Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 33 of 189
Found at i:10305888 original size:9 final size:9
Alignment explanation
Indices: 10305874--10305910 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10305864 TATAGTTTGA
10305874 TATTCGAAT
1 TATTCGAAT
10305883 TATTCGAAT
1 TATTCGAAT
*
10305892 TATTCGAGT
1 TATTCGAAT
10305901 TATTCGAAT
1 TATTCGAAT
10305910 T
1 T
10305911 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10306505 original size:13 final size:13
Alignment explanation
Indices: 10306487--10306513 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10306477 GGTTTTACAG
10306487 ACTAAGTTCTCAA
1 ACTAAGTTCTCAA
10306500 ACTAAGTTCTCAA
1 ACTAAGTTCTCAA
10306513 A
1 A
10306514 GGGAGAATTT
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:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTAAGTTCTCAA
Found at i:10309057 original size:19 final size:19
Alignment explanation
Indices: 10309008--10309816 Score: 229
Period size: 19 Copynumber: 39.3 Consensus size: 19
10308998 GCGCCAATGG
*
10309008 GTAATTTTGTATGTATATT
1 GTAATTTTGTATGAATATT
10309027 GTAACTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
10309048 ATAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
10309067 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
10309090 GTAATTATAGTTTTTG-AT-TA
1 GTAATT-T--TGTATGAATATT
10309110 GT-ATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
10309128 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
10309147 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
10309170 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
*
10309190 GT-ATTTTGTATGAATAGT
1 GTAATTTTGTATGAATATT
10309208 GTAATTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
* *
10309229 GTACTTTTTTATGAATATT
1 GTAATTTTGTATGAATATT
*
10309248 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
10309264 -TAATTTTGTATTTATAGTTTTT
1 GTAATTTTGTA-TGA-A--TATT
10309286 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
10309309 GTAATTTTATAATTTTGTATGAATATT
1 G--------TAATTTTGTATGAATATT
*
10309336 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
10309359 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
*
10309379 GT-ATTTTGTATGAATAGT
1 GTAATTTTGTATGAATATT
10309397 GTAATTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
10309418 GTAATTTTTTATGAATATT
1 GTAATTTTGTATGAATATT
*
10309437 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
10309453 -TAATTTTGTATTTATAGTTTTT
1 GTAATTTTGTA-TGA-A--TATT
10309475 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
*
10309498 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
10309514 -TAATTTTGTATTTATAGTTTTT
1 GTAATTTTGTA-TGA-A--TATT
10309536 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
* *
10309559 ATAATGTTGTATGAATATT
1 GTAATTTTGTATGAATATT
* * *
10309578 GTAATTATCTTATAATTAATTTT
1 GTAA-T-T-TTGT-ATGAATATT
* * *
10309601 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
10309621 GT-ATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
10309639 TTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
10309658 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
*
10309681 GTAATTTTGTATGGATATT
1 GTAATTTTGTATGAATATT
10309700 GTGATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
10309723 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
10309746 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
*
10309769 GTAATTTTGTATGGATATT
1 GTAATTTTGTATGAATATT
10309788 GTGATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
10309811 GTAATT
1 GTAATT
10309817 ATTTTATAAT
Statistics
Matches: 610, Mismatches: 72, Indels: 216
0.68 0.08 0.24
Matches are distributed among these distances:
14 6 0.01
15 18 0.03
16 16 0.03
17 20 0.03
18 16 0.03
19 177 0.29
20 60 0.10
21 71 0.12
22 25 0.04
23 129 0.21
24 7 0.01
25 16 0.03
26 6 0.01
27 41 0.07
29 2 0.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (19 bp):
GTAATTTTGTATGAATATT
Found at i:10309117 original size:61 final size:60
Alignment explanation
Indices: 10309051--10309563 Score: 342
Period size: 61 Copynumber: 8.3 Consensus size: 60
10309041 GAATATTATA
10309051 ATTTTGTATGAATATTGTAATTATTTTAT-AATTAATTTTGTAATTATAGTTTTTGATTAGT
1 ATTTTGTATGAATATTGTAATTATTTTATGAATTAATTTTGTAATTAT--TTTTTGATTAGT
* * *
10309112 ATTTTGTATGAATATTGTAATT-TTGTATGAA-T-A--TTGTAATTATTTTATAATTA--
1 ATTTTGTATGAATATTGTAATTATTTTATGAATTAATTTTGTAATTATTTTTTGATTAGT
** * * * * **
10309165 ATTTTGTATTTATAGTTTTGGATTAGTATTT-TGTATGAATAGTGTAATT-TTTTGTATGAATAT
1 ATTTTGTATGAATA-TTGT-AATTA-T-TTTATGAATTAATTTTGTAATTATTTT-T-TG-AT-T
*
10309228 TGT
58 AGT
* *
10309231 ACTTTTTTATGAATATTGTAATTATTTTAT-AATTAATTTTGTATTTATAGTTTTTGATTAGT
1 A-TTTTGTATGAATATTGTAATTATTTTATGAATTAATTTTGTAATTAT--TTTTTGATTAGT
* * * * *
10309293 ATTTTGTATGAATATTGTAATTTTATAATTT-TGTATGAATATTGTAATTATTTTATAATTA--
1 ATTTTGTATGAATATTGTAA--TTAT--TTTATGAATTAATTTTGTAATTATTTTTTGATTAGT
** * * * * **
10309354 ATTTTGTATTTATAGTTTTGGATTAGTATTT-TGTATGAATAGTGTAATT-TTTTGTATGAATAT
1 ATTTTGTATGAATA-TTGT-AATTA-T-TTTATGAATTAATTTTGTAATTATTTT-T-TG-AT-T
*
10309417 TGT
58 AGT
* *
10309420 AATTTTTTATGAATATTGTAATTATTTTAT-AATTAATTTTGTATTTATAGTTTTTGATTAGT
1 -ATTTTGTATGAATATTGTAATTATTTTATGAATTAATTTTGTAATTAT--TTTTTGATTAGT
*
10309482 ATTTTGTATGAATATTGTAATTATTTTAT-AATTAATTTTGTATTTATAGTTTTTGATTAGT
1 ATTTTGTATGAATATTGTAATTATTTTATGAATTAATTTTGTAATTAT--TTTTTGATTAGT
*
10309543 ATTTTGTATGAATATTATAAT
1 ATTTTGTATGAATATTGTAAT
10309564 GTTGTATGAA
Statistics
Matches: 359, Mismatches: 53, Indels: 80
0.73 0.11 0.16
Matches are distributed among these distances:
53 12 0.03
54 3 0.01
55 11 0.03
57 14 0.04
58 2 0.01
59 2 0.01
60 14 0.04
61 165 0.46
62 13 0.04
63 49 0.14
64 13 0.04
65 27 0.08
66 13 0.04
67 21 0.06
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (60 bp):
ATTTTGTATGAATATTGTAATTATTTTATGAATTAATTTTGTAATTATTTTTTGATTAGT
Found at i:10309136 original size:80 final size:80
Alignment explanation
Indices: 10309033--10309240 Score: 346
Period size: 80 Copynumber: 2.6 Consensus size: 80
10309023 TATTGTAACT
*
10309033 TTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTAATTAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTAATTAT
*
10309098 AGTTTTTGATTAGTA
66 AGTTTTGGATTAGTA
*
10309113 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTAATTAT
10309178 AGTTTTGGATTAGTA
66 AGTTTTGGATTAGTA
* *
10309193 TTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTACTT-TTTTAT
1 TTTTGTATGAATATTGTAA--TTTTGTATGAATATTGTAATTATTTTAT
10309241 GAATATTGTA
Statistics
Matches: 121, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
80 95 0.79
81 6 0.05
82 20 0.17
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (80 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTAATTAT
AGTTTTGGATTAGTA
Found at i:10309245 original size:101 final size:101
Alignment explanation
Indices: 10309113--10309316 Score: 372
Period size: 101 Copynumber: 2.0 Consensus size: 101
10309103 TTGATTAGTA
10309113 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
10309178 AGTTTTGGATTAGTATTTTGTATGAATAGTGTAATT
66 AGTTTTGGATTAGTATTTTGTATGAATAGTGTAATT
* *
10309214 TTTTGTATGAATATTGTACTTTTTTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
* *
10309279 AGTTTTTGATTAGTATTTTGTATGAATATTGTAATT
66 AGTTTTGGATTAGTATTTTGTATGAATAGTGTAATT
10309315 TT
1 TT
10309317 ATAATTTTGT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.57
Consensus pattern (101 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
AGTTTTGGATTAGTATTTTGTATGAATAGTGTAATT
Found at i:10309285 original size:27 final size:27
Alignment explanation
Indices: 10309253--10309369 Score: 69
Period size: 30 Copynumber: 4.0 Consensus size: 27
10309243 ATATTGTAAT
10309253 TATTTTATAATTAATTTTGTATTTATAG
1 TATTTTATAATT-ATTTTGTATTTATAG
* * * *
10309281 T-TTTTGATTAGTATTTTGTATGAATATTG
1 TATTTT-ATAATTATTTTGTAT--TTATAG
*
10309310 TAATTTTATAATT-TTGTATGAATATTGTA-AT
1 T-ATTTTATAATTATT-T-TG--TATT-TATAG
10309341 TATTTTATAATTAATTTTGTATTTATAG
1 TATTTTATAATT-ATTTTGTATTTATAG
10309369 T
1 T
10309370 TTTGGATTAG
Statistics
Matches: 66, Mismatches: 10, Indels: 26
0.65 0.10 0.25
Matches are distributed among these distances:
27 15 0.23
28 11 0.17
29 7 0.11
30 18 0.27
31 8 0.12
32 4 0.06
33 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (27 bp):
TATTTTATAATTATTTTGTATTTATAG
Found at i:10309409 original size:189 final size:186
Alignment explanation
Indices: 10309011--10309503 Score: 861
Period size: 189 Copynumber: 2.7 Consensus size: 186
10309001 CCAATGGGTA
* * * * *
10309011 ATTTTGTATGTATATTGTAACTTTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATT
1 ATTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
*
10309076 TTATAATTAATTTTGTAATTATAGTTTTTGATTAGTATTTTGTATGAATATTG-----TAATTTT
66 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTAATTTT
10309136 GTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
131 GTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
*
10309192 ATTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTACTTTTTTATGAATATTGTAATTATT
1 ATTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
10309257 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTATAAT
66 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAA--TT-TAAT
10309322 TTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
128 TTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
10309381 ATTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
1 ATTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
10309446 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATT
66 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATT
10309504 ATTTTATAAT
Statistics
Matches: 296, Mismatches: 8, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
181 111 0.38
187 2 0.01
189 183 0.62
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (186 bp):
ATTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
TTATAATTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTAATTTT
GTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
Found at i:10309445 original size:101 final size:102
Alignment explanation
Indices: 10309318--10309508 Score: 348
Period size: 101 Copynumber: 1.9 Consensus size: 102
10309308 TGTAATTTTA
10309318 TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTAT
1 TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTAT
10309383 TTTGTATGAATAGTGTAATT-TTTTGTATGAATATTG
66 TTTGTATGAATAGTGTAATTATTTTGTATGAATATTG
* *
10309419 TAATTTTTTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAGTAT
1 TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTAT
*
10309484 TTTGTATGAATATTGTAATTATTTT
66 TTTGTATGAATAGTGTAATTATTTT
10309509 ATAATTAATT
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
101 82 0.95
102 4 0.05
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.58
Consensus pattern (102 bp):
TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTAT
TTTGTATGAATAGTGTAATTATTTTGTATGAATATTG
Found at i:10309485 original size:27 final size:27
Alignment explanation
Indices: 10309455--10309551 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 27
10309445 TTTATAATTA
10309455 ATTTTGTATTTATAGTTTTTGATTAGT
1 ATTTTGTATTTATAGTTTTTGATTAGT
* * * * *
10309482 ATTTTGTATGAATATTGTAATTATTTTATAATT
1 ATTTTG--T--AT-TTATAGTT-TTTGATTAGT
10309515 AATTTTGTATTTATAGTTTTTGATTAGT
1 -ATTTTGTATTTATAGTTTTTGATTAGT
10309543 ATTTTGTAT
1 ATTTTGTAT
10309552 GAATATTATA
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
27 15 0.28
28 7 0.13
29 7 0.13
30 2 0.04
31 2 0.04
32 7 0.13
33 7 0.13
34 6 0.11
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (27 bp):
ATTTTGTATTTATAGTTTTTGATTAGT
Found at i:10309607 original size:80 final size:80
Alignment explanation
Indices: 10309315--10309662 Score: 437
Period size: 80 Copynumber: 4.3 Consensus size: 80
10309305 TATTGTAATT
10309315 TTATAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAG
1 TTATAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAG
10309380 TATTTTGTATGAATA
66 TATTTTGTATGAATA
* * *
10309395 GTGTAATTTTTTGTATGAATATTGTAATT-TTTTATGAATATTGTAATTATTTTATAATTA-A-T
1 TTATAA--TTTTGTATGAATATTGTAATTATTTTAT--A-A-T-TAATT-TTGTAT--TTATAGT
* *
10309457 TTTGTATTTA-TAGTTT-T-TG---A
56 TTTGGA-TTAGTATTTTGTATGAATA
*
10309477 TTAGT-ATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTA
1 TTA-TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTA
10309541 GTATTTTGTATGAATA
65 GTATTTTGTATGAATA
* *
10309557 TTATAATGTTGTATGAATATTGTAATTATCTTATAATTAATTTTGTATTTATAGTTTTGGATTAG
1 TTATAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAG
10309622 TATTTTGTATGAATA
66 TATTTTGTATGAATA
*
10309637 TTTTAATTTTGTATGAATATTGTAAT
1 TTATAATTTTGTATGAATATTGTAAT
10309663 ATTGTTTGTA
Statistics
Matches: 230, Mismatches: 16, Indels: 44
0.79 0.06 0.15
Matches are distributed among these distances:
73 3 0.01
74 4 0.02
75 15 0.07
76 6 0.03
77 3 0.01
78 1 0.00
79 2 0.01
80 125 0.54
81 12 0.05
82 24 0.10
83 2 0.01
84 1 0.00
85 3 0.01
86 6 0.03
87 16 0.07
88 4 0.02
89 3 0.01
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (80 bp):
TTATAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAG
TATTTTGTATGAATA
Found at i:10309670 original size:23 final size:23
Alignment explanation
Indices: 10309625--10309815 Score: 253
Period size: 23 Copynumber: 8.8 Consensus size: 23
10309615 GGATTAGTAT
*
10309625 TTTGTATGAATATT-T--TAAT-
1 TTTGTATGAATATTGTAATATTG
10309644 TTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
10309667 TTTGTATGAATATTGT-A-A-T-
1 TTTGTATGAATATTGTAATATTG
* *
10309686 TTTGTATGGATATTGTGATATTG
1 TTTGTATGAATATTGTAATATTG
10309709 TTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
10309732 TTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
10309755 TTTGTATGAATATTGT-A-A-T-
1 TTTGTATGAATATTGTAATATTG
* *
10309774 TTTGTATGGATATTGTGATATTG
1 TTTGTATGAATATTGTAATATTG
10309797 TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
10309816 TATTTTATAA
Statistics
Matches: 153, Mismatches: 7, Indels: 20
0.85 0.04 0.11
Matches are distributed among these distances:
19 44 0.29
20 5 0.03
21 4 0.03
22 7 0.05
23 93 0.61
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (23 bp):
TTTGTATGAATATTGTAATATTG
Found at i:10309678 original size:42 final size:42
Alignment explanation
Indices: 10309625--10309816 Score: 303
Period size: 42 Copynumber: 4.5 Consensus size: 42
10309615 GGATTAGTAT
*
10309625 TTTGTATGAATATTTTAATTTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATTG
* *
10309667 TTTGTATGAATATTGTAATTTTGTATGGATATTGTGATATTG
1 TTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATTG
10309709 TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGT-A-A-T-TTTGTATGAATATTGTAATATTG
* *
10309755 TTTGTATGAATATTGTAATTTTGTATGGATATTGTGATATTG
1 TTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATTG
10309797 TTTGTATGAATATTGTAATT
1 TTTGTATGAATATTGTAATT
10309817 ATTTTATAAT
Statistics
Matches: 139, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
42 96 0.69
43 2 0.01
44 2 0.01
45 2 0.01
46 37 0.27
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (42 bp):
TTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATTG
Found at i:10309723 original size:65 final size:61
Alignment explanation
Indices: 10309623--10309816 Score: 280
Period size: 65 Copynumber: 3.0 Consensus size: 61
10309613 TTGGATTAGT
*
10309623 ATTTTGTATGAATATTTTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTA
*
10309684 ATTTTGTATGGATATTGTGATATTGTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGT-A-A-T-TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGT-
10309749 A
61 A
* *
10309750 TATTGTTTGTATGAATATTGTAATTTTGTATGGATATTGTGATATTGTTTGTATGAATATTGTA
1 -A-T-TTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTA
10309814 ATT
1 ATT
10309817 ATTTTATAAT
Statistics
Matches: 120, Mismatches: 5, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
61 17 0.14
62 2 0.02
63 2 0.02
64 2 0.02
65 76 0.63
66 2 0.02
67 2 0.02
68 2 0.02
69 15 0.12
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (61 bp):
ATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTA
Found at i:10309814 original size:88 final size:87
Alignment explanation
Indices: 10309625--10309821 Score: 346
Period size: 88 Copynumber: 2.3 Consensus size: 87
10309615 GGATTAGTAT
10309625 TTTGTATGAATATT-T--TAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATT
1 TTTGTATGAATATTGTAATAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATT
10309687 TTGTATGGATATTGTGATATTG
66 TTGTATGGATATTGTGATATTG
*
10309709 TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAATAAT-TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAAT
10309774 TTTGTATGGATATTGTGATATTG
65 TTTGTATGGATATTGTGATATTG
*
10309797 TTTGTATGAATATTGTAATTATTTT
1 TTTGTATGAATATTGTAATAATTTT
10309822 ATAATTAATT
Statistics
Matches: 106, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
84 14 0.13
85 1 0.01
87 6 0.06
88 85 0.80
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (87 bp):
TTTGTATGAATATTGTAATAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATT
TTGTATGGATATTGTGATATTG
Found at i:10309880 original size:60 final size:60
Alignment explanation
Indices: 10309809--10309930 Score: 192
Period size: 60 Copynumber: 2.0 Consensus size: 60
10309799 TGTATGAATA
* * * *
10309809 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGT
10309869 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGT
10309929 TT
1 TT
10309931 AGTTTAGTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
59 6 0.11
60 51 0.89
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGT
Found at i:10310084 original size:15 final size:16
Alignment explanation
Indices: 10310048--10310084 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10310038 CTCATTTAAT
10310048 TTTTATATAATGTAAC
1 TTTTATATAATGTAAC
*
10310064 TTTTATATTATGTAA-
1 TTTTATATAATGTAAC
10310079 TTTTAT
1 TTTTAT
10310085 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTTATATAATGTAAC
Found at i:10318911 original size:22 final size:20
Alignment explanation
Indices: 10318871--10318918 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 20
10318861 GATTTTTTTT
10318871 AAAAATAAAAGAACAGATTC
1 AAAAATAAAAGAACAGATTC
10318891 AAAAA-AAGAAGAACAAGGATTC
1 AAAAATAA-AAGAAC-A-GATTC
10318913 AAAAAT
1 AAAAAT
10318919 TAATGGTGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.08
20 11 0.46
21 1 0.04
22 10 0.42
ACGTcount: A:0.67, C:0.08, G:0.12, T:0.12
Consensus pattern (20 bp):
AAAAATAAAAGAACAGATTC
Found at i:10319815 original size:14 final size:14
Alignment explanation
Indices: 10319796--10319822 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10319786 AATATTTAAA
10319796 ATTTGTCTTTATTT
1 ATTTGTCTTTATTT
10319810 ATTTGTCTTTATT
1 ATTTGTCTTTATT
10319823 GTATATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (14 bp):
ATTTGTCTTTATTT
Found at i:10319877 original size:3 final size:3
Alignment explanation
Indices: 10319871--10319900 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10319861 ATTTTTTTAG
*
10319871 ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10319901 TTGTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:10319922 original size:26 final size:25
Alignment explanation
Indices: 10319888--10319936 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
10319878 TTATTACTAT
*
10319888 TATTATTATTATTTTGTTTTATTTAA
1 TATTATTATTATTTT-ATTTATTTAA
* *
10319914 TATTTTTATTCTTTTATTTATTT
1 TATTATTATTATTTTATTTATTT
10319937 GCTTATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (25 bp):
TATTATTATTATTTTATTTATTTAA
Found at i:10324332 original size:17 final size:17
Alignment explanation
Indices: 10324310--10324342 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10324300 GCTGCATACT
*
10324310 ACTCTCTGGACTTTTGG
1 ACTCTCCGGACTTTTGG
10324327 ACTCTCCGGACTTTTG
1 ACTCTCCGGACTTTTG
10324343 AACTGTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.39
Consensus pattern (17 bp):
ACTCTCCGGACTTTTGG
Found at i:10331867 original size:59 final size:59
Alignment explanation
Indices: 10331803--10331932 Score: 154
Period size: 59 Copynumber: 2.2 Consensus size: 59
10331793 GTTTTGAAAT
* * *
10331803 TTTTTTTTTGTCCAATTTAACAC-CTAAACTTGATAATTATTCTGACATTGGAGCTTGAA
1 TTTTTTTTTGTCCAAGTTAAC-CTCTAAACTTGACAATTATTCTGACATTGGAACTTGAA
* * * * *
10331862 TTTTTTTTTGTCCAAGTTAGCCTTTAAACTTTACAATTATTCTTATATTGGAACTTGAA
1 TTTTTTTTTGTCCAAGTTAACCTCTAAACTTGACAATTATTCTGACATTGGAACTTGAA
**
10331921 GCTTTTTTTGTC
1 TTTTTTTTTGTC
10331933 TTAATCCTTG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 1 0.02
59 59 0.98
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (59 bp):
TTTTTTTTTGTCCAAGTTAACCTCTAAACTTGACAATTATTCTGACATTGGAACTTGAA
Found at i:10334943 original size:20 final size:20
Alignment explanation
Indices: 10334918--10334957 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10334908 CGTAAAATGA
*
10334918 TTTCTGGAAAATATTTTACT
1 TTTCTGGAAAATAATTTACT
*
10334938 TTTCTGTAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
10334958 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:10334947 original size:34 final size:35
Alignment explanation
Indices: 10334903--10334969 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
10334893 CAGTAAAATA
*
10334903 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
*
10334937 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
10334970 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:10335996 original size:31 final size:31
Alignment explanation
Indices: 10335934--10335996 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
10335924 CATCCTAGTA
* * *
10335934 ACTTAAATAAAACTTTTTGAATAGTTTAGTG
1 ACTTAAATAAAACTTTTTAAATAATTCAGTG
10335965 ACTTAAATAAAAAC-TTTTAAATAATTCAGTG
1 ACTTAAAT-AAAACTTTTTAAATAATTCAGTG
10335996 A
1 A
10335997 TCATTTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (31 bp):
ACTTAAATAAAACTTTTTAAATAATTCAGTG
Found at i:10339255 original size:9 final size:9
Alignment explanation
Indices: 10339237--10339268 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
10339227 CGATCGTCGA
10339237 CGCCGGCGC
1 CGCCGGCGC
*
10339246 CGCCGCCGC
1 CGCCGGCGC
10339255 CGCCGGCGC
1 CGCCGGCGC
10339264 CGCCG
1 CGCCG
10339269 TGAACGGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.59, G:0.41, T:0.00
Consensus pattern (9 bp):
CGCCGGCGC
Found at i:10343191 original size:33 final size:31
Alignment explanation
Indices: 10343129--10343191 Score: 72
Period size: 33 Copynumber: 2.0 Consensus size: 31
10343119 TAAGTTAGTC
* * *
10343129 CTTAAATTTAATAATTGTTCTCATATTGGGG
1 CTTAAATTTAATAATTATTCCCACATTGGGG
*
10343160 CTTAAACTTTAGATAATTATTCCCACGTTGGG
1 CTTAAA-TTTA-ATAATTATTCCCACATTGGG
10343192 CTTGGCAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 6 0.23
32 4 0.15
33 16 0.62
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (31 bp):
CTTAAATTTAATAATTATTCCCACATTGGGG
Found at i:10345396 original size:13 final size:13
Alignment explanation
Indices: 10345374--10345406 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10345364 AAACATATTT
10345374 AAAA-AAAAAAGA
1 AAAAGAAAAAAGA
10345386 AAAAGAAAAAAGA
1 AAAAGAAAAAAGA
*
10345399 AGAAGAAA
1 AAAAGAAA
10345407 CAGACTATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAGA
Found at i:10356255 original size:11 final size:11
Alignment explanation
Indices: 10356239--10356265 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10356229 ATATTTGGGG
10356239 TAAAAGTATAA
1 TAAAAGTATAA
10356250 TAAAAGTATAA
1 TAAAAGTATAA
10356261 TAAAA
1 TAAAA
10356266 AGATTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (11 bp):
TAAAAGTATAA
Found at i:10356512 original size:23 final size:24
Alignment explanation
Indices: 10356468--10356512 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10356458 TAACATACAA
*
10356468 GAATAAATTTTTAACGATAAAAAT
1 GAATAAATTTTTAACGAAAAAAAT
10356492 GAATAAATTTTTAAC-AAAAAA
1 GAATAAATTTTTAACGAAAAAA
10356513 GATTCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (24 bp):
GAATAAATTTTTAACGAAAAAAAT
Found at i:10359867 original size:7 final size:7
Alignment explanation
Indices: 10359855--10359880 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10359845 AGGCTAAAAG
10359855 TAAATTA
1 TAAATTA
10359862 TAAATTA
1 TAAATTA
10359869 TAAATTA
1 TAAATTA
10359876 TAAAT
1 TAAAT
10359881 ATAGTAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAAATTA
Found at i:10362691 original size:106 final size:106
Alignment explanation
Indices: 10362506--10362706 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
10362496 AAGCTTTAAG
10362506 AGGATATTTGACTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGACTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
10362571 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
10362612 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGACTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
*
10362677 TTTTCTAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
10362707 GAAAAATTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (106 bp):
AGGATATTTGACTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:10363226 original size:38 final size:38
Alignment explanation
Indices: 10363167--10363272 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
10363157 TATTTTTAAG
*
10363167 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
10363204 AATATGTATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
10363242 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
10363273 TACATATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:10363615 original size:22 final size:23
Alignment explanation
Indices: 10363559--10363615 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
10363549 AGTTTAAAAT
10363559 AAAATATATAAAAGAAAGTCTTA
1 AAAATATATAAAAGAAAGTCTTA
*
10363582 AATAATA-A-AAAAGACAGT-TTA
1 AA-AATATATAAAAGAAAGTCTTA
10363603 AAAATATATAAAA
1 AAAATATATAAAA
10363616 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAATATATAAAAGAAAGTCTTA
Found at i:10364345 original size:13 final size:13
Alignment explanation
Indices: 10364327--10364351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10364317 AAATGCGTAG
10364327 ATAAATAAATGAA
1 ATAAATAAATGAA
10364340 ATAAATAAATGA
1 ATAAATAAATGA
10364352 TAGATGATAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATAAATAAATGAA
Found at i:10367308 original size:15 final size:16
Alignment explanation
Indices: 10367283--10367312 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10367273 ATTTGATTAA
10367283 AAAATATACCAAAAAT
1 AAAATATACCAAAAAT
10367299 AAAA-ATACCAAAAA
1 AAAATATACCAAAAA
10367313 ATTTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATATACCAAAAAT
Found at i:10368225 original size:14 final size:14
Alignment explanation
Indices: 10368206--10368240 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
10368196 TCAAACAGGA
10368206 AATTAGAATCCAGT
1 AATTAGAATCCAGT
10368220 AATTAGAATCCAGT
1 AATTAGAATCCAGT
10368234 AAGTTAG
1 AA-TTAG
10368241 GGTTCAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (14 bp):
AATTAGAATCCAGT
Found at i:10382396 original size:19 final size:17
Alignment explanation
Indices: 10382371--10382418 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 17
10382361 AATTAAGTCC
10382371 TTTATTTATTTACTTATT
1 TTTATTTATTTACTT-TT
**
10382389 TATTATTTCCTTACTTTT
1 T-TTATTTATTTACTTTT
*
10382407 TTTATATATTTA
1 TTTATTTATTTA
10382419 AAATCGTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 8 0.33
18 4 0.17
19 12 0.50
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTTATTTACTTTT
Found at i:10382502 original size:3 final size:3
Alignment explanation
Indices: 10382494--10382558 Score: 62
Period size: 3 Copynumber: 21.7 Consensus size: 3
10382484 TTGTGCCCTT
* * *
10382494 TTA TTA TTA TTA GTA TTG TTA TTTA TTA TTA TT- TTA TTA TCA TCTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA
*
10382540 -TA CTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
10382559 TTTTACATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
2 4 0.08
3 43 0.84
4 4 0.08
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:10383259 original size:123 final size:123
Alignment explanation
Indices: 10383040--10383387 Score: 608
Period size: 123 Copynumber: 2.8 Consensus size: 123
10383030 TTATTTCGAG
*
10383040 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTAT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
10383104 GAAATCGCGCCCTCGTGGACACGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
65 GAAATCGAGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
10383163 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * *
10383228 AAATCGTGCCCTCCTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTT
66 AAATCGAGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
* *
10383286 TTGACATTTTTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
10383351 AAATCGAGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGAGCCCTCGTGGACGCGATTTTGCTACAGTAG
10383388 CAAGTTTGGG
Statistics
Matches: 214, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
123 213 1.00
124 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGAGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
Found at i:10386619 original size:55 final size:55
Alignment explanation
Indices: 10386512--10386639 Score: 213
Period size: 55 Copynumber: 2.3 Consensus size: 55
10386502 ACATTATGTA
* *
10386512 AAATTATGTAAACTTATTAAGCCAAAAATTTTTTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGCCAAAAA-TTTGTGTTAATGGTTAGTAAAATTATC
10386568 AAATTATGTAAAATTATTAAGTCCAAAAA-TTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAG-CCAAAAATTTGTGTTAATGGTTAGTAAAATTATC
10386623 AAATTATGTAAAATTAT
1 AAATTATGTAAAATTAT
10386640 GTTAGAGTTA
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
55 42 0.61
56 20 0.29
57 7 0.10
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGCCAAAAATTTGTGTTAATGGTTAGTAAAATTATC
Found at i:10386666 original size:29 final size:29
Alignment explanation
Indices: 10386633--10386785 Score: 261
Period size: 29 Copynumber: 5.3 Consensus size: 29
10386623 AAATTATGTA
* * *
10386633 AAATTATGTTAGAGTTAGGATTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
10386662 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
10386691 AAATTAAGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
10386720 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
10386749 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
10386778 AAATTAGG
1 AAATTAGG
10386786 GTTTTTATTA
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:10386896 original size:25 final size:25
Alignment explanation
Indices: 10386862--10386972 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
10386852 TTTCTATGCC
*
10386862 TATTATATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
*
10386887 TATTACATCAAAT-AA-TATC-A--A
1 TATTACATCAAATAAACT-TCTATTT
* * * **
10386908 AATAAC-TCGAAA-AAATTTCTATGCG
1 TATTACATC-AAATAAACTTCTAT-TT
10386933 TATTACATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
10386958 TATTACATCAAATAA
1 TATTACATCAAATAA
10386973 TAAATTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
20 2 0.03
21 11 0.17
22 2 0.03
23 2 0.03
24 4 0.06
25 34 0.52
26 11 0.17
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (25 bp):
TATTACATCAAATAAACTTCTATTT
Found at i:10386897 original size:70 final size:71
Alignment explanation
Indices: 10386791--10386974 Score: 316
Period size: 71 Copynumber: 2.6 Consensus size: 71
10386781 TTAGGGTTTT
* *
10386791 TATTACATCAAATAGAACTTCTATTGTATTATATCAAATAATATCAAAATAACTCG-AAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
10386855 CTATGCC
65 CTATGCC
*
10386862 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
*
10386927 TATGCG
66 TATGCC
10386933 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
10386975 AATTTAAATA
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
70 39 0.36
71 68 0.64
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.37
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCC
Found at i:10389197 original size:30 final size:30
Alignment explanation
Indices: 10389163--10389227 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
10389153 GCCATTGATG
10389163 AAAATATAAAAAAAATTAAAATTA-TTTTAA
1 AAAATATAAAAAAAA-TAAAATTATTTTTAA
*
10389193 AAAATATAAAAAATATAAAATTATTTTTAA
1 AAAATATAAAAAAAATAAAATTATTTTTAA
10389223 AAAAT
1 AAAAT
10389228 GAAATTGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 8 0.24
30 25 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAATATAAAAAAAATAAAATTATTTTTAA
Found at i:10389283 original size:29 final size:29
Alignment explanation
Indices: 10389251--10389334 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
10389241 AATTGAAATT
10389251 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
10389280 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
10389302 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
10389331 AAAT
1 AAAT
10389335 TGAGAGGATT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 4 0.10
27 5 0.13
28 4 0.10
29 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.30
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:10389287 original size:51 final size:51
Alignment explanation
Indices: 10389228--10389342 Score: 212
Period size: 51 Copynumber: 2.3 Consensus size: 51
10389218 TTTAAAAAAT
*
10389228 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
10389279 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
10389330 GAAATTGAGAGGA
1 GAAATTGAGAGGA
10389343 TTAGAGAGGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:10389733 original size:17 final size:17
Alignment explanation
Indices: 10389713--10389746 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10389703 TATTATTACA
10389713 ATGATAAGATTATTATT
1 ATGATAAGATTATTATT
* *
10389730 ATGATTATATTATTATT
1 ATGATAAGATTATTATT
10389747 GTAGTATTCC
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:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (17 bp):
ATGATAAGATTATTATT
Found at i:10389895 original size:3 final size:3
Alignment explanation
Indices: 10389887--10389919 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10389877 ATTATTCCTC
10389887 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10389920 CACTAGCATA
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:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10394595 original size:44 final size:44
Alignment explanation
Indices: 10394526--10394651 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 44
10394516 AATTATGGCG
* * * * * *
10394526 AATCTTATCTTTCTGAAGTTGCAGTGAAGCAGATTGAAGCCACC
1 AATCCTATCTCTCTGAAGTTACAGTGAAGCAGATTAAAACCACA
* *
10394570 AATCCTATCTCTCTGAAGTTACAGTGGAGCAGATTAAAACGACA
1 AATCCTATCTCTCTGAAGTTACAGTGAAGCAGATTAAAACCACA
* *
10394614 AATCCTATAC-CTTTGAAGTTACAGT-AGGTCAGATTAAA
1 AATCCTAT-CTCTCTGAAGTTACAGTGAAG-CAGATTAAA
10394652 TCTACCATAA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.01
44 67 0.97
45 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCTCTGAAGTTACAGTGAAGCAGATTAAAACCACA
Found at i:10396268 original size:21 final size:22
Alignment explanation
Indices: 10396242--10396286 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
10396232 TTATTCATTT
*
10396242 TTTTGTT-TTTATTTTATTT-TA
1 TTTTGTTGTTT-TATTATTTCTA
10396263 TTTTGTTGTTTTATTATTTCTA
1 TTTTGTTGTTTTATTATTTCTA
10396285 TT
1 TT
10396287 GATTATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (22 bp):
TTTTGTTGTTTTATTATTTCTA
Found at i:10398877 original size:21 final size:21
Alignment explanation
Indices: 10398852--10398900 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
10398842 CTTGTAATAG
*
10398852 GGAAAAACTTGAAATTTTATA
1 GGAAAAACATGAAATTTTATA
* *
10398873 GGAAATTACATGAATTTTTATA
1 GGAAA-AACATGAAATTTTATA
10398895 -GAAAAA
1 GGAAAAA
10398901 GTTTGGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 9 0.39
22 13 0.57
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.33
Consensus pattern (21 bp):
GGAAAAACATGAAATTTTATA
Found at i:10403572 original size:13 final size:14
Alignment explanation
Indices: 10403549--10403584 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
10403539 GAAGAACAGT
*
10403549 AACATCAAAAACCA
1 AACATCAAAAACAA
10403563 AACA-CAAAAACAA
1 AACATCAAAAACAA
10403576 AACATCAAA
1 AACATCAAA
10403585 CCTTCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.69, C:0.25, G:0.00, T:0.06
Consensus pattern (14 bp):
AACATCAAAAACAA
Found at i:10408088 original size:12 final size:12
Alignment explanation
Indices: 10408071--10408099 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
10408061 CACTTTCTTT
10408071 TACATATATATA
1 TACATATATATA
10408083 TACATATATATA
1 TACATATATATA
10408095 TACAT
1 TACAT
10408100 TTTAGGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
TACATATATATA
Found at i:10415611 original size:21 final size:19
Alignment explanation
Indices: 10415579--10415621 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
10415569 TTATTTTGTC
*
10415579 TTTTTAATTTAATTTTTAAT
1 TTTTTAAATTAA-TTTTAAT
10415599 TTTTTAGAATTAATTTTAAT
1 TTTTTA-AATTAATTTTAAT
10415619 TTT
1 TTT
10415622 CAGTAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTAAATTAATTTTAAT
Found at i:10417210 original size:20 final size:20
Alignment explanation
Indices: 10417174--10417211 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10417164 TAGAGACCGG
*
10417174 ATTAAATTAGTTCATTTACT
1 ATTAAATTAGATCATTTACT
10417194 ATTAAA-TAGATCAATTTA
1 ATTAAATTAGATC-ATTTA
10417212 GATCGCGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (20 bp):
ATTAAATTAGATCATTTACT
Found at i:10425555 original size:17 final size:18
Alignment explanation
Indices: 10425528--10425568 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10425518 AATTGTCATG
10425528 TGTTT-TTTTTTCAAA-A
1 TGTTTATTTTTTCAAATA
*
10425544 TGTTTATTTTTTTAAATA
1 TGTTTATTTTTTCAAATA
10425562 T-TTTATT
1 TGTTTATT
10425569 ATACATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 15 0.68
18 2 0.09
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TGTTTATTTTTTCAAATA
Found at i:10432418 original size:24 final size:24
Alignment explanation
Indices: 10432384--10432435 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
10432374 TTTCTAGAAG
* **
10432384 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
10432408 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
10432432 ATTT
1 ATTT
10432436 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:10434993 original size:17 final size:18
Alignment explanation
Indices: 10434967--10435000 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10434957 ATGAACTACA
10434967 AATAACCAATA-AATACC
1 AATAACCAATACAATACC
*
10434984 AATAAGCAATACAATAC
1 AATAACCAATACAATAC
10435001 ACACAAGAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (18 bp):
AATAACCAATACAATACC
Found at i:10435398 original size:24 final size:24
Alignment explanation
Indices: 10435354--10435497 Score: 63
Period size: 26 Copynumber: 6.0 Consensus size: 24
10435344 ACATATGAAA
10435354 TAATATATATATGGAAA-TTAAAATAT
1 TAATATATA-AT--AAATTTAAAATAT
10435380 TAATATATAATAAATTTAAAAAATAT
1 TAATATATAATAAATTT--AAAATAT
* ** *
10435406 TAATACATGAA-AAGCTTAGAAA-AA
1 TAATATAT-AATAAATTTA-AAATAT
* *
10435430 TAATACATACA-AAA-TTAAAATAA
1 TAATATATA-ATAAATTTAAAATAT
**
10435453 TAATATACGATAAATTTAAACA-AT
1 TAATATATAATAAATTTAAA-ATAT
10435477 GT--TA-ATAATAAATTTAAAATA
1 -TAATATATAATAAATTTAAAATA
10435498 ATGTTGAGCT
Statistics
Matches: 95, Mismatches: 11, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
21 1 0.01
22 17 0.18
23 20 0.21
24 21 0.22
25 7 0.07
26 27 0.28
27 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (24 bp):
TAATATATAATAAATTTAAAATAT
Found at i:10435428 original size:26 final size:26
Alignment explanation
Indices: 10435373--10435454 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
10435363 TATGGAAATT
* *
10435373 AAAATATTAATATATAATAAATTTAA
1 AAAATATTAATACATAATAAACTTAA
* *
10435399 AAAATATTAATACATGAA-AAGCTTAG
1 AAAATATTAATACAT-AATAAACTTAA
10435425 AAAA-A-TAATACATACA-AAA-TTAA
1 AAAATATTAATACATA-ATAAACTTAA
10435448 AATAATA
1 AA-AATA
10435455 ATATACGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
23 6 0.13
24 13 0.28
25 2 0.04
26 23 0.50
27 2 0.04
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAATATTAATACATAATAAACTTAA
Found at i:10438790 original size:12 final size:12
Alignment explanation
Indices: 10438773--10438806 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10438763 TTAGAGAAAT
10438773 TGCAAGAACAGA
1 TGCAAGAACAGA
**
10438785 TGCAAGCTCAGA
1 TGCAAGAACAGA
10438797 TGCAAGAACA
1 TGCAAGAACA
10438807 ACTAGAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (12 bp):
TGCAAGAACAGA
Found at i:10441100 original size:5 final size:5
Alignment explanation
Indices: 10441090--10441141 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
10441080 AGAATGTTCA
*
10441090 AAAAG AAAAG --AAG AAAAG AAAAAG AAAAG AAAAG AAAAG AAGA- AAAAG
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
10441138 AAAA
1 AAAA
10441142 AGGAGAGGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 3 0.07
4 3 0.07
5 30 0.73
6 5 0.12
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:10441113 original size:19 final size:20
Alignment explanation
Indices: 10441089--10441130 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
10441079 AAGAATGTTC
10441089 AAAAAGAAAAG-AAGAAAAG
1 AAAAAGAAAAGAAAGAAAAG
10441108 AAAAAGAAAAGAAAAGAAAAG
1 AAAAAGAAAAG-AAAGAAAAG
10441129 AA
1 AA
10441131 GAAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.52
21 10 0.48
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAGAAAGAAAAG
Found at i:10441119 original size:24 final size:24
Alignment explanation
Indices: 10441090--10441141 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
10441080 AGAATGTTCA
10441090 AAAAGAAAAGAAGAA-AAGAAAAAG
1 AAAAGAAAAGAA-AAGAAGAAAAAG
10441114 AAAAGAAAAGAAAAGAAGAAAAAG
1 AAAAGAAAAGAAAAGAAGAAAAAG
10441138 AAAA
1 AAAA
10441142 AGGAGAGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (24 bp):
AAAAGAAAAGAAAAGAAGAAAAAG
Found at i:10441674 original size:105 final size:106
Alignment explanation
Indices: 10441405--10441726 Score: 411
Period size: 105 Copynumber: 3.0 Consensus size: 106
10441395 GGGCACCTGC
* * *
10441405 TTTCATCTTATTCATTTCGTATATTAGCAAAATTTGCTATCTTGATT-ATTTATTTATTTCGAGC
1 TTTCATCTTATTCATTTCGTATCTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGC
* *
10441469 TTTGTTCTCAATAAAATTCCATCCTGTCCATTGTGATAATCCT
66 TTTG-TCTCAATAAAATTCCATCTTGTCCATTATGATAAT-CT
* * * *
10441512 TTTCATCTTATTGATTTTGGATCTTAGCAAAATTTACTATCCTGATTAATTTATTCATTTCGAGC
1 TTTCATCTTATTCATTTCGTATCTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGC
* *
10441577 TTTGCTCTCAATAAAATTTCATCTTATCCATTATGAT-AT-T
66 TTTG-TCTCAATAAAATTCCATCTTGTCCATTATGATAATCT
* * * * *
10441617 TTTCATCTTATTTAGTTCGTATCTGAGCAAAATTTTCTATCTTGATTAATTTATTCATTTTGAGT
1 TTTCATCTTATTCATTTCGTATCTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAG-
10441682 CTTAT-TCTCAATAAAATTCCATCTTGTCCATCT-TGATAATCT
65 CTT-TGTCTCAATAAAATTCCATCTTGTCCAT-TATGATAATCT
10441724 TTT
1 TTT
10441727 TTAAGCATTT
Statistics
Matches: 187, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
105 85 0.45
106 6 0.03
107 48 0.26
108 48 0.26
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (106 bp):
TTTCATCTTATTCATTTCGTATCTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGC
TTTGTCTCAATAAAATTCCATCTTGTCCATTATGATAATCT
Found at i:10442221 original size:24 final size:24
Alignment explanation
Indices: 10442194--10442251 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
10442184 ATGTCCCAAA
* *
10442194 ATTACCGTGGATTTAACCTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
10442218 ATTACAGTGGATTGAACCTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
*
10442242 ATTATAGTGG
1 ATTACAGTGG
10442252 GGGCAATCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Found at i:10442730 original size:89 final size:89
Alignment explanation
Indices: 10442604--10442862 Score: 243
Period size: 89 Copynumber: 2.9 Consensus size: 89
10442594 AAATTATAGA
* * * * * * *
10442604 GGAGTAGACTAGAAGCAACAAATTTTGTCTTCTTGTACTGGTAGTGAAGCAGATCAAAAACACAA
1 GGAGCAGACTAAAAACAACAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAAACACAA
* * * **
10442669 GTC-TGACCTTCCTGAGTTTGCAGT
66 GCCTTG-CCTCCCTGAGTTTACAAC
* * *
10442693 GGAGCAGACTAAAAACAACAGATCTTGTCTTCCTGTACCGGCAGTGAAGCAGATCGAAAACACCA
1 GGAGCAGACTAAAAACAACAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAAACACAA
*
10442758 GCCTTGTCTCCCTGAGTTTACAAC
66 GCCTTGCCTCCCTGAGTTTACAAC
* * * * * * ** *
10442782 AGAACAGACTAGAAGA-AGCAGATCTTGTCTTCCTGTACTGACAGTGAAGCAAATTGAAGACACA
1 GGAGCAGACTA-AAAACAACAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAAACACA
**
10442846 AGCCTTATCTCCCTGAG
65 AGCCTTGCCTCCCTGAG
10442863 CAACATTGGA
Statistics
Matches: 141, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
89 136 0.96
90 5 0.04
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (89 bp):
GGAGCAGACTAAAAACAACAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAAACACAA
GCCTTGCCTCCCTGAGTTTACAAC
Found at i:10443117 original size:44 final size:44
Alignment explanation
Indices: 10443068--10443207 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 44
10443058 AGCTACAAGC
* *
10443068 CTTATCTCCTTGAGCAGCAACGGAGTAGGTCGAAGATTTTAGAT
1 CTTATCTCCTTGAGCAGCAGCGGAGTAGGTCGAAGATTCTAGAT
* * * * * * *** * *
10443112 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACCAG-C
1 CTTATCTCCTTGAGCAGCAGCGGAGTAGGTCGAAGATTCTAGAT
* * *
10443155 CCTATCTCCTTGAGTAGCAGCGGAGTAGGTCGAAGATTGTAGAT
1 CTTATCTCCTTGAGCAGCAGCGGAGTAGGTCGAAGATTCTAGAT
10443199 CTTATCTCC
1 CTTATCTCC
10443208 CTAAGTAGTA
Statistics
Matches: 67, Mismatches: 28, Indels: 2
0.69 0.29 0.02
Matches are distributed among these distances:
43 29 0.43
44 38 0.57
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (44 bp):
CTTATCTCCTTGAGCAGCAGCGGAGTAGGTCGAAGATTCTAGAT
Found at i:10443164 original size:87 final size:86
Alignment explanation
Indices: 10443050--10443239 Score: 290
Period size: 87 Copynumber: 2.2 Consensus size: 86
10443040 GGCAGTGAAA
* * *
10443050 CAGATCGAAGCTACAAGCCTTATCTCCTTGAGCAGCAACGGAGTAGGTCGAAGATTTTAGATCTT
1 CAGATCGAAGC-ACCAGCCCTATCTCCTTGAGCAGCAACGGAGTAGGTCGAAGATTGTAGATCTT
10443115 ATCTCCCTAAGCAGTAGTGGAG
65 ATCTCCCTAAGCAGTAGTGGAG
* *
10443137 CAGATCGAAGGCACCAGCCCTATCTCCTTGAGTAGCAGCGGAGTAGGTCGAAGATTGTAGATCTT
1 CAGATCGAA-GCACCAGCCCTATCTCCTTGAGCAGCAACGGAGTAGGTCGAAGATTGTAGATCTT
*
10443202 ATCTCCCTAAGTAGTAGTGGAG
65 ATCTCCCTAAGCAGTAGTGGAG
*
10443224 CAAATCGAAAGCACCA
1 CAGATCG-AAGCACCA
10443240 ACCTTATCCC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
87 90 0.96
88 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (86 bp):
CAGATCGAAGCACCAGCCCTATCTCCTTGAGCAGCAACGGAGTAGGTCGAAGATTGTAGATCTTA
TCTCCCTAAGCAGTAGTGGAG
Found at i:10443232 original size:44 final size:44
Alignment explanation
Indices: 10443097--10443232 Score: 121
Period size: 44 Copynumber: 3.1 Consensus size: 44
10443087 ACGGAGTAGG
* *
10443097 TCGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCGAAGATTCTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGA
*** * * * * * * * * *
10443141 TCGAAGGCACCAG-CCCTATCTCCTTGAGTAGCAGCGGAGTAGG
1 TCGAAGATTCTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGA
* *
10443184 TCGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAAA
1 TCGAAGATTCTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGA
10443228 TCGAA
1 TCGAA
10443233 AGCACCAACC
Statistics
Matches: 63, Mismatches: 28, Indels: 2
0.68 0.30 0.02
Matches are distributed among these distances:
43 29 0.46
44 34 0.54
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (44 bp):
TCGAAGATTCTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGA
Found at i:10443293 original size:87 final size:87
Alignment explanation
Indices: 10443078--10443301 Score: 227
Period size: 87 Copynumber: 2.6 Consensus size: 87
10443068 CTTATCTCCT
* * * * * * * *
10443078 TGAGCAGCAACGGAGTAGGTCGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 TGAGTAGCAGCGGAGCAAGTCGAAGATTGTAGATCTGATCTCCCTAAGTAGTAGTGGAGCAAATC
* * * *
10443143 GAAGGCACCAGCCCTATCTCCT
66 GAAAGCACCAACCCTATCCCCC
* * *
10443165 TGAGTAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAAATC
1 TGAGTAGCAGCGGAGCAAGTCGAAGATTGTAGATCTGATCTCCCTAAGTAGTAGTGGAGCAAATC
*
10443230 GAAAGCACCAACCTTATCCCCC
66 GAAAGCACCAACCCTATCCCCC
* * * *
10443252 TGAAGTTGCAGTGGGGCAAGTTGAAGATATG-AG-TCTGATCTCCCTGAAGT
1 TG-AGTAGCAGCGGAGCAAGTCGAAGAT-TGTAGATCTGATCTCCCT-AAGT
10443302 TGCAATGGAA
Statistics
Matches: 117, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
87 90 0.77
88 25 0.21
89 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (87 bp):
TGAGTAGCAGCGGAGCAAGTCGAAGATTGTAGATCTGATCTCCCTAAGTAGTAGTGGAGCAAATC
GAAAGCACCAACCCTATCCCCC
Found at i:10443640 original size:44 final size:45
Alignment explanation
Indices: 10443530--10443642 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 45
10443520 TAACAAGTCT
* * * * * *
10443530 TATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGTGAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATACTGAATCC
* * *
10443575 TATGTCCCTGAAGTCGCAGTGGAGTAGACTGAAGCTACT-AATCC
1 TATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATACTGAATCC
*
10443619 TATCTCCCTGAAGTTGTAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
10443643 CGGATTAAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
44 24 0.43
45 32 0.57
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATACTGAATCC
Found at i:10445916 original size:30 final size:30
Alignment explanation
Indices: 10445881--10445943 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
10445871 CAAATACATT
* *
10445881 TATATACATGCATACGTA-TTTTATGATAGA
1 TATATACATACATACATACTTTTAT-ATAGA
* *
10445911 TATATATATACATACATACTTTTATATATA
1 TATATACATACATACATACTTTTATATAGA
10445941 TAT
1 TAT
10445944 TATCGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (30 bp):
TATATACATACATACATACTTTTATATAGA
Found at i:10446430 original size:5 final size:5
Alignment explanation
Indices: 10446420--10446445 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10446410 TAGTTTGTCC
10446420 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
10446446 AGCCTTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:10446969 original size:29 final size:31
Alignment explanation
Indices: 10446907--10446980 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 31
10446897 ACTACCAAAA
* *
10446907 TAGTCACTTTTGTTTGGCACATGTTACATTT
1 TAGTCACTTATGTTTGGCAAATGTTACATTT
*
10446938 TAGTCACTTATGTTT-G-AAATGTTACGTTT
1 TAGTCACTTATGTTTGGCAAATGTTACATTT
10446967 TAGTCACTTATGTT
1 TAGTCACTTATGTT
10446981 ATCACGTAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 25 0.62
30 1 0.03
31 14 0.35
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.49
Consensus pattern (31 bp):
TAGTCACTTATGTTTGGCAAATGTTACATTT
Found at i:10450251 original size:26 final size:26
Alignment explanation
Indices: 10450188--10450253 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
10450178 AGTTTGGCAA
10450188 TGCTTTTGAAAAGTCTTTTTAAAAAG
1 TGCTTTTGAAAAGTCTTTTTAAAAAG
** * *
10450214 TGC-CGTGAAAAAGTAC-TTTTGAGAAG
1 TGCTTTTG-AAAAGT-CTTTTTAAAAAG
10450240 TGCTTTTGAAAAGT
1 TGCTTTTGAAAAGT
10450254 TTGGTTTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
25 2 0.06
26 26 0.84
27 3 0.10
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (26 bp):
TGCTTTTGAAAAGTCTTTTTAAAAAG
Found at i:10454053 original size:16 final size:16
Alignment explanation
Indices: 10454029--10454063 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
10454019 ATAATCACTT
*
10454029 AATAGTATTAATTAAC
1 AATAATATTAATTAAC
10454045 AATAATATTAATTAAC
1 AATAATATTAATTAAC
10454061 AAT
1 AAT
10454064 CATTTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (16 bp):
AATAATATTAATTAAC
Found at i:10454954 original size:21 final size:21
Alignment explanation
Indices: 10454928--10454998 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
10454918 TTTTACTTTG
* *
10454928 CTCTGCTTCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTGCCGC
*
10454949 CTCTGCTTTCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCCGC
*
10454970 CTCTACTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCCGC
10454991 CTCTGCTT
1 CTCTGCTT
10454999 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.04, C:0.48, G:0.15, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCCGC
Found at i:10459248 original size:22 final size:21
Alignment explanation
Indices: 10459220--10459260 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
10459210 TGCTATGCAA
*
10459220 ATAATTTTTTTCTATTTTTTTT
1 ATAATTTTATT-TATTTTTTTT
10459242 ATAATTTTATTTATTTTTT
1 ATAATTTTATTTATTTTTT
10459261 GCGGCGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
ATAATTTTATTTATTTTTTTT
Found at i:10459542 original size:104 final size:106
Alignment explanation
Indices: 10459317--10459610 Score: 438
Period size: 105 Copynumber: 2.8 Consensus size: 106
10459307 TTTTTGATAT
*
10459317 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTCTGCACAAAATTTTTTATTTTGTTTTTT-TA
1 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTTATTTTGTTTTTTATA
* * *
10459381 AATTGATTTATTTTTTGCGGCGTTTTTATGGAAAACGCCGC
66 AATTGATTTATTTTCTGCGGCGTTTTTATGAAAAACGCCAC
* *
10459422 AATTTCATTTTGAACAAAATGACGCCGTTTTTCTATGCACAAAATTTTTTATTTTGTTTTTTATA
1 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTTATTTTGTTTTTTATA
10459487 AATTGATTT-TTTTCT-CGGCGTTTTTATGAAAAACGCCAC
66 AATTGATTTATTTTCTGCGGCGTTTTTATGAAAAACGCCAC
* *
10459526 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCA-AATAATTTTTT-TATTATTTTTTAT
1 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAA-AATTTTTTATTTTGTTTTTTAT
* *
10459589 AATTTTATTTATATTT-TGCGGC
65 AAATTGATTTAT-TTTCTGCGGC
10459611 CGCTATTGCT
Statistics
Matches: 172, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
103 21 0.12
104 69 0.40
105 71 0.41
106 11 0.06
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (106 bp):
TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTTATTTTGTTTTTTATA
AATTGATTTATTTTCTGCGGCGTTTTTATGAAAAACGCCAC
Found at i:10459590 original size:21 final size:21
Alignment explanation
Indices: 10459566--10459605 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10459556 TGCTATGCAA
10459566 ATAATTTT-TTTATTATTTTTT
1 ATAATTTTATTTA-TATTTTTT
10459587 ATAATTTTATTTATATTTT
1 ATAATTTTATTTATATTTT
10459606 GCGGCCGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
ATAATTTTATTTATATTTTTT
Found at i:10460012 original size:14 final size:14
Alignment explanation
Indices: 10459993--10460027 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
10459983 AACCTTAAAT
10459993 CCCTAAC-TCTTAAC
1 CCCTAACGTC-TAAC
10460007 CCCTAACGTCTAAC
1 CCCTAACGTCTAAC
10460021 CCCTAAC
1 CCCTAAC
10460028 CCCTAAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.29, C:0.46, G:0.03, T:0.23
Consensus pattern (14 bp):
CCCTAACGTCTAAC
Found at i:10460072 original size:50 final size:50
Alignment explanation
Indices: 10459968--10460091 Score: 119
Period size: 50 Copynumber: 2.5 Consensus size: 50
10459958 CCTTAACTCG
* * * * *
10459968 ACCCCTGAATCCCTAAACCTTAAATCCCTAACTCTTAACCCCTAACGTCTA
1 ACCCCT-AACCCCTAAACCTTAAATCCCTAACCCTTAAACCATAACGCCTA
*
10460019 ACCCCTAACCCCTAAACCTTAAATCCC-AACCCTTAAATCATAATC-CCTA
1 ACCCCTAACCCCTAAACCTTAAATCCCTAACCCTTAAACCATAA-CGCCTA
* *
10460068 AACCC-ATGCTCCCTAAACCTTAAA
1 ACCCCTA-AC-CCCTAAACCTTAAA
10460092 ATATGAACTC
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
48 1 0.02
49 20 0.32
50 35 0.56
51 6 0.10
ACGTcount: A:0.35, C:0.40, G:0.02, T:0.23
Consensus pattern (50 bp):
ACCCCTAACCCCTAAACCTTAAATCCCTAACCCTTAAACCATAACGCCTA
Found at i:10460362 original size:14 final size:14
Alignment explanation
Indices: 10460345--10460371 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10460335 AACCCTTAAA
10460345 CCATAATCCCTAAT
1 CCATAATCCCTAAT
10460359 CCATAATCCCTAA
1 CCATAATCCCTAA
10460372 ACCCATACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:10460592 original size:115 final size:114
Alignment explanation
Indices: 10460460--10460950 Score: 610
Period size: 115 Copynumber: 4.3 Consensus size: 114
10460450 AAACCCTATT
* * * * *
10460460 TTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGTATTAGTGGCGCTTTCCTAAAC
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTT-CTAAAA
*
10460525 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATG
65 AACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATG
* * *
10460575 TCTTTTTGCGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTAAAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTAAAAA
** **
10460640 ACGCCACTAAATCTGCGAAAGCTCAGAAAACAACGTCGTTGGGCTTA-G
66 ACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATG
* * * * *
10460688 TTTATTTTGTGGCGCTTTCTCAAAAATGCCGCTAAAGCCCTTAGCATTAACGGTGCTTTCTAAAG
1 TTT-TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTAAA-
* *
10460753 AAACGCCGCTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCTTATG
64 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATG
* * * * * * * * *
10460804 TTTCTTTGCAGTGCTTCCACAAAAACGCCGCTAAAGCACTGAACATTAGCGGCGATTTCTACAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTAAAAA
* * * *
10460869 ATGCCACTAAGTCCCCGAAAGC-CAGAAAACGGGGTCGTTGGGCTTAGG
66 ACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATG
* * *
10460917 TTTTTTTG-GGCGCTTTGTCAAAAATGTCGCTAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
10460951 TCCACGAAAG
Statistics
Matches: 318, Mismatches: 55, Indels: 9
0.83 0.14 0.02
Matches are distributed among these distances:
112 19 0.06
113 34 0.11
114 121 0.38
115 140 0.44
116 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (114 bp):
TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTAAAAA
ACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATG
Found at i:10460877 original size:229 final size:227
Alignment explanation
Indices: 10460460--10460950 Score: 664
Period size: 229 Copynumber: 2.1 Consensus size: 227
10460450 AAACCCTATT
* * * ** *
10460460 TTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGTATTAGTGGCGCTTTCCTAAAC
1 TTTTTTTG-GGCGCTTTCTCAAAAATGCCGCTAAAGACCTGAGCATTAACGGCGCTTTCCTAAAA
* *
10460525 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTGCGGTGCT
65 AACGCCGCTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTGCAGTGCT
* * * * * **
10460590 TTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTAAAAAACGCCACTAAATCTG
130 TCCACAAAAACGCCGCTAAAGCACTGAACATTAGCGGCGATTCCTAAAAAACGCCACTAAATCCC
10460655 CGAAAGCTCAGAAAACAACGTCGTTGGGCTTA-G
195 CGAAAGC-CAGAAAACAACGTCGTTGGGCTTAGG
* * *
10460688 TTTATTTTGTGGCGCTTTCTCAAAAATGCCGCTAAAGCCCTTAGCATTAACGGTGCTTT-CTAAA
1 TTT-TTTTG-GGCGCTTTCTCAAAAATGCCGCTAAAGACCTGAGCATTAACGGCGCTTTCCTAAA
10460752 GAAACGCCGCTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCTTATGT-TTCTTTGCAGT
64 -AAACGCCGCTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCTTATGTCTT-TTTGCAGT
* * * *
10460816 GCTTCCACAAAAACGCCGCTAAAGCACTGAACATTAGCGGCGATTTCTACAAAATGCCACTAAGT
127 GCTTCCACAAAAACGCCGCTAAAGCACTGAACATTAGCGGCGATTCCTAAAAAACGCCACTAAAT
***
10460881 CCCCGAAAGCCAGAAAACGGGGTCGTTGGGCTTAGG
192 CCCCGAAAGCCAGAAAACAACGTCGTTGGGCTTAGG
* *
10460917 TTTTTTTGGGCGCTTTGTCAAAAATGTCGCTAAA
1 TTTTTTTGGGCGCTTTCTCAAAAATGCCGCTAAA
10460951 TCCACGAAAG
Statistics
Matches: 231, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
227 24 0.10
228 36 0.16
229 171 0.74
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (227 bp):
TTTTTTTGGGCGCTTTCTCAAAAATGCCGCTAAAGACCTGAGCATTAACGGCGCTTTCCTAAAAA
ACGCCGCTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTGCAGTGCTT
CCACAAAAACGCCGCTAAAGCACTGAACATTAGCGGCGATTCCTAAAAAACGCCACTAAATCCCC
GAAAGCCAGAAAACAACGTCGTTGGGCTTAGG
Found at i:10461012 original size:72 final size:71
Alignment explanation
Indices: 10460866--10461011 Score: 179
Period size: 71 Copynumber: 2.1 Consensus size: 71
10460856 CGATTTCTAC
* * **
10460866 AAAATGCCACTAAGTCCCCGAAAGCCAGAAAACGGGGTCGTTGGGCTTAGGTTTTTTTGGGCGCT
1 AAAATGCCACTAAATCCACGAAAGCCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGGGCGCT
*
10460931 TTGTCA
66 TTCTCA
* * * *
10460937 AAAATGTCGCTAAATCCACGAAAGCTCAGAAAACGACGTCGTTGGGCTTATG-TTTTTTGCGGTG
1 AAAATGCCACTAAATCCACGAAAGC-CAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTG-GGCG
10461001 C-TTCTCA
64 CTTTCTCA
10461008 AAAA
1 AAAA
10461012 ACGCTGCTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
71 37 0.58
72 27 0.42
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (71 bp):
AAAATGCCACTAAATCCACGAAAGCCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGGGCGCT
TTCTCA
Found at i:10461070 original size:184 final size:186
Alignment explanation
Indices: 10460759--10461106 Score: 528
Period size: 185 Copynumber: 1.9 Consensus size: 186
10460749 AAAGAAACGC
* *
10460759 CGCTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCTTATGTTTCTTTGCAGTGCTTCCAC
1 CGCTAAATCCACGAAAACTCAGAAAACGACGTCGTTGGGCTTATGTTTCTTTGCAGTGCTTCCAC
* *
10460824 AAAAACGCCGCTAAAGCACTGAACATTAGCGGCGATTTCTACAAAATGCCACTAAGTCCCCGAAA
66 AAAAACGCCGCTAAAGCACTGAACATTAGCGGCGATTTCTACAAAACGCCACTAAATCCCCGAAA
*
10460889 GC-CAGAAAACGGGGTCGTTGGGCTTAGGTTTTTTTGGGCGCTTTGTCAAAAATGT
131 GCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGGGCGCTTTGTCAAAAATGT
* *
10460944 CGCTAAATCCACGAAAGCTCAGAAAACGACGTCGTTGGGCTTATGTTT-TTTGCGGTGCTTCTCA
1 CGCTAAATCCACGAAAACTCAGAAAACGACGTCGTTGGGCTTATGTTTCTTTGCAGTGCTTC-CA
* **
10461008 -AAAAACGCTGCTAAAGC-CTTGGGCATTAGCGGC-ACTTTCCTA-AAAACGCCACTAAATCCCC
65 CAAAAACGCCGCTAAAGCAC-TGAACATTAGCGGCGA-TTT-CTACAAAACGCCACTAAATCCCC
10461069 GAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
127 GAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
10461107 GCGGCGCTTT
Statistics
Matches: 148, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
183 2 0.01
184 66 0.45
185 80 0.54
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (186 bp):
CGCTAAATCCACGAAAACTCAGAAAACGACGTCGTTGGGCTTATGTTTCTTTGCAGTGCTTCCAC
AAAAACGCCGCTAAAGCACTGAACATTAGCGGCGATTTCTACAAAACGCCACTAAATCCCCGAAA
GCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGGGCGCTTTGTCAAAAATGT
Found at i:10462698 original size:12 final size:12
Alignment explanation
Indices: 10462681--10462706 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10462671 TTTTCAATTT
10462681 TTGAAATTTTTA
1 TTGAAATTTTTA
10462693 TTGAAATTTTTA
1 TTGAAATTTTTA
10462705 TT
1 TT
10462707 TTGTTCAAAA
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTGAAATTTTTA
Found at i:10464039 original size:20 final size:20
Alignment explanation
Indices: 10464014--10464051 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10464004 TTGAAGGTCC
10464014 AAAACTACAA-GCCCAAATAA
1 AAAACTA-AAGGCCCAAATAA
10464034 AAAACTAAAGGCCCAAAT
1 AAAACTAAAGGCCCAAAT
10464052 CGCCCAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.58, C:0.24, G:0.08, T:0.11
Consensus pattern (20 bp):
AAAACTAAAGGCCCAAATAA
Found at i:10465274 original size:117 final size:114
Alignment explanation
Indices: 10465146--10465374 Score: 334
Period size: 117 Copynumber: 2.0 Consensus size: 114
10465136 TCAATTAATT
* *
10465146 TCAATTTTATATTT-TATTTATTTATTTATTATTCTTTTACTTTTTAAATACCTAAATTTAATAT
1 TCAATTTTATATTTGT-TTTATTTATTTATTATTCTTTTACTTCTTAAAAACCTAAATTT-ATAT
* * * **
10465210 GATTTGCATTTGTTTTATCTATTTATTTATTATTCTTTTATTTTTTAAATACC
64 --TATGCATCTGGTTTATCTATTTATTTATTATTCTTTTACCTTTTAAATACC
*
10465263 TCAATTTTATATTTGTTTTATTTATTTATTATTCTTTTACTTCTTAAAAACTTAAATTTATATTA
1 TCAATTTTATATTTGTTTTATTTATTTATTATTCTTTTACTTCTTAAAAACCTAAATTTATATTA
*
10465328 TGTATCTGGTTTATCTATTTATTTATTATTCTTTTACCTTTTAAATA
66 TGCATCTGGTTTATCTATTTATTTATTATTCTTTTACCTTTTAAATA
10465375 TTTAAATTAG
Statistics
Matches: 102, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
114 43 0.42
116 4 0.04
117 54 0.53
118 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.61
Consensus pattern (114 bp):
TCAATTTTATATTTGTTTTATTTATTTATTATTCTTTTACTTCTTAAAAACCTAAATTTATATTA
TGCATCTGGTTTATCTATTTATTTATTATTCTTTTACCTTTTAAATACC
Found at i:10465321 original size:52 final size:51
Alignment explanation
Indices: 10465229--10465326 Score: 142
Period size: 52 Copynumber: 1.9 Consensus size: 51
10465219 TTGTTTTATC
* * * *
10465229 TATTTATTTATTATTCTTTTATTTTTTAAATACCTCAATTTTATATTTGTTT
1 TATTTATTTATTATTCTTTTACTTCTTAAAAACCT-AAATTTATATTTGTTT
*
10465281 TATTTATTTATTATTCTTTTACTTCTTAAAAACTTAAATTTATATT
1 TATTTATTTATTATTCTTTTACTTCTTAAAAACCTAAATTTATATT
10465327 ATGTATCTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 10 0.24
52 31 0.76
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (51 bp):
TATTTATTTATTATTCTTTTACTTCTTAAAAACCTAAATTTATATTTGTTT
Found at i:10465389 original size:114 final size:116
Alignment explanation
Indices: 10465154--10465389 Score: 307
Period size: 114 Copynumber: 2.0 Consensus size: 116
10465144 TTTCAATTTT
* * *
10465154 ATATTTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACCTAAATTTAATATGATTTGCAT
1 ATATTTTATTTATTTATTTATTATTCTTTTACTTCTTAAAAACCTAAATTTAATAT-ATATGCAT
* * ** * **
10465219 TTGTTTTATCTATTTATTTATTATTCTTTTATTTTTTAAATACCTCAATTTT
65 CTGGTTTATCTATTTATTTATTATTCTTTTACCTTTTAAATACCTAAATTAG
* *
10465271 ATATTTGT-TTTATTTATTTATTATTCTTTTACTTCTTAAAAACTTAAATTT-ATAT-TATGTAT
1 ATATTT-TATTTATTTATTTATTATTCTTTTACTTCTTAAAAACCTAAATTTAATATATATGCAT
**
10465333 CTGGTTTATCTATTTATTTATTATTCTTTTACCTTTTAAATATTTAAATTAG
65 CTGGTTTATCTATTTATTTATTATTCTTTTACCTTTTAAATACCTAAATTAG
10465385 ATATT
1 ATATT
10465390 ACTTATACTT
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
114 53 0.51
116 4 0.04
117 46 0.44
118 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.60
Consensus pattern (116 bp):
ATATTTTATTTATTTATTTATTATTCTTTTACTTCTTAAAAACCTAAATTTAATATATATGCATC
TGGTTTATCTATTTATTTATTATTCTTTTACCTTTTAAATACCTAAATTAG
Found at i:10469646 original size:24 final size:24
Alignment explanation
Indices: 10469613--10469673 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
10469603 CTAGACTAAT
10469613 CAGAGTTTGATTGAAACAAATAAA
1 CAGAGTTTGATTGAAACAAATAAA
*
10469637 TAGAGTTTGATTGAAACAAATAAA
1 CAGAGTTTGATTGAAACAAATAAA
*
10469661 CAGAGTTTAATTG
1 CAGAGTTTGATTG
10469674 GAAGATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.30
Consensus pattern (24 bp):
CAGAGTTTGATTGAAACAAATAAA
Found at i:10475710 original size:14 final size:13
Alignment explanation
Indices: 10475689--10475737 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
10475679 GAAAGTAGGG
10475689 AAAAAATAAATAA
1 AAAAAATAAATAA
10475702 AATAAAATAAAATAA
1 AA-AAAAT-AAATAA
* *
10475717 AAATAAGAAATAA
1 AAAAAATAAATAA
10475730 AAAGAAAT
1 AAA-AAAT
10475738 CAAAGACTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 11 0.38
14 10 0.34
15 8 0.28
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAAATAAATAA
Found at i:10476476 original size:41 final size:44
Alignment explanation
Indices: 10476419--10476530 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 44
10476409 TTTATTCAGT
* * * *
10476419 CTGCTCCGCTACAACTTCAGGGAGATAAGA-CC-T-AATGTGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATCCATCAATGTAAC
* * * * * *
10476460 CTGCTCTACTGTAACTTTAGAGAGATAAGATCCATCATTTTAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATCCATCAATGTAAC
10476504 CTGCTCCACTGCAACTTCAGGGAGATA
1 CTGCTCCACTGCAACTTCAGGGAGATA
10476531 GGATTGGTTT
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
41 24 0.44
42 2 0.04
43 1 0.02
44 27 0.50
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATCCATCAATGTAAC
Found at i:10476706 original size:45 final size:46
Alignment explanation
Indices: 10476605--10476713 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 46
10476595 TAATCTGTTG
* *
10476605 CAACGCTAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCTACTA
1 CAACGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCCACTA
* * ** *
10476651 CAACGCCAGGGAAA-AAGATTCGTTGCCTTCAGCTTTGCTCCACTG
1 CAACGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCCACTA
** *
10476696 CAACTTCAGGGAGATAAG
1 CAACGCCAGGGAAATAAG
10476714 GCTGGTGACT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 36 0.69
46 16 0.31
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (46 bp):
CAACGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCCACTA
Found at i:10477004 original size:51 final size:51
Alignment explanation
Indices: 10476866--10477007 Score: 167
Period size: 51 Copynumber: 2.8 Consensus size: 51
10476856 CCTTAACTTT
*
10476866 AACGCCAGGGAGATAAGATTTGCTGCCTTCAGCTTTAATCTACTCCACTGC
1 AACGCCAGGGAGATAAGATCTGCTGCCTTCAGCTTTAATCTACTCCACTGC
* * * * * * * *
10476917 AACGCCAGGGAAACAAGATCCGCTACTTTTAGCTTTAATCTATTCCACTGT
1 AACGCCAGGGAGATAAGATCTGCTGCCTTCAGCTTTAATCTACTCCACTGC
* * * *
10476968 AATGCCAAGGAGATAGGATCTGCTGCCTTCAACTTTAATC
1 AACGCCAGGGAGATAAGATCTGCTGCCTTCAGCTTTAATC
10477008 CGCTTCACTT
Statistics
Matches: 72, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (51 bp):
AACGCCAGGGAGATAAGATCTGCTGCCTTCAGCTTTAATCTACTCCACTGC
Found at i:10477103 original size:51 final size:51
Alignment explanation
Indices: 10477019--10477119 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
10477009 GCTTCACTTC
* *
10477019 AGCTTTAATCTATTCAACTGCAATGTCAGGGAAACAAGATTCGCTGCCTTT
1 AGCTTTAATCTATTCAACTGCAACGTCAAGGAAACAAGATTCGCTGCCTTT
* * *
10477070 AGCTTTAATCTGTTCCACTGCAACG-CTAAGGAAATAAGATTCGCTGCCTT
1 AGCTTTAATCTATTCAACTGCAACGTC-AAGGAAACAAGATTCGCTGCCTT
10477120 CAGTCTGCTC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 1 0.02
51 43 0.98
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (51 bp):
AGCTTTAATCTATTCAACTGCAACGTCAAGGAAACAAGATTCGCTGCCTTT
Found at i:10477116 original size:123 final size:123
Alignment explanation
Indices: 10476892--10477121 Score: 327
Period size: 123 Copynumber: 1.9 Consensus size: 123
10476882 GATTTGCTGC
* *
10476892 CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATCCGCTACTTTTAGCTTTAATC
1 CTTCAGCTTTAATCTACTCAACTGCAACGCCAGGGAAACAAGATCCGCTACCTTTAGCTTTAATC
* * * *
10476957 TATTCCACTGTAATGCCAAGGAGATAGGATCTGCTGCCTTCAACTTTAATCCGCTTCA
66 TATTCCACTGCAACGCCAAGGAAATAAGATCTGCTGCCTTCAACTTTAATCCGCTTCA
* * * * *
10477015 CTTCAGCTTTAATCTATTCAACTGCAATGTCAGGGAAACAAGATTCGCTGCCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTACTCAACTGCAACGCCAGGGAAACAAGATCCGCTACCTTTAGCTTTAATC
* *
10477080 TGTTCCACTGCAACGCTAAGGAAATAAGAT-TCGCTGCCTTCA
66 TATTCCACTGCAACGCCAAGGAAATAAGATCT-GCTGCCTTCA
10477122 GTCTGCTCTA
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
122 1 0.01
123 92 0.99
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (123 bp):
CTTCAGCTTTAATCTACTCAACTGCAACGCCAGGGAAACAAGATCCGCTACCTTTAGCTTTAATC
TATTCCACTGCAACGCCAAGGAAATAAGATCTGCTGCCTTCAACTTTAATCCGCTTCA
Found at i:10478531 original size:45 final size:45
Alignment explanation
Indices: 10478424--10478534 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 45
10478414 CTTTAAGCGT
* * **
10478424 CCTTTACGCGTTTTCACATTGGTCTCTTTTTAGGACTAAAAATGC
1 CCTTTACGGGTTTTCACCTTGGTCTCTTTTTAGGACTAAAAACAC
* *
10478469 CCTTTACGGGTTTTCACCTTGGTCTTTTTTTAGGACTGAAAACAC
1 CCTTTACGGGTTTTCACCTTGGTCTCTTTTTAGGACTAAAAACAC
10478514 CCTTTACGGGTTTTCACCTTG
1 CCTTTACGGGTTTTCACCTTG
10478535 ATACCTTCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (45 bp):
CCTTTACGGGTTTTCACCTTGGTCTCTTTTTAGGACTAAAAACAC
Found at i:10490708 original size:3 final size:3
Alignment explanation
Indices: 10490687--10490731 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
10490677 AATGGAAACC
* * *
10490687 ATA A-A ATA ATA TTA CTA ATA ATA ATG ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10490732 AGTTAAAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10491739 original size:14 final size:13
Alignment explanation
Indices: 10491718--10491757 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
10491708 GGAAGTAGGG
10491718 AAAAAATAAATAAA
1 AAAAAATAAA-AAA
*
10491732 ATAAAATAAAAAA
1 AAAAAATAAAAAA
10491745 AAAGAAATAAAAA
1 AAA-AAATAAAAA
10491758 GAAATCGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAA
Found at i:10492329 original size:27 final size:26
Alignment explanation
Indices: 10492279--10492330 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10492269 CGTGAACTTT
* *
10492279 TTTTCTTTTTCTTTCTATTTTTCTCC
1 TTTTCTTTTTCTATCTATTCTTCTCC
*
10492305 TTTTCTTTTTCTCATCTCTTCTTCTC
1 TTTTCTTTTTCT-ATCTATTCTTCTC
10492331 AAAGCCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTCTTTTTCTATCTATTCTTCTCC
Found at i:10492981 original size:3 final size:3
Alignment explanation
Indices: 10492973--10493002 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10492963 GCTAAAATGG
10492973 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10493003 AACCCTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10495215 original size:41 final size:41
Alignment explanation
Indices: 10495147--10495330 Score: 259
Period size: 41 Copynumber: 4.5 Consensus size: 41
10495137 GAGTTTTTGG
* * *
10495147 GGTCTTTAACGACATTTTCTGAA-AAGCGCCGCTAATGCTCA
1 GGTCTTTAGCGGCGTTTT-TGAATAAGCGCCGCTAATGCTCA
10495188 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
* *
10495229 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTCG
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
*
10495270 GGTCTTTAGCGGCGTTTTT-AATAAGCGCCGCTAATGTTC-
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
10495309 -GTACCTTTAGCGGCGTTTTTGA
1 GGT--CTTTAGCGGCGTTTTTGA
10495331 GGAAGCGCTG
Statistics
Matches: 133, Mismatches: 6, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
38 2 0.02
40 39 0.29
41 92 0.69
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (41 bp):
GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
Found at i:10495337 original size:81 final size:81
Alignment explanation
Indices: 10495161--10495338 Score: 254
Period size: 81 Copynumber: 2.2 Consensus size: 81
10495151 TTTAACGACA
10495161 TTTTCTGAA-AAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATG
1 TTTT-TGAAGAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATG
10495225 CTCAGGTCTTTAGCGGCG
65 CTCA-GTCTTTAGCGGCG
* * * *
10495243 TTTTTTAATAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTT-AATAAGCGCCGCTAATGT
1 TTTTTGAAGAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGC
10495307 TC-GTACCTTTAGCGGCG
66 TCAGT--CTTTAGCGGCG
*
10495324 TTTTTGAGGAAGCGC
1 TTTTTGAAGAAGCGC
10495339 TGCAAAAACA
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
79 2 0.02
81 45 0.52
82 40 0.46
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (81 bp):
TTTTTGAAGAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGC
TCAGTCTTTAGCGGCG
Found at i:10495486 original size:26 final size:26
Alignment explanation
Indices: 10495438--10495488 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
10495428 AAAATGGATA
** * *
10495438 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
10495464 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
10495489 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:10495937 original size:20 final size:21
Alignment explanation
Indices: 10495903--10495941 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10495893 TAAATAATGT
10495903 TTAGGGGTTAGGGATTTAGGG
1 TTAGGGGTTAGGGATTTAGGG
*
10495924 TTAGGGTTTA-GGATTTAG
1 TTAGGGGTTAGGGATTTAG
10495942 ATTAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (21 bp):
TTAGGGGTTAGGGATTTAGGG
Found at i:10495941 original size:14 final size:14
Alignment explanation
Indices: 10495902--10495935 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
10495892 TTAAATAATG
10495902 TTTAGGGGTTAGGGA
1 TTTA-GGGTTAGGGA
10495917 TTTAGGGTTAGGG-
1 TTTAGGGTTAGGGA
10495930 TTTAGG
1 TTTAGG
10495936 ATTTAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 9 0.47
15 4 0.21
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (14 bp):
TTTAGGGTTAGGGA
Found at i:10496079 original size:89 final size:89
Alignment explanation
Indices: 10495923--10496164 Score: 434
Period size: 89 Copynumber: 2.7 Consensus size: 89
10495913 GGGATTTAGG
10495923 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTT-ATTTATATATTAAATAATGTTTAGAGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGAGGT
* *
10495987 TATGGGTTAGTGATTTGGGGTCGA
66 TATGGGTTAGTGATTCGGGGTCAA
10496011 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGAGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGAGGT
10496076 TATGGGTTAGTGATTCGGGGTCAA
66 TATGGGTTAGTGATTCGGGGTCAA
* *
10496100 GTTAGGTTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATATTTAG-GGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGAGGT
10496164 T
66 T
10496165 TAGGGGTAAG
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
88 40 0.27
89 109 0.73
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (89 bp):
GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGAGGT
TATGGGTTAGTGATTCGGGGTCAA
Found at i:10496168 original size:7 final size:7
Alignment explanation
Indices: 10496156--10496199 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
10496146 TTAAATAATA
10496156 TTTAGGG
1 TTTAGGG
10496163 TTTAGGG
1 TTTAGGG
* *
10496170 GTAAGGG
1 TTTAGGG
*
10496177 TTTGGGG
1 TTTAGGG
*
10496184 TTTGGGG
1 TTTAGGG
10496191 TTTAGGG
1 TTTAGGG
10496198 TT
1 TT
10496200 AAAAGTTAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.11, C:0.00, G:0.48, T:0.41
Consensus pattern (7 bp):
TTTAGGG
Found at i:10496490 original size:9 final size:9
Alignment explanation
Indices: 10496478--10497213 Score: 262
Period size: 9 Copynumber: 84.8 Consensus size: 9
10496468 TTAAAATAGT
10496478 TAACTTACA
1 TAACTTACA
10496487 TAACTTA-A
1 TAACTTACA
10496495 TGAA-TTA-A
1 T-AACTTACA
* *
10496503 T-ATTATATA
1 TAACT-TACA
10496512 TAACTTACA
1 TAACTTACA
10496521 TAACTTAC-
1 TAACTTACA
10496529 -AACTTACA
1 TAACTTACA
10496537 TAACTTACA
1 TAACTTACA
*
10496546 TTAATATTATACA
1 -T-A-ACT-TACA
*
10496559 TAAATTACA
1 TAACTTACA
10496568 TAACTTA-A
1 TAACTTACA
10496576 TTAA-TTA-A
1 -TAACTTACA
10496584 -AA--TACCA
1 TAACTTA-CA
*
10496591 GAA-TTACA
1 TAACTTACA
10496599 TAACTTACA
1 TAACTTACA
*
10496608 TTAATATTATACA
1 -T-A-ACT-TACA
*
10496621 TAAATTACA
1 TAACTTACA
10496630 TAACTTA-A
1 TAACTTACA
10496638 TTAA-TTA-A
1 -TAACTTACA
*
10496646 T-ATTATACA
1 TAACT-TACA
10496655 TAACTTACA
1 TAACTTACA
10496664 TAACTTAC-
1 TAACTTACA
10496672 -AACTTACA
1 TAACTTACA
*
10496680 TAACTTACTT
1 TAACTTAC-A
***
10496690 TTTTTTA-A
1 TAACTTACA
*
10496698 TTA-TT-CA
1 TAACTTACA
*
10496705 TAAATTACA
1 TAACTTACA
10496714 TAACTTACA
1 TAACTTACA
*
10496723 TTAATGCAATACA
1 -TAA--C-TTACA
*
10496736 TAAATTACA
1 TAACTTACA
10496745 TAACTTA-A
1 TAACTTACA
10496753 TTAA-TTA-A
1 -TAACTTACA
*
10496761 T-ATTATACA
1 TAACT-TACA
10496770 TAACTTACA
1 TAACTTACA
10496779 TAACTTAC-
1 TAACTTACA
10496787 -AACTTACA
1 TAACTTACA
10496795 TAACTTAC-
1 TAACTTACA
10496803 -AACTTACA
1 TAACTTACA
10496811 TAACTTACA
1 TAACTTACA
***
10496820 TTTGTTTA-A
1 -TAACTTACA
*
10496829 TTA-TT-CA
1 TAACTTACA
*
10496836 TAAATTACA
1 TAACTTACA
*
10496845 TAACTTACT
1 TAACTTACA
*
10496854 TAA-TTTCA
1 TAACTTACA
10496862 TAA--TA-A
1 TAACTTACA
10496868 TAACTTACA
1 TAACTTACA
10496877 TAACTTACA
1 TAACTTACA
*
10496886 TTAATATTATACA
1 -T-A-ACT-TACA
*
10496899 TAAATTACA
1 TAACTTACA
10496908 TAACTTA-A
1 TAACTTACA
10496916 TTAA-TATACA
1 -TAACT-TACA
*
10496926 TAAATTACA
1 TAACTTACA
10496935 TAACTTACA
1 TAACTTACA
*
10496944 TTAATATTATACA
1 -T-A-ACT-TACA
*
10496957 TAAATTACA
1 TAACTTACA
**
10496966 TAACTTAGT
1 TAACTTACA
10496975 TAA-TT-CA
1 TAACTTACA
*
10496982 T-ATTATACA
1 TAACT-TACA
10496991 TAACTTACA
1 TAACTTACA
*
10497000 CAACTTACA
1 TAACTTACA
10497009 TAACTTAC-
1 TAACTTACA
10497017 -AACTTACA
1 TAACTTACA
*
10497025 TAACTAACA
1 TAACTTACA
***
10497034 TTTTTTTA-A
1 -TAACTTACA
*
10497043 TTA-TT-CA
1 TAACTTACA
*
10497050 TAAATTACA
1 TAACTTACA
*
10497059 TAACTTACT
1 TAACTTACA
* *
10497068 TAATTTTCA
1 TAACTTACA
*
10497077 TAA--TAAA
1 TAACTTACA
10497084 TAACTTACA
1 TAACTTACA
10497093 TAACTTACA
1 TAACTTACA
10497102 TAA--TACA
1 TAACTTACA
*
10497109 TAACTTATA
1 TAACTTACA
*
10497118 TGACTTACA
1 TAACTTACA
10497127 TAACTTACA
1 TAACTTACA
*
10497136 T-A---GCA
1 TAACTTACA
* *
10497141 TAATTTTCA
1 TAACTTACA
10497150 TAA--TACA
1 TAACTTACA
*
10497157 CAACTTACA
1 TAACTTACA
* *
10497166 TAATTTTCA
1 TAACTTACA
*
10497175 TAA--TAAA
1 TAACTTACA
10497182 TAACTTACA
1 TAACTTACA
10497191 TAA--TACA
1 TAACTTACA
10497198 TAACTTACA
1 TAACTTACA
*
10497207 TAGCTTA
1 TAACTTA
10497214 ATTATACTTA
Statistics
Matches: 562, Mismatches: 77, Indels: 176
0.69 0.09 0.22
Matches are distributed among these distances:
5 5 0.01
6 11 0.02
7 88 0.16
8 60 0.11
9 318 0.57
10 36 0.06
11 8 0.01
12 16 0.03
13 20 0.04
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.39
Consensus pattern (9 bp):
TAACTTACA
Found at i:10496516 original size:34 final size:34
Alignment explanation
Indices: 10496478--10496944 Score: 181
Period size: 34 Copynumber: 13.3 Consensus size: 34
10496468 TTAAAATAGT
* *
10496478 TAACTTACATAACTTAATGAATTAATATTATATA
1 TAACTTACATAACTTAATTAATTAATATTATACA
*
10496512 TAACTTACATAACTTACAACTTACA-TAACTTACATTAATATTA
1 TAACTTACATAACTT--AA-TTA-ATTAA--T--ATT-ATA-CA
*
10496555 TACATAAATTACATAACTTAATTAATTAA-A--ATACCA
1 TA-A-C--TTACATAACTTAATTAATTAATATTATA-CA
* *
10496591 GAA-TTACATAACTT-A--CATTAATATTATACA
1 TAACTTACATAACTTAATTAATTAATATTATACA
*
10496621 TAAATTACATAACTTAATTAATTAATATTATACA
1 TAACTTACATAACTTAATTAATTAATATTATACA
* ***
10496655 TAACTTACATAACTTACAACTTACA-TAACTTACTTTTTTT
1 TAACTTACATAACTT--AA-TTA-ATTAA--TA-TTATACA
* *
10496695 TAA-TTATTCATAAATTACA-TAACTTACATTAATGCAATACA
1 TAACTTA--CATAACTTA-ATTAA-TTA-A-T-AT--TATACA
*
10496736 TAAATTACATAACTTAATTAATTAATATTATACA
1 TAACTTACATAACTTAATTAATTAATATTATACA
* *
10496770 TAACTTACATAACTTACA--ACTTACATAACT-TAC-
1 TAACTTACATAACTTA-ATTAATTA-AT-ATTATACA
** * *
10496803 -AACTTACATAACTTACATTTGTTTA-ATTATTCA
1 TAACTTACATAACTTA-ATTAATTAATATTATACA
* * *
10496836 TAAATTACATAACTTACTTAATT--TCATAATA-A
1 TAACTTACATAACTTAATTAATTAAT-ATTATACA
*
10496868 TAACTTACATAACTT-A--CATTAATATTATACA
1 TAACTTACATAACTTAATTAATTAATATTATACA
* *
10496899 TAAATTACATAACTTAATTAATATACATA-AATTACA
1 TAACTTACATAACTTAATTAAT-TA-ATATTA-TACA
10496935 TAACTTACAT
1 TAACTTACAT
10496945 TAATATTATA
Statistics
Matches: 331, Mismatches: 43, Indels: 116
0.68 0.09 0.24
Matches are distributed among these distances:
28 5 0.02
29 4 0.01
30 10 0.03
31 43 0.13
32 36 0.11
33 13 0.04
34 86 0.26
35 7 0.02
36 27 0.08
37 13 0.04
38 5 0.02
39 17 0.05
40 20 0.06
41 14 0.04
42 6 0.02
43 5 0.02
44 7 0.02
45 2 0.01
47 11 0.03
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.39
Consensus pattern (34 bp):
TAACTTACATAACTTAATTAATTAATATTATACA
Found at i:10496534 original size:16 final size:16
Alignment explanation
Indices: 10496513--10496545 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10496503 TATTATATAT
10496513 AACTTACATAACTTAC
1 AACTTACATAACTTAC
10496529 AACTTACATAACTTAC
1 AACTTACATAACTTAC
10496545 A
1 A
10496546 TTAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:10496561 original size:22 final size:22
Alignment explanation
Indices: 10496533--10496630 Score: 64
Period size: 22 Copynumber: 4.6 Consensus size: 22
10496523 ACTTACAACT
*
10496533 TACATAACTTACATTAATATTA
1 TACATAAATTACATTAATATTA
*
10496555 TACATAAATTACA-T-A-ACT-
1 TACATAAATTACATTAATATTA
* * * * *
10496573 TA-ATTAATTAAAATACCAGAAT-
1 TACATAAATTACATTA--ATATTA
*
10496595 TACATAACTTACATTAATATTA
1 TACATAAATTACATTAATATTA
10496617 TACATAAATTACAT
1 TACATAAATTACAT
10496631 AACTTAATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
17 8 0.14
18 3 0.05
19 2 0.04
20 1 0.02
21 5 0.09
22 29 0.51
23 9 0.16
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (22 bp):
TACATAAATTACATTAATATTA
Found at i:10496677 original size:16 final size:16
Alignment explanation
Indices: 10496656--10496687 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10496646 TATTATACAT
10496656 AACTTACATAACTTAC
1 AACTTACATAACTTAC
10496672 AACTTACATAACTTAC
1 AACTTACATAACTTAC
10496688 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:10496684 original size:50 final size:50
Alignment explanation
Indices: 10496625--10496722 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
10496615 TATACATAAA
*
10496625 TTACATAACTTAATTAATTAAT-ATTATACATAACTTACATAACTTACAAC
1 TTACATAACTTAATT-ATTAATAATTATACATAAATTACATAACTTACAAC
* * ** *
10496675 TTACATAACTTACTTTTTTTTAATTATTCATAAATTACATAACTTACA
1 TTACATAACTTAATTATTAATAATTATACATAAATTACATAACTTACA
10496723 TTAATGCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.07
50 38 0.93
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (50 bp):
TTACATAACTTAATTATTAATAATTATACATAAATTACATAACTTACAAC
Done.