern (12 bp):
TCATCGTTGAGC
Found at i:790393 original size:21 final size:21
Alignment explanation
Indices: 790327--790393 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
790317 GTGAATCGGG
*
790327 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
790347 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
790369 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
790390 CTCT
1 CTCT
790394 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:790883 original size:19 final size:19
Alignment explanation
Indices: 790843--790899 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
790833 TCTGGAACTT
*
790843 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
790864 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
790883 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
790900 CCAAAAGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 20 0.65
21 11 0.35
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:790905 original size:19 final size:19
Alignment explanation
Indices: 790867--790905 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
790857 AAAAATGACT
**
790867 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAACCAAA
790886 ATCGCAACGCGAAACCAAA
1 ATCGCAACGCGAAACCAAA
790905 A
1 A
790906 GATAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.26, G:0.18, T:0.08
Consensus pattern (19 bp):
ATCGCAACGCGAAACCAAA
Found at i:791104 original size:94 final size:94
Alignment explanation
Indices: 790998--791373 Score: 593
Period size: 94 Copynumber: 4.1 Consensus size: 94
790988 ATGGATTGCA
* * *
790998 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTTAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
791062 TTAGCAGAATTGGCACCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
791091 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
791156 TTAGCAGAATTGGCAGTAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
791185 TTACTTTCAACCAAAAGATAAAAAAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
791250 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
791279 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
791339 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
791369 TTACT
1 TTACT
791374 AAGCAATCTA
Statistics
Matches: 266, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
90 41 0.15
93 21 0.08
94 204 0.77
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:793131 original size:19 final size:19
Alignment explanation
Indices: 793046--793138 Score: 72
Period size: 20 Copynumber: 5.1 Consensus size: 19
793036 TCTTTTGGTT
*
793046 GAAATG-AAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
793064 GATAATGAAAATCGCAACAC
1 GA-AATGAAAATCGCAACGC
**
793084 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
793102 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
793118 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
793137 GA
1 GA
793139 TTTTGGTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
14 9 0.15
15 1 0.02
16 2 0.03
17 1 0.02
18 4 0.07
19 18 0.31
20 22 0.37
21 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:793806 original size:20 final size:20
Alignment explanation
Indices: 793723--793810 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
793713 ATTATGTAAA
793723 TCGCATTGCGATAGTTA-G-AT
1 TCGCATTGCGAT--TTACGTAT
* *
793743 TCGTATTCCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
** *
793763 TCGCATTGCGATTTATTTAA
1 TCGCATTGCGATTTACGTAT
* *
793783 TCGCGTTGCTATTTACGTAT
1 TCGCATTGCGATTTACGTAT
793803 TCGCATTG
1 TCGCATTG
793811 AGAATTATGA
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
18 3 0.06
19 1 0.02
20 49 0.92
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:794767 original size:3 final size:3
Alignment explanation
Indices: 794759--794813 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
794749 GTGATAATCC
794759 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
794807 CTT CTT C
1 CTT CTT C
794814 AGGTCATCAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:794982 original size:3 final size:3
Alignment explanation
Indices: 794974--795028 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
794964 TCTCTTTGTA
794974 TCT TCT TCT TCT TCT TCT TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
795021 TCT TCT TC
1 TCT TCT TC
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Done.