Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold547
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: 184368
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:351 original size:14 final size:14
Alignment explanation
Indices: 332--361 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
322 CCGCGCCGGG
332 CCTCCCCTCCCTCC
1 CCTCCCCTCCCTCC
346 CCTCCCCTCCCTCC
1 CCTCCCCTCCCTCC
360 CC
1 CC
362 CCCTCCGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (14 bp):
CCTCCCCTCCCTCC
Found at i:5692 original size:29 final size:29
Alignment explanation
Indices: 5645--5700 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
5635 TCGTGTATAT
*
5645 ATATATATTTCATGATTAAAATTTTTTTA
1 ATATATATTTAATGATTAAAATTTTTTTA
*
5674 ATATATATTTAATGGTTAAAATTTTTT
1 ATATATATTTAATGATTAAAATTTTTT
5701 ATATTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (29 bp):
ATATATATTTAATGATTAAAATTTTTTTA
Found at i:8218 original size:2 final size:2
Alignment explanation
Indices: 8211--8271 Score: 65
Period size: 2 Copynumber: 32.0 Consensus size: 2
8201 ATATACTGTC
* * * *
8211 AT AT AT AT AT AT AT AT GT AT AT TT AT CT AT A- AT AT AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8251 A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
8272 GAAAGCAGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13833 original size:31 final size:31
Alignment explanation
Indices: 13795--13858 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
13785 AGTATAAGAG
13795 ATACTCAAAATGGCATGTGGGTGCCTATTTT
1 ATACTCAAAATGGCATGTGGGTGCCTATTTT
*
13826 ATACTCAAAATGGCATGTGGGTGCCTGTTTT
1 ATACTCAAAATGGCATGTGGGTGCCTATTTT
13857 AT
1 AT
13859 GGAAATGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (31 bp):
ATACTCAAAATGGCATGTGGGTGCCTATTTT
Found at i:15733 original size:79 final size:77
Alignment explanation
Indices: 15641--16042 Score: 502
Period size: 79 Copynumber: 5.1 Consensus size: 77
15631 TACCCTTTCA
* * * * *
15641 AAAATAACGGGGTTAGAGTATCCCCGATTGTAAAAAATTGGTGTTTTAGAAATAAGACTTGGATT
1 AAAATAAC-GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAAC-CGGGTT
15706 GGAGTATCCCCTCG
64 GGAGTATCCCCTCG
* *
15720 AAAATAATCGGGTTGAAGTATCCCCAATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGAGGTT
1 AAAATAA-CGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCG-GGTT
* *
15785 GGAGTATCCTCTCA
64 GGAGTATCCCCTCG
15799 AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTT
1 AAAATAAC-GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACC-GGGTT
15864 GGAGTATCCCCTCG
64 GGAGTATCCCCTCG
* * *
15878 AAAATAAAGGGGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTT-GAAAATAAAACCGAGGT
1 AAAAT-AACGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAG-AAATAAAACCG-GGT
*
15942 TGGAGTATCCCTTC-
63 TGGAGTATCCCCTCG
* * * * *
15956 AGAAATAACGGGATTGGAGTATCCTCGATTGTAAAAAATTAGTGTTTTGGGAATAAAACCGGGGT
1 A-AAATAACGGG-TTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACC-GGGT
*
16021 TAGAGTATCCCCTCG
63 TGGAGTATCCCCTCG
*
16036 GAAATAA
1 AAAATAA
16043 AAACATGAAT
Statistics
Matches: 286, Mismatches: 25, Indels: 24
0.85 0.07 0.07
Matches are distributed among these distances:
78 10 0.03
79 270 0.94
80 6 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (77 bp):
AAAATAACGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGTTGG
AGTATCCCCTCG
Found at i:15825 original size:158 final size:158
Alignment explanation
Indices: 15627--16043 Score: 622
Period size: 158 Copynumber: 2.6 Consensus size: 158
15617 AAATAGGGTC
* * *
15627 GGAGTACCCTTTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTAAAAAATTGGTGTTTTAGAA
1 GGAGTATCCTCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTAGAA
* ** * *
15692 ATAAGACTTGGATTGGAGTATCCCCTCGAAAATAATCGGGTTGAAGTATCCCCAATTGTGAAAAA
66 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAACGGGTTGAAGTATCCCCAATTGTGAAAAA
*
15757 TTGGTGTTTT-AGAAATAAAACCGAGGTT
131 TTAGTGTTTTGA-AAATAAAACCGAGGTT
*
15785 GGAGTATCCTCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAA
1 GGAGTATCCTCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTAGAA
* *
15850 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCAATTGTGAAAAA
66 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAACGGGTTGAAGTATCCCCAATTGTGAAAAA
15915 TTAGTGTTTTGAAAATAAAACCGAGGTT
131 TTAGTGTTTTGAAAATAAAACCGAGGTT
* * * * * *
15943 GGAGTATCC-CTTCAGAAATAACGGGATTGGAGTATCCTCGATTGTAAAAAATTAGTGTTTTGGG
1 GGAGTATCCTC-TCAAAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTAGA
* *
16007 AATAAAACCGGGGTTAGAGTATCCCCTCGGAAATAAA
65 AATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAA
16044 AACATGAATA
Statistics
Matches: 236, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
157 1 0.00
158 234 0.99
159 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (158 bp):
GGAGTATCCTCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTAGAA
ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAACGGGTTGAAGTATCCCCAATTGTGAAAAA
TTAGTGTTTTGAAAATAAAACCGAGGTT
Found at i:18449 original size:50 final size:50
Alignment explanation
Indices: 18393--18527 Score: 191
Period size: 50 Copynumber: 2.7 Consensus size: 50
18383 AAAAATGCCT
* *
18393 GAATGTATCGATACATTGAAAAATGTATTGATACATTTGGGTAAAACCCA
1 GAATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAACCCA
* * * *
18443 GAATGTATTGATACAATGAATAATGTATGGATACATCTGGGTAAAACCCA
1 GAATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAACCCA
*
18493 GAATGTATCGATACAATT-AACAATGTATCGATACA
1 GAATGTATCGATAC-ATTGAAAAATGTATCGATACA
18528 AATTATGTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
50 73 0.97
51 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.29
Consensus pattern (50 bp):
GAATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAACCCA
Found at i:22329 original size:13 final size:13
Alignment explanation
Indices: 22311--22336 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22301 TACACCAAGT
22311 ATGTATCGATACA
1 ATGTATCGATACA
22324 ATGTATCGATACA
1 ATGTATCGATACA
22337 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:22334 original size:32 final size:33
Alignment explanation
Indices: 22293--22356 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
22283 TAGCCAAACT
**
22293 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
22325 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
22357 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:26423 original size:15 final size:15
Alignment explanation
Indices: 26403--26433 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26393 GCAAGATGTC
*
26403 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
26418 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
26433 C
1 C
26434 CATACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:30173 original size:30 final size:31
Alignment explanation
Indices: 30137--30206 Score: 115
Period size: 30 Copynumber: 2.3 Consensus size: 31
30127 ATACCTTTTA
30137 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
*
30167 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
*
30198 AAAGCCCAC
1 AAAGTCCAC
30207 AACTTCGTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
30 27 0.73
31 10 0.27
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:30365 original size:33 final size:33
Alignment explanation
Indices: 30167--30873 Score: 645
Period size: 34 Copynumber: 20.8 Consensus size: 33
30157 ATTTTGTCTC
* * * * *
30167 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
30198 AAAGCCCACAACTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
30230 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
30263 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
30299 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
*
30332 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
30365 AAAGCCCACAACTCTGTGGCACACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTTC-T-TTT
* *
30402 AAA-TCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
30434 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
* *
30470 -AAGTCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTT
*
30504 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
30540 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
*
30575 AAAGCCCACAACTCCGTGGCACTTTTTTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC---CTTTTT--C-TTTT
* *
30614 AAAGCCCACAACTCCGTGGCACTTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC---CTTTTTCTTTT
30650 -AAGCCCACAACTCCGTGGCACC-----CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
30677 -AAGTCCACGACTCCGTGGCA-CTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTT
* * *
30709 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
* *
30743 -AAGCCCATAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTT
30777 -AAGCCCACAACTCCGTGGCACTCTTTTTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C---TTTTT-C-TTTT
* *
30815 AAAGCCCACAACTCTGTGGCACCTTGTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* ** * *
30848 TAAGTTCACAACTTCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
30874 CACCCTCTCT
Statistics
Matches: 576, Mismatches: 59, Indels: 80
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.00
27 22 0.04
31 22 0.04
32 32 0.06
33 104 0.18
34 187 0.32
35 72 0.12
36 36 0.06
37 41 0.07
38 4 0.01
39 55 0.10
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.35
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:30684 original size:27 final size:27
Alignment explanation
Indices: 30644--30703 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
30634 ACTTTCTTTT
*
30644 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
* *
30671 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
30698 TCTTTT
1 CCTTTT
30704 CCTTTAAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.38, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:30730 original size:274 final size:270
Alignment explanation
Indices: 30165--30874 Score: 801
Period size: 274 Copynumber: 2.6 Consensus size: 270
30155 GCATTTTGTC
* * * *
30165 TCAAAGTCCACGACT-CAGTGGCA-T-TTTTTCTTCAAAGCCCACAACT-TCGTGGCACC-TTTT
1 TCAAAGCCCACAACTAC-GTGGCACTCTTTTCCTTCTAAGCCCACAACTCT-GTGGCACCTTTTT
* * *
30225 CCTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTTTCAAAGCCCACAACTCCGTGGCACTT
64 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCT
*
30288 TTTTCATCTTTAAGTCCACAACTCCGTGGCAC---CTTTTTCTTTTTAAAGCCCACAACTCCGTG
129 TTTTC-TTTTTAAGTCCACAACTCCGTGGCACTTTCTTTTTCTTTTTAAAGCCCACAACTCCGTG
*
30350 GCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTTTCATCTTTAAATCCACAACTC
193 GCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACAC-----TCATCTTTAAATCCACAACTC
*
30415 CGTGGCACCTTCTTCTTT
253 CGTGGCACCTTCTTCCTT
* * *
30433 TCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTT-TAAGTCCACAACTCTGTGGCACACTTTT
1 TCAAAGCCCACAACTACGTGGCACTCTTTTC--CTTCTAAGCCCACAACTCTGTGGCAC-CTTTT
*
30497 TCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA
63 TC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCA
* *
30562 CCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTTTTTTTTTCCCTTTTTAAAGCCCACAACT
126 CCTTTTTCTTTTT-AAGTCCACAACTCCGTGGCACTTTCTTTTT--CTTTTTAAAGCCCACAACT
* * * *
30627 CCGTGGCACTTTCTT-TTCCTTCTAAGCCCACAACTCCGTGGCAC-C-C-T-TTTAAGTCCACGA
188 CCGTGGCACCTTCTTCTT--TT-AAAGCCCACAACTCCGTGGCACACTCATCTTTAAATCCACAA
30687 CTCCGTGGCACTCTT-TTCCTT
250 CTCCGTGGCAC-CTTCTTCCTT
* *
30708 T-AAAGCCCACAACTACGTGGCACTCTTTTCCTTCTAAGCCCATAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCTGTGGCAC-CTTTTT-
* * *
30772 CTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCA
64 CTTTTAAAGCCCACAACTCCGTGGCACTC---TTTTTCCTTTTCAAAGCCCACAACTCCGTGGCA
* * *
30836 CCTTGTTCTTTTTAAGTTCACAACTTCGTGGCATCTTTC
126 CCTTTTTCTTTTTAAGTCCACAACTCCGTGGCA-CTTTC
30875 ACCCTCTCTA
Statistics
Matches: 381, Mismatches: 33, Indels: 50
0.82 0.07 0.11
Matches are distributed among these distances:
268 19 0.05
269 2 0.01
270 4 0.01
271 18 0.05
272 30 0.08
273 50 0.13
274 94 0.25
275 38 0.10
276 8 0.02
277 55 0.14
280 5 0.01
281 2 0.01
282 33 0.09
283 3 0.01
284 20 0.05
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (270 bp):
TCAAAGCCCACAACTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCTGTGGCACCTTTTTCT
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
TTCTTTTTAAGTCCACAACTCCGTGGCACTTTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA
CCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACACTCATCTTTAAATCCACAACTCCGTGGCAC
CTTCTTCCTT
Found at i:30815 original size:311 final size:301
Alignment explanation
Indices: 30198--30868 Score: 797
Period size: 311 Copynumber: 2.2 Consensus size: 301
30188 TTTTTTCTTC
30198 AAAGCCCACAACT-TCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 AAAGCCCACAACTCT-GTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
*
30262 TCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTC
65 TCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGCCCACAACTCCGTGGCACCTTTTTC
* * * *
30327 TTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACACTTT
130 CTTCTAAAGCCCACAACTCCGTGGCACC-TC-TCTTTTAAAGCCCACAACTCCGTGG-ACACTCT
* * *
30392 TTTCATCTTTAAATCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCAC
192 TTTCA-CTTTAAACCCACAACTACGTGGCACCTTCTTCTCTTCAAAGCCCACAACTCCGTGGCAC
* *
30457 TTTTTTCATCTTTAAGTCCACAACTCTGTGGCACACTTTTTCTTTTT
256 TTTTTTCA-CTTTAAGCCCACAACTCCGTGGCACACTTTTTCTTTTT
*
30504 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCTGTGGCAC-C-TTTT-CC-TTT-AAAGCCCACAACTCCGTGGCACCTTCTT
* * *
30569 CTTTTTAAAGCCCACAACTCCGTGGCACTTTTTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGC
61 CTTTTCAAAGCCCACAACTCCGTGGCAC---TTTTTT-CATCTTT-AAGCCCACAACTCCGTGGC
* * *
30634 ACTTTCTTTTCCTTCT-AAGCCCACAACTCCGTGGCA-C-C-CTTTT-AAGTCCACGACTCCGTG
121 AC-CT-TTTTCCTTCTAAAGCCCACAACTCCGTGGCACCTCTCTTTTAAAGCCCACAACTCCGTG
* *
30694 G-CACTCTTTTC-CTTTAAAGCCCACAACTACGTGGCACTCTT-TTC-CTTCTAAGCCCATAACT
184 GACACTCTTTTCACTTTAAA-CCCACAACTACGTGGCAC-CTTCTTCTCTTCAAAGCCCACAACT
*
30755 CCGTGGCACTCTTTTTC-CTTCTAAGCCCACAACTCCGTGGCACTCTTTTTTTTCCTTTTT
247 CCGTGGCACT-TTTTTCACTT-TAAGCCCACAACTCCGTGGCACAC---TTTTT-CTTTTT
* * ** *
30815 AAAGCCCACAACTCTGTGGCACCTTGTTCTTTTTAAGTTCACAACTTCGTGGCA
1 AAAGCCCACAACTCTGTGGCACCTT-TTCCTTTAAAGCCCACAACTCCGTGGCA
30869 TCTTTCACCC
Statistics
Matches: 318, Mismatches: 25, Indels: 43
0.82 0.06 0.11
Matches are distributed among these distances:
306 23 0.07
307 71 0.22
308 32 0.10
309 17 0.05
310 11 0.03
311 97 0.31
312 5 0.02
314 7 0.02
315 5 0.02
316 21 0.07
317 21 0.07
318 8 0.03
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (301 bp):
AAAGCCCACAACTCTGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGCCCACAACTCCGTGGCACCTTTTTCC
TTCTAAAGCCCACAACTCCGTGGCACCTCTCTTTTAAAGCCCACAACTCCGTGGACACTCTTTTC
ACTTTAAACCCACAACTACGTGGCACCTTCTTCTCTTCAAAGCCCACAACTCCGTGGCACTTTTT
TCACTTTAAGCCCACAACTCCGTGGCACACTTTTTCTTTTT
Found at i:30978 original size:49 final size:49
Alignment explanation
Indices: 30909--31726 Score: 1161
Period size: 49 Copynumber: 17.0 Consensus size: 49
30899 CGGTGGCAAC
* * *
30909 TCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * *
30959 TCTTTAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
31008 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
31057 TCTTTAAGTCTAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
31101 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
31149 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
31198 TCTTTAAGTCCAATGTAGCGGGCCTTGAATCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
31247 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
31291 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
31339 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
31388 TCTTTAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
31437 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * * *
31486 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
31535 TCTTTAAGTCCAAGGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
31583 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
31627 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--A
* *
31678 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
31727 TTCTCATCTT
Statistics
Matches: 693, Mismatches: 53, Indels: 42
0.88 0.07 0.05
Matches are distributed among these distances:
43 117 0.17
44 3 0.00
47 1 0.00
48 47 0.07
49 478 0.69
50 4 0.01
52 41 0.06
53 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
Found at i:31242 original size:190 final size:190
Alignment explanation
Indices: 30914--31673 Score: 1273
Period size: 190 Copynumber: 4.0 Consensus size: 190
30904 GCAACTCTTC
* *
30914 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
30979 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
31044 ATTGGCACCTTTATCTTTAAGTCTAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
131 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
31104 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
31169 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCGGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
31234 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
131 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
31294 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
31359 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAGTGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
31424 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCA
131 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-T-----
31489 T
190 T
* *
31490 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAGGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
31555 GGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* * *
31619 ATTGGCA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
131 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
31673 T
1 T
31674 TCCATCTTTA
Statistics
Matches: 546, Mismatches: 18, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
183 2 0.00
188 1 0.00
189 41 0.08
190 368 0.67
191 1 0.00
194 1 0.00
195 44 0.08
196 88 0.16
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (190 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
Found at i:31705 original size:52 final size:53
Alignment explanation
Indices: 31627--31780 Score: 186
Period size: 52 Copynumber: 2.9 Consensus size: 53
31617 ACATTGGCAC
31627 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
31679 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
31734 CTTTAAG-CCTAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
31781 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 7 0.08
55 35 0.41
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:32684 original size:33 final size:33
Alignment explanation
Indices: 32647--32713 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
32637 TTTAACGATT
32647 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
32680 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
32713 T
1 T
32714 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:32685 original size:13 final size:13
Alignment explanation
Indices: 32667--32691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32657 CATAAAATGT
32667 TGTATCGATACAA
1 TGTATCGATACAA
32680 TGTATCGATACA
1 TGTATCGATACA
32692 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:32772 original size:13 final size:13
Alignment explanation
Indices: 32754--32778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32744 ATTACTCAAA
32754 TGTATCGATACAT
1 TGTATCGATACAT
32767 TGTATCGATACA
1 TGTATCGATACA
32779 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:32843 original size:52 final size:52
Alignment explanation
Indices: 32787--32906 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
32777 CACCGATCTT
* *
32787 TGTATCGATACATGCAGGCAAATTTGCCCAGATGCATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGCATCGATACACTATAAAA
* *
32839 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGCATCGATACACTATAAAA
*
32891 TATATCGATACATGCA
1 TGTATCGATACATGCA
32907 AGTAACTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGCATCGATACACTATAAAA
Found at i:39819 original size:15 final size:15
Alignment explanation
Indices: 39795--39832 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
39785 AGTCAAAAGT
*
39795 AAACACAAAAAACAA
1 AAACAAAAAAAACAA
39810 AAACAAAAAAAAACAA
1 AAAC-AAAAAAAACAA
39826 AAA-AAAA
1 AAACAAAA
39833 GTGCAAAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 4 0.19
16 13 0.62
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACAAAAAAAACAA
Found at i:39822 original size:16 final size:15
Alignment explanation
Indices: 39801--39832 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
39791 AAGTAAACAC
39801 AAAAAACAAAAACAAA
1 AAAAAACAAAAA-AAA
39817 AAAAAACAAAAAAAA
1 AAAAAACAAAAAAAA
39832 A
1 A
39833 GTGCAAAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAA
Found at i:39823 original size:10 final size:10
Alignment explanation
Indices: 39803--39832 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
39793 GTAAACACAA
39803 AAAACAAAAAC
1 AAAA-AAAAAC
39814 AAAAAAAAAC
1 AAAAAAAAAC
39824 AAAAAAAAA
1 AAAAAAAAA
39833 GTGCAAAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:41031 original size:30 final size:31
Alignment explanation
Indices: 40995--41064 Score: 115
Period size: 30 Copynumber: 2.3 Consensus size: 31
40985 ATACCTTTTA
40995 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
*
41025 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
*
41056 AAAGCCCAC
1 AAAGTCCAC
41065 AACTTCGTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
30 27 0.73
31 10 0.27
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:41223 original size:33 final size:33
Alignment explanation
Indices: 41025--41765 Score: 670
Period size: 34 Copynumber: 21.8 Consensus size: 33
41015 ATTTTGTCTC
* * * * *
41025 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
41056 AAAGCCCACAACTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
41088 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
41121 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
41157 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
*
41190 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
41223 AAAGCCCACAACTCTGTGGCACACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTTC-T-TTT
* *
41260 -AAGTCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
41292 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
* * *
41328 -AAGTCCACAACTCTGTGGCACACATTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTT
*
41362 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
41398 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
*
41433 AAAGCCCACAACTCCGTGGCACTTTTTTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC---CTTTTT--C-TTTT
* *
41472 AAAGCCCACAACTCCGTGGCACTTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC---CTTTTTCTTTT
41508 -AAGCCCACAACTCCGTGGCACC-----CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
41535 -AAGTCCACGACTCCGTGGCA-CTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTT
* * *
41567 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
* *
41601 -AAGCTCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTT
*
41635 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTT
41669 -AAGCCCACAACTCCGTGGCACTCTTTTTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C---TTTTT-C-TTTT
* *
41707 AAAGCCCACAACTCTGTGGCACCTTGTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* ** * *
41740 TAAGTTCACAACTTCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
41766 CACCCTCTCT
Statistics
Matches: 608, Mismatches: 61, Indels: 80
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.00
27 22 0.04
31 22 0.04
32 32 0.05
33 101 0.17
34 224 0.37
35 70 0.12
36 39 0.06
37 38 0.06
38 4 0.01
39 55 0.09
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.34
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:41337 original size:171 final size:170
Alignment explanation
Indices: 41025--41765 Score: 771
Period size: 171 Copynumber: 4.3 Consensus size: 170
41015 ATTTTGTCTC
* * * * *
41025 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTCAAAGCCCACAACT-TCGTGGCACC-TTTTCCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCTTTTAAAGCCCACAACTCT-GTGGCACCTTTTTCCT
41086 TTAAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTT
65 TTAAAGCCCACAACTCCGTGGCACTCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTT
*
41150 CATCTT-TAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
130 C-TCTTCTAAGCCCACAACTCCGTGGCACACTTTTTCTTTTT
41190 AAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTT-TTCTTTTAAAGCCCACAACTCTGTGGCAC-C-TTTTTC
*
41254 ATCTTT-AAGTCCACAACTCCGTGGCAC-CTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTT
63 --CTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTT
* * *
41317 TTTTCATCTT-TAAGTCCACAACTCTGTGGCACACATTTTCTTTTT
126 TTTTC-TCTTCTAAGCCCACAACTCCGTGGCACACTTTTTCTTTTT
* *
41362 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTT--CTTTT-AAAGCCCACAACTCTGTGGCACCTTTTT
* * * *
41427 CTTTTTAAAGCCCACAACTCCGTGGCACTTTTTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGC
62 C-CTTTAAAGCCCACAACTCCGTGGCAC--TCTTCTT--CTTTTCAAAGCCCACAACTCCGTGGC
41492 ACTTTCTTT-TCCTTCTAAGCCCACAACTCCGTGGCAC-C-----C-TTTT
122 ACTTT-TTTCT-CTTCTAAGCCCACAACTCCGTGGCACACTTTTTCTTTTT
* * *
41535 -AAGTCCACGACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTAC-GTGGCA-CTCTTTTCC
1 AAAGCCCACAACTCCGTGGCACTCTTTTCTTTTAAAGCCCACAACT-CTGTGGCACCT-TTTTCC
* * * *
41597 TTCT-AAGCTCACAACTCCGTGGCACTCTTTTTC-CTTCTAAGCCCACAACTCCGTGGCACTCTT
64 TT-TAAAGCCCACAACTCCGTGGCACTCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACT-TT
*
41660 TTTC-CTTCTAAGCCCACAACTCCGTGGCACTCTTTTTTTTCCTTTTT
127 TTTCTCTTCTAAGCCCACAACTCCGTGGCACAC---TTTTT-CTTTTT
* * ** *
41707 AAAGCCCACAACTCTGTGGCAC-CTTGTTCTTTTTAAGTTCACAACT-TCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACTCTT-TTCTTTTAAAGCCCACAACTCT-GTGGCACCTTT
41766 CACCCTCTCT
Statistics
Matches: 497, Mismatches: 34, Indels: 82
0.81 0.06 0.13
Matches are distributed among these distances:
161 26 0.05
162 28 0.06
163 3 0.01
165 26 0.05
166 3 0.01
167 46 0.09
168 27 0.05
169 5 0.01
170 5 0.01
171 92 0.19
172 63 0.13
173 53 0.11
174 31 0.06
175 6 0.01
176 21 0.04
177 4 0.01
178 1 0.00
179 34 0.07
180 23 0.05
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.34
Consensus pattern (170 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTTTTTCCTT
TAAAGCCCACAACTCCGTGGCACTCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
TCTTCTAAGCCCACAACTCCGTGGCACACTTTTTCTTTTT
Found at i:41542 original size:27 final size:27
Alignment explanation
Indices: 41502--41561 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
41492 ACTTTCTTTT
*
41502 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
* *
41529 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
41556 TCTTTT
1 CCTTTT
41562 CCTTTAAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.38, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:41870 original size:49 final size:49
Alignment explanation
Indices: 41801--42618 Score: 1170
Period size: 49 Copynumber: 17.0 Consensus size: 49
41791 CGGTGGCAAC
* * *
41801 TCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * *
41851 TCTTTAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
41900 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
41949 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
41993 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
42041 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
42090 TCTTTAAGTCCAATGTAGCGGGCCTTGAATCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
42139 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
42183 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
42231 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
42280 TCTTTAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
42329 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * * *
42378 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
42427 TCTTTAAGTCCAAGGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
42475 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
42519 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--A
* *
42570 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
42619 TTCTCATCTT
Statistics
Matches: 695, Mismatches: 51, Indels: 42
0.88 0.06 0.05
Matches are distributed among these distances:
43 118 0.17
44 3 0.00
47 1 0.00
48 47 0.07
49 479 0.69
50 4 0.01
52 41 0.06
53 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
Found at i:42134 original size:190 final size:190
Alignment explanation
Indices: 41806--42565 Score: 1282
Period size: 190 Copynumber: 4.0 Consensus size: 190
41796 GCAACTCTTC
* *
41806 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
41871 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
41936 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
131 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
41996 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
42061 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCGGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
42126 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
131 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
42186 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
42251 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAGTGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
42316 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCA
131 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-T-----
42381 T
190 T
* *
42382 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAGGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
42447 GGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* * *
42511 ATTGGCA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
131 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
42565 T
1 T
42566 TCCATCTTTA
Statistics
Matches: 547, Mismatches: 17, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
183 2 0.00
188 1 0.00
189 41 0.07
190 369 0.67
191 1 0.00
194 1 0.00
195 44 0.08
196 88 0.16
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (190 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
Found at i:42597 original size:52 final size:53
Alignment explanation
Indices: 42519--42672 Score: 186
Period size: 52 Copynumber: 2.9 Consensus size: 53
42509 ACATTGGCAC
42519 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
42571 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
42626 CTTTAAG-CCTAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
42673 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 7 0.08
55 35 0.41
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:43576 original size:33 final size:33
Alignment explanation
Indices: 43539--43605 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
43529 TTCAACGATT
43539 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
43572 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
43605 T
1 T
43606 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:43577 original size:13 final size:13
Alignment explanation
Indices: 43559--43583 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43549 CATAAAATGT
43559 TGTATCGATACAA
1 TGTATCGATACAA
43572 TGTATCGATACA
1 TGTATCGATACA
43584 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:43664 original size:13 final size:13
Alignment explanation
Indices: 43646--43670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43636 ATTACTCAAA
43646 TGTATCGATACAT
1 TGTATCGATACAT
43659 TGTATCGATACA
1 TGTATCGATACA
43671 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:43735 original size:52 final size:52
Alignment explanation
Indices: 43679--43798 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
43669 CACCGATCTT
* *
43679 TGTATCGATACATGCAGGCAAATTTGCCCAGATGCATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGCATCGATACACTATAAAA
* *
43731 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGCATCGATACACTATAAAA
43783 TGTATCGATACATGCA
1 TGTATCGATACATGCA
43799 AGTAACTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGCATCGATACACTATAAAA
Found at i:48612 original size:13 final size:13
Alignment explanation
Indices: 48594--48619 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48584 ACATTTTTCT
48594 TTGTATCGATACA
1 TTGTATCGATACA
48607 TTGTATCGATACA
1 TTGTATCGATACA
48620 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:53126 original size:52 final size:52
Alignment explanation
Indices: 53036--53134 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
53026 GATAAGAAGA
* *
53036 ATGCCAATATGCTGATTCAAGGCTAGTGATATTGGACTTAAAGATGACAATG
1 ATGCCAATATGCTGATCCAAGGCTAGTGATATTAGACTTAAAGATGACAATG
* * *
53088 ATGCTAATGTGCTGATCCAAGGCTAGTGATATTAGACTTAAATATGA
1 ATGCCAATATGCTGATCCAAGGCTAGTGATATTAGACTTAAAGATGA
53135 GAAAAATGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (52 bp):
ATGCCAATATGCTGATCCAAGGCTAGTGATATTAGACTTAAAGATGACAATG
Found at i:53284 original size:32 final size:33
Alignment explanation
Indices: 53197--53532 Score: 148
Period size: 32 Copynumber: 10.9 Consensus size: 33
53187 TAGAAGGAGA
**
53197 TGCCACCAACTTGTGTGGGCTTTAGAGGGGAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGA-GAAAGGT
* * * * * *
53231 TGCCATCAGCTTTTATAGGCTTTAGAGCAAGG-
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAAGGT
*
53263 TGCCACCAACCTGTGTGGGCTTTAGA-AAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAAGGT
*
53295 TGCCACCAACTTGTGTGGGCTTT--AG-AAGGA
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAAGGT
** *
53325 TGCCACTGAC-T-TGTGGACTTT-GA-AAAGG-
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAAGGT
** * *
53353 TGCCACTGAC-T-TATGGGCTTT---GAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAAGGT
* * *
53381 TGCCACTAAC-T-TATGGGCTTT---GAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAAGGT
** * * ***
53409 TGCCACTGA-TT-TGTGAGCTTT-GAAAAATAAA
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAA-GGT
* **
53440 TGCCACCAACTTGTGTGGGCTTTAAAG-GTGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAAGGT
* *
53472 TGCCACCGACTTGTGTGGACTTT-G-GAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAA-GGT
* * *
53504 TACCATCGACTTGTGTGGGCTTTAGAGAA
1 TGCCACCAACTTGTGTGGGCTTTAGAGAA
53533 GAGTGCCATT
Statistics
Matches: 238, Mismatches: 47, Indels: 34
0.75 0.15 0.11
Matches are distributed among these distances:
27 5 0.02
28 72 0.30
29 6 0.03
30 17 0.07
31 11 0.05
32 88 0.37
33 14 0.06
34 25 0.11
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (33 bp):
TGCCACCAACTTGTGTGGGCTTTAGAGAAAGGT
Found at i:53356 original size:28 final size:28
Alignment explanation
Indices: 53276--53434 Score: 167
Period size: 28 Copynumber: 5.5 Consensus size: 28
53266 CACCAACCTG
**
53276 TGTGGGCTTTAGAAAAGGTTGCCACCAACTT
1 TGTGGGCTTT-GAAAAGG-TGCCACTGAC-T
*
53307 GTGTGGGCTTT-AGAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
53336 TGTGGACTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
53364 TATGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
53392 TATGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
53420 TGTGAGCTTTGAAAA
1 TGTGGGCTTTGAAAA
53435 ATAAATGCCA
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
28 82 0.74
29 6 0.05
30 13 0.12
32 10 0.09
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:53602 original size:27 final size:27
Alignment explanation
Indices: 53558--53783 Score: 263
Period size: 27 Copynumber: 8.1 Consensus size: 27
53548 GTGGGCTTTG
* *
53558 AAAGGGTGCCATGGAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
53585 AAATGATGCCATGGAGTTGTAGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
53612 AAAGGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
53639 AAAGGGTGCCACGAAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
53666 AAAGGGTGCCACGGAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
53693 AAAGGATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
53720 AAAAGGTGCCATGGAGTTGTGGACTTTAACAGAA
1 AAAGGGTGCCACGGAGTTGTGGAC-TT------A
*
53754 AAAGGTTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
53781 AAA
1 AAA
53784 AGGAATGCCA
Statistics
Matches: 171, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
27 145 0.85
28 2 0.01
33 2 0.01
34 22 0.13
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (27 bp):
AAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:54843 original size:14 final size:14
Alignment explanation
Indices: 54824--54853 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54814 TAAGGTGGAA
54824 TTTTTCTCTTCTTT
1 TTTTTCTCTTCTTT
*
54838 TTTTTCTTTTCTTT
1 TTTTTCTCTTCTTT
54852 TT
1 TT
54854 ATGATCAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTCTTCTTT
Found at i:56319 original size:97 final size:97
Alignment explanation
Indices: 56198--56438 Score: 385
Period size: 97 Copynumber: 2.5 Consensus size: 97
56188 AATTTTATTT
* * * * *
56198 ATCGGGGATACTCCAACC-CTATTCCTCCGAGGGGATACTCCAACCTCGTTTTTAAACTCGTCAA
1 ATCGGGGACACTCCAACCTC-ATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
56262 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
65 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
* *
56295 ATCGGGGACACTTCAACTTCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCTCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
* *
56360 GTTTAAATTTTATTCTTACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
56392 ATCGGGGACACTCCAACCTCATTCCTCCGAGGGGATACTCCAACCCC
1 ATCGGGGACACTCCAACCTCATTCCTCCGAGGGGATACTCCAACCCC
56439 ATTTTTCAAT
Statistics
Matches: 132, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
97 131 0.99
98 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (97 bp):
ATCGGGGACACTCCAACCTCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTGTCATC
Found at i:60179 original size:2 final size:2
Alignment explanation
Indices: 60172--60201 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
60162 GCACTAGATG
60172 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
60202 AAGCATTTAA
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):
TA
Found at i:64516 original size:48 final size:48
Alignment explanation
Indices: 64446--64604 Score: 203
Period size: 48 Copynumber: 3.3 Consensus size: 48
64436 TAGGTTTAAT
* * * *
64446 TATTCAAATCA-TTTCGGATTTGGATCATTTTGACTTTGGATAATTTTG
1 TATTCAAATCATTTTAGG-TTTGGGTCATTTCGACTTTAGATAATTTTG
* *
64494 TATTCAAGTCATTTTAGGTTTGGGTCATTTCGATTTTAGATAATTTTG
1 TATTCAAATCATTTTAGGTTTGGGTCATTTCGACTTTAGATAATTTTG
* * *
64542 TGTTCAATTCATTTTAGGTTTGGGTCATTTCGACTTTCGATAATTTTG
1 TATTCAAATCATTTTAGGTTTGGGTCATTTCGACTTTAGATAATTTTG
* *
64590 TGTTTAAATCATTTT
1 TATTCAAATCATTTT
64605 GGATTTAGGC
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
48 93 0.95
49 5 0.05
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (48 bp):
TATTCAAATCATTTTAGGTTTGGGTCATTTCGACTTTAGATAATTTTG
Found at i:65490 original size:13 final size:13
Alignment explanation
Indices: 65472--65507 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
65462 TTTTTATTTT
65472 TTTAATATATAAA
1 TTTAATATATAAA
* *
65485 TTTAATATTTATA
1 TTTAATATATAAA
65498 TTTAATATAT
1 TTTAATATAT
65508 TATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAATATATAAA
Found at i:65507 original size:15 final size:15
Alignment explanation
Indices: 65474--65518 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 15
65464 TTTATTTTTT
*
65474 TAATATA-TAAATT-
1 TAATATATTATATTA
65487 TAATAT-TTATATT-
1 TAATATATTATATTA
65500 TAATATATTATATTA
1 TAATATATTATATTA
65515 TAAT
1 TAAT
65519 TTTTTAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 17 0.61
14 7 0.25
15 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATATATTATATTA
Found at i:66550 original size:15 final size:15
Alignment explanation
Indices: 66527--66570 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
66517 TATTTTTTCT
66527 AATTT-ATTTTTTAA
1 AATTTAATTTTTTAA
* *
66541 AATTTAATTTTTGAT
1 AATTTAATTTTTTAA
66556 AATTTAATATTTTTA
1 AATTTAAT-TTTTTA
66571 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 5 0.20
15 15 0.60
16 5 0.20
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
AATTTAATTTTTTAA
Found at i:67868 original size:63 final size:63
Alignment explanation
Indices: 67743--67868 Score: 137
Period size: 63 Copynumber: 2.0 Consensus size: 63
67733 CGTTTATTCT
* * *** * *
67743 AGCCTTAACCTTTTTTAAAGTTCAATTGCAAGTATTTTTTAGGATCGTTTATTTGCCTTTTTA
1 AGCCTTAACCTTTTTCAAAGTTCAATAGCAAGTATTTTTTAGGATCGGCCATTAGCCATTTTA
** * *
67806 AGCCTTAACCTTTTTCAAAGTTCAATAGTGAGTCTTTTTTAGGATTGGCCATCTAG-CATTTTA
1 AGCCTTAACCTTTTTCAAAGTTCAATAGCAAGTATTTTTTAGGATCGGCCAT-TAGCCATTTTA
67869 TGCACCTACC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
63 49 0.96
64 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (63 bp):
AGCCTTAACCTTTTTCAAAGTTCAATAGCAAGTATTTTTTAGGATCGGCCATTAGCCATTTTA
Found at i:67912 original size:17 final size:17
Alignment explanation
Indices: 67892--67976 Score: 91
Period size: 17 Copynumber: 5.0 Consensus size: 17
67882 TTTAGGCCCT
67892 TAGCCTTTTTAAGCATC
1 TAGCCTTTTTAAGCATC
* * *
67909 TAGCCTTTTCAAGTACC
1 TAGCCTTTTTAAGCATC
* *
67926 TAGCCTTTTTAGGCACC
1 TAGCCTTTTTAAGCATC
*
67943 TAG-CTTTTTCAGGCATC
1 TAGCCTTTTT-AAGCATC
*
67960 TAGCCTTTTCAAGCATC
1 TAGCCTTTTTAAGCATC
67977 ACCACGTCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
16 6 0.11
17 46 0.81
18 5 0.09
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (17 bp):
TAGCCTTTTTAAGCATC
Found at i:67930 original size:34 final size:34
Alignment explanation
Indices: 67892--67976 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
67882 TTTAGGCCCT
*
67892 TAGCCTTTTTAAGCATCTAGCCTTTTCAAGTACC
1 TAGCCTTTTTAAGCATCTAGCCTTTTCAAGCACC
* * * * *
67926 TAGCCTTTTTAGGCACCTAGCTTTTTCAGGCATC
1 TAGCCTTTTTAAGCATCTAGCCTTTTCAAGCACC
*
67960 TAGCCTTTTCAAGCATC
1 TAGCCTTTTTAAGCATC
67977 ACCACGTCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (34 bp):
TAGCCTTTTTAAGCATCTAGCCTTTTCAAGCACC
Found at i:67937 original size:51 final size:51
Alignment explanation
Indices: 67855--67974 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 51
67845 TAGGATTGGC
* *
67855 CATCTAGCATTTT-ATGCACCTACCTTCTTTAGGC-CCTTAGCCTTTTT-AAG
1 CATCTAGCCTTTTCAAGCACCTACCTTCTTTAGGCACC-TAG-CTTTTTCAAG
* *
67905 CATCTAGCCTTTTCAAGTACCTAGCCTT-TTTAGGCACCTAGCTTTTTCAGG
1 CATCTAGCCTTTTCAAGCACCTA-CCTTCTTTAGGCACCTAGCTTTTTCAAG
67956 CATCTAGCCTTTTCAAGCA
1 CATCTAGCCTTTTCAAGCA
67975 TCACCACGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
50 18 0.30
51 37 0.61
52 6 0.10
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (51 bp):
CATCTAGCCTTTTCAAGCACCTACCTTCTTTAGGCACCTAGCTTTTTCAAG
Found at i:70059 original size:2 final size:2
Alignment explanation
Indices: 70052--70092 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
70042 TTAAAAACAT
70052 TA TA TA TA 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 TA TA TA TA T
70093 TCTAAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:72334 original size:20 final size:21
Alignment explanation
Indices: 72309--72362 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
72299 CATTTTAGGC
72309 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTGT
72329 ATGTATCGATACATTCACTGT
1 ATGTATCGATACATTCACTGT
* *
72350 TTATATCGATACA
1 ATGTATCGATACA
72363 AATTGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTCACTGT
Found at i:73563 original size:15 final size:16
Alignment explanation
Indices: 73543--73572 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
73533 TTTATAATAT
73543 TTACAT-AATTTTAAG
1 TTACATCAATTTTAAG
73558 TTACATCAATTTTAA
1 TTACATCAATTTTAA
73573 CCAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (16 bp):
TTACATCAATTTTAAG
Found at i:82489 original size:122 final size:124
Alignment explanation
Indices: 82254--82615 Score: 387
Period size: 122 Copynumber: 2.9 Consensus size: 124
82244 ATCGGTGTTC
* *
82254 TAGAAATAAAAATCGAAGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTAT
1 TAGAAAT-AAAATCGAGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATTAT
* * * * * * *
82319 AAAAAATCGATATTTTGAAAATAAAATCAGAGTTAGAGTATCCCCGATTGTG-GAAA-A-T
64 AAAAAATTGGTGTTTTGGAAATAAAACCAGAGTTAGAATATCCCCGATTGTGAAAAATATT
* * *
82377 TAGTAATAAAGTCG-GGATTGGAGTATCCCCTC-AGAAATAACTGGGTTGGAGTATCCCCGATTG
1 TAGAAATAAAATCGAGG-TTGGAGTATCCCCTCGA-AAATAAC-GGGTTGGAGTATCCCCGATTA
* * * *
82440 TGAGAAATTGGTGTTTTGGAAATAAAACCGGAGTT-GTAATATCTCCGATTGTGAAAAATTGGTA
63 TAAAAAATTGGTGTTTTGGAAATAAAACCAGAGTTAG-AATATCCCCGATTGTGAAAAA----TA
82504 TTT
123 -TT
82507 TAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATA
1 TAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGG-TTGGAGTATCCCCGATTATA
* * *
82572 AAAAATTGGTGTTTTGGGAATAAAATC-GAGGTTAGAGTATCCCC
65 AAAAATTGGTGTTTTGGAAATAAAACCAGA-GTTAGAATATCCCC
82616 TCGAAAATAA
Statistics
Matches: 197, Mismatches: 26, Indels: 25
0.79 0.10 0.10
Matches are distributed among these distances:
121 3 0.02
122 88 0.45
123 9 0.05
128 1 0.01
129 5 0.03
130 87 0.44
131 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (124 bp):
TAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGTTGGAGTATCCCCGATTATAA
AAAATTGGTGTTTTGGAAATAAAACCAGAGTTAGAATATCCCCGATTGTGAAAAATATT
Found at i:82615 original size:79 final size:79
Alignment explanation
Indices: 82479--82646 Score: 273
Period size: 79 Copynumber: 2.1 Consensus size: 79
82469 GGAGTTGTAA
* * * *
82479 TATCTCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAA
1 TATCCCCGATTATAAAAAATTGGTATTTTAGAAATAAAATCGAGGTTAGAGTATCCCCTCGAAAA
82544 TAACGGGATTGGAG
66 TAACGGGATTGGAG
* * *
82558 TATCCCCGATTATAAAAAATTGGTGTTTTGGGAATAAAATCGAGGTTAGAGTATCCCCTCGAAAA
1 TATCCCCGATTATAAAAAATTGGTATTTTAGAAATAAAATCGAGGTTAGAGTATCCCCTCGAAAA
82623 TAACGGGATTGGAG
66 TAACGGGATTGGAG
82637 TATCCCCGAT
1 TATCCCCGAT
82647 GACATAACGG
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (79 bp):
TATCCCCGATTATAAAAAATTGGTATTTTAGAAATAAAATCGAGGTTAGAGTATCCCCTCGAAAA
TAACGGGATTGGAG
Found at i:82656 original size:107 final size:106
Alignment explanation
Indices: 82524--82811 Score: 332
Period size: 107 Copynumber: 2.7 Consensus size: 106
82514 AAAATCGAGG
* ** *
82524 TTGGAGTATCCCC--TCGAAAATAACGGGATTGGAGTATCCCCGATTATAAAAAATTGGTGTTTT
1 TTGGAGTATCCCCAAT-G-AAATAACGGG-TTGGAGTACCCCCGATTATAAAAAATTAATATTTT
*
82587 GGGA-ATAAAATC-GAGGTTAGAGTATCCCCTCGAAAATAACGGGA
63 -AGATATAAAATCAG-GGTTAGAGTATCCCCTCGAAAATAACGGGA
* * *
82631 TTGGAGTATCCCCGATGACATAACGGGGTTGGAGTACCCCCGATTATTAAAAATTAATATTTTAG
1 TTGGAGTATCCCCAATGAAATAAC-GGGTTGGAGTACCCCCGATTATAAAAAATTAATATTTTAG
* ** *
82696 ATATAAAATCAGGGTTGGAGTATCCTTTCGAAAATAACGGGG
65 ATATAAAATCAGGGTTAGAGTATCCCCTCGAAAATAACGGGA
** *
82738 TTGGAGTATCCCCAATGAAATAACAGGGTTGGAGTACCCCCGATTATGAAAAAAACAACATTTTT
1 TTGGAGTATCCCCAATGAAATAAC-GGGTTGGAGTACCCCCGATTAT-AAAAAATTAATA-TTTT
82803 AGATATAAA
63 AGATATAAA
82812 GCTGAGGTTG
Statistics
Matches: 156, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
106 2 0.01
107 127 0.81
108 13 0.08
109 14 0.09
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (106 bp):
TTGGAGTATCCCCAATGAAATAACGGGTTGGAGTACCCCCGATTATAAAAAATTAATATTTTAGA
TATAAAATCAGGGTTAGAGTATCCCCTCGAAAATAACGGGA
Found at i:85144 original size:20 final size:20
Alignment explanation
Indices: 85119--85193 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
85109 AAAATGCCTG
*
85119 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGCAA
* * *
85139 AATGTATCGATACA-AGGAGC
1 AATGTATCGATACATTGCA-A
*
85159 AATGTATCGATACAATGCAA
1 AATGTATCGATACATTGCAA
85179 AATGTATCGATACAT
1 AATGTATCGATACAT
85194 CTAGGTAAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.91
21 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:85244 original size:20 final size:20
Alignment explanation
Indices: 85219--85275 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
85209 ATGTATCGAT
*
85219 ACAATGTATCTATACAATGA
1 ACAATGTATCGATACAATGA
85239 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
85259 ACAATGTATCGAGACAA
1 ACAATGTATCGATACAA
85276 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:85257 original size:13 final size:13
Alignment explanation
Indices: 85208--85237 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
85198 GTAAACCCAA
85208 AATGTATCGATAC
1 AATGTATCGATAC
*
85221 AATGTATCTATAC
1 AATGTATCGATAC
85234 AATG
1 AATG
85238 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:87965 original size:156 final size:156
Alignment explanation
Indices: 87576--88101 Score: 442
Period size: 156 Copynumber: 3.4 Consensus size: 156
87566 AAAAATGTCC
* *
87576 CTAGGAGACACCTTCGACAT-AGAAGTA-CCCGATACCCCTAAAGGACTTAAAAATGACTATAAA
1 CTAGAAGATACCTTCGACATGA-AAGTATCCCGATACCCCTAAAGGACTTAAAAA-GACTATAAA
* * * * *
87639 AGGGATAAACATATCCTAAATATCTACCTTTGGCATAAAAGCAGACTCGGCGATGACCTAGGACT
64 AGGGATAAACCTATCCTAAATATCCACCTTTGGCATAAAAGCAGACCCGGAGATAACCTAGGACT
* * *
87704 CGGTTCTAAAAAAAAATTATGAAAATGCCT
129 CGATTCT--AAAAAAATTACGAAAATACCT
* * * * * *
87734 CTAGAAGATACTTTTGACGTGAAAGTATCCTGGTACCCCTAAAGAACTTACAAAAGACTATAAAA
1 CTAGAAGATACCTTCGACATGAAAGTATCCCGATACCCCTAAAGGACTTA-AAAAGACTAT-AAA
* *
87799 AGGG-TTAACCTATCCTAAATATCCACCTTTGGCATAAAA-CGGACCCGGAGATAACCTAGGACT
64 AGGGATAAACCTATCCTAAATATCCACCTTTGGCATAAAAGCAGACCCGGAGATAACCTAGGACT
*
87862 TGATTCT-AAAAAATTACGAAAATACCTT
129 CGATTCTAAAAAAATTACGAAAATACC-T
* * * * *
87890 TTTG-GGTATACCTTCGACATGAAAGTATCCCGACAACCCTAAAGGACTTAAAAAGACTCATAAA
1 CTAGAAG-ATACCTTCGACATGAAAGTATCCCGATACCCCTAAAGGACTTAAAAAGACT-ATAAA
* * ** ** * ** * ** *
87954 AGGGATGAACCTATCAT-AATGCCCACCTCCGTCATAAAAGC-GAACCTAGTGACGACCTAGGAG
64 AGGGATAAACCTATCCTAAATATCCACCTTTGGCATAAAAGCAG-ACCCGGAGATAACCTAGGAC
* * ** *
88017 TTGGTTCTAAAAAAAATTATAAAAATGCC-
128 TCGATTCT-AAAAAAATTACGAAAATACCT
* ** * * *
88046 CTTAGGAGATACCTTCGATGTAAAAGTA-CCCGGTACCCCTAAAGGGCTTAAAAAGA
1 C-TAGAAGATACCTTCGACATGAAAGTATCCCGATACCCCTAAAGGACTTAAAAAGA
88102 TTGGTAATGA
Statistics
Matches: 297, Mismatches: 57, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
155 51 0.17
156 96 0.32
157 19 0.06
158 62 0.21
159 58 0.20
160 11 0.04
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (156 bp):
CTAGAAGATACCTTCGACATGAAAGTATCCCGATACCCCTAAAGGACTTAAAAAGACTATAAAAG
GGATAAACCTATCCTAAATATCCACCTTTGGCATAAAAGCAGACCCGGAGATAACCTAGGACTCG
ATTCTAAAAAAATTACGAAAATACCT
Found at i:90568 original size:79 final size:79
Alignment explanation
Indices: 90483--90664 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 79
90473 TAATAACGAG
* ** * * *
90483 GTTGGAGTATCCCCTTAAAAATAACGAGGTTGGAGTATCCCCGGTTGTGAAAAATTGATGATTTG
1 GTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGACTATAAAAAATTGATGATTTA
90548 GAAATAAAATCAGGA
66 GAAATAAAA-CAGGA
* * * * * * *
90563 -TTGGAGCATTCCATCAGATATAACGGGGTTGGAGTATCCCCGACTATAAAAAATTGATGTTTTA
1 GTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGACTATAAAAAATTGATGATTTA
*
90627 GAAATAAAACCGGA
66 GAAATAAAACAGGA
*
90641 GTTGGAGTATCCCCTCGAAAATAA
1 GTTGGAGTATCCCCTCAAAAATAA
90665 AACCGGAGAT
Statistics
Matches: 81, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
78 4 0.05
79 77 0.95
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGACTATAAAAAATTGATGATTTA
GAAATAAAACAGGA
Found at i:90666 original size:31 final size:31
Alignment explanation
Indices: 90628--90713 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 31
90618 GATGTTTTAG
90628 AAATAAAACCGGAGTTGGAGTATCCCCTCGA
1 AAATAAAACCGGAGTTGGAGTATCCCCTCGA
* *
90659 AAATAAAACCGGAGATGGAGTATCCCCTCGG
1 AAATAAAACCGGAGTTGGAGTATCCCCTCGA
*
90690 AAAT--AA-CGGGGTTGGAGTATCCCC
1 AAATAAAACCGGAGTTGGAGTATCCCC
90714 GATTGTGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 16 0.31
29 2 0.04
31 33 0.65
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.19
Consensus pattern (31 bp):
AAATAAAACCGGAGTTGGAGTATCCCCTCGA
Found at i:90762 original size:51 final size:51
Alignment explanation
Indices: 90700--90815 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
90690 AAATAACGGG
* * *
90700 GTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTAGAAATAAAACCGGA
* * * * * *
90751 GTTGGAATATCCCTGATTATGGAGAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTAGAAATAAAACCGGA
90802 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
90816 TCGAAAAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTAGAAATAAAACCGGA
Found at i:90882 original size:79 final size:81
Alignment explanation
Indices: 90737--90894 Score: 239
Period size: 79 Copynumber: 2.0 Consensus size: 81
90727 CGGTGTTTTG
** * * *
90737 GAAATAAAATCGGAGTTGGAATATCCCTGATTATGGAGAATTGGTGTTTTAGAAATAAAACCGGG
1 GAAATAAAATCGGAGTTGGAATATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGG
90802 GTTGGAGTATCCCCTC
66 GTTGGAGTATCCCCTC
* *
90818 GAAA-AAAAT-GGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGG
1 GAAATAAAATCGGAGTTGGAATATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGG
90881 GTTGGAGTATCCCC
66 GTTGGAGTATCCCC
90895 GATGAAAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
79 61 0.87
80 5 0.07
81 4 0.06
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (81 bp):
GAAATAAAATCGGAGTTGGAATATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGG
GTTGGAGTATCCCCTC
Found at i:90916 original size:48 final size:49
Alignment explanation
Indices: 90827--90942 Score: 144
Period size: 48 Copynumber: 2.3 Consensus size: 49
90817 CGAAAAAAAT
* *
90827 GGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCC-A-GATGAAAAATTCATGTTTTAGAAATAAAACC
* *
90878 GGGGTTGGAGTATCCCC-GATGAAAAGTTCATGTTTTAGAAATAAAACT
1 GGGGTTGGAGTATCCCCAGATGAAAAATTCATGTTTTAGAAATAAAACC
* * *
90926 AGAGTTGGAGTGTCCCC
1 GGGGTTGGAGTATCCCC
90943 TCGAAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
48 41 0.71
51 17 0.29
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (49 bp):
GGGGTTGGAGTATCCCCAGATGAAAAATTCATGTTTTAGAAATAAAACC
Found at i:90968 original size:127 final size:128
Alignment explanation
Indices: 90659--91016 Score: 486
Period size: 127 Copynumber: 2.8 Consensus size: 128
90649 ATCCCCTCGA
* *
90659 AAATAAAACCGGAGATGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
1 AAATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
* * * **
90724 AATCGGTGTTTTGGAAATAAAATCGGAGTTGGAATATCCCTGATTATGGAGAATTGGTGTTTTAG
66 AATCGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCG--TATGGAAAATTCATGTTTTAG
* * * * *
90789 AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAAAAATGGGGTTGGAGTATCCCCAATTATGAAA
1 AAATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
* * * * *
90854 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCG-AT-GAAAAGTTCATGTTTTAG
66 AATCGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGTATGGAAAA-TTCATGTTTTAG
** *
90916 AAATAAAACTAGAGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
1 AAATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
*
90981 AGTCGGTGTTTTGGAAATAAAATCGGAGTTGGAGTA
66 AATCGGTGTTTTGGAAATAAAATCGGAGTTGGAGTA
91017 CTCTCGATTA
Statistics
Matches: 196, Mismatches: 31, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
126 4 0.02
127 99 0.51
130 93 0.47
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (128 bp):
AAATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
AATCGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGTATGGAAAATTCATGTTTTAG
Found at i:91025 original size:51 final size:49
Alignment explanation
Indices: 90955--91074 Score: 123
Period size: 51 Copynumber: 2.3 Consensus size: 49
90945 GAAAATAACG
* ** * *
90955 GGGTTGGAGTATCCCCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAATC
1 GGGTTGGAGTAT-CTCGATTAAGAAAAATCGATGTTTTGGAAATAAAATC
* *
91005 GGAGTTGGAGTACTCTCGATTAAGAAAAATTGATGTTTTGGAAATGAAATC
1 GG-GTTGGAGTA-TCTCGATTAAGAAAAATCGATGTTTTGGAAATAAAATC
*
91056 GGGATTGAAGTATTCTCGA
1 GGG-TTGGAGTA-TCTCGA
91075 GATGAAAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 3 0.05
51 54 0.93
52 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (49 bp):
GGGTTGGAGTATCTCGATTAAGAAAAATCGATGTTTTGGAAATAAAATC
Found at i:91715 original size:10 final size:11
Alignment explanation
Indices: 91692--91719 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
91682 CCTTTGAGGG
91692 AAAAATATCAA
1 AAAAATATCAA
91703 AAAAATATCAA
1 AAAAATATCAA
91714 AAAAAT
1 AAAAAT
91720 TGTTTTGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAATATCAA
Found at i:93399 original size:20 final size:18
Alignment explanation
Indices: 93372--93445 Score: 85
Period size: 20 Copynumber: 3.8 Consensus size: 18
93362 AAAATGCCTG
*
93372 AATGTATCGATACATTGTA
1 AATGTATCGATACAATG-A
93391 AACTGTATCGATACAATGA
1 AA-TGTATCGATACAATGA
93410 GCAATGTATCGATACAATGCAA
1 --AATGTATCGATACAATG--A
93432 AATGTATCGATACA
1 AATGTATCGATACA
93446 TCTGGGTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
19 3 0.06
20 43 0.88
21 2 0.04
22 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (18 bp):
AATGTATCGATACAATGA
Found at i:93686 original size:21 final size:20
Alignment explanation
Indices: 93660--93698 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
93650 GTTGGGACCG
93660 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
93681 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
93699 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:94466 original size:43 final size:44
Alignment explanation
Indices: 94399--94523 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 44
94389 TCAAGGATAA
* * *
94399 AGAAAAAGGGAAACAAAATACGTCCTACTCTTTGAGGGACAAAAG
1 AGAAAAAGGG-AAGAAAGTGCGTCCTACTCTTTGAGGGACAAAAG
* *
94444 -G-AAAAGGAGAATAAAGTGCGTCCTGCTCTTTGA-GGACAAAAG
1 AGAAAAAGG-GAAGAAAGTGCGTCCTACTCTTTGAGGGACAAAAG
* *
94486 AGAAAAAAAGGGAAGGAAGTGTGTCCTACTCTTTGAGG
1 AG--AAAAAGGGAAGAAAGTGCGTCCTACTCTTTGAGG
94524 ACTGAAAAGT
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
42 9 0.14
43 27 0.41
44 2 0.03
45 21 0.32
46 7 0.11
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.18
Consensus pattern (44 bp):
AGAAAAAGGGAAGAAAGTGCGTCCTACTCTTTGAGGGACAAAAG
Found at i:94518 original size:45 final size:42
Alignment explanation
Indices: 94419--94525 Score: 126
Period size: 45 Copynumber: 2.5 Consensus size: 42
94409 AAACAAAATA
*
94419 CGTCCTACTCTTTGAGGGACAAAAGGAAAAGGAGAATAAAGTG
1 CGTCCTACTCTTTGA-GGACAAAAGGAAAAGGAGAAGAAAGTG
* *
94462 CGTCCTGCTCTTTGAGGACAAAAGAGAAAAAAAGG-GAAGGAAGTG
1 CGTCCTACTCTTTGAGGACAAAAG-G---AAAAGGAGAAGAAAGTG
*
94507 TGTCCTACTCTTTGAGGAC
1 CGTCCTACTCTTTGAGGAC
94526 TGAAAAGTGC
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
42 9 0.16
43 15 0.27
45 25 0.45
46 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.21
Consensus pattern (42 bp):
CGTCCTACTCTTTGAGGACAAAAGGAAAAGGAGAAGAAAGTG
Found at i:94652 original size:122 final size:121
Alignment explanation
Indices: 94514--94737 Score: 351
Period size: 122 Copynumber: 1.8 Consensus size: 121
94504 GTGTGTCCTA
*
94514 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGA-AAAGGCGTCCTGCCC
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAGAAA-GCGTCCTGCCC
* *
94578 TTTGAGGACTGGAAGGTACCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCATG
65 TTTGAGGACT-AAAGGTACCACCAACTTGTGTAGGCTTTGCAAAAAGAAAGCATCATG
* * *
94636 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGTGTCCTGCTCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAGAAAGCGTCCTGCCCT
* *
94701 TTGAGGACTAAAGGTGCCACCAGCTTGTGTAGGCTTT
66 TTGAGGACTAAAGGTACCACCAACTTGTGTAGGCTTT
94738 TAAAGGCATC
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
121 24 0.26
122 66 0.71
123 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (121 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAGAAAGCGTCCTGCCCT
TTGAGGACTAAAGGTACCACCAACTTGTGTAGGCTTTGCAAAAAGAAAGCATCATG
Found at i:94743 original size:60 final size:61
Alignment explanation
Indices: 94508--94743 Score: 291
Period size: 61 Copynumber: 3.9 Consensus size: 61
94498 AAGGAAGTGT
* * *
94508 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGA-AAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA-GC
* * * *
94569 GTCCTGCCCTTTGAGGACTGGAAGGTACCACCAACTTGTGTGGGCTTTGCAAAA--AGAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAAAGGAGAAAGC
* * *
94630 ATCATGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGC
* * * *
94691 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAGCTTGTGTAGGCTTTTAAAGG
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
94744 CATCTTACTC
Statistics
Matches: 150, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
59 4 0.03
60 30 0.20
61 110 0.73
62 3 0.02
63 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGC
Found at i:94939 original size:56 final size:57
Alignment explanation
Indices: 94771--94939 Score: 173
Period size: 61 Copynumber: 2.9 Consensus size: 57
94761 ATAAAAAGGC
* **
94771 AAAAGG-AAAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAG-GAGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAA-TT-TGT--GCTTT
* * * * **
94832 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACTAGCTTGTGCTTT
1 AAAAGGAAAAGGAGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAATTTGTGCTTT
* *
94888 AAAA-GAAAAGGAGTCTTGCTCTTTGAGGACTAAAAACTGCCACCAATTTGTG
1 AAAAGGAAAAGGAGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAATTTGTG
94940 TGGGCTTTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
55 24 0.26
56 24 0.26
58 3 0.03
59 1 0.01
60 9 0.10
61 27 0.30
62 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (57 bp):
AAAAGGAAAAGGAGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAATTTGTGCTTT
Found at i:94965 original size:56 final size:57
Alignment explanation
Indices: 94784--95196 Score: 209
Period size: 55 Copynumber: 7.4 Consensus size: 57
94774 AGGAAAGAGC
**
94784 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
1 GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAA
* * * *
94842 GGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACTAGC-T-TGT--GCTTTAAAAGAAAAGGA
1 ---GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG---AGAA
* * * *
94900 GTCTTGCTCTTTGAGGACTAAAAACTGCCACCAATTTGTGTGGGCTTTAAAAG-GCA
1 GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAA
* * ** ** *** * * *
94956 GTCCTGCTCTTTGAGGACT-GAAAG-G--A-GAA---AAGAAGGAAAT-GAAGTG-C
1 GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAA
* * * * * *
95003 GTCCTACTCTTCGAGGACTAAAAAGTGCCACCAACTTGTATGGACTTTGAAAGGAAAAA
1 GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AGAA
* * ** * * *
95062 GGCGTTCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGAGCTTTAAAAG-G-C
1 ---GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAA
* * * * *
95120 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAG-G-C
1 GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAA
*
95175 GTTCTGCTCTTTGAGGACTAAA
1 GTCCTGCTCTTTGAGGACTAAA
95197 GGGTGAAAGG
Statistics
Matches: 261, Mismatches: 67, Indels: 54
0.68 0.18 0.14
Matches are distributed among these distances:
47 20 0.08
48 9 0.03
49 1 0.00
51 3 0.01
52 3 0.01
54 1 0.00
55 91 0.35
56 39 0.15
57 3 0.01
58 9 0.03
59 1 0.00
60 20 0.08
61 23 0.09
62 38 0.15
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (57 bp):
GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAA
Found at i:95131 original size:220 final size:205
Alignment explanation
Indices: 94567--95293 Score: 667
Period size: 220 Copynumber: 3.4 Consensus size: 205
94557 AAAGGAAAAG
* * * * * *
94567 GCGTCCTGCCCTTTGAGGACTGGAAGGTACCACCAACTTGTGTGGGCTTTGCAAAAAG-AAA-GC
1 GCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGT-GGCTTT--AAAAGGAAAAGGC
* * *
94630 -ATCATGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGTGTC
63 GTTC-TGCTCTTTGAGGACT-AAAGGTGCCACCAAC-T-TGT--GCTTTAAAA--AG---GAGTC
** * * * * *
94694 CTGCTCTTTGAGGACT-AAAGGTGCCACCAGCTTGTGTAGGCTTTTAAAGGCATCTTACTCTTTG
117 CTGCTCTTTGAGGACTAAAAACTGCCACCAACTTGTGTAGGCTTTAAAAGGCGTCCTGCTCTTTG
* * *
94758 AGGA-TAAAAAGGCAAAAGGAAAGA
182 AGGACT-AAAGGGAAAAAGGAGAGA
* * *
94782 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
1 GCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGT-GGCTTTAAAAGGAAAAGGCGT
* * * *
94847 CCTGCTCTTTGAGGACTAAAGGTGCCACTAGCTTGTGCTTTAAAAGAAAAGGAGTCTTGCTCTTT
65 TCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGCTTT---A-AAAAGGAGTCCTGCTCTTT
* *
94912 GAGGACTAAAAACTGCCACCAATTTGTGTGGGCTTTAAAAGGCAGTCCTGCTCTTTGAGGACTGA
126 GAGGACTAAAAACTGCCACCAACTTGTGTAGGCTTTAAAAGGC-GTCCTGCTCTTTGAGGACT-A
*
94977 AAGGAGAAAAGAAGGAAATGAAGT
189 AAGG-G-AAA-AAGG--A-G-AGA
* * * *
95001 GCGTCCTACTCTTCGAGGACTAAAAAGTGCCACCAACTTGTATGGACTTTGAAAGGAAAAAGGCG
1 GCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGG-CTTTAAAAGG-AAAAGGCG
* *
95066 TTCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGAGCTTT-AAAAGGCGTCCTGCTCT
64 TTCTGCTCTTTGAGGACTA-AAGGTGCCACCAACT--TGT--GCTTTAAAAAGGAGTCCTGCTCT
* ** * *
95130 TTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTTCTGCTCTTTGAGGACTA
124 TTGAGGACTAAAAACTGCCACCAACTTGTGTAGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA
**
95195 AAGGGTGAAAGGAGAGA
189 AAGGGAAAAAGGAGAGA
* *
95212 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGC-A
1 GCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGT-GGCTTTAAAAGGAAAAGGCGT
95276 TCTTGCTCTTTGAGGACT
65 TC-TGCTCTTTGAGGACT
95294 GAAAAGTGAA
Statistics
Matches: 429, Mismatches: 57, Indels: 57
0.79 0.10 0.10
Matches are distributed among these distances:
209 21 0.05
210 56 0.13
211 64 0.15
212 13 0.03
213 9 0.02
214 19 0.04
215 70 0.16
216 2 0.00
217 2 0.00
218 7 0.02
219 67 0.16
220 79 0.18
221 12 0.03
223 3 0.01
225 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (205 bp):
GCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGCTTTAAAAGGAAAAGGCGTT
CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGCTTTAAAAAGGAGTCCTGCTCTTTGAGGA
CTAAAAACTGCCACCAACTTGTGTAGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGAA
AAAGGAGAGA
Found at i:95147 original size:55 final size:54
Alignment explanation
Indices: 95058--95198 Score: 212
Period size: 55 Copynumber: 2.6 Consensus size: 54
95048 TTTGAAAGGA
*
95058 AAAAGGCGTTCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGT-GAGCTTT
1 AAAAGGCGTTCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTAG-GCTTT
* *
95113 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT
1 AAAAGGCGTTCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTAGGCTTT
*
95168 GAAAGGCGTTCTGCTCTTTGAGGACTAAAGG
1 AAAAGGCGTTCTGCTCTTTGAGGACTAAAGG
95199 GTGAAAGGAG
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
54 5 0.06
55 72 0.91
56 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (54 bp):
AAAAGGCGTTCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTAGGCTTT
Found at i:96261 original size:1 final size:1
Alignment explanation
Indices: 96255--96351 Score: 68
Period size: 1 Copynumber: 97.0 Consensus size: 1
96245 AAGCAGATTC
* * * * * * * * *
96255 TTTTTTTTTCTCTCTTTTTTCTTTCTTTTATTTTTTTGTTTTTTTTTTTGTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * ** *
96320 TGTTTTTTTTGTTGCTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
96352 GAAAAAGAAT
Statistics
Matches: 69, Mismatches: 27, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.86
Consensus pattern (1 bp):
T
Found at i:96301 original size:29 final size:28
Alignment explanation
Indices: 96269--96350 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 28
96259 TTTTTCTCTC
*
96269 TTTTTTCTTTCTTTTATTTTTTTGTTTTT
1 TTTTTTCTTT-TTTTTTTTTTTTGTTTTT
*
96298 TTTTTTGTTTTTTTTTGTTTTTTGTTTTT
1 TTTTTTCTTTTTTTTT-TTTTTTGTTTTT
*
96327 TTTGTTGCTTTTGTTTTTTTTTTT
1 TTT-TTTCTTTT-TTTTTTTTTTT
96351 TGAAAAAGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.11
29 24 0.52
30 12 0.26
31 5 0.11
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.87
Consensus pattern (28 bp):
TTTTTTCTTTTTTTTTTTTTTTGTTTTT
Found at i:96311 original size:38 final size:37
Alignment explanation
Indices: 96255--96352 Score: 97
Period size: 38 Copynumber: 2.6 Consensus size: 37
96245 AAGCAGATTC
* * * * *
96255 TTTTTTTTTCTCTCTTTTTTCTTTCTTTTATTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTGTTT-TTTGATTTTTTTG
*
96293 TTTTTTTTTTTGTTTTTTTTTGTTTTTTGTTTTTTTTG
1 TTTTTTTTTTT-TTTTTTTTTGTTTTTTGATTTTTTTG
* *
96331 TTGCTTTTGTTTTTTTTTTTTG
1 TT-TTTTTTTTTTTTTTTTTTG
96353 AAAAAGAATG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 33 0.66
39 17 0.34
ACGTcount: A:0.01, C:0.06, G:0.08, T:0.85
Consensus pattern (37 bp):
TTTTTTTTTTTTTTTTTTTTGTTTTTTGATTTTTTTG
Found at i:96321 original size:17 final size:17
Alignment explanation
Indices: 96269--96348 Score: 83
Period size: 18 Copynumber: 4.5 Consensus size: 17
96259 TTTTTCTCTC
*
96269 TTTTTTCTTTCTTTTATT-
1 TTTTTT-TTTGTTTT-TTG
*
96287 TTTTTGTTTTTTTTTTTG
1 TTTTT-TTTTGTTTTTTG
96305 TTTTTTTTTGTTTTTTG
1 TTTTTTTTTGTTTTTTG
96322 -TTTTTTTTGTTGCTTTTG
1 TTTTTTTTTGTT--TTTTG
96340 TTTTTTTTT
1 TTTTTTTTT
96349 TTTGAAAAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
16 11 0.20
17 13 0.24
18 22 0.40
19 9 0.16
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTGTTTTTTG
Found at i:109010 original size:51 final size:51
Alignment explanation
Indices: 108948--109063 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
108938 AAATAACGGG
* *
108948 GTTGGAGTATCCCCGATTGT-GAAAAGTTGGTGTTTTGGAAATAAAA-TCGGA
1 GTTGGAGTATCCCCGATTATGGAAAA-TTGGTGTTTTAGAAATAAAACT-GGA
* ** *
108999 GTTGGAATATCCTTGATTATGGAGAATTGGTGTTTTAGAAATAAAACTGGA
1 GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAACTGGA
109050 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
109064 TAGGAAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 49 0.91
52 5 0.09
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAACTGGA
Found at i:109010 original size:79 final size:79
Alignment explanation
Indices: 108743--109010 Score: 324
Period size: 79 Copynumber: 3.4 Consensus size: 79
108733 AAATTTAATA
* * * *
108743 TTTTGGAGATAATAA-CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGAT
1 TTTTGGAAATAA-AATCGGAGTTGGAGTATCCCCTAGGAAATAACGGGGTTGGAGTATCCCCGAT
*
108807 TGTGAAAAATCGATG
65 TGTGAAAAATTGATG
* * * * *
108822 ATTTGGAAATAAAATTAGGA-TTGGAGCATTCCCTAGGAAATAACGGGGTTGGAGTATCCCCGAC
1 TTTTGGAAATAAAA-TCGGAGTTGGAGTATCCCCTAGGAAATAACGGGGTTGGAGTATCCCCGAT
* *
108886 TATAAAAAATTGATG
65 TGTGAAAAATTGATG
* * * * *
108901 TTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTAGGAAATAACGGGGTTGGAGTATCCCCGATT
* *
108966 GTGAAAAGTTGGTG
66 GTGAAAAATTGATG
*
108980 TTTTGGAAATAAAATCGGAGTTGGAATATCC
1 TTTTGGAAATAAAATCGGAGTTGGAGTATCC
109011 TTGATTATGG
Statistics
Matches: 155, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
78 4 0.03
79 149 0.96
80 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (79 bp):
TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTAGGAAATAACGGGGTTGGAGTATCCCCGATT
GTGAAAAATTGATG
Found at i:109010 original size:130 final size:130
Alignment explanation
Indices: 108869--109142 Score: 377
Period size: 130 Copynumber: 2.1 Consensus size: 130
108859 AAATAACGGG
*
108869 GTTGGAGTATCCCCGACTATAAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGACTATAAAAAATTGATGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCC
* * * * * *
108934 TCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGTTGGTGTTTTGGAAATAAAATCGGA
66 TAGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGA
* ** * ** * * * *
108999 GTTGGAATATCCTTGATTATGGAGAATTGGTGTTTTAGAAATAAAACTGGAGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGACTATAAAAAATTGATGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCC
* *
109064 TAGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAATTAAAACCGGG
66 TAGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGA
109129 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
109143 TCAAAAATAA
Statistics
Matches: 122, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
130 122 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (130 bp):
GTTGGAGTATCCCCGACTATAAAAAATTGATGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCC
TAGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGA
Found at i:109133 original size:79 final size:79
Alignment explanation
Indices: 108999--109277 Score: 343
Period size: 79 Copynumber: 3.6 Consensus size: 79
108989 TAAAATCGGA
* ** * * * * *
108999 GTTGGAATATCCTTGATTATGGAGAATTGGTGTTTTAGAAATAAAACTGGAGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
109064 TAGGAAATAACGGG
66 TAGAAAATAACGGG
*
109078 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAATTAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
109143 TCA-AAAATAACGGG
66 T-AGAAAATAACGGG
* * *
109157 ATTGGAGTATCCCCG---ATGAAAAATTGATG-TTTAGAAATAAAACCGGGGTTGGAGTGTCCTC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
109218 TCGAAAATAACGGG
66 TAGAAAATAACGGG
* * * * *
109232 GTTGGAGTATCCCCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAA
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA
109278 TTGGAGTTGA
Statistics
Matches: 173, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
75 55 0.32
76 14 0.08
78 10 0.06
79 93 0.54
80 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TAGAAAATAACGGG
Found at i:109349 original size:51 final size:51
Alignment explanation
Indices: 109228--109349 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 51
109218 TCGAAAATAA
* ** * *
109228 CGGGGTTGGAGTATCCCCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAAT
1 CGGGATTGGAGTATCCCCGATTAAGAAAAATCGATGTTTTGGAAATAAAAT
* * * * *
109279 -TGGAGTTGAAGTACCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAAT
1 CGGGA-TTGGAGTATCCCCGATTAAGAAAAATCGATGTTTTGGAAATAAAAT
*
109330 CGGGATTGGAGTATTCCCGA
1 CGGGATTGGAGTATCCCCGA
109350 GATAAAAATA
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
50 2 0.04
51 50 0.91
52 3 0.05
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (51 bp):
CGGGATTGGAGTATCCCCGATTAAGAAAAATCGATGTTTTGGAAATAAAAT
Found at i:111692 original size:33 final size:34
Alignment explanation
Indices: 111650--111718 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 34
111640 TACATTGTAA
* **
111650 AATGTATCGATACAATGAGC-ATTGTATCGATAC
1 AATGTATCGAAACAATGAGCAAGGGTATCGATAC
*
111683 AATGTATCGAAACAATTAGCAAGGGTATCGATAC
1 AATGTATCGAAACAATGAGCAAGGGTATCGATAC
111717 AA
1 AA
111719 AGAAAAATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 18 0.58
34 13 0.42
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (34 bp):
AATGTATCGAAACAATGAGCAAGGGTATCGATAC
Found at i:111794 original size:13 final size:13
Alignment explanation
Indices: 111776--111836 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
111766 ACAAAGATCG
111776 ATGTATCGATACA
1 ATGTATCGATACA
*
111789 ATGTATTGATACA
1 ATGTATCGATACA
111802 AT-TA---AT--A
1 ATGTATCGATACA
111809 ATGTATCGATACA
1 ATGTATCGATACA
*
111822 ATGTATTGATACA
1 ATGTATCGATACA
111835 AT
1 AT
111837 TAATAATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 2 0.05
11 2 0.05
12 2 0.05
13 29 0.73
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:111800 original size:33 final size:32
Alignment explanation
Indices: 111776--111854 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 32
111766 ACAAAGATCG
111776 ATGTATCGATACAATGTATTGATACAATTAATA
1 ATGTATCGATACAATGTATTGATACAA-TAATA
111809 ATGTATCGATACAATGTATTGATACAATTAATA
1 ATGTATCGATACAATGTATTGATACAA-TAATA
111842 ATGTATCGATACA
1 ATGTATCGATACA
111855 TTTCCTTGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (32 bp):
ATGTATCGATACAATGTATTGATACAATAATA
Found at i:111813 original size:20 final size:20
Alignment explanation
Indices: 111788--111854 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 20
111778 GTATCGATAC
*
111788 AATGTATTGATACAATTAAT
1 AATGTATCGATACAATTAAT
111808 AATGTATCGATAC-------
1 AATGTATCGATACAATTAAT
*
111821 AATGTATTGATACAATTAAT
1 AATGTATCGATACAATTAAT
111841 AATGTATCGATACA
1 AATGTATCGATACA
111855 TTTCCTTGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
13 12 0.32
20 25 0.68
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACAATTAAT
Found at i:112743 original size:42 final size:43
Alignment explanation
Indices: 112697--112800 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 43
112687 TCGTTTTTCA
* *
112697 AGGACAAAGGAAAAAAGGA-AATGAAA-TACGTCCTGCTCTCTG
1 AGGACAAAAGAAAAAAGAAGAAT-AAAGTACGTCCTGCTCTCTG
* *
112739 AGGACAAAAG-AAAAAGAAGAATAAAGTGCGTCCTGCTCTTTG
1 AGGACAAAAGAAAAAAGAAGAATAAAGTACGTCCTGCTCTCTG
* *
112781 AAGACAAAAGAGAAAAGAAG
1 AGGACAAAAGAAAAAAGAAG
112801 GGAAGGAAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 10 0.19
42 35 0.66
43 8 0.15
ACGTcount: A:0.48, C:0.13, G:0.24, T:0.14
Consensus pattern (43 bp):
AGGACAAAAGAAAAAAGAAGAATAAAGTACGTCCTGCTCTCTG
Found at i:112823 original size:45 final size:42
Alignment explanation
Indices: 112732--112826 Score: 100
Period size: 45 Copynumber: 2.2 Consensus size: 42
112722 ATACGTCCTG
* * * **
112732 CTCTCTGAGGACAAAAGAAAAAGAAGAATAAAGTGCGTCCTG
1 CTCTTTGAAGACAAAAGAAAAAGAAGAAGAAAGTGCGTCCCA
* *
112774 CTCTTTGAAGACAAAAGAGAAAAGAAGGGAAGGAAGTGTGTCCCA
1 CTCTTTGAAGACAAAAGA-AAAAGAA--GAAGAAAGTGCGTCCCA
112819 CTCTTTGA
1 CTCTTTGA
112827 GGACTGAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 16 0.37
43 7 0.16
45 20 0.47
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (42 bp):
CTCTTTGAAGACAAAAGAAAAAGAAGAAGAAAGTGCGTCCCA
Found at i:113045 original size:61 final size:61
Alignment explanation
Indices: 112819--113046 Score: 293
Period size: 61 Copynumber: 3.8 Consensus size: 61
112809 GTGTGTCCCA
* * * *
112819 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTGTGAAAAGAAAAAGCGTCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTTAAAAGAGAAAGCGTCCTG
* * *
112880 C-CTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAAGCATCCTG
1 CTC-TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-TAAAAGAGAAAGCGTCCTG
* * *
112941 CTTTTTTAGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TTTAAAAGGAGAAAGTGTCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTTAAAA-GAGAAAGCGTCCTG
* *
113002 CTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTTTAAA
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTTAAA
113047 GGCATCCTGC
Statistics
Matches: 145, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
59 4 0.03
60 25 0.17
61 112 0.77
62 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (61 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTTAAAAGAGAAAGCGTCCTG
Found at i:113236 original size:56 final size:56
Alignment explanation
Indices: 113087--113242 Score: 143
Period size: 56 Copynumber: 2.7 Consensus size: 56
113077 AAAGGAGAGA
* * * * *
113087 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTACTCTTTGAGGACT-GAAACTACCACCAAC---T-TGGGCTTTAAAAGGAAAAG
* ** * *
113148 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGGGCTTTAAAA-GAAAAG
1 GCGTCCTACTCTTTGAGGACTGAAACTACCACCAACTTGGGCTTTAAAAGGAAAAG
* *
113203 GCGTCTTACTCTTTGAGGATTGGAAACTACCACCAACTTG
1 GCGTCCTACTCTTTGAGGACT-GAAACTACCACCAACTTG
113243 TGTTGGCTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
55 23 0.28
56 26 0.31
57 1 0.01
60 12 0.14
61 21 0.25
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (56 bp):
GCGTCCTACTCTTTGAGGACTGAAACTACCACCAACTTGGGCTTTAAAAGGAAAAG
Found at i:113466 original size:62 final size:62
Alignment explanation
Indices: 113307--113449 Score: 277
Period size: 62 Copynumber: 2.3 Consensus size: 62
113297 AATGAAGTGC
113307 GTCCTGCTCTTCGAGGACTAAAAAGTGCCACCAACTTATGTGGACTTTGAAAAGAAAAAGGT
1 GTCCTGCTCTTCGAGGACTAAAAAGTGCCACCAACTTATGTGGACTTTGAAAAGAAAAAGGT
113369 GTCCTGCTCTTCGAGGACTAAAAAGTGCCACCAACTTATGTGGACTTTGAAAAGAAAAAGGT
1 GTCCTGCTCTTCGAGGACTAAAAAGTGCCACCAACTTATGTGGACTTTGAAAAGAAAAAGGT
*
113431 GTCCTGCTCTTTGAGGACT
1 GTCCTGCTCTTCGAGGACT
113450 GGAGGGTGCC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (62 bp):
GTCCTGCTCTTCGAGGACTAAAAAGTGCCACCAACTTATGTGGACTTTGAAAAGAAAAAGGT
Found at i:113513 original size:55 final size:55
Alignment explanation
Indices: 113424--113564 Score: 196
Period size: 55 Copynumber: 2.6 Consensus size: 55
113414 TTTGAAAAGA
* * *
113424 AAAAGGTGTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGT-GCGCCTT
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTAG-GCCTT
** *
113479 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTAGGCTTT
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTAGGCCTT
*
113534 GAAAGGCGTCCTGCTCTTTGAGGACT-AAAGG
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
113565 GTGAAAGGAG
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 5 0.06
55 72 0.92
56 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (55 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTAGGCCTT
Found at i:113707 original size:155 final size:149
Alignment explanation
Indices: 113431--113722 Score: 397
Period size: 155 Copynumber: 1.9 Consensus size: 149
113421 AGAAAAAGGT
* * * *
113431 GTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGCGCCTTAAAAGGCGTCCTGCTCT
1 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGCGCCTTAAAAGGCATCCTGCTCT
**
113496 TTGAGGACTGAAAGGTGCCACCAACTTTTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTA
66 TTGAGGACTGAAAGGTGCCACCAACTCGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTA
*
113561 AAGGGTGAAAGGAGAGAGC
131 AAAGGTGAAAGGAGAGAGC
* * *
113580 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGCGCCTT------AAAAGGCATCC
* * *
113645 TGCTCTTTGAGGACTGCGAA-GTGCCACCAACTCGTGTGGGCTTTGAAATGCGTCCTGCTCTTTG
60 TGCTCTTTGAGGACTG-AAAGGTGCCACCAACTCGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTG
113709 AGGACTAAAAGGTG
124 AGGACTAAAAGGTG
113723 CCACCAACTT
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
149 42 0.34
155 79 0.64
156 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (149 bp):
GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGCGCCTTAAAAGGCATCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTCGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTA
AAAGGTGAAAGGAGAGAGC
Found at i:113726 original size:55 final size:55
Alignment explanation
Indices: 113578--113836 Score: 286
Period size: 55 Copynumber: 4.5 Consensus size: 55
113568 AAAGGAGAGA
* *
113578 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* ** * *
113639 GCATCCTGCTCTTTGAGGACTGCGAA-GTGCCACCAACTCGTGTGGGCTTTGAAAT
1 GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
113694 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
113749 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCGACTTGTGTGAGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
113810 GCGTCCTGCTCTTTGAGGACTGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAG
113837 TGAAAGGAGA
Statistics
Matches: 173, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
54 2 0.01
55 96 0.55
56 1 0.01
60 1 0.01
61 66 0.38
62 7 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:113729 original size:491 final size:488
Alignment explanation
Indices: 112769--113775 Score: 1273
Period size: 491 Copynumber: 2.0 Consensus size: 488
112759 ATAAAGTGCG
* * * * *
112769 TCCTGCTCTTTGAAGAC--AAAAGAGAAAAGAAGGGAAGGAAGTGTGTCCCACTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACTGAAAGGAGAAAAGAAGGAAAGGAAGTGCGTCCCACTCTTCGAGGACT
* * * * *
112832 GAAAAGTGCCACCAACTCGTGTGGGCTGTGAAAAGAAAAAGCGTCCTGCCTTTTGAGGACTGAAA
66 AAAAAGTGCCACCAACTCATGTGGACTGTGAAAAGAAAAAGCGTCCTGCCTTTCGAGGACTAAAA
* * * * * *
112897 GGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCTTTTTTAGGACTGAAAAGTG
131 AGTGCCACCAACTTATGTGGACTTTGCAAAAAAAAAGCATCCTGCTCTTTGAGGACTGAAAAGTG
* * * *
112962 CCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACC
196 CCACCAACTCGTGTGCGCCTTAAAA-GAG--AGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACC
* * *
113027 AGCTTGTGTGGGCTTTTAAAGGCATCCTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCGTC
258 AACTTGTGTAGGCTTTGAAAGGCATCCTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCGTC
* * *
113092 CTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGC
323 CTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
*
113157 TCTTTGAGGACTGAAGGTGCCACCAGCTTGGGCTTTAAAAGAAAAGGCGTCTTACTCTTTGAGGA
388 TCTTTGAGGACTGAAGGTGCCACCAGCTTGGGCTTT---AGAAAAGGCGTCCTACTCTTTGAGGA
* * *
113222 TTGGAAACTACCACCAACTTGTGTTGGCTTTAAAAGGCA
450 CTGAAAACTACCACCAACTTGTGTGGGCTTTAAAAGGCA
* **
113261 TCCTGCTCTTTGAGGACTGAAAGGAGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTCGAGGACT
1 TCCTGCTCTTTGAGGACTGAAAGGAGAAAAGAAGGAAAGGAAGTGCGTCCCACTCTTCGAGGACT
* * *
113326 AAAAAGTGCCACCAACTTATGTGGACTTTGAAAAGAAAAAGGTGTCCTG-CTCTTCGAGGACTAA
66 AAAAAGTGCCACCAACTCATGTGGACTGTGAAAAGAAAAA-GCGTCCTGCCT-TTCGAGGACTAA
** * *
113390 AAAGTGCCACCAACTTATGTGGACTTTG-AAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTGGAG
129 AAAGTGCCACCAACTTATGTGGACTTTGCAAAA-AAAAA-GCATCCTGCTCTTTGAGGACTGAAA
*
113454 GGTGCCACCAACTCGTGTGCGCCTT-AAA-AG-GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
192 AGTGCCACCAACTCGTGTGCGCCTTAAAAGAGAGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCA
* * * * *
113516 CCAACTTTTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGCG
256 CCAACTTGTGTAGGCTTTGAAAGGCATCCTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCG
113581 TCCTACTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
321 TCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * *
113645 TGCTCTTTGAGGACTGCGAA-GTGCCACCAACTCGTGTGGGCTTT-G-AAATGCGTCCTGCTCTT
385 TGCTCTTTGAGGACT--GAAGGTGCCACC-A-GC-T-TGGGCTTTAGAAAAGGCGTCCTACTCTT
* * * **
113707 TGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
444 TGAGGACTGAAAA-CTACCACCAACTTGTGTGGGCTTTAAAAGGCA
113752 TCCTGCTCTTTGAGGACTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
113776 TGCCACCGAC
Statistics
Matches: 446, Mismatches: 54, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
490 27 0.06
491 209 0.47
492 25 0.06
493 6 0.01
494 81 0.18
495 50 0.11
496 48 0.11
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (488 bp):
TCCTGCTCTTTGAGGACTGAAAGGAGAAAAGAAGGAAAGGAAGTGCGTCCCACTCTTCGAGGACT
AAAAAGTGCCACCAACTCATGTGGACTGTGAAAAGAAAAAGCGTCCTGCCTTTCGAGGACTAAAA
AGTGCCACCAACTTATGTGGACTTTGCAAAAAAAAAGCATCCTGCTCTTTGAGGACTGAAAAGTG
CCACCAACTCGTGTGCGCCTTAAAAGAGAGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAAC
TTGTGTAGGCTTTGAAAGGCATCCTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCGTCCTA
CTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCT
TTGAGGACTGAAGGTGCCACCAGCTTGGGCTTTAGAAAAGGCGTCCTACTCTTTGAGGACTGAAA
ACTACCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:113744 original size:210 final size:212
Alignment explanation
Indices: 113369--113775 Score: 622
Period size: 210 Copynumber: 1.9 Consensus size: 212
113359 AGAAAAAGGT
* **
113369 GTCCTGCTCTTCGAGGACTAAAAAGTGCCACCAACTTATGTGGACTTTGAAAAGAAAAAGGTGTC
1 GTCCTACTCTTCGAGGACTAAAAAGTGCCACCAACTTATGTGGACTTTGAAAAGAAAAAGGCATC
*
113434 CTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGCGCCTTAAAAGGCGTCCTGCTCTTTG
66 CTGCTCTTTGAGGACTGGAGAGTGCCACCAACTCGTGTGCGCCTTAAAAGGCGTCCTGCTCTTTG
* *
113499 AGGACTGAAAGGTGCCACCAACTTTTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-AAA
131 AGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAA
113563 GGGTGAAAGGAGAGAGC
196 GGGTGAAAGGAGAGAGC
* * * * * *
113580 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATC
1 GTCCTACTCTTCGAGGACTAAAAAGTGCCACCAACTTATGTGGACTTTGAAAAGAAAAAGGCATC
* * * *
113644 CTGCTCTTTGAGGACTGCGA-AGTGCCACCAACTCGTGTGGGCTTTGAAATGCGTCCTGCTCTTT
66 CTGCTCTTTGAGGACTG-GAGAGTGCCACCAACTCGTGTGCGCCTTAAAAGGCGTCCTGCTCTTT
* *
113708 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAA
130 GAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAA
113773 AGG
195 AGG
113776 TGCCACCGAC
Statistics
Matches: 176, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
210 127 0.72
211 49 0.28
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (212 bp):
GTCCTACTCTTCGAGGACTAAAAAGTGCCACCAACTTATGTGGACTTTGAAAAGAAAAAGGCATC
CTGCTCTTTGAGGACTGGAGAGTGCCACCAACTCGTGTGCGCCTTAAAAGGCGTCCTGCTCTTTG
AGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAA
GGGTGAAAGGAGAGAGC
Found at i:113802 original size:29 final size:29
Alignment explanation
Indices: 113716--113804 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
113706 TTGAGGACTA
* *
113716 AAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGTGCCACCGACTTGTGTGAGCTTTG
* * ***
113745 AAAGGTGTC-CTG-CTCT-T-TGAGGACTG
1 AAAGGTGCCACCGACT-TGTGTGAGCTTTG
113771 AAAGGTGCCACCGACTTGTGTGAGCTTTG
1 AAAGGTGCCACCGACTTGTGTGAGCTTTG
113800 AAAGG
1 AAAGG
113805 AAAAGGCGTC
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
26 13 0.30
27 6 0.14
28 5 0.12
29 19 0.44
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (29 bp):
AAAGGTGCCACCGACTTGTGTGAGCTTTG
Found at i:113814 original size:116 final size:112
Alignment explanation
Indices: 113578--113836 Score: 308
Period size: 116 Copynumber: 2.2 Consensus size: 112
113568 AAAGGAGAGA
* *
113578 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCAT
* * *
113643 CCTGCTCTTTGAGGACTGCGAAGTGCCACCAACTCGTGTGGGCTTTGAAAT
62 CCTGCTCTTTGAGGACTGCAAAGTGCCACCAACTCGTGTGAGCTTTGAAAG
**
113694 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-G-AAAGGTGTCCTG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTG
* *
113757 CTCTTTGAGGACTG-AAAGGTGCCACCGACTTGTGTGAGCTTTGAAAGGAAAAG
66 CTCTTTGAGGACTGCAAA-GTGCCACCAACTCGTGTGAGCTTT-----G-AAAG
113810 GCGTCCTGCTCTTTGAGGACTGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAG
113837 TGAAAGGAGA
Statistics
Matches: 126, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
109 2 0.02
110 45 0.36
111 1 0.01
115 1 0.01
116 72 0.57
117 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (112 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTG
CTCTTTGAGGACTGCAAAGTGCCACCAACTCGTGTGAGCTTTGAAAG
Found at i:114811 original size:1 final size:1
Alignment explanation
Indices: 114807--114872 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
114797 TTTCTCTCTC
* * * * * * * *
114807 TTTTTTCTTTGTTTTGTTTTTTTGTTTTTTTTTTTTGTTTTTTTTTGTTGTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
114872 T
1 T
114873 GAAAAAGAAT
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:114830 original size:13 final size:13
Alignment explanation
Indices: 114809--114869 Score: 79
Period size: 13 Copynumber: 4.5 Consensus size: 13
114799 TCTCTCTCTT
114809 TTTTCTTTGTTTTG
1 TTTT-TTTGTTTTG
*
114823 TTTTTTTGTTTTT
1 TTTTTTTGTTTTG
114836 TTTTTTTGTTTT-
1 TTTTTTTGTTTTG
114848 TTTTTGTTGTTTTTG
1 TTTTT-TTG-TTTTG
114863 TTTTTTT
1 TTTTTTT
114870 TTTGAAAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
12 5 0.12
13 23 0.53
14 10 0.23
15 5 0.12
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:114835 original size:9 final size:9
Alignment explanation
Indices: 114808--114870 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
114798 TTCTCTCTCT
114808 TTTTTCTTTG
1 TTTTT-TTTG
114818 TTTTGTTTT-
1 TTTT-TTTTG
*
114827 TTTGTTTT-
1 TTTTTTTTG
114835 TTTTTTTTG
1 TTTTTTTTG
114844 TTTTTTTTTG
1 -TTTTTTTTG
*
114854 TTGTTTTTG
1 TTTTTTTTG
114863 TTTTTTTT
1 TTTTTTTT
114871 TTGAAAAAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
8 11 0.24
9 18 0.39
10 16 0.35
11 1 0.02
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:118439 original size:165 final size:165
Alignment explanation
Indices: 118123--118537 Score: 545
Period size: 165 Copynumber: 2.5 Consensus size: 165
118113 ATGAAGATGA
* * * * *
118123 ATGAAATAAATAATGATGTTTGATGAATTTTGAAAATTGAAAACCTTGAAAAATCCCCTCAAAAA
1 ATGAAATAAATGATGATATTTGATGAATTTTAAAAATTGAAAAAC-AGAAAAATCCCCTCAAAAA
* * *
118188 AATTAGCGGAGTAGAAAACACCGTATTTTAGAAAAAAGAAATTTCAAGGAAAAAATTTCAAAAAC
65 AATTA-TGGAGTAGAAAACACCGTAATTTAGAAAAAAGAAATTTCAAGGAAAAAATATCAAAAAC
*
118253 TCATGAACATGAATGAATTTTTG-AAAACTAAATTAAT
129 TCATGAAAATGAATGAATTTTTGTAAAA-TAAATTAAT
118290 ATGAAATAAATGATGATATTTGATGAATTTTAAAAATTGAAAAACAGAAAAA-CCCCTCAAAAAA
1 ATGAAATAAATGATGATATTTGATGAATTTTAAAAATTGAAAAACAGAAAAATCCCCTCAAAAAA
*
118354 CATTATGGAGTAGAAAACATCGTAATTTA-AAAAAAGGAAAATTTCAAGGAAAAAA-ATCAAAAA
66 -ATTATGGAGTAGAAAACACCGTAATTTAGAAAAAA-G-AAATTTCAAGGAAAAAATATCAAAAA
* * *
118417 CTCATGAAAATGAATTAATTTTTGTAAAATGATTTAAT
128 CTCATGAAAATGAATGAATTTTTGTAAAATAAATTAAT
* * *
118455 ATGCAATAAATGATCATATTTGATGAATTTTAAAAATT-AAAAATTAAGAAAAATCCTCC-CAAA
1 ATGAAATAAATGATGATATTTGATGAATTTTAAAAATTGAAAAA--CAGAAAAATCC-CCTCAAA
* *
118518 AAAATTGTGGAGAAGAAAAC
63 AAAATTATGGAGTAGAAAAC
118538 CCGGTTATTT
Statistics
Matches: 222, Mismatches: 18, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
164 11 0.05
165 106 0.48
166 53 0.24
167 50 0.23
168 2 0.01
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (165 bp):
ATGAAATAAATGATGATATTTGATGAATTTTAAAAATTGAAAAACAGAAAAATCCCCTCAAAAAA
ATTATGGAGTAGAAAACACCGTAATTTAGAAAAAAGAAATTTCAAGGAAAAAATATCAAAAACTC
ATGAAAATGAATGAATTTTTGTAAAATAAATTAAT
Found at i:125904 original size:51 final size:51
Alignment explanation
Indices: 125847--125989 Score: 214
Period size: 51 Copynumber: 2.8 Consensus size: 51
125837 TTTTAACTAG
* *
125847 ATGTATCGATACATTGAAAAATGTATCAATACATCCGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCCAGGTAAAAAGACAGA
* * * *
125898 ATGTATCGATACATTCATACATGTATCGATACATCTAGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCCAGGTAAAAAGACAGA
* *
125949 ATGTATCGATATATTGAAAAATGTATCGATACATCTAGGTA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCCAGGTA
125990 CTTTTCCATA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 82 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (51 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCCAGGTAAAAAGACAGA
Found at i:128457 original size:20 final size:20
Alignment explanation
Indices: 128429--128503 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
128419 TTTTACCCAG
128429 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
128449 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
128469 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
128489 ATGTATCGATACATT
1 ATGTATCGATACATT
128504 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:128489 original size:40 final size:39
Alignment explanation
Indices: 128429--128506 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
128419 TTTTACCCAG
*
128429 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
128469 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
128507 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:132137 original size:13 final size:13
Alignment explanation
Indices: 132119--132143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132109 ACATTTGGTC
132119 ATGTATCGATACA
1 ATGTATCGATACA
132132 ATGTATCGATAC
1 ATGTATCGATAC
132144 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:132733 original size:27 final size:27
Alignment explanation
Indices: 132697--132767 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
132687 TTTCCTTTTC
132697 TCTCCCCCTTAATCAAATA-AAAAAATT
1 TCTCCCCCTTAATCAAA-ACAAAAAATT
****
132724 TCTCCCCCTTAAT-AAAACAATTTCTT
1 TCTCCCCCTTAATCAAAACAAAAAATT
132750 TCTCCCCCTTAATCAAAA
1 TCTCCCCCTTAATCAAAA
132768 ATTTAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 20 0.53
27 17 0.45
ACGTcount: A:0.37, C:0.31, G:0.00, T:0.32
Consensus pattern (27 bp):
TCTCCCCCTTAATCAAAACAAAAAATT
Found at i:132770 original size:25 final size:26
Alignment explanation
Indices: 132722--132771 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
132712 AATAAAAAAA
132722 TTTCTCCCCCTTAATAAAACAATTTC
1 TTTCTCCCCCTTAATAAAACAATTTC
*
132748 TTTCTCCCCCTTAATCAAA-AATTT
1 TTTCTCCCCCTTAATAAAACAATTT
132772 AATAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (26 bp):
TTTCTCCCCCTTAATAAAACAATTTC
Found at i:132832 original size:38 final size:38
Alignment explanation
Indices: 132732--132810 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
132722 TTTCTCCCCC
*
132732 TTAATAAAACAATTTCTTTCTCCCCCTTAATCAAAAAT
1 TTAATAAAACAATTTCTTTCTCCCCCCTAATCAAAAAT
132770 TTAATAAAACAATTTCTTTCTCCCCCCTAATCAAAAAT
1 TTAATAAAACAATTTCTTTCTCCCCCCTAATCAAAAAT
132808 TTA
1 TTA
132811 TTTACAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (38 bp):
TTAATAAAACAATTTCTTTCTCCCCCCTAATCAAAAAT
Found at i:134585 original size:13 final size:13
Alignment explanation
Indices: 134567--134601 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
134557 AAACCCTTTG
*
134567 TATCGATACACTA
1 TATCGATACAATA
*
134580 TATCGATACAATG
1 TATCGATACAATA
134593 TATCGATAC
1 TATCGATAC
134602 GGAGAATGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:140772 original size:21 final size:20
Alignment explanation
Indices: 140747--140800 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
140737 TTACAAGCCA
140747 ATGTATCGATACAAT-TTGGT
1 ATGTATCGATACAATCTT-GT
140767 CATGTATCGATAC-ATCTTGT
1 -ATGTATCGATACAATCTTGT
140787 ATGTATCGATACAA
1 ATGTATCGATACAA
140801 ACAGTTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.39
20 5 0.16
21 14 0.45
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATCTTGT
Found at i:152205 original size:12 final size:12
Alignment explanation
Indices: 152188--152217 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
152178 TTTACACCCA
152188 AAAAAACAAAAC
1 AAAAAACAAAAC
152200 AAAAAACAAAAC
1 AAAAAACAAAAC
152212 AAAAAA
1 AAAAAA
152218 ATTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAC
Found at i:152214 original size:25 final size:25
Alignment explanation
Indices: 152186--152235 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
152176 CCTTTACACC
152186 CAAAAAAA-CAAAACAAAAAACAAAA
1 CAAAAAAATCAAAA-AAAAAACAAAA
**
152211 CAAAAAAATTTAAAAAAAAACAAAA
1 CAAAAAAATCAAAAAAAAAACAAAA
152236 AAACCAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (25 bp):
CAAAAAAATCAAAAAAAAAACAAAA
Done.