Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold153
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: 3137677
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 24
Found at i:619148 original size:9 final size:9
Alignment explanation
Indices: 619128--619165 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
619118 ATTATTATTG
619128 TTTTTTGA-
1 TTTTTTGAT
619136 TTTTTTGAT
1 TTTTTTGAT
619145 TTTTTTGAT
1 TTTTTTGAT
* *
619154 TTCTATGAT
1 TTTTTTGAT
619163 TTT
1 TTT
619166 CTATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.13, C:0.03, G:0.11, T:0.74
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:619148 original size:17 final size:18
Alignment explanation
Indices: 619128--619165 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
619118 ATTATTATTG
*
619128 TTTTTTGATTT-TTTGAT
1 TTTTTTGATTTCTATGAT
619145 TTTTTTGATTTCTATGAT
1 TTTTTTGATTTCTATGAT
619163 TTT
1 TTT
619166 CTATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.13, C:0.03, G:0.11, T:0.74
Consensus pattern (18 bp):
TTTTTTGATTTCTATGAT
Found at i:619891 original size:43 final size:43
Alignment explanation
Indices: 619803--619896 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
619793 AAAAGAGTGA
* * *
619803 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATGAGACT
* *
619846 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACAGTGA-ACT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACA-TGAGACT
619889 TAAAGATG
1 TAAAGATG
619897 GCAGAAGGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 42 0.95
44 2 0.05
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (43 bp):
TAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATGAGACT
Found at i:619943 original size:52 final size:52
Alignment explanation
Indices: 619848--620704 Score: 289
Period size: 52 Copynumber: 16.9 Consensus size: 52
619838 ATTAGGCTTA
* * *
619848 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACAGTGAACTTAAAGATGGCAG
1 AAGG-GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGCAG
* * * * *
619901 AAGGGCCAATATGATGATTCAAGGCCAGCGATATTGGCCTTAAAGGTGTGAAG
1 AAGGGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-GCAG
* * ** * * * * *
619954 AA-TGTCAACGTGCTGATTCACGGCCAACGACATTAGACTTGAAGATGAGAAG
1 AAGGGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-GCAG
** * * * * * * * ** *
620006 AA-TACTAATGTGCTGATTCAAGGCTAACAATATTGGGCTTAGGGATGTCA-
1 AAGGGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGCAG
* * * *
620056 AAGATGCCAATATGCTAATTCAAGGCCAGCGATATCGGACTTAAAGAT---A-
1 AAG-GGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGCAG
** * *
620105 AAGGTGCCAATGA-GCTGATTCAAGGCCAGTAACATTAGACTTAAAGATGAC-G
1 AAGG-GCCAAT-ATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGCAG
* * * * *
620157 --GTGCCAATGTGCTAATTCAAGGCTAGCGACATTGGACTTAAATG-TGGTA-
1 AAGGGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-GATGGCAG
** *
620206 AAGGTGCCAATATGCTGATTCAAGGCCAGCGTTATTAGACTT--A-A----AG
1 AAGG-GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGCAG
* * * * * *
620252 --GTGCCAATGTGATGATTCAAGGGCAACGACATTGGACTTTAACATGATAAGGATGAG
1 AAGGGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-TTAA-A-GAT--GG--CAG
* * * *
620309 AAGGGTGCCGATATGCTGATTTAAGGCCAGCGATATTAGG-CTTAAAGAT-ACA-
1 AA-GG-GCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGGCAG
* * * * * * * * **
620361 AAGAATGTCAATGTGCTGATCCACGACCAGCGACATTAGACTTGAAGATGAAAAG
1 AAG--GGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-GCAG
* * *
620416 AA-TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGAT---AG
1 AAGGGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGCAG
* * * * **
620464 -AGGTGCCAATGTGCTAATTCATGGCTAGCGACATTGGACTTAAATG-TGATA-
1 AAGG-GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-GATGGCAG
* * * * *
620515 AATGTGCCAATATGTTGATTCAAAGCTAGCGATATTGGACTT--A-A----AG
1 AA-GGGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGCAG
* * * * * **
620561 --GTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGGCTT-AGGAATGTTA-
1 AAGGGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGGCAG
* * * ** *
620610 AAGATGCCAATATGCTGATTCAAGGCCAGCAATATCAGACATAAAGAT---A-
1 AAG-GGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGCAG
*
620659 AAGGTGCCAATGA-GCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 AAGG-GCCAAT-ATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
620705 GTGCCAATAT
Statistics
Matches: 598, Mismatches: 141, Indels: 134
0.68 0.16 0.15
Matches are distributed among these distances:
43 60 0.10
44 3 0.01
45 2 0.00
46 1 0.00
47 2 0.00
48 2 0.00
49 151 0.25
50 10 0.02
51 5 0.01
52 307 0.51
53 13 0.02
54 2 0.00
55 2 0.00
57 2 0.00
58 3 0.01
59 1 0.00
60 5 0.01
61 25 0.04
62 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (52 bp):
AAGGGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGCAG
Found at i:620227 original size:101 final size:99
Alignment explanation
Indices: 619803--620703 Score: 592
Period size: 101 Copynumber: 8.9 Consensus size: 99
619793 AAAAGAGTGA
* *
619803 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT--A-A-AGGTGCCAATGTGCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAGGTGCCAATGTGCT
* *
619864 GATTCAAGGCCAGCGACAGTGAACTTAAA-GATGG
66 GATTCAAGGCCAGCGACATTGGACTTAAATG-TGG
* * * * * * *
619898 CAGAAGG-GCCAATATGATGATTCAAGGCCAGCGATATTGGCCTTAAAGGTGTGAAGAATGTCAA
1 TA-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAA-G-AT--AG-GTGCCAA
* * * * *
619962 CGTGCTGATTCACGGCCAACGACATTAGACTTGAA-GAT-G
60 TGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATG-TGG
* * * * * * * * * * * *
620001 -AGAAGAATACTAATGTGCTGATTCAAGGCTAACAATATTGGGCTTAGGGATGTCAAAGATGCCA
1 TA-AAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTA---AAG--ATAGGTGCCA
* * * * *
620065 ATATGCTAATTCAAGGCCAGCGATATCGGACTTAAA---GA
59 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATGTGG
** *
620103 TAAAGGTGCCAATGA-GCTGATTCAAGGCCAGTAACATTAGACTTAAAGATGACGGTGCCAATGT
1 TAAAGGTGCCAAT-ATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGAT-A-GGTGCCAATGT
* *
620167 GCTAATTCAAGGCTAGCGACATTGGACTTAAATGTGG
63 GCTGATTCAAGGCCAGCGACATTGGACTTAAATGTGG
* *
620204 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGTTATTAGACTT--A-A-AGGTGCCAATGTGAT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAGGTGCCAATGTGCT
* *
620265 GATTCAAGGGCAACGACATTGGACTTTAACATGATAAGG
66 GATTCAAGGCCAGCGACATTGGAC-TTAA-ATG-T--GG
* * * * *
620304 ATGAGAAGGGTGCCGATATGCTGATTTAAGGCCAGCGATATTAGGCTTAAAGATACAAAGAATGT
1 -T-A-AA-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGAT----AG-GTGC
* * * * *
620369 CAATGTGCTGATCCACGACCAGCGACATTAGACTTGAA-GAT-G
57 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATG-TGG
* * * * * *
620411 AAAAGAATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATAGAGGTGCCAATGT
1 TAAAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGAT--AGGTGCCAATGT
* * * *
620476 GCTAATTCATGGCTAGCGACATTGGACTTAAATGTGA
63 GCTGATTCAAGGCCAGCGACATTGGACTTAAATGTGG
* * * * *
620513 TAAATGTGCCAATATGTTGATTCAAAGCTAGCGATATTGGACTT--A-A-AGGTGCCAATGTGCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAGGTGCCAATGTGCT
* *
620574 GATTCAAGGTCAGCGACATTGGGCTTAGGAATGT--
66 GATTCAAGGCCAGCGACATTGGACTTA--AATGTGG
* * * * *
620608 TAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATCAGACATAAAGATAAAGGTGCCAATGAG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGAT--AGGTGCCAATGTG
*
620673 CTGATTCAAGGCCAGCGATATTGGACTTAAA
64 CTGATTCAAGGCCAGCGACATTGGACTTAAA
620704 GGTGCCAATA
Statistics
Matches: 625, Mismatches: 127, Indels: 104
0.73 0.15 0.12
Matches are distributed among these distances:
95 140 0.22
96 9 0.01
97 11 0.02
98 44 0.07
99 4 0.01
100 3 0.00
101 173 0.28
102 16 0.03
103 7 0.01
104 173 0.28
105 3 0.00
106 2 0.00
107 3 0.00
110 3 0.00
111 1 0.00
112 5 0.01
113 28 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (99 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAGGTGCCAATGTGCT
GATTCAAGGCCAGCGACATTGGACTTAAATGTGG
Found at i:620290 original size:43 final size:43
Alignment explanation
Indices: 620204--620290 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
620194 TTAAATGTGG
* * **
620204 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGTTATTAGACT
1 TAAAGGTGCCAATATGATGATTCAAGGCCAACGACATTAGACT
* * *
620247 TAAAGGTGCCAATGTGATGATTCAAGGGCAACGACATTGGACT
1 TAAAGGTGCCAATATGATGATTCAAGGCCAACGACATTAGACT
620290 T
1 T
620291 TAACATGATA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (43 bp):
TAAAGGTGCCAATATGATGATTCAAGGCCAACGACATTAGACT
Found at i:620579 original size:43 final size:43
Alignment explanation
Indices: 620513--620731 Score: 161
Period size: 43 Copynumber: 4.7 Consensus size: 43
620503 TTAAATGTGA
* * *
620513 TAAATGTGCCAATATGTTGATTCAAAGCTAGCGATATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATTGGACT
* * * * *
620556 TAAAGGTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGGCT
1 TAAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATTGGACT
* * **
620599 TAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATCAGACAT
1 TA--AA-G-----G-TGCCAATATGCTGATTCAAAGCCAGCGATATTGGAC-T
*
620652 AAAGATAAAGGTGCCAATGA-GCTGATTCAAGGCCAGCGATATTGGACT
1 -----TAAAGGTGCCAAT-ATGCTGATTCAAAGCCAGCGATATTGGACT
*
620700 TAAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 TAAAGGTGCCAATATGCTGATTCAAAGCCAGC
620732 AACACTGGAC
Statistics
Matches: 141, Mismatches: 18, Indels: 34
0.73 0.09 0.18
Matches are distributed among these distances:
42 1 0.01
43 67 0.48
45 2 0.01
46 1 0.01
48 1 0.01
49 31 0.22
50 2 0.01
51 1 0.01
52 29 0.21
53 1 0.01
55 1 0.01
56 2 0.01
58 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATTGGACT
Found at i:620629 original size:95 final size:95
Alignment explanation
Indices: 620464--620703 Score: 254
Period size: 95 Copynumber: 2.5 Consensus size: 95
620454 TTAAAGATAG
* *
620464 AGGTGCCAATGTGCTAATTCATGGCTAGCGACATTGGACTTAAATGTGATAAATGTGCCAATATG
1 AGGTGCCAATGTGCTGATTCAAGGC-AGCGACATTGGACTTAAATGT-ATAAATGTGCCAATATG
* * * **
620529 TTGATTCAAAGCTAGCGATATTGGAC-T-TAA
64 CTGATTCAAAGCCAGCAATATCAGACATATAA
*
620559 AGGTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGGCTTAGGAATGT-TAAA-GATGCCAATA
1 AGGTGCCAATGTGCTGATTCAAGG-CAGCGACATTGGACTTA--AATGTATAAATG-TGCCAATA
*
620622 TGCTGATTCAAGGCCAGCAATATCAGACATAAAGATAA
62 TGCTGATTCAAAGCCAGCAATATCAGACAT----ATAA
* *
620660 AGGTGCCAATGAGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 AGGTGCCAATGTGCTGATTCAAGG-CAGCGACATTGGACTTAAA
620704 GGTGCCAATA
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
94 1 0.01
95 71 0.58
96 2 0.02
97 5 0.04
99 2 0.02
101 41 0.34
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (95 bp):
AGGTGCCAATGTGCTGATTCAAGGCAGCGACATTGGACTTAAATGTATAAATGTGCCAATATGCT
GATTCAAAGCCAGCAATATCAGACATATAA
Found at i:620679 original size:144 final size:143
Alignment explanation
Indices: 620418--620747 Score: 396
Period size: 144 Copynumber: 2.3 Consensus size: 143
620408 ATGAAAAGAA
* * * *
620418 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTA-AAGATAGAGGTGCCAATGTGCTAAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAGAAGATAAAGATGCCAATATGCTAAT
* * * ** * * * *
620482 TCATGGCTAGCGACATTGGACTTAAATGTGATAAATGTGCCAATATGTTGATTCAAAGCTAGCGA
66 TCAAGGCCAGCAACATCAGACATAAA--TGATAAAGGTGCCAATATGCTGATTCAAAGCCAGCGA
620547 TATTGGACTTAAAGG
129 TATTGGACTTAAAGG
* * * *
620562 TGCCAATGTGCTGATTCAAGGTCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-GAA-GATAAAGATGCCAATATGCTA
* *
620627 ATTCAAGGCCAGCAATATCAGACATAAA-GATAAAGGTGCCAATGA-GCTGATTCAAGGCCAGCG
64 ATTCAAGGCCAGCAACATCAGACATAAATGATAAAGGTGCCAAT-ATGCTGATTCAAAGCCAGCG
620690 ATATTGGACTTAAAGG
128 ATATTGGACTTAAAGG
* * *
620706 TGCCAATATGCTGATTCAAGGCCAGCAACACTGGACTTAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAGAA
620748 AGAGATGGTT
Statistics
Matches: 158, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
143 3 0.02
144 115 0.73
145 1 0.01
146 2 0.01
147 37 0.23
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (143 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAGAAGATAAAGATGCCAATATGCTAAT
TCAAGGCCAGCAACATCAGACATAAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAGCGATA
TTGGACTTAAAGG
Found at i:620681 original size:410 final size:398
Alignment explanation
Indices: 619803--620704 Score: 1018
Period size: 410 Copynumber: 2.2 Consensus size: 398
619793 AAAAGAGTGA
*
619803 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTAAAGGTGCCAATGTGCTGATT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATGTGCTGATT
* *
619868 CAAGGCCAGCGACAGTGAAC-TTAAAGATGGCAGAAGGGCCAATATGATGATTCAAGGCCAGCGA
66 CAAGGCCAGCGACATTGGACTTTAAAGATGGCAGAAGGGCCAATATGATGATTCAAGGCCAGCGA
* *** * *
619932 TATTGGCCTTAAAGGTGTGAAGAATGTCAACGTGCTGATTCACGGCCAACGACATTAGACTTGAA
131 TATTGGCCTTAAAGATACAAAGAATGTCAACGTGCTGATCCACGACCAACGACATTAGACTTGAA
* * * * * **
619997 GATGAGAAGAATACTAATGTGCTGATTCAAGGCTAACAATATTGGGCTTAGGGATGTCAAAGATG
196 GATGAAAAGAATACCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGA-GTCAAAGATG
*
620062 CCAATATGCTAATTCAAGGCCAGCGATATCGGACTTAAAGATAAAGGTGCCAATGAGCTGATTCA
260 CCAATATGCTAATTCAAGGCCAGCGACATCGGACTTAAAGATAAAGGTGCCAATGAGCTGATTCA
* *
620127 AGGCCAGTAACATTAGACTTAAAGATGACGGTGCCAATGTGCTAATTCAAGGCTAGCGACATTGG
325 AAGCCAGCAACATTAGACTT-AAGA-GACGGTGCCAATGTGCTAATTCAAGGCTAGCGACATTGG
620192 ACTTAAATGTGG
388 ACTTAAATGT-G
* * *
620204 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGTTATTAGACTTAAAGGTGCCAATGTGATGATT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATGTGCTGATT
* * * * * *
620269 CAAGGGCAACGACATTGGACTTTAACATGATAAGGATGAGAAGGGTGCCGATATGCTGATTTAAG
66 CAAGGCCAGCGACATTGGACTTTAA-A-GAT--GG--CAGAA-GG-GCCAATATGATGATTCAAG
* *
620334 GCCAGCGATATTAGG-CTTAAAGATACAAAGAATGTCAATGTGCTGATCCACGACCAGCGACATT
123 GCCAGCGATATT-GGCCTTAAAGATACAAAGAATGTCAACGTGCTGATCCACGACCAACGACATT
* ***
620398 AGACTTGAAGATGAAAAGAATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGA-T
187 AGACTTGAAGATGAAAAGAATACCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGAGT
* * * * * * *
620462 -AGAGGTGCCAATGTGCTAATTCATGGCTAGCGACATTGGACTTAAATGTGATAAATGTGCCAAT
252 CAAAGATGCCAATATGCTAATTCAAGGCCAGCGACATCGGACTTAAA---GATAAAGGTGCCAAT
* * * * * *
620526 -ATGTTGATTCAAAGCTAGCGATATTGGACTT-A-A-A-GGTGCCAATGTGCTGATTCAAGG-TC
314 GA-GCTGATTCAAAGCCAGCAACATTAGACTTAAGAGACGGTGCCAATGTGCTAATTCAAGGCT-
*
620585 AGCGACATTGGGCTTAGGAATGT-
377 AGCGACATTGGACTTA--AATGTG
* * *
620608 TAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATCAGACATAAAGATAAAGGTGCCAATGAG
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC-T-----TAAAGGTGCCAATGTG
*
620673 CTGATTCAAGGCCAGCGATATTGGAC-TTAAAG
60 CTGATTCAAGGCCAGCGACATTGGACTTTAAAG
620705 GTGCCAATAT
Statistics
Matches: 421, Mismatches: 57, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
401 77 0.18
402 4 0.01
403 2 0.00
404 78 0.19
405 2 0.00
406 7 0.02
407 41 0.10
408 7 0.02
409 7 0.02
410 194 0.46
411 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (398 bp):
TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATGTGCTGATT
CAAGGCCAGCGACATTGGACTTTAAAGATGGCAGAAGGGCCAATATGATGATTCAAGGCCAGCGA
TATTGGCCTTAAAGATACAAAGAATGTCAACGTGCTGATCCACGACCAACGACATTAGACTTGAA
GATGAAAAGAATACCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGAGTCAAAGATGC
CAATATGCTAATTCAAGGCCAGCGACATCGGACTTAAAGATAAAGGTGCCAATGAGCTGATTCAA
AGCCAGCAACATTAGACTTAAGAGACGGTGCCAATGTGCTAATTCAAGGCTAGCGACATTGGACT
TAAATGTG
Found at i:620741 original size:43 final size:42
Alignment explanation
Indices: 620657--620744 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 42
620647 GACATAAAGA
*
620657 TAAAGGTGCCAATGA-GCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAAT-ATGCTGATTCAAGGCCAGCAATA-TGGACT
*
620700 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACACTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATA-TGGACT
620743 TA
1 TA
620745 GAAAGAGATG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.02
43 40 0.98
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (42 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATGGACT
Found at i:620903 original size:32 final size:32
Alignment explanation
Indices: 620862--620972 Score: 109
Period size: 32 Copynumber: 3.5 Consensus size: 32
620852 GCTCATGCGG
*
620862 GCTTCAGAAAAGGTTGCCACTAACTTGTGTGA
1 GCTTTAGAAAAGGTTGCCACTAACTTGTGTGA
* * *
620894 GCTTTAGAAAAGGTCGCTACCAACTTGTGT-A
1 GCTTTAGAAAAGGTTGCCACTAACTTGTGTGA
* * * *
620925 GGCTTT-GAAGAAGGTTACCACTAGCTTATGTGG
1 -GCTTTAGAA-AAGGTTGCCACTAACTTGTGTGA
*
620958 GCTTTAGAGAAGGTT
1 GCTTTAGAAAAGGTT
620973 CCTCCACTGG
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
31 4 0.06
32 57 0.90
33 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (32 bp):
GCTTTAGAAAAGGTTGCCACTAACTTGTGTGA
Found at i:621206 original size:28 final size:27
Alignment explanation
Indices: 621143--621207 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 27
621133 TATACAACAA
*
621143 GTGCCACCGATTGTGGACTTCAAAAAG
1 GTGCCACTGATTGTGGACTTCAAAAAG
* * * *
621170 ATGCTACTGATTTGTGGACTTCGAAGAG
1 GTGCCACTGA-TTGTGGACTTCAAAAAG
621198 GTGCCACTGA
1 GTGCCACTGA
621208 CTAGTGGGCT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (27 bp):
GTGCCACTGATTGTGGACTTCAAAAAG
Found at i:621214 original size:28 final size:28
Alignment explanation
Indices: 621155--621214 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
621145 GCCACCGATT
* * *
621155 GTGGACTTCAAAAAGATGCTACTGATTT
1 GTGGACTTCAAAAAGATGCCACTGACTA
* * *
621183 GTGGACTTCGAAGAGGTGCCACTGACTA
1 GTGGACTTCAAAAAGATGCCACTGACTA
621211 GTGG
1 GTGG
621215 GCTTTGAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
GTGGACTTCAAAAAGATGCCACTGACTA
Found at i:622569 original size:11 final size:11
Alignment explanation
Indices: 622555--622601 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
622545 CCCCTTTTTC
622555 TTTTTTTTGTG
1 TTTTTTTTGTG
622566 -TTTTTTT-TG
1 TTTTTTTTGTG
*
622575 ---TTTTTGTT
1 TTTTTTTTGTG
622583 TTTTTTTTGTG
1 TTTTTTTTGTG
622594 TTTTTTTT
1 TTTTTTTT
622602 ACGAAGGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
7 5 0.17
8 1 0.03
9 2 0.07
10 7 0.23
11 15 0.50
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:622569 original size:17 final size:15
Alignment explanation
Indices: 622549--622590 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
622539 TTTCTTCCCC
622549 TTTTTCTTTTTTTTGTG
1 TTTTT-TTTTTTTT-TG
*
622566 TTTTTTTTGTTTTTG
1 TTTTTTTTTTTTTTG
622581 TTTTTTTTTT
1 TTTTTTTTTT
622591 GTGTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 11 0.48
16 7 0.30
17 5 0.22
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTTTTG
Found at i:622591 original size:17 final size:17
Alignment explanation
Indices: 622549--622601 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
622539 TTTCTTCCCC
*
622549 TTTTTCTTT-TTTTTGT
1 TTTTTTTTTGTTTTTGT
*
622565 GTTTTTTTTGTTTTTGT
1 TTTTTTTTTGTTTTTGT
622582 TTTTTTTTTGTGTTTT-T
1 TTTTTTTTTGT-TTTTGT
622599 TTT
1 TTT
622602 ACGAAGGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.22
17 21 0.66
18 4 0.12
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (17 bp):
TTTTTTTTTGTTTTTGT
Found at i:626514 original size:13 final size:13
Alignment explanation
Indices: 626496--626520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
626486 CATAAAATCT
626496 TGTATCGATACAC
1 TGTATCGATACAC
626509 TGTATCGATACA
1 TGTATCGATACA
626521 TATTTTTTTG
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:626518 original size:33 final size:33
Alignment explanation
Indices: 626476--626545 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
626466 TTCAATGATT
*
626476 TGTATCGATACATAAAATCTTGTATCGATACAC
1 TGTATCGATACATAAAATCTTGTATCGATACAA
*** *
626509 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATCTTGTATCGATACAA
626542 TGTA
1 TGTA
626546 AGCTACTGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATCTTGTATCGATACAA
Found at i:626603 original size:13 final size:13
Alignment explanation
Indices: 626585--626609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
626575 ATTACTCACA
626585 TGTATCGATACAT
1 TGTATCGATACAT
626598 TGTATCGATACA
1 TGTATCGATACA
626610 CTGATTTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:626674 original size:52 final size:52
Alignment explanation
Indices: 626618--626742 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
626608 CACTGATTTT
*
626618 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
626670 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
626722 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
626743 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:630197 original size:150 final size:150
Alignment explanation
Indices: 629915--630214 Score: 431
Period size: 150 Copynumber: 2.0 Consensus size: 150
629905 TTGAGTGAAG
* **** * **
629915 GTAAGTAGGTTTTTGTTGCTTGACATTATGTGAAAATGGACAAGAAAAGTGTAGGGGCTTCTGTC
1 GTAAGTAGGTTTTTGTTGCTTAACATTACAAAAAAATGGACAAGAAAAGTGCAGGGGCTTCCATC
* * * *
629980 ATGCTCTTGTCATCGAAATCAGGTCATGGTGGATGGGCACGAGTTTCATGGCTCATTATCTAAGA
66 ATGCTCTTGGCATCGAAATCAGGTCATAGTGGAGGGGCACAAGTTTCATGGCTCATTATCTAAGA
* *
630045 GATGGAGGTTGTGGAGTGCC
131 GATGGAAGTTGTGGAATGCC
*
630065 GTAAGTAGGTTTTTGTTGCTTAACATTACAAAAAAATGGACAAGAAAAGTGCAGTGGCTTCCATC
1 GTAAGTAGGTTTTTGTTGCTTAACATTACAAAAAAATGGACAAGAAAAGTGCAGGGGCTTCCATC
* *
630130 ATGTTCTTGGCATCGAAATCAGGTCATAGTGGAGGGGCACAAGTTTCATGGCTCAGTT-TCTAGG
66 ATGCTCTTGGCATCGAAATCAGGTCATAGTGGAGGGGCACAAGTTTCATGGCTCA-TTATCTAAG
630194 AGATGGAAGTTGTGGAATGCC
130 AGATGGAAGTTGTGGAATGCC
630215 CTATTTAAGA
Statistics
Matches: 132, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
150 130 0.98
151 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (150 bp):
GTAAGTAGGTTTTTGTTGCTTAACATTACAAAAAAATGGACAAGAAAAGTGCAGGGGCTTCCATC
ATGCTCTTGGCATCGAAATCAGGTCATAGTGGAGGGGCACAAGTTTCATGGCTCATTATCTAAGA
GATGGAAGTTGTGGAATGCC
Found at i:637126 original size:28 final size:28
Alignment explanation
Indices: 637085--637139 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
637075 CAGTGGAGTC
*
637085 GCCAAGCTATCGTAACGTGCGCTCGACT
1 GCCAAGCTATCGTAACGTGCACTCGACT
* *
637113 GCCATGCTGTCGTAACGTGCACTCGAC
1 GCCAAGCTATCGTAACGTGCACTCGAC
637140 CCTGGTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.22
Consensus pattern (28 bp):
GCCAAGCTATCGTAACGTGCACTCGACT
Found at i:638406 original size:80 final size:80
Alignment explanation
Indices: 638090--638508 Score: 372
Period size: 79 Copynumber: 5.3 Consensus size: 80
638080 TGGAGATAAA
* * * * * * * *
638090 AACGGGGTTGGAGTATCTCCAATGGTGAAAAATCGATA-TTTTGGAAACAAA-CCGGGGTTAGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTTAGAAATAAAGTCAGGGTTAGAG
*
638153 TAT-CCTCTCAAAAAT
66 TATCCCT-TCGAAAAT
* * * * * *
638168 AATGAGGTTGGAGTATCCCCGATTATGAAAAATCGAT-GTTTTAGAAATAAAG-CTAGGGTTGGA
1 AACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTTAGAAATAAAGTC-AGGGTTAGA
*
638231 GTATCCCCTCGAAAAT
65 GTATCCCTTCGAAAAT
* * * * *
638247 AATGGGGTTGGAGTATCTCCGATGGTGGAAAATCGATATTTTGA-AAATAAAATCAGGGTTAGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTTAGAAATAAAGTCAGGGTTAGAG
638311 TATCCCTTC-ATAAAT
66 TATCCCTTCGA-AAAT
* * * * * * *
638326 AACGGGGATAGAGTATCCTCGATTGTGGAAAATCAATATTTTTAGAAATAAGGTCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTTAGAAATAAAGTCAGGGTTAGAG
638391 TATCCCTTCGAAAAT
66 TATCCCTTCGAAAAT
* * * * * * * * *
638406 AACAGGGTTGGAGTATCCCCGATTAT-GAAAAGTTGATGTTTTGAAAAAAAAACT-GGGGTTAGA
1 AACGGGGTTGGAGTATCCCCGATTGTGGAAAA-TCGATATTTTTAGAAATAAAGTCAGGGTTAGA
*
638469 GTATCCCTT-TAGAAAT
65 GTATCCCTTCGA-AAAT
*
638485 AACGGGGTTGCAGTATCCCCGATT
1 AACGGGGTTGGAGTATCCCCGATT
638509 ATAGAAATTT
Statistics
Matches: 279, Mismatches: 51, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
78 45 0.16
79 162 0.58
80 71 0.25
81 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (80 bp):
AACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTTAGAAATAAAGTCAGGGTTAGAG
TATCCCTTCGAAAAT
Found at i:638414 original size:159 final size:156
Alignment explanation
Indices: 638094--638515 Score: 472
Period size: 159 Copynumber: 2.7 Consensus size: 156
638084 GATAAAAACG
* * * * *
638094 GGGTTGGAGTATCTCCAATGGTGAAAAATCGATATTTTGGAAACAAACCGGGGTTAGAGTAT-CC
1 GGGTTGGAGTATCTCCGATGGTGGAAAATCGATATTTTGAAAAAAAAACGGGGTTAGAGTATCCC
* * * *
638158 TCTCAAAAATAATGAGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAGCTA
66 T-TCAAAAATAACG-GGGTAGAGTATCCCCGATTATGAAAAATCAATGTTTTAGAAATAAAGCTA
**
638223 GGGTTGGAGTATCCCCTCGAAAATAATG
129 GGGTTGGAGTATCCCCTCGAAAATAACA
* *
638251 GGGTTGGAGTATCTCCGATGGTGGAAAATCGATATTTTGAAAATAAAATCAGGGTTAGAGTATCC
1 GGGTTGGAGTATCTCCGATGGTGGAAAATCGATATTTTGAAAA-AAAAACGGGGTTAGAGTATCC
* * * * * *
638316 CTTCATAAATAACGGGGATAGAGTATCCTCGATTGTGGAAAATCAATATTTTTAGAAAT-AAGGT
65 CTTCAAAAATAACGGGG-TAGAGTATCCCCGATTATGAAAAATCAAT-GTTTTAGAAATAAAGCT
* *
638380 CGGGGTTGGAGTATCCCTTCGAAAATAACA
128 -AGGGTTGGAGTATCCCCTCGAAAATAACA
* ** * *
638410 GGGTTGGAGTATCCCCGATTAT-GAAAAGTTGATGTTTTGAAAAAAAAACTGGGGTTAGAGTATC
1 GGGTTGGAGTATCTCCGATGGTGGAAAA-TCGATATTTTGAAAAAAAAAC-GGGGTTAGAGTATC
* * *
638474 CCTTTAGAAATAACGGGGTTGCAGTATCCCCGATTATAGAAA
64 CCTTCAAAAATAACGGGGTAG-AGTATCCCCGATTAT-GAAA
638516 TTTTGGCATC
Statistics
Matches: 223, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
157 42 0.19
158 66 0.30
159 112 0.50
160 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (156 bp):
GGGTTGGAGTATCTCCGATGGTGGAAAATCGATATTTTGAAAAAAAAACGGGGTTAGAGTATCCC
TTCAAAAATAACGGGGTAGAGTATCCCCGATTATGAAAAATCAATGTTTTAGAAATAAAGCTAGG
GTTGGAGTATCCCCTCGAAAATAACA
Found at i:639617 original size:17 final size:16
Alignment explanation
Indices: 639591--639653 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 16
639581 CATCATCATT
639591 TTTTCTTTATTTTTTTA
1 TTTT-TTTATTTTTTTA
639608 TTTTTATTA-TTTTTTA
1 TTTTT-TTATTTTTTTA
639624 TTTTTTTGATTTTTTTGA
1 TTTTTTT-ATTTTTTT-A
*
639642 TTTTTTGATTTT
1 TTTTTTTATTTT
639654 AATTTTTTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
15 2 0.05
16 14 0.34
17 18 0.44
18 7 0.17
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.81
Consensus pattern (16 bp):
TTTTTTTATTTTTTTA
Found at i:639621 original size:10 final size:9
Alignment explanation
Indices: 639590--639647 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
639580 TCATCATCAT
639590 TTTTTCTTTA
1 TTTTT-TTTA
639600 -TTTTTTTA
1 TTTTTTTTA
*
639608 TTTTTATTA
1 TTTTTTTTA
639617 --TTTTTTA
1 TTTTTTTTA
*
639624 TTTTTTTGA
1 TTTTTTTTA
*
639633 TTTTTTTGA
1 TTTTTTTTA
639642 TTTTTT
1 TTTTTT
639648 GATTTTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
7 6 0.14
8 4 0.10
9 32 0.76
ACGTcount: A:0.12, C:0.02, G:0.03, T:0.83
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:639622 original size:16 final size:16
Alignment explanation
Indices: 639601--639663 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
639591 TTTTCTTTAT
639601 TTTTTTATTTTTATT-A
1 TTTTTTATTTTT-TTGA
639617 TTTTTTATTTTTTTGA
1 TTTTTTATTTTTTTGA
639633 TTTTTT-TGATTTTTTGA
1 TTTTTTAT--TTTTTTGA
*
639650 -TTTTAATTTTTTTG
1 TTTTTTATTTTTTTG
639664 TCGAAAACCA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
15 10 0.24
16 23 0.55
17 9 0.21
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTTTATTTTTTTGA
Found at i:639662 original size:9 final size:8
Alignment explanation
Indices: 639591--639653 Score: 74
Period size: 8 Copynumber: 7.5 Consensus size: 8
639581 CATCATCATT
639591 TTTTCTTTA
1 TTTT-TTTA
639600 TTTTTTTA
1 TTTTTTTA
639608 TTTTTATTA
1 TTTTT-TTA
639617 -TTTTTTA
1 TTTTTTTA
639624 TTTTTTTGA
1 TTTTTTT-A
639633 TTTTTTTGA
1 TTTTTTT-A
*
639642 TTTTTTGA
1 TTTTTTTA
639650 TTTT
1 TTTT
639654 AATTTTTTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
7 3 0.06
8 24 0.48
9 23 0.46
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.81
Consensus pattern (8 bp):
TTTTTTTA
Found at i:640663 original size:13 final size:14
Alignment explanation
Indices: 640615--640665 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 14
640605 AAATATAAGA
640615 AAAAAATTGAAAAG
1 AAAAAATTGAAAAG
*
640629 AAAGGAGAA-AGAAAAG
1 AAA--A-AATTGAAAAG
640645 AAAAAATTGAAAA-
1 AAAAAATTGAAAAG
640658 AAAAAATT
1 AAAAAATT
640666 AAGCATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 10 0.32
14 9 0.29
16 10 0.32
17 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAAAATTGAAAAG
Found at i:642769 original size:22 final size:22
Alignment explanation
Indices: 642738--642802 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
642728 AAGTACGTGA
*
642738 TATTTTTAAAAAATTATATATT
1 TATTTATAAAAAATTATATATT
*
642760 TATTTATAAATATAA--ATAAATT
1 TATTTATAAA-A-AATTATATATT
*
642782 TA--AATAAAAAATTATATATT
1 TATTTATAAAAAATTATATATT
642802 T
1 T
642803 TTAAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
19 1 0.03
20 12 0.34
22 17 0.49
23 1 0.03
24 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTTATAAAAAATTATATATT
Found at i:643260 original size:21 final size:21
Alignment explanation
Indices: 643207--643285 Score: 77
Period size: 21 Copynumber: 3.6 Consensus size: 21
643197 ATATTAATTT
* *
643207 TAATAAAATTAAAAATAATAA
1 TAATAAAATTAAATATTATAA
* *
643228 TGATAGTAAAATTTATTATTATAA
1 T-A-A-TAAAATTAAATATTATAA
643252 TAATAAAATTAAATATTATAA
1 TAATAAAATTAAATATTATAA
* *
643273 TAATTAGATTAAA
1 TAATAAAATTAAA
643286 AGTACTAGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 28 0.60
22 2 0.04
23 2 0.04
24 15 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
TAATAAAATTAAATATTATAA
Found at i:643444 original size:35 final size:33
Alignment explanation
Indices: 643388--643482 Score: 110
Period size: 29 Copynumber: 3.0 Consensus size: 33
643378 GAACATGATT
*
643388 AAAA-TATAATTATATTAAATAATAAAATATAAA
1 AAAATTATATTTATATTAAATAATAAAATAT-AA
*
643421 TAAAATTATATTTATATTGAATAAT--AAT-T-A
1 -AAAATTATATTTATATTAAATAATAAAATATAA
*
643451 AAAATTTTATTTATATTAAATAATAAAATATA
1 AAAATTATATTTATATTAAATAATAAAATATA
643483 TATTAAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
29 22 0.42
30 1 0.02
31 3 0.06
32 2 0.04
33 3 0.06
34 4 0.08
35 17 0.33
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (33 bp):
AAAATTATATTTATATTAAATAATAAAATATAA
Found at i:643503 original size:19 final size:18
Alignment explanation
Indices: 643461--643505 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
643451 AAAATTTTAT
643461 TTATATTAAATAATAAAA
1 TTATATTAAATAATAAAA
643479 TATATATTAAA-AATTAAAAA
1 T-TATATTAAATAA-T-AAAA
643499 TTATATT
1 TTATATT
643506 TATATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATATTAAATAATAAAA
Found at i:643540 original size:34 final size:31
Alignment explanation
Indices: 643481--643545 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 31
643471 TAATAAAATA
643481 TATATTAAAAATTAAAAATTATATTTATATT
1 TATATTAAAAATTAAAAATTATATTTATATT
643512 TATATTAAATAATTATTAAAA-TATTATTTATATT
1 TATATTAAA-AATTA--AAAATTA-TATTTATATT
643546 AAAAATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 9 0.30
32 5 0.17
33 2 0.07
34 14 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TATATTAAAAATTAAAAATTATATTTATATT
Found at i:644580 original size:13 final size:13
Alignment explanation
Indices: 644544--644593 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
644534 AAATTATCAT
644544 ATTTTGTATTTAAAA
1 ATTTT-TATTT-AAA
**
644559 ATTAATATTTAAA
1 ATTTTTATTTAAA
*
644572 ATTTTTATTTAAT
1 ATTTTTATTTAAA
644585 ATTTTTATT
1 ATTTTTATT
644594 AATTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 22 0.73
14 5 0.17
15 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
ATTTTTATTTAAA
Found at i:645390 original size:2 final size:2
Alignment explanation
Indices: 645385--645419 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
645375 TGCGTGTGTG
645385 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
645420 TTGTTTATTA
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:646005 original size:17 final size:17
Alignment explanation
Indices: 645980--646032 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
645970 AAATGAAAGT
* *
645980 TATTTTATTTTTTTAAC
1 TATTATATTTTTTTAAA
645997 TATTATATTTTTTTAAAA
1 TATTATATTTTTTT-AAA
*
646015 TATTGTATTTTATTTAAA
1 TATTATATTTT-TTTAAA
646033 AAAATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.42
18 15 0.48
19 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TATTATATTTTTTTAAA
Found at i:646495 original size:16 final size:16
Alignment explanation
Indices: 646469--646502 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
646459 TAGATATATT
646469 TAATAAATATAAA-GA
1 TAATAAATATAAATGA
646484 TAATATAATATAAATGA
1 TAATA-AATATAAATGA
646501 TA
1 TA
646503 TAATAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
TAATAAATATAAATGA
Found at i:646502 original size:17 final size:17
Alignment explanation
Indices: 646469--646515 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
646459 TAGATATATT
646469 TAATA-AATATAAA-GA
1 TAATATAATATAAATGA
646484 TAATATAATATAAATGA
1 TAATATAATATAAATGA
*
646501 T-ATAATAATTTAAAT
1 TAAT-ATAATATAAAT
646516 AAAATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 13 0.46
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (17 bp):
TAATATAATATAAATGA
Found at i:646837 original size:3 final size:3
Alignment explanation
Indices: 646829--646887 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
646819 TAACAATCAG
646829 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
646877 ATA ATA ATA AT
1 ATA ATA ATA AT
646888 CCAAAGAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:647096 original size:2 final size:2
Alignment explanation
Indices: 647089--647115 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
647079 ACCATTTTTG
647089 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
647116 AAATTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:647145 original size:48 final size:48
Alignment explanation
Indices: 647067--647159 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
647057 CAACTAAAAC
*
647067 AAAATTTAAAAGACCATTTTTGATATATATATATATATATATATATAT
1 AAAATTTAAAAGACCATTTTTGATAAATATATATATATATATATATAT
*
647115 AAAATTTAAAAGACCATTTTTGTTAAATATATATATATATATATA
1 AAAATTTAAAAGACCATTTTTGATAAATATATATATATATATATA
647160 AAATATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (48 bp):
AAAATTTAAAAGACCATTTTTGATAAATATATATATATATATATATAT
Found at i:649795 original size:2 final size:2
Alignment explanation
Indices: 649788--649840 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
649778 CGCATCCTAC
*
649788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
649830 AT AT GT AT AT A
1 AT AT AT AT AT A
649841 ACCTAAAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:653367 original size:25 final size:25
Alignment explanation
Indices: 653331--653380 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
653321 AAATAATAAT
* *
653331 AATAATTTAATT-TAAAATTTTAAAA
1 AATAATTAAATTAT-AAATTATAAAA
653356 AATAATTAAATTATAAATTATAAAA
1 AATAATTAAATTATAAATTATAAAA
653381 TAAAAGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATAATTAAATTATAAATTATAAAA
Found at i:655397 original size:25 final size:24
Alignment explanation
Indices: 655361--655421 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
655351 CAAAGGAATG
* *
655361 TGTTTAAC-TCTTTCGAGAATATTT
1 TGTTAAACTTCTTTC-AGAAGATTT
* *
655385 TGTTAAATTTCTTTTCATAAGATTT
1 TGTTAAACTTC-TTTCAGAAGATTT
655410 TGTTAAACTTCT
1 TGTTAAACTTCT
655422 GTTAAGAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 7 0.23
25 19 0.63
26 4 0.13
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.52
Consensus pattern (24 bp):
TGTTAAACTTCTTTCAGAAGATTT
Found at i:656617 original size:14 final size:14
Alignment explanation
Indices: 656598--656635 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
656588 TAAATATATT
656598 TTTAATTTAATTTA
1 TTTAATTTAATTTA
*
656612 TTTAATTTAAATTA
1 TTTAATTTAATTTA
656626 -TT-ATTTAATT
1 TTTAATTTAATT
656636 AATAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 7 0.32
13 2 0.09
14 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTAATTTAATTTA
Found at i:656654 original size:34 final size:35
Alignment explanation
Indices: 656610--656684 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 35
656600 TAATTTAATT
* *
656610 TATTTAATTTAAATTATTATT-TAATTA-ATAAAAA
1 TATTTAATTTAAATT-TAATTATAATAATATAAAAA
*
656644 TATTTTATTTAAATTTAATTATAATAATATAAAAA
1 TATTTAATTTAAATTTAATTATAATAATATAAAAA
656679 TATTTA
1 TATTTA
656685 TAAAATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 4 0.11
34 19 0.54
35 12 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
TATTTAATTTAAATTTAATTATAATAATATAAAAA
Found at i:659578 original size:3 final size:3
Alignment explanation
Indices: 659570--659606 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
659560 CAGTAAACTT
659570 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
659607 ATTTTACTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:660185 original size:32 final size:33
Alignment explanation
Indices: 660148--660226 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 33
660138 TTTATTGTTT
*
660148 TATAAATATTTTATAT-TTAA-AATATATATTTA
1 TATAAATATTTTATATATTAATAATATA-AATTA
* *
660180 TATAAAT-TTTAATATATTAATAATTTAAATTA
1 TATAAATATTTTATATATTAATAATATAAATTA
660212 TATAAA-ATTTTATAT
1 TATAAATATTTTATAT
660227 CTATATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 7 0.17
32 28 0.70
33 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TATAAATATTTTATATATTAATAATATAAATTA
Found at i:660204 original size:17 final size:16
Alignment explanation
Indices: 660177--660223 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
660167 AAATATATAT
660177 TTATAT-AAATTTTAA
1 TTATATAAAATTTTAA
*
660192 -TATATTAATAATTTAAA
1 TTATA-TAA-AATTTTAA
660209 TTATATAAAATTTTA
1 TTATATAAAATTTTA
660224 TATCTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
14 4 0.15
15 1 0.04
16 7 0.27
17 10 0.38
18 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTATATAAAATTTTAA
Found at i:660220 original size:33 final size:30
Alignment explanation
Indices: 660146--660223 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 30
660136 TTTTTATTGT
*
660146 TTTATAAATATTTT-ATATTTAAAATATATA
1 TTTATAAA-ATTTTAATATTTAAAATATAAA
*
660176 TTTATATAAATTTTAATATATTAATAATTTAAA
1 TTTATA-AAATTTTAATAT-TTAA-AATATAAA
660209 TTATATAAAATTTTA
1 TT-TATAAAATTTTA
660224 TATCTATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 11 0.27
31 6 0.15
32 4 0.10
33 16 0.39
34 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTATAAAATTTTAATATTTAAAATATAAA
Found at i:660231 original size:16 final size:16
Alignment explanation
Indices: 660148--660231 Score: 52
Period size: 16 Copynumber: 5.2 Consensus size: 16
660138 TTTATTGTTT
660148 TATAAATATTTTATAT-
1 TATAAA-ATTTTATATA
* *
660164 T-TAAAA-TATATATT
1 TATAAAATTTTATATA
660178 TATATAAATTTTA-ATA
1 TATA-AAATTTTATATA
*
660194 TATTAATAA-TTTAAATTA
1 TA-TAA-AATTTTATA-TA
*
660212 TATAAAATTTTATATC
1 TATAAAATTTTATATA
660228 TATA
1 TATA
660232 TTATATTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
13 6 0.11
14 2 0.04
15 6 0.11
16 20 0.37
17 16 0.30
18 4 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (16 bp):
TATAAAATTTTATATA
Found at i:660231 original size:18 final size:17
Alignment explanation
Indices: 660148--660232 Score: 51
Period size: 17 Copynumber: 5.2 Consensus size: 17
660138 TTTATTGTTT
660148 TATAAATATTTTATA-T-
1 TATAAA-ATTTTATATTA
*
660164 T-TAAAA-TATATATT-
1 TATAAAATTTTATATTA
660178 TATATAAATTTTA-A-TA
1 TATA-AAATTTTATATTA
*
660194 TATTAATAA-TTTAAATTA
1 TA-TAA-AATTTTATATTA
660212 TATAAAATTTTATATCTA
1 TATAAAATTTTATAT-TA
660230 TAT
1 TAT
660233 TATATTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 20
0.71 0.04 0.26
Matches are distributed among these distances:
13 5 0.09
14 3 0.05
15 7 0.13
16 14 0.25
17 17 0.31
18 9 0.16
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (17 bp):
TATAAAATTTTATATTA
Found at i:660246 original size:30 final size:31
Alignment explanation
Indices: 660212--660272 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
660202 ATTTAAATTA
* **
660212 TATAAAATTTTATATCTATAT-TATATTTTT
1 TATAAAATTATATAAATATATATATATTTTT
*
660242 TATAATATTATATAAATATATATATATTTTT
1 TATAAAATTATATAAATATATATATATTTTT
660273 GGAAGCAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TATAAAATTATATAAATATATATATATTTTT
Found at i:660778 original size:14 final size:14
Alignment explanation
Indices: 660737--660782 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
660727 TATCGGTTTG
660737 TTTAATT-TAATTAA
1 TTTAATTAT-ATTAA
*
660751 TTGAATTAGT-TTAA
1 TTTAATTA-TATTAA
660765 TTTAATTATATTAA
1 TTTAATTATATTAA
660779 TTTA
1 TTTA
660783 TAATTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
16 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (14 bp):
TTTAATTATATTAA
Found at i:661338 original size:6 final size:6
Alignment explanation
Indices: 661298--661340 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
661288 TGGGAACAGT
* * *
661298 CTTCAG CTTCAG CTTCAG CTTCTG CTTCTG CTTCTG CTTCTG C
1 CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG C
661341 GAGAATTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.07, C:0.35, G:0.16, T:0.42
Consensus pattern (6 bp):
CTTCTG
Found at i:661649 original size:40 final size:41
Alignment explanation
Indices: 661592--661669 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 41
661582 ATTATTTAAA
661592 AATTAATAAAAATTATTTTTA-TATT-AATATATAATTTTAT
1 AATTAATAAAAATTATTTTTATTATTAAATA-ATAATTTTAT
661632 AATTAAATAAAAA-TATTTTTATTATTAAATAATAATTT
1 AATT-AATAAAAATTATTTTTATTATTAAATAATAATTT
661670 GATTTTACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
40 12 0.34
41 19 0.54
42 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (41 bp):
AATTAATAAAAATTATTTTTATTATTAAATAATAATTTTAT
Found at i:661675 original size:25 final size:22
Alignment explanation
Indices: 661592--661663 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
661582 ATTATTTAAA
661592 AATT-AATAAAAATTATTTTTAT
1 AATTAAATAAAAA-TATTTTTAT
* *
661614 -ATT-AAT--ATATAATTTTAT
1 AATTAAATAAAAATATTTTTAT
661632 AATTAAATAAAAATATTTTTAT
1 AATTAAATAAAAATATTTTTAT
*
661654 TATTAAATAA
1 AATTAAATAA
661664 TAATTTGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 8 0.20
19 5 0.12
20 3 0.07
21 6 0.15
22 19 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTAAATAAAAATATTTTTAT
Found at i:661983 original size:18 final size:18
Alignment explanation
Indices: 661944--661983 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
661934 TTCATAAATC
661944 ATAAAATTTAATTTGATT
1 ATAAAATTTAATTTGATT
661962 -TAAAATTTTAATTT-ATT
1 ATAAAA-TTTAATTTGATT
661979 ATAAA
1 ATAAA
661984 TAAATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAAAATTTAATTTGATT
Found at i:662085 original size:15 final size:15
Alignment explanation
Indices: 662042--662093 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
662032 TTATTATTTA
* *
662042 AATTTAAATAAAAAT
1 AATTTAAATTATAAT
662057 AATTTTAATTATTATAAT
1 AA-TTTAA--ATTATAAT
*
662075 AATTTAAATTATAAA
1 AATTTAAATTATAAT
662090 AATT
1 AATT
662094 ATATGATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 13 0.42
16 5 0.16
17 5 0.16
18 8 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTAAATTATAAT
Found at i:662450 original size:25 final size:25
Alignment explanation
Indices: 662417--662486 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 25
662407 ATATATTTTA
**
662417 AAAATAAATATTAAATATAAAAATTT
1 AAAATAAATAAAAAATA-AAAAATTT
662443 AAAA-AAATAAAAAATAAAAAATTT
1 AAAATAAATAAAAAATAAAAAATTT
*
662467 -AAAT-CATATAAAAATAAAAA
1 AAAATAAATA-AAAAATAAAAA
662487 TATAATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.15
24 19 0.49
25 10 0.26
26 4 0.10
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAATAAATAAAAAATAAAAAATTT
Found at i:664106 original size:15 final size:17
Alignment explanation
Indices: 664082--664118 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
664072 GATAATTTTT
*
664082 TTTAATTTTA-TTGA-A
1 TTTAAATTTATTTGATA
664097 TTTAAATTTATTTGATA
1 TTTAAATTTATTTGATA
664114 TTTAA
1 TTTAA
664119 GTGTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 4 0.21
17 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTAAATTTATTTGATA
Found at i:664671 original size:30 final size:31
Alignment explanation
Indices: 664620--664680 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
664610 TTTTATTTTT
*
664620 AATCTTAGTATTATCTTTTTTTGAAGTATTC
1 AATCTTAGTATCATCTTTTTTTGAAGTATTC
664651 AATCTTAGTATCAT-TTTTTTTGAAGTATTC
1 AATCTTAGTATCATCTTTTTTTGAAGTATTC
664681 TTCTTCTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (31 bp):
AATCTTAGTATCATCTTTTTTTGAAGTATTC
Found at i:664752 original size:14 final size:14
Alignment explanation
Indices: 664733--664760 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
664723 TTTGTTTGCA
664733 ACTCATAATCATAT
1 ACTCATAATCATAT
664747 ACTCATAATCATAT
1 ACTCATAATCATAT
664761 TATGACTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
ACTCATAATCATAT
Found at i:665271 original size:12 final size:12
Alignment explanation
Indices: 665256--665284 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
665246 TTTTCCACAT
665256 TCATTGATTCAC
1 TCATTGATTCAC
665268 TCATTGATTCAC
1 TCATTGATTCAC
665280 TCATT
1 TCATT
665285 ATTACGACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (12 bp):
TCATTGATTCAC
Found at i:668435 original size:21 final size:20
Alignment explanation
Indices: 668389--668441 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
668379 GTAGCCAAAC
**
668389 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACCAAAAA
668409 -TGTATCGATACACCAAAAAA
1 TTGTATCGATACACC-AAAAA
668429 TTGTATCGATACA
1 TTGTATCGATACA
668442 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.48
20 3 0.10
21 12 0.41
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACCAAAAA
Found at i:670067 original size:12 final size:12
Alignment explanation
Indices: 670035--670068 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
670025 AACCATCAAG
*
670035 GATGAAGAAGAT
1 GATGAAGATGAT
*
670047 GATGAAGATGTT
1 GATGAAGATGAT
670059 GATGAAGATG
1 GATGAAGATG
670069 GTGACTCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:672595 original size:20 final size:20
Alignment explanation
Indices: 672570--672627 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
672560 TCCTGTGTAA
672570 ATGTATCGATACAATTTTTG
1 ATGTATCGATACAATTTTTG
672590 ATGTATCGATACAATTTTTG
1 ATGTATCGATACAATTTTTG
672610 ATGTATCGATACATATTT
1 ATGTATCGATACA-ATTT
672628 GAAAATATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 33 0.89
21 4 0.11
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACAATTTTTG
Found at i:672700 original size:13 final size:13
Alignment explanation
Indices: 672682--672707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
672672 CAATTTTTTG
672682 TGTATCGATACAT
1 TGTATCGATACAT
672695 TGTATCGATACAT
1 TGTATCGATACAT
672708 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:673434 original size:21 final size:21
Alignment explanation
Indices: 673393--673436 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
673383 CTCCCCTTTA
* *
673393 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
673414 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
673435 TC
1 TC
673437 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:675260 original size:13 final size:13
Alignment explanation
Indices: 675242--675280 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
675232 ATAATCACCC
675242 TGTATCGATACAA
1 TGTATCGATACAA
675255 TGTATCGATACAA
1 TGTATCGATACAA
675268 TGTATCGATACAA
1 TGTATCGATACAA
675281 GGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:677380 original size:15 final size:15
Alignment explanation
Indices: 677360--677390 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
677350 ATTTCGTTTG
*
677360 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
677375 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
677390 G
1 G
677391 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:679164 original size:21 final size:23
Alignment explanation
Indices: 679139--679186 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
679129 GCAAGTTTTC
*
679139 ATTTTTC-TTAGCTAAC-TCATT
1 ATTTTTCATTAGCCAACTTCATT
*
679160 A-TTTTCATTAGCCAACTTCTTT
1 ATTTTTCATTAGCCAACTTCATT
679182 ATTTT
1 ATTTT
679187 AACTTGCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 5 0.23
23 3 0.14
ACGTcount: A:0.23, C:0.19, G:0.04, T:0.54
Consensus pattern (23 bp):
ATTTTTCATTAGCCAACTTCATT
Found at i:679186 original size:22 final size:20
Alignment explanation
Indices: 679141--679186 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
679131 AAGTTTTCAT
*
679141 TTTTCTTAGCTAACTCATTA
1 TTTTCTTAGCCAACTCATTA
*
679161 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAAC-TCATTA
679183 TTTT
1 TTTT
679187 AACTTGCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 8 0.36
22 9 0.41
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTCTTAGCCAACTCATTA
Found at i:685305 original size:28 final size:28
Alignment explanation
Indices: 685265--685319 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
685255 CGATGATTAG
685265 AAAAAAAATCGGGATTGGAGTATCCCCT
1 AAAAAAAATCGGGATTGGAGTATCCCCT
*
685293 AAAAAATAA-CGGGGTTGGAGTATCCCC
1 AAAAAA-AATCGGGATTGGAGTATCCCC
685320 AATTATGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (28 bp):
AAAAAAAATCGGGATTGGAGTATCCCCT
Found at i:685330 original size:78 final size:78
Alignment explanation
Indices: 685217--685398 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 78
685207 TGTTCCCTTG
* * ** * * *
685217 AAAATAACGGGGCTCGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAATCGGGATT
1 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAGAAAAAAAACCGGGATT
685281 GGAGTATCCCCTAA
65 GGAGTATCCCCTAA
* * * * *
685295 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTAGAAAAAAAACCGGGATT
**
685360 GGAGTATCCCCTCG
65 GGAGTATCCCCTAA
* *
685374 GAAGTAACGGGGTTGGAGTATCCCC
1 AAAATAACGGGGTTGGAGTATCCCC
685399 GATGAAATAA
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 1 0.01
78 36 0.42
79 49 0.57
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (78 bp):
AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAACCGGGATTG
GAGTATCCCCTAA
Found at i:685393 original size:28 final size:28
Alignment explanation
Indices: 685353--685424 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
685343 GGAATAAAGC
** *
685353 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
685381 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
685409 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
685425 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:685482 original size:52 final size:48
Alignment explanation
Indices: 685415--685534 Score: 123
Period size: 51 Copynumber: 2.4 Consensus size: 48
685405 ATAACGAGGT
* * * * *
685415 TGGAGTATCCTCGATTGTGAAAATTTGGTATTTTTGGAAATAAAATCGGAGC
1 TGGAGTATCCCCGATTG-GAAAA-TTGGT-GTTTT-AAAAAAAAATCGGAGA
685467 TGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAAAAAAAAATCGGAGA
1 TGGAGTATCCCCGATT---GGAAAATTGGTGTTTTAAAAAAAAATCGGAGA
*
685518 TGGAATATCCCCGATTG
1 TGGAGTATCCCCGATTG
685535 CGGAGAATTG
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
48 1 0.02
51 28 0.47
52 19 0.32
53 5 0.08
54 5 0.08
55 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (48 bp):
TGGAGTATCCCCGATTGGAAAATTGGTGTTTTAAAAAAAAATCGGAGA
Found at i:687914 original size:13 final size:13
Alignment explanation
Indices: 687896--687921 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
687886 ACAAAGATCC
687896 ATGTATCGATACA
1 ATGTATCGATACA
687909 ATGTATCGATACA
1 ATGTATCGATACA
687922 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:687917 original size:33 final size:33
Alignment explanation
Indices: 687875--687941 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
687865 AAAATTTCCA
***
687875 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
687908 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
687941 A
1 A
687942 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:688076 original size:21 final size:21
Alignment explanation
Indices: 688052--688104 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
688042 CATTTGTAGG
688052 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
688073 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
688094 ATGTATCGATA
1 ATGTATCGATA
688105 GATTTGGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:689043 original size:26 final size:26
Alignment explanation
Indices: 689014--689103 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
689004 GTGGGCTTTA
689014 AAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGGTGTCCTGCTCTTTGGGGACTG
** *
689040 AAAGGTG-CCACCAACTTGTGTGGG-CTTTG
1 AAAGGTGTCCTGC-TCTT-TG-GGGAC--TG
* *
689069 AAAGGGGTCCTGCTCTTTGGGGACTA
1 AAAGGTGTCCTGCTCTTTGGGGACTG
689095 AAAGGTGTC
1 AAAGGTGTC
689104 ACCAACTTGT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 19 0.40
27 6 0.12
28 6 0.12
29 11 0.23
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
AAAGGTGTCCTGCTCTTTGGGGACTG
Found at i:689070 original size:29 final size:29
Alignment explanation
Indices: 688990--689073 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
688980 GACTGGAAAA
*
688990 TGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
** *
689019 TGTCCTGC-TCTT-TG-GGGAC--TGAAAGG
1 TG-CCACCAACTTGTGTGGG-CTTTGAAAGG
689045 TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
689074 GGTCCTGCTC
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
25 3 0.07
26 11 0.27
27 6 0.15
28 6 0.15
29 12 0.29
30 3 0.07
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (29 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:689221 original size:59 final size:59
Alignment explanation
Indices: 688904--690599 Score: 1917
Period size: 55 Copynumber: 29.4 Consensus size: 59
688894 GTGGGCTTCG
688904 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG-
1 AAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * **
688961 --AGGTGTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----A
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* *
689014 AAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-
1 AAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * * *
689069 AAAGGGGTCCTGCTCTTTGGGGACTAAAAGGTGTCACCAACTTGTGTGGGCTTTGAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGA
* * * *
689130 AAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
*
689189 AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * **
689248 AAATGTGTCCCACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AAG-
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* **
689304 --AGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* **
689357 AAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * *
689412 AAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCTACCAACTTGTGTGGGCTTTGAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
*
689472 AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * * *
689531 AAATGTGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGGGGGCTTT--AAG-
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* **
689587 --AGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
*
689640 AAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGA
* * * *
689701 AAAAGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
*
689760 AAATGCGTCAC-GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTC-CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * ** *
689819 AAAGGCATCCCGCTCTTTGAGGACTGGAAAATGCCACCAACCTGTGTGGGCTTT-----A
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * *
689874 AAAGGTGTCCTGCTCTTTGAGGACTGGGAA-ATGCCACCAACTTATGTGGGCTTT----GA
1 AAAGGCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
*
689930 AAA-GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGA
* * * * *
689990 AAAAGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGGGTGTGCTTTAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* *
690049 AAAGGCGCCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* *
690108 AAAGGCGTCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * *
690167 AAAGGCATCCCGCTCTTTGAGGACTGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
*
690226 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGA
* *
690287 GAAGGCGTCCTGCTCTTTGCGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGA
* * **
690348 AAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT----G-
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * ** *
690403 AAAGGTGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TT---CG-
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
*
690458 AAAGGGGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG-
1 AAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * * ** *
690515 --AGGTGTCCTGCTCTCTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGA
* *
690574 GAAGGCGTCCCGCTCTTTGAGGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
690600 GGAAGGGCTA
Statistics
Matches: 1457, Mismatches: 121, Indels: 119
0.86 0.07 0.07
Matches are distributed among these distances:
53 3 0.00
54 49 0.03
55 568 0.39
56 13 0.01
57 7 0.00
58 3 0.00
59 466 0.32
60 163 0.11
61 182 0.12
62 2 0.00
63 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (59 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
Found at i:689939 original size:289 final size:286
Alignment explanation
Indices: 688855--690598 Score: 2361
Period size: 289 Copynumber: 6.1 Consensus size: 286
688845 AATAAAGTGT
* * * * * * *
688855 ATCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGC-TT---CG-AAAGGCGTCCT
1 ATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCC
*
688915 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCT
65 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCT
* *
688975 TTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGGGGACTG
129 TTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
* * * *
689040 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCTCTTTGGGGACTAAAAGGTGTCA
193 AAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
689105 CCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
256 CCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* *
689136 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAAAAAAGGCGTCCCG
1 ATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCG
* *
689201 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTGTCCCACTCTTT
66 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTTT
** *
689266 GAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAA
131 GAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-G-A
*
689331 AATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACC
194 AATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACC
*
689395 AACTTGTGTGGGCTTTG-AAAG-----GT
258 AACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * * *
689418 GTCCTGCTCTTTGAGGACTGAAAGGTGCTACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCC
1 ATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCC
*
689483 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTGTCCCGCTCTT
65 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTT
** * *
689548 TGAGGACTGAAGGTGCCACCAACTTGTGGGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGA
130 TGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-G-
689613 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACC
193 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACC
689678 AACTTGTGTGGGCTTTGAAAAGAAAAAGC
258 AACTTGTGTGGGCTTTGAAAAGAAAAAGC
* *
689707 ATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAATGCGTCACG
1 ATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCG
**
689772 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTT
66 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTTT
*
689837 GAGGACTGGAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGG
131 GAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT--G
* *
689902 AAATGCCACCAACTTATGTGGGCTTTGAAAAGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACC
193 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACC
689967 AACTTGTGTGGGCTTTGAAAAGAAAAAGC
258 AACTTGTGTGGGCTTTGAAAAGAAAAAGC
* *
689996 ATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGGGTGTGCTTTAAAAGAAAAGGCGCCCCG
1 ATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCG
*
690061 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTT
66 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTTT
* *
690126 GAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG-GCATCCCGCTCTTTGAGGA
131 GAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG----GTG--TCCTGCTCTTTGAGGA
*
690190 CTGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAA
190 CTGAA-ATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACTGAAA
* * *
690255 GGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGC
249 GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * * * * *
690293 GTCCTGCTCTTTGCGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCATC
1 ATCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGGGTGGGCTTT-AAAAGAAAAGGCGTC
* ** **
690357 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTACT
63 CCGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCT
** *
690417 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGGTCCTGCTCTTTGAGGAC
127 CTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGAC
* * *
690482 TGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTCTGAGGATTGGAAA-AT
191 TGAAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-GAAAGGT
* * *
690545 GCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGC
252 GCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* *
690580 GTCCCGCTCTTTGAGGACT
1 ATCCTGCTCTTTGAGGACT
690599 GGGAAGGGCT
Statistics
Matches: 1331, Mismatches: 87, Indels: 84
0.89 0.06 0.06
Matches are distributed among these distances:
280 21 0.02
281 19 0.01
282 23 0.02
283 244 0.18
284 31 0.02
285 25 0.02
286 5 0.00
287 77 0.06
288 265 0.20
289 315 0.24
290 6 0.00
291 24 0.02
292 48 0.04
293 18 0.01
295 22 0.02
296 32 0.02
297 79 0.06
298 22 0.02
299 29 0.02
300 26 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (286 bp):
ATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCG
CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTTT
GAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAA
TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC
TTGTGTGGGCTTTGAAAAGAAAAAGC
Found at i:690405 original size:28 final size:28
Alignment explanation
Indices: 690374--690460 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
690364 TTGAGGACTA
*
690374 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTC
* * * * *
690402 GAAAGGTGTCCTA-C-TCTT-TGAGGAC-TG
1 GAAA-ATG-CC-ACCAACTTGTGTGGGCTTC
690429 GAAAATGCCACCAACTTGTGTGGGCTTC
1 GAAAATGCCACCAACTTGTGTGGGCTTC
690457 GAAA
1 GAAA
690461 GGGGTCCTGC
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
24 1 0.02
25 3 0.07
26 5 0.12
27 10 0.24
28 14 0.33
29 5 0.12
30 3 0.07
31 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGGGCTTC
Found at i:696810 original size:28 final size:29
Alignment explanation
Indices: 696770--696824 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
696760 TGATGATTAG
696770 AAAAAAAATCGGGATTGGAGTATCCCCTC
1 AAAAAAAATCGGGATTGGAGTATCCCCTC
* *
696799 AAAAATAA-CGGGGTTGGAGTATCCCC
1 AAAAAAAATCGGGATTGGAGTATCCCC
696825 AATTATGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (29 bp):
AAAAAAAATCGGGATTGGAGTATCCCCTC
Found at i:696835 original size:78 final size:78
Alignment explanation
Indices: 696722--696903 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 78
696712 TGTTCCCTTG
* * ** * ** *
696722 AAAATAACGGGGCTCGAGTATCCCCGGTTGTGAGAAATTGATGA-TTAGAAAAAAAATCGGGATT
1 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAGAAAAAAAACCGGGATT
696786 GGAGTATCCCCTCA
65 GGAGTATCCCCTCA
* * * * *
696800 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTAGAAAAAAAACCGGGATT
*
696865 GGAGTATCCCCTCG
65 GGAGTATCCCCTCA
* *
696879 GAAGTAACGGGGTTGGAGTATCCCC
1 AAAATAACGGGGTTGGAGTATCCCC
696904 GATGAAATAA
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 1 0.01
78 35 0.41
79 50 0.58
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (78 bp):
AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAACCGGGATTG
GAGTATCCCCTCA
Found at i:696898 original size:28 final size:28
Alignment explanation
Indices: 696858--696929 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
696848 GGAATAAAGC
** *
696858 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
696886 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
696914 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
696930 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:699416 original size:13 final size:13
Alignment explanation
Indices: 699398--699423 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
699388 ACAAAGATCC
699398 ATGTATCGATACA
1 ATGTATCGATACA
699411 ATGTATCGATACA
1 ATGTATCGATACA
699424 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:699419 original size:33 final size:33
Alignment explanation
Indices: 699377--699443 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
699367 AAAATTTCCA
***
699377 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
699410 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
699443 A
1 A
699444 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:699578 original size:21 final size:21
Alignment explanation
Indices: 699554--699610 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
699544 CATTTGTAGG
699554 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
699575 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
699596 ATGTATCGATACATT
1 ATGTATCGATACATT
699611 TGGATAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:700127 original size:13 final size:13
Alignment explanation
Indices: 700109--700147 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
700099 ACTTTTTTCT
700109 TTGTATCGATACA
1 TTGTATCGATACA
700122 TTGTATCGATACA
1 TTGTATCGATACA
*
700135 CTGTATCGATACA
1 TTGTATCGATACA
700148 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:700311 original size:20 final size:20
Alignment explanation
Indices: 700268--700313 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
700258 AAATCTTTTG
700268 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
700289 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
700309 CAAAA
1 CAAAA
700314 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:702743 original size:21 final size:21
Alignment explanation
Indices: 702692--702749 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 21
702682 TGGCAGTAGC
*
702692 CAAACTTGTATCGATACACCA
1 CAAAATTGTATCGATACACCA
**
702713 -AGTA-TGTATCGATACACCA
1 CAAAATTGTATCGATACACCA
702732 CAAAATTGTATCGATACA
1 CAAAATTGTATCGATACA
702750 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 15 0.50
20 3 0.10
21 12 0.40
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (21 bp):
CAAAATTGTATCGATACACCA
Found at i:707315 original size:35 final size:33
Alignment explanation
Indices: 707242--707320 Score: 81
Period size: 35 Copynumber: 2.3 Consensus size: 33
707232 AATTAACATA
* *
707242 ATTATAATTTATATAATATTTATATTATTTTTT
1 ATTATAATTTATAAAATATTTATATTATTATTT
707275 ATTATAATTATAATAAAATA-TTATATTTATATATTT
1 ATTATAATT-T-ATAAAATATTTATA-TTAT-TATTT
707311 -TTATATATTT
1 ATTATA-ATTT
707321 TATATTTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
33 9 0.23
34 6 0.15
35 17 0.44
36 7 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
ATTATAATTTATAAAATATTTATATTATTATTT
Found at i:714008 original size:66 final size:66
Alignment explanation
Indices: 713927--714059 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
713917 ATTTTCGTGT
713927 TATAAACGTGTCGACACAATTATGACACAAAACACAATTACATAAAACTCATATACGATTAAAGC
1 TATAAACGTGTCGACACAATTATGACACAAAACACAATTACATAAAACTCATATACGATTAAAGC
713992 G
66 G
*
713993 TATAAACGTGTCGACATAATTATGACACAAAACACAATTACATAAAACTCATATACGATTAAAGC
1 TATAAACGTGTCGACACAATTATGACACAAAACACAATTACATAAAACTCATATACGATTAAAGC
714058 G
66 G
714059 T
1 T
714060 GTCGTACACT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.24
Consensus pattern (66 bp):
TATAAACGTGTCGACACAATTATGACACAAAACACAATTACATAAAACTCATATACGATTAAAGC
G
Found at i:714452 original size:17 final size:18
Alignment explanation
Indices: 714426--714461 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
714416 TTCGAGAGAG
*
714426 AGAAAGGAAAAAAG-AAA
1 AGAAAAGAAAAAAGTAAA
714443 AGAAAAGAAAAAAGTAAA
1 AGAAAAGAAAAAAGTAAA
714461 A
1 A
714462 AATTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
AGAAAAGAAAAAAGTAAA
Found at i:714502 original size:20 final size:21
Alignment explanation
Indices: 714457--714503 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
714447 AAGAAAAAAG
*
714457 TAAAAAATTATTTATATTTTT
1 TAAAAAAATATTTATATTTTT
*
714478 CAAAAAAATA-TTAT-TTTATT
1 TAAAAAAATATTTATATTT-TT
714498 TAAAAA
1 TAAAAA
714504 TAATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 11 0.50
21 8 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAAAAAATATTTATATTTTT
Found at i:715335 original size:2 final size:2
Alignment explanation
Indices: 715314--715357 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
715304 TAAAAACAAG
* *
715314 TA TA TC TA TA T- TA AA 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
715355 TA T
1 TA T
715358 TTGAATTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:716593 original size:16 final size:17
Alignment explanation
Indices: 716574--716612 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
716564 ATGAAAATAT
716574 TTTTTAAAAATTT-TAA
1 TTTTTAAAAATTTATAA
*
716590 TTTTTAATAATTTAATAA
1 TTTTTAAAAATTT-ATAA
716608 TTTTT
1 TTTTT
716613 GTTAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTAAAAATTTATAA
Found at i:717609 original size:2 final size:2
Alignment explanation
Indices: 717565--717595 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
717555 ATCCATCTAT
717565 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 T
717596 TACATTTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:718115 original size:17 final size:18
Alignment explanation
Indices: 718079--718120 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
718069 ATTATTATTT
* *
718079 ATTTAAATATTTTTTGTA
1 ATTTAAATATTTTATATA
718097 ATTTAAA-ATTTTATATA
1 ATTTAAATATTTTATATA
718114 A-TTAAAT
1 ATTTAAAT
718121 TTAAAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTTAAATATTTTATATA
Found at i:718558 original size:17 final size:17
Alignment explanation
Indices: 718536--718574 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
718526 AAATAATTAA
718536 AATATGATAAAAAATAT-
1 AATATGA-AAAAAATATG
*
718553 AATATGAACAAAATATG
1 AATATGAAAAAAATATG
718570 AATAT
1 AATAT
718575 ACGAATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (17 bp):
AATATGAAAAAAATATG
Found at i:723758 original size:22 final size:23
Alignment explanation
Indices: 723733--723785 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
723723 TCTTTTTTCC
*
723733 TTTTTT-TTTTCTTTCTTT-TCT
1 TTTTTTCTTTTCCTTCTTTGTCT
723754 TTTTTTCTTTTCCTTCTTTGTCT
1 TTTTTTCTTTTCCTTCTTTGTCT
*
723777 TCTTTTCTT
1 TTTTTTCTT
723786 CGCTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 11 0.39
23 11 0.39
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTTTCTTTTCCTTCTTTGTCT
Found at i:723777 original size:23 final size:22
Alignment explanation
Indices: 723727--723785 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
723717 ACTTTATCTT
* *
723727 TTTTCCTTTTTT-TTTTCTTTC
1 TTTTCTTTTTTTCTTTTCCTTC
723748 TTTTCTTTTTTTCTTTTCCTTC
1 TTTTCTTTTTTTCTTTTCCTTC
*
723770 TTTGTCTTCTTTTCTT
1 TTT-TCTTTTTTTCTT
723786 CGCTTTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 11 0.33
22 11 0.33
23 11 0.33
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTCTTTTTTTCTTTTCCTTC
Found at i:723795 original size:18 final size:17
Alignment explanation
Indices: 723718--723796 Score: 56
Period size: 17 Copynumber: 4.5 Consensus size: 17
723708 ATACACAAGA
723718 CTTTATCTT-TTTTCCTT
1 CTTT-TCTTCTTTTCCTT
* * *
723735 TTTTTTTTC-TTTCTTTT
1 CTTTTCTTCTTTTC-CTT
*
723752 CTTTTTTTCTTTTCCTT
1 CTTTTCTTCTTTTCCTT
723769 CTTTGTCTTCTTTT-CTT
1 CTTT-TCTTCTTTTCCTT
723786 CGCTTTTCTTC
1 --CTTTTCTTC
723797 GTCAGAATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 7 0.14
17 22 0.44
18 17 0.34
19 4 0.08
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (17 bp):
CTTTTCTTCTTTTCCTT
Found at i:723997 original size:28 final size:28
Alignment explanation
Indices: 723948--724056 Score: 75
Period size: 28 Copynumber: 3.8 Consensus size: 28
723938 ATTTAAAGTT
*
723948 AAAATTAAATTTATTATGATAAAATATTAA
1 AAAATTAAA-ATATTAT-ATAAAATATTAA
*
723978 AAAATTAAAATATGATAT--AATA-TAA
1 AAAATTAAAATATTATATAAAATATTAA
724003 AAAATAATATAAATATTATATAAATATATGT-A
1 AAAAT--TA-AAATATTATATAAA-ATAT-TAA
***
724035 TGCATTAAAAT-TTATATAAAAT
1 AAAATTAAAATATTATATAAAAT
724057 CAATTATTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
25 8 0.12
26 4 0.06
27 4 0.06
28 21 0.32
29 9 0.14
30 12 0.18
31 3 0.05
32 3 0.05
33 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAATTAAAATATTATATAAAATATTAA
Found at i:724726 original size:14 final size:13
Alignment explanation
Indices: 724706--724733 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
724696 TTCCCTTTTT
724706 CTTTTTTTGTTTC
1 CTTTTTTTGTTTC
724719 CTTTTTTTGTTTC
1 CTTTTTTTGTTTC
724732 CT
1 CT
724734 CTTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.18, G:0.07, T:0.75
Consensus pattern (13 bp):
CTTTTTTTGTTTC
Found at i:725804 original size:33 final size:32
Alignment explanation
Indices: 725761--725840 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 32
725751 CATTTAAAGT
*
725761 ATAATATATATATATATAAATTTTGATACATTA
1 ATAATTTATATAT-TATAAATTTTGATACATTA
* *
725794 ATAATTTATATATTATAAATTTTGATATATTC
1 ATAATTTATATATTATAAATTTTGATACATTA
*
725826 ATGTATTTATATATT
1 AT-AATTTATATATT
725841 TTAATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 19 0.45
33 23 0.55
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (32 bp):
ATAATTTATATATTATAAATTTTGATACATTA
Found at i:725823 original size:17 final size:17
Alignment explanation
Indices: 725768--725824 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
725758 AGTATAATAT
725768 ATATATATATAAATTTTG
1 ATATAT-TATAAATTTTG
*
725786 ATACATTA-ATAA-TTT-
1 ATATATTATA-AATTTTG
725801 ATATATTATAAATTTTG
1 ATATATTATAAATTTTG
725818 ATATATT
1 ATATATT
725825 CATGTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 9 0.27
16 8 0.24
17 11 0.33
18 5 0.15
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (17 bp):
ATATATTATAAATTTTG
Found at i:725962 original size:26 final size:28
Alignment explanation
Indices: 725923--725977 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
725913 TAAATAACTT
*
725923 TAAATTTTATATCACATT-TGTTTTATA
1 TAAATTTTAAATCACATTATGTTTTATA
* *
725950 TAAA-TTTAAATCATATTATTTTTTATA
1 TAAATTTTAAATCACATTATGTTTTATA
725977 T
1 T
725978 CATATCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.56
Consensus pattern (28 bp):
TAAATTTTAAATCACATTATGTTTTATA
Found at i:725990 original size:17 final size:17
Alignment explanation
Indices: 725954--725992 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
725944 TTTATATAAA
* *
725954 TTTAAATCATATTATTT
1 TTTAAATCATATCATAT
*
725971 TTTATATCATATCATAT
1 TTTAAATCATATCATAT
725988 TTTAA
1 TTTAA
725993 TTATTTTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATCATATCATAT
Found at i:726938 original size:12 final size:13
Alignment explanation
Indices: 726915--726943 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
726905 AGTTATTAAA
726915 TTTATATTTTATT
1 TTTATATTTTATT
726928 TTTAT-TTTTATT
1 TTTATATTTTATT
726940 TTTA
1 TTTA
726944 AATATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATATTTTATT
Found at i:730257 original size:20 final size:20
Alignment explanation
Indices: 730232--730326 Score: 104
Period size: 20 Copynumber: 4.8 Consensus size: 20
730222 TTTTAACTAG
*
730232 ATGTATCGATACATT-ATTCA
1 ATGTATCGATACATTGA-ACA
*
730252 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAACA
* *
730272 ATATATCGATACATTCATAC-
1 ATGTATCGATACATTGA-ACA
* *
730292 ATGTATCGATATATTGAAAA
1 ATGTATCGATACATTGAACA
730312 ATGTATCGATACATT
1 ATGTATCGATACATT
730327 TGGGTAAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 1 0.02
20 59 0.95
21 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGAACA
Found at i:730296 original size:40 final size:40
Alignment explanation
Indices: 730235--730326 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
730225 TAACTAGATG
* *
730235 TATCGATACATTATTCAATGTATCGATACATTGAAGAATA
1 TATCGATACATTATACAATGTATCGATACATTGAAAAATA
* *
730275 TATCGATACATTCATAC-ATGTATCGATATATTGAAAAATG
1 TATCGATACATT-ATACAATGTATCGATACATTGAAAAATA
730315 TATCGATACATT
1 TATCGATACATT
730327 TGGGTAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
40 44 0.94
41 3 0.06
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (40 bp):
TATCGATACATTATACAATGTATCGATACATTGAAAAATA
Found at i:730996 original size:28 final size:28
Alignment explanation
Indices: 730937--731904 Score: 1121
Period size: 28 Copynumber: 33.6 Consensus size: 28
730927 CACCGACTCG
* * *
730937 TGTGGGCTTTGAAAAGAGTTACCACTGGCT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
*
730967 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
730995 TGTGGGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
* * *
731024 GTGTGGGCTTTGAAAAGAGTTGCTACCGACTT
1 -TGTGGGCTTTG-AAAG-GGTGCCACTGAC-T
*
731056 GTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 -TGTGGGCTTTG-AAAGGGTGCCACTGACT
**
731086 TGTGGGCTTTGAAAAAAAGTGCCACTGACT
1 TGTGGGCTTTG--AAAGGGTGCCACTGACT
* *
731116 TATGGGTTTTGAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
*
731145 TGTGGGCTTTGAAAGGGGTGCCACTGTCT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* * *
731174 TGTGGGCTCTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
731202 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
731230 CGTGGGCTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
731259 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** *
731287 TGCGTGGGCTTTAAAAGGGTGGTACTAACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
*
731317 TGCGTGGGCTTTGAAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
*
731347 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
731375 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
731403 CGTGGGC-TTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
731430 CGTGGGC-TTGAAAGGGTGTCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
731457 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
731485 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
731513 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
731541 TGCGTGGGCTTTAGAAAGAGTGCCACTGACTT
1 T--GTGGGCTTT-GAAAGGGTGCCACTGAC-T
731573 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
731602 TATGGGCTTTAAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
731630 TGTGGGCTTTGCAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
731658 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
731686 TGTGGGCTCTAAAAGGAGTGCCACTAACTT
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T
731716 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
731745 TGTGGGCTTTGAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
731773 TGTGGGCTTCGCAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
731801 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** *
731829 TGTGGGCTCTAAAAAGAGTGCCACTGACTT
1 TGTGGGCT-TTGAAAGGGTGCCACTGAC-T
*
731859 GTGTGGGCTTTGAAAGGGTGCCACTAACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
731888 TGTGGGCTTTGAAAGGG
1 TGTGGGCTTTGAAAGGG
731905 ATGAACATTC
Statistics
Matches: 819, Mismatches: 97, Indels: 46
0.85 0.10 0.05
Matches are distributed among these distances:
27 50 0.06
28 414 0.51
29 122 0.15
30 148 0.18
31 57 0.07
32 27 0.03
33 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:731268 original size:173 final size:168
Alignment explanation
Indices: 730937--731902 Score: 1114
Period size: 173 Copynumber: 5.6 Consensus size: 168
730927 CACCGACTCG
* * * *
730937 TGTGGGCTTTGAAAAGAGTTACCACTGGCTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
* * ** * *
731002 TTTGGAAGGGTGCCACTGATTTGTGTGGGCTTTGAAAAGAGTTGCTACCGACTTGTGTGGGCTTT
64 TTTGAAAGGATGCCACT-AACT-TGTGGGCTTTG-AAAGAG-TGCCACTGAC-T-TGTGGGCTTT
**
731067 GAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAAAAGTGCCACTGACT
123 GAAAAG-GTGCCACTGACTTGTGGGCTTTG--AAAGGGTGCCACTGACT
* * *
731116 TATGGGTTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGTCTTGTGGGC
1 TGTGGGCTTTGAAA-GGGTGCCACTGACTTGTGGGCTTTGAAA-GGGTGCCACTGACTTGTGGGC
* *
731181 TCTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAA
64 TTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAA
* *
731246 GGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGACT
128 GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* ** * *
731287 TGCGTGGGCTTTAAAAGGGTGGTACTAACTTGCGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
1 T--GTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAGGGTGCCACTGACTTGTGG
* *
731352 GCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGC-TTGAA
62 GCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAA
* * * *
731415 AGGGTGCCACTGACTCGTGGGC-TTGAAAGGGTGTCACTAACT
126 AAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
731457 TGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGACTCGTGGGCTT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
*
731522 TGAAAAGG-TGCCACTGACTTGCGTGGGCTTTAGAAAGAGTGCCACTGACTTGTGTGGGCTTTGA
66 TG-AAAGGATGCCACTAACTT--GTGGGCTTT-GAAAGAGTGCCACTGAC-T-TGTGGGCTTTGA
* * * * * *
731586 AAGGGTGCCACTGACTTATGGGCTTTAAAAGAGTGCCACTAAAT
125 AAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
731630 TGTGGGCTTTGCAAGAGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTC
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
* *
731695 TAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAA
66 TGAAAGGA-TGCCACTAAC-T-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
* * *
731759 GAGTGCCACTGAATTGTGGGCTTCGCAAGGGTGCCACTGACT
128 G-GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* ** *
731801 TGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAAGAGTGCCACTGACTTGTGTGGG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT-TTGAAAGGGTGCCACTGAC-T-TGTGGG
*
731866 CTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAG
63 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAG
731903 GGATGAACAT
Statistics
Matches: 688, Mismatches: 74, Indels: 58
0.84 0.09 0.07
Matches are distributed among these distances:
166 47 0.07
167 3 0.00
168 32 0.05
169 17 0.02
170 22 0.03
171 137 0.20
172 65 0.09
173 215 0.31
174 51 0.07
175 9 0.01
176 7 0.01
177 11 0.02
178 28 0.04
179 44 0.06
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.28
Consensus pattern (168 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGT
GCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:731760 original size:143 final size:143
Alignment explanation
Indices: 730892--731907 Score: 1175
Period size: 143 Copynumber: 7.0 Consensus size: 143
730882 AAAAATGGGG
* * * *
730892 TGCCACTAACTTATGCGGGCCTTAAAAGGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTT
1 TGCCACTAAC-T-TGTGGGCTTTGAAA-GAG-TGCCACTGACT--TGTGGGCTTTGAAAAG-G-T
* * *
730957 ACCACTGGCTTGTGGGCTTTAAAAGGGTGCCACTGAC-T-TGTGGGCTTTGGAAGGGTGCCACTG
58 GCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTG
* *
731020 ATTTGTGTGGGCTTTGAAAAGAGT
123 A-CT-TGTGGGCTTTG-AAAGAGA
* ** *
731044 TGCTACCGACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAAAAGTGCC
1 TGCCACTAAC-T-TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTG--AAAAGGTGCC
* * * *
731109 ACTGACTTATGGGTTTTGAAAGGGGTGCCACTGAC-T-TGTGGGCTTTGAAAGGGGTGCCACTGT
61 ACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAA-GGGTGCCACTGA
*
731172 CTTGTGGGCTCTGAAAG-GA
124 CTTGTGGGCTTTGAAAGAGA
*
731191 TGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAAGGTGCCACTG
1 TGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAAGGTGCCACTG
* * * ** *
731256 ACTCGTGGGCTTTGAAAA-GGTGCCACTGACTTGCGTGGGCTTTAAAAGGGTGGTACTAACTTGC
65 ACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTT--
731320 GTGGGCTTTGAAAG-GA
127 GTGGGCTTTGAAAGAGA
*
731336 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTG
1 TGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTG
* * * * *
731400 ACTCGTGGGC-TTGAAAGGGTGCCACTGAC-T-CGTGGGC-TTGAAAGGGTGTCACTAACTTGTG
65 ACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTG
731461 GGCTTTGAAAGAG-
130 GGCTTTGAAAGAGA
* * *
731474 TGCCACTGACTCGTGGGCTTTGAAA-AGGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTG
1 TGCCACTAACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTG
*
731538 ACTTGCGTGGGCTTTAGAAAGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTT
65 ACTT--GTGGGCTTTA-AAAGGGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTT
* *
731603 ATGGGCTTTAAAAGAG-
127 GTGGGCTTTGAAAGAGA
* * * *
731619 TGCCACTAAATTGTGGGCTTTGCAAGAGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGA
1 TGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA
* *
731684 CTTGTGGGCTCTAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTG
66 CTTGTGGGCTTTAAAAGG-GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTG
731749 GGCTTTGAAAGAG-
130 GGCTTTGAAAGAGA
* * * * *
731762 TGCCACTGAA-TTGTGGGCTTCGCAAGGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTG
1 TGCCACT-AACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTG
* * *
731826 ACTTGTGGGCTCTAAAAAGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTAACTTGT
65 ACTTGTGGGCT-TTAAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGT
*
731891 GGGCTTTGAAAGGGA
129 GGGCTTTGAAAGAGA
731906 TG
1 TG
731908 AACATTCTAA
Statistics
Matches: 767, Mismatches: 71, Indels: 60
0.85 0.08 0.07
Matches are distributed among these distances:
137 1 0.00
138 72 0.09
139 5 0.01
140 24 0.03
141 9 0.01
142 35 0.05
143 250 0.33
144 73 0.10
145 166 0.22
146 2 0.00
147 8 0.01
148 4 0.01
149 38 0.05
150 32 0.04
151 25 0.03
152 20 0.03
153 3 0.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (143 bp):
TGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA
CTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGG
GCTTTGAAAGAGA
Done.