Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_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: 5101972
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 26
Found at i:766771 original size:20 final size:20
Alignment explanation
Indices: 766746--766803 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
766736 AGGTACACTT
*
766746 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
766766 TCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAA
*
766786 TCGCAACGCGAAAGTCAA
1 TCGCAACGCGAAACTCAA
766804 TTCGCGTTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.14
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:766930 original size:94 final size:94
Alignment explanation
Indices: 766772--767004 Score: 265
Period size: 94 Copynumber: 2.5 Consensus size: 94
766762 AAAATCGCAA
* * * * * * * *
766772 TGCGAAAGTCAAAATCGCAACGCGAAAGTC-AATTCGCGTTGCGATAGTCTAATATACTTTGCGA
1 TGCGATAGTCAAATTCGCGATGCGATAGTCAAATTCGCGTTGCGATAGTCAAATATACATGGCGA
*
766836 TTTTCT-CGTTGTGATAGTCAAATTCGAGT
66 TTTT-TGCGTTGCGATAGTCAAATTCGAGT
* ** * * *
766865 TGTGATAGTCAAATTCTTGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAAT-TCGCATGGCG
1 TGCGATAGTCAAATTCGCGATGCGATAGTCAAATTCGCGTTGCGATAGTCAAATAT-ACATGGCG
* *
766929 ATTTTTGCGTTGCGATAGTCATATTCGCGT
65 ATTTTTGCGTTGCGATAGTCAAATTCGAGT
*
766959 TGCGATAGTCAAATTCGCGATGCGATAGTCAAATTCGCATTGCGAT
1 TGCGATAGTCAAATTCGCGATGCGATAGTCAAATTCGCGTTGCGAT
767005 TTTTAAGTTG
Statistics
Matches: 114, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
93 23 0.20
94 91 0.80
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (94 bp):
TGCGATAGTCAAATTCGCGATGCGATAGTCAAATTCGCGTTGCGATAGTCAAATATACATGGCGA
TTTTTGCGTTGCGATAGTCAAATTCGAGT
Found at i:766946 original size:74 final size:74
Alignment explanation
Indices: 766862--767046 Score: 280
Period size: 74 Copynumber: 2.5 Consensus size: 74
766852 GTCAAATTCG
* ** * *
766862 AGTTGTGATAGTCAAATTCTTGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCATGG
1 AGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGATGCGATAGTCAAATTCGCATGG
*
766927 CGATTTTTG
66 CGATTTTTA
* * *
766936 CGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGATGCGATAGTCAAATTCGCATTG
1 AGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGATGCGATAGTCAAATTCGCATGG
767001 CGATTTTTA
66 CGATTTTTA
*
767010 AGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 AGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
767047 GAATGTGTAA
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 99 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (74 bp):
AGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGATGCGATAGTCAAATTCGCATGG
CGATTTTTA
Found at i:766996 original size:20 final size:20
Alignment explanation
Indices: 766842--767046 Score: 182
Period size: 20 Copynumber: 10.8 Consensus size: 20
766832 GCGATTTTCT
*
766842 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
766862 AGTTGTGATAGTCAAATTCT
1 CGTTGCGATAGTCAAATTCG
*
766882 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
766902 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
766922 CATGGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
*
766936 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
766956 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
766976 CGATGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
766996 CATTGCGAT--T----TTTA
1 CGTTGCGATAGTCAAATTCG
*
767010 AGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
767030 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
767047 GAATGTGTAA
Statistics
Matches: 149, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
14 19 0.13
16 2 0.01
18 2 0.01
20 126 0.85
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:769301 original size:14 final size:14
Alignment explanation
Indices: 769282--769318 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
769272 TCCCGTGGTA
769282 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
769296 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
769310 TTCTTCTTC
1 TT-TTCTTC
769319 TTCTTCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:769547 original size:24 final size:24
Alignment explanation
Indices: 769520--769566 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
769510 CAAAATCCGA
769520 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
769544 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
769567 AATACCGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:770411 original size:20 final size:20
Alignment explanation
Indices: 770386--770515 Score: 100
Period size: 20 Copynumber: 6.5 Consensus size: 20
770376 TTGAAATTCA
*
770386 GCGTTGCGACAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
*
770406 GCGTTGCAATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
*
770426 GCGTTGCGATAGTTAGAATC
1 GCGTTGCGATAGTCAGAATC
* * * * *
770446 ACGTTGTGAT-TTACATATTC
1 GCGTTGCGATAGT-CAGAATC
* ** *
770466 GCATTGCGATTTTCTAAAATC
1 GCGTTGCGATAGTC-AGAATC
** *
770487 GCAATGCGATAGTCAAAATC
1 GCGTTGCGATAGTCAGAATC
770507 GCGTTGCGA
1 GCGTTGCGA
770516 ATCTGGAAAC
Statistics
Matches: 87, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
19 1 0.01
20 69 0.79
21 17 0.20
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGAATC
Found at i:771511 original size:2 final size:2
Alignment explanation
Indices: 771504--771542 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
771494 ATATGATTTA
771504 AT AT AT AT 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 AT AT AT AT A
771543 CAACAACAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:771550 original size:3 final size:3
Alignment explanation
Indices: 771542--771566 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
771532 ATATATATAT
771542 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
771567 AACCCAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:773557 original size:23 final size:23
Alignment explanation
Indices: 773530--773582 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
773520 AAATATTATA
*
773530 TTTTAATTAAATTATATTTAGAT
1 TTTTAATTAAATTATAATTAGAT
* * *
773553 TTTTAACTAATTTATAATTATAT
1 TTTTAATTAAATTATAATTAGAT
*
773576 ATTTAAT
1 TTTTAAT
773583 ATTTTATAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTAATTAAATTATAATTAGAT
Found at i:773601 original size:22 final size:23
Alignment explanation
Indices: 773554--773601 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
773544 TATTTAGATT
*
773554 TTTAACTAATTTATAATTATATA
1 TTTAACTAATTTATAATTATACA
* *
773577 TTTAA-TATTTTATAATTTTACA
1 TTTAACTAATTTATAATTATACA
773599 TTT
1 TTT
773602 TGTAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAACTAATTTATAATTATACA
Found at i:774031 original size:21 final size:21
Alignment explanation
Indices: 774002--774048 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
773992 ATTCTGACTA
774002 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
774023 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
774044 TCGCA
1 TCGCA
774049 AAGCAAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:774069 original size:20 final size:20
Alignment explanation
Indices: 774044--774116 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
774034 TTTTCCTAAT
* *
774044 TCGCAAAGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
774064 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
774084 TCGCAATGCGAATACGAAAA
1 TCGCAATGCGAATACGTAAA
*
774104 TCGCAACGCGAAT
1 TCGCAATGCGAAT
774117 CTGACTATCG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.16
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:774126 original size:20 final size:20
Alignment explanation
Indices: 774103--774229 Score: 200
Period size: 20 Copynumber: 6.3 Consensus size: 20
774093 GAATACGAAA
*
774103 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
* *
774123 ATCGCAATGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
*
774143 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
774163 ATAGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
774183 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
774203 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
774223 ATCGCAA
1 ATCGCAA
774230 TACTGAATTT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 100 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:774127 original size:40 final size:41
Alignment explanation
Indices: 774083--774214 Score: 137
Period size: 40 Copynumber: 3.3 Consensus size: 41
774073 GAATACGTAA
774083 ATCGCAATGCGAATAC-GAAAATCGCAACGCGAATCTGACT
1 ATCGCAATGCGAATACTGAAAATCGCAACGCGAATCTGACT
** * *
774123 ATCGCAATGCGAAT-CTGACTATCGCAACGAGATTCTGACT
1 ATCGCAATGCGAATACTGAAAATCGCAACGCGAATCTGACT
* * ** *
774163 ATAGCAA--CGAGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAATGCGA-ATACTGAAAATCGCAACGCGAATCTGACT
*
774203 ATCGCAACGCGA
1 ATCGCAATGCGA
774215 TTCTGACTAT
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
38 3 0.04
39 3 0.04
40 71 0.89
42 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (41 bp):
ATCGCAATGCGAATACTGAAAATCGCAACGCGAATCTGACT
Found at i:774147 original size:60 final size:61
Alignment explanation
Indices: 774083--774214 Score: 153
Period size: 60 Copynumber: 2.2 Consensus size: 61
774073 GAATACGTAA
* * *
774083 ATCGCAATGCGA-ATAC-GAAAATCGCAACGCGAATCTGACTATCGCAATGCGAATCTGACT
1 ATCGCAA-GCGAGATACTGAAAATAGCAACGAGAATCTGACTATCGCAACGCGAATCTGACT
* ** * *
774143 ATCGCAA-CGAGATTCTGACTATAGCAACGAGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAAGCGAGATACTGAAAATAGCAACGAGAATCTGACTATCGCAACGCGAATCTGACT
774203 ATCGCAACGCGA
1 ATCGCAA-GCGA
774215 TTCTGACTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
58 3 0.05
59 3 0.05
60 51 0.85
62 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (61 bp):
ATCGCAAGCGAGATACTGAAAATAGCAACGAGAATCTGACTATCGCAACGCGAATCTGACT
Found at i:775098 original size:24 final size:24
Alignment explanation
Indices: 775071--775124 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
775061 GTATTCGAAA
775071 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
775095 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
775119 TTTGAT
1 TTTGAT
775125 GATTTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:776019 original size:13 final size:13
Alignment explanation
Indices: 776001--776028 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
775991 ATCGCCATTG
776001 GTAACTTAACAGA
1 GTAACTTAACAGA
776014 GTAACTTAACAGA
1 GTAACTTAACAGA
776027 GT
1 GT
776029 TTTTTAACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (13 bp):
GTAACTTAACAGA
Found at i:786819 original size:24 final size:24
Alignment explanation
Indices: 786792--786845 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
786782 CCTGCTCACC
*
786792 ACCACCTTGGGCACCTCCGGAAGA
1 ACCACCTTGGGCACCACCGGAAGA
786816 ACCACCTTGGGCACCACCGGAAGA
1 ACCACCTTGGGCACCACCGGAAGA
786840 ACCACC
1 ACCACC
786846 AGACATGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.28, C:0.41, G:0.22, T:0.09
Consensus pattern (24 bp):
ACCACCTTGGGCACCACCGGAAGA
Found at i:790662 original size:30 final size:26
Alignment explanation
Indices: 790596--790649 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
790586 GTAAACTACA
790596 TTTTTTTAGTATCTAAAATATTAAGT
1 TTTTTTTAGTATCTAAAATATTAAGT
790622 TTTTTTTAGTATCTAAAATATT-AGT
1 TTTTTTTAGTATCTAAAATATTAAGT
790647 TTT
1 TTT
790650 GGTCCGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.57
Consensus pattern (26 bp):
TTTTTTTAGTATCTAAAATATTAAGT
Found at i:792528 original size:42 final size:42
Alignment explanation
Indices: 792482--792563 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
792472 TTTCTTGCTG
792482 ACACCTTTTAAAAACAACAATACTAAAATTACATTGTGCTAC
1 ACACCTTTTAAAAACAACAATACTAAAATTACATTGTGCTAC
792524 ACACCTTTTAAAAACAACAATACTAAAATTACATTGTGCT
1 ACACCTTTTAAAAACAACAATACTAAAATTACATTGTGCT
792564 TAGTAGCGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (42 bp):
ACACCTTTTAAAAACAACAATACTAAAATTACATTGTGCTAC
Found at i:799103 original size:88 final size:90
Alignment explanation
Indices: 798948--799125 Score: 288
Period size: 88 Copynumber: 2.0 Consensus size: 90
798938 GTATCTTTGA
* *
798948 TTAACTGAAGTGCATACTTCCTTTGATTCAAAAAATATACATTCCTTTGACCTCAATACTTCAAT
1 TTAAATGAAGTGCATACTTCATTTGATTCAAAAAATATACATTCCTTTGACCTCAATACTTCAAT
799013 TCCCAAGAAATAC-TTAAGTTCACC
66 TCCCAAGAAATACTTTAAGTTCACC
* * * *
799037 TTAAATGAAGTGCATACTTTATTTTATTC-AAAAGTATACCTTCCTTTGACCTCAATACTTCAAT
1 TTAAATGAAGTGCATACTTCATTTGATTCAAAAAATATACATTCCTTTGACCTCAATACTTCAAT
799101 TCCCAAGAAATACTTTAAGTTCACC
66 TCCCAAGAAATACTTTAAGTTCACC
799126 CAAATCCTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 46 0.56
89 36 0.44
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.35
Consensus pattern (90 bp):
TTAAATGAAGTGCATACTTCATTTGATTCAAAAAATATACATTCCTTTGACCTCAATACTTCAAT
TCCCAAGAAATACTTTAAGTTCACC
Found at i:806183 original size:22 final size:21
Alignment explanation
Indices: 806141--806180 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
806131 GAGTTTATTT
*
806141 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
806162 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
806181 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:816105 original size:71 final size:69
Alignment explanation
Indices: 815925--816144 Score: 293
Period size: 69 Copynumber: 3.2 Consensus size: 69
815915 TGCAACCTCA
* ** * * *
815925 CCTCTCTTTCTCGGTTGGATATCTTCAACTGTCAGAAGCTTCATTCCATACCGGAAAAGACGTTC
1 CCTCTCTTTCT-GGTTGAATATCAGCAAATGTCCGAAGCTTCAGTCCATACCGGAAAAGACGTTC
815990 CTT-C
65 CTTCC
* *
815994 CCTCTCTTTCTGAGTTGAATATCAG-AAACTGTCCGAAGCTTCAGTCCGTACCGGCAAAGACGTT
1 CCTCTCTTTCTG-GTTGAATATCAGCAAA-TGTCCGAAGCTTCAGTCCATACCGGAAAAGACGTT
816058 CCTTCC
64 CCTTCC
816064 CTCTCTCTTTCTGTGTTGAATATCAGCAAATGTCCGAAGCTTCAGTCCATACCGGAAAAGACGTT
1 C-CTCTCTTTCTG-GTTGAATATCAGCAAATGTCCGAAGCTTCAGTCCATACCGGAAAAGACGTT
816129 CC-TCC
64 CCTTCC
*
816134 CATCTCTTTCT
1 CCTCTCTTTCT
816145 CGTTTGTACA
Statistics
Matches: 134, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
68 3 0.02
69 64 0.48
70 6 0.04
71 58 0.43
72 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (69 bp):
CCTCTCTTTCTGGTTGAATATCAGCAAATGTCCGAAGCTTCAGTCCATACCGGAAAAGACGTTCC
TTCC
Found at i:819483 original size:21 final size:21
Alignment explanation
Indices: 819459--819505 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
819449 TCTCTTCATG
* *
819459 AAAAGATTAAATCCTTTTATC
1 AAAAGAATAAATCCTTTAATC
*
819480 AAAAGAATAAGTCCTTTAATC
1 AAAAGAATAAATCCTTTAATC
*
819501 GAAAG
1 AAAAG
819506 GTTATGTCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.30
Consensus pattern (21 bp):
AAAAGAATAAATCCTTTAATC
Found at i:820289 original size:9 final size:9
Alignment explanation
Indices: 820275--820316 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
820265 AGAAACAAAT
820275 ATTTCACTA
1 ATTTCACTA
*
820284 ATTTCACTC
1 ATTTCACTA
*
820293 ACTTCA-T-
1 ATTTCACTA
820300 ATTTCACTA
1 ATTTCACTA
820309 ATTTCACT
1 ATTTCACT
820317 CACTTCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
7 5 0.18
8 2 0.07
9 21 0.75
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTTCACTA
Found at i:820306 original size:25 final size:25
Alignment explanation
Indices: 820273--820330 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
820263 CAAGAAACAA
820273 ATATTTCACTAATTTCACTCACTTC
1 ATATTTCACTAATTTCACTCACTTC
820298 ATATTTCACTAATTTCACTCACTTC
1 ATATTTCACTAATTTCACTCACTTC
820323 ATATTTCA
1 ATATTTCA
820331 TTTCAACTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATTTCACTAATTTCACTCACTTC
Found at i:822369 original size:17 final size:17
Alignment explanation
Indices: 822334--822372 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
822324 AAATTTTTTA
822334 TTATT-TTAATAAAATT
1 TTATTATTAATAAAATT
822350 TTATTATTAACTAAAA-T
1 TTATTATTAA-TAAAATT
822367 TTATTA
1 TTATTA
822373 AAACAACGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 11 0.52
18 5 0.24
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATTATTAATAAAATT
Found at i:823322 original size:69 final size:69
Alignment explanation
Indices: 823237--823392 Score: 249
Period size: 69 Copynumber: 2.3 Consensus size: 69
823227 TTCAACACCA
* *
823237 CCTCTCTTTCTGAGTTGAATATCTACAACTGTCCGAAGCTTCTGTCCATACCGGCAAAGACATTC
1 CCTCTCTTTCTCAGTTGAATATCTACAACTGTCCGAAGCTTCAGTCCATACCGGCAAAGACATTC
823302 CTTC
66 CTTC
* * * *
823306 TCTCTCTTTCTCAGTTGCATATCTTCAACTGTCCGAAGCTTCAGTCCATACCGGCAAAGACGTTC
1 CCTCTCTTTCTCAGTTGAATATCTACAACTGTCCGAAGCTTCAGTCCATACCGGCAAAGACATTC
823371 CTTC
66 CTTC
*
823375 CCTCTCTTTCTCATTTGA
1 CCTCTCTTTCTCAGTTGA
823393 CCATTCGACG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 78 1.00
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (69 bp):
CCTCTCTTTCTCAGTTGAATATCTACAACTGTCCGAAGCTTCAGTCCATACCGGCAAAGACATTC
CTTC
Found at i:829592 original size:10 final size:10
Alignment explanation
Indices: 829560--829585 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
829550 ACTATATGTT
829560 ATGCAATGAA
1 ATGCAATGAA
829570 ATGCAATGAA
1 ATGCAATGAA
829580 ATGCAA
1 ATGCAA
829586 CTAAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (10 bp):
ATGCAATGAA
Found at i:835715 original size:24 final size:24
Alignment explanation
Indices: 835686--835735 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
835676 TGGTGGTTGA
*
835686 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
835710 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
835734 TT
1 TT
835736 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:837698 original size:24 final size:24
Alignment explanation
Indices: 837669--837718 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
837659 TGGTGGTTGA
*
837669 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
837693 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
837717 TT
1 TT
837719 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:838225 original size:20 final size:19
Alignment explanation
Indices: 838191--838228 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
838181 CACGTGAGGA
838191 TTATTTTCTTCTTATTTAT
1 TTATTTTCTTCTTATTTAT
*
838210 TTATTTATCTTTTTATTTA
1 TTATTT-TCTTCTTATTTA
838229 CTGTTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTTCTTCTTATTTAT
Found at i:847952 original size:24 final size:24
Alignment explanation
Indices: 847923--847972 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
847913 TGGTGGTTGA
*
847923 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
847947 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
847971 TT
1 TT
847973 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:854707 original size:34 final size:36
Alignment explanation
Indices: 854660--854761 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
854650 TTTCGTCCTA
*
854660 CTAGGATTGAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
854695 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
854730 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
854762 GTTCTACTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 29 0.48
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:855187 original size:34 final size:33
Alignment explanation
Indices: 855115--855210 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 33
855105 TTTTTCCTAC
*
855115 TTTATT-ATTCTTATTATATATGCATAT-TACTT
1 TTTATTAATT-TTATTATATATGTATATATACTT
* **
855147 TCTATTAATTTTATTATATATGTATATATGTTTT
1 TTTATTAATTTTATTATATATGTATATAT-ACTT
* * *
855181 TTTATTAGTGTTATTATATATATATATATA
1 TTTATTAATTTTATTATATATGTATATATA
855211 TATATATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
32 21 0.40
33 4 0.08
34 27 0.52
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.59
Consensus pattern (33 bp):
TTTATTAATTTTATTATATATGTATATATACTT
Found at i:855200 original size:2 final size:2
Alignment explanation
Indices: 855195--855227 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
855185 TTAGTGTTAT
855195 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
855228 TTCTTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:855353 original size:16 final size:18
Alignment explanation
Indices: 855332--855366 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
855322 TTTACTCATT
855332 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
855348 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
855366 T
1 T
855367 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:858589 original size:22 final size:21
Alignment explanation
Indices: 858564--858650 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 21
858554 TCAAGAACAA
858564 AAAAGAAAAGAAGAAAAAAAGC
1 AAAAGAAAA-AAGAAAAAAAGC
* * *
858586 AAAAAAAACAAAGAAAAAGAGA
1 AAAAGAAA-AAAGAAAAAAAGC
858608 AACAAGAACAAAAGGAAAAAAGAGC
1 AA-AAGAA-AAAA-GAAAAAA-AGC
858633 AAAA-ATCAAAAAGAAAAA
1 AAAAGA--AAAAAGAAAAA
858651 GGGACAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
22 19 0.37
23 15 0.29
24 13 0.25
25 5 0.10
ACGTcount: A:0.77, C:0.07, G:0.15, T:0.01
Consensus pattern (21 bp):
AAAAGAAAAAAGAAAAAAAGC
Found at i:858625 original size:16 final size:17
Alignment explanation
Indices: 858556--858636 Score: 56
Period size: 16 Copynumber: 4.6 Consensus size: 17
858546 AGATCCAATC
*
858556 AAGAACAAAAAAGAAAA
1 AAGAACAAAAGAGAAAA
* *
858573 GAAGAAAAAAAGCAAAAAA
1 -AAGAACAAAAG-AGAAAA
* * *
858592 AACAAAGAAAAAGAGAAAC
1 AA-GAA-CAAAAGAGAAAA
858611 AAGAACAAAAG-GAAAA
1 AAGAACAAAAGAGAAAA
*
858627 AAGAGCAAAA
1 AAGAACAAAA
858637 ATCAAAAAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
16 13 0.26
17 5 0.10
18 13 0.26
19 13 0.26
20 6 0.12
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (17 bp):
AAGAACAAAAGAGAAAA
Found at i:859301 original size:22 final size:22
Alignment explanation
Indices: 859276--859324 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
859266 CCATCAATCT
* *
859276 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGCCAAACC
859298 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGCCAAACC
859320 TTTGA
1 TTTGA
859325 CCAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATGCCAAACC
Found at i:859758 original size:18 final size:18
Alignment explanation
Indices: 859735--859770 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
859725 TCAACATCAA
* *
859735 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
859753 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
859771 GGATTCAACA
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:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:860407 original size:36 final size:36
Alignment explanation
Indices: 860299--860421 Score: 151
Period size: 36 Copynumber: 3.4 Consensus size: 36
860289 TTGAATATGT
* * *
860299 TTTCT-TTGAAACAAATTCCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAATTTTCGTCTCTCTTGAGACAG
* *
860334 TTTCTTTTGGAACTAAGTTTT-GTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AA-TTTTCGTCTCTCTTGAGACAG
*
860371 TTTCTCTTGAAACAATTTTCGTCTATCTTGAGACAG
1 TTTCTCTTGAAACAATTTTCGTCTCTCTTGAGACAG
*
860407 TTTCCCTTGAAACAA
1 TTTCTCTTGAAACAA
860422 AACCTTTGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
35 9 0.12
36 37 0.49
37 28 0.37
38 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAATTTTCGTCTCTCTTGAGACAG
Found at i:860484 original size:65 final size:67
Alignment explanation
Indices: 860380--860537 Score: 187
Period size: 67 Copynumber: 2.4 Consensus size: 67
860370 GTTTCTCTTG
** * **
860380 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCC
1 AAACAAATTTT-GTCTCCCTTGAGACAGTTACCCTTGAAACACAAAACCTTCAAATTTATTTCCC
860442 CTA
65 CTA
* * * *
860445 AAACAAATTTTGTCTCCCTTGAGATAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTACCCTTGAAACACAAAACCTTCAAATTTATTTCCCC
860510 TA
66 TA
*
860512 AAACATAATTTTGTTTCCCTTGAGAC
1 AAACA-AATTTTGTCTCCCTTGAGAC
860538 CATTTCTCAT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 24 0.31
66 8 0.10
67 28 0.36
68 18 0.23
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTACCCTTGAAACACAAAACCTTCAAATTTATTTCCCC
TA
Found at i:861381 original size:105 final size:105
Alignment explanation
Indices: 861197--862133 Score: 1479
Period size: 105 Copynumber: 9.0 Consensus size: 105
861187 GCACTCGAGG
* * * *
861197 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
861262 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
861303 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
861368 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
861408 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAATAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * *
861473 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAAA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
861513 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
861578 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
861618 CAACGCAAGTTTAACTTCACAACGAAGGGACCACTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
861683 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
861723 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
861788 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * *
861828 CAATGCAAGTTCAACTTCACGAGGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
861893 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
861933 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * *
861993 TTCAATTTCAACTTCACAACGAATGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * * ** *
862033 CAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAATTTCTCGGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
* *
862098 AGCCAATTTCAACTTCACGACGGAGGATATTGGACT
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACT
862134 TGGAACAATG
Statistics
Matches: 777, Mismatches: 48, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
100 81 0.10
101 3 0.00
102 3 0.00
103 4 0.01
104 4 0.01
105 607 0.78
106 75 0.10
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:863054 original size:20 final size:19
Alignment explanation
Indices: 863031--863069 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
863021 TATTATATAT
863031 ATATTT-ATGAATATATAAAA
1 ATATTTAAT-AATATA-AAAA
863051 ATATTTAATAATATAAAAA
1 ATATTTAATAATATAAAAA
863070 TAAAAATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 12 0.67
21 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
ATATTTAATAATATAAAAA
Found at i:863987 original size:15 final size:15
Alignment explanation
Indices: 863953--863988 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
863943 TGGTTTAGTT
*
863953 GTTTTTTTTTCTCTG
1 GTTTTTTTTTCTCCG
*
863968 TTTTTTTTTTCTCCG
1 GTTTTTTTTTCTCCG
863983 GTTTTT
1 GTTTTT
863989 GTCCCCGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.14, G:0.11, T:0.75
Consensus pattern (15 bp):
GTTTTTTTTTCTCCG
Found at i:864491 original size:3 final size:3
Alignment explanation
Indices: 864483--864601 Score: 202
Period size: 3 Copynumber: 39.7 Consensus size: 3
864473 AATATATATT
*
864483 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
864531 TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
864579 TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
864602 TGGATAAAAA
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 108 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:865313 original size:225 final size:222
Alignment explanation
Indices: 864922--865442 Score: 841
Period size: 225 Copynumber: 2.3 Consensus size: 222
864912 AATTATGCGA
* * * *
864922 AAAGTTGAACAAGTTCTTTTTATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCATTA
1 AAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTA
**
864987 TGAACTTCTCCAGAAATGTTGATCCATCAATTGATGAATTCTTGCAAAAGATTGAACAAGTTCTT
66 TGAAC-TCTCCAGAAATGTTGATCCATCAATTGATGAATTCAAGCAAAAGATTGAACAAGTTCTT
*
865052 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTTGGAAAA
130 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
865117 AATAATCCATCAAGTGATAGATTTGAGC
195 AATAATCCATCAAGTGATAGATTTGAGC
865145 -AA-TTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCA
1 AAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGAT---GAGTTCTTCTCA
* *
865208 TTATGAACTCTACCTGGCAATGTTGATCCATCAGA-TGATGAATTCAAGCAAAAGATTGAACAAG
63 TTATGAACTCT-CC-AGAAATGTTGATCCATCA-ATTGATGAATTCAAGCAAAAGATTGAACAAG
865272 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
125 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
865337 GAAAAAATAATCCATCAAGTGATAGATTTGAGC
190 GAAAAAATAATCCATCAAGTGATAGATTTGAGC
* *
865370 AAAAAGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 --AAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
865435 TATGAACT
64 TATGAACT
865443 TTCTCTGGAA
Statistics
Matches: 277, Mismatches: 11, Indels: 17
0.91 0.04 0.06
Matches are distributed among these distances:
221 42 0.15
222 2 0.01
223 3 0.01
224 22 0.08
225 140 0.51
226 22 0.08
228 2 0.01
229 44 0.16
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (222 bp):
AAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTCTCCAGAAATGTTGATCCATCAATTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTC
TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAA
ATAATCCATCAAGTGATAGATTTGAGC
Found at i:865380 original size:113 final size:112
Alignment explanation
Indices: 864921--865480 Score: 733
Period size: 113 Copynumber: 5.0 Consensus size: 112
864911 GAATTATGCG
* * **
864921 AAAAGTTGAACAAGTTCTTTTTATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** *** * * *
864986 ATGAAC-TTCTCCAGAAATGTTGATCCATCAATTGAT-GAATTCT-TGC
66 ATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAG-ATT-TGAGC
865032 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
865097 TATGAACTTTCTTTGGAAAAAATAATCCATCAAGTGATAGATTTGAGC
65 TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAGATTTGAGC
* *
865145 --AA-TTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTC
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTC
* * *** * **
865207 ATTATGAACTCTAC-CTGGCAATGTTGATCCATC-AGATGAT-GAATTCAAGC
63 ATTATGAACT-TTCTCTGGAAAAAATAATCCATCAAG-TGATAG-ATTTGAGC
865257 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
865322 TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAGATTTGAGC
65 TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAGATTTGAGC
* *
865370 AAAAAGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 -AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
865435 TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAGATTTGA
65 TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAGATTTGA
865481 ATCTTTGCTA
Statistics
Matches: 395, Mismatches: 36, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
109 44 0.11
111 10 0.03
112 109 0.28
113 177 0.45
114 11 0.03
116 44 0.11
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (112 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAGATTTGAGC
Found at i:866295 original size:83 final size:83
Alignment explanation
Indices: 866085--866563 Score: 784
Period size: 83 Copynumber: 5.9 Consensus size: 83
866075 GTTCCTACTA
* * * *
866085 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
*
866150 CAATAATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
866168 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAAT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAAT
866233 TCAATGATTGGTTCTGTCC
65 TCAATGATTGGTTCTGTCC
866252 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
866317 CAATGATTGGTTCTG-CC
66 CAATGATTGGTTCTGTCC
* * *
866334 -A--A-ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTT-C-AA-T
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
866392 --A--ATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
*
866406 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGTTGCTATTAACAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
866471 CAATGATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
866489 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
866554 CAATGATTGG
66 CAATGATTGG
866564 ACTAAGATAT
Statistics
Matches: 370, Mismatches: 13, Indels: 25
0.91 0.03 0.06
Matches are distributed among these distances:
71 10 0.03
72 2 0.01
73 2 0.01
75 2 0.01
76 50 0.14
77 2 0.01
78 51 0.14
79 2 0.01
81 2 0.01
82 2 0.01
83 167 0.45
84 78 0.21
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
CAATGATTGGTTCTGTCC
Found at i:866427 original size:154 final size:162
Alignment explanation
Indices: 866085--866563 Score: 740
Period size: 154 Copynumber: 3.0 Consensus size: 162
866075 GTTCCTACTA
* * * *
866085 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
*
866150 CAATAATTGGTTCTGTCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAA
66 CAATGATTGGTTCTGTCC-AA-CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAA
866215 CAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCC
129 CAAATTCATCTT-CAAATT-AA-GATTGGTTCTGTCC
866252 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
* *
866317 CAATGATTGGTTCTG-CC-A-A-ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
66 CAATGATTGGTTCTGTCCAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACA
*
866378 CATTCATCTTC-AA-T-A-ATTGGTTCTGTCC
131 AATTCATCTTCAAATTAAGATTGGTTCTGTCC
*
866406 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGTTGCTATTAACAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
866471 CAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAAC
66 CAATGATTGGTTCTGTCCAA-CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAAC
866536 AAATTCATCTTCCAAATTCAATGATTGG
130 AAATTCATCTT-CAAATT-AA-GATTGG
866564 ACTAAGATAT
Statistics
Matches: 288, Mismatches: 12, Indels: 25
0.89 0.04 0.08
Matches are distributed among these distances:
154 92 0.32
155 2 0.01
156 2 0.01
158 2 0.01
159 51 0.18
160 2 0.01
161 51 0.18
162 2 0.01
164 2 0.01
166 7 0.02
167 75 0.26
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (162 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
CAATGATTGGTTCTGTCCAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACA
AATTCATCTTCAAATTAAGATTGGTTCTGTCC
Found at i:866514 original size:237 final size:241
Alignment explanation
Indices: 866091--866563 Score: 873
Period size: 237 Copynumber: 2.0 Consensus size: 241
866081 ACTAAACCAG
866091 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCAATTCAATAA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA--TT-CC-ATTCAATAA
866156 TTGGTTCTGTCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATT
62 TTGGTTCTGTCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATT
866221 CATCTTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGA
127 CATCTTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGA
866286 AGATGCTATTAACAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAA
192 AGATGCTATTAACAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAA
866336 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA-T-C-TTCAATAATTGG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATTCCATTCAATAATTGG
*
866398 TTCTGTCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGTTGCTATTAACAAATTCATC
66 TTCTGTCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATC
866462 TTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
131 TTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
866527 GCTATTAACAAATTCATCTTCCAAATTCAATGATTGG
196 GCTATTAACAAATTCATCTTCCAAATTCAATGATTGG
866564 ACTAAGATAT
Statistics
Matches: 227, Mismatches: 1, Indels: 8
0.96 0.00 0.03
Matches are distributed among these distances:
237 157 0.69
238 20 0.09
240 1 0.00
242 1 0.00
245 48 0.21
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.27
Consensus pattern (241 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATTCCATTCAATAATTGG
TTCTGTCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATC
TTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
GCTATTAACAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAA
Found at i:867702 original size:7 final size:7
Alignment explanation
Indices: 867690--867762 Score: 58
Period size: 7 Copynumber: 10.1 Consensus size: 7
867680 TTGACCCCCA
867690 TTTTTCT
1 TTTTTCT
867697 TTTTTCTTT
1 TTTTTC--T
867706 TTTTTCT
1 TTTTTCT
867713 TTTTTCT
1 TTTTTCT
* *
867720 CTCTTC-
1 TTTTTCT
* * *
867726 TATATAT
1 TTTTTCT
867733 TTTTTCT
1 TTTTTCT
*
867740 TTTCTTTT
1 TTT-TTCT
867748 TTTTTCT
1 TTTTTCT
867755 TTTTTCT
1 TTTTTCT
867762 T
1 T
867763 CAAGCATAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
6 1 0.02
7 36 0.72
8 6 0.12
9 7 0.14
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:878337 original size:27 final size:26
Alignment explanation
Indices: 878252--878337 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 26
878242 AATAAATATG
* *
878252 AAATAAAATACTTGCAAATAAAA-TAA
1 AAATAAAATA-TTGAAAAAAAAATTAA
* *
878278 AACATATAAATATT-ATAAAAATAATAAA
1 AA-ATA-AAATATTGA-AAAAAAAATTAA
878306 TAAATAAAATATTGAAAAGAAAAATTAA
1 -AAATAAAATATTGAAAA-AAAAATTAA
878334 AAAT
1 AAAT
878338 TAATATATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
26 2 0.04
27 25 0.53
28 18 0.38
29 2 0.04
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (26 bp):
AAATAAAATATTGAAAAAAAAATTAA
Found at i:879872 original size:15 final size:14
Alignment explanation
Indices: 879838--879872 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
879828 TTGGTTTAGT
879838 TGTTTTTTTTTCTC
1 TGTTTTTTTTTCTC
879852 TGTTTTTTTTT-TC
1 TGTTTTTTTTTCTC
*
879865 TGGTTTTT
1 TGTTTTTT
879873 GTCCCCGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.00, C:0.09, G:0.11, T:0.80
Consensus pattern (14 bp):
TGTTTTTTTTTCTC
Found at i:880362 original size:3 final size:3
Alignment explanation
Indices: 880354--880460 Score: 141
Period size: 3 Copynumber: 36.7 Consensus size: 3
880344 TTAATATATT
* *
880354 TAA TAA TAA TAA TAA T-A TAA TGA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
880401 TAA TAA T-A TAA TAA TAA TAG TAA TAA T-A TAA TAA TAG TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
880448 TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TA
880461 TGGATAAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
2 8 0.09
3 80 0.88
4 3 0.03
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:880381 original size:20 final size:20
Alignment explanation
Indices: 880354--880460 Score: 150
Period size: 20 Copynumber: 5.5 Consensus size: 20
880344 TTAATATATT
880354 TAATAATAATAATAATATAA
1 TAATAATAATAATAATATAA
*
880374 TGATAATAATAAT-A-ATAA
1 TAATAATAATAATAATATAA
*
880392 TAATAATAGTAATAATATAA
1 TAATAATAATAATAATATAA
*
880412 TAATAATAGTAATAATATAA
1 TAATAATAATAATAATATAA
*
880432 TAATAGTAATAAT-ATATAA
1 TAATAATAATAATAATATAA
880451 TAAT-ATAATA
1 TAATAATAATA
880461 TGGATAAAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
18 20 0.25
19 12 0.15
20 47 0.59
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
TAATAATAATAATAATATAA
Found at i:880732 original size:34 final size:34
Alignment explanation
Indices: 880685--880782 Score: 146
Period size: 34 Copynumber: 2.9 Consensus size: 34
880675 TTTCGTCCTA
* *
880685 CTAGGATTGAAACTCCTAAAAATATGATAGAATTT
1 CTAGGATTCAAACTCCT-AAAATAGGATAGAATTT
880720 -TAGGATTCAAACTCCTAAAATAGGATA-AATTT
1 CTAGGATTCAAACTCCTAAAATAGGATAGAATTT
880752 GCTAGGATTCAAACTCCTAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAATAGGATAGA
880783 GTTCTACTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
32 5 0.09
33 10 0.17
34 42 0.72
35 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (34 bp):
CTAGGATTCAAACTCCTAAAATAGGATAGAATTT
Found at i:881104 original size:31 final size:29
Alignment explanation
Indices: 881066--881135 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
881056 CATTCTTGTT
* *
881066 TATATATATATTATTCTATTAATTTTTATTA
1 TATATATATATTATTCTATT-AGTGTTA-TA
* * *
881097 TATATATATGTTTTTTTATTAGTGTTATA
1 TATATATATATTATTCTATTAGTGTTATA
881126 TATATATATA
1 TATATATATA
881136 ATATATATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 11 0.33
30 5 0.15
31 17 0.52
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (29 bp):
TATATATATATTATTCTATTAGTGTTATA
Found at i:886390 original size:23 final size:24
Alignment explanation
Indices: 886362--886413 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
886352 TAAATTATAA
886362 TTTATTCAA-ACATCATTGAATAT
1 TTTATTCAACACATCATTGAATAT
* * *
886385 TTTATTCAACTCGTTATTGAATAT
1 TTTATTCAACACATCATTGAATAT
886409 TTTAT
1 TTTAT
886414 CTTATTCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.50
Consensus pattern (24 bp):
TTTATTCAACACATCATTGAATAT
Found at i:886974 original size:17 final size:17
Alignment explanation
Indices: 886927--886974 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
886917 TCTTTCACCG
*
886927 TTTTTAATTGATAT-AT
1 TTTTTAATTGAAATAAT
* *
886943 TTGTT-ATTAAAATAAT
1 TTTTTAATTGAAATAAT
886959 TTTTTAATTGAAATAA
1 TTTTTAATTGAAATAA
886975 CACCGGCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 6 0.24
16 10 0.40
17 9 0.36
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTTTAATTGAAATAAT
Found at i:898414 original size:2 final size:2
Alignment explanation
Indices: 898407--898500 Score: 127
Period size: 2 Copynumber: 47.5 Consensus size: 2
898397 TGTAGCCTAA
* *
898407 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AA AC AC AC AC AA AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * * *
898449 AC AA AC AC AA AC AC AC AC AC AC AC A- AA AC AC AA AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
898490 AC AC AC AC AC A
1 AC AC AC AC AC A
898501 GAGAGAATAA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
1 1 0.01
2 79 0.99
ACGTcount: A:0.57, C:0.43, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:899374 original size:12 final size:13
Alignment explanation
Indices: 899343--899374 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
899333 CCCTCATCAG
899343 ATTCATCATCTTC
1 ATTCATCATCTTC
899356 ATT-ATCATCTTC
1 ATTCATCATCTTC
899368 -TTCATCA
1 ATTCATCA
899375 ACACCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 13 0.72
13 3 0.17
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTCATCATCTTC
Found at i:912501 original size:23 final size:23
Alignment explanation
Indices: 912475--912543 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
912465 CACCACAGCT
*
912475 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
912498 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
912521 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
912544 TATAATAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:912741 original size:103 final size:103
Alignment explanation
Indices: 912559--912772 Score: 374
Period size: 103 Copynumber: 2.1 Consensus size: 103
912549 TAATATCCAT
* * * *
912559 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCAAATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATCTGTCTCACCA
912624 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
912662 AATGACCAAATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATCTGTCTCACCA
1 AAGGACCAAATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATCTGTCTCACCA
912727 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
912765 AAGGACCA
1 AAGGACCA
912773 TATAGACCAT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCAAATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATCTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:913972 original size:22 final size:21
Alignment explanation
Indices: 913947--914006 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
913937 TTCGCTTGAG
913947 GGGTATCGATTCCCCATTGAAT
1 GGGTATCGATTCCCC-TTGAAT
913969 GGGTATCGATT-CCCTTGAAT
1 GGGTATCGATTCCCCTTGAAT
*
913989 GGGTACCGATTCCCCTTG
1 GGGTATCGATTCCCCTTG
914007 TCCATAAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 16 0.44
21 9 0.25
22 11 0.31
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (21 bp):
GGGTATCGATTCCCCTTGAAT
Found at i:914935 original size:16 final size:16
Alignment explanation
Indices: 914896--914938 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
914886 AGCATCAGTT
*
914896 CTTATCACTCAAAATC
1 CTTATCAATCAAAATC
* *
914912 ATTAATCAATCAAATTC
1 CTT-ATCAATCAAAATC
914929 CTTATCAATC
1 CTTATCAATC
914939 TTTAATTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATC
Found at i:917698 original size:23 final size:23
Alignment explanation
Indices: 917667--917734 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
917657 CACCACAGCT
* *
917667 CGTATAATTGCATCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
917690 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
917713 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
917735 TTATAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:917922 original size:103 final size:103
Alignment explanation
Indices: 917743--917968 Score: 382
Period size: 103 Copynumber: 2.2 Consensus size: 103
917733 CCTTATAATA
* *
917743 ATGT-CCATAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
1 ATGTCCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
* *
917807 GTCTCACCAGACTTCACACATGTTTCAAAGAATACATAT
65 GTCTCACCAGACTTCACACATGTTCCAAAAAATACATAT
*
917846 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
917911 TCTCACCAGACTTCACACATGTTCCAAAAAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAAAATACATAT
*
917949 ATGTCCCGAAGGACCACATA
1 ATGTCCCAAAGGACCACATA
917969 GACCCTCGAC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
103 113 0.97
104 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAAAATACATAT
Found at i:921146 original size:16 final size:15
Alignment explanation
Indices: 921127--921165 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
921117 ATGTTAGAGA
921127 AAATAAATAAATAGAT
1 AAATAAATAAAT-GAT
*
921143 AAATAAATAAATGCT
1 AAATAAATAAATGAT
921158 AAATAAAT
1 AAATAAAT
921166 CAAAAGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (15 bp):
AAATAAATAAATGAT
Found at i:921876 original size:37 final size:38
Alignment explanation
Indices: 921823--921995 Score: 162
Period size: 37 Copynumber: 4.6 Consensus size: 38
921813 AAATCATATA
*
921823 ATTTTCAAAAACTATATATTATATA-AGTTTTCAGAATG
1 ATTTT-AAAAACTATATATTATATACAGTTTTCAAAATG
* ***
921861 ATTTTAAAAATTATATATTATATATTTTTTTCTAAAATG
1 ATTTTAAAAACTATATATTATATACAGTTTTC-AAAATG
* * * *
921900 -TTTTTAAAACTACATATTATAT--GGTTTTGAAAA-G
1 ATTTTAAAAACTATATATTATATACAGTTTTCAAAATG
*
921934 CGTTTTAAAAACTATATATTATATACA-TTTTCAAAAT-
1 -ATTTTAAAAACTATATATTATATACAGTTTTCAAAATG
*
921971 ATTTTTAGAAACTATATATTATATA
1 A-TTTTAAAAACTATATATTATATA
921996 TGTATTTTCA
Statistics
Matches: 111, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
34 1 0.01
35 4 0.04
36 24 0.22
37 48 0.43
38 29 0.26
39 5 0.05
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (38 bp):
ATTTTAAAAACTATATATTATATACAGTTTTCAAAATG
Found at i:924534 original size:891 final size:881
Alignment explanation
Indices: 922823--924595 Score: 3447
Period size: 891 Copynumber: 2.0 Consensus size: 881
922813 TTATGTCTAA
922823 TATTGTCACATTATACTCTTTTATACAGATGAACAAACAAATCATGCATCATATCAACAGGAAAA
1 TATTGTCACATTATACTCTTTTATACAGATGAACAAACAAATCATGCATCATATCAACAGGAAAA
922888 ACATTAAAGAAAGTTAAAAATGGCAAATGAAAATCATACCAAGAATTCTGATAGAAAAACGAAAG
66 ACATTAAAGAAAGTTAAAAATGGCAAATGAAAATCATACCAAGAATTCTGATAGAAAAACGAAAG
922953 AAAATCATCACAGTGATGATTGTGGGATACTACAATGTAAAAGAAGAAGAATTATTATAGGGAAA
131 AAAATCATCACAGTGATGATTGTGGGATACTACAATGTAAAAGAAGAAGAATTATTATAGGGAAA
923018 AATAGTTGAAGATTTTCATTCTTCACTGCACTGGCAGCACTCAGGCACAGATAAATCAAGTACCG
196 AATAGTTGAAGATTTTCATTCTTCACTGCACTGGCAGCACTCAGGCACAGATAAATCAAGTACCG
923083 CATTATGACCAACTGTTATTCGGATTCAGGTTGAGTTCAAATACGAGTATCAAACACGAATACTT
261 CATTATGACCAACTGTTATTCGGATTCAGGTTGAGTTCAAATACGAGTATCAAACACGAATACTT
923148 TAGAGAATGAAACACTTACTTTTCCAGTGATCTTAGTATACATCTGGATCACATCATTCACAGTG
326 TAGAGAATGAAACACTTACTTTTCCAGTGATCTTAGTATACATCTGGATCACATCATTCACAGTG
923213 GTTTCGAAGTGTGTCGTTGGATCATAACTCTGCAATGAAATTCGAAACTCGAATCAGCAAATCAT
391 GTTTCGAAGTGTGTCGTTGGATCATAACTCTGCAATGAAATTCGAAACTCGAATCAGCAAATCAT
923278 ATGAAACAGAGTGAAGAAAGTCCTTACAGCAGATATGAAGCAGTTGTCGGCTGCATGGTCGTTAG
456 ATGAAACAGAGTGAAGAAAGTCCTTACAGCAGATATGAAGCAGTTGTCGGCTGCATGGTCGTTAG
923343 TTGGGACATATCTGTCGTAAGTGTCGTAGAATATCTCATCTACCAGTCCGAGTAGCTTAATGCCA
521 TTGGGACATATCTGTCGTAAGTGTCGTAGAATATCTCATCTACCAGTCCGAGTAGCTTAATGCCA
923408 GGCTCCAACTCTACCTTGGGGTCTTCGGTCTCGGCCTCTGTTGAAACGAAAGCAATGTATTTCCC
586 GGCTCCAACTCTACCTTGGGGTCTTCGGTCTCGGCCTCTGTTGAAACGAAAGCAATGTATTTCCC
923473 CTTGGGAGCAACATTATGAGCATATGAGCAACAGAAAAGGTACCTGCAATAACAAAAGTAAACCT
651 CTTGGGAGCAACATTATGAGCATATGAGCAACAGAAAAGGTACCTGCAATAACAAAAGTAAACCT
923538 CGCAAGGTACCGACAACCGATGGTCAAGGACTTATAGAACTTGTTTGTTCAATGGAAACTCTACT
716 CGCAAGGTACCGACAACCGATGGTCAAGGACTTATAGAACTTGTTTGTTCAATGGAAACTCTACT
923603 TTTCTATACAATCTCCCAATAAACTTTCAGACATATATGCATTAAGCAATTTATGATAGCAGAGA
781 TTTCTATACAATCTCCCAATAAACTTTCAGACATATATGCATTAAGCAATTTATGATAGCAGAGA
923668 AAGTTATCAGCATACATGTCTGATTTACGGCCGAGT
846 AAGTTATCAGCATACATGTCTGATTTACGGCCGAGT
*
923704 TATTGTCACATTATACTTTTTTATACAGATGAACAAACAAATCATGCATCATATCAACAGGAAAA
1 TATTGTCACATTATACTCTTTTATACAGATGAACAAACAAATCATGCATCATATCAACAGGAAAA
923769 ACATTAAAGAAAGTTAAAAATGGCAAATGAAAATCATACCAAGAATTCTGATAGAAAAACGAAAG
66 ACATTAAAGAAAGTTAAAAATGGCAAATGAAAATCATACCAAGAATTCTGATAGAAAAACGAAAG
923834 AAAATCATCACAGTGATGATTGTGGGATACTACAATGTAAAAGAAGAAGAATTATTATAGGGAAA
131 AAAATCATCACAGTGATGATTGTGGGATACTACAATGTAAAAGAAGAAGAATTATTATAGGGAAA
923899 AATAGTTTGAAGATTTTCATTCTTCACTAGCACTGGCAGCACTCAGGTCCACAGATAAATCAAGT
196 AATAG-TTGAAGATTTTCATTCTTCACT-GCACTGGCAGCACTCAGG--CACAGATAAATCAAGT
923964 ACCTGCACATTATGACCAACTGTTATTCGGATTCAGGTTGAGTTCAAATACGAGTATCAAACACG
257 ACC-G--CATTATGACCAACTGTTATTCGGATTCAGGTTGAGTTCAAATACGAGTATCAAACACG
924029 AATACTTTAGAGAATGAAACACTTACTTTTCCAGTGATCTTAGTATACATCTGGATCACATCATT
319 AATACTTTAGAGAATGAAACACTTACTTTTCCAGTGATCTTAGTATACATCTGGATCACATCATT
924094 CACAGTGGTTTCGAAGTGTGTCGTTGGATCATAACTCTGCAATGAAATTCGAAACTCGAATCAGC
384 CACAGTGGTTTCGAAGTGTGTCGTTGGATCATAACTCTGCAATGAAATTCGAAACTCGAATCAGC
924159 AAATCATATGAAACAGATGTGAAGAAAGTGTCCTTACAGCAGATATGAAGCAGTTGTCGGCTGCA
449 AAATCATATGAAACAGA-GTGAAGAAA--GTCCTTACAGCAGATATGAAGCAGTTGTCGGCTGCA
924224 TGGTCGTTAGTTGGGACATATCTGTCGTAAGTGTCGTAGAATATCTCATCTACCAGTCCGAGTAG
511 TGGTCGTTAGTTGGGACATATCTGTCGTAAGTGTCGTAGAATATCTCATCTACCAGTCCGAGTAG
924289 CTTAATGCCAGGCTCCAACTCTACCTTGGGGTCTTCGGTCTCGGCCTCTGTTGAAACGAAAGCAA
576 CTTAATGCCAGGCTCCAACTCTACCTTGGGGTCTTCGGTCTCGGCCTCTGTTGAAACGAAAGCAA
924354 TGTATTTCCCCTTGGGAGCAACATTATGAGCATATGAGCAACAGAAAAGGTACCTGCAATAACAA
641 TGTATTTCCCCTTGGGAGCAACATTATGAGCATATGAGCAACAGAAAAGGTACCTGCAATAACAA
924419 AAGTAAACCTCGCAAGGTACCGACAACCGATGGTCAAGGACTTATAGAACTTGTTTGTTCAATGG
706 AAGTAAACCTCGCAAGGTACCGACAACCGATGGTCAAGGACTTATAGAACTTGTTTGTTCAATGG
924484 AAACTCTACTTTTCTATACAATCTCCCAATAAACTTTCAGACATATATGCATTAAGCAATTTATG
771 AAACTCTACTTTTCTATACAATCTCCCAATAAACTTTCAGACATATATGCATTAAGCAATTTATG
924549 ATAGCAGAGAAAGTTATCAGCATACATGTCTGATTTACGGCCGAGT
836 ATAGCAGAGAAAGTTATCAGCATACATGTCTGATTTACGGCCGAGT
924595 T
1 T
924596 GCTTCTGAGG
Statistics
Matches: 881, Mismatches: 1, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
881 199 0.23
882 22 0.02
883 18 0.02
885 19 0.02
886 1 0.00
888 205 0.23
889 9 0.01
891 408 0.46
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (881 bp):
TATTGTCACATTATACTCTTTTATACAGATGAACAAACAAATCATGCATCATATCAACAGGAAAA
ACATTAAAGAAAGTTAAAAATGGCAAATGAAAATCATACCAAGAATTCTGATAGAAAAACGAAAG
AAAATCATCACAGTGATGATTGTGGGATACTACAATGTAAAAGAAGAAGAATTATTATAGGGAAA
AATAGTTGAAGATTTTCATTCTTCACTGCACTGGCAGCACTCAGGCACAGATAAATCAAGTACCG
CATTATGACCAACTGTTATTCGGATTCAGGTTGAGTTCAAATACGAGTATCAAACACGAATACTT
TAGAGAATGAAACACTTACTTTTCCAGTGATCTTAGTATACATCTGGATCACATCATTCACAGTG
GTTTCGAAGTGTGTCGTTGGATCATAACTCTGCAATGAAATTCGAAACTCGAATCAGCAAATCAT
ATGAAACAGAGTGAAGAAAGTCCTTACAGCAGATATGAAGCAGTTGTCGGCTGCATGGTCGTTAG
TTGGGACATATCTGTCGTAAGTGTCGTAGAATATCTCATCTACCAGTCCGAGTAGCTTAATGCCA
GGCTCCAACTCTACCTTGGGGTCTTCGGTCTCGGCCTCTGTTGAAACGAAAGCAATGTATTTCCC
CTTGGGAGCAACATTATGAGCATATGAGCAACAGAAAAGGTACCTGCAATAACAAAAGTAAACCT
CGCAAGGTACCGACAACCGATGGTCAAGGACTTATAGAACTTGTTTGTTCAATGGAAACTCTACT
TTTCTATACAATCTCCCAATAAACTTTCAGACATATATGCATTAAGCAATTTATGATAGCAGAGA
AAGTTATCAGCATACATGTCTGATTTACGGCCGAGT
Found at i:926216 original size:12 final size:12
Alignment explanation
Indices: 926189--926250 Score: 60
Period size: 12 Copynumber: 5.5 Consensus size: 12
926179 CATTAATTAA
926189 AAATTAT-ATAT
1 AAATTATAATAT
*
926200 TAATTATAATAT
1 AAATTATAATAT
*
926212 AAATTATAAAAT
1 AAATTATAATAT
926224 AAA-TATAAT-T
1 AAATTATAATAT
* *
926234 -AATTTTAAAAT
1 AAATTATAATAT
926245 AAATTA
1 AAATTA
926251 ATTTAAACAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
9 2 0.05
10 5 0.12
11 12 0.30
12 21 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AAATTATAATAT
Found at i:926237 original size:21 final size:22
Alignment explanation
Indices: 926189--926253 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
926179 CATTAATTAA
* * *
926189 AAATTATATATTAATTATAATAT
1 AAATTATAAAATAAATATAAT-T
926212 AAATTATAAAATAAATATAATT
1 AAATTATAAAATAAATATAATT
*
926234 -AATTTTAAAATAAAT-TAATT
1 AAATTATAAAATAAATATAATT
926254 TAAACAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 5 0.13
21 14 0.37
22 1 0.03
23 18 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATTATAAAATAAATATAATT
Found at i:926538 original size:6 final size:6
Alignment explanation
Indices: 926527--926552 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
926517 TGGACCTTCC
926527 GAGGAT GAGGAT GAGGAT GAGGAT GA
1 GAGGAT GAGGAT GAGGAT GAGGAT GA
926553 TAAATGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.50, T:0.15
Consensus pattern (6 bp):
GAGGAT
Found at i:927903 original size:31 final size:33
Alignment explanation
Indices: 927863--927944 Score: 100
Period size: 32 Copynumber: 2.6 Consensus size: 33
927853 TTTAATATTA
*
927863 ATATATATTTAGT-ATCATTTTAATAAAAAATT
1 ATATATATTTAGTAATAATTTTAATAAAAAATT
* *
927895 A-ATATATTTATTAATAATTTTAATAATAAATT
1 ATATATATTTAGTAATAATTTTAATAAAAAATT
927927 ATAT-TATATTA-TAATAAT
1 ATATATAT-TTAGTAATAAT
927945 ATATAATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 10 0.23
32 29 0.66
33 5 0.11
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (33 bp):
ATATATATTTAGTAATAATTTTAATAAAAAATT
Found at i:928161 original size:33 final size:36
Alignment explanation
Indices: 928080--928165 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 36
928070 TAAAATATAA
* *
928080 TATAATATTCTTATTTTATTAAATAATTTATAATATT
1 TATAATATTTTTATTTTATGAAATAA-TTATAATATT
928117 TATAATATTTTTATTTTAATGAAAT-A-TATAA-ATT
1 TATAATATTTTTATTTT-ATGAAATAATTATAATATT
928151 T-TAATATTTTTATTT
1 TATAATATTTTTATTT
928166 ATAAAACCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
33 14 0.30
34 4 0.09
35 5 0.11
37 17 0.37
38 6 0.13
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (36 bp):
TATAATATTTTTATTTTATGAAATAATTATAATATT
Found at i:932310 original size:26 final size:27
Alignment explanation
Indices: 932281--932344 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
932271 TTTTACTCAT
*
932281 CTAAAATTTTATAAGTTCAT-TCTACC
1 CTAAAATTTTATAACTTCATCTCTACC
*
932307 CTAAAATTTTATAACTTCATCTCTAGC
1 CTAAAATTTTATAACTTCATCTCTACC
*
932334 ATAAAATTTTA
1 CTAAAATTTTA
932345 CGTCCTTGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (27 bp):
CTAAAATTTTATAACTTCATCTCTACC
Found at i:935657 original size:26 final size:24
Alignment explanation
Indices: 935616--935663 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
935606 GAACCTACAT
935616 TAAATTTTATTATTAATTATTAAA
1 TAAATTTTATTATTAATTATTAAA
935640 TAAATATTATATTATTAATTATTA
1 TAAAT-TT-TATTATTAATTATTA
935664 TTAACAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
26 15 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TAAATTTTATTATTAATTATTAAA
Found at i:941129 original size:12 final size:12
Alignment explanation
Indices: 941112--941143 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
941102 CAATGGTCAC
941112 TAATGTTTGGGT
1 TAATGTTTGGGT
941124 TAATGTTTGGGT
1 TAATGTTTGGGT
941136 TAATGTTT
1 TAATGTTT
941144 ATTTTCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (12 bp):
TAATGTTTGGGT
Found at i:941285 original size:20 final size:20
Alignment explanation
Indices: 941262--941300 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
941252 GACCTGTACC
* *
941262 GTTAAATGTTTACCTGGCCT
1 GTTAAATGCTTACATGGCCT
*
941282 GTTAACTGCTTACATGGCC
1 GTTAAATGCTTACATGGCC
941301 CGTTGACCAA
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:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (20 bp):
GTTAAATGCTTACATGGCCT
Found at i:943200 original size:26 final size:26
Alignment explanation
Indices: 943171--943223 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
943161 TTATGACATG
943171 ATATGTATAAAATATGTGTTAATTCC
1 ATATGTATAAAATATGTGTTAATTCC
943197 ATATGTATAAAATATGTGTTAATTCC
1 ATATGTATAAAATATGTGTTAATTCC
943223 A
1 A
943224 AGGTAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (26 bp):
ATATGTATAAAATATGTGTTAATTCC
Found at i:947049 original size:20 final size:20
Alignment explanation
Indices: 947012--947050 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
947002 TTGGTCAACG
* *
947012 GGCCATGTAAGCAGTTAACT
1 GGCCAGGTAAACAGTTAACT
*
947032 GGCCAGGTAAACATTTAAC
1 GGCCAGGTAAACAGTTAAC
947051 GGTACAAGTT
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:0.21, G:0.23, T:0.23
Consensus pattern (20 bp):
GGCCAGGTAAACAGTTAACT
Found at i:948059 original size:14 final size:16
Alignment explanation
Indices: 948040--948073 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
948030 ATATAAGGAA
948040 TTAATAAATT-AT-TT
1 TTAATAAATTGATATT
948054 TTAATAAATTGATATT
1 TTAATAAATTGATATT
948070 TTAA
1 TTAA
948074 AATTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 2 0.11
16 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAATAAATTGATATT
Found at i:948475 original size:38 final size:38
Alignment explanation
Indices: 948424--948501 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
948414 TTAGTATAAC
948424 TTTTATGTTTTGGGTCTATTATTCTCATTACTTTTATT
1 TTTTATGTTTTGGGTCTATTATTCTCATTACTTTTATT
*
948462 TTTTATGTTTTGGGTCTATTATTCTCGTTACTTTTATT
1 TTTTATGTTTTGGGTCTATTATTCTCATTACTTTTATT
948500 TT
1 TT
948502 GGTCCTGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.14, C:0.10, G:0.12, T:0.64
Consensus pattern (38 bp):
TTTTATGTTTTGGGTCTATTATTCTCATTACTTTTATT
Found at i:955034 original size:33 final size:33
Alignment explanation
Indices: 954996--955063 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
954986 TTTGTTTAGC
954996 GTCAACATGTGTGTTTACATGTTTAGAAAAATT
1 GTCAACATGTGTGTTTACATGTTTAGAAAAATT
955029 GTCAACATGTGTGTTTACATGTTTAGAAAAATT
1 GTCAACATGTGTGTTTACATGTTTAGAAAAATT
955062 GT
1 GT
955064 GAAACTATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (33 bp):
GTCAACATGTGTGTTTACATGTTTAGAAAAATT
Found at i:958938 original size:22 final size:25
Alignment explanation
Indices: 958885--958939 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 25
958875 AATTTAGAAG
958885 ATATATTTAATTAAAATAATAATATA
1 ATATATTT-ATTAAAATAATAATATA
958911 AT-TATTT-TTAAAAT-ATAAT-TA
1 ATATATTTATTAAAATAATAATATA
958932 ATATATTT
1 ATATATTT
958940 GATAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.14
22 10 0.36
23 7 0.25
25 5 0.18
26 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATATTTATTAAAATAATAATATA
Found at i:960533 original size:60 final size:61
Alignment explanation
Indices: 960406--960535 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 61
960396 AAATAGTCGG
* * * *
960406 ATGACCATTTTGTAATTTTTAATAGTCGAGAGATTCAACAAAAGAATACCATATAGTTGTA
1 ATGACCATTTTATAATTTTTAATAGTCGAGAGACTCAACAAAAGAATACCATATAATCGTA
* * *
960467 A-AACCATTTTATAATTTTTAATAGTCGAGAGACTCAACAAAATAATA-TATTATAATCG-A
1 ATGACCATTTTATAATTTTTAATAGTCGAGAGACTCAACAAAAGAATACCA-TATAATCGTA
960526 ATGACCATTT
1 ATGACCATTT
960536 ATGTACTTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
59 3 0.05
60 55 0.93
61 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (61 bp):
ATGACCATTTTATAATTTTTAATAGTCGAGAGACTCAACAAAAGAATACCATATAATCGTA
Found at i:963688 original size:74 final size:74
Alignment explanation
Indices: 963536--963715 Score: 256
Period size: 74 Copynumber: 2.4 Consensus size: 74
963526 CCGTTGAACA
* * * *
963536 GGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACAAAACTGTTTAGGGGGGAATCGG
1 GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACAAAACTCTTCAGGGGGGAATCGG
963601 TTCTCCTAT
66 TTCTCCTAT
* *
963610 GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCCAAAC-CTTCA-GGGGGAATCGG
1 GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACAAAACTCTTCAGGGGGGAATCGG
963673 TTCCTCCTAT
66 TT-CTCCTAT
* *
963683 GGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 -GGGGGAATCGGTTCCCTCCGAGCATTCTGGAA
963716 TTTTTGGCTT
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
72 13 0.14
73 10 0.10
74 73 0.76
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.24
Consensus pattern (74 bp):
GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACAAAACTCTTCAGGGGGGAATCGG
TTCTCCTAT
Found at i:966296 original size:21 final size:21
Alignment explanation
Indices: 966270--966309 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
966260 CAGAACCCCA
*
966270 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
966291 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
966310 TCAAAGGGGG
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:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:972193 original size:73 final size:74
Alignment explanation
Indices: 971997--972196 Score: 241
Period size: 72 Copynumber: 2.8 Consensus size: 74
971987 GACCGTTGAA
* * * *
971997 CAGGGGGAATCGGTACCCCCT-TGGGGGGATCGGTTCCCTCCGAGC-ATACTGAAATTCTCGGAA
1 CAGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCAAT-CTGGAA-TCTCGGAA
**
972060 CAAAAACTGTT
64 CAAAAACCATT
* * *
972071 TA-GGGGAA-CGGTTCCTCCTAT-GGGGAATCGGTTCCCTCCGAGCATTCTGGAATCTCGGAGC-
1 CAGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCAATCTGGAATCTCGGAACA
*
972132 CAAACCATT
66 AAAACCATT
*
972141 CAGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCTGAGCAATCTGGAAT
1 CAGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAT
972197 TTTTGGCTTT
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
70 7 0.06
71 14 0.13
72 48 0.44
73 38 0.35
74 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (74 bp):
CAGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCAATCTGGAATCTCGGAACA
AAAACCATT
Found at i:973129 original size:45 final size:46
Alignment explanation
Indices: 973041--973131 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 46
973031 GGATGGAAGC
* *
973041 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
973087 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
973132 TTCGATGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 22 0.51
46 21 0.49
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:974545 original size:28 final size:28
Alignment explanation
Indices: 974505--974568 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
974495 TTGAGTCACT
974505 CGACTATTAAAAGTTACAAAATGATACC
1 CGACTATTAAAAGTTACAAAATGATACC
974533 CGACTATTAAAAGTTACAAAATGATACC
1 CGACTATTAAAAGTTACAAAATGATACC
974561 CGACTATT
1 CGACTATT
974569 CATCATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.27
Consensus pattern (28 bp):
CGACTATTAAAAGTTACAAAATGATACC
Found at i:978727 original size:4 final size:4
Alignment explanation
Indices: 978718--978743 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
978708 GAAAAAACTT
978718 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
978744 AACCCACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:980882 original size:19 final size:19
Alignment explanation
Indices: 980848--980895 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
980838 TAGATTTTTT
*
980848 AAATATA-TTTTGTATTGA
1 AAATATATTTTTATATTGA
980866 AAATATATTTTTATATTGA
1 AAATATATTTTTATATTGA
*
980885 AATTATATTTT
1 AAATATATTTT
980896 CGTTCTCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (19 bp):
AAATATATTTTTATATTGA
Found at i:981966 original size:18 final size:20
Alignment explanation
Indices: 981921--981966 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
981911 TCGTTATTTT
981921 TTAATTTTTAATAATAAAAA
1 TTAATTTTTAATAATAAAAA
* *
981941 TATTATTTTTAA-AA-AAAAC
1 T-TAATTTTTAATAATAAAAA
981960 TTAATTT
1 TTAATTT
981967 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 3 0.14
21 9 0.41
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAATTTTTAATAATAAAAA
Found at i:985479 original size:20 final size:20
Alignment explanation
Indices: 985456--985498 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
985446 ATCGTAATGT
985456 GATTCTGACTATCGCAACGC
1 GATTCTGACTATCGCAACGC
* **
985476 GATTTTGTTTATCGCAACGC
1 GATTCTGACTATCGCAACGC
985496 GAT
1 GAT
985499 AATACATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
GATTCTGACTATCGCAACGC
Found at i:986118 original size:19 final size:20
Alignment explanation
Indices: 986089--986166 Score: 104
Period size: 20 Copynumber: 4.0 Consensus size: 20
986079 TAGTTTCGCG
*
986089 ATTTTCTCGTTGCGATTTTC
1 ATTTTCGCGTTGCGATTTTC
**
986109 A-TTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATTTTC
*
986128 ATTTTCGTGTTGCGATTTTC
1 ATTTTCGCGTTGCGATTTTC
*
986148 ATTTTCGTGTTGCGATTTT
1 ATTTTCGCGTTGCGATTTT
986167 AAGTTTCATA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.31
20 35 0.69
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.51
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATTTTC
Found at i:986173 original size:20 final size:20
Alignment explanation
Indices: 986097--986166 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
986087 CGATTTTCTC
*
986097 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
**
986116 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
986136 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
986156 GTTGCGATTTT
1 GTTGCGATTTT
986167 AAGTTTCATA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 11 0.24
20 34 0.76
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:987767 original size:21 final size:21
Alignment explanation
Indices: 987743--987799 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
987733 TGGTGCATGG
*
987743 CGTGATGAGGTATCAACTCTA
1 CGTGATGAGGTAGCAACTCTA
* **
987764 CGTGGTGAGGTAGCGGCTCTA
1 CGTGATGAGGTAGCAACTCTA
987785 CGTGA-GATGGTAGCA
1 CGTGATGA-GGTAGCA
987800 TCGTTGCAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.25
Consensus pattern (21 bp):
CGTGATGAGGTAGCAACTCTA
Found at i:988090 original size:20 final size:20
Alignment explanation
Indices: 988067--988228 Score: 126
Period size: 20 Copynumber: 8.4 Consensus size: 20
988057 GAAACTTAAA
*
988067 ATCGCAACTCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
988087 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
988107 TTCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
988127 ATTGCAA--C-AAGAA--A--
1 ATCGCAACGCGAA-AATGACT
** **
988141 ATCGCAACGCG-AAACCAAA
1 ATCGCAACGCGAAAATGACT
*
988160 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
988180 ATCGCAACGC-AGAAATGACT
1 ATCGCAACGCGA-AAATGACT
**
988200 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
988220 ATCGCAACG
1 ATCGCAACG
988229 GGATAATCGC
Statistics
Matches: 113, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
14 6 0.05
15 2 0.02
16 3 0.03
17 3 0.03
18 1 0.01
19 11 0.10
20 86 0.76
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:988206 original size:93 final size:93
Alignment explanation
Indices: 988040--988268 Score: 314
Period size: 93 Copynumber: 2.4 Consensus size: 93
988030 TTTGCAAAAG
* * * *
988040 AAGAATAATCGCAACACGAAACTTAAAATCGCAACTCGAAAATGACTATCGCAACGCGGAAATGA
1 AAGAA-AATCGCAACGCGAAAC-AAAAATCGCAACGCGAAAATGACTATCGCAACGCAGAAATGA
* *
988105 CTTTCGCAACGCGAATTTGACTATTGCAAC
64 CTATCGCAACGCGAATTTGACTATCGCAAC
* *
988135 AAGAAAATCGCAACGCGAAACCAAAATCGCAACGCGGAAATGACTATCGCAACGCAGAAATGACT
1 AAGAAAATCGCAACGCGAAACAAAAATCGCAACGCGAAAATGACTATCGCAACGCAGAAATGACT
988200 ATCGCAACGCGAATTTGACTATCGCAAC
66 ATCGCAACGCGAATTTGACTATCGCAAC
** * * * *
988228 GGGATAATCGCAATGCGAAATAAAAATCGCAACGTGAAAAT
1 AAGAAAATCGCAACGCGAAACAAAAATCGCAACGCGAAAAT
988269 CACAATGCGA
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
93 99 0.83
94 15 0.13
95 5 0.04
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (93 bp):
AAGAAAATCGCAACGCGAAACAAAAATCGCAACGCGAAAATGACTATCGCAACGCAGAAATGACT
ATCGCAACGCGAATTTGACTATCGCAAC
Found at i:988275 original size:33 final size:34
Alignment explanation
Indices: 988220--988294 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
988210 GAATTTGACT
* *
988220 ATCGCAACGGGATAATCGCAATGCG-AAATAAAA
1 ATCGCAACGGGAAAATCACAATGCGAAAATAAAA
*
988253 ATCGCAACGTGAAAATCACAATGCGAAAATAAAA
1 ATCGCAACGGGAAAATCACAATGCGAAAATAAAA
988287 ATCGCAAC
1 ATCGCAAC
988295 ACGAATTTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 22 0.58
34 16 0.42
ACGTcount: A:0.48, C:0.20, G:0.17, T:0.15
Consensus pattern (34 bp):
ATCGCAACGGGAAAATCACAATGCGAAAATAAAA
Found at i:988383 original size:20 final size:20
Alignment explanation
Indices: 988358--988423 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
988348 CGATTATCTT
*
988358 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAATTTCGC
988378 GTTGCGATAGTC-ATTTCCGC
1 GTTGCGATAGTCAATTT-CGC
*
988398 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCAATTTCGC
988418 GTTGCG
1 GTTGCG
988424 GTTTTAAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (20 bp):
GTTGCGATAGTCAATTTCGC
Found at i:989005 original size:21 final size:21
Alignment explanation
Indices: 988941--989012 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
988931 TCTCCTATCA
*
988941 TTCAAGAGGCCCCTATCATCC
1 TTCAAGAGGCCCCTATCATCG
* * ** *
988962 CTCAAGAGTCCCCTCCCACCG
1 TTCAAGAGGCCCCTATCATCG
* *
988983 TTCAAGAGGCCCCTGTTATCG
1 TTCAAGAGGCCCCTATCATCG
*
989004 TTGAAGAGG
1 TTCAAGAGG
989013 TTCCTCCCAC
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (21 bp):
TTCAAGAGGCCCCTATCATCG
Found at i:989011 original size:42 final size:42
Alignment explanation
Indices: 988939--989032 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
988929 CCTCTCCTAT
988939 CATTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CATTCAAGAGGCCCCTATCATCCCTCAAGAGGT-CCCTCCCAC
* * * ** * *
988981 CGTTCAAGAGGCCCCTGTTATCGTTGAAGAGGTTCCTCCCAC
1 CATTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCAC
989023 CATTCAAGAG
1 CATTCAAGAG
989033 CCCGATTCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 41 0.95
43 2 0.05
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.22
Consensus pattern (42 bp):
CATTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:990428 original size:13 final size:13
Alignment explanation
Indices: 990410--990435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
990400 TATTTTTTGC
990410 TTGTTTAATTGAT
1 TTGTTTAATTGAT
990423 TTGTTTAATTGAT
1 TTGTTTAATTGAT
990436 GTGTAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
TTGTTTAATTGAT
Found at i:990623 original size:14 final size:14
Alignment explanation
Indices: 990606--990643 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
990596 CGAAAGTCAA
*
990606 TTCGCGTTGCGATT
1 TTCGCGTTACGATT
990620 TTCGCGTTACGATT
1 TTCGCGTTACGATT
990634 TTCGCGTTAC
1 TTCGCGTTAC
990644 AAAAGTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.42
Consensus pattern (14 bp):
TTCGCGTTACGATT
Found at i:990718 original size:20 final size:20
Alignment explanation
Indices: 990693--990841 Score: 157
Period size: 20 Copynumber: 7.8 Consensus size: 20
990683 GATTTTCTCA
*
990693 TTGCGATAGTCAAATTCCCG
1 TTGCGATAGTCAAATTCGCG
* *
990713 TTGCGATAATCAAATTCACG
1 TTGCGATAGTCAAATTCGCG
*
990733 TTGCAATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
990753 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCG
* *
990773 TTGC-A-A-T---TTTTGCG
1 TTGCGATAGTCAAATTCGCG
* *
990787 TTGCGATAGTCATATTCACG
1 TTGCGATAGTCAAATTCGCG
*
990807 TTGCGATAGTCAAATTAGCG
1 TTGCGATAGTCAAATTCGCG
*
990827 TTGCGATATTCAAAT
1 TTGCGATAGTCAAAT
990842 AAATGTGTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
14 8 0.08
15 1 0.01
16 1 0.01
17 2 0.02
18 1 0.01
19 1 0.01
20 92 0.87
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:990782 original size:94 final size:94
Alignment explanation
Indices: 990637--990841 Score: 245
Period size: 94 Copynumber: 2.2 Consensus size: 94
990627 TACGATTTTC
* * * * * * *
990637 GCGTTACAAAAGTC-AATTCACATTGCGATAGTCTAATACGCTTTGCGATTTTCT-CATTGCGAT
1 GCGTTGCAATAGTCAAATTCGCGTTGCGATAGTCAAATACGCATTGCAATTTT-TGCATTGCGAT
*
990700 AGTCAAATTCCCGTTGCGATAATCAAATTCA
65 AGTCAAATTCACGTTGCGATAATCAAATT-A
* *
990731 -CGTTGCAATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCATTGCAATTTTTGCGTTGCGATA
1 GCGTTGCAATAGTCAAATTCGCGTTGCGATAGTCAAATACGCATTGCAATTTTTGCATTGCGATA
* *
990795 GTCATATTCACGTTGCGATAGTCAAATTA
66 GTCAAATTCACGTTGCGATAATCAAATTA
* *
990824 GCGTTGCGATATTCAAAT
1 GCGTTGCAATAGTCAAAT
990842 AAATGTGTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
93 13 0.14
94 81 0.86
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (94 bp):
GCGTTGCAATAGTCAAATTCGCGTTGCGATAGTCAAATACGCATTGCAATTTTTGCATTGCGATA
GTCAAATTCACGTTGCGATAATCAAATTA
Found at i:990997 original size:140 final size:140
Alignment explanation
Indices: 990812--991358 Score: 965
Period size: 140 Copynumber: 3.9 Consensus size: 140
990802 TCACGTTGCG
* * *
990812 ATAGTCAAATTAGCGTTGCGATATTCAAATAAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTGAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
990877 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
*
990942 AATACATATA
131 AATACACATA
* *
990952 ATAGTCAAATTCGCGTTGCGATATTGAAATGAATGTGTAATAAGTGATAACAACTGAATAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTGAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
*
991017 TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
991082 AATACACATA
131 AATACACATA
* * *
991092 ATAGTCAAATTCGCGTTGTGATATTAAAATGAATGTGTAATAATTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTGAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
991157 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
991222 AATACACATA
131 AATACACATA
991232 ATAGTCAAATTCGCGTTGCGATATTGAAATGAATGTGTAATAAGTGAT---AACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTGAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
* *
991294 TATCAATGTTCAAACTCAAGTTACTAATACATGCCTAACAGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
991359 TACAACGTTT
Statistics
Matches: 389, Mismatches: 18, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
137 77 0.20
140 312 0.80
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTGAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:991434 original size:6 final size:6
Alignment explanation
Indices: 991425--991458 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
991415 TTGTGATTGG
**
991425 GATTTT GATTTT GATTGC GATTTT GATTTT GATT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATT
991459 GCCTTTTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.59
Consensus pattern (6 bp):
GATTTT
Found at i:991441 original size:18 final size:18
Alignment explanation
Indices: 991418--991460 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
991408 AAGCCGGTTG
*
991418 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
991436 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
991454 TGATTGC
1 TGATTGC
991461 CTTTTGCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.05, G:0.26, T:0.53
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:993512 original size:14 final size:14
Alignment explanation
Indices: 993493--993529 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
993483 TCCCGTGGCA
993493 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
993507 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
993521 TTCTTCTTC
1 TT-TTCTTC
993530 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:993746 original size:24 final size:24
Alignment explanation
Indices: 993719--993772 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
993709 CTGAAACATC
993719 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
993743 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
993767 ATCAAA
1 ATCAAA
993773 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:993786 original size:24 final size:24
Alignment explanation
Indices: 993719--993786 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
993709 CTGAAACATC
* * *
993719 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
993743 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
993767 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
993787 TAGTACTTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:994448 original size:17 final size:17
Alignment explanation
Indices: 994426--994463 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
994416 CGGATGGGAA
994426 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
994443 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
994460 AGGA
1 AGGA
994464 ACGGATGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.37, T:0.32
Consensus pattern (17 bp):
AGGATGTCGTTGGATAT
Found at i:994472 original size:22 final size:20
Alignment explanation
Indices: 994425--994473 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 20
994415 CCGGATGGGA
994425 AAGGATGTCGTTGGATAT--
1 AAGGATGTCGTTGGATATGG
994443 -AGGATGTCGTTGGATATAGG
1 AAGGATGTCGTTGGATAT-GG
994463 AACGGATGTCG
1 AA-GGATGTCG
994474 CCGGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 17 0.65
21 1 0.04
22 8 0.31
ACGTcount: A:0.27, C:0.08, G:0.37, T:0.29
Consensus pattern (20 bp):
AAGGATGTCGTTGGATATGG
Found at i:994717 original size:20 final size:19
Alignment explanation
Indices: 994694--994759 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
994684 AAAATAGCAA
994694 TGCGATAGTCAAAATCGCGT
1 TGCGATAGT-AAAATCGCGT
**
994714 TGCGATTATGTATTATCGCGT
1 TGCGA-TA-GTAAAATCGCGT
994735 TGCGATAGTTAAAATCGCGT
1 TGCGATAG-TAAAATCGCGT
994755 TGCGA
1 TGCGA
994760 ATCTGGAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.03
20 21 0.54
21 15 0.38
22 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (19 bp):
TGCGATAGTAAAATCGCGT
Done.