Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold400
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: 2847997
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 5 of 17
Found at i:649288 original size:124 final size:127
Alignment explanation
Indices: 649068--649416 Score: 393
Period size: 124 Copynumber: 2.8 Consensus size: 127
649058 AAGCTCACAC
*
649068 AGCCCACACAAGTCGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCTATTTCAAA
1 AGCCCACACAAGTCGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCCATTTCAAA
* *
649133 ACCTACACAAGTTGGTGGCAACCCATTTCAAAGCCCACA-AGTCAGTGAC-A-TCATTTCAA
66 ACCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAGTCAGTGACAACCCATTTCAA
* * * ** *
649192 AGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACATGAGTTGGTGGCAACCCATTTCAAA
1 AGCCCACACAAGTCGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCCATTTCAAA
* * * * *
649257 GCCCACACAAGTTGGTGGCAACTCATTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAA
66 ACCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACAC-AGTCAGTGACAACCCATTTCAA
* * * * * * ** * *
649320 AGCCCACACAAGTTGATGGGAACCCCTTTCAAAAGTCCATAC-TTTCAGTGGCAACCC-TTTTAA
1 AGCCCACACAAGTCGGTGGCAACCCATTTCAAAA-CCCACACAAGTCGGTGGCAACCCATTTCAA
* * *
649383 AAGCCCACGCAAGTTAGTGGCAACCCTTTTCAAA
65 AA-CCCACACAAGTTGGTGGCAACCCATTTCAAA
649417 TCACCATTTT
Statistics
Matches: 185, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
124 94 0.51
126 8 0.04
127 7 0.04
128 72 0.39
129 4 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (127 bp):
AGCCCACACAAGTCGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCCATTTCAAA
ACCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAGTCAGTGACAACCCATTTCAA
Found at i:649999 original size:20 final size:19
Alignment explanation
Indices: 649927--649997 Score: 97
Period size: 20 Copynumber: 3.6 Consensus size: 19
649917 GATACATTTT
*
649927 TATCGATACATTTTTAATG
1 TATCGATACATTTTCAATG
* *
649946 TATCGATACATGTATGAATG
1 TATCGATACAT-TTTCAATG
649966 TATCGATACATTCTTCAATG
1 TATCGATACATT-TTCAATG
649986 TATCGATACATT
1 TATCGATACATT
649998 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
19 12 0.26
20 34 0.74
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (19 bp):
TATCGATACATTTTCAATG
Found at i:653324 original size:36 final size:36
Alignment explanation
Indices: 653277--653349 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
653267 TTTCCCCACT
653277 AAAAAAATTGAAAGTTAAGTCAACGAGCTTTGGACG
1 AAAAAAATTGAAAGTTAAGTCAACGAGCTTTGGACG
653313 AAAAAAATTGAAAGTTAAGTCAACGAGCTTTGGACG
1 AAAAAAATTGAAAGTTAAGTCAACGAGCTTTGGACG
653349 A
1 A
653350 CTTAAACTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (36 bp):
AAAAAAATTGAAAGTTAAGTCAACGAGCTTTGGACG
Found at i:653765 original size:3 final size:3
Alignment explanation
Indices: 653757--653807 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
653747 AACAAAGTAG
* * * *
653757 AGA AGA AGA AGA AAA AGA AAA AGT AGA AGA AGA AGA AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
653805 AGA
1 AGA
653808 TTGAAAAGAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:653788 original size:24 final size:24
Alignment explanation
Indices: 653757--653803 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
653747 AACAAAGTAG
653757 AGAAGAAGAAGAAAAAGAAAAAGT
1 AGAAGAAGAAGAAAAAGAAAAAGT
*
653781 AGAAGAAGAAGAAGAAGAAAAAG
1 AGAAGAAGAAGAAAAAGAAAAAG
653804 AAGATTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (24 bp):
AGAAGAAGAAGAAAAAGAAAAAGT
Found at i:658803 original size:38 final size:38
Alignment explanation
Indices: 658761--658838 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 38
658751 ATAATTAGGT
* *
658761 TTACATTTTTCTAGGCAAAGAAAGCATTTAATTTTGAG
1 TTACATTTTTCTAAGAAAAGAAAGCATTTAATTTTGAG
* **
658799 TTACATTTTTCTAAGAAAAGAAGGCATTTGGTTTTGAG
1 TTACATTTTTCTAAGAAAAGAAAGCATTTAATTTTGAG
658837 TT
1 TT
658839 GTATGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (38 bp):
TTACATTTTTCTAAGAAAAGAAAGCATTTAATTTTGAG
Found at i:659312 original size:32 final size:33
Alignment explanation
Indices: 659241--659308 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 33
659231 TTTAAAACTT
* **
659241 AATAAAAATATTAAATTACTAAAAATTAAATTTTT
1 AATAAAAATATT--ATTACTAAAAAATAAATTTAA
659276 AATAAAAATATT-TTA-TAAAAAATAAATTTAA
1 AATAAAAATATTATTACTAAAAAATAAATTTAA
659307 AA
1 AA
659309 ATAATATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
31 15 0.50
32 3 0.10
35 12 0.40
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (33 bp):
AATAAAAATATTATTACTAAAAAATAAATTTAA
Found at i:668001 original size:31 final size:31
Alignment explanation
Indices: 667963--668023 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
667953 ACCTTTCCTG
667963 TTTCAAATTGAATTTCAAAATTGGGTGGCTA
1 TTTCAAATTGAATTTCAAAATTGGGTGGCTA
667994 TTTCAAATTGAATTTCAAAATTGGGTGGCT
1 TTTCAAATTGAATTTCAAAATTGGGTGGCT
668024 GCAGCTGGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (31 bp):
TTTCAAATTGAATTTCAAAATTGGGTGGCTA
Found at i:668183 original size:23 final size:23
Alignment explanation
Indices: 668153--668212 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
668143 AACAATTGAA
668153 GGTGGGAGTCTTCTTGACTCCTT
1 GGTGGGAGTCTTCTTGACTCCTT
668176 GGTGGGAGTCTTCTTGACTCCTT
1 GGTGGGAGTCTTCTTGACTCCTT
* *
668199 AGTAGGAGTTCTTC
1 GGTGGGAG-TCTTC
668213 AAGAGCGTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 29 0.85
24 5 0.15
ACGTcount: A:0.12, C:0.20, G:0.30, T:0.38
Consensus pattern (23 bp):
GGTGGGAGTCTTCTTGACTCCTT
Found at i:672660 original size:31 final size:31
Alignment explanation
Indices: 672625--672689 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
672615 TCAACATTTC
672625 CTGTTTCAAATTGAATTTCAAAATTGAGTGG
1 CTGTTTCAAATTGAATTTCAAAATTGAGTGG
*
672656 CTGTTTCAAATTGAATTTCAAAATTGGGTGG
1 CTGTTTCAAATTGAATTTCAAAATTGAGTGG
672687 CTG
1 CTG
672690 CAGCTGGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (31 bp):
CTGTTTCAAATTGAATTTCAAAATTGAGTGG
Found at i:673673 original size:25 final size:28
Alignment explanation
Indices: 673614--673674 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
673604 TAATTTATGT
*
673614 ATAATTTTGGATAATAACTTCTTAGACA
1 ATAATTTTCGATAATAACTTCTTAGACA
* *
673642 ATGATTTTCTATAATAA-TTCTT-GA-A
1 ATAATTTTCGATAATAACTTCTTAGACA
673667 ATAATTTT
1 ATAATTTT
673675 TTAACAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 8 0.28
26 2 0.07
27 5 0.17
28 14 0.48
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (28 bp):
ATAATTTTCGATAATAACTTCTTAGACA
Found at i:674035 original size:2 final size:2
Alignment explanation
Indices: 674028--674057 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
674018 GTAAGGTTTG
*
674028 TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
674058 ATTGGCCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:675966 original size:12 final size:12
Alignment explanation
Indices: 675936--675978 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
675926 ATTTTAAAAT
675936 AATAAAAAA-TAA
1 AATAAAAAACT-A
*
675948 AATTAAAAATCTA
1 AA-TAAAAAACTA
675961 AATAAAAAACTA
1 AATAAAAAACTA
675973 AATAAA
1 AATAAA
675979 CAAAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 17 0.63
13 9 0.33
14 1 0.04
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAAAAAACTA
Found at i:678592 original size:26 final size:26
Alignment explanation
Indices: 678563--678613 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
678553 TTAGAATCTT
678563 AGATAAAGTTAAACTTTATCAATCCC
1 AGATAAAGTTAAACTTTATCAATCCC
*
678589 AGATAAAGTTGAACTTTATCAATCC
1 AGATAAAGTTAAACTTTATCAATCC
678614 AATCTCTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (26 bp):
AGATAAAGTTAAACTTTATCAATCCC
Found at i:680171 original size:29 final size:29
Alignment explanation
Indices: 680101--680175 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
680091 TAATGGTTAG
* * *
680101 TTAGTGAGAATTTTCACGTAGTGATTATG
1 TTAGTGAGAAGTTTCAAGTAGTGATTATA
* * *
680130 TTAGTGGGTAGTTTCAAGTGGTGATTATA
1 TTAGTGAGAAGTTTCAAGTAGTGATTATA
*
680159 TTAGTGAAAAGTTTCAA
1 TTAGTGAGAAGTTTCAA
680176 AAGTAGTGTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.05, G:0.25, T:0.40
Consensus pattern (29 bp):
TTAGTGAGAAGTTTCAAGTAGTGATTATA
Found at i:684328 original size:20 final size:20
Alignment explanation
Indices: 684303--684377 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
684293 AAAAAGACAG
*
684303 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTAAAA
* *
684323 AATGTATCGATACATTCATA
1 AATGTATCGATACATTAAAA
*
684343 CATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
*
684363 AATGTATTGATACAT
1 AATGTATCGATACAT
684378 CTGGGTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:688032 original size:19 final size:18
Alignment explanation
Indices: 688008--688092 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 18
687998 AGCGATACAT
688008 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
688027 TGTATCGATAC--A-TTA
1 TGTATCGATACAAACTTA
688042 --TATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
* *
688059 TGTATTGATACAATTACTGTT
1 TGTATCGATACAA--ACT-TA
688080 TGTATCGATACAA
1 TGTATCGATACAA
688093 TTTGTTGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
13 9 0.17
15 3 0.06
16 2 0.04
17 3 0.06
19 21 0.39
20 3 0.06
21 13 0.24
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:688046 original size:32 final size:32
Alignment explanation
Indices: 687995--688070 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
687985 GCAGTAGCTT
* *
687995 TGTAGCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTATATCGATACAAAACTTA
*
688027 TGTATCGATACATTATATCGATACAACACTTA
1 TGTATCGATACATTATATCGATACAAAACTTA
*
688059 TGTATTGATACA
1 TGTATCGATACA
688071 ATTACTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTATATCGATACAAAACTTA
Found at i:690253 original size:21 final size:22
Alignment explanation
Indices: 690213--690255 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
690203 GAAGATAAAG
690213 TTTATCGGTTGAAAAAAAGCAC
1 TTTATCGGTTGAAAAAAAGCAC
* *
690235 TTTATGGGTT-AAAACAAGCAC
1 TTTATCGGTTGAAAAAAAGCAC
690256 CACGAGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (22 bp):
TTTATCGGTTGAAAAAAAGCAC
Found at i:692850 original size:29 final size:29
Alignment explanation
Indices: 692825--692893 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
692815 TAGTTAGTTT
*
692825 GAAGTTTCAAATAGTGATTATGTTAGTGG
1 GAAGTTTCAAATAATGATTATGTTAGTGG
* * *
692854 GTAGTTTCAAGTAATGATTGTGTTAGTGG
1 GAAGTTTCAAATAATGATTATGTTAGTGG
692883 GAAGTTTCAAA
1 GAAGTTTCAAA
692894 AGTAATATCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (29 bp):
GAAGTTTCAAATAATGATTATGTTAGTGG
Found at i:693781 original size:45 final size:45
Alignment explanation
Indices: 693673--693788 Score: 178
Period size: 45 Copynumber: 2.6 Consensus size: 45
693663 ATGAAACAAA
* *
693673 TGACGATAATAACTATAAATTAATGGCTTTCTTCTTTAAAAGAAT
1 TGACGATAATAACTATAAGTTGATGGCTTTCTTCTTTAAAAGAAT
* *
693718 TTACAATAATAACTATAAGTTGATGGCTTTCTTCTTTAAAAGAAT
1 TGACGATAATAACTATAAGTTGATGGCTTTCTTCTTTAAAAGAAT
*
693763 TGATGATAATAACTATAAGTATGATG
1 TGACGATAATAACTATAAGT-TGATG
693789 CAATTAGAGC
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 58 0.92
46 5 0.08
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (45 bp):
TGACGATAATAACTATAAGTTGATGGCTTTCTTCTTTAAAAGAAT
Found at i:698033 original size:30 final size:30
Alignment explanation
Indices: 697997--698059 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
697987 CGATCTATCG
* *
697997 CTTGGAACAAATAGTTTTTCACCTTCAAAT
1 CTTGGAACAAATAGTTCTTCAACTTCAAAT
*
698027 CTTGGAACAGATAGTTCTTCAACTTCAAAT
1 CTTGGAACAAATAGTTCTTCAACTTCAAAT
698057 CTT
1 CTT
698060 TTAACTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (30 bp):
CTTGGAACAAATAGTTCTTCAACTTCAAAT
Found at i:701070 original size:12 final size:13
Alignment explanation
Indices: 701020--701073 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
701010 TATAAATTTT
701020 TAATATATTAAAA
1 TAATATATTAAAA
**
701033 TTTTAT-TTCAAAA
1 TAATATATT-AAAA
701046 T-ATATATTAAAA
1 TAATATATTAAAA
701058 TAATATATT-AAA
1 TAATATATTAAAA
701070 TAAT
1 TAAT
701074 TTTATAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 17 0.49
13 18 0.51
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATATATTAAAA
Found at i:701199 original size:36 final size:34
Alignment explanation
Indices: 701137--701212 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 34
701127 TTTATTATTA
*
701137 AAATATAAATATAAATAATTATATTAT-ATATTTT
1 AAATATAAATATAAATAATTACATTATAAT-TTTT
* *
701171 AAATATATAATATTTAATTATTACATTATAATTTTT
1 AAATATA-AATA-TAAATAATTACATTATAATTTTT
701207 AAATAT
1 AAATAT
701213 CTTAAATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 7 0.19
35 4 0.11
36 23 0.64
37 2 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (34 bp):
AAATATAAATATAAATAATTACATTATAATTTTT
Found at i:701245 original size:12 final size:13
Alignment explanation
Indices: 701224--701261 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
701214 TTAAATATAA
701224 TATATTAAAATTT
1 TATATTAAAATTT
* *
701237 TAT-TTAAAAATA
1 TATATTAAAATTT
701249 TATATTAAAATTT
1 TATATTAAAATTT
701262 AACCTATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATATTAAAATTT
Found at i:703317 original size:24 final size:23
Alignment explanation
Indices: 703267--703320 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
703257 TTTTGTTTTT
*
703267 TGGGTTTAAATTTTTTGCCAAAA
1 TGGGTTTAAATTTTTGGCCAAAA
*
703290 TGGGTTTAAACTTTTTGGGCC-AAG
1 TGGGTTTAAA-TTTTT-GGCCAAAA
703314 TGGGTTT
1 TGGGTTT
703321 TGGGTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 10 0.37
24 14 0.52
25 3 0.11
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (23 bp):
TGGGTTTAAATTTTTGGCCAAAA
Found at i:706343 original size:23 final size:23
Alignment explanation
Indices: 706299--706393 Score: 68
Period size: 24 Copynumber: 4.0 Consensus size: 23
706289 ATTTTTTAAT
*
706299 ATTTTATATTTAATATTTATTTA
1 ATTTTATATTTAATATTAATTTA
706322 ATTTTATATTTTAAT-TTAATTTA
1 ATTTTATA-TTTAATATTAATTTA
* * **
706345 TAGATTGATATTTAA-AAAAATTATTA
1 -A-TTTTATATTTAATATTAA-T-TTA
*
706371 ATTTAATATTTAAATATTAATTT
1 ATTTTATATTT-AATATTAATTT
706394 TATTAAGCAT
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
23 15 0.27
24 24 0.44
25 10 0.18
26 6 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTTATATTTAATATTAATTTA
Found at i:707935 original size:2 final size:2
Alignment explanation
Indices: 707930--707989 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
707920 AAAAAAATTA
707930 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
707972 CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT
707990 ATATATATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:707994 original size:2 final size:2
Alignment explanation
Indices: 707989--708014 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
707979 TCTCTCTCTC
707989 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
708015 AAACTCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:708740 original size:21 final size:20
Alignment explanation
Indices: 708714--708784 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
708704 TAATGTATAT
708714 TATTTTATATATTTATTTAAA
1 TATTTTATATA-TTATTTAAA
*
708735 TATTTTA-ATTAGTTATTTAAT
1 TATTTTATA-TA-TTATTTAAA
* *
708756 TAATTTATA-ATTATATAAA
1 TATTTTATATATTATTTAAA
*
708775 TATATTATAT
1 TATTTTATAT
708785 TATATTAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 14 0.35
20 2 0.05
21 23 0.57
22 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (20 bp):
TATTTTATATATTATTTAAA
Found at i:708838 original size:18 final size:18
Alignment explanation
Indices: 708792--708840 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
708782 TATTATATTA
*
708792 AATAAAATATATATTTAAAT
1 AATAAAA-A-ATATTAAAAT
**
708812 AATTTAAAATATTAAAAT
1 AATAAAAAATATTAAAAT
708830 AATAAAAAATA
1 AATAAAAAATA
708841 AAAAAGGTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 18 0.75
19 1 0.04
20 5 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAAAAATATTAAAAT
Found at i:710124 original size:11 final size:11
Alignment explanation
Indices: 710104--710182 Score: 70
Period size: 11 Copynumber: 7.0 Consensus size: 11
710094 GATACAATAT
710104 AATATATAAAA
1 AATATATAAAA
*
710115 AATAT-TTAAA
1 AATATATAAAA
*
710125 AATAATAAAAAA
1 AAT-ATATAAAA
* *
710137 AATAAATATAA
1 AATATATAAAA
*
710148 AATAAATATAAA
1 AATATATA-AAA
710160 AATATAATAAAA
1 AATAT-ATAAAA
*
710172 ATTATATAAAA
1 AATATATAAAA
710183 TAAATTATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
10 7 0.13
11 26 0.47
12 19 0.35
13 3 0.05
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATATATAAAA
Found at i:710129 original size:24 final size:24
Alignment explanation
Indices: 710087--710182 Score: 87
Period size: 23 Copynumber: 4.1 Consensus size: 24
710077 GAAATGAATT
*
710087 AAAATATGATACAATATAATATATAA
1 AAAATAT-ATA-AAAATAATATATAA
*
710113 AAAATATTTAAAAATAATA-A-AA
1 AAAATATATAAAAATAATATATAA
*
710135 AAAATAAATATAAAATAA-ATAT-A
1 AAAATATATA-AAAATAATATATAA
710158 AAAATATAATAAAAAT--TATATAA
1 AAAATAT-ATAAAAATAATATATAA
710181 AA
1 AA
710183 TAAATTATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
22 15 0.25
23 24 0.41
24 11 0.19
25 2 0.03
26 7 0.12
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (24 bp):
AAAATATATAAAAATAATATATAA
Found at i:710155 original size:37 final size:34
Alignment explanation
Indices: 710102--710187 Score: 104
Period size: 35 Copynumber: 2.5 Consensus size: 34
710092 ATGATACAAT
*
710102 ATAATATATAAAA-AATATTTAAAAATAATAAAAAAA
1 ATAA-ATATAAAATAA-ATATAAAAAT-ATAAAAAAA
*
710138 ATAAATATAAAATAAATATAAAAATATAATAAAA
1 ATAAATATAAAATAAATATAAAAATATAAAAAAA
*
710172 AT-TATATAAAATAAAT
1 ATAAATATAAAATAAAT
710188 TATTAATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
33 13 0.28
34 10 0.22
35 17 0.37
36 6 0.13
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (34 bp):
ATAAATATAAAATAAATATAAAAATATAAAAAAA
Found at i:710168 original size:17 final size:17
Alignment explanation
Indices: 710065--710170 Score: 65
Period size: 17 Copynumber: 6.1 Consensus size: 17
710055 GTAATAAATT
*
710065 ATATAAAAATATGAAATGA
1 ATATAAAAATAT--AATAA
*
710084 AT-T-AAAATATGATACA
1 ATATAAAAATATAATA-A
* *
710100 ATAT-AATATATAAAAA
1 ATATAAAAATATAATAA
*
710116 ATATTTAAAAATAATAAAAA
1 ATA--TAAAAAT-ATAATAA
* * *
710136 AAATAAATATAAAATAA
1 ATATAAAAATATAATAA
710153 ATATAAAAATATAATAA
1 ATATAAAAATATAATAA
710170 A
1 A
710171 AATTATATAA
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
15 2 0.03
16 7 0.10
17 36 0.53
18 8 0.12
19 6 0.09
20 9 0.13
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (17 bp):
ATATAAAAATATAATAA
Found at i:710179 original size:33 final size:32
Alignment explanation
Indices: 710106--710213 Score: 101
Period size: 32 Copynumber: 3.2 Consensus size: 32
710096 TACAATATAA
*
710106 TATATAAAA-AATATTTAAAAATAATAAAAAAAAT
1 TATATAAAATAA-A-TTAAAAAT-ATAATAAAAAT
*
710140 AAATATAAAATAAATATAAAAATATAATAAAAAT
1 -TATATAAAATAAAT-TAAAAATATAATAAAAAT
** * **
710174 TATATAAAATAAATTATTAATATATTAAATTT
1 TATATAAAATAAATTAAAAATATAATAAAAAT
710206 TATATAAA
1 TATATAAA
710214 TTTATGGTGA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
32 21 0.33
33 13 0.21
34 11 0.17
35 16 0.25
36 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (32 bp):
TATATAAAATAAATTAAAAATATAATAAAAAT
Found at i:713489 original size:25 final size:24
Alignment explanation
Indices: 713455--713505 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
713445 CTTTCTTCCC
713455 TCTTTATTTTATTTATTTTCTTTT
1 TCTTTATTTTATTTATTTTCTTTT
* *
713479 TCTTTACTTTTCTTTCTTTTCTTTT
1 TCTTTA-TTTTATTTATTTTCTTTT
713504 TC
1 TC
713506 ATTAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (24 bp):
TCTTTATTTTATTTATTTTCTTTT
Found at i:716315 original size:32 final size:29
Alignment explanation
Indices: 716222--716336 Score: 81
Period size: 31 Copynumber: 3.8 Consensus size: 29
716212 TTTAGATTTA
* *
716222 ATAA-TTTAATAATTTATATATTTTTATTAT
1 ATAATTTTAA-AATTAATA-ATTTATATTAT
* * * * *
716252 ATTATATGTATAATTAAATATTTTATTTTAT
1 ATAAT-TTTAAAATT-AATAATTTATATTAT
716283 ATAAATTTTAATATATTAATAATTTATATTAT
1 AT-AATTTTAA-A-ATTAATAATTTATATTAT
*
716315 ATATTTTTAAAATTAAT-ATTTA
1 ATAATTTTAAAATTAATAATTTA
716337 ATATATCTTA
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
28 5 0.08
29 6 0.09
30 4 0.06
31 24 0.36
32 24 0.36
33 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
ATAATTTTAAAATTAATAATTTATATTAT
Found at i:716340 original size:22 final size:23
Alignment explanation
Indices: 716289--716340 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
716279 TTATATAAAT
*
716289 TTTAATA-TATTAATAATTTATA
1 TTTAATATTATTAATAATTAATA
*
716311 -TTATATATTTTTAA-AATTAATA
1 TTTA-ATATTATTAATAATTAATA
716333 TTTAATAT
1 TTTAATAT
716341 ATCTTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 14 0.56
23 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAATATTATTAATAATTAATA
Found at i:717116 original size:19 final size:18
Alignment explanation
Indices: 717079--717129 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
717069 TAATATTAAT
* * *
717079 TATTATTTAATTATTTTA
1 TATTATATAAATATATTA
717097 TAATTATATAAATATATTA
1 T-ATTATATAAATATATTA
717116 TATTATATTAAATA
1 TATTATA-TAAATA
717130 AAATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTATATAAATATATTA
Found at i:717121 original size:24 final size:22
Alignment explanation
Indices: 717088--717140 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
717078 TTATTATTTA
* *
717088 ATTATTTTATAATTATATAAATAT
1 ATTATATTAT-ATTAAATAAA-AT
717112 ATTATATTATATTAAATAAAAT
1 ATTATATTATATTAAATAAAAT
717134 A-TATATT
1 ATTATATT
717141 TAAATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 6 0.22
22 3 0.11
23 9 0.33
24 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATATTATATTAAATAAAAT
Found at i:717180 original size:18 final size:18
Alignment explanation
Indices: 717136--717173 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
717126 AATAAAATAT
* *
717136 ATATTTAAATAATTTAAA
1 ATATTAAAATAATTAAAA
717154 ATATTAAAATAATTAAAA
1 ATATTAAAATAATTAAAA
717172 AT
1 AT
717174 TATAAAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATTAAAATAATTAAAA
Found at i:718446 original size:25 final size:24
Alignment explanation
Indices: 718412--718467 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 24
718402 CTTTCTTCCC
718412 TCTTTATTTTATTTATTTTCTTTT
1 TCTTTATTTTATTTATTTTCTTTT
* *
718436 TCTTTACTTTTCTTTCTTTTCTTTT
1 TCTTTA-TTTTATTTATTTTCTTTT
718461 TCATTTA
1 TC-TTTA
718468 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 6 0.21
25 18 0.64
26 4 0.14
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (24 bp):
TCTTTATTTTATTTATTTTCTTTT
Found at i:719404 original size:15 final size:16
Alignment explanation
Indices: 719364--719407 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
719354 TATAATACCT
719364 TATTAATAATA-AAAA
1 TATTAATAATATAAAA
719379 TATTTAA-AATATAAAA
1 TA-TTAATAATATAAAA
719395 -ATTAATAATATAA
1 TATTAATAATATAA
719408 TAAACAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.15
15 14 0.54
16 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TATTAATAATATAAAA
Found at i:720124 original size:13 final size:13
Alignment explanation
Indices: 720106--720130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
720096 GAAAAAAATA
720106 ATACATATTATAC
1 ATACATATTATAC
720119 ATACATATTATA
1 ATACATATTATA
720131 AGAAACCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
ATACATATTATAC
Found at i:721272 original size:21 final size:21
Alignment explanation
Indices: 721246--721286 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
721236 TAAATTTATT
*
721246 TATTT-AATTTTAATGATAAAA
1 TATTTAAATATTAAT-ATAAAA
721267 TATTTAAATATTAATATAAA
1 TATTTAAATATTAATATAAA
721287 TAAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TATTTAAATATTAATATAAAA
Found at i:721293 original size:22 final size:21
Alignment explanation
Indices: 721247--721293 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
721237 AAATTTATTT
* *
721247 ATTTAATTTTAATGATAAAAT
1 ATTTAATATTAATGATAAAAA
721268 ATTTAAATATTAAT-ATAAATAA
1 ATTT-AATATTAATGATAAA-AA
721290 ATTT
1 ATTT
721294 TTAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTTAATATTAATGATAAAAA
Found at i:721349 original size:6 final size:6
Alignment explanation
Indices: 721334--721364 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
721324 CAAATCTAAG
*
721334 TTAAAT TTAAAA TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T
721365 ATTTTATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTAAAT
Found at i:721824 original size:62 final size:62
Alignment explanation
Indices: 721758--721885 Score: 177
Period size: 62 Copynumber: 2.1 Consensus size: 62
721748 ATTCAATTTG
* * *
721758 AATTTGAATTAGTACTAATATAAAATAATTTAAATTTAAATAACTTTATAAAACT-AATTCAA
1 AATTTGAATTAATACTAATATAAAATAATTTAAATGTAAATAAC-TTAAAAAACTAAATTCAA
** * *
721820 AATTTGAATTAATTTTAATATAAAATAATTTAAATGTGAATAACTTAAAAAATTAAATTCAA
1 AATTTGAATTAATACTAATATAAAATAATTTAAATGTAAATAACTTAAAAAACTAAATTCAA
721882 AATT
1 AATT
721886 AAATTAACTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 8 0.14
62 50 0.86
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (62 bp):
AATTTGAATTAATACTAATATAAAATAATTTAAATGTAAATAACTTAAAAAACTAAATTCAA
Found at i:722109 original size:41 final size:39
Alignment explanation
Indices: 722063--722148 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
722053 ATATTTTAGA
* *
722063 TTATATATATAATGAATAATTAAAAATTATTAAAATTATAT
1 TTATATATAAAATAAAT-ATTAAAAATTATT-AAATTATAT
* * * *
722104 TTATATTTAAAATAAATATTATAATTTATTTAATTATAT
1 TTATATATAAAATAAATATTAAAAATTATTAAATTATAT
722143 TTATAT
1 TTATAT
722149 TACAAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 14 0.36
40 11 0.28
41 14 0.36
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (39 bp):
TTATATATAAAATAAATATTAAAAATTATTAAATTATAT
Found at i:722115 original size:18 final size:18
Alignment explanation
Indices: 722092--722149 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
722082 TTAAAAATTA
722092 TTAAAATTATATTTATAT
1 TTAAAATTATATTTATAT
*
722110 TTAAAA-TAAATATTATAAT
1 TTAAAATTATAT-TTAT-AT
*
722129 TTATTTAATTATATTTATAT
1 TTA--AAATTATATTTATAT
722149 T
1 T
722150 ACAAAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 4 0.12
18 10 0.31
19 5 0.16
20 3 0.09
21 6 0.19
22 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAAAATTATATTTATAT
Found at i:722332 original size:30 final size:30
Alignment explanation
Indices: 722296--722354 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
722286 TTTATTTTTA
722296 AAAATTAACAATTT-AAATTTAAAATAATTT
1 AAAATTAACAATTTAAAATTT-AAATAATTT
**
722326 AAAATTAATTATTTAAAATTTAAATAATT
1 AAAATTAACAATTTAAAATTTAAATAATT
722355 CAAATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAATTAACAATTTAAAATTTAAATAATTT
Found at i:722359 original size:15 final size:15
Alignment explanation
Indices: 722305--722366 Score: 63
Period size: 16 Copynumber: 4.0 Consensus size: 15
722295 AAAAATTAAC
722305 AATTTAAATTTAAAAT
1 AATTTAAATTT-AAAT
*
722321 AATTTAAAATT-AAT
1 AATTTAAATTTAAAT
*
722335 TATTTAAAATTTAAAT
1 AATTT-AAATTTAAAT
*
722351 AATTCAAATTTTAAAT
1 AATTTAAA-TTTAAAT
722367 TAAAAAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 7 0.18
15 8 0.21
16 23 0.61
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAAATTTAAAT
Found at i:722368 original size:36 final size:36
Alignment explanation
Indices: 722321--722404 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
722311 AATTTAAAAT
** *
722321 AATTTAAAATTAATTATTTAAAATTTAAA-TAATTCA
1 AATTTAAAATTAAAAAATT-AAATTTAAATTAATTCA
* *
722357 AATTTTAAATTAAAAAATTAATTTTAAATTAATTCA
1 AATTTAAAATTAAAAAATTAAATTTAAATTAATTCA
*
722393 AAATTAAAATTA
1 AATTTAAAATTA
722405 TTTTTACTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 8 0.20
36 32 0.80
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (36 bp):
AATTTAAAATTAAAAAATTAAATTTAAATTAATTCA
Found at i:723013 original size:20 final size:18
Alignment explanation
Indices: 722993--723032 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
722983 ATTTTAAAAT
722993 ATATATTTTTTAT-ATATA
1 ATATATTTTTTATAATA-A
*
723011 ATACATTTTTTATAATAA
1 ATATATTTTTTATAATAA
723029 ATAT
1 ATAT
723033 TAAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATATTTTTTATAATAA
Found at i:723507 original size:10 final size:11
Alignment explanation
Indices: 723478--723521 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
723468 TGATAATATA
*
723478 TTTATTTTATT
1 TTTATATTATT
723489 TTTATATTATT
1 TTTATATTATT
723500 TTTA-ATTAATTT
1 TTTATATT-A-TT
723512 TTTATATTAT
1 TTTATATTAT
723522 GTTTGTGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 3 0.10
11 16 0.55
12 7 0.24
13 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATATTATT
Found at i:723798 original size:22 final size:21
Alignment explanation
Indices: 723759--723799 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
723749 CATGGTTATG
723759 TTATAAATTTTTATATATTAA
1 TTATAAATTTTTATATATTAA
*
723780 TTATTAATTTTATATATATT
1 TTATAAATTTT-TATATATT
723800 TTGATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATAAATTTTTATATATTAA
Found at i:723801 original size:32 final size:31
Alignment explanation
Indices: 723760--723880 Score: 80
Period size: 32 Copynumber: 4.0 Consensus size: 31
723750 ATGGTTATGT
*
723760 TATAAATTTTTATATATTAATTATTA-ATTTTA
1 TATATATTTTTATATATTAA-TATTATA-TTTA
* *
723792 TATATATTTTGATATATTTATATTATATTTA
1 TATATATTTTTATATATTAATATTATATTTA
*
723823 -AT-TATTTTTA-ATGTCT--TATTAT-TTTA
1 TATATATTTTTATATAT-TAATATTATATTTA
723849 -AT-TAATTTTTATATTATTATTATATTATATTT
1 TATAT-ATTTTTATA-TATTA--ATATTATATTT
723881 TAATTTATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 19
0.74 0.06 0.19
Matches are distributed among these distances:
26 7 0.10
27 13 0.18
28 5 0.07
29 10 0.14
30 2 0.03
31 9 0.12
32 24 0.33
33 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.63
Consensus pattern (31 bp):
TATATATTTTTATATATTAATATTATATTTA
Found at i:723884 original size:30 final size:31
Alignment explanation
Indices: 723809--723886 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 31
723799 TTTGATATAT
* *
723809 TTATATTATATTTAATTATTTTTAATGTCTTA
1 TTATATTATATTTAATT-TTTATAATGTATTA
*
723841 TTAT-TT-TAATTAATTTTTAT-AT-TATTA
1 TTATATTATATTTAATTTTTATAATGTATTA
723868 TTATATTATATTTTAATTT
1 TTATATTATA-TTTAATTT
723887 ATTACATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 8 0.21
28 4 0.10
29 6 0.15
30 15 0.38
31 2 0.05
32 4 0.10
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (31 bp):
TTATATTATATTTAATTTTTATAATGTATTA
Found at i:723918 original size:14 final size:15
Alignment explanation
Indices: 723893--723940 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
723883 ATTTATTACA
723893 TATTTTTT--ATAAT
1 TATTTTTTAAATAAT
723906 T-TTTTATT-AATAAT
1 TATTTT-TTAAATAAT
723920 TATTTTTTAAATAAT
1 TATTTTTTAAATAAT
723935 ATATTT
1 -TATTT
723941 AAAGTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.13
13 3 0.10
14 8 0.27
15 10 0.33
16 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTTTTAAATAAT
Found at i:724258 original size:23 final size:21
Alignment explanation
Indices: 724214--724270 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
724204 TTATAATTAA
**
724214 ATATATATTAATTATATTATT
1 ATATATATTAATTATACCATT
724235 ATATATATTTAATTAATACCATT
1 ATATATA-TTAATT-ATACCATT
*
724258 AAATATAATTAAT
1 ATATAT-ATTAAT
724271 AAGTAAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.23
22 6 0.20
23 16 0.53
24 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATATATTAATTATACCATT
Found at i:724764 original size:19 final size:19
Alignment explanation
Indices: 724740--724776 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
724730 TATATGATAA
724740 TTTATTTGTT-TTATTTTTT
1 TTTATTT-TTATTATTTTTT
724759 TTTATTTTTATTATTTTT
1 TTTATTTTTATTATTTTT
724777 CATGTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (19 bp):
TTTATTTTTATTATTTTTT
Found at i:724819 original size:19 final size:17
Alignment explanation
Indices: 724785--724817 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
724775 TTCATGTTAT
724785 ATTTATATAATATATAA
1 ATTTATATAATATATAA
*
724802 ATTTATATATTATATA
1 ATTTATATAATATATA
724818 TAGTTTATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTATATAATATATAA
Found at i:725024 original size:11 final size:11
Alignment explanation
Indices: 725010--725034 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
725000 ATGAAAAAAA
725010 TATGTTCATAT
1 TATGTTCATAT
725021 TATGTTCATAT
1 TATGTTCATAT
725032 TAT
1 TAT
725035 AAATTTTTAC
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:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (11 bp):
TATGTTCATAT
Found at i:729921 original size:21 final size:21
Alignment explanation
Indices: 729895--729951 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
729885 AAATATATAT
729895 TTGGATGAAATGATAAATTAG
1 TTGGATGAAATGATAAATTAG
*
729916 TTGGATGAAATGATGAATTAG
1 TTGGATGAAATGATAAATTAG
*
729937 TTAGATGAAATGATA
1 TTGGATGAAATGATA
729952 TATTTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (21 bp):
TTGGATGAAATGATAAATTAG
Found at i:733367 original size:145 final size:145
Alignment explanation
Indices: 733211--733495 Score: 435
Period size: 145 Copynumber: 2.0 Consensus size: 145
733201 CTAACAATTG
* *
733211 GATTAATAATATAATTATACTTATCATATACATAAAGTTTCAAATTGGTTAGATATTTTTATCAT
1 GATTAATAATATAATTATACTCATCATATACATAAAATTTCAAATTGGTTAGATATTTTTATCAT
** * * * *
733276 ATCGTTTGAAAGTACTGTTTTTTTAATTAAAAGTTTTTTTTATACCAATAAATAGTTAGATATTT
66 ATCAATTAAAAATACTGTTTTTTCAATTAAAAGTTTTTTTTATACCAATAAATAGTTAAATATTT
733341 TTAATTTACTGATTA
131 TTAATTTACTGATTA
* * **
733356 GATTAATAATATAATTATACTCATCATGTACATAAAATTTCAAATTGGTTTGATATTTTTATTGT
1 GATTAATAATATAATTATACTCATCATATACATAAAATTTCAAATTGGTTAGATATTTTTATCAT
* * *
733421 ATTAATTAAAAATATTGTTTTTTCAATTAAAAGTTTTTTTTATACTAATAAATAGTTAAATATTT
66 ATCAATTAAAAATACTGTTTTTTCAATTAAAAGTTTTTTTTATACCAATAAATAGTTAAATATTT
733486 TTAATTTACT
131 TTAATTTACT
733496 TAAAACTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
145 125 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (145 bp):
GATTAATAATATAATTATACTCATCATATACATAAAATTTCAAATTGGTTAGATATTTTTATCAT
ATCAATTAAAAATACTGTTTTTTCAATTAAAAGTTTTTTTTATACCAATAAATAGTTAAATATTT
TTAATTTACTGATTA
Found at i:733850 original size:170 final size:168
Alignment explanation
Indices: 733550--733887 Score: 622
Period size: 170 Copynumber: 2.0 Consensus size: 168
733540 GTAATATGAA
*
733550 ATATGACAATTAAAATTAACAAATACAAATTGAATAAAATGTTATGGTAAGTAAATATTATATAT
1 ATATGACAATTAAAATTAACAAATACAAATTGAATAAAATGTTATGGCAAGTAAATATTATATAT
*
733615 ATATATTTATGGCTATCAAATTACGAGCTTGTTTTTGCAGGTGTGGTAGGATCAGAGGTGAGCCT
66 ATATATTTATGGCTATCAAATTACGAGCTTGTTTTTGCAGGTGTCGTAGGATCAGAGGTGAGCCT
733680 GTTAGTAATTATAGGGATTGTAGCAGTAAGGAACATAT
131 GTTAGTAATTATAGGGATTGTAGCAGTAAGGAACATAT
*
733718 ATATGACAATTAAAATTAACAAATATAAATTGAATAAAATGTTATGGCAAGTAAATATTATATAT
1 ATATGACAATTAAAATTAACAAATACAAATTGAATAAAATGTTATGGCAAGTAAATATTATATAT
*
733783 ATATATATATATGGCTATCAAATTACGAGCTTGTTTTTGCAGGTTTCGTAGGATCAGAGGTGAGC
66 ATATAT-T-TATGGCTATCAAATTACGAGCTTGTTTTTGCAGGTGTCGTAGGATCAGAGGTGAGC
733848 CTGTTAGTAATTATAGGGATTGTAGCAGTAAGGAACATAT
129 CTGTTAGTAATTATAGGGATTGTAGCAGTAAGGAACATAT
733888 TCCTGCCCAT
Statistics
Matches: 164, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
168 69 0.42
169 1 0.01
170 94 0.57
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (168 bp):
ATATGACAATTAAAATTAACAAATACAAATTGAATAAAATGTTATGGCAAGTAAATATTATATAT
ATATATTTATGGCTATCAAATTACGAGCTTGTTTTTGCAGGTGTCGTAGGATCAGAGGTGAGCCT
GTTAGTAATTATAGGGATTGTAGCAGTAAGGAACATAT
Found at i:734771 original size:30 final size:30
Alignment explanation
Indices: 734737--734797 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
734727 ATTTGACTTC
*
734737 CTTAAGATATGTGTGTTTTACTAATTAATT
1 CTTAAGATACGTGTGTTTTACTAATTAATT
734767 CTTAAGATACGTGTGTTTTACTAATTAATT
1 CTTAAGATACGTGTGTTTTACTAATTAATT
734797 C
1 C
734798 AATATTAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.48
Consensus pattern (30 bp):
CTTAAGATACGTGTGTTTTACTAATTAATT
Found at i:738195 original size:11 final size:11
Alignment explanation
Indices: 738179--738203 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
738169 CTGATCTATC
738179 CTATAAACACT
1 CTATAAACACT
738190 CTATAAACACT
1 CTATAAACACT
738201 CTA
1 CTA
738204 AATACAACCT
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:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (11 bp):
CTATAAACACT
Found at i:738589 original size:14 final size:14
Alignment explanation
Indices: 738570--738599 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
738560 ATTTGTTCAT
*
738570 AATTATATATTATA
1 AATTATAGATTATA
738584 AATTATAGATTATA
1 AATTATAGATTATA
738598 AA
1 AA
738600 CTACAGATAT
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:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
AATTATAGATTATA
Found at i:741841 original size:22 final size:21
Alignment explanation
Indices: 741801--741845 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
741791 ATAATATCAT
*
741801 ATATATATATTTAATATATTAA
1 ATATATATATATAATATA-TAA
741823 ATATATATATAT-ATGATATAA
1 ATATATATATATAAT-ATATAA
741844 AT
1 AT
741846 TACTATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATATATATATAATATATAA
Found at i:741847 original size:26 final size:24
Alignment explanation
Indices: 741799--741847 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
741789 CTATAATATC
* *
741799 ATATATATATATTTAATATATTAA
1 ATATATATATATTGAATAAATTAA
741823 ATATATATATATATGATATAAATTA
1 ATATATATATAT-TGA-ATAAATTA
741848 CTATAACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 2 0.10
26 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATATATATATATTGAATAAATTAA
Found at i:742175 original size:15 final size:15
Alignment explanation
Indices: 742151--742182 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
742141 TGTGAATTAA
*
742151 AAATAGTTCTAATTG
1 AAATAATTCTAATTG
742166 AAATAATTCTAATTG
1 AAATAATTCTAATTG
742181 AA
1 AA
742183 TTAAACCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (15 bp):
AAATAATTCTAATTG
Found at i:742388 original size:2 final size:2
Alignment explanation
Indices: 742383--742410 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
742373 TTATATAAGA
742383 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
742411 TAAGTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:743170 original size:31 final size:33
Alignment explanation
Indices: 743123--743199 Score: 95
Period size: 32 Copynumber: 2.3 Consensus size: 33
743113 TGTATACATA
* *
743123 ATAAATAATTATATTTATATT-AAAAATAAATT
1 ATAAATAAATATATTTAAATTAAAAAATAAATT
*
743155 ATAAA-AAATATATTTAAATTAAAAAATAAACTA
1 ATAAATAAATATATTTAAATTAAAAAATAAA-TT
743188 ATAATATAAATA
1 ATAA-ATAAATA
743200 CAAGGGAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
31 13 0.34
32 14 0.37
33 5 0.13
34 1 0.03
35 5 0.13
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (33 bp):
ATAAATAAATATATTTAAATTAAAAAATAAATT
Found at i:745560 original size:34 final size:34
Alignment explanation
Indices: 745514--745799 Score: 414
Period size: 34 Copynumber: 8.5 Consensus size: 34
745504 GTAAAAACCA
* *
745514 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * * *
745548 CCATTTAGTCAACAATGGTAAACCACCAAATCAC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
745582 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
745616 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * *
745650 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
745683 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
745717 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * *
745751 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
745784 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
745800 TCTCCCACTT
Statistics
Matches: 224, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
33 44 0.20
34 180 0.80
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.27
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAAGCTACCAAATCTC
Found at i:745735 original size:101 final size:101
Alignment explanation
Indices: 745514--745795 Score: 519
Period size: 101 Copynumber: 2.8 Consensus size: 101
745504 GTAAAAACCA
* * * *
745514 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
1 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
745579 CACCCATTTAATCAATAATGGTAAGCTACCAAATCTC
66 CA-CCATTTAATCAATAATGGTAAGCTACCAAATCTC
745616 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
745681 CACCATTTAATCAATAATGGTAAGCTACCAAATCTC
66 CACCATTTAATCAATAATGGTAAGCTACCAAATCTC
745717 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
745782 CACCATTTAATCAA
66 CACCATTTAATCAA
745796 CAATTCTCCC
Statistics
Matches: 176, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
101 113 0.64
102 63 0.36
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.27
Consensus pattern (101 bp):
CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
CACCATTTAATCAATAATGGTAAGCTACCAAATCTC
Found at i:750256 original size:34 final size:34
Alignment explanation
Indices: 750210--750493 Score: 410
Period size: 34 Copynumber: 8.4 Consensus size: 34
750200 GTAAAAACCA
* *
750210 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * * *
750244 CCATTTAGTCAACAATGGTAAACCACCAAATCAC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
750278 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
750312 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * *
750346 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
750379 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
750413 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * *
750447 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
750480 CCATTTAATCAACA
1 CCATTTAATCAACA
750494 TTTAAGAGCA
Statistics
Matches: 222, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
33 42 0.19
34 180 0.81
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAAGCTACCAAATCTC
Found at i:750431 original size:101 final size:101
Alignment explanation
Indices: 750210--750491 Score: 519
Period size: 101 Copynumber: 2.8 Consensus size: 101
750200 GTAAAAACCA
* * * *
750210 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
1 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
750275 CACCCATTTAATCAATAATGGTAAGCTACCAAATCTC
66 CA-CCATTTAATCAATAATGGTAAGCTACCAAATCTC
750312 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
750377 CACCATTTAATCAATAATGGTAAGCTACCAAATCTC
66 CACCATTTAATCAATAATGGTAAGCTACCAAATCTC
750413 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
750478 CACCATTTAATCAA
66 CACCATTTAATCAA
750492 CATTTAAGAG
Statistics
Matches: 176, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
101 113 0.64
102 63 0.36
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.27
Consensus pattern (101 bp):
CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
CACCATTTAATCAATAATGGTAAGCTACCAAATCTC
Found at i:752195 original size:103 final size:103
Alignment explanation
Indices: 752010--752200 Score: 267
Period size: 103 Copynumber: 1.9 Consensus size: 103
752000 CGATATATTT
* * * *
752010 ATCTTTGTATCCATACAAATTTAGGTTTTAAAGAAGTTTAACTATTGTCAAAAGAAGTATCGATA
1 ATCTTTGTATCCATAAAAATTAAAGTTTTAAAGAAGTTTAACTACTGTCAAAAGAAGTATCGATA
752075 CATACAAACATTGTATCGATATAATTCAAAAATATATC
66 CATACAAACATTGTATCGATATAATTCAAAAATATATC
* * * *
752113 ATCTTTGTATCGATAAAAATTAAAGTTTTAAAGAAGTTTAGCTACTGTCAAGAGATA-TATTGAT
1 ATCTTTGTATCCATAAAAATTAAAGTTTTAAAGAAGTTTAACTACTGTCAAAAGA-AGTATCGAT
* * *
752177 GCATACAAATATTTTATCGATATA
65 ACATACAAACATTGTATCGATATA
752201 TTAAGTTTGA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
103 75 0.99
104 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (103 bp):
ATCTTTGTATCCATAAAAATTAAAGTTTTAAAGAAGTTTAACTACTGTCAAAAGAAGTATCGATA
CATACAAACATTGTATCGATATAATTCAAAAATATATC
Found at i:753129 original size:35 final size:36
Alignment explanation
Indices: 753074--753142 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
753064 AATCTCTGAC
753074 AATTTAATATTTTATATTAAA-TTTCAAAATATAAAA
1 AATTTAATATTTTATATTAAAGTTT-AAAATATAAAA
*
753110 AATTTAATATATTT-T-TTAAAGTTTAAATTATAA
1 AATTTAATAT-TTTATATTAAAGTTTAAAATATAA
753143 TATTATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 13 0.43
36 14 0.47
37 3 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (36 bp):
AATTTAATATTTTATATTAAAGTTTAAAATATAAAA
Found at i:757823 original size:34 final size:34
Alignment explanation
Indices: 757759--757941 Score: 260
Period size: 34 Copynumber: 5.4 Consensus size: 34
757749 GAACAAATCC
* *
757759 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
757792 TGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
757826 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
757860 TATTGATTAAATGGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
757894 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
757928 TGTTGATTAAATGG
1 TGTTGATTAAATGG
757942 TGGTTTTTAC
Statistics
Matches: 132, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 11 0.08
34 121 0.92
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:758304 original size:19 final size:19
Alignment explanation
Indices: 758248--758310 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
758238 TGGTTGTCGA
**
758248 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
758267 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
758286 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
758305 GTTACT
1 GGTACT
758311 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:762442 original size:34 final size:34
Alignment explanation
Indices: 762376--762560 Score: 264
Period size: 34 Copynumber: 5.5 Consensus size: 34
762366 AAGTGGGAGA
* *
762376 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
762409 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
762443 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
762477 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
762511 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
762545 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
762561 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 121 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:763283 original size:52 final size:51
Alignment explanation
Indices: 763198--763321 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
763188 ATATGAAAAG
* *
763198 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
763249 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
763301 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
763322 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:763334 original size:51 final size:50
Alignment explanation
Indices: 763198--763341 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
763188 ATATGAAAAG
* *
763198 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
763250 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
763301 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
763342 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:763348 original size:13 final size:13
Alignment explanation
Indices: 763330--763354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
763320 CAAAGATCAG
763330 TGTATCGATACAA
1 TGTATCGATACAA
763343 TGTATCGATACA
1 TGTATCGATACA
763355 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:763432 original size:33 final size:33
Alignment explanation
Indices: 763395--763494 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
763385 AGTAGCTTAA
* ***
763395 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAACATTTTATGTATCGATAC
763428 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACATTTTATGTATCGATAC
763461 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACATTTTATGTATCGATAC
763494 A
1 A
763495 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAACATTTTATGTATCGATAC
Found at i:763435 original size:13 final size:13
Alignment explanation
Indices: 763417--763474 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
763407 CAAAAAAATA
763417 TGTATCGATACAT
1 TGTATCGATACAT
763430 TGTATCGATACAACATTTT
1 TGTATCGAT---ACA---T
763449 ATGTATCGATACAT
1 -TGTATCGATACAT
763463 TGTATCGATACA
1 TGTATCGATACA
763475 ACATTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:763455 original size:20 final size:20
Alignment explanation
Indices: 763430--763495 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
763420 ATCGATACAT
763430 TGTATCGATACAACATTTTA
1 TGTATCGATACAACATTTTA
763450 TGTATCGAT---ACA---T-
1 TGTATCGATACAACATTTTA
763463 TGTATCGATACAACATTTTA
1 TGTATCGATACAACATTTTA
763483 TGTATCGATACAA
1 TGTATCGATACAA
763496 ATCGTTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.23
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 22 0.56
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAACATTTTA
Found at i:763573 original size:21 final size:21
Alignment explanation
Indices: 763532--763573 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
763522 GTTGGGACCT
*
763532 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
763553 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
763574 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:766382 original size:21 final size:21
Alignment explanation
Indices: 766352--766414 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
766342 TTAAAATTAA
* *
766352 TTTAATTTAATTTAAATTATTT
1 TTTAA-TTAATTTAAATAATAT
**
766374 TTTAATTAATAAAAATAATAT
1 TTTAATTAATTTAAATAATAT
766395 TTTAA-TATATTTAAATAATA
1 TTTAATTA-ATTTAAATAATA
766415 AAATAGATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.06
21 27 0.79
22 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTAATTTAAATAATAT
Found at i:773049 original size:2 final size:2
Alignment explanation
Indices: 773042--773078 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
773032 ACCACAATTA
*
773042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
773079 CACACACTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:774343 original size:11 final size:11
Alignment explanation
Indices: 774327--774351 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
774317 GCTCATCTTG
774327 TTGGAAATTTT
1 TTGGAAATTTT
774338 TTGGAAATTTT
1 TTGGAAATTTT
774349 TTG
1 TTG
774352 TTACTTTATC
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:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (11 bp):
TTGGAAATTTT
Found at i:777025 original size:15 final size:15
Alignment explanation
Indices: 777005--777038 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
776995 GTTATTTTTG
777005 AATTAAATTAATTTA
1 AATTAAATTAATTTA
*
777020 AATTAAATTATTTTA
1 AATTAAATTAATTTA
777035 AATT
1 AATT
777039 TATAATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTAAATTAATTTA
Found at i:777817 original size:47 final size:49
Alignment explanation
Indices: 777718--777842 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 49
777708 TAATTTTATA
* ** *
777718 ATAAAAATTTCTTTACTAATATAATAATATCACACGTTAGGTTGGA-CT
1 ATAAAAATTTCTTTACTAATATAATAATATCACACGTTAGGATAAATAT
777766 -TAAAAATTTCTTTACTAATATAATAATATCAC-CG-T-GGATAAATAT
1 ATAAAAATTTCTTTACTAATATAATAATATCACACGTTAGGATAAATAT
777811 AGT-AAAATTTCTTTAC---TATAATAATATCACAC
1 A-TAAAAATTTCTTTACTAATATAATAATATCACAC
777843 AAAATTGAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
43 14 0.20
44 5 0.07
45 2 0.03
46 15 0.22
47 33 0.48
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (49 bp):
ATAAAAATTTCTTTACTAATATAATAATATCACACGTTAGGATAAATAT
Found at i:778005 original size:36 final size:36
Alignment explanation
Indices: 777937--778012 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
777927 ATGGTTTGAA
*
777937 TTATTATTTAAATAATAAAATTATTTAATTTAA-ATT
1 TTATTATATAAATAATAAAATTATTT-ATTTAATATT
*
777973 TTATTATATAATTATATAAAATTAATTT-TTTAATATT
1 TTATTATATAAATA-ATAAAATT-ATTTATTTAATATT
778010 TTA
1 TTA
778013 AATAATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 17 0.49
37 14 0.40
38 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (36 bp):
TTATTATATAAATAATAAAATTATTTATTTAATATT
Found at i:778246 original size:29 final size:29
Alignment explanation
Indices: 778203--778259 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
778193 AATCGAAGGT
*
778203 GTATTTTAATTTTTATAT-TATTAAATTAA
1 GTATTTTAATCTTTATATAT-TTAAATTAA
*
778232 GTATTTTTATCTTTATATATTTAAATTA
1 GTATTTTAATCTTTATATATTTAAATTA
778260 GAATAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (29 bp):
GTATTTTAATCTTTATATATTTAAATTAA
Found at i:778994 original size:22 final size:22
Alignment explanation
Indices: 778946--778999 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
778936 ATATTAAAAA
778946 ATTAAAATATAAATATAAATAT
1 ATTAAAATATAAATATAAATAT
* *
778968 TTTAAAATATATAATATGAAT-T
1 ATTAAAATATA-AATATAAATAT
*
778990 ATTAATATAT
1 ATTAAAATAT
779000 CAAAATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTAAAATATAAATATAAATAT
Found at i:779405 original size:2 final size:2
Alignment explanation
Indices: 779398--779455 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
779388 ATAATTTATG
779398 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
779440 TG TA -A TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA T
779456 TTTATTATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:779468 original size:8 final size:9
Alignment explanation
Indices: 779398--779469 Score: 75
Period size: 8 Copynumber: 8.4 Consensus size: 9
779388 ATAATTTATG
779398 TATATATA-
1 TATATATAT
779406 TATATATA-
1 TATATATAT
779414 TATATATA-
1 TATATATAT
779422 TATATATAT
1 TATATATAT
779431 ATATATATAT
1 -TATATATAT
779441 GTA-ATAT-T
1 -TATATATAT
*
779449 TATATATTT
1 TATATATAT
779458 TAT-TATAT
1 TATATATAT
779466 TATA
1 TATA
779470 ATTATTTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
7 2 0.04
8 36 0.63
9 8 0.14
10 11 0.19
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (9 bp):
TATATATAT
Found at i:779500 original size:15 final size:15
Alignment explanation
Indices: 779482--779530 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
779472 TATTTTTAAA
779482 ATAATTTATAATTAT
1 ATAATTTATAATTAT
779497 ATAATTTAATAAATTA-
1 ATAATTT-AT-AATTAT
779513 A-AATTT-TATATTAT
1 ATAATTTATA-ATTAT
779527 ATAA
1 ATAA
779531 GTTTTGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 1 0.03
13 5 0.17
14 1 0.03
15 14 0.48
16 3 0.10
17 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATTTATAATTAT
Found at i:783723 original size:19 final size:18
Alignment explanation
Indices: 783695--783740 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
783685 ACTAGAATCA
*
783695 ATATTCAAAAAACATTAAT
1 ATATTAAAAAAACATT-AT
* *
783714 ATATTAAAAAAATATTTT
1 ATATTAAAAAAACATTAT
783732 ATATTAAAA
1 ATATTAAAA
783741 TTTATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATTAAAAAAACATTAT
Found at i:789595 original size:16 final size:17
Alignment explanation
Indices: 789574--789605 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
789564 GGTATATATA
789574 TTTTTAAGTT-TTTTTT
1 TTTTTAAGTTCTTTTTT
789590 TTTTTAAGTTCTTTTT
1 TTTTTAAGTTCTTTTT
789606 CTTTGTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTTAAGTTCTTTTTT
Found at i:789863 original size:15 final size:15
Alignment explanation
Indices: 789837--789874 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
789827 AGCTGCAATG
*
789837 TAATTGTTATGATTAT
1 TAATTTTTATGATT-T
789853 T-ATTTTTATGATTT
1 TAATTTTTATGATTT
789867 TAATTTTT
1 TAATTTTT
789875 TTATTGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.85
16 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (15 bp):
TAATTTTTATGATTT
Found at i:790784 original size:16 final size:16
Alignment explanation
Indices: 790763--790794 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
790753 TATATTTTCA
790763 TAATATTTTATATAAT
1 TAATATTTTATATAAT
*
790779 TAATATTTTATTTAAT
1 TAATATTTTATATAAT
790795 CGATTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATATTTTATATAAT
Found at i:792467 original size:23 final size:23
Alignment explanation
Indices: 792441--792494 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
792431 AATACTTAAC
*
792441 AATTAAAAAAATTATTTAAA-TTT
1 AATTAAAAAAA-TATATAAATTTT
*
792464 AATT-ATAAAATATATAAATTTT
1 AATTAAAAAAATATATAAATTTT
792486 AATATAAAA
1 AAT-TAAAA
792495 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 7 0.28
22 11 0.44
23 5 0.20
24 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTAAAAAAATATATAAATTTT
Found at i:792483 original size:21 final size:21
Alignment explanation
Indices: 792448--792495 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
792438 AACAATTAAA
*
792448 AAAATTATTTAAA-TTTAATTAT
1 AAAA-TATATAAATTTTAA-TAT
792470 AAAATATATAAATTTTAATAT
1 AAAATATATAAATTTTAATAT
792491 AAAAT
1 AAAAT
792496 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATATATAAATTTTAATAT
Found at i:794350 original size:2 final size:2
Alignment explanation
Indices: 794343--794392 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
794333 CCAAATTTGA
794343 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
794385 AT AT AT AT
1 AT AT AT AT
794393 CAGACATAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:794433 original size:17 final size:18
Alignment explanation
Indices: 794407--794449 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
794397 CATAAATATT
* *
794407 AAAATGAATACTTTA-AA
1 AAAATAAATAATTTAGAA
794424 AAAATAAATAATTTAGAA
1 AAAATAAATAATTTAGAA
*
794442 AATATAAA
1 AAAATAAA
794450 CAGATATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAATAAATAATTTAGAA
Found at i:794937 original size:21 final size:22
Alignment explanation
Indices: 794898--794943 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
794888 ATTAAAAAAT
* * *
794898 TATTTTTATATTAATATTTATA
1 TATTTTAAAATTAATATTTAAA
794920 TATTTTAAAATTAA-ATTTAAA
1 TATTTTAAAATTAATATTTAAA
794941 TAT
1 TAT
794944 AAATATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTTAAAATTAATATTTAAA
Found at i:798530 original size:16 final size:17
Alignment explanation
Indices: 798511--798558 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
798501 AAAATCATAC
*
798511 TTATATT-AAATATTAT
1 TTATATTAAAATATAAT
798527 TTATATTAAAATATAAT
1 TTATATTAAAATATAAT
798544 TTA-A-TAACAATATAA
1 TTATATTAA-AATATAA
798559 ATAAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 3 0.10
16 15 0.52
17 11 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TTATATTAAAATATAAT
Found at i:798540 original size:17 final size:16
Alignment explanation
Indices: 798511--798546 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
798501 AAAATCATAC
*
798511 TTATATTAAATATTAT
1 TTATATTAAATATAAT
798527 TTATATTAAAATATAAT
1 TTATATT-AAATATAAT
798544 TTA
1 TTA
798547 ATAACAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATATTAAATATAAT
Found at i:799941 original size:28 final size:28
Alignment explanation
Indices: 799897--799951 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
799887 ATTGATGATT
799897 TTTAAATAAAATTTTAAAATATTATTAA
1 TTTAAATAAAATTTTAAAATATTATTAA
799925 TTTAAAT-AAATTATTAAAATATTATTA
1 TTTAAATAAAATT-TTAAAATATTATTA
799952 TTTTGATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTAAATAAAATTTTAAAATATTATTAA
Found at i:799983 original size:23 final size:24
Alignment explanation
Indices: 799926--799986 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
799916 TATTATTAAT
* *
799926 TTAAATAAATT-ATTAAAATATTA
1 TTAAATTAATTGATGAAAATATTA
** *
799949 TTATTTTGATTGATGAAAA-ATTA
1 TTAAATTAATTGATGAAAATATTA
799972 TTAAATTAATTGATG
1 TTAAATTAATTGATG
799987 GATTCATGGT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (24 bp):
TTAAATTAATTGATGAAAATATTA
Found at i:800168 original size:26 final size:26
Alignment explanation
Indices: 800139--800195 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
800129 TTTTTTAATA
800139 ATATTATTAGAGT-TATTATTATGTTG
1 ATATTATTA-AGTATATTATTATGTTG
* * *
800165 ATATTTTTAATTATATTGTTATGTTG
1 ATATTATTAAGTATATTATTATGTTG
800191 ATATT
1 ATATT
800196 TTTTAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (26 bp):
ATATTATTAAGTATATTATTATGTTG
Found at i:800677 original size:19 final size:19
Alignment explanation
Indices: 800645--800681 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
800635 TGTTTATAAT
*
800645 AATATTATCATTTATTAAC
1 AATATAATCATTTATTAAC
*
800664 AATATAATCTTTTATTAA
1 AATATAATCATTTATTAA
800682 TTCAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATAATCATTTATTAAC
Found at i:801842 original size:32 final size:32
Alignment explanation
Indices: 801800--801866 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
801790 ATTTTTACCA
* *
801800 AGTAACTTTTTAGATTTTATAAATAACATTTT
1 AGTAACTTTTTAGATTATATAAATAACATTAT
* * *
801832 AGTAAGTTTTTGGATTATATAAATAAGATTAT
1 AGTAACTTTTTAGATTATATAAATAACATTAT
801864 AGT
1 AGT
801867 TTTAATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.46
Consensus pattern (32 bp):
AGTAACTTTTTAGATTATATAAATAACATTAT
Found at i:804176 original size:29 final size:29
Alignment explanation
Indices: 804098--804180 Score: 77
Period size: 32 Copynumber: 2.9 Consensus size: 29
804088 GAGCTTGAGT
*
804098 AATTATATTTTAA-AATTT-AA-TAAAAA
1 AATTATATTTAAATAATTTAAATTAAAAA
804124 AATTATTAAGTTATTAAAT-A-TTAAATTAAAAA
1 AATTA-T-A--T-TTAAATAATTTAAATTAAAAA
804156 AATTATATTTAAATAATTTAAATTA
1 AATTATATTTAAATAATTTAAATTA
804181 TTTATTTATA
Statistics
Matches: 46, Mismatches: 1, Indels: 17
0.72 0.02 0.27
Matches are distributed among these distances:
26 5 0.11
27 7 0.15
28 3 0.07
29 8 0.17
30 4 0.09
31 8 0.17
32 11 0.24
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
AATTATATTTAAATAATTTAAATTAAAAA
Found at i:804178 original size:20 final size:21
Alignment explanation
Indices: 804155--804245 Score: 64
Period size: 21 Copynumber: 4.2 Consensus size: 21
804145 TAAATTAAAA
804155 AAATTA-TATTTAAATAATTT
1 AAATTATTATTTAAATAATTT
* *
804175 AAATTATTTATTTATA-AATAT
1 AAATTA-TTATTTAAATAATTT
* *
804196 AAA-TA-AATTTAAATAAAATTAA
1 AAATTATTATTTAAAT--AATT-T
804218 AAATTATTATTTAAAATTAATTT
1 AAATTATTATTT-AAA-TAATTT
804241 AAATT
1 AAATT
804246 TAAATAAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
18 6 0.11
20 8 0.15
21 10 0.19
22 10 0.19
23 7 0.13
24 8 0.15
25 3 0.06
26 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTATTATTTAAATAATTT
Done.