Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
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: 4817204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 18
Found at i:3426356 original size:32 final size:32
Alignment explanation
Indices: 3426318--3426904 Score: 146
Period size: 32 Copynumber: 18.4 Consensus size: 32
3426308 TTTTAAAATA
3426318 ATTTATTTTAAATAATTTATTAGTATTGATTG
1 ATTTATTTTAAATAATTTATTAGTATTGATTG
* * * *
3426350 ATTTATTTAAAATATGGATGATTTATTATTGGTTGTATGG
1 ATTTATTT-TAA-AT--A--ATTTATTAGT-ATTG-ATTG
* *
3426390 ATTGATTTATTTAAATAATTTATTAGTATGGATTG
1 ATT--TAT-TTTAAATAATTTATTAGTATTGATTG
*
3426425 ATTTACTTT-AA-AA--TA-T-G----GATTG
1 ATTTATTTTAAATAATTTATTAGTATTGATTG
3426447 ATTTATTTTAAATAATTTATTAGTA-TGAATTG
1 ATTTATTTTAAATAATTTATTAGTATTG-ATTG
* *
3426479 ATTTATTTT-AA-AA--TA-T-GGATTGATTT
1 ATTTATTTTAAATAATTTATTAGTATTGATTG
** * * *
3426505 ATTTA-AAT-AATTA-TTAGTATGGATTGA---
1 ATTTATTTTAAATAATTTATTA-GTATTGATTG
3426532 -TTTATTTTAAATAATTTA-TAGTA-TGAATTG
1 ATTTATTTTAAATAATTTATTAGTATTG-ATTG
*
3426562 ATTTATTTTAAATAATTTATT-GTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATTGATTG
*
3426593 ATTTATTTTAAAATGATTGATTTATTATTGTAGT-AGTATG
1 ATTTATTTT-AAAT-A---ATTTATTA--GTATTGA-T-TG
* *
3426633 AATTGATTTATTTTAAATAA-TTATTAGTATGGATTG
1 -ATTTA-TT---TTAAATAATTTATTAGTATTGATTG
3426669 ATTTATTTT-AA-AA--TA-T-G----GATTG
1 ATTTATTTTAAATAATTTATTAGTATTGATTG
*
3426691 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATTGATTG
* * * *
3426723 ATTTATTTTAAATATGGATTGATT--TATTTAAATA
1 ATTTATTTTAAATA---ATTTATTAGTA-TTGATTG
* * * * * *
3426757 ATTTA--TTAGTATAGATTGATTTA-TTTTAAATA
1 ATTTATTTTA-AATA-ATTTA-TTAGTATTGATTG
* * * *
3426789 ATTTATTTGTATGGATCGATTTATTTTAAAATATGGATTG
1 ATTTATTT-TA--AAT-AATTTA--TT--AGTATTGATTG
* *
3426829 ATTTAATTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATTGATTG
* *
3426861 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATTGATTG
3426893 ATTTATTTTAAA
1 ATTTATTTTAAA
3426905 ATATAGATTG
Statistics
Matches: 424, Mismatches: 52, Indels: 158
0.67 0.08 0.25
Matches are distributed among these distances:
22 27 0.06
23 4 0.01
24 4 0.01
25 3 0.01
26 23 0.05
27 13 0.03
28 15 0.04
29 5 0.01
30 13 0.03
31 47 0.11
32 116 0.27
33 10 0.02
34 15 0.04
35 18 0.04
36 24 0.06
37 18 0.04
38 11 0.03
39 17 0.04
40 20 0.05
41 6 0.01
42 6 0.01
43 3 0.01
44 4 0.01
45 2 0.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATTGATTG
Found at i:3426422 original size:54 final size:54
Alignment explanation
Indices: 3426385--3427013 Score: 432
Period size: 54 Copynumber: 11.6 Consensus size: 54
3426375 TTATTGGTTG
*
3426385 TATGGATTGATTTA-TTTAAATAATTTATTAGTATGGATTGATTTACTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
3426438 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
3426492 TATGGATTGATTTA-TTTAAATAA-TTATTAGTATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA
3426546 TTTATAGTATGAATTGATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTT-AAA
1 --TAT-G---G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * *
3426605 -AT-GATTGATTTA--TT--AT--TGTAGTAGTATGAATTGATTTATTTTAAATAATTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA--A--A
** ** * ** * * *
3426659 GTATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAG
1 -TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAA
** ** * ** * * *
3426714 TATGGATTGATTTATTTTAAAT-ATGGATT-G-ATTTATTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAA
* * *
3426766 TATAGATTGATTTATTTTAAATAATTTATTTGTATGGATCGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
3426820 TATGGATTGATTTAATTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--A-AA---A
* * * ***
3426880 TTTGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTT
1 ----TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
3426931 TAT-AATTGATTTA-TTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
3426983 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
3427014 TTTTAGTTGT
Statistics
Matches: 470, Mismatches: 49, Indels: 113
0.74 0.08 0.18
Matches are distributed among these distances:
44 4 0.01
45 17 0.04
46 16 0.03
47 5 0.01
48 2 0.00
49 3 0.01
50 13 0.03
51 7 0.01
52 73 0.16
53 52 0.11
54 138 0.29
55 12 0.03
56 8 0.02
57 20 0.04
58 9 0.02
59 7 0.01
60 5 0.01
61 15 0.03
62 36 0.08
63 11 0.02
64 17 0.04
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:3426441 original size:22 final size:22
Alignment explanation
Indices: 3426416--3426458 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3426406 AATTTATTAG
3426416 TATGGATTGATTTACTTTAAAA
1 TATGGATTGATTTACTTTAAAA
*
3426438 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTACTTTAAA
3426459 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGATTGATTTACTTTAAAA
Found at i:3426519 original size:34 final size:31
Alignment explanation
Indices: 3426490--3426736 Score: 176
Period size: 31 Copynumber: 7.8 Consensus size: 31
3426480 TTTATTTTAA
3426490 AATATGGATTGATTTA-TTTAAATAATTATT
1 AATATGGATTGATTTATTTTAAATAATTATT
*
3426520 AGTATGGATTGATTTATTTTAAATAATT-TAT
1 AATATGGATTGATTTATTTTAAATAATTAT-T
* *
3426551 AGTATGAATTGATTTATTTTAAATAATTTATT
1 AATATGGATTGATTTATTTTAAATAA-TTATT
* *
3426583 -GTATGGATTGATTTATTTTAAAATGATTGATTT
1 AATATGGATTGATTTATTTT-AAATAATT-A-TT
* *
3426616 ATTATTGTAGTAGTATGAATTGATTTATTTTAAATAATTATT
1 AATA-TG--G-A-T-TG-ATT--TAT--TTTAAATAATTATT
*
3426658 AGTATGGATTGATTTA-TTT---T-A--A--
1 AATATGGATTGATTTATTTTAAATAATTATT
3426680 AATATGGATTGATTTATTTTAAATAATTTATT
1 AATATGGATTGATTTATTTTAAATAA-TTATT
*
3426712 AGTATGGATTGATTTATTTTAAATA
1 AATATGGATTGATTTATTTTAAATA
3426737 TGGATTGATT
Statistics
Matches: 177, Mismatches: 11, Indels: 56
0.73 0.05 0.23
Matches are distributed among these distances:
22 15 0.08
23 3 0.02
24 1 0.01
26 2 0.01
27 2 0.01
30 20 0.11
31 57 0.32
32 33 0.19
33 4 0.02
34 2 0.01
35 5 0.03
36 2 0.01
37 2 0.01
38 2 0.01
39 2 0.01
40 2 0.01
41 5 0.03
42 5 0.03
43 3 0.02
44 7 0.04
45 3 0.02
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (31 bp):
AATATGGATTGATTTATTTTAAATAATTATT
Found at i:3426550 original size:14 final size:14
Alignment explanation
Indices: 3426531--3426582 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
3426521 GTATGGATTG
3426531 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* * *
3426545 ATTTATAGTATGAATTG
1 ATTTAT--T-TTAAATA
3426562 ATTTATTTTAAATA
1 ATTTATTTTAAATA
3426576 ATTTATT
1 ATTTATT
3426583 GTATGGATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 17 0.59
15 1 0.03
16 1 0.03
17 10 0.34
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:3426569 original size:244 final size:244
Alignment explanation
Indices: 3426318--3427013 Score: 855
Period size: 244 Copynumber: 2.8 Consensus size: 244
3426308 TTTTAAAATA
3426318 ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTAAAATATGGA-TGATTTATTATTGG
1 ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTAAAATAT-GATTGATTTATTATTGG
3426382 TTGTATGGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTACTTTAAAATATGGATTG
65 TTGTATGGATTGATTTATTTAAATAA-TTATTAGTATGGATTGATTTA-TTTAAAATATGGATTG
3426447 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTAAA
128 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTAAA
* *
3426512 TAA-TTATTAGTATGGATTGATTTATTTTAAATAATTTA-TAGTATGAATTG
193 TAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATCG
* *
3426562 ATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAA-ATGATTGATTTATTATTGTA
1 ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTAAAATATGATTGATTTATTATTG--
* *
3426625 GTAGTATGAATTGATTTATTTTAAATAATTATTAGTATGGATTGATTTATTTTAAAATATGGATT
64 GTTGTATGGATTGATTTA-TTTAAATAATTATTAGTATGGATTGATTTA-TTTAAAATATGGATT
*
3426690 GATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATATGGATTGATTTATTTAA
127 GATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTAA
* *
3426754 ATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTTGTATGGATCG
192 ATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATCG
* * * * * * *
3426807 ATTTATTTTAAAATATGGATTGATTTAAT-TTAAATAATTTATTAGTATAGAT-TGATTTATTTT
1 ATTTATTTT-AAATA---ATTTA-TTAGTATTGATTGATTTATT--TA-AAATATGATTGA-TTT
* ** * * * **
3426870 AAATAATTTATTTGTATGGATTGATTTATTTTAA-AA-TA-TAG-ATTGATTTA-TTATTGTAGT
57 --ATTA-TTGGTTGTATGGATTGATTTATTTAAATAATTATTAGTATGGATTGATTTATT-TAAA
* * *
3426930 TTAT-AATTGATTTA-TTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGA
118 ATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGA
3426993 TTTATTTTAAATAATTTATTA
183 TTTA-TTTAAATAATTTATTA
3427014 TTTTAGTTGT
Statistics
Matches: 397, Mismatches: 32, Indels: 41
0.84 0.07 0.09
Matches are distributed among these distances:
241 2 0.01
242 15 0.04
243 46 0.12
244 148 0.37
245 27 0.07
246 5 0.01
247 34 0.09
248 28 0.07
249 28 0.07
250 19 0.05
251 4 0.01
252 3 0.01
253 10 0.03
254 8 0.02
255 15 0.04
256 3 0.01
257 2 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (244 bp):
ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTAAAATATGATTGATTTATTATTGGT
TGTATGGATTGATTTATTTAAATAATTATTAGTATGGATTGATTTATTTAAAATATGGATTGATT
TATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTAAATAA
TTTATTAGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATCG
Found at i:3426675 original size:138 final size:135
Alignment explanation
Indices: 3426553--3426874 Score: 496
Period size: 138 Copynumber: 2.4 Consensus size: 135
3426543 TAATTTATAG
*
3426553 TATGAATTGATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAA-AT-GATTGATT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATATGGATTGATT
3426615 TA-TT-AT-TGTAGTAGTATGAATTGATTTATTTTAAATAATTATTAGTATGGATTGATTTATTT
66 TATTTAATATGTAGTAGTATGAATTGATTTATTTTAAATAATTATTAGTATGGATTGATTTATTT
3426677 TAAAA
131 TAAAA
3426682 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATATGGATTGATT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATATGGATTGATT
* * * *
3426747 TATTTAAATAATTTATTAGTAT-AGATTGATTTATTTTAAATAATTTATTTGTATGGATCGATTT
66 TATTT-AAT-ATGTAGTAGTATGA-ATTGATTTATTTTAAATAA-TTATTAGTATGGATTGATTT
3426811 ATTTTAAAA
127 ATTTTAAAA
* *
3426820 TATGGATTGATTTAATTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATA
3426875 ATTTATTTGT
Statistics
Matches: 176, Mismatches: 7, Indels: 11
0.91 0.04 0.06
Matches are distributed among these distances:
129 29 0.16
130 22 0.12
131 2 0.01
132 10 0.06
133 2 0.01
135 2 0.01
136 1 0.01
137 28 0.16
138 80 0.45
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (135 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATATGGATTGATT
TATTTAATATGTAGTAGTATGAATTGATTTATTTTAAATAATTATTAGTATGGATTGATTTATTT
TAAAA
Found at i:3426688 original size:22 final size:22
Alignment explanation
Indices: 3426660--3426702 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3426650 TAATTATTAG
3426660 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
3426682 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3426703 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3426740 original size:21 final size:20
Alignment explanation
Indices: 3426660--3426756 Score: 93
Period size: 21 Copynumber: 5.1 Consensus size: 20
3426650 TAATTATTAG
3426660 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTA-TTT-AAA
*
3426682 TATGGATTGATTTATTTTAA
1 TATGGATTGATTTATTTAAA
*
3426702 -AT--A---ATTTA-TT-AG
1 TATGGATTGATTTATTTAAA
3426714 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTA-TTTAAA
3426735 TATGGATTGATTTATTTAAA
1 TATGGATTGATTTATTTAAA
3426755 TA
1 TA
3426757 ATTTATTAGT
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
12 1 0.02
13 4 0.06
14 5 0.08
15 1 0.02
17 1 0.02
18 5 0.08
19 2 0.03
20 12 0.19
21 18 0.29
22 14 0.22
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (20 bp):
TATGGATTGATTTATTTAAA
Found at i:3426823 original size:22 final size:22
Alignment explanation
Indices: 3426798--3426840 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3426788 AATTTATTTG
*
3426798 TATGGATCGATTTATTTTAAAA
1 TATGGATCGATTTAATTTAAAA
*
3426820 TATGGATTGATTTAATTTAAA
1 TATGGATCGATTTAATTTAAA
3426841 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (22 bp):
TATGGATCGATTTAATTTAAAA
Found at i:3426850 original size:86 final size:85
Alignment explanation
Indices: 3426686--3427013 Score: 505
Period size: 86 Copynumber: 3.9 Consensus size: 85
3426676 TTAAAATATG
3426686 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
3426750 TTAAATAATTTATTAGTATA
66 TTAAATAATTTATTAGTATA
* *
3426770 GATTGATTTATTTTAAATAATTTATTTGTATGGATCGATTTATTTTAAAATATGGATTGATTTAA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT-A
3426835 TTTAAATAATTTATTAGTATA
65 TTTAAATAATTTATTAGTATA
* *
3426856 GATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAGATTGATTTA-
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
*
3426920 TT--AT--TGTAGTT--TATA
66 TTAAATAATTTA-TTAGTATA
*
3426935 -ATTGATTTA-TTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-
3426998 TTTAAATAATTTATTA
65 TTTAAATAATTTATTA
3427014 TTTTAGTTGT
Statistics
Matches: 225, Mismatches: 9, Indels: 21
0.88 0.04 0.08
Matches are distributed among these distances:
77 50 0.22
78 9 0.04
79 6 0.03
80 3 0.01
81 4 0.02
82 4 0.02
83 3 0.01
84 46 0.20
85 17 0.08
86 83 0.37
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (85 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
TTAAATAATTTATTAGTATA
Found at i:3426866 original size:18 final size:18
Alignment explanation
Indices: 3426843--3426922 Score: 51
Period size: 18 Copynumber: 4.4 Consensus size: 18
3426833 AATTTAAATA
3426843 ATTTATTAGTATAGATTG
1 ATTTATTAGTATAGATTG
* *
3426861 ATTTATT--T-TA-AATA
1 ATTTATTAGTATAGATTG
* *
3426875 ATTTATTTGTATGGATTG
1 ATTTATTAGTATAGATTG
*
3426893 ATTTATTTTAAAATATAGATTG
1 ATTTA--TT--AGTATAGATTG
3426915 ATTTATTA
1 ATTTATTA
3426923 TTGTAGTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
14 9 0.20
15 2 0.04
16 2 0.04
17 1 0.02
18 15 0.33
20 4 0.09
22 13 0.28
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATAGATTG
Found at i:3426986 original size:22 final size:22
Alignment explanation
Indices: 3426961--3427003 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3426951 AATTTATTAG
*
3426961 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
3426983 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3427004 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3427077 original size:31 final size:31
Alignment explanation
Indices: 3427028--3427086 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
3427018 AGTTGTATGG
* * *
3427028 ATTATTTTAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATTTCAGTATCGCAAAACTAAA
3427059 ATTATTTAAATCTT-AGTATCGCAAAACT
1 ATTATTTAAAT-TTCAGTATCGCAAAACT
3427087 CTTTTAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATCGCAAAACTAAA
Found at i:3428137 original size:194 final size:194
Alignment explanation
Indices: 3427808--3428195 Score: 776
Period size: 194 Copynumber: 2.0 Consensus size: 194
3427798 GCTTAATTTG
3427808 AGTTCTTTGTATTTTTATTTTTGTATGACTGAATTCTATTACTAGTTTTTTTTTTGTGACTTCGT
1 AGTTCTTTGTATTTTTATTTTTGTATGACTGAATTCTATTACTAGTTTTTTTTTTGTGACTTCGT
3427873 TAGAAATTATTGATATTTTACAATATAGAAGTTTAAATGGAACTGTTATTGGATGTTGGAAATAA
66 TAGAAATTATTGATATTTTACAATATAGAAGTTTAAATGGAACTGTTATTGGATGTTGGAAATAA
3427938 TTTTATATTTTGTGGAGTTGAAGAACAGAGTTAAATGTTCAAATGAATTATGAAAGGGAATAAC
131 TTTTATATTTTGTGGAGTTGAAGAACAGAGTTAAATGTTCAAATGAATTATGAAAGGGAATAAC
3428002 AGTTCTTTGTATTTTTATTTTTGTATGACTGAATTCTATTACTAGTTTTTTTTTTGTGACTTCGT
1 AGTTCTTTGTATTTTTATTTTTGTATGACTGAATTCTATTACTAGTTTTTTTTTTGTGACTTCGT
3428067 TAGAAATTATTGATATTTTACAATATAGAAGTTTAAATGGAACTGTTATTGGATGTTGGAAATAA
66 TAGAAATTATTGATATTTTACAATATAGAAGTTTAAATGGAACTGTTATTGGATGTTGGAAATAA
3428132 TTTTATATTTTGTGGAGTTGAAGAACAGAGTTAAATGTTCAAATGAATTATGAAAGGGAATAAC
131 TTTTATATTTTGTGGAGTTGAAGAACAGAGTTAAATGTTCAAATGAATTATGAAAGGGAATAAC
3428196 GGGAAATTTG
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
194 194 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (194 bp):
AGTTCTTTGTATTTTTATTTTTGTATGACTGAATTCTATTACTAGTTTTTTTTTTGTGACTTCGT
TAGAAATTATTGATATTTTACAATATAGAAGTTTAAATGGAACTGTTATTGGATGTTGGAAATAA
TTTTATATTTTGTGGAGTTGAAGAACAGAGTTAAATGTTCAAATGAATTATGAAAGGGAATAAC
Found at i:3430420 original size:131 final size:133
Alignment explanation
Indices: 3430099--3430425 Score: 428
Period size: 131 Copynumber: 2.5 Consensus size: 133
3430089 TATTAGTTAT
* * *
3430099 ACCTCACAGAAAAGGATCATTCTCATATCTTCTTTTTACTAGAACT-CCCC-AAAGTTAGTGATG
1 ACCTCACAGAAAAGGATCATTCTCATATCTTCTTTTTACTAGAACTCCCCCTAAACTTAGAGATA
* *
3430162 GTTTGTTTTTCTCTTTGTTTGGGAGTTGGGGGTAGGGGGATTATATTCTGTAGAATGGCTGTTTT
66 ATTTGTTTTTCTCTTTGTTTGGGAGTT---GG-AGGGGGAATATATTCTGTAGAATGGCTGTTTT
3430227 ATGTAAA
127 ATGTAAA
** * *
3430234 ACCTCACAGAAAAAAAATCATTCTCGTATCTTCTTTTTACTATAACTCCCCCTAAACTTAGAGAT
1 ACCTCACAG-AAAAGGATCATTCTCATATCTTCTTTTTACTAGAACTCCCCCTAAACTTAGAGAT
* *
3430299 AATTTGTTTTTCTCTTTGTTTGGGGGTT-G-GGGGGAATGTATTCTGTAGAATGGCTGTTTTATG
65 AATTTGTTTTTCTCTTTGTTTGGGAGTTGGAGGGGGAATATATTCTGTAGAATGGCTGTTTTATG
**
3430362 TGGA
130 TAAA
* * * *
3430366 ACCTCGCAGAAAAGGACCGTTCTCATGTCTTCTTTTTACTAGAACTCCCCCTAAACTTAG
1 ACCTCACAGAAAAGGATCATTCTCATATCTTCTTTTTACTAGAACTCCCCCTAAACTTAG
3430426 TGATGAATCC
Statistics
Matches: 168, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
131 44 0.26
132 42 0.25
134 1 0.01
135 9 0.05
136 33 0.20
137 4 0.02
138 35 0.21
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (133 bp):
ACCTCACAGAAAAGGATCATTCTCATATCTTCTTTTTACTAGAACTCCCCCTAAACTTAGAGATA
ATTTGTTTTTCTCTTTGTTTGGGAGTTGGAGGGGGAATATATTCTGTAGAATGGCTGTTTTATGT
AAA
Found at i:3430664 original size:110 final size:110
Alignment explanation
Indices: 3430471--3430690 Score: 386
Period size: 110 Copynumber: 2.0 Consensus size: 110
3430461 GGCAATGCCT
* *
3430471 TTGAGACTTTGGAATGGTTCCAACACTTTCCTACCAATGCTTGTAAATATTATAAACCCCTAATC
1 TTGAGACTTAGGAATGGTTCCAACACTTTCCTACCAATGCTTATAAATATTATAAACCCCTAATC
* *
3430536 TAAGTGTATGATTGAAAATAATAGTGGCTGGTGACATTAATATGG
66 TAAGTGTATGATTGAAAATAATAGCGGCGGGTGACATTAATATGG
*
3430581 TTGAGACTTAGGAATGGTTCCAACACTTTCCTACCAATGCTTATAAATATTATAAACCCCTATTC
1 TTGAGACTTAGGAATGGTTCCAACACTTTCCTACCAATGCTTATAAATATTATAAACCCCTAATC
*
3430646 TATGTGTATGATTGAAAATAATAGCGGCGGGTGACATTAATATGG
66 TAAGTGTATGATTGAAAATAATAGCGGCGGGTGACATTAATATGG
3430691 ATGTCATGTG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 104 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (110 bp):
TTGAGACTTAGGAATGGTTCCAACACTTTCCTACCAATGCTTATAAATATTATAAACCCCTAATC
TAAGTGTATGATTGAAAATAATAGCGGCGGGTGACATTAATATGG
Found at i:3431229 original size:181 final size:187
Alignment explanation
Indices: 3430960--3431327 Score: 694
Period size: 181 Copynumber: 2.0 Consensus size: 187
3430950 TGATCCAGTG
3430960 GTCTCCTCTTCATCTTTGCTATTTTGAATTCAGTGGCTGTAACCTTATCACTAGCATCTTTGGTC
1 GTCTCCTCTTCATCTTTGCTATTTTGAATTCAGTGGCTGTAACCTTATCACTAGCATCTTTGGTC
3431025 AATCAAGCAGTGGGTTTTATATTTTGCAAGTTAG-TGGATGTTTAACATGCTTTTGG-GACCCAT
66 AATCAAGCAGTGGGTTTTATATTTTGCAAGTTAGTTGGATGTTTAACATGCTTTTGGAGACCCAT
3431088 ATATTAGCATCTG-TGTTG-TTCTG-CTAAT-TCATTTGAGGTTATTGTCAACGGCC
131 ATATTAGCATCTGTTGTTGTTTCTGCCTAATCTCATTTGAGGTTATTGTCAACGGCC
3431141 GTCTCCTCTTCATCTTTGCTATTTTGAATTCAGTGGCTGTAACCTTATCACTAGCATCTTTGGTC
1 GTCTCCTCTTCATCTTTGCTATTTTGAATTCAGTGGCTGTAACCTTATCACTAGCATCTTTGGTC
3431206 AATCAAGCAGTGGGTTTTATATTTTGCAAGTTAGTTGGATGTTTAACATGCTTTTGGAGACCCAT
66 AATCAAGCAGTGGGTTTTATATTTTGCAAGTTAGTTGGATGTTTAACATGCTTTTGGAGACCCAT
3431271 ATATTAGCATCTGTTGTTGTTTCTGCCTAATCTCATTTGAGGTTATTGTCAACGGCC
131 ATATTAGCATCTGTTGTTGTTTCTGCCTAATCTCATTTGAGGTTATTGTCAACGGCC
3431328 TTGGCCAGGT
Statistics
Matches: 181, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
181 99 0.55
182 22 0.12
183 20 0.11
184 5 0.03
185 5 0.03
186 5 0.03
187 25 0.14
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (187 bp):
GTCTCCTCTTCATCTTTGCTATTTTGAATTCAGTGGCTGTAACCTTATCACTAGCATCTTTGGTC
AATCAAGCAGTGGGTTTTATATTTTGCAAGTTAGTTGGATGTTTAACATGCTTTTGGAGACCCAT
ATATTAGCATCTGTTGTTGTTTCTGCCTAATCTCATTTGAGGTTATTGTCAACGGCC
Found at i:3434707 original size:21 final size:20
Alignment explanation
Indices: 3434667--3434716 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
3434657 TCCTCTAAGC
* *
3434667 AAAATGATCGATCCATTTGA
1 AAAAGGATCGATCCACTTGA
* *
3434687 CTAAAGGATCGATCCCCTTGA
1 -AAAAGGATCGATCCACTTGA
3434708 AAAAGGATC
1 AAAAGGATC
3434717 AATCTCTTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (20 bp):
AAAAGGATCGATCCACTTGA
Found at i:3436090 original size:17 final size:17
Alignment explanation
Indices: 3436070--3436102 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3436060 GATTTTTGGT
3436070 TTTTGTT-TTTTACTTTC
1 TTTTGTTATTTT-CTTTC
3436087 TTTTGTTATTTTCTTT
1 TTTTGTTATTTTCTTT
3436103 TTCTTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTGTTATTTTCTTTC
Found at i:3436417 original size:5 final size:5
Alignment explanation
Indices: 3436409--3436435 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
3436399 AATATATTAA
3436409 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
3436436 AATTAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:3453318 original size:48 final size:48
Alignment explanation
Indices: 3453247--3453342 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
3453237 TTGACCCTGC
*
3453247 AGTTGTTACCATTTGTGATAGTGATTCCTTATTCCCTTTTGATTGAGA
1 AGTTGTTACCAGTTGTGATAGTGATTCCTTATTCCCTTTTGATTGAGA
*
3453295 AGTTGTTACCAGTTGTGATAGTGATTCCTTCTTCCCTTTTGATTGAGA
1 AGTTGTTACCAGTTGTGATAGTGATTCCTTATTCCCTTTTGATTGAGA
3453343 GGCTTCTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.45
Consensus pattern (48 bp):
AGTTGTTACCAGTTGTGATAGTGATTCCTTATTCCCTTTTGATTGAGA
Found at i:3453527 original size:13 final size:13
Alignment explanation
Indices: 3453478--3453530 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
3453468 CAAGGCATAG
* *
3453478 GTAGATGCTCGAT
1 GTAGATACTCAAT
*
3453491 GTAGATACTCATT
1 GTAGATACTCAAT
* *
3453504 TTCGTATACTCAAT
1 GTAG-ATACTCAAT
3453518 GTAGATACTCAAT
1 GTAGATACTCAAT
3453531 TTTGTCTAGG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
13 21 0.68
14 10 0.32
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (13 bp):
GTAGATACTCAAT
Found at i:3455086 original size:228 final size:229
Alignment explanation
Indices: 3454267--3455213 Score: 1801
Period size: 229 Copynumber: 4.1 Consensus size: 229
3454257 GTTATATTGT
* * * *
3454267 AAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
3454331 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
*
3454396 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
3454461 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
3454495 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
3454560 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
*
3454625 TAATTTTTTGTGTAAATGAAATTATAAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
3454690 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
3454724 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
3454789 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
3454854 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
3454919 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
3454953 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
3455018 AT-ATTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
3455082 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
3455146 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
3455180 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
3455214 GTATAAAAGT
Statistics
Matches: 708, Mismatches: 10, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
227 69 0.10
228 166 0.23
229 473 0.67
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.39
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:3455285 original size:20 final size:19
Alignment explanation
Indices: 3455262--3455308 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
3455252 CGATATACCA
3455262 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
3455282 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
3455302 GGTAAAA
1 GGTAAAA
3455309 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:3457724 original size:21 final size:21
Alignment explanation
Indices: 3457700--3457743 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3457690 AAGACAATCA
3457700 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
3457721 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
3457742 AG
1 AG
3457744 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:3457819 original size:33 final size:33
Alignment explanation
Indices: 3457777--3457842 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3457767 AAATAGATGG
*
3457777 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
3457810 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
3457843 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:3459658 original size:19 final size:19
Alignment explanation
Indices: 3459634--3459682 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
3459624 AATGTAGGGT
3459634 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
3459653 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
3459672 TATTTTTGTAT
1 TAATTTTGTAT
3459683 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3460301 original size:198 final size:199
Alignment explanation
Indices: 3459801--3461167 Score: 2492
Period size: 198 Copynumber: 6.9 Consensus size: 199
3459791 CAATATGGCC
* * * *
3459801 AACAGGGTGCAACCATAAAGTATCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
3459866 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
3459931 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
3459996 TGGAA
195 TGGAA
* * *
3460001 AACAGGGTGCAACCATAAAGTATCGATCTATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
3460066 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
3460131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3460195 GGAA
196 GGAA
3460199 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
3460264 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTATCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
3460329 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3460394 GGAA
196 GGAA
3460398 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
3460463 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
3460528 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3460593 GGAA
196 GGAA
3460597 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
3460662 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
* * *
3460727 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3460791 GGAA
196 GGAA
*
3460795 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
3460860 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
* * *
3460925 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3460989 GGAA
196 GGAA
*
3460993 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
3461058 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
3461123 AATATGTCTAAATAATGTGTCGACACGT--TTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
3461168 CTAATTTAAA
Statistics
Matches: 1146, Mismatches: 19, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
198 596 0.52
199 491 0.43
200 59 0.05
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAA
Found at i:3460535 original size:397 final size:397
Alignment explanation
Indices: 3459801--3461167 Score: 2488
Period size: 397 Copynumber: 3.4 Consensus size: 397
3459791 CAATATGGCC
* * * *
3459801 AACAGGGTGCAACCATAAAGTATCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
3459866 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGA
3459931 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACT-ATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
* * *
3459996 TGGAAAACAGGGTGCAACCATAAAGTATCGATCTATATATAAAAAGTGTCGATCCCAAAAACATC
194 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
3460061 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
259 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
3460126 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTGTTCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
3460190 TGAATGGAA
389 TGAATGGAA
3460199 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
3460264 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTATCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGAG
3460329 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACT-ATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3460394 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
3460459 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
3460524 AGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAAT
3460589 GAATGGAA
390 GAATGGAA
3460597 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
3460662 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGAG
* * *
3460727 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
*
3460792 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
* *
3460857 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGA
* * *
3460922 GAGAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATG
3460986 AATGGAA
391 AATGGAA
*
3460993 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
3461058 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGAG
3461123 AATATGTCTAAATAATGTGTCGACACGT-TTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACAC-TATTTAGTTTGTGTCGATA
3461168 CTAATTTAAA
Statistics
Matches: 945, Mismatches: 22, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
396 208 0.22
397 502 0.53
398 235 0.25
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (397 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATG
AATGGAA
Found at i:3462654 original size:6 final size:6
Alignment explanation
Indices: 3462630--3462733 Score: 75
Period size: 6 Copynumber: 17.3 Consensus size: 6
3462620 AGCGGTCGCA
* * * * *
3462630 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GAAGAT GACGAT GATGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * * * * *
3462678 GACGAT GAAGCT -AGCGAT GAAGAT GACGAC GACGAT GATGAT GATGAT
1 GAAGAT GAAGAT GA-AGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
3462726 GAAGAT GA
1 GAAGAT GA
3462734 TGATCCAAAC
Statistics
Matches: 77, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
5 1 0.01
6 75 0.97
7 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.34, T:0.18
Consensus pattern (6 bp):
GAAGAT
Found at i:3462677 original size:3 final size:3
Alignment explanation
Indices: 3462645--3462737 Score: 53
Period size: 3 Copynumber: 31.0 Consensus size: 3
3462635 TGAAGCTGAC
* * * * * * * *
3462645 GAT GAA GAT GAC GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT -AGC
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA-T
* * * * *
3462693 GAT GAA GAT GAC GAC GAC GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
3462738 CCAAACAAGT
Statistics
Matches: 66, Mismatches: 22, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
3 65 0.98
4 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.20
Consensus pattern (3 bp):
GAT
Found at i:3462737 original size:12 final size:12
Alignment explanation
Indices: 3462633--3462733 Score: 114
Period size: 12 Copynumber: 8.4 Consensus size: 12
3462623 GGTCGCAGAA
*
3462633 GATGAAGCTGAC
1 GATGAAGATGAC
3462645 GATGAAGATGAC
1 GATGAAGATGAC
3462657 GATGAAGATGAC
1 GATGAAGATGAC
*
3462669 GATGATGATGAC
1 GATGAAGATGAC
*
3462681 GATGAAGCT-AGC
1 GATGAAGATGA-C
3462693 GATGAAGATGAC
1 GATGAAGATGAC
* * *
3462705 GACGACGATGAT
1 GATGAAGATGAC
* *
3462717 GATGATGATGAA
1 GATGAAGATGAC
3462729 GATGA
1 GATGA
3462734 TGATCCAAAC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
11 1 0.01
12 74 0.97
13 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.34, T:0.19
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:3464507 original size:183 final size:182
Alignment explanation
Indices: 3464232--3464724 Score: 878
Period size: 183 Copynumber: 2.7 Consensus size: 182
3464222 GCAATGCTAT
*
3464232 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
3464297 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
*
3464362 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
3464415 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
3464480 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
3464545 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
3464598 CGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
3464663 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
3464725 GTAATTTTAA
Statistics
Matches: 297, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
183 293 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:3467221 original size:25 final size:25
Alignment explanation
Indices: 3467193--3467257 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
3467183 TTATCATTAA
3467193 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
3467218 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
3467243 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
3467258 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:3467601 original size:23 final size:23
Alignment explanation
Indices: 3467570--3467642 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
3467560 ATAGGTAAAC
*
3467570 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3467593 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3467616 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
3467639 ATAT
1 ATAT
3467643 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3468114 original size:24 final size:24
Alignment explanation
Indices: 3468061--3468111 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3468051 ATTTCATATG
* *
3468061 TAATTGGAGTTTGAATTTAAATTT
1 TAATTTGAGTTTGAATTTAAATTA
*
3468085 TAATTTGAGTTTGAATTTCAATATA
1 TAATTTGAGTTTGAATTTAAAT-TA
3468110 TA
1 TA
3468112 TTTCGGCTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (24 bp):
TAATTTGAGTTTGAATTTAAATTA
Found at i:3468407 original size:39 final size:39
Alignment explanation
Indices: 3468364--3468450 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
3468354 TCCGATGCTC
*
3468364 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
3468403 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
3468442 ATCAAAATC
1 ATCAAAATC
3468451 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:3468903 original size:23 final size:23
Alignment explanation
Indices: 3468872--3468944 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
3468862 ATAGGTAAAA
*
3468872 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3468895 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3468918 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
3468941 ATAT
1 ATAT
3468945 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3469333 original size:23 final size:23
Alignment explanation
Indices: 3469302--3469374 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
3469292 ATAGGTAAAA
*
3469302 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3469325 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3469348 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
3469371 ATAT
1 ATAT
3469375 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3469469 original size:430 final size:430
Alignment explanation
Indices: 3468669--3469723 Score: 2049
Period size: 430 Copynumber: 2.5 Consensus size: 430
3468659 GTTAATGTTG
*
3468669 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
3468734 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
3468799 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
3468864 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
3468929 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
3468994 GGAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
3469059 GTCTAATGATTTATTTTTTACATTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACATTACGATATATATTATTA
*
3469099 TTAAATTAAAAATTATAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
3469164 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
3469229 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
3469294 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
3469359 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
3469424 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
3469489 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACATTACGATATATATTATTA
*
3469529 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
3469594 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
3469658 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
3469723 A
196 A
3469724 TAATGTAATA
Statistics
Matches: 617, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
429 82 0.13
430 535 0.87
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACATTACGATATATATTATTA
Found at i:3490129 original size:20 final size:20
Alignment explanation
Indices: 3490104--3490141 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3490094 ACTTCTTGGG
3490104 TCAAAGTCAACGGTCAACGA
1 TCAAAGTCAACGGTCAACGA
3490124 TCAAAGTCAACGGTCAAC
1 TCAAAGTCAACGGTCAAC
3490142 TCTGGTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.16
Consensus pattern (20 bp):
TCAAAGTCAACGGTCAACGA
Found at i:3490201 original size:19 final size:19
Alignment explanation
Indices: 3490145--3490201 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
3490135 GGTCAACTCT
*
3490145 GGTCAAAGTCAACAAG-CA
1 GGTCAAAGTCAACTAGTCA
* *
3490163 TGTCAAAGTCAA-TGGATCA
1 GGTCAAAGTCAACTAG-TCA
3490182 GGTCAAAGTCAACTAGTCA
1 GGTCAAAGTCAACTAGTCA
3490201 G
1 G
3490202 ATCGGTTCGG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.03
18 11 0.35
19 17 0.55
20 2 0.06
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (19 bp):
GGTCAAAGTCAACTAGTCA
Found at i:3490223 original size:20 final size:20
Alignment explanation
Indices: 3490198--3490242 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
3490188 AGTCAACTAG
3490198 TCAGATCGGTTCGGGTTAAC
1 TCAGATCGGTTCGGGTTAAC
* *
3490218 TCAGATTGGTTCGGGTTGAC
1 TCAGATCGGTTCGGGTTAAC
3490238 TCAGA
1 TCAGA
3490243 CTAATTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (20 bp):
TCAGATCGGTTCGGGTTAAC
Found at i:3494269 original size:2 final size:2
Alignment explanation
Indices: 3494262--3494311 Score: 91
Period size: 2 Copynumber: 24.5 Consensus size: 2
3494252 TGATTTACAA
3494262 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3494304 AT ACT AT A
1 AT A-T AT A
3494312 CGAGTTTACA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 45 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3496799 original size:20 final size:20
Alignment explanation
Indices: 3496774--3496812 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3496764 GACTTCTTGG
*
3496774 GTCAAAGTGAACGGTCAACC
1 GTCAAAGTCAACGGTCAACC
*
3496794 GTCAAATTCAACGGTCAAC
1 GTCAAAGTCAACGGTCAAC
3496813 TCTGGTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (20 bp):
GTCAAAGTCAACGGTCAACC
Found at i:3496907 original size:20 final size:20
Alignment explanation
Indices: 3496882--3496920 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3496872 TATCGGTTAT
*
3496882 GGTTGACTCAGATTGATTCG
1 GGTTGACTCAGACTGATTCG
3496902 GGTTGACTCAGACTGATTC
1 GGTTGACTCAGACTGATTC
3496921 AAACTGGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (20 bp):
GGTTGACTCAGACTGATTCG
Found at i:3501026 original size:13 final size:14
Alignment explanation
Indices: 3500990--3501028 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
3500980 TAAATTAATC
3500990 ATTAACCTTAAATTAA
1 ATTAA-CTT-AATTAA
3501006 ATTAACTTAATTAA
1 ATTAACTTAATTAA
3501020 A-TAACTTAA
1 ATTAACTTAA
3501029 ATTACATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.35
14 7 0.30
15 3 0.13
16 5 0.22
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (14 bp):
ATTAACTTAATTAA
Found at i:3501031 original size:14 final size:15
Alignment explanation
Indices: 3500980--3501032 Score: 65
Period size: 14 Copynumber: 3.5 Consensus size: 15
3500970 AATGATATCA
3500980 TAAATTAATCATTAACCT
1 TAAATTAA--ATTAA-CT
3500998 TAAATTAAATTAACT
1 TAAATTAAATTAACT
3501013 T-AATTAAA-TAACT
1 TAAATTAAATTAACT
3501026 TAAATTA
1 TAAATTA
3501033 CATATGCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.18
14 12 0.35
15 3 0.09
16 5 0.15
18 8 0.24
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATTAAATTAACT
Found at i:3501153 original size:17 final size:17
Alignment explanation
Indices: 3501131--3501168 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
3501121 GAAAAACATT
3501131 AAATATGACTTTTCGAA
1 AAATATGACTTTTCGAA
*
3501148 AAATATGACTTTTTGAA
1 AAATATGACTTTTCGAA
3501165 AAAT
1 AAAT
3501169 TTAAGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (17 bp):
AAATATGACTTTTCGAA
Found at i:3526753 original size:156 final size:157
Alignment explanation
Indices: 3526468--3526783 Score: 625
Period size: 156 Copynumber: 2.0 Consensus size: 157
3526458 GTGTTAAAGA
3526468 TCAGCATGTAAACTTTGAGAAAGATGCTGATAGTACAACTTATGATAGAGTCTGGAAGATTTATT
1 TCAGCATGTAAACTTTGAGAAAGATGCTGATAGTACAACTTATGATAGAGTCTGGAAGATTTATT
3526533 CTTTTCAAATACCATTTGGAACGGCCGACACACCAACCGTTACTACATTAATCGGGAACGACTTC
66 CTTTTCAAATACCATTTGGAACGGCCGACACACCAACCGTTACTACATTAATCGGGAACGACTTC
3526598 AACTACGTGCAAAGCTATGGATCCATT
131 AACTACGTGCAAAGCTATGGATCCATT
3526625 TCAGCATGTAAACTTTGAGAAAGAT-CTGATAGTACAACTTATGATAGAGTCTGGAAGATTTATT
1 TCAGCATGTAAACTTTGAGAAAGATGCTGATAGTACAACTTATGATAGAGTCTGGAAGATTTATT
3526689 CTTTTCAAATACCATTTGGAACGGCCGACACACCAACCGTTACTACATTAATCGGGAACGACTTC
66 CTTTTCAAATACCATTTGGAACGGCCGACACACCAACCGTTACTACATTAATCGGGAACGACTTC
3526754 AACTACGTGCAAAGCTATGGATCCATT
131 AACTACGTGCAAAGCTATGGATCCATT
3526781 TCA
1 TCA
3526784 TGAAGTATAA
Statistics
Matches: 159, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
156 134 0.84
157 25 0.16
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (157 bp):
TCAGCATGTAAACTTTGAGAAAGATGCTGATAGTACAACTTATGATAGAGTCTGGAAGATTTATT
CTTTTCAAATACCATTTGGAACGGCCGACACACCAACCGTTACTACATTAATCGGGAACGACTTC
AACTACGTGCAAAGCTATGGATCCATT
Found at i:3530015 original size:35 final size:35
Alignment explanation
Indices: 3529964--3530042 Score: 104
Period size: 35 Copynumber: 2.3 Consensus size: 35
3529954 TACAATCTGT
** *
3529964 TCATCACCATCTTCCATCACCTTATCACACCTATA
1 TCATCACCATAGTCCATCACCATATCACACCTATA
* *
3529999 TCATCACCATAGTCCATCTCCATATCACGCCTATA
1 TCATCACCATAGTCCATCACCATATCACACCTATA
*
3530034 TTATCACCA
1 TCATCACCA
3530043 ACTTCTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.29, C:0.38, G:0.03, T:0.30
Consensus pattern (35 bp):
TCATCACCATAGTCCATCACCATATCACACCTATA
Found at i:3539963 original size:18 final size:18
Alignment explanation
Indices: 3539936--3540043 Score: 103
Period size: 18 Copynumber: 5.9 Consensus size: 18
3539926 TACTTTTTGA
3539936 AATT-TAATTTTTATATT
1 AATTATAATTTTTATATT
*
3539953 AATTATAATTTGTATATT
1 AATTATAATTTTTATATT
*
3539971 AATTATAATTTGTATATTTT
1 AATTATAATTT-T-TATATT
**
3539991 AAATT-TGGTTTTTATATT
1 -AATTATAATTTTTATATT
**
3540009 AATTCCAATTCTTTATATT
1 AATTATAATT-TTTATATT
*
3540028 AATTATAATTCTTATA
1 AATTATAATTTTTATA
3540044 ATATCATTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
17 8 0.11
18 35 0.48
19 17 0.23
20 9 0.12
21 4 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (18 bp):
AATTATAATTTTTATATT
Found at i:3540706 original size:10 final size:11
Alignment explanation
Indices: 3540684--3540715 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
3540674 TATATATTAT
3540684 TATTAATCATA
1 TATTAATCATA
3540695 TATTAA-CATA
1 TATTAATCATA
3540705 TATTAATCATA
1 TATTAATCATA
3540716 CATATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAATCATA
Found at i:3540727 original size:3 final size:3
Alignment explanation
Indices: 3540719--3540766 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
3540709 AATCATACAT
3540719 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3540767 TGACCATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3543080 original size:13 final size:14
Alignment explanation
Indices: 3543062--3543090 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3543052 ACTTTTAATC
3543062 TTTTAAAA-TTATT
1 TTTTAAAACTTATT
3543075 TTTTAAAACTTATT
1 TTTTAAAACTTATT
3543089 TT
1 TT
3543091 AAAAGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTAAAACTTATT
Found at i:3566539 original size:17 final size:17
Alignment explanation
Indices: 3566499--3566539 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
3566489 ATAAAATATA
*
3566499 ACTTTTCAAAAAAATTG
1 ACTTTTTAAAAAAATTG
3566516 ACTTTTTAAAAAAATTG
1 ACTTTTTAAAAAAATTG
3566533 ACTTTTT
1 ACTTTTT
3566540 GGTCAAAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (17 bp):
ACTTTTTAAAAAAATTG
Found at i:3566579 original size:14 final size:14
Alignment explanation
Indices: 3566539--3566588 Score: 68
Period size: 13 Copynumber: 3.7 Consensus size: 14
3566529 ATTGACTTTT
3566539 TGGTCAA-AGTCAA
1 TGGTCAACAGTCAA
*
3566552 CGGTCAA-AGTCAA
1 TGGTCAACAGTCAA
*
3566565 TGGTCAACGGTCAA
1 TGGTCAACAGTCAA
3566579 TGGTCAACAG
1 TGGTCAACAG
3566589 AAAACAAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
13 18 0.56
14 14 0.44
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (14 bp):
TGGTCAACAGTCAA
Found at i:3582567 original size:134 final size:134
Alignment explanation
Indices: 3582400--3582657 Score: 340
Period size: 134 Copynumber: 1.9 Consensus size: 134
3582390 AACAAAAATT
* * *
3582400 TTTCTTCTTTCAAGATTTGGTCTTCCGGAAGAGCAACGAAGTAAATTAAATTCGATTCAATCTTC
1 TTTCTTATTTCAAGATTTGGTCTTCCGGAAGAGCAACGAAGCAAATCAAATTCGATTCAATCTTC
* * * * * *
3582465 TCTGAAGAGCAGCAAAGTGGATCAAAATTTTCTCGAGTCCGGTCTCCCCTAAAGAGTAGTGGAGC
66 CCTGAAGAGAAACAAAGTGGATCAAAA-TTCCACGAGTCCGATCTCCCCTAAAGAGTAGTGGAGC
3582530 ATATC
130 ATATC
** * *
3582535 TTTCTTATTTC-AGATTTGGTCTT-CGTGAAGAGCAGTGAAGCAAATCAAGTTCGATTCAGTCTT
1 TTTCTTATTTCAAGATTTGGTCTTCCG-GAAGAGCAACGAAGCAAATCAAATTCGATTCAATCTT
* * *
3582598 CCCTGAAGAGAAACAAAGTGGATCACAATTCCACGAGTCTGATCTCCTCTAAAGAGTAGT
65 CCCTGAAGAGAAACAAAGTGGATCAAAATTCCACGAGTCCGATCTCCCCTAAAGAGTAGT
3582658 AGAGGGGATC
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
133 29 0.27
134 67 0.63
135 10 0.09
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (134 bp):
TTTCTTATTTCAAGATTTGGTCTTCCGGAAGAGCAACGAAGCAAATCAAATTCGATTCAATCTTC
CCTGAAGAGAAACAAAGTGGATCAAAATTCCACGAGTCCGATCTCCCCTAAAGAGTAGTGGAGCA
TATC
Found at i:3582699 original size:133 final size:133
Alignment explanation
Indices: 3582400--3582737 Score: 369
Period size: 133 Copynumber: 2.5 Consensus size: 133
3582390 AACAAAAATT
* * ** * * *
3582400 TTTCTTCTTTCAAGATTTGGTCTTCCGGAAGAGCAACGAAGTAAATTAAATTCGATTCAATCTTC
1 TTTCTTATTTC-AGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAAGTTCGATTC-ATCTTC
* * * * * *
3582465 TCTGAAGAGCAGCAAAGTGGATCAAAATTTTCTCGAGTCCGGTCTCCCCTAAAGAGTAGTGGAGC
64 CCTGAAGAGAAACAAAGTGGATCAAAATTTCCACGAGTCCGATCTCCCCTAAAGAGTAGTGGAGC
3582530 ATATC
129 ATATC
*
3582535 TTTCTTATTTCAGATTTGGTCTTCGTGAAGAGCAGTGAAGCAAATCAAGTTCGATTCAGTCTTCC
1 TTTCTTATTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAAGTTCGATTCA-TCTTCC
* * * *
3582600 CTGAAGAGAAACAAAGTGGATCACAA-TTCCACGAGTCTGATCTCCTCTAAAGAGTAGTAGAGGG
65 CTGAAGAGAAACAAAGTGGATCAAAATTTCCACGAGTCCGATCTCCCCTAAAGAGTAGT-G-GAG
* *
3582664 GATCCTC
128 CAT-ATC
* * * *
3582671 TTTC-T-TTT-AGATTTGATCTTCCTGAAGAGTAGTGAAGCAAATCAAGTTCAGTTTGATCTTCC
1 TTTCTTATTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAAGTTC-GATTCATCTTCC
3582733 CTGAA
65 CTGAA
3582738 AAGTAGCAAA
Statistics
Matches: 173, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
133 77 0.45
134 75 0.43
135 15 0.09
136 6 0.03
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (133 bp):
TTTCTTATTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAAGTTCGATTCATCTTCCC
TGAAGAGAAACAAAGTGGATCAAAATTTCCACGAGTCCGATCTCCCCTAAAGAGTAGTGGAGCAT
ATC
Found at i:3585665 original size:23 final size:23
Alignment explanation
Indices: 3585639--3585694 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
3585629 AATCGATAAA
* *
3585639 CATCACTGTATCAATTCAGCAAG
1 CATCACTGCATCAATTCAACAAG
*
3585662 CATCATTGCATCAATTCAACAAG
1 CATCACTGCATCAATTCAACAAG
3585685 CATCA-TGCAT
1 CATCACTGCAT
3585695 TCAGAAATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (23 bp):
CATCACTGCATCAATTCAACAAG
Found at i:3585829 original size:20 final size:20
Alignment explanation
Indices: 3585790--3585831 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3585780 AAATATAAGA
*
3585790 AAACAATATAAAACATAATC
1 AAACAATATAAAACAGAATC
* *
3585810 AAACAATATCAAGCAGAATC
1 AAACAATATAAAACAGAATC
3585830 AA
1 AA
3585832 GCACCAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.17, G:0.05, T:0.17
Consensus pattern (20 bp):
AAACAATATAAAACAGAATC
Found at i:3588558 original size:6 final size:6
Alignment explanation
Indices: 3588549--3588616 Score: 82
Period size: 6 Copynumber: 11.3 Consensus size: 6
3588539 CAAGTTCAGA
* * *
3588549 TTTAGG TTTAGG TTTGGG TTTAGG TTTGGG TTTAGG TTCAGG TTTAGG
1 TTTAGG TTTAGG TTTAGG TTTAGG TTTAGG TTTAGG TTTAGG TTTAGG
* * *
3588597 TTTGGG TTCAGG TTTGGG TT
1 TTTAGG TTTAGG TTTAGG TT
3588617 AGGGTTAAAG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.10, C:0.03, G:0.38, T:0.49
Consensus pattern (6 bp):
TTTAGG
Found at i:3588570 original size:12 final size:12
Alignment explanation
Indices: 3588553--3588616 Score: 101
Period size: 12 Copynumber: 5.3 Consensus size: 12
3588543 TTCAGATTTA
3588553 GGTTTAGGTTTG
1 GGTTTAGGTTTG
3588565 GGTTTAGGTTTG
1 GGTTTAGGTTTG
**
3588577 GGTTTAGGTTCA
1 GGTTTAGGTTTG
3588589 GGTTTAGGTTTG
1 GGTTTAGGTTTG
*
3588601 GGTTCAGGTTTG
1 GGTTTAGGTTTG
3588613 GGTT
1 GGTT
3588617 AGGGTTAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.09, C:0.03, G:0.41, T:0.47
Consensus pattern (12 bp):
GGTTTAGGTTTG
Found at i:3588570 original size:18 final size:18
Alignment explanation
Indices: 3588552--3588622 Score: 97
Period size: 18 Copynumber: 3.9 Consensus size: 18
3588542 GTTCAGATTT
*
3588552 AGGTTTAGGTTTGGGTTT
1 AGGTTTAGGTTTGGGTTC
* *
3588570 AGGTTTGGGTTTAGGTTC
1 AGGTTTAGGTTTGGGTTC
3588588 AGGTTTAGGTTTGGGTTC
1 AGGTTTAGGTTTGGGTTC
* *
3588606 AGGTTTGGGTTAGGGTT
1 AGGTTTAGGTTTGGGTT
3588623 AAAGAATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.11, C:0.03, G:0.41, T:0.45
Consensus pattern (18 bp):
AGGTTTAGGTTTGGGTTC
Found at i:3588969 original size:103 final size:103
Alignment explanation
Indices: 3588790--3588977 Score: 245
Period size: 103 Copynumber: 1.8 Consensus size: 103
3588780 AAGGGTTAGA
* * * * * * *
3588790 GGAAGAACACGGATGAACAAGGATTTAATTTTTGGGTGTTTGATCAAAAAAAATAGGAATGGGTT
1 GGAAGAACACGAATGAACAAGGATTGAATTGTTAGGTGTTTGATCAAAAAAAACAGAAATGAGTT
3588855 TAGGTTCTGGTGTTTATGAAGATCAAATAATGGTTTGG
66 TAGGTTCTGGTGTTTATGAAGATCAAATAATGGTTTGG
* *
3588893 GGAAGAACACGAATGAACAAGGGTTGAATTGTTAGTTGTTTGATCGAAAAAAACACA-AAAT-AG
1 GGAAGAACACGAATGAACAAGGATTGAATTGTTAGGTGTTTGATC-AAAAAAA-ACAGAAATGAG
* *
3588956 TTTAGGTTTTGGTGTTTGTGAA
64 TTTAGGTTCTGGTGTTTATGAA
3588978 TACCGAAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
103 60 0.83
104 10 0.14
105 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (103 bp):
GGAAGAACACGAATGAACAAGGATTGAATTGTTAGGTGTTTGATCAAAAAAAACAGAAATGAGTT
TAGGTTCTGGTGTTTATGAAGATCAAATAATGGTTTGG
Found at i:3588993 original size:103 final size:103
Alignment explanation
Indices: 3588779--3589013 Score: 242
Period size: 103 Copynumber: 2.3 Consensus size: 103
3588769 TGGGTGTTTG
* * * * * *
3588779 TAAGGGTTAGAGGAAGAACACGGATGAACAAGGATTTAATTTTTGGGTGTTTGATCAAAAAAAAT
1 TAAGGGTTTGAGGAAGAACACGAATGAACAAGGATTGAATTGTTAGGTGTTTGATCAAAAAAAAC
* * *
3588844 AGGAATGGGTTTAGGTTCTGGTGTTTATGAAGATCAAA
66 AGAAATGAGTTTAGGTTCTGGTGTTTATGAAGACCAAA
* * * *
3588882 TAATGGTTTGGGGAAGAACACGAATGAACAAGGGTTGAATTGTTAGTTGTTTGATCGAAAAAAAC
1 TAAGGGTTTGAGGAAGAACACGAATGAACAAGGATTGAATTGTTAGGTGTTTGATC-AAAAAAA-
* * *
3588947 ACA-AAAT-AGTTTAGGTTTTGGTGTTTGTGAATACCGAAA
64 ACAGAAATGAGTTTAGGTTCTGGTGTTTATGAAGACC-AAA
* * *
3588986 -AAGGGTTTTTAGGATGAACACGGATGAA
1 TAAGGG-TTTGAGGAAGAACACGAATGAA
3589014 AAAAGATGAA
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
103 74 0.69
104 31 0.29
105 2 0.02
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.30
Consensus pattern (103 bp):
TAAGGGTTTGAGGAAGAACACGAATGAACAAGGATTGAATTGTTAGGTGTTTGATCAAAAAAAAC
AGAAATGAGTTTAGGTTCTGGTGTTTATGAAGACCAAA
Found at i:3589432 original size:26 final size:27
Alignment explanation
Indices: 3589396--3589477 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 27
3589386 CAATTATTTC
3589396 AATTAATATATATGTTTATAT-TAAT-A
1 AATTAATATATA-GTTTATATATAATGA
3589422 AATTAATATATAGGTTATATATACTAATGA
1 AATTAATATATA-GTT-TATATA-TAATGA
3589452 ACTATATAATATATAGTTTATATATA
1 A--AT-TAATATATAGTTTATATATA
3589478 CTATATAGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
26 15 0.31
27 5 0.10
29 4 0.08
30 4 0.08
31 6 0.12
32 5 0.10
33 9 0.19
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.45
Consensus pattern (27 bp):
AATTAATATATAGTTTATATATAATGA
Found at i:3589477 original size:18 final size:18
Alignment explanation
Indices: 3589454--3589513 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
3589444 ACTAATGAAC
*
3589454 TATATAATATATAGTTTA
1 TATATACTATATAGTTTA
3589472 TATATACTATATAGTTTA
1 TATATACTATATAGTTTA
* * * *
3589490 TTTACACCATATACTTTA
1 TATATACTATATAGTTTA
3589508 TATATA
1 TATATA
3589514 TAGTTTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.48
Consensus pattern (18 bp):
TATATACTATATAGTTTA
Found at i:3589524 original size:13 final size:13
Alignment explanation
Indices: 3589498--3589536 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
3589488 TATTTACACC
*
3589498 ATATACTTTATAT
1 ATATAGTTTATAT
*
3589511 ATATAGTTTTTAT
1 ATATAGTTTATAT
*
3589524 ATATAGTTCATAT
1 ATATAGTTTATAT
3589537 GTAAACTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (13 bp):
ATATAGTTTATAT
Found at i:3589554 original size:18 final size:20
Alignment explanation
Indices: 3589523--3589566 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
3589513 ATAGTTTTTA
*
3589523 TATATAGTTCATATGTAAAC
1 TATATAGTTCATATATAAAC
*
3589543 TATATAG-T-ATATATAAAT
1 TATATAGTTCATATATAAAC
3589561 TATATA
1 TATATA
3589567 TGTAGTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 1 0.05
20 7 0.32
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (20 bp):
TATATAGTTCATATATAAAC
Found at i:3589662 original size:15 final size:15
Alignment explanation
Indices: 3589647--3589681 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3589637 TACTTTGAAT
3589647 TTATAT-AGTAAAAA
1 TTATATAAGTAAAAA
*
3589661 TTATATAAGTACAAA
1 TTATATAAGTAAAAA
3589676 TTATAT
1 TTATAT
3589682 TATATAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (15 bp):
TTATATAAGTAAAAA
Found at i:3589692 original size:27 final size:27
Alignment explanation
Indices: 3589677--3589747 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
3589667 AAGTACAAAT
*
3589677 TATATTATATAGTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATCAAC
*
3589704 TACAGTATATAGTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATCAAC
3589731 TATAGTATATA-TATATA
1 TATAGTATATAGTATATA
3589748 TAGTTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (27 bp):
TATAGTATATAGTATATAAATATCAAC
Found at i:3589747 original size:13 final size:13
Alignment explanation
Indices: 3589738--3589776 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
3589728 AACTATAGTA
3589738 TATATATATATAG
1 TATATATATATAG
* *
3589751 TTTATTTATATAG
1 TATATATATATAG
3589764 TATATACTATATA
1 TATATA-TATATA
3589777 AATAGTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (13 bp):
TATATATATATAG
Found at i:3589809 original size:22 final size:22
Alignment explanation
Indices: 3589784--3589851 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
3589774 ATAAATAGTT
*
3589784 TATATAGTTCATATCTAAAC--
1 TATATAGTTCATATATAAACTA
3589804 TATATAGTTCAT-TAATAAACTA
1 TATATAGTTCATAT-ATAAACTA
* *
3589826 TATATATTTCATATGTAAACTA
1 TATATAGTTCATATATAAACTA
3589848 TATA
1 TATA
3589852 GTATATATAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.02
20 17 0.41
22 22 0.54
23 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (22 bp):
TATATAGTTCATATATAAACTA
Found at i:3589859 original size:20 final size:20
Alignment explanation
Indices: 3589784--3589853 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
3589774 ATAAATAGTT
*
3589784 TATATAGTTCATATCTAAAC
1 TATATAGTTCATATATAAAC
3589804 TATATAGTTCAT-TAATAAAC
1 TATATAGTTCATAT-ATAAAC
* *
3589824 TATATATATTTCATATGTAAAC
1 --TATATAGTTCATATATAAAC
3589846 TATATAGT
1 TATATAGT
3589854 ATATATAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.02
20 24 0.57
22 16 0.38
23 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (20 bp):
TATATAGTTCATATATAAAC
Found at i:3589924 original size:24 final size:24
Alignment explanation
Indices: 3589895--3589944 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3589885 ACAAATAATT
*
3589895 TATATAGTTCATTA-ATAAACTATA
1 TATATACTTCA-TACATAAACTATA
*
3589919 TATATACTTCATACGTAAACTATA
1 TATATACTTCATACATAAACTATA
3589943 TA
1 TA
3589945 GTTTATATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (24 bp):
TATATACTTCATACATAAACTATA
Found at i:3590237 original size:2 final size:2
Alignment explanation
Indices: 3590172--3590224 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
3590162 ACACACACAC
3590172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3590214 AT AT AC AT AT A
1 AT AT AT AT AT A
3590225 CATAAACTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3590541 original size:2 final size:2
Alignment explanation
Indices: 3590536--3590659 Score: 75
Period size: 2 Copynumber: 63.0 Consensus size: 2
3590526 TTATACATGG
* *
3590536 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA GT- TCA TA TA TA GTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA -TA
* * **
3590578 TA TA AA TA TA AA CTA TA TA GG T- TA TA TA TA T- TA TA T- TA T-
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3590617 TA TA TA GT- TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T- TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3590658 TA
1 TA
3590660 GTTGTTTCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 28
0.70 0.10 0.21
Matches are distributed among these distances:
1 8 0.08
2 80 0.84
3 7 0.07
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3590541 original size:20 final size:20
Alignment explanation
Indices: 3590518--3590581 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
3590508 ATATATAAAC
*
3590518 TATATAGTTTATACATGGTA
1 TATATAGTTTATACATAGTA
*
3590538 TATATAGTTTATACATAATA
1 TATATAGTTTATACATAGTA
* *
3590558 TATATAGTTCATATATAGTA
1 TATATAGTTTATACATAGTA
3590578 TATA
1 TATA
3590582 AATATAAACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (20 bp):
TATATAGTTTATACATAGTA
Found at i:3590640 original size:20 final size:20
Alignment explanation
Indices: 3590430--3590662 Score: 90
Period size: 20 Copynumber: 11.8 Consensus size: 20
3590420 ATTATACATA
*
3590430 ATATATAAATATAGTT-TAT
1 ATATATATATATAGTTATAT
* *
3590449 ATATAAACTATATAATT-TAT
1 ATATATA-TATATAGTTATAT
* *
3590469 ATTAATAAACTACATAGTT-TAT
1 A-T-ATATA-TATATAGTTATAT
3590491 ATATAGT-TCA-ATAGTTCATAT
1 ATATA-TAT-ATATAGTT-ATAT
3590512 ATA-A-ACTATATAGTT-TAT
1 ATATATA-TATATAGTTATAT
* *
3590530 ACATGGTATATATAGTT-TAT
1 ATAT-ATATATATAGTTATAT
*
3590550 ACATAATATATATAGTTCATAT
1 ATAT-ATATATATAGTT-ATAT
* *
3590572 ATAGTATATAAATA--TAAACT
1 ATA-TATATATATAGTTATA-T
3590592 ATATAGGT-TATATA--TAT-T
1 ATATA--TATATATAGTTATAT
3590610 ATAT-TATTATATAGTTATAT
1 ATATATA-TATATAGTTATAT
3590630 ATATATATATATA--TATAT
1 ATATATATATATAGTTATAT
*
3590648 ATTTATAT-TATAGTT
1 ATATATATATATAGTT
3590663 GTTTCAATTT
Statistics
Matches: 171, Mismatches: 16, Indels: 54
0.71 0.07 0.22
Matches are distributed among these distances:
15 1 0.01
17 10 0.06
18 22 0.13
19 22 0.13
20 73 0.43
21 12 0.07
22 30 0.18
23 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (20 bp):
ATATATATATATAGTTATAT
Found at i:3592230 original size:204 final size:205
Alignment explanation
Indices: 3591879--3592288 Score: 813
Period size: 204 Copynumber: 2.0 Consensus size: 205
3591869 ATTCATCTAT
3591879 TCACATAAAAATTAAAAGAAAAAAATTCAATTAGATTTTTTTGTCGATAATTTCACAAAACTTAC
1 TCACATAAAAATTAAAAGAAAAAAATTCAATTAGATTTTTTTGTCGATAATTTCACAAAACTTAC
3591944 ATATAAACCTAAAATATATTAATTTAATTTTATAATAAATTCACATAATATACACATTTAATCAA
66 ATATAAACCTAAAATATATTAATTTAATTTTATAATAAATTCACATAATATACACATTTAATCAA
3592009 TATATTTTAAAATTTATATTTATATAATCATGATATTTAAAGTCATTTTAAAATATTTTCATATA
131 TATATTTTAAAATTTATATTTATATAATCATGATATTTAAAGTCATTTTAAAATATTTTCATATA
3592074 TATATATATA
196 TATATATATA
3592084 TCACATAAAAATTAAAAGAAAAAAATTCAATTAGATTTTTTTGTCGATAATTTCACAAAACTTA-
1 TCACATAAAAATTAAAAGAAAAAAATTCAATTAGATTTTTTTGTCGATAATTTCACAAAACTTAC
3592148 ATATAAACCTAAAATATATTAATTTAATTTTATAATAAATTCACATAATATACACATTTAATCAA
66 ATATAAACCTAAAATATATTAATTTAATTTTATAATAAATTCACATAATATACACATTTAATCAA
3592213 TATATTTTAAAATTTATATTTATATAATCATGATATTTAAAGTCATTTTAAAATATTTTCATATA
131 TATATTTTAAAATTTATATTTATATAATCATGATATTTAAAGTCATTTTAAAATATTTTCATATA
3592278 TATATATATA
196 TATATATATA
3592288 T
1 T
3592289 ATATATATAT
Statistics
Matches: 205, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
204 141 0.69
205 64 0.31
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (205 bp):
TCACATAAAAATTAAAAGAAAAAAATTCAATTAGATTTTTTTGTCGATAATTTCACAAAACTTAC
ATATAAACCTAAAATATATTAATTTAATTTTATAATAAATTCACATAATATACACATTTAATCAA
TATATTTTAAAATTTATATTTATATAATCATGATATTTAAAGTCATTTTAAAATATTTTCATATA
TATATATATA
Found at i:3592280 original size:2 final size:2
Alignment explanation
Indices: 3592273--3592302 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3592263 AAATATTTTC
3592273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3592303 GTTTTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3593870 original size:17 final size:17
Alignment explanation
Indices: 3593848--3593884 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3593838 GGCCTGAGGG
*
3593848 CACTCCTCTCAGGTGGA
1 CACTCCCCTCAGGTGGA
*
3593865 CACTCCCCTCAGTTGGA
1 CACTCCCCTCAGGTGGA
3593882 CAC
1 CAC
3593885 CTATGTTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.41, G:0.19, T:0.22
Consensus pattern (17 bp):
CACTCCCCTCAGGTGGA
Found at i:3602756 original size:23 final size:22
Alignment explanation
Indices: 3602730--3602803 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
3602720 TCAAACAATT
3602730 AATAAACATAATTAAAATAATAA
1 AATAAACA-AATTAAAATAATAA
* *
3602753 AAT-AACAATATTAAAAAAATAGT
1 AATAAACAA-ATTAAAATAATA-A
* *
3602776 AA-AAACAAAATAGAATAA-AA
1 AATAAACAAATTAAAATAATAA
3602796 AATAAACA
1 AATAAACA
3602804 CAAGTACAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
20 2 0.05
21 7 0.17
22 22 0.54
23 10 0.24
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (22 bp):
AATAAACAAATTAAAATAATAA
Found at i:3602874 original size:21 final size:21
Alignment explanation
Indices: 3602848--3602911 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
3602838 TCGTAAACCT
3602848 AAAGGGGATAAATTAAACATA
1 AAAGGGGATAAATTAAACATA
*
3602869 AAAGGGGATAAATTAAACGTA
1 AAAGGGGATAAATTAAACATA
* *
3602890 AAAGGTGCTAAATTAAA-ATA
1 AAAGGGGATAAATTAAACATA
3602910 AA
1 AA
3602912 TTAAAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 4 0.10
21 35 0.90
ACGTcount: A:0.56, C:0.05, G:0.19, T:0.20
Consensus pattern (21 bp):
AAAGGGGATAAATTAAACATA
Found at i:3602911 original size:10 final size:10
Alignment explanation
Indices: 3602898--3602928 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
3602888 TAAAAGGTGC
3602898 TAAATTAAAA
1 TAAATTAAAA
3602908 TAAATTAAAA
1 TAAATTAAAA
3602918 TAAATTAAAA
1 TAAATTAAAA
3602928 T
1 T
3602929 TTAAAGTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAATTAAAA
Found at i:3607217 original size:21 final size:22
Alignment explanation
Indices: 3607193--3607273 Score: 78
Period size: 21 Copynumber: 3.8 Consensus size: 22
3607183 ACAGAACCCC
*
3607193 AGGGGGTATCGATTCCCCT-AT
1 AGGGGGAATCGATTCCCCTCAT
* * *
3607214 AGGGGGAATCGGTTCTCCTTCAA
1 AGGGGGAATCGATTC-CCCTCAT
*
3607237 AGGGGGAATCGGTT-CCCTCAT
1 AGGGGGAATCGATTCCCCTCAT
*
3607258 -GGGGGGATCGATTCCC
1 AGGGGGAATCGATTCCC
3607274 TCTGCACCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
20 11 0.22
21 20 0.41
22 3 0.06
23 15 0.31
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.25
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTCAT
Found at i:3607267 original size:20 final size:21
Alignment explanation
Indices: 3607214--3607275 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
3607204 ATTCCCCTAT
3607214 AGGGGGAATCGGTTCTCCTTCAA
1 AGGGGGAATCGGTTC-CC-TCAA
3607237 AGGGGGAATCGGTTCCCTC-A
1 AGGGGGAATCGGTTCCCTCAA
* * *
3607257 TGGGGGGATCGATTCCCTC
1 AGGGGGAATCGGTTCCCTC
3607276 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 17 0.47
21 2 0.06
22 2 0.06
23 15 0.42
ACGTcount: A:0.18, C:0.24, G:0.34, T:0.24
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCTCAA
Found at i:3611124 original size:22 final size:21
Alignment explanation
Indices: 3611082--3611121 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3611072 GAGTTTGTTT
*
3611082 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
3611103 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
3611122 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:3614419 original size:514 final size:510
Alignment explanation
Indices: 3613452--3614477 Score: 1707
Period size: 514 Copynumber: 2.0 Consensus size: 510
3613442 ACAAGAGTTG
*
3613452 TCTTATTCTCTAAAGAAACCTATCCTCATTTTCTCTCGTCTAGCCATCGTTCTTTCTTTTTCGTT
1 TCTTATTCTCTAAAGAAACCCATCCTCATTTTCTCTCGTCTAGCCATCGTTCTTTCTTTTTCGTT
* **
3613517 TCGGTTTGATAGATGGTGGAATTAATCTTAGTGTTGGTCGATGATCGTCTATATTAGCGTTTATT
66 TCGGTTTGATAGATGATGGAACCAATCTTAGTGTTGGTCGATGATCGTCTATATTAGCGTTTATT
*
3613582 TTCTTATATGCATATATTTTTTATGTTTTTAAGTTTCTAATAACTCTACCTTCATGACTTATTTT
131 TTCTTATATGCATATATTTTTTATGTTTTTAAGTTTCTAATAACTCTACCTTCATGACATATTTT
*
3613647 TCTCTGTTTTTATAACATGTTTTCTTCTACCTTTATAGCACATTTTCGATCGTCTGACCGTTTTT
196 TCTCTGTTTTTATAACATGTTTTCTTCTACCTTTATAACACATTTTCGATCGTCTGA-CGTTTTT
* * *
3613712 CACGGTTAGATTGACGTCACCTCAATGTTGTTTATTTTTTATATCGTTGATCTTCCCTACTTTAG
260 CACGGTTAGATTGACGTCACCTAAATGTCGTTTATTTTTTATATCGTTGATCTTCACTACTTTAG
* * *
3613777 ACTTTTGGATTGAACTTGGATACATGATTTACGTTCGTAAATAGTTTTTTCATGACACTCGATTT
325 ACTTTCGGATTGAACTTGGATACACGATTTACGTTCGTAAATAGTTTTTTCACGACACTCGATTT
* *
3613842 TGATTTGCAGTTGTTAGTGGTCTTTTAGTAGTTTAATTTCCTATTGTGGCTTATTTGCTGATGCA
390 TGATTTGCAGTTGTTAGTGGTCTTTTAGTAGTTTAATCTCCTATTGTGGCTTATTTACTGATGCA
* *
3613907 GTCAGATTTGTTCATATTTGTCTTTTGTTTGAGTTTCTTGGATGAGTTTTAACTTT
455 GTCAGATTTGTTCATATTTGTCATTTGTTCGAGTTTCTTGGATGAGTTTTAACTTT
3613963 TCTTATTCTCTAAAGAAACCCATCCTCATTTTCTCTCGTCTAGCCATCGTTCTTTCTTTTTCGTT
1 TCTTATTCTCTAAAGAAACCCATCCTCATTTTCTCTCGTCTAGCCATCGTTCTTTCTTTTTCGTT
* * *
3614028 TCGGTTTGATAGATGATGGGACCAATCTTAGTGTTGGTCGATGGTCGTCTATATTATCGTTTATT
66 TCGGTTTGATAGATGATGGAACCAATCTTAGTGTTGGTCGATGATCGTCTATATTAGCGTTTATT
*
3614093 TTCTTATATGCATATATTTTTTTTTATGTTTTTAAGTTTCTAATAACTCTACCTTCATGACATGT
131 TTCTTATATGCATATA---TTTTTTATGTTTTTAAGTTTCTAATAACTCTACCTTCATGACATAT
* *
3614158 TTTTCTCTGTTTTTATAACATGTTTTCTTCTACCTTTATAACACATTTTTGATTGTCT-A-GTTG
193 TTTTCTCTGTTTTTATAACATGTTTTCTTCTACCTTTATAACACATTTTCGATCGTCTGACG-T-
* * *
3614221 TTTTCACGGTTAGATTTGACGTCACCTAAATGTCGTTTATTTGTTT-TCTCGTTGATCTTCATTG
256 TTTTCACGGTTAGA-TTGACGTCACCTAAATGTCGTTTATTT-TTTATATCGTTGATCTTCACTA
*
3614285 CTTTAGACTTTCGGATTGAACTTGGATACACGATTTACGTTCGTAAATAGTTTTTTGACGACACT
319 CTTTAGACTTTCGGATTGAACTTGGATACACGATTTACGTTCGTAAATAGTTTTTTCACGACACT
*
3614350 CGATTTTGATTTGCAGTTGTTAGTGGTCTTTTAGTAGTTTAATCTCCTATTGTGTCTTATTTACT
384 CGATTTTGATTTGCAGTTGTTAGTGGTCTTTTAGTAGTTTAATCTCCTATTGTGGCTTATTTACT
*
3614415 GATGCAGTCAGATTTGTTCCTATTTGTCATTTGTTCGAGTTTCTTGGATGAGTTTTAACTTT
449 GATGCAGTCAGATTTGTTCATATTTGTCATTTGTTCGAGTTTCTTGGATGAGTTTTAACTTT
3614477 T
1 T
3614478 TTCTTGTATG
Statistics
Matches: 480, Mismatches: 28, Indels: 11
0.92 0.05 0.02
Matches are distributed among these distances:
511 140 0.29
512 1 0.00
513 15 0.03
514 321 0.67
515 3 0.01
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (510 bp):
TCTTATTCTCTAAAGAAACCCATCCTCATTTTCTCTCGTCTAGCCATCGTTCTTTCTTTTTCGTT
TCGGTTTGATAGATGATGGAACCAATCTTAGTGTTGGTCGATGATCGTCTATATTAGCGTTTATT
TTCTTATATGCATATATTTTTTATGTTTTTAAGTTTCTAATAACTCTACCTTCATGACATATTTT
TCTCTGTTTTTATAACATGTTTTCTTCTACCTTTATAACACATTTTCGATCGTCTGACGTTTTTC
ACGGTTAGATTGACGTCACCTAAATGTCGTTTATTTTTTATATCGTTGATCTTCACTACTTTAGA
CTTTCGGATTGAACTTGGATACACGATTTACGTTCGTAAATAGTTTTTTCACGACACTCGATTTT
GATTTGCAGTTGTTAGTGGTCTTTTAGTAGTTTAATCTCCTATTGTGGCTTATTTACTGATGCAG
TCAGATTTGTTCATATTTGTCATTTGTTCGAGTTTCTTGGATGAGTTTTAACTTT
Found at i:3617518 original size:15 final size:16
Alignment explanation
Indices: 3617498--3617527 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3617488 TTTGGGGATT
3617498 TTAAAATAAT-TTTAA
1 TTAAAATAATATTTAA
3617513 TTAAAATAATATTTA
1 TTAAAATAATATTTA
3617528 TTTTTATTAT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATAATATTTAA
Found at i:3629327 original size:12 final size:12
Alignment explanation
Indices: 3629312--3629381 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
3629302 GATACATTAC
*
3629312 CTGAATTCTTTT
1 CTGAATTCTGTT
* *
3629324 CTGATTTCTGAT
1 CTGAATTCTGTT
*
3629336 CTGGATTCTGTT
1 CTGAATTCTGTT
*
3629348 CTG-ATATCTGAT
1 CTGAAT-TCTGTT
3629360 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
3629372 TTGATTTCTG
1 CTGAATTCTG
3629382 ATATCTCCGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.16, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:3629343 original size:24 final size:24
Alignment explanation
Indices: 3629312--3629383 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
3629302 GATACATTAC
3629312 CTGAATTCTTTTCTGATTTCTGAT
1 CTGAATTCTTTTCTGATTTCTGAT
* * *
3629336 CTGGATTCTGTTCTGATATCTGAT
1 CTGAATTCTTTTCTGATTTCTGAT
3629360 CTGAATTCTGTTT-TGATTTCTGAT
1 CTGAATTCT-TTTCTGATTTCTGAT
3629384 ATCTCCGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 39 0.95
25 2 0.05
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.51
Consensus pattern (24 bp):
CTGAATTCTTTTCTGATTTCTGAT
Found at i:3629380 original size:48 final size:48
Alignment explanation
Indices: 3629275--3629383 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
3629265 AAATATTTTA
* * *
3629275 TCTGATTTCCGATTTGAATTATGTTCTGATACATTACCTGAATTCTTT
1 TCTGATTTCTGATCTGAATTATGTTCTGATACATGACCTGAATTCTTT
* * *
3629323 TCTGATTTCTGATCTGGATTCTGTTCTGATATC-TGATCTGAATTCTGTT
1 TCTGATTTCTGATCTGAATTATGTTCTGATA-CATGACCTGAATTCT-TT
3629372 T-TGATTTCTGAT
1 TCTGATTTCTGAT
3629384 ATCTCCGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 49 0.92
49 4 0.08
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (48 bp):
TCTGATTTCTGATCTGAATTATGTTCTGATACATGACCTGAATTCTTT
Found at i:3629552 original size:2 final size:2
Alignment explanation
Indices: 3629545--3629577 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3629535 TGGGGATGTT
3629545 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3629578 GTTTTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3634478 original size:12 final size:12
Alignment explanation
Indices: 3634463--3634532 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
3634453 GATACATTAC
3634463 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
3634475 CTGATTTCTGAT
1 CTGAATTCTGTT
* *
3634487 ATGGATTCTGTT
1 CTGAATTCTGTT
*
3634499 CTGATATT-TGAT
1 CTGA-ATTCTGTT
3634511 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
3634523 TTGATTTCTG
1 CTGAATTCTG
3634533 ATATCTCCGT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 3 0.07
12 38 0.86
13 3 0.07
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:3634478 original size:48 final size:48
Alignment explanation
Indices: 3634426--3634530 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
3634416 AAATATTTTA
3634426 TCTGATTTCCAACT-TGAATTCTGTTCTGATACATT-ACCTGAATTCTGT
1 TCTGATTTCCAA-TATGAATTCTGTTCTGATA-ATTGACCTGAATTCTGT
** * * *
3634474 TCTGATTTCTGATATGGATTCTGTTCTGATATTTGATCTGAATTCTGT
1 TCTGATTTCCAATATGAATTCTGTTCTGATAATTGACCTGAATTCTGT
*
3634522 TTTGATTTC
1 TCTGATTTC
3634531 TGATATCTCC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 3 0.06
48 46 0.94
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (48 bp):
TCTGATTTCCAATATGAATTCTGTTCTGATAATTGACCTGAATTCTGT
Found at i:3634494 original size:24 final size:24
Alignment explanation
Indices: 3634464--3634536 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
3634454 ATACATTACC
3634464 TGAATTCTGTTCTGATTTCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
* *
3634488 TGGATTCTGTTCTGATATT-TGATC
1 TGAATTCTGTTCTGAT-TTCTGATA
*
3634512 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
3634536 T
1 T
3634537 CTCCGTTTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.05
24 38 0.90
25 2 0.05
ACGTcount: A:0.19, C:0.11, G:0.18, T:0.52
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATA
Found at i:3634531 original size:48 final size:48
Alignment explanation
Indices: 3634443--3634536 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
3634433 TCCAACTTGA
3634443 ATTCTGTTCTGATACATTACCTGAATTCTGTTCTGATTTCTGATATGG
1 ATTCTGTTCTGATACATTACCTGAATTCTGTTCTGATTTCTGATATGG
* * *
3634491 ATTCTGTTCTGATA-TTTGATCTGAATTCTGTTTTGATTTCTGATAT
1 ATTCTGTTCTGATACATT-ACCTGAATTCTGTTCTGATTTCTGATAT
3634537 CTCCGTTTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (48 bp):
ATTCTGTTCTGATACATTACCTGAATTCTGTTCTGATTTCTGATATGG
Found at i:3639591 original size:24 final size:23
Alignment explanation
Indices: 3639560--3639631 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
3639550 GATACATTAC
3639560 CTGAATTCTTTTCTGATATCTGAT
1 CTGAATTCTTTT-TGATATCTGAT
* * *
3639584 CTGGATTCTGTTATAATATCTGAT
1 CTGAATTCT-TTTTGATATCTGAT
*
3639608 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCT-TTTTGATATCTGAT
3639632 ATCTCCGTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 38 0.95
25 2 0.05
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (23 bp):
CTGAATTCTTTTTGATATCTGAT
Found at i:3639798 original size:2 final size:2
Alignment explanation
Indices: 3639791--3639841 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
3639781 AATGGGGGTG
3639791 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3639833 TA TA TA TA T
1 TA TA TA TA T
3639842 GTTTTAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3643226 original size:136 final size:135
Alignment explanation
Indices: 3642965--3644018 Score: 1126
Period size: 136 Copynumber: 7.7 Consensus size: 135
3642955 AAACAAGCTA
* * * * * *
3642965 AGGTTGAACAAGTTATTCTCATTATGAACTTCTTCT-CCTTTATTAGATGAGTTCTTCTCATTAC
1 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
* * * * * * * * * *
3643029 GAACTCTCCACTAGAAATATTAATCCCTCAAGCGAGGTGTTGCTGACTCGAAGTGTTGTGAATCG
66 GAACTCTCCACTAGAAATGTCATTCCCTCAAGTGAGGTGTTACTGATTCAAAATG-CGTGAATCA
*
3643094 AGCAAT
130 AGCGAT
3643100 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
* * * * *
3643165 GAACTCTCCATCT-GAAATGTCATTCCCTCAAATAAGGCGTCACTAATTCAAAATGCCGTGAATC
66 GAACTCTCCA-CTAGAAATGTCATTCCCTCAAGTGAGGTGTTACTGATTCAAAATG-CGTGAATC
*
3643229 AAGTGAT
129 AAGCGAT
* * *
3643236 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
* * * **
3643301 GAACTCTCCACTGGAAATGTTGA-TCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGCGAT
66 GAACTCTCCACTAGAAATG-TCATTCCCTCAAGTGAGGTGTTACTGATTCAA----A-ATGCG-T
* *
3643365 GAATCGAGCTA-
124 GAATCAAGCGAT
* *
3643376 AGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
** * * *
3643441 GAACTCTCCATCT-GAAATGTCATTCCCTCAAGTGAGGCATCACTAATTTAAAATGCCGTGAATC
66 GAACTCTCCA-CTAGAAATGTCATTCCCTCAAGTGAGGTGTTACTGATTCAAAATG-CGTGAATC
*
3643505 AAGTGAT
129 AAGCGAT
* * * *
3643512 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTTTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
* * * **
3643577 GAACTCTCTACTAGAAATGTTGA-TCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGCGAT
66 GAACTCTCCACTAGAAATG-TCATTCCCTCAAGTGAGGTGTTACTGATTCAA----A-ATGCG-T
*
3643641 GAATCAAGCTA-
124 GAATCAAGCGAT
* * * *
3643652 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-ATCGGGTGAGTTCTTCTCATTAT
1 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
*
3643716 GAACTCTCCATCT-GAAATGTCATTCCCTCAAGTGAGGTGTCACTGATTCAAAATGCCGTGAATC
66 GAACTCTCCA-CTAGAAATGTCATTCCCTCAAGTGAGGTGTTACTGATTCAAAATG-CGTGAATC
*
3643780 AAGTGAT
129 AAGCGAT
* *
3643787 AGGTCGAACAAGTTCTTCACATTATGAACTTCTTCTCCCTTTGTCAGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
* * * *
3643852 GAACTCTCCACTGGAAATGTTGA-TCCCTCGAGTGAGGTGTTATTGATTCAACTCCATATGCGAT
66 GAACTCTCCACTAGAAATG-TCATTCCCTCAAGTGAGGTGTTACTGATTCAA----A-ATGCG-T
* *
3643916 GAATCGAGCTA-
124 GAATCAAGCGAT
* * ** *
3643927 AGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCCCTCACT-GGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
3643991 GAACTCTCCATCTA-AAATGTCATTCCCT
66 GAACTCTCCA-CTAGAAATGTCATTCCCT
3644019 TAAGCGAAGC
Statistics
Matches: 773, Mismatches: 109, Indels: 70
0.81 0.11 0.07
Matches are distributed among these distances:
134 13 0.02
135 93 0.12
136 330 0.43
137 8 0.01
138 4 0.01
139 101 0.13
140 185 0.24
141 39 0.05
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (135 bp):
AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
GAACTCTCCACTAGAAATGTCATTCCCTCAAGTGAGGTGTTACTGATTCAAAATGCGTGAATCAA
GCGAT
Found at i:3643458 original size:276 final size:276
Alignment explanation
Indices: 3642965--3644039 Score: 1664
Period size: 275 Copynumber: 3.9 Consensus size: 276
3642955 AAACAAGCTA
* * * * * *
3642965 AGGTTGAACAAGTTATTCTCATTATGAACTTCTTCT-CCTTTATTAGATGAGTTCTTCTCATTAC
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCAGATGAGTTCTTCTCATTAT
* * * * * * * *
3643029 GAACTCTCCACTAGAAATATTAATCCCTCAAGCGAGGTGTTGCTGACTCGAAGT--GT-T--G-T
66 GAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTC-AACTCCATATGCGAT
* *
3643088 GAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGT
130 GAATCGAGCTA-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGT
* *
3643153 TCTTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAATAAGGCGTCACTAATTCAAAA
194 TCTTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAGTGAGGCGTCACTAATTCAAAA
3643218 TGCCGTGAATCAAGTGAT
259 TGCCGTGAATCAAGTGAT
*
3643236 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCAGATGAGTTCTTCTCATTAT
*
3643301 GAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGCGATG
66 GAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGCGATG
*
3643366 AATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTC
131 AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTC
* *
3643431 TTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAGTGAGGCATCACTAATTTAAAATG
196 TTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAGTGAGGCGTCACTAATTCAAAATG
3643496 CCGTGAATCAAGTGAT
261 CCGTGAATCAAGTGAT
* *
3643512 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTTTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCAGATGAGTTCTTCTCATTAT
*
3643577 GAACTCTCTACTAGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGCGATG
66 GAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGCGATG
* * * *
3643642 AATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-ATCGGGTGAGTTC
131 AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTC
* *
3643706 TTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAGTGAGGTGTCACTGATTCAAAATG
196 TTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAGTGAGGCGTCACTAATTCAAAATG
3643771 CCGTGAATCAAGTGAT
261 CCGTGAATCAAGTGAT
* *
3643787 AGGTCGAACAAGTTCTTCACATTATGAACTTCTTCTCCCTTTGTCAGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCAGATGAGTTCTTCTCATTAT
* *
3643852 GAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTATTGATTCAACTCCATATGCGATG
66 GAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGCGATG
* ** *
3643917 AATCGAGCTAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCCCTCACT-GGATGAGTTC
131 AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTC
* * * * *
3643981 TTCTCATTATGAACTCTCCATCTAAAATGTCATTCCCTTAAGCGAAGCGTCACTGATTC
196 TTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAGTGAGGCGTCACTAATTC
3644040 CTCAAGTGAG
Statistics
Matches: 745, Mismatches: 51, Indels: 12
0.92 0.06 0.01
Matches are distributed among these distances:
271 36 0.05
272 66 0.09
273 1 0.00
274 1 0.00
275 322 0.43
276 308 0.41
277 11 0.01
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (276 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCAGATGAGTTCTTCTCATTAT
GAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGCGATG
AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTC
TTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAGTGAGGCGTCACTAATTCAAAATG
CCGTGAATCAAGTGAT
Found at i:3644143 original size:22 final size:22
Alignment explanation
Indices: 3644118--3644169 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
3644108 CATTATGAAC
3644118 TTCTTCTCCCTAATCGAATGAG
1 TTCTTCTCCCTAATCGAATGAG
* *
3644140 TTCTTCTCCCTCATCGGATGAG
1 TTCTTCTCCCTAATCGAATGAG
3644162 TTCTTCTC
1 TTCTTCTC
3644170 ATTTTGAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.15, C:0.31, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCTTCTCCCTAATCGAATGAG
Found at i:3645137 original size:113 final size:110
Alignment explanation
Indices: 3644936--3645140 Score: 261
Period size: 113 Copynumber: 1.8 Consensus size: 110
3644926 ATTTACTGTT
** *
3644936 ATCAAGAAACCCCTAAAATTAGGCTTAGCTTCTTTCAAAAATTCATTTAAAATGTCAAGAAACCC
1 ATCAAGAAACCCCTAAAATTAGGCTTAGCTTCTTTCAAAAATT-ATGGAAAATATCAAGAAACCC
* *
3645001 CTTAAAATCAGGCTTAATTTCTAAAAATCTTTAATTTTTAGTTATC
65 CTGAAAATCAGACTTAATTTCTAAAAATCTTTAATTTTTAGTTATC
* *
3645047 ATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTT-AAAAATT-TGGAGATAGTCATCAAGAA
1 ATCAAGAAACCCCT-AAAATTAGGCTTAGCTT-CTTTCAAAAATTATGGA-A-AAT-ATCAAGAA
* *
3645110 ACCCCTGAAAATTAGACTTAGTTTCTAAAAA
61 ACCCCTGAAAATCAGACTTAATTTCTAAAAA
3645141 CTCATTTGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
110 2 0.03
111 14 0.17
112 26 0.32
113 38 0.47
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (110 bp):
ATCAAGAAACCCCTAAAATTAGGCTTAGCTTCTTTCAAAAATTATGGAAAATATCAAGAAACCCC
TGAAAATCAGACTTAATTTCTAAAAATCTTTAATTTTTAGTTATC
Found at i:3645253 original size:22 final size:22
Alignment explanation
Indices: 3645194--3645256 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 22
3645184 AAGGACTTAT
* *
3645194 CATCTTGCTCGAAAGACTTATA
1 CATCATGCTCGAAAGACTTACA
* *
3645216 AAT-A-GCTCGAAGGACTTACA
1 CATCATGCTCGAAAGACTTACA
*
3645236 CATCATGCTCAAAAGACTTAC
1 CATCATGCTCGAAAGACTTAC
3645257 TGATGGCCCG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 16 0.50
21 1 0.03
22 15 0.47
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (22 bp):
CATCATGCTCGAAAGACTTACA
Found at i:3645255 original size:42 final size:42
Alignment explanation
Indices: 3645179--3645282 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
3645169 CTTATGGATG
* *
3645179 GCCCGAAGGACTTA-TCATCTTGCTCGAAAGACTTA-TAAATA
1 GCCCGAAGGACTTACTCATCATGCTCAAAAGACTTACT-AATA
* * * *
3645220 GCTCGAAGGACTTACACATCATGCTCAAAAGACTTACTGATG
1 GCCCGAAGGACTTACTCATCATGCTCAAAAGACTTACTAATA
3645262 GCCCGAAGGACTTACTCATCA
1 GCCCGAAGGACTTACTCATCA
3645283 AGAAACCCTT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 13 0.25
42 39 0.74
43 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
GCCCGAAGGACTTACTCATCATGCTCAAAAGACTTACTAATA
Found at i:3645571 original size:109 final size:109
Alignment explanation
Indices: 3645323--3645672 Score: 436
Period size: 109 Copynumber: 3.2 Consensus size: 109
3645313 TAGAAAGATC
* * *
3645323 AAATAATCAAGAAACTTCCAAAAAATGGACTTAGTTTCTTTCAAATTCATTTGAAAA-CATCAAG
1 AAATAATCAAGAAACTTCCGAAAATTGGACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAAG
** * * *
3645387 AAACCCCTAAAAATCAGGCTTAACTTCTTTGAAA-TTCATTTAA
66 AAACTTCTAAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
* * *** * *
3645430 AAATCATCAAGAAACTTCTGAAAATCATACTTAGTTTCTTTAAAACTCATTTGAAAATCGTCAAG
1 AAATAATCAAGAAACTTCCGAAAATTGGACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAAG
* * * *
3645495 AAACTTC-AGAAAATCAGATTTAGTTTCTTTAAAAGCTCGTTTAA
66 AAACTTCTA-AAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
* * *
3645539 AAATAATCAAGAAACTTCCGAATATTGGACTTAGTTTCTTTAAAATTCAATTAAAAATCATCAAG
1 AAATAATCAAGAAACTTCCGAAAATTGGACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAAG
*
3645604 AAACTTCTAAAAATCAGACTTAATTTCCTTGAAAGCTCATTTAA
66 AAACTTCTAAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
* * *
3645648 AAATCATCAAGATACTTCTGAAAAT
1 AAATAATCAAGAAACTTCCGAAAAT
3645673 CAGAATTAGT
Statistics
Matches: 201, Mismatches: 38, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
107 49 0.24
108 31 0.15
109 120 0.60
110 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (109 bp):
AAATAATCAAGAAACTTCCGAAAATTGGACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAAG
AAACTTCTAAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
Found at i:3645573 original size:55 final size:54
Alignment explanation
Indices: 3645323--3645683 Score: 375
Period size: 54 Copynumber: 6.7 Consensus size: 54
3645313 TAGAAAGATC
* ** * * * *
3645323 AAATAATCAAGAAACTTCCAAAAAAT-GGACTTAGTTTCTTTCAAATTCATTTGA
1 AAATCATCAAGAAACTT-CTGAAAATCAGACTTAGTTTCTTTAAAACTCATTTAA
** * * ** * *
3645377 AAA-CATCAAGAAACCCCTAAAAATCAGGCTTAACTTCTTTGAAATTCATTTAA
1 AAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAACTCATTTAA
* *
3645430 AAATCATCAAGAAACTTCTGAAAATCATACTTAGTTTCTTTAAAACTCATTTGA
1 AAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAACTCATTTAA
* * * *
3645484 AAATCGTCAAGAAACTTCAGAAAATCAGATTTAGTTTCTTTAAAAGCTCGTTTAA
1 AAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAA-CTCATTTAA
* * * ** * *
3645539 AAATAATCAAGAAACTTCCGAATATTGGACTTAGTTTCTTTAAAATTCAATTAA
1 AAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAACTCATTTAA
* * * *
3645593 AAATCATCAAGAAACTTCTAAAAATCAGACTTAATTTCCTTGAAAGCTCATTTAA
1 AAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTT-CTTTAAAACTCATTTAA
* *
3645648 AAATCATCAAGATACTTCTGAAAATCAGAATTAGTT
1 AAATCATCAAGAAACTTCTGAAAATCAGACTTAGTT
3645684 CCTAAAAAAC
Statistics
Matches: 252, Mismatches: 51, Indels: 7
0.81 0.16 0.02
Matches are distributed among these distances:
52 7 0.03
53 35 0.14
54 120 0.48
55 90 0.36
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAACTCATTTAA
Found at i:3647720 original size:10 final size:10
Alignment explanation
Indices: 3647702--3647762 Score: 81
Period size: 10 Copynumber: 6.2 Consensus size: 10
3647692 TATTTTCTTC
3647702 TTTCTTCTTTT
1 TTTC-TCTTTT
3647713 TTTCTCTTTT
1 TTTCTCTTTT
3647723 TTTCTCTTTT
1 TTTCTCTTTT
* *
3647733 TTT-ACTGTT
1 TTTCTCTTTT
3647742 TTTCTC-TTT
1 TTTCTCTTTT
3647751 TTTCTCTTTT
1 TTTCTCTTTT
3647761 TT
1 TT
3647763 CATGTTTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
9 15 0.34
10 25 0.57
11 4 0.09
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTCTCTTTT
Found at i:3647726 original size:28 final size:28
Alignment explanation
Indices: 3647694--3647835 Score: 94
Period size: 27 Copynumber: 4.9 Consensus size: 28
3647684 GATATATCTA
3647694 TTTTCTTCTTTCTTCTTTTTTTCTCTTT
1 TTTTCTTCTTTCTTCTTTTTTTCTCTTT
* *
3647722 TTTTC-TCTTTTTTTACTGTTTTTCTC-TT
1 TTTTCTTC-TTTCTT-CTTTTTTTCTCTTT
* * *
3647750 TTTTC-TCTTTTTTCATGTTTTTCT-ATT
1 TTTTCTTCTTTCTTC-TTTTTTTCTCTTT
* *
3647777 TTTTCTTTCTTTCTTTCTTTTTTATGTGTGTT
1 TTTTC-TTCTTTC-TTCTTTTTT-TCTCT-TT
* * *
3647809 TTTTCTATATCTCTTCTTTTTCTCTCT
1 TTTTCT-TCTTTCTTCTTTTTTTCTCT
3647836 GTATTGTCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
26 1 0.01
27 24 0.26
28 19 0.21
29 20 0.22
30 8 0.09
31 9 0.10
32 11 0.12
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.74
Consensus pattern (28 bp):
TTTTCTTCTTTCTTCTTTTTTTCTCTTT
Found at i:3647734 original size:19 final size:19
Alignment explanation
Indices: 3647706--3647762 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
3647696 TTCTTCTTTC
3647706 TTCT-TTTTTTCTCTTTTT
1 TTCTCTTTTTTCTCTTTTT
*
3647724 TTCTCTTTTTT-TACTGTTT
1 TTCTCTTTTTTCT-CTTTTT
3647743 TTCTCTTTTTTCTCTTTTT
1 TTCTCTTTTTTCTCTTTTT
3647762 T
1 T
3647763 CATGTTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 5 0.15
19 28 0.82
20 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (19 bp):
TTCTCTTTTTTCTCTTTTT
Found at i:3647770 original size:10 final size:9
Alignment explanation
Indices: 3647694--3647782 Score: 85
Period size: 9 Copynumber: 9.7 Consensus size: 9
3647684 GATATATCTA
3647694 TTTTCTTCTT
1 TTTTC-TCTT
*
3647704 TCTTCT-TT
1 TTTTCTCTT
3647712 TTTTCTCTTT
1 TTTTCTC-TT
3647722 TTTTCTCTT
1 TTTTCTCTT
3647731 TTTT-TACTGT
1 TTTTCT-CT-T
3647741 TTTTCTCTT
1 TTTTCTCTT
3647750 TTTTCTCTT
1 TTTTCTCTT
*
3647759 TTTTCAT-GT
1 TTTTC-TCTT
*
3647768 TTTTCTATT
1 TTTTCTCTT
3647777 TTTTCT
1 TTTTCT
3647783 TTCTTTCTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
8 9 0.13
9 37 0.54
10 21 0.31
11 1 0.01
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:3647797 original size:18 final size:16
Alignment explanation
Indices: 3647694--3647798 Score: 68
Period size: 18 Copynumber: 5.9 Consensus size: 16
3647684 GATATATCTA
3647694 TTTTCTTCTTTCTTCTTT-
1 TTTT-TTCTTT-TT-TTTC
*
3647712 TTTTCTCTTTTTTTCTC
1 TTTTTTCTTTTTTT-TC
*
3647729 TTTTTTTACTGTTTTTCTC
1 -TTTTTT-CT-TTTTTTTC
*
3647748 TTTTTTCTCTTTTTTC
1 TTTTTTCTTTTTTTTC
*
3647764 ATGTTTTTCTATTTTTTC
1 -T-TTTTTCTTTTTTTTC
3647782 TTTCTTTCTTTCTTTTT
1 TTT-TTTCTTT-TTTTT
3647799 TATGTGTGTT
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
15 2 0.03
16 11 0.15
17 15 0.21
18 34 0.48
19 4 0.06
20 5 0.07
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTC
Found at i:3655947 original size:20 final size:20
Alignment explanation
Indices: 3655922--3655981 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
3655912 AACCCTTACA
*
3655922 AATATCAATCAGAATCAAGC
1 AATATCAAACAGAATCAAGC
*
3655942 AATATCAAACATAATCAAG-
1 AATATCAAACAGAATCAAGC
*
3655961 AAAATCAAGA-AGAATCAAGC
1 AATATCAA-ACAGAATCAAGC
3655981 A
1 A
3655982 CCAACTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.57, C:0.17, G:0.10, T:0.17
Consensus pattern (20 bp):
AATATCAAACAGAATCAAGC
Found at i:3656560 original size:22 final size:23
Alignment explanation
Indices: 3656518--3656561 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3656508 ATTCTAAAAA
*
3656518 AATAAATTATGAAAATAGAATAC
1 AATAAATTATAAAAATAGAATAC
*
3656541 AATAAATTA-AAAAATTGAATA
1 AATAAATTATAAAAATAGAATA
3656562 TTAAAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (23 bp):
AATAAATTATAAAAATAGAATAC
Found at i:3658446 original size:32 final size:32
Alignment explanation
Indices: 3658403--3658523 Score: 152
Period size: 32 Copynumber: 3.8 Consensus size: 32
3658393 GGTTTTAAAT
* * * *
3658403 GGGGAATAGTCTTGTTTAGAGAAGAAGAAGAA
1 GGGGAAAAGTCTCGGTTAGAGAAGAGGAAGAA
3658435 GGGGAAAAGTCTCGGTTAGAGAAGAGGAAGAA
1 GGGGAAAAGTCTCGGTTAGAGAAGAGGAAGAA
* * *
3658467 GGGGTAGAGTCTCGGTTAGAGAATAGGAAGAA
1 GGGGAAAAGTCTCGGTTAGAGAAGAGGAAGAA
* * *
3658499 GGGGCAGAGTATCGGTTAGAGAAGA
1 GGGGAAAAGTCTCGGTTAGAGAAGA
3658524 TAAACAAAGG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 79 1.00
ACGTcount: A:0.37, C:0.06, G:0.40, T:0.17
Consensus pattern (32 bp):
GGGGAAAAGTCTCGGTTAGAGAAGAGGAAGAA
Found at i:3658536 original size:64 final size:65
Alignment explanation
Indices: 3658418--3658559 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 65
3658408 ATAGTCTTGT
* * * * * * * *
3658418 TTAGAGAAGAAGAAGAAGGGGAAAAGTCTCGGTTAGAGAAGAGGAAGAAGGGGT-AGAGTCTCGG
1 TTAGAGAATAGGAAGAAGGGGAAAAGTATCGGTTAGAGAAGAGAAACAAAGGGTAAAAGTCTCGA
* * * *
3658482 TTAGAGAATAGGAAGAAGGGGCAGAGTATCGGTTAGAGAAGATAAACAAAGGGTAAAAGTCTTGA
1 TTAGAGAATAGGAAGAAGGGGAAAAGTATCGGTTAGAGAAGAGAAACAAAGGGTAAAAGTCTCGA
*
3658547 TCAGAGAATAGGA
1 TTAGAGAATAGGA
3658560 TGAATATTGA
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
64 45 0.70
65 19 0.30
ACGTcount: A:0.42, C:0.06, G:0.36, T:0.16
Consensus pattern (65 bp):
TTAGAGAATAGGAAGAAGGGGAAAAGTATCGGTTAGAGAAGAGAAACAAAGGGTAAAAGTCTCGA
Found at i:3658770 original size:82 final size:83
Alignment explanation
Indices: 3658642--3658817 Score: 257
Period size: 82 Copynumber: 2.1 Consensus size: 83
3658632 GGTTTTGGGA
*
3658642 TTTGGGATTTGGGATTTTAGGGAATAGAAAAAGGGGAAGGGGAAGAGTCTCGGTTAGAGAAGGGA
1 TTTGGGATTTGGGATTTTAGGGAATAGAAAAAGGGGAAGGGGAAGAGTCTCGGCTAGAGAAGGGA
* * * *
3658707 AATATATGATGAATAGTG
66 AATAGAGGATGAACAATG
*
3658725 TTTGGGATTTGGGATTTT-GGGAATAGAAGAAA-GGGAAGGGGAAGAGTCTTGGCTAGAGAAGGG
1 TTTGGGATTTGGGATTTTAGGGAATAGAA-AAAGGGGAAGGGGAAGAGTCTCGGCTAGAGAAGGG
* *
3658788 GAATAGGGGATGAACAATG
65 AAATAGAGGATGAACAATG
3658807 TTTGGGATTTG
1 TTTGGGATTTG
3658818 TTGGGAAAAG
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
82 63 0.75
83 21 0.25
ACGTcount: A:0.32, C:0.03, G:0.39, T:0.26
Consensus pattern (83 bp):
TTTGGGATTTGGGATTTTAGGGAATAGAAAAAGGGGAAGGGGAAGAGTCTCGGCTAGAGAAGGGA
AATAGAGGATGAACAATG
Done.