Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 251 of 255
Found at i:81253550 original size:14 final size:14
Alignment explanation
Indices: 81253533--81253564 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
81253523 TTGTCCCCTT
*
81253533 TTTTTTGTTATTAA
1 TTTTTTATTATTAA
81253547 TTTTTTATTATTAA
1 TTTTTTATTATTAA
81253561 TTTT
1 TTTT
81253565 AAAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTTTTATTATTAA
Found at i:81253592 original size:23 final size:23
Alignment explanation
Indices: 81253560--81253644 Score: 93
Period size: 23 Copynumber: 3.7 Consensus size: 23
81253550 TTTATTATTA
* *
81253560 ATTTTAAAATTTTTTGAAATATAT
1 ATTTTGAAATATTTT-AAATATAT
81253584 A-TTTGAAATATTTTATAATATAT
1 ATTTTGAAATATTTTA-AATATAT
*
81253607 ATTTTTAAA-ATTTTAAATATAT
1 ATTTTGAAATATTTTAAATATAT
*
81253629 ATTTTTGAAATTTTTT
1 A-TTTTGAAATATTTT
81253645 TTTAAATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
22 9 0.17
23 32 0.62
24 11 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTTTGAAATATTTTAAATATAT
Found at i:81253597 original size:47 final size:46
Alignment explanation
Indices: 81253546--81253646 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 46
81253536 TTTGTTATTA
*
81253546 ATTTTTTATTAT-TAATTTTAAAATTTTTTGAAATATATA-TTTGAAAT
1 ATTTTTTAATATATAATTTTAAAA--TTTT-AAATATATATTTTGAAAT
* *
81253593 ATTTTATAATATATATTTTTAAAATTTTAAATATATATTTTTGAAAT
1 ATTTTTTAATATATAATTTTAAAATTTTAAATATATA-TTTTGAAAT
*
81253640 TTTTTTT
1 ATTTTTT
81253647 TAAATTTTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
45 9 0.20
46 4 0.09
47 23 0.50
48 10 0.22
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (46 bp):
ATTTTTTAATATATAATTTTAAAATTTTAAATATATATTTTGAAAT
Found at i:81253652 original size:34 final size:32
Alignment explanation
Indices: 81253608--81253671 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 32
81253598 ATAATATATA
81253608 TTTTTAAAATTTTAAATATATATTTTTGAAATTT
1 TTTTTAAAATTTTAAATAT-TATTTTT-AAATTT
* *
81253642 TTTTTTAAATTTTGAATATTATTTTTAAAT
1 TTTTTAAAATTTTAAATATTATTTTTAAAT
81253672 ATTAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 4 0.14
33 7 0.25
34 17 0.61
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (32 bp):
TTTTTAAAATTTTAAATATTATTTTTAAATTT
Found at i:81253656 original size:20 final size:20
Alignment explanation
Indices: 81253643--81253690 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
81253633 TTGAAATTTT
81253643 TTTTTAAATTTTGAATATTA
1 TTTTTAAATTTTGAATATTA
* *
81253663 TTTTTAAATATTAAATATATA
1 TTTTTAAATTTTGAATAT-TA
*
81253684 CTTTTAA
1 TTTTTAA
81253691 TAATATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAAATTTTGAATATTA
Found at i:81253768 original size:20 final size:20
Alignment explanation
Indices: 81253571--81253768 Score: 58
Period size: 20 Copynumber: 9.7 Consensus size: 20
81253561 TTTTAAAATT
*
81253571 TTTTGAAATATATATTTGAAATA
1 TTTT-AAATAT-TATTT-TAATA
*
81253594 TTTTATAATATATATTTTTAAAA
1 TTTTA-AATAT-TA-TTTTAATA
81253617 TTTTAAATA-TA---T-AT-
1 TTTTAAATATTATTTTAATA
* *
81253631 TTTTGAAATTTTTTTTTAA-A
1 TTTT-AAATATTATTTTAATA
*
81253651 TTTTGAATATTATTTTTAA-A
1 TTTTAAATATTA-TTTTAATA
*
81253671 TATTAAATATATACTTTTAATA
1 TTTTAAATAT-TA-TTTTAATA
* * *
81253693 ATATAAA-A-TATTTAAATA
1 TTTTAAATATTATTTTAATA
* *
81253711 GTTTATAGATATAACCTTTTAA-A
1 -TTT-TAAATATTA--TTTTAATA
* * *
81253734 TTTATTATTAATATTTTAATA
1 TTT-TAAATATTATTTTAATA
81253755 TTTTAAATATTATT
1 TTTTAAATATTATT
81253769 CAATTTGTTG
Statistics
Matches: 128, Mismatches: 28, Indels: 41
0.65 0.14 0.21
Matches are distributed among these distances:
14 4 0.03
15 5 0.04
16 2 0.02
18 7 0.05
19 9 0.07
20 39 0.30
21 14 0.11
22 19 0.15
23 21 0.16
24 8 0.06
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTTAAATATTATTTTAATA
Found at i:81253986 original size:18 final size:18
Alignment explanation
Indices: 81253971--81254007 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
81253961 AAAATTAATA
81253971 TAAAAAATATATTTAAAAT
1 TAAAAAA-ATATTTAAAAT
*
81253990 TTAAAAAATATTTAAAAT
1 TAAAAAAATATTTAAAAT
81254008 ATATATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAAAAATATTTAAAAT
Found at i:81253993 original size:31 final size:30
Alignment explanation
Indices: 81253958--81254029 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
81253948 TAAAATTAAT
81253958 TTTAAAATTAATA-TAAAAAATATATTTAAAA
1 TTTAAAA--AATATTAAAAAATATATTTAAAA
*
81253989 TTTAAAAAATATTTAAAATATATATTTAAAA
1 TTTAAAAAATA-TTAAAAAATATATTTAAAA
*
81254020 TATTATAAAA
1 T-TTAAAAAA
81254030 CAAATAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 4 0.11
31 25 0.69
32 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTAAAAAATATTAAAAAATATATTTAAAA
Found at i:81254020 original size:13 final size:13
Alignment explanation
Indices: 81253988--81254022 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
81253978 TATATTTAAA
81253988 ATTTAAAA-A-AT
1 ATTTAAAATATAT
81253999 ATTTAAAATATAT
1 ATTTAAAATATAT
81254012 ATTTAAAATAT
1 ATTTAAAATAT
81254023 TATAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 1 0.05
13 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTTAAAATATAT
Found at i:81254112 original size:23 final size:24
Alignment explanation
Indices: 81254057--81254136 Score: 101
Period size: 24 Copynumber: 3.3 Consensus size: 24
81254047 AGGTCATATC
*
81254057 TTTAAAAATAATATACTTT-AAATAA
1 TTTAAAAATCATA-A-TTTAAAATAA
81254082 TTTAAAAATCATAATTTAAAATAA
1 TTTAAAAATCATAATTTAAAATAA
*
81254106 TTTAAAAATCATAA-TTAAAAAAA
1 TTTAAAAATCATAATTTAAAATAA
81254129 TTATAAAA
1 TT-TAAAA
81254137 CAAATTAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
23 13 0.25
24 26 0.51
25 12 0.24
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (24 bp):
TTTAAAAATCATAATTTAAAATAA
Found at i:81254127 original size:14 final size:14
Alignment explanation
Indices: 81254078--81254126 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
81254068 TATACTTTAA
81254078 ATAATTTAAAAATC
1 ATAATTTAAAAATC
81254092 ATAATTT--AAA--
1 ATAATTTAAAAATC
81254102 ATAATTTAAAAATC
1 ATAATTTAAAAATC
81254116 ATAA-TTAAAAA
1 ATAATTTAAAAA
81254127 AATTATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
10 7 0.23
12 6 0.19
13 7 0.23
14 11 0.35
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTTAAAAATC
Found at i:81254235 original size:20 final size:20
Alignment explanation
Indices: 81254210--81254284 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
81254200 TAAAATATTT
* *
81254210 AAATATTTTATATTATTAAA
1 AAATATTTTAAATTTTTAAA
*
81254230 AAATATATTAAATTTTTAAA
1 AAATATTTTAAATTTTTAAA
81254250 AAATAATATTTAAATTTTTTAAA
1 AAAT-AT-TTTAAA-TTTTTAAA
*
81254273 AAATAATTTAAA
1 AAATATTTTAAA
81254285 AATAATATTC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 21 0.45
21 8 0.17
22 6 0.13
23 12 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATATTTTAAATTTTTAAA
Found at i:81254252 original size:22 final size:21
Alignment explanation
Indices: 81254227--81254284 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
81254217 TTATATTATT
81254227 AAAAAATATATTAAATTTTTAA
1 AAAAAATAT-TTAAATTTTTAA
*
81254249 AAAATAATATTTAAATTTTT-T
1 AAAA-AATATTTAAATTTTTAA
81254270 AAAAAATAATTTAAA
1 AAAAAAT-ATTTAAA
81254285 AATAATATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 3 0.09
21 11 0.33
22 14 0.42
23 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAAATATTTAAATTTTTAA
Found at i:81254258 original size:21 final size:22
Alignment explanation
Indices: 81254225--81254284 Score: 90
Period size: 23 Copynumber: 2.8 Consensus size: 22
81254215 TTTTATATTA
81254225 TTAAAAAAT-ATATTAAA-TTT
1 TTAAAAAATAATATTAAATTTT
81254245 TTAAAAAATAATATTTAAATTTT
1 TTAAAAAATAATA-TTAAATTTT
81254268 TTAAAAAATAAT-TTAAA
1 TTAAAAAATAATATTAAA
81254285 AATAATATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.24
21 8 0.22
22 5 0.14
23 15 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAAAATAATATTAAATTTT
Found at i:81254286 original size:34 final size:33
Alignment explanation
Indices: 81254243--81254558 Score: 146
Period size: 34 Copynumber: 9.0 Consensus size: 33
81254233 TATATTAAAT
*
81254243 TTTTAAAAAATAATATTTAAATTTTTTAAAAAATAA
1 TTTT-AAAAATAATATTTAAA--ATTTAAAAAATAA
*
81254279 -TTTAAAAATAATATTCAAAATTTAGAAAAATAA
1 TTTTAAAAATAATATTTAAAATTTA-AAAAATAA
81254312 TTTTAAATACAT-ATATTTAAAATTTAAAAAATATA
1 TTTTAAA-A-ATAATATTTAAAATTTAAAAAATA-A
* * * * *
81254347 TATT-ATAA-AACATTTCAAATATACATTTAAAAT-A
1 TTTTAAAAATAATATTTAAAATTTA-A---AAAATAA
* * * * **
81254381 TTATAAAACTAATA-AT-AAATTTGAAAGGTCATA
1 TTTTAAAAATAATATTTAAAATTTAAAAAAT-A-A
* *
81254414 TCTTTAAAATATTTAAATATTTTATATTATTAAAAATATATTTAA
1 T-TTTAAAA-A--T-AATA-TTTA-A-AATTTAAAA-A-A--TAA
81254459 TATTTAAAAAATAATATTTAAAATTTTAAAAAATAA
1 T-TTT-AAAAATAATATTTAAAA-TTTAAAAAATAA
81254495 -TTTAAAAATAATATTTAAAATTTAGAAAAATAA
1 TTTTAAAAATAATATTTAAAATTTA-AAAAATAA
* * *
81254528 TTTCAAATAT-TTATTTAAAATTTAAAAAATA
1 TTTTAAAAATAATATTTAAAATTTAAAAAATA
81254559 TATATTACAA
Statistics
Matches: 215, Mismatches: 32, Indels: 70
0.68 0.10 0.22
Matches are distributed among these distances:
30 3 0.01
32 27 0.13
33 51 0.24
34 53 0.25
35 24 0.11
36 13 0.06
37 1 0.00
38 5 0.02
39 2 0.01
40 8 0.04
41 4 0.02
42 5 0.02
43 7 0.03
45 6 0.03
46 5 0.02
47 1 0.00
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (33 bp):
TTTTAAAAATAATATTTAAAATTTAAAAAATAA
Found at i:81254288 original size:140 final size:138
Alignment explanation
Indices: 81253958--81254285 Score: 375
Period size: 140 Copynumber: 2.4 Consensus size: 138
81253948 TAAAATTAAT
* *
81253958 TTTAAAATTAATATAAAAAATATATTTAAAATTTAAAAAAT-ATTTAAAATATATATTTAAAATA
1 TTTAAAA-TAATTTAAAAAATATATTTAAAATTTAAAAAATAATTTAAAATATACATTTAAAATA
*
81254022 TTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAAATAATATACTTTAAATAATTTAA
65 TTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAAATAATATACTTTAAATAATTAAA
81254087 AAATCATAA
130 AAATCATAA
* * * * *
81254096 TTTAAAATAATTT-AAAAATCATAATTAAAAAAATTATAAAACAAATTAAAATATACATTTAAAA
1 TTTAAAATAATTTAAAAAAT-AT-ATT-TAAAATTTAAAAAATAATTTAAAATATACATTTAAAA
* * * *
81254160 TATTATAAAACTAATAATAAATTTTGAAAGGTCATATCTTTAAAATATTTAA-ATATTTTATATT
63 TATTATAAAACAAATAATAAA-TTTGAAAGGTCATATCTTTAAAA-A--TAATATACTTTAAATA
81254224 ATTAAAAAAT-AT-A
124 ATTAAAAAATCATAA
* *
81254237 -TT-AAAT-TTTTAAAAAATAATATTTAAATTTTTTAAAAAATAATTTAAAA
1 TTTAAAATAATTTAAAAAAT-ATATTTAAA--ATTTAAAAAATAATTTAAAA
81254286 ATAATATTCA
Statistics
Matches: 159, Mismatches: 20, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
136 6 0.04
137 10 0.06
138 16 0.10
139 38 0.24
140 41 0.26
141 24 0.15
142 3 0.02
143 18 0.11
144 3 0.02
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (138 bp):
TTTAAAATAATTTAAAAAATATATTTAAAATTTAAAAAATAATTTAAAATATACATTTAAAATAT
TATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAAATAATATACTTTAAATAATTAAAA
AATCATAA
Found at i:81254336 original size:22 final size:23
Alignment explanation
Indices: 81254310--81254356 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
81254300 TTAGAAAAAT
* *
81254310 AATTTTAAATACATATATT-TAA
1 AATTTAAAAAACATATATTATAA
*
81254332 AATTTAAAAAATATATATTATAA
1 AATTTAAAAAACATATATTATAA
81254355 AA
1 AA
81254357 CATTTCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTAAAAAACATATATTATAA
Found at i:81254447 original size:218 final size:215
Alignment explanation
Indices: 81254128--81254613 Score: 794
Period size: 214 Copynumber: 2.2 Consensus size: 215
81254118 AATTAAAAAA
* *
81254128 ATTATAAAACAAATTAAAATATACATTTAAAATATTATAAAACTAATAATAAATTTTGAAAGGTC
1 ATTATAAAAC-ATTTCAAATATACATTTAAAATATTATAAAACTAATAATAAATTTTGAAAGGTC
*
81254193 ATATCTTTAAAATATTTAAATATTTTATATTATTAAAAAATATATTAAATTTTTAAAAAATAATA
65 ATATCTTTAAAATATTTAAATATTTTATATTATT-AAAAATATATTAAATATTTAAAAAATAATA
* *
81254258 TTTAAATTTTTTAAAAAATAATTTAAAAATAATATTCAAAATTTAGAAAAATAATTTTAAATACA
129 TTTAAA-ATTTTAAAAAATAATTTAAAAATAATATTCAAAATTTAGAAAAATAATTTCAAAT--A
81254323 TATATTTAAAATTTAAAAAATATAT
191 TATATTTAAAATTTAAAAAATATAT
81254348 ATTATAAAACATTTCAAATATACATTTAAAATATTATAAAACTAATAATAAA-TTTGAAAGGTCA
1 ATTATAAAACATTTCAAATATACATTTAAAATATTATAAAACTAATAATAAATTTTGAAAGGTCA
*
81254412 TATCTTTAAAATATTTAAATATTTTATATTATTAAAAATATATTTAATATTTAAAAAATAATATT
66 TATCTTTAAAATATTTAAATATTTTATATTATTAAAAATATATTAAATATTTAAAAAATAATATT
* *
81254477 TAAAATTTTAAAAAATAATTTAAAAATAATATTTAAAATTTAGAAAAATAATTTCAAATATTTAT
131 TAAAATTTTAAAAAATAATTTAAAAATAATATTCAAAATTTAGAAAAATAATTTCAAATATATAT
81254542 TTAAAATTTAAAAAATATAT
196 TTAAAATTTAAAAAATATAT
* * * * * *
81254562 ATTACAAAACATTTCAAATATACATTTCAAGTTTTTTAAAATTAATAATAAA
1 ATTATAAAACATTTCAAATATACATTTAAAATATTATAAAACTAATAATAAA
81254614 AAATAAAATA
Statistics
Matches: 252, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
214 71 0.28
216 52 0.21
217 34 0.13
218 45 0.18
219 40 0.16
220 10 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (215 bp):
ATTATAAAACATTTCAAATATACATTTAAAATATTATAAAACTAATAATAAATTTTGAAAGGTCA
TATCTTTAAAATATTTAAATATTTTATATTATTAAAAATATATTAAATATTTAAAAAATAATATT
TAAAATTTTAAAAAATAATTTAAAAATAATATTCAAAATTTAGAAAAATAATTTCAAATATATAT
TTAAAATTTAAAAAATATAT
Found at i:81254456 original size:21 final size:20
Alignment explanation
Indices: 81254430--81254499 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
81254420 AAATATTTAA
*
81254430 ATATTTTATATTATTAAAAAT
1 ATATTTAATATT-TTAAAAAT
*
81254451 ATATTTAATATTTAAAAAAT
1 ATATTTAATATTTTAAAAAT
*
81254471 AATATTTAAAATTTTAAAAA-
1 -ATATTTAATATTTTAAAAAT
81254491 ATAATTTAA
1 AT-ATTTAA
81254500 AAATAATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
19 2 0.05
20 13 0.30
21 28 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTAATATTTTAAAAAT
Found at i:81254473 original size:14 final size:14
Alignment explanation
Indices: 81254456--81254514 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 14
81254446 AAAATATATT
81254456 TAATATTTAAAAAA
1 TAATATTTAAAAAA
81254470 TAATATTT----AA
1 TAATATTTAAAAAA
81254480 -AAT-TTTAAAAAA
1 TAATATTTAAAAAA
81254492 T-A-ATTT-AAAAA
1 TAATATTTAAAAAA
81254503 TAATATTTAAAA
1 TAATATTTAAAA
81254515 TTTAGAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 18
0.67 0.00 0.33
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 2 0.06
11 6 0.17
12 7 0.19
13 4 0.11
14 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATATTTAAAAAA
Found at i:81254500 original size:20 final size:20
Alignment explanation
Indices: 81254445--81254501 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
81254435 TTATATTATT
*
81254445 AAAAATATATTTAATATTTA
1 AAAAATATATTTAAAATTTA
81254465 AAAAATAATATTTAAAATTTTA
1 AAAAAT-ATATTTAAAA-TTTA
81254487 AAAAATA-ATTTAAAA
1 AAAAATATATTTAAAA
81254502 ATAATATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.41
21 10 0.29
22 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATATATTTAAAATTTA
Found at i:81254502 original size:33 final size:32
Alignment explanation
Indices: 81254460--81254558 Score: 137
Period size: 33 Copynumber: 3.0 Consensus size: 32
81254450 TATATTTAAT
81254460 ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
1 ATTT-AAAAATAATATTTAAAA-TTTAAAAAATA
81254494 ATTTAAAAATAATATTTAAAATTTAGAAAAATA
1 ATTTAAAAATAATATTTAAAATTTA-AAAAATA
* *
81254527 ATTT-CAAATATTTATTTAAAATTTAAAAAATA
1 ATTTAAAAATA-ATATTTAAAATTTAAAAAATA
81254559 TATATTACAA
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
32 16 0.26
33 41 0.67
34 4 0.07
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (32 bp):
ATTTAAAAATAATATTTAAAATTTAAAAAATA
Found at i:81254539 original size:22 final size:22
Alignment explanation
Indices: 81254498--81254540 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
81254488 AAAATAATTT
*
81254498 AAAAATAATATTTAAAATTTAG
1 AAAAATAATATTCAAAATTTAG
81254520 AAAAATAAT-TTCAAATATTTA
1 AAAAATAATATTCAAA-ATTTA
81254541 TTTAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAAATAATATTCAAAATTTAG
Found at i:81258021 original size:13 final size:13
Alignment explanation
Indices: 81258003--81258027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81257993 ATGAGCCAAT
81258003 TTTTTTCTTTTAA
1 TTTTTTCTTTTAA
81258016 TTTTTTCTTTTA
1 TTTTTTCTTTTA
81258028 CACTTAGATT
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTCTTTTAA
Found at i:81258081 original size:4 final size:4
Alignment explanation
Indices: 81258038--81258065 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
81258028 CACTTAGATT
81258038 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
81258066 TACTACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:81258231 original size:3 final size:3
Alignment explanation
Indices: 81258223--81258276 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
81258213 AAGGGCCCAA
* * * * *
81258223 ATT ATT ATT ATC ATT ACT ACT ACT ATT ATT ATT AAAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
81258269 ATT ATT AT
1 ATT ATT AT
81258277 CTTTTTTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:81260749 original size:8 final size:8
Alignment explanation
Indices: 81260738--81260820 Score: 62
Period size: 8 Copynumber: 9.9 Consensus size: 8
81260728 TTTATATGTT
81260738 AATTTAAA
1 AATTTAAA
81260746 AATTATAAA
1 AATT-TAAA
81260755 AATCTTCAAAA
1 AAT-TT--AAA
*
81260766 AAATT-AA
1 AATTTAAA
81260773 AATTTAAA
1 AATTTAAA
*
81260781 AA-TAAAA
1 AATTTAAA
81260788 AATTTAAA
1 AATTTAAA
**
81260796 AATAAAAAAA
1 AAT--TTAAA
81260806 AATTTAAA
1 AATTTAAA
81260814 AATTTAA
1 AATTTAA
81260821 TATTTAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
7 12 0.20
8 25 0.42
9 8 0.14
10 9 0.15
11 5 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (8 bp):
AATTTAAA
Found at i:81260789 original size:15 final size:15
Alignment explanation
Indices: 81260738--81260804 Score: 73
Period size: 15 Copynumber: 4.1 Consensus size: 15
81260728 TTTATATGTT
81260738 AATTTAAAAATTATAAA
1 AATTTAAAAA-TA-AAA
81260755 AATCTTCAAAAA-AATTAA
1 AAT-TT-AAAAATAA--AA
81260773 AATTTAAAAATAAAA
1 AATTTAAAAATAAAA
81260788 AATTTAAAAATAAAA
1 AATTTAAAAATAAAA
81260803 AA
1 AA
81260805 AAATTTAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
15 19 0.42
16 6 0.13
17 8 0.18
18 7 0.16
19 5 0.11
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
AATTTAAAAATAAAA
Found at i:81260808 original size:33 final size:34
Alignment explanation
Indices: 81260738--81260816 Score: 99
Period size: 33 Copynumber: 2.3 Consensus size: 34
81260728 TTTATATGTT
* **
81260738 AATTTAAAAATTATAAAAATCTTCAAAAAAATTAA
1 AATTTAAAAA-TATAAAAATCTTAAAAAAAAAAAA
81260773 AATTTAAAAATA-AAAAAT-TTAAAAATAAAAAAA
1 AATTTAAAAATATAAAAATCTTAAAAA-AAAAAAA
81260806 AATTTAAAAAT
1 AATTTAAAAAT
81260817 TTAATATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
32 6 0.15
33 22 0.55
34 2 0.05
35 10 0.25
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (34 bp):
AATTTAAAAATATAAAAATCTTAAAAAAAAAAAA
Found at i:81260834 original size:14 final size:14
Alignment explanation
Indices: 81260815--81260846 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
81260805 AAATTTAAAA
81260815 ATTTAATATTTAAT
1 ATTTAATATTTAAT
81260829 ATTTAATATTTAAT
1 ATTTAATATTTAAT
81260843 ATTT
1 ATTT
81260847 TAGTCCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTAATATTTAAT
Found at i:81263787 original size:15 final size:16
Alignment explanation
Indices: 81263767--81263797 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
81263757 GTTTTTATCT
81263767 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
81263782 TATATATGATCTAAAA
1 TATATATGATCTAAAA
81263798 GCAAGAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:81266466 original size:43 final size:43
Alignment explanation
Indices: 81266338--81266566 Score: 230
Period size: 43 Copynumber: 5.3 Consensus size: 43
81266328 GATCATTATT
* ** * * *
81266338 TTTAGCGGCGTTTG-TGAGAAAAGTACTGCTAAAGGTTATGATC
1 TTTAGCGGCGTTTGCT-AAAAAAGCGCCGCTAAAAGTTATGGTC
* *
81266381 TTTAGCGGCGTTTG-TGAAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCT--AAAAAAGCGCCGCTAAAAGTTATGGTC
* *
81266425 TTTAGCGGCGTTTGCTAAAAAAGTGCCGCTAAAAGTTATGGTT
1 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAAGTTATGGTC
* * *
81266468 TTTAGCGGTGTTTGCAAAAAAAGCGCCACT-AAAGATTATGGTC
1 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAAG-TTATGGTC
* * * ** *
81266511 TTTAGCGGCGTTTGCGAAAAAAGCGCCACTAAAACTCCTGGTT
1 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAAGTTATGGTC
81266554 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
81266567 TTTTAAAAGC
Statistics
Matches: 160, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
42 4 0.03
43 117 0.73
44 38 0.24
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAAGTTATGGTC
Found at i:81266525 original size:86 final size:87
Alignment explanation
Indices: 81266338--81266566 Score: 282
Period size: 86 Copynumber: 2.6 Consensus size: 87
81266328 GATCATTATT
* * * * * * *
81266338 TTTAGCGGCGTTTG-TGAGAAAAGTACTGCTAAAGGTTATGATCTTTAGCGGCGTTTGTGAAAAA
1 TTTAGCGGCGTTTGCT-AAAAAAGTGCCGCTAAAAGTTATGGTTTTTAGCGGCGTTTGTCAAAAA
* *
81266402 AAGCGCCGCTAAAGGTCATGGTC
65 AAGCGCCACTAAAGATCATGGTC
*
81266425 TTTAGCGGCGTTTGCTAAAAAAGTGCCGCTAAAAGTTATGGTTTTTAGCGGTGTTTG-CAAAAAA
1 TTTAGCGGCGTTTGCTAAAAAAGTGCCGCTAAAAGTTATGGTTTTTAGCGGCGTTTGTCAAAAAA
*
81266489 AGCGCCACTAAAGATTATGGTC
66 AGCGCCACTAAAGATCATGGTC
* * * * **
81266511 TTTAGCGGCGTTTGCGAAAAAAGCGCCACTAAAACTCCTGGTTTTTAGCGGCGTTT
1 TTTAGCGGCGTTTGCTAAAAAAGTGCCGCTAAAAGTTATGGTTTTTAGCGGCGTTT
81266567 TTTTAAAAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
86 74 0.60
87 48 0.39
88 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (87 bp):
TTTAGCGGCGTTTGCTAAAAAAGTGCCGCTAAAAGTTATGGTTTTTAGCGGCGTTTGTCAAAAAA
AGCGCCACTAAAGATCATGGTC
Found at i:81269309 original size:9 final size:9
Alignment explanation
Indices: 81269295--81269329 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
81269285 TTCTATTCTG
81269295 TTTCTTTTC
1 TTTCTTTTC
*
81269304 TTTCTTTTT
1 TTTCTTTTC
*
81269313 TTTCTATTC
1 TTTCTTTTC
81269322 TTTCTTTT
1 TTTCTTTT
81269330 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:81269322 original size:18 final size:19
Alignment explanation
Indices: 81269295--81269334 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
81269285 TTCTATTCTG
*
81269295 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
81269313 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
81269332 TTT
1 TTT
81269335 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:81269351 original size:5 final size:5
Alignment explanation
Indices: 81269338--81269410 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
81269328 TTGTTTTATG
81269338 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
81269386 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
81269411 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:81269363 original size:19 final size:19
Alignment explanation
Indices: 81269339--81269381 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
81269329 TGTTTTATGT
81269339 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
81269358 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
81269377 ATATA
1 ATATA
81269382 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:81269391 original size:24 final size:25
Alignment explanation
Indices: 81269345--81269409 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
81269335 ATGTATATAT
* *
81269345 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
81269369 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
81269394 TTACTATAATATAATA
1 ATAATATAATATAATA
81269410 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:81279731 original size:16 final size:16
Alignment explanation
Indices: 81279710--81279741 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
81279700 AATGCTAGTA
81279710 GTATATATTTATATAT
1 GTATATATTTATATAT
*
81279726 GTATATATTTTTATAT
1 GTATATATTTATATAT
81279742 ATGTTAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
GTATATATTTATATAT
Found at i:81279738 original size:18 final size:18
Alignment explanation
Indices: 81279711--81279745 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
81279701 ATGCTAGTAG
81279711 TATATATTTATATATGTA
1 TATATATTTATATATGTA
*
81279729 TATATTTTTATATATGT
1 TATATATTTATATATGT
81279746 TAATGTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATATATTTATATATGTA
Found at i:81280449 original size:17 final size:18
Alignment explanation
Indices: 81280419--81280452 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
81280409 ATTTAAATTG
81280419 CGGTCGCAGTCGCGTTTT
1 CGGTCGCAGTCGCGTTTT
81280437 CGGTCGC-GTCGCGTTT
1 CGGTCGCAGTCGCGTTT
81280453 GTCGCGGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.03, C:0.29, G:0.35, T:0.32
Consensus pattern (18 bp):
CGGTCGCAGTCGCGTTTT
Found at i:81282276 original size:14 final size:14
Alignment explanation
Indices: 81282238--81282280 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
81282228 TAAAATGTAC
81282238 AATATAATTAAA-T
1 AATATAATTAAATT
81282251 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
81282266 AA-ATAATTTAATT
1 AATATAATTAAATT
81282279 AA
1 AA
81282281 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:81284764 original size:3 final size:3
Alignment explanation
Indices: 81284756--81284867 Score: 89
Period size: 3 Copynumber: 37.0 Consensus size: 3
81284746 GTAAAAAATT
* **
81284756 TAA TAA TAA TAA TAA TAC TGG TAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * * * * * * ** *
81284802 TAA TAA TAA TAA TAA TCA TGA TGA TGA TGA TGA TGA TGG TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
81284850 TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
81284868 AAATCTTAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
3 92 0.97
4 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:81288829 original size:41 final size:41
Alignment explanation
Indices: 81288772--81288850 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
81288762 TCAAGTTAAC
* * *
81288772 TTCTGCTATGAATGCAATCAGTGATATTATCTATACACGCA
1 TTCTGATATAAATGCAATCAGTAATATTATCTATACACGCA
81288813 TTCTGATATAAATGCAATCAGTAATATTATCTATACAC
1 TTCTGATATAAATGCAATCAGTAATATTATCTATACAC
81288851 ACAAATTTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (41 bp):
TTCTGATATAAATGCAATCAGTAATATTATCTATACACGCA
Found at i:81290953 original size:19 final size:19
Alignment explanation
Indices: 81290929--81290967 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
81290919 ATTCTATTAT
81290929 TTATTATAA-AAATAACAAA
1 TTATTATAACAAAT-ACAAA
81290948 TTATTATAACAAATACAAA
1 TTATTATAACAAATACAAA
81290967 T
1 T
81290968 GGGGGACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
TTATTATAACAAATACAAA
Found at i:81294959 original size:18 final size:18
Alignment explanation
Indices: 81294935--81295064 Score: 98
Period size: 18 Copynumber: 6.7 Consensus size: 18
81294925 TCAGCTCTGG
81294935 TGAGCTTCAGTTAGCCTT
1 TGAGCTTCAGTTAGCCTT
* *
81294953 CGAGCTTCCGTTTAGCACTT
1 TGAGCTTCAG-TTAGC-CTT
* *
81294973 CTGTGCTTCAGTCAGCCTT
1 -TGAGCTTCAGTTAGCCTT
* *
81294992 TGGGCTTCCGTTTAGCACTT
1 TGAGCTTCAG-TTAGC-CTT
*
81295012 GTGTGCTTCAGTTAGCCTT
1 -TGAGCTTCAGTTAGCCTT
*
81295031 TGAGCTTCCGTTTAGCACTT
1 TGAGCTTCAG-TTAGC-CTT
*
81295051 GTGTGCTTCAGTTA
1 -TGAGCTTCAGTTA
81295065 AGTTAGCCTC
Statistics
Matches: 88, Mismatches: 15, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
18 24 0.27
19 20 0.23
20 21 0.24
21 23 0.26
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.39
Consensus pattern (18 bp):
TGAGCTTCAGTTAGCCTT
Found at i:81294984 original size:39 final size:39
Alignment explanation
Indices: 81294938--81295105 Score: 219
Period size: 39 Copynumber: 4.2 Consensus size: 39
81294928 GCTCTGGTGA
*
81294938 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTCTGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
* * *
81294977 GCTTCAGTCAGCCTTTGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
*
81295016 GCTTCAGTTAGCCTTTGAGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
* * *
81295055 GCTTCAGTTAAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTC-----AGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
81295099 GCTTCAG
1 GCTTCAG
81295106 CTAAACTTCG
Statistics
Matches: 114, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
39 79 0.69
44 35 0.31
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
Found at i:81295121 original size:83 final size:78
Alignment explanation
Indices: 81294950--81295121 Score: 209
Period size: 83 Copynumber: 2.1 Consensus size: 78
81294940 TTCAGTTAGC
** *
81294950 CTTCGAGCTTCCGTTTAGCACTTCTGTGCTTCAGTCAGCCTTTGGGCTTCCGTTTAGCACTTGTG
1 CTTCGAGCTTCCGTTTAGCACTTCTGTGCTTCAGTCAGCCTCCGGGCTTCCGTTTAGCACTTATG
* **
81295015 TGCTTCAGTTAGC
66 TGCTTCAGCTAAA
* * *
81295028 CTTTGAGCTTCCGTTTAGCACTTGTGTGCTTCAGTTAAGTTAGCCTCCGGGCTTCCGTTTAGCAC
1 CTTCGAGCTTCCGTTTAGCACTTCTGTGCTTC-----AGTCAGCCTCCGGGCTTCCGTTTAGCAC
81295093 TTATGTGCTTCAGCTAAA
61 TTATGTGCTTCAGCTAAA
*
81295111 CTTCGGGCTTC
1 CTTCGAGCTTC
81295122 AGATCACAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 30 0.38
83 48 0.62
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (78 bp):
CTTCGAGCTTCCGTTTAGCACTTCTGTGCTTCAGTCAGCCTCCGGGCTTCCGTTTAGCACTTATG
TGCTTCAGCTAAA
Found at i:81300692 original size:89 final size:89
Alignment explanation
Indices: 81300523--81300789 Score: 428
Period size: 89 Copynumber: 3.0 Consensus size: 89
81300513 AGCAAAACCG
* * *
81300523 GAGCCACAACCACCTGGAACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTC
1 GAGCCACATCGACCTAG-ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTC
81300588 GACATGTAGAAGATCGCATGAGGCA
65 GACATGTAGAAGATCGCATGAGGCA
*
81300613 GAGCCACATCGACCTAGACAAAACATGATCAAACGATAAAACATATGGCAATGGCATACATCTCG
1 GAGCCACATCGACCTAGACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTCG
81300678 ACATGTAGAAGATCGCATGAGGCA
66 ACATGTAGAAGATCGCATGAGGCA
* ** *
81300702 GAGCCACATCGACCTAGACAAAACATGATCAAATGAT-AAACATATTGCAATGGCATACGCCTCA
1 GAGCCACATCGACCTAGACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTCG
* *
81300766 ACATGTCGAAGATCGTATGAGGCA
66 ACATGTAGAAGATCGCATGAGGCA
81300790 AAGCATAGAA
Statistics
Matches: 166, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
88 45 0.27
89 107 0.64
90 14 0.08
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (89 bp):
GAGCCACATCGACCTAGACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTCG
ACATGTAGAAGATCGCATGAGGCA
Found at i:81307684 original size:20 final size:20
Alignment explanation
Indices: 81307659--81307707 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
81307649 CCAAGAAATA
* * *
81307659 AGATCCGGATGCTTGTAGTT
1 AGATCCAGATGCTTCTACTT
81307679 AGATCCAGATGCTTCTACTT
1 AGATCCAGATGCTTCTACTT
81307699 AGATCCAGA
1 AGATCCAGA
81307708 AGCTCGTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (20 bp):
AGATCCAGATGCTTCTACTT
Found at i:81308607 original size:23 final size:22
Alignment explanation
Indices: 81308578--81308620 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
81308568 GGTTTTGCCA
81308578 ATTTGGGGTTTGGATTGTTTTTT
1 ATTTGGGGTTTGG-TTGTTTTTT
*
81308601 ATTTGGGTTTTGGTTGTTTT
1 ATTTGGGGTTTGGTTGTTTT
81308621 ATGACCAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.07, C:0.00, G:0.30, T:0.63
Consensus pattern (22 bp):
ATTTGGGGTTTGGTTGTTTTTT
Found at i:81308608 original size:22 final size:23
Alignment explanation
Indices: 81308578--81308620 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
81308568 GGTTTTGCCA
81308578 ATTTGGGG-TTTGGATTGTTTTTT
1 ATTTGGGGTTTTGG-TTGTTTTTT
81308601 ATTT-GGGTTTTGGTTGTTTT
1 ATTTGGGGTTTTGGTTGTTTT
81308621 ATGACCAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.07, C:0.00, G:0.30, T:0.63
Consensus pattern (23 bp):
ATTTGGGGTTTTGGTTGTTTTTT
Found at i:81311066 original size:9 final size:9
Alignment explanation
Indices: 81311027--81311173 Score: 59
Period size: 9 Copynumber: 15.6 Consensus size: 9
81311017 TACAAATATA
81311027 AAAAATTGAT
1 AAAAATT-AT
*
81311037 ATAAACTTAT
1 A-AAAATTAT
**
81311047 AAAAACAAT
1 AAAAATTAT
81311056 AAAAATTAT
1 AAAAATTAT
81311065 -AAAATTAT
1 AAAAATTAT
81311073 -AAAATTA-
1 AAAAATTAT
81311080 ATAAAATATATT
1 A-AAAAT-TA-T
*
81311092 AAAATTTTAT
1 AAAA-ATTAT
**
81311102 AAAAACAAAT
1 AAAAA-TTAT
*
81311112 TAAAATT-T
1 AAAAATTAT
81311120 AAAAAATGTAT
1 -AAAAAT-TAT
* *
81311131 TAAAAGTAT
1 AAAAATTAT
*
81311140 TAAAATTGAT
1 AAAAATT-AT
* *
81311150 ATAAACTTGT
1 A-AAAATTAT
81311160 AAAAATTAT
1 AAAAATTAT
81311169 AAAAA
1 AAAAA
81311174 AAACATAAAA
Statistics
Matches: 102, Mismatches: 22, Indels: 27
0.68 0.15 0.18
Matches are distributed among these distances:
8 16 0.16
9 42 0.41
10 26 0.25
11 16 0.16
12 2 0.02
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:81311068 original size:8 final size:8
Alignment explanation
Indices: 81311057--81311097 Score: 55
Period size: 8 Copynumber: 4.8 Consensus size: 8
81311047 AAAAACAATA
81311057 AAAATTAT
1 AAAATTAT
81311065 AAAATTAT
1 AAAATTAT
81311073 AAAATTAAT
1 AAAATT-AT
81311082 AAAATATATT
1 AAAAT-TA-T
81311092 AAAATT
1 AAAATT
81311098 TTATAAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 14 0.47
9 9 0.30
10 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:81311072 original size:26 final size:25
Alignment explanation
Indices: 81311036--81311123 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 25
81311026 AAAAAATTGA
*
81311036 TATAAACTTATAAAAACAATAAAAAT
1 TATAAAATTATAAAAACAAT-AAAAT
**
81311062 TATAAAATTATAAAATTAATAAAAT
1 TATAAAATTATAAAAACAATAAAAT
81311087 ATATTAAAATTTTATAAAAACAAATTAAAAT
1 -TA-TAAAA--TTATAAAAAC-AA-TAAAAT
81311118 T-TAAAA
1 TATAAAA
81311124 AATGTATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
25 5 0.10
26 19 0.37
27 5 0.10
28 5 0.10
29 8 0.16
30 3 0.06
31 6 0.12
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (25 bp):
TATAAAATTATAAAAACAATAAAAT
Found at i:81311078 original size:16 final size:19
Alignment explanation
Indices: 81311057--81311145 Score: 69
Period size: 19 Copynumber: 4.7 Consensus size: 19
81311047 AAAAACAATA
81311057 AAAATT-ATAAAAT-TA-T
1 AAAATTAATAAAATATATT
81311073 AAAATTAATAAAATATATT
1 AAAATTAATAAAATATATT
* * *
81311092 AAAATTTTATAAAAACAAATT
1 AAAA-TTAAT-AAAATATATT
*
81311113 AAAATTTAA-AAAATGTATT
1 AAAA-TTAATAAAATATATT
* *
81311132 AAAAGTATTAAAAT
1 AAAATTAATAAAAT
81311146 TGATATAAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.10
17 7 0.12
18 4 0.07
19 21 0.36
20 4 0.07
21 16 0.28
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTAATAAAATATATT
Found at i:81311645 original size:23 final size:24
Alignment explanation
Indices: 81311603--81311647 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
81311593 TTTATAAATT
*
81311603 TTTTATAATTTATTATATTTTTCA
1 TTTTATAATATATTATATTTTTCA
81311627 TTTTATAATAT-TTATATTTTT
1 TTTTATAATATATTATATTTTT
81311648 ATAAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTATAATATATTATATTTTTCA
Found at i:81311647 original size:17 final size:16
Alignment explanation
Indices: 81311627--81311697 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 16
81311617 ATATTTTTCA
81311627 TTTTATAATATTTATAT
1 TTTTATAA-ATTTATAT
*
81311644 TTTTATAAATTTATAA
1 TTTTATAAATTTATAT
*
81311660 GTTTATAACAATTTTAATAT
1 TTTTAT-A-AA-TTT-ATAT
81311680 TTTTAT---TTTATAT
1 TTTTATAAATTTATAT
81311693 TTTTA
1 TTTTA
81311698 ATGATTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
13 9 0.20
14 3 0.07
16 12 0.26
17 9 0.20
18 2 0.04
19 3 0.07
20 8 0.17
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (16 bp):
TTTTATAAATTTATAT
Found at i:81313115 original size:16 final size:14
Alignment explanation
Indices: 81313086--81313122 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
81313076 TATGTCGATT
81313086 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
*
81313100 AAAAAGAGAGAAAAA
1 AAAAAGA-AAAAAAA
81313115 AAAAAGAA
1 AAAAAGAA
81313123 GGGGAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:81316017 original size:13 final size:13
Alignment explanation
Indices: 81315999--81316028 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
81315989 GTGTAGTTGA
81315999 GATATTTTAGATG
1 GATATTTTAGATG
81316012 GATATTTTAGATG
1 GATATTTTAGATG
81316025 GATA
1 GATA
81316029 AACTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.43
Consensus pattern (13 bp):
GATATTTTAGATG
Found at i:81327078 original size:46 final size:47
Alignment explanation
Indices: 81327026--81327119 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
81327016 TATAAGTTAG
81327026 TATAATGAT-AAATTTATAATTTATTTATGACACTTTTAAAATTATT
1 TATAATGATAAAATTTATAATTTATTTATGACACTTTTAAAATTATT
81327072 TATAATGATAAAATTTATAATTTATTTATGACACTTTTAAAATTATT
1 TATAATGATAAAATTTATAATTTATTTATGACACTTTTAAAATTATT
81327119 T
1 T
81327120 TTCGTATTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 9 0.19
47 38 0.81
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (47 bp):
TATAATGATAAAATTTATAATTTATTTATGACACTTTTAAAATTATT
Found at i:81328276 original size:25 final size:25
Alignment explanation
Indices: 81328222--81328276 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
81328212 ACAAAAATAA
* * *
81328222 AATATTTTTTAAAAATTTCAAATTT
1 AATATTTTTAAAAAATTTCAAAATG
*
81328247 TATATTTTTAAAAAA-TTCTAAAATG
1 AATATTTTTAAAAAATTTC-AAAATG
81328272 AATAT
1 AATAT
81328277 AAAAAAGTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
AATATTTTTAAAAAATTTCAAAATG
Found at i:81329726 original size:6 final size:6
Alignment explanation
Indices: 81329717--81329745 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
81329707 TTGATGTTGA
81329717 TTTGTT TTTGTT TTTGTT TTT-TT TTTGTT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT
81329746 CGCGAAACGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTGTT
Found at i:81339615 original size:8 final size:8
Alignment explanation
Indices: 81339602--81339632 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
81339592 AGATTTTTGT
81339602 ATATATAC
1 ATATATAC
81339610 ATATATAC
1 ATATATAC
81339618 ATATATAC
1 ATATATAC
*
81339626 ACATATA
1 ATATATA
81339633 AATTTAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (8 bp):
ATATATAC
Found at i:81339766 original size:14 final size:15
Alignment explanation
Indices: 81339747--81339776 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
81339737 AAATAAATAA
81339747 ATAAAA-AACAACTG
1 ATAAAAGAACAACTG
81339761 ATAAAAGAACAACTG
1 ATAAAAGAACAACTG
81339776 A
1 A
81339777 AAACAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ATAAAAGAACAACTG
Found at i:81340015 original size:21 final size:21
Alignment explanation
Indices: 81339991--81340032 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
81339981 CCCATTTTAT
81339991 GTATAAAACCTCAATAGTATG
1 GTATAAAACCTCAATAGTATG
*
81340012 GTATGAAACCTCAATAGTATG
1 GTATAAAACCTCAATAGTATG
81340033 AAAACCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (21 bp):
GTATAAAACCTCAATAGTATG
Found at i:81342084 original size:19 final size:19
Alignment explanation
Indices: 81342042--81342108 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
81342032 ATATTAAAAA
*
81342042 ATAAAAATTGATATAAAT-TT
1 ATAAATATT-ATA-AAATATT
81342062 ATAAATATTATAAAATATT
1 ATAAATATTATAAAATATT
***
81342081 ATAAGCGTTATAAAAATATT
1 ATAAATATTAT-AAAATATT
*
81342101 AAAAATAT
1 ATAAATAT
81342109 AAGAAATCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 4 0.11
19 13 0.35
20 20 0.54
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (19 bp):
ATAAATATTATAAAATATT
Found at i:81348418 original size:39 final size:39
Alignment explanation
Indices: 81348364--81348443 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
81348354 ACTTCCTTAT
*
81348364 CCGTGAAAACTATATAAAATCTCGATTTTTCTAGTTAAG
1 CCGTGAAAACTATATAAAATATCGATTTTTCTAGTTAAG
81348403 CCGTGAAAACTATATAAAATATCGATTTTTCTAGTTAAG
1 CCGTGAAAACTATATAAAATATCGATTTTTCTAGTTAAG
81348442 CC
1 CC
81348444 AAATTTCATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (39 bp):
CCGTGAAAACTATATAAAATATCGATTTTTCTAGTTAAG
Found at i:81351466 original size:19 final size:19
Alignment explanation
Indices: 81351442--81351479 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
81351432 AGTACATTGT
81351442 GTATTTTATACTCGAACCC
1 GTATTTTATACTCGAACCC
81351461 GTATTTTATACTCGAACCC
1 GTATTTTATACTCGAACCC
81351480 TCCACTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (19 bp):
GTATTTTATACTCGAACCC
Found at i:81356768 original size:30 final size:31
Alignment explanation
Indices: 81356732--81356791 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
81356722 TTATATATAT
* *
81356732 AAATTTTGATTTTATGTAATT-TTATGCATG
1 AAATTTTAATTTGATGTAATTCTTATGCATG
* *
81356762 AAATTTTAATTTGATTTAATTCTTTTGCAT
1 AAATTTTAATTTGATGTAATTCTTATGCAT
81356792 TATTAACACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (31 bp):
AAATTTTAATTTGATGTAATTCTTATGCATG
Found at i:81378811 original size:23 final size:22
Alignment explanation
Indices: 81378784--81378826 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
81378774 CCGAAATTTC
* *
81378784 AAAATTTAGAAAATTTAAAAATT
1 AAAATTGAG-AAATTAAAAAATT
81378807 AAAATTGAGAAATTAAAAAA
1 AAAATTGAGAAATTAAAAAA
81378827 ATAGGAGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (22 bp):
AAAATTGAGAAATTAAAAAATT
Found at i:81382295 original size:27 final size:27
Alignment explanation
Indices: 81382257--81382311 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
81382247 GTCCTCAAAA
* * * *
81382257 ATTTTTTAAAAATTGATTAGATCCCTT
1 ATTTTTAAAAAATTCATTAAACCCCTT
81382284 ATTTTTAAAAAATTCATTAAACCCCTT
1 ATTTTTAAAAAATTCATTAAACCCCTT
81382311 A
1 A
81382312 AAAATTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.44
Consensus pattern (27 bp):
ATTTTTAAAAAATTCATTAAACCCCTT
Found at i:81393242 original size:13 final size:13
Alignment explanation
Indices: 81393224--81393262 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
81393214 ACCTGGTCAC
81393224 CTACTTTTATAAT
1 CTACTTTTATAAT
81393237 CTACTTTTATAAT
1 CTACTTTTATAAT
81393250 CTACTTTTATAAT
1 CTACTTTTATAAT
81393263 GTTATTAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
CTACTTTTATAAT
Found at i:81402286 original size:27 final size:28
Alignment explanation
Indices: 81402256--81402318 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
81402246 TTTAATAAGC
*
81402256 TTTTAAAATTTGGA-ATATTTTTTTTAT
1 TTTTAAAATTTGGAGATATTTTGTTTAT
* *
81402283 TTTTTAAATTTTGAGATATTTTGTTTAT
1 TTTTAAAATTTGGAGATATTTTGTTTAT
81402311 TTTTAAAA
1 TTTTAAAA
81402319 AAATTTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (28 bp):
TTTTAAAATTTGGAGATATTTTGTTTAT
Found at i:81405812 original size:5 final size:5
Alignment explanation
Indices: 81405802--81405830 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
81405792 TGTTCACATG
81405802 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
81405831 GGATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:81411508 original size:23 final size:23
Alignment explanation
Indices: 81411481--81411527 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
81411471 TAAATACATC
81411481 AGTTCAAATTAGTTTTTTGATTT
1 AGTTCAAATTAGTTTTTTGATTT
81411504 AGTTCAAATTAGTTTTTTGATTT
1 AGTTCAAATTAGTTTTTTGATTT
81411527 A
1 A
81411528 CTCGGTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.55
Consensus pattern (23 bp):
AGTTCAAATTAGTTTTTTGATTT
Found at i:81413693 original size:111 final size:110
Alignment explanation
Indices: 81413562--81413773 Score: 388
Period size: 111 Copynumber: 1.9 Consensus size: 110
81413552 AGATGAATTT
*
81413562 CTCCCCCCCCCCTCTTTGTAGATGATTGAATTAGAGTGAAATCAACCTTGTATGGTGGATTATAT
1 CTCCCCCCCCCCTCTTTGTAGATGATTGAATTAGAGTGAAATCAACCTTGTATGATGGATTATAT
81413627 TATGTTATGTTCCTCCTTTCTCAGTATGGTTACCATCTCTCCCTC
66 TATGTTATGTTCCTCCTTTCTCAGTATGGTTACCATCTCTCCCTC
*
81413672 CTCCCCCCCCCCTTTTTTGTAGATGATTGAATTAGAGTGAAATCAACCTTGTATGATGGATTATA
1 CTCCCCCCCCCC-TCTTTGTAGATGATTGAATTAGAGTGAAATCAACCTTGTATGATGGATTATA
*
81413737 TTATGTTATTTTCCTCCTTTCTCAGTATGGTTACCAT
65 TTATGTTATGTTCCTCCTTTCTCAGTATGGTTACCAT
81413774 GATGATGGTA
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
110 12 0.12
111 86 0.88
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (110 bp):
CTCCCCCCCCCCTCTTTGTAGATGATTGAATTAGAGTGAAATCAACCTTGTATGATGGATTATAT
TATGTTATGTTCCTCCTTTCTCAGTATGGTTACCATCTCTCCCTC
Found at i:81418429 original size:28 final size:28
Alignment explanation
Indices: 81418389--81418444 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
81418379 TCTTCATTCA
81418389 TTTCATTTTAAGTGATAGAAGTAAAAGG
1 TTTCATTTTAAGTGATAGAAGTAAAAGG
81418417 TTTCATTTTAAGTGATAGAAGTAAAAGG
1 TTTCATTTTAAGTGATAGAAGTAAAAGG
81418445 ATTTGGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (28 bp):
TTTCATTTTAAGTGATAGAAGTAAAAGG
Found at i:81419860 original size:24 final size:24
Alignment explanation
Indices: 81419833--81419882 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
81419823 CTTACTAATC
* *
81419833 GAACAATTCCAAACTACAACTGAG
1 GAACAATTCCAAACCACAACCGAG
81419857 GAACAATTCCAAACCACAACCGAG
1 GAACAATTCCAAACCACAACCGAG
81419881 GA
1 GA
81419883 TACGGGTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.28, G:0.14, T:0.12
Consensus pattern (24 bp):
GAACAATTCCAAACCACAACCGAG
Found at i:81420718 original size:27 final size:28
Alignment explanation
Indices: 81420683--81420742 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
81420673 AAAAAATATC
**
81420683 TTTTGGGGGCTAGAATTGAATTTTAATT
1 TTTTGGGGGCTAGAATTGAATAGTAATT
*
81420711 TTTTGGGGGTTAGAATTGAATAGTAATT
1 TTTTGGGGGCTAGAATTGAATAGTAATT
81420739 TTTT
1 TTTT
81420743 AGGTCAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (28 bp):
TTTTGGGGGCTAGAATTGAATAGTAATT
Found at i:81423485 original size:137 final size:137
Alignment explanation
Indices: 81423236--81423485 Score: 473
Period size: 137 Copynumber: 1.8 Consensus size: 137
81423226 ATATTTGGGG
81423236 CAATGCAAGGAAACTTAGTGGGAAAACCATGAAGAACATCTAGAGCGTCAACGAAAATCATGAAG
1 CAATGCAAGGAAACTTAGTGGGAAAACCATGAAGAACATCTAGAGCGTCAACGAAAATCATGAAG
* *
81423301 AAAACATCACCTCCGAAATTTGCCGCCCTTTTAATTTCTTGGCAGCCATCAGACACCTTCGAATC
66 AAAACACCACCTCCGAAATATGCCGCCCTTTTAATTTCTTGGCAGCCATCAGACACCTTCGAATC
81423366 AAAGGGA
131 AAAGGGA
81423373 CAATGCAAGGAAACTTAGTGGGAAAACCATGAAGAACATCTAGAGCGTCAACGAAAATCATGAAG
1 CAATGCAAGGAAACTTAGTGGGAAAACCATGAAGAACATCTAGAGCGTCAACGAAAATCATGAAG
*
81423438 AAAACACCACCTCCGAAATATGCCGCCCTTTTAATTTCTTGGTAGCCA
66 AAAACACCACCTCCGAAATATGCCGCCCTTTTAATTTCTTGGCAGCCA
81423486 ACACCTTCAA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 110 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (137 bp):
CAATGCAAGGAAACTTAGTGGGAAAACCATGAAGAACATCTAGAGCGTCAACGAAAATCATGAAG
AAAACACCACCTCCGAAATATGCCGCCCTTTTAATTTCTTGGCAGCCATCAGACACCTTCGAATC
AAAGGGA
Found at i:81426770 original size:312 final size:317
Alignment explanation
Indices: 81426353--81426996 Score: 859
Period size: 312 Copynumber: 2.0 Consensus size: 317
81426343 AAGTTGCAAC
* *
81426353 ACCAAGTTTAGGATTGTTAAATATATTTTTTTGTATAATTAAGTTTTATGGTTCATGGAGTTCAA
1 ACCAAGTTTAGGATTGTTAAATATATTTTTTTGTATAATTAAGTTTTATGGTTAATGGAGATCAA
** *
81426418 TCCTTCCTGGATTTGTAACTATCTCTCTTAATAACGTCATCTCCAAGATTCAAACAAAAGTTCTC
66 TCCTTCCTGGATTCATAACTATCTCTCTCAATAACGTCATCTCCAAGATTCAAACAAAAGTTCTC
* * *
81426483 TCATTAGAAGTGTAATAAACTTTACCATTACACCCAATACTTATCAATAAGATTGTTGAATTTTG
131 TCATTAGAAGTGCAATAAACCTTACCATTACACCCAATACTTATCAATAAGATTGTTAAATTTTG
81426548 ATCG-T-AT-TA-TATATATATG-TATAATGATAAGTAAATCTATATTACAAATATATATATATA
196 ATCGATCATATACTATATATATGATATAATGATAAGTAAATCTATATTA-AAATATATATATATA
* * *
81426608 TATTATGGCTATATAGAGGCATGCATAAAGGGAAATCAAATGACATTATCATTATGAA
260 TAATAAGGATATATAGAGGCATGCATAAAGGGAAATCAAATGACATTATCATTATGAA
*
81426666 ACCAAGTTTAGGATTGTTAAA-ATTTTTTTTTGTATAATTAAGTTTTATGGTTAATGGAGATCAA
1 ACCAAGTTTAGGATTGTTAAATATATTTTTTTGTATAATTAAGTTTTATGGTTAATGGAGATCAA
** * * * * *
81426730 TCCTTTTTGGATTCATAATTTTCTTTCTCAATAACGTCATCTCTAAGATTCGAACAAAAGTTCTC
66 TCCTTCCTGGATTCATAACTATCTCTCTCAATAACGTCATCTCCAAGATTCAAACAAAAGTTCTC
** * **
81426795 TCATTAGAAGTGCAATAAACCTTACCATTACACTTAATATTTATCGGTAAGATTGTTAAATTTTG
131 TCATTAGAAGTGCAATAAACCTTACCATTACACCCAATACTTATCAATAAGATTGTTAAATTTTG
* *
81426860 ATCGTATCATATATCTATATATATGATAAAATACACATATAATGATAAGTAATTCTATATTAATA
196 ATCG-ATCATATA-CTATATATATG-----------ATATAATGATAAGTAAATCTATATTAAAA
* **
81426925 TATATATATATATAATAAGGATTTATAGAGGCATGCATAAAGGGAAATCAAATGACATTATGGTT
248 TATATATATATATAATAAGGATATATAGAGGCATGCATAAAGGGAAATCAAATGACATTATCATT
81426990 ATGAA
313 ATGAA
81426995 AC
1 AC
81426997 TTAGGAATTT
Statistics
Matches: 284, Mismatches: 29, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
312 156 0.55
313 21 0.07
314 1 0.00
315 2 0.01
316 2 0.01
318 10 0.04
329 68 0.24
330 24 0.08
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (317 bp):
ACCAAGTTTAGGATTGTTAAATATATTTTTTTGTATAATTAAGTTTTATGGTTAATGGAGATCAA
TCCTTCCTGGATTCATAACTATCTCTCTCAATAACGTCATCTCCAAGATTCAAACAAAAGTTCTC
TCATTAGAAGTGCAATAAACCTTACCATTACACCCAATACTTATCAATAAGATTGTTAAATTTTG
ATCGATCATATACTATATATATGATATAATGATAAGTAAATCTATATTAAAATATATATATATAT
AATAAGGATATATAGAGGCATGCATAAAGGGAAATCAAATGACATTATCATTATGAA
Found at i:81430960 original size:31 final size:31
Alignment explanation
Indices: 81430924--81430983 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
81430914 TTACAAAATG
*
81430924 GTCACTGGACTATTTGAAAGTTTTCATTTAA
1 GTCACTGAACTATTTGAAAGTTTTCATTTAA
*
81430955 GTCACTGAACTATTTGAAAGTTTTTATTT
1 GTCACTGAACTATTTGAAAGTTTTCATTT
81430984 GAGCCACTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (31 bp):
GTCACTGAACTATTTGAAAGTTTTCATTTAA
Found at i:81432586 original size:109 final size:109
Alignment explanation
Indices: 81432392--81432697 Score: 447
Period size: 109 Copynumber: 2.8 Consensus size: 109
81432382 TAAATTCAAT
* * * * * *
81432392 AGGATATTTGGCAATTTGATTAAACGAG--AAATCGAAACCCAGTACCTTAGGGCACG-TTCCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTC
* *
81432454 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
* * * * *
81432498 AGGATATTTAGCTATTTGGTTGAATGAGAAAAATCTATACCCAGTACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTC
*
81432563 GAATTTCCAAACACAAAATATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
*
81432607 ATGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTC
*
81432672 GAATTTCCAAACGCTAAATATTGCCT
66 GAATTTCCAAACGCAAAATATTGCCT
81432698 CAATCGAAAA
Statistics
Matches: 177, Mismatches: 20, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
106 23 0.13
108 25 0.14
109 129 0.73
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (109 bp):
AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
Found at i:81433234 original size:17 final size:17
Alignment explanation
Indices: 81433212--81433246 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
81433202 AAATAGGTAC
81433212 AAGTGTATA-AATTAAAA
1 AAGTGTATATAA-TAAAA
81433229 AAGTGTATATAATAAAA
1 AAGTGTATATAATAAAA
81433246 A
1 A
81433247 TAGTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (17 bp):
AAGTGTATATAATAAAA
Found at i:81443524 original size:26 final size:26
Alignment explanation
Indices: 81443494--81443546 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
81443484 TCGTGGAGTG
81443494 ATAGAATTATTTTTCGTAGAAACGAC
1 ATAGAATTATTTTTCGTAGAAACGAC
81443520 ATAGAATTATTTTTCGTAGAAACGAC
1 ATAGAATTATTTTTCGTAGAAACGAC
81443546 A
1 A
81443547 GCTCAATGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (26 bp):
ATAGAATTATTTTTCGTAGAAACGAC
Found at i:81449239 original size:29 final size:30
Alignment explanation
Indices: 81449207--81449264 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
81449197 TAAAATTTAA
*
81449207 AATTTAGTCTTTATACTTTT-ATTTTTAGG
1 AATTTAATCTTTATACTTTTAATTTTTAGG
*
81449236 AATTTAATCTTTCTACTTTTCAATTTTTA
1 AATTTAATCTTTATACTTTT-AATTTTTA
81449265 AAATTCAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.72
31 7 0.28
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (30 bp):
AATTTAATCTTTATACTTTTAATTTTTAGG
Found at i:81449409 original size:12 final size:13
Alignment explanation
Indices: 81449387--81449415 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
81449377 ATGTCACACT
81449387 AAAAAATTTTAAC
1 AAAAAATTTTAAC
81449400 AAAAAA-TTTAAC
1 AAAAAATTTTAAC
81449412 AAAA
1 AAAA
81449416 TTAACAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAAATTTTAAC
Found at i:81453800 original size:28 final size:27
Alignment explanation
Indices: 81453757--81453809 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
81453747 CTAAAAATTG
81453757 TATAAAAAAATTAAATATACTAAAAAACC
1 TATAAAAAAATTAAATAT--TAAAAAACC
*
81453786 TATAATAAAA-TAAATATTAAAAAA
1 TATAAAAAAATTAAATATTAAAAAA
81453810 GATAACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
28 7 0.30
29 9 0.39
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (27 bp):
TATAAAAAAATTAAATATTAAAAAACC
Found at i:81459730 original size:10 final size:10
Alignment explanation
Indices: 81459715--81459745 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
81459705 TCTGGTTTTT
81459715 GTTGATGAAA
1 GTTGATGAAA
*
81459725 GTTGATGGAA
1 GTTGATGAAA
81459735 GTTGATGAAA
1 GTTGATGAAA
81459745 G
1 G
81459746 AGAATGGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (10 bp):
GTTGATGAAA
Found at i:81460290 original size:9 final size:9
Alignment explanation
Indices: 81460277--81460327 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
81460267 GTCACCTCCT
81460277 TCACCATCA
1 TCACCATCA
*
81460286 ACACCATCA
1 TCACCATCA
*
81460295 TCATCATCA
1 TCACCATCA
*
81460304 TCATCATCA
1 TCACCATCA
*
81460313 TCATCATCA
1 TCACCATCA
81460322 TCACCA
1 TCACCA
81460328 CCACCTTCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.25
Consensus pattern (9 bp):
TCACCATCA
Found at i:81460298 original size:3 final size:3
Alignment explanation
Indices: 81460290--81460324 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
81460280 CCATCAACAC
81460290 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
81460325 CCACCACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:81460343 original size:3 final size:3
Alignment explanation
Indices: 81460337--81460366 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
81460327 ACCACCTTCA
*
81460337 CCT CCT CCT CCT CCT TCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
81460367 GAGGAACAAT
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:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (3 bp):
CCT
Found at i:81460478 original size:39 final size:39
Alignment explanation
Indices: 81460434--81460513 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
81460424 TCACCGTCAC
81460434 CATCACCGCCACCTCCTAAG-AAACAATCATCACCACCTT
1 CATCACCGCCACCTCCTAAGCAAA-AATCATCACCACCTT
* *
81460473 CATCACCTCCTCCTCCTAAGCAAAAATCATCACCACCTT
1 CATCACCGCCACCTCCTAAGCAAAAATCATCACCACCTT
81460512 CA
1 CA
81460514 GATAGCTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 35 0.92
40 3 0.08
ACGTcount: A:0.33, C:0.44, G:0.04, T:0.20
Consensus pattern (39 bp):
CATCACCGCCACCTCCTAAGCAAAAATCATCACCACCTT
Found at i:81463181 original size:15 final size:15
Alignment explanation
Indices: 81463161--81463191 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
81463151 GAGAAGAGAC
81463161 TAAACTATTGGTAGT
1 TAAACTATTGGTAGT
81463176 TAAACTATTGGTAGT
1 TAAACTATTGGTAGT
81463191 T
1 T
81463192 TTAGGCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (15 bp):
TAAACTATTGGTAGT
Found at i:81469456 original size:33 final size:33
Alignment explanation
Indices: 81469414--81469481 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
81469404 TTCAATATTT
* *
81469414 CCATTTCCATGGA-TTCTAAATCCTCTAAGATCC
1 CCATTTCCATGCACTT-TAAATCCTCTAACATCC
*
81469447 CCATTTCCATGCACTTTAAATCCTTTAACATCC
1 CCATTTCCATGCACTTTAAATCCTCTAACATCC
81469480 CC
1 CC
81469482 GTGCTTTCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (33 bp):
CCATTTCCATGCACTTTAAATCCTCTAACATCC
Found at i:81472275 original size:22 final size:23
Alignment explanation
Indices: 81472250--81472299 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
81472240 TATGAGTTCA
*
81472250 TTTAATTAAAAATCATAGTTA-T
1 TTTAATAAAAAATCATAGTTAGT
* *
81472272 TTTAATAAAAAATCTTATTTAGT
1 TTTAATAAAAAATCATAGTTAGT
81472295 TTTAA
1 TTTAA
81472300 AATTTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (23 bp):
TTTAATAAAAAATCATAGTTAGT
Found at i:81476099 original size:14 final size:15
Alignment explanation
Indices: 81476076--81476117 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
81476066 TAAAAAAAAT
81476076 AGAAGAAAAGAAAAGA
1 AGAAG-AAAGAAAAGA
*
81476092 A-AAGAAAGGAAAGA
1 AGAAGAAAGAAAAGA
81476106 AGAAGAAGAGAA
1 AGAAGAA-AGAA
81476118 GGAAATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.45
15 8 0.36
16 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AGAAGAAAGAAAAGA
Found at i:81476104 original size:19 final size:19
Alignment explanation
Indices: 81476076--81476122 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
81476066 TAAAAAAAAT
*
81476076 AGAAGAAAAGAA-AAGAAA
1 AGAAGGAAAGAAGAAGAAA
*
81476094 AGAAAGGAAAGAAGAAGAAG
1 AG-AAGGAAAGAAGAAGAAA
81476114 AGAAGGAAA
1 AGAAGGAAA
81476123 TCAAATACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 16 0.64
20 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AGAAGGAAAGAAGAAGAAA
Found at i:81480634 original size:257 final size:257
Alignment explanation
Indices: 81480178--81480661 Score: 835
Period size: 257 Copynumber: 1.9 Consensus size: 257
81480168 TGGCGTCGAA
*
81480178 GGAAAAACTGCGAGACGATGCCGGATCTTCTTCTCGACCTCTGTTTAGGTACCCTAATTACTTGC
1 GGAAAAACTGCGAGACGATGCCAGATCTTCTTCTCGACCTCTGTTTAGGTACCCTAATTACTTGC
*
81480243 ATAATTATCATGTTTAAATATTACTTGAATTGTTTGTTTAAAAAGCATGCGCCGAATCGTTTGCT
66 ATAATTATCATGTTTAAATATTACTTGAATTGTTTGTTTAAAAAGCATGCACCGAATCGTTTGCT
* * * *
81480308 TGCTTGAATTCTTTATTTTCCCCCTTAGTTTAAGTGATTTTGAATCGGTCTGGTTAATGATAGAA
131 TGCTTGAATTCTTTATTTTCCCCCTTAATATAAGTGATTTTGAATCGGTCTGGTGAACGATAGAA
*
81480373 TCATAATAGTTGTAATGATCTTGAATTCTATATGGATCAGTGGCGTCGAAAGAAAAACCAAG
196 TCATAATAGTTGTAAGGATCTTGAATTCTATATGGATCAGTGGCGTCGAAAGAAAAACCAAG
*
81480435 GGAAAAACTGCGAGACGATGCCAGATCTTCTTCTCGATCTCTGTTTAGGTACCCTAATTACTTGC
1 GGAAAAACTGCGAGACGATGCCAGATCTTCTTCTCGACCTCTGTTTAGGTACCCTAATTACTTGC
*
81480500 ATGATTATCATGTTTAAATATTACTTGAATTGTTTGTTTAAAAAGCATGCACCGAATCGTTTGCT
66 ATAATTATCATGTTTAAATATTACTTGAATTGTTTGTTTAAAAAGCATGCACCGAATCGTTTGCT
***
81480565 TGCTTGAATTCCTTT-TTTTCTTTCTTAATATAAGTGATTTTGAATCGGTCTGGTGAACGATAGA
131 TGCTTGAATT-CTTTATTTTCCCCCTTAATATAAGTGATTTTGAATCGGTCTGGTGAACGATAGA
*
81480629 ATCATAGTAGTTGTAAGGATCTTGAATTCTATA
195 ATCATAATAGTTGTAAGGATCTTGAATTCTATA
81480662 AGGAATATTG
Statistics
Matches: 213, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
257 209 0.98
258 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (257 bp):
GGAAAAACTGCGAGACGATGCCAGATCTTCTTCTCGACCTCTGTTTAGGTACCCTAATTACTTGC
ATAATTATCATGTTTAAATATTACTTGAATTGTTTGTTTAAAAAGCATGCACCGAATCGTTTGCT
TGCTTGAATTCTTTATTTTCCCCCTTAATATAAGTGATTTTGAATCGGTCTGGTGAACGATAGAA
TCATAATAGTTGTAAGGATCTTGAATTCTATATGGATCAGTGGCGTCGAAAGAAAAACCAAG
Found at i:81488033 original size:18 final size:18
Alignment explanation
Indices: 81488001--81488035 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
81487991 TTATATTTTT
81488001 AAATCTAAAAGTAAAAAA
1 AAATCTAAAAGTAAAAAA
81488019 AAATCATAAAA-TAAAAA
1 AAATC-TAAAAGTAAAAA
81488036 TAAAGAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCTAAAAGTAAAAAA
Found at i:81488325 original size:50 final size:51
Alignment explanation
Indices: 81488266--81488370 Score: 158
Period size: 51 Copynumber: 2.1 Consensus size: 51
81488256 CTTCTTGTGA
* * *
81488266 ATTTTGGTCGGGAATTCTTTA-TTTATTGAAAAGAGTTCTTTCAGGGGTCC
1 ATTTTGGTCGGGAATTCTTTATTTTACTGAAAAGAGTTATTGCAGGGGTCC
* *
81488316 ATTTTGGTCGGGATTTCTTTATTTTACTGAAAAGGGTTATTGCAGGGGTCC
1 ATTTTGGTCGGGAATTCTTTATTTTACTGAAAAGAGTTATTGCAGGGGTCC
81488367 ATTT
1 ATTT
81488371 ACATGCCACA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 20 0.41
51 29 0.59
ACGTcount: A:0.21, C:0.11, G:0.25, T:0.43
Consensus pattern (51 bp):
ATTTTGGTCGGGAATTCTTTATTTTACTGAAAAGAGTTATTGCAGGGGTCC
Found at i:81494256 original size:30 final size:30
Alignment explanation
Indices: 81494209--81494352 Score: 173
Period size: 30 Copynumber: 4.8 Consensus size: 30
81494199 ACTTTTCTCA
*
81494209 ACTAGCCAC-CCTTTTCCACCACCAACTCC
1 ACTAGCCACACTTTTTCCACCACCAACTCC
*
81494238 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACTTTTTCCACCACCAACTCC
* *
81494268 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACTTTTTCCACCACCAACTCC
** ** *
81494298 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTTTTTCCACCACCAACTCC
* **
81494328 ACTAACCACACTTGCTCCACCACCA
1 ACTAGCCACACTTTTTCCACCACCA
81494353 CTTGTACCTA
Statistics
Matches: 99, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
29 9 0.09
30 90 0.91
ACGTcount: A:0.26, C:0.47, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACTTTTTCCACCACCAACTCC
Found at i:81494858 original size:22 final size:22
Alignment explanation
Indices: 81494826--81494883 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
81494816 CTCTTTTTTG
81494826 TTATTAT-TATATTTCTTAATA
1 TTATTATATATATTTCTTAATA
*
81494847 TTATTATATATATTCTTTTAATA
1 TTATTATATATATT-TCTTAATA
*
81494870 -TATTAGATATATTT
1 TTATTATATATATTT
81494884 TAAATTCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 8 0.24
22 18 0.55
23 7 0.21
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTATATATATTTCTTAATA
Found at i:81494920 original size:27 final size:25
Alignment explanation
Indices: 81494844--81494960 Score: 78
Period size: 25 Copynumber: 4.7 Consensus size: 25
81494834 ATATTTCTTA
* *
81494844 ATATTAT-TATATATATTCTTTTAAT
1 ATATTATATATATATATT-TTATACT
* ** *
81494869 ATATTAGATATAT-T-TTAAATTCT
1 ATATTATATATATATATTTTATACT
81494892 ATATTACGTATATATATATTTTATACT
1 ATATTA--TATATATATATTTTATACT
* * * * *
81494919 ATTTTATTTATATATCTTTAATATT
1 ATATTATATATATATATTTTATACT
*
81494944 ATATTATTTATATATAT
1 ATATTATATATATATAT
81494961 ATATATATTT
Statistics
Matches: 70, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
23 8 0.11
24 2 0.03
25 43 0.61
26 6 0.09
27 11 0.16
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
ATATTATATATATATATTTTATACT
Found at i:81494930 original size:25 final size:25
Alignment explanation
Indices: 81494876--81494960 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 25
81494866 AATATATTAG
* *
81494876 ATATAT-TTTAAATTCTATATTACGTAT
1 ATATATATTT-AATACTATATTA--TTT
* *
81494903 ATATATATTTTATACTATTTTATTT
1 ATATATATTTAATACTATATTATTT
* *
81494928 ATATATCTTTAATATTATATTATTT
1 ATATATATTTAATACTATATTATTT
81494953 ATATATAT
1 ATATATAT
81494961 ATATATATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
25 30 0.62
27 15 0.31
28 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (25 bp):
ATATATATTTAATACTATATTATTT
Found at i:81494945 original size:16 final size:17
Alignment explanation
Indices: 81494904--81494970 Score: 70
Period size: 16 Copynumber: 4.1 Consensus size: 17
81494894 ATTACGTATA
*
81494904 TATATATTTTATACTATT
1 TATATATTATATA-TATT
*
81494922 T-TAT-TTATATATCTT
1 TATATATTATATATATT
81494937 TA-ATATTATAT-TATT
1 TATATATTATATATATT
81494952 TATATATATATATATATT
1 TATATAT-TATATATATT
81494970 T
1 T
81494971 TTCTACATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
15 11 0.27
16 16 0.39
17 8 0.20
18 6 0.15
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TATATATTATATATATT
Found at i:81495028 original size:24 final size:22
Alignment explanation
Indices: 81494985--81495045 Score: 86
Period size: 24 Copynumber: 2.7 Consensus size: 22
81494975 ACATGTTATC
*
81494985 TTATGTATATATCTTAACTATA
1 TTATGTATATATTTTAACTATA
81495007 TTATGTATATATTTTAACACTATA
1 TTATGTATATATTTT-A-ACTATA
*
81495031 TTATGTACATATTTT
1 TTATGTATATATTTT
81495046 TAATATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.40
23 1 0.03
24 20 0.57
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.52
Consensus pattern (22 bp):
TTATGTATATATTTTAACTATA
Found at i:81495222 original size:16 final size:15
Alignment explanation
Indices: 81495198--81495245 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
81495188 TAATTATTAT
*
81495198 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
81495214 TATTTTAATATTTTA
1 TATTTTAATATTTTA
81495229 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
81495245 T
1 T
81495246 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:81495233 original size:7 final size:8
Alignment explanation
Indices: 81495198--81495249 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
81495188 TAATTATTAT
*
81495198 TATTCTAA
1 TATTTTAA
*
81495206 TATTTTGA
1 TATTTTAA
81495214 TATTTTAA
1 TATTTTAA
81495222 TATTTT-A
1 TATTTTAA
81495229 TATTTTATA
1 TATTTTA-A
*
81495238 TATTTTAT
1 TATTTTAA
81495246 TATT
1 TATT
81495250 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:81498819 original size:12 final size:12
Alignment explanation
Indices: 81498802--81498837 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
81498792 AACATTTTGA
81498802 CATTCATACATT
1 CATTCATACATT
**
81498814 CATTCATGTATT
1 CATTCATACATT
81498826 CATTCATACATT
1 CATTCATACATT
81498838 GCATATCCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (12 bp):
CATTCATACATT
Found at i:81507347 original size:73 final size:73
Alignment explanation
Indices: 81507171--81507425 Score: 413
Period size: 73 Copynumber: 3.5 Consensus size: 73
81507161 CTTTTCAAGG
* * * * * *
81507171 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGATACTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
* *
81507236 ATTTTTC-
66 GTTTGTCA
* *
81507243 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
81507308 GTTTGTCA
66 GTTTGTCA
81507316 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
81507381 GTTTGTCA
66 GTTTGTCA
81507389 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
81507426 GGCTCACAGG
Statistics
Matches: 170, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
72 62 0.36
73 108 0.64
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
GTTTGTCA
Found at i:81507463 original size:14 final size:14
Alignment explanation
Indices: 81507444--81507472 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
81507434 GGCTGAGGTC
81507444 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
81507458 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
81507472 T
1 T
81507473 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:81507582 original size:74 final size:73
Alignment explanation
Indices: 81507481--81507901 Score: 294
Period size: 73 Copynumber: 5.5 Consensus size: 73
81507471 TTCGTAAAAA
* *
81507481 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTA-ATTTAAATTT
*
81507546 TTGTTT-TCC
65 CTGTTTGT-C
* *
81507555 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTAAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTAAATTTC
81507620 TGTTTGTC
66 TGTTTGTC
* * * * * ** *
81507628 AAAAATTAACTTATATTGCGAGAGGTGAGTTGAGACTC-GGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTAAGGTAATTTAAAT
81507692 TTCTGTTCTTCAATTTCTGTTC
63 TTCTG---------TT-TG-TC
* ** * * * * * * *
81507714 GTAAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
1 -AAAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACACGCTAAGGTAAT
*
81507776 TTAAATTTCTGTTTTTC
57 TTAAATTTCTGTTTGTC
* * * * *
81507793 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGATACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTAAATT
81507858 TCTGTTTGTC
64 TCTGTTTGTC
*
81507868 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
81507902 TCTCGGCTCA
Statistics
Matches: 276, Mismatches: 42, Indels: 59
0.73 0.11 0.16
Matches are distributed among these distances:
72 2 0.01
73 81 0.29
74 53 0.19
75 56 0.20
79 2 0.01
80 18 0.07
81 5 0.02
82 1 0.00
83 2 0.01
84 4 0.01
85 3 0.01
86 5 0.02
87 16 0.06
90 23 0.08
92 3 0.01
93 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTAAATTTC
TGTTTGTC
Found at i:81507669 original size:240 final size:238
Alignment explanation
Indices: 81507243--81507949 Score: 1200
Period size: 240 Copynumber: 3.0 Consensus size: 238
81507233 TTTATTTTTC
* * *
81507243 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTTCT
**
81507308 GTTTGT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
66 GTTT-TCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
* * *
81507372 TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAGGC
130 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGACTCGGCTCACATGC
81507437 TGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAA
195 TGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGT-AAAAA
*
81507482 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTAAATTTC
*
81507547 TGTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTAAGGTAATT
65 TGTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
*
81507612 TCAATTTCTGTTTGTCAAAAATTAACTTATATTGCGAGAGGTGAGTTGAGACTCGGCTCACATGC
130 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGACTCGGCTCACATGC
*
81507677 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
195 TGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAA
81507721 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTTCT
* * *
81507786 GTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGATACGCTGAGGTAAT
66 G-TTTTC-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
*
81507851 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATG
129 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGACTCGGCTCACATG
* *
81507916 CTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCT
194 CTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCT
81507950 ATTTTTCAAT
Statistics
Matches: 442, Mismatches: 22, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
238 12 0.03
239 116 0.26
240 314 0.71
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (238 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTTCT
GTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTT
CAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGACTCGGCTCACATGCT
GAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAA
Found at i:81507705 original size:14 final size:14
Alignment explanation
Indices: 81507686--81507713 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
81507676 CTGAGGTCTT
81507686 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
81507700 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
81507714 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:81507745 original size:165 final size:164
Alignment explanation
Indices: 81507555--81507863 Score: 460
Period size: 165 Copynumber: 1.9 Consensus size: 164
81507545 TTTGTTTTCC
* *
81507555 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTAAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTAAATTTC
* * * *
81507620 TGTTTGTC-AAAAATTAACTTATATTGCGAGAGGTGAGTTGAGACTC-GGCTCACATGCTGAGGT
66 TGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGACTCGGGAT-AC--GCTGAGGT
**
81507683 CTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
128 AATTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
* *
81507720 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTAAATTTC
* *
81507785 TGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGATACGCTGAGGTAA
66 TGTTTGTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGACTCGGGATACGCTGAGGTAA
81507850 TTTCAATTTCTGTT
130 TTTCAATTTCTGTT
81507864 TGTCAAAAAT
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
165 90 0.70
167 36 0.28
168 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (164 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTAAATTTC
TGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGACTCGGGATACGCTGAGGTAAT
TTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
Found at i:81507794 original size:90 final size:90
Alignment explanation
Indices: 81507628--81507794 Score: 237
Period size: 92 Copynumber: 1.8 Consensus size: 90
81507618 TCTGTTTGTC
* * * * *
81507628 AAAAATTAACTTATATTGCGAGAGGTGAGTTGAGACTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGACTCGG--CACACGCTGAGGTATTTTAAATT
81507693 TCTGTTCTTCAATTTCTGTTCGTAAAA
64 TCTGTTCTTCAATTTCTGTTCGTAAAA
*
81507720 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGACTC-GGCACACGCTGAGGTATTTTAAATTT
*
81507784 CTGTTTTTCAA
65 CTGTTCTTCAA
81507795 AAAAATCAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 30 0.45
92 35 0.52
93 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (90 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGACTCGGCACACGCTGAGGTATTTTAAATTTC
TGTTCTTCAATTTCTGTTCGTAAAA
Found at i:81507827 original size:75 final size:74
Alignment explanation
Indices: 81507718--81507944 Score: 296
Period size: 75 Copynumber: 3.0 Consensus size: 74
81507708 CTGTTCGTAA
81507718 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTAAATT
81507783 TCTGTTTTTC
65 TCTGTTTTTC
* * * *
81507793 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGATACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTAAATT
*
81507858 TCTGTTTGTC
65 TCTGTTTTTC
* * * * *
81507868 --AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTAAA
*
81507931 TTTCTGCTTTTC
63 TTTCTGTTTTTC
81507943 AA
1 AA
81507945 TTTCTATTTT
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
72 2 0.02
73 35 0.27
75 94 0.72
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTAAATTT
CTGTTTTTC
Found at i:81507946 original size:14 final size:14
Alignment explanation
Indices: 81507923--81507972 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
81507913 ATGCTGAGGT
* *
81507923 CTTTTTAATTTCTG
1 CTTTTCAATTTCTA
81507937 CTTTTCAATTTCTA
1 CTTTTCAATTTCTA
* *
81507951 TTTTTCAATTTATA
1 CTTTTCAATTTCTA
*
81507965 TTTTTCAA
1 CTTTTCAA
81507973 AAATCAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.22, C:0.14, G:0.02, T:0.62
Consensus pattern (14 bp):
CTTTTCAATTTCTA
Done.