Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 4 of 427
Found at i:976487 original size:27 final size:27
Alignment explanation
Indices: 976452--976588 Score: 84
Period size: 27 Copynumber: 5.0 Consensus size: 27
976442 TGTAAAAGAA
* *
976452 AAAATAATAAAAACT-TATAAATATTAT
1 AAAATAATAAAAAATATA-AAAAATTAT
*
976479 AAAACAATAAAAAATATAAAAAATTAT
1 AAAATAATAAAAAATATAAAAAATTAT
* * *
976506 AAAATTAATAAAATCAT-TTAAAATTTAT
1 AAAA-TAATAAAA-AATATAAAAAATTAT
* * *
976534 GAAAACTTATAAAAAAATATAATAAATTCT
1 -AAAA-TAAT-AAAAAATATAAAAAATTAT
* *
976564 AATAA-ATTATAAAA-ATAAAAAATTA
1 AA-AATAATAAAAAATATAAAAAATTA
976589 ATTTAAACCC
Statistics
Matches: 84, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
26 9 0.11
27 30 0.36
28 19 0.23
29 13 0.15
30 13 0.15
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.31
Consensus pattern (27 bp):
AAAATAATAAAAAATATAAAAAATTAT
Found at i:976509 original size:17 final size:17
Alignment explanation
Indices: 976452--976519 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 17
976442 TGTAAAAGAA
*
976452 AAAATAATAAAAACTTAT
1 AAAAT-ATAAAAAATTAT
*
976470 AAATATTATAAAACAA-TAA
1 AAA-A-TATAAAA-AATTAT
976489 AAAATATAAAAAATTAT
1 AAAATATAAAAAATTAT
976506 AAAAT-TAATAAAAT
1 AAAATATAA-AAAAT
976520 CATTTAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 5 0.12
17 19 0.45
18 4 0.10
19 12 0.29
20 2 0.05
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATATAAAAAATTAT
Found at i:977224 original size:31 final size:31
Alignment explanation
Indices: 977178--977246 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
977168 TTTGGGTCAA
* * *
977178 AATTTAAAAAGTATAAAGATTAAATTTGATT
1 AATTTAAAAAGTATAAAAACTAAATTTAATT
977209 AATTTGAAAAA-TATAAAAACTAAATTTAATT
1 AATTT-AAAAAGTATAAAAACTAAATTTAATT
*
977240 AAATTAA
1 AATTTAA
977247 TGTATAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 2 0.06
31 26 0.79
32 5 0.15
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (31 bp):
AATTTAAAAAGTATAAAAACTAAATTTAATT
Found at i:980697 original size:14 final size:15
Alignment explanation
Indices: 980661--980697 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
980651 TGTTTTAAAG
980661 AATATTTTCTTATAA
1 AATATTTTCTTATAA
980676 AATATTTTC-TA-AA
1 AATATTTTCTTATAA
980689 AATTATTTT
1 AA-TATTTT
980698 ACTGCGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 8 0.38
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATATTTTCTTATAA
Found at i:982124 original size:17 final size:17
Alignment explanation
Indices: 982093--982126 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
982083 GCGTCAGGTA
*
982093 TTTTGATTAATTTTCAG
1 TTTTGATTAAGTTTCAG
*
982110 TTTTGATTTAGTTTCAG
1 TTTTGATTAAGTTTCAG
982127 CTAAAACCCA
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:0.21, C:0.06, G:0.15, T:0.59
Consensus pattern (17 bp):
TTTTGATTAAGTTTCAG
Found at i:986441 original size:2 final size:2
Alignment explanation
Indices: 986434--986478 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
986424 TAAAATTAAA
*
986434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
986476 AT A
1 AT A
986479 GGATATTATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:991292 original size:19 final size:19
Alignment explanation
Indices: 991270--991310 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
991260 AATCTAGGCT
991270 TAATGATAAAGTTGACCAC
1 TAATGATAAAGTTGACCAC
991289 TAATGATAAAGTTGACCAC
1 TAATGATAAAGTTGACCAC
991308 TAA
1 TAA
991311 CTTTGCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (19 bp):
TAATGATAAAGTTGACCAC
Found at i:991985 original size:15 final size:15
Alignment explanation
Indices: 991965--991995 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
991955 GAAATAAAAT
*
991965 TAATTATTGTAGGTG
1 TAATTATTATAGGTG
991980 TAATTATTATAGGTG
1 TAATTATTATAGGTG
991995 T
1 T
991996 GTGATAAAAG
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:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (15 bp):
TAATTATTATAGGTG
Found at i:998328 original size:14 final size:15
Alignment explanation
Indices: 998309--998341 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
998299 TGAATTTTAA
*
998309 ATTTATACAATTTT-
1 ATTTATAAAATTTTG
998323 ATTTATAAAATTTTG
1 ATTTATAAAATTTTG
998338 ATTT
1 ATTT
998342 GATCTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (15 bp):
ATTTATAAAATTTTG
Found at i:1000707 original size:32 final size:32
Alignment explanation
Indices: 1000666--1000730 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
1000656 ACGATTTTAG
1000666 ACATTAAAAACCATAAACATACTTGACGCAAA
1 ACATTAAAAACCATAAACATACTTGACGCAAA
1000698 ACATTAAAAACCATAAACATACTTGACGCAAA
1 ACATTAAAAACCATAAACATACTTGACGCAAA
1000730 A
1 A
1000731 TGAGACATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.54, C:0.22, G:0.06, T:0.18
Consensus pattern (32 bp):
ACATTAAAAACCATAAACATACTTGACGCAAA
Found at i:1001549 original size:79 final size:79
Alignment explanation
Indices: 1001411--1001556 Score: 215
Period size: 79 Copynumber: 1.8 Consensus size: 79
1001401 ACATTTATAA
* *
1001411 GTGTTCTATCATATAGCCTATACCCTCCATGCTCTCAAACGCTAGTTAGACCGAGTGATGTTCAA
1 GTGTTCTATCAGATAGCCTATACCATCCATGCTCTCAAACGCTAGTTAGACCGAGTGATGTTCAA
1001476 TGTAGTGTATGTGT
66 TGTAGTGTATGTGT
* * *
1001490 GTGTTCTATCAGATA-CCTTATACCATCCATGTTCTCAAATGCTAGTTAGGCC-AGCTGATGTTC
1 GTGTTCTATCAGATAGCC-TATACCATCCATGCTCTCAAACGCTAGTTAGACCGAG-TGATGTTC
1001553 AATG
64 AATG
1001557 CAGTATGTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 4 0.07
79 56 0.93
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (79 bp):
GTGTTCTATCAGATAGCCTATACCATCCATGCTCTCAAACGCTAGTTAGACCGAGTGATGTTCAA
TGTAGTGTATGTGT
Found at i:1003945 original size:9 final size:9
Alignment explanation
Indices: 1003931--1004007 Score: 111
Period size: 9 Copynumber: 8.6 Consensus size: 9
1003921 ATAAGTATAA
1003931 AATTAACCG
1 AATTAACCG
1003940 AATTAACCG
1 AATTAACCG
1003949 AATTAACCG
1 AATTAACCG
*
1003958 AATTAATCG
1 AATTAACCG
1003967 AATTAACCG
1 AATTAACCG
1003976 AATT-ACTCG
1 AATTAAC-CG
*
1003985 AATTACCCG
1 AATTAACCG
*
1003994 AATTAACCA
1 AATTAACCG
1004003 AATTA
1 AATTA
1004008 TTTGTATAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
8 2 0.03
9 58 0.95
10 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:1004069 original size:8 final size:7
Alignment explanation
Indices: 1004025--1004075 Score: 58
Period size: 6 Copynumber: 7.9 Consensus size: 7
1004015 AAAATTATAT
1004025 TTTTTA-
1 TTTTTAG
1004031 TTTTTAG
1 TTTTTAG
1004038 -TTTTAG
1 TTTTTAG
1004044 -TTTTAG
1 TTTTTAG
1004050 -TTTTAG
1 TTTTTAG
1004056 TTTTTAG
1 TTTTTAG
1004063 ATTTTTA-
1 -TTTTTAG
1004070 TTTTTA
1 TTTTTA
1004076 TTTATTAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
6 30 0.71
7 6 0.14
8 6 0.14
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.73
Consensus pattern (7 bp):
TTTTTAG
Found at i:1004305 original size:14 final size:14
Alignment explanation
Indices: 1004286--1004315 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1004276 TTATATCGAG
1004286 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
1004300 ACCAATCCAATTCA
1 ACCAATCCAAATCA
1004314 AC
1 AC
1004316 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:1004333 original size:22 final size:23
Alignment explanation
Indices: 1004308--1004353 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1004298 CAACCAATCC
1004308 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
1004330 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
1004353 A
1 A
1004354 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:1004359 original size:23 final size:23
Alignment explanation
Indices: 1004315--1004359 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1004305 TCCAATTCAA
*
1004315 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
1004338 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
1004360 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:1006255 original size:44 final size:45
Alignment explanation
Indices: 1006165--1006293 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
1006155 GACAGAACGA
*
1006165 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
1006211 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
1006255 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
1006294 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:1013637 original size:44 final size:45
Alignment explanation
Indices: 1013547--1013675 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
1013537 GACAGAACGA
*
1013547 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
1013593 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
1013637 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
1013676 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:1021890 original size:14 final size:14
Alignment explanation
Indices: 1021859--1021896 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
1021849 AATTATATAC
1021859 ATAAAGTTTTATTTT
1 ATAAA-TTTTATTTT
1021874 ATACAATTTTA-TTT
1 ATA-AATTTTATTTT
1021888 ATAAATTTT
1 ATAAATTTT
1021897 TAATTATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
15 8 0.36
16 2 0.09
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (14 bp):
ATAAATTTTATTTT
Found at i:1022686 original size:5 final size:5
Alignment explanation
Indices: 1022664--1022732 Score: 50
Period size: 5 Copynumber: 13.4 Consensus size: 5
1022654 ATAATAAAAT
* * * * *
1022664 TTTAA TTTGA TATTAA TTTAA TTTAA -ATAA TTTCA CTTAA TTTAA TTCAA
1 TTTAA TTTAA T-TTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
*
1022714 TTTAAA TTTTA TTTGAA TT
1 TTT-AA TTTAA TTT-AA TT
1022733 AACAAAAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
4 3 0.06
5 33 0.69
6 12 0.25
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (5 bp):
TTTAA
Found at i:1024696 original size:26 final size:24
Alignment explanation
Indices: 1024646--1024704 Score: 57
Period size: 25 Copynumber: 2.3 Consensus size: 24
1024636 TTAAGATCAC
1024646 TATATAAAAATTCAATAAATAAAAAA
1 TATAT-AAAATTCAATAAAT-AAAAA
*
1024672 TATATAAAATT-ATTAAATATTAAAA
1 TATATAAAATTCAATAAATA--AAAA
1024697 TAATATAA
1 T-ATATAA
1024705 TATAAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 1 0.03
24 6 0.21
25 11 0.38
26 11 0.38
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
TATATAAAATTCAATAAATAAAAA
Found at i:1024905 original size:6 final size:6
Alignment explanation
Indices: 1024896--1024923 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1024886 TAACATACAC
1024896 ACACGT ACACGT ACACGT ACACGT ACAC
1 ACACGT ACACGT ACACGT ACACGT ACAC
1024924 AATACAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.36, G:0.14, T:0.14
Consensus pattern (6 bp):
ACACGT
Found at i:1028232 original size:34 final size:35
Alignment explanation
Indices: 1028179--1028248 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
1028169 TTTTTATTTA
* *
1028179 AAAGAGAATTTTTTTTCTAATTTCTTATTGGATCT
1 AAAGAGAATTTTTTCTCTAATTTCTTATTGAATCT
*
1028214 AAAGAGTA-TTTTTCTCTAATTTCTTATTGAATCT
1 AAAGAGAATTTTTTCTCTAATTTCTTATTGAATCT
1028248 A
1 A
1028249 TATGCTTCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 25 0.78
35 7 0.22
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (35 bp):
AAAGAGAATTTTTTCTCTAATTTCTTATTGAATCT
Found at i:1028877 original size:19 final size:19
Alignment explanation
Indices: 1028850--1028917 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 19
1028840 TATTTGAAAG
1028850 TTGTAAAAATTATTAAAAT
1 TTGTAAAAATTATTAAAAT
* *
1028869 TTGTTAAAATCATT--AAT
1 TTGTAAAAATTATTAAAAT
* ** * *
1028886 TTTTTTAAATGATTAAAAA
1 TTGTAAAAATTATTAAAAT
1028905 TTGTAAAAATTAT
1 TTGTAAAAATTAT
1028918 AAGAATATTG
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
17 14 0.38
19 23 0.62
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (19 bp):
TTGTAAAAATTATTAAAAT
Found at i:1029590 original size:25 final size:28
Alignment explanation
Indices: 1029561--1029627 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 28
1029551 CGTTTTCATA
*
1029561 AATAATATATATT-TATTTTAAA-AATT
1 AATAATATATATTATATTCTAAATAATT
*
1029587 -ATAA-ATTGTATTATATTCTAAATAATT
1 AATAATA-TATATTATATTCTAAATAATT
*
1029614 AAAAATATATATTA
1 AATAATATATATTA
1029628 AATTAAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 1 0.03
25 9 0.28
26 8 0.25
27 4 0.12
28 9 0.28
29 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
AATAATATATATTATATTCTAAATAATT
Found at i:1032039 original size:92 final size:94
Alignment explanation
Indices: 1031863--1032145 Score: 419
Period size: 92 Copynumber: 3.0 Consensus size: 94
1031853 TGCTGTTGAT
*
1031863 CATCTTGTACAGATCTGGGAAATTTAACTCAGATCAGATGATGAATAAAAAACAATTGAATCGAA
1 CATCTTGTACAGATCTGGGAAATTTAACTCAGATCAGATGATGAATAAAAAACAATCGAATCGAA
**
1031928 AACATAAAGAACAAGTAAATCGTCGACA-
66 AACATAAAGAACAAGTAAATCAACGACAC
* *
1031956 CATCTTGTACAGATCTGGGAAATTTAACTCAGATCAGA-CATGAATCAAAAACAATCGAATCGAA
1 CATCTTGTACAGATCTGGGAAATTTAACTCAGATCAGATGATGAATAAAAAACAATCGAATCGAA
1032020 AACATAAAGAACAAGTAAATCAACGACAC
66 AACATAAAGAACAAGTAAATCAACGACAC
* ** * *
1032049 CA-CATATCGTACAGATCTGGGAATTTTAACTCAGATCAGATGGCGAATAAAAAATAATCAAATC
1 CATC-T-T-GTACAGATCTGGGAAATTTAACTCAGATCAGATGATGAATAAAAAACAATCGAATC
*
1032113 AAAAACATAAAGAACAAGTAAATCAACGACAC
63 GAAAACATAAAGAACAAGTAAATCAACGACAC
1032145 C
1 C
1032146 GCAACGTTAG
Statistics
Matches: 172, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
92 50 0.29
93 41 0.24
94 1 0.01
95 31 0.18
96 49 0.28
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.20
Consensus pattern (94 bp):
CATCTTGTACAGATCTGGGAAATTTAACTCAGATCAGATGATGAATAAAAAACAATCGAATCGAA
AACATAAAGAACAAGTAAATCAACGACAC
Found at i:1032770 original size:19 final size:19
Alignment explanation
Indices: 1032734--1032772 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1032724 ATAATTAAAT
** *
1032734 ATATAAAAATTTAGAAAAA
1 ATATAAAAATAAAAAAAAA
1032753 ATATAAAAATAAAAAAAAA
1 ATATAAAAATAAAAAAAAA
1032772 A
1 A
1032773 ATCTTTTAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (19 bp):
ATATAAAAATAAAAAAAAA
Found at i:1033520 original size:28 final size:27
Alignment explanation
Indices: 1033477--1033529 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
1033467 TATTTTAATC
* *
1033477 ATTTTTAAAACTTTTATATTATTTATA
1 ATTTTTAAAACTTTTAAAATATTTATA
1033504 ATTTTTAATGAAC-TTTAAAATATTTA
1 ATTTTTAA--AACTTTTAAAATATTTA
1033530 AATAGCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 8 0.36
28 11 0.50
29 3 0.14
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTTTTAAAACTTTTAAAATATTTATA
Found at i:1039124 original size:99 final size:99
Alignment explanation
Indices: 1038953--1039151 Score: 380
Period size: 99 Copynumber: 2.0 Consensus size: 99
1038943 GTATAAAGCA
* *
1038953 CAACAATAGTTTGAATTGAATATGAATTACTACGTTAAATTAAGAGACTTACTTTATTTAGTCTT
1 CAACAATAATTTGAATTGAATATGAATTACTACATTAAATTAAGAGACTTACTTTATTTAGTCTT
1039018 CGGTCTATCCGATCCACTAAAACTTTCGCACCTT
66 CGGTCTATCCGATCCACTAAAACTTTCGCACCTT
1039052 CAACAATAATTTGAATTGAATATGAATTACTACATTAAATTAAGAGACTTACTTTATTTAGTCTT
1 CAACAATAATTTGAATTGAATATGAATTACTACATTAAATTAAGAGACTTACTTTATTTAGTCTT
1039117 CGGTCTATCCGATCCACTAAAACTTTCGCACCTT
66 CGGTCTATCCGATCCACTAAAACTTTCGCACCTT
1039151 C
1 C
1039152 CTTTATAGTT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (99 bp):
CAACAATAATTTGAATTGAATATGAATTACTACATTAAATTAAGAGACTTACTTTATTTAGTCTT
CGGTCTATCCGATCCACTAAAACTTTCGCACCTT
Found at i:1039487 original size:84 final size:84
Alignment explanation
Indices: 1039363--1039522 Score: 266
Period size: 84 Copynumber: 1.9 Consensus size: 84
1039353 CTTGGCGCCG
* * *
1039363 TCTTGTACTTGAGGTGTCGCCCTCCCAAGCTGTCGAAGGTTTCCTGTAGATTCGAGGCTGGACAA
1 TCTTGTACTTCAGGCGTCGCCCTCCCAAGCTGTCGAAGGTTTCCTGTAGATTCCAGGCTGGACAA
*
1039428 CGGCAGTCCGTTCGTCCCA
66 CAGCAGTCCGTTCGTCCCA
* *
1039447 TCTTGTACTTCAGGCGTCGCCCTCCCAGGCTGTCGAAGGTTTCTTGTAGATTCCAGGCTGGACAA
1 TCTTGTACTTCAGGCGTCGCCCTCCCAAGCTGTCGAAGGTTTCCTGTAGATTCCAGGCTGGACAA
1039512 CAGCAGTCCGT
66 CAGCAGTCCGT
1039523 CCGCGCTAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.28
Consensus pattern (84 bp):
TCTTGTACTTCAGGCGTCGCCCTCCCAAGCTGTCGAAGGTTTCCTGTAGATTCCAGGCTGGACAA
CAGCAGTCCGTTCGTCCCA
Found at i:1041672 original size:17 final size:19
Alignment explanation
Indices: 1041652--1041692 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1041642 ATATAATTTT
*
1041652 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
1041669 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
1041687 AAAATA
1 AAAATA
1041693 AATATTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:1041809 original size:30 final size:30
Alignment explanation
Indices: 1041773--1041835 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
1041763 ACTTAACAAG
* *
1041773 CAAATGCCTCTAACATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAAATAA
*
1041803 CAAATGCCTTTAAAATAATAACAAAAATAA
1 CAAATGCCTCTAAAATAATAACAAAAATAA
1041833 CAA
1 CAA
1041836 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.22
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAAATAA
Found at i:1041920 original size:22 final size:22
Alignment explanation
Indices: 1041873--1041921 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
1041863 CAATAACAAC
* * *
1041873 AAAATTGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAATAGA
*
1041895 AAAATAGTAGCAAAATAGATAAA
1 AAAATAGTAGCAAAATA-ATAGA
1041918 AAAA
1 AAAA
1041922 CAAGAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.20
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAATAGA
Found at i:1046991 original size:37 final size:37
Alignment explanation
Indices: 1046941--1047016 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
1046931 TAGTCCTTAT
1046941 ATTTTAATTTGATATAACATGGTCCTTTATTTTTACA
1 ATTTTAATTTGATATAACATGGTCCTTTATTTTTACA
1046978 ATTTTAATTTGATATAACATGGTCCTTTATTTTTACA
1 ATTTTAATTTGATATAACATGGTCCTTTATTTTTACA
1047015 AT
1 AT
1047017 CACATTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (37 bp):
ATTTTAATTTGATATAACATGGTCCTTTATTTTTACA
Found at i:1050695 original size:22 final size:22
Alignment explanation
Indices: 1050670--1050713 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1050660 GTTACACGAA
1050670 AACAAAATCTAATAACCAATAT
1 AACAAAATCTAATAACCAATAT
1050692 AACAAAATCTAATAACCAATAT
1 AACAAAATCTAATAACCAATAT
1050714 TATATATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.23
Consensus pattern (22 bp):
AACAAAATCTAATAACCAATAT
Found at i:1056152 original size:131 final size:134
Alignment explanation
Indices: 1055966--1056335 Score: 422
Period size: 148 Copynumber: 2.7 Consensus size: 134
1055956 AATTACGTCA
* * * **
1055966 TAAGTTTTGATTATATTTGTTTTTTTTTGTTCTGATACAATGTTTAGAACCACTTATAATTTCTT
1 TAAGTTTTGATTATA--T-TTATTTTTTGTTTTGATACAATGTTTAGAACTACTTATAACATCTT
* * *
1056031 CTTAACCCATAAATTAGAGGATAAT-G-CG-CCCACATTCCAAATGAACTAAGATTCAATCCATA
63 CTCAACCCATAAATAAGAGGATAATAGTCGACCCACATTCCAAATGAACTAAGACTCAATCCATA
1056093 ACAATAG
128 ACAATAG
*
1056100 TAAGTTTTGATTATATTTATTTTTTGTTTTGATACAATATTTAGAACTACTTATAACATCTTCTC
1 TAAGTTTTGATTATATTTATTTTTTGTTTTGATACAATGTTTAGAACTACTTATAACATCTTCTC
*
1056165 GACCCATAAATAAGAGGATAATGCGTTTCAACGTACTCGAACCCACATTCCAAATGAACTAAGAC
66 AACCCATAAATAAGAGGATAA------T--A-G---TCG-ACCCACATTCCAAATGAACTAAGAC
*
1056230 TCAATCCATAATAATAG
118 TCAATCCATAACAATAG
* * *
1056247 TAAATTTTGATCATATTTATTTTTTTGTTTTGATATAATGTTTAGAACTACTTATAACATCTTCT
1 TAAGTTTTGATTATATTTA-TTTTTTGTTTTGATACAATGTTTAGAACTACTTATAACATCTTCT
* *
1056312 CAACCTATAAATAAAAGGATAATA
65 CAACCCATAAATAAGAGGATAATA
1056336 CAACATACTT
Statistics
Matches: 201, Mismatches: 18, Indels: 28
0.81 0.07 0.11
Matches are distributed among these distances:
131 61 0.30
132 1 0.00
134 15 0.07
137 1 0.00
140 1 0.00
141 1 0.00
142 1 0.00
145 2 0.01
147 56 0.28
148 62 0.31
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (134 bp):
TAAGTTTTGATTATATTTATTTTTTGTTTTGATACAATGTTTAGAACTACTTATAACATCTTCTC
AACCCATAAATAAGAGGATAATAGTCGACCCACATTCCAAATGAACTAAGACTCAATCCATAACA
ATAG
Found at i:1057103 original size:11 final size:12
Alignment explanation
Indices: 1057076--1057104 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1057066 CGTTGAATCG
1057076 ATTTTAAAAGAA
1 ATTTTAAAAGAA
1057088 ATTTTAAAAG-A
1 ATTTTAAAAGAA
1057099 ATTTTA
1 ATTTTA
1057105 CCTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
ATTTTAAAAGAA
Found at i:1058971 original size:183 final size:184
Alignment explanation
Indices: 1058659--1059023 Score: 626
Period size: 183 Copynumber: 2.0 Consensus size: 184
1058649 CTCAAAATAT
1058659 TAAGTAATCATTAAAGTGCAACAAACATAGAGATAGGAAAACAATGGAAAACATCCAAAAAAACC
1 TAAGTAATCATTAAAGTGCAACAAACATAGAGATAGGAAAACAATGGAAAACATCCAAAAAAACC
*
1058724 ATGAAAATCCATGAATGCAAAATGAGTCCTAGCTATCTTGAGGAGGCTGTGGTGGAGGGAATTGA
66 ATGAAAATCCATGAATGCAAAATGAGTCCTAGCTATCTTGAGGAGGCTGTGGTGGAGAGAATTGA
1058789 AACAT-ATAAACGATATGTTCCTCCAATGTAGACATCCCAGCACCTAAGCATAC
131 AACATAATAAACGATATGTTCCTCCAATGTAGACATCCCAGCACCTAAGCATAC
*
1058842 TAAGTAATCATTAAAGTGCAACAAACATAGAGATAGGAAAACAATGTAAAACATCCAAATAAAA-
1 TAAGTAATCATTAAAGTGCAACAAACATAGAGATAGGAAAACAATGGAAAACATCCAAA-AAAAC
1058906 CATGAAAATCCATGAATGCAAAATGAGTCCTAGCTATCTTGAGGAGGCTGTGGTGGAGAGAATTG
65 CATGAAAATCCATGAATGCAAAATGAGTCCTAGCTATCTTGAGGAGGCTGTGGTGGAGAGAATTG
* * * * *
1058971 AAGCATAAGATAAGCGATATGTTTCTCCAATGTAGACATCCTAGCATCTAAGC
130 AAACAT-A-ATAAACGATATGTTCCTCCAATGTAGACATCCCAGCACCTAAGC
1059024 CTCGAACTTC
Statistics
Matches: 171, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
183 127 0.74
184 4 0.02
186 40 0.23
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (184 bp):
TAAGTAATCATTAAAGTGCAACAAACATAGAGATAGGAAAACAATGGAAAACATCCAAAAAAACC
ATGAAAATCCATGAATGCAAAATGAGTCCTAGCTATCTTGAGGAGGCTGTGGTGGAGAGAATTGA
AACATAATAAACGATATGTTCCTCCAATGTAGACATCCCAGCACCTAAGCATAC
Found at i:1059560 original size:30 final size:31
Alignment explanation
Indices: 1059504--1059562 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
1059494 TCTATTAAAA
*
1059504 AAAGAGCAAATTAATCATTATGTGTTAAATC
1 AAAGAGCAAATTAATCATTATCTGTTAAATC
1059535 AAAGAGCAAA-TAAGTCATT-TCTGTTAAA
1 AAAGAGCAAATTAA-TCATTATCTGTTAAA
1059563 AATTCTATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.31
Consensus pattern (31 bp):
AAAGAGCAAATTAATCATTATCTGTTAAATC
Found at i:1062846 original size:22 final size:22
Alignment explanation
Indices: 1062818--1062870 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
1062808 AAAGTTTTTA
* *
1062818 AATAAAAGTAAAT-AAATAATT
1 AATAAAAATAAATAAAATAAAT
*
1062839 AATAAAAATAACTAAAATAAAT
1 AATAAAAATAAATAAAATAAAT
*
1062861 AATAATAATA
1 AATAAAAATA
1062871 GAGATTGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
AATAAAAATAAATAAAATAAAT
Found at i:1062849 original size:13 final size:13
Alignment explanation
Indices: 1062828--1062870 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
1062818 AATAAAAGTA
1062828 AATAAATAATTAAT
1 AATAAATAA-TAAT
1062842 AA-AAATAACTAA-
1 AATAAATAA-TAAT
1062854 AATAAATAATAAT
1 AATAAATAATAAT
1062867 AATA
1 AATA
1062871 GAGATTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 5 0.19
13 19 0.73
14 2 0.08
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:1067697 original size:185 final size:186
Alignment explanation
Indices: 1067379--1067749 Score: 656
Period size: 185 Copynumber: 2.0 Consensus size: 186
1067369 ATAAAATAAA
*
1067379 ATACTAAGTAATCATTAAAGTGCAACAAACATAGAGATAGGAAAACAATGTAAAACATCCAAATA
1 ATACTAAGTAATCATTAAAGTGCAACAAACACAGAGATAGGAAAACAATGTAAAACATCCAAATA
*
1067444 AAACATGAAAATCCATGAATGCAAAATGAGTCCTAGCTATCTTGAGAAGGCTGTGGTGGAGGGAA
66 AAACATGAAAATCCATGAATGCAAAATGAGTCCTAGCTATCTTGAGAAGGCTGTGGTGGAGAGAA
1067509 TTGAAACATAAGATAAACGATATGTTCCTCCAATGTAGACATCC-AGCACCTAAGC
131 TTGAAACATAAGATAAACGATATGTTCCTCCAATGTAGACATCCTAGCACCTAAGC
*
1067564 ATACTAAGTAATCATTAAAGTGCAACAAGCACAGAGATAGGAAAACAATGTAAAACATCCAAATA
1 ATACTAAGTAATCATTAAAGTGCAACAAACACAGAGATAGGAAAACAATGTAAAACATCCAAATA
* *
1067629 AAACATGAAAATCCATGAATGCGAAATGAGTCCTAGCTATAC-TGAGGAGGCTGTGGTGGAGAGA
66 AAACATGAAAATCCATGAATGCAAAATGAGTCCTAGCTAT-CTTGAGAAGGCTGTGGTGGAGAGA
* *
1067693 ATTGAAACATAAGATAAGCGATATGTTTCTCCAATGTAGACATCCTAGCACCTAAGC
130 ATTGAAACATAAGATAAACGATATGTTCCTCCAATGTAGACATCCTAGCACCTAAGC
1067750 CTCGAACTTC
Statistics
Matches: 177, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
185 165 0.93
186 12 0.07
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.22
Consensus pattern (186 bp):
ATACTAAGTAATCATTAAAGTGCAACAAACACAGAGATAGGAAAACAATGTAAAACATCCAAATA
AAACATGAAAATCCATGAATGCAAAATGAGTCCTAGCTATCTTGAGAAGGCTGTGGTGGAGAGAA
TTGAAACATAAGATAAACGATATGTTCCTCCAATGTAGACATCCTAGCACCTAAGC
Found at i:1071078 original size:21 final size:19
Alignment explanation
Indices: 1071032--1071079 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
1071022 GGAAATTAAT
*
1071032 AATTTATGAAAATTTAAAA
1 AATTTATAAAAATTTAAAA
1071051 AAGTTTATAAAAACTTTTAAAA
1 AA-TTTATAAAAA--TTTAAAA
1071073 AATTTAT
1 AATTTAT
1071080 CGATGTTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 9 0.36
21 5 0.20
22 9 0.36
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (19 bp):
AATTTATAAAAATTTAAAA
Found at i:1071943 original size:24 final size:26
Alignment explanation
Indices: 1071907--1071956 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
1071897 TTAATAATTA
*
1071907 ATTTTAATTTTTATAA-TA-TAAAAAT
1 ATTTTAATATTTA-AAGTAGTAAAAAT
1071932 ATTTT-ATATTTAAAGTAGTAAAAAT
1 ATTTTAATATTTAAAGTAGTAAAAAT
1071957 GATCTAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 2 0.09
24 8 0.36
25 12 0.55
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
ATTTTAATATTTAAAGTAGTAAAAAT
Found at i:1072582 original size:15 final size:16
Alignment explanation
Indices: 1072562--1072591 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1072552 AACTAAAATT
1072562 TAATTT-AATTTTTAC
1 TAATTTAAATTTTTAC
1072577 TAATTTAAATTTTTA
1 TAATTTAAATTTTTA
1072592 AAAATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TAATTTAAATTTTTAC
Found at i:1075469 original size:68 final size:68
Alignment explanation
Indices: 1075360--1075498 Score: 224
Period size: 68 Copynumber: 2.0 Consensus size: 68
1075350 CGTTATAATC
* * * * *
1075360 TAACAAAATTAAATATCGTAGAGAAATAGTGGAGAGGAATATTAGGGTAAACTGTAAACAAGTGG
1 TAACAAAATGAAATATCGTAGAGAAACAATGGAGAAGAATATTAGGGTAAACTCTAAACAAGTGG
1075425 TGG
66 TGG
*
1075428 TAACAAAATGAAATATCGTGGAGAAACAATGGAGAAGAATATTAGGGTAAACTCTAAACAAGTGG
1 TAACAAAATGAAATATCGTAGAGAAACAATGGAGAAGAATATTAGGGTAAACTCTAAACAAGTGG
1075493 TGG
66 TGG
1075496 TAA
1 TAA
1075499 TGGGCTGAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.22
Consensus pattern (68 bp):
TAACAAAATGAAATATCGTAGAGAAACAATGGAGAAGAATATTAGGGTAAACTCTAAACAAGTGG
TGG
Found at i:1079432 original size:25 final size:23
Alignment explanation
Indices: 1079403--1079458 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
1079393 TTTGTATCAG
1079403 GGGGAGAGAAAAAAAAAGGAGAGAA
1 GGGGAGAGAAAAAAAAA-GAGAG-A
** *
1079428 GGGGAGAGGGAAGAAAAGAGAGA
1 GGGGAGAGAAAAAAAAAGAGAGA
1079451 GGGGAGAG
1 GGGGAGAG
1079459 GAGGGAGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 9 0.32
24 5 0.18
25 14 0.50
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (23 bp):
GGGGAGAGAAAAAAAAAGAGAGA
Found at i:1079551 original size:8 final size:8
Alignment explanation
Indices: 1079536--1079578 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
1079526 CTTTTTTTAC
1079536 TTAT-TAT
1 TTATATAT
1079543 TTATATAT
1 TTATATAT
1079551 TTATATAT
1 TTATATAT
* *
1079559 TAATATTT
1 TTATATAT
*
1079567 TTAAATAT
1 TTATATAT
1079575 TTAT
1 TTAT
1079579 GTATGTAGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
7 4 0.14
8 25 0.86
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTATATAT
Found at i:1080033 original size:24 final size:23
Alignment explanation
Indices: 1079944--1080039 Score: 115
Period size: 23 Copynumber: 4.2 Consensus size: 23
1079934 TACGAGGACT
* * *
1079944 GTGGCGGTAT-GGGATTGTTGTG
1 GTGGGGGTATGGGGCTTGTTGTA
*
1079966 GT-GGGGTATGGGGCTTGTGGTA
1 GTGGGGGTATGGGGCTTGTTGTA
1079988 GTGGGGGTATGGGGCTTGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
* *
1080011 GTGGGGGTATGGGTCTAGTTTGTA
1 GTGGGGGTATGGGGCTTG-TTGTA
1080035 GTGGG
1 GTGGG
1080040 TCAGTTAGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
21 6 0.09
22 13 0.20
23 35 0.55
24 10 0.16
ACGTcount: A:0.09, C:0.04, G:0.52, T:0.34
Consensus pattern (23 bp):
GTGGGGGTATGGGGCTTGTTGTA
Found at i:1080054 original size:15 final size:15
Alignment explanation
Indices: 1080019--1080071 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
1080009 TAGTGGGGGT
1080019 ATGGGTCTAGTTTGTA
1 ATGGGTC-AGTTTGTA
* *
1080035 GTGGGTCAGTTAGTA
1 ATGGGTCAGTTTGTA
1080050 ATGGGTCAGTTTGTA
1 ATGGGTCAGTTTGTA
1080065 ATGGGTC
1 ATGGGTC
1080072 TCAAATTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
15 27 0.82
16 6 0.18
ACGTcount: A:0.19, C:0.08, G:0.36, T:0.38
Consensus pattern (15 bp):
ATGGGTCAGTTTGTA
Found at i:1080689 original size:13 final size:13
Alignment explanation
Indices: 1080671--1080695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1080661 TTTGAAACAT
1080671 AGAAATTAAAAGC
1 AGAAATTAAAAGC
1080684 AGAAATTAAAAG
1 AGAAATTAAAAG
1080696 GCTCAACTCA
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:1080826 original size:13 final size:13
Alignment explanation
Indices: 1080793--1080826 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1080783 ATATGAGTTG
1080793 ATTAAAAACAGAA
1 ATTAAAAACAGAA
* *
1080806 ATTGAAAATAGAA
1 ATTAAAAACAGAA
1080819 ATTAAAAA
1 ATTAAAAA
1080827 GACTCAACTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.21
Consensus pattern (13 bp):
ATTAAAAACAGAA
Found at i:1081052 original size:71 final size:71
Alignment explanation
Indices: 1080829--1081078 Score: 268
Period size: 74 Copynumber: 3.5 Consensus size: 71
1080819 ATTAAAAAGA
* * * *
1080829 CTCAACTCACCTCTTGCAATATGAATTGAATTTTGAAAATAGAATTTGAAATTACCTTAGCGTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAA-TTGAAATTACCTCAGCGTGA
* *
1080894 CGCAAGG
65 CCCGAGG
* *
1080901 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAGCGT
*
1080966 GCCCCGAGG
63 GACCCGAGG
* * * * * * *
1080975 TTCAACTCACTTCTTGCAACATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACATGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCGTGA
**
1081039 CTTGAGG
65 CCCGAGG
* *
1081046 CTCAACTCACCTCTCGCAATGTGAGCTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
1081079 CTTGGAAAAC
Statistics
Matches: 148, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
71 51 0.34
72 33 0.22
73 3 0.02
74 58 0.39
75 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (71 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTGAAATTACCTCAGCGTGAC
CCGAGG
Found at i:1081210 original size:160 final size:160
Alignment explanation
Indices: 1080946--1081610 Score: 1222
Period size: 160 Copynumber: 4.2 Consensus size: 160
1080936 ATTTAATAGG
* * * * *
1080946 AATTGAAATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTTGCAACATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* *
1081011 AACATAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATGTGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1081076 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
1081106 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1081171 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
1081236 TTTCTTCGAAAAAATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
1081266 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
1081331 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATACGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1081396 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
*
1081426 AATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1081491 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1081556 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
*
1081586 AATTGAAAATACCCCAGCGTGCCCT
1 AATTGAAAATACCTCAGCGTGCCCT
1081611 AAGGACAGAA
Statistics
Matches: 489, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
160 489 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGA
Found at i:1081221 original size:71 final size:71
Alignment explanation
Indices: 1081105--1081238 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
1081095 TAAAAAGCAG
* * *
1081105 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
1081170 AAACAT
66 AAACAT
* * *
1081176 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1081239 CTTCGAAAAA
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:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:1081381 original size:71 final size:71
Alignment explanation
Indices: 1081265--1081398 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
1081255 TAAAAAGCAG
* * * *
1081265 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATACGAGCTGATTTTTG
1081330 AAACAT
66 AAACAT
* * *
1081336 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATACGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATACGAGCTGATTTT
1081399 CTTGGAAAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATACGAGCTGATTTTTG
AAACAT
Found at i:1081541 original size:71 final size:71
Alignment explanation
Indices: 1081425--1081558 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
1081415 TAAAAAGCAG
** * *
1081425 AAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
1081490 AAACAT
66 AAACAT
* * *
1081496 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1081559 CTTGGAAAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:1095453 original size:15 final size:15
Alignment explanation
Indices: 1095418--1095470 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
1095408 TAGTGGGGGT
1095418 ATGGGTCTAGTTTGTA
1 ATGGGTC-AGTTTGTA
* *
1095434 GTGGGTCAGTTAGTA
1 ATGGGTCAGTTTGTA
1095449 ATGGGTCAGTTTGTA
1 ATGGGTCAGTTTGTA
1095464 ATGGGTC
1 ATGGGTC
1095471 TCAAATTGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
15 27 0.82
16 6 0.18
ACGTcount: A:0.19, C:0.08, G:0.36, T:0.38
Consensus pattern (15 bp):
ATGGGTCAGTTTGTA
Found at i:1096353 original size:25 final size:25
Alignment explanation
Indices: 1096322--1096373 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
1096312 GAATTAACCA
*
1096322 TTTTTTCACATTAGTACCTAAATTT
1 TTTTTTCACATTAGTACCTAAAATT
* * *
1096347 TTTTTTCACTTTCGTACTTAAAATT
1 TTTTTTCACATTAGTACCTAAAATT
1096372 TT
1 TT
1096374 AATTTCTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTTTTCACATTAGTACCTAAAATT
Found at i:1105721 original size:26 final size:26
Alignment explanation
Indices: 1105639--1105722 Score: 64
Period size: 26 Copynumber: 3.1 Consensus size: 26
1105629 GTTGGACTAT
1105639 AAAATTTGTTAGTGAATATATATTAG
1 AAAATTTGTTAGTGAATATATATTAG
* * * * *
1105665 AAAGACTT-TTGGGGAGCAT-TGATGTAAAG
1 AAA-ATTTGTTAGTGA--ATAT-ATAT-TAG
1105694 AAAATTTGTTAGTGAATATATATTAG
1 AAAATTTGTTAGTGAATATATATTAG
1105720 AAA
1 AAA
1105723 GGTTTTTGGG
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
26 13 0.32
27 9 0.22
28 9 0.22
29 10 0.24
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (26 bp):
AAAATTTGTTAGTGAATATATATTAG
Found at i:1105723 original size:55 final size:55
Alignment explanation
Indices: 1105639--1105745 Score: 196
Period size: 55 Copynumber: 1.9 Consensus size: 55
1105629 GTTGGACTAT
1105639 AAAATTTGTTAGTGAATATATATTAGAAAGACTTTTGGGGAGCATTGATGTAAAG
1 AAAATTTGTTAGTGAATATATATTAGAAAGACTTTTGGGGAGCATTGATGTAAAG
**
1105694 AAAATTTGTTAGTGAATATATATTAGAAAGGTTTTTGGGGAGCATTGATGTA
1 AAAATTTGTTAGTGAATATATATTAGAAAGACTTTTGGGGAGCATTGATGTA
1105746 GGACCATGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (55 bp):
AAAATTTGTTAGTGAATATATATTAGAAAGACTTTTGGGGAGCATTGATGTAAAG
Found at i:1106830 original size:11 final size:10
Alignment explanation
Indices: 1106802--1106848 Score: 58
Period size: 11 Copynumber: 4.4 Consensus size: 10
1106792 TTAAAATTTT
*
1106802 AAATTATTAA
1 AAATTATAAA
1106812 AAATTATAAA
1 AAATTATAAA
1106822 AACATTATAAA
1 AA-ATTATAAA
1106833 AAATTTATTAAA
1 AAA-TTA-TAAA
1106845 AAAT
1 AAAT
1106849 AACAATACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
10 12 0.36
11 14 0.42
12 7 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AAATTATAAA
Found at i:1106834 original size:21 final size:23
Alignment explanation
Indices: 1106804--1106846 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
1106794 AAAATTTTAA
*
1106804 ATTATTAAAAA-TTA-TAAAAAC
1 ATTATAAAAAATTTATTAAAAAC
1106825 ATTATAAAAAATTTATTAAAAA
1 ATTATAAAAAATTTATTAAAAA
1106847 ATAACAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 3 0.16
23 6 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTATAAAAAATTTATTAAAAAC
Found at i:1111245 original size:39 final size:39
Alignment explanation
Indices: 1111187--1111457 Score: 371
Period size: 39 Copynumber: 6.9 Consensus size: 39
1111177 TGGAGTTTCA
* * *
1111187 GTTTAGCTCTGGTGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
* * *
1111226 ATTTAGCACTTTTGTGCTTCAGTCAGCCTTCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
*
1111265 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGATTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
*
1111304 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTTGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
* *
1111343 GTTTAGCACTTGTGTGCTTTAGTTAGCCTCCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
* * ** *
1111382 GTTTAGCACTTATGTGCTTCAGCTAAACTTCGAGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
* * **
1111421 GTTTAGCACTTATGTGCTTCAGCTAAACTTCGGGCTT
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTT
1111458 TAGATCACGA
Statistics
Matches: 209, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 209 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.38
Consensus pattern (39 bp):
GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:1118106 original size:32 final size:32
Alignment explanation
Indices: 1118065--1118126 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
1118055 ATACAACATA
1118065 CTCACACAATACAAA-TCTACTGAGTTCAAACT
1 CTCACACAATACAAATTC-ACTGAGTTCAAACT
1118097 CTCACACAATACAAATTCACTGAGTTCAAA
1 CTCACACAATACAAATTCACTGAGTTCAAA
1118127 ATAACAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.24
Consensus pattern (32 bp):
CTCACACAATACAAATTCACTGAGTTCAAACT
Found at i:1122174 original size:18 final size:18
Alignment explanation
Indices: 1122153--1122189 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1122143 AATAATAACT
1122153 ATAATAAAAATCTATTTA
1 ATAATAAAAATCTATTTA
* *
1122171 ATAATAAATATTTATTTA
1 ATAATAAAAATCTATTTA
1122189 A
1 A
1122190 CACTTGTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATAAAAATCTATTTA
Found at i:1123439 original size:21 final size:21
Alignment explanation
Indices: 1123413--1123468 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1123403 AACAGCGGTG
*
1123413 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
1123434 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
1123455 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
1123469 AACAGCGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:1127406 original size:465 final size:465
Alignment explanation
Indices: 1126528--1127461 Score: 1679
Period size: 465 Copynumber: 2.0 Consensus size: 465
1126518 TTCAGAAGTC
*
1126528 GGAGGACAATGTACTGAAATGAATAATGTTACTATTCCTGTTGATCAAGACCACGGAAGTTTACT
1 GGAGGACAATGTACTGAAACGAATAATGTTACTATTCCTGTTGATCAAGACCACGGAAGTTTACT
*
1126593 GGCTAGGGAGATCTTGAAGTATAATTATAGTTCCTGGCAATTCGGACTTTTTAACAAAGACAACA
66 GGCTAGGGAGATCTTGAAGTATAATTATAGTTCCTGGCAATCCGGACTTTTTAACAAAGACAACA
1126658 ACAGTGTGGAAGTTGCACACTTCCATGGCTTACAAGAAGCATTGGACAAAACTCGCTGTGGGGAA
131 ACAGTGTGGAAGTTGCACACTTCCATGGCTTACAAGAAGCATTGGACAAAACTCGCTGTGGGGAA
1126723 ACACCAGACTACCTCAAACGTATCGCGACCCAAATCAAAGTGTATCGTGGAAAAGCTACTAAGTT
196 ACACCAGACTACCTCAAACGTATCGCGACCCAAATCAAAGTGTATCGTGGAAAAGCTACTAAGTT
*
1126788 TGGCCATAAAAATATTGAAGTTCTGGTTTGTGCGGCAATCAAAGAGATGGAAGACTGGCGTACAC
261 TGGCCATAAAAATATTGAAGTTCTGGTTTGTGCGACAATCAAAGAGATGGAAGACTGGCGTACAC
* *
1126853 CTAAGGATTCCGGCTATAACCAGTTGAAAAAGTGGGCCGCGACACTCAATATGGGAAAGGAACAA
326 CTAAGGATACCGGCTATAACCAGATGAAAAAGTGGGCCGCGACACTCAATATGGGAAAGGAACAA
*
1126918 GATTTTGAAGTGAAATGTGCTGATAACATGTTGAAGAATATTTGTCTTGCCTGTTATGCTTACTC
391 GATTTTGAAGTGAAATGTGCTGATAACATGTTGAACAATATTTGTCTTGCCTGTTATGCTTACTC
1126983 AATGATTTAT
456 AATGATTTAT
* *
1126993 GGAGGACAATGTATTGAAACGAATGATGTTACTATTCCTGTTGATCAAGACCACGGAAGTTTACT
1 GGAGGACAATGTACTGAAACGAATAATGTTACTATTCCTGTTGATCAAGACCACGGAAGTTTACT
* * *
1127058 GGCTAGGGAGATTTTGAAGTGTAATTATAGTTCCTGGCTATCCGGACTTTTTAACAAAGACAACA
66 GGCTAGGGAGATCTTGAAGTATAATTATAGTTCCTGGCAATCCGGACTTTTTAACAAAGACAACA
1127123 ACAGTGTGGAAGTTGCACACTTCCATGGCTTACAAGAAGCATTGGACAAAACTCGCTGTGGGGAA
131 ACAGTGTGGAAGTTGCACACTTCCATGGCTTACAAGAAGCATTGGACAAAACTCGCTGTGGGGAA
* *
1127188 ACACCAGACTACCTCAAACGTATCGCGACCCAAATCGAAGTGTGTCGTGGAAAAGCTACTAAGTT
196 ACACCAGACTACCTCAAACGTATCGCGACCCAAATCAAAGTGTATCGTGGAAAAGCTACTAAGTT
*
1127253 TGGCCATAAAAATATTGAAGTTCTGGTTTGTGCGACAATCAAAGAGATGGAAGACTGGTGTACAC
261 TGGCCATAAAAATATTGAAGTTCTGGTTTGTGCGACAATCAAAGAGATGGAAGACTGGCGTACAC
* * *
1127318 CTAAGGATACTGGCTATAACCCGATGAAAAAGTGGGCCGCGACACTCAATATGGGTAAGGAACAA
326 CTAAGGATACCGGCTATAACCAGATGAAAAAGTGGGCCGCGACACTCAATATGGGAAAGGAACAA
* * * *
1127383 GATTTTGAAGTGAAATTTGCTGATGACATGTTGAACAATATTTGTCTTGTCTGTTTTGCTTACTC
391 GATTTTGAAGTGAAATGTGCTGATAACATGTTGAACAATATTTGTCTTGCCTGTTATGCTTACTC
1127448 AATGATTTAT
456 AATGATTTAT
1127458 GGAG
1 GGAG
1127462 AGGATGGTTC
Statistics
Matches: 448, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
465 448 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (465 bp):
GGAGGACAATGTACTGAAACGAATAATGTTACTATTCCTGTTGATCAAGACCACGGAAGTTTACT
GGCTAGGGAGATCTTGAAGTATAATTATAGTTCCTGGCAATCCGGACTTTTTAACAAAGACAACA
ACAGTGTGGAAGTTGCACACTTCCATGGCTTACAAGAAGCATTGGACAAAACTCGCTGTGGGGAA
ACACCAGACTACCTCAAACGTATCGCGACCCAAATCAAAGTGTATCGTGGAAAAGCTACTAAGTT
TGGCCATAAAAATATTGAAGTTCTGGTTTGTGCGACAATCAAAGAGATGGAAGACTGGCGTACAC
CTAAGGATACCGGCTATAACCAGATGAAAAAGTGGGCCGCGACACTCAATATGGGAAAGGAACAA
GATTTTGAAGTGAAATGTGCTGATAACATGTTGAACAATATTTGTCTTGCCTGTTATGCTTACTC
AATGATTTAT
Found at i:1127549 original size:26 final size:27
Alignment explanation
Indices: 1127510--1127564 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
1127500 CGATGCTCAT
*
1127510 ATGGTATTTGGTATTTAAACTCAGTGA
1 ATGGTATTGGGTATTTAAACTCAGTGA
* *
1127537 ATGGT-TTGGGTATTTCAACTCGGTGA
1 ATGGTATTGGGTATTTAAACTCAGTGA
1127563 AT
1 AT
1127565 TTGTATGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.40
Consensus pattern (27 bp):
ATGGTATTGGGTATTTAAACTCAGTGA
Found at i:1127632 original size:29 final size:29
Alignment explanation
Indices: 1127597--1127660 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
1127587 TTGGTTTGTC
*
1127597 TTTGAACTCATATGTTTT-AGTATTTGGTG
1 TTTGAACTCATATGTTTTGA-TATTTGGTA
**
1127626 TTTGAACTTGTATGTTTTGATATTTGGTA
1 TTTGAACTCATATGTTTTGATATTTGGTA
1127655 TTTGAA
1 TTTGAA
1127661 TTTAGTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.53
Consensus pattern (29 bp):
TTTGAACTCATATGTTTTGATATTTGGTA
Found at i:1128923 original size:34 final size:34
Alignment explanation
Indices: 1128880--1128947 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
1128870 ACAGTAGTAC
1128880 TCACTATCACAGAACTCA-GATCAAACTCAGATCA
1 TCACTATCACAGAACTCATG-TCAAACTCAGATCA
1128914 TCACTATCACAGAACTCATGTCAAACTCAGATCA
1 TCACTATCACAGAACTCATGTCAAACTCAGATCA
1128948 AAAGAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (34 bp):
TCACTATCACAGAACTCATGTCAAACTCAGATCA
Found at i:1129133 original size:2 final size:2
Alignment explanation
Indices: 1129126--1129158 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1129116 AGGAAACCTG
1129126 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 T
1129159 GTGCAAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1129827 original size:19 final size:19
Alignment explanation
Indices: 1129773--1129827 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
1129763 TTTTATTTTT
*
1129773 TATATTATTAA-ATTATGTA
1 TATATTATTAACATTA-ATA
** *
1129792 TATATTATTTCCCTTAATA
1 TATATTATTAACATTAATA
1129811 TATATTATTAACATTAA
1 TATATTATTAACATTAA
1129828 GATTAATTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 25 0.89
20 3 0.11
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (19 bp):
TATATTATTAACATTAATA
Found at i:1132396 original size:18 final size:18
Alignment explanation
Indices: 1132373--1132411 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1132363 GGGGAGACCA
1132373 TAGTATAATTTTACTTTT
1 TAGTATAATTTTACTTTT
1132391 TAGTATAATTTTACTTTT
1 TAGTATAATTTTACTTTT
1132409 TAG
1 TAG
1132412 GGGAGATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (18 bp):
TAGTATAATTTTACTTTT
Found at i:1134583 original size:2 final size:2
Alignment explanation
Indices: 1134576--1134608 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1134566 GAGTAGTATC
*
1134576 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1134609 CACATATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1138241 original size:21 final size:21
Alignment explanation
Indices: 1138215--1138267 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1138205 TGGCATGCCT
1138215 CTGATTGTTG-CCGGCGTACCC
1 CTGATTGTTGTCC-GCGTACCC
*
1138236 CTGATTGTTGTCCGCGTACCT
1 CTGATTGTTGTCCGCGTACCC
*
1138257 CTGATAGTTGT
1 CTGATTGTTGT
1138268 TGTTTGCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.11, C:0.26, G:0.26, T:0.36
Consensus pattern (21 bp):
CTGATTGTTGTCCGCGTACCC
Found at i:1139129 original size:208 final size:208
Alignment explanation
Indices: 1138852--1139257 Score: 546
Period size: 208 Copynumber: 2.0 Consensus size: 208
1138842 AAAAATTCTC
* * * *
1138852 GTAATTAAAGAAACCAGCATTAAAAAGAAACTACACAGAATCAAAGAAATTAGTGATTCAGTAGC
1 GTAATTAAAGAAACCAGCATTAAAAAGAAACTACACAAAACCAAAGAAATCAGTGATTCAATAGC
* * * * *
1138917 ACTCACTAGTAGAGAATTCAGATCAGAATAAATCATTGAACCAAAAAAAGTAAAAAAGCACAAAC
66 ACTCACTAGTACAGAACTCAGACCAGAAGAAATCATTGAACCAAAAAAAGTAAAAAAGAACAAAC
* *
1138982 TAGTTTTCCC-ATCTCAGAACAAAAATATCCAAGCAACAGACATAAAACTGACAAAAA-AAAAAT
131 TAGTTTTCCCAAT-TCAGAACAAAAA-ATCCAAACAACAGACATAAAACTGACAAAAAGAAAAAA
1139045 GAAATTTTGGATCAA
194 GAAATTTTGGATCAA
* ** * * *
1139060 GTAATTAAAGAAACCTGCATTAAAGGGAAACTATACAAAACCAAAGTAATCAGTGATTCAATTGC
1 GTAATTAAAGAAACCAGCATTAAAAAGAAACTACACAAAACCAAAGAAATCAGTGATTCAATAGC
* * * ** * * *
1139125 ACTCATTGGTACAGAACTCAGACCAGAAGAAATCTTTGAACTGAAAACAGTCAAAAAGAACTAAC
66 ACTCACTAGTACAGAACTCAGACCAGAAGAAATCATTGAACCAAAAAAAGTAAAAAAGAACAAAC
*
1139190 TAGTTTTCCCAATTCAGAACAAAAAATTCAAACAACAGACATAAAACTGACAAAAAGAAAAAAGA
131 TAGTTTTCCCAATTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAGAAAAAAGA
1139255 AAT
196 AAT
1139258 GGAATTTTGC
Statistics
Matches: 170, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
207 29 0.17
208 139 0.82
209 2 0.01
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.20
Consensus pattern (208 bp):
GTAATTAAAGAAACCAGCATTAAAAAGAAACTACACAAAACCAAAGAAATCAGTGATTCAATAGC
ACTCACTAGTACAGAACTCAGACCAGAAGAAATCATTGAACCAAAAAAAGTAAAAAAGAACAAAC
TAGTTTTCCCAATTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAGAAAAAAGA
AATTTTGGATCAA
Found at i:1147852 original size:102 final size:102
Alignment explanation
Indices: 1147677--1147861 Score: 273
Period size: 102 Copynumber: 1.8 Consensus size: 102
1147667 TGTCATTGGG
** * *
1147677 AAATCATAGTTGACTCGGATTTTGAAGAAGGAATCTAAATTGCTAAACATAAATATCTTTAAAAT
1 AAATCATAGTTGACTCGGATTTTGAAGAAAAAATCTAAAATGCTAAACATAAATATCTTTAAAAA
***
1147742 TTGGGATTTTTAATACTTTCGCACATATATCCTTGAA
66 TCAAGATTTTTAATACTTTCGCACATATATCCTTGAA
*
1147779 AAATCATAGTTGACTCGGATTTTGGAA-AAAAAATCTAAAATGCTGAACATAAATATCTTTAAAA
1 AAATCATAGTTGACTCGGATTTT-GAAGAAAAAATCTAAAATGCTAAACATAAATATCTTTAAAA
*
1147843 ATCAAGATTTTTATTACTT
65 ATCAAGATTTTTAATACTT
1147862 CACTACCTCG
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 70 0.96
103 3 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (102 bp):
AAATCATAGTTGACTCGGATTTTGAAGAAAAAATCTAAAATGCTAAACATAAATATCTTTAAAAA
TCAAGATTTTTAATACTTTCGCACATATATCCTTGAA
Found at i:1149006 original size:31 final size:29
Alignment explanation
Indices: 1148967--1149039 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
1148957 AAAAATTATT
* *
1148967 AAAATTAAAATTCATCAATTTAAA-AAATA
1 AAAATTAAAATTAATCAAATTAAAGAAA-A
*
1148996 CAAAATTTAAAACTAATCAAATTAAAGAAAAA
1 -AAAA-TTAAAATTAATCAAATTAAAG-AAAA
1149028 AAAATTAAAATT
1 AAAATTAAAATT
1149040 TTTACATAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 11 0.31
31 21 0.58
32 1 0.03
33 3 0.08
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.27
Consensus pattern (29 bp):
AAAATTAAAATTAATCAAATTAAAGAAAA
Found at i:1149450 original size:13 final size:12
Alignment explanation
Indices: 1149423--1149448 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1149413 ACCATGAAAT
1149423 AACAAAAATAAA
1 AACAAAAATAAA
1149435 AACAAAAATAAA
1 AACAAAAATAAA
1149447 AA
1 AA
1149449 ACCACATAAA
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:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AACAAAAATAAA
Found at i:1158631 original size:16 final size:18
Alignment explanation
Indices: 1158610--1158649 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
1158600 CTGACCCACA
1158610 ACAAAATTAA-TT-ATTT
1 ACAAAATTAACTTAATTT
*
1158626 ACAAAAATAACTTAATTT
1 ACAAAATTAACTTAATTT
1158644 A-AAAAT
1 ACAAAAT
1158650 GTTTAACGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.45
17 6 0.30
18 5 0.25
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
ACAAAATTAACTTAATTT
Found at i:1161446 original size:13 final size:13
Alignment explanation
Indices: 1161428--1161454 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1161418 GAATATGTCT
1161428 TGTTTAATAGTGG
1 TGTTTAATAGTGG
1161441 TGTTTAATAGTGG
1 TGTTTAATAGTGG
1161454 T
1 T
1161455 CAAATTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TGTTTAATAGTGG
Found at i:1162106 original size:15 final size:16
Alignment explanation
Indices: 1162086--1162118 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1162076 TAATATATTT
1162086 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
1162101 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
1162118 T
1 T
1162119 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:1162239 original size:26 final size:24
Alignment explanation
Indices: 1162195--1162244 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
1162185 ATTTGTTTTA
*
1162195 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
1162219 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
1162245 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:1164972 original size:6 final size:6
Alignment explanation
Indices: 1164961--1164987 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1164951 AATGGTGGCC
1164961 AGGGAT AGGGAT AGGGAT AGGGAT AGG
1 AGGGAT AGGGAT AGGGAT AGGGAT AGG
1164988 TTTCCCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
AGGGAT
Found at i:1168313 original size:14 final size:14
Alignment explanation
Indices: 1168294--1168324 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1168284 AGCAGAAGCA
1168294 ATCAAGTTAGTAAT
1 ATCAAGTTAGTAAT
1168308 ATCAAGTTAGTAAT
1 ATCAAGTTAGTAAT
1168322 ATC
1 ATC
1168325 TTCAGCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (14 bp):
ATCAAGTTAGTAAT
Found at i:1175304 original size:21 final size:21
Alignment explanation
Indices: 1175278--1175318 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1175268 AGACGAGCGA
* *
1175278 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1175299 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1175319 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1178849 original size:16 final size:15
Alignment explanation
Indices: 1178821--1178860 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1178811 AAATATGATT
1178821 TTAATTTTT-TTAAA
1 TTAATTTTTATTAAA
1178835 TTAATATTTTATTAAA
1 TTAAT-TTTTATTAAA
*
1178851 TAAATTTTTA
1 TTAATTTTTA
1178861 ATCTAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTTATTAAA
Found at i:1179815 original size:20 final size:20
Alignment explanation
Indices: 1179790--1179829 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1179780 ATTTTTTGCT
*
1179790 CGCTTCAATCGATCTATACC
1 CGCTTCAATCAATCTATACC
1179810 CGCTTCAATCAATCTATACC
1 CGCTTCAATCAATCTATACC
1179830 GATTTCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.30
Consensus pattern (20 bp):
CGCTTCAATCAATCTATACC
Found at i:1192692 original size:10 final size:9
Alignment explanation
Indices: 1192656--1192691 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
1192646 GATAAAATTA
1192656 ATATTTTTT
1 ATATTTTTT
1192665 ATATTTTTT
1 ATATTTTTT
1192674 ATATTTTTAT
1 ATATTTTT-T
*
1192684 AAATTTTT
1 ATATTTTT
1192692 AATTGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
ATATTTTTT
Found at i:1195804 original size:8 final size:8
Alignment explanation
Indices: 1195791--1195816 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1195781 TCAGAGAAAT
1195791 AAAAAAGA
1 AAAAAAGA
1195799 AAAAAAGA
1 AAAAAAGA
1195807 AAAAAAGA
1 AAAAAAGA
1195815 AA
1 AA
1195817 GAGATATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:1202456 original size:13 final size:13
Alignment explanation
Indices: 1202438--1202463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1202428 CTGTTAGCTC
1202438 TTTCCATAAGCAT
1 TTTCCATAAGCAT
1202451 TTTCCATAAGCAT
1 TTTCCATAAGCAT
1202464 CGGAAGCTTA
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:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
TTTCCATAAGCAT
Found at i:1203761 original size:23 final size:22
Alignment explanation
Indices: 1203709--1203772 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 22
1203699 TGACTAAATA
* *
1203709 TAAATAATTAAATATGTATATTT
1 TAAAT-ATTAAAAATATATATTT
*
1203732 AATAATATTAAAAATATAATATTT
1 TA-AATATTAAAAATAT-ATATTT
1203756 TAAATATTTTAAAAATA
1 TAAATA--TTAAAAATA
1203773 AAAATAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 14 0.42
24 10 0.30
25 9 0.27
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAATATTAAAAATATATATTT
Found at i:1212442 original size:18 final size:18
Alignment explanation
Indices: 1212419--1212493 Score: 114
Period size: 18 Copynumber: 4.2 Consensus size: 18
1212409 CCCAACTATT
*
1212419 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
1212437 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
1212455 GTATATGTGAATAGTACT
1 GTATACGTGAATAGTACC
1212473 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
1212491 GTA
1 GTA
1212494 AACGATCGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:1232623 original size:18 final size:17
Alignment explanation
Indices: 1232602--1232658 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
1232592 TAAATTTTAT
1232602 AAAAATCGTAAAAAAATA
1 AAAAAT-GTAAAAAAATA
*
1232620 AAAAATGTAAAGAAATA
1 AAAAATGTAAAAAAATA
* * *
1232637 TAAAAT-TTATAAAATA
1 AAAAATGTAAAAAAATA
1232653 AAAAAT
1 AAAAAT
1232659 TATCATACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 12 0.36
17 15 0.45
18 6 0.18
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAAATGTAAAAAAATA
Found at i:1236052 original size:134 final size:130
Alignment explanation
Indices: 1235739--1236064 Score: 314
Period size: 130 Copynumber: 2.5 Consensus size: 130
1235729 AAAAAATCTT
* * *
1235739 TAAAACGAAGGCGAA-ATCCGATATTTAGCAATTCGCGGAATAGTGCCCTAATGTGTTGGGTTGC
1 TAAAACGAAGGC-AATATCCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTAC
** * * * * * *
1235803 GATTTAGCGTTTGCTCAAAATAATCGAATAACCCTTCAAGATTTCACTCATGTCTTTTAAAATCC
65 GATTTAGCACTTGCTCAAAATAATCGAAAAACCCCTCAAAATTTCACTCATATCTTCTAAAAACC
*
1235868 C
130 A
* * * * * * * *
1235869 TTAAACAAAGGCGATATGCGATATTTGGCAACTCGTGGAATCGTGCCCTAACGTGTTGGGTTATG
1 TAAAACGAAGGCAATATCCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTACG
** * *
1235934 AATTTCTCACTTGCTTAAAATAATC-AAAAATCCCCTCAAAATTTCACTCGTATCTTCCTAAAAA
66 -ATTTAGCACTTGCTCAAAATAATCGAAAAA-CCCCTCAAAATTTCACTCATATCTT-CTAAAAA
1235998 CTCA
128 C-CA
* * * * * *
1236002 TCAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGGAATAGTACCCTATCGTGCTGGGTT
1 T-AAAACGAAGGCAATATCCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTT
1236065 GCAATTTCCC
Statistics
Matches: 155, Mismatches: 35, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
129 1 0.01
130 56 0.36
131 40 0.26
132 6 0.04
133 2 0.01
134 50 0.32
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (130 bp):
TAAAACGAAGGCAATATCCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTACG
ATTTAGCACTTGCTCAAAATAATCGAAAAACCCCTCAAAATTTCACTCATATCTTCTAAAAACCA
Found at i:1238630 original size:26 final size:26
Alignment explanation
Indices: 1238570--1238623 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
1238560 TAATTAAATT
**
1238570 ATAAAAATTATTAAATTTTATTAAAA
1 ATAAAAAAAATTAAATTTTATTAAAA
1238596 ATAAAAAAAATTAAATTTTATTAAAA
1 ATAAAAAAAATTAAATTTTATTAAAA
1238622 AT
1 AT
1238624 TAGAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAAAAAAAATTAAATTTTATTAAAA
Found at i:1238730 original size:10 final size:10
Alignment explanation
Indices: 1238710--1238761 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
1238700 AAGTTGCAAG
*
1238710 AAAATTATAA
1 AAAAATATAA
*
1238720 AAAAATGTAA
1 AAAAATATAA
*
1238730 AGAAATAT-A
1 AAAAATATAA
**
1238739 AAATTTATAA
1 AAAAATATAA
1238749 AAAAATATAA
1 AAAAATATAA
1238759 AAA
1 AAA
1238762 TTGTCGTGCC
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
9 6 0.19
10 26 0.81
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (10 bp):
AAAAATATAA
Found at i:1239380 original size:51 final size:51
Alignment explanation
Indices: 1239318--1239432 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
1239308 ATTGGTATAA
* ** * *
1239318 TAACAATTTTAGCCCTTAAAGTTTACACATTTTGTCAATTT-GATCTTGATT
1 TAACAAATTTAGCCCACAAAGTTTAAACATTTTGTCAATTTGGATCTAG-TT
** *
1239369 TAACAAATTTAGCCCACAACTTTTAAACATTTTGTCAATTTGGTTCTAGTT
1 TAACAAATTTAGCCCACAAAGTTTAAACATTTTGTCAATTTGGATCTAGTT
1239420 TAACAAATTTAGC
1 TAACAAATTTAGC
1239433 TTGCAATGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 50 0.91
52 5 0.09
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.42
Consensus pattern (51 bp):
TAACAAATTTAGCCCACAAAGTTTAAACATTTTGTCAATTTGGATCTAGTT
Found at i:1242420 original size:72 final size:72
Alignment explanation
Indices: 1242329--1242464 Score: 229
Period size: 72 Copynumber: 1.9 Consensus size: 72
1242319 ATGCATCTCA
*
1242329 TCCGGAAGCGATGTTAAATTGGG-AAAGTCAACGAGAGAAAGCCTTTGCAGATTTATTAGATGTT
1 TCCGGAAGCGATGTTAAATTGGGAAAAGT-AACGAGAGAAAGCCTTGGCAGATTTATTAGATGTT
1242393 GAATCCAC
65 GAATCCAC
* *
1242401 TCCGGAAGCGATGTTAAATTGGGAAAAGTAGCGAGAGAAAGCGTTGGCAGATTTATTAGATGTT
1 TCCGGAAGCGATGTTAAATTGGGAAAAGTAACGAGAGAAAGCCTTGGCAGATTTATTAGATGTT
1242465 CCCATTGCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 55 0.92
73 5 0.08
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (72 bp):
TCCGGAAGCGATGTTAAATTGGGAAAAGTAACGAGAGAAAGCCTTGGCAGATTTATTAGATGTTG
AATCCAC
Found at i:1252339 original size:24 final size:23
Alignment explanation
Indices: 1252302--1252348 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
1252292 ATTATATTAA
* *
1252302 AATTAAAATTAAAATATAAATAT
1 AATTAAAATAAAAAAATAAATAT
*
1252325 AATTAAAAATAAAAAAATATATAT
1 AATT-AAAATAAAAAAATAAATAT
1252349 TTATTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AATTAAAATAAAAAAATAAATAT
Found at i:1253352 original size:49 final size:49
Alignment explanation
Indices: 1253278--1253634 Score: 279
Period size: 49 Copynumber: 6.9 Consensus size: 49
1253268 ACACAGGTAC
* * *
1253278 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTTTTGAAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTTTGAAA
*
1253327 CTTACCATTCCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT-ATGAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT---TTGA--AA
* * * * *
1253380 CTCACCAATGCCATGCCTTGGCATGGTCTTACGTGGTATCCTTTTGAAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTTTGAAA
1253429 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT-ATGAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT---TTGA--AA
* * * * * * * *
1253482 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACATTTGCCTCATAGTAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACAT-GG---TAT-CCT-TTTGAAA
* * * *
1253537 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT---TT-GAAA
**
1253590 CCTTACCAATTGCCATACCTT-AGCATGGTCTTACATGGTATCCTT
1 -CTTACC-ATTGCCATGTCTTGA-CATGGTCTTACATGGTATCCTT
1253635 GAACCCTAAT
Statistics
Matches: 246, Mismatches: 37, Indels: 44
0.75 0.11 0.13
Matches are distributed among these distances:
49 79 0.32
50 5 0.02
51 6 0.02
52 5 0.02
53 74 0.30
54 9 0.04
55 62 0.25
56 1 0.00
57 2 0.01
58 3 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (49 bp):
CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTTTGAAA
Found at i:1253407 original size:53 final size:54
Alignment explanation
Indices: 1253278--1253635 Score: 359
Period size: 53 Copynumber: 6.8 Consensus size: 54
1253268 ACACAGGTAC
* * * *
1253278 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
1253327 CTTACCATTCCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
1253380 CTCACCAATGCCATGCCTTGGCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
1253429 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * * * *
1253482 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTGCCTCATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC-CTTGCCTTAT-GAAA
* * * *
1253537 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
1253590 CCTTACCAATTGCCATACCTT-AGCATGGTCTTACATGGTATCCTTG
1 -CTTACCAA-TGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTG
1253636 AACCCTAATG
Statistics
Matches: 254, Mismatches: 37, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
48 2 0.01
49 77 0.30
50 2 0.01
52 2 0.01
53 87 0.34
54 13 0.05
55 70 0.28
56 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:1253462 original size:102 final size:102
Alignment explanation
Indices: 1253281--1253634 Score: 467
Period size: 102 Copynumber: 3.4 Consensus size: 102
1253271 CAGGTACCTT
* * * * *
1253281 ACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTTTTGAAACTTACCATTCCCATGTCTT
1 ACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTTGAAACTTACCATTGCCATGTCTT
1253346 GACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
66 GACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
*
1253383 ACCAATGCCATGCCTTGGCATGGTCTTACGTGGTATCCTTTTGAAACTTACCATTGCCATGTCTT
1 ACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTTGAAACTTACCATTGCCATGTCTT
1253448 GACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
66 GACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
* * * * * *
1253485 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGACATTTGCCTCATAGTAACTTATCAATGCCA
1 ACCAATGCCATGCCTTGGCATGGTCTTACAT-GG---TAT-CCT-TTTGAAACTTACCATTGCCA
* * *
1253550 TGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTT
60 TGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTC
* *
1253594 ACCAATTGCCATACCTTAGCATGGTCTTACATGGTATCCTT
1 ACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1253635 GAACCCTAAT
Statistics
Matches: 225, Mismatches: 18, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
102 128 0.57
103 2 0.01
105 3 0.01
106 4 0.02
107 4 0.02
108 51 0.23
109 9 0.04
110 24 0.11
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (102 bp):
ACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTTGAAACTTACCATTGCCATGTCTT
GACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
Found at i:1261784 original size:57 final size:58
Alignment explanation
Indices: 1261704--1261828 Score: 153
Period size: 58 Copynumber: 2.2 Consensus size: 58
1261694 TAGTAATTAC
* * * *
1261704 TCAACTATTAATAAATAT-TTTTTTGTCACTTAACTATAAAAAATTACAAAATAGTCA
1 TCAACTATTAATAAAAATATTTTTTGTCACTCAACCATAAAAAACTACAAAATAGTCA
* * * * *
1261761 TCAACTGTTATTAAAAATATTTTTTGTCACTCAACCATAAAAAGCTACAAAATAATTA
1 TCAACTATTAATAAAAATATTTTTTGTCACTCAACCATAAAAAACTACAAAATAGTCA
1261819 CTCAACTATT
1 -TCAACTATT
1261829 CAATTTTTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 15 0.27
58 33 0.59
59 8 0.14
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (58 bp):
TCAACTATTAATAAAAATATTTTTTGTCACTCAACCATAAAAAACTACAAAATAGTCA
Found at i:1262251 original size:26 final size:24
Alignment explanation
Indices: 1262221--1262268 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
1262211 AATAAAAAAA
*
1262221 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
1262247 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
1262269 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:1262625 original size:21 final size:20
Alignment explanation
Indices: 1262586--1262645 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
1262576 TCGGATATAT
* *
1262586 AATTATATAATATAAAATTTA
1 AATTATAAAAAATAAAA-TTA
*
1262607 AATTATAAAAAATACAATTA
1 AATTATAAAAAATAAAATTA
*
1262627 TATTAATAAATAAATAAAA
1 AATT-ATAAA-AAATAAAA
1262646 ATGGTCAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 19 0.59
22 7 0.22
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AATTATAAAAAATAAAATTA
Found at i:1269751 original size:17 final size:17
Alignment explanation
Indices: 1269731--1269764 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1269721 CCAAATATAT
1269731 AAAGGTGACAATTTTTC
1 AAAGGTGACAATTTTTC
1269748 AAAGGTGACAATTTTTC
1 AAAGGTGACAATTTTTC
1269765 CTTTTATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
AAAGGTGACAATTTTTC
Found at i:1271140 original size:5 final size:5
Alignment explanation
Indices: 1271132--1271162 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
1271122 TTAAAATAAA
1271132 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
1271163 TAGTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:1271669 original size:17 final size:16
Alignment explanation
Indices: 1271634--1271672 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
1271624 TCTCTTAAAG
*
1271634 AATTTATTAAATTATA
1 AATTTATTAAATGATA
*
1271650 AATTTATATATATGATA
1 AATTTAT-TAAATGATA
1271667 AATTTA
1 AATTTA
1271673 CACTTTTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AATTTATTAAATGATA
Found at i:1272368 original size:2 final size:2
Alignment explanation
Indices: 1272361--1272392 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1272351 CTATTTGAAA
1272361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1272393 TCTTTCTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1274304 original size:15 final size:16
Alignment explanation
Indices: 1274284--1274322 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1274274 GGTCAAAGTG
1274284 TAATTTTA-TTTTTAT
1 TAATTTTATTTTTTAT
*
1274299 TAATTTAATTTTTTAT
1 TAATTTTATTTTTTAT
*
1274315 AAATTTTA
1 TAATTTTA
1274323 AAGGTGCCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TAATTTTATTTTTTAT
Found at i:1275025 original size:16 final size:16
Alignment explanation
Indices: 1275004--1275037 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1274994 CATCTAAATC
*
1275004 AATCTGAAATGATTTA
1 AATCTGAAATGATCTA
*
1275020 AATCTGTAATGATCTA
1 AATCTGAAATGATCTA
1275036 AA
1 AA
1275038 GTTAAAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (16 bp):
AATCTGAAATGATCTA
Found at i:1276029 original size:89 final size:88
Alignment explanation
Indices: 1275917--1276102 Score: 214
Period size: 89 Copynumber: 2.1 Consensus size: 88
1275907 ATTTATGTGG
* * * * * *
1275917 ATAAAAAAAATTCTCAAACTTTTTTTAAAAAAATAATTGAAGTCATTGTTTT-TTTTTT-ATTCA
1 ATAAAAAAGATCCTTAAAC-TTTTTCAAAAAAATAATT-AAGTC-TCGTTTTCTTTTTTCACTCA
* * * *
1275980 ATTGGGTATCTAAACTTTTAAAATAT
63 ATTAGATATCTAAACTGTCAAAATAT
*
1276006 ATCAAAAAGATCCTTAAACTTTTTCAAAAAAATAATTAAGTCTCGTTTTCTTTTTTGCACTCAAT
1 ATAAAAAAGATCCTTAAACTTTTTCAAAAAAATAATTAAGTCTCGTTTTCTTTTTT-CACTCAAT
*
1276071 TAGATATTTAAACTGTCAAAATAT
65 TAGATATCTAAACTGTCAAAATAT
1276095 ATAAAAAA
1 ATAAAAAA
1276103 ATGCCCCTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
86 6 0.07
87 11 0.14
88 17 0.21
89 47 0.58
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (88 bp):
ATAAAAAAGATCCTTAAACTTTTTCAAAAAAATAATTAAGTCTCGTTTTCTTTTTTCACTCAATT
AGATATCTAAACTGTCAAAATAT
Found at i:1283160 original size:20 final size:19
Alignment explanation
Indices: 1283135--1283204 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
1283125 ATGAAAGGTT
*
1283135 AATTTATTAATATTTCTAA
1 AATTTATTAAAATTTCTAA
* *
1283154 GAATTTACTAAAATTTATAA
1 -AATTTATTAAAATTTCTAA
* *
1283174 AATTTTATCAAAATATCTAA
1 AA-TTTATTAAAATTTCTAA
1283194 AGATTTATTAA
1 A-ATTTATTAA
1283205 TTTTTTTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.05
20 37 0.93
21 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (19 bp):
AATTTATTAAAATTTCTAA
Found at i:1287121 original size:21 final size:20
Alignment explanation
Indices: 1287096--1287134 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1287086 ATAATTTTTT
1287096 TTAAAATTTTAAAGAATTTAA
1 TTAAAATTTTAAA-AATTTAA
*
1287117 TTAAAATTTTTAAAATTT
1 TTAAAATTTTAAAAATTT
1287135 TGAAGAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TTAAAATTTTAAAAATTTAA
Found at i:1287129 original size:9 final size:9
Alignment explanation
Indices: 1287093--1287135 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
1287083 ATGATAATTT
1287093 TTTTTAAAA
1 TTTTTAAAA
*
1287102 TTTTAAAGAA
1 TTTTTAA-AA
1287112 TTTAATTAAAA
1 TTT--TTAAAA
1287123 TTTTTAAAA
1 TTTTTAAAA
1287132 TTTT
1 TTTT
1287136 GAAGAATCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 16 0.55
10 5 0.17
11 5 0.17
12 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:1287155 original size:30 final size:30
Alignment explanation
Indices: 1287093--1287157 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
1287083 ATGATAATTT
** *
1287093 TTTTTAAAATTTTAAAGAATTTAATTAAAA
1 TTTTTAAAATTTTAAAGAATCCAATCAAAA
* * *
1287123 TTTTTAAAATTTTGAAGAATCCGATCATAA
1 TTTTTAAAATTTTAAAGAATCCAATCAAAA
1287153 TTTTT
1 TTTTT
1287158 TCAAGGGCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (30 bp):
TTTTTAAAATTTTAAAGAATCCAATCAAAA
Found at i:1287871 original size:11 final size:12
Alignment explanation
Indices: 1287843--1287871 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1287833 GTTATTAATA
1287843 TAATTTAGTTCT
1 TAATTTAGTTCT
1287855 TAATTTAGTTC-
1 TAATTTAGTTCT
1287866 TAATTT
1 TAATTT
1287872 GTTTCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:1287983 original size:19 final size:20
Alignment explanation
Indices: 1287959--1287997 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
1287949 TCTCATTTTT
1287959 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
1287978 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
1287998 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Done.