Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 64
Found at i:767576 original size:19 final size:20
Alignment explanation
Indices: 767528--767580 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
767518 AAAGTTTCTG
*
767528 AAACTTAAATTCGCAACGCGA
1 AAAC-TAAAATCGCAACGCGA
767549 AAA-TGAAAATCGCAACGC-A
1 AAACT-AAAATCGCAACGCGA
767568 AAACTAAAATCGC
1 AAACTAAAATCGC
767581 GTTGCGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 13 0.45
20 13 0.45
21 3 0.10
ACGTcount: A:0.49, C:0.23, G:0.13, T:0.15
Consensus pattern (20 bp):
AAACTAAAATCGCAACGCGA
Found at i:768098 original size:20 final size:20
Alignment explanation
Indices: 768063--768218 Score: 156
Period size: 20 Copynumber: 8.0 Consensus size: 20
768053 TAAAAACATT
*
768063 TTTGACTTTCGCGTTGCGAA
1 TTTGACTTTTGCGTTGCGAA
* *
768083 TTTGAATTTTGAGTTGCGAA
1 TTTGACTTTTGCGTTGCGAA
* * *
768103 TTTGAATTTTGAGTTACGAA
1 TTTGACTTTTGCGTTGCGAA
* *
768123 TTTGACTATCGCGTT--GAA
1 TTTGACTTTTGCGTTGCGAA
*
768141 TTTGAC-TTTGTGTTGCGAA
1 TTTGACTTTTGCGTTGCGAA
* *
768160 TTTGACTATCGCGTTGCGAA
1 TTTGACTTTTGCGTTGCGAA
* *
768180 TTTGACTTTCGCGTTACGAA
1 TTTGACTTTTGCGTTGCGAA
* *
768200 TTTGACTTATGTGTTGCGA
1 TTTGACTTTTGCGTTGCGA
768219 TTTACAAATT
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
17 5 0.04
18 9 0.08
19 9 0.08
20 90 0.80
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.42
Consensus pattern (20 bp):
TTTGACTTTTGCGTTGCGAA
Found at i:768160 original size:77 final size:78
Alignment explanation
Indices: 768063--768206 Score: 209
Period size: 77 Copynumber: 1.9 Consensus size: 78
768053 TAAAAACATT
* * *
768063 TTTGACTTTCGCGTTGCGAATTTGAATTTTGAGTTGCGAATTTGAATTTTGAGTTACGAATTTGA
1 TTTGACTTTCGCGTTGCGAATTTGAATATCGAGTTGCGAATTTGAATTTCGAGTTACGAATTTGA
768128 CTATCGCGTTGAA
66 CTATCGCGTTGAA
* * * * *
768141 TTTGACTTT-GTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTCGCGTTACGAATTTGA
1 TTTGACTTTCGCGTTGCGAATTTGAATATCGAGTTGCGAATTTGAATTTCGAGTTACGAATTTGA
768205 CT
66 CT
768207 TATGTGTTGC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 49 0.84
78 9 0.16
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (78 bp):
TTTGACTTTCGCGTTGCGAATTTGAATATCGAGTTGCGAATTTGAATTTCGAGTTACGAATTTGA
CTATCGCGTTGAA
Found at i:768237 original size:20 final size:20
Alignment explanation
Indices: 768212--768299 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
768202 TGACTTATGT
768212 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
768232 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
* ** *
768252 GTTACGAATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
** * *
768273 AATGTGATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
768293 GTTGCGA
1 GTTGCGA
768300 AATTGGAAAC
Statistics
Matches: 50, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
20 38 0.76
21 12 0.24
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:768336 original size:20 final size:19
Alignment explanation
Indices: 768287--768340 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
768277 TGATTTACAT
768287 ATTCGCGTTGCGAAATTGG
1 ATTCGCGTTGCGAAATTGG
** *
768306 AAACTGGGTTGCGAAATTGG
1 ATTC-GCGTTGCGAAATTGG
768326 AGTTCGCGTTGCGAA
1 A-TTCGCGTTGCGAA
768341 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (19 bp):
ATTCGCGTTGCGAAATTGG
Found at i:770650 original size:10 final size:9
Alignment explanation
Indices: 770620--770649 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
770610 TACATATATA
770620 TTTATTTTT
1 TTTATTTTT
770629 TTTATTTTT
1 TTTATTTTT
770638 TTTATTTTT
1 TTTATTTTT
770647 TTT
1 TTT
770650 TCATTTATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTATTTTT
Found at i:770752 original size:24 final size:23
Alignment explanation
Indices: 770724--770785 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
770714 TTACTATTAT
770724 TTATATATATTT-TATTATATATA
1 TTATATATATTTCT-TTATATATA
*
770747 TATATATATATTTCTTTATATTTA
1 T-TATATATATTTCTTTATATATA
770771 TTAT-TATATTTCTTT
1 TTATATATATTTCTTT
770786 TTTTTCACGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 11 0.31
23 4 0.11
24 20 0.56
25 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATATATATTTCTTTATATATA
Found at i:770753 original size:22 final size:21
Alignment explanation
Indices: 770725--770781 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
770715 TACTATTATT
770725 TATATATATTTTATTATATATA
1 TATATATATTTTATT-TATATA
* *
770747 TATATATATATTTCTTTATATT
1 TATATATAT-TTTATTTATATA
770769 TATTATTATATTT
1 TA-TA-TATATTT
770782 CTTTTTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 16 0.53
23 9 0.30
24 5 0.17
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TATATATATTTTATTTATATA
Found at i:770756 original size:14 final size:13
Alignment explanation
Indices: 770718--770758 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
770708 TCATCATTAC
*
770718 TATTATTTATATA
1 TATTATATATATA
*
770731 TATTTTAT-TATA
1 TATTATATATATA
770743 TA-TATATATATA
1 TATTATATATATA
770755 TATT
1 TATT
770759 TCTTTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 4 0.17
12 12 0.52
13 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATATATATA
Found at i:771682 original size:4 final size:4
Alignment explanation
Indices: 771673--771697 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
771663 TTTCATTTTC
771673 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
771698 TTATTGTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:773993 original size:18 final size:18
Alignment explanation
Indices: 773951--773998 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
773941 TTGCATACTT
773951 TGTA-TTTTATA-TTTCA
1 TGTATTTTTATATTTTCA
773967 TGTTATTTTTATATTTTCTA
1 TG-TATTTTTATATTTTC-A
773987 TG--TTTTTATATT
1 TGTATTTTTATATT
773999 CATATTAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.07
17 12 0.43
18 7 0.25
19 4 0.14
20 3 0.11
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (18 bp):
TGTATTTTTATATTTTCA
Found at i:780768 original size:8 final size:7
Alignment explanation
Indices: 780723--780777 Score: 56
Period size: 8 Copynumber: 7.3 Consensus size: 7
780713 GCCCTAAATT
780723 GAAAAAA
1 GAAAAAA
780730 GAAAAAA
1 GAAAAAA
*
780737 GAGGAAAA
1 GA-AAAAA
*
780745 GAGGAAAA
1 GA-AAAAA
780753 GAGAAAAA
1 GA-AAAAA
780761 GAACAAAA
1 GAA-AAAA
780769 GAAAAAA
1 GAAAAAA
780776 GA
1 GA
780778 GAAGAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 16 0.36
8 28 0.64
ACGTcount: A:0.75, C:0.02, G:0.24, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:780768 original size:16 final size:15
Alignment explanation
Indices: 780725--780777 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 15
780715 CCTAAATTGA
780725 AAAAAGAAAAAAGAG
1 AAAAAGAAAAAAGAG
* *
780740 GAAAAGAGGAAAAGAG
1 AAAAAGA-AAAAAGAG
780756 AAAAAGAACAAAAGA-
1 AAAAAGAA-AAAAGAG
780771 AAAAAGA
1 AAAAAGA
780778 GAAGAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 13 0.41
16 19 0.59
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAGAG
Found at i:782831 original size:110 final size:108
Alignment explanation
Indices: 782630--782881 Score: 287
Period size: 110 Copynumber: 2.3 Consensus size: 108
782620 GATTCCCAAT
* * * **
782630 TTCAGAGCCAATTTCAGCTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACAAAGGATATTAAACCCAAGACAACACAAGCTCAACTTCA
* * * *
782695 CGACGAATGGGCGACTGATTGTCAACAAACAACTTT-TCAATTTC
66 CGACGAAGGGGCGACTGACTGCCAACAAACAA-TTTCTC-AGTTC
* * * *
782739 ATTCAGAGTCAATTTCAACTTCACAACAAAGGATATTAAACTCGAGACAGCACAAGCTCAACTTC
1 -TTCAGAGCCAATTTCAACTTCACAACAAAGGATATTAAACCCAAGACAACACAAGCTCAACTTC
* * *
782804 AC-AGCGTAGGGGTGACTGACTGCCAACAAATAATTTCTCAGTTC
65 ACGA-CGAAGGGGCGACTGACTGCCAACAAACAATTTCTCAGTTC
*
782848 -T-AGAGCCAATTTCAACTTCACAACAGAGGATATT
1 TTCAGAGCCAATTTCAACTTCACAACAAAGGATATT
782882 GGACTCAGAG
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
106 31 0.25
107 1 0.01
109 8 0.07
110 82 0.67
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (108 bp):
TTCAGAGCCAATTTCAACTTCACAACAAAGGATATTAAACCCAAGACAACACAAGCTCAACTTCA
CGACGAAGGGGCGACTGACTGCCAACAAACAATTTCTCAGTTC
Found at i:785176 original size:4 final size:4
Alignment explanation
Indices: 785148--785205 Score: 66
Period size: 4 Copynumber: 14.5 Consensus size: 4
785138 GTCATTACTA
* *
785148 TTAT TTAT ATAT AT-T TTAT TATAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT T-TAT TTAT TTAT TTAT TTAT TTAT TTAT
785196 ATTA- TTAT TT
1 -TTAT TTAT TT
785206 CTTTTTTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
3 5 0.10
4 36 0.75
5 7 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:794949 original size:23 final size:23
Alignment explanation
Indices: 794902--794954 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
794892 TCCCGAAGGA
* *
794902 CCACATAGGTTTGTATCGAAATG
1 CCACATAGGTTTGCATCCAAATG
794925 CCACATAGGTTTGCA-CCAAAGTG
1 CCACATAGGTTTGCATCCAAA-TG
794948 CCACATA
1 CCACATA
794955 TTTGTCCCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (23 bp):
CCACATAGGTTTGCATCCAAATG
Found at i:794972 original size:21 final size:21
Alignment explanation
Indices: 794948--794997 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
794938 CACCAAAGTG
* * *
794948 CCACATATTTGTCCCGGAGGA
1 CCACATAATTATCCCGAAGGA
*
794969 CCACATAATTATCCCGAATGA
1 CCACATAATTATCCCGAAGGA
794990 CCACATAA
1 CCACATAA
794998 ACCCTCGACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (21 bp):
CCACATAATTATCCCGAAGGA
Found at i:795160 original size:21 final size:21
Alignment explanation
Indices: 795130--795181 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
795120 ATAGAGTATA
* *
795130 TTCACATTCACTGGTTCAAAG
1 TTCACTTTCAATGGTTCAAAG
* *
795151 TTCACTTTCAATTGTTCAAGG
1 TTCACTTTCAATGGTTCAAAG
795172 TTCACATTTC
1 TTCAC-TTTC
795182 CATAACATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (21 bp):
TTCACTTTCAATGGTTCAAAG
Found at i:795646 original size:54 final size:54
Alignment explanation
Indices: 795564--795688 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
795554 AATACCACCC
* *
795564 TCAAGGGTATCGATACCTCCTCATGGTACCGATACCAAAATAACATTCGATGTT
1 TCAAGGGTATCGATACCTCCCCAAGGTACCGATACCAAAATAACATTCGATGTT
* * ** * *
795618 TCAAGGGTATCAATACCTCCCCAAGGTACCGATACCAAATTGGCATTTGATTTT
1 TCAAGGGTATCGATACCTCCCCAAGGTACCGATACCAAAATAACATTCGATGTT
*
795672 TTAAGGGTATCGATACC
1 TCAAGGGTATCGATACC
795689 ATCCTACAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (54 bp):
TCAAGGGTATCGATACCTCCCCAAGGTACCGATACCAAAATAACATTCGATGTT
Found at i:795702 original size:20 final size:21
Alignment explanation
Indices: 795677--795730 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
795667 ATTTTTTAAG
*
795677 GGTATCGATACCATCC-TACA
1 GGTATCGATACCACCCTTACA
*
795697 GGTATCGATACCACCCTTATA
1 GGTATCGATACCACCCTTACA
795718 -GTATCGATACCAC
1 GGTATCGATACCAC
795731 TATCAACATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (21 bp):
GGTATCGATACCACCCTTACA
Found at i:801339 original size:40 final size:40
Alignment explanation
Indices: 801293--801371 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
801283 TGTTTCTTAT
* *
801293 TCACATAGCTTCTCTATTATAGTGTATATTCACATTCACA
1 TCACATAGCTTCTCTATCATAGCGTATATTCACATTCACA
801333 TCACATAGCTTCTCTATCATAGCGTATATTCACATTCAC
1 TCACATAGCTTCTCTATCATAGCGTATATTCACATTCAC
801372 TGGTTCACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (40 bp):
TCACATAGCTTCTCTATCATAGCGTATATTCACATTCACA
Found at i:801966 original size:22 final size:21
Alignment explanation
Indices: 801913--801968 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
801903 ATATCATCCT
* *
801913 ACATGTATCGATACCACCCTT
1 ACATGTATCGATACCACCATA
*
801934 ACAT-TATCGATACCACTATCA
1 ACATGTATCGATACCACCAT-A
801955 ACATGTATCGATAC
1 ACATGTATCGATAC
801969 AATCCCTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.43
21 8 0.27
22 9 0.30
ACGTcount: A:0.34, C:0.29, G:0.09, T:0.29
Consensus pattern (21 bp):
ACATGTATCGATACCACCATA
Found at i:803075 original size:391 final size:392
Alignment explanation
Indices: 802344--803129 Score: 1538
Period size: 391 Copynumber: 2.0 Consensus size: 392
802334 ATTATACAAA
802344 TCCACCTCTAAAATACTCATCTTGTGAATTTAATCCTATATAAGCTTTCCTTAAGCTTATATAAT
1 TCCACCTCTAAAATACTCATCTTGTGAATTTAATCCTATATAAGCTTTCCTTAAGCTTATATAAT
802409 ACCCAAACTTCCATTATCAAACCAAAAATCGAAGAAACTAACAGATTTGAAAAACTTACCTTTGG
66 ACCCAAACTTCCATTATCAAACCAAAAATCGAAGAAACTAACAGATTTGAAAAACTTACCTTTGG
*
802474 ATGAGGGAGTGCAAGGCAAGAAGAAGAAATAAATAAAGGATTCCCATGTCTCCAACCCATACTTA
131 ATAAGGGAGTGCAAGGCAAGAAGAAGAAATAAATAAAGGATTCCCATGTCTCCAACCCATACTTA
802539 TATCCTAAATAAAGGAGATAATAATCCTTTATTATTAAAATACCATATTACCACTCAAATATAAC
196 TATCCTAAATAAAGGAGATAATAATCCTTTATTATTAAAATACCATATTACCACTCAAATATAAC
*
802604 AAAATTGCTCTTAGCTCTACACAAATATTCCACCATAAATCACTAAACTTATCACTTTATTCTAA
261 AAAATTGCTCTTAGCCCTACACAAATATTCCACCATAAATCACTAAACTTATCACTTTATTCTAA
802669 TTTAACCACTGCGTTTAAAAGTCTCACATTTTGGTCATTGACATGATAATTGGGTTGTTACACGA
326 TTTAACCACTGCGTTTAAAAGTCTCACATTTTGGTCATTGACATGATAATTGGGTTGTTACACGA
802734 CC
391 CC
802736 TCCACCTCT-AAATACTCATCTTGTGAATTTAATCCTATATAAGCTTTCCTTAAGCTTATATAAT
1 TCCACCTCTAAAATACTCATCTTGTGAATTTAATCCTATATAAGCTTTCCTTAAGCTTATATAAT
802800 ACCCAAACTTCCATTATCAAACCAAAAATCGAAGAAACTAACAGATTTGAAAAACTTACCTTTGG
66 ACCCAAACTTCCATTATCAAACCAAAAATCGAAGAAACTAACAGATTTGAAAAACTTACCTTTGG
*
802865 ATAAGGGAGTGCAAGGCAAGAATAAGAAATAAATAAAGGATTCCCATGTCTCCAACCCATACTTA
131 ATAAGGGAGTGCAAGGCAAGAAGAAGAAATAAATAAAGGATTCCCATGTCTCCAACCCATACTTA
802930 TATCCTAAATAAAGGAGATAATAATCCTTTATTATTAAAATACCATATTACCACTCAAATATAAC
196 TATCCTAAATAAAGGAGATAATAATCCTTTATTATTAAAATACCATATTACCACTCAAATATAAC
802995 AAAATTGCTCTTAGCCCTACACAAATATTCCACCATAAATCACTAAACTTATCACTTTATTCTAA
261 AAAATTGCTCTTAGCCCTACACAAATATTCCACCATAAATCACTAAACTTATCACTTTATTCTAA
803060 TTTAACCACTGCGTTTAAAAGTCTCACATTTTGGTCATTGACATGATAATTGGGTTGTTACACGA
326 TTTAACCACTGCGTTTAAAAGTCTCACATTTTGGTCATTGACATGATAATTGGGTTGTTACACGA
803125 CC
391 CC
803127 TCC
1 TCC
803130 CTTGATGGTT
Statistics
Matches: 391, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
391 382 0.98
392 9 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (392 bp):
TCCACCTCTAAAATACTCATCTTGTGAATTTAATCCTATATAAGCTTTCCTTAAGCTTATATAAT
ACCCAAACTTCCATTATCAAACCAAAAATCGAAGAAACTAACAGATTTGAAAAACTTACCTTTGG
ATAAGGGAGTGCAAGGCAAGAAGAAGAAATAAATAAAGGATTCCCATGTCTCCAACCCATACTTA
TATCCTAAATAAAGGAGATAATAATCCTTTATTATTAAAATACCATATTACCACTCAAATATAAC
AAAATTGCTCTTAGCCCTACACAAATATTCCACCATAAATCACTAAACTTATCACTTTATTCTAA
TTTAACCACTGCGTTTAAAAGTCTCACATTTTGGTCATTGACATGATAATTGGGTTGTTACACGA
CC
Found at i:803843 original size:22 final size:22
Alignment explanation
Indices: 803817--803860 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
803807 AATTATCTCT
*
803817 TTATTTTTGTTTTAACTTATTA
1 TTATTTTTGTCTTAACTTATTA
*
803839 TTATTTTTGTCTTAATTTATTA
1 TTATTTTTGTCTTAACTTATTA
803861 AATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TTATTTTTGTCTTAACTTATTA
Found at i:805614 original size:15 final size:16
Alignment explanation
Indices: 805589--805622 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
805579 TGTTTTGTAA
805589 AAATAATTAAATAAAT
1 AAATAATTAAATAAAT
*
805605 AAAT-ATTAAATATAT
1 AAATAATTAAATAAAT
805620 AAA
1 AAA
805623 AGAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATAATTAAATAAAT
Found at i:806833 original size:40 final size:40
Alignment explanation
Indices: 806761--806966 Score: 116
Period size: 40 Copynumber: 5.2 Consensus size: 40
806751 TAAAAAATTA
* *
806761 AATATAATACTAATATAATAATAAAAAT-ATATAATATAAAAT
1 AATATAATA--AATATTAT-ATAAACATAATATAATATAAAAT
806803 AATATAATAAATATTATATAAACAT-A-AT-ATAT-AAAT
1 AATATAATAAATATTATATAAACATAATATAATATAAAAT
* * * * *
806839 -A-ATAATAAATACTATATATATATAATATAA-ATATAGT
1 AATATAATAAATATTATATAAACATAATATAATATAAAAT
* * * *
806876 AATAATAATATATAATATGTAAATATAATAT-ATAGTAATAAT
1 AAT-ATAATAAATATTATATAAACATAATATAATA-TAA-AAT
806918 AATATATATTAAATA-TATAT--ACATACTATATAATATATAAAT
1 AATATA-A-TAAATATTATATAAACATA--ATATAATATA-AAAT
806960 --TATAATA
1 AATATAATA
806967 TGTACTATAT
Statistics
Matches: 132, Mismatches: 16, Indels: 36
0.72 0.09 0.20
Matches are distributed among these distances:
34 19 0.14
35 2 0.02
36 8 0.06
37 7 0.05
38 5 0.04
39 10 0.08
40 39 0.30
41 5 0.04
42 28 0.21
43 9 0.07
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (40 bp):
AATATAATAAATATTATATAAACATAATATAATATAAAAT
Found at i:806834 original size:2 final size:2
Alignment explanation
Indices: 806787--807011 Score: 102
Period size: 2 Copynumber: 121.5 Consensus size: 2
806777 AATAATAAAA
* * *
806787 AT AT AT A- AT AT A- AA AT A- AT AT A- AT AA AT AT -T AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
806824 AC AT A- AT AT AT AA AT A- AT A- AT AA AT ACT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * *
806863 AT AT AA AT AT AGT A- AT A- AT A- AT AT AT A- AT AT GT AA AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
806902 A- AT AT AT AGT A- AT A- AT A- AT AT AT AT -T AA AT AT AT AT AC
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
806940 AT ACT AT AT A- AT AT AT AA AT -T AT A- AT AT GT ACT AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
*
806981 A- AT GT AT -T AT GAT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT A
807012 AAGCAAAAGG
Statistics
Matches: 167, Mismatches: 26, Indels: 60
0.66 0.10 0.24
Matches are distributed among these distances:
1 24 0.14
2 131 0.78
3 12 0.07
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (2 bp):
AT
Found at i:806839 original size:36 final size:36
Alignment explanation
Indices: 806789--806938 Score: 144
Period size: 34 Copynumber: 4.1 Consensus size: 36
806779 TAATAAAAAT
806789 ATATAATATAAAATAAT-ATAATAAATATTATATAA
1 ATATAATATAAAATAATAATAATAAATATTATATAA
* * * *
806824 ACATAATAT-ATA-AATAATAATAAATACTATATAT
1 ATATAATATAAAATAATAATAATAAATATTATATAA
* *
806858 ATATAATATAAATATAGTAATAATAATATATAATATGTAA
1 ATATAATATAAA-ATAATAATAATAA-ATAT--TATATAA
* * * * *
806898 ATATAATATATAGTAATAATAATATATATTAAATAT
1 ATATAATATAAAATAATAATAATAAATATTATATAA
806934 ATATA
1 ATATA
806939 CATACTATAT
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
33 3 0.03
34 26 0.29
35 9 0.10
36 10 0.11
37 10 0.11
38 7 0.08
39 10 0.11
40 16 0.18
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (36 bp):
ATATAATATAAAATAATAATAATAAATATTATATAA
Found at i:806849 original size:34 final size:35
Alignment explanation
Indices: 806762--807013 Score: 161
Period size: 37 Copynumber: 6.8 Consensus size: 35
806752 AAAAAATTAA
* * *
806762 ATATAATACTAATATAATAATA-AAAATATATAATAT
1 ATATAATAATAATA-AATATTATATAA-ATATAATAT
* *
806798 AAAATAAT-ATAATAAATATTATATAAACATAATAT
1 -ATATAATAATAATAAATATTATATAAATATAATAT
* *
806833 ATA-AATAATAATAAATACTATATATATATAATAT
1 ATATAATAATAATAAATATTATATAAATATAATAT
* *
806867 AAATATAGTAATAATAATATATAATATGTAAATATAATAT
1 --ATATAATAATAATAA-ATAT--TATATAAATATAATAT
* * *
806907 ATAGTAATAATAATATATATTAAATATATATACATACT
1 ATA-TAATAATAATAAATATTATATAAATATA-ATA-T
* *
806945 ATATAATATATAAATTATAATATGTACTATATATATAATGT
1 ATATAATA-AT-AA-TA-AATAT-TA-TATAAATATAATAT
* *
806986 ATTATGATAAT-ATATATATATATATAAA
1 A-TATAATAATAATAAATAT-TATATAAA
807014 GCAAAAGGGT
Statistics
Matches: 172, Mismatches: 25, Indels: 37
0.74 0.11 0.16
Matches are distributed among these distances:
33 3 0.02
34 26 0.15
35 14 0.08
36 25 0.15
37 30 0.17
38 18 0.10
39 13 0.08
40 16 0.09
41 8 0.05
42 10 0.06
43 9 0.05
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (35 bp):
ATATAATAATAATAAATATTATATAAATATAATAT
Found at i:806871 original size:29 final size:28
Alignment explanation
Indices: 806826--807011 Score: 74
Period size: 27 Copynumber: 6.7 Consensus size: 28
806816 TTATATAAAC
*
806826 ATAATATATAAATA-ATAATAAATACTAT
1 ATAATATATAAATATAT-ATATATACTAT
* *
806854 AT-ATATAT-AATATAAATATAGTAATA-
1 ATAATATATAAATATATATATA-TACTAT
* *
806880 ATAATATATAATATGTAAATATAATA-TAT
1 ATAATATATAA-ATATATATAT-ATACTAT
*
806909 AGTAATA-AT-AATATATATTAAATA-TAT
1 A-TAATATATAAATATATA-TATATACTAT
*
806936 ATACATACTAT--ATA-ATATATA-AAT-T
1 ATA-ATA-TATAAATATATATATATACTAT
* * * *
806961 ATAATATGTACTATATATATAATGTATTAT
1 ATAATATATA-AATATATAT-ATATACTAT
*
806991 GATAATATATATATATATATA
1 -ATAATATATAAATATATATA
807012 AAGCAAAAGG
Statistics
Matches: 125, Mismatches: 12, Indels: 41
0.70 0.07 0.23
Matches are distributed among these distances:
23 2 0.02
24 3 0.02
25 5 0.04
26 19 0.15
27 39 0.31
28 13 0.10
29 19 0.15
30 16 0.13
31 9 0.07
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAATATATAAATATATATATATACTAT
Found at i:806888 original size:67 final size:68
Alignment explanation
Indices: 806775--806977 Score: 193
Period size: 67 Copynumber: 3.0 Consensus size: 68
806765 TAATACTAAT
* * * *
806775 ATAATAATAAAAATATATAATATAAAATAATATAATAAATATTATATAAACATAATATATAA-AT
1 ATAATAATATATATATATAATAT-AAAT-ATATAAT-AATAATATATAAATATAATATATAATAT
806839 A-A-TA
63 ATAGTA
* *
806843 ATAAATACTATATATATATAATATAAATATAGTAATAATAATATATAATATGTAA-ATATAATAT
1 AT-AATAATATATATATATAATATAAATATA-TAATAATAATATATAA-ATATAATATATAATAT
806907 ATAGTA
63 ATAGTA
* * * * *
806913 ATAATAATATATAT-TA-AATATATATACATACTATATAATATATAAATTATAATATGTACTATA
1 ATAATAATATATATATATAATATAAATATATAATA-ATAATATATAAA-TATAATATATAATATA
806976 TA
64 TA
806978 TATAATGTAT
Statistics
Matches: 113, Mismatches: 13, Indels: 18
0.78 0.09 0.12
Matches are distributed among these distances:
66 5 0.04
67 45 0.40
68 29 0.26
69 30 0.27
70 4 0.04
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (68 bp):
ATAATAATATATATATATAATATAAATATATAATAATAATATATAAATATAATATATAATATATA
GTA
Found at i:806907 original size:74 final size:72
Alignment explanation
Indices: 806755--806982 Score: 208
Period size: 74 Copynumber: 3.2 Consensus size: 72
806745 CTAGACTAAA
* * *
806755 AAAT-TAA-ATAT-AATACTAATATAATAATAAAAATATATAATATAAA-ATA-ATATAATAAAT
1 AAATATAATATATAAATAATAATA-AATACTAAATATATATAATATAAATATATA-ATAATAAAT
*
806815 AT--TATAT
64 ATAATATGT
* *
806822 AAACATAATATATAAATAATAATAAATACTATATATATATAATATAAATATAGTAATAATAATAT
1 AAATATAATATATAAATAATAATAAATACTAAATATATATAATATAAATATA-TAATAATAA-AT
806887 ATAATATGT
64 ATAATATGT
* * * *
806896 AAATATAATATATAGTAATAATAATATATATTAAATATATAT-ACAT-ACTATATAATATATAAA
1 AAATATAATATATA--AATAATAATAAATACTAAATATATATAATATAAATATATAATA-ATAAA
806959 TTATAATATGT
63 -TATAATATGT
*
806970 -ACTAT-ATATATAA
1 AAATATAATATATAA
806983 TGTATTATGA
Statistics
Matches: 135, Mismatches: 13, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
67 3 0.02
68 3 0.02
69 25 0.19
70 13 0.10
71 7 0.05
72 12 0.09
73 10 0.07
74 36 0.27
75 3 0.02
76 23 0.17
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (72 bp):
AAATATAATATATAAATAATAATAAATACTAAATATATATAATATAAATATATAATAATAAATAT
AATATGT
Found at i:806954 original size:96 final size:96
Alignment explanation
Indices: 806762--806957 Score: 235
Period size: 96 Copynumber: 2.1 Consensus size: 96
806752 AAAAAATTAA
* * *
806762 ATATAATACT-AATATAATAATAAAAATATATAATATAAAATAATATAATAAATATTATATAAAC
1 ATATAATA-TAAATATAGTAATAATAATATATAATATAAAATAATATAATAAATAGTATATAAAC
806826 ATAATATATAAATAATAATAAATACTATATAT
65 ATAATATATAAATAATAATAAATACTATATAT
** *
806858 ATATAATATAAATATAGTAATAATAATATATAATAT-GTA-AATATAATATATAGTA-ATAATA-
1 ATATAATATAAATATAGTAATAATAATATATAATATAAAATAATATAATAAATAGTATATAA-AC
*
806919 AT-ATATATTAAAT-ATATATACATACTATATAAT
65 ATAATATA-TAAATAATA-ATAAATACTATAT-AT
806952 ATATAA
1 ATATAA
806958 ATTATAATAT
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
92 8 0.09
93 23 0.26
94 23 0.26
95 2 0.02
96 32 0.36
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (96 bp):
ATATAATATAAATATAGTAATAATAATATATAATATAAAATAATATAATAAATAGTATATAAACA
TAATATATAAATAATAATAAATACTATATAT
Found at i:806989 original size:28 final size:30
Alignment explanation
Indices: 806829--807011 Score: 125
Period size: 28 Copynumber: 6.2 Consensus size: 30
806819 TATAAACATA
*
806829 ATATATAAATAATAATAA-ATACTATATAT
1 ATATATAAATTATAATAATATACTATATAT
* * *
806858 ATATAATATAAATATAGTAATAATAATATATA-
1 ATAT-ATA-AATTATAATAAT-ATACTATATAT
* *
806890 ATATGTAAA-TATAAT-ATATAGTA-ATA-
1 ATATATAAATTATAATAATATACTATATAT
*
806916 ATAATATATATTA-AATATATATACATACTATAT
1 AT-ATATAAATTATAATA-ATATAC-TA-TATAT
*
806949 AATATATAAATTATAAT-ATGTACTATATAT
1 -ATATATAAATTATAATAATATACTATATAT
** *
806979 ATA-ATGTATTATGATAATATA-TATATAT
1 ATATATAAATTATAATAATATACTATATAT
807007 ATATA
1 ATATA
807012 AAGCAAAAGG
Statistics
Matches: 122, Mismatches: 16, Indels: 32
0.72 0.09 0.19
Matches are distributed among these distances:
26 5 0.04
27 13 0.11
28 23 0.19
29 22 0.18
30 12 0.10
31 12 0.10
32 12 0.10
33 18 0.15
34 5 0.04
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (30 bp):
ATATATAAATTATAATAATATACTATATAT
Found at i:808634 original size:3 final size:3
Alignment explanation
Indices: 808626--808694 Score: 60
Period size: 3 Copynumber: 24.0 Consensus size: 3
808616 AAAATTAAAT
*
808626 ATA ATA ATA AT- ATA ATA ATA AAA ATA TATA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
808669 TATA AT- ATA AT- ATA GA-A ATA ATA ATA
1 -ATA ATA ATA ATA ATA -ATA ATA ATA ATA
808695 TATACTAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
2 11 0.20
3 37 0.67
4 7 0.13
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:808671 original size:2 final size:2
Alignment explanation
Indices: 808649--808909 Score: 162
Period size: 2 Copynumber: 141.5 Consensus size: 2
808639 AATAATAAAA
* *
808649 AT AT AT A- AT AT A- AT AT A- AT AT AT A- AT AT A- AT AT AG AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
808686 AT A- AT A- AT AT AT ACT AA AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
808726 AT AG AG AG AA AT A- AT AT AT AT -T AA AT AT CT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
808765 GT AT A- AT AT A- AT A- AT A- AT AT AT A- AT AT AT A- AGT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* *
808801 AT AT A- AT A- AT AT AT ACT AT AT AA AT AT A- AT AT AT AA AT A-
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
* *
808840 AT A- AT AT AT ACT AA AT AT AT AT AT A- AT AT AT AA AT AT A- AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
808880 AT AT AGT A- AT -T AT AT AT AT AT AT AT AT AT A
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A
808910 AAGAAAAAGG
Statistics
Matches: 206, Mismatches: 21, Indels: 64
0.71 0.07 0.22
Matches are distributed among these distances:
1 27 0.13
2 170 0.83
3 9 0.04
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (2 bp):
AT
Found at i:808727 original size:13 final size:13
Alignment explanation
Indices: 808624--808909 Score: 215
Period size: 13 Copynumber: 23.2 Consensus size: 13
808614 TAAAAATTAA
808624 ATATA-ATAATA-
1 ATATATATAATAT
*
808635 ATATA-ATAATAA
1 ATATATATAATAT
*
808647 AAATATAT-A-AT
1 ATATATATAATAT
808658 ATA-ATATAATAT
1 ATATATATAATAT
808670 ATA-ATATAATAT
1 ATATATATAATAT
*
808682 AGA-A-ATAATA-
1 ATATATATAATAT
808692 ATATATACTAAATAT
1 ATATATA-T-AATAT
808707 ATATATATAATAT
1 ATATATATAATAT
* *
808720 ATATATAT-AGAG
1 ATATATATAATAT
*
808732 AGA-A-ATAATAT
1 ATATATATAATAT
808743 ATAT-TA-AATAT
1 ATATATATAATAT
* * *
808754 CTATATATATTGT
1 ATATATATAATAT
808767 ATA-ATATAATA-
1 ATATATATAATAT
808778 ATAATATATAATAT
1 AT-ATATATAATAT
808792 ATA-AGTATAATAT
1 ATATA-TATAATAT
*
808805 AATAATATATACTAT
1 -AT-ATATATAATAT
*
808820 ATAAATATAATAT
1 ATATATATAATAT
808833 ATA-A-ATAATA-
1 ATATATATAATAT
808843 ATATATACTAA-AT
1 ATATATA-TAATAT
808856 ATATATATAATAT
1 ATATATATAATAT
*
808869 ATAAATATAATAT
1 ATATATATAATAT
*
808882 ATAGTA-ATTATAT
1 ATA-TATATAATAT
808895 ATATATAT-ATAT
1 ATATATATAATAT
808907 ATA
1 ATA
808910 AAGAAAAAGG
Statistics
Matches: 224, Mismatches: 23, Indels: 55
0.74 0.08 0.18
Matches are distributed among these distances:
10 11 0.05
11 44 0.20
12 53 0.24
13 88 0.39
14 12 0.05
15 15 0.07
16 1 0.00
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATATATAATAT
Found at i:808881 original size:49 final size:49
Alignment explanation
Indices: 808621--808909 Score: 251
Period size: 49 Copynumber: 5.8 Consensus size: 49
808611 AAATAAAAAT
*
808621 TAAATATAATAATAATATAATAATAA-AAATATATAATATA-ATATAATATA
1 TAAATATAAT-AT-ATATAATAATAATATATATA-AATATATATATAATATA
*
808671 T-AATATAATATAGA-AATAATAATATATACTAAATATATATAT-ATA-A
1 TAAATATAATATATATAATAATAATATATA-TAAATATATATATAATATA
* * * * *
808717 TATATAT-ATATAGAGAGA-AATAATATATATTAAATATCTATATATATTGTA
1 TAAATATAATATATATA-ATAATAATATATA-TAAATA--TATATATAATATA
* *
808768 TAATATAATAATAATATATAATATATAA-GTATAATATAATA-ATATATACTATA
1 TAA-AT-ATAAT-ATATATAATA-ATAATATAT-ATA-AATATATATATAATATA
808821 TAAATATAATATATA-AATAATAATATATACTAAATATATATATAATATA
1 TAAATATAATATATATAATAATAATATATA-TAAATATATATATAATATA
* *
808870 TAAATATAATATATAGTAATTAT-ATATATATATATATATA
1 TAAATATAATATATA-TAATAATAATATATATAAATATATA
808910 AAGAAAAAGG
Statistics
Matches: 200, Mismatches: 16, Indels: 47
0.76 0.06 0.18
Matches are distributed among these distances:
46 17 0.09
47 37 0.19
48 18 0.09
49 59 0.29
50 14 0.07
51 13 0.06
52 4 0.02
53 15 0.08
54 3 0.01
55 11 0.05
56 9 0.05
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.39
Consensus pattern (49 bp):
TAAATATAATATATATAATAATAATATATATAAATATATATATAATATA
Found at i:809340 original size:40 final size:39
Alignment explanation
Indices: 809296--809394 Score: 146
Period size: 39 Copynumber: 2.5 Consensus size: 39
809286 TTAAAGTTTA
809296 GTTTTTGTTTTATTTTAGTACTTCGTCATTTAAAAATTTT
1 GTTTTTGTTTTATTTTAGTAC-TCGTCATTTAAAAATTTT
* * *
809336 GTTTTTGTTTCATTTTAATACTCGTCGTTTAAAAATTTT
1 GTTTTTGTTTTATTTTAGTACTCGTCATTTAAAAATTTT
809375 GTTTTT-TTTTCATTTTAGTA
1 GTTTTTGTTTT-ATTTTAGTA
809395 TCTTTTAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 3 0.06
39 31 0.58
40 19 0.36
ACGTcount: A:0.21, C:0.08, G:0.10, T:0.61
Consensus pattern (39 bp):
GTTTTTGTTTTATTTTAGTACTCGTCATTTAAAAATTTT
Found at i:809656 original size:6 final size:6
Alignment explanation
Indices: 809645--809688 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
809635 AATAATCCTA
809645 AGGGCG AGGGCG AGGGCG AGGGCG AGGGCG AGGGCG AGGGCG AG
1 AGGGCG AGGGCG AGGGCG AGGGCG AGGGCG AGGGCG AGGGCG AG
809689 TTTGCAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.18, C:0.16, G:0.66, T:0.00
Consensus pattern (6 bp):
AGGGCG
Found at i:812440 original size:14 final size:15
Alignment explanation
Indices: 812405--812442 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
812395 ATAATATATA
812405 AAAATAATAATGTCAT
1 AAAATAATAA-GTCAT
*
812421 AGAATAATAA-TCAT
1 AAAATAATAAGTCAT
812435 AAAATAAT
1 AAAATAAT
812443 TTATAGTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 11 0.55
16 9 0.45
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAATAATAAGTCAT
Found at i:812742 original size:25 final size:26
Alignment explanation
Indices: 812685--812742 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
812675 GCTTAAACTA
* *
812685 AAAAAATTCTTTAAACTATTTTTTTC
1 AAAAAATTCATTAAACTATTTTTATC
***
812711 TTTAAATT-ATTAAACTATTTTTATC
1 AAAAAATTCATTAAACTATTTTTATC
812736 AAAAAAT
1 AAAAAAT
812743 ATCCTTAATA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (26 bp):
AAAAAATTCATTAAACTATTTTTATC
Found at i:813331 original size:29 final size:32
Alignment explanation
Indices: 813269--813331 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 32
813259 GTTTTTAAAT
* * *
813269 TTTTTAATATCGTGTTTGTGTTTGTTAATTTA
1 TTTTTAATATCGTGCTTGTATTCGTTAATTTA
813301 TTTTTAA-AT-GTGCTTGTATTCGTT-ATTTA
1 TTTTTAATATCGTGCTTGTATTCGTTAATTTA
813330 TT
1 TT
813332 ATTCAAGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 7 0.25
30 12 0.43
31 2 0.07
32 7 0.25
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (32 bp):
TTTTTAATATCGTGCTTGTATTCGTTAATTTA
Found at i:819826 original size:20 final size:20
Alignment explanation
Indices: 819789--819827 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
819779 AGATTGAGTG
* * *
819789 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
819809 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
819828 AGTTTAGGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:820038 original size:20 final size:21
Alignment explanation
Indices: 819992--820052 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
819982 TTCCCCTGTG
*
819992 GGGGGAATCAGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
820015 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
820035 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
820053 TGCATCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.51
21 2 0.06
22 3 0.09
23 12 0.34
ACGTcount: A:0.20, C:0.26, G:0.33, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:829091 original size:2 final size:2
Alignment explanation
Indices: 829084--829113 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
829074 TGATTCAATC
829084 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
829114 CATTTCTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:830300 original size:216 final size:213
Alignment explanation
Indices: 829912--830341 Score: 687
Period size: 216 Copynumber: 2.0 Consensus size: 213
829902 CTCAGGACTC
829912 AAAAACATAAAAAAAATGGTTTTTCAAAATTTGACTTTCTGGTCAAAGTCAACGGTTAAAGTCAA
1 AAAAACATAAAAAAAATGGTTTTTCAAAATTTGACTTTCTGGTCAAAGTCAACGGTTAAAGTCAA
829977 AGTCAATAGAGTGTCAATGTCAGGTCAAAGTCAATGATTCGACTCAAGGTCAATGGGTCAGACCG
66 AGTCAATAGAGTGTCAATGTCAGGTCAAAGTCAATGATTCGACTCAAGGTCAATGGGTCAGACCG
830042 TTTTGGGTGACTAAGAATGACTCGGTTCGTCTAAGTTGACTCAGACCGTTCGAG-TGACTTTAAC
131 TTTTGGGTGACTAAGAATGACTCGGTTCGTCTAAGTTGACTCAGACCGTTCGAGTTGACTTTAAC
830106 CAGTTATAAACAAGCTCTA
196 CAGTTAT-AACAAGCTCTA
*
830125 AAAAACAT-TAAAAAATGG-TTTTCAAAAATTTTGACTTTCT-GTCAAAGTCAACGGTTAAAGTC
1 AAAAACATAAAAAAAATGGTTTTTC-AAAA-TTTGACTTTCTGGTCAAAGTCAACGGTTAAAGTC
*
830187 AAAGTCAATATA-TGTCAATATCATTGTCAGGTC-AAGTCAATGATTCGACTCAAGGTCAATGGG
64 AAAGTCAATAGAGTGTC---A--A-TGTCAGGTCAAAGTCAATGATTCGACTCAAGGTCAATGGG
830250 TCAGACCGTTTTGGGTTGACTAAGAATGACTCGGTTCGGTC-AAG-TGACTCAGACCGTTCGAGT
123 TCAGACCGTTTTGGG-TGACTAAGAATGACTCGGTTC-GTCTAAGTTGACTCAGACCGTTCGAGT
830313 TGACTTTAACCAGTTATAACAAGCTCTA
186 TGACTTTAACCAGTTATAACAAGCTCTA
830341 A
1 A
830342 GACCGAGAGA
Statistics
Matches: 204, Mismatches: 2, Indels: 19
0.91 0.01 0.08
Matches are distributed among these distances:
211 9 0.04
212 46 0.23
213 19 0.09
214 1 0.00
216 76 0.37
217 50 0.25
218 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (213 bp):
AAAAACATAAAAAAAATGGTTTTTCAAAATTTGACTTTCTGGTCAAAGTCAACGGTTAAAGTCAA
AGTCAATAGAGTGTCAATGTCAGGTCAAAGTCAATGATTCGACTCAAGGTCAATGGGTCAGACCG
TTTTGGGTGACTAAGAATGACTCGGTTCGTCTAAGTTGACTCAGACCGTTCGAGTTGACTTTAAC
CAGTTATAACAAGCTCTA
Found at i:830857 original size:19 final size:19
Alignment explanation
Indices: 830829--830884 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
830819 TGACTTTTTT
*
830829 GTCAATGTCAACGGTCAAA
1 GTCAAAGTCAACGGTCAAA
*
830848 GTCAAAGTCAACGG--ATAG
1 GTCAAAGTCAACGGTCA-AA
830866 GTCAAAGGTCAACGGTCAA
1 GTCAAA-GTCAACGGTCAA
830885 TGGTCAGGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 1 0.03
18 7 0.23
19 21 0.68
20 1 0.03
21 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.18
Consensus pattern (19 bp):
GTCAAAGTCAACGGTCAAA
Found at i:831320 original size:690 final size:674
Alignment explanation
Indices: 830212--831458 Score: 1726
Period size: 689 Copynumber: 1.8 Consensus size: 674
830202 CAATATCATT
* * * ** *
830212 GTCAGGTCAAGTCAATGATTCGACTCAAGGTCAATGGGTCAGACCGTTTTGGGTTGACTAAGAAT
1 GTCAGGTCAAGTCAATGATTCGACTAAAGGTAAATGGGTCAGACAGTTTCAGGTTAACTAAGAAT
* * *
830277 GACTCGGTTCGGTCAAGTGACTCAGACCGTTCGAGTTGACTTTAACCAGTTATAACAAGCTCTAA
66 GACTCGGTTCGATCAAGTGACTCAGACCGTTCGAGTTGACTCTAACCAGTTATAACAAGCTCCAA
*
830342 GACCGAGAGAAGCCCCACGCACACTGCCGATGCATGGCAACGCATGTGCGGCGCGGGGCCATTTT
131 GACCGAGAGAAGCCCCACG-ACACTGCCGATGCATGGCAACGCATGTGCGGCGCGAGGCCATTTT
* * *
830407 GAAGGGCACCCTAACCTAAACGACTAGGGCATGGGACCTTCCGAGGACAAGGGCTCAATCCCTGC
195 GAACGGCACCCTAACCTAAACAACTAGGGCATGGGACCTTCCGAGGACAAGGGCTCAACCCCTGC
830472 ACCACCAACTCCATTTGTTTTTATTTTTTCCTGTCGACAGAAAATGAGGAAATTCGAGGATAGTC
260 ACCACCAACTCCATTTGTTTTTATTTTTTCCTGTCGACAGAAAATGAGGAAATTCGAGGATAGTC
* * **
830537 CCTAAAATTTTACAATTTGGTCCCTAATTTCATTTTTTTTTATCTAAAATTAGGGTGTGACAATA
325 CCTAAAATTTTACAATTTAGTCCATAATTTCATTAATTTTTATCTAAAATTAGGGTGTGACAATA
830602 CGAGGTTCCTTTAATCTCGCTTCGAAAGGGGTGCAAGGACT-C-TAAATAGGGACCCTCAACCAA
390 CGAGGTTCCTTTAATCTCGCTTCGAAAGGGGTGCAAGGACTCCATAAATAGGGACCCTCAACCAA
*
830665 AGTCATCACACCTTACTCTACAAATACTCGCTCT-TTTTATTTCTTTCTCGTATCTATTCCATTA
455 AGTCATCACACC-TACTCCACAAATA-TCGCTCTCTTTTATTT-TTTCT--TATCTATTCCATTA
830729 TTCGGTTATTAAGAC-GGATTA-TCGAGGC-TGATCAAAGACGGGATCGGACTCAGGACATCAAA
515 TTCGGTTATTAAGACGGGATTACT-GAGGCTTGATCAAAGACGGGATCGGACTCAGGACATCAAA
830791 AAACTAAAATGTGACCTTTTAGAAATTTTGACTTTTTTGTCAATGTCAACGGTCAAAGTCAAAGT
579 AAACTAAAATGTGACCTTTTAGAAATTTTGACTTTTTTGTCAATGTCAACGGTCAAAGTCAAAGT
830856 CAACGGATAGGTCAAAGGTCAACGGTCAATG
644 CAACGGATAGGTCAAAGGTCAACGGTCAATG
* *
830887 GTCAGGTCAAAAGTTAATGATTCGATTAAAGGTAAATGGGTCAGAGCAG-TTCAGGTTAACTAAG
1 GTCAGGTC--AAGTCAATGATTCGACTAAAGGTAAATGGGTCAGA-CAGTTTCAGGTTAACTAAG
* * * * ** *
830951 GATGACTCGGTTCGATCTAAGTTGACTCAGATCGTTCGAGTTGACTCTAGCCAGTTCTAGGAAGT
63 AATGACTCGGTTCGATC-AAG-TGACTCAGACCGTTCGAGTTGACTCTAACCAGTTATAACAAGC
* * *
831016 TCCAAGACCGGGGATGAA-CCCACACG-CACTGCCG-TGCATGGCAGCGCGTGTGGCGGCGACAG
126 TCCAAGACC-GAGA-GAAGCCC-CACGACACTGCCGATGCATGGCAACGCATGT-GCGGCG-C-G
* * * *
831078 AGGCCATTTTGAACGGTACCCTAACCTAAATAACTAGGGCATGGATGACCTTCCCAGGGGACAGG
185 AGGCCATTTTGAACGGCACCCTAACCTAAACAACTAGGGCATGG--GACCTT-CC-GAGGACAAG
* * * * *
831143 GGTTCAAACCCCTGCAGCCACCAACTCCATTTGTTTTTATTTTTTTTCTGTCGATATAAAATGGG
246 GGCTC-AACCCCTGCA-CCACCAACTCCATTTGTTTTTA-TTTTTTCCTGTCGACAGAAAATGAG
*
831208 GAAATTC-AGGGATAGGTCCCTGAAAA-TTTACAATTTAGTCCATATTTTCATTAATTTTTATCT
308 GAAATTCGA-GGATA-GTCCCT-AAAATTTTACAATTTAGTCCATAATTTCATTAATTTTTATCT
* *
831271 AAAATTAGGGCTGTGACAATGCGAGGTTCCTTTAATCTCGCTTCGAAAGGGGTGCGAGGACTCCT
370 AAAATTAGGG-TGTGACAATACGAGGTTCCTTTAATCTCGCTTCGAAAGGGGTGCAAGGACTCC-
* * *
831336 ATAAATAGGGACTCTCAACCAAAGTCATCACACCTACTCCACAAATATCTCTCTCTTTTGTTTTT
433 ATAAATAGGGACCCTCAACCAAAGTCATCACACCTACTCCACAAATATCGCTCTCTTTTATTTTT
*
831401 TCTTATCTATTCCATTATTTGGTTATTAAGACGGGATTACTGAGGCTTGATCAAAGAC
498 TCTTATCTATTCCATTATTCGGTTATTAAGACGGGATTACTGAGGCTTGATCAAAGAC
831459 ATGTATTTGA
Statistics
Matches: 497, Mismatches: 46, Indels: 42
0.85 0.08 0.07
Matches are distributed among these distances:
675 8 0.02
677 58 0.12
678 20 0.04
679 58 0.12
680 7 0.01
681 47 0.09
683 6 0.01
684 2 0.00
685 11 0.02
686 9 0.02
687 23 0.05
688 33 0.07
689 76 0.15
690 64 0.13
691 24 0.05
692 19 0.04
693 32 0.06
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (674 bp):
GTCAGGTCAAGTCAATGATTCGACTAAAGGTAAATGGGTCAGACAGTTTCAGGTTAACTAAGAAT
GACTCGGTTCGATCAAGTGACTCAGACCGTTCGAGTTGACTCTAACCAGTTATAACAAGCTCCAA
GACCGAGAGAAGCCCCACGACACTGCCGATGCATGGCAACGCATGTGCGGCGCGAGGCCATTTTG
AACGGCACCCTAACCTAAACAACTAGGGCATGGGACCTTCCGAGGACAAGGGCTCAACCCCTGCA
CCACCAACTCCATTTGTTTTTATTTTTTCCTGTCGACAGAAAATGAGGAAATTCGAGGATAGTCC
CTAAAATTTTACAATTTAGTCCATAATTTCATTAATTTTTATCTAAAATTAGGGTGTGACAATAC
GAGGTTCCTTTAATCTCGCTTCGAAAGGGGTGCAAGGACTCCATAAATAGGGACCCTCAACCAAA
GTCATCACACCTACTCCACAAATATCGCTCTCTTTTATTTTTTCTTATCTATTCCATTATTCGGT
TATTAAGACGGGATTACTGAGGCTTGATCAAAGACGGGATCGGACTCAGGACATCAAAAAACTAA
AATGTGACCTTTTAGAAATTTTGACTTTTTTGTCAATGTCAACGGTCAAAGTCAAAGTCAACGGA
TAGGTCAAAGGTCAACGGTCAATG
Found at i:831500 original size:4 final size:4
Alignment explanation
Indices: 831491--831537 Score: 60
Period size: 4 Copynumber: 11.2 Consensus size: 4
831481 AACCCGAATA
831491 TATT TATT TATTT TATT TATT TGA-T TATT TATTT TATT TATT TATT T
1 TATT TATT TA-TT TATT TATT T-ATT TATT TA-TT TATT TATT TATT T
831538 GAAAGGGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 1 0.03
4 29 0.74
5 9 0.23
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:831507 original size:9 final size:9
Alignment explanation
Indices: 831493--831537 Score: 56
Period size: 9 Copynumber: 4.8 Consensus size: 9
831483 CCCGAATATA
831493 TTTATTTAT
1 TTTATTTAT
831502 TTTATTTATT
1 TTTATTTA-T
831512 TGATTATTTAT
1 T--TTATTTAT
831523 TTTATTTA-
1 TTTATTTAT
831531 TTTATTT
1 TTTATTT
831538 GAAAGGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 7 0.21
9 15 0.45
10 2 0.06
11 2 0.06
12 7 0.21
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:831518 original size:21 final size:21
Alignment explanation
Indices: 831494--831533 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
831484 CCGAATATAT
831494 TTATTTATTTTATTTATTTGA
1 TTATTTATTTTATTTATTTGA
831515 TTATTTATTTTATTTATTT
1 TTATTTATTTTATTTATTT
831534 ATTTGAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (21 bp):
TTATTTATTTTATTTATTTGA
Found at i:831519 original size:25 final size:25
Alignment explanation
Indices: 831491--831539 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
831481 AACCCGAATA
831491 TATTTA-TTTATTTTATTTATTTGAT
1 TATTTATTTTA-TTTATTTATTTGAT
831516 TATTTATTTTATTTATTTATTTGA
1 TATTTATTTTATTTATTTATTTGA
831540 AAGGGTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (25 bp):
TATTTATTTTATTTATTTATTTGAT
Found at i:831520 original size:12 final size:13
Alignment explanation
Indices: 831491--831539 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
831481 AACCCGAATA
831491 TATTTATTT-ATTT
1 TATTTATTTGA-TT
831504 TATTTATTTGA-T
1 TATTTATTTGATT
*
831516 TATTTATTTTATT
1 TATTTATTTGATT
831529 TATTTATTTGA
1 TATTTATTTGA
831540 AAGGGTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 11 0.34
13 20 0.62
14 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (13 bp):
TATTTATTTGATT
Found at i:831993 original size:14 final size:15
Alignment explanation
Indices: 831976--832010 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
831966 ATTGTAAATG
831976 TTTTATGATAATTTT
1 TTTTATGATAATTTT
*
831991 TTTATATGATTATTTT
1 TTT-TATGATAATTTT
832007 TTTT
1 TTTT
832011 TTGCATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
TTTTATGATAATTTT
Found at i:832000 original size:16 final size:16
Alignment explanation
Indices: 831979--832009 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
831969 GTAAATGTTT
831979 TATGATAATTTTTTTA
1 TATGATAATTTTTTTA
*
831995 TATGATTATTTTTTT
1 TATGATAATTTTTTT
832010 TTTGCATCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TATGATAATTTTTTTA
Found at i:833762 original size:41 final size:41
Alignment explanation
Indices: 833705--833786 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
833695 ATAATTTCGT
833705 CTCCACACTTTTATAATACTTACATATATATATTAGTATTA
1 CTCCACACTTTTATAATACTTACATATATATATTAGTATTA
*
833746 CTCCACACTTTTATAATATTTACATATATATATTAGTATTA
1 CTCCACACTTTTATAATACTTACATATATATATTAGTATTA
833787 ATTTTATTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.45
Consensus pattern (41 bp):
CTCCACACTTTTATAATACTTACATATATATATTAGTATTA
Found at i:835036 original size:132 final size:133
Alignment explanation
Indices: 834784--835051 Score: 486
Period size: 132 Copynumber: 2.0 Consensus size: 133
834774 TTCAAGAAGC
834784 GAGAGATTTGCGTTTTGGTTCTCCAGTTTCAAAAACATTTAATTTGGTCCTCTGAATCGATTATT
1 GAGAGATTTGCGTTTTGGTTCTCCAGTTTCAAAAACATTTAATTTGGTCCTC---ATCGATTATT
834849 GACCCGAAATCCTTGTAAATTGACCCTCGAGTTTACTTCGTTTTCAATTTAGTCCCTACTATTAT
63 GACCCGAAATCCTTGTAAATTGACCCTCGAGTTTACTTCGTTTTCAATTTAGTCCCTACTATTAT
834914 TATATA
128 TATATA
834920 GAGAGATTTGCGTTTTGGTTCTCCAGTTTCAAAAACATTTAATTTGGTCCTC-T-GATTATTGAA
1 GAGAGATTTGCGTTTTGGTTCTCCAGTTTCAAAAACATTTAATTTGGTCCTCATCGATTATTG-A
834983 CCCGAAATCCTTGTAAATTGACCCTCGAGTTTACTTCGTTTTCAATTTAGTCCCTACTATTATTA
65 CCCGAAATCCTTGTAAATTGACCCTCGAGTTTACTTCGTTTTCAATTTAGTCCCTACTATTATTA
835048 TATA
130 TATA
835052 CTATTTTCAT
Statistics
Matches: 131, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
131 8 0.06
132 71 0.54
136 52 0.40
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (133 bp):
GAGAGATTTGCGTTTTGGTTCTCCAGTTTCAAAAACATTTAATTTGGTCCTCATCGATTATTGAC
CCGAAATCCTTGTAAATTGACCCTCGAGTTTACTTCGTTTTCAATTTAGTCCCTACTATTATTAT
ATA
Found at i:835065 original size:19 final size:17
Alignment explanation
Indices: 835041--835075 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
835031 AGTCCCTACT
835041 ATTATTATATACTATTTTC
1 ATTATTAT-TA-TATTTTC
835060 ATTATTATTATATTTT
1 ATTATTATTATATTTT
835076 ATTCCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTATTATTATATTTTC
Found at i:836711 original size:10 final size:10
Alignment explanation
Indices: 836696--836729 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
836686 TTCATTTACC
836696 ATTTATTTTT
1 ATTTATTTTT
836706 ATTTATTTTT
1 ATTTATTTTT
* *
836716 ATCTATTTCT
1 ATTTATTTTT
836726 ATTT
1 ATTT
836730 TACTAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:846386 original size:14 final size:14
Alignment explanation
Indices: 846367--846398 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
846357 ACCCTAAATT
846367 GAAAAAGAAAAAGA
1 GAAAAAGAAAAAGA
*
846381 GAAAAAGAAGAAGA
1 GAAAAAGAAAAAGA
846395 GAAA
1 GAAA
846399 TAAGGGGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
GAAAAAGAAAAAGA
Found at i:847304 original size:105 final size:105
Alignment explanation
Indices: 847122--847694 Score: 957
Period size: 105 Copynumber: 5.4 Consensus size: 105
847112 AGGTTTTACC
*
847122 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
847187 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAAATT
*
847227 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
847292 ACGAAGGGACCGCTGGTTGTCAACAAACACTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAAATT
* *
847332 CAGAGCCAATTTCAACTTCACAATGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
847397 GCGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAAATT
*
847437 CAAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 C-AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* *
847502 GGCGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTT
65 GACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAAATT
* *
847543 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
847608 ACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAAATT
66 ACGAAGGGACCGCTGGTTGTCAATAAA-CATTTCCCAAATT
*
847649 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
847695 GTATAAGTTC
Statistics
Matches: 447, Mismatches: 19, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
105 291 0.65
106 156 0.35
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAAATT
Found at i:847547 original size:211 final size:210
Alignment explanation
Indices: 847122--847694 Score: 957
Period size: 211 Copynumber: 2.7 Consensus size: 210
847112 AGGTTTTACC
*
847122 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
847187 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACG
66 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAAATTCAGAGCCAATTTCAACTTCACAACG
*
847252 AAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
*
847317 AACACTTCTCAAATT
196 AACACTTCCCAAATT
* *
847332 CAGAGCCAATTTCAACTTCACAATGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
847397 GCGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAGC
66 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAAATTC-AGAGCCAATTTCAACTTCACAAC
* *
847462 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCGCTGGTTGTCAAT
130 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
* *
847527 AAACATTTCCCAATTT
195 AAACACTTCCCAAATT
* *
847543 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
847608 ACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAAATTCAGAGCCAATTTCAACTTCACAAC
66 ACGAAGGGACCGCTGGTTGTCAATAAA-CATTTCCCAAATTCAGAGCCAATTTCAACTTCACAAC
*
847673 GAAGGATATTGGACTCAAGACA
130 GAAGGATATTGGACTCCAGACA
847695 GTATAAGTTC
Statistics
Matches: 337, Mismatches: 24, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
210 99 0.29
211 227 0.67
212 11 0.03
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (210 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAAATTCAGAGCCAATTTCAACTTCACAACG
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
AACACTTCCCAAATT
Found at i:848152 original size:41 final size:41
Alignment explanation
Indices: 848095--848176 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
848085 ATAATTTCGT
848095 CTCCACACTTTTATAATACTTACATATATATATTAGTATTA
1 CTCCACACTTTTATAATACTTACATATATATATTAGTATTA
*
848136 CTCCACACTTTTATAATATTTACATATATATATTAGTATTA
1 CTCCACACTTTTATAATACTTACATATATATATTAGTATTA
848177 ATTTTATTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.45
Consensus pattern (41 bp):
CTCCACACTTTTATAATACTTACATATATATATTAGTATTA
Found at i:849449 original size:137 final size:137
Alignment explanation
Indices: 849203--849476 Score: 548
Period size: 137 Copynumber: 2.0 Consensus size: 137
849193 TTCAAGAAGC
849203 GAGAGATTTGCGTTTTGGTTCTCCAGTTTCAAAAACATTTAATTTGGTCCTCTGAATCGATTATT
1 GAGAGATTTGCGTTTTGGTTCTCCAGTTTCAAAAACATTTAATTTGGTCCTCTGAATCGATTATT
849268 GAACCCGAAATCCTTGTAAATTGACCCTCGAGTTTACTTCGTTTTCAATTTAGTCCCTACTATTA
66 GAACCCGAAATCCTTGTAAATTGACCCTCGAGTTTACTTCGTTTTCAATTTAGTCCCTACTATTA
849333 TTATATA
131 TTATATA
849340 GAGAGATTTGCGTTTTGGTTCTCCAGTTTCAAAAACATTTAATTTGGTCCTCTGAATCGATTATT
1 GAGAGATTTGCGTTTTGGTTCTCCAGTTTCAAAAACATTTAATTTGGTCCTCTGAATCGATTATT
849405 GAACCCGAAATCCTTGTAAATTGACCCTCGAGTTTACTTCGTTTTCAATTTAGTCCCTACTATTA
66 GAACCCGAAATCCTTGTAAATTGACCCTCGAGTTTACTTCGTTTTCAATTTAGTCCCTACTATTA
849470 TTATATA
131 TTATATA
849477 CTATATTTTC
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (137 bp):
GAGAGATTTGCGTTTTGGTTCTCCAGTTTCAAAAACATTTAATTTGGTCCTCTGAATCGATTATT
GAACCCGAAATCCTTGTAAATTGACCCTCGAGTTTACTTCGTTTTCAATTTAGTCCCTACTATTA
TTATATA
Found at i:849858 original size:17 final size:17
Alignment explanation
Indices: 849814--849870 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
849804 TATACGTACA
*
849814 TATTTGATTATAGTTATT
1 TATTT-ATTTTAGTTATT
849832 TATTTATTTTAGTT-TT
1 TATTTATTTTAGTTATT
* *
849848 TTTTTAGTTT--TTATT
1 TATTTATTTTAGTTATT
849863 TATTTATT
1 TATTTATT
849871 ACTATATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 2 0.06
15 8 0.24
16 10 0.30
17 8 0.24
18 5 0.15
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (17 bp):
TATTTATTTTAGTTATT
Found at i:860631 original size:12 final size:11
Alignment explanation
Indices: 860588--860633 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
860578 ATTGAGGTAC
860588 TTCATTTTGCA
1 TTCATTTTGCA
* * *
860599 CTCATTCTACA
1 TTCATTTTGCA
860610 TTCATTTTGCA
1 TTCATTTTGCA
860621 TTCATTTTTGCA
1 TTCA-TTTTGCA
860633 T
1 T
860634 AACATAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
11 20 0.71
12 8 0.29
ACGTcount: A:0.20, C:0.22, G:0.07, T:0.52
Consensus pattern (11 bp):
TTCATTTTGCA
Found at i:867533 original size:15 final size:15
Alignment explanation
Indices: 867506--867581 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 15
867496 TGACTCGAAT
*
867506 ATTA-ATATTTTATA
1 ATTATATATATTATA
867520 ATTATATATATTATA
1 ATTATATATATTATA
* *
867535 A-TA-ATATTTTATT
1 ATTATATATATTATA
* *
867548 TTTAT-TATATTTTAA
1 ATTATATATATTAT-A
*
867563 ATTATTAAATATTATA
1 ATTA-TATATATTATA
867579 ATT
1 ATT
867582 TTTATATTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
13 8 0.17
14 14 0.30
15 13 0.28
16 5 0.11
17 6 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTATATATATTATA
Found at i:867541 original size:13 final size:14
Alignment explanation
Indices: 867506--867546 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
867496 TGACTCGAAT
867506 ATTAATATTTTATA
1 ATTAATATTTTATA
*
867520 ATTATATATATTATA
1 ATTA-ATATTTTATA
867535 A-TAATATTTTAT
1 ATTAATATTTTAT
867547 TTTTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 6 0.25
15 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTAATATTTTATA
Found at i:867615 original size:21 final size:22
Alignment explanation
Indices: 867584--867628 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
867574 TTATAATTTT
867584 TATATTTTTAATAAT-TAAAGAA
1 TATATTTTTAATAATATAAA-AA
867606 TATA-TTTTAATAATATAAAAA
1 TATATTTTTAATAATATAAAAA
867627 TA
1 TA
867629 AAAATCCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATTTTTAATAATATAAAAA
Found at i:872036 original size:35 final size:34
Alignment explanation
Indices: 871971--872051 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 34
871961 ATTCTTAGGA
* *
871971 AACTTTTTGTTCCATCAAACCGTTATTTCTCATG
1 AACTTTTTGTTCCATCAAACCGTAAATTCTCATG
* *
872005 AACTTTCTTTTTCCATCAAACC-TAACATTCTCAAG
1 AACTTT-TTGTTCCATCAAACCGTAA-ATTCTCATG
*
872040 AAACTTATTGTT
1 -AACTTTTTGTT
872052 ATTAAAAAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
34 8 0.21
35 25 0.66
36 5 0.13
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.42
Consensus pattern (34 bp):
AACTTTTTGTTCCATCAAACCGTAAATTCTCATG
Found at i:873174 original size:201 final size:199
Alignment explanation
Indices: 872824--873357 Score: 504
Period size: 201 Copynumber: 2.7 Consensus size: 199
872814 TTGGTTTTGA
* * * * * ** * * *
872824 AATTTTTTACACCGCTTACAATGTTTCTTATGTGTTGATACTAGCATCAATTGAAACATAAGTAT
1 AATTTTTGACA-CGCTTACAATATCTCGTATGAGCCGATACTAGCCTCAATTGAAAGATAAATAT
* * * * *
872889 CAATACTATGCCTATAATCTTATAAATTACGAAAATTATTAGATTAATTTCCCGAAAATACTCCT
65 CAATATTATGCCTCTAATCTTATAAATTACGAAAATTATCAGATTAACTACCCGAAAATACTCCT
* * * *
872954 CGAACATACCTAACAAACCATTTTAGTTTATTTTTCATGCACTAAACAAAGTTTTAGAACCATTT
130 CGAACATACATAACAAACCATTTTAGTTTATTTTTCATGCACAAAACAAACTTTGA-AACCATTT
*
873019 TGAACGC
194 T-AACAC
* * * * *
873026 GATTTTT-ACCCCGCTTATAATGTCTCGTATGAGCCGATATTA-CCTTCAATTGAAAGATAAATA
1 AATTTTTGA-CACGCTTACAATATCTCGTATGAGCCGATACTAGCC-TCAATTGAAAGATAAATA
* * *
873089 TCAATATTATGCCTCTAATCTTATAAATTATGAAAAATT-TCAGATTAACTACTCGGAAATAC-C
64 TCAATATTATGCCTCTAATCTTATAAATTACG-AAAATTATCAGATTAACTACCCGAAAATACTC
* * * * * *
873152 ACTCGGATATGCATATCAAACCATTTTAGTTTTTTTTTCATGCACAAAACAACCTTTGAAACCAT
128 -CTCGAACATACATAACAAACCATTTTAGTTTATTTTTCATGCACAAAACAAACTTTGAAACCAT
*
873217 TTTCACAC
192 TTTAACAC
* * * * * *
873225 AATTTTTGACATGCTTACAATATCTTGTATGTGTCGATACTAGCCTCAACTAAAAGATAAAT-TC
1 AATTTTTGACACGCTTACAATATCTCGTATGAGCCGATACTAGCCTCAATTGAAAGATAAATAT-
* * * * * * * *
873289 CAATATTACGCCTCTAATTTTATAAATTGCG-AAATTTTGTATATTAACAACCCGAAAATACCCC
65 CAATATTATGCCTCTAATCTTATAAATTACGAAAATTAT-CAGATTAACTACCCGAAAATACTCC
873353 TCGAA
129 TCGAA
873358 AGTGCCTATA
Statistics
Matches: 269, Mismatches: 53, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
197 5 0.02
198 2 0.01
199 98 0.36
200 15 0.06
201 136 0.51
202 13 0.05
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (199 bp):
AATTTTTGACACGCTTACAATATCTCGTATGAGCCGATACTAGCCTCAATTGAAAGATAAATATC
AATATTATGCCTCTAATCTTATAAATTACGAAAATTATCAGATTAACTACCCGAAAATACTCCTC
GAACATACATAACAAACCATTTTAGTTTATTTTTCATGCACAAAACAAACTTTGAAACCATTTTA
ACAC
Found at i:874924 original size:35 final size:35
Alignment explanation
Indices: 874859--874927 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
874849 CCTTAGGTCC
* *
874859 ATAAGGAATTACCAGCTTGATCGATCTGAACCTAT
1 ATAAGGAATTACCAACTTGACCGATCTGAACCTAT
*
874894 ATAAGGAATTACCAATTTGACCGAGT-TGAACCTA
1 ATAAGGAATTACCAACTTGACCGA-TCTGAACCTA
874928 CAGAGAGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (35 bp):
ATAAGGAATTACCAACTTGACCGATCTGAACCTAT
Found at i:876900 original size:4 final size:4
Alignment explanation
Indices: 876887--876924 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
876877 TATTAGTTAA
*
876887 AAAT -AAT AAAT AAAT AAAT AAAT AAAAT AGAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AA
876925 GTATCAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:887678 original size:12 final size:12
Alignment explanation
Indices: 887661--887710 Score: 91
Period size: 12 Copynumber: 4.2 Consensus size: 12
887651 CTAGGAGTCA
887661 GTATGTGCGAAT
1 GTATGTGCGAAT
887673 GTATGTGCGAAT
1 GTATGTGCGAAT
*
887685 GTATGTGCAAAT
1 GTATGTGCGAAT
887697 GTATGTGCGAAT
1 GTATGTGCGAAT
887709 GT
1 GT
887711 GGATTGAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.26, C:0.08, G:0.32, T:0.34
Consensus pattern (12 bp):
GTATGTGCGAAT
Found at i:892849 original size:185 final size:183
Alignment explanation
Indices: 892532--892901 Score: 605
Period size: 185 Copynumber: 2.0 Consensus size: 183
892522 AACCGAAATT
* * ** *
892532 AAATTTTAAATATATTATATATAACATATGGGCTCCGCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
892597 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
* *
892662 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAAC--TTTTTTGAATTAAA
*
892717 AAATATTAAATATATTATATATAACATATGAGCTAAGCTCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
* * * * *
892782 TTTAAGATTCAATAACTTTTAAACCTAAATTAATATTAATTAATTAAAAAATTTATCTGAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
892847 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTGAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTGAATTAAA
892900 AA
1 AA
892902 CATTTAATTT
Statistics
Matches: 172, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
183 15 0.09
185 157 0.91
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.42
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTGAATTAAA
Found at i:892898 original size:21 final size:20
Alignment explanation
Indices: 892855--892898 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
892845 TTTTATTTTA
*
892855 TAATTATATATTATTTAAAT
1 TAATTATAAATTATTTAAAT
* *
892875 TAATTATAAACTTTTTTGAAT
1 TAATTATAAA-TTATTTAAAT
892896 TAA
1 TAA
892899 AAACATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TAATTATAAATTATTTAAAT
Found at i:902602 original size:36 final size:36
Alignment explanation
Indices: 902540--902662 Score: 140
Period size: 36 Copynumber: 3.4 Consensus size: 36
902530 TGGCAACCAA
902540 CTTTGAAAATATGATTTTAAAAGTTTGGTAAATGTTT
1 CTTTGAAAA-ATGATTTTAAAAGTTTGGTAAATGTTT
* * * *
902577 TTTTTAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGATTTTAAAAGTTTGGTAAATGTTT
* * * *
902613 CTTTGAAAAATAGTTTTTTAAAGTTTGATAGATGTTT
1 CTTTGAAAAAT-GATTTTAAAAGTTTGGTAAATGTTT
*
902650 -GTTGAAAAATGAT
1 CTTTGAAAAATGAT
902663 AATGAAATCA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
35 2 0.03
36 43 0.59
37 28 0.38
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.46
Consensus pattern (36 bp):
CTTTGAAAAATGATTTTAAAAGTTTGGTAAATGTTT
Found at i:907163 original size:21 final size:20
Alignment explanation
Indices: 907139--907203 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
907129 AACTTTGAAA
907139 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
* *
907160 AAATGTTTT-----TTTTGA
1 AAATGTTTTCAAAGTTTGGT
907175 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
907196 AAATGTTT
1 AAATGTTT
907204 CTTTGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
15 8 0.24
16 5 0.15
20 8 0.24
21 13 0.38
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:907246 original size:36 final size:35
Alignment explanation
Indices: 907132--907251 Score: 143
Period size: 36 Copynumber: 3.3 Consensus size: 35
907122 GACAACCAAC
907132 TTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTTTT
1 TTTG-AAAAATGATTTTCAAAGTTTGGTAAATG--TTT
*
907170 TTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 TTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* * *
907204 CTTTGAAAAATAGTTTTTCAAAGTTTGATAGATGTTT
1 -TTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTT
*
907241 GTTGAAAAATG
1 TTTGAAAAATG
907252 GTAATGGGAT
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
34 3 0.04
35 5 0.07
36 40 0.54
37 22 0.30
38 4 0.05
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.45
Consensus pattern (35 bp):
TTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:911057 original size:26 final size:25
Alignment explanation
Indices: 910998--911060 Score: 99
Period size: 25 Copynumber: 2.4 Consensus size: 25
910988 TAGGATGAAT
910998 ATAAAAATTTATGTTGAGGTACAAAC
1 ATAAAAA-TTATGTTGAGGTACAAAC
*
911024 ATAAAAATTATGTTGAGGTACGAAC
1 ATAAAAATTATGTTGAGGTACAAAC
911049 ATAACAAATTAT
1 ATAA-AAATTAT
911061 ATTAAAATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 21 0.60
26 14 0.40
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (25 bp):
ATAAAAATTATGTTGAGGTACAAAC
Found at i:916001 original size:46 final size:45
Alignment explanation
Indices: 915918--916004 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 45
915908 TATAACAAAT
* *
915918 ATTTCATGTTCTTTTCATTTGTATATATTTCAAAACTTTCATTTC
1 ATTTCATATTCTTTTCATTTGTAGATATTTCAAAACTTTCATTTC
*
915963 ATTTCCATATTCTTTTC-TTT-TAGATACTTGTCATAACTTTCA
1 ATTT-CATATTCTTTTCATTTGTAGATA-TT-TCAAAACTTTCA
916005 CATTTACTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 5 0.14
45 9 0.25
46 22 0.61
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.54
Consensus pattern (45 bp):
ATTTCATATTCTTTTCATTTGTAGATATTTCAAAACTTTCATTTC
Found at i:922063 original size:24 final size:24
Alignment explanation
Indices: 922027--922233 Score: 163
Period size: 24 Copynumber: 8.5 Consensus size: 24
922017 TTTAAATATT
922027 TAAT-ATTATTAAATCATTATTAG
1 TAATAATTATTAAATCATTATTAG
922050 TAATAATTATTAAATCATTATTAG
1 TAATAATTATTAAATCATTATTAG
* *
922074 TAATTATTA-TAATTTCATTATTAG
1 TAATAATTATTAA-ATCATTATTAG
* *
922098 TAATCATTATTAAATCATTAGTA-
1 TAATAATTATTAAATCATTATTAG
* * * *
922121 TCA-AATCATTAAAT-ATTAATAA
1 TAATAATTATTAAATCATTATTAG
* * *
922143 TAAAATATTATTAGTAATCATTACTAAA
1 TAATA-ATTATTA--AATCATTA-TTAG
* * *
922171 TCATTAAATATTAAATCATTAAATTAA
1 T-AATAATTATTAAATCATT--ATTAG
*
922198 TAATAATTAATAAATCATTATTAG
1 TAATAATTATTAAATCATTATTAG
*
922222 TAATCATTATTA
1 TAATAATTATTA
922234 CTAATCATAT
Statistics
Matches: 148, Mismatches: 23, Indels: 25
0.76 0.12 0.13
Matches are distributed among these distances:
21 6 0.04
22 11 0.07
23 10 0.07
24 73 0.49
25 3 0.02
26 25 0.17
27 8 0.05
28 10 0.07
29 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (24 bp):
TAATAATTATTAAATCATTATTAG
Found at i:922422 original size:21 final size:22
Alignment explanation
Indices: 922367--922425 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
922357 ATTGAAAAAC
922367 AATGA-TATCGATACTATAGAA
1 AATGAGTATCGATACTATAGAA
* * *
922388 AATGAGTATAGATACTATATAG
1 AATGAGTATCGATACTATAGAA
*
922410 AGT-AGTATCGATACTA
1 AATGAGTATCGATACTA
922426 CATTATGGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (22 bp):
AATGAGTATCGATACTATAGAA
Found at i:922554 original size:22 final size:21
Alignment explanation
Indices: 922523--922622 Score: 66
Period size: 22 Copynumber: 4.6 Consensus size: 21
922513 GAATCGAATA
922523 TAATCTACAAATTTATAAAAAT
1 TAAT-TACAAATTTATAAAAAT
*
922545 TAATTAACAAATTTA-AATAAT
1 TAATT-ACAAATTTATAAAAAT
*
922566 TGAA-T-CGAA--TATAATATAAT
1 T-AATTACAAATTTATAA-A-AAT
*
922586 ATAATCTACAAATTTAAAAAAAT
1 -TAAT-TACAAATTTATAAAAAT
922609 TAATTAACAAATTT
1 TAATT-ACAAATTT
922623 GTTTGTTTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 24
0.68 0.06 0.27
Matches are distributed among these distances:
17 2 0.03
18 2 0.03
19 3 0.05
20 5 0.08
21 10 0.16
22 28 0.46
23 6 0.10
24 1 0.02
25 4 0.07
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (21 bp):
TAATTACAAATTTATAAAAAT
Found at i:922722 original size:14 final size:12
Alignment explanation
Indices: 922669--922752 Score: 84
Period size: 11 Copynumber: 6.7 Consensus size: 12
922659 AATTAGAAGT
922669 AATCATTATT-A
1 AATCATTATTCA
922680 AATCATTAAAGTTCA
1 AATCATT--A-TTCA
922695 AATCATTATT-A
1 AATCATTATTCA
922706 AATCATTATTATCA
1 AATCATTA-T-TCA
922720 AATCATTATT-A
1 AATCATTATTCA
922731 AATCATTATTATCA
1 AATCATTA-T-TCA
922745 AATCATTA
1 AATCATTA
922753 AAACATTATT
Statistics
Matches: 63, Mismatches: 0, Indels: 17
0.79 0.00 0.21
Matches are distributed among these distances:
11 25 0.40
12 5 0.08
13 5 0.08
14 20 0.32
15 8 0.13
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (12 bp):
AATCATTATTCA
Found at i:922726 original size:25 final size:25
Alignment explanation
Indices: 922669--922772 Score: 137
Period size: 25 Copynumber: 4.2 Consensus size: 25
922659 AATTAGAAGT
*
922669 AATCATTATTAAATCATTA-AAGTTCA
1 AATCATTATTAAATCATTATTA--TCA
922695 AATCATTATTAAATCATTATTATCA
1 AATCATTATTAAATCATTATTATCA
922720 AATCATTATTAAATCATTATTATCA
1 AATCATTATTAAATCATTATTATCA
922745 AATCATTA--AAA-CATTATTAAT-A
1 AATCATTATTAAATCATTATT-ATCA
922767 AATCAT
1 AATCAT
922773 ATCATTACTA
Statistics
Matches: 75, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
22 14 0.19
23 5 0.07
25 36 0.48
26 19 0.25
27 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.40
Consensus pattern (25 bp):
AATCATTATTAAATCATTATTATCA
Found at i:922763 original size:11 final size:11
Alignment explanation
Indices: 922698--922764 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
922688 AAGTTCAAAT
*
922698 CATTATTAAAT
1 CATTATTAAAA
922709 CATTATTATCAAA
1 CATTATTA--AAA
*
922722 TCATTATTAAAT
1 -CATTATTAAAA
*
922734 CATTATTATCAA
1 CATTATTA-AAA
*
922746 -ATCATTAAAA
1 CATTATTAAAA
922756 CATTATTAA
1 CATTATTAA
922765 TAAATCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
10 2 0.05
11 29 0.66
12 3 0.07
13 2 0.05
14 8 0.18
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (11 bp):
CATTATTAAAA
Found at i:922884 original size:2 final size:2
Alignment explanation
Indices: 922877--922910 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
922867 ACTTTAAGTA
922877 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
922911 TCGAGTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:923027 original size:11 final size:11
Alignment explanation
Indices: 923011--923071 Score: 59
Period size: 11 Copynumber: 5.0 Consensus size: 11
923001 AATTAGTAGT
923011 AATCATTATTA
1 AATCATTATTA
923022 AATCATTAAAGTTCA
1 AATCATT--A-TT-A
*
923037 AATTATTATTA
1 AATCATTATTA
923048 TTAATCATTATTA
1 --AATCATTATTA
923061 AATCATTATTA
1 AATCATTATTA
923072 TCAAATCATT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
11 19 0.45
12 2 0.05
13 12 0.29
14 2 0.05
15 7 0.17
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (11 bp):
AATCATTATTA
Found at i:923104 original size:36 final size:35
Alignment explanation
Indices: 923057--923168 Score: 152
Period size: 36 Copynumber: 3.1 Consensus size: 35
923047 ATTAATCATT
*
923057 ATTAAATCATTATTATCAAATCATTAATATCAAATC
1 ATTAAATCATTATTATTAAATCATTAATAT-AAATC
* * *
923093 ATTAAATCATTATTATTAAAACATTAGTAGTAAATT
1 ATTAAATCATTATTATTAAATCATTAATA-TAAATC
*
923129 ATTAAATCATTATTATTAAATCATTATTATTAAATC
1 ATTAAATCATTATTATTAAATCATTAATA-TAAATC
923165 ATTA
1 ATTA
923169 GTAGTAAATC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 66 0.99
37 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (35 bp):
ATTAAATCATTATTATTAAATCATTAATATAAATC
Found at i:923108 original size:50 final size:50
Alignment explanation
Indices: 923054--923202 Score: 194
Period size: 50 Copynumber: 3.0 Consensus size: 50
923044 ATTATTAATC
*
923054 ATTATTAAATCATTATTA-TCAAATCATTAATATCA-AATCATTAAATCATT
1 ATTATTAAATCATTAGTAGT-AAATCATTAA-ATCATAATCATTAAATCATT
* * * *
923104 ATTATTAAAACATTAGTAGTAAATTATTAAATCATTATTATTAAATCATT
1 ATTATTAAATCATTAGTAGTAAATCATTAAATCATAATCATTAAATCATT
* * *
923154 ATTATTAAATCATTAGTAGTAAATCATTAAATCATTATTAATAAATCAT
1 ATTATTAAATCATTAGTAGTAAATCATTAAATCATAATCATTAAATCAT
923203 ATCATTACTA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 4 0.04
50 84 0.94
51 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (50 bp):
ATTATTAAATCATTAGTAGTAAATCATTAAATCATAATCATTAAATCATT
Found at i:923202 original size:14 final size:14
Alignment explanation
Indices: 923015--923182 Score: 109
Period size: 14 Copynumber: 13.1 Consensus size: 14
923005 AGTAGTAATC
923015 ATTATTAAATCATT
1 ATTATTAAATCATT
* *
923029 A-AAGTTCAAATTATT
1 ATTA-TT-AAATCATT
923044 ATTATT-AATC---
1 ATTATTAAATCATT
923054 ATTATTAAATCATT
1 ATTATTAAATCATT
*
923068 ATTATCAAATCATT
1 ATTATTAAATCATT
*
923082 A--A-T--ATCA-A
1 ATTATTAAATCATT
*
923090 ATCATTAAATCATT
1 ATTATTAAATCATT
*
923104 ATTATTAAAACATT
1 ATTATTAAATCATT
* *
923118 AGTAGT--A--A--
1 ATTATTAAATCATT
923126 ATTATTAAATCATT
1 ATTATTAAATCATT
923140 ATTATTAAATCATT
1 ATTATTAAATCATT
923154 ATTATTAAATCATT
1 ATTATTAAATCATT
* *
923168 AGTAGTAAATCATT
1 ATTATTAAATCATT
923182 A
1 A
923183 AATCATTATT
Statistics
Matches: 119, Mismatches: 16, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
8 5 0.04
9 4 0.03
10 9 0.08
11 5 0.04
12 3 0.03
13 8 0.07
14 74 0.62
15 10 0.08
16 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:934280 original size:33 final size:33
Alignment explanation
Indices: 934243--934324 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
934233 CCAACTACTA
* *
934243 AAGATTAATTTTCCAATAAGTTAGCCACAAACC
1 AAGATGAATTTTCCAATAAATTAGCCACAAACC
* * *
934276 AAGATGAATTTTCTAATAAATTGGCCATAAACC
1 AAGATGAATTTTCCAATAAATTAGCCACAAACC
934309 AAGATGAATTTTCCAA
1 AAGATGAATTTTCCAA
934325 CTTGCCAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (33 bp):
AAGATGAATTTTCCAATAAATTAGCCACAAACC
Found at i:936899 original size:22 final size:22
Alignment explanation
Indices: 936871--936912 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
936861 GCACTTCATT
936871 TTTAGACTTCATCGGATACATC
1 TTTAGACTTCATCGGATACATC
936893 TTTAGACTTCATCGGATACA
1 TTTAGACTTCATCGGATACA
936913 CCAAACTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (22 bp):
TTTAGACTTCATCGGATACATC
Found at i:939051 original size:33 final size:33
Alignment explanation
Indices: 938994--939122 Score: 206
Period size: 33 Copynumber: 3.9 Consensus size: 33
938984 ATATGCAAAG
* *
938994 TTGGCCACCT-ACCAAAGATTAATTTTCCAATAAG
1 TTGGCCA-CTAACC-AAGATGAATTTTCCAATAAA
939028 TTGGCCACTAACCAAGATGAATTTTCCAATAAA
1 TTGGCCACTAACCAAGATGAATTTTCCAATAAA
939061 TTGGCCACTAACCAAGATGAATTTTCCAATAAA
1 TTGGCCACTAACCAAGATGAATTTTCCAATAAA
*
939094 TTGGCCACCAACCAAGATGAATTTTCCAA
1 TTGGCCACTAACCAAGATGAATTTTCCAA
939123 CTTGCTAAAT
Statistics
Matches: 91, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
33 81 0.89
34 10 0.11
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.27
Consensus pattern (33 bp):
TTGGCCACTAACCAAGATGAATTTTCCAATAAA
Found at i:941013 original size:57 final size:57
Alignment explanation
Indices: 940928--941117 Score: 272
Period size: 57 Copynumber: 3.3 Consensus size: 57
940918 ACTTATTTTT
* * *
940928 GGGACCCCTATTTTTTTGGGCTTCTTAATAGCAACAACTGATAGATATACTCGATTTT
1 GGGA-CCCTATTTTTTGGGGCTTCTTAATGGCAACAACTGATAGATATACTCGATTTC
* * *
940986 GGGACCCTATTTTTTGGGGCTTCTTAATGGAAACAACTTATAGATATAATCGATTTC
1 GGGACCCTATTTTTTGGGGCTTCTTAATGGCAACAACTGATAGATATACTCGATTTC
* * *
941043 GGGGCCCTATTTTTTGAGGCTTTTTAATGGCAACAACTGATAGATATACTCGATTTC
1 GGGACCCTATTTTTTGGGGCTTCTTAATGGCAACAACTGATAGATATACTCGATTTC
*
941100 GGGGCCCTTATTTTTTGG
1 GGGACCC-TATTTTTTGG
941118 AGCCCTGTGC
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
57 105 0.89
58 13 0.11
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (57 bp):
GGGACCCTATTTTTTGGGGCTTCTTAATGGCAACAACTGATAGATATACTCGATTTC
Found at i:944924 original size:81 final size:81
Alignment explanation
Indices: 944786--945506 Score: 1014
Period size: 81 Copynumber: 8.9 Consensus size: 81
944776 ACACTGTTAA
** * * *
944786 GCATTTAATCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAAATGCACAGCTATGCCATT
1 GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAAATGCACAGCTAGGCCATT
*
944851 AATCTTTTACTTAAAG
66 AATCTTTTACTCAAAG
* *
944867 GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTGCCAAATGCAAAGCTAGGCCATT
1 GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAAATGCACAGCTAGGCCATT
*
944932 AAACTTTTACTCAAAG
66 AATCTTTTACTCAAAG
* *
944948 TCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTGCCAAATGCACAGCTAGGCCATT
1 GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAAATGCACAGCTAGGCCATT
945013 AATCTTTTACTCAAAG
66 AATCTTTTACTCAAAG
* * * *
945029 AG-TTTTAGCCTTTCATCTAACT-GCAATATTGGCACATTTATGCCAAATGCACGGCTATGCCAT
1 -GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAAATGCACAGCTAGGCCAT
945092 TAATCTTTTACTCAAAG
65 TAATCTTTTACTCAAAG
* *
945109 GCATTTAGCCTTTCATCTAACTGGCAATATTGACACATTTCTGCCAAATGCACAACTAGGCCATT
1 GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAAATGCACAGCTAGGCCATT
* * *
945174 AATATTTTATTCCAAG
66 AATCTTTTACTCAAAG
* * * * * *
945190 GCATTTAGTCTTTCATCTAACTGGCAATATTGGTACCTTTCTGACAAATCCACAACTAGGCCATT
1 GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAAATGCACAGCTAGGCCATT
945255 AATCTTTTACTCAAAG
66 AATCTTTTACTCAAAG
** * * * *
945271 GTGTTTAGCATTTCATCTAATTGGCAATATTGGTACATTTCTGCCAAATGCACAGTTAGGCCATT
1 GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAAATGCACAGCTAGGCCATT
*
945336 AATCTTTTACTAAAAG
66 AATCTTTTACTCAAAG
* * ** * *
945352 GCATTTAGCCTTTCATCTTACTGACAATATTGATATATTTCTGCCAAATACACAGCTAGGCCATT
1 GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAAATGCACAGCTAGGCCATT
945417 AATCTTTTACTCAAAG
66 AATCTTTTACTCAAAG
* * * * * *
945433 ACATTTAGCCTTTCATCTAACTGACAATATTGACACTTTTCTACCAAATGCACAACTAGGCCATT
1 GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAAATGCACAGCTAGGCCATT
945498 AATCTTTTA
66 AATCTTTTA
945507 TTTTAGAATA
Statistics
Matches: 573, Mismatches: 64, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
79 1 0.00
80 73 0.13
81 499 0.87
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (81 bp):
GCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAAATGCACAGCTAGGCCATT
AATCTTTTACTCAAAG
Found at i:952140 original size:81 final size:81
Alignment explanation
Indices: 952014--952429 Score: 573
Period size: 81 Copynumber: 5.1 Consensus size: 81
952004 TATTAAGCAT
* * * * *
952014 TTAATCTTTTAGTCAAAGGCATTTAGCCTTTCATCGAACTTGCAATATTGGCACCTTTCTCCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAA
952079 ATGCACTA-CTAGGCCA
66 ATGCAC-AGCTAGGCCA
* * *
952095 TTAATCTTTTACTCAAAGGCATTTAGCCTTTTATCTAACTGGCAATATTGGCACATTACTGCTAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAA
* *
952160 ATGCACATCTAGACCA
66 ATGCACAGCTAGGCCA
* * * *
952176 TTAATCTTTTACTAAAAGACATTTAGCCTTTCATCTAACTGGAAATATTGGTACATTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAA
*
952241 ATGCACAACTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * *
952257 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAATTGACAAAATTGGCACCTTTATGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAA
952322 ATGCACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * ** *
952338 TTAATCTATTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGACATTTTTCTACCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAA
*
952403 ATGCACAGCGAGGCCA
66 ATGCACAGCTAGGCCA
*
952419 TTAATTTTTTA
1 TTAATCTTTTA
952430 TTTTAGAACA
Statistics
Matches: 294, Mismatches: 40, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
80 1 0.00
81 293 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.34
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTGCCAA
ATGCACAGCTAGGCCA
Found at i:955874 original size:20 final size:20
Alignment explanation
Indices: 955828--955866 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
955818 TGTTTTTCAT
955828 ATTTTAAAATCTTTAAACAC
1 ATTTTAAAATCTTTAAACAC
955848 ATTTTAAACA-CTTTAAACA
1 ATTTTAAA-ATCTTTAAACA
955867 TGTTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTTAAAATCTTTAAACAC
Found at i:958388 original size:27 final size:26
Alignment explanation
Indices: 958348--958409 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
958338 CTATATCTCA
* * *
958348 TCTTAATTAAATTTCTATATTTTATCT
1 TCTTATTTATATTTCTATACTTTAT-T
*
958375 TCTTATTTATATTTCTTTACTTTATT
1 TCTTATTTATATTTCTATACTTTATT
958401 T-TTATTTAT
1 TCTTATTTAT
958410 TTTATTTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 8 0.26
26 2 0.06
27 21 0.68
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (26 bp):
TCTTATTTATATTTCTATACTTTATT
Found at i:963229 original size:22 final size:20
Alignment explanation
Indices: 963185--963231 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
963175 TTACATAGAA
*
963185 ATTTTAATTATATTATTATG
1 ATTTTAATTATATTATTAGG
*
963205 ATTTTAATATTTATTAATTAGG
1 ATTTTAAT-TATATT-ATTAGG
963227 ATTTT
1 ATTTT
963232 TAGTTTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 5 0.22
22 10 0.43
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (20 bp):
ATTTTAATTATATTATTAGG
Found at i:967133 original size:21 final size:20
Alignment explanation
Indices: 967105--967146 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
967095 ATAACCAGAA
*
967105 CCCTCAGGGGGTATCGATTC
1 CCCTCAGGGGGAATCGATTC
*
967125 CCCTACAGGGGGAATCGGTTC
1 CCCT-CAGGGGGAATCGATTC
967146 C
1 C
967147 ATTTCAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.21
Consensus pattern (20 bp):
CCCTCAGGGGGAATCGATTC
Found at i:970708 original size:16 final size:16
Alignment explanation
Indices: 970689--970741 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
970679 AAATTTAAAA
*
970689 AATTCAAAATATATTT
1 AATTTAAAATATATTT
*
970705 AATTTATAATCATA-TT
1 AATTTAAAAT-ATATTT
*
970721 ATTTTAAAATATATTT
1 AATTTAAAATATATTT
970737 -ATTTA
1 AATTTA
970742 TTTAAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 7 0.23
16 20 0.67
17 3 0.10
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTAAAATATATTT
Found at i:970734 original size:15 final size:16
Alignment explanation
Indices: 970694--970740 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
970684 TAAAAAATTC
*
970694 AAAATATATTTAATTT
1 AAAATATATTTATTTT
*
970710 ATAATCATA-TTATTTT
1 AAAAT-ATATTTATTTT
970726 AAAATATATTTATTT
1 AAAATATATTTATTT
970741 ATTTAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 20 0.77
17 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAATATATTTATTTT
Found at i:970929 original size:19 final size:20
Alignment explanation
Indices: 970905--970945 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
970895 TATTAAAAAA
970905 TAAATAT-TAAAATAATT-TT
1 TAAATATAT-AAATAATTATT
970924 TAAATATATAAATAATTATT
1 TAAATATATAAATAATTATT
970944 TA
1 TA
970946 TTATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATATATAAATAATTATT
Found at i:972299 original size:3 final size:3
Alignment explanation
Indices: 972291--972374 Score: 105
Period size: 3 Copynumber: 28.0 Consensus size: 3
972281 TATATATATT
* *
972291 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
972339 TAA TAA TTA TTA TTA TTA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
972375 ATAAATCAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:972857 original size:113 final size:113
Alignment explanation
Indices: 972705--973151 Score: 707
Period size: 113 Copynumber: 3.9 Consensus size: 113
972695 CTGGCAATGT
* * * * * *
972705 TGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
****
972770 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGA
* * *
972818 TAATCCATCAAGTGATGTATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
*
972883 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGT
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGA
*
972931 TGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
*
972996 TCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGGAAAA-A
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGA
*
973043 TTGATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC
1 -TGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC
973108 TTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
65 -T-TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
973152 ACACTGTTGA
Statistics
Matches: 311, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
113 270 0.87
114 1 0.00
115 40 0.13
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (113 bp):
TGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGA
Found at i:973040 original size:226 final size:226
Alignment explanation
Indices: 972632--973151 Score: 735
Period size: 226 Copynumber: 2.3 Consensus size: 226
972622 GAATAAGCTT
*
972632 TTCTCATTATGAACTTCTTCTT-C-TC--CTGATGAGTTCTTCTCATTATGAACTTTCCTGGAAA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC--T-C--G---
* * *
972693 AACTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTA
58 AACTGGAAAAGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTA
* ****
972758 TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA-TAAT
123 TGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGGAAAA-ATTAAT
* *
972822 CCATCAAGTGATGTATTTGAGCAAAAGGTTGAACAAATTC
187 CCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTC
972862 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAA
* * ** * *
972927 AAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
66 AAGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTC
*
972992 TTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGGAAAAATTGATCCATCAAGT
131 TTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGGAAAAATTAATCCATCAAGT
*
973057 GATGGATTTAATCAAAAGGTTGAACAAATTC
196 GATGGATTTAAGCAAAAGGTTGAACAAATTC
973088 TTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTCATTATGAACTTCTTC-T-TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
973152 ACACTGTTGA
Statistics
Matches: 264, Mismatches: 19, Indels: 16
0.88 0.06 0.05
Matches are distributed among these distances:
225 1 0.00
226 169 0.64
227 1 0.00
228 41 0.16
229 1 0.00
230 22 0.08
231 2 0.01
232 3 0.01
234 24 0.09
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (226 bp):
TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAA
AAGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTC
TTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGGAAAAATTAATCCATCAAGT
GATGGATTTAAGCAAAAGGTTGAACAAATTC
Found at i:974067 original size:115 final size:115
Alignment explanation
Indices: 973865--974192 Score: 586
Period size: 115 Copynumber: 2.9 Consensus size: 115
973855 ACGATCATGC
* *
973865 AATTCATCTTTTAATTCCAATGATTGGTTCTGTAGTTTCATAACAAACCAGATCAGATAACTCAA
1 AATTCATCTTTTAAATCCAATGATTGGTTCTGTGGTTTCATAACAAACCAGATCAGATAACTCAA
973930 AGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAACA
66 AGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAACA
*
973980 AATTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCAT-ACTAAACCAGATCAGATAACTCA
1 AATTCATCTTTTAAATCCAATGATTGGTTCTGTGGTTTCATAAC-AAACCAGATCAGATAACTCA
* *
974044 AAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTATTATGAGCA
65 AAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAACA
*
974095 AATTCATCTTTTAAATTCAATGATTGGTTCTGTGGTTTCATAACAAACCAGATCAGATAACTCAA
1 AATTCATCTTTTAAATCCAATGATTGGTTCTGTGGTTTCATAACAAACCAGATCAGATAACTCAA
974160 AGAACACTTCCAGAAGATGCTATTGAGTCTCCT
66 AGAACACTTCCAGAAGATGCTATTGAGTCTCCT
974193 CTTTCAAATT
Statistics
Matches: 204, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
114 2 0.01
115 200 0.98
116 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (115 bp):
AATTCATCTTTTAAATCCAATGATTGGTTCTGTGGTTTCATAACAAACCAGATCAGATAACTCAA
AGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAACA
Found at i:974320 original size:83 final size:83
Alignment explanation
Indices: 974138--974768 Score: 1083
Period size: 83 Copynumber: 7.7 Consensus size: 83
974128 GGTTTCATAA
*
974138 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAG-TC--TCCTCTTTCAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCCTCTTTCAA
* * *
974200 ATTCGATAACTGGTTTTAC
65 ATTCAATGATTGGTTTTAC
*
974219 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
* *
974284 TTCAATAACTGGTTTTAC
66 TTCAATGATTGGTTTTAC
*
974302 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAG
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
*
974367 TTCAATAATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
*
974385 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAAGCACATTCCTCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
974450 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
* *
974468 CAAACTAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
974533 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
*
974551 CAAACCAGATCAG--AACTCAAAGATCACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
974614 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
*
974632 CAAACCAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
974697 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
*
974715 CAAACCAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGAGCACATT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
974769 ACATTTGTTC
Statistics
Matches: 532, Mismatches: 13, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
80 4 0.01
81 126 0.24
83 402 0.76
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
TTCAATGATTGGTTTTAC
Found at i:974595 original size:247 final size:247
Alignment explanation
Indices: 974138--974768 Score: 1079
Period size: 247 Copynumber: 2.6 Consensus size: 247
974128 GGTTTCATAA
* *
974138 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-A-GTCTCCTCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAGCACAT-TCCTCTTTCAAA
* * * *
974201 TTCGATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
65 TTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGA
974266 GCACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACAC
130 GCACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGA-AACTCAAAGAACAC
*
974331 TTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAGTTCAATAATTGGTTTTAC
194 TTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAATTCAATAATTGGTTTTAC
974385 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAAGCACATTCCTCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-AGCACATTCCTCTTTCAAA
*
974450 TTCAATGATTGGTTTTACCAAACTAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGA
65 TTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGA
* * * *
974515 GCACATTCCTCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAG-AACTCAAAGATCACT
130 GCACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGAAACTCAAAGAACACT
*
974579 TCCAGAAGATGCTATGAGCACATTCCTCTTTCAAATTCAATGATTGGTTTTAC
195 TCCAGAAGATGCTATGAGCACATTCCTCTTTCAAATTCAATAATTGGTTTTAC
*
974632 CAAACCAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-AGCACATTCCTCTTTCAAA
974697 TTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGA
65 TTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGA
974762 GCACATT
130 GCACATT
974769 ACATTTGTTC
Statistics
Matches: 365, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
247 244 0.67
248 1 0.00
249 119 0.33
250 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (247 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAGCACATTCCTCTTTCAAAT
TCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGAG
CACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGAAACTCAAAGAACACTT
CCAGAAGATGCTATGAGCACATTCCTCTTTCAAATTCAATAATTGGTTTTAC
Found at i:974747 original size:330 final size:329
Alignment explanation
Indices: 974138--974768 Score: 1077
Period size: 330 Copynumber: 1.9 Consensus size: 329
974128 GGTTTCATAA
*
974138 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTCTTTCAAATT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGACTCCTCTTTCAAATT
*
974203 CGATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
66 CAATAACTGGTTTTACCAAACCAGATCAGA-AACTCAAAGAACACTTCCAGAAGATGCTATGAGC
974268 ACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTT
130 ACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTT
*
974333 CCAGAAGATGCTATGAGCACATTCCTCTTTCAAGTTCAATAATTGGTTTTACCAAACCAGATCAG
195 CCAGAAGATGCTATGAGCACATTCCTCTTTCAAATTCAATAATTGGTTTTACCAAACCAGATCAG
974398 ATAACTCAAAGAACACTTCCAGAAGATGCTATAAGCACATTCCTCTTTCAAATTCAATGATTGGT
260 ATAACTCAAAGAACACTTCCAGAAGATGCTATAAGCACATTCCTCTTTCAAATTCAATGATTGGT
974463 TTTAC
325 TTTAC
* *
974468 CAAACTAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTA-TGAGCACATTCCTCTTTCAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAG-AC--TCCTCTTTCAA
* * *
974532 ATTCAATGATTGGTTTTACCAAACCAGATCAG-AACTCAAAGATCACTTCCAGAAGATGCTATGA
63 ATTCAATAACTGGTTTTACCAAACCAGATCAGAAACTCAAAGAACACTTCCAGAAGATGCTATGA
* * * *
974596 GCACATTCCTCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGATCAC
128 GCACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACAC
*
974661 TTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATC
193 TTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAATTCAATAATTGGTTTTACCAAACCAGATC
* *
974726 AGATAACTCAAAGATCACTTCCAGAAGATGCTATGAGCACATT
258 AGATAACTCAAAGAACACTTCCAGAAGATGCTATAAGCACATT
974769 ACATTTGTTC
Statistics
Matches: 283, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
329 4 0.01
330 239 0.84
332 40 0.14
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (329 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGACTCCTCTTTCAAATT
CAATAACTGGTTTTACCAAACCAGATCAGAAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
CATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTC
CAGAAGATGCTATGAGCACATTCCTCTTTCAAATTCAATAATTGGTTTTACCAAACCAGATCAGA
TAACTCAAAGAACACTTCCAGAAGATGCTATAAGCACATTCCTCTTTCAAATTCAATGATTGGTT
TTAC
Found at i:975929 original size:10 final size:10
Alignment explanation
Indices: 975914--975968 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
975904 CCTTGACCCC
975914 TTTTTTCTTT
1 TTTTTTCTTT
975924 TTTTTTC--T
1 TTTTTTCTTT
*
975932 TTTTCTCTTT
1 TTTTTTCTTT
*
975942 TTCTCTCTCTTT
1 TT-T-TTTCTTT
*
975954 TTTCTTCTTT
1 TTTTTTCTTT
975964 TTTTT
1 TTTTT
975969 CTTCAAGCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 7 0.19
10 19 0.51
11 2 0.05
12 9 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:975967 original size:12 final size:12
Alignment explanation
Indices: 975914--975972 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
975904 CCTTGACCCC
975914 TTTTTTC-T-TT
1 TTTTTTCTTCTT
*
975924 TTTTTTCTTTTT
1 TTTTTTCTTCTT
*
975936 CTCTTTTTCTCTCTC
1 -T-TTTTTCT-TCTT
975951 TTTTTTCTTCTT
1 TTTTTTCTTCTT
975963 TTTTTTCTTC
1 TTTTTTCTTC
975973 AAGCATAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 7 0.17
11 1 0.02
12 15 0.37
13 8 0.20
14 8 0.20
15 2 0.05
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTCTTCTT
Found at i:983321 original size:15 final size:15
Alignment explanation
Indices: 983298--983329 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
983288 TGAAATGAAT
983298 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
983313 AATGCATGTATGCAA
1 AATGAATGTATGCAA
983328 AA
1 AA
983330 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:987134 original size:16 final size:16
Alignment explanation
Indices: 987102--987148 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
987092 TAAAAAATTC
* *
987102 AAAATATGTTTAATTT
1 AAAATATATTTATTTT
*
987118 ATAATCATA-TTATTTT
1 AAAAT-ATATTTATTTT
987134 AAAATATATTTATTT
1 AAAATATATTTATTT
987149 ATTTAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.12
16 20 0.80
17 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
AAAATATATTTATTTT
Found at i:987362 original size:21 final size:22
Alignment explanation
Indices: 987314--987366 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
987304 TAATAAAAAA
987314 TAAATAT-TA-AAATAATTTAT
1 TAAATATATATAAATAATTTAT
987334 TAAATATATATAAATAA-TTAT
1 TAAATATATATAAATAATTTAT
* *
987355 TTATTATATATA
1 TAAATATATATA
987367 TTTATAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.24
21 16 0.55
22 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATATATATAAATAATTTAT
Found at i:988722 original size:3 final size:3
Alignment explanation
Indices: 988714--988797 Score: 105
Period size: 3 Copynumber: 28.0 Consensus size: 3
988704 TATATATATT
* *
988714 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
988762 TAA TAA TTA TTA TTA TTA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
988798 ATAAATAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:991434 original size:21 final size:21
Alignment explanation
Indices: 991405--991459 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
991395 ATTTCGACCC
*
991405 AGGGCGAATCGGTACCCCCTT
1 AGGGGGAATCGGTACCCCCTT
*
991426 AGGGGGAATCAGTACCCCCTT
1 AGGGGGAATCGGTACCCCCTT
*
991447 GGGGGGAATCGGT
1 AGGGGGAATCGGT
991460 TCCCTCCGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.36, T:0.18
Consensus pattern (21 bp):
AGGGGGAATCGGTACCCCCTT
Done.