Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 3 of 410
Found at i:650998 original size:23 final size:23
Alignment explanation
Indices: 650972--651024 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
650962 TAAAGTAAAA
*
650972 AATAATAATAAT-TCATTAATAAG
1 AATAATAATAATAT-ATTAATAAC
*
650995 AATAATAATAGTATATTAATAAC
1 AATAATAATAATATATTAATAAC
651018 AATAATA
1 AATAATA
651025 GAAAATAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (23 bp):
AATAATAATAATATATTAATAAC
Found at i:651155 original size:12 final size:14
Alignment explanation
Indices: 651120--651171 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 14
651110 CAAGAGAAAT
* *
651120 AATAACAATAACAG
1 AATAATAATAATAG
*
651134 AATAAAAATAAT-G
1 AATAATAATAATAG
651147 -ATAATAATAATAG
1 AATAATAATAATAG
651160 CAATAATAATAA
1 -AATAATAATAA
651172 AATTAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 10 0.31
13 2 0.06
14 10 0.31
15 10 0.31
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (14 bp):
AATAATAATAATAG
Found at i:652045 original size:47 final size:47
Alignment explanation
Indices: 651980--652086 Score: 187
Period size: 47 Copynumber: 2.3 Consensus size: 47
651970 TCTTTTCTCC
651980 AAAAATCCCCCTCAAAATACAATCCCTTCTCCCCTCGAAATATCAAA
1 AAAAATCCCCCTCAAAATACAATCCCTTCTCCCCTCGAAATATCAAA
* *
652027 AAAAATCCCCCTCAAAATACAATCCCTTCTCCCCTCGAAATATCCAG
1 AAAAATCCCCCTCAAAATACAATCCCTTCTCCCCTCGAAATATCAAA
652074 AAAAATCCTCCCT
1 AAAAATCC-CCCT
652087 TTACAACTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
47 53 0.93
48 4 0.07
ACGTcount: A:0.38, C:0.37, G:0.03, T:0.21
Consensus pattern (47 bp):
AAAAATCCCCCTCAAAATACAATCCCTTCTCCCCTCGAAATATCAAA
Found at i:652059 original size:24 final size:23
Alignment explanation
Indices: 651987--652068 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
651977 TCCAAAAATC
651987 CCCCTCAAAATACAATCCCTTCT
1 CCCCTCAAAATACAATCCCTTCT
* *****
652010 CCCCTCGAAATATCAAAAAAAATC-
1 CCCCTCAAAATA-C-AATCCCTTCT
652034 CCCCTCAAAATACAATCCCTTCT
1 CCCCTCAAAATACAATCCCTTCT
*
652057 CCCCTCGAAATA
1 CCCCTCAAAATA
652069 TCCAGAAAAA
Statistics
Matches: 43, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
22 4 0.09
23 23 0.53
24 12 0.28
25 4 0.09
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.22
Consensus pattern (23 bp):
CCCCTCAAAATACAATCCCTTCT
Found at i:652674 original size:44 final size:44
Alignment explanation
Indices: 652624--652754 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 44
652614 GGCGATATTT
*
652624 GCTATCTTTGATCTGCTCTCTATCAATACAGAGACGCCAAATCC
1 GCTATCTTTGATCTGCTCTCTATCAACACAGAGACGCCAAATCC
* * * * * * * *
652668 GTTATCTTCGATCTGTTCCCTAT-AAGCATAGGGATGCCAAATCT
1 GCTATCTTTGATCTGCTCTCTATCAA-CACAGAGACGCCAAATCC
* *
652712 GCTATTTTTGATCTGCTCTCTACCAACACAGAGACGCCAAATC
1 GCTATCTTTGATCTGCTCTCTATCAACACAGAGACGCCAAATC
652755 TGTTTTAATC
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
43 2 0.03
44 63 0.94
45 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
GCTATCTTTGATCTGCTCTCTATCAACACAGAGACGCCAAATCC
Found at i:653254 original size:89 final size:89
Alignment explanation
Indices: 653140--653314 Score: 316
Period size: 89 Copynumber: 2.0 Consensus size: 89
653130 AAAACTAGTG
*
653140 ATTTTCAGCCTATTACCCTATTGCTTATAGGG-TTAAGGCTTGGTGGCTTGAATCTGCTTCACTG
1 ATTTTCAGCCTATTACCCTACTGCTTA-AGGGATTAAGGCTTGGTGGCTTGAATCTGCTTCACTG
653204 CAACTTCAGGAAGGCAAGATTTGTA
65 CAACTTCAGGAAGGCAAGATTTGTA
*
653229 ATTTTCAGCCTATTACCCTACTGCTTAAGGGATTAAGGCTTGGTGGCTTGAATCTGCTTCACTGT
1 ATTTTCAGCCTATTACCCTACTGCTTAAGGGATTAAGGCTTGGTGGCTTGAATCTGCTTCACTGC
653294 AACTTCAGGAAGGCAAGATTT
66 AACTTCAGGAAGGCAAGATTT
653315 ACCGTCTTCA
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
88 4 0.05
89 79 0.95
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (89 bp):
ATTTTCAGCCTATTACCCTACTGCTTAAGGGATTAAGGCTTGGTGGCTTGAATCTGCTTCACTGC
AACTTCAGGAAGGCAAGATTTGTA
Found at i:653528 original size:44 final size:44
Alignment explanation
Indices: 653320--653894 Score: 315
Period size: 45 Copynumber: 12.8 Consensus size: 44
653310 GATTTACCGT
* *
653320 CTTCAATCTGTTCCACTGCAACTTCAGGGAGACAAGA-TCTGT--
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTAA
** * * *
653362 -TTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A---A
* * * * * *
653409 GCTTCAATCCGTTCCACTTCAACTTCAGGGAAATAAGATTTGCTAT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAA
* * * * * * *
653455 TTTTAGTCTGTTCCACTGTAACTTTAGAGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
* * * *
653499 CTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTTA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGT-A----A
* * * * *
653548 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAA
* * *
653594 CTTCAGTCTACTCTACTGCAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
* * * * *
653638 CTTCGACCTGCTCTATTGCAACTTCAGAGAGATAAGA-TCTGTAATTTA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGT-A---A
* * * * * *
653686 GCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTAT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAA
653732 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
* * * * * * **
653776 TTTCAACCTGCCCCGCAGCAACTTTAGGGAGATAAGGTTTGT--
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
** * ** *
653818 -TTGGATCTGCTCTACTGCAACTTCAAAGAGATAAGA-TCTGTGAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGT-AA
* * * *
653862 TTTCAATCTACTCCACTGAAACTTCAAGGAGAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
653895 CTGCTGTGGC
Statistics
Matches: 403, Mismatches: 98, Indels: 61
0.72 0.17 0.11
Matches are distributed among these distances:
40 1 0.00
41 61 0.15
42 1 0.00
43 2 0.00
44 105 0.26
45 129 0.32
48 1 0.00
49 65 0.16
50 36 0.09
51 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
Found at i:653637 original size:95 final size:94
Alignment explanation
Indices: 653456--653630 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 94
653446 ATTTGCTATT
* * * * *
653456 TTTAGTCTGTTCCACTGTAACTTTAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAAC
1 TTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGACTTGTAACTTCGACCTACTCTACTGCAAC
653521 TTCAGAGAGATAAGATCTGTAATTTTAGC
66 TTCAGAGAGATAAGATCTGTAATTTTAGC
* * * *
653550 TTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTC-AGTCTACTCTACTGCA
1 TTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGACTTG-TAACTTCGA-CCTACTCTACTGCA
*
653614 ACTTCAGGGAGATAAGA
64 ACTTCAGAGAGATAAGA
653631 CTTGTAACTT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
94 35 0.51
95 34 0.49
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (94 bp):
TTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGACTTGTAACTTCGACCTACTCTACTGCAAC
TTCAGAGAGATAAGATCTGTAATTTTAGC
Found at i:653811 original size:138 final size:138
Alignment explanation
Indices: 653319--653786 Score: 692
Period size: 138 Copynumber: 3.4 Consensus size: 138
653309 AGATTTACCG
* * * *
653319 TCTTCAATCTGTTCCACTGCAACTTCAGGGAGACAAGA-TCTGT---TTTGATCTGCTCTACTGC
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTAACTTCGACCTGCTCTACTGC
* * * *
653380 AACTTCAGAGAGATAAGATTTGTAATTTAGCTTCAATCCGTTCCACTTCAACTTCAGGGAAATAA
65 AACTTCAGAGAGATAAGATCTGTAATTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAA
653445 GATTTGCTA
130 GATTTGCTA
* * * * * * *
653454 TTTTTAGTCTGTTCCACTGTAACTTTAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCA
653519 ACTTCAGAGAGATAAGATCTGTAATTTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAA
66 ACTTCAGAGAGATAAGATCTGTAA-TTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAA
653584 GATTTGCTA
130 GATTTGCTA
* * * *
653593 TCTTCAGTCTACTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTATTGCA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCA
*
653658 ACTTCAGAGAGATAAGATCTGTAATTTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAG
66 ACTTCAGAGAGATAAGATCTGTAATTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAG
653723 ATTTGCTA
131 ATTTGCTA
* *
653731 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGC
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGC
653787 CCCGCAGCAA
Statistics
Matches: 300, Mismatches: 28, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
135 34 0.11
136 1 0.00
138 139 0.46
139 126 0.42
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (138 bp):
TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCA
ACTTCAGAGAGATAAGATCTGTAATTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAG
ATTTGCTA
Found at i:653959 original size:68 final size:68
Alignment explanation
Indices: 653877--654075 Score: 310
Period size: 68 Copynumber: 2.9 Consensus size: 68
653867 ATCTACTCCA
* *
653877 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGAT
*
653942 TCG
66 CCG
* * *
653945 CTGAAACTTCAAGGAGATCTACTATGGCTTTTAGCCGCTCCAACGCTATTTCAGGAAGAAAAGAT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGAT
*
654010 CCT
66 CCG
* *
654013 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
654076 AATTTGTAAT
Statistics
Matches: 119, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 6 0.05
68 113 0.95
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGAT
CCG
Found at i:654238 original size:87 final size:86
Alignment explanation
Indices: 654080--654818 Score: 633
Period size: 87 Copynumber: 8.5 Consensus size: 86
654070 AAAAGAAATT
* * * * *
654080 TGTAATTTCCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCC
1 TGTAAATT-CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTATCACCTTCGATCTGTTTCC
*
654145 CAACTGCTTAAGGGGTTAAGATC
65 CTACTGCTT-AGGGGTTAAGATC
*
654168 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTATCACCTTCGATTTGTTTCCC
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTATCACCTTCGATCTGTTTCCC
*
654233 TACTGCTTAGGGGTTTAAAATC
66 TACTGCTTAGGGG-TTAAGATC
* * *
654255 TGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCC-ATCGCCTTCGATCTATTTCC
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-CCTATCACCTTCGATCTGTTTCC
654319 CTACTGCTTAGGGGGTTAAGATC
65 CTACTGCTTA-GGGGTTAAGATC
* *
654342 TGTAAATTTAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCTATCACCTTCGATCTGTTTCCC
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTATCACCTTCGATCTGTTTCCC
* *
654407 TACTGCTTAGAGGTTTAAGGTCC
66 TACTGCTTAG-GGGTTAAGAT-C
*** * * * ** * * ** * * *
654430 AT-TGCCTTC-GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-CCTGTTAC
1 -TGTAAATTCAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTATCACCTTCGATCTGTTTC
* *
654492 CCTACTGCTTAGGGAGATAAG-GC
64 CCTACTGCTTAGGG-GTTAAGATC
* * * * ** * *
654515 TTGTGAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCTGT-AAATTCG-GCTTGTTAC
1 -TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTATCACCTTCGATC-TGTTTC
654578 CCTACTGCTTAGGGGGTTAAAGCCCATC
64 CCTACTGCTTA-GGGGTT-AAG---ATC
* * * ** * ** * *
654606 ATCT---TTGA-TCTGTTTTCCTACTGCTTAGGGGGTTAAGATCT-TCATCTTTGATCTGTTTCC
1 -TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTATCACCTTCGATCTGTTTCC
*
654666 CTACTGCTTAGGGAGATAAGATC
65 CTACTGCTTAGGG-GTTAAGATC
* * * * * ** *
654689 TG-CAATTCGGTCTGTTACCCTACTGATTAGGGGTTTAAGACCCT-TCGTCTTCAATCTGTTTCC
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG-GCCTATCACCTTCGATCTGTTTCC
654752 CTACTGCTTAGGGGGTTAAGATC
65 CTACTGCTTA-GGGGTTAAGATC
*
654775 TGTAAATTTTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
1 TGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
654819 TTGTGAATTC
Statistics
Matches: 535, Mismatches: 86, Indels: 60
0.79 0.13 0.09
Matches are distributed among these distances:
82 1 0.00
83 3 0.01
84 2 0.00
85 33 0.06
86 110 0.21
87 298 0.56
88 54 0.10
89 31 0.06
91 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (86 bp):
TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTATCACCTTCGATCTGTTTCCC
TACTGCTTAGGGGTTAAGATC
Found at i:654711 original size:129 final size:130
Alignment explanation
Indices: 654528--654816 Score: 354
Period size: 129 Copynumber: 2.2 Consensus size: 130
654518 TGAATTCAAC
* * *
654528 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGG
1 CTGTTACCCTACTGCTTAGGGGTATAAGATCTGTAAATTCGGCTTGTTACCCTACTGATTA-GGG
** *
654593 GTTAAAG-CCCATCATCTTTGATCTGTTTTCCTACTGCTTAGGGGGTTAAGATCTTCATCTTTGA
65 GTTAAAGACCCATCATCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTTGA
654657 T
130 T
* *
654658 CTGTTTCCCTACTGCTTAGGGAG-ATAAGATCTG-CAATTCGG-TCTGTTACCCTACTGATTAGG
1 CTGTTACCCTACTGCTTAGGG-GTATAAGATCTGTAAATTCGGCT-TGTTACCCTACTGATTAGG
* * * *
654720 GGTTTAAGACCCTTCGTCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAAT-TT
64 GGTTAAAGACCCATCATCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTT
* *
654784 TTAGC
127 TGA-T
*
654789 CTGTTACCCTACTGCTTAGGGGTTTAAG
1 CTGTTACCCTACTGCTTAGGGGTATAAG
654817 GCTTGTGAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
128 10 0.07
129 65 0.48
130 34 0.25
131 27 0.20
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (130 bp):
CTGTTACCCTACTGCTTAGGGGTATAAGATCTGTAAATTCGGCTTGTTACCCTACTGATTAGGGG
TTAAAGACCCATCATCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTTGAT
Found at i:654772 original size:44 final size:43
Alignment explanation
Indices: 654093--654772 Score: 369
Period size: 43 Copynumber: 15.7 Consensus size: 43
654083 AATTTCCAGC
* * * * *
654093 CTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAA-GACCTTCATCTTCGAT
* * * * ** *
654137 CTATTTCCCAACTGCTTAAGGGGTTAAGATCTGT-AAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCT-TCATCTTCGA-T
* * * *
654180 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCTATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCT-TCATCTTCGAT
* * * * ** * *
654224 TTGTTTCCCTACTGCTTAGGGGTTTAAAATCTGT-AAATTCAAC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCT-TCATCTTCGAT
* * * * **
654267 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAA-GACCTTCATCTTCGAT
* * * * *
654311 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAAT-TTAG-C
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGAT
* * * * *
654354 CTGTTACCCTACTGCTTAAGGGTTTAAGGCCTATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCT-TCATCTTCGAT
* * *
654398 CTGTTTCCCTACTGCTTAGAGGTTTAAGGTCCATTGC--CTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAA-GACC-TT-CATCTTCGAT
* * * *
654442 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAAT-TTAG-C
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGAT
* * * * * * * * *
654485 CTGTTACCCTACTGCTTAGGGAGATAAGGCTTGTGA-ATTCAAC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCT-TCATCTTCGAT
* * ** ** *
654528 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCTGT-AAATTCG-G
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCT-TCATCTTCGAT
* * * *
654570 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGAT
1 C-TGTTTCCCTACTGCTTAGGGGGTT-AAGACCTTCATCTTCGAT
* * *
654615 CTGTTTTCCTACTGCTTAGGGGGTTAAGATCTTCATCTTTGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGAT
* * * * * *
654658 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCA-ATTCGGT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGAT
* * * * *
654700 CTGTTACCCTACTGATTAGGGGTTTAAGACCCTTCGTCTTCAAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGA-CCTTCATCTTCGAT
654744 CTGTTTCCCTACTGCTTAGGGGGTTAAGA
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGA
654773 TCTGTAAATT
Statistics
Matches: 483, Mismatches: 128, Indels: 50
0.73 0.19 0.08
Matches are distributed among these distances:
42 36 0.07
43 233 0.48
44 206 0.43
45 6 0.01
46 2 0.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (43 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGAT
Found at i:654989 original size:61 final size:65
Alignment explanation
Indices: 654877--654997 Score: 187
Period size: 61 Copynumber: 1.9 Consensus size: 65
654867 GTATCTATGC
*
654877 TTATGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGTT
1 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGTT
* *
654942 TTATGTCAACTAATTAGGATG-T-T-AT-GAAATGAATCAAATGCTCCTAACTAGATGTG
1 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
654998 TTATTATATG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
61 30 0.57
62 2 0.04
63 1 0.02
64 1 0.02
65 19 0.36
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (65 bp):
TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGTT
Found at i:656659 original size:7 final size:7
Alignment explanation
Indices: 656647--656688 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
656637 TGATCCCCTC
656647 TTTTTCT
1 TTTTTCT
656654 TTTTTCT
1 TTTTTCT
656661 TTTTT-T
1 TTTTTCT
656667 CTTTTTCT
1 -TTTTTCT
656675 TTTCTCTCT
1 TTT-T-TCT
656684 TTTTT
1 TTTTT
656689 TTGGATTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 1 0.03
7 21 0.68
8 3 0.10
9 6 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:656667 original size:15 final size:15
Alignment explanation
Indices: 656647--656688 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
656637 TGATCCCCTC
656647 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
656662 TTTTTC-TTTTTCTT
1 TTTTTCTTTTTTCTT
*
656676 TTCTCTCTTTTTT
1 TT-TTTCTTTTTT
656689 TTGGATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 9 0.38
16 5 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:656670 original size:21 final size:23
Alignment explanation
Indices: 656645--656689 Score: 76
Period size: 21 Copynumber: 2.0 Consensus size: 23
656635 TATGATCCCC
656645 TCTTTTTCTTTT-T-TCTTTTTT
1 TCTTTTTCTTTTCTCTCTTTTTT
656666 TCTTTTTCTTTTCTCTCTTTTTT
1 TCTTTTTCTTTTCTCTCTTTTTT
656689 T
1 T
656690 TGGATTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 12 0.55
22 1 0.05
23 9 0.41
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TCTTTTTCTTTTCTCTCTTTTTT
Found at i:659347 original size:19 final size:20
Alignment explanation
Indices: 659323--659369 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
659313 AGTGAAAGTT
659323 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
659342 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
659362 -AATGCAAA
1 TAATGCAAA
659370 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:661838 original size:132 final size:132
Alignment explanation
Indices: 661579--661953 Score: 445
Period size: 132 Copynumber: 2.8 Consensus size: 132
661569 TGAAAACCTA
* * * * * ** *
661579 AAGGAATATTCGATTGTTTTGAGCAGACGAGGAATTATAACCCAACACGATAGGGCA-TGATTCC
1 AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACT-ATTCC
* *** * * ** * *
661643 -CGAATTGTCAAACGCCAAATAT--TACATTCGTTTTAAATG-ATTTTTAGAAGATATGCGTGAA
65 GCGAATTGCCAAATATCGAATATCGT-C-TTCGTTTTAAA-GAATTTTTAAAAGGCATGAGTAAA
661704 ATTTTG
127 ATTTTG
* * *
661710 AAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGTAACCCAGCACGTTAGGGCACTATTCCG
1 AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACTATTCCG
*
661775 CGAATTGCCAAATATCGAATATCGTCTTTGTTTTAAAGAATTTTTAAAAGGCATGAGTAAAATTT
66 CGAATTGCCAAATATCGAATATCGTCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTAAAATTT
661840 TG
131 TG
* *
661842 AAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCCG
1 AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACTATTCCG
* *
661907 CGAATTGCCAAATATCGAGTCTCGTCTTCGTTTTAAAGAATTTTTAA
66 CGAATTGCCAAATATCGAATATCGTCTTCGTTTTAAAGAATTTTTAA
661954 TAATAATTAT
Statistics
Matches: 211, Mismatches: 28, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
131 54 0.26
132 155 0.73
133 1 0.00
134 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (132 bp):
AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACTATTCCG
CGAATTGCCAAATATCGAATATCGTCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTAAAATTT
TG
Found at i:662242 original size:3 final size:3
Alignment explanation
Indices: 662229--662281 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
662219 ACGAACAATG
* * * *
662229 ATA AAA ATA ATA ATG ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
662277 ATA AT
1 ATA AT
662282 GCAATGATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:662426 original size:23 final size:23
Alignment explanation
Indices: 662400--662453 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
662390 TAAAGTAAAA
*
662400 AATAATAGTAAT-TCATTAATAAG
1 AATAATAGTAATAT-ATTAATAAC
* *
662423 AATAATAATAGTATATTAATAAC
1 AATAATAGTAATATATTAATAAC
662446 AATAATAG
1 AATAATAG
662454 AAAATAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
AATAATAGTAATATATTAATAAC
Found at i:663476 original size:47 final size:47
Alignment explanation
Indices: 663411--663517 Score: 187
Period size: 47 Copynumber: 2.3 Consensus size: 47
663401 TCTTTTCTCC
663411 AAAAATCCCCCTCAAAATACAATCCCTTCTCCCCTCGAAATATCAAA
1 AAAAATCCCCCTCAAAATACAATCCCTTCTCCCCTCGAAATATCAAA
* *
663458 AAAAATCCCCCTCAAAATACAATCCCTTCTCCCCTCGAAATATCCAG
1 AAAAATCCCCCTCAAAATACAATCCCTTCTCCCCTCGAAATATCAAA
663505 AAAAATCCTCCCT
1 AAAAATCC-CCCT
663518 TTACAACTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
47 53 0.93
48 4 0.07
ACGTcount: A:0.38, C:0.37, G:0.03, T:0.21
Consensus pattern (47 bp):
AAAAATCCCCCTCAAAATACAATCCCTTCTCCCCTCGAAATATCAAA
Found at i:663490 original size:24 final size:23
Alignment explanation
Indices: 663418--663499 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
663408 TCCAAAAATC
663418 CCCCTCAAAATACAATCCCTTCT
1 CCCCTCAAAATACAATCCCTTCT
* *****
663441 CCCCTCGAAATATCAAAAAAAATC-
1 CCCCTCAAAATA-C-AATCCCTTCT
663465 CCCCTCAAAATACAATCCCTTCT
1 CCCCTCAAAATACAATCCCTTCT
*
663488 CCCCTCGAAATA
1 CCCCTCAAAATA
663500 TCCAGAAAAA
Statistics
Matches: 43, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
22 4 0.09
23 23 0.53
24 12 0.28
25 4 0.09
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.22
Consensus pattern (23 bp):
CCCCTCAAAATACAATCCCTTCT
Found at i:670447 original size:23 final size:22
Alignment explanation
Indices: 670411--670455 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
670401 TTTTTTTAAC
*
670411 TATATTATTAATCACCCAATTA
1 TATATTATTAATCACCAAATTA
*
670433 TATATATATTTATCACCAAATTA
1 TATAT-TATTAATCACCAAATTA
670456 CGAAAAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATTATTAATCACCAAATTA
Found at i:672408 original size:20 final size:20
Alignment explanation
Indices: 672385--672422 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
672375 TAAATATAAG
672385 AAACTGAAA-AATTTTAATGA
1 AAACT-AAACAATTTTAATGA
*
672405 AAACTAAACCATTTTAAT
1 AAACTAAACAATTTTAAT
672423 ACAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (20 bp):
AAACTAAACAATTTTAATGA
Found at i:683686 original size:28 final size:28
Alignment explanation
Indices: 683646--683707 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
683636 AAATTTGACC
*
683646 TTCAAATATTTTATAATTTGATCCTTAT
1 TTCAAACATTTTATAATTTGATCCTTAT
683674 TTCAAACATTTTATAATTTGATCCTTAT
1 TTCAAACATTTTATAATTTGATCCTTAT
683702 TTCAAA
1 TTCAAA
683708 AATGATACTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (28 bp):
TTCAAACATTTTATAATTTGATCCTTAT
Found at i:684178 original size:18 final size:18
Alignment explanation
Indices: 684155--684192 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
684145 TAAATTTTAC
684155 TTTATATTAATTATAATT
1 TTTATATTAATTATAATT
684173 TTTATATTAATTATAATT
1 TTTATATTAATTATAATT
684191 TT
1 TT
684193 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTAATTATAATT
Found at i:698290 original size:3 final size:3
Alignment explanation
Indices: 698282--698314 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
698272 CAATAAATAC
698282 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
698315 TCCATGTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:698898 original size:31 final size:31
Alignment explanation
Indices: 698838--698902 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
698828 ATAATTCTAA
* *
698838 CATTTTTAAAGGGTTTAAACTGAATTTTTTT
1 CATTTTTAAAGGGGTTAAACTGAAATTTTTT
*
698869 CATTTTT-AAGGGGTTAAACTGAAAATTTTT
1 CATTTTTAAAGGGGTTAAACTGAAATTTTTT
698899 -ATTT
1 CATTT
698903 ATATTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 4 0.13
30 20 0.65
31 7 0.23
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (31 bp):
CATTTTTAAAGGGGTTAAACTGAAATTTTTT
Found at i:703333 original size:34 final size:34
Alignment explanation
Indices: 703249--703335 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
703239 GATATTTTTG
* * *
703249 ATATAAAATATATATTATATATTATATTAACTTA
1 ATATATAATATATAATATATAATATATTAACTTA
*
703283 ATATTTAAGTAT-TAATATATAATATATTATA-TTA
1 ATATATAA-TATATAATATATAATATATTA-ACTTA
*
703317 TTATATAATATATAATATA
1 ATATATAATATATAATATA
703336 ATATATAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
33 3 0.07
34 37 0.84
35 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (34 bp):
ATATATAATATATAATATATAATATATTAACTTA
Found at i:703341 original size:7 final size:7
Alignment explanation
Indices: 703249--703343 Score: 67
Period size: 7 Copynumber: 14.1 Consensus size: 7
703239 GATATTTTTG
*
703249 ATATAAA
1 ATATATA
703256 ATATATA
1 ATATATA
*
703263 TTATATA
1 ATATATA
*
703270 TTATATTA
1 ATATA-TA
*
703278 A-CT-TA
1 ATATATA
*
703283 ATATTTA
1 ATATATA
703290 AGTAT-TA
1 A-TATATA
703297 ATATATA
1 ATATATA
*
703304 ATATATT
1 ATATATA
703311 ATAT-TA
1 ATATATA
*
703317 TTATATA
1 ATATATA
703324 ATATAT-
1 ATATATA
703330 A-ATATA
1 ATATATA
703336 ATATATA
1 ATATATA
703343 A
1 A
703344 AACATAAAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
5 7 0.10
6 10 0.14
7 49 0.69
8 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (7 bp):
ATATATA
Found at i:704172 original size:3 final size:3
Alignment explanation
Indices: 704164--704203 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
704154 TAACTAAATA
704164 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
704204 GATTATGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:704579 original size:22 final size:23
Alignment explanation
Indices: 704542--704585 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
704532 GTTCTATTAT
704542 TAGCACGTTAAGTGCTCTCTGTA
1 TAGCACGTTAAGTGCTCTCTGTA
*
704565 TAGCAC-TTTAGTGCTCTCTGT
1 TAGCACGTTAAGTGCTCTCTGT
704586 TCGCTTGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (23 bp):
TAGCACGTTAAGTGCTCTCTGTA
Found at i:706038 original size:17 final size:17
Alignment explanation
Indices: 706009--706042 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
705999 TTAATAATTT
706009 TATTTGTTTTTTGAAAA
1 TATTTGTTTTTTGAAAA
706026 TATTT-TTTATTTGAAAA
1 TATTTGTTT-TTTGAAAA
706043 ACCAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTTGTTTTTTGAAAA
Found at i:717286 original size:20 final size:20
Alignment explanation
Indices: 717250--717288 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
717240 AAATTAAAAA
*
717250 GATTAAGAAAAGCAAAAAGT
1 GATTAAGAAAAGAAAAAAGT
717270 GATTGAAGAAAA-AAAAAAG
1 GATT-AAGAAAAGAAAAAAG
717289 ATGGTGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.13
Consensus pattern (20 bp):
GATTAAGAAAAGAAAAAAGT
Found at i:719278 original size:23 final size:23
Alignment explanation
Indices: 719224--719278 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
719214 AATTACAAAA
719224 ATTCAAAATTTTTATAAAATATT
1 ATTCAAAATTTTTATAAAATATT
*
719247 TTTCCAAAA-TTTTAT-AAATATAT
1 ATT-CAAAATTTTTATAAAATAT-T
719270 ATTCGAAAA
1 ATTC-AAAA
719279 ATTACTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 7 0.26
23 15 0.56
24 5 0.19
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTCAAAATTTTTATAAAATATT
Found at i:720741 original size:16 final size:18
Alignment explanation
Indices: 720710--720742 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
720700 CTTTTGGGAC
720710 TCATTTTACATTTTCTTA
1 TCATTTTACATTTTCTTA
720728 TCATTTT-C-TTTTCTT
1 TCATTTTACATTTTCTT
720743 TGCAAGTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (18 bp):
TCATTTTACATTTTCTTA
Found at i:726218 original size:13 final size:14
Alignment explanation
Indices: 726200--726230 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
726190 ATGTATGAAT
726200 ATATACATATA-TA
1 ATATACATATATTA
726213 ATATACATATATTA
1 ATATACATATATTA
726227 ATAT
1 ATAT
726231 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:726309 original size:21 final size:23
Alignment explanation
Indices: 726266--726314 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
726256 AACAACCATT
726266 AATAA-TAATAATACTTAAAAAA
1 AATAATTAATAATACTTAAAAAA
*
726288 AATAATTAAT-ATA-TTAATAAA
1 AATAATTAATAATACTTAAAAAA
726309 AATAAT
1 AATAAT
726315 AGTAACAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 13 0.52
22 8 0.32
23 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAATTAATAATACTTAAAAAA
Found at i:726806 original size:15 final size:16
Alignment explanation
Indices: 726788--726821 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
726778 AAAAAGAAGA
726788 GAGAAAAGGAGAG-GG
1 GAGAAAAGGAGAGAGG
726803 GAG-AAAGGAGAGAGG
1 GAGAAAAGGAGAGAGG
726818 GAGA
1 GAGA
726822 GGGGAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAAAAGGAGAGAGG
Found at i:726807 original size:22 final size:22
Alignment explanation
Indices: 726782--726834 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
726772 AAGAAAAAAA
726782 AGAAGAGAGAAAAGGAGAGGGG
1 AGAAGAGAGAAAAGGAGAGGGG
* *
726804 AGAA-AGGAGAGAGGGAGAGGGG
1 AGAAGA-GAGAAAAGGAGAGGGG
*
726826 AGAGGAGAG
1 AGAAGAGAG
726835 GGCTCCGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (22 bp):
AGAAGAGAGAAAAGGAGAGGGG
Found at i:726926 original size:8 final size:8
Alignment explanation
Indices: 726915--726959 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
726905 GTAAAAATTC
726915 TATTTTTT
1 TATTTTTT
726923 TATTTTTT
1 TATTTTTT
*
726931 TATTTTGT
1 TATTTTTT
726939 TATTTTTAT
1 TATTTTT-T
726948 ATATATTTTT
1 -TAT-TTTTT
726958 TA
1 TA
726960 ATATTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 21 0.66
9 3 0.09
10 4 0.12
11 4 0.12
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (8 bp):
TATTTTTT
Found at i:727372 original size:23 final size:24
Alignment explanation
Indices: 727346--727393 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
727336 GGACTGTGGC
727346 GGTAT-GGGATTGTTGTAGTGGGG
1 GGTATGGGGATTGTTGTAGTGGGG
*
727369 GGTATGGGGCTTGTTGTAGTGGGG
1 GGTATGGGGATTGTTGTAGTGGGG
727393 G
1 G
727394 TATAGGGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.10, C:0.02, G:0.54, T:0.33
Consensus pattern (24 bp):
GGTATGGGGATTGTTGTAGTGGGG
Found at i:727407 original size:27 final size:24
Alignment explanation
Indices: 727346--727404 Score: 86
Period size: 23 Copynumber: 2.5 Consensus size: 24
727336 GGACTGTGGC
*
727346 GGTAT-GGGATTGTTGTAGTGGGG
1 GGTATGGGGCTTGTTGTAGTGGGG
727369 GGTATGGGGCTTGTTGTAGT-GGG
1 GGTATGGGGCTTGTTGTAGTGGGG
*
727392 GGTATAGGGCTTG
1 GGTATGGGGCTTG
727405 CTTCATGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 20 0.61
24 13 0.39
ACGTcount: A:0.12, C:0.03, G:0.51, T:0.34
Consensus pattern (24 bp):
GGTATGGGGCTTGTTGTAGTGGGG
Found at i:728240 original size:73 final size:72
Alignment explanation
Indices: 728067--728242 Score: 160
Period size: 73 Copynumber: 2.4 Consensus size: 72
728057 GGCATGTGAT
*
728067 CCTCTCGCAACATGAGTTGATTTTTGAAACAACAATAATTAAGAATACCTCAGCGTGACCTAAGG
1 CCTCTCGCAATATGAGTTGATTTTTGAAACAACAATAA-TAAG-ATACCTCAGCGTGACCTAAGG
*
728132 CTCGTCTCA
64 CTCGACTCA
* * * ** ** * * * *
728141 CTTCTCGCAGTTTGAGTCAAAATTTGAAACATA-AACTAA-AAG-TACTTCAGCGTGTGGCTTGA
1 CCTCTCGCAATATGAGTTGATTTTTGAAACA-ACAA-TAATAAGATACCTCAGC--GTGACCTAA
728203 GGCTCGACTCA
62 GGCTCGACTCA
728214 CCTCTCGCAATATGAGTTGATTTTTGAAA
1 CCTCTCGCAATATGAGTTGATTTTTGAAA
728243 AAAACAAAAA
Statistics
Matches: 78, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
71 8 0.10
73 41 0.53
74 25 0.32
75 4 0.05
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (72 bp):
CCTCTCGCAATATGAGTTGATTTTTGAAACAACAATAATAAGATACCTCAGCGTGACCTAAGGCT
CGACTCA
Found at i:728288 original size:50 final size:53
Alignment explanation
Indices: 728202--728349 Score: 196
Period size: 54 Copynumber: 2.8 Consensus size: 53
728192 GTGTGGCTTG
* *
728202 AGGCTCGACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-A-ACA-AAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATAAA
* * *
728252 AGG-TATAACTCAACTCTCGCAATATGAGTTGCTTTTTGAAAAACAGAAATTAAA
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TAAA
*
728306 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
728350 GGGAATTGGA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
49 1 0.01
50 37 0.45
51 1 0.01
52 2 0.02
54 41 0.49
55 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (53 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATAAA
Found at i:728428 original size:87 final size:86
Alignment explanation
Indices: 728309--728522 Score: 279
Period size: 88 Copynumber: 2.5 Consensus size: 86
728299 AATTAAAAGG
*
728309 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAAACGGGAAT-TGGAAAATAGAAATTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAAAC-AGAATAT-GAAAATAGAAATTGA
* * *
728373 AAATACCTCAATGTGTCCCGTGA
64 AAATACCTCAACGTGACCCGAGA
* *
728396 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAATAGAAATTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTC-TTGAAAAACAGAAT-ATGAAAATAGAAATTGA
** * *
728461 AAATACCTCGGCGTGACCTGAGG
64 AAATACCTCAACGTGACCCGAGA
*
728484 CTCAACTCACCTCTCGCAATATGAGCTGATT-TTGAAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAAA
728523 GTAGAAATTA
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
86 7 0.06
87 35 0.31
88 69 0.62
89 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (86 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAAACAGAATATGAAAATAGAAATTGAAA
ATACCTCAACGTGACCCGAGA
Found at i:728751 original size:74 final size:73
Alignment explanation
Indices: 728591--728952 Score: 283
Period size: 75 Copynumber: 4.9 Consensus size: 73
728581 AAAATCGTGT
* * * * * * * *
728591 CCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAA-ATTAGAAACATA-AACTAAAAGTACTT
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAG-TCAATTTTTGAAACAAACAATTAAAAATACCT
*
728654 CAGC-GTGC
65 CAGCGGTGA
* * * *
728662 CCCGAGGCTCAACTCACCCCTCGCAATATGAG-CTGATTTTTGAAACAAACGGAATTCAAAATAC
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTC-AATTTTTGAAACAAAC--AATTAAAAATAC
728726 CTCAGC-GTGA
63 CTCAGCGGTGA
** * * *
728736 CCTGAGGCTTGACTCACCTCTCGCACTATGAGTCAATTTTTAAAACGTAAACTAA--AAAAACAC
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTGAAAC--AAAC-AATTAAAAATAC
728799 CTCAGCGTGTGA
63 CTCAGCG-GTGA
** *
728811 CCTGAGGCTTGACTCACCTCTCGCAATATGAGTCAACTTTTTTGAAACATA-AATTAAAAATACC
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAA--TTTTTGAAACAAACAATTAAAAATACC
728875 TCAGCGTGTGA
64 TCAGCG-GTGA
* ** * ** ** *
728886 CCTGAGGCTCAACCCATTTCTCGTAATATGAGTTGATTTTTGAAA-ACATGAATTAAAGATACCT
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTGAAACA-AACAATTAAAAATACCT
728950 CAG
65 CAG
728953 AATACCCAAA
Statistics
Matches: 237, Mismatches: 38, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
70 1 0.00
71 38 0.16
72 1 0.00
73 23 0.10
74 70 0.30
75 91 0.38
76 4 0.02
77 9 0.04
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (73 bp):
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTGAAACAAACAATTAAAAATACCTC
AGCGGTGA
Found at i:741439 original size:13 final size:14
Alignment explanation
Indices: 741421--741451 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
741411 ATGTATGAAT
741421 ATATACATATA-TA
1 ATATACATATATTA
741434 ATATACATATATTA
1 ATATACATATATTA
741448 ATAT
1 ATAT
741452 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:741530 original size:21 final size:23
Alignment explanation
Indices: 741487--741535 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
741477 AACAACCATT
741487 AATAA-TAATAATACTTAAAAAA
1 AATAATTAATAATACTTAAAAAA
*
741509 AATAATTAAT-ATA-TTAATAAA
1 AATAATTAATAATACTTAAAAAA
741530 AATAAT
1 AATAAT
741536 AGTAACAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 13 0.52
22 8 0.32
23 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAATTAATAATACTTAAAAAA
Found at i:742027 original size:15 final size:16
Alignment explanation
Indices: 742009--742042 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
741999 AAAAAGAAGA
742009 GAGAAAAGGAGAG-GG
1 GAGAAAAGGAGAGAGG
742024 GAG-AAAGGAGAGAGG
1 GAGAAAAGGAGAGAGG
742039 GAGA
1 GAGA
742043 GGGGAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAAAAGGAGAGAGG
Found at i:742028 original size:22 final size:22
Alignment explanation
Indices: 742003--742055 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
741993 AAGAAAAAAA
742003 AGAAGAGAGAAAAGGAGAGGGG
1 AGAAGAGAGAAAAGGAGAGGGG
* *
742025 AGAA-AGGAGAGAGGGAGAGGGG
1 AGAAGA-GAGAAAAGGAGAGGGG
*
742047 AGAGGAGAG
1 AGAAGAGAG
742056 GGCTCCGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (22 bp):
AGAAGAGAGAAAAGGAGAGGGG
Found at i:742629 original size:27 final size:24
Alignment explanation
Indices: 742568--742626 Score: 95
Period size: 23 Copynumber: 2.5 Consensus size: 24
742558 GGACTGTGGC
*
742568 GGTAT-GGGATTGTTGTAGTGGGG
1 GGTATGGGGCTTGTTGTAGTGGGG
742591 GGTATGGGGCTTGTTGTAGT-GGG
1 GGTATGGGGCTTGTTGTAGTGGGG
742614 GGTATGGGGCTTG
1 GGTATGGGGCTTG
742627 CTTCATGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 21 0.62
24 13 0.38
ACGTcount: A:0.10, C:0.03, G:0.53, T:0.34
Consensus pattern (24 bp):
GGTATGGGGCTTGTTGTAGTGGGG
Found at i:751360 original size:131 final size:130
Alignment explanation
Indices: 751208--751525 Score: 343
Period size: 131 Copynumber: 2.4 Consensus size: 130
751198 CGATCGTTTT
** * * * * * *
751208 GAGCAAACGA-GAAATCACAACCCAGCACGATAGGGCATGATT-CTCGAATTGTCAAATGCCAAA
1 GAGCAAAC-ACGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACCAAA
* * * * * *
751271 TATTGCCTTTGTTTTAAATAATTTTTAGAAGATATGAATGAAATTTTGAAGGGATAGTCGATTAT
65 TATCGCCTTCGTTTTAAAGAATTTTAAG-AGACATGAATGAAATTTCGAAGGGATAGTCGATTA-
*
751336 TTT
128 TTC
* * **
751339 GAGCAAATACGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGGAT
1 GAGCAAACACGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACCAAAT
* * * ** * *
751404 CTCGTCTTCGTTTTGAAGAATTTTAAGAGACATGCGTGAAATTTCGAAGTGATATTCGATTATTC
66 ATCGCCTTCGTTTTAAAGAATTTTAAGAGACATGAATGAAATTTCGAAGGGATAGTCGATTATTC
* *
751469 GAGCAAACGCGGAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAA
1 GAGCAAACACGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAA
751526 CATCGAATCT
Statistics
Matches: 156, Mismatches: 29, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
130 57 0.37
131 63 0.40
132 36 0.23
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (130 bp):
GAGCAAACACGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACCAAAT
ATCGCCTTCGTTTTAAAGAATTTTAAGAGACATGAATGAAATTTCGAAGGGATAGTCGATTATTC
Found at i:751506 original size:130 final size:131
Alignment explanation
Indices: 751309--751557 Score: 392
Period size: 130 Copynumber: 1.9 Consensus size: 131
751299 AAGATATGAA
* * *
751309 TGAAATTTTGAAGGGATAGTCGATTATTTTGAGCAAATACGAAATTGCAACCCAACACGTTAGGG
1 TGAAATTTCGAAGGGATAGTCGATTATTTCGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
* * *
751374 CACGATTCCGCGAATTGCCAAATATCGGATCTCGTCTTCGTTTTGAAGAATTTTAAGAGACATGC
66 CACGATTCCGCGAATTGCCAAACATCGAATCTCGTCTTCGATTTGAAGAATTTTAAGAGACATGC
751439 G
131 G
* * * *
751440 TGAAATTTCGAAGTGATATTCGATTA-TTCGAGCAAACGCGGAATTGCAACCCAACACGTTAGGG
1 TGAAATTTCGAAGGGATAGTCGATTATTTCGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
*
751504 CACGATTCCGCGAATTGCCAAACATCGAATCTCGTCTTCGATTTGAATAATTTT
66 CACGATTCCGCGAATTGCCAAACATCGAATCTCGTCTTCGATTTGAAGAATTTT
751558 TGAATGAATG
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
130 84 0.79
131 23 0.21
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (131 bp):
TGAAATTTCGAAGGGATAGTCGATTATTTCGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
CACGATTCCGCGAATTGCCAAACATCGAATCTCGTCTTCGATTTGAAGAATTTTAAGAGACATGC
G
Found at i:753569 original size:14 final size:15
Alignment explanation
Indices: 753550--753579 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
753540 GACAAAAGAG
753550 AAAAGAAAA-GAAAA
1 AAAAGAAAATGAAAA
753564 AAAAGAAAATGAAAA
1 AAAAGAAAATGAAAA
753579 A
1 A
753580 TCATTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAAGAAAATGAAAA
Found at i:756440 original size:23 final size:24
Alignment explanation
Indices: 756396--756451 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
756386 CAAAACTCAA
* *
756396 AACCTTGAAAAATAAATTAATCTT
1 AACCTTGAAAAATAAATAAATCCT
756420 AACCTT-AAAAATTAAA-AAATCCT
1 AACCTTGAAAAA-TAAATAAATCCT
756443 AACTCTTGA
1 AAC-CTTGA
756452 GAGAAAGCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 13 0.48
24 13 0.48
25 1 0.04
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.30
Consensus pattern (24 bp):
AACCTTGAAAAATAAATAAATCCT
Found at i:757464 original size:21 final size:21
Alignment explanation
Indices: 757440--757480 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
757430 TAAACATAAC
757440 AATTTATATGTATTT-TATATT
1 AATTTATATG-ATTTATATATT
*
757461 AATTTTTATGATTTATATAT
1 AATTTATATGATTTATATAT
757481 ATATTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
AATTTATATGATTTATATATT
Found at i:759159 original size:33 final size:33
Alignment explanation
Indices: 759120--759195 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
759110 ATATGCACAG
759120 ATAGGGTTTTATTGAACTTCCATTGTTAACCAA
1 ATAGGGTTTTATTGAACTTCCATTGTTAACCAA
* *
759153 ATAGGGTTTTATTGAGCTTCCATTGTTAACTAA
1 ATAGGGTTTTATTGAACTTCCATTGTTAACCAA
759186 ATAGGGTTTT
1 ATAGGGTTTT
759196 GTTATATACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (33 bp):
ATAGGGTTTTATTGAACTTCCATTGTTAACCAA
Found at i:764730 original size:6 final size:6
Alignment explanation
Indices: 764721--764754 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
764711 ATAAAATGAA
764721 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
764755 TATTACCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:771094 original size:40 final size:40
Alignment explanation
Indices: 771050--771132 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
771040 TTGTCAACTA
771050 GATTCATTTTGGTCCTTAAACTTGGGTTCTGTTAAGATTT
1 GATTCATTTTGGTCCTTAAACTTGGGTTCTGTTAAGATTT
771090 GATTCATTTTGGTCCTTAAACTTGGGTTCTGTTAAGATTT
1 GATTCATTTTGGTCCTTAAACTTGGGTTCTGTTAAGATTT
771130 GAT
1 GAT
771133 GATGTGATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.47
Consensus pattern (40 bp):
GATTCATTTTGGTCCTTAAACTTGGGTTCTGTTAAGATTT
Found at i:772593 original size:12 final size:12
Alignment explanation
Indices: 772576--772601 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
772566 GTTAATAAAA
772576 TAATATTTATTT
1 TAATATTTATTT
772588 TAATATTTATTT
1 TAATATTTATTT
772600 TA
1 TA
772602 CATGTCACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TAATATTTATTT
Found at i:779820 original size:14 final size:14
Alignment explanation
Indices: 779801--779829 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
779791 TGTCCATGGG
779801 TCTTGCAATATACA
1 TCTTGCAATATACA
779815 TCTTGCAATATACA
1 TCTTGCAATATACA
779829 T
1 T
779830 GGCGTATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (14 bp):
TCTTGCAATATACA
Found at i:793370 original size:12 final size:12
Alignment explanation
Indices: 793355--793379 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
793345 CAAAAGAACG
793355 ACGAAAATTAAA
1 ACGAAAATTAAA
793367 ACGAAAATTAAA
1 ACGAAAATTAAA
793379 A
1 A
793380 ATTGAGCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (12 bp):
ACGAAAATTAAA
Found at i:794191 original size:24 final size:24
Alignment explanation
Indices: 794155--794201 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
794145 GCAATTTTGG
** * *
794155 ACTTTTCTTATTTTCCTTTTCTTC
1 ACTTTTCAAATTTCCCTCTTCTTC
794179 ACTTTTCAAATTTCCCTCTTCTT
1 ACTTTTCAAATTTCCCTCTTCTT
794202 TTCCTTTCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.60
Consensus pattern (24 bp):
ACTTTTCAAATTTCCCTCTTCTTC
Found at i:796891 original size:12 final size:12
Alignment explanation
Indices: 796874--796901 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
796864 TGGTGAATCT
796874 AGAAATAAATTC
1 AGAAATAAATTC
796886 AGAAATAAATTC
1 AGAAATAAATTC
796898 AGAA
1 AGAA
796902 TAGACTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.21
Consensus pattern (12 bp):
AGAAATAAATTC
Found at i:801472 original size:20 final size:20
Alignment explanation
Indices: 801447--801490 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
801437 ATGATCACCT
801447 AATTTT-TAAAATTATTTTTA
1 AATTTTATAAAA-TATTTTTA
*
801467 AATTTTATATAATATTTTTA
1 AATTTTATAAAATATTTTTA
801487 AATT
1 AATT
801491 ACTAAGTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTATAAAATATTTTTA
Found at i:811264 original size:44 final size:45
Alignment explanation
Indices: 811169--811302 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 45
811159 ACAGGACAGA
* * *
811169 ACAGAAATGAGCCATGTAAGCCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
811215 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
811259 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
811303 CAGGATAATA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 36 0.49
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:816448 original size:15 final size:15
Alignment explanation
Indices: 816428--816457 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
816418 TCCCTTATTA
816428 ATAAAATCGAAAGTT
1 ATAAAATCGAAAGTT
816443 ATAAAATCGAAAGTT
1 ATAAAATCGAAAGTT
816458 GGTTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
ATAAAATCGAAAGTT
Found at i:828152 original size:73 final size:71
Alignment explanation
Indices: 827974--828180 Score: 283
Period size: 73 Copynumber: 2.9 Consensus size: 71
827964 GTTTTCCAAG
* * *
827974 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTAT
*
828039 GTTTCA
66 GTATCA
* *
828045 AAAAGCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAATTTCAATTCCT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATT--T
828110 AT-TAAAT-A
64 ATGT--ATCA
* * *
828118 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTT
828181 CTACTTTTTA
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
71 58 0.48
72 1 0.01
73 61 0.50
74 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (71 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTAT
GTATCA
Found at i:828292 original size:233 final size:233
Alignment explanation
Indices: 827884--828339 Score: 849
Period size: 233 Copynumber: 2.0 Consensus size: 233
827874 GTTTTTTTTC
827884 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTC
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTC
*
827949 TGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
66 TACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
* *
828014 ACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAGCTCATATTGCGAGAGGTGAGTTGAGC
131 ACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAACTCATATTGCGAGAAGTGAGTTGAGC
*
828079 CTCGGGGCACGCTGAGGTAATTTCAATTCCTATTAAAT
196 CTCAGGGCACGCTGAGGTAATTTCAATTCCTATTAAAT
*
828117 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTC
828182 TACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
66 TACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
*
828247 ACACGTTGAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
131 ACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAACTCATATTGCGAGAAGTGAGTTGAGC
*
828312 CTCAGGGCACGCTGAGGTATTTTCAATT
196 CTCAGGGCACGCTGAGGTAATTTCAATT
828340 TCTGCTTTTT
Statistics
Matches: 216, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
233 216 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (233 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTC
TACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
ACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAACTCATATTGCGAGAAGTGAGTTGAGC
CTCAGGGCACGCTGAGGTAATTTCAATTCCTATTAAAT
Found at i:828328 original size:71 final size:71
Alignment explanation
Indices: 828207--828340 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
828197 GTTTTCCAAG
* * *
828207 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
828272 GTTTCA
66 GTTTCA
* * *
828278 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
828341 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:828441 original size:159 final size:159
Alignment explanation
Indices: 828053--828656 Score: 1016
Period size: 159 Copynumber: 3.8 Consensus size: 159
828043 CAAAAAGCAG
** * * *
828053 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAATTTCAATTCCTAT-TAAAT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT--TATGT--TT
828117 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
62 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* * *
828181 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAG
127 CTGCTTTTTAGTTCATG-TTTCCAAGAAAATCAA
828215 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
828280 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
66 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
828345 TTTTTAGTTCATGTTTCCAAGAAAATCAA
131 TTTTTAGTTCATGTTTCCAAGAAAATCAA
*
828374 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAATTTCAATTTATGTTTCAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
828439 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
66 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
828504 TTTTTAGTTCATGTTTCCAAGAAAATCAA
131 TTTTTAGTTCATGTTTCCAAGAAAATCAA
*
828533 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG-GGTAATTTCAATTCATGTTTCAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
* ** *
828597 AATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATT
66 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
828657 CCCATTAAAT
Statistics
Matches: 426, Mismatches: 14, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
158 79 0.19
159 214 0.50
160 82 0.19
161 1 0.00
162 50 0.12
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (159 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
TTTTTAGTTCATGTTTCCAAGAAAATCAA
Found at i:828495 original size:71 final size:71
Alignment explanation
Indices: 828366--828499 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
828356 TGTTTCCAAG
* * *
828366 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
828431 GTTTCA
66 GTTTCA
* * *
828437 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
828500 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:828686 original size:74 final size:74
Alignment explanation
Indices: 828525--828801 Score: 368
Period size: 73 Copynumber: 3.8 Consensus size: 74
828515 TGTTTCCAAG
* * *** * *
828525 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG-GGTAATTTCAATT--C
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCCC
* *
828587 ATGT--TTCA
66 AT-TAAATCT
828595 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCCC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCCC
828660 ATTAAATCT
66 ATTAAATCT
828669 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTT-GGGCACGCTGAGGTAATTTCAATTCCC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCCC
828733 ATTAAATCT
66 ATTAAATCT
* * * * * *
828742 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAA
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAA
828802 ATTCTATCTT
Statistics
Matches: 186, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
70 41 0.22
71 13 0.07
72 1 0.01
73 73 0.39
74 58 0.31
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCCC
ATTAAATCT
Found at i:828794 original size:147 final size:144
Alignment explanation
Indices: 828207--828801 Score: 460
Period size: 159 Copynumber: 3.9 Consensus size: 144
828197 GTTTTCCAAG
* * * * *
828207 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAAGACACGCTG-GGTAATTTCAATTCAT
* * * * *
828272 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-GGCACGCTGAGGTATTTTC
65 GTATCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCT-TGCGGCACGCTAAGGTAATTTC
* ** *
828336 AATTTCTGCTTTTTAGTTCATGTTTCCAAG
129 AA-TTC--C----CA-TT-A--AAT-C--T
* * * *
828366 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAAGACACGCT-GGGTAATTTCAATTCAT
* * * * *
828431 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-GGCACGCTGAGGTATTTTC
65 GTATCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCT-TGCGGCACGCTAAGGTAATTTC
* ** *
828495 AATTTCTGCTTTTTAGTTCATGTTTCCAAG
129 AA-TTC--C----CA-TT-A--AAT-C--T
* * *
828525 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGTAATTTCAATTCATG
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAAGACACGCTGGGTAATTTCAATTCATG
* * *
828590 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAA
66 TATCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGCGGCACGCTAAGGTAATTTCAA
828655 TTCCCATTAAATCT
131 TTCCCATTAAATCT
** *
828669 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCT-TGGGCACGCTGAGGTAATTTCAATTCCC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAAGACACGCTG-GGTAATTTCAATT--C
* * * * *
828733 AT-TAAATCTAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGCGGCACGCTAAGGTATT
63 ATGT--ATCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGCGGCACGCTAAGGTAAT
828797 TTCAA
126 TTCAA
828802 ATTCTATCTT
Statistics
Matches: 406, Mismatches: 23, Indels: 26
0.89 0.05 0.06
Matches are distributed among these distances:
143 7 0.02
144 47 0.12
145 1 0.00
146 4 0.01
147 57 0.14
149 1 0.00
150 2 0.00
151 1 0.00
155 1 0.00
157 4 0.01
158 77 0.19
159 203 0.50
160 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (144 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAAGACACGCTGGGTAATTTCAATTCATG
TATCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGCGGCACGCTAAGGTAATTTCAA
TTCCCATTAAATCT
Found at i:829752 original size:16 final size:16
Alignment explanation
Indices: 829733--829768 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
829723 AACCTAACCC
*
829733 AAAAAAAAA-ACAAAG
1 AAAAAAAAAGAAAAAG
829748 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
829764 AAAAA
1 AAAAA
829769 CTTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:829784 original size:17 final size:18
Alignment explanation
Indices: 829759--829803 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
829749 AAAAAAAAGA
*
829759 AAAAGAAAAACTTA-CCCC
1 AAAA-AAAAACTAACCCCC
*
829777 AAAAAAAACCTAACCCCC
1 AAAAAAAAACTAACCCCC
829795 AAAAAAAAA
1 AAAAAAAAA
829804 AGAAGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.64, C:0.27, G:0.02, T:0.07
Consensus pattern (18 bp):
AAAAAAAAACTAACCCCC
Found at i:830624 original size:14 final size:15
Alignment explanation
Indices: 830605--830638 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
830595 ATCATATGTG
830605 TATATTGTATATAT-
1 TATATTGTATATATA
*
830619 TATATTTTATATATA
1 TATATTGTATATATA
830634 TATAT
1 TATAT
830639 ATTCTTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TATATTGTATATATA
Found at i:843462 original size:21 final size:21
Alignment explanation
Indices: 843432--843471 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
843422 ATCTACATAT
843432 ATTTTCTCAT-TTAGTACTCA
1 ATTTTCTCATATTAGTACTCA
843452 ATTTCTCTCATATTAGTACT
1 ATTT-TCTCATATTAGTACT
843472 TAAAAGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (21 bp):
ATTTTCTCATATTAGTACTCA
Found at i:843950 original size:15 final size:13
Alignment explanation
Indices: 843934--843958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
843924 AACATCCATA
843934 TATAAATTTTAAG
1 TATAAATTTTAAG
843947 TATAAATTTTAA
1 TATAAATTTTAA
843959 AAGGATCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TATAAATTTTAAG
Found at i:845700 original size:17 final size:17
Alignment explanation
Indices: 845675--845708 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
845665 GCTTTCATAG
*
845675 AAAGGAAAAAAAAGAAA
1 AAAGAAAAAAAAAGAAA
*
845692 AAAGAAAAACAAAGAAA
1 AAAGAAAAAAAAAGAAA
845709 CATCCGCCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAGAAA
Found at i:851851 original size:29 final size:29
Alignment explanation
Indices: 851817--851874 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
851807 TTATAGGGGC
*
851817 TGGATCAAGTTAGTACCTCTATTATTAAA
1 TGGATCAAGTTAGTACCTCTACTATTAAA
* * *
851846 TGGATCAATTTAGTCCCTGTACTATTAAA
1 TGGATCAAGTTAGTACCTCTACTATTAAA
851875 AAGAATCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (29 bp):
TGGATCAAGTTAGTACCTCTACTATTAAA
Found at i:853607 original size:22 final size:21
Alignment explanation
Indices: 853574--853614 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
853564 GCATAACATT
*
853574 TTGTTTATTTAAAATTGTTAA
1 TTGTTTACTTAAAATTGTTAA
*
853595 TTGTATTACTTAATATTGTT
1 TTGT-TTACTTAAAATTGTT
853615 TTCAAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (21 bp):
TTGTTTACTTAAAATTGTTAA
Found at i:859177 original size:18 final size:18
Alignment explanation
Indices: 859154--859244 Score: 137
Period size: 18 Copynumber: 5.1 Consensus size: 18
859144 CAATCCCAAC
*
859154 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
*
859172 TACTGTATACATGAATAG
1 TACTGTATACGTGAATAG
*
859190 TACTGTATACGTAAATAG
1 TACTGTATACGTGAATAG
*
859208 TGCTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
*
859226 TATTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
859244 T
1 T
859245 GTCATAAATG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:860234 original size:33 final size:33
Alignment explanation
Indices: 860197--860266 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
860187 AATCAATCAT
860197 CAATGCTAAGATAAGTTTGCATCAACTGACCAA
1 CAATGCTAAGATAAGTTTGCATCAACTGACCAA
860230 CAATGCTAAGATAAGTTTGCATCAACTGACCAA
1 CAATGCTAAGATAAGTTTGCATCAACTGACCAA
860263 CAAT
1 CAAT
860267 AATTACAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (33 bp):
CAATGCTAAGATAAGTTTGCATCAACTGACCAA
Found at i:868845 original size:28 final size:28
Alignment explanation
Indices: 868813--868872 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
868803 ATATTTTTAT
868813 TTATACACATGTATTTACCGAAAGCAAA
1 TTATACACATGTATTTACCGAAAGCAAA
* *
868841 TTATACACATGTATTTATCGAAAGTAAA
1 TTATACACATGTATTTACCGAAAGCAAA
868869 TTAT
1 TTAT
868873 TTATTTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (28 bp):
TTATACACATGTATTTACCGAAAGCAAA
Found at i:888071 original size:46 final size:44
Alignment explanation
Indices: 888012--888126 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
888002 ACAGGACAGA
* *
888012 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
888058 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
888102 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
888127 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:888107 original size:44 final size:45
Alignment explanation
Indices: 888012--888145 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
888002 ACAGGACAGA
* *
888012 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
888058 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
888102 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
888146 CAGGATAATT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:907933 original size:18 final size:18
Alignment explanation
Indices: 907906--907958 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
907896 TGTTAATATA
*
907906 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCTTGATTG
* *
907924 GGAGTCAATCCTTGATTT
1 GGAGTAAATCCTTGATTG
907942 GGAGTAAATCCTTGATT
1 GGAGTAAATCCTTGATT
907959 AGGATTTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (18 bp):
GGAGTAAATCCTTGATTG
Found at i:911387 original size:21 final size:20
Alignment explanation
Indices: 911363--911404 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
911353 TTTGATAGAA
911363 ATTACAAATATAATTTT-ATTT
1 ATTACAAA-AT-ATTTTCATTT
*
911384 ATTAGAAAATATTTTCATTT
1 ATTACAAAATATTTTCATTT
911404 A
1 A
911405 ATAGATTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTACAAAATATTTTCATTT
Found at i:912236 original size:22 final size:24
Alignment explanation
Indices: 912200--912246 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
912190 TCACAAAATT
*
912200 AAATTCTAAATTTT-CATTTCAAA
1 AAATTCTAAATTTTCCACTTCAAA
912223 AAATTCT-AATTTTCCACTTCAAA
1 AAATTCTAAATTTTCCACTTCAAA
912246 A
1 A
912247 GCTGAAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (24 bp):
AAATTCTAAATTTTCCACTTCAAA
Found at i:944197 original size:20 final size:20
Alignment explanation
Indices: 944172--944212 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
944162 ACCGACTTGT
944172 AATAAATTCAGTAGCACCTC
1 AATAAATTCAGTAGCACCTC
944192 AATAAATTCAGTAGCACCTC
1 AATAAATTCAGTAGCACCTC
944212 A
1 A
944213 CTGGCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (20 bp):
AATAAATTCAGTAGCACCTC
Found at i:948591 original size:13 final size:13
Alignment explanation
Indices: 948573--948600 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
948563 GCAATATTTA
948573 TTTTTATTTAAAT
1 TTTTTATTTAAAT
948586 TTTTTATTTAAAT
1 TTTTTATTTAAAT
948599 TT
1 TT
948601 ATTTCACATA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTATTTAAAT
Found at i:949066 original size:110 final size:110
Alignment explanation
Indices: 948873--949096 Score: 439
Period size: 110 Copynumber: 2.0 Consensus size: 110
948863 ACATTTCGTT
948873 TGGCGTTCTCCTATTTCCAGGTTTGATTTCTAGATTTTCTTTTCTCTATTCCTTTGCTTTGATTC
1 TGGCGTTCTCCTATTTCCAGGTTTGATTTCTAGATTTTCTTTTCTCTATTCCTTTGCTTTGATTC
948938 GATTTTTATATTTATTTTATTATTTGAAAAGATTCTGGTAATTGG
66 GATTTTTATATTTATTTTATTATTTGAAAAGATTCTGGTAATTGG
*
948983 TGGCGTTCTCCTATTTCTAGGTTTGATTTCTAGATTTTCTTTTCTCTATTCCTTTGCTTTGATTC
1 TGGCGTTCTCCTATTTCCAGGTTTGATTTCTAGATTTTCTTTTCTCTATTCCTTTGCTTTGATTC
949048 GATTTTTATATTTATTTTATTATTTGAAAAGATTCTGGTAATTGG
66 GATTTTTATATTTATTTTATTATTTGAAAAGATTCTGGTAATTGG
949093 TGGC
1 TGGC
949097 CTTTGATTTA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 113 1.00
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (110 bp):
TGGCGTTCTCCTATTTCCAGGTTTGATTTCTAGATTTTCTTTTCTCTATTCCTTTGCTTTGATTC
GATTTTTATATTTATTTTATTATTTGAAAAGATTCTGGTAATTGG
Found at i:953478 original size:31 final size:31
Alignment explanation
Indices: 953440--953504 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
953430 TCTATCAAGT
953440 AAAGCTTAAAGGTGTGTTTGGTTGGATGAAA
1 AAAGCTTAAAGGTGTGTTTGGTTGGATGAAA
*
953471 AAAGCTTAAAGGTGTGTTTGGTTGGATGGAA
1 AAAGCTTAAAGGTGTGTTTGGTTGGATGAAA
953502 AAA
1 AAA
953505 TGAAGGGATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.32, T:0.31
Consensus pattern (31 bp):
AAAGCTTAAAGGTGTGTTTGGTTGGATGAAA
Found at i:953816 original size:16 final size:17
Alignment explanation
Indices: 953791--953825 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
953781 TACCAAGCAA
*
953791 AAGTTTTCTATC-CTTC
1 AAGTTATCTATCTCTTC
953807 AAGTTATCTATCTCTTC
1 AAGTTATCTATCTCTTC
953824 AA
1 AA
953826 TTTTCCATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (17 bp):
AAGTTATCTATCTCTTC
Found at i:957510 original size:94 final size:94
Alignment explanation
Indices: 957349--957539 Score: 382
Period size: 94 Copynumber: 2.0 Consensus size: 94
957339 AGACAAAGAA
957349 AAACTCAAGTATCAAAAGGAACTAAACTGAGCATTGAAGCCAAACTCACGTGCCAAATTGAGACA
1 AAACTCAAGTATCAAAAGGAACTAAACTGAGCATTGAAGCCAAACTCACGTGCCAAATTGAGACA
957414 CACACACACAAAAAACCCACCCAAATATC
66 CACACACACAAAAAACCCACCCAAATATC
957443 AAACTCAAGTATCAAAAGGAACTAAACTGAGCATTGAAGCCAAACTCACGTGCCAAATTGAGACA
1 AAACTCAAGTATCAAAAGGAACTAAACTGAGCATTGAAGCCAAACTCACGTGCCAAATTGAGACA
957508 CACACACACAAAAAACCCACCCAAATATC
66 CACACACACAAAAAACCCACCCAAATATC
957537 AAA
1 AAA
957540 TTGAGCATTT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 97 1.00
ACGTcount: A:0.48, C:0.27, G:0.12, T:0.14
Consensus pattern (94 bp):
AAACTCAAGTATCAAAAGGAACTAAACTGAGCATTGAAGCCAAACTCACGTGCCAAATTGAGACA
CACACACACAAAAAACCCACCCAAATATC
Found at i:959098 original size:2 final size:2
Alignment explanation
Indices: 959091--959115 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
959081 TTATCTTATT
959091 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 T
959116 GGAGTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:959923 original size:3 final size:3
Alignment explanation
Indices: 959915--959970 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
959905 TATTTCCTTT
* * * * *
959915 TTC TTC TTC TTC TTC TTC TTC TCC TTT TTT TTA TTCC TTT TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC
959961 TTC TTC TTC T
1 TTC TTC TTC T
959971 CCTTTTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:962928 original size:32 final size:32
Alignment explanation
Indices: 962872--962961 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 32
962862 TACAATATCC
* * * * *
962872 AAACAATAACAATATAATAGTAAAATAGTAGCA
1 AAACAATAA-AAAATAACAATAAAATAATAACA
* *
962905 AAATAGTAAAAAATAACAATAAAATAATAACA
1 AAACAATAAAAAATAACAATAAAATAATAACA
* *
962937 AAACAATAAAAAATAATAAGAAAAT
1 AAACAATAAAAAATAACAATAAAAT
962962 TTACAATTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
32 39 0.85
33 7 0.15
ACGTcount: A:0.69, C:0.07, G:0.06, T:0.19
Consensus pattern (32 bp):
AAACAATAAAAAATAACAATAAAATAATAACA
Found at i:962939 original size:11 final size:11
Alignment explanation
Indices: 962876--962961 Score: 68
Period size: 11 Copynumber: 8.0 Consensus size: 11
962866 ATATCCAAAC
*
962876 AATAACAATAT
1 AATAACAAAAT
**
962887 AATAGTAAAAT
1 AATAACAAAAT
* *
962898 AGTAGCAAAAT
1 AATAACAAAAT
*
962909 AGTAA-AAAAT
1 AATAACAAAAT
* *
962919 AACAATAAAAT
1 AATAACAAAAT
*
962930 AATAACAAAAC
1 AATAACAAAAT
962941 AATAA-AAAAT
1 AATAACAAAAT
*
962951 AATAAGAAAAT
1 AATAACAAAAT
962962 TTACAATTTA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
10 17 0.28
11 44 0.72
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (11 bp):
AATAACAAAAT
Found at i:967362 original size:2 final size:2
Alignment explanation
Indices: 967355--967388 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
967345 AATAATCTTT
967355 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
967389 ATCTATTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:979649 original size:12 final size:12
Alignment explanation
Indices: 979632--979658 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
979622 AAGAGAAGGA
979632 TGATGATGATGG
1 TGATGATGATGG
979644 TGATGATGATGG
1 TGATGATGATGG
979656 TGA
1 TGA
979659 GGACCTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.33
Consensus pattern (12 bp):
TGATGATGATGG
Found at i:980814 original size:2 final size:2
Alignment explanation
Indices: 980807--980846 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
980797 AAAAAGGAAA
980807 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
980847 TTGGGAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:981645 original size:56 final size:56
Alignment explanation
Indices: 981510--981630 Score: 165
Period size: 56 Copynumber: 2.1 Consensus size: 56
981500 TCCCAAAATT
* * *
981510 ATTATTTTAAAAAAATTTAAAATTTAAAATTTTTATATATTTTTTAGAATGTTTATA
1 ATTATTTT-AAAAAATTTAAAATTTAAAATTTTTATAAATATTTTAGAATGTTTAAA
*
981567 ATTTTTTTAAAAAATTTAAAATTTAAAATTTTTTATAAATATTTTA-AAT-TTTAAAA
1 ATTATTTTAAAAAATTTAAAATTTAAAA-TTTTTATAAATATTTTAGAATGTTT-AAA
981623 ATTATTTT
1 ATTATTTT
981631 GAATTTTTGA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
55 3 0.05
56 32 0.56
57 22 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (56 bp):
ATTATTTTAAAAAATTTAAAATTTAAAATTTTTATAAATATTTTAGAATGTTTAAA
Found at i:981658 original size:20 final size:20
Alignment explanation
Indices: 981596--981657 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
981586 AATTTAAAAT
*
981596 TTTTTATAAA-TATTTT-AA
1 TTTTTAAAAATTATTTTGAA
*
981614 ATTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
981634 TTTTTGAAAATTATTTTG-A
1 TTTTTAAAAATTATTTTGAA
981653 TTTTT
1 TTTTT
981658 TTTTGTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.21
19 12 0.32
20 18 0.47
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:982981 original size:18 final size:19
Alignment explanation
Indices: 982950--982987 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
982940 TTTTTTGAAT
982950 TTTTATTAA-CTTTTTATA
1 TTTTATTAATCTTTTTATA
* *
982968 TTTTATTGATTTTTTTATA
1 TTTTATTAATCTTTTTATA
982987 T
1 T
982988 ATATTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (19 bp):
TTTTATTAATCTTTTTATA
Found at i:984971 original size:29 final size:30
Alignment explanation
Indices: 984918--984976 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
984908 ATGAACATTC
*
984918 TCATTTAATAATTTCCATGTACAAT-ATCA
1 TCATTTAATAATTTCCATATACAATCATCA
*
984947 TCATTTCAT-ATTTCCATATATCAATCATCA
1 TCATTTAATAATTTCCATATA-CAATCATCA
984977 CGTATCATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 10 0.38
29 12 0.46
30 4 0.15
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (30 bp):
TCATTTAATAATTTCCATATACAATCATCA
Found at i:985682 original size:26 final size:26
Alignment explanation
Indices: 985653--985709 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
985643 TTGATTATGT
**
985653 AACAAAGTTCACATTTATA-ACATTCA
1 AACAAA-TTCACACATATACACATTCA
985679 AAC-AATTCACACATATACACATTCA
1 AACAAATTCACACATATACACATTCA
985704 ATACAA
1 A-ACAA
985710 GCACATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.38
25 10 0.38
26 5 0.19
27 1 0.04
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (26 bp):
AACAAATTCACACATATACACATTCA
Found at i:985714 original size:25 final size:24
Alignment explanation
Indices: 985668--985714 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
985658 AGTTCACATT
*
985668 TATAACATTCAAACAATTCACACA
1 TATAACATTCAAACAATGCACACA
985692 TATACACATTCAATACAA-GCACA
1 TATA-ACATTCAA-ACAATGCACA
985715 TAAATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 12 0.60
26 4 0.20
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (24 bp):
TATAACATTCAAACAATGCACACA
Found at i:1002216 original size:51 final size:51
Alignment explanation
Indices: 1002156--1002255 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
1002146 TTAATTTGGA
1002156 TAAAAAGTATAAAAATATCTTATCTTCAACTTATTATACACCCATTCAGGG
1 TAAAAAGTATAAAAATATCTTATCTTCAACTTATTATACACCCATTCAGGG
1002207 TAAAAAGTATAAAAATATCTTATCTTCAACTTATTATACACCCATTCAG
1 TAAAAAGTATAAAAATATCTTATCTTCAACTTATTATACACCCATTCAG
1002256 TTACATGTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (51 bp):
TAAAAAGTATAAAAATATCTTATCTTCAACTTATTATACACCCATTCAGGG
Found at i:1003276 original size:3 final size:3
Alignment explanation
Indices: 1003268--1003301 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1003258 TTTTATAGAG
1003268 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1003302 GGTGTTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1005750 original size:3 final size:3
Alignment explanation
Indices: 1005742--1005782 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1005732 AATGAGTAGG
1005742 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1005783 GGAGTAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1013057 original size:25 final size:24
Alignment explanation
Indices: 1013010--1013058 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
1013000 TAGTTTGGAC
*
1013010 AACAACATTAAACTTAAAACCTAA
1 AACAACATTAAAATTAAAACCTAA
* *
1013034 AACAACACTTAAAATTTAAGCCTAA
1 AACAACA-TTAAAATTAAAACCTAA
1013059 TAAAGCAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.55, C:0.20, G:0.02, T:0.22
Consensus pattern (24 bp):
AACAACATTAAAATTAAAACCTAA
Found at i:1015102 original size:8 final size:8
Alignment explanation
Indices: 1015089--1015118 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
1015079 CAGCAACATG
1015089 CATGCAAC
1 CATGCAAC
1015097 CATGCAAC
1 CATGCAAC
1015105 CATGCAAC
1 CATGCAAC
1015113 CATGCA
1 CATGCA
1015119 GGAGCAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.37, C:0.37, G:0.13, T:0.13
Consensus pattern (8 bp):
CATGCAAC
Found at i:1019099 original size:22 final size:22
Alignment explanation
Indices: 1019074--1019131 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
1019064 CATGAAGCAA
1019074 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
1019096 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
1019118 TCCCATACCTCCAC
1 CCCCATACCCCCAC
1019132 AGTCCTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.55, G:0.03, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:1020211 original size:3 final size:3
Alignment explanation
Indices: 1020198--1020238 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
1020188 TTATTTCCAA
*
1020198 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
1020239 GTATACATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1020471 original size:21 final size:21
Alignment explanation
Indices: 1020458--1020497 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1020448 ATTATATTAT
1020458 TTATTTTCACTATTATTATTG
1 TTATTTTCACTATTATTATTG
1020479 TTATTTTCA-TCATTATTAT
1 TTATTTTCACT-ATTATTAT
1020498 ACATATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (21 bp):
TTATTTTCACTATTATTATTG
Found at i:1020495 original size:24 final size:24
Alignment explanation
Indices: 1020445--1020497 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 24
1020435 TATTATATTT
*
1020445 ATTATTA-TATTATTTATTTTCAC
1 ATTATTATTATTAGTTATTTTCAC
1020468 --TATTATTATT-GTTATTTTCATC
1 ATTATTATTATTAGTTATTTTCA-C
1020490 ATTATTAT
1 ATTATTAT
1020498 ACATATATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 14 0.56
22 5 0.20
24 6 0.24
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTATTATTATTAGTTATTTTCAC
Done.