Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001470.1 Hibiscus syriacus cultivar Beakdansim tig00002847_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: 1178067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:750698 original size:22 final size:22
Alignment explanation
Indices: 750646--750700 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
750636 TGGTTGTGAG
**
750646 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
750668 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
750690 GGATTTCTTCG
1 GGATTTCTTCG
750701 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:750871 original size:20 final size:20
Alignment explanation
Indices: 750846--751038 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
750836 CTTTAAATAT
750846 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
750866 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
750888 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
750907 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
750927 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
750947 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
750967 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
750987 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
751007 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
751027 CGCGTTGCGATT
1 CGCGTTGCGATT
751039 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:751033 original size:60 final size:60
Alignment explanation
Indices: 750846--751038 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
750836 CTTTAAATAT
**
750846 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
750907 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
750967 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
751027 CGCGTTGCGATT
1 CGCGTTGCGATT
751039 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:751119 original size:20 final size:20
Alignment explanation
Indices: 751094--751165 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
751084 AAGAATCGCG
*
751094 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
751114 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
751134 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
751154 TTGCGATTCTGG
1 TTGCGATTCTGG
751166 GGATCGCGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:751178 original size:40 final size:39
Alignment explanation
Indices: 751086--751181 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 39
751076 CGATTTTCAA
*
751086 GAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTG
1 GAATCGCGTTGCGATTCTGGAAACTGATTTGCGATTCTG
* **
751125 GAAACTGATTTGCGATTCTGGAAACTGATTTGCGATTCTGG
1 GAATC-GCGTTGCGATTCTGGAAACTGATTTGCGATTCT-G
*
751166 GGATCGCGTTGCGATT
1 GAATCGCGTTGCGATT
751182 TTTATTTCGC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.09
40 39 0.83
41 4 0.09
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (39 bp):
GAATCGCGTTGCGATTCTGGAAACTGATTTGCGATTCTG
Found at i:762888 original size:44 final size:45
Alignment explanation
Indices: 762834--762922 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
762824 CGATATCAAT
* *
762834 GATAGAAAAA-TAAATATTATTTTTTAGAGGTCGTAGATTCGAAC
1 GATAAAAAAATTAAATATTACTTTTTAGAGGTCGTAGATTCGAAC
* *
762878 GATAAAAAAATTAAATTTTACTTTTTAGAGGTTGTAGATTCGAAC
1 GATAAAAAAATTAAATATTACTTTTTAGAGGTCGTAGATTCGAAC
762923 AGATTAATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 9 0.22
45 31 0.77
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (45 bp):
GATAAAAAAATTAAATATTACTTTTTAGAGGTCGTAGATTCGAAC
Found at i:764153 original size:3 final size:3
Alignment explanation
Indices: 764140--764172 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
764130 TAACCCAAAT
*
764140 TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
764173 AGGTAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:765021 original size:101 final size:100
Alignment explanation
Indices: 764846--765146 Score: 521
Period size: 101 Copynumber: 3.0 Consensus size: 100
764836 ACTTTATTTT
* * **
764846 CAGGGTTTGTGGAATTATCAGACACCATGTCCCCATACGTTGCTATCTGTTTCTCGGTCATCTTC
1 CAGGGTTTGTGAAATTATCAGACACCATGTCCCCATACGTTGCT-TTTGTTTCTTTGTCATCTTC
*
764911 TTTACTTTCCCATTCCACAATCTCTTTCCTTTCTTA
65 CTTACTTTCCCATTCCACAATCTCTTTCCTTTCTTA
764947 CAGGGTTTGTGAAATTATCAGACACCATGTCCCCATACGTTGCTTTGTGTTTCTTTGTCATCTTC
1 CAGGGTTTGTGAAATTATCAGACACCATGTCCCCATACGTTGCTTT-TGTTTCTTTGTCATCTTC
765012 CTTACTTTCCCATTCCACAATCTCTTTCCTTTCTTA
65 CTTACTTTCCCATTCCACAATCTCTTTCCTTTCTTA
*
765048 CAGGGTTTGTGAAATTATCAGACACCATGTCCCCATACGTTCCTCTTTGTTTCTTTGTCATCTTC
1 CAGGGTTTGTGAAATTATCAGACACCATGTCCCCATACGTTGCT-TTTGTTTCTTTGTCATCTTC
765113 CTTACTTTCCCATTCCACAATCTCTTTCCTTTCT
65 CTTACTTTCCCATTCCACAATCTCTTTCCTTTCT
765147 GTTTCTCTAC
Statistics
Matches: 192, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
100 1 0.01
101 189 0.98
102 2 0.01
ACGTcount: A:0.18, C:0.29, G:0.12, T:0.42
Consensus pattern (100 bp):
CAGGGTTTGTGAAATTATCAGACACCATGTCCCCATACGTTGCTTTTGTTTCTTTGTCATCTTCC
TTACTTTCCCATTCCACAATCTCTTTCCTTTCTTA
Found at i:769604 original size:31 final size:31
Alignment explanation
Indices: 769562--769631 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
769552 TTAAAAAATA
*
769562 TAAGATTTAGTCACTTTTGTTTCTATTTAAT
1 TAAGATGTAGTCACTTTTGTTTCTATTTAAT
* *
769593 TAAGATGTAGTCGCTTTTGTTTTTATTTAAT
1 TAAGATGTAGTCACTTTTGTTTCTATTTAAT
769624 TAAGATGT
1 TAAGATGT
769632 GATCACCCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (31 bp):
TAAGATGTAGTCACTTTTGTTTCTATTTAAT
Found at i:777661 original size:14 final size:14
Alignment explanation
Indices: 777642--777669 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
777632 AATTACTGGT
777642 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
777656 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
777670 AAGTCTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (14 bp):
TGTAGAAAACAGAC
Found at i:781807 original size:15 final size:15
Alignment explanation
Indices: 781787--781816 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
781777 CAATTTATGC
781787 CTCTAAATTAGAAAA
1 CTCTAAATTAGAAAA
*
781802 CTCTAAGTTAGAAAA
1 CTCTAAATTAGAAAA
781817 GATACTAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (15 bp):
CTCTAAATTAGAAAA
Found at i:786487 original size:6 final size:6
Alignment explanation
Indices: 786476--786796 Score: 614
Period size: 6 Copynumber: 54.2 Consensus size: 6
786466 CATTCATAGG
786476 TGTATA TGTATA TGTATA --TATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
786522 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
786570 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
786618 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
786666 TGTATA TG--TA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
786712 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
786760 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA T
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA T
786797 ATATGCATTA
Statistics
Matches: 311, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.03
6 303 0.97
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TGTATA
Found at i:787893 original size:10 final size:10
Alignment explanation
Indices: 787848--787895 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
787838 TCATCTTAAA
787848 ATTTTTAT-T
1 ATTTTTATAT
787857 ATTATTTATAT
1 ATT-TTTATAT
* *
787868 ATTTTAAATGT
1 ATTTT-TATAT
787879 ATTTTTATAT
1 ATTTTTATAT
787889 ATTTTTA
1 ATTTTTA
787896 GGGTAAACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
9 3 0.09
10 17 0.53
11 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:788547 original size:29 final size:30
Alignment explanation
Indices: 788493--788552 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
788483 CTCCTAAAAA
*
788493 TAAATTTGAAAACTCTTATTTTCTTA-TGT
1 TAAATTTGAAAACTCTTATTTGCTTACTGT
*
788522 TAAATTTGAAAACT-TTCTTCTGCTTACTGT
1 TAAATTTGAAAACTCTTATT-TGCTTACTGT
788552 T
1 T
788553 TAGTGGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 4 0.15
29 19 0.70
30 4 0.15
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.50
Consensus pattern (30 bp):
TAAATTTGAAAACTCTTATTTGCTTACTGT
Found at i:788813 original size:17 final size:17
Alignment explanation
Indices: 788792--788846 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
788782 ATATGTTTAT
788792 TGATAGAATATATGTTC
1 TGATAGAATATATGTTC
* * * *
788809 CGATAAAATA-ATTTTT
1 TGATAGAATATATGTTC
*
788825 TTATAGAATATATGTTC
1 TGATAGAATATATGTTC
788842 TGATA
1 TGATA
788847 TGTTTATTTG
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
TGATAGAATATATGTTC
Found at i:788884 original size:17 final size:17
Alignment explanation
Indices: 788864--788908 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
788854 TTGGATAATT
788864 TATATTTTTTGATAGAA
1 TATATTTTTTGATAGAA
* *
788881 TATATGTTGTGATAGAA
1 TATATTTTTTGATAGAA
788898 T-TATTTGTTTG
1 TATATTT-TTTG
788909 CATGAATAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (17 bp):
TATATTTTTTGATAGAA
Found at i:788978 original size:17 final size:17
Alignment explanation
Indices: 788938--788981 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
788928 CATGAAATCA
788938 ATGAATATATGTACTGC
1 ATGAATATATGTACTGC
*
788955 ATG--TATATGTTCTGC
1 ATGAATATATGTACTGC
*
788970 GTGAATATATGT
1 ATGAATATATGT
788982 GTTTAGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.57
17 10 0.43
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (17 bp):
ATGAATATATGTACTGC
Found at i:789641 original size:15 final size:15
Alignment explanation
Indices: 789623--789662 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
789613 CAAAACCAGT
*
789623 TGAACCAGAAATTAG
1 TGAACCAGAAATTAA
*
789638 TGAACCCGAAATTAA
1 TGAACCAGAAATTAA
789653 TGAACCAGAA
1 TGAACCAGAA
789663 CCAGTTGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.17
Consensus pattern (15 bp):
TGAACCAGAAATTAA
Found at i:789688 original size:45 final size:45
Alignment explanation
Indices: 789590--789688 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
789580 GGTCTGAACA
** * *
789590 TAATGAACATGAAATTGATGAAGCAAAACCAGTTGAACCAGAAAT
1 TAATGAACCCGAAATTAATGAACCAAAACCAGTTGAACCAGAAAT
* * * *
789635 TAGTGAACCCGAAATTAATGAACCAGAACCAGTTGAGCCTGAAAT
1 TAATGAACCCGAAATTAATGAACCAAAACCAGTTGAACCAGAAAT
789680 TAATGAACC
1 TAATGAACC
789689 AAAACCAGCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.20
Consensus pattern (45 bp):
TAATGAACCCGAAATTAATGAACCAAAACCAGTTGAACCAGAAAT
Found at i:789727 original size:30 final size:30
Alignment explanation
Indices: 789645--789748 Score: 145
Period size: 30 Copynumber: 3.5 Consensus size: 30
789635 TAGTGAACCC
* *
789645 GAAATTAATGAACCAGAACCAGTTGAGCCT
1 GAAATTAATGAACCAGAACCAGCTGAGCCA
* *
789675 GAAATTAATGAACCAAAACCAGCTGAGCAA
1 GAAATTAATGAACCAGAACCAGCTGAGCCA
* *
789705 GAAATTAATGAACTAGAACCAGCCGAGCCA
1 GAAATTAATGAACCAGAACCAGCTGAGCCA
*
789735 GAAATTAGTGAACC
1 GAAATTAATGAACC
789749 TGAAATTGAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.16
Consensus pattern (30 bp):
GAAATTAATGAACCAGAACCAGCTGAGCCA
Found at i:791691 original size:26 final size:26
Alignment explanation
Indices: 791662--791744 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
791652 ATGCTTAGTA
791662 TTATTACATATTGTT-ACTACATAATG
1 TTATTACATATTGTTCA-TACATAATG
* * * *
791688 TTATTGCATACTGTTCATGCATACTG
1 TTATTACATATTGTTCATACATAATG
* * *
791714 TTATTACATGTTGTTCATGCATACTG
1 TTATTACATATTGTTCATACATAATG
791740 TTATT
1 TTATT
791745 GTATATTAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 48 0.98
27 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (26 bp):
TTATTACATATTGTTCATACATAATG
Found at i:791697 original size:13 final size:13
Alignment explanation
Indices: 791662--791745 Score: 64
Period size: 13 Copynumber: 6.5 Consensus size: 13
791652 ATGCTTAGTA
* *
791662 TTATTACATATTG
1 TTATTGCATACTG
* * *
791675 TTACTACATAATG
1 TTATTGCATACTG
791688 TTATTGCATACTG
1 TTATTGCATACTG
791701 TTCA-TGCATACTG
1 TT-ATTGCATACTG
* **
791714 TTATTACATGTTG
1 TTATTGCATACTG
791727 TTCA-TGCATACTG
1 TT-ATTGCATACTG
791740 TTATTG
1 TTATTG
791746 TATATTAGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
12 2 0.04
13 52 0.93
14 2 0.04
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.46
Consensus pattern (13 bp):
TTATTGCATACTG
Found at i:792487 original size:16 final size:15
Alignment explanation
Indices: 792467--792560 Score: 73
Period size: 16 Copynumber: 5.9 Consensus size: 15
792457 ATTTCTTATT
*
792467 GATTGTATTTGTTTTT
1 GATTG-ATTTGTTTTA
*
792483 TATTGAGTTTGTTTT-
1 GATTGA-TTTGTTTTA
**
792498 TCTTGAATTTGTTTTA
1 GATTG-ATTTGTTTTA
792514 GATTGACTTTGTTTTA
1 GATTGA-TTTGTTTTA
* *
792530 GCTTGTATTTATTTTA
1 GATTG-ATTTGTTTTA
792546 GATTGAATTTGTTTT
1 GATTG-ATTTGTTTT
792561 TTATTATAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
15 14 0.22
16 49 0.77
17 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.17, T:0.63
Consensus pattern (15 bp):
GATTGATTTGTTTTA
Found at i:792512 original size:14 final size:15
Alignment explanation
Indices: 792454--792561 Score: 65
Period size: 16 Copynumber: 6.9 Consensus size: 15
792444 GTGTTGCAGC
* *
792454 TGAATTTCTTATTGAT
1 TGAATTTGTT-TTTAT
*
792470 TGTATTTGTTTTTTAT
1 TGAATTTG-TTTTTAT
* *
792486 TGAGTTTGTTTTTCT
1 TGAATTTGTTTTTAT
*
792501 TGAATTTGTTTTAGAT
1 TGAATTTGTTTT-TAT
*
792517 TGACTTTG-TTTTAGCT
1 TGAATTTGTTTTTA--T
* * *
792533 TGTATTTATTTTAGAT
1 TGAATTTGTTTT-TAT
792549 TGAATTTGTTTTT
1 TGAATTTGTTTTT
792562 TATTATAGTT
Statistics
Matches: 68, Mismatches: 18, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
14 1 0.01
15 20 0.29
16 41 0.60
17 5 0.07
18 1 0.01
ACGTcount: A:0.18, C:0.04, G:0.16, T:0.63
Consensus pattern (15 bp):
TGAATTTGTTTTTAT
Found at i:792550 original size:32 final size:31
Alignment explanation
Indices: 792454--792560 Score: 115
Period size: 32 Copynumber: 3.4 Consensus size: 31
792444 GTGTTGCAGC
* * **
792454 TGAATTTCTTATTGATTGTATTTGTTTTTTAT
1 TGAATTTGTT-TTGCTTGTATTTGTTTTAGAT
* * *
792486 TGAGTTTGTTTTTCTTGAATTTGTTTTAGAT
1 TGAATTTGTTTTGCTTGTATTTGTTTTAGAT
* *
792517 TGACTTTGTTTTAGCTTGTATTTATTTTAGAT
1 TGAATTTGTTTT-GCTTGTATTTGTTTTAGAT
792549 TGAATTTGTTTT
1 TGAATTTGTTTT
792561 TTATTATAGT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
31 27 0.44
32 35 0.56
ACGTcount: A:0.18, C:0.04, G:0.16, T:0.63
Consensus pattern (31 bp):
TGAATTTGTTTTGCTTGTATTTGTTTTAGAT
Found at i:794095 original size:22 final size:22
Alignment explanation
Indices: 794039--794100 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
794029 AGTCGAGGGT
794039 TATACAGTGGTCCTTCGGGAC-
1 TATACAGTGGTCCTTCGGGACA
* *
794060 -AT--AGTGATCATTCGGGACA
1 TATACAGTGGTCCTTCGGGACA
794079 TATACAGTGGTCCTTCGGGACA
1 TATACAGTGGTCCTTCGGGACA
794101 AATATTCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 14 0.42
20 4 0.12
22 15 0.45
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (22 bp):
TATACAGTGGTCCTTCGGGACA
Found at i:794785 original size:12 final size:12
Alignment explanation
Indices: 794751--794809 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
794741 TTTTTGTAAT
*
794751 CGGTATTGTAGCA
1 CGGTATTGT-TCA
* *
794764 GGGTACTGTTCA
1 CGGTATTGTTCA
794776 CGGTATTGTTCA
1 CGGTATTGTTCA
*
794788 --TTATTGTTCA
1 CGGTATTGTTCA
*
794798 CGATATTGTTCA
1 CGGTATTGTTCA
794810 TACCATTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
10 9 0.24
12 21 0.57
13 7 0.19
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (12 bp):
CGGTATTGTTCA
Found at i:796299 original size:35 final size:35
Alignment explanation
Indices: 796248--796317 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
796238 AGTTTGGTGG
796248 TCTCCCGTGTACTTTACCCTTTTTTATTGACAATT
1 TCTCCCGTGTACTTTACCCTTTTTTATTGACAATT
* *
796283 TCTCCCGTGTAGTTTACCCTTTTTTATTGATAATT
1 TCTCCCGTGTACTTTACCCTTTTTTATTGACAATT
796318 AATTTTCGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.23, G:0.10, T:0.50
Consensus pattern (35 bp):
TCTCCCGTGTACTTTACCCTTTTTTATTGACAATT
Found at i:796773 original size:23 final size:23
Alignment explanation
Indices: 796723--796773 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
796713 TGTGTTGCAC
796723 GTTTTCATATGCTTTTATGACAT
1 GTTTTCATATGCTTTTATGACAT
* * * * *
796746 ATTTTCTTATGGTTTTTTGGCAT
1 GTTTTCATATGCTTTTATGACAT
796769 GTTTT
1 GTTTT
796774 TCGATTCTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.16, C:0.10, G:0.16, T:0.59
Consensus pattern (23 bp):
GTTTTCATATGCTTTTATGACAT
Found at i:799158 original size:20 final size:20
Alignment explanation
Indices: 799130--799175 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
799120 AAATGGATTT
* *
799130 ATTTAGTGACCAAATTATAA
1 ATTTGGTGACCAAAGTATAA
799150 ATTTGGTGACCAAAGTATAA
1 ATTTGGTGACCAAAGTATAA
799170 ACTTTG
1 A-TTTG
799176 AAAAGTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATTTGGTGACCAAAGTATAA
Found at i:800426 original size:24 final size:24
Alignment explanation
Indices: 800399--800444 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
800389 GCATGACATG
800399 GTACATAAATGTGTTATACATCGT
1 GTACATAAATGTGTTATACATCGT
* *
800423 GTACATAGATGTTTTATACATC
1 GTACATAAATGTGTTATACATC
800445 ATCTGGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (24 bp):
GTACATAAATGTGTTATACATCGT
Found at i:801242 original size:22 final size:22
Alignment explanation
Indices: 801214--801258 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
801204 GCATTGGTAT
*
801214 ATTGTTCACGGTAATGTTCATC
1 ATTGTTCACGGTAATGTGCATC
*
801236 ATTGTTCACGGTACTGTGCATC
1 ATTGTTCACGGTAATGTGCATC
801258 A
1 A
801259 CTATTCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (22 bp):
ATTGTTCACGGTAATGTGCATC
Found at i:801265 original size:22 final size:22
Alignment explanation
Indices: 801218--801265 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
801208 TGGTATATTG
* * *
801218 TTCACGGTAATGTTCATCATTG
1 TTCACGGTAATGTGCATCACTA
*
801240 TTCACGGTACTGTGCATCACTA
1 TTCACGGTAATGTGCATCACTA
801262 TTCA
1 TTCA
801266 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (22 bp):
TTCACGGTAATGTGCATCACTA
Found at i:801945 original size:18 final size:17
Alignment explanation
Indices: 801917--801950 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
801907 ATAACGAGAA
*
801917 TTAAGTTTTCTTTAAGT
1 TTAAGTTTTCTCTAAGT
801934 TTAAGTTTTTCTCTAAG
1 TTAAG-TTTTCTCTAAG
801951 ATTATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.56
Consensus pattern (17 bp):
TTAAGTTTTCTCTAAGT
Found at i:805653 original size:11 final size:11
Alignment explanation
Indices: 805639--805664 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
805629 TTTTCGTTCT
805639 TTTTATTTTTA
1 TTTTATTTTTA
805650 TTTTATTTTTA
1 TTTTATTTTTA
805661 TTTT
1 TTTT
805665 TTCCTTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:814597 original size:23 final size:23
Alignment explanation
Indices: 814567--814613 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
814557 CTTCATGCCC
814567 TCTGGTTGCTTTCCTAAGAGGGG
1 TCTGGTTGCTTTCCTAAGAGGGG
814590 TCTGGTTGCTTTCCTAAGAGGGG
1 TCTGGTTGCTTTCCTAAGAGGGG
814613 T
1 T
814614 TGATATAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.13, C:0.17, G:0.34, T:0.36
Consensus pattern (23 bp):
TCTGGTTGCTTTCCTAAGAGGGG
Found at i:816592 original size:42 final size:42
Alignment explanation
Indices: 816545--816733 Score: 195
Period size: 42 Copynumber: 4.5 Consensus size: 42
816535 TACTTTATTA
*
816545 GCGTTTTTGTAATAAACACCGCAATAGTCATACACCTTAGTG
1 GCGTTTTTGTAATAAACGCCGCAATAGTCATACACCTTAGTG
* * **
816587 GCGTTTTT-TAATAAATGCCGCAATAGTGATGTACCTTAGTG
1 GCGTTTTTGTAATAAACGCCGCAATAGTCATACACCTTAGTG
* * * * * *
816628 GCATCTTTGTGATAAATGCCACAATAGTCATGA-ATCTTAGTG
1 GCGTTTTTGTAATAAACGCCGCAATAGTCAT-ACACCTTAGTG
* * * *
816670 GTGTTTTTGTAATGAACGCCGCAACAGTCATACACTTTAGTG
1 GCGTTTTTGTAATAAACGCCGCAATAGTCATACACCTTAGTG
* *
816712 ACG-TTTTGTAATAAACGTCGCA
1 GCGTTTTTGTAATAAACGCCGCA
816734 CCAGTCATGA
Statistics
Matches: 118, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
41 52 0.44
42 66 0.56
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (42 bp):
GCGTTTTTGTAATAAACGCCGCAATAGTCATACACCTTAGTG
Found at i:816720 original size:83 final size:83
Alignment explanation
Indices: 816550--816751 Score: 201
Period size: 83 Copynumber: 2.4 Consensus size: 83
816540 TATTAGCGTT
* * * * *
816550 TTTGTAATAAACACCGCAATAGTCAT-ACACCTTAGTGGCGTTTTTTAATAAATGCCGCAATAGT
1 TTTGTAATAAACGCCACAATAGTCATGA-ATCTTAGTGGCGTTTTTTAATAAACGCCGCAACAGT
* ** *
816614 GATGTACCTTAGTGGCATC
65 CATACACCTTAGTGACATC
* * * *
816633 TTTGTGATAAATGCCACAATAGTCATGAATCTTAGTGGTGTTTTTGTAATGAACGCCGCAACAGT
1 TTTGTAATAAACGCCACAATAGTCATGAATCTTAGTGGCGTTTTT-TAATAAACGCCGCAACAGT
* *
816698 CATACACTTTAGTGACGT-
65 CATACACCTTAGTGACATC
* * **
816716 TTTGTAATAAACGTCGCACCAGTCATGAATCTTAGT
1 TTTGTAATAAACGCCACAATAGTCATGAATCTTAGT
816752 TTTGTACAAT
Statistics
Matches: 96, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
83 67 0.70
84 29 0.30
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (83 bp):
TTTGTAATAAACGCCACAATAGTCATGAATCTTAGTGGCGTTTTTTAATAAACGCCGCAACAGTC
ATACACCTTAGTGACATC
Found at i:828479 original size:54 final size:54
Alignment explanation
Indices: 828395--828527 Score: 221
Period size: 54 Copynumber: 2.4 Consensus size: 54
828385 AGTGTACCGA
*
828395 TACACATGAGATGTACTGATACACTAGGTCAACTAACGGTCAAAATATTTGAATTT
1 TACAC-TGAG-TGTACCGATACACTAGGTCAACTAACGGTCAAAATATTTGAATTT
*
828451 TACACTGAGTGTACCGATACACTAGGTCAACTAACGGTCGAAATATTTGAATTT
1 TACACTGAGTGTACCGATACACTAGGTCAACTAACGGTCAAAATATTTGAATTT
*
828505 TATACTGAGTGTACCGATACACT
1 TACACTGAGTGTACCGATACACT
828528 TGATAATGTA
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
54 65 0.88
55 4 0.05
56 5 0.07
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (54 bp):
TACACTGAGTGTACCGATACACTAGGTCAACTAACGGTCAAAATATTTGAATTT
Found at i:839533 original size:227 final size:227
Alignment explanation
Indices: 839254--839709 Score: 792
Period size: 227 Copynumber: 2.0 Consensus size: 227
839244 AAATCTTAAA
* *
839254 AACTTAAATGTTTTGTTATATCAAAAAGGAGGAGATTGTTGAAAATATTTTGATGTTTCGATATA
1 AACTTAAATGTTTTGTTATATCAAAAAGGAGGAGATTGTTAAAAACATTTTGATGTTTCGATATA
*
839319 ACAAATAAAGTCCTATT-AATTTTAAGATTTTATATTTGATTTTGAAATTAATATTCGAGTAAAT
66 ACAAATAAAGTCCTATTGAATTTTAAGATTTTATATTCGATTTTGAAATTAATATTCGAGTAAAT
*
839383 TATTCGAATAT-AAAAATAATACTCCAAGTTTTCAAATGCCAATTTTAATCCTTACTTAAGTGTA
131 TATTCGAATATCAAAAATAATACTCCAAG-TTTC-AATGCAAATTTTAATCCTTACTTAAGTGTA
*
839447 AAATTGTGTTTTTAGTCTTAAAA-ATTTTTGAAAC
194 AAATTGTG-TTTTAGTCTTAAAATATTTTCGAAAC
*
839481 AACTTAAATGTTTTGTTATATCAAAAAGGGGGAGATTGTTAAAAACATTTTGATGTTTCGATATA
1 AACTTAAATGTTTTGTTATATCAAAAAGGAGGAGATTGTTAAAAACATTTTGATGTTTCGATATA
839546 ACAAATAAAGTCCTATTGAATTTTAAGATTTTATATTCGATTTTGAAATTAATATTCGAGTAAAT
66 ACAAATAAAGTCCTATTGAATTTTAAGATTTTATATTCGATTTTGAAATTAATATTCGAGTAAAT
* *
839611 TTTTCGAATATCAAAAATATTACTCCAAGTTTCAATGCAAATTTTAATCCTTACTTAAGTGTAAA
131 TATTCGAATATCAAAAATAATACTCCAAGTTTCAATGCAAATTTTAATCCTTACTTAAGTGTAAA
839676 ATTGTGTTTTAGTCTTAAAATATTTTCGAAAC
196 ATTGTGTTTTAGTCTTAAAATATTTTCGAAAC
839708 AA
1 AA
839710 TTTTGATAAA
Statistics
Matches: 218, Mismatches: 8, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
226 14 0.06
227 128 0.59
228 60 0.28
229 16 0.07
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (227 bp):
AACTTAAATGTTTTGTTATATCAAAAAGGAGGAGATTGTTAAAAACATTTTGATGTTTCGATATA
ACAAATAAAGTCCTATTGAATTTTAAGATTTTATATTCGATTTTGAAATTAATATTCGAGTAAAT
TATTCGAATATCAAAAATAATACTCCAAGTTTCAATGCAAATTTTAATCCTTACTTAAGTGTAAA
ATTGTGTTTTAGTCTTAAAATATTTTCGAAAC
Found at i:841536 original size:23 final size:23
Alignment explanation
Indices: 841509--841554 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
841499 ACATTATATA
*
841509 TGGCACTAT-GGTGCATTTCTACG
1 TGGCACT-TCGGTGCATTTATACG
841532 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTATACG
841555 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTATACG
Found at i:844154 original size:19 final size:18
Alignment explanation
Indices: 844132--844172 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
844122 AAAAATAGGT
844132 TTTTTTTTAAAAAAAAAAA
1 TTTTTTTT-AAAAAAAAAA
* *
844151 TTTTTTTTATAAATAAAA
1 TTTTTTTTAAAAAAAAAA
844169 TTTT
1 TTTT
844173 CAAAATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTTTAAAAAAAAAA
Found at i:844870 original size:3 final size:3
Alignment explanation
Indices: 844862--844901 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
844852 TTTACAAAAA
* *
844862 TAT TAT TAT TAT TAT TAT TAT TTT TA- TAT TGT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
844902 CCATATCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:846460 original size:30 final size:28
Alignment explanation
Indices: 846417--846554 Score: 132
Period size: 30 Copynumber: 4.7 Consensus size: 28
846407 TTAAGCTCTG
* *
846417 TTTTTGCTGTTTTAGCCCTCTAAATTTCTA
1 TTTTT-CTATTTTAGCCCTTTAAATTT-TA
* *
846447 TTTTTACTATTTTAGTCCTTTTAAAATTTTG
1 TTTTT-CTATTTTAG-CCCTTT-AAATTTTA
* *
846478 TTTTTACTGTTTTAGCCCTTTAAGTTTTTA
1 TTTTT-CTATTTTAGCCCTTTAA-ATTTTA
** *
846508 TTTTTCTATTTTAATCCTTTAAATTTTG
1 TTTTTCTATTTTAGCCCTTTAAATTTTA
846536 TTTTTCTATTTTAGCCCTT
1 TTTTTCTATTTTAGCCCTT
846555 CAGTTTGTTA
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
28 21 0.24
29 16 0.18
30 27 0.30
31 19 0.21
32 6 0.07
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.60
Consensus pattern (28 bp):
TTTTTCTATTTTAGCCCTTTAAATTTTA
Found at i:846488 original size:61 final size:57
Alignment explanation
Indices: 846415--846553 Score: 188
Period size: 61 Copynumber: 2.4 Consensus size: 57
846405 CCTTAAGCTC
*
846415 TGTTTTTGCTGTTTTAGCCCTCTAAATTTCTATTTTTACTATTTTAGTCCTTTTAAAATTT
1 TGTTTTT-CTGTTTTAGCCCTCTAAATTTCTATTTTT-CTATTTTAATCC-TTT-AAATTT
* * *
846476 TGTTTTTACTGTTTTAGCCCTTTAAGTTTTTATTTTTCTATTTTAATCCTTTAAATTT
1 TGTTTTT-CTGTTTTAGCCCTCTAAATTTCTATTTTTCTATTTTAATCCTTTAAATTT
*
846534 TGTTTTTCTATTTTAGCCCT
1 TGTTTTTCTGTTTTAGCCCT
846554 TCAGTTTGTT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
57 12 0.17
58 13 0.18
59 3 0.04
60 11 0.15
61 33 0.46
ACGTcount: A:0.18, C:0.14, G:0.08, T:0.60
Consensus pattern (57 bp):
TGTTTTTCTGTTTTAGCCCTCTAAATTTCTATTTTTCTATTTTAATCCTTTAAATTT
Found at i:848701 original size:69 final size:66
Alignment explanation
Indices: 848617--848755 Score: 224
Period size: 69 Copynumber: 2.1 Consensus size: 66
848607 TACTCAATCA
* *
848617 AAAATAAGAAATATTAAAATTCAATTACAAAGTTCATTAATTTTAAATTCAAATATATAAATAAC
1 AAAATAAAAAATATTAAAATTCAATTACAAAGTTCATTAATGTTAAATTCAAATATA-AAATAA-
848682 AAT
64 AAT
*
848685 AAAATAAAAAAATATTAAAATTCAATTACAAAGTTCATTAATGTTAAATTCAAATATACAATAAA
1 AAAAT-AAAAAATATTAAAATTCAATTACAAAGTTCATTAATGTTAAATTCAAATATAAAATAAA
848750 AT
65 AT
848752 AAAA
1 AAAA
848756 CAAAGTAAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
67 7 0.10
68 10 0.15
69 50 0.75
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (66 bp):
AAAATAAAAAATATTAAAATTCAATTACAAAGTTCATTAATGTTAAATTCAAATATAAAATAAAA
T
Found at i:849648 original size:42 final size:43
Alignment explanation
Indices: 849589--849688 Score: 141
Period size: 42 Copynumber: 2.3 Consensus size: 43
849579 AATCACACAC
* *
849589 GAGGGGTATCGGTACCTTTGATCTAGGTA-CGGTA-CCACTATA
1 GAGGGGTATCGGTACCTTTGAGCTAGGTATCAGTACCCA-TATA
849631 GAGGGGTATCGGTACCTTTGAGCTAGGTATCAGTACCCATATA
1 GAGGGGTATCGGTACCTTTGAGCTAGGTATCAGTACCCATATA
* *
849674 AAGGGGTATTGGTAC
1 GAGGGGTATCGGTAC
849689 ATCCCTATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 28 0.54
43 21 0.40
44 3 0.06
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (43 bp):
GAGGGGTATCGGTACCTTTGAGCTAGGTATCAGTACCCATATA
Found at i:849661 original size:21 final size:21
Alignment explanation
Indices: 849593--849667 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
849583 ACACACGAGG
*
849593 GGTATCGGTACCTTTGATCTA
1 GGTATCGGTACCTTTGAGCTA
* *
849614 GGTA-CGGTACCACTATAGAG--G
1 GGTATCGGTA-C-CT-TTGAGCTA
849635 GGTATCGGTACCTTTGAGCTA
1 GGTATCGGTACCTTTGAGCTA
*
849656 GGTATCAGTACC
1 GGTATCGGTACC
849668 CATATAAAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
19 4 0.10
20 7 0.17
21 21 0.50
22 7 0.17
23 3 0.07
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (21 bp):
GGTATCGGTACCTTTGAGCTA
Found at i:849873 original size:13 final size:13
Alignment explanation
Indices: 849857--849883 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
849847 AATCGAATAA
849857 AATCTTAAAATTC
1 AATCTTAAAATTC
849870 AATCTTAAAATTC
1 AATCTTAAAATTC
849883 A
1 A
849884 TTAAAACTTT
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:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
AATCTTAAAATTC
Found at i:855365 original size:43 final size:44
Alignment explanation
Indices: 855317--855434 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 44
855307 CCCCGTGGAG
855317 GGTATCGATACC-ATCA-AGGGGGTATCGATACCCATTCAAGGAT
1 GGTATCGATACCTATCATA-GGGGTATCGATACCCATTCAAGGAT
* * * *
855360 GGTATCGATACCTATTATAGGGGTATCGATGCCTATTCAAAGG-G
1 GGTATCGATACCTATCATAGGGGTATCGATACCCATTC-AAGGAT
* * *
855404 GGCATCGATAAC-AGTCTTAGGGGTATCGATA
1 GGTATCGATACCTA-TCATAGGGGTATCGATA
855435 TTCTATGCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 13 0.21
44 44 0.71
45 5 0.08
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
GGTATCGATACCTATCATAGGGGTATCGATACCCATTCAAGGAT
Found at i:855367 original size:23 final size:21
Alignment explanation
Indices: 855316--855413 Score: 83
Period size: 23 Copynumber: 4.5 Consensus size: 21
855306 ACCCCGTGGA
855316 GGGTATCGATA-CCATCAAGG
1 GGGTATCGATACCCATCAAGG
855336 GGGTATCGATACCCATTCAAGG
1 GGGTATCGATACCCA-TCAAGG
* * *
855358 ATGGTATCGATACCTATTATA-G
1 -GGGTATCGATACCCATCA-AGG
* *
855380 GGGTATCGATGCCTATTCAAAGG
1 GGGTATCGATACCCA-TC-AAGG
*
855403 GGGCATCGATA
1 GGGTATCGATA
855414 ACAGTCTTAG
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
20 11 0.17
21 16 0.25
22 11 0.17
23 25 0.40
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
GGGTATCGATACCCATCAAGG
Found at i:855386 original size:21 final size:20
Alignment explanation
Indices: 855316--855396 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 20
855306 ACCCCGTGGA
*
855316 GGGTATCGATACC-ATCAAGG
1 GGGTATCGATACCTATTAA-G
*
855336 GGGTATCGATACCCATTCAAG
1 GGGTATCGATACCTATT-AAG
855357 GATGGTATCGATACCTATTATAG
1 G--GGTATCGATACCTATTA-AG
*
855380 GGGTATCGATGCCTATT
1 GGGTATCGATACCTATT
855397 CAAAGGGGGC
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
20 13 0.25
21 19 0.36
22 3 0.06
23 18 0.34
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACCTATTAAG
Found at i:861311 original size:20 final size:20
Alignment explanation
Indices: 861286--861339 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
861276 ATATGCCTTA
*
861286 GGGTATCGGTACCATCTGAG
1 GGGTATCGGTACCATATGAG
* *
861306 GGGTATCGATACC-TATGGG
1 GGGTATCGGTACCATATGAG
*
861325 GGGTATCAGTACCAT
1 GGGTATCGGTACCAT
861340 TCGAGCATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (20 bp):
GGGTATCGGTACCATATGAG
Found at i:861329 original size:19 final size:20
Alignment explanation
Indices: 861286--861331 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
861276 ATATGCCTTA
* *
861286 GGGTATCGGTACCATCTGAG
1 GGGTATCGATACCATATGAG
*
861306 GGGTATCGATACC-TATGGG
1 GGGTATCGATACCATATGAG
861325 GGGTATC
1 GGGTATC
861332 AGTACCATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (20 bp):
GGGTATCGATACCATATGAG
Found at i:862407 original size:90 final size:90
Alignment explanation
Indices: 862255--862445 Score: 341
Period size: 90 Copynumber: 2.1 Consensus size: 90
862245 GAAATGATGT
862255 CTAATTTCAATATGCTTAGTTCTAGAGTGTTGGATCGGATTTTTAGTGAGACAAATAACTCTAAT
1 CTAATTTCAATATGCTTAGTTCTAGAGTGTTGGATCGGATTTTTAGTGAGACAAATAACTCTAAT
862320 ATTGTCACACTTGATAGGTA-GGTA
66 ATTGTCACACTTGATAGGTATGGTA
862344 CTAATTTCAATATGCTTAGTTTCTAGA-TGTTTGGATCGGATTTTTAGTGAGACAAATAACTCTA
1 CTAATTTCAATATGCTTAG-TTCTAGAGTG-TTGGATCGGATTTTTAGTGAGACAAATAACTCTA
862408 ATATTGTCACACTTGATAGGTATGGTA
64 ATATTGTCACACTTGATAGGTATGGTA
*
862435 CCAATTTCAAT
1 CTAATTTCAAT
862446 TCCATAATCT
Statistics
Matches: 98, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
89 21 0.21
90 63 0.64
91 14 0.14
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (90 bp):
CTAATTTCAATATGCTTAGTTCTAGAGTGTTGGATCGGATTTTTAGTGAGACAAATAACTCTAAT
ATTGTCACACTTGATAGGTATGGTA
Found at i:863360 original size:19 final size:20
Alignment explanation
Indices: 863336--863375 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
863326 TTGTTTCCAC
863336 ATACACTTTTCC-TTTATAA
1 ATACACTTTTCCTTTTATAA
863355 ATACACTTTTCCTTTTATAA
1 ATACACTTTTCCTTTTATAA
863375 A
1 A
863376 ACTCATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (20 bp):
ATACACTTTTCCTTTTATAA
Found at i:867562 original size:13 final size:13
Alignment explanation
Indices: 867546--867572 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
867536 AATCAAATAA
867546 AATCTTAAAATTC
1 AATCTTAAAATTC
867559 AATCTTAAAATTC
1 AATCTTAAAATTC
867572 A
1 A
867573 TTAACACTTT
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:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
AATCTTAAAATTC
Found at i:869324 original size:18 final size:18
Alignment explanation
Indices: 869282--869324 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
869272 TTTGCTTTGG
869282 TTTTTTTTATTTTTCTTC
1 TTTTTTTTATTTTTCTTC
*
869300 TCTTTTTTATTTTT-TTC
1 TTTTTTTTATTTTTCTTC
869317 TTTTTTTT
1 TTTTTTTT
869325 CCAAAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTTTATTTTTCTTC
Found at i:869932 original size:3 final size:3
Alignment explanation
Indices: 869924--869978 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
869914 TGGTCTGTAA
* * * *
869924 AAT AAT AAT AAT AAT AAT -AT AA- AAG AAA AAG AAA AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
869968 AAT AAT AAT AA
1 AAT AAT AAT AA
869979 AATGGTTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:870418 original size:133 final size:132
Alignment explanation
Indices: 870215--870658 Score: 532
Period size: 133 Copynumber: 3.3 Consensus size: 132
870205 ATATCATATT
* * ** * * *
870215 TGGAAACGTTGACTT-ATTCCACTGTTTTTTTTGGGAATATTGAATCGAGGCAGACTTGTTCGAC
1 TGGAAATGTTGA-TTCATTCCACTG-TTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCAC
* * *
870279 TATTCCTCAAGTAAGATCAAATCTGGAAAAAGGGGATATGTTCTGCTACTTCTTCAGGGAAAATC
64 TGTTCCTCAGGGAAGATCAAATCTGGAAAAAGGGGATATGTTCTGCTACTT-TTCAGGGAAAATC
870344 AGATC
128 AGATC
** * *
870349 TGGAAACATTGATTCATTCCATTGTTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCTACTG
1 TGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTG
* * * ** * * *
870414 TTCCTCAGGGAATATCAAATCTAGAAAAAGGGGATATGTTCTGTTGTTTTTTCAAGAAAAAACAG
66 TTCCTCAGGGAAGATCAAATCTGGAAAAAGGGGATATGTTCTGCT-ACTTTTCAGGGAAAATCAG
*
870479 ATT
130 ATC
* * * * *
870482 TGGATATGTTGATTCATTCCACTGTTCTTTAAGGAAGATTGAATCGAGGAAAACTTGTTCCAATG
1 TGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTG
* * * *
870547 TTCCTCAGGGAAGATCAAATCTGG-AAAACGGGATCTGTTCCGCTCCTTTCTCAGGGAAAATCAG
66 TTCCTCAGGGAAGATCAAATCTGGAAAAAGGGGATATGTTCTGCTACTTT-TCAGGGAAAATCAG
870611 ATC
130 ATC
*
870614 TGGAAATGTTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATC
1 TGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATC
870659 AAATTCGATT
Statistics
Matches: 262, Mismatches: 45, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
131 3 0.01
132 70 0.27
133 168 0.64
134 21 0.08
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (132 bp):
TGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTG
TTCCTCAGGGAAGATCAAATCTGGAAAAAGGGGATATGTTCTGCTACTTTTCAGGGAAAATCAGA
TC
Found at i:871081 original size:22 final size:21
Alignment explanation
Indices: 871006--871079 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
870996 ATAGATGGCC
* * *
871006 CGAAGGACTTATCATCTTGTT
1 CGAAAGACTTATCATCATGAT
*
871027 CGAAAGACTTAT-A-GATGAT
1 CGAAAGACTTATCATCATGAT
* *
871046 CTGAAAGATTTAATCATCATGCT
1 C-GAAAGACTT-ATCATCATGAT
871069 CGAAAGACTTA
1 CGAAAGACTTA
871080 ATGATCGCCC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 4 0.10
20 9 0.22
21 14 0.34
22 9 0.22
23 5 0.12
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (21 bp):
CGAAAGACTTATCATCATGAT
Found at i:873411 original size:24 final size:24
Alignment explanation
Indices: 873353--873452 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
873343 GAGTTGAGGG
*
873353 TTCTACGCGGTCATTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
* *
873377 -TCTATGTGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
*
873400 TTCTACGCGGTCCTCCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
*
873424 TTCTAAGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
873448 TTCTA
1 TTCTA
873453 TATGGCACTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
23 20 0.30
24 47 0.70
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAA
Found at i:875383 original size:21 final size:21
Alignment explanation
Indices: 875350--875447 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 21
875340 AGTCGAGGGT
*
875350 TATACGTGGTCCTTCAGGACA
1 TATATGTGGTCCTTCAGGACA
* *
875371 TATATGTGATCCTT-TGGAACA
1 TATATGTGGTCCTTCAGG-ACA
* * *
875392 TATATGAGGTCTTTCGGGACA
1 TATATGTGGTCCTTCAGGACA
* ** * * *
875413 TATATTTGACCCTTTAGAATA
1 TATATGTGGTCCTTCAGGACA
875434 TATATGTGGTCCTT
1 TATATGTGGTCCTT
875448 AGGGACAATT
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 2 0.04
21 52 0.93
22 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (21 bp):
TATATGTGGTCCTTCAGGACA
Found at i:875427 original size:42 final size:42
Alignment explanation
Indices: 875357--875454 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
875347 GGTTATACGT
* * *
875357 GGTCCTTCAGGACATATATGTGATCCTTTGGAACATATATGA
1 GGTCCTTCGGGACATATATGTGACCCTTTAGAACATATATGA
* * * *
875399 GGTCTTTCGGGACATATATTTGACCCTTTAGAATATATATGT
1 GGTCCTTCGGGACATATATGTGACCCTTTAGAACATATATGA
*
875441 GGTCCTTAGGGACA
1 GGTCCTTCGGGACA
875455 ATTTTATATG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (42 bp):
GGTCCTTCGGGACATATATGTGACCCTTTAGAACATATATGA
Found at i:881436 original size:20 final size:20
Alignment explanation
Indices: 881392--881642 Score: 249
Period size: 20 Copynumber: 12.4 Consensus size: 20
881382 GATTCTGACT
* * *
881392 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGAATACGT-AA
* *
881413 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGAATACGTAA
881433 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGAATACGT-AA
*
881454 ATCGCAACGCGTATACGTAA
1 ATCGCAACGCGAATACGTAA
* *
881474 ATCACAACGAGAATACGTAA
1 ATCGCAACGCGAATACGTAA
*
881494 ATCGCAACGCGTAT-CTGTAA
1 ATCGCAACGCGAATAC-GTAA
*
881514 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGAATACGTAA
* * *
881534 ATCGCAATGAGAATACATAA
1 ATCGCAACGCGAATACGTAA
* *
881554 ATCGCAATGCGATTTA-GTAA
1 ATCGCAACGCGA-ATACGTAA
*
881574 ATCGCAATGCGAATACGTAA
1 ATCGCAACGCGAATACGTAA
*
881594 ATCGCAATGCGAATACGTAA
1 ATCGCAACGCGAATACGTAA
* *
881614 ATCGCAATGTGAAT-CTGTAA
1 ATCGCAACGCGAATAC-GTAA
881634 ATCGCAACG
1 ATCGCAACG
881643 AGATTCTGAC
Statistics
Matches: 202, Mismatches: 20, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
19 4 0.02
20 160 0.79
21 38 0.19
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAATACGTAA
Found at i:881546 original size:60 final size:59
Alignment explanation
Indices: 881370--881645 Score: 277
Period size: 60 Copynumber: 4.6 Consensus size: 59
881360 TTGGATATGA
* * * * * *
881370 AAATCGCAACGCGATTCTG-ACTATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGA-TCTGTA-AATCGCAACGAGAATACGT-AAATCGCAACGAGAATACGT
* * * *
881431 AAATCGCAACGACAATAC-GTAAAATCGCAACGCGTATACGTAAATCACAACGAGAATACGT
1 AAATCGCAACG-CGAT-CTGT-AAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGT
* *
881492 AAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATCGCAATGAGAATACAT
1 AAATCGCAACGCG-ATCTGTAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGT
* * * * * *
881552 AAATCGCAATGCGATTTAGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGT
1 AAATCGCAACGCGATCT-GTAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGT
* *
881612 AAATCGCAATGTGAATCTGTAAATCGCAACGAGA
1 AAATCGCAACGCG-ATCTGTAAATCGCAACGAGA
881646 TTCTGACTAT
Statistics
Matches: 183, Mismatches: 24, Indels: 17
0.82 0.11 0.08
Matches are distributed among these distances:
59 3 0.02
60 113 0.62
61 47 0.26
62 19 0.10
63 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (59 bp):
AAATCGCAACGCGATCTGTAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGT
Found at i:885128 original size:33 final size:33
Alignment explanation
Indices: 885091--885271 Score: 209
Period size: 33 Copynumber: 5.3 Consensus size: 33
885081 GGAAATTACT
*
885091 ATCGCAATGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* * * * *
885124 ATCGCAACGTGAAAATCGCAACGCAAATATGAAT
1 ATCGCAACGAGAGAATCGCAATGCGAA-ATGAAA
* *
885158 ATCGCAACCCGGAAATGACTATCGTAATGCGAAATGAAA
1 ATCGCAA--C-GAGA-GA--ATCGCAATGCGAAATGAAA
885197 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* *
885230 ATCGCAACGAGGGAATCGCAAAGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
885263 ATCGCAACG
1 ATCGCAACG
885272 CGAATTTAGT
Statistics
Matches: 124, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
33 80 0.65
34 12 0.10
35 2 0.02
36 4 0.03
37 3 0.02
38 1 0.01
39 12 0.10
40 10 0.08
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:885138 original size:14 final size:14
Alignment explanation
Indices: 885119--885146 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
885109 CAATGCGAAA
885119 TGAAAATCGCAACG
1 TGAAAATCGCAACG
885133 TGAAAATCGCAACG
1 TGAAAATCGCAACG
885147 CAAATATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
TGAAAATCGCAACG
Found at i:885175 original size:20 final size:19
Alignment explanation
Indices: 885133--885204 Score: 54
Period size: 20 Copynumber: 3.7 Consensus size: 19
885123 AATCGCAACG
* * *
885133 TGAAAATCGCAACGCAAATA
1 TGAATATCGCAACCCGAA-A
885153 TGAATATCGCAACCCGGAAA
1 TGAATATCGCAACCC-GAAA
* * **
885173 TGACTATCGTAATGCGAAA
1 TGAATATCGCAACCCGAAA
*
885192 TGAAAATCGCAAC
1 TGAATATCGCAAC
885205 GAGAGAATCG
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
19 13 0.32
20 25 0.62
21 2 0.05
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (19 bp):
TGAATATCGCAACCCGAAA
Found at i:885293 original size:19 final size:19
Alignment explanation
Indices: 885271--885378 Score: 67
Period size: 19 Copynumber: 6.2 Consensus size: 19
885261 AAATCGCAAC
*
885271 GCGAATTT-AGTTTCGCGTT
1 GCGAATTTCA-TTTCGCATT
*
885290 GCGATTTTCATTTCGCATT
1 GCGAATTTCATTTCGCATT
*
885309 GCG-A-TTC-TCTCG--TT
1 GCGAATTTCATTTCGCATT
* *
885323 ACGATTTTCATTTCGCATT
1 GCGAATTTCATTTCGCATT
885342 GCG-A-TTC-TTTCG--TT
1 GCGAATTTCATTTCGCATT
* *
885356 GCGATTTTTATTTCGCATT
1 GCGAATTTCATTTCGCATT
885375 GCGA
1 GCGA
885379 TAGTCATTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 22
0.67 0.11 0.22
Matches are distributed among these distances:
14 9 0.13
16 14 0.21
17 15 0.22
19 28 0.42
20 1 0.01
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.45
Consensus pattern (19 bp):
GCGAATTTCATTTCGCATT
Found at i:885333 original size:33 final size:33
Alignment explanation
Indices: 885286--885379 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
885276 TTTAGTTTCG
885286 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
885319 CGTTACGATTTTCATTTCGCATTGCGATTCTTT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
885352 CGTTGCGATTTTTATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
885380 AGTCATTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:885505 original size:14 final size:14
Alignment explanation
Indices: 885486--885522 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
885476 CATCAATTAA
885486 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
885500 ACAAATCATCTTTT
1 ACAAATCAACTTTT
885514 ACAAATCAA
1 ACAAATCAA
885523 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:886940 original size:21 final size:21
Alignment explanation
Indices: 886874--886940 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
886864 GTGAATCGGG
*
886874 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
886894 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
886916 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
886937 CTCT
1 CTCT
886941 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:886959 original size:42 final size:41
Alignment explanation
Indices: 886874--886996 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
886864 GTGAATCGGG
* * * *
886874 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
886916 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
886958 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
886997 CGAGTCAGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:887209 original size:24 final size:24
Alignment explanation
Indices: 887181--887232 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
887171 TGATATTTAA
887181 ACAGTGAAAACAAAGACAAATACT
1 ACAGTGAAAACAAAGACAAATACT
887205 ACAGTGAAAACAAAGACAAATACT
1 ACAGTGAAAACAAAGACAAATACT
887229 ACAG
1 ACAG
887233 AGTATTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.58, C:0.17, G:0.13, T:0.12
Consensus pattern (24 bp):
ACAGTGAAAACAAAGACAAATACT
Found at i:887425 original size:94 final size:93
Alignment explanation
Indices: 887211--887560 Score: 515
Period size: 94 Copynumber: 3.9 Consensus size: 93
887201 TACTACAGTG
* * * *
887211 AAAACAAAGACAAATACT-A---CAGAGTATTAAAGAATACACAGTTTAGCATAATTGGTAGCAA
1 AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA
887272 CCGAACAAATTTACTTCAACCAAAAGAC
66 CCGAACAAATTTACTTCAACCAAAAGAC
887300 AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA
1 AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA
*
887365 CCGAACAAATTTAGTTTCAACCAAAAGAC
66 CCGAACAAATTTA-CTTCAACCAAAAGAC
* *
887394 AAAACAAAGACAAATACTAACTTCACAGTGTTAAATAATACACAGTTTAGCAGAATTGACAGCAA
1 AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA
887459 CCG-----A--TACTTCAACCAAAAGAC
66 CCGAACAAATTTACTTCAACCAAAAGAC
* *
887480 AAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGTATTGGCAGCA
1 AAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCA
*
887545 ACCGAATAAATTTACT
65 ACCGAACAAATTTACT
887561 AAGCAATCTA
Statistics
Matches: 236, Mismatches: 12, Indels: 21
0.88 0.04 0.08
Matches are distributed among these distances:
86 19 0.08
87 61 0.26
89 19 0.08
90 1 0.00
92 1 0.00
93 51 0.22
94 84 0.36
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.21
Consensus pattern (93 bp):
AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA
CCGAACAAATTTACTTCAACCAAAAGAC
Found at i:887474 original size:86 final size:87
Alignment explanation
Indices: 887380--887549 Score: 297
Period size: 87 Copynumber: 2.0 Consensus size: 87
887370 CAAATTTAGT
* *
887380 TTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAATAATACACAGTTTAG
1 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAG
887444 CAGAATTGACAGCAACCGATAC
66 CAGAATTGACAGCAACCGATAC
887466 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAG
1 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAG
* *
887531 CAGTATTGGCAGCAACCGA
66 CAGAATTGACAGCAACCGA
887550 ATAAATTTAC
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 19 0.24
87 60 0.76
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.19
Consensus pattern (87 bp):
TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAG
CAGAATTGACAGCAACCGATAC
Found at i:889357 original size:19 final size:19
Alignment explanation
Indices: 889252--889359 Score: 91
Period size: 20 Copynumber: 5.8 Consensus size: 19
889242 TCTTTTGGTT
**
889252 GAAATGAAAATCGCAACAA
1 GAAATGAAAATCGCAACGC
**
889271 GAGAATGACTATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
889291 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
889311 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
889328 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
889344 GAAATTAAAATCGCAA
1 GAAATGAAAATCGCAA
889360 TGCAATTTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 25 0.34
20 30 0.41
21 2 0.03
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:889395 original size:14 final size:14
Alignment explanation
Indices: 889376--889428 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
889366 TTTGGTTTCG
889376 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
889390 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
889409 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
889423 CGTTGC
1 CGTTGC
889429 AATTTTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
16 3 0.09
17 3 0.09
19 10 0.31
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:889408 original size:33 final size:33
Alignment explanation
Indices: 889360--889440 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
889350 AAAATCGCAA
**
889360 TGCAATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCAATTTTCATTTCGCGTTGCGATTCTCTCGT
*
889393 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCAATTTTCATTTCGCGTTGCGATTCTCTCGT
889426 TGCAATTTTCATTTC
1 TGCAATTTTCATTTC
889441 TCTCGTTGCG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (33 bp):
TGCAATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:889443 original size:21 final size:21
Alignment explanation
Indices: 889417--889495 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 21
889407 CGCGTTGCGA
*
889417 TTCTCTCGTTGCAATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
889438 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
889459 TT-TCGT-GTTGCGATTTTCAT
1 TTCTC-TCGTTGCGATTTTCAT
889479 TT-TCAT-GTTGCGATTTT
1 TTCTC-TCGTTGCGATTTT
889496 AAGTTTAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 30 0.59
21 21 0.41
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:890082 original size:20 final size:20
Alignment explanation
Indices: 890057--890266 Score: 217
Period size: 20 Copynumber: 10.3 Consensus size: 20
890047 AAAAATCGCA
890057 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
* *
890077 TTGCGATTTTACGTAT-TGTCG
1 TTGCGA-TTTACGGATACG-CG
*
890098 TTGCGATTTACGGATACGCA
1 TTGCGATTTACGGATACGCG
* * *
890118 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGGATACGCG
*
890138 TTGCGATTTACAGATACGCG
1 TTGCGATTTACGGATACGCG
* * *
890158 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGGATACGCG
* *
890178 TTGCGATTTACAGATACGTG
1 TTGCGATTTACGGATACGCG
* *
890198 TTGCGATTTTACGTAT-TGTCG
1 TTGCGA-TTTACGGATACG-CG
*
890219 TTGCGATTTACGGATACGTG
1 TTGCGATTTACGGATACGCG
*
890239 TTGCGATTTTACGGATACTCG
1 TTGCGA-TTTACGGATACGCG
890260 TTGCGAT
1 TTGCGAT
890267 AGTCAAAATC
Statistics
Matches: 152, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
20 102 0.67
21 50 0.33
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGGATACGCG
Found at i:890139 original size:40 final size:41
Alignment explanation
Indices: 890057--890266 Score: 325
Period size: 41 Copynumber: 5.2 Consensus size: 41
890047 AAAAATCGCA
*
890057 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
*
890098 TTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
*
890138 TTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
* * *
890178 TTGCGATTTACAGATACGTGTTGCGATTTTACGTATTGTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
* * *
890219 TTGCGATTTACGGATACGTGTTGCGATTTTACGGATACTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
890260 TTGCGAT
1 TTGCGAT
890267 AGTCAAAATC
Statistics
Matches: 158, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 76 0.48
41 82 0.52
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.39
Consensus pattern (41 bp):
TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
Found at i:890298 original size:20 final size:20
Alignment explanation
Indices: 890275--890327 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
890265 ATAGTCAAAA
*
890275 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
890295 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
890315 TCGCGTTGCGATT
1 TCGCGTTGCGATT
890328 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:890319 original size:40 final size:39
Alignment explanation
Indices: 890052--890327 Score: 200
Period size: 40 Copynumber: 6.8 Consensus size: 39
890042 ACTTTAAAAA
* * *
890052 TCGCATTGCGATTTACGGATACGCGTTGCGATTTTACGT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTTATGT
* * * *
890091 ATTGTCGTTGCGATTTACGGATACGCATTGCGA-TTTACGTAT
1 -TCG-CGTTGCGATTTACAGATACGCGTTGCGATTTTA--TGT
* *
890133 TCTCGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTAT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTTA--TGT
* * *
890173 TCTCGTTGCGATTTACAGATACGTGTTGCGATTTTACGT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTTATGT
* * * *
890212 ATTGTCGTTGCGATTTACGGATACGTGTTGCGATTTTACGGAT
1 -TCG-CGTTGCGATTTACAGATACGCGTTGCGATTTTA-TG-T
* * * *
890255 ACTCGTTGCGATAGT-CA-AAATCGCGTTGCGATTTATATGT
1 TCGCGTTGCGAT-TTACAGATA-CGCGTTGCGATTT-TATGT
* * *
890295 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATT
890328 CTGGAAAATC
Statistics
Matches: 194, Mismatches: 29, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
39 2 0.01
40 99 0.51
41 87 0.45
42 5 0.03
43 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (39 bp):
TCGCGTTGCGATTTACAGATACGCGTTGCGATTTTATGT
Found at i:899670 original size:15 final size:15
Alignment explanation
Indices: 899647--899689 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
899637 CGCCCCGCAT
*
899647 CCGCACCGCATCCAC
1 CCGCCCCGCATCCAC
*
899662 CCGCCCCGCATCCGC
1 CCGCCCCGCATCCAC
*
899677 CCGCCCCACATCC
1 CCGCCCCGCATCC
899690 TCTCTCCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.14, C:0.65, G:0.14, T:0.07
Consensus pattern (15 bp):
CCGCCCCGCATCCAC
Found at i:908314 original size:23 final size:22
Alignment explanation
Indices: 908270--908314 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
908260 AATGTCATGG
*
908270 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
908292 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
908315 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:909746 original size:103 final size:103
Alignment explanation
Indices: 909422--909738 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
909412 GTCGAGGGTC
909422 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACAC--A-
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
909484 -TGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
909521 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
909586 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
909624 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
909689 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
909727 TATGTGGTCCTT
1 TATGTGGTCCTT
909739 ATGGACATTA
Statistics
Matches: 211, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
99 61 0.29
101 1 0.00
103 149 0.71
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:909814 original size:23 final size:23
Alignment explanation
Indices: 909754--909806 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
909744 CATTATTATA
909754 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
909777 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
909800 TGGCACT
1 TGGCACT
909807 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:909822 original size:23 final size:23
Alignment explanation
Indices: 909745--909822 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
909735 CCTTATGGAC
* *
909745 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACAGTGCA
* * * *
909769 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACAGTGCA
* *
909792 ATTCTATGTGGCACTTCAGTGCA
1 ATTATATGTGGCACTACAGTGCA
*
909815 TTTATATG
1 ATTATATG
909823 AGCTGTGGTA
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTACAGTGCA
Found at i:913677 original size:23 final size:22
Alignment explanation
Indices: 913633--913677 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
913623 AATGCCATGG
*
913633 GGGAACTGATACCCCCACAGGA
1 GGGAACTGATACCCCCAAAGGA
*
913655 GGGAACTGATTCCCCCTAAAGGA
1 GGGAACTGATACCCCC-AAAGGA
913678 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.29, G:0.27, T:0.13
Consensus pattern (22 bp):
GGGAACTGATACCCCCAAAGGA
Found at i:914972 original size:103 final size:103
Alignment explanation
Indices: 914788--915108 Score: 570
Period size: 103 Copynumber: 3.1 Consensus size: 103
914778 GTCGAGGGTC
* * *
914788 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAT
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
914853 TTGATCCTTGGGATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
914891 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
914956 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
914994 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
915059 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
915097 TATGTGGTCCTT
1 TATGTGGTCCTT
915109 ATGGACATTA
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 209 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:915192 original size:23 final size:23
Alignment explanation
Indices: 915124--915184 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
915114 CATTATTATA
*
915124 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
915147 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
915170 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
915185 TTTATATGAG
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:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:922776 original size:150 final size:150
Alignment explanation
Indices: 922506--922786 Score: 334
Period size: 150 Copynumber: 1.9 Consensus size: 150
922496 AAAGAATGCA
* * ** ** *
922506 TGTGAAGAACATAAGAGGCAAAAGGATGAAAATGGAAATTTAAGCATAAGGGCCTTCATGAATGT
1 TGTGAAAAACATAAGAGGCAAAAGGATCAAAAAAGAAATCCAAGCAAAAGGGCCTTCATGAATGT
* * * **
922571 AATACGAGACTGGCCCGTGGGTTTGAGAATAGATGGGGCAGATGTAGCCAAGAAGACACCTCAAA
66 AATACGAGACTGACCCGTGGGTTTAAGAATAGATAGGGCAGACATAGCCAAGAAGACACCTCAAA
922636 CTGCTTCAAGAGAGGATTCT
131 CTGCTTCAAGAGAGGATTCT
* *
922656 TGTGAAAAACATAAG-GCGCAAGAGGATCAAAAAAGAAATCCAAGCAAAAGGG-CTTCCATGGAT
1 TGTGAAAAACATAAGAG-GCAAAAGGATCAAAAAAGAAATCCAAGCAAAAGGGCCTT-CATGAAT
* * *** *
922719 GTAGTCCGAGACTGACCCGTGGGTTTAAGAATCAG-TAGGGCAGACATAGCTTCGAAGACGCCTC
64 GTAATACGAGACTGACCCGTGGGTTTAAGAAT-AGATAGGGCAGACATAGCCAAGAAGACACCTC
922783 AAAC
128 AAAC
922787 ACCTATATCA
Statistics
Matches: 108, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
149 4 0.04
150 102 0.94
151 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (150 bp):
TGTGAAAAACATAAGAGGCAAAAGGATCAAAAAAGAAATCCAAGCAAAAGGGCCTTCATGAATGT
AATACGAGACTGACCCGTGGGTTTAAGAATAGATAGGGCAGACATAGCCAAGAAGACACCTCAAA
CTGCTTCAAGAGAGGATTCT
Found at i:923855 original size:76 final size:76
Alignment explanation
Indices: 923716--923861 Score: 238
Period size: 76 Copynumber: 1.9 Consensus size: 76
923706 ATATCATATA
* * *
923716 TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGGCCTTATGGATAAG
1 TATACAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCCTTATAGATAAG
923781 ATTCATCTATC
66 ATTCATCTATC
* * *
923792 TATACAATAAAGCTTAAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCTGGCTTTATAGATAAG
1 TATACAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCCTTATAGATAAG
923857 ATTCA
66 ATTCA
923862 ACTAATCTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (76 bp):
TATACAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCCTTATAGATAAG
ATTCATCTATC
Found at i:925058 original size:64 final size:64
Alignment explanation
Indices: 924832--925046 Score: 306
Period size: 64 Copynumber: 3.4 Consensus size: 64
924822 TTTTGTAGCT
* * *
924832 TTCAGAG-CTAATTTCAACTTCACAACAAAGGATATTGGACTCAACAAACAACTTTCCAATTTCA
1 TTCAGAGTC-AATTTCAACTTCACAGCAAAGGATATTGGACTCAACAAAAAACTTTCCAGTTTCA
* ** * *
924896 TTTAGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAACAAATAACTTTTCAGTTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTGGACTCAACAAAAAACTTTCCAGTTTCA
* * *
924960 TTCAGGGTCAATTTTAACTTCACAGCAAAGGATATTGAACTCAACAAAAAACTTTCCAGTTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTGGACTCAACAAAAAACTTTCCAGTTTCA
*
925024 TTCAGAGTCAATTTAAACTTCAC
1 TTCAGAGTCAATTTCAACTTCAC
925047 GACGAAGGAT
Statistics
Matches: 133, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
64 132 0.99
65 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (64 bp):
TTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTGGACTCAACAAAAAACTTTCCAGTTTCA
Found at i:925171 original size:109 final size:109
Alignment explanation
Indices: 925034--925336 Score: 464
Period size: 109 Copynumber: 2.8 Consensus size: 109
925024 TTCAGAGTCA
*
925034 ATTTAAACTTCACGACGAAGGATATCGTGCCAACAATACTTGGATTTCAACTTCACAACGAAGGA
1 ATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTGGATTTCAACTTCACAACGAAGGA
* * * * *
925099 TATTCAATTCAAAGCTCAACTTCATAACGAATGGGTCATCCACG
66 TATCCAATTCAAAGCTCAACTTCACAACAAAAGAGTCATCCACG
* * *
925143 ATTTCAACTTCACGACGATGGATATCGTGCCAACAATACTTGGATTTCAACTTCACAATGAATGA
1 ATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTGGATTTCAACTTCACAACGAAGGA
925208 TATCCAATTCAAAGCTCAACTTCACAACAAAAGAGTCATCCACG
66 TATCCAATTCAAAGCTCAACTTCACAACAAAAGAGTCATCCACG
* **
925252 ATTTCAACTTCACGACTAAGGATATCGTGCCAACAAT-CTTTGGATTTCAACTTCATGACGAAGG
1 ATTTCAACTTCACGACGAAGGATATCGTGCCAACAATAC-TTGGATTTCAACTTCACAACGAAGG
* *
925316 ATATCCAATTTAATGCTCAAC
65 ATATCCAATTCAAAGCTCAAC
925337 GAATGAGCCA
Statistics
Matches: 176, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
108 1 0.01
109 175 0.99
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (109 bp):
ATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTGGATTTCAACTTCACAACGAAGGA
TATCCAATTCAAAGCTCAACTTCACAACAAAAGAGTCATCCACG
Found at i:925992 original size:86 final size:85
Alignment explanation
Indices: 925707--926029 Score: 336
Period size: 85 Copynumber: 3.8 Consensus size: 85
925697 CATCCCAGTG
* * * * **
925707 CAACATAACTCAAGG-CGAGAATGGTTATATGTCATCAAAGGCCTTCGAGTTCGATTAT-ATTCA
1 CAACATAACTCAAGGTAGA-AAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATT-TCATTCA
925770 GCTCAAAGGCATATCCAATTTA
64 GCTCAAAGGCATATCCAATTTA
* * *
925792 CAACATAACTCAAGGCTAG-AAGGGTTATCTGTCAACAAAAACCTTTGAGTTCGATTACACTCAG
1 CAACATAACTCAAGG-TAGAAAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTTCATTCAG
* *
925856 TTCAAAGGCACATCCAATTTA
65 CTCAAAGGCATATCCAATTTA
925877 CAACATAACTCAAGGT-GAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTTCATTCA
1 CAACATAACTCAAGGTAGA-AAGGGTTATCTGTCAACAAAA-ACCTTCGAGTTCGATTTCATTCA
* * * *
925941 ACTCAAGGGCATGTCAAATTTA
64 GCTCAAAGGCATATCCAATTTA
* ** * * *
925963 CAGA-ATAACTTAA-GTAGAAACAAGCTATCTGTCAA-AAAAAACTGTCGAGTTCGATTCCATTC
1 CA-ACATAACTCAAGGTAGAAA-GGGTTATCTGTCAACAAAAACCT-TCGAGTTCGATTTCATTC
926025 AGCTC
63 AGCTC
926030 GATGACACAT
Statistics
Matches: 201, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
83 1 0.00
84 4 0.02
85 135 0.67
86 59 0.29
87 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (85 bp):
CAACATAACTCAAGGTAGAAAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTTCATTCAGC
TCAAAGGCATATCCAATTTA
Found at i:925996 original size:171 final size:170
Alignment explanation
Indices: 925707--926018 Score: 400
Period size: 171 Copynumber: 1.8 Consensus size: 170
925697 CATCCCAGTG
* * * *
925707 CAACATAACTCAAGGCGAGAATGGTTATATGTCATCAAAGGCCTTCGAGTTCGATTATATTCAGC
1 CAACATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTATATTCAAC
* ** * *
925772 TCAAAGGCATATCCAATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAACCT-
66 TCAAAGGCATATCAAATTTACAACATAACTCAAGGCTAGAAAAGCTATCTGTCAA-AAAAAACTG
*
925836 TTGAGTTCGATTACACTCAGTTCAAAGGCACATCCAATTTA
130 TCGAGTTCGATTACACTCAGTTCAAAGGCACATCCAATTTA
* *
925877 CAACATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATT-TCATTCA
1 CAACATAACTCAAGGCGAGAAGGGTTATATGTCAAC-AAAGACCTTCGAGTTCGATTAT-ATTCA
* * *
925941 ACTCAAGGGCATGTCAAATTTACAGA-ATAACTTAA-G-TAGAAACAAGCTATCTGTCAAAAAAA
64 ACTCAAAGGCATATCAAATTTACA-ACATAACTCAAGGCTAG-AA-AAGCTATCTGTCAAAAAAA
926003 ACTGTCGAGTTCGATT
126 ACTGTCGAGTTCGATT
926019 CCATTCAGCT
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
169 3 0.02
170 43 0.36
171 74 0.61
172 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (170 bp):
CAACATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTATATTCAAC
TCAAAGGCATATCAAATTTACAACATAACTCAAGGCTAGAAAAGCTATCTGTCAAAAAAAACTGT
CGAGTTCGATTACACTCAGTTCAAAGGCACATCCAATTTA
Found at i:927467 original size:21 final size:19
Alignment explanation
Indices: 927436--927477 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
927426 CCCTCGAGGC
927436 GATTTTTAAGAAACTAACTT
1 GATTTTTAAGAAA-TAACTT
*
927456 GATTTTTGAAGAAATGACTT
1 GATTTTT-AAGAAATAACTT
927476 GA
1 GA
927478 AGAACATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (19 bp):
GATTTTTAAGAAATAACTT
Found at i:927953 original size:9 final size:9
Alignment explanation
Indices: 927939--928013 Score: 59
Period size: 9 Copynumber: 8.2 Consensus size: 9
927929 TTCTTTTTCT
927939 TTATTATTA
1 TTATTATTA
927948 TTATTATTA
1 TTATTATTA
927957 TT-TTATATA
1 TTATTAT-TA
*
927966 TTTTTCATTA
1 TTATT-ATTA
927976 TTATT-TTA
1 TTATTATTA
927984 TATATT-TTA
1 T-TATTATTA
927993 TATATGTA-TA
1 T-TAT-TATTA
*
928003 TTATTTTTA
1 TTATTATTA
928012 TT
1 TT
928014 CTTTTTCTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
8 9 0.16
9 34 0.60
10 12 0.21
11 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (9 bp):
TTATTATTA
Found at i:927978 original size:22 final size:21
Alignment explanation
Indices: 927938--927991 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 21
927928 TTTCTTTTTC
*
927938 TTTAT-TATTATTATTATTAT
1 TTTATATATTTTTATTATTAT
927958 TTTATATATTTTTCATTATTAT
1 TTTATATATTTTT-ATTATTAT
927980 TTTATATATTTT
1 TTTATATATTTT
927992 ATATATGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 20 0.65
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATATATTTTTATTATTAT
Found at i:928006 original size:22 final size:21
Alignment explanation
Indices: 927938--928006 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
927928 TTTCTTTTTC
927938 TTTAT-TATTATTAT-TATTAT
1 TTTATATATT-TTATATATTAT
927958 TTTATATATTTT-TCATTATTAT
1 TTTATATATTTTAT-A-TATTAT
927980 TTTATATATTTTATATATGTAT
1 TTTATATATTTTATATAT-TAT
*
928002 ATTAT
1 TTTAT
928007 TTTTATTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
19 1 0.02
20 7 0.17
21 7 0.17
22 26 0.62
23 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (21 bp):
TTTATATATTTTATATATTAT
Found at i:928126 original size:3 final size:3
Alignment explanation
Indices: 928118--928167 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
928108 TCTCTTGTCT
928118 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
928166 TT
1 TT
928168 GCATATTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:928190 original size:5 final size:5
Alignment explanation
Indices: 928180--928242 Score: 62
Period size: 5 Copynumber: 13.2 Consensus size: 5
928170 ATATTTTACA
* *
928180 TATTT TATTT TATTT TATTT T-TTGT T-TAT TATTT TATTT TATTC TATTT
1 TATTT TATTT TATTT TATTT TATT-T TATTT TATTT TATTT TATTT TATTT
*
928229 T-TTC T-TTT TATTT T
1 TATTT TATTT TATTT T
928243 CTCTTCTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
4 10 0.20
5 39 0.80
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:928198 original size:24 final size:24
Alignment explanation
Indices: 928127--928222 Score: 61
Period size: 24 Copynumber: 3.8 Consensus size: 24
928117 TTTATTATTA
*
928127 TTATTATTATTATTATTATTATTA-TT
1 TTATTATT-TTATT-TTATT-TTACAT
*
928153 ATTATTATTATTATTGCATATTTTACAT
1 -TTATTATT-TTATT--TTATTTTACAT
***
928181 ATT-TTATTTTATTTTATTTTTTGT
1 -TTATTATTTTATTTTATTTTACAT
928205 TTATTATTTTATTTTATT
1 TTATTATTTTATTTTATT
928223 CTATTTTTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.03
24 22 0.37
26 5 0.08
27 22 0.37
28 8 0.14
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TTATTATTTTATTTTATTTTACAT
Found at i:928212 original size:29 final size:28
Alignment explanation
Indices: 928180--928242 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 28
928170 ATATTTTACA
* *
928180 TATTTTATTTTATTTTATTTTTTGTTTAT
1 TATTTTATTTTATTCTATTTTTTCTTT-T
928209 TATTTTATTTTATTCTATTTTTTCTTTT
1 TATTTTATTTTATTCTATTTTTTCTTTT
928237 TATTTT
1 TATTTT
928243 CTCTTCTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 7 0.22
29 25 0.78
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (28 bp):
TATTTTATTTTATTCTATTTTTTCTTTT
Found at i:928240 original size:13 final size:13
Alignment explanation
Indices: 928192--928254 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 13
928182 TTTTATTTTA
*
928192 TTTTATTTTTTGT
1 TTTTATTTTTTCT
928205 TTATTATTTTATT-T
1 TT-TTATTTT-TTCT
928219 TATTCTATTTTTTCT
1 T-TT-TATTTTTTCT
*
928234 TTTTATTTTCTCT
1 TTTTATTTTTTCT
928247 TCTTTATT
1 T-TTTATT
928255 GTATTTGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
13 12 0.28
14 20 0.47
15 11 0.26
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTTCT
Found at i:928287 original size:9 final size:9
Alignment explanation
Indices: 928117--928291 Score: 68
Period size: 9 Copynumber: 19.3 Consensus size: 9
928107 TTCTCTTGTC
928117 TTTA-TTAT
1 TTTATTTAT
928125 TATTA-TTAT
1 T-TTATTTAT
928134 TATTA-TTAT
1 T-TTATTTAT
928143 TATTA-TTAT
1 T-TTATTTAT
928152 TATTA-TTAT
1 T-TTATTTAT
928161 TATTATTGCATAT
1 T-TTATT---TAT
**
928174 TTTACATAT
1 TTTATTTAT
928183 TTTATTTTAT
1 TTTA-TTTAT
928193 TTTA-TT-T
1 TTTATTTAT
*
928200 TTTGTTTAT
1 TTTATTTAT
*
928209 TAT-TTTAT
1 TTTATTTAT
928217 TTTATTCTAT
1 TTTATT-TAT
928227 TTT-TTCT-T
1 TTTATT-TAT
928235 TTTATTT-T
1 TTTATTTAT
*
928243 CTCTTCTTTAT
1 -T-TTATTTAT
* *
928254 TGTATTTGT
1 TTTATTTAT
*
928263 TTT-TTTAC
1 TTTATTTAT
*
928271 TTTCTTTAT
1 TTTATTTAT
928280 TTTATTTAT
1 TTTATTTAT
928289 TTT
1 TTT
928292 TGCTACTTTT
Statistics
Matches: 136, Mismatches: 16, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
7 4 0.03
8 24 0.18
9 80 0.59
10 20 0.15
11 1 0.01
12 3 0.02
13 4 0.03
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTATTTAT
Found at i:929136 original size:8 final size:8
Alignment explanation
Indices: 929117--929161 Score: 72
Period size: 8 Copynumber: 5.5 Consensus size: 8
929107 CAATAGAATT
929117 AAAAATGAA
1 AAAAATG-A
929126 AAAAATGA
1 AAAAATGA
929134 AAAAATGA
1 AAAAATGA
929142 AAAAATGA
1 AAAAATGA
*
929150 AAAAAAGA
1 AAAAATGA
929158 AAAA
1 AAAA
929162 GAAAATAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
8 28 0.80
9 7 0.20
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (8 bp):
AAAAATGA
Found at i:929171 original size:15 final size:15
Alignment explanation
Indices: 929126--929172 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
929116 TAAAAATGAA
*
929126 AAAAATGAAAAAATG
1 AAAAATGAAAAAAAG
929141 AAAAAATGAAAAAAAG
1 -AAAAATGAAAAAAAG
929157 AAAAA-GAAAATAAAG
1 AAAAATGAAAA-AAAG
929172 A
1 A
929173 CATGTACAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 5 0.17
15 10 0.34
16 14 0.48
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.09
Consensus pattern (15 bp):
AAAAATGAAAAAAAG
Found at i:929971 original size:32 final size:31
Alignment explanation
Indices: 929925--930027 Score: 118
Period size: 32 Copynumber: 3.2 Consensus size: 31
929915 GTAAAATCAT
* *
929925 TTTATAACATTTTAATAAAATTTAATAATTA
1 TTTATAATAATTTAATAAAATTTAATAATTA
* **
929956 CTTTATAATAGTTTAATAAAATCCAATAAATTA
1 -TTTATAATAATTTAATAAAATTTAAT-AATTA
929989 TTTTATAATAATTTAAT-AAATTTAATAATTA
1 -TTTATAATAATTTAATAAAATTTAATAATTA
930020 TATTATAA
1 T-TTATAA
930028 ATCTAAAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
30 1 0.02
31 11 0.18
32 29 0.48
33 20 0.33
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.47
Consensus pattern (31 bp):
TTTATAATAATTTAATAAAATTTAATAATTA
Found at i:932346 original size:25 final size:25
Alignment explanation
Indices: 932318--932365 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
932308 TAAATTATAT
932318 GAAGGCTTAATACAAAAATAAGTAC
1 GAAGGCTTAATACAAAAATAAGTAC
* *
932343 GAAGGCTTAATAGAAAATTAAGT
1 GAAGGCTTAATACAAAAATAAGT
932366 GTCTAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (25 bp):
GAAGGCTTAATACAAAAATAAGTAC
Found at i:940133 original size:60 final size:60
Alignment explanation
Indices: 940056--940182 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
940046 TCTCATTCTT
* * *
940056 AAACCATGACTATCATTCTAAATTAGT-CCTCAAA-ATTTTGAGCATTTCAATTTCATCCCC
1 AAACTATGACTATCATTCTAAATTAGTCCCT-AAACATTTTGAACATTCCAATTTCAT-CCC
* * * *
940116 AAACTATGACTTTCATTCTAAATTGGTCCCTAAACTTTTTGAACATTCCAATTTTATCCC
1 AAACTATGACTATCATTCTAAATTAGTCCCTAAACATTTTGAACATTCCAATTTCATCCC
940176 AAACTAT
1 AAACTAT
940183 ACATATATAC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 37 0.64
61 21 0.36
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (60 bp):
AAACTATGACTATCATTCTAAATTAGTCCCTAAACATTTTGAACATTCCAATTTCATCCC
Found at i:940408 original size:60 final size:60
Alignment explanation
Indices: 940309--940426 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
940299 GATGAATTTG
* * *
940309 GGGATGAAATTGGAAGATTTAAAAGTTTTGGAACCAATTTAGAAA-GAGGGTCATAGTTCA
1 GGGATGAAATTAGAAGATTTAAAAGTTTAGGAACCAATTTA-AAATGAGAGTCATAGTTCA
**
940369 GGGATGAAATTAGAATG-TTTAAAAGTTTAAGG-ATTAATTTAAAATGAGAGTCATAGTT
1 GGGATGAAATTAGAA-GATTTAAAAGTTT-AGGAACCAATTTAAAATGAGAGTCATAGTT
940427 TGAGGATAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
59 3 0.06
60 44 0.88
61 3 0.06
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (60 bp):
GGGATGAAATTAGAAGATTTAAAAGTTTAGGAACCAATTTAAAATGAGAGTCATAGTTCA
Found at i:953085 original size:55 final size:55
Alignment explanation
Indices: 953055--953262 Score: 337
Period size: 55 Copynumber: 3.8 Consensus size: 55
953045 CCTACTACCA
* *
953055 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGTACACACAGTGCCT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
*
953110 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCATACACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
** *
953165 ATACAAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGTACACACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
* *
953220 ATATGGAAATTCATAAACTTATTATGAATTTATTAG-TTTGCAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCAC
953263 GTATAGTGTC
Statistics
Matches: 141, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
54 6 0.04
55 135 0.96
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (55 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
Found at i:957038 original size:105 final size:107
Alignment explanation
Indices: 956811--957099 Score: 368
Period size: 105 Copynumber: 2.7 Consensus size: 107
956801 GCATTGGATT
* *
956811 GAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGACGAATTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAAC-T-TTCTC-CTT-TAGGACGAGTTCTTCTCATTATGAACTC
* * *
956876 TTCATTAGAAATACTGATCCACTTCTTTCTGTGATAGACTTGAAAG
62 TTCATGAGAAATACTGATCCACCTCATTCTGTGATAGACTTGAAAG
* *
956922 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATAAACTCTTC-
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCA
** * ** * *
956986 TGA-AAATGTTGGTTTACCTCATTCTGTGGT-GAATTTGAAAG
66 TGAGAAATACTGATCCACCTCATTCTGTGATAG-ACTTGAAAG
*
957027 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTCCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCA
*
957092 TTAGAAAT
66 TGAGAAAT
957100 GTCAATCCCT
Statistics
Matches: 157, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
104 1 0.01
105 88 0.56
106 4 0.03
107 31 0.20
108 3 0.02
109 5 0.03
110 1 0.01
111 24 0.15
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (107 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCA
TGAGAAATACTGATCCACCTCATTCTGTGATAGACTTGAAAG
Found at i:957280 original size:136 final size:136
Alignment explanation
Indices: 957027--957691 Score: 1045
Period size: 136 Copynumber: 4.9 Consensus size: 136
957017 AATTTGAAAG
* * *
957027 GAACAAGTTCTTCTCATTATGAAC-T-TTCT-CCT-T-TAGGACGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* *
957087 CTCCATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATACCATGAATCGAGTGA
66 CTCCATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTGA
957152 TAGGTC
131 TAGGTC
* *
957158 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGCATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * *
957223 CTCTATTAGAAATGTCAATCCCTCAAGCGAGGCATCACTAATTCAAAATGCCGTGAATCGAGTGA
66 CTCCATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTGA
957288 TAGGTC
131 TAGGTC
957294 GAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * *
957359 CTCAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGACTCGAAATACCGTGAATCGAGTGA
66 CTCCATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTGA
957424 TAGGTC
131 TAGGTC
* * *
957430 GAAAAAGCTCTTCTCATTATGAACTTATTCTCCCTTTGTTGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * **
957495 CTCCATTAGAAATGTCAATTCCTTAAGCGAGGCGTCACTGATTCGAAATGTTGTGAATCGAGTGA
66 CTCCATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTGA
957560 TAGGTC
131 TAGGTC
*
957566 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAG-TCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * *
957630 CTCCATTGGAAATGCCAATTCCTCAAGCGAGGCGTCACTGATTCGAAATGCCATGAATCGAG
66 CTCCATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAG
957692 CAATGGAAAT
Statistics
Matches: 489, Mismatches: 40, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
131 23 0.05
132 1 0.00
133 4 0.01
134 3 0.01
135 74 0.15
136 384 0.79
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (136 bp):
GAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
CTCCATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTGA
TAGGTC
Found at i:957872 original size:90 final size:90
Alignment explanation
Indices: 957703--958034 Score: 492
Period size: 90 Copynumber: 3.7 Consensus size: 90
957693 AATGGAAATA
* * * *
957703 TTGAAAGCATCTTGC-CCGAAGGTCTTATAG-TGGCCCGAAGGACTTAAAAAAT-AAGAAACCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTT-AAAAATCAAGAAACCCC
** *
957765 CAAAGGCTCAGTTTCTTAAATCTCAT
65 TGAAGGCTCAGTTTCTTAGATCTCAT
* * * * *
957791 TTGAAAATATCCTGCACTGAAGGTCTTATGGATGACCTGAAGGACTTAGAAATCAAGCAACCCCT
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCT
*
957856 GAAGGCTTAGTTTCTTAGATCTCAT
66 GAAGGCTCAGTTTCTTAGATCTCAT
*
957881 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAGAAATCAAGAAACCCCT
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCT
957946 GAAGGCTCAGTTTCTTAGATCTCAT
66 GAAGGCTCAGTTTCTTAGATCTCAT
*
957971 TTGAAAACATCCTGCATTGAAGGTCTTATGGATGG-CCGAAGGACTTAAAAATCAAGAAACCCCT
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCT
958035 ACATATCACG
Statistics
Matches: 221, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
88 12 0.05
89 46 0.21
90 163 0.74
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (90 bp):
TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCT
GAAGGCTCAGTTTCTTAGATCTCAT
Found at i:958117 original size:43 final size:43
Alignment explanation
Indices: 958028--958290 Score: 281
Period size: 43 Copynumber: 6.2 Consensus size: 43
958018 AAAATCAAGA
*
958028 AACCCCTACATATCACGATGG-TCCTCAAGCTTTTCATC-AAG
1 AACCCCTACATATCACGATGGTTCCTCAAGCTTGTCATCAAAG
* *
958069 AAACCCCTACATATCATGATGGTTTCTCAAGCTTGTCATCAAAG
1 -AACCCCTACATATCACGATGGTTCCTCAAGCTTGTCATCAAAG
* * * * *
958113 AACCCCTACATATCATGATAGTCCCTCAAGCTTTTTATCAATA-
1 AACCCCTACATATCACGATGGTTCCTCAAGCTTGTCATCAA-AG
* * *
958156 AA-CCCTATATATCACGATGGTTTCTTAAGCTTGTCATCAAAG
1 AACCCCTACATATCACGATGGTTCCTCAAGCTTGTCATCAAAG
* *
958198 AACCCCTACATATCACGATGG-TCCTTCAAACTTGTCCTCAACA-
1 AACCCCTACATATCACGATGGTTCC-TCAAGCTTGTCATCAA-AG
* *
958241 AACCCCTACATATCACGATGG-TCTCTCAAGCTTTTCTTC-AAG
1 AACCCCTACATATCACGATGGTTC-CTCAAGCTTGTCATCAAAG
958283 AAACCCCT
1 -AACCCCT
958291 GAAAATCAGG
Statistics
Matches: 187, Mismatches: 24, Indels: 19
0.81 0.10 0.08
Matches are distributed among these distances:
41 2 0.01
42 55 0.29
43 124 0.66
44 6 0.03
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.29
Consensus pattern (43 bp):
AACCCCTACATATCACGATGGTTCCTCAAGCTTGTCATCAAAG
Done.