Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_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: 2457414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:683846 original size:48 final size:49
Alignment explanation
Indices: 683774--683894 Score: 199
Period size: 48 Copynumber: 2.5 Consensus size: 49
683764 ACGAGTGCAA
* *
683774 GGCTGCCATTGATGATCAAATTCTACCACCAAAAAGGCTTTCAATATTT
1 GGCTGCCATTGATAATCAAATTCTACCACCAAAAAAGCTTTCAATATTT
*
683823 GGCTGCCA-TGATTATCAAATTCTACCACCAAAAAAGCTTTCAATATTT
1 GGCTGCCATTGATAATCAAATTCTACCACCAAAAAAGCTTTCAATATTT
*
683871 GGCAGCCATTGATAATCAAATTCT
1 GGCTGCCATTGATAATCAAATTCT
683895 GCCAATCATC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 45 0.67
49 22 0.33
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (49 bp):
GGCTGCCATTGATAATCAAATTCTACCACCAAAAAAGCTTTCAATATTT
Found at i:691779 original size:23 final size:23
Alignment explanation
Indices: 691749--691809 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
691739 CTCGTATAAA
691749 TGCACCGAAGTGCCAAGTAGAAT
1 TGCACCGAAGTGCCAAGTAGAAT
**
691772 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCAAGTAGAAT
*
691795 TGCACCGAACTGCCA
1 TGCACCGAAGTGCCA
691810 TATAAAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCAAGTAGAAT
Found at i:696663 original size:13 final size:13
Alignment explanation
Indices: 696647--696686 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
696637 AGGAATCTAG
696647 AAAGTGAAAGTAA
1 AAAGTGAAAGTAA
* *
696660 AAAGAGAAAGTGA
1 AAAGTGAAAGTAA
696673 AAAGTGAAAAGTAA
1 AAAGTG-AAAGTAA
696687 GTAGGGTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (13 bp):
AAAGTGAAAGTAA
Found at i:704426 original size:20 final size:20
Alignment explanation
Indices: 704389--704431 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
704379 ATTCCACCAC
*
704389 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
704409 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
704429 ATG
1 ATG
704432 TGCTCTTAGA
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:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:708508 original size:23 final size:23
Alignment explanation
Indices: 708490--708550 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
708480 CTCGTATAAA
708490 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
708513 TGCACTGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
708536 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
708551 TATAAAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:709365 original size:44 final size:44
Alignment explanation
Indices: 709302--709390 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
709292 TTTAGTTAAA
709302 TTTTACATAACTCCTATACCATAATTCTCTTTAAGTATATTTCT
1 TTTTACATAACTCCTATACCATAATTCTCTTTAAGTATATTTCT
*
709346 TTTTACATAACTCTTATACCATAATTCTCTTTAAGTATATTTCT
1 TTTTACATAACTCCTATACCATAATTCTCTTTAAGTATATTTCT
709390 T
1 T
709391 CTCTATAACA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.49
Consensus pattern (44 bp):
TTTTACATAACTCCTATACCATAATTCTCTTTAAGTATATTTCT
Found at i:710211 original size:21 final size:21
Alignment explanation
Indices: 710181--710221 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
710171 ATTCATTTAT
710181 TTGAAAGTGCATCAATACACA
1 TTGAAAGTGCATCAATACACA
*
710202 TTGAATGTGCATCAATACAC
1 TTGAAAGTGCATCAATACAC
710222 TTTGCCCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (21 bp):
TTGAAAGTGCATCAATACACA
Found at i:714023 original size:28 final size:28
Alignment explanation
Indices: 713992--714045 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
713982 TAATGATATA
713992 TTTA-AAAAAAATATATAACTATTTATTT
1 TTTATAAAAAAA-ATATAACTATTTATTT
* * *
714020 TTTATTAAATAAATATAATTATTTAT
1 TTTATAAAAAAAATATAACTATTTAT
714046 GCATAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
TTTATAAAAAAAATATAACTATTTATTT
Found at i:715922 original size:18 final size:19
Alignment explanation
Indices: 715899--715942 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
715889 CCAATAATCC
* *
715899 TATTCC-CTGGTAATCTTT
1 TATTCCACTGATAATCTTA
715917 TATTCCCACTGATAATCTTA
1 TATT-CCACTGATAATCTTA
715937 TATTCC
1 TATTCC
715943 GTAAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (19 bp):
TATTCCACTGATAATCTTA
Found at i:722864 original size:42 final size:43
Alignment explanation
Indices: 722807--722887 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 43
722797 ATACTCGAAC
*
722807 ATTTTTCGCCTTAGCAACTTTTATTTACTTACTCTTGCAATTA
1 ATTTTTCGCCTTAGCAACTTTTACTTACTTACTCTTGCAATTA
* * **
722850 ATTTTT-GCTTTAGCAATTTTTACTTGTTTACTCTTGCA
1 ATTTTTCGCCTTAGCAACTTTTACTTACTTACTCTTGCA
722888 TATTTTTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 27 0.82
43 6 0.18
ACGTcount: A:0.21, C:0.19, G:0.09, T:0.52
Consensus pattern (43 bp):
ATTTTTCGCCTTAGCAACTTTTACTTACTTACTCTTGCAATTA
Found at i:724461 original size:25 final size:25
Alignment explanation
Indices: 724427--724480 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
724417 GATGCCTTTT
724427 TCCTATTTCTACCACAACAAAGATG
1 TCCTATTTCTACCACAACAAAGATG
724452 TCCTATTTCTACCACAACAAAGATG
1 TCCTATTTCTACCACAACAAAGATG
724477 TCCT
1 TCCT
724481 CCGAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (25 bp):
TCCTATTTCTACCACAACAAAGATG
Found at i:725168 original size:26 final size:26
Alignment explanation
Indices: 725139--725194 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
725129 TATTGAATGC
725139 TAAACAA-AAAAGGAAA-AAATGAATAA
1 TAAACAATAAAA-GAAATAAAT-AATAA
* *
725165 TAAATAATAAAATAAATAAATAATAA
1 TAAACAATAAAAGAAATAAATAATAA
725191 TAAA
1 TAAA
725195 TAATGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (26 bp):
TAAACAATAAAAGAAATAAATAATAA
Found at i:725182 original size:19 final size:19
Alignment explanation
Indices: 725154--725194 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
725144 AAAAAAGGAA
*
725154 AAAATGAAT-AATAAATAAT
1 AAAATAAATAAAT-AATAAT
725173 AAAATAAATAAATAATAAT
1 AAAATAAATAAATAATAAT
725192 AAA
1 AAA
725195 TAATGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATAAATAAATAATAAT
Found at i:726996 original size:110 final size:108
Alignment explanation
Indices: 726795--727052 Score: 376
Period size: 110 Copynumber: 2.4 Consensus size: 108
726785 GTATTGCTCC
* ** * *
726795 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTG--GAACTGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAGAAATGGAAAATTGTTTGTTGAC
726858 AATCAGCCGCCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTT
66 AATCAGCCGCCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTT
* * *
726901 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAAAGTTGTTTGTTG
1 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAA-GAAATGGAAAA-TTGTTTGTTG
* * *
726966 ACAATCAGTCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
64 ACAATCAGCCGCCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTT
*
727011 GGGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAA
1 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAA
727053 ATTGGGAAGC
Statistics
Matches: 135, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
106 36 0.27
109 8 0.06
110 91 0.67
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (108 bp):
GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAGAAATGGAAAATTGTTTGTTGAC
AATCAGCCGCCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTT
Found at i:731048 original size:7 final size:7
Alignment explanation
Indices: 731038--731079 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
731028 GGAAAAAATG
731038 AATAATA
1 AATAATA
731045 AATAATAA
1 AATAAT-A
731053 AATAAATA
1 AAT-AATA
731061 AATAAT-
1 AATAATA
731067 AATAATA
1 AATAATA
731074 AATAAT
1 AATAAT
731080 GTATTATCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.19
7 15 0.47
8 8 0.25
9 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:731062 original size:16 final size:17
Alignment explanation
Indices: 731041--731078 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
731031 AAAAATGAAT
731041 AATAAATAATAA-AATA
1 AATAAATAATAATAATA
731057 AATAAATAATAATAATA
1 AATAAATAATAATAATA
731074 AATAA
1 AATAA
731079 TGTATTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAATAATAATAATA
Found at i:731664 original size:10 final size:10
Alignment explanation
Indices: 731649--731711 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
731639 TAGGGTCTAC
731649 AAAAATAATA
1 AAAAATAATA
*
731659 AAAAAT-ATT
1 AAAAATAATA
*
731668 AATAATAATA
1 AAAAATAATA
731678 AAAAATAAATA
1 AAAAAT-AATA
* *
731689 TAAAACAA-A
1 AAAAATAATA
731698 ATAAAATAATA
1 A-AAAATAATA
731709 AAA
1 AAA
731712 TGAAATGTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
9 8 0.20
10 23 0.56
11 10 0.24
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAAATAATA
Found at i:731691 original size:19 final size:19
Alignment explanation
Indices: 731652--731709 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
731642 GGTCTACAAA
*
731652 AATAATAAAAAATATTAAT
1 AATAATAAAAAATAATAAT
731671 AATAATAAAAAAT-A-AAT
1 AATAATAAAAAATAATAAT
731688 -ATAA-AACAAAATAA-AAT
1 AATAATAA-AAAATAATAAT
731705 AATAA
1 AATAA
731710 AATGAAATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 2 0.06
16 9 0.26
17 7 0.20
18 4 0.11
19 13 0.37
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AATAATAAAAAATAATAAT
Found at i:733703 original size:8 final size:8
Alignment explanation
Indices: 733692--733739 Score: 69
Period size: 9 Copynumber: 5.6 Consensus size: 8
733682 ATTAAAATTG
733692 AAAAAATAA
1 AAAAAAT-A
733701 AAAAAATAA
1 AAAAAAT-A
733710 AAAAATATA
1 AAAAA-ATA
733719 AAAAAATA
1 AAAAAATA
733727 AAAAAATA
1 AAAAAATA
733735 AAAAA
1 AAAAA
733740 TAGAAACCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
8 16 0.42
9 20 0.53
10 2 0.05
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:733705 original size:10 final size:9
Alignment explanation
Indices: 733692--733739 Score: 73
Period size: 8 Copynumber: 5.4 Consensus size: 9
733682 ATTAAAATTG
733692 AAAAAATAA
1 AAAAAATAA
733701 AAAAAAT-A
1 AAAAAATAA
733709 AAAAAATATA
1 AAAAAATA-A
733719 AAAAAAT-A
1 AAAAAATAA
733727 AAAAAATAA
1 AAAAAATAA
733736 AAAA
1 AAAA
733740 TAGAAACCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.44
9 12 0.33
10 8 0.22
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:733713 original size:18 final size:17
Alignment explanation
Indices: 733692--733739 Score: 87
Period size: 18 Copynumber: 2.8 Consensus size: 17
733682 ATTAAAATTG
733692 AAAAAATAAAAAAAATA
1 AAAAAATAAAAAAAATA
733709 AAAAAATATAAAAAAATA
1 AAAAAATA-AAAAAAATA
733727 AAAAAATAAAAAA
1 AAAAAATAAAAAA
733740 TAGAAACCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAAAAAATA
Found at i:733771 original size:7 final size:7
Alignment explanation
Indices: 733757--733798 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
733747 CTTTTTACCT
733757 TTAA-CC
1 TTAACCC
733763 TTAACCC
1 TTAACCC
733770 TTAACCC
1 TTAACCC
733777 TTAACCC
1 TTAACCC
733784 TTAACCC
1 TTAACCC
733791 TTAACCC
1 TTAACCC
733798 T
1 T
733799 ATGTAATTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.11
7 31 0.89
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAACCC
Found at i:734519 original size:19 final size:19
Alignment explanation
Indices: 734497--734534 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
734487 TCTAAATGTC
*
734497 CTTAATCAATTATTATTGT
1 CTTAATCAATTACTATTGT
734516 CTTAATCAATTACTATTGT
1 CTTAATCAATTACTATTGT
734535 GGGTACAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (19 bp):
CTTAATCAATTACTATTGT
Found at i:736654 original size:17 final size:18
Alignment explanation
Indices: 736617--736657 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
736607 ATATTATGTA
*
736617 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
736635 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
736652 TTTACT
1 TTTACT
736658 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:738199 original size:26 final size:26
Alignment explanation
Indices: 738170--738222 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
738160 AAGTTTTTTG
*
738170 AATTTGATGAGTAAAAGTATACAAAT
1 AATTTGATGAGCAAAAGTATACAAAT
738196 AATTTGATGAGCAAAAGTATACAAAT
1 AATTTGATGAGCAAAAGTATACAAAT
738222 A
1 A
738223 TAAAAGGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.28
Consensus pattern (26 bp):
AATTTGATGAGCAAAAGTATACAAAT
Found at i:742755 original size:24 final size:24
Alignment explanation
Indices: 742723--742771 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
742713 GGAAAGGAGT
742723 AAGGAAATGAGCTTCAAAACAAAA
1 AAGGAAATGAGCTTCAAAACAAAA
742747 AAGGAAATGAGCTTCAAAACAAAA
1 AAGGAAATGAGCTTCAAAACAAAA
742771 A
1 A
742772 CAACACCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.16, T:0.12
Consensus pattern (24 bp):
AAGGAAATGAGCTTCAAAACAAAA
Found at i:744366 original size:21 final size:21
Alignment explanation
Indices: 744342--744381 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
744332 AATATTTTAG
744342 TTAACTATAA-TAAAATTAAAC
1 TTAACTATAAGT-AAATTAAAC
*
744363 TTAATTATAAGTAAATTAA
1 TTAACTATAAGTAAATTAA
744382 GAATTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
TTAACTATAAGTAAATTAAAC
Found at i:749251 original size:19 final size:19
Alignment explanation
Indices: 749227--749279 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
749217 GAATGCATTT
749227 CATGCATCGATGCACATAC
1 CATGCATCGATGCACATAC
*
749246 CATGCATCGATGTACATAC
1 CATGCATCGATGCACATAC
749265 CATGCATCGATGCAC
1 CATGCATCGATGCAC
749280 TGAGGATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (19 bp):
CATGCATCGATGCACATAC
Found at i:749333 original size:65 final size:64
Alignment explanation
Indices: 749264--749389 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 64
749254 GATGTACATA
*
749264 CCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAATTGATGCATCCATGCACCA
1 CCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAATTGATGCATCCATGCACCA
749328 G
64 G
* * * *
749329 CCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCATCGATGCAC
1 CCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCAATTGATGCATCCATGCAC
749390 TCTTAGTGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 30 0.55
65 22 0.40
66 3 0.05
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (64 bp):
CCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCAATTGATGCATCCATGCACCAG
Found at i:749388 original size:64 final size:66
Alignment explanation
Indices: 749247--749389 Score: 186
Period size: 65 Copynumber: 2.2 Consensus size: 66
749237 TGCACATACC
* *
749247 ATGCATCGATGTA-CATACCATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCAATT
1 ATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCAATT
749311 G
66 G
* * * * *
749312 ATGCATCCATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACT
1 ATGCATCGATGCACCATACCATGCATCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCAAT
749374 TG
65 TG
749376 ATGCATCGATGCAC
1 ATGCATCGATGCAC
749390 TCTTAGTGCA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
64 30 0.44
65 33 0.49
66 5 0.07
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (66 bp):
ATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCAATT
G
Found at i:749389 original size:17 final size:19
Alignment explanation
Indices: 749361--749409 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
749351 TATTTTGAAA
749361 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
749379 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
749398 CACCGATGCACT
1 CATCGATGCACT
749410 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:750240 original size:17 final size:17
Alignment explanation
Indices: 750215--750253 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
750205 GCATCAAATG
*
750215 TCGACTCCGGTCTCGAT
1 TCGATTCCGGTCTCGAT
750232 TCGATTCCGGTCTCGAT
1 TCGATTCCGGTCTCGAT
750249 TCGAT
1 TCGAT
750254 GCCCGTCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.31, G:0.23, T:0.33
Consensus pattern (17 bp):
TCGATTCCGGTCTCGAT
Found at i:755281 original size:23 final size:21
Alignment explanation
Indices: 755213--755284 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
755203 CACCTAACAA
*
755213 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* *
755235 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
*
755256 TGCA-CTGATGCACGCCTTGAATG
1 TGCATC-GAT--ACACCTTGAATG
755279 TGCATC
1 TGCATC
755285 AATGCACAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 14 0.35
22 11 0.28
23 13 0.32
24 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:755289 original size:23 final size:23
Alignment explanation
Indices: 755213--755292 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
755203 CACCTAACAA
*
755213 TGCATCGATGCA-TCCTTGAATG
1 TGCATCGATGCACACCTTGAATG
* *
755235 TGCATCGAT--ACACCATGAAGG
1 TGCATCGATGCACACCTTGAATG
*
755256 TGCA-CTGATGCACGCCTTGAATG
1 TGCATC-GATGCACACCTTGAATG
*
755279 TGCATCAATGCACA
1 TGCATCGATGCACA
755293 AGGCCATGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
20 2 0.04
21 14 0.31
22 9 0.20
23 19 0.42
24 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
TGCATCGATGCACACCTTGAATG
Found at i:757235 original size:13 final size:13
Alignment explanation
Indices: 757217--757242 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
757207 TTTCCAGATT
757217 TTTCTTCTTCTTC
1 TTTCTTCTTCTTC
757230 TTTCTTCTTCTTC
1 TTTCTTCTTCTTC
757243 ACCGTGAAAA
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCTTCTTCTTC
Found at i:758552 original size:23 final size:23
Alignment explanation
Indices: 758502--758562 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
758492 CAATCTTATA
* *
758502 TGGCACTACGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTACG
*
758525 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
758548 TGGCACTTCGATGCA
1 TGGCACTTCGGTGCA
758563 TTTATATGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:762930 original size:23 final size:23
Alignment explanation
Indices: 762904--762969 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
762894 CACCACAGCT
*
762904 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
762927 CGTAGAATTGCACCGGAGTACCG
1 CGTAGAATTGCACCGAAGTGCCA
*
762950 CGTAGAATTGCACCGTAGTG
1 CGTAGAATTGCACCGAAGTG
762970 TCATATAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:763902 original size:23 final size:23
Alignment explanation
Indices: 763849--763903 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
763839 ATAACCTTTT
**
763849 CATATAACCCCATAGATCTTTAG
1 CATATAATTCCATAGATCTTTAG
763872 CATATAATTCCATAGATCTTTAG
1 CATATAATTCCATAGATCTTTAG
763895 CATATAATT
1 CATATAATT
763904 TATCATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
CATATAATTCCATAGATCTTTAG
Found at i:768340 original size:23 final size:23
Alignment explanation
Indices: 768314--768378 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
768304 CAGCTCGTAT
768314 AATTGCACCGAAGTGCCATGTAG
1 AATTGCACCGAAGTGCCATGTAG
* **
768337 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCATGTAG
*
768360 AATTGCACCGTAGTGCCAT
1 AATTGCACCGAAGTGCCAT
768379 ATAATAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATGTAG
Found at i:768577 original size:105 final size:105
Alignment explanation
Indices: 768407--768614 Score: 274
Period size: 105 Copynumber: 2.0 Consensus size: 105
768397 ACCATATATC
* * * * *
768407 ATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGT
1 ATTCCTTAAGAATCATATACATATACTAAGGACCAAATATGTGTCGCACAAGACCTCACACATGT
* *
768472 TCCAAAGAATATATATATATCCCGAATGACCGCGTAGAAA
66 TCCAAAGAATACATATATATCCCGAAGGACCGCGTAGAAA
* * *
768512 ATTCCTTAAGAATCATATACATATGCTAAGGACCAAATATGTGTCGCA-AAGGACCTCATAGATG
1 ATTCCTTAAGAATCATATACATATACTAAGGACCAAATATGTGTCGCACAA-GACCTCACACATG
* * * *
768576 TTCCATAGGATACCTATATGTCCCGAAGGACCGCGTAGA
65 TTCCAAAGAATACATATATATCCCGAAGGACCGCGTAGA
768615 CCCTCGACTC
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 2 0.02
105 86 0.98
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (105 bp):
ATTCCTTAAGAATCATATACATATACTAAGGACCAAATATGTGTCGCACAAGACCTCACACATGT
TCCAAAGAATACATATATATCCCGAAGGACCGCGTAGAAA
Found at i:769309 original size:23 final size:23
Alignment explanation
Indices: 769256--769310 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
769246 ATAACCTTTT
**
769256 CATATAACCCCATAGATCTTTAG
1 CATATAATTCCATAGATCTTTAG
769279 CATATAATTCCATAGATCTTTAG
1 CATATAATTCCATAGATCTTTAG
769302 CATATAATT
1 CATATAATT
769311 TATCATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
CATATAATTCCATAGATCTTTAG
Found at i:769490 original size:15 final size:17
Alignment explanation
Indices: 769458--769490 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
769448 CATAACCATG
769458 TATTTCACATAGTCTTA
1 TATTTCACATAGTCTTA
769475 TATTTCA-ATA-TCTTA
1 TATTTCACATAGTCTTA
769490 T
1 T
769491 TACTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (17 bp):
TATTTCACATAGTCTTA
Found at i:773744 original size:23 final size:23
Alignment explanation
Indices: 773718--773782 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
773708 CAGCTCGTAT
773718 AATTGCACCGAAGTGCCATGTAG
1 AATTGCACCGAAGTGCCATGTAG
* ***
773741 AATTGCACCGGAGTGCTGCGTAG
1 AATTGCACCGAAGTGCCATGTAG
* *
773764 AATTGCACCGTACTGCCAT
1 AATTGCACCGAAGTGCCAT
773783 ATAATAATGT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATGTAG
Found at i:773981 original size:105 final size:105
Alignment explanation
Indices: 773811--774018 Score: 283
Period size: 105 Copynumber: 2.0 Consensus size: 105
773801 ACCACATATC
* * * * *
773811 ATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGT
1 ATTCCTTAAGAATCATATACATATACTAAGGACCAAATATGTGTCGCACAAGACCTCACACATGT
*
773876 TCCAAAGAATATATATATATCCCGAAGGACCGCGTAGAAA
66 TCCAAAGAATACATATATATCCCGAAGGACCGCGTAGAAA
* * *
773916 ATTCCTTAAGAATCATATACATATGCTAAGGACCAAATATGTGTCGCA-AAGGACCTCATAGATG
1 ATTCCTTAAGAATCATATACATATACTAAGGACCAAATATGTGTCGCACAA-GACCTCACACATG
* * * *
773980 TTCCATAGGATACCTATATATCTCGAAGGACCGCGTAGA
65 TTCCAAAGAATACATATATATCCCGAAGGACCGCGTAGA
774019 CCCTCGACTC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
104 2 0.02
105 87 0.98
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (105 bp):
ATTCCTTAAGAATCATATACATATACTAAGGACCAAATATGTGTCGCACAAGACCTCACACATGT
TCCAAAGAATACATATATATCCCGAAGGACCGCGTAGAAA
Found at i:774713 original size:23 final size:23
Alignment explanation
Indices: 774660--774714 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
774650 ATAACCTTTT
**
774660 CATATAACCCCATAGATCTTTAG
1 CATATAATTCCATAGATCTTTAG
774683 CATATAATTCCATAGATCTTTAG
1 CATATAATTCCATAGATCTTTAG
774706 CATATAATT
1 CATATAATT
774715 TATCATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
CATATAATTCCATAGATCTTTAG
Found at i:779446 original size:23 final size:23
Alignment explanation
Indices: 779378--779438 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
779368 CAATCTTATA
*
779378 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
779401 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
779424 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
779439 TTTATACGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:780308 original size:29 final size:28
Alignment explanation
Indices: 780276--780333 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
780266 GGATGTTTAA
780276 ATTTGATGGTTGT-TGGATGTTTTGAACTT
1 ATTTG-TGGTTGTATGGAT-TTTTGAACTT
* *
780305 ATTTGTTGTTTTATGGATTTTTGAACTT
1 ATTTGTGGTTGTATGGATTTTTGAACTT
780333 A
1 A
780334 ATATTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.55
Consensus pattern (28 bp):
ATTTGTGGTTGTATGGATTTTTGAACTT
Found at i:805726 original size:65 final size:66
Alignment explanation
Indices: 805622--805767 Score: 258
Period size: 65 Copynumber: 2.2 Consensus size: 66
805612 CGACAGACCC
* *
805622 AGTCCATAACTACATTCATACTATATTAGCAGAAATATGTACAGACTCAAGTGTATGAAAATAAT
1 AGTCCATAACTATATTCATACTATATTAGCAGAAATATGTACAGACTCAAGTGCATGAAAATAAT
805687 -
66 A
*
805687 AGTCCATAACTATGTTCATACTATATTAGCAGAAATATGTACAGACTCAAGTGCATGAAAATAAT
1 AGTCCATAACTATATTCATACTATATTAGCAGAAATATGTACAGACTCAAGTGCATGAAAATAAT
805752 A
66 A
805753 AGTCCATAACTATAT
1 AGTCCATAACTATAT
805768 CGATAGTACG
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 62 0.82
66 14 0.18
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.29
Consensus pattern (66 bp):
AGTCCATAACTATATTCATACTATATTAGCAGAAATATGTACAGACTCAAGTGCATGAAAATAAT
A
Found at i:807451 original size:21 final size:20
Alignment explanation
Indices: 807425--807466 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
807415 AAAATTTGTA
807425 TTATTTAAGTAATTAATTATT
1 TTATTTAAGT-ATTAATTATT
* *
807446 TTATTTTAGTATTTATTATT
1 TTATTTAAGTATTAATTATT
807466 T
1 T
807467 GATTATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTATTTAAGTATTAATTATT
Found at i:807805 original size:18 final size:18
Alignment explanation
Indices: 807758--807806 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
807748 AAATTTTTTA
*
807758 TCTTGATTTG-TTTTTCC
1 TCTTAATTTGTTTTTTCC
*
807775 TCTTAATTGGTTTTTTCC
1 TCTTAATTTGTTTTTTCC
*
807793 TCTTATTTTGTTTT
1 TCTTAATTTGTTTT
807807 GTTATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.08, C:0.14, G:0.10, T:0.67
Consensus pattern (18 bp):
TCTTAATTTGTTTTTTCC
Found at i:808431 original size:32 final size:31
Alignment explanation
Indices: 808390--808466 Score: 120
Period size: 32 Copynumber: 2.5 Consensus size: 31
808380 GAAAAGTCTG
808390 TTTTAGGTGTATGTGTATGCTTTTATTTACTT
1 TTTTAGGTGTATGTGTATGCTTTTATTTA-TT
808422 TTTTAGGTGTATGTGTATGCTTTTATTTATT
1 TTTTAGGTGTATGTGTATGCTTTTATTTATT
* *
808453 GTTTAAG-GTATGTG
1 TTTTAGGTGTATGTG
808467 AAAGATGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 7 0.16
31 7 0.16
32 29 0.67
ACGTcount: A:0.17, C:0.04, G:0.22, T:0.57
Consensus pattern (31 bp):
TTTTAGGTGTATGTGTATGCTTTTATTTATT
Found at i:809485 original size:83 final size:81
Alignment explanation
Indices: 809385--809664 Score: 321
Period size: 83 Copynumber: 3.4 Consensus size: 81
809375 TGCCATAGTG
* * *
809385 TTTT-CATTATTATTCAGAGAATCTCTATCATGTCATAGTATTTCATCCTATCCAAAATAAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGT-TTTCATCCCATCCGAAATGAAAGG
809449 TGTATTGCAGGGGAAACA
65 TGTATT-CAGGGGAAACA
* ** * **
809467 TTTTTCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATTTGAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGT-TTTCATCCCATCCGAAATGAAAGG
* * * *
809532 CGCATTCTAGGGGAAGCG
65 TGTATTC-AGGGGAAACA
* * *
809550 TTTTCCATTATTATTCAGAGAATAT-TTTCCATGTCATAGTGTTCAATCCCATCCGAAATGAAAG
1 TTTTCCATTATTATTCAGAGAATCTCTAT-CATGTCATAGTTTTC-ATCCCATCCGAAATGAAAG
* *
809614 GTGTGTTCCAGGGGAAAAA
64 GTGTATT-CAGGGGAAACA
809633 TTTTCCATTATTATTCAGAGAATCTCTATCAT
1 TTTTCCATTATTATTCAGAGAATCTCTATCAT
809665 TTCACATAAC
Statistics
Matches: 163, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
82 8 0.05
83 152 0.93
84 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (81 bp):
TTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTTTTCATCCCATCCGAAATGAAAGGT
GTATTCAGGGGAAACA
Found at i:815838 original size:38 final size:37
Alignment explanation
Indices: 815761--815838 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
815751 TTTTTATATT
*
815761 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
815798 TTTAATTTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAA-TTTTGTAAAAAAAATTATATAAATATTAT-CAA
815836 TTT
1 TTT
815839 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 18 0.51
38 17 0.49
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:821327 original size:2 final size:2
Alignment explanation
Indices: 821320--821348 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
821310 TAATTGTTAG
821320 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 T
821349 GATTAATCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:821518 original size:2 final size:2
Alignment explanation
Indices: 821511--821536 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
821501 CGTGCAGTGC
821511 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
821537 TAAGTTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:827760 original size:112 final size:112
Alignment explanation
Indices: 827560--827785 Score: 443
Period size: 112 Copynumber: 2.0 Consensus size: 112
827550 AAGTACTTAC
827560 CCCGTGAACCCATCGGCCGGGTTCACCCAAAGAACTGAATTGTTCTGAATTCGCGACCATGGTAG
1 CCCGTGAACCCATCGGCCGGGTTCACCCAAAGAACTGAATTGTTCTGAATTCGCGACCATGGTAG
827625 AAAATAGAGTCATTGCGGCTTATGGGGTCATGTTAACAAGGACGCCA
66 AAAATAGAGTCATTGCGGCTTATGGGGTCATGTTAACAAGGACGCCA
827672 CCCGTGAACCCATCGGCCGGGTTCACCCAAAGAACTGAATTGTTCTGAATTCGCGACCATGGTAG
1 CCCGTGAACCCATCGGCCGGGTTCACCCAAAGAACTGAATTGTTCTGAATTCGCGACCATGGTAG
*
827737 AAAATAGAGTCATTGCGGGTTATGGGGTCATGTTAACAAGGACGCCA
66 AAAATAGAGTCATTGCGGCTTATGGGGTCATGTTAACAAGGACGCCA
827784 CC
1 CC
827786 ACTAGCGGCA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 113 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (112 bp):
CCCGTGAACCCATCGGCCGGGTTCACCCAAAGAACTGAATTGTTCTGAATTCGCGACCATGGTAG
AAAATAGAGTCATTGCGGCTTATGGGGTCATGTTAACAAGGACGCCA
Found at i:828713 original size:30 final size:30
Alignment explanation
Indices: 828679--828797 Score: 238
Period size: 30 Copynumber: 4.0 Consensus size: 30
828669 CCGAAGGACA
828679 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1 TATCCAGAGGTCATAAAGATCCTCGGTAAC
828709 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1 TATCCAGAGGTCATAAAGATCCTCGGTAAC
828739 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1 TATCCAGAGGTCATAAAGATCCTCGGTAAC
828769 TATCCAGAGGTCATAAAGATCCTCGGTAA
1 TATCCAGAGGTCATAAAGATCCTCGGTAA
828798 ACTGTCCATA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 89 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (30 bp):
TATCCAGAGGTCATAAAGATCCTCGGTAAC
Found at i:828836 original size:31 final size:31
Alignment explanation
Indices: 828793--828893 Score: 123
Period size: 31 Copynumber: 3.2 Consensus size: 31
828783 AAAGATCCTC
*
828793 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * *
828824 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
* *
828855 GGTAAAACTGTCCATATGTTTCGTAGAACATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
828887 GGTAAAC
1 GGTAAAC
828894 CCTCGACTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
31 32 0.55
32 26 0.45
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:828870 original size:32 final size:31
Alignment explanation
Indices: 828796--828892 Score: 117
Period size: 32 Copynumber: 3.1 Consensus size: 31
828786 GATCCTCGGT
*
828796 AAACTGTCCATATGTTCCTTAGAACATAGGT-
1 AAACTGTCCATATGTT-CGTAGAACATAGGTA
* *
828827 ATACTGTCCATATGTCTCG-AAAGACATAGGTA
1 AAACTGTCCATATGT-TCGTAGA-ACATAGGTA
828859 AAACTGTCCATATGTTTCGTAGAACATAGGTA
1 AAACTGTCCATATG-TTCGTAGAACATAGGTA
828891 AA
1 AA
828893 CCCTCGACTC
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
30 2 0.04
31 23 0.41
32 28 0.50
33 3 0.05
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
AAACTGTCCATATGTTCGTAGAACATAGGTA
Found at i:829804 original size:18 final size:18
Alignment explanation
Indices: 829783--829817 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
829773 TCCCATCTAG
829783 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
829801 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
829818 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:830423 original size:21 final size:21
Alignment explanation
Indices: 830399--830443 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
830389 TGTTGTTCGT
* *
830399 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
830420 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
830441 TTG
1 TTG
830444 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:832444 original size:17 final size:17
Alignment explanation
Indices: 832410--832461 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
832400 ACCGGACAAA
* *
832410 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
832427 TTTATTAATTTACCGAG
1 TTTATTAATTTACAGAG
*
832444 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
832459 TTT
1 TTT
832462 CTACTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:835777 original size:183 final size:185
Alignment explanation
Indices: 835468--835837 Score: 597
Period size: 183 Copynumber: 2.0 Consensus size: 185
835458 AAATTAAATG
* *
835468 TTTTTAATTCAAAAAAATGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCA
1 TTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCA
*
835533 GATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAACGTTATTAGATCTTAAATTATTAAT
66 GATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAAT
* *
835598 TG-GATTTTAAATGGTTTGGGTTTAGCCCATATG-TATACATAATATATTTAATAT
131 TGTG-TTTTAAATGGTTTGGGTTGAGCCCATATGTTATACATAAGATATTTAATAT
835652 TTTTTAATT-AAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAATTT
1 TTTTTAATTCAAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAAT-AAAAATTT
* * *
835716 -ATAT-AATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGGTCTTAAATTATTA
64 CAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTA
*
835779 ATTGTGTTTTAAATGGTTTGGGTTGAGCCCATATGTTATATATAAGATATTTAATAT
129 ATTGTGTTTTAAATGGTTTGGGTTGAGCCCATATGTTATACATAAGATATTTAATAT
835836 TT
1 TT
835838 AAAATTTAAT
Statistics
Matches: 173, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
183 95 0.55
184 70 0.40
185 8 0.05
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (185 bp):
TTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCA
GATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAAT
TGTGTTTTAAATGGTTTGGGTTGAGCCCATATGTTATACATAAGATATTTAATAT
Found at i:836096 original size:30 final size:29
Alignment explanation
Indices: 836051--836143 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
836041 TTTAACTACT
** *
836051 TAAAGTACATTTTTGTTAAAATAAGTATA
1 TAAAGTATTTTTTTGTCAAAATAAGTATA
* *
836080 TAAATTTATTTTTTTGTCAAAATAAGTATT
1 TAAA-GTATTTTTTTGTCAAAATAAGTATA
* * *
836110 TAAAGTATTTTTTTATCAAAATAGGTATC
1 TAAAGTATTTTTTTGTCAAAATAAGTATA
836139 TAAAG
1 TAAAG
836144 CATTCAATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 30 0.56
30 24 0.44
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (29 bp):
TAAAGTATTTTTTTGTCAAAATAAGTATA
Found at i:836299 original size:31 final size:30
Alignment explanation
Indices: 836228--836301 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
836218 GAAAATTTTG
* * *
836228 AATACTTTAAGTATCTATTTTGACCAAAAA
1 AATACTTTAGGTATCTATTTTCAACAAAAA
* * *
836258 GATAAGTTTAGGTATTTATTTTCAACAACAAA
1 AAT-ACTTTAGGTATCTATTTTCAACAA-AAA
836290 AATACTTTAGGT
1 AATACTTTAGGT
836302 TCCTAAGATG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
30 2 0.06
31 27 0.79
32 5 0.15
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (30 bp):
AATACTTTAGGTATCTATTTTCAACAAAAA
Found at i:836721 original size:60 final size:60
Alignment explanation
Indices: 836621--836774 Score: 177
Period size: 60 Copynumber: 2.6 Consensus size: 60
836611 GATGAACTTG
** * * * *
836621 GGGATGAAATTAGAATACTCAAAAGTTTGGGGAATGATTTAG-A-AAGAGGATTATAGTTTA
1 GGGATGAAATTAGAATACTCAAAAGTTTAAGGACTAATTTAGAATAAGA-GA-CATAATTTA
* * *
836681 GGGATGAAATTAGAATGCTCAAAAGTTCAAGGACTAATTTAGAATAAGAGACATAATTTG
1 GGGATGAAATTAGAATACTCAAAAGTTTAAGGACTAATTTAGAATAAGAGACATAATTTA
* *
836741 GGGATTAAATTAGAATATTCAAAAGTTTAAGGAC
1 GGGATGAAATTAGAATACTCAAAAGTTTAAGGAC
836775 CAACTTGAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
60 72 0.91
61 3 0.04
62 4 0.05
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (60 bp):
GGGATGAAATTAGAATACTCAAAAGTTTAAGGACTAATTTAGAATAAGAGACATAATTTA
Found at i:844552 original size:17 final size:17
Alignment explanation
Indices: 844530--844562 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
844520 TCTTCACTAT
844530 ATAAAGGAT-GAAAAACA
1 ATAAA-GATGGAAAAACA
844547 ATAAAGATGGAAAAAC
1 ATAAAGATGGAAAAAC
844563 TATTAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.64, C:0.06, G:0.18, T:0.12
Consensus pattern (17 bp):
ATAAAGATGGAAAAACA
Found at i:846037 original size:22 final size:23
Alignment explanation
Indices: 846009--846055 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
845999 AAAAAGACAG
*
846009 AAAATGTGTCA-AAAGGTAGAGA
1 AAAATGTGTCATAAAGGTAAAGA
* *
846031 AAAATGTTTCATAAATGTAAAGA
1 AAAATGTGTCATAAAGGTAAAGA
846054 AA
1 AA
846056 TAAAACTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.53, C:0.04, G:0.19, T:0.23
Consensus pattern (23 bp):
AAAATGTGTCATAAAGGTAAAGA
Found at i:866576 original size:17 final size:17
Alignment explanation
Indices: 866554--866589 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
866544 GTATAGCGTC
866554 ATTATCTATCATTAAAA
1 ATTATCTATCATTAAAA
866571 ATTATCTATCATTAAAA
1 ATTATCTATCATTAAAA
866588 AT
1 AT
866590 GTGATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTATCTATCATTAAAA
Found at i:868781 original size:6 final size:6
Alignment explanation
Indices: 868770--868800 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
868760 CCATCTCGTC
868770 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
868801 AATACGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:869156 original size:145 final size:145
Alignment explanation
Indices: 868893--869195 Score: 534
Period size: 145 Copynumber: 2.1 Consensus size: 145
868883 TGCGATTTTG
868893 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGA
868958 CTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATCACAACGAAATTGGAAAAT
66 CTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATCACAACGAAATTGGAAAAT
*
869023 TGCAACGCGAACTTC
131 CGCAACGCGAACTTC
* * * * *
869038 GACTATCACAACGAATTTGTAATAAATCGCAACGTGAACTTGGAGTATCGCAACGTGAACTTGGA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGA
* *
869103 CTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATCGCAACGAACTTGGAAAAT
66 CTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATCACAACGAAATTGGAAAAT
869168 CGCAACGCGAACTTC
131 CGCAACGCGAACTTC
869183 GACTATCGCAACG
1 GACTATCGCAACG
869196 CGAACTTGGA
Statistics
Matches: 149, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
145 149 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (145 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGA
CTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATCACAACGAAATTGGAAAAT
CGCAACGCGAACTTC
Found at i:869220 original size:21 final size:21
Alignment explanation
Indices: 868890--869214 Score: 215
Period size: 21 Copynumber: 15.7 Consensus size: 21
868880 CATTGCGATT
* *
868890 TTGGACTATCGCAA--CGAAT
1 TTGGAATATCGCAACGCGAAC
868909 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAACGCGAAC
* * *
868932 TTCGACTATCGCAACGTGAAC
1 TTGGAATATCGCAACGCGAAC
* * *
868953 TTGGACTATCGCAA--CAAAT
1 TTGGAATATCGCAACGCGAAC
*
868972 TTGGAATAAATCGCAACGCGAAT
1 TTGGAAT--ATCGCAACGCGAAC
* * *
868995 TTGGAAAATCACAA--CGAAA
1 TTGGAATATCGCAACGCGAAC
* *
869014 TTGGAAAATTGCAACGCGAAC
1 TTGGAATATCGCAACGCGAAC
* * * *
869035 TTCGACTATCACAA--CGAAT
1 TTGGAATATCGCAACGCGAAC
* *
869054 TTGTAATAAATCGCAACGTGAAC
1 TTGGAAT--ATCGCAACGCGAAC
* *
869077 TTGGAGTATCGCAACGTGAAC
1 TTGGAATATCGCAACGCGAAC
* * *
869098 TTGGACTATCGCAA--CAAAT
1 TTGGAATATCGCAACGCGAAC
*
869117 TTGGAATAAATCGCAACGCGAAT
1 TTGGAAT--ATCGCAACGCGAAC
*
869140 TTGGAAAATCGCAA--CGAAC
1 TTGGAATATCGCAACGCGAAC
*
869159 TTGGAAAATCGCAACGCGAAC
1 TTGGAATATCGCAACGCGAAC
* *
869180 TTCGACTATCGCAACGCGAAC
1 TTGGAATATCGCAACGCGAAC
*
869201 TTGGACTATCGCAA
1 TTGGAATATCGCAA
869215 TACGAATATG
Statistics
Matches: 243, Mismatches: 43, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
19 64 0.26
21 142 0.58
23 37 0.15
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (21 bp):
TTGGAATATCGCAACGCGAAC
Found at i:875065 original size:4 final size:4
Alignment explanation
Indices: 875056--876094 Score: 2022
Period size: 4 Copynumber: 261.8 Consensus size: 4
875046 TTAAAATTTT
875056 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875104 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875152 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875200 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875248 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875296 ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875342 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875390 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875438 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875486 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875534 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875582 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875630 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875678 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875724 ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875770 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875816 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875864 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875912 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
875960 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
876008 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
876056 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
876095 TTAAAAAGAA
Statistics
Matches: 1027, Mismatches: 0, Indels: 16
0.98 0.00 0.02
Matches are distributed among these distances:
2 8 0.01
4 1019 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:876510 original size:2 final size:2
Alignment explanation
Indices: 876503--876573 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
876493 TTTCTTTTTA
876503 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
876545 AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
876574 AAATTTTAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:883643 original size:104 final size:103
Alignment explanation
Indices: 883413--883618 Score: 360
Period size: 104 Copynumber: 2.0 Consensus size: 103
883403 TGTCAAATAT
*
883413 TGGTAAGAGGAAATACTCATGAAGCATGGAGACAAGCTGTAACAAAATGTTTCAAAAATCACAAT
1 TGGTAAGAGGAAATACACATGAAGCATGGAGACAAGCTGTAACAAAATGTTTCAAAAATCAC-AT
* *
883478 AACATTCTACTCAATTTCAAGAGCCCATAATGCTAATAT
65 AACATTCTACTCAATTTCAAGAGCCCATAATGCTAAAAA
*
883517 TGGTAAGAGGAAATACTCATGAAGCATGGAGACAAGCTGTAACAAAATGTTTCAAAAATCAC-TA
1 TGGTAAGAGGAAATACACATGAAGCATGGAGACAAGCTGTAACAAAATGTTTCAAAAATCACATA
883581 ACATTCTACTCAATTTCAAGAGCCCATAATGCTAAAAA
66 ACATTCTACTCAATTTCAAGAGCCCATAATGCTAAAAA
883619 CCATGTTTCA
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
102 38 0.38
104 62 0.62
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (103 bp):
TGGTAAGAGGAAATACACATGAAGCATGGAGACAAGCTGTAACAAAATGTTTCAAAAATCACATA
ACATTCTACTCAATTTCAAGAGCCCATAATGCTAAAAA
Found at i:886818 original size:723 final size:715
Alignment explanation
Indices: 885256--888261 Score: 3032
Period size: 722 Copynumber: 4.2 Consensus size: 715
885246 AGGTATCGTA
* * * * * * * * *
885256 TACCTTTTCAACGAAAAATAATAAAGTTATCATGTAAATAGTTACTCAATG-TTTTAG-GGGGAA
1 TACCTTTTCATCGATAAAGAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAGAGAAA
** * * ** *
885319 ATGCATAGGTATCGTAGAAAGTATGCAAGCAAAAGTTACAAAATTTATTT-AGTTTTAAGCAACT
66 ATATATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACAAAAGTTATTTGA-TTTTAAGCAACT
* * * * * *
885383 TGTC-GGGTATTAATAATAGAAGAAAAAAACTC-ACGATGAAT-A--GAGACAAGATGTAGTAAA
130 TGTCAAGAT-TTAGTAATAGAAG-AAAAAACTCTATGATGAATAATGGGGACAAGATGTAGCAAA
* * * * *
885443 ATTA-TTTAAAAATCATAATAATACT-CTCCTCAA-TTT-----CCCCTAACGTTTAAAACAATA
193 A-TACTTCAAAAATCATAATAATA-TACTTCTCAACTTTAGGAGCCCCTAATGTTCAAAACCATA
** * * ** ** * * * * *
885500 TTTTACAGACTCAGTAAAAATCTATATTTAAAATAGAAAGTAATAGTATAGAGATAATTTACCTT
256 TTCCAAAGAGTCAACATGAATCTATATCTAAAATAGAAAATAACATTATATAGATAATTTACCTT
* * ** * * * *
885565 TAGTTTGATAAAGAGTAATTCTCATCATGTAAATAGTTACATTAACATATTATTTTTGCAGATAA
321 AACTTTGATAAAGAGTAACCCTCATCATGTAAATAATTACA-CATCATATTATGTTTGCAGATAA
* * * * * * *
885630 AACATATATTATATCATACAAGTTATGT-CACTTGAATTTCTAAAAGTTTTCTAATTTTAAGCAA
385 AACATAAATCATATCATACAAATCATGTGCAC-TGAATTTGTAAAAGTTTT-TTATTTT---TAA
* * * * *
885694 CTTACAATAAGTAACAAATATTAGTAATAAAAGCAAAAGTCCTCAAGCACAAACACAAGTTGTAG
445 CTTAC---AAGTAACAAATATTAATAATAGAAGCAAAAGTCCTCAAGCACAAAGACAAGCTATAG
* ** * * * *
885759 AAAAGTATTTCAAAAATCAAAAAAAATATTCTTCTTAAATACAAGA-ATCCATAATATAGAAAAC
507 CAAAGTGCTTCAAAAAT-AAGAAAAATATTCTTCTTAAATTCAAGAGA-CCCTAATATTGAAAAC
* * * * *
885823 CATTTTCTAAAGACTCGACATTTTATTTCTAAAATGGGTAGCCAAGGTTTCAAGATAATTTTATT
570 CATTTTCTAAAGACTCAACATTCTATATCTAAAAT-GGTAGCCAA-GTATCAAAATAATTTTATT
* * * *
885888 TTACCTCGATAGAGAGTAACCCTCATCATGTAAATAATTACTCATACTGCTTCTAGAGATAAAAT
633 TTACCTAGATAGAGAGTAACCCTCATCATGTAAATAGTTACTCATATTGCTTCTATAGATAAAAT
* * * *
885953 GTATAGGTATTATACAGTG
698 ATAT-GGTATCATACAATT
**
885972 TACCTTTTCATCGATAAA-AGTAATATCATCATGTAAATAGTTACTCATTGTTTTTAGAGAGAAA
1 TACCTTTTCATCGATAAAGAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAGAGAAA
*
886036 A-AGTATAGGTATCATAGAAA-CATGCAAACTGAAGTTACAAAAGTTATTTGATTTTAAGCAACT
66 ATA-TATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACAAAAGTTATTTGATTTTAAGCAACT
* *
886099 CGTCAAGATTTAGTAATAGAATAAAAAAACTCATGATGAATGGAGATGAATGGGGACAAGATGTA
130 TGTCAAGATTTAGTAATAGAA-GAAAAAACTC-T-ATG-AT-GA-AT-AATGGGGACAAGATGTA
* * ** *
886164 ACAAAATACTTCAAAAATCAAAATAATATACTTCTCAACTTTAAAAGCCCCTAAAGTTCAAAACC
188 GCAAAATACTTCAAAAATCATAATAATATACTTCTCAACTTTAGGAGCCCCTAATGTTCAAAACC
* ** * *
886229 ATATTCTAAAGAGTCATTATGTATCTATATCTAAAATAGAAAATAACATTATATAAATAATTTAC
253 ATATTCCAAAGAGTCAACATGAATCTATATCTAAAATAGAAAATAACATTATATAGATAATTTAC
* * * *
886294 CTTAACTTTGAAAAAGTGTAACCCTCGTCATGTAAATAATTACACATCATATTATGTTTGCAAAT
318 CTTAACTTTGATAAAGAGTAACCCTCATCATGTAAATAATTACACATCATATTATGTTTGCAGAT
* * *
886359 AAAACATAAATCATATCATACAAATCATGTGCCCAGAATTTATAAAAGTTTTTTATTTTTAACTT
383 AAAACATAAATCATATCATACAAATCATGTGCACTGAATTTGTAAAAGTTTTTTATTTTTAACTT
* *
886424 AC-AGTAACAAATATTAGTACTAGAAGCAAAAGTCCTCAAGCACAAAGACAAGCTATAGCAAAGT
448 ACAAGTAACAAATATTAATAATAGAAGCAAAAGTCCTCAAGCACAAAGACAAGCTATAGCAAAGT
* * *
886488 GCTTCAAAAATAAGAAAAATCTTCTTCTTAAATTCAGGAGACCCTAATATTGAAAATCATTTTCT
513 GCTTCAAAAATAAGAAAAATATTCTTCTTAAATTCAAGAGACCCTAATATTGAAAACCATTTTCT
* * * * *
886553 -AAGAACTCAACATTTTATATGTACAATAGGTAGTCAA-TATTAAAATAATTTTATTTTACCTAG
578 AAAG-ACTCAACATTCTATATCTAAAAT-GGTAGCCAAGTATCAAAATAATTTTATTTTACCTAG
* * * *
886616 TTAGAGAGTAAGCCTCAATCATATAAATAGTTACTTATATTGCTTCTATAGATAAAATATATGGA
641 ATAGAGAGTAACCCTC-ATCATGTAAATAGTTACTCATATTGCTTCTATAGATAAAATATATGG-
*
886681 TATCATATAATT
704 TATCATACAATT
* *
886693 TACCTTTAT-ATCGATAGAGAGTAACGTCATCAAGTAAATAGTTACTCATTGTTTTTAGAGAGAA
1 TACCTTT-TCATCGATAAAGAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAGAGAA
*
886757 AATATATAGGTATCATAGAAAGCATGCAAGCTGAAGTTGCATAAA-TTATTTGATTTTAAGCAAC
65 AATATATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACA-AAAGTTATTTGATTTTAAGCAAC
* * * *
886821 TTGCCAGGATATAGTAATAGAAGAAAAAACTC-ATCAT--A-AATGGGGACAAGATGTAGC-AAA
129 TTGTCAAGATTTAGTAATAGAAGAAAAAACTCTATGATGAATAATGGGGACAAGATGTAGCAAAA
* * *
886881 TATTTCAAAAATCATAATAATCTACTCCTCAACTTTAGGAGCCCCTAATGTTCAAAACCATATTC
194 TACTTCAAAAATCATAATAATATACTTCTCAACTTTAGGAGCCCCTAATGTTCAAAACCATATTC
* * * * * * *
886946 CAAAGACTCAACAAGAATTTATATCTAAATTAAAAAAAAAAGAATATTATATAGATAATTTACCT
259 CAAAGAGTCAACATGAATCTATATCT--A--AAATAGAAAATAACATTATATAGATAATTTACCT
* * * * * *
887011 TAACTTTGATAAGGAGCAACACTCATTATCTAAATAATTACACATCATATTATGTTTACAGATAA
320 TAACTTTGATAAAGAGTAACCCTCATCATGTAAATAATTACACATCATATTATGTTTGCAGATAA
* * * *
887076 AACATAAATCATATCATACAAATCATGCGCATTGAATTTGTAAACGTTTTTTTTTGTTTTTAACT
385 AACATAAATCATATCATACAAATCATGTGCACTGAATTTGTAAAAG---TTTTTTATTTTTAACT
* * * * *
887141 TACAATAAATAATAAATATTAATAATGGAAGCAAAAGTCCTCGAGCAAAAAGACAAGCTATAGCA
447 TAC---AAGTAACAAATATTAATAATAGAAGCAAAAGTCCTCAAGCACAAAGACAAGCTATAGCA
* * * * * ** *
887206 AAGTTCATAAAAAATCAGAAAAATATTCTAT-TTAAATTCAGGAGGTCCTAATATTAAAAACCAT
509 AAGTGCTTCAAAAATAAGAAAAATATTCT-TCTTAAATTCAAGAGACCCTAATATTGAAAACCAT
*
887270 TTTCTAAAGACTCAACATTCTATATTTAAAATGGATAGCCAATGTATCAAAATAATTTTATTTTA
573 TTTCTAAAGACTCAACATTCTATATCTAAAATGG-TAGCCAA-GTATCAAAATAATTTTATTTTA
* *
887335 CCTCGATAGAGAGTAACCCTCATCATGTAAATAGTTACTCATATTGCTTTTAT-GAATAAAATGT
636 CCTAGATAGAGAGTAACCCTCATCATGTAAATAGTTACTCATATTGCTTCTATAG-ATAAAA--T
*
887399 ATAT-ATATCATACAATT
698 ATATGGTATCATACAATT
* * * * *
887416 TACCTTTTCATCGATAAAGAGTGATGTCATCATGTAAATAATTACTCATTATTTTTA-A-AGAGA
1 TACCTTTTCATCGATAAAGAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAGAGAAA
* * * **
887479 ATGTATAGGTATCATAGAAAGTATGCAAGCTGAAGTTACAAATGTTATTTGAAATTAAGCAACTT
66 ATATATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACAAAAGTTATTTGATTTTAAGCAACTT
* ** * *
887544 ATGGAGATTTAGTAATAGAAGAAAAAGCT-TATGATGAAT--T-GAGACAAGATGTAGCAAAATA
131 GTCAAGATTTAGTAATAGAAGAAAAAACTCTATGATGAATAATGGGGACAAGATGTAGCAAAATA
* ** * * *
887605 CTTCAAAAGTCATAATAATATACTTCTTGACTTCAGGAGCCCCTAATGATCAAAATCATATTCCA
196 CTTCAAAAATCATAATAATATACTTCTCAACTTTAGGAGCCCCTAATGTTCAAAACCATATTCCA
* *
887670 AAG-GCTCAACATGAATCTATATAT-AAAT--AAAGTAACATTATATAGATAATTTA-C----C-
261 AAGAG-TCAACATGAATCTATATCTAAAATAGAAAATAACATTATATAGATAATTTACCTTAACT
*
887725 ---------AGTAACCCTCATCATGTAAATAATTACACATC--A-TATGTTTGCATATAAAACAT
325 TTGATAAAGAGTAACCCTCATCATGTAAATAATTACACATCATATTATGTTTGCAGATAAAACAT
* *
887778 AAGTCATATCATGCAAATCATGTGCACTGAATTTGTAAAAGTTTTTT-TTACTTTGAACTTACAG
390 AAATCATATCATACAAATCATGTGCACTGAATTTGTAAAAGTTTTTTATT--TTT-AACTTAC--
* * * * *
887842 TAAGAAACAAATATTAATAATAGAAACAAAAGTCCTCGACCACAAAGACAAGAC-ATAGCAAAAT
450 -AAGTAACAAATATTAATAATAGAAGCAAAAGTCCTCAAGCACAAAGACAAG-CTATAGCAAAGT
* * * * *
887906 GTTTCAAAAATCAGAAAAATATTCTTCTTAAATTCAAGTGTCCCTAATATTGAAAATCATTTTCT
513 GCTTCAAAAATAAGAAAAATATTCTTCTTAAATTCAAGAGACCCTAATATTGAAAACCATTTTCT
* * * *
887971 AAAAACTAAACATTCAATATCTAAAATGTGTAGCCAAGGTATCAAGATAATTTTATTTTACCTCA
578 AAAGACTCAACATTCTATATCTAAAATG-GTAGCCAA-GTATCAAAATAATTTTATTTTACCT-A
* * *
888036 -ATAGAGAGTAACACTCATCATGTAAATAGTTACTCATATTGTTTCTATAGATAAAATGCAGA-G
640 GATAGAGAGTAACCCTCATCATGTAAATAGTTACTCATATTGCTTCTATAGATAAAAT--ATATG
* *
888099 GTATCAAACAGTT
703 GTATCATACAATT
* * * *
888112 GACCTTTTCATCGATAAAGAGTAACTTCATCATGTAAATAGTTATTCAATGTTTTTAGAGAGAAA
1 TACCTTTTCATCGATAAAGAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAGAGAAA
* * * * *
888177 GTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAAGTTATTTGATTCTT-AGCTACT
66 ATATATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACAAAAGTTATTTGATT-TTAAGCAACT
*
888241 TGTCAGGATTTAGTAATAGAA
130 TGTCAAGATTTAGTAATAGAA
888262 ATAACGCGCC
Statistics
Matches: 1930, Mismatches: 285, Indels: 168
0.81 0.12 0.07
Matches are distributed among these distances:
693 2 0.00
694 7 0.00
695 4 0.00
696 282 0.15
697 58 0.03
698 75 0.04
699 2 0.00
700 28 0.01
710 1 0.00
711 80 0.04
712 18 0.01
713 1 0.00
714 2 0.00
715 173 0.09
716 81 0.04
717 26 0.01
718 20 0.01
719 4 0.00
720 42 0.02
721 169 0.09
722 364 0.19
723 221 0.11
724 42 0.02
725 8 0.00
726 40 0.02
727 10 0.01
730 6 0.00
731 59 0.03
732 105 0.05
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (715 bp):
TACCTTTTCATCGATAAAGAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAGAGAAA
ATATATAGGTATCATAGAAAGCATGCAAGCTGAAGTTACAAAAGTTATTTGATTTTAAGCAACTT
GTCAAGATTTAGTAATAGAAGAAAAAACTCTATGATGAATAATGGGGACAAGATGTAGCAAAATA
CTTCAAAAATCATAATAATATACTTCTCAACTTTAGGAGCCCCTAATGTTCAAAACCATATTCCA
AAGAGTCAACATGAATCTATATCTAAAATAGAAAATAACATTATATAGATAATTTACCTTAACTT
TGATAAAGAGTAACCCTCATCATGTAAATAATTACACATCATATTATGTTTGCAGATAAAACATA
AATCATATCATACAAATCATGTGCACTGAATTTGTAAAAGTTTTTTATTTTTAACTTACAAGTAA
CAAATATTAATAATAGAAGCAAAAGTCCTCAAGCACAAAGACAAGCTATAGCAAAGTGCTTCAAA
AATAAGAAAAATATTCTTCTTAAATTCAAGAGACCCTAATATTGAAAACCATTTTCTAAAGACTC
AACATTCTATATCTAAAATGGTAGCCAAGTATCAAAATAATTTTATTTTACCTAGATAGAGAGTA
ACCCTCATCATGTAAATAGTTACTCATATTGCTTCTATAGATAAAATATATGGTATCATACAATT
Found at i:888664 original size:374 final size:376
Alignment explanation
Indices: 887895--889391 Score: 2575
Period size: 376 Copynumber: 4.0 Consensus size: 376
887885 AAAGACAAGA
* * * * * *
887895 CATAGCAAAATGTTTCAAAAATCAGAAAAATATTCTTCTTAAATTCAAGTGTCCCTAATATTGAA
1 CATAGAAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
* *
887960 AATCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCCAAGGTATCAAGATAATTTT
66 AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
* * * * *
888025 ATTTTACCTCAATAGAGAGTAACACTCATCATGTAAATAGTTACTCATATTGTTTCTATAGATAA
131 ATTTTACCTCGATAAAGAGTAACCCTCATCATGTAAATAATTACTCATATTGTTTCTATGGATAA
**
888090 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACTTCATCATGTAAATAGTT
196 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
*
888155 ATTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAA
261 ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAA
*
888220 GTTATTTGATTCTTAGCTACTTGTCAGGATTTAGTAATAGAAATAACGCGC
326 GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAATAACGCGC
888271 CATAGAAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
1 CATAGAAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
888336 AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
66 AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
*
888401 ATTTTACCTCGATAAAGAGTAACCCTCATCATGTTAATAATTACTCATATTGTTTCTATGGATAA
131 ATTTTACCTCGATAAAGAGTAACCCTCATCATGTAAATAATTACTCATATTGTTTCTATGGATAA
888466 AATGCAGAGGTATC-AACAGTTGACC-TTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
196 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
*
888529 ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGTTGAAGTTACAAAA
261 ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAA
888594 GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAATAACGCGC
326 GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAATAACGCGC
*
888645 CATAGAAAAATGTTTCAAAACTCATAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
1 CATAGAAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
888710 AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
66 AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
* *
888775 ATTTTACCTCGATAAAGAGTAACCCTCATCATGTTAATAATTACTCATATTGTTTTTATGGATAA
131 ATTTTACCTCGATAAAGAGTAACCCTCATCATGTAAATAATTACTCATATTGTTTCTATGGATAA
888840 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
196 AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
* *
888905 ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAATCATGCAAGTTGAAGTTACAAAA
261 ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAA
* ***
888970 GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAAAAAAATGC
326 GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAATAACGCGC
* *
889021 CATAGCAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTCTTAAATTCAGGAGTCCCTAATACT
1 CATAGAAAAATGTTTCAAAACTCAGAAAAATA---TTCTTCTTAAATTCAGGAGTCCATAATACT
* *
889086 GAAAACCATTTTCTAAAAACTAAACATTCAATGTCTAAAATGTGTAGCCAAGGTATCAAGATAAT
63 GAAAACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAAT
* * * * *
889151 TTTATTTTACCTCGATACAGAGTAACCTTCATCTTGTAAATAGTTACTCATATTGTTTTTATGGA
128 TTTATTTTACCTCGATAAAGAGTAACCCTCATCATGTAAATAATTACTCATATTGTTTCTATGGA
* * * * *
889216 TAAAATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAAATTAATGTCATCATGCAAATA
193 TAAAATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATA
889281 GTTACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACA
258 GTTACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACA
889346 AAAGTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAA
323 AAAGTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAA
889392 AAAACGCTCA
Statistics
Matches: 1073, Mismatches: 43, Indels: 7
0.96 0.04 0.01
Matches are distributed among these distances:
374 356 0.33
375 22 0.02
376 374 0.35
379 321 0.30
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (376 bp):
CATAGAAAAATGTTTCAAAACTCAGAAAAATATTCTTCTTAAATTCAGGAGTCCATAATACTGAA
AACCATTTTCTAAAAACTAAACATTCAATATCTAAAATGTGTAGCAAAGGTATCAAGATAATTTT
ATTTTACCTCGATAAAGAGTAACCCTCATCATGTAAATAATTACTCATATTGTTTCTATGGATAA
AATGCAGAGGTATCAAACAGTTGACCTTTTCATCGATAAAGAGTAACGCCATCATGTAAATAGTT
ACTCAATGTTTTTAGAGAGAAAGTGTATAAGTATCATAGAAACCATGCAAGCTGAAGTTACAAAA
GTTATTTGATTCTTAGCAACTTGTCAGGATTTAGTAATAGAAATAACGCGC
Found at i:891255 original size:676 final size:683
Alignment explanation
Indices: 889056--892891 Score: 3351
Period size: 735 Copynumber: 5.5 Consensus size: 683
889046 AAAAATATTC
* * *
889056 TTCTTCTTAAATTCAGGAGTCCCT-AATACTGAAAACCATTTTCTAAAAACTAAACATTCAATGT
1 TTCTTCTTAAATTCAGGAG--CCTAAATACTGAAAACCATTTTCTAAAGACT-AACATTCTATAT
* * * * *
889120 CTAAAATGTGTAGCCAAGGTATCAAGATAATTTTATTTTACCTCGATACAGAGTAACCTTCATCT
63 CTAAAATGGGTAGCCAAGTTATCAAGATAATTTTATTTTACCTCGATATAGAGTAACCCTCATCA
* * * * * * * *
889185 TGTAAATAGTTACTCATATTGTTTTTATGGATAAAATGCAGAGGTATCAAACAGTTGACCTTTTC
128 TGTAAATAGTTACTCATATTGCTTCTATGGATAAAATGTATAGGTATCATACAATTTACTTTTTC
* * * *
889250 ATCGATAAAAATTAATGTCATCATGCAAATAGTTACTCAATGTTTTTAGAGAGAAAGTGTATAAG
193 ATCG------AGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAGAG-AA-TGTATAAG
* *
889315 TATCATAGAAACCATGCAAGCTGAAGTTACAAAAGTTATTTGATTCTTAGCAACTTGTCAGGATT
250 TATCATAGAAAGCATGCAAGCTGAAGTTACAAAA-TTATTTGATTCTAAGCAACTTGTCAGGATT
* * * *
889380 TAGTAATAGAA-AAAAACGCTCATTATGAATGGAGACAAGATGTAGTAAAATACTTCAAAAATCA
314 TAGTAATAGAAGAAAAA-ACTCATTATGAATAGAGACAAGATGTAGCAAAAAACTTCAAAAATCA
* * * * * ** * * * *
889444 TAATAGCATACTCCTCAACTTCGAGAGCCTTTG-ATGTTCAAAACCGTATTCCAAAGACTAGACA
378 TAATAACACACCCCTCAACTTCAAAAGCC-CCGAATATTCAAAATCATATTCCAAAGACTCGACA
* * * * *
889508 CGAATCTATGTCTAAAATATAAAGTAAAATTATATATATAATTTACCTTAACTTTGAGTAACCCT
442 TGAATCTATATATAAAATA-AAAGTAACATTATATAAATAATTTACCTTAACTTTGAGTAACCCT
* * * * * * *
889573 CATCATGTAAATAAAACATACTCAACTTATGTTTGCAGATAAAACATAAGTCATTTCATGCAAAA
506 CATCATGT-AAT--AA-TTAATC-AC---TGTGT-CAAAAAAAACATAAGTCATATCAT-C-CAA
** * * * * *
889638 AAAATGTGCACTAAATTTGTAAAAGCTTTTTATTTTTAAGTTACATTAAGTAATAAATATTAGTA
560 ATCATGTGCACTGAATTTGTAAAAGTTTTTTATTTTTAACTTACAATAAGTAACAAATATTAGTA
* * * *
889703 ATAAAAGCATAAA-TCCTCGAGCACA-AAGACAAATTATAGCAAAGTACTTCAAAACTTAAAAAA
625 ATAGAAGCA-AAAGTCCTCGAGCACACAAG-C-AA-TA-A-TAAAGTGCTTCAAAA--T-AGAAA
889766 ATA
681 ATA
* * *
889769 TTCTTCTTAAATTCAGGAGCCCTTAATACTGAAAACCATCTTCTAAAGACTCAAC-TTCCTACAT
1 TTCTTCTTAAATTCAGGAG-CCTAAATACTGAAAACCATTTTCTAAAGACT-AACATT-CTATAT
* ** * *
889833 CTAAAATGTGTAGCCAAGGAATCAAGATAATTTTATTTTACCTCGATAGAAAGTAACCCTCATCA
63 CTAAAATGGGTAGCCAAGTTATCAAGATAATTTTATTTTACCTCGATATAGAGTAACCCTCATCA
* * **
889898 TGTAAATAGTTACTCATATTACTTCTATGGATAAAATATATAGGTATC--AC-----ACAGTTT-
128 TGTAAATAGTTACTCATATTGCTTCTATGGATAAAATGTATAGGTATCATACAATTTACTTTTTC
* *
889955 -T----T-AC-TCAT--TGTAAATAGTTACTCATTGTTTTTACAGAGAAAATGTATAAATATCAT
193 ATCGAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTT--AGAGAGAATGTATAAGTATCAT
* *
890011 AGAAATCATGCAAGCTGAAGTTACAAAAGTTATTTGATTCTAAGCAACTTGTTAGGATTTAGTAA
256 AGAAAGCATGCAAGCTGAAGTTACAAAA-TTATTTGATTCTAAGCAACTTGTCAGGATTTAGTAA
* * * * *
890076 TAAAAGAAAAATCTTATTATGAATGGAGACAAGATATAG-AAAAATACTTCAAAAATCATAATAA
320 TAGAAGAAAAAACTCATTATGAATAGAGACAAGATGTAGCAAAAA-ACTTCAAAAATCATAATAA
* * ** * *
890140 CATA---CTCAACTTCAAGAGCCCTTAATGTTCAAAACCATATTCCAAAGACTCGACATGAATCT
384 CACACCCCTCAACTTCAAAAGCCCCGAATATTCAAAATCATATTCCAAAGACTCGACATGAATCT
* * * *
890202 ATA-ACTAAAATAGAATGTAACATTATATAGATAATTTACCTTAACTTTGAGTAACCCTCGTCAC
449 ATATA-TAAAATA-AAAGTAACATTATATAAATAATTTACCTTAACTTTGAGTAACCCTCATCAT
* * * *
890266 GTAAATAATTACACATCATATTATGTTTGT-AGATAAAACATAAGTCATATCATACAAATCATGT
512 GT-AATAATT--A-ATC--A--CTG--TGTCAAAAAAAACATAAGTCATATCATCCAAATCATGT
* * *
890330 GCACTAAATTTGTAAATGTTTTTTTTATTTTTAACTTACAATAAGTAACAAATATTAGTAATATA
567 GCACTGAATTTGTAAAAG--TTTTTTATTTTTAACTTACAATAAGTAACAAATATTAGTAATAGA
* * * * *
890395 AGCAAAAGTCCTCAGGCGCAGAGACAAGCTATAGTAAAGTGCTTCAAAAATTGGATAAATA
630 AGCAAAAGTCCTC--GAGC--ACACAAGCAATAATAAAGTGCTTC-AAAA-TAGA-AAATA
* * *
890456 TTCTTCTTAAATTAAGGAGCCTATAATACTGAAAAACCATCTTCTAAAAACTCAACATTCTATAT
1 TTCTTCTTAAATTCAGGAGCCTA-AATACTG-AAAACCATTTTCTAAAGACT-AACATTCTATAT
**
890521 CTAAAATGGGTAGATAA-TGTATCAAGATAATTTTATTTTACCTCGATATAGAGTAACCCTCATC
63 CTAAAATGGGTAGCCAAGT-TATCAAGATAATTTTATTTTACCTCGATATAGAGTAACCCTCATC
* * * * ** * *
890585 ATGTAAATAGTTACCCAAATTGTTTATATAAATAAAATGTATAGGTATCGTACAATTTACATTTT
127 ATGTAAATAGTTACTCATATTGCTTCTATGGATAAAATGTATAGGTATCATACAATTTACTTTTT
* ** *
890650 CATCGAGTAACGTCATCATATAAATTTTTACTCATTGTTTTTAGAGAGAATGTATAGGTATCATA
192 CATCGAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAGAGAATGTATAAGTATCATA
* *
890715 GAAAGCATGCAAGCTGAAATTACAAATGTTATTTGAATT-TAAGCAACTTGTC-GAGATTTAGTA
257 GAAAGCATGCAAGCTGAAGTTACAAA-ATTATTTG-ATTCTAAGCAACTTGTCAG-GATTTAGTA
* * * * *
890778 ATAGGAGAAAAAAACTCATTATGAATAGAGATAAGATGTAGCAAAATACTTC-AAAGTTATAATA
319 ATAGAAG-AAAAAACTCATTATGAATAGAGACAAGATGTAGCAAAAAACTTCAAAAATCATAATA
** * * * * * *
890842 ATGCACTCCTCAACTTCAAGAGCCTCGAATATTCAAAATTATATTCCAAAGACTCGATATGAATT
383 ACACACCCCTCAACTTCAAAAGCCCCGAATATTCAAAATCATATTCCAAAGACTCGACATGAATC
* *
890907 TATATCTAAAAT-AAAGTAACATTATATAGATAATTTACCTTAACTTTGAGTAA-CC-CA-CAT-
448 TATATATAAAATAAAAGTAACATTATATAAATAATTTACCTTAACTTTGAGTAACCCTCATCATG
* * *
890967 T-AT-ATT-ATC-CT-TG-CAAAAAAAACATAACTCGTATCATCCAAATCATGGGCACTGAATTT
513 TAATAATTAATCACTGTGTCAAAAAAAACATAAGTCATATCATCCAAATCATGTGCACTGAATTT
* * * * *
891026 GTAAAAGTTTTTTACTTTTAACTTACAGTAAGTAACAAATATTAATAATAGAAGAAAAAGTCATC
578 GTAAAAGTTTTTTATTTTTAACTTACAATAAGTAACAAATATTAGTAATAGAAGCAAAAGTCCTC
* * * *
891091 GAGCACACAAGCCACAACAAAGTACTTCAAAACTAGAAAATA
643 GAGCACACAAGCAATAATAAAGTGCTTCAAAA-TAGAAAATA
* * * *
891133 TTATTTTTAAATTCAGGAGTCCCAAATACCGAAAACCATTTTCTAAAGACTAAACATTC-ATTAT
1 TTCTTCTTAAATTCAGGAG-CCTAAATACTGAAAACCATTTTCTAAAGACT-AACATTCTA-TAT
* *
891197 CTAAAATGTGTAGCCAAGTTATCAAGATAATTTTATTTTACCTCGACATAGAGTAACCCTCATCA
63 CTAAAATGGGTAGCCAAGTTATCAAGATAATTTTATTTTACCTCGATATAGAGTAACCCTCATCA
* * *
891262 TGTAAATAGTTACTCGTACTGCTTCTATGGATAAAATGTATAGGTATCATATAATTTACTTTTTC
128 TGTAAATAGTTACTCATATTGCTTCTATGGATAAAATGTATAGGTATCATACAATTTACTTTTTC
* * *
891327 ATCGATAAAGAGTAAGGTCATCATGTAAATAGTTACTC---GTTTTTAGAGAAAAATATATATAA
193 ATC------GAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAG--AGA-ATGTATAA
* * * *
891389 GTATCATAGAAAGCATGTAAGTTGAAGTTACAAGAATTATTTGATTCAAAGCAACTTATCAGGAT
249 GTATCATAGAAAGCATGCAAGCTGAAGTTACAA-AATTATTTGATTCTAAGCAACTTGTCAGGAT
* * *
891454 TTAGTAATAGAAGAAAAAGCTCATTATGAATGGAGACGAGATGTAGCAAAAAACTTCAAAAATCA
313 TTAGTAATAGAAGAAAAAACTCATTATGAATAGAGACAAGATGTAGCAAAAAACTTCAAAAATCA
* *
891519 TAATAACATACCCCTCAACTTCAAAAGCCCCTAATATTCAAAATCATATTCCAAAGACTCGACAT
378 TAATAACACACCCCTCAACTTCAAAAGCCCCGAATATTCAAAATCATATTCCAAAGACTCGACAT
* *
891584 GAATCTATTTATAAAATAGAAAGTTACATTATATAAATAATTTACCTTAACTTTGAGTAACCCTC
443 GAATCTATATATAAAATA-AAAGTAACATTATATAAATAATTTACCTTAACTTTGAGTAACCCTC
* *** *
891649 ATCATGTAAATAATTACACATCATATTGTGTTTTCAGGTAAAACATAAGTCATATCATCCAAATA
507 ATCATGT-AATAATT--A-ATC--ACTGTG---TCAAAAAAAACATAAGTCATATCATCCAAATC
* * *
891714 ATGTGCATTGAATTTGTAAAAGTTTTTTATTTTTAACTTACATTAACTAACAAATATTAGTAATA
563 ATGTGCACTGAATTTGTAAAAGTTTTTTATTTTTAACTTACAATAAGTAACAAATATTAGTAATA
* * *
891779 GAAGCAAAAGTCCTCGGGCGCA-AAGACAAGTTATAGTAAAGTGCTTCAATAATCGAAAATA
628 GAAGCAAAAGTCCTCGAGCACACAAG-CAA--TA-A-TAAAGTGCTTCAA-AATAGAAAATA
* * * *
891840 TTCTTCTTAAATTCAGGAGCCTTTAATACTAAAAACC-TTCTTCTAAAGACTCACCTTCTATATC
1 TTCTTCTTAAATTCAGGAGCC-TAAATACTGAAAACCATT-TTCTAAAGACTAACATTCTATATC
** * *
891904 TAAAATGGGTAGCCAAGGAATCAAGATAATTTTATTTTGCCTCGATAGAGAGTAACCCTCATCAT
64 TAAAATGGGTAGCCAAGTTATCAAGATAATTTTATTTTACCTCGATATAGAGTAACCCTCATCAT
* * * ** *
891969 GTAAATAGTTACTTATATTGCTTCCATGGATAAAATGTGTATTTATCACACAATTTACCTTTCTA
129 GTAAATAGTTACTCATATTGCTTCTATGGATAAAATGTATAGGTATCATACAATTTA-CTTT-T-
* *
892034 TCGATAAGAGTAACGTCATCATGTAAATAGTTACTCATTATTTTTAGAGAGAAAATGTATAAGTA
191 TC-AT-CGAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAGAG--AATGTATAAGTA
* * **
892099 TCATAGAAAACATGTC-AGCTGAAGTTACAAAAATATTTGATTCTAAGC-ACTTGTCATCATGTA
252 TCATAGAAAGCATG-CAAGCTGAAGTTACAAAATTATTTGATTCTAAGCAACTTGTCAGGAT-T-
* * * * * * * * * *
892162 AATAGTTACTCATTGTTTTTAGGGAGAAAA-TGTATAAAAGAA-AAAGCTCATTTTGAATGGAGA
314 --TAG-TA---ATAG-----A-AGAAAAAACT-CAT-TATGAATAGAG-ACA---AG-ATGTAG-
* ** * * * ** * *
892225 CAAGATGTAGCAGAATACTTCAAAAATCATAATAACATACTCTTCAACTTCATGAGCCCCTAATG
359 CAA-A---A--A-ACT--TCAAA-AATCATAATAACACACCCCTCAACTTCAAAAGCCCCGAATA
* * * *
892290 TTCAAAACCATATTCCAAAGAGTCGACATGAATCTATATCTAAAATAGAAAGTAACATTATATAG
414 TTCAAAATCATATTCCAAAGACTCGACATGAATCTATATATAAAATA-AAAGTAACATTATATAA
* * * * *
892355 ATAATTTACCTTAACTTTGAGTAA-CCTAATCATGTAAACAATTCACATCATATTATGTTTACAT
478 ATAATTTACCTTAACTTTGAGTAACCCTCATCATGT-AATAATT-A-ATC--A--CTGTGT-CAA
* * *
892419 ATAAAACATATGTCATATCATGCAAATCATGTGCACTGAATTTGTAAAAG-TTTTTATTTTTAAC
535 AAAAAACATAAGTCATATCATCCAAATCATGTGCACTGAATTTGTAAAAGTTTTTTATTTTTAAC
* * * * * * * **
892483 TAACAGTAAGTAACAAATATTGGTAATAGAAGCAAAAGTTCACGAGCGCAAACACAAACTATTCT
600 TTACAATAAGTAACAAATATTAGTAATAGAAGCAAAAGTCCTCGA--GC--ACACAAGCAATAAT
*
892548 GAAGTGCTTCAAAAATCAGAAAAATA
661 AAAGTGCTTC-AAAAT-AG-AAAATA
* * * * * * *
892574 TTCTTCTTAAATTAAGGAGCCTATAATATTGAAACCCATCTTCTAAGGACTCAACCTTCTATATT
1 TTCTTCTTAAATTCAGGAGCCTA-AATACTGAAAACCATTTTCTAAAGACT-AACATTCTATATC
* ** * *
892639 TAAAATGGGTAGTCAAGGAATTAAGATAATTTTATTTTACCTCGATAGAGAGTAACCCTCATCAT
64 TAAAATGGGTAGCCAAGTTATCAAGATAATTTTATTTTACCTCGATATAGAGTAACCCTCATCAT
* * *
892704 GTAAATAGTTACTCATACTGCTTCTATGGATAAAATGTGTAGGTATCACACAGA-TTACCTTTCT
129 GTAAATAGTTACTCATATTGCTTCTATGGATAAAATGTATAGGTATCATACA-ATTTA-CTTT-T
* * *
892768 ATCGATAAAGAGTAACGTCATCATGTAAATAGTTACTCATTATTTTATAGAGAAAATGTATAAGT
191 -TC-AT--CGAGTAACGTCATCATGTAAATAGTTACTCATTGTTTT-TAGAGAGAATGTATAAGT
*
892833 ATCATAGAAAACATGTC-AGCTGAAGTTACAAAAGTTATTTGATTCTAAGCAACTTGTCA
251 ATCATAGAAAGCATG-CAAGCTGAAGTTACAAAA-TTATTTGATTCTAAGCAACTTGTCA
892892 TCATGTAAAT
Statistics
Matches: 2622, Mismatches: 336, Indels: 306
0.80 0.10 0.09
Matches are distributed among these distances:
675 1 0.00
676 144 0.05
677 28 0.01
678 10 0.00
679 28 0.01
681 47 0.02
682 169 0.06
683 54 0.02
684 40 0.02
685 74 0.03
686 11 0.00
687 230 0.09
688 132 0.05
689 13 0.00
690 153 0.06
691 13 0.00
692 12 0.00
693 4 0.00
694 1 0.00
695 9 0.00
697 4 0.00
698 3 0.00
699 2 0.00
700 1 0.00
701 3 0.00
702 7 0.00
703 199 0.08
704 77 0.03
705 63 0.02
706 203 0.08
707 99 0.04
708 13 0.00
709 5 0.00
710 4 0.00
711 2 0.00
712 6 0.00
713 155 0.06
718 2 0.00
719 9 0.00
720 5 0.00
723 1 0.00
724 5 0.00
725 3 0.00
726 1 0.00
729 1 0.00
731 1 0.00
732 68 0.03
733 60 0.02
734 69 0.03
735 303 0.12
736 59 0.02
737 16 0.01
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (683 bp):
TTCTTCTTAAATTCAGGAGCCTAAATACTGAAAACCATTTTCTAAAGACTAACATTCTATATCTA
AAATGGGTAGCCAAGTTATCAAGATAATTTTATTTTACCTCGATATAGAGTAACCCTCATCATGT
AAATAGTTACTCATATTGCTTCTATGGATAAAATGTATAGGTATCATACAATTTACTTTTTCATC
GAGTAACGTCATCATGTAAATAGTTACTCATTGTTTTTAGAGAGAATGTATAAGTATCATAGAAA
GCATGCAAGCTGAAGTTACAAAATTATTTGATTCTAAGCAACTTGTCAGGATTTAGTAATAGAAG
AAAAAACTCATTATGAATAGAGACAAGATGTAGCAAAAAACTTCAAAAATCATAATAACACACCC
CTCAACTTCAAAAGCCCCGAATATTCAAAATCATATTCCAAAGACTCGACATGAATCTATATATA
AAATAAAAGTAACATTATATAAATAATTTACCTTAACTTTGAGTAACCCTCATCATGTAATAATT
AATCACTGTGTCAAAAAAAACATAAGTCATATCATCCAAATCATGTGCACTGAATTTGTAAAAGT
TTTTTATTTTTAACTTACAATAAGTAACAAATATTAGTAATAGAAGCAAAAGTCCTCGAGCACAC
AAGCAATAATAAAGTGCTTCAAAATAGAAAATA
Found at i:898521 original size:11 final size:11
Alignment explanation
Indices: 898505--898533 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
898495 TGCCAATGTG
898505 AAAATAAGAGA
1 AAAATAAGAGA
898516 AAAATAAGAGA
1 AAAATAAGAGA
898527 AAAATAA
1 AAAATAA
898534 TAGTATGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (11 bp):
AAAATAAGAGA
Found at i:900915 original size:16 final size:16
Alignment explanation
Indices: 900868--900915 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
900858 CAAAGCATGA
*
900868 GGAGTATCAGCCATAA
1 GGAGTATCAGCCATAC
900884 GGAGTATCAGCCATAC
1 GGAGTATCAGCCATAC
900900 GGAGTATCAGCCATAC
1 GGAGTATCAGCCATAC
900916 ACATGGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (16 bp):
GGAGTATCAGCCATAC
Found at i:904648 original size:31 final size:31
Alignment explanation
Indices: 904610--904700 Score: 164
Period size: 31 Copynumber: 2.9 Consensus size: 31
904600 TAACCTGTGC
904610 AGAATGTGGATTTAGGTACTTGTTCTACTGT
1 AGAATGTGGATTTAGGTACTTGTTCTACTGT
904641 AGAATGTGGATTTAGGTACTTGTTCTACTGT
1 AGAATGTGGATTTAGGTACTTGTTCTACTGT
* *
904672 AGAATTTGGATTTAGGAACTTGTTCTACT
1 AGAATGTGGATTTAGGTACTTGTTCTACT
904701 TGGGGATGGC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (31 bp):
AGAATGTGGATTTAGGTACTTGTTCTACTGT
Found at i:905753 original size:33 final size:32
Alignment explanation
Indices: 905700--905775 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 32
905690 AATATTTAAT
* *
905700 TTAACTGAGTTATCAAGTTAAATTATTTTGAA
1 TTAATTGAGTTATCAAGTTAAATAATTTTGAA
*
905732 TTAATTGAGTTAATTAAGTTAAATAATTTTGAA
1 TTAATTGAGTT-ATCAAGTTAAATAATTTTGAA
*
905765 TTAGTTGAGTT
1 TTAATTGAGTT
905776 GATGAGTCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 10 0.26
33 29 0.74
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (32 bp):
TTAATTGAGTTATCAAGTTAAATAATTTTGAA
Found at i:913241 original size:51 final size:51
Alignment explanation
Indices: 913165--913269 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
913155 GAAACGTAGG
913165 TATCAAAGAAAGTGTGCTTTCGCTATGAAGGTCATTTCCTATGGCATTGAT
1 TATCAAAGAAAGTGTGCTTTCGCTATGAAGGTCATTTCCTATGGCATTGAT
*
913216 TATCAAAGAAAGTGTGCTTTCGCTATTAAGGTCATTTCCTATGGCATTGAT
1 TATCAAAGAAAGTGTGCTTTCGCTATGAAGGTCATTTCCTATGGCATTGAT
913267 TAT
1 TAT
913270 ATTATCGACC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (51 bp):
TATCAAAGAAAGTGTGCTTTCGCTATGAAGGTCATTTCCTATGGCATTGAT
Found at i:917506 original size:20 final size:22
Alignment explanation
Indices: 917481--917520 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
917471 AGTCGTATCT
917481 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
917501 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
917521 TCTGCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:917648 original size:20 final size:20
Alignment explanation
Indices: 917623--917713 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
917613 TACAGCCAGG
917623 GTGTATGGATACACTGCAGA
1 GTGTATGGATACACTGCAGA
917643 GTGTATCGG-TACAC--C--A
1 GTGTAT-GGATACACTGCAGA
* *
917659 GTGTATGGATATACTGCAGG
1 GTGTATGGATACACTGCAGA
** *
917679 GTGTATCCATACACTGCAGG
1 GTGTATGGATACACTGCAGA
*
917699 GTGTATCGATACACT
1 GTGTATGGATACACT
917714 AATTACATTC
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
15 2 0.03
16 11 0.19
18 2 0.03
20 42 0.71
21 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (20 bp):
GTGTATGGATACACTGCAGA
Found at i:917692 original size:36 final size:36
Alignment explanation
Indices: 917623--917692 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
917613 TACAGCCAGG
**
917623 GTGTATGGATACACTGCAGAGTGTATCGGTACACCA
1 GTGTATGGATACACTGCAGAGTGTATCCATACACCA
* *
917659 GTGTATGGATATACTGCAGGGTGTATCCATACAC
1 GTGTATGGATACACTGCAGAGTGTATCCATACAC
917693 TGCAGGGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (36 bp):
GTGTATGGATACACTGCAGAGTGTATCCATACACCA
Found at i:917775 original size:20 final size:19
Alignment explanation
Indices: 917740--917793 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 19
917730 TGAGCAGTCA
917740 TAGGGGTATGGATACACTT
1 TAGGGGTATGGATACACTT
917759 TAGGGTGTATCGG-TACAC--
1 TAGGG-GTAT-GGATACACTT
*
917777 TA-GTGTATGGATACACT
1 TAGGGGTATGGATACACT
917794 GCAAGTGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
15 2 0.07
16 9 0.30
17 1 0.03
18 2 0.07
19 5 0.17
20 9 0.30
21 2 0.07
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (19 bp):
TAGGGGTATGGATACACTT
Found at i:921032 original size:21 final size:20
Alignment explanation
Indices: 921006--921059 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
920996 CCATAACATG
*
921006 GGGTATCGATACCTCATCATA
1 GGGTATCG-TACCCCATCATA
*
921027 GGGTATATGTACCCCATCATA
1 GGGTAT-CGTACCCCATCATA
921048 GGGTATCAGTAC
1 GGGTATC-GTAC
921060 ACCTTCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (20 bp):
GGGTATCGTACCCCATCATA
Found at i:921067 original size:21 final size:21
Alignment explanation
Indices: 921020--921067 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
921010 ATCGATACCT
*
921020 CATCATAGGGTATATGTACCC
1 CATCATAGGGTATATGTACAC
921041 CATCATAGGGTATCA-GTACAC
1 CATCATAGGGTAT-ATGTACAC
*
921062 CTTCAT
1 CATCAT
921068 TAAATTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (21 bp):
CATCATAGGGTATATGTACAC
Found at i:921149 original size:16 final size:18
Alignment explanation
Indices: 921101--921149 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 18
921091 TGCAGCCAGG
921101 GTGTATGGATACACTGCAGA
1 GTGTATGGATACAC-GCA-A
921121 GTGTATCGG-TACAC-C-A
1 GTGTAT-GGATACACGCAA
921137 GTGTATGGATACA
1 GTGTATGGATACA
921150 TTGTAGGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.07
16 11 0.41
18 1 0.04
20 11 0.41
21 2 0.07
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (18 bp):
GTGTATGGATACACGCAA
Found at i:922975 original size:20 final size:20
Alignment explanation
Indices: 922921--922979 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
922911 TATTATTATA
*
922921 ATAAAATTTATTAATAGAGT
1 ATAAAATTTATTAATAGAAT
*
922941 ATAAAATTTAATAATAGAAT
1 ATAAAATTTATTAATAGAAT
922961 ATAAAATATT-TTAAT-GAAT
1 ATAAAAT-TTATTAATAGAAT
922980 TTTAATGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.11
20 29 0.83
21 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (20 bp):
ATAAAATTTATTAATAGAAT
Found at i:924291 original size:13 final size:13
Alignment explanation
Indices: 924273--924297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
924263 AGTATTATTT
924273 TATTTTTAATATA
1 TATTTTTAATATA
924286 TATTTTTAATAT
1 TATTTTTAATAT
924298 TTAAATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTAATATA
Found at i:924317 original size:17 final size:18
Alignment explanation
Indices: 924265--924317 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
924255 ATCATAGGAG
924265 TATTATTTTATTTTTAATA
1 TATT-TTTTATTTTTAATA
*
924284 TATATTTTTAATATTTAA-A
1 TAT-TTTTT-ATTTTTAATA
924303 TATTTTTTATTTTTA
1 TATTTTTTATTTTTA
924318 TATTTCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 6 0.20
18 5 0.17
19 11 0.37
20 8 0.27
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTTTATTTTTAATA
Found at i:924322 original size:32 final size:33
Alignment explanation
Indices: 924284--924352 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 33
924274 ATTTTTAATA
* **
924284 TATATTTTTAATATTT-AAATATTTTTTA-TTTT
1 TATATTTTCAA-ATTTAAAATAAATTTTATTTTT
924316 TATA-TTTCAAATTTAAAATAAATTTTATTTTT
1 TATATTTTCAAATTTAAAATAAATTTTATTTTT
924348 TATAT
1 TATAT
924353 ATATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 4 0.13
31 15 0.48
32 12 0.39
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (33 bp):
TATATTTTCAAATTTAAAATAAATTTTATTTTT
Found at i:937874 original size:82 final size:83
Alignment explanation
Indices: 937608--937949 Score: 445
Period size: 83 Copynumber: 4.1 Consensus size: 83
937598 TGTGAAATGA
* *
937608 CAGAGATTCTCTGAATAATAATGGAAAACGCTTCCCTTAGAATGCGTCTTTCATTTCAGATGGGA
1 CAGAGATTCTCTGAATAATAATGGAAAACACTTCCCCTAGAATGCGTCTTTCATTTCAGATGGGA
*
937673 TGGAACACTATGACATGG
66 TGAAACACTATGACATGG
* * * * *
937691 CAGAAATTCTCTTAATAATAATGGAAAACACTTCCCCTAGAACGTGTCTTTCATTTCAGATTGGA
1 CAGAGATTCTCTGAATAATAATGGAAAACACTTCCCCTAGAATGCGTCTTTCATTTCAGATGGGA
* **
937756 TGGAACACTGCGACATGG
66 TGAAACACTATGACATGG
* * * * * * * * *
937774 TAGATATTCTCTAAATAATAATGGAAAATATTTCCCCTGGAAAGCGCCTTTCATTT-GGATGGGA
1 CAGAGATTCTCTGAATAATAATGGAAAACACTTCCCCTAGAATGCGTCTTTCATTTCAGATGGGA
937838 TGAAACACTATGACATGG
66 TGAAACACTATGACATGG
* ** *
937856 CAGAGATTCTCTGAATAATAATGG-AAACGCTTCTTCTAGAATGTGTCTTTCATTTCAGATGGGA
1 CAGAGATTCTCTGAATAATAATGGAAAACACTTCCCCTAGAATGCGTCTTTCATTTCAGATGGGA
*
937920 TGAAACACTATAACATGG
66 TGAAACACTATGACATGG
937938 CAGAGATTCTCT
1 CAGAGATTCTCT
937950 AAAAATGGGA
Statistics
Matches: 221, Mismatches: 37, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
81 22 0.10
82 78 0.35
83 121 0.55
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (83 bp):
CAGAGATTCTCTGAATAATAATGGAAAACACTTCCCCTAGAATGCGTCTTTCATTTCAGATGGGA
TGAAACACTATGACATGG
Found at i:938852 original size:27 final size:26
Alignment explanation
Indices: 938801--938864 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
938791 TGAAATATAA
* *
938801 AAACAACAAAGCATAAACATTACATT
1 AAACAACAAAGCATAAACATGACATG
938827 AAACAACAAA-CTATTAAACATGACATG
1 AAACAACAAAGC-A-TAAACATGACATG
938854 AAACATACAAA
1 AAACA-ACAAA
938865 ACCAACGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 1 0.03
26 11 0.33
27 16 0.48
28 5 0.15
ACGTcount: A:0.59, C:0.19, G:0.05, T:0.17
Consensus pattern (26 bp):
AAACAACAAAGCATAAACATGACATG
Found at i:939188 original size:18 final size:18
Alignment explanation
Indices: 939161--939202 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
939151 ATGATGCTCC
* *
939161 TCCTCGTCCTTATCGTCA
1 TCCTCCTCCTTATCATCA
*
939179 TCCTCCTCCTTGTCATCA
1 TCCTCCTCCTTATCATCA
939197 TCCTCC
1 TCCTCC
939203 CCATCCTCGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.45, G:0.07, T:0.38
Consensus pattern (18 bp):
TCCTCCTCCTTATCATCA
Found at i:941454 original size:19 final size:18
Alignment explanation
Indices: 941389--941454 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 18
941379 ATTAAATTTT
*
941389 AAAT-AAAAA-TAATAAA
1 AAATAAAAAATTACTAAA
* *
941405 AAATACAAAATTATTAAAA
1 AAATAAAAAATTACT-AAA
**
941424 AAATAATTAATTACTAAA
1 AAATAAAAAATTACTAAA
941442 ATAATAAAAAATT
1 A-AATAAAAAATT
941455 TAACAAATGA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
16 4 0.11
17 4 0.11
18 7 0.18
19 23 0.61
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATAAAAAATTACTAAA
Found at i:954185 original size:59 final size:59
Alignment explanation
Indices: 954086--954219 Score: 157
Period size: 59 Copynumber: 2.3 Consensus size: 59
954076 TTAATAGGGT
* *
954086 AAAG-TATACAAATGGTCTCCCGATTATAGGTATTGATTTGTTGA-ATCCTCAGACTATCA
1 AAAGTTATA-AAATGGTCTCCCGAATATAGGTATTGATTTGTTGAGATCATC-GACTATCA
* * * *
954145 AAAGTTATAAAATGGTC-CCCGAATATAGGATGTTGCTTTGTTGAGTTCATCGACTATTA
1 AAAGTTATAAAATGGTCTCCCGAATATAGG-TATTGATTTGTTGAGATCATCGACTATCA
*
954204 AAAGTTACAAAATGGT
1 AAAGTTATAAAATGGT
954220 GTCCTGACTA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
58 11 0.17
59 46 0.71
60 8 0.12
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (59 bp):
AAAGTTATAAAATGGTCTCCCGAATATAGGTATTGATTTGTTGAGATCATCGACTATCA
Found at i:954502 original size:60 final size:60
Alignment explanation
Indices: 954434--954558 Score: 160
Period size: 60 Copynumber: 2.1 Consensus size: 60
954424 GTCACGTGAC
* ** *
954434 CATTTTATAACTTTTAATAGTCAATGGACTTAATAAAACAACATCTTATAATTGAGAGAT
1 CATTTTATAACTTTTAATAATCAAAAGACTTAATAAAACAACATCTTATAATCGAGAGAT
* * * * * *
954494 CATTTTATAACTTTTAATAATTAAAATACTTAATAAAATAATATCTTATAGTCGGGAGAT
1 CATTTTATAACTTTTAATAATCAAAAGACTTAATAAAACAACATCTTATAATCGAGAGAT
954554 CATTT
1 CATTT
954559 GTGTATTTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAATCAAAAGACTTAATAAAACAACATCTTATAATCGAGAGAT
Found at i:982844 original size:230 final size:230
Alignment explanation
Indices: 982412--982859 Score: 614
Period size: 230 Copynumber: 1.9 Consensus size: 230
982402 TTGAACAAAT
* * * *
982412 ATTATCTTGTATTTACCCTAAATTTGTAAAAAAATATTAAATTTATAATTATATATATTTTGATT
1 ATTATCTTATATTTACCCTAAATTTATAAAAAAAAATTAAATTTATAAATATATATATTTTGATT
* * * * * **
982477 TTGATTTATTTAATAAATTTATTTATGCCAAATTAGATAATAATCAAGTAAATTTACATGTGAAA
66 TTGATTTATTTAATAAATTAATTCATGCAAAATTAGATAATAATCAAATAAATTCACAACTGAAA
* * * * * ** *
982542 TATTATCTCATTTGAATCATTCTATAAAAATTATGAACAAATAAGTCTTCAAAACTTGAAACACA
131 TATCATCTCACTTGAATCATTCAATAAAAATCAGGAACAAATAACCCTTCAAAACTTAAAACACA
982607 TCAACTGAACTATTATATATAAATCTTTCAACATAG
196 TCAACTGAACTATTATATA-AAATCTTTCAACATAG
* *
982643 ATTATCTTATATTTACTCTAGATTTATAAAAAAAAAATTAAATTT-TAAAT-TATATATTTT-AC
1 ATTATCTTATATTTACCCTAAATTTAT-AAAAAAAAATTAAATTTATAAATATATATATTTTGA-
982705 TTTTGATTTATTTAATAAATTAATTCATGCAAAATTAGATAATAATCAAATAAATTCACAACTGA
64 TTTTGATTTATTTAATAAATTAATTCATGCAAAATTAGATAATAATCAAATAAATTCACAACTGA
* * * *
982770 AATATCATGTCACTTGAATTATTCAATAAAAATCAGGAATAAATAACCCTTCAAAACTTAAAAGA
129 AATATCATCTCACTTGAATCATTCAATAAAAATCAGGAACAAATAACCCTTCAAAACTTAAAACA
*
982835 CATCAACTGAATTATTATATAAAAT
194 CATCAACTGAACTATTATATAAAAT
982860 TTTATTTGGT
Statistics
Matches: 189, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
229 5 0.03
230 141 0.75
231 27 0.14
232 16 0.08
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (230 bp):
ATTATCTTATATTTACCCTAAATTTATAAAAAAAAATTAAATTTATAAATATATATATTTTGATT
TTGATTTATTTAATAAATTAATTCATGCAAAATTAGATAATAATCAAATAAATTCACAACTGAAA
TATCATCTCACTTGAATCATTCAATAAAAATCAGGAACAAATAACCCTTCAAAACTTAAAACACA
TCAACTGAACTATTATATAAAATCTTTCAACATAG
Found at i:983253 original size:10 final size:11
Alignment explanation
Indices: 983223--983254 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
983213 TATTTTCGTT
983223 TATTTATG-TC
1 TATTTATGTTC
983233 TATTTATGTTC
1 TATTTATGTTC
983244 -ATTTATGTTC
1 TATTTATGTTC
983254 T
1 T
983255 TTCATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 18 0.90
11 2 0.10
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.62
Consensus pattern (11 bp):
TATTTATGTTC
Found at i:983258 original size:14 final size:14
Alignment explanation
Indices: 983241--983267 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
983231 TCTATTTATG
983241 TTCATTTATGTTCT
1 TTCATTTATGTTCT
983255 TTCATTTATGTTC
1 TTCATTTATGTTC
983268 GAACAGAAGG
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:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTCATTTATGTTCT
Found at i:996752 original size:29 final size:28
Alignment explanation
Indices: 996698--996752 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
996688 AAAATATTAA
*
996698 TAAAATTATAAGTACAATATCTAATTTT
1 TAAAATTATAAGTACAATAACTAATTTT
*
996726 TAAAACTTATAATTA-AATAACTCAATT
1 TAAAA-TTATAAGTACAATAACT-AATT
996753 AAGAGAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (28 bp):
TAAAATTATAAGTACAATAACTAATTTT
Found at i:997203 original size:15 final size:16
Alignment explanation
Indices: 997174--997204 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
997164 TCCCTAGTGG
997174 CTGCGTTTCTCTTTCT
1 CTGCGTTTCTCTTTCT
997190 CTGCGTTT-TCTTTCT
1 CTGCGTTTCTCTTTCT
997205 GCAAACTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.00, C:0.29, G:0.13, T:0.58
Consensus pattern (16 bp):
CTGCGTTTCTCTTTCT
Found at i:1002173 original size:34 final size:34
Alignment explanation
Indices: 1002123--1002189 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
1002113 ATCCCCCACA
* *
1002123 CTGATTTTGAGTCAAACGAAGAATAGTCCTATCT
1 CTGATTTTGAGACAAACGAAGAATAATCCTATCT
*
1002157 CTGATTTTGCGACAAACGAAGAATAATCCTATC
1 CTGATTTTGAGACAAACGAAGAATAATCCTATC
1002190 ACGAGGGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (34 bp):
CTGATTTTGAGACAAACGAAGAATAATCCTATCT
Found at i:1002327 original size:5 final size:5
Alignment explanation
Indices: 1002317--1002400 Score: 150
Period size: 5 Copynumber: 16.4 Consensus size: 5
1002307 TGCCCCAAAT
1002317 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA -T-TATA
1002369 TTATA TTATA TTATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TT
1002401 TTAACTTAGT
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
5 71 0.92
6 2 0.03
7 4 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:1002583 original size:14 final size:14
Alignment explanation
Indices: 1002564--1002594 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1002554 TTCACGTTGC
1002564 TTTGTAAATTCAGT
1 TTTGTAAATTCAGT
1002578 TTTGTAAATTCAGT
1 TTTGTAAATTCAGT
1002592 TTT
1 TTT
1002595 CCAAAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (14 bp):
TTTGTAAATTCAGT
Found at i:1003171 original size:60 final size:59
Alignment explanation
Indices: 1003107--1003289 Score: 165
Period size: 60 Copynumber: 3.1 Consensus size: 59
1003097 GCTCTTAACA
* * * * *
1003107 TATGACACTTATTTTAAATTGGT-CTCTAACATTTTAAATGTTTCAATTTAATCCTTAAAC
1 TATGACA-TCATTCTAAATTAGTCCTCTAAC-TTTTAAATATTTCAATTTAATCCTCAAAC
* * * *
1003167 TATGATTATCATTCTAAATTAGTCCTTTAACTTTTGAATATTTCAATTTCATCCTCAAAC
1 TATGA-CATCATTCTAAATTAGTCCTCTAACTTTTAAATATTTCAATTTAATCCTCAAAC
* * * * *
1003227 TATGACCTTCCTTCTAAATTAGTCC-CTAAACTTTTTGAATATTCCAATTTCATCC-CAAAC
1 TATGA-CATCATTCTAAATTAGTCCTCT-AAC-TTTTAAATATTTCAATTTAATCCTCAAAC
1003287 TAT
1 TAT
1003290 ACGCATATCA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
59 1 0.01
60 74 0.71
61 29 0.28
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (59 bp):
TATGACATCATTCTAAATTAGTCCTCTAACTTTTAAATATTTCAATTTAATCCTCAAAC
Found at i:1003535 original size:59 final size:59
Alignment explanation
Indices: 1003412--1003579 Score: 173
Period size: 59 Copynumber: 2.8 Consensus size: 59
1003402 GATGAATTTG
**
1003412 GGGATGAAATTAGAATATTCAAAAGTTT-GGGACAAATTTAGAAAAAGGGACATAGTTAA
1 GGGATGAAATTAGAATATTCAAAAGTTTAAAGACAAATTTAGAAAAA-GGACATAGTTAA
* * * * *
1003471 AGGATGAAATTAGAATATTCAAAAGTTTAAAGACTAATTTAGAATGAAA-GTCGTCGTT-A
1 GGGATGAAATTAGAATATTCAAAAGTTTAAAGACAAATTTAGAA--AAAGGACATAGTTAA
* ** *
1003530 GGGATGAAATTGGAATATTCAAAAGTGAAAAGACCAATTTA-AAATAAGGA
1 GGGATGAAATTAGAATATTCAAAAGTTTAAAGACAAATTTAGAAA-AAGGA
1003580 TTATATGATG
Statistics
Matches: 91, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
56 1 0.01
57 2 0.02
58 3 0.03
59 64 0.70
60 18 0.20
62 3 0.03
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.26
Consensus pattern (59 bp):
GGGATGAAATTAGAATATTCAAAAGTTTAAAGACAAATTTAGAAAAAGGACATAGTTAA
Found at i:1010339 original size:28 final size:29
Alignment explanation
Indices: 1010281--1010339 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
1010271 AATGGTGAAC
*
1010281 AAAAAATCCGAATATCTGATTTTGCGTAAA
1 AAAAAATCCGAATATCTGAATTTGCG-AAA
* *
1010311 AAAATATCCGAA-A-CTGAATTTGGGAAA
1 AAAAAATCCGAATATCTGAATTTGCGAAA
1010338 AA
1 AA
1010340 CTGGTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 9 0.35
29 1 0.04
30 11 0.42
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.25
Consensus pattern (29 bp):
AAAAAATCCGAATATCTGAATTTGCGAAA
Found at i:1010741 original size:17 final size:16
Alignment explanation
Indices: 1010721--1010778 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 16
1010711 ACTATTGTGA
1010721 ATATTTAATTTATTTAT
1 ATATTTAA-TTATTTAT
1010738 ATATTTAGCATTAGTTTAT
1 ATATTTA--ATTA-TTTAT
1010757 AT-TTTAATT-TTTAT
1 ATATTTAATTATTTAT
1010771 ACTATTTA
1 A-TATTTA
1010779 TTTAATTAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
16 7 0.19
17 7 0.19
18 7 0.19
19 8 0.22
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (16 bp):
ATATTTAATTATTTAT
Found at i:1011647 original size:31 final size:31
Alignment explanation
Indices: 1011612--1011709 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
1011602 TTTAATTGTC
1011612 ATTATATAATTAAAATATTATTTTGATAAGA
1 ATTATATAATTAAAATATTATTTTGATAAGA
* * * *
1011643 ATTATAT-A-T-ATAT-TTAGTTTTAAT-TGTC
1 ATTATATAATTAAAATATTA-TTTTGATAAG-A
*
1011671 ATTATATAATTAGAATATTATTTTGATAAGA
1 ATTATATAATTAAAATATTATTTTGATAAGA
1011702 ATTATATA
1 ATTATATA
1011710 TATATTTTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
27 4 0.08
28 16 0.31
29 2 0.04
30 2 0.04
31 23 0.45
32 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (31 bp):
ATTATATAATTAAAATATTATTTTGATAAGA
Found at i:1011668 original size:59 final size:59
Alignment explanation
Indices: 1011602--1011716 Score: 221
Period size: 59 Copynumber: 1.9 Consensus size: 59
1011592 ATTATTTACC
1011602 TTTAATTGTCATTATATAATTAAAATATTATTTTGATAAGAATTATATATATATTTAGT
1 TTTAATTGTCATTATATAATTAAAATATTATTTTGATAAGAATTATATATATATTTAGT
*
1011661 TTTAATTGTCATTATATAATTAGAATATTATTTTGATAAGAATTATATATATATTT
1 TTTAATTGTCATTATATAATTAAAATATTATTTTGATAAGAATTATATATATATTT
1011717 TTAGTTTCAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (59 bp):
TTTAATTGTCATTATATAATTAAAATATTATTTTGATAAGAATTATATATATATTTAGT
Found at i:1013003 original size:13 final size:13
Alignment explanation
Indices: 1012985--1013011 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1012975 TCTACTTAGC
1012985 TTGATAGAAGGAA
1 TTGATAGAAGGAA
1012998 TTGATAGAAGGAA
1 TTGATAGAAGGAA
1013011 T
1 T
1013012 AATGTGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (13 bp):
TTGATAGAAGGAA
Found at i:1013215 original size:14 final size:14
Alignment explanation
Indices: 1013196--1013230 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
1013186 CTAGTGAAGA
1013196 CGCGCTTCATCATT
1 CGCGCTTCATCATT
1013210 CGCGCTTCATCATT
1 CGCGCTTCATCATT
1013224 CGCGCTT
1 CGCGCTT
1013231 TTCTATTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.37, G:0.17, T:0.34
Consensus pattern (14 bp):
CGCGCTTCATCATT
Found at i:1013612 original size:31 final size:31
Alignment explanation
Indices: 1013574--1013634 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1013564 ATAATCCCCC
* *
1013574 CAACATTTAGTTCGTTTGCAATAGGGTCCCT
1 CAACATTTAGTCCATTTGCAATAGGGTCCCT
* *
1013605 CAACATTTAGTCCATTTGTAATATGGTCCC
1 CAACATTTAGTCCATTTGCAATAGGGTCCC
1013635 CGACGTAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
CAACATTTAGTCCATTTGCAATAGGGTCCCT
Found at i:1015945 original size:32 final size:31
Alignment explanation
Indices: 1015903--1015971 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
1015893 TAAAACTTGT
* * *
1015903 AATATAATCCCCCCAACATTTGGTTCGTTTGC
1 AATATGAT-CCCCCAACATTTAGTCCGTTTGC
*
1015935 AATATGATCCCTCAACATTTAGTCCGTTTGC
1 AATATGATCCCCCAACATTTAGTCCGTTTGC
1015966 AATATG
1 AATATG
1015972 GTCCATGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (31 bp):
AATATGATCCCCCAACATTTAGTCCGTTTGC
Found at i:1017311 original size:24 final size:24
Alignment explanation
Indices: 1017284--1017354 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
1017274 TAATAAAATA
1017284 AATATTTATATATTTTATAATATT
1 AATATTTATATATTTTATAATATT
* * *
1017308 AATATTAATTTATTTTA-AAAATT
1 AATATTTATATATTTTATAATATT
1017331 AA-ATTTATGATATTTATTATAATA
1 AATATTTAT-ATA-TT-TTATAATA
1017355 GAATATATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 5 0.14
23 9 0.24
24 17 0.46
25 3 0.08
26 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (24 bp):
AATATTTATATATTTTATAATATT
Found at i:1017344 original size:23 final size:24
Alignment explanation
Indices: 1017276--1017345 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
1017266 AAATAAAATA
*
1017276 ATAAAATAAATATTTATATATTTT
1 ATAAAATTAATATTTATATATTTT
* * *
1017300 ATAATATTAATATTAATTTATTTT
1 ATAAAATTAATATTTATATATTTT
1017324 A-AAAATTAA-ATTTATGATATTT
1 ATAAAATTAATATTTAT-ATATTT
1017346 ATTATAATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 5 0.13
23 12 0.32
24 21 0.55
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
ATAAAATTAATATTTATATATTTT
Done.