Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009066.1 Hibiscus syriacus cultivar Beakdansim tig00112490_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: 821833
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:568783 original size:24 final size:24
Alignment explanation
Indices: 568687--568784 Score: 88
Period size: 24 Copynumber: 4.1 Consensus size: 24
568677 CGGGTTTGGA
568687 TTGGGTTCAAGTTCGGGTTCGGGT
1 TTGGGTTCAAGTTCGGGTTCGGGT
** ** * *
568711 TTGGACTCGGGTTTGGGTTTGGGT
1 TTGGGTTCAAGTTCGGGTTCGGGT
* **
568735 TTGGGATCAAGTTCGGGTTTAGGT
1 TTGGGTTCAAGTTCGGGTTCGGGT
* * *
568759 TTGGTTTCATGTTTGGGTTCGGGT
1 TTGGGTTCAAGTTCGGGTTCGGGT
568783 TT
1 TT
568785 AGTTTTGGGT
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.08, C:0.09, G:0.40, T:0.43
Consensus pattern (24 bp):
TTGGGTTCAAGTTCGGGTTCGGGT
Found at i:569108 original size:101 final size:100
Alignment explanation
Indices: 569003--569307 Score: 337
Period size: 101 Copynumber: 3.0 Consensus size: 100
568993 TGTTTGTAAG
* * * *
569003 GGTTTGGGGAAGAACATGAATGAATAAGGGTTTAACTTTTTGGTGTTTGATCGAAAAAA-A-GGA
1 GGTTTGGGGAAGAACA-GAATGAACAAGGGTTGAAATTTTTGGTGTTTGATCGAAAAAACACGAA
*
569066 ATGAGTTTAGGTTTTGGTGTTTGTGAAGATCAAATAA
65 ATG-GTTTGGGTTTTGGTGTTTGTGAAGATCAAATAA
* * * *
569103 TGGTTTGGGAAAGAACACAGATGAACAAGGGTTGAATTTTTTGGTGTTTAATCGAAAAAAAAACA
1 -GGTTTGGGGAAGAACAGA-ATGAACAAGGGTTGAAATTTTTGGTGTTTGATCG---AAAAAACA
* **
569168 CGAAATGGTTTGGGTTTTGGTCTTTGTGAAGATCAAAGGA
61 CGAAATGGTTTGGGTTTTGGTGTTTGTGAAGATCAAATAA
* * * * *
569208 GGATTTTTGGGATGAACACGAATGAACAAGGGTTGAAATTTTGGGTGTTTGAT-AAAAAAACACA
1 GG--TTTGGGGAAGAACA-GAATGAACAAGGGTTGAAATTTTTGGTGTTTGATCGAAAAAACACG
*
569272 AAATGGTTTGGGTTTTAGTGTTTGTGAAGATCAAAT
63 AAATGGTTTGGGTTTTGGTGTTTGTGAAGATCAAAT
569308 GAGGGTTTTT
Statistics
Matches: 172, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
100 1 0.01
101 45 0.26
102 42 0.24
104 8 0.05
105 30 0.17
106 45 0.26
107 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (100 bp):
GGTTTGGGGAAGAACAGAATGAACAAGGGTTGAAATTTTTGGTGTTTGATCGAAAAAACACGAAA
TGGTTTGGGTTTTGGTGTTTGTGAAGATCAAATAA
Found at i:569299 original size:102 final size:101
Alignment explanation
Indices: 569009--569326 Score: 340
Period size: 102 Copynumber: 3.1 Consensus size: 101
568999 TAAGGGTTTG
* * * * * *
569009 GGGAAGAACATGAATGAATAAGGGTTTAACTTTTTGGTGTTTGATCGAAAAAA-A-GGAATGAGT
1 GGGAAGAACACGAATGAACAAGGGTTGAAATTTTTGGTGTTTGAT-AAAAAAACACGAAATG-GT
* * *
569072 TTAGGTTTTGGTGTTTGTGAAGATCAAATA--ATGGTTT
64 TTGGGTTTTGGTGTTTGTGAAGATCAAAGAGGAT-TTTT
* *
569109 GGGAAAGAACAC-AGATGAACAAGGGTTGAATTTTTTGGTGTTTAATCGAAAAAAAAACACGAAA
1 GGG-AAGAACACGA-ATGAACAAGGGTTGAAATTTTTGGTG-TT--T-GATAAAAAAACACGAAA
*
569173 TGGTTTGGGTTTTGGTCTTTGTGAAGATCAAAGGAGGATTTTT
60 TGGTTTGGGTTTTGGTGTTTGTGAAGATCAAA-GAGGATTTTT
* * *
569216 GGGATGAACACGAATGAACAAGGGTTGAAATTTTGGGTGTTTGATAAAAAAACACAAAATGGTTT
1 GGGAAGAACACGAATGAACAAGGGTTGAAATTTTTGGTGTTTGATAAAAAAACACGAAATGGTTT
* *
569281 GGGTTTTAGTGTTTGTGAAGATCAAATGAGGGTTTTT
66 GGGTTTTGGTGTTTGTGAAGATCAAA-GAGGATTTTT
*
569318 GGGATGAAC
1 GGGAAGAAC
569327 GTAGATGAAA
Statistics
Matches: 186, Mismatches: 20, Indels: 22
0.82 0.09 0.10
Matches are distributed among these distances:
100 4 0.02
101 30 0.16
102 65 0.35
103 1 0.01
104 7 0.04
105 33 0.18
106 37 0.20
107 7 0.04
108 2 0.01
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (101 bp):
GGGAAGAACACGAATGAACAAGGGTTGAAATTTTTGGTGTTTGATAAAAAAACACGAAATGGTTT
GGGTTTTGGTGTTTGTGAAGATCAAAGAGGATTTTT
Found at i:569495 original size:9 final size:9
Alignment explanation
Indices: 569481--569540 Score: 50
Period size: 9 Copynumber: 6.2 Consensus size: 9
569471 ATATGTAAAC
569481 TATATAGTA
1 TATATAGTA
569490 TATATAGTTCA
1 TATATAG-T-A
*
569501 TATGTA-TA
1 TATATAGTA
569509 CTATATAGTA
1 -TATATAGTA
569519 TATATAGTTTA
1 TATATAG--TA
*
569530 CATATAGTA
1 TATATAGTA
569539 TA
1 TA
569541 GGTTATTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
8 1 0.02
9 23 0.56
10 3 0.07
11 14 0.34
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (9 bp):
TATATAGTA
Found at i:569504 original size:29 final size:29
Alignment explanation
Indices: 569471--569527 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
569461 TTTGCCTATT
569471 ATATGTAAACTATATAGTATATATAGTTC
1 ATATGTAAACTATATAGTATATATAGTTC
*
569500 ATATGTATACTATATAGTATATATAGTT
1 ATATGTAAACTATATAGTATATATAGTT
569528 TACATATAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (29 bp):
ATATGTAAACTATATAGTATATATAGTTC
Found at i:569523 original size:20 final size:21
Alignment explanation
Indices: 569490--569540 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
569480 CTATATAGTA
569490 TATATAGT-TCATAT-GTATAC
1 TATATAGTAT-ATATAGTATAC
*
569510 TATATAGTATATATAGTTTAC
1 TATATAGTATATATAGTATAC
569531 -ATATAGTATA
1 TATATAGTATA
569541 GGTTATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (21 bp):
TATATAGTATATATAGTATAC
Found at i:569615 original size:28 final size:30
Alignment explanation
Indices: 569560--569616 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
569550 ATATTGGTTA
* *
569560 TATATAGTTTAAATATTACTATCTATAAAC
1 TATATAGTTTAAATATTAATATCCATAAAC
*
569590 TATATAGTTTATATA-TAAT-TCCATAAA
1 TATATAGTTTAAATATTAATATCCATAAA
569617 TTAACCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.29
29 3 0.12
30 14 0.58
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (30 bp):
TATATAGTTTAAATATTAATATCCATAAAC
Found at i:569631 original size:7 final size:7
Alignment explanation
Indices: 569619--569648 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
569609 TCCATAAATT
569619 AACCCTA
1 AACCCTA
569626 AACCCTA
1 AACCCTA
569633 AACCCTA
1 AACCCTA
569640 AACCCTA
1 AACCCTA
569647 AA
1 AA
569649 AAATATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:569686 original size:11 final size:11
Alignment explanation
Indices: 569672--569696 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
569662 ATATATAAAT
569672 TATATAGTTTA
1 TATATAGTTTA
569683 TATATAGTTTA
1 TATATAGTTTA
569694 TAT
1 TAT
569697 TAATAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:569696 original size:33 final size:33
Alignment explanation
Indices: 569659--569791 Score: 111
Period size: 33 Copynumber: 4.2 Consensus size: 33
569649 AAATATATAC
*
569659 TATATATATAAATTATATAGTTTATATATAGTT
1 TATATATATAAATTATATAGTTTATACATAGTT
* *
569692 TATAT-TAATAAACTATATAATTTATACATA--T
1 TATATAT-ATAAATTATATAGTTTATACATAGTT
* * *
569723 TATATAT-T--ATT-TATA-ATTATACATAATA
1 TATATATATAAATTATATAGTTTATACATAGTT
* * *
569751 TATAAATATAAATTGTATAGTTTATATATAGTT
1 TATATATATAAATTATATAGTTTATACATAGTT
*
569784 CATATATA
1 TATATATA
569792 ATTTTTATAT
Statistics
Matches: 78, Mismatches: 13, Indels: 18
0.72 0.12 0.17
Matches are distributed among these distances:
26 9 0.12
27 4 0.05
28 8 0.10
29 1 0.01
30 1 0.01
31 9 0.12
32 6 0.08
33 40 0.51
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (33 bp):
TATATATATAAATTATATAGTTTATACATAGTT
Found at i:573825 original size:29 final size:29
Alignment explanation
Indices: 573790--573871 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
573780 AAACTAAATT
*
573790 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
573819 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
573848 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
573872 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:578595 original size:29 final size:29
Alignment explanation
Indices: 578560--578641 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
578550 AAACTAAATT
*
578560 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
* *
578589 GATGTCATTGCTTAAATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
578618 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
578642 GTTAGGTGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 43 0.90
30 5 0.10
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:580506 original size:2 final size:2
Alignment explanation
Indices: 580499--580533 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
580489 GTTCGGGAAA
*
580499 AG AG AG AG AG AG AG AG AT AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
580534 ATTTGCTGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03
Consensus pattern (2 bp):
AG
Found at i:580954 original size:14 final size:14
Alignment explanation
Indices: 580932--580965 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
580922 CGTCATAAAT
*
580932 ATATATACTTACAA
1 ATATTTACTTACAA
*
580946 ATATTTACTTATAA
1 ATATTTACTTACAA
580960 ATATTT
1 ATATTT
580966 TATGTATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTTACTTACAA
Found at i:581208 original size:39 final size:39
Alignment explanation
Indices: 581151--581226 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
581141 CAGGCATCAA
*
581151 CGTAGTAGAACTAACATGAGAAGTGGTCTGAAATGTCCG
1 CGTAGTAGAACCAACATGAGAAGTGGTCTGAAATGTCCG
* * *
581190 CGTAGTAGAGCCATCATGAGAAGTGGTCTGAATTGTC
1 CGTAGTAGAACCAACATGAGAAGTGGTCTGAAATGTC
581227 TTCAGAATGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (39 bp):
CGTAGTAGAACCAACATGAGAAGTGGTCTGAAATGTCCG
Found at i:586086 original size:41 final size:41
Alignment explanation
Indices: 586023--586106 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
586013 AGATTCTGGT
* * *
586023 GTGGCTTTGTTGGTGTGGTCCCGCATAGAATATTTAGAAGA
1 GTGGCTTTGTTGGTGTGATCCCGCAGAGAAGATTTAGAAGA
* * *
586064 GTGGTTTTGTTGGTGTGATCCCGTAGAGAAGATTTGGAAGA
1 GTGGCTTTGTTGGTGTGATCCCGCAGAGAAGATTTAGAAGA
586105 GT
1 GT
586107 ACTGGTAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.21, C:0.10, G:0.35, T:0.35
Consensus pattern (41 bp):
GTGGCTTTGTTGGTGTGATCCCGCAGAGAAGATTTAGAAGA
Found at i:586596 original size:12 final size:12
Alignment explanation
Indices: 586576--586609 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
586566 TTCGTGCGAT
586576 TTTTCGTTATAAA
1 TTTT-GTTATAAA
586589 TTTTGTTATAAA
1 TTTTGTTATAAA
*
586601 TTTTTTTAT
1 TTTTGTTAT
586610 TATACTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (12 bp):
TTTTGTTATAAA
Found at i:588669 original size:18 final size:18
Alignment explanation
Indices: 588646--588682 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
588636 ACGAACAAAA
588646 TTTTGTTCATTTAGTTGT
1 TTTTGTTCATTTAGTTGT
* *
588664 TTTTGTTCGTTTATTTGT
1 TTTTGTTCATTTAGTTGT
588682 T
1 T
588683 CGGTTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.05, G:0.16, T:0.70
Consensus pattern (18 bp):
TTTTGTTCATTTAGTTGT
Found at i:589978 original size:3 final size:3
Alignment explanation
Indices: 589970--590026 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
589960 TAAGCTATTT
*
589970 TTC TTC TTC TTC TTC TTC TTC TTA TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
590018 TTC ATTC TT
1 TTC -TTC TT
590027 TCCCGTGGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:590683 original size:19 final size:20
Alignment explanation
Indices: 590659--590753 Score: 88
Period size: 22 Copynumber: 4.6 Consensus size: 20
590649 ATCTAATTTT
*
590659 GGTATCGATA-CTGGTAAGG
1 GGTATCGATACCTAGTAAGG
590678 GGTATCGATACCCTAGTAAGG
1 GGTATCGATA-CCTAGTAAGG
*
590699 TAGTATCGATACCCTAGT-AGG
1 -GGTATCGATA-CCTAGTAAGG
*
590720 GTAGTATCGATACCATGGTAA-G
1 G--GTATCGATACC-TAGTAAGG
590742 GGTATCGATACC
1 GGTATCGATACC
590754 AGGCAACATC
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
19 10 0.15
20 11 0.17
21 13 0.20
22 30 0.46
23 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCTAGTAAGG
Found at i:590707 original size:22 final size:22
Alignment explanation
Indices: 590679--590753 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
590669 CTGGTAAGGG
590679 GTATCGATACCCTAGTAAGGTA
1 GTATCGATACCCTAGTAAGGTA
*
590701 GTATCGATACCCTAGTAGGGTA
1 GTATCGATACCCTAGTAAGGTA
* *
590723 GTATCGATACCATGGTAAGG--
1 GTATCGATACCCTAGTAAGGTA
590743 GTATCGATACC
1 GTATCGATACC
590754 AGGCAACATC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.22
22 38 0.78
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (22 bp):
GTATCGATACCCTAGTAAGGTA
Found at i:590812 original size:117 final size:118
Alignment explanation
Indices: 590601--590812 Score: 320
Period size: 117 Copynumber: 1.8 Consensus size: 118
590591 ATACCGATGA
* *
590601 GGTAGTATCGATACCATGGTAAGGGGTATCGATACCAATAAACATCGAATCTAATTTTGGTATCG
1 GGTAGTATCGATACCATGGTAAGGGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATCG
* *
590666 ATACTGGTAAGGGGTATCGATACCCTAGTAAGGTAGTATCGATACCCTAGTAG
66 ATACTCGTAAGGGGTATCGATACCATAGTAAGGTAGTATCGATACCCTAGTAG
* * *
590719 GGTAGTATCGATACCATGGTAA-GGGTATCGATACCAGGCAACATCGAACCTATTTTTGGTATCG
1 GGTAGTATCGATACCATGGTAAGGGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATCG
* *
590783 ATACTCG-AAGGGGGTATTGGTACCATAGTA
66 ATACTCGTAA-GGGGTATCGATACCATAGTA
590813 TAAAAGTATC
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
116 2 0.02
117 60 0.71
118 22 0.26
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (118 bp):
GGTAGTATCGATACCATGGTAAGGGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATCG
ATACTCGTAAGGGGTATCGATACCATAGTAAGGTAGTATCGATACCCTAGTAG
Found at i:591269 original size:59 final size:59
Alignment explanation
Indices: 591167--591515 Score: 510
Period size: 59 Copynumber: 6.0 Consensus size: 59
591157 ATTACCAAAT
* * * * * *
591167 GGCACTTCGAGTGC-AAAATGTTAAGAAATTAATACTAAGTGTATGAATTTTCGTATAG
1 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
591225 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTATA-TGTATGAATTTCCGTATAG
1 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTA-AGTGTATGAATTTCCGTATAG
*
591284 GGAACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
1 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
* *
591343 GGCACTTCGTGTGTTAACATGATAAGAAATTCATATTAAGTGTATGAATTTTCGTATAG
1 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
* * ** *
591402 GGCACTTCGTGTGC-AACATGATAAGAAATTCATACTAAGTGTACGAATTTATGTATTG
1 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
*
591460 GGCACCTT-GTGTGCTAA-AGGATAAGAAATTCATATTAAGTGTATGAATTTCCGTAT
1 GGCA-CTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTAT
591516 GGTACATATA
Statistics
Matches: 265, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
58 97 0.37
59 167 0.63
60 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (59 bp):
GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
Found at i:592499 original size:68 final size:68
Alignment explanation
Indices: 591886--592490 Score: 895
Period size: 68 Copynumber: 8.9 Consensus size: 68
591876 AAAGATCAAA
* *
591886 AGGCCTAACTGTGCATATGACATAAAGGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
591951 TTG
66 TTG
* * *
591954 AGGCCTAACTGTGCATATGACAGAAAGTTGTCATTTATGCCAGTTAAATGAAAGACTAAATGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
592019 TTG
66 TTG
**
592022 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATTACAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
592087 TTG
66 TTG
* * * * *
592090 AGGCCTAATTTTGCATATGACAAAAAAGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
592155 TTG
66 TTG
* * * *
592158 AGGCCTAACTGTGCATATGACATAAATGTTTCATTTATGCCAGTTAGATTAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
592223 TTG
66 TTG
* * * * * * *
592226 AGGCGTAATTGTGAATATGACAGAAATGTGTTATTTATGTCAGTTAAATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
592291 TTG
66 TTG
* * *
592294 AGGCCTAACTGTGCATATGATAGAAATGTGTCATTTATGCCAGTTAGATTAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
592359 TTG
66 TTG
* * * *
592362 TGGCCTAACTGTGCATATGACAAAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
592427 TTG
66 TTG
* * * * *
592430 AGGCCTAACTGTGCATATGATAGAAAGGTGTCAATTATGACAGTTAGATGAACGATTAAGT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGT
592491 ACTGTTGAGT
Statistics
Matches: 481, Mismatches: 56, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 481 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
TTG
Found at i:592566 original size:81 final size:81
Alignment explanation
Indices: 592451--592668 Score: 318
Period size: 81 Copynumber: 2.7 Consensus size: 81
592441 TGCATATGAT
592451 AGAAAGGTGTCAATTATGACAGTTAGATGAACGATTAAGTACTGTTGAGTAAAAGAAAAATGGCC
1 AGAAAGGTGTCAATTATGACAGTTAGATGAACGATTAAGTACTGTTGAGTAAAAGAAAAATGGCC
592516 TAG-TTGTGCAATTGGC
66 TAGCTT-TGCAATTGGC
* *
592532 AGAAAGTTGTCAATTATGACAGTTAGATGAACGATTAAGTA-TCGTTGAGTAAAAGAAAAATGGT
1 AGAAAGGTGTCAATTATGACAGTTAGATGAACGATTAAGTACT-GTTGAGTAAAAGAAAAATGGC
592596 CTAGCTTTGCAATTGGC
65 CTAGCTTTGCAATTGGC
* * * * *
592613 A-AATAGGTGTCAATTATGCCAGTTAGACGAACG-TTAAGCACTATTGAGTAAGAGAA
1 AGAA-AGGTGTCAATTATGACAGTTAGATGAACGATTAAGTACTGTTGAGTAAAAGAA
592669 TAAAGAAATT
Statistics
Matches: 125, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
80 21 0.17
81 102 0.82
82 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (81 bp):
AGAAAGGTGTCAATTATGACAGTTAGATGAACGATTAAGTACTGTTGAGTAAAAGAAAAATGGCC
TAGCTTTGCAATTGGC
Found at i:595847 original size:39 final size:39
Alignment explanation
Indices: 595778--596582 Score: 1064
Period size: 39 Copynumber: 20.7 Consensus size: 39
595768 GTTTTAAGAA
* * *
595778 AAACAATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
595816 AAACTATCTTAAGCGAGATAAAATCTTCTGTTTTGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
595855 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
595894 AAACTCTCTCAAGCGAGA-AAAATTATTTTGTTTCGAGCG
1 AAACTATCTCAAGCGAGATAAAA-TCTTCTGTTTCGAGGG
* *
595933 AAACAATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
595971 AAACTATCTCAAGCGAGATAAAATCTTCTCTTTAGA-GT
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * **
596009 AAACAATCTCAAGTGAGATAAAAATCTTTTGTTTCGAGTA
1 AAACTATCTCAAGCGAGAT-AAAATCTTCTGTTTCGAGGG
* * *
596049 AAACTATTTCAAGCGAGATAAAATATTTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
596088 AAACTATCTTAAGCAAAATAAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
596127 AAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
596166 AAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
** * *
596205 AAACTATCTCAAGTTAGATAAAATATTCTGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
596244 AAACTATCTCAAGCGAGATAAAATCTTATGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
596283 AAACTATCTCAAGCGAGATAAAATCTTATGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * **
596322 AAACTATCTCAAGCGAGACAAAATCTTATGTTTCAAGTA
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
596361 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
596400 AAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
596439 -AACTATCTCAAGAGAGACAAAATCTTCTATTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
596477 AAACTATCTCAAGCGACATAAAATCTTATTTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
596516 AAACTGTCTCAAGCGAGATAAAAT-TTTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
596554 AAACTATCTCAAGAGAGATAAAATCTTCT
1 AAACTATCTCAAGCGAGATAAAATCTTCT
596583 TTAAAAACAA
Statistics
Matches: 678, Mismatches: 81, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
38 135 0.20
39 527 0.78
40 16 0.02
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (39 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
Found at i:596685 original size:36 final size:36
Alignment explanation
Indices: 596645--596899 Score: 139
Period size: 36 Copynumber: 7.1 Consensus size: 36
596635 CAAGCGAGAC
596645 AAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAAT
1 AAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAAT
* * * * ** * * *
596681 AAATCTTCTTGTT-CGTAAAACTATCTCAAGCGAGAC
1 AAATCTTGTT-TTAAGAAAAACAATCTTGAGTGAAAT
596717 AAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAAT
1 AAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAAT
** * ** * * *
596753 AAATCTTCTTGTTTCGAGTAAAAACTATCTCAAGCGAGAC
1 AAA---TCTTGTTTTAAG-AAAAACAATCTTGAGTGAAAT
*
596793 AAATCTTGTTTTAAGAAAAACAAT-ATGTAGTGAAAT
1 AAATCTTGTTTTAAGAAAAACAATCTTG-AGTGAAAT
* * *** * *
596829 -GA-CTTG-TTTGAGTAAAAATTGTCTTAAG-CAACA-
1 AAATCTTGTTTTAAG-AAAAACAATCTTGAGTGAA-AT
* *
596862 CAATCTTGTTTTAAGAAAAA-AATCTTGAGTAAAAT
1 AAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAAT
596897 AAA
1 AAA
596900 ACGTCTTCTT
Statistics
Matches: 154, Mismatches: 50, Indels: 31
0.66 0.21 0.13
Matches are distributed among these distances:
33 7 0.05
34 21 0.14
35 17 0.11
36 69 0.45
37 12 0.08
39 10 0.06
40 18 0.12
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (36 bp):
AAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAAT
Found at i:596719 original size:72 final size:72
Alignment explanation
Indices: 596585--597021 Score: 430
Period size: 74 Copynumber: 6.0 Consensus size: 72
596575 AATCTTCTTT
* *
596585 AAAAACAATCTTGAGTGAAATGAAATGTT-TCTTTCGAGTAAAAATCGTCTCAAGCGAGACAAAT
1 AAAAACAATCTTGAGTGAAAT-AAATCTTCT-TTTC-AGTAAAACT-GTCTCAAGCGAGACAAAT
596649 CTTGTTTTAAG
62 CTTGTTTTAAG
*
596660 AAAAACAATCTTGAGTGAAATAAATCTTCTTGTTC-GTAAAACTATCTCAAGCGAGACAAATCTT
1 AAAAACAATCTTGAGTGAAATAAATCTTCTT-TTCAGTAAAACTGTCTCAAGCGAGACAAATCTT
596724 GTTTTAAG
65 GTTTTAAG
*
596732 AAAAACAATCTTGAGTGAAATAAATCTTCTTGTTTCGAGTAAAAACTATCTCAAGCGAGACAAAT
1 AAAAACAATCTTGAGTGAAATAAATCTTC-T-TTTC-AGT-AAAACTGTCTCAAGCGAGACAAAT
596797 CTTGTTTTAAG
62 CTTGTTTTAAG
* * * * * *
596808 AAAAACAAT-ATGTAGTGAAAT-GA-CTT-GTTTGAGTAAAAATTGTCTTAAGC-A-ACACAATC
1 AAAAACAATCTTG-AGTGAAATAAATCTTCTTTTCAGT-AAAACTGTCTCAAGCGAGACA-AATC
596867 TTGTTTTAAG
63 TTGTTTTAAG
* *
596877 AAAAA-AATCTTGAGTAAAATAAAACGTCTTC-TTTCGAGTAAAACTGTCTCAAGCGAGATAAAG
1 AAAAACAATCTTGAGTGAAAT-AAA--TCTTCTTTTC-AGTAAAACTGTCTCAAGCGAGACAAA-
*
596940 T-GTGTTTTAAG
61 TCTTGTTTTAAG
** * * * * *
596951 AAAAACAATCTCAAGTGAGATAAATCCTCTATATTAAATAAGACTGTCTCAAGCGAGACGAAAT-
1 AAAAACAATCTTGAGTGAAATAAATCTTCT-T-TTCAGTAAAACTGTCTCAAGCGAGAC-AAATC
597015 TTGTTTT
63 TTGTTTT
597022 TAGCAGAAAT
Statistics
Matches: 309, Mismatches: 28, Indels: 51
0.80 0.07 0.13
Matches are distributed among these distances:
68 13 0.04
69 22 0.07
70 17 0.06
71 3 0.01
72 61 0.20
73 30 0.10
74 62 0.20
75 49 0.16
76 52 0.17
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (72 bp):
AAAAACAATCTTGAGTGAAATAAATCTTCTTTTCAGTAAAACTGTCTCAAGCGAGACAAATCTTG
TTTTAAG
Found at i:598243 original size:14 final size:13
Alignment explanation
Indices: 598219--598294 Score: 61
Period size: 14 Copynumber: 5.8 Consensus size: 13
598209 GTCTTTTTTC
598219 TTTG-TTTTTTAT
1 TTTGCTTTTTTAT
598231 TTTGCTCTTTTTAT
1 TTTGCT-TTTTTAT
*
598245 TTT-CTTTTTTTT
1 TTTGCTTTTTTAT
*
598257 CTTTGCTTTTTTCT
1 -TTTGCTTTTTTAT
*
598271 TTACTG-TTTATT-T
1 TT--TGCTTTTTTAT
598284 TTTGCTTTTTT
1 TTTGCTTTTTT
598295 TCTTTGTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
11 2 0.04
12 15 0.28
13 11 0.21
14 23 0.43
15 2 0.04
ACGTcount: A:0.05, C:0.11, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTGCTTTTTTAT
Found at i:598261 original size:39 final size:38
Alignment explanation
Indices: 598212--598304 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 38
598202 GCTTGTTGTC
* *
598212 TTTTTTCTTTGTTTTTTATTTTGCTCTTT-TTATTTT-CTT
1 TTTTTTCTTTGTTTTTT-CTTTACTCTTTATT-TTTTGC-T
*
598251 TTTTTTCTTTGCTTTTTTCTTTACTGTTTATTTTTTGCT
1 TTTTTTCTTTG-TTTTTTCTTTACTCTTTATTTTTTGCT
598290 TTTTTTCTTTGTTTT
1 TTTTTTCTTTGTTTT
598305 GATTTGATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 4 0.08
39 35 0.73
40 9 0.19
ACGTcount: A:0.04, C:0.11, G:0.06, T:0.78
Consensus pattern (38 bp):
TTTTTTCTTTGTTTTTTCTTTACTCTTTATTTTTTGCT
Found at i:598309 original size:26 final size:25
Alignment explanation
Indices: 598212--598309 Score: 85
Period size: 26 Copynumber: 3.8 Consensus size: 25
598202 GCTTGTTGTC
*
598212 TTTTTTCTTTGTTTT-TTATTTTGCT
1 TTTTTTCTTTCTTTTATT-TTTTGCT
*
598237 CTTTTTAT-TTTCTTTTTTTTCTTTGC-
1 -TTTTT-TCTTTCTTTTATTT-TTTGCT
598263 TTTTTTCTTTACTGTTTATTTTTTGCT
1 TTTTTTCTTT-CT-TTTATTTTTTGCT
*
598290 TTTTTTCTTTGTTTTGATTT
1 TTTTTTCTTTCTTTT-ATTT
598310 GATTTTCATA
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
24 1 0.02
25 11 0.18
26 25 0.41
27 24 0.39
ACGTcount: A:0.05, C:0.10, G:0.07, T:0.78
Consensus pattern (25 bp):
TTTTTTCTTTCTTTTATTTTTTGCT
Found at i:608470 original size:2 final size:2
Alignment explanation
Indices: 608465--608499 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
608455 TCATTTTTTG
608465 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
608500 CGAAACTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:609031 original size:2 final size:2
Alignment explanation
Indices: 609024--609067 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
609014 ATTTGTAATA
*
609024 AT AT AT AT GT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
609063 AT AT A
1 AT AT A
609068 ATAGTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:609059 original size:12 final size:12
Alignment explanation
Indices: 609021--609070 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
609011 TTTATTTGTA
609021 ATAATATAT-AT
1 ATAATATATAAT
*
609032 GT-ATATATATAT
1 ATAATATATA-AT
609044 ATATATAATATAAT
1 ATA-AT-ATATAAT
609058 ATAATATATAAT
1 ATAATATATAAT
609070 A
1 A
609071 GTTGAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
10 6 0.19
11 1 0.03
12 11 0.34
13 2 0.06
14 7 0.22
15 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (12 bp):
ATAATATATAAT
Found at i:617319 original size:23 final size:23
Alignment explanation
Indices: 617289--617368 Score: 133
Period size: 23 Copynumber: 3.5 Consensus size: 23
617279 CTCATATACA
*
617289 TGCACCGAAGTGCCACCTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
617312 TGCACCGAAGTGCCATGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
617335 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
617358 TGCACCGAAGT
1 TGCACCGAAGT
617369 ACCATATAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:618645 original size:64 final size:63
Alignment explanation
Indices: 618569--618730 Score: 182
Period size: 64 Copynumber: 2.5 Consensus size: 63
618559 TCTTTAACAT
* * *
618569 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTTTCA-TTTTAAGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
* * ** *
618632 GATGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAATGG
1 G-TGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
* * *
618697 GTGCATCGATACACTTCCTGTTCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
618731 CTGAACAATT
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
63 3 0.04
64 67 0.82
65 12 0.15
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
Found at i:621907 original size:23 final size:23
Alignment explanation
Indices: 621877--621960 Score: 141
Period size: 23 Copynumber: 3.7 Consensus size: 23
621867 CTCATATACA
*
621877 TGCACCGAAGTGCCACCTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
621900 TGCACCGAAGTACCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
621923 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
621946 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
621961 TATAAAATGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.30, C:0.29, G:0.25, T:0.17
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:624260 original size:42 final size:42
Alignment explanation
Indices: 624179--624260 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
624169 CTTGGAATGT
* *
624179 TGGGGCATGTTGAAGGCCCATTTCAGTCAGAAATAATCCATG
1 TGGGGCATGTTGAAGGCCCATTTCAGACAAAAATAATCCATG
* * *
624221 TGGGGCATGTTGAAGGCCTATTTTAGACAAAAATGATCCA
1 TGGGGCATGTTGAAGGCCCATTTCAGACAAAAATAATCCA
624261 ATAGGGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (42 bp):
TGGGGCATGTTGAAGGCCCATTTCAGACAAAAATAATCCATG
Found at i:626363 original size:26 final size:26
Alignment explanation
Indices: 626308--626365 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
626298 GAAGGCCCAG
* *
626308 TTACAAAGTATGGCACGAAGGTCTGG
1 TTACAAAGTAAGGCACGAAGGTCTGA
626334 TTACAAAGTAAGGCAC-ACA-GTCCTGA
1 TTACAAAGTAAGGCACGA-AGGT-CTGA
626360 TTACAA
1 TTACAA
626366 TGAGCCTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
TTACAAAGTAAGGCACGAAGGTCTGA
Found at i:628620 original size:17 final size:17
Alignment explanation
Indices: 628587--628620 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
628577 TGACCCAAGC
* *
628587 TCAAAATAAAAGAAAAA
1 TCAAAAGAAAAAAAAAA
628604 TCAAAAGAAAAAAAAAA
1 TCAAAAGAAAAAAAAAA
628621 CTTCACTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.09
Consensus pattern (17 bp):
TCAAAAGAAAAAAAAAA
Found at i:630051 original size:10 final size:10
Alignment explanation
Indices: 630038--630143 Score: 52
Period size: 10 Copynumber: 10.0 Consensus size: 10
630028 AACACAAATG
630038 AACGAACATA
1 AACGAACATA
630048 AACGAACGGATGTA
1 AACGAAC--A--TA
**
630062 AATAAACATA
1 AACGAACATA
*
630072 AACGAACACA
1 AACGAACATA
*
630082 AACGAACGTA
1 AACGAACATA
* *
630092 AACAAACACAACA
1 AAC-GA-AC-ATA
**
630105 AATAAACATA
1 AACGAACATA
630115 AACGAACATA
1 AACGAACATA
*
630125 AATGAACA-A
1 AACGAACATA
*
630134 AACAAACATA
1 AACGAACATA
630144 TAACATTAAT
Statistics
Matches: 71, Mismatches: 17, Indels: 16
0.68 0.16 0.15
Matches are distributed among these distances:
9 7 0.10
10 45 0.63
11 3 0.04
12 6 0.08
13 3 0.04
14 7 0.10
ACGTcount: A:0.61, C:0.19, G:0.09, T:0.10
Consensus pattern (10 bp):
AACGAACATA
Found at i:630115 original size:43 final size:42
Alignment explanation
Indices: 630061--630141 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 42
630051 GAACGGATGT
*
630061 AAATAAACATAAACGAACACAAACGAACGTAAACAAACACAAC
1 AAATAAACATAAACGAACACAAACGAAC-AAAACAAACACAAC
* *
630104 AAATAAACATAAACGAACATAAATGAACAAAACAAACA
1 AAATAAACATAAACGAACACAAACGAACAAAACAAACA
630142 TATAACATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 9 0.26
43 26 0.74
ACGTcount: A:0.65, C:0.20, G:0.06, T:0.09
Consensus pattern (42 bp):
AAATAAACATAAACGAACACAAACGAACAAAACAAACACAAC
Found at i:630136 original size:19 final size:20
Alignment explanation
Indices: 630060--630143 Score: 62
Period size: 20 Copynumber: 4.1 Consensus size: 20
630050 CGAACGGATG
*
630060 TAAATAAACATAAACGAACA
1 TAAATAAACATAAACAAACA
* ** *
630080 CAAACGAACGTAAACAAACACAA
1 TAAATAAACATAAAC-AA-AC-A
* *
630103 CAAATAAACATAAACGAACA
1 TAAATAAACATAAACAAACA
*
630123 TAAATGAACA-AAACAAACA
1 TAAATAAACATAAACAAACA
630142 TA
1 TA
630144 TAACATTAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
19 10 0.20
20 20 0.41
21 3 0.06
22 3 0.06
23 13 0.27
ACGTcount: A:0.64, C:0.19, G:0.06, T:0.11
Consensus pattern (20 bp):
TAAATAAACATAAACAAACA
Found at i:630138 original size:33 final size:33
Alignment explanation
Indices: 630076--630139 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
630066 AACATAAACG
* *
630076 AACACAAACGAACGTAAACAAACACAACAAATA
1 AACACAAACGAACATAAACAAACAAAACAAATA
* **
630109 AACATAAACGAACATAAATGAACAAAACAAA
1 AACACAAACGAACATAAACAAACAAAACAAA
630140 CATATAACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.66, C:0.20, G:0.06, T:0.08
Consensus pattern (33 bp):
AACACAAACGAACATAAACAAACAAAACAAATA
Found at i:630269 original size:24 final size:24
Alignment explanation
Indices: 630242--630292 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
630232 CTAAAAATAA
*
630242 ATAAACGAA-CAAAAGTAAATGAAC
1 ATAAACGAATCAAAA-TAAACGAAC
*
630266 ATAAACGAATGAAAATAAACGAAC
1 ATAAACGAATCAAAATAAACGAAC
630290 ATA
1 ATA
630293 TTATCGAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.63, C:0.12, G:0.12, T:0.14
Consensus pattern (24 bp):
ATAAACGAATCAAAATAAACGAAC
Found at i:630276 original size:14 final size:14
Alignment explanation
Indices: 630259--630288 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
630249 AACAAAAGTA
*
630259 AATGAACATAAACG
1 AATGAAAATAAACG
630273 AATGAAAATAAACG
1 AATGAAAATAAACG
630287 AA
1 AA
630289 CATATTATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.10, G:0.13, T:0.13
Consensus pattern (14 bp):
AATGAAAATAAACG
Found at i:633779 original size:20 final size:20
Alignment explanation
Indices: 633693--633789 Score: 52
Period size: 20 Copynumber: 4.8 Consensus size: 20
633683 AACGGATTGA
* * *
633693 AATTTGAGAAATCTGGGTTC
1 AATTTGACAAAACTGGTTTC
* ***
633713 AATTTAACAAAACAT-GTAAG
1 AATTTGACAAAAC-TGGTTTC
* * **
633733 AATTTGACAAAACCGATTGG
1 AATTTGACAAAACTGGTTTC
*
633753 AAATTGACAAAACTGGTTTC
1 AATTTGACAAAACTGGTTTC
* *
633773 AATTTGAGAAAATTGGT
1 AATTTGACAAAACTGGT
633790 AAAGAGCTAC
Statistics
Matches: 55, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
20 54 0.98
21 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (20 bp):
AATTTGACAAAACTGGTTTC
Found at i:634919 original size:227 final size:226
Alignment explanation
Indices: 634508--634966 Score: 738
Period size: 227 Copynumber: 2.0 Consensus size: 226
634498 GTATATTGTC
* * *
634508 GAAACCTAGTTTTTTAGTATTACAGTATTCAAAAATAGGGATTAGGTTTATGGGTTTGGGGTTTT
1 GAAACCTAGTTTTTTAGTATTACAATATTCAAAAATAAGGATTAAGTTTATGGGTTTGGGGTTTT
* * *
634573 TGAAGTAAAGAAGGATTTGTGATCAATTACAGGTAGAAAGTGATATTATAGGTAGAAAATAAATA
66 CGAAGTAAAGAAGGATTTGAGACCAATTACAGGTAGAAAGTGATATTATAGGTAGAAAATAAATA
* *
634638 TCGATACTTTTATATAATATTATAGGTAGAAAATAGTAGTGTAGGTTGTATAAAGGTACCAATAT
131 TCGATACTTTTATATAATATTATAGGTAGAAAATAGTAGTGTAGGTTATATAAAGGTACCAATAC
*
634703 TTGTAGTAGAGAGTATTCTCATTCCTTTGAA
196 TTGTAGTAGAGAGTATTCACATTCCTTTGAA
634734 GAAATCCTAGTTTTTTAGTATTACAATATTCAAAAATAAGGATTAAGTTTATGGGTTTGGGGTTT
1 GAAA-CCTAGTTTTTTAGTATTACAATATTCAAAAATAAGGATTAAGTTTATGGGTTTGGGGTTT
* * *
634799 TCGAAGTAAAGAAGGATTTGAGACCGATTACATGTAGAAAGTGATATTCTAGGTAGAAAATAAAT
65 TCGAAGTAAAGAAGGATTTGAGACCAATTACAGGTAGAAAGTGATATTATAGGTAGAAAATAAAT
** * * * *
634864 ATCGATACTTTTATATAATATTATAGGTAGAAAATTTTATTGTTGGTTATATAAAGGTATCGATA
130 ATCGATACTTTTATATAATATTATAGGTAGAAAATAGTAGTGTAGGTTATATAAAGGTACCAATA
634929 CTTGTAGTAGAGAGTATTCACATTCCTTTGAA
195 CTTGTAGTAGAGAGTATTCACATTCCTTTGAA
634961 GGAAAC
1 -GAAAC
634967 TCGGTTACTA
Statistics
Matches: 213, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
226 4 0.02
227 205 0.96
228 4 0.02
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (226 bp):
GAAACCTAGTTTTTTAGTATTACAATATTCAAAAATAAGGATTAAGTTTATGGGTTTGGGGTTTT
CGAAGTAAAGAAGGATTTGAGACCAATTACAGGTAGAAAGTGATATTATAGGTAGAAAATAAATA
TCGATACTTTTATATAATATTATAGGTAGAAAATAGTAGTGTAGGTTATATAAAGGTACCAATAC
TTGTAGTAGAGAGTATTCACATTCCTTTGAA
Found at i:636485 original size:63 final size:63
Alignment explanation
Indices: 636366--636509 Score: 143
Period size: 63 Copynumber: 2.3 Consensus size: 63
636356 AAGCACCTGA
** * * *
636366 AGTGCATCGATGCACTCCTTTAAAATAAAAACATCGAATGTCATCAGTGTATCGATGTACA-AG-
1 AGTGCATCGATGCAC-CCACTAAAATAAAAACATCGAATGGCATCAGTGCACCGATG--CATAGA
636429 T
63 T
* * *
636430 -GCTGCATCGATGCACCCACTAAAATACAAACATCGAATGGGATTTA-TGCACCGATGCATAGAT
1 AG-TGCATCGATGCACCCACTAAAATAAAAACATCGAATGGCA-TCAGTGCACCGATGCATAGAT
636493 AGTGCATCGATGCACCC
1 AGTGCATCGATGCACCC
636510 GTCAAGGGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
61 2 0.03
62 2 0.03
63 47 0.70
64 16 0.24
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (63 bp):
AGTGCATCGATGCACCCACTAAAATAAAAACATCGAATGGCATCAGTGCACCGATGCATAGAT
Found at i:644406 original size:18 final size:18
Alignment explanation
Indices: 644371--644410 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
644361 TGACCGGTCC
*
644371 GACCCGACCTGACCCGTT
1 GACCCGACCCGACCCGTT
* *
644389 GACCCGACCCGGCTCGTT
1 GACCCGACCCGACCCGTT
644407 GACC
1 GACC
644411 GTCGTTGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.45, G:0.25, T:0.15
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:646188 original size:199 final size:198
Alignment explanation
Indices: 645844--646321 Score: 604
Period size: 199 Copynumber: 2.4 Consensus size: 198
645834 AGGGGGTTAC
* * ** ** *
645844 AACGGTAAAAATCTACCAGTTTAATAATAATAGGCATAAACATAAAGAACCATATTTTTTGTATA
1 AACGGTAAAAATCTACCGGTTTAATGATAATAGGTGTAAACATAAAGTTCAATATTTTTTGTATA
* * * * * * * * * *
645909 GGTATCAATATTTTTAGTCTAGTATACTTCTCAAACTACATGCACGTAGAAAGTATTGATACACT
66 GGTATCGATACTTTTAGTCCAATATACTTCTAAAACAACATGCACATAAAAAG-ATCGATACACG
* * * *
645974 TATCATAAGTATCAATACTTATAATTTCGAAACCTGTTACTTCAAAGTAATA-GCTAAATTTATA
130 TATCACAAGTATCAATACTTATAATTTCGAAACCTATTACTTCAAAGTAATATG-TAAAATTACA
646038 ATGTA
194 ATGTA
* **
646043 AA-GCGTAAAAATCTACTGGTTTAATGATAATAGGTGTAAACATAAAGTTTTGATACTTTTTTGT
1 AACG-GTAAAAATCTACCGGTTTAATGATAATAGGTGTAAACATAAAG-TTCAATA-TTTTTTGT
* *
646107 ATATGTATCGATACTTTTAGTCCAATATGCTTCTAAAACAACATGCACATAAAAAG-TCGATACA
63 ATAGGTATCGATACTTTTAGTCCAATATACTTCTAAAACAACATGCACATAAAAAGATCGATACA
* * *
646171 CGTATCACAAGTATCAATACTTATAATTTTGAAATCTATTACTTTAAAGTAATATGTAAAATTAC
128 CGTATCACAAGTATCAATACTTATAATTTCGAAACCTATTACTTCAAAGTAATATGTAAAATTAC
646236 AATGTA
193 AATGTA
*
646242 AACGGTAAAAATCTACCGATTTAATGATAATAGGTGTAAACATAAAGCTTCAATA-TTTTTGTAT
1 AACGGTAAAAATCTACCGGTTTAATGATAATAGGTGTAAACATAAAG-TTCAATATTTTTTGTAT
646306 AGGTATCGATACTTTT
65 AGGTATCGATACTTTT
646322 GATCTAAACA
Statistics
Matches: 240, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
197 24 0.10
198 1 0.00
199 156 0.65
200 5 0.02
201 54 0.22
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (198 bp):
AACGGTAAAAATCTACCGGTTTAATGATAATAGGTGTAAACATAAAGTTCAATATTTTTTGTATA
GGTATCGATACTTTTAGTCCAATATACTTCTAAAACAACATGCACATAAAAAGATCGATACACGT
ATCACAAGTATCAATACTTATAATTTCGAAACCTATTACTTCAAAGTAATATGTAAAATTACAAT
GTA
Found at i:646793 original size:18 final size:18
Alignment explanation
Indices: 646743--646793 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
646733 CGAGACACAA
*
646743 TTCTTCTCAACCAAGGTC
1 TTCTTCTCAACTAAGGTC
*
646761 ATCTTCTCAACTAAGGTC
1 TTCTTCTCAACTAAGGTC
*
646779 TTCTTCTCAAATAAG
1 TTCTTCTCAACTAAG
646794 AAATTCTGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.35
Consensus pattern (18 bp):
TTCTTCTCAACTAAGGTC
Found at i:649218 original size:13 final size:12
Alignment explanation
Indices: 649200--649243 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
649190 AACAATTATA
649200 CAATTTTCAATTT
1 CAATTTT-AATTT
649213 CAATTTTAATTTT
1 CAATTTTAA-TTT
* *
649226 GAATTTGAATTT
1 CAATTTTAATTT
649238 CAATTT
1 CAATTT
649244 GAGCTCCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (12 bp):
CAATTTTAATTT
Found at i:649225 original size:19 final size:19
Alignment explanation
Indices: 649200--649243 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
649190 AACAATTATA
649200 CAATTTTCAATTTCAATTT
1 CAATTTTCAATTTCAATTT
* * *
649219 TAATTTTGAATTTGAATTT
1 CAATTTTCAATTTCAATTT
649238 CAATTT
1 CAATTT
649244 GAGCTCCACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (19 bp):
CAATTTTCAATTTCAATTT
Found at i:650995 original size:180 final size:179
Alignment explanation
Indices: 650649--651122 Score: 548
Period size: 180 Copynumber: 2.6 Consensus size: 179
650639 TTTCAACAAC
* * * *
650649 AAAGTTTCGATATTTAGAATTTTGAAACGTATTACTTTAAATTAATATGTAAATTTACAATGTAA
1 AAAGTATCGATACTTAGAATTTTGAAACGTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
* * * ** * *
650714 ACAGTAACAAATCTATTGGTTTAATGATAATAGGCGTAAACATAACTTATTGATATTTATTATTC
66 ACGGTAA-AAATCTAATCGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTATTC
*
650779 CAATATGCTTATCAAACAATTTGAACGCACAAAGTATC-A-ATACAT-TCAT
130 CAATATGC-TATCAAACAATTTGAACGCAAAAAGTATCGATATACATGT-AT
* * *
650828 AACACGTATCGATACTTATAATTTTGAAACCTATTTCTTTAAAGTAATAGGTAAATTTACAATGT
1 AA-A-GTATCGATACTTAGAATTTTGAAACGTATTACTTTAAAGTAATAGGTAAATTTACAATGT
650893 AAACGGTAAAAATCTACAT-GTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTT-TTAT
64 AAACGGTAAAAATCTA-ATCGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTAT
* * ** *
650956 TTCAGTATG-TACCTCAAACAATTTTCACGCAAAAAAGTATCGATATAGATGTAT
128 TCCAATATGCTA--TCAAACAATTTGAACGC-AAAAAGTATCGATATACATGTAT
** * * * * *
651010 AAAGTATCGATACGCAGAATTTCGAAACGGATTACTTTAAAGTTATAGATAAATTTACAATATAA
1 AAAGTATCGATACTTAGAATTTTGAAACGTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
* *
651075 ACGGTAAAAGTCT-ATCGCTTTAATGATAATAGGCGTAAACATCAAGTA
66 ACGGTAAAAATCTAATCG-TTTAATGATAATAGGCGTAAACATAAAGTA
651123 GCAATATGTT
Statistics
Matches: 253, Mismatches: 31, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
177 2 0.01
178 2 0.01
179 29 0.11
180 146 0.58
181 64 0.25
182 9 0.04
183 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (179 bp):
AAAGTATCGATACTTAGAATTTTGAAACGTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
ACGGTAAAAATCTAATCGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTATTCC
AATATGCTATCAAACAATTTGAACGCAAAAAGTATCGATATACATGTAT
Found at i:651360 original size:20 final size:21
Alignment explanation
Indices: 651318--651361 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
651308 GTAAATGCAA
*
651318 GTATTGATATTGTCTATATAG
1 GTATTGATATTGTCTATACAG
651339 GTATTGATAATT-T-TATACAG
1 GTATTGAT-ATTGTCTATACAG
651359 GTA
1 GTA
651362 ACGAATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 9 0.43
22 3 0.14
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (21 bp):
GTATTGATATTGTCTATACAG
Found at i:651396 original size:20 final size:20
Alignment explanation
Indices: 651365--651455 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
651355 ACAGGTAACG
651365 AATTTGACAAAACCGATTGGA
1 AATTTGACAAAACCGATT-GA
* * *
651386 AA-TTGATAAAACCGGTTAA
1 AATTTGACAAAACCGATTGA
* *
651405 AATTTGACAAAATCAATTGA
1 AATTTGACAAAACCGATTGA
* *
651425 AATTTGATAAAACC-AGTTAA
1 AATTTGACAAAACCGA-TTGA
651445 AATTTGACAAA
1 AATTTGACAAA
651456 GTATCGATAT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
19 4 0.07
20 50 0.89
21 2 0.04
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.27
Consensus pattern (20 bp):
AATTTGACAAAACCGATTGA
Found at i:651432 original size:40 final size:40
Alignment explanation
Indices: 651365--651455 Score: 139
Period size: 40 Copynumber: 2.3 Consensus size: 40
651355 ACAGGTAACG
* *
651365 AATTTGACAAAACCGATTGGAAATTGATAAAACCGGTTAA
1 AATTTGACAAAACCAATTGGAAATTGATAAAACCAGTTAA
*
651405 AATTTGACAAAATCAATT-GAAATTTGATAAAACCAGTTAA
1 AATTTGACAAAACCAATTGGAAA-TTGATAAAACCAGTTAA
651445 AATTTGACAAA
1 AATTTGACAAA
651456 GTATCGATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 4 0.09
40 43 0.91
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.27
Consensus pattern (40 bp):
AATTTGACAAAACCAATTGGAAATTGATAAAACCAGTTAA
Found at i:653607 original size:15 final size:15
Alignment explanation
Indices: 653587--653616 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
653577 GTAATAGGTT
*
653587 TCGAAATTCCAAGTA
1 TCGAAACTCCAAGTA
653602 TCGAAACTCCAAGTA
1 TCGAAACTCCAAGTA
653617 GCGGTATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
TCGAAACTCCAAGTA
Found at i:655583 original size:15 final size:15
Alignment explanation
Indices: 655563--655592 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
655553 GTAATAGGTT
*
655563 TCGAAATTCCAAGTA
1 TCGAAACTCCAAGTA
655578 TCGAAACTCCAAGTA
1 TCGAAACTCCAAGTA
655593 GCGGTATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
TCGAAACTCCAAGTA
Found at i:657560 original size:15 final size:15
Alignment explanation
Indices: 657540--657569 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
657530 GTAATAGGTT
*
657540 TCGAAATTCCAAGTA
1 TCGAAACTCCAAGTA
657555 TCGAAACTCCAAGTA
1 TCGAAACTCCAAGTA
657570 GCGGTATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
TCGAAACTCCAAGTA
Found at i:659535 original size:15 final size:15
Alignment explanation
Indices: 659515--659544 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
659505 GTAATAGGTT
*
659515 TCGAAATTCCAAGTA
1 TCGAAACTCCAAGTA
659530 TCGAAACTCCAAGTA
1 TCGAAACTCCAAGTA
659545 GCGGTATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
TCGAAACTCCAAGTA
Found at i:660111 original size:130 final size:127
Alignment explanation
Indices: 659838--660158 Score: 385
Period size: 130 Copynumber: 2.5 Consensus size: 127
659828 TATATTCTCC
* * ** *
659838 ATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAGGTTAATTTCCAATGTAAACGGTAAAA
1 ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAAA
* * *
659903 GTCAATCGGTATAATGATAATATGCGTAAACATCAAGGATCGATACACATGTATAAAGTATCG
66 GTCAATCGGTATAATGAAAATAGGAGTAAACATCAAGGATCGATA-ACATGTATAAAGTATCG
* ** * *
659966 ATACGTGGAATTTTGAAATCTATTACTTTATAGTAATAGGTAAATTAACAATGTACACGGTAAAT
1 ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAA-
** * ** * *
660031 TTTTCTATCGGTATAATGAAAATAGGAGTAAATGTTCAAGTATTGAT-AC-TGTCATATAAGTAT
65 -AGTCAATCGGTATAATGAAAATAGGAGTAAA-CATCAAGGATCGATAACATGT-ATA-AAGTAT
660094 CG
126 CG
*
660096 ATTCTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAA
1 ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAA
660159 TATGTTGAAC
Statistics
Matches: 162, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
128 57 0.35
129 5 0.03
130 90 0.56
131 10 0.06
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (127 bp):
ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAAA
GTCAATCGGTATAATGAAAATAGGAGTAAACATCAAGGATCGATAACATGTATAAAGTATCG
Found at i:660209 original size:130 final size:125
Alignment explanation
Indices: 659838--660210 Score: 349
Period size: 130 Copynumber: 2.9 Consensus size: 125
659828 TATATTCTCC
* * ** * *
659838 ATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAGGTTAATTTCCAATGTAAACGGTAAAA
1 ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAAT
* * * * * *
659903 GTCAA-TCGGTATAATGATAATATGCGTAAACATCAAGGATCGATACACATGTATAAAGTATCG
66 GTTAACTTGGTATAAT-AAAATAGGCATAAACATCAAGTATCGAT--AC-TGTATAAAGTATCG
* ** * *
659966 ATACGTGGAATTTTGAAATCTATTACTTTATAGTAATAGGTAAATTAACAATGTACACGGTAAAT
1 ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAAT
** ** *
660031 -TTTTCTATCGGTATAATGAAAATAGG-AGTAAATGTTCAAGTATTGATACTGTCATATAAGTAT
66 GTTAACT-T-GGTATAAT-AAAATAGGCA-TAAA-CATCAAGTATCGATACTGT-ATA-AAGTAT
660094 CG
124 CG
*
660096 ATTCTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAATA
1 ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAA-A
** *
660161 TGTTGAACCTTGGTA-CCTAACAATAGGCATAAACATAAAGTATCGATACT
65 TGTT-AA-CTTGGTATAATAA-AATAGGCATAAACATCAAGTATCGATACT
660211 CTTTGTATAG
Statistics
Matches: 196, Mismatches: 36, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
127 1 0.01
128 58 0.30
129 5 0.03
130 99 0.51
131 23 0.12
132 7 0.04
133 1 0.01
134 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (125 bp):
ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAAT
GTTAACTTGGTATAATAAAATAGGCATAAACATCAAGTATCGATACTGTATAAAGTATCG
Found at i:660436 original size:199 final size:200
Alignment explanation
Indices: 660068--660633 Score: 687
Period size: 200 Copynumber: 2.8 Consensus size: 200
660058 GTAAATGTTC
* *
660068 AAGTATTGATAC-TGTCATATAAGTATCGATTCTTATAATTTTGAAACCTATTACTTTAAAGTAA
1 AAGTATTGATACATGT-ATACAAGTATCGATACTTATAATTTTGAAACCTATTACTTTAAAGTAA
* * * * * * * *
660132 TAGGTAAATTAACAATGTACACGGT-AATATGT-T-GAACCTTGGTACCTAACAATAGGCATAAA
65 TAGGTAAATTTACAATGTAAATGGTAAAAATCTATCG-A-CTT--TA-ATGATAATAGGCATAAA
* *
660194 CATAAAGTATCGATACTCTTTGTATAGGTATCGATACTTTTAGTCCAATATGTTTCTC-AACAAT
125 CATAAAGTATCGATACTCTTTGTATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAAC
* * *
660258 TTATACGCAAA
190 ATACACACAAA
* * *
660269 AAGTATTGATACATGTATAACAAGTATCGATACTTATAATTTCGAAACCAATTACTTTAAAGTTA
1 AAGTATTGATACATGTAT-ACAAGTATCGATACTTATAATTTTGAAACCTATTACTTTAAAGTAA
* *
660334 TAGGTAAATTTACAATGTAAATGATAAAAATCTATCGA-TTTAATGATAATAGGCGTAAACATAA
65 TAGGTAAATTTACAATGTAAATGGTAAAAATCTATCGACTTTAATGATAATAGGCATAAACATAA
* ** * *
660398 AATATCGATACTCTTTGTATATATATCGATACTTTTAGTCCAATATGCTTCTCAAATAACATGCA
130 AGTATCGATACTCTTTGTATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAACATACA
660463 CACAAA
195 CACAAA
* * *
660469 AAGTATCGATACATGTATCACAAGTATCAATACTTATAATTTTGAAACCTATTACATTAAAGTAA
1 AAGTATTGATACATGTAT-ACAAGTATCGATACTTATAATTTTGAAACCTATTACTTTAAAGTAA
* * * * * *
660534 TAGGTAAATATACAATATAAATGGTAAAAATCTA-CCAGTTTAATGATAATAGGCTTGAACATAA
65 TAGGTAAATTTACAATGTAAATGGTAAAAATCTATCGACTTTAATGATAATAGGCATAAACATAA
* *
660598 AGTTTCGATACTTTTTGTATAGGTATCGATACTTTT
130 AGTATCGATACTCTTTGTATAGGTATCGATACTTTT
660634 GATCTAAACA
Statistics
Matches: 315, Mismatches: 43, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
199 69 0.22
200 157 0.50
201 14 0.04
202 67 0.21
203 5 0.02
204 2 0.01
205 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (200 bp):
AAGTATTGATACATGTATACAAGTATCGATACTTATAATTTTGAAACCTATTACTTTAAAGTAAT
AGGTAAATTTACAATGTAAATGGTAAAAATCTATCGACTTTAATGATAATAGGCATAAACATAAA
GTATCGATACTCTTTGTATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAACATACAC
ACAAA
Found at i:661246 original size:226 final size:226
Alignment explanation
Indices: 660816--661502 Score: 923
Period size: 226 Copynumber: 3.0 Consensus size: 226
660806 TAACAAATCA
* * * * * *
660816 AGTAATTAACCTATTTTATTATCTTCAAATTTCTAAGGCTCTATCATCTTTAAACTTTGGTAACA
1 AGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCTCCATCAGC-TTAAACTTTGGTAACA
*
660881 TTTTAGGCGCTACCTAATATGTTGATAATAATGATAACAAATTAAGTAATTAACCTATTTTGTT-
65 TTTTAGGCGCTACCTAATATGTTGATAATAATAATAACAAATTAAGTAATTAACCTATTTTGTTA
* * * *
660945 GCGTCGGATTTCTAAGGCCCCATCAGCTTTAAACATA-CGCTACCTATTATATTAAATAAGCGCT
130 TCGTCGGATTTCTAAGTCCCCATCAGCTTTAAACA-AGCGCTACCTATTATGTTAAATAAACGCT
661009 ACTTGTTATGTTATTATGGTTGATAATGTTTCC
194 ACTTGTTATGTTATTATGGTTGATAATGTTTCC
* *
661042 AGTAATTAACATATTTTGTTATCGT-AGGGTTTCTAAGGCTCCATCAGCATAAACTTTGGTAACA
1 AGTAATTAACATATTTTGTTATCGTCA-GATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACA
* * *
661106 TTTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACATATTTTGTTA
65 TTTTAGGCGCTACCTAATATGTTGATAATAATAATAACAAATTAAGTAATTAACCTATTTTGTTA
* * * * ** *
661171 TAGTCGAATTTCCAAGTCCTCATCAGCTTTAAACAAGCGCTACCTATTATGTTAAATAATTGTTA
130 TCGTCGGATTTCTAAGTCCCCATCAGCTTTAAACAAGCGCTACCTATTATGTTAAATAAACGCTA
* *
661236 GTTGTTATGTTATTATGGTTGATAATATTTCC
195 CTTGTTATGTTATTATGGTTGATAATGTTTCC
* * * * *
661268 AATAATTAACATATTTTGTTATTGTCAGATTTCTAAGACTTCATCAGCTTAAACTTTGGTAATAT
1 AGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
* * * * *
661333 TTTAGGCACTACCTAATATATTGATAATATTAATAACAAATCAAGTAATTAACCTATTTTATTAT
66 TTTAGGCGCTACCTAATATGTTGATAATAATAATAACAAATTAAGTAATTAACCTATTTTGTTAT
* * * *
661398 CGTCGGATTTCTAAGTCCCCATCAACTTTAAA-AATGCGCTACCTATTACGATACATAAACGCTA
131 CGTCGGATTTCTAAGTCCCCATCAGCTTTAAACAA-GCGCTACCTATTATGTTAAATAAACGCTA
* ** *
661462 CATAATATGTTATTATGGCTGATAATGTTTCC
195 CTTGTTATGTTATTATGGTTGATAATGTTTCC
661494 AGTAATTAA
1 AGTAATTAA
661503 TCGGTTATGT
Statistics
Matches: 400, Mismatches: 56, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
225 79 0.20
226 320 0.80
227 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (226 bp):
AGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
TTTAGGCGCTACCTAATATGTTGATAATAATAATAACAAATTAAGTAATTAACCTATTTTGTTAT
CGTCGGATTTCTAAGTCCCCATCAGCTTTAAACAAGCGCTACCTATTATGTTAAATAAACGCTAC
TTGTTATGTTATTATGGTTGATAATGTTTCC
Found at i:665003 original size:19 final size:20
Alignment explanation
Indices: 664979--665022 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
664969 TTTTACTAAA
664979 CGCATCGGCA-CGCATCA-AC
1 CGCATCGG-ATCGCATCAGAC
664998 CGCATCGGATCGCATCAGAC
1 CGCATCGGATCGCATCAGAC
665018 CGCAT
1 CGCAT
665023 TATGTACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.25, C:0.39, G:0.23, T:0.14
Consensus pattern (20 bp):
CGCATCGGATCGCATCAGAC
Found at i:666919 original size:221 final size:225
Alignment explanation
Indices: 666504--666956 Score: 745
Period size: 221 Copynumber: 2.0 Consensus size: 225
666494 TAAAATTTTC
666504 TAATTTATATAAAAATTAAATATTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATAT
1 TAATTTATATAAAAATTAAATATTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATAT
*
666569 ATAATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAG
66 ATAATTATAAAATAAAAATTTTATATAAAATTTTT-ATTAATTAATAATGATTTAGGTTTAAAAG
666634 TTATTGAATCTTAAATTATTAATTAAGTTTTAAATAGTTTGGGCTAAACTCATATGTTATATATA
130 TTATTGAATCTTAAATTATTAATTAAGTTTTAAATAGTTTGGGCTAAACTCATATGTTATATATA
* *
666699 ATATATTTAATATTTAAAATTTAATTTCGGT
195 ATATATTTAAAATTTAAAATTAAATTTCGGT
666730 TAATTTATATAAAAATTAAATATTTTTTAATTC-AAAAAACAGTTTACAATTAATTTAAATAATA
1 TAATTTATATAAAAATTAAATA-TTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATA
*
666794 TATAATTATAAAATAAAAA-TTTATAT-AAA-TTTT-TTAATTAATAATGCTTTAGGTTTAAAAG
65 TATAATTATAAAATAAAAATTTTATATAAAATTTTTATTAATTAATAATGATTTAGGTTTAAAAG
** * * * **
666855 TTATTGAATCTTAAATTATTAATTGTGTTTTAAATGGTTTGGGTTGAGGTCATATGTTATATATA
130 TTATTGAATCTTAAATTATTAATTAAGTTTTAAATAGTTTGGGCTAAACTCATATGTTATATATA
*
666920 ATATATTTAAAATTTAAAATTAAATTTCGTT
195 ATATATTTAAAATTTAAAATTAAATTTCGGT
666951 TAATTT
1 TAATTT
666957 GTTAATTAAC
Statistics
Matches: 214, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
221 118 0.55
223 4 0.02
224 3 0.01
225 7 0.03
226 72 0.34
227 10 0.05
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (225 bp):
TAATTTATATAAAAATTAAATATTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATAT
ATAATTATAAAATAAAAATTTTATATAAAATTTTTATTAATTAATAATGATTTAGGTTTAAAAGT
TATTGAATCTTAAATTATTAATTAAGTTTTAAATAGTTTGGGCTAAACTCATATGTTATATATAA
TATATTTAAAATTTAAAATTAAATTTCGGT
Found at i:670747 original size:35 final size:35
Alignment explanation
Indices: 670707--670800 Score: 118
Period size: 35 Copynumber: 2.7 Consensus size: 35
670697 TGCCATCTCA
* * * *
670707 TAATGCTCTATTTCAGCAACTTTTCAATGGTCAAT
1 TAATGCACCATTTAAGCAACTTTTCAATGGCCAAT
*
670742 TAATGCACCATTTTAA-CAACTTTTCAGTGGCCAAT
1 TAATGCACCA-TTTAAGCAACTTTTCAATGGCCAAT
*
670777 TAATGCACCATATAAGCAACTTTT
1 TAATGCACCATTTAAGCAACTTTT
670801 TAGAAAACTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
34 4 0.08
35 43 0.84
36 4 0.08
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (35 bp):
TAATGCACCATTTAAGCAACTTTTCAATGGCCAAT
Found at i:670913 original size:31 final size:32
Alignment explanation
Indices: 670878--670939 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
670868 AATGCACCAT
* *
670878 TTCAGTAAC-TTTCAGTGGTCATTTAATCATC
1 TTCAGCAACTTTTCAGAGGTCATTTAATCATC
*
670909 TTCAGCAACTTTTCAGAGGTTATTTAATCAT
1 TTCAGCAACTTTTCAGAGGTCATTTAATCAT
670940 GGCAGAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (32 bp):
TTCAGCAACTTTTCAGAGGTCATTTAATCATC
Found at i:671307 original size:144 final size:138
Alignment explanation
Indices: 670969--671315 Score: 365
Period size: 144 Copynumber: 2.5 Consensus size: 138
670959 TTAATGCACC
* * * *
670969 ATTTCTCATAGGCCAAATAATGCACCATGGT-AGAAACTTTTTTAGTGGTCATTTAGTCATCTTC
1 ATTTCTCATAAGCCAAATAATGCACCAT-GTCAAAAAC-TTTTCAGTGGTCATTTAATCATCTTC
** * *
671033 AACAACTTTTCAGTGATATATACATTTCAGAAAACTTTTAACTGGTGCATTATCACTTCATATAA
64 AACAAAATTTCAGTGATATATACATTTCAGAAAAATTTTAACTGGTGCATTATCAATTCATATAA
*
671098 GAAAACATGT
129 AAAAACATGT
* * * *** *
671108 ATTTCTCATAAGCCAAATAATACACCATGGCAAAAACTTTTCAATACACAATTAATCATCTTCAA
1 ATTTCTCATAAGCCAAATAATGCACCATGTCAAAAACTTTTCAGTGGTCATTTAATCATCTTCAA
* * *
671173 CAAAATTTCAGTGATATATCAACTTATTTTAGAAAAAAATTTT-AGTGGTGCATTATTAATTCAT
66 CAAAATTTCAGTGATATAT--AC--ATTTCAG--AAAAATTTTAACTGGTGCATTATCAATTCAT
**
671237 ATGAAAAAAATGTGT
125 AT-AAAAAAACATGT
* * ** *
671252 ATTTCTCATAAGCTAAATAATGCACCATTTCACCAACTTTTCAGTGGTCATTTAATAATCTTCA
1 ATTTCTCATAAGCCAAATAATGCACCATGTCAAAAACTTTTCAGTGGTCATTTAATCATCTTCA
671316 TCAACTATTA
Statistics
Matches: 167, Mismatches: 33, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
138 39 0.23
139 31 0.19
140 2 0.01
142 6 0.04
143 20 0.12
144 69 0.41
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (138 bp):
ATTTCTCATAAGCCAAATAATGCACCATGTCAAAAACTTTTCAGTGGTCATTTAATCATCTTCAA
CAAAATTTCAGTGATATATACATTTCAGAAAAATTTTAACTGGTGCATTATCAATTCATATAAAA
AAACATGT
Found at i:672970 original size:85 final size:85
Alignment explanation
Indices: 672827--672997 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
672817 GTCATCGTCT
672827 TCATCATCATCTTGGTTTCATTGTTCAAAAGGAGGTGTACTTAAAACAATCTAAGATTCACCTTT
1 TCATCATCATCTTGGTTTCATTGTTCAAAAGGAGGTGTACTTAAAACAATCTAAGATTCACCTTT
672892 GAAAAAGAGTGATGCGTTTA
66 GAAAAAGAGTGATGCGTTTA
* * *
672912 TCATCATCATCTTGGTTTCATTTTTCAAAAGGAGGTGTACTTAAAACAGTCTAAGATTCACTTTT
1 TCATCATCATCTTGGTTTCATTGTTCAAAAGGAGGTGTACTTAAAACAATCTAAGATTCACCTTT
*
672977 GAAATAGAGTGATGCGTTTA
66 GAAAAAGAGTGATGCGTTTA
672997 T
1 T
672998 GGTATTTGAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (85 bp):
TCATCATCATCTTGGTTTCATTGTTCAAAAGGAGGTGTACTTAAAACAATCTAAGATTCACCTTT
GAAAAAGAGTGATGCGTTTA
Found at i:675267 original size:20 final size:21
Alignment explanation
Indices: 675228--675269 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
675218 TATACATTGG
675228 GTTATGAAAGTAAGTGTGAAA
1 GTTATGAAAGTAAGTGTGAAA
675249 GTTATGAAAAGT-A-TGTGAAA
1 GTTATG-AAAGTAAGTGTGAAA
675269 G
1 G
675270 AAAAGAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 7 0.35
22 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (21 bp):
GTTATGAAAGTAAGTGTGAAA
Found at i:687081 original size:49 final size:49
Alignment explanation
Indices: 686938--687212 Score: 281
Period size: 49 Copynumber: 5.7 Consensus size: 49
686928 TTAAATCATG
* * ** *
686938 AGTGGCACCTTTTATACC-AAAATGCATTGTTATGAATTTAACTTGCATT
1 AGTGGCACC-TTTCTGCCAAAAATGCACCGTTATGCATTTAACTTGCATT
* * * *
686987 AGT-GAACCTTTCTGCCAAAACA--CACTGTTATGCCTTTATCTTGCATT
1 AGTGGCACCTTTCTGCCAAAA-ATGCACCGTTATGCATTTAACTTGCATT
* * *
687034 AGTGGCACATTTCTGCCAAAAATGCACCGTTATGTATTTAAATTGCATT
1 AGTGGCACCTTTCTGCCAAAAATGCACCGTTATGCATTTAACTTGCATT
** * *
687083 AGTGGCACCTTTCTGCCAAAAATGCACCGCCATGCATTTAATTTACATT
1 AGTGGCACCTTTCTGCCAAAAATGCACCGTTATGCATTTAACTTGCATT
* * *
687132 AGTGGCACCTTTCGGCC-AAAATACACCGTTATGCATTTAATTTGCATT
1 AGTGGCACCTTTCTGCCAAAAATGCACCGTTATGCATTTAACTTGCATT
** * * *
687180 AGTGGCACCTACCTACAAAAAATGTACCGTTAT
1 AGTGGCACCTTTCTGCCAAAAATGCACCGTTAT
687213 AAAAATATAT
Statistics
Matches: 188, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
47 31 0.16
48 61 0.32
49 96 0.51
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (49 bp):
AGTGGCACCTTTCTGCCAAAAATGCACCGTTATGCATTTAACTTGCATT
Found at i:687159 original size:97 final size:97
Alignment explanation
Indices: 686966--687189 Score: 276
Period size: 97 Copynumber: 2.3 Consensus size: 97
686956 AAAATGCATT
* * * ** * *
686966 GTTATGAATTTAACTTGCATTAGT-GAACCTTTCTGCCAAAACACACTGTTATGCCTTTATCTTG
1 GTTATGAATTTAAATTGCATTAGTGGCACCTTTCTGCCAAAACACACCGCCATGCATTTATCTTA
* *
687030 CATTAGTGGCACATTTCTGCCAAAAATGCACC
66 CATTAGTGGCACATTTCGGCCAAAAATACACC
*
687062 GTTATGTATTTAAATTGCATTAGTGGCACCTTTCTGCCAAAA-ATGCACCGCCATGCATTTAAT-
1 GTTATGAATTTAAATTGCATTAGTGGCACCTTTCTGCCAAAACA--CACCGCCATGCATTT-ATC
*
687125 TTACATTAGTGGCACCTTTCGGCC-AAAATACACC
63 TTACATTAGTGGCACATTTCGGCCAAAAATACACC
* *
687159 GTTATGCATTTAATTTGCATTAGTGGCACCT
1 GTTATGAATTTAAATTGCATTAGTGGCACCT
687190 ACCTACAAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
96 23 0.21
97 54 0.49
98 32 0.29
99 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (97 bp):
GTTATGAATTTAAATTGCATTAGTGGCACCTTTCTGCCAAAACACACCGCCATGCATTTATCTTA
CATTAGTGGCACATTTCGGCCAAAAATACACC
Found at i:687201 original size:97 final size:98
Alignment explanation
Indices: 687030--687208 Score: 261
Period size: 97 Copynumber: 1.8 Consensus size: 98
687020 CTTTATCTTG
* * * **
687030 CATTAGTGGCACATTTCTGCCAAAAATGCACCGTTATGTATTTAAATTGCATTAGTGGCACCTTT
1 CATTAGTGGCACATTTCGGCCAAAAATACACCGTTATGCATTTAAATTGCATTAGTGGCACCTAC
* *
687095 CTGCCAAAAATGCACCGCCATGCATTTAATTTA
66 CTACAAAAAATGCACCGCCATGCATTTAATTTA
* *
687128 CATTAGTGGCACCTTTCGGCC-AAAATACACCGTTATGCATTTAATTTGCATTAGTGGCACCTAC
1 CATTAGTGGCACATTTCGGCCAAAAATACACCGTTATGCATTTAAATTGCATTAGTGGCACCTAC
*
687192 CTACAAAAAATGTACCG
66 CTACAAAAAATGCACCG
687209 TTATAAAAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
97 52 0.73
98 19 0.27
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (98 bp):
CATTAGTGGCACATTTCGGCCAAAAATACACCGTTATGCATTTAAATTGCATTAGTGGCACCTAC
CTACAAAAAATGCACCGCCATGCATTTAATTTA
Found at i:693909 original size:98 final size:98
Alignment explanation
Indices: 693731--694030 Score: 322
Period size: 98 Copynumber: 3.1 Consensus size: 98
693721 TTTTATGCCG
* * * * * * *
693731 AAATGCACCATTATGTATTTAACTTGCATTAGAGGCACCTTTATGCAAAAAATGCACTATTGTGC
1 AAATGCACCGTTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCAC-ATTATGC
* *
693796 CTTTATCTTGCATTAGTGA-CACCTTTCTACAAA
65 ATTTAACTTGCATTAGTGAGCACCTTTCTACAAA
* * *
693829 AAATACACCGTTATGCATTTAACTTGCATTAGTGACACTTTTCTGCCAAAAATGCATCGTTATGC
1 AAATGCACCGTTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCA-CATTATGC
* **
693894 ATTTAACTTGAATTAGT-AGCACCTTTCTACCCA
65 ATTTAACTTGCATTAGTGAGCACCTTTCTACAAA
* * * * *
693927 AAATGCATCGTTATGCATTTAATTTGCATTAGTGACACCTTTCTGCC-AAAATACACCCTAATGC
1 AAATGCACCGTTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCA-CATTATGC
* * *
693991 ATTTAATTTGCATTAGTG-GTACC-TTCTTACCAA
65 ATTTAACTTGCATTAGTGAGCACCTTTC-TACAAA
694024 AAATGCA
1 AAATGCA
694031 TAGTTATAAA
Statistics
Matches: 171, Mismatches: 27, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
96 3 0.02
97 45 0.26
98 122 0.71
99 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (98 bp):
AAATGCACCGTTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCACATTATGCA
TTTAACTTGCATTAGTGAGCACCTTTCTACAAA
Found at i:694015 original size:48 final size:48
Alignment explanation
Indices: 693712--694008 Score: 272
Period size: 49 Copynumber: 6.1 Consensus size: 48
693702 TTAAACCATG
* * * * * *
693712 AGTGGCACCTTTTATGCCGAAATGCACCATTATGTATTTAACTTGCATT
1 AGTGACACC-TTTCTGCCAAAATACACCGTTATGCATTTAACTTGCATT
* * * * * ** * * *
693761 AGAGGCACCTTTATGCAAAAAATGCACTATTGTGCCTTTATCTTGCATT
1 AGTGACACCTTTCTGC-CAAAATACACCGTTATGCATTTAACTTGCATT
* *
693810 AGTGACACCTTTCTACAAAAAATACACCGTTATGCATTTAACTTGCATT
1 AGTGACACCTTTCTGC-CAAAATACACCGTTATGCATTTAACTTGCATT
* * * *
693859 AGTGACACTTTTCTGCCAAAAATGCATCGTTATGCATTTAACTTGAATT
1 AGTGACACCTTTCTGCC-AAAATACACCGTTATGCATTTAACTTGCATT
* * * *
693908 AGT-AGCACCTTTCTACCCAAAATGCATCGTTATGCATTTAATTTGCATT
1 AGTGA-CACCTTTCT-GCCAAAATACACCGTTATGCATTTAACTTGCATT
* * *
693957 AGTGACACCTTTCTGCCAAAATACACCCTAATGCATTTAATTTGCATT
1 AGTGACACCTTTCTGCCAAAATACACCGTTATGCATTTAACTTGCATT
694005 AGTG
1 AGTG
694009 GTACCTTCTT
Statistics
Matches: 210, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
48 41 0.20
49 166 0.79
50 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (48 bp):
AGTGACACCTTTCTGCCAAAATACACCGTTATGCATTTAACTTGCATT
Found at i:700851 original size:3 final size:3
Alignment explanation
Indices: 700843--700874 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
700833 AAATAAATGT
700843 TAA TAA TAA TAA TAA TAA TAA TAA TTAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA T
700875 TAAAAACCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:701469 original size:139 final size:139
Alignment explanation
Indices: 701265--702023 Score: 808
Period size: 139 Copynumber: 5.5 Consensus size: 139
701255 TGTTCTAGAA
* * * ** *
701265 GTATTTGG-G-TAATTTGGACATAACATAGTTCCTTCGTGTTGAGGAAGTCTGGTTATCTGAGGA
1 GTATTTGGAGATAATTTGGAGATAACATGGTTCCTTCGCGTTGAGGAAGTCTAATTGTCTGAGGA
* * * * * *
701328 TGACACTTCTCCTTCACGTTGAGGAGATCTGGTCGGTGGATGACCTTGCTCCTCCATGTTGAGGA
66 TGACACTACTCCTTCACGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCGTGTTGAGGA
* *
701393 CATCTACCC
131 CGTCTAGCC
* * * * * * *
701402 GTATTTAGAGATAGTTTTGAGATAACATGGTTCTTTCGTGTTTAGGAAGTCTAATTGTTTGAGGA
1 GTATTTGGAGATAATTTGGAGATAACATGGTTCCTTCGCGTTGAGGAAGTCTAATTGTCTGAGGA
* * * * *
701467 TGACACTACTCCTTCGCGTTGAGAAGATCTAGTCAGTGGACGACATTGTTCCTTCATGTTGAGGA
66 TGACACTACTCCTTCACGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCGTGTTGAGGA
*
701532 CGTCTAGGC
131 CGTCTAGCC
* * * * *
701541 GTATTTGGAGATAATTTGGAGATAACAAGGTTCATTCGCGTTGAAGAAGTATAATTGTTTGAGGA
1 GTATTTGGAGATAATTTGGAGATAACATGGTTCCTTCGCGTTGAGGAAGTCTAATTGTCTGAGGA
* * * * *
701606 TGACATTACTCCTTTACGTTAAGGAGATCTGGTCGGTGGACAACATTATTCCTTCGTGTTGAGGA
66 TGACACTACTCCTTCACGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCGTGTTGAGGA
701671 CGTCTAGCC
131 CGTCTAGCC
* * * * * **
701680 GTATTTGGAGATAATATGGATACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTACCTGAGGA
1 GTATTTGGAGATAATTTGGAGATAACATGGTTCCTTCGCGTTGAGGAAGTCTAATTGTCTGAGGA
* * * * ** * *
701745 TGACTCTACTCCTTCGCGTTTAGGAGATCTAGTCAATGAACGACCTTGTTCCTTCGTGTTGAGGA
66 TGACACTACTCCTTCACGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCGTGTTGAGGA
*
701810 AGTCTAGCC
131 CGTCTAGCC
* ** * * * * *
701819 GTATTTGGAGATAATTTGGAGACAACACAGTTCCTTCACATTGAGGAAGTATGATTGTCTGAGAA
1 GTATTTGGAGATAATTTGGAGATAACATGGTTCCTTCGCGTTGAGGAAGTCTAATTGTCTGAGGA
* * * * * *
701884 TGACACTGCTCTTTCACATTTAGGAGATCTGGTCGGTGGAGGACATTGTTCCTTCGTGTTGAAGA
66 TGACACTACTCCTTCACGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCGTGTTGAGGA
701949 CGTCTAGCC
131 CGTCTAGCC
* * * * * * *
701958 GTCTTT-G-GATAATTTGAAGATAACAAT-GTTCATTCGTGTTGAGGAAATCTAATTATCTAAGG
1 GTATTTGGAGATAATTTGGAGATAAC-ATGGTTCCTTCGCGTTGAGGAAGTCTAATTGTCTGAGG
702020 ATGA
65 ATGA
702024 TACTTTAAAA
Statistics
Matches: 516, Mismatches: 103, Indels: 6
0.83 0.16 0.01
Matches are distributed among these distances:
137 51 0.10
138 3 0.01
139 462 0.90
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (139 bp):
GTATTTGGAGATAATTTGGAGATAACATGGTTCCTTCGCGTTGAGGAAGTCTAATTGTCTGAGGA
TGACACTACTCCTTCACGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCGTGTTGAGGA
CGTCTAGCC
Found at i:702442 original size:65 final size:63
Alignment explanation
Indices: 702355--702490 Score: 161
Period size: 65 Copynumber: 2.1 Consensus size: 63
702345 TCAAGCGATA
* ** * *
702355 CAAAATTTGTTTTGAGGAAAACTATCTCAAAGGTGAC-AAATTTG-TTTTAAGTGAAACAATTT
1 CAAAATTTGTTTTGAGGAAAACTATCTCAAACGAAACAAAATTTGTTTTTAAG-AAAACAATCT
*
702417 CAAAATTTGTGTTTCAGAGGAAAACTGTCTCAAACGAAACAAAATTTGTTTTTAAGAAAACAATC
1 CAAAATTTGT-TTT--GAGGAAAACTATCTCAAACGAAACAAAATTTGTTTTTAAGAAAACAATC
702482 T
63 T
702483 C-AAATTTG
1 CAAAATTTG
702491 ACAGACTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
62 10 0.16
63 3 0.05
65 27 0.43
66 16 0.25
67 7 0.11
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (63 bp):
CAAAATTTGTTTTGAGGAAAACTATCTCAAACGAAACAAAATTTGTTTTTAAGAAAACAATCT
Found at i:702493 original size:101 final size:101
Alignment explanation
Indices: 702302--702486 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
702292 ATTTTATTTC
* * *
702302 AAGTGAAACAATTTCAAAATTTGTGTTTCGAGGGAAAATTATCTCAAGCGATACAAAATTTGTTT
1 AAGTGAAACAATTTCAAAATTTGTGTTTCGAGGGAAAACTATCTCAAACGAAACAAAATTTGTTT
* *
702367 TGAGGAAAACTATCTCAAAGGTGACAAATTTGTTTT
66 TGAAGAAAACAATCTCAAAGGTGACAAATTTGTTTT
*
702403 AAGTGAAACAATTTCAAAATTTGTGTTTC-AGAGGAAAACTGTCTCAAACGAAACAAAATTTGTT
1 AAGTGAAACAATTTCAAAATTTGTGTTTCGAG-GGAAAACTATCTCAAACGAAACAAAATTTGTT
*
702467 TTTAAGAAAACAATCTCAAA
65 TTGAAGAAAACAATCTCAAA
702487 TTTGACAGAC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 2 0.03
101 74 0.97
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (101 bp):
AAGTGAAACAATTTCAAAATTTGTGTTTCGAGGGAAAACTATCTCAAACGAAACAAAATTTGTTT
TGAAGAAAACAATCTCAAAGGTGACAAATTTGTTTT
Found at i:705127 original size:6 final size:6
Alignment explanation
Indices: 705116--705173 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
705106 TTTTTCTCTT
* * *
705116 TTTTTC TTTTTC TTTTTTC TTTTTC -TTGTC TTTAT- TTCTTC TTTTT-
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
705162 TTGTTTC TTTTT
1 TT-TTTC TTTTT
705174 TTTCTATACT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
5 9 0.21
6 25 0.60
7 8 0.19
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:705131 original size:13 final size:13
Alignment explanation
Indices: 705115--705174 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
705105 TTTTTTCTCT
705115 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
705128 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
*
705141 TTGTCTTTATTTCTTC
1 TT-T-TTTCTTT-TTC
*
705157 TTTTTT-TGTTTC
1 TTTTTTCTTTTTC
705169 TTTTTT
1 TTTTTT
705175 TTCTATACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
12 9 0.21
13 17 0.40
14 4 0.10
15 7 0.17
16 5 0.12
ACGTcount: A:0.02, C:0.13, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:705175 original size:13 final size:12
Alignment explanation
Indices: 705104--705176 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 12
705094 CTTACTATTC
*
705104 TTTTTTTCTCTTT
1 TTTTTTTTTC-TT
705117 TTTTCTTTTTCTT
1 TTTT-TTTTTCTT
705130 TTTTCTTTTTCTT
1 TTTT-TTTTTCTT
705143 GTCTTTATTTCTTCTT
1 -T-TTT-TTT-TTCTT
*
705159 TTTTTGTTTCTT
1 TTTTTTTTTCTT
705171 TTTTTT
1 TTTTTT
705177 CTATACTCGC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
12 10 0.19
13 21 0.40
14 9 0.17
15 7 0.13
16 5 0.10
ACGTcount: A:0.01, C:0.14, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:710493 original size:3 final size:3
Alignment explanation
Indices: 710485--710525 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
710475 AAATAAATGT
710485 TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T
710526 TAACAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:711339 original size:18 final size:17
Alignment explanation
Indices: 711316--711362 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
711306 ATTTAAAAAG
*
711316 TAAGATATAAAAAATTAT
1 TAAGATATAAAAAA-CAT
* *
711334 TAAGATATTAAATACAT
1 TAAGATATAAAAAACAT
711351 TAA-ATATAAAAA
1 TAAGATATAAAAA
711363 TGATATAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 7 0.29
17 5 0.21
18 12 0.50
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (17 bp):
TAAGATATAAAAAACAT
Found at i:712322 original size:40 final size:38
Alignment explanation
Indices: 712230--712328 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 38
712220 TTCGTTCGAG
* *
712230 GGAGATCTAGGCGTCTTCAATACAATTGCATGCAAAAT
1 GGAGATCTCGGCGTCTTCAACACAATTGCATGCAAAAT
* *
712268 -CAGATCTCTAGGCGTCTTCAACACAATTTGCATTCAAACAT
1 GGAGATCTC--GGCGTCTTCAACACAA-TTGCATGCAAA-AT
*
712309 GGAGGTCTCGGCGTCTTCAA
1 GGAGATCTCGGCGTCTTCAA
712329 ATTATTTTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
37 6 0.12
39 15 0.30
40 21 0.42
41 2 0.04
42 6 0.12
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (38 bp):
GGAGATCTCGGCGTCTTCAACACAATTGCATGCAAAAT
Found at i:712735 original size:20 final size:20
Alignment explanation
Indices: 712710--712748 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
712700 TGCACGCAAA
*
712710 AGGGAATTCACGTGGTGAGC
1 AGGGAATTCACGGGGTGAGC
712730 AGGGAATTCACGGGGTGAG
1 AGGGAATTCACGGGGTGAG
712749 TTGATAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.44, T:0.18
Consensus pattern (20 bp):
AGGGAATTCACGGGGTGAGC
Found at i:712845 original size:33 final size:31
Alignment explanation
Indices: 712788--712869 Score: 94
Period size: 33 Copynumber: 2.6 Consensus size: 31
712778 TAGAGGATGT
* *
712788 CTCGGCGTCTTCTTCAC-TTTGGGTGGATTA
1 CTCGGCGTTTTCTTCACATTTGGGTGGAATA
*
712818 CTCGGCGTTTTCTTCACAATTTGGGGTGGAATG
1 CTCGGCGTTTTCTTCAC-ATTT-GGGTGGAATA
* *
712851 CTCGACGTTTACTTCACAT
1 CTCGGCGTTTTCTTCACAT
712870 GGGAGGGGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
30 16 0.36
32 5 0.11
33 23 0.52
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (31 bp):
CTCGGCGTTTTCTTCACATTTGGGTGGAATA
Found at i:713123 original size:13 final size:13
Alignment explanation
Indices: 713105--713130 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
713095 TTAAGGTTTA
713105 GTGATTATATGTT
1 GTGATTATATGTT
713118 GTGATTATATGTT
1 GTGATTATATGTT
713131 ATTACATTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
GTGATTATATGTT
Found at i:715668 original size:28 final size:28
Alignment explanation
Indices: 715637--715737 Score: 175
Period size: 28 Copynumber: 3.6 Consensus size: 28
715627 TTATTAAATA
*
715637 TAAATCATTAAAGTCAAGTAATTATTTT
1 TAAATCATTAAAGTTAAGTAATTATTTT
715665 TAAATCATTAAAGTTAAGTAATTATTTT
1 TAAATCATTAAAGTTAAGTAATTATTTT
* *
715693 TAAATCATTAAAGTTAAATAATTATTAT
1 TAAATCATTAAAGTTAAGTAATTATTTT
715721 TAAATCATTAAAGTTAA
1 TAAATCATTAAAGTTAA
715738 ATCATTAAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (28 bp):
TAAATCATTAAAGTTAAGTAATTATTTT
Found at i:715674 original size:14 final size:14
Alignment explanation
Indices: 715664--716063 Score: 300
Period size: 14 Copynumber: 31.1 Consensus size: 14
715654 GTAATTATTT
715664 TTAAATCATTAAAG
1 TTAAATCATTAAAG
* * ***
715678 TTAAGTAATTATTT
1 TTAAATCATTAAAG
715692 TTAAATCATTAAAG
1 TTAAATCATTAAAG
* *
715706 TTAAATAATTATTA-
1 TTAAATCATTA-AAG
715720 TTAAATCATTAAAG
1 TTAAATCATTAAAG
715734 TTAAATCATTAAAG
1 TTAAATCATTAAAG
*
715748 -T-AATTATT--A-
1 TTAAATCATTAAAG
*
715757 TTAAATCATTAAAA
1 TTAAATCATTAAAG
715771 TTAAATCATTAAAG
1 TTAAATCATTAAAG
* *
715785 TTAAATAATTATTA-
1 TTAAATCATTA-AAG
715799 TTAAATCATTAAAG
1 TTAAATCATTAAAG
715813 TTAAATCATTAAAG
1 TTAAATCATTAAAG
*
715827 -T-AATTATT--A-
1 TTAAATCATTAAAG
*
715836 TTAAATCATTAAAA
1 TTAAATCATTAAAG
715850 TTAAATCATTAAAG
1 TTAAATCATTAAAG
*
715864 -T-AATTATT--A-
1 TTAAATCATTAAAG
715873 TTAAATCATTAAAG
1 TTAAATCATTAAAG
715887 TTAAATCATTAAAG
1 TTAAATCATTAAAG
*
715901 -T-AATTATT--A-
1 TTAAATCATTAAAG
*
715910 TTAAATCATTAAAA
1 TTAAATCATTAAAG
715924 TTAAATCATTAAAG
1 TTAAATCATTAAAG
*
715938 -T-AATTATT--A-
1 TTAAATCATTAAAG
715947 TTAAATCATTAAAG
1 TTAAATCATTAAAG
* * *
715961 TTAAGTAATTATTA-
1 TTAAATCATTA-AAG
715975 TTAAATCATTAAAG
1 TTAAATCATTAAAG
*
715989 -T-AATTATT--A-
1 TTAAATCATTAAAG
*
715998 TTAAATCATTAAAA
1 TTAAATCATTAAAG
716012 TTAAATCATTAAAG
1 TTAAATCATTAAAG
*
716026 -T-AATTATT--A-
1 TTAAATCATTAAAG
716035 TTAAATCATTAAAG
1 TTAAATCATTAAAG
716049 TTAAATCATTAAAG
1 TTAAATCATTAAAG
716063 T
1 T
716064 AATTGAAATA
Statistics
Matches: 303, Mismatches: 42, Indels: 82
0.71 0.10 0.19
Matches are distributed among these distances:
10 14 0.05
11 42 0.14
12 42 0.14
13 17 0.06
14 185 0.61
15 3 0.01
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (14 bp):
TTAAATCATTAAAG
Found at i:715759 original size:37 final size:37
Alignment explanation
Indices: 715706--715964 Score: 439
Period size: 37 Copynumber: 6.9 Consensus size: 37
715696 ATCATTAAAG
715706 TTAAA-TAATTATTATTAAATCATTAAAGTTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
*
715742 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
715779 TTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCA
1 TTAAAG-----TAATTATTATTAAATCATTAAAGTTAAATCA
*
715821 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
715858 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
*
715895 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
715932 TTAAAGTAATTATTATTAAATCATTAAAGTTAA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAA
715965 GTAATTATTA
Statistics
Matches: 211, Mismatches: 6, Indels: 11
0.93 0.03 0.05
Matches are distributed among these distances:
36 5 0.02
37 170 0.81
42 36 0.17
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (37 bp):
TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
Found at i:715781 original size:51 final size:51
Alignment explanation
Indices: 715719--716026 Score: 294
Period size: 51 Copynumber: 6.3 Consensus size: 51
715709 AATAATTATT
715719 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
715770 ATTAAATCATTAAAG--------TTAAA-TAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
* * * **
715812 GTTAAATCATTAAAG-TAATTATTATTAAA-TCATTAAAATTAAATCATT-AA
1 ATTAAATCATTAAAGTTAA--ATCATTAAAGTAATTATTATTAAATCATTAAA
* * * * **
715862 AGT-AATTATT--A-TTAAATCATTAAAGTTAA--ATCATTAAAGTAATTATT
1 ATTAAATCATTAAAGTTAAATCATTAAAG-TAATTATTATTAAA-TCATTAAA
*
715909 ATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
* * * *
715960 GTTAAGTAATTATTA-TTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTA-AAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
716011 ATTAAATCATTAAAGT
1 ATTAAATCATTAAAGT
716027 AATTATTATT
Statistics
Matches: 207, Mismatches: 28, Indels: 44
0.74 0.10 0.16
Matches are distributed among these distances:
42 36 0.17
43 5 0.02
45 15 0.07
46 4 0.02
47 8 0.04
48 6 0.03
49 6 0.03
50 8 0.04
51 110 0.53
52 9 0.04
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (51 bp):
ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
Found at i:715839 original size:23 final size:23
Alignment explanation
Indices: 715813--716010 Score: 126
Period size: 23 Copynumber: 8.6 Consensus size: 23
715803 ATCATTAAAG
715813 TTAAATCATTAAAGTAATTATTA
1 TTAAATCATTAAAGTAATTATTA
* *
715836 TTAAATCATTAAAATTAAATCATTAAA
1 TTAAATCATT-AAAGT-AATTATT--A
* * * *
715863 GTAATTATTATTAAA-TCATTA-AA
1 TTAA--ATCATTAAAGTAATTATTA
715886 GTTAAATCATTAAAGTAATTATTA
1 -TTAAATCATTAAAGTAATTATTA
* *
715910 TTAAATCATTAAAATTAA--ATCA
1 TTAAATCATT-AAAGTAATTATTA
* * * *
715932 TTAAAGTAATTATTATTAA--ATCA
1 TTAAA-TCATTA-AAGTAATTATTA
*
715955 TTAAA--GTT-AAGTAATTATTA
1 TTAAATCATTAAAGTAATTATTA
715975 TTAAATCATTAAAGTAATTATTA
1 TTAAATCATTAAAGTAATTATTA
715998 TTAAATCATTAAA
1 TTAAATCATTAAA
716011 ATTAAATCAT
Statistics
Matches: 138, Mismatches: 20, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.03
20 10 0.07
22 19 0.14
23 69 0.50
24 14 0.10
25 6 0.04
26 3 0.02
27 5 0.04
28 3 0.02
29 5 0.04
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (23 bp):
TTAAATCATTAAAGTAATTATTA
Found at i:715869 original size:9 final size:8
Alignment explanation
Indices: 715706--716073 Score: 61
Period size: 8 Copynumber: 48.9 Consensus size: 8
715696 ATCATTAAAG
715706 TTAAATAA
1 TTAAATAA
*
715714 TT--ATTA
1 TTAAATAA
*
715720 TTAAATCA
1 TTAAATAA
*
715728 TT-AA-AG
1 TTAAATAA
*
715734 TTAAATCA
1 TTAAATAA
715742 TTAAAGTAA
1 TTAAA-TAA
*
715751 TT--ATTA
1 TTAAATAA
*
715757 TTAAATCA
1 TTAAATAA
715765 TT-AA-AA
1 TTAAATAA
*
715771 TTAAATCA
1 TTAAATAA
*
715779 TT-AA-AG
1 TTAAATAA
715785 TTAAATAA
1 TTAAATAA
*
715793 TT--ATTA
1 TTAAATAA
*
715799 TTAAATCA
1 TTAAATAA
*
715807 TT-AA-AG
1 TTAAATAA
*
715813 TTAAATCA
1 TTAAATAA
715821 TTAAAGTAA
1 TTAAA-TAA
*
715830 TT--ATTA
1 TTAAATAA
*
715836 TTAAATCA
1 TTAAATAA
715844 TT-AA-AA
1 TTAAATAA
*
715850 TTAAATCA
1 TTAAATAA
715858 TTAAAGTAA
1 TTAAA-TAA
*
715867 TT--ATTA
1 TTAAATAA
*
715873 TTAAATCA
1 TTAAATAA
*
715881 TT-AA-AG
1 TTAAATAA
*
715887 TTAAATCA
1 TTAAATAA
715895 TTAAAGTAA
1 TTAAA-TAA
*
715904 TT--ATTA
1 TTAAATAA
*
715910 TTAAATCA
1 TTAAATAA
715918 TT-AA-AA
1 TTAAATAA
*
715924 TTAAATCA
1 TTAAATAA
715932 TTAAAGTAA
1 TTAAA-TAA
*
715941 TT--ATTA
1 TTAAATAA
*
715947 TTAAATCA
1 TTAAATAA
715955 TTAAAGTTAA
1 TTAAA--TAA
* *
715965 GTAATTATTA
1 TTAA--ATAA
*
715975 TTAAATCA
1 TTAAATAA
715983 TTAAAGTAA
1 TTAAA-TAA
*
715992 TT--ATTA
1 TTAAATAA
*
715998 TTAAATCA
1 TTAAATAA
716006 TT-AA-AA
1 TTAAATAA
*
716012 TTAAATCA
1 TTAAATAA
716020 TTAAAGTAA
1 TTAAA-TAA
*
716029 TT--ATTA
1 TTAAATAA
*
716035 TTAAATCA
1 TTAAATAA
*
716043 TT-AA-AG
1 TTAAATAA
*
716049 TTAAATCA
1 TTAAATAA
716057 TTAAAGTAA
1 TTAAA-TAA
716066 TTGAAATA
1 TT-AAATA
716074 TAATAATACA
Statistics
Matches: 253, Mismatches: 58, Indels: 97
0.62 0.14 0.24
Matches are distributed among these distances:
6 60 0.24
7 43 0.17
8 102 0.40
9 34 0.13
10 13 0.05
12 1 0.00
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (8 bp):
TTAAATAA
Found at i:716016 original size:37 final size:37
Alignment explanation
Indices: 715974--716067 Score: 179
Period size: 37 Copynumber: 2.5 Consensus size: 37
715964 AGTAATTATT
715974 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
716011 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
*
716048 GTTAAATCATTAAAGTAATT
1 ATTAAATCATTAAAGTAATT
716068 GAAATATAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.40
Consensus pattern (37 bp):
ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
Found at i:716025 original size:88 final size:88
Alignment explanation
Indices: 715770--716059 Score: 376
Period size: 88 Copynumber: 3.3 Consensus size: 88
715760 AATCATTAAA
* *
715770 ATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAA--ATCATTAAAGTAATTA
1 ATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAG-TAATTATTATTAAA-TCATTA
** * *
715833 TTATTAAATCATTAAAATTAA--ATC
64 AAATTAAATCATT-AAAGTAATTATT
* * * *
715857 ATTAAAGTAATTATTA-TTAAATCATTA-AAGTTAAATCATTAAAGTAATTATTATTAAATCATT
1 ATTAAA-TCATTA-AAGTTAAATAATTATTA-TTAAATCATTAAAGTAATTATTATTAAATCATT
715920 AAAATTAAATCATTAAAGTAATTATT
63 AAAATTAAATCATTAAAGTAATTATT
*
715946 ATTAAATCATTAAAGTTAAGTAATTATTATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
716011 ATTAAATCATTAAAGTAATTATT
66 ATTAAATCATTAAAGTAATTATT
*
716034 ATTAAATCATTAAAGTTAAATCATTA
1 ATTAAATCATTAAAGTTAAATAATTA
716060 AAGTAATTGA
Statistics
Matches: 177, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
87 17 0.10
88 142 0.80
89 18 0.10
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (88 bp):
ATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
ATTAAATCATTAAAGTAATTATT
Found at i:719373 original size:51 final size:47
Alignment explanation
Indices: 719314--719421 Score: 153
Period size: 51 Copynumber: 2.2 Consensus size: 47
719304 CTAATAACAA
719314 CAAACTTTTCTTTTATAAAACATGTGCTTGTTTTCGTTTATTGCCAGGGAC
1 CAAACTTTTCTTTTATAAAACATGTGC---TTTT-GTTTATTGCCAGGGAC
* *
719365 CAAACTTTTCTTTTATAAAACATGTGCTTTTGTTTATTGCTAGGGCC
1 CAAACTTTTCTTTTATAAAACATGTGCTTTTGTTTATTGCCAGGGAC
719412 CAATACTTTT
1 CAA-ACTTTT
719422 GCAACATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
47 17 0.31
48 10 0.19
51 27 0.50
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (47 bp):
CAAACTTTTCTTTTATAAAACATGTGCTTTTGTTTATTGCCAGGGAC
Found at i:719519 original size:21 final size:21
Alignment explanation
Indices: 719493--719534 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
719483 CTGCCAAGAC
719493 TCATTGAATTATTGGCTTCCA
1 TCATTGAATTATTGGCTTCCA
719514 TCATTGAATTATTGGCTTCCA
1 TCATTGAATTATTGGCTTCCA
719535 AACTAACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (21 bp):
TCATTGAATTATTGGCTTCCA
Found at i:719620 original size:32 final size:32
Alignment explanation
Indices: 719581--719698 Score: 209
Period size: 32 Copynumber: 3.7 Consensus size: 32
719571 ATGATGCTGA
*
719581 TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
1 TGAAGAAGACGCCAAGAACTCCACCCCAAGGC
719613 TGAAGAAGACGCCAAGAACTCCACCCCAAGGC
1 TGAAGAAGACGCCAAGAACTCCACCCCAAGGC
719645 TGAAGAAGACGCCAAGAACTCCACCCCAAGGC
1 TGAAGAAGACGCCAAGAACTCCACCCCAAGGC
* *
719677 TGAAGAAGACGCCGAGAGCTCC
1 TGAAGAAGACGCCAAGAACTCC
719699 CATGAACATC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 83 1.00
ACGTcount: A:0.36, C:0.33, G:0.25, T:0.07
Consensus pattern (32 bp):
TGAAGAAGACGCCAAGAACTCCACCCCAAGGC
Found at i:719749 original size:47 final size:47
Alignment explanation
Indices: 719680--719787 Score: 207
Period size: 47 Copynumber: 2.3 Consensus size: 47
719670 CCAAGGCTGA
719680 AGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAACGAACATATAT
1 AGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAACGAACATATAT
*
719727 AGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAACTAACATATAT
1 AGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAACGAACATATAT
719774 AGAAGACGCCGAGA
1 AGAAGACGCCGAGA
719788 TATCCGATAG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (47 bp):
AGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAACGAACATATAT
Found at i:720159 original size:2 final size:2
Alignment explanation
Indices: 720152--720221 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
720142 CTTCAACAAC
720152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
720194 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
720222 CACTTTTCTG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:723939 original size:2 final size:2
Alignment explanation
Indices: 723926--723970 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
723916 TAAGTAGTGG
*
723926 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
723968 AT A
1 AT A
723971 GAAAACGAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:726548 original size:41 final size:41
Alignment explanation
Indices: 726491--726572 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
726481 TTGTTTTGGC
726491 TTAATTCTTACAAAGGACCCTCTACTATAGTGAAATTCACT
1 TTAATTCTTACAAAGGACCCTCTACTATAGTGAAATTCACT
726532 TTAATTCTTACAAAGGACCCTCTACTATAGTGAAATTCACT
1 TTAATTCTTACAAAGGACCCTCTACTATAGTGAAATTCACT
726573 CTCTCTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (41 bp):
TTAATTCTTACAAAGGACCCTCTACTATAGTGAAATTCACT
Found at i:731039 original size:20 final size:20
Alignment explanation
Indices: 731010--731061 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
731000 TTATCATATG
*
731010 GTATCGATACCCTTCCTTCA
1 GTATCGATACCCTTCATTCA
*
731030 GTATCAATACCCTTCATTCA
1 GTATCGATACCCTTCATTCA
731050 GTATCGATACCC
1 GTATCGATACCC
731062 CAAGCTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.33, G:0.10, T:0.33
Consensus pattern (20 bp):
GTATCGATACCCTTCATTCA
Found at i:736862 original size:20 final size:20
Alignment explanation
Indices: 736813--736862 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
736803 TAGTATTTTT
736813 CATATTTTAAAAGCTTTAAA
1 CATATTTTAAAAGCTTTAAA
* *
736833 CACATCTTAAACA-CTTTAAA
1 CATATTTTAAA-AGCTTTAAA
736853 CATATTTTAA
1 CATATTTTAA
736863 TTAACTCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (20 bp):
CATATTTTAAAAGCTTTAAA
Found at i:742387 original size:29 final size:29
Alignment explanation
Indices: 742355--742444 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 29
742345 GGAAATAACA
742355 TTTTGTACCGATTTGATAAAATGATAAAG
1 TTTTGTACCGATTTGATAAAATGATAAAG
* * * * *** * *
742384 TTTTGGA-CAATGTGGCTTTCATCA-ACA-
1 TTTTGTACCGAT-TTGATAAAATGATAAAG
742411 TTTTGTACCGATTTGATAAAATGATAAAG
1 TTTTGTACCGATTTGATAAAATGATAAAG
742440 TTTTG
1 TTTTG
742445 GTTAAAAGGG
Statistics
Matches: 39, Mismatches: 18, Indels: 8
0.60 0.28 0.12
Matches are distributed among these distances:
27 12 0.31
28 10 0.26
29 17 0.44
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (29 bp):
TTTTGTACCGATTTGATAAAATGATAAAG
Found at i:745377 original size:19 final size:19
Alignment explanation
Indices: 745340--745376 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
745330 TTTAATTATG
745340 AATTTAATTCATATATTTT
1 AATTTAATTCATATATTTT
*
745359 AATTT-ATTCATGTATTTT
1 AATTTAATTCATATATTTT
745377 TCAGATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
AATTTAATTCATATATTTT
Found at i:749591 original size:27 final size:27
Alignment explanation
Indices: 749561--749615 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
749551 GGGAATATTG
749561 AAGTAAATGTTCTAGAATGAATCTAGA
1 AAGTAAATGTTCTAGAATGAATCTAGA
749588 AAGTAAATGTTCTAGAATGAATCTAGA
1 AAGTAAATGTTCTAGAATGAATCTAGA
749615 A
1 A
749616 TGCTGCTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.29
Consensus pattern (27 bp):
AAGTAAATGTTCTAGAATGAATCTAGA
Found at i:749702 original size:18 final size:18
Alignment explanation
Indices: 749681--749715 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
749671 AGTTAGTTTG
749681 TTGTATTCTGTTACACCT
1 TTGTATTCTGTTACACCT
749699 TTGTATTCTGTTACACC
1 TTGTATTCTGTTACACC
749716 AGATTACCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (18 bp):
TTGTATTCTGTTACACCT
Found at i:750525 original size:13 final size:13
Alignment explanation
Indices: 750489--750534 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
750479 ATATTTTCTT
750489 AATTT-AGGTTTA
1 AATTTAAGGTTTA
750501 AATTTATAAGGTTTA
1 AA-TT-TAAGGTTTA
*
750516 AGTTTAAGGTTTA
1 AATTTAAGGTTTA
750529 AATTTA
1 AATTTA
750535 GGATATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 2 0.07
13 16 0.55
14 3 0.10
15 8 0.28
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
AATTTAAGGTTTA
Found at i:750543 original size:28 final size:26
Alignment explanation
Indices: 750487--750545 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
750477 CGATATTTTC
* *
750487 TTAATTTAGGTTTAAATTTATAAGGT
1 TTAATTTAGGTTTAAATTTAGAAGAT
* *
750513 TTAAGTTTAAGGTTTAAATTTAGGATAT
1 TTAA-TTT-AGGTTTAAATTTAGAAGAT
750541 TTAAT
1 TTAAT
750546 AAATAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 19 0.70
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (26 bp):
TTAATTTAGGTTTAAATTTAGAAGAT
Found at i:756097 original size:215 final size:209
Alignment explanation
Indices: 755733--756156 Score: 762
Period size: 215 Copynumber: 2.0 Consensus size: 209
755723 AATTTTCAAC
755733 AACAAAAAATTTCAAAACTTAATGTTAAATTTTGAATAGATAATAGAATGAAATAAAACTAAACT
1 AACAAAAAATTTCAAAACTTAATGTTAAATTTTGAATAGATAATAGAATGAAATAAAACTAAACT
755798 TTAGTGTGATTTTAATAATAAAGTTTAGGTAATAAGATTGACCAAAACTGACAGTTTAGTACTAA
66 TTAGTGTGATTTTAATAATAAAGTTTAGGTAATAAGATTGACCAAAACTGACAGTTTAGTACTAA
755863 AAGCGAAGTTTACCCTAGTTTCTTTTATCGTCCATGATCTTTACCACCAAATC-G-GGGTAAATT
131 AAGCGAAGTTTACCCTAGTTTC-TTTATCGTCCATGATCTTTACCACCAAATCTGCGGGTAAATT
755926 TGCAAAAATTTGAAG
195 TGCAAAAATTTGAAG
755941 AACAAAAAATTTCAAAACTTAATGTTAAATTTTGAATAGATAATAGAATGAAATAAAAAACTAAA
1 AACAAAAAATTTCAAAACTTAATGTTAAATTTTGAATAGATAATAGAATGAAAT--AAAACTAAA
756006 CTTTATGTGTGATTTTAAAAATAATAAAAGTTTAGGTAATAAGATTGACCAAAACTGACAGTTTA
64 CTTTA-GTGTGATTTT---AATAAT-AAAGTTTAGGTAATAAGATTGACCAAAACTGACAGTTTA
756071 GTACTAAAAGCGAAGTTTACCCTAGTTTCTTTATCGTCCATGATCTTTACCACCAAATCTGCGGG
124 GTACTAAAAGCGAAGTTTACCCTAGTTTCTTTATCGTCCATGATCTTTACCACCAAATCTGCGGG
756136 TAAATTTGCAAAAATTTGAAG
189 TAAATTTGCAAAAATTTGAAG
756157 GCAGCAATGA
Statistics
Matches: 207, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
208 54 0.26
210 14 0.07
211 10 0.05
214 36 0.17
215 69 0.33
216 24 0.12
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (209 bp):
AACAAAAAATTTCAAAACTTAATGTTAAATTTTGAATAGATAATAGAATGAAATAAAACTAAACT
TTAGTGTGATTTTAATAATAAAGTTTAGGTAATAAGATTGACCAAAACTGACAGTTTAGTACTAA
AAGCGAAGTTTACCCTAGTTTCTTTATCGTCCATGATCTTTACCACCAAATCTGCGGGTAAATTT
GCAAAAATTTGAAG
Found at i:758938 original size:29 final size:29
Alignment explanation
Indices: 758906--758969 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
758896 TTCTAAACTC
* *
758906 TCTAGAGTTCTCC-GAAATATTCTAGAAAT
1 TCTAGACTTCTCCAGAAA-ACTCTAGAAAT
* * *
758935 TCTACACTTCTCCAGAAAGCTCTAGAATT
1 TCTAGACTTCTCCAGAAAACTCTAGAAAT
758964 TCTAGA
1 TCTAGA
758970 ACCTCTCAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (29 bp):
TCTAGACTTCTCCAGAAAACTCTAGAAAT
Found at i:762494 original size:50 final size:50
Alignment explanation
Indices: 762422--762540 Score: 175
Period size: 50 Copynumber: 2.4 Consensus size: 50
762412 ATTCTTTCAT
* * * * *
762422 ACTCTTCCATAAGGTTCCACACATCTCCAGAATATTCCATAGGATTCCAC
1 ACTCTTCCACAAGCTTCTACACATATCCAGAATATTCCAGAGGATTCCAC
* *
762472 ATTCTTCCACAAGCTTCTACACATATCCAGAATATTCCAGAGGATTTCAC
1 ACTCTTCCACAAGCTTCTACACATATCCAGAATATTCCAGAGGATTCCAC
762522 ACTCTTCCACAAGCTTCTA
1 ACTCTTCCACAAGCTTCTA
762541 GAGAGTTCTA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.29
Consensus pattern (50 bp):
ACTCTTCCACAAGCTTCTACACATATCCAGAATATTCCAGAGGATTCCAC
Found at i:767108 original size:18 final size:17
Alignment explanation
Indices: 767082--767123 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
767072 CAAGATCAAT
767082 ATAAAATAAAAAATAATA
1 ATAAAATAAAAAA-AATA
*
767100 ATAAGATAAAAAAAATA
1 ATAAAATAAAAAAAATA
767117 ATTAAAA
1 A-TAAAA
767124 ATCATGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
ATAAAATAAAAAAAATA
Found at i:770857 original size:2 final size:2
Alignment explanation
Indices: 770850--770881 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
770840 GAGGAGCCTA
770850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
770882 ATTAATTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:777120 original size:18 final size:18
Alignment explanation
Indices: 777097--777134 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
777087 TGACCGGTCA
777097 CGACCCGTT-TACCCGACC
1 CGACCCGTTGT-CCCGACC
777115 CGACCCGTTGTCCCGACC
1 CGACCCGTTGTCCCGACC
777133 CG
1 CG
777135 TTGACCGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.13, C:0.50, G:0.21, T:0.16
Consensus pattern (18 bp):
CGACCCGTTGTCCCGACC
Done.