Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1540
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: 198670
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 2
Found at i:30 original size:13 final size:13
Alignment explanation
Indices: 12--36 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2 TCCCTTTTTT
12 TTTATTTTGTGTG
1 TTTATTTTGTGTG
25 TTTATTTTGTGT
1 TTTATTTTGTGT
37 AAATTTATTT
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:0.08, C:0.00, G:0.20, T:0.72
Consensus pattern (13 bp):
TTTATTTTGTGTG
Found at i:2236 original size:50 final size:51
Alignment explanation
Indices: 2160--2295 Score: 220
Period size: 50 Copynumber: 2.7 Consensus size: 51
2150 TTTTGTAATT
**
2160 TGTATCGATACATCCTTCATTGTATCGATACATTCTGGGTTTT-ACCTAGA
1 TGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCTAGA
*
2210 TGTATCGATACATTTTTCATTATATCGATACATTCTGGGTTTTAACCTAGA
1 TGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCTAGA
* *
2261 TGTATCGATACATTTCTCAATGTATCGATACATTC
1 TGTATCGATACATTTTTCATTGTATCGATACATTC
2296 AGGCATTTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 40 0.51
51 39 0.49
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (51 bp):
TGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCTAGA
Found at i:2287 original size:51 final size:50
Alignment explanation
Indices: 2160--2295 Score: 211
Period size: 51 Copynumber: 2.7 Consensus size: 50
2150 TTTTGTAATT
*
2160 TGTATCGATACA-TCCTTCATTGTATCGATACATTCTGGGTTTTACCTAGA
1 TGTATCGATACATTTC-TCATTGTATCGATACATTCTGGGTTTTACCTAGA
* *
2210 TGTATCGATACATTTTTCATTATATCGATACATTCTGGGTTTTAACCTAGA
1 TGTATCGATACATTTCTCATTGTATCGATACATTCTGGGTTTT-ACCTAGA
*
2261 TGTATCGATACATTTCTCAATGTATCGATACATTC
1 TGTATCGATACATTTCTCATTGTATCGATACATTC
2296 AGGCATTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
50 38 0.49
51 40 0.51
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTTCTCATTGTATCGATACATTCTGGGTTTTACCTAGA
Found at i:10858 original size:33 final size:33
Alignment explanation
Indices: 10821--10885 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
10811 TTCAACAGTT
10821 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
10854 TGTATCGATACATATTTTTTTGTATCGATACA
1 TGTATCGATACATAAAATGTTGTATCGATACA
10886 TTTTAAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:10859 original size:13 final size:13
Alignment explanation
Indices: 10841--10865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10831 CATAAAATGT
10841 TGTATCGATACAA
1 TGTATCGATACAA
10854 TGTATCGATACA
1 TGTATCGATACA
10866 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:10946 original size:13 final size:13
Alignment explanation
Indices: 10928--10955 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10918 ATTACTCAAA
10928 TGTATCGATACAT
1 TGTATCGATACAT
10941 TGTATCGATACAT
1 TGTATCGATACAT
10954 TG
1 TG
10956 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15232 original size:52 final size:52
Alignment explanation
Indices: 15084--15212 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
15074 CGAAATATGA
15084 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
15136 AAATTTGCCTGTATGTATCGATACATTTCATAGTCTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
15188 AAATTTGCCTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
15213 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:15239 original size:13 final size:13
Alignment explanation
Indices: 15221--15245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15211 CAAAGATCAG
15221 TGTATCGATACAA
1 TGTATCGATACAA
15234 TGTATCGATACA
1 TGTATCGATACA
15246 TTTGAGTAAT
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:15311 original size:19 final size:19
Alignment explanation
Indices: 15287--15352 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
15277 AGTAGCTTCA
15287 TATGTATCGATACAACACT
1 TATGTATCGATACAACACT
15306 TATGTATCGAT-----AC-
1 TATGTATCGATACAACACT
15319 TATGTATCGATACAACACT
1 TATGTATCGATACAACACT
15338 TATGTATCGATACAA
1 TATGTATCGATACAA
15353 ATCGTTGACA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.27
14 2 0.05
18 2 0.05
19 26 0.63
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TATGTATCGATACAACACT
Found at i:15324 original size:13 final size:13
Alignment explanation
Indices: 15306--15331 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15296 ATACAACACT
15306 TATGTATCGATAC
1 TATGTATCGATAC
15319 TATGTATCGATAC
1 TATGTATCGATAC
15332 AACACTTATG
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):
TATGTATCGATAC
Found at i:15328 original size:32 final size:32
Alignment explanation
Indices: 15287--15350 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
15277 AGTAGCTTCA
15287 TATGTATCGATACAACACTTATGTATCGATAC
1 TATGTATCGATACAACACTTATGTATCGATAC
15319 TATGTATCGATACAACACTTATGTATCGATAC
1 TATGTATCGATACAACACTTATGTATCGATAC
15351 AAATCGTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
TATGTATCGATACAACACTTATGTATCGATAC
Found at i:25561 original size:27 final size:30
Alignment explanation
Indices: 25509--25572 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 30
25499 TCTTTTTCAA
* *
25509 AAAAACAAAAAACAATAAAAAGAACAAATA
1 AAAAAGAAAAAACAATAAAAAGAACAAAGA
*
25539 AAAAAGAAAAAA-AA-AACAA-AACAAAGA
1 AAAAAGAAAAAACAATAAAAAGAACAAAGA
25566 AAAAAGA
1 AAAAAGA
25573 GAGAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 14 0.45
28 4 0.13
29 2 0.06
30 11 0.35
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.03
Consensus pattern (30 bp):
AAAAAGAAAAAACAATAAAAAGAACAAAGA
Found at i:26728 original size:55 final size:54
Alignment explanation
Indices: 26655--26906 Score: 265
Period size: 55 Copynumber: 4.5 Consensus size: 54
26645 TTCTTTCACC
* * *
26655 CTTT-AGTCCTCAGAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTAGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
26708 CCTTTCAGTCTTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
26763 TTTTTTTAGTCTTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 --CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
26819 -TTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCA
1 CTTT--CAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCA
* *
26880 CTTCCTAGTCCTCAAAGAGCAAGACGC
1 CTTTC-AGTCCTCAAAGAGCAGGACGC
26907 TCTCTCCTTT
Statistics
Matches: 170, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.02
54 4 0.02
55 66 0.39
56 52 0.31
60 1 0.01
61 42 0.25
62 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (54 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:26890 original size:61 final size:60
Alignment explanation
Indices: 26679--26916 Score: 219
Period size: 61 Copynumber: 4.1 Consensus size: 60
26669 GAGCAAGACG
* * * * *
26679 CCTTTCAAAGCCCACACAAGTTGGTAGCACCTTTC-AGTCTTCAAAGAGCAGGA----TG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAGAGCAGGACGCTTT
* ** ** * *
26734 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCTTCAAAGAGCAGGA----TG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAGAGCAGGACGCTTT
* *
26790 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAGAGCAGGACG-CTT-T
* *
26851 CCTTTTAAAGCCCACAAAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAAGACGCTCTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAGAGCAGGACGCT-T-T
26912 CCTTT
1 CCTTT
26917 CGCCCTTTAG
Statistics
Matches: 161, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
55 51 0.32
56 48 0.30
60 3 0.02
61 59 0.37
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (60 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAGAGCAGGACGCTTT
Found at i:26968 original size:211 final size:209
Alignment explanation
Indices: 26708--27111 Score: 557
Period size: 211 Copynumber: 1.9 Consensus size: 209
26698 GTTGGTAGCA
* ** * *
26708 CCTTTCAGTCTTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTAGT
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
* *
26773 CTTCAAAGAGCAGGATG-C-C-TTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAA
66 CCTCAAAGAGCAGGACGCCTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAA
26835 GAGCAGGACGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCACTTCCT-AGTCCTCAAAGAG
131 GAGCAGGACGCCTT-T-C----AAAGCCCACAAAAGTTGGTGGCA-TTCCTCAGTCCTCAAAGAG
26899 CAAGACGCTCTCTCCTTTCGC
189 CAAGACGCTCTCTCCTTTCGC
*
26920 CCTTT-AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
* * *
26984 CCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCTTC
66 CCTCAAAGAGCAGGACGCC---TCTTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTC
* **
27049 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCA
128 AAAGAGCAGGACGCCTTTCAAAGCCCACAAAAGTTGGTGGCATTCCTCAGTCCTCAAAGAGCA
27112 GGATGCTTTC
Statistics
Matches: 171, Mismatches: 14, Indels: 15
0.86 0.07 0.08
Matches are distributed among these distances:
210 3 0.02
211 105 0.61
212 6 0.04
215 1 0.01
216 2 0.01
217 54 0.32
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (209 bp):
CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
CCTCAAAGAGCAGGACGCCTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAA
GAGCAGGACGCCTTTCAAAGCCCACAAAAGTTGGTGGCATTCCTCAGTCCTCAAAGAGCAAGACG
CTCTCTCCTTTCGC
Found at i:27051 original size:61 final size:61
Alignment explanation
Indices: 26947--27298 Score: 411
Period size: 61 Copynumber: 5.9 Consensus size: 61
26937 GCAGGACACC
26947 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCT
1 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCT
*
27009 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCTTCAAAGAGCAGGACGCC-TTTC-
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCT
*
27068 ----AAAGCCCACACAAGTTGGTGGCATTTT-TCAGTCCTCAAAGAGCAGGATG-CTTTCTCT
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCT-AGTCCTCAAAGAGCAGGACGCCTTT-TCT
* * * ** * * * * *
27125 TTTTAAAGACCACTCGAGTTGGTGGCACCTTCCAGGCCTCGAAGAGCAAGATG-C-TTTCT
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCT
** * *
27184 TTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCT
1 TTTT--AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCT
* *
27247 TTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGAC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGAC
27299 ACTTTTTCCT
Statistics
Matches: 252, Mismatches: 24, Indels: 29
0.83 0.08 0.10
Matches are distributed among these distances:
54 2 0.01
55 47 0.19
56 2 0.01
59 7 0.03
60 6 0.02
61 150 0.60
62 30 0.12
63 8 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (61 bp):
TTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCT
Found at i:27051 original size:156 final size:155
Alignment explanation
Indices: 26767--27062 Score: 475
Period size: 156 Copynumber: 1.9 Consensus size: 155
26757 GTGGCATTTT
* **
26767 TTTAGTCTTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTC
26832 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCACTTCCTAGTCCTCAAAG
66 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCACTTCCTAGTCCTCAAAG
26897 AGCAAGACGCTCTCTCCTTTCGCCC
131 AGCAAGACGCTCTCTCCTTTCGCCC
* *
26922 TTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCT
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCT
* * * * * *
26987 CAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCTTCAAA
65 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCACTTCCTAGTCCTCAAA
*
27052 GAGCAGGACGC
130 GAGCAAGACGC
27063 CTTTCAAAGC
Statistics
Matches: 128, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
155 49 0.38
156 79 0.62
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (155 bp):
TTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTC
AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCACTTCCTAGTCCTCAAAG
AGCAAGACGCTCTCTCCTTTCGCCC
Found at i:27412 original size:83 final size:83
Alignment explanation
Indices: 27276--27598 Score: 248
Period size: 83 Copynumber: 3.8 Consensus size: 83
27266 TGGTGGCACT
* * *
27276 TTTTAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTCTCCTTTATCCTCAAAGAGCAGGACATAT
1 TTTT-GTCCTCAAAGAGCAGGACACCTTTTCCTTTTCTCCTTTATCCTCAAAGAGCAGGACACAC
*
27341 TTCATTTCATGAGTTTCCC
65 TTCATTCCATGAGTTTCCC
* * * *
27360 TTTTGTCTTCAAAGAGCATGACGCCTTTTCCTTTTCTCCTTTGTCCAT-AAAGAGCAGGACACAC
1 TTTTGTCCTCAAAGAGCAGGACACCTTTTCCTTTTCTCCTTTATCC-TCAAAGAGCAGGACACAC
* ***
27424 TTCATTCCTTTCTTTTCCC
65 TTCATTCCATGAGTTTCCC
* * * * *
27443 TTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTTCCCTTTTATCTTCAAAGAGTAGG
1 TTTTGTCCTCAAAGAGCAGGACAC----CTTTTCCTT-TTCT-CC-TTTATCCTCAAAGAGCAGG
* *
27508 ACGC-CTT--TTCC-T--TTTTCCC
59 ACACACTTCATTCCATGAGTTTCCC
* *
27527 -TTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCCCTTTTATCCACAAAGAGCAGG
1 TTTTGTCCTCAAAGAGCAGGACAC-CTT--TT-CCTT-TTCT-CC-TTTATCCTCAAAGAGCAGG
*
27591 ACGCACTT
59 ACACACTT
27599 TATTTTCCTC
Statistics
Matches: 199, Mismatches: 27, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
80 2 0.01
82 2 0.01
83 141 0.71
84 15 0.08
86 1 0.01
87 12 0.06
88 3 0.02
89 6 0.03
90 17 0.09
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (83 bp):
TTTTGTCCTCAAAGAGCAGGACACCTTTTCCTTTTCTCCTTTATCCTCAAAGAGCAGGACACACT
TCATTCCATGAGTTTCCC
Found at i:27448 original size:45 final size:44
Alignment explanation
Indices: 27276--27634 Score: 269
Period size: 45 Copynumber: 8.5 Consensus size: 44
27266 TGGTGGCACT
* *
27276 TTTTAGTCCTCAAAGAGCAGG--ACACTT-TTTCCTT-TTCT-CC
1 TTTT-GTCCTCAAAGAGCAGGACACACTTCATTCCTTCTTTTCCC
* * * * ***
27316 -TTTATCCTCAAAGAGCAGGACATATTTCATTTCATGAGTTTCCC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCA-TTCCTTCTTTTCCC
* * * *
27360 TTTTGTCTTCAAAGAGCATGACGC-CTT--TTCCTT-TTCT-CC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCATTCCTTCTTTTCCC
27399 -TTTGTCCAT-AAAGAGCAGGACACACTTCATTCCTTTCTTTTCCC
1 TTTTGTCC-TCAAAGAGCAGGACACACTTCATTCC-TTCTTTTCCC
* *
27443 TTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTTCCC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCA-TTCCTTCTTTTCCC
* * * *
27488 TTTTATCTTCAAAGAGTAGGACGC-CTT--TTCC-T-TTTTCCC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCATTCCTTCTTTTCCC
27527 -TTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCCC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCATT-CCTTCTTTTCCC
* * * *
27571 TTTTATCCACAAAGAGCAGGACGCACTTTATT--TTCCTCTTT--C
1 TTTTGTCCTCAAAGAGCAGGACACACTTCATTCCTT-CT-TTTCCC
*
27613 TTTTCTCCTCAAAGAGCAGGAC
1 TTTTGTCCTCAAAGAGCAGGAC
27635 GCATTTCGTT
Statistics
Matches: 253, Mismatches: 40, Indels: 50
0.74 0.12 0.15
Matches are distributed among these distances:
38 52 0.21
39 19 0.08
40 7 0.03
41 14 0.06
42 31 0.12
43 8 0.03
44 19 0.08
45 99 0.39
46 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (44 bp):
TTTTGTCCTCAAAGAGCAGGACACACTTCATTCCTTCTTTTCCC
Found at i:27611 original size:128 final size:127
Alignment explanation
Indices: 27281--27674 Score: 411
Period size: 128 Copynumber: 3.1 Consensus size: 127
27271 GCACTTTTTA
* * * * *
27281 GTCCTCAAAGAGCAGG--ACACTT--TTTCCTT-TTCT-CC-TTTATCCTCAAAGAGCAGGACAT
1 GTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCCCTTTTATCCACAAAGAGCAAGACAC
* ** * *
27339 ATTTCATTTCATGAGTTTCCCTTTTGTCTTCAAAGAGCATGACGCCTTTTCC-TTTTCTCCTTT
66 ATTTCATTTCCT-TCTTTCCCTTTTATCTTCAAAGAGCAGGACGCCTTTTCCTTTTTC-CCTTT
* * *
27402 GTCCAT-AAAGAGCAGGACACACTTCATTCCTTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACA
1 GTCC-TCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCCCTTTTATCCACAAAGAGCAAGACA
*
27466 CATTTCATTTCCTTCTTTTCCCTTTTATCTTCAAAGAGTAGGACGCCTTTTCCTTTTTCCCTTT
65 CATTTCATTTCCTTC-TTTCCCTTTTATCTTCAAAGAGCAGGACGCCTTTTCCTTTTTCCCTTT
* *
27530 GTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCCCTTTTATCCACAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCCCTTTTATCCACAAAGAGCAAGACAC
* * *
27595 ACTTT-ATTTTCC-TCTTT--CTTTTCTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTTTC
66 A-TTTCA-TTTCCTTCTTTCCCTTTTATCTTCAAAGAGCAGGACGC----C-TTTTCCTTTTTCC
27656 CTTT
124 CTTT
27660 GTCCTCGAAA-AGCAG
1 GTCCTC-AAAGAGCAG
27675 AACGTACTCT
Statistics
Matches: 233, Mismatches: 21, Indels: 29
0.82 0.07 0.10
Matches are distributed among these distances:
121 14 0.06
122 1 0.00
123 6 0.03
125 27 0.12
126 3 0.01
127 6 0.03
128 132 0.57
129 14 0.06
130 27 0.12
131 3 0.01
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (127 bp):
GTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCCCTTTTATCCACAAAGAGCAAGACAC
ATTTCATTTCCTTCTTTCCCTTTTATCTTCAAAGAGCAGGACGCCTTTTCCTTTTTCCCTTT
Found at i:27724 original size:35 final size:34
Alignment explanation
Indices: 27651--27733 Score: 78
Period size: 35 Copynumber: 2.4 Consensus size: 34
27641 CGTTTTCCTT
* *
27651 TTTTCCTTTGTCCTCGAAAAGCAGAACGTACTCT
1 TTTTCCTTTGTCCTCGAAAAGCAGAACATACTCC
* **
27685 TTTTCACTTTGTCCTC-AAGAAGCAGGACATTTTCC
1 TTTTC-CTTTGTCCTCGAA-AAGCAGAACATACTCC
* *
27720 TTTTCTTTTTTCCT
1 TTTTCCTTTGTCCT
27734 TTGTCCTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
34 14 0.35
35 26 0.65
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.43
Consensus pattern (34 bp):
TTTTCCTTTGTCCTCGAAAAGCAGAACATACTCC
Found at i:27727 original size:41 final size:41
Alignment explanation
Indices: 27681--27783 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 41
27671 GCAGAACGTA
* *
27681 CTCTTTTTCACTTTGTCCTCAAGAAGCAGGACAT-TTTCCTT
1 CTCTTTTTC-CTTTGTCCTCAAGAAGCAAGACATATTTCATT
* *
27722 TTCTTTTTTCCTTTGTCCTCAAGAAGCAAGACCTATTTCATT
1 CTC-TTTTTCCTTTGTCCTCAAGAAGCAAGACATATTTCATT
27764 CTC-TTTTCCTTTGTCCTCAA
1 CTCTTTTTCCTTTGTCCTCAA
27784 AAAGTGGGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
40 17 0.31
41 24 0.44
42 14 0.25
ACGTcount: A:0.18, C:0.27, G:0.10, T:0.45
Consensus pattern (41 bp):
CTCTTTTTCCTTTGTCCTCAAGAAGCAAGACATATTTCATT
Found at i:28359 original size:49 final size:49
Alignment explanation
Indices: 28306--28477 Score: 170
Period size: 49 Copynumber: 3.7 Consensus size: 49
28296 TTTCACAATT
*
28306 TGTATCGATATATTGTT-CATTGTATCGATACATTCTGGGTTTACCCAGA
1 TGTATCGATACATT-TTACATTGTATCGATACATTCTGGGTTTACCCAGA
* * *
28355 TGTATCGATACATTTTGCATTGTTTCGATACATTGCT-TG-TT------A
1 TGTATCGATACATTTTACATTGTATCGATACATT-CTGGGTTTACCCAGA
* *
28397 --TATCGATACATTGCT-CATTGTATCGATACATTCTGGATTTACCCAGA
1 TGTATCGATACATT-TTACATTGTATCGATACATTCTGGGTTTACCCAGA
*
28444 TGTATCGATACATTTTACAATGTATCGATACATT
1 TGTATCGATACATTTTACATTGTATCGATACATT
28478 AAGGCATTTT
Statistics
Matches: 100, Mismatches: 9, Indels: 28
0.73 0.07 0.20
Matches are distributed among these distances:
39 2 0.02
40 28 0.28
41 3 0.03
42 1 0.01
47 1 0.01
48 5 0.05
49 58 0.58
50 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (49 bp):
TGTATCGATACATTTTACATTGTATCGATACATTCTGGGTTTACCCAGA
Found at i:28402 original size:20 final size:20
Alignment explanation
Indices: 28357--28428 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
28347 TACCCAGATG
* *
28357 TATCGATACATT-TTGCATTG
1 TATCGATACATTGCT-CATTA
* **
28377 TTTCGATACATTGCTTGTTA
1 TATCGATACATTGCTCATTA
*
28397 TATCGATACATTGCTCATTG
1 TATCGATACATTGCTCATTA
28417 TATCGATACATT
1 TATCGATACATT
28429 CTGGATTTAC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 41 0.98
21 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (20 bp):
TATCGATACATTGCTCATTA
Found at i:28422 original size:89 final size:89
Alignment explanation
Indices: 28308--28477 Score: 286
Period size: 89 Copynumber: 1.9 Consensus size: 89
28298 TCACAATTTG
* * * *
28308 TATCGATATATTGTTCATTGTATCGATACATTCTGGGTTTACCCAGATGTATCGATACATTTTGC
1 TATCGATACATTGCTCATTGTATCGATACATTCTGGATTTACCCAGATGTATCGATACATTTTAC
* *
28373 ATTGTTTCGATACATTGCTTGTTA
66 AATGTATCGATACATTGCTTGTTA
28397 TATCGATACATTGCTCATTGTATCGATACATTCTGGATTTACCCAGATGTATCGATACATTTTAC
1 TATCGATACATTGCTCATTGTATCGATACATTCTGGATTTACCCAGATGTATCGATACATTTTAC
28462 AATGTATCGATACATT
66 AATGTATCGATACATT
28478 AAGGCATTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 75 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (89 bp):
TATCGATACATTGCTCATTGTATCGATACATTCTGGATTTACCCAGATGTATCGATACATTTTAC
AATGTATCGATACATTGCTTGTTA
Found at i:30618 original size:51 final size:51
Alignment explanation
Indices: 30558--30681 Score: 151
Period size: 51 Copynumber: 2.4 Consensus size: 51
30548 ATTTTTCATC
* * * *
30558 TCGGGGATACTCCAACCTCGGTTTTATTTCCACAACATCAATTTTCCATAA
1 TCGGGGATACTCCAACCTCGGTTTTATGTCCAAAACACCAATTTTCCACAA
* * * *
30609 TCGGAGATACTCCAA-CTCCGATTTTATGTCCAAAACACCAATTTTTCACAG
1 TCGGGGATACTCCAACCT-CGGTTTTATGTCCAAAACACCAATTTTCCACAA
*
30660 TTGGGGATACTCCAACCTCGGT
1 TCGGGGATACTCCAACCTCGGT
30682 ATTTCATCGG
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 2 0.03
51 56 0.93
52 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (51 bp):
TCGGGGATACTCCAACCTCGGTTTTATGTCCAAAACACCAATTTTCCACAA
Found at i:30694 original size:28 final size:29
Alignment explanation
Indices: 30662--30736 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
30652 TTTCACAGTT
* *
30662 GGGGATACTCCAACCTCGGTA-TTTC-ATC
1 GGGGATACTCCAACCCCGGTATTTTCGA-A
*
30690 GGGGATACTCCAACCCCGTTATTTTCGAA
1 GGGGATACTCCAACCCCGGTATTTTCGAA
30719 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
30737 ATTTTATTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 19 0.45
29 22 0.52
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.24
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGGTATTTTCGAA
Found at i:30828 original size:51 final size:51
Alignment explanation
Indices: 30719--30836 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
30709 TATTTTCGAA
* *
30719 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCTACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTCTACAATC
* * * * *
30770 GGAGATACTTCAACTCCAATTTTATTTCCAAAACA-CTAATTTT-TCACTATT
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACATC-AATTTTCT-ACAATC
30821 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
30837 TGGTATTTCA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 2 0.04
51 53 0.96
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTCTACAATC
Found at i:30854 original size:159 final size:158
Alignment explanation
Indices: 30560--30941 Score: 498
Period size: 159 Copynumber: 2.4 Consensus size: 158
30550 TTTTCATCTC
* * * *
30560 GGGGATACTCCAACCTCGGTTTTATTTCCACAACATCAATTTTCCATAATCGGAGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCGGAGATACTCCAAC
*
30625 TCCGATTTTATGTCCAAAACACCAATTTTTCACAGTTGGGGATACTCCAACCTCGGTATTTCATC
66 TCCAATTTTATGTCCAAAACACCAATTTTTCACAGTTGGGGATACTCCAACCTCGGTATTTCATC
*
30690 GGGGATACTCCAACCCCGTTATTTTCGAA
131 AGGGATACTCCAACCCCGTTATTTTCG-A
* * *
30719 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCTACAATCGGAGATACTTCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCGGAGATACTCCAAC
* *
30784 TCCAATTTTATTTCCAAAACACTAATTTTTCACTA-TTGGGGATACTCCAACC-CTGGTATTTCA
66 TCCAATTTTATGTCCAAAACACCAATTTTTCAC-AGTTGGGGATACTCCAACCTC-GGTATTTCA
* * *
30847 TTAGGGATACTCCAACCTCGTTATTTTCGC
129 TCAGGGATACTCCAACCCCGTTATTTTCGA
* *** * * * ** * *
30877 GGGGATACTTCAACCCCGGCCTAATTTCTAAAGCATTGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCGGAGATACTCCAAC
30942 CTCGGCTTTA
Statistics
Matches: 195, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
158 54 0.28
159 140 0.72
160 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCGGAGATACTCCAAC
TCCAATTTTATGTCCAAAACACCAATTTTTCACAGTTGGGGATACTCCAACCTCGGTATTTCATC
AGGGATACTCCAACCCCGTTATTTTCGA
Found at i:30942 original size:51 final size:51
Alignment explanation
Indices: 30876--31047 Score: 193
Period size: 51 Copynumber: 3.4 Consensus size: 51
30866 GTTATTTTCG
* * *
30876 CGGGGATACTTCAACCCCGGCCTAATTTCTAAAGCATTGATTTTTCACAAT
1 CGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATTGATTTCTCACAAT
* * * * ** *
30927 CGGGGATACTCCAACCTCGGCTTTATCTCCAAAATATTAATTTCTCACAAT
1 CGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATTGATTTCTCACAAT
* * * *
30978 CGGAGATACTTCAACCCCGGCCTTATTTCT-AAGTCATCGATTTCTCATAAT
1 CGGGGATACTCCAACCCCGGCCTTATTTCTAAAG-CATTGATTTCTCACAAT
*
31029 AGGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCG
31048 ATTTTATTTT
Statistics
Matches: 96, Mismatches: 24, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
50 2 0.02
51 94 0.98
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (51 bp):
CGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATTGATTTCTCACAAT
Found at i:30986 original size:158 final size:159
Alignment explanation
Indices: 30591--30994 Score: 474
Period size: 159 Copynumber: 2.5 Consensus size: 159
30581 TTATTTCCAC
* * * *
30591 AACATCAATTTTCCATAATCGGAGATACTCCAACTCCGATTTTATGTCCAAAACACCAATTTTTC
1 AACATC-ATTTTTCACAATCGGAGATACTCCAACTCCGATTTTATCTCCAAAACACTAATTTTTC
* *
30656 ACAGTTGGGGATACTCCAA-CCTCGGTATTTCATCGGGGATACTCCAACCCCGTTATTTTCGAAG
65 ACAATTGGGGATACTCCAACCCTCGGTATTTCATCAGGGATACTCCAACCCCGTTATTTTCGAAG
** *
30720 GGGATACTCCAACCCCGATTTTATTTCTAA
130 GGGATACTCCAACCCCGACCTAATTTCTAA
* * * *
30750 AACATCAATTTTCTACAATCGGAGATACTTCAACTCCAATTTTATTTCCAAAACACTAATTTTTC
1 AACATCATTTTTC-ACAATCGGAGATACTCCAACTCCGATTTTATCTCCAAAACACTAATTTTTC
* * * *
30815 ACTATTGGGGATACTCCAACCCT-GGTATTTCATTAGGGATACTCCAACCTCGTTATTTTCG-CG
65 ACAATTGGGGATACTCCAACCCTCGGTATTTCATCAGGGATACTCCAACCCCGTTATTTTCGAAG
* *
30878 GGGATACTTCAACCCCGGCCTAATTTCTAA
130 GGGATACTCCAACCCCGACCTAATTTCTAA
* * * ** * * *
30908 AGCATTGATTTTTCACAATCGGGGATACTCCAAC-CTCGGCTTTATCTCCAAAATATTAATTTCT
1 AACA-TCATTTTTCACAATCGGAGATACTCCAACTC-CGATTTTATCTCCAAAACACTAATTTTT
* * *
30972 CACAATCGGAGATACTTCAACCC
64 CACAATTGGGGATACTCCAACCC
30995 CGGCCTTATT
Statistics
Matches: 207, Mismatches: 34, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
157 1 0.00
158 92 0.44
159 111 0.54
160 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (159 bp):
AACATCATTTTTCACAATCGGAGATACTCCAACTCCGATTTTATCTCCAAAACACTAATTTTTCA
CAATTGGGGATACTCCAACCCTCGGTATTTCATCAGGGATACTCCAACCCCGTTATTTTCGAAGG
GGATACTCCAACCCCGACCTAATTTCTAA
Found at i:31071 original size:102 final size:102
Alignment explanation
Indices: 30880--31071 Score: 251
Period size: 102 Copynumber: 1.9 Consensus size: 102
30870 TTTTCGCGGG
* * * *
30880 GATACTTCAACCCCGGCCTAATTTCTAAAGCATTGATTTTTCACAATCGGGGATACTCCAACCTC
1 GATACTTCAACCCCGGCCTAATTTCTAAAGCATCGATTTCTCACAATAGGGGATACTCCAACCCC
* * **
30945 GGCTTTATCTCCAAAATATTAATTTCTCACAATCGGA
66 GACTTTATCTCCAAAACACCAATTTCTCACAATCGGA
* *
30982 GATACTTCAACCCCGGCCTTATTTCT-AAGTCATCGATTTCTCATAATAGGGGATACTCCAACCC
1 GATACTTCAACCCCGGCCTAATTTCTAAAG-CATCGATTTCTCACAATAGGGGATACTCCAACCC
* * *
31046 CGATTTTATTTTCAAAACACCAATTT
65 CGACTTTATCTCCAAAACACCAATTT
31072 TCTATAATCA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
101 3 0.04
102 73 0.96
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (102 bp):
GATACTTCAACCCCGGCCTAATTTCTAAAGCATCGATTTCTCACAATAGGGGATACTCCAACCCC
GACTTTATCTCCAAAACACCAATTTCTCACAATCGGA
Found at i:31087 original size:102 final size:102
Alignment explanation
Indices: 30880--31096 Score: 249
Period size: 102 Copynumber: 2.1 Consensus size: 102
30870 TTTTCGCGGG
* * * *
30880 GATACTTCAACCCCGGCCTAATTTCTAAAGCATTGATTTTTCACAATCGGGGATACTCCAACCTC
1 GATACTTCAACCCCGGCCTAATTTCTAAAGCATCGATTTCTCACAATAGGGGATACTCCAACCCC
* * ** *
30945 GGCTTTATCTCCAAAATATTAATTTCTCACAATCGGA
66 GACTTTATCTCCAAAACACCAATTTCTCACAATCAGA
* *
30982 GATACTTCAACCCCGGCCTTATTTCT-AAGTCATCGATTTCTCATAATAGGGGATACTCCAACCC
1 GATACTTCAACCCCGGCCTAATTTCTAAAG-CATCGATTTCTCACAATAGGGGATACTCCAACCC
* * * * *
31046 CGATTTTATTTTCAAAACACCAATTT-TCTATAATCATA
65 CGACTTTATCTCCAAAACACCAATTTCTC-ACAATCAGA
*
31084 GATACTCCAACCC
1 GATACTTCAACCC
31097 TGTTATTTTC
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
101 5 0.05
102 91 0.95
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (102 bp):
GATACTTCAACCCCGGCCTAATTTCTAAAGCATCGATTTCTCACAATAGGGGATACTCCAACCCC
GACTTTATCTCCAAAACACCAATTTCTCACAATCAGA
Found at i:36874 original size:25 final size:25
Alignment explanation
Indices: 36840--36888 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
36830 ATTCATCAAA
36840 GGAATATGTATTAGCATTAGAAGAC
1 GGAATATGTATTAGCATTAGAAGAC
36865 GGAATATGTATTAGCATTAGAAGA
1 GGAATATGTATTAGCATTAGAAGA
36889 TACCTTAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (25 bp):
GGAATATGTATTAGCATTAGAAGAC
Found at i:38827 original size:41 final size:42
Alignment explanation
Indices: 38772--38851 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
38762 CTGTTGGGCT
38772 AATTATATCGATACAATT-CTAGA-TGTATCGATACATTCTGG
1 AATTATATCGATAC-ATTCCTAGAGTGTATCGATACATTCTGG
* *
38813 AATTGTATCGATACATTCCTATATGTGTATCGATACATT
1 AATTATATCGATACATTCCTAGA-GTGTATCGATACATT
38852 TGAAAGGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 3 0.09
41 17 0.50
43 14 0.41
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (42 bp):
AATTATATCGATACATTCCTAGAGTGTATCGATACATTCTGG
Found at i:38844 original size:22 final size:20
Alignment explanation
Indices: 38772--38855 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 20
38762 CTGTTGGGCT
*
38772 AATTATATCGATACAATTCT-
1 AATTGTATCGATAC-ATTCTG
38792 AGA-TGTATCGATACATTCTGG
1 A-ATTGTATCGATACATTCT-G
38813 AATTGTATCGATACATTCCT-
1 AATTGTATCGATACATT-CTG
38833 ATATGTGTATCGATACATT-TG
1 A-AT-TGTATCGATACATTCTG
38854 AA
1 AA
38856 AGGTAACTAT
Statistics
Matches: 55, Mismatches: 1, Indels: 16
0.76 0.01 0.22
Matches are distributed among these distances:
19 5 0.09
20 15 0.27
21 19 0.35
22 16 0.29
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (20 bp):
AATTGTATCGATACATTCTG
Found at i:38923 original size:20 final size:20
Alignment explanation
Indices: 38897--38951 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
38887 CTTTCACATA
38897 ATGTATCGATACATTGCAAG
1 ATGTATCGATACATTGCAAG
* *
38917 GTGTATCGATACATTGCAAT
1 ATGTATCGATACATTGCAAG
*
38937 ATGTATCAATACATT
1 ATGTATCGATACATT
38952 TTCATGTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAG
Found at i:39283 original size:20 final size:21
Alignment explanation
Indices: 39258--39308 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
39248 TATTTAACAA
39258 TATCGATACATAAGTG-AATG
1 TATCGATACATAAGTGAAATG
***
39278 TATCGATACATGCTTGAAATG
1 TATCGATACATAAGTGAAATG
39299 TATCGATACA
1 TATCGATACA
39309 GGACCATGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (21 bp):
TATCGATACATAAGTGAAATG
Found at i:45087 original size:132 final size:132
Alignment explanation
Indices: 44850--45113 Score: 483
Period size: 132 Copynumber: 2.0 Consensus size: 132
44840 GGCGCGATGC
* *
44850 TATCCCTTATTTTTGGTTTTGGGCAAGTTTGAGTTATTTTCCCAAGCTCTACCCCGAGACATTCG
1 TATCCCTTATTTTTGGTTTTGGGCAAGTTTGAGTTATTTTCCCAAGCTCCACCCCGAAACATTCG
*
44915 ACTTTCTCCAGATTACCCTGATCAGCCTTGAAACCCCTTTTGGATCTATTTTAAACTGTGTCAAG
66 ACTATCTCCAGATTACCCTGATCAGCCTTGAAACCCCTTTTGGATCTATTTTAAACTGTGTCAAG
44980 GT
131 GT
44982 TATCCCTTATTTTTGGTTTTGGGCAAGTTTGAGTTATTTTCCCAAGCTCCACCCCGAAACATTCG
1 TATCCCTTATTTTTGGTTTTGGGCAAGTTTGAGTTATTTTCCCAAGCTCCACCCCGAAACATTCG
* *
45047 ACTATCTCCAGATTACCTTGATCAGCCTTGAAACCCCTTTTGGATCTCTTTTAAACTGTGTCAAG
66 ACTATCTCCAGATTACCCTGATCAGCCTTGAAACCCCTTTTGGATCTATTTTAAACTGTGTCAAG
45112 GT
131 GT
45114 ATGAATACTT
Statistics
Matches: 127, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 127 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (132 bp):
TATCCCTTATTTTTGGTTTTGGGCAAGTTTGAGTTATTTTCCCAAGCTCCACCCCGAAACATTCG
ACTATCTCCAGATTACCCTGATCAGCCTTGAAACCCCTTTTGGATCTATTTTAAACTGTGTCAAG
GT
Found at i:51511 original size:14 final size:15
Alignment explanation
Indices: 51487--51516 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
51477 AAATGTTGAA
51487 ATAAGAAAAAAAATT
1 ATAAGAAAAAAAATT
51502 ATAA-AAAAAAAATT
1 ATAAGAAAAAAAATT
51516 A
1 A
51517 AGACATGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
ATAAGAAAAAAAATT
Found at i:52072 original size:24 final size:23
Alignment explanation
Indices: 52033--52114 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 23
52023 TATAAAATTA
52033 TTAAAATATTATATAAATATATAAT
1 TTAAAATATTATAT-AATATA-AAT
52058 TTAAAAT-TTATATAATATAAATT
1 TTAAAATATTATATAATATAAA-T
* *
52081 ATTAATATATTAAAATTAATATAAAT
1 -TTAAAATATT-ATA-TAATATAAAT
*
52107 ATAAAATA
1 TTAAAATA
52115 ACTTAAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
22 2 0.04
23 7 0.15
24 12 0.25
25 15 0.31
26 3 0.06
27 9 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAAAATATTATATAATATAAAT
Found at i:52086 original size:29 final size:32
Alignment explanation
Indices: 52037--52111 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 32
52027 AAATTATTAA
*
52037 AATATTATATAAATATAT-A-AT-TTAAAATT
1 AATATAATATAAATATATAATATATTAAAATT
*
52066 TATATAATATAAAT-TATTAATATATTAAAATT
1 AATATAATATAAATATA-TAATATATTAAAATT
52098 AATATAAATATAAA
1 AATAT-AATATAAA
52112 ATAACTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.05
29 13 0.34
30 1 0.03
31 2 0.05
32 12 0.32
33 8 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
AATATAATATAAATATATAATATATTAAAATT
Found at i:52088 original size:18 final size:16
Alignment explanation
Indices: 52051--52113 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
52041 TTATATAAAT
* *
52051 ATATAATTTAAAATTT
1 ATATAATATAAAATTA
52067 ATATAATATAAATTATTA
1 ATATAATATAAA--ATTA
52085 ATAT-AT-TAAAATTA
1 ATATAATATAAAATTA
52099 ATATAAATATAAAAT
1 ATAT-AATATAAAAT
52114 AACTTAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 8 0.20
16 17 0.43
17 8 0.20
18 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATAATATAAAATTA
Found at i:52114 original size:27 final size:27
Alignment explanation
Indices: 52023--52132 Score: 68
Period size: 27 Copynumber: 4.0 Consensus size: 27
52013 ATATAGTAAG
*
52023 TATAAAAT-TATTAAAATATTATATAAA
1 TATAAAATATATTAAAAT-TAATATAAA
* *
52050 TAT-ATA-AT-TTAAAATTTATATAATA
1 TATAAAATATATTAAAATTAATATAA-A
*
52075 TAAATTATTAATATATTAAAATTAATATAAA
1 T--A-TA-AAATATATTAAAATTAATATAAA
*
52106 TATAAAATA-ACTTAAATTTAATCATAA
1 TATAAAATATA-TTAAAATTAAT-ATAA
52133 TATTACCAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
24 8 0.12
25 9 0.14
26 4 0.06
27 18 0.27
28 7 0.11
29 1 0.02
30 1 0.02
31 4 0.06
32 14 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TATAAAATATATTAAAATTAATATAAA
Found at i:53192 original size:25 final size:26
Alignment explanation
Indices: 53142--53192 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
53132 TTTATTTTTG
* *
53142 AATAATAATAATTATTTATTTAAAAA
1 AATAAAAATAATTATTTATCTAAAAA
*
53168 AATAAAAATAA-TATTTATCTCAAAA
1 AATAAAAATAATTATTTATCTAAAAA
53193 TTAATATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAAATAATTATTTATCTAAAAA
Found at i:53192 original size:26 final size:26
Alignment explanation
Indices: 53142--53192 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
53132 TTTATTTTTG
* *
53142 AATAATAATAATTATTTATTTAAAAA
1 AATAAAAATAATTATTTATTCAAAAA
53168 AATAAAAATAA-TATTTATCTCAAAA
1 AATAAAAATAATTATTTAT-TCAAAA
53193 TTAATATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAAATAATTATTTATTCAAAAA
Found at i:57086 original size:16 final size:16
Alignment explanation
Indices: 57047--57083 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
57037 CTAATTTTAT
*
57047 ATAAGATAATAAAACA
1 ATAAAATAATAAAACA
57063 ATAAAATAATAAAA-A
1 ATAAAATAATAAAACA
57078 ATAAAA
1 ATAAAA
57084 ATACTAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
ATAAAATAATAAAACA
Found at i:57167 original size:15 final size:15
Alignment explanation
Indices: 57131--57175 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
57121 CATATAATAG
* *
57131 AAAAGATTCAAACTTT
1 AAAAAATTCAAA-TTC
57147 AAAAAATTCAAATTC
1 AAAAAATTCAAATTC
*
57162 AAAAAATTTAAATT
1 AAAAAATTCAAATT
57176 TGATAAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (15 bp):
AAAAAATTCAAATTC
Found at i:60821 original size:2 final size:2
Alignment explanation
Indices: 60814--60863 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
60804 GTTTGTTAAG
*
60814 TC TC TC TC TC TT TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
60855 TC TC TC TC T
1 TC TC TC TC T
60864 GGGTGGCGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:62323 original size:2 final size:2
Alignment explanation
Indices: 62318--62356 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
62308 TAATGCTTCT
62318 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 T
62357 CATTTTAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65464 original size:23 final size:20
Alignment explanation
Indices: 65422--65464 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
65412 AATTTTTTTT
65422 TTCTTTCTTCTTCTCTCCCA
1 TTCTTTCTTCTTCTCTCCCA
65442 TTCTTGTCTTCTTTGCTCTCCCA
1 TTCTT-TCTTC-TT-CTCTCCCA
65465 CTCCAGCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 5 0.25
22 2 0.10
23 8 0.40
ACGTcount: A:0.05, C:0.37, G:0.05, T:0.53
Consensus pattern (20 bp):
TTCTTTCTTCTTCTCTCCCA
Found at i:65763 original size:8 final size:8
Alignment explanation
Indices: 65750--65779 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
65740 ATAACATACC
*
65750 TTCTTTGT
1 TTCTTTAT
65758 TTCTTTAT
1 TTCTTTAT
65766 TTCTTTAT
1 TTCTTTAT
65774 TTCTTT
1 TTCTTT
65780 TTTTTGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.07, C:0.13, G:0.03, T:0.77
Consensus pattern (8 bp):
TTCTTTAT
Found at i:66576 original size:2 final size:2
Alignment explanation
Indices: 66569--66594 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66559 ATTTTCTTGC
66569 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
66595 TAGCATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69159 original size:20 final size:18
Alignment explanation
Indices: 69118--69162 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
69108 TACAATTTGT
* *
69118 ATCGATACAAGTTAATGT
1 ATCGATACAAGTGAATGC
69136 ATCGATACATAGGTGAATGC
1 ATCGATACA-A-GTGAATGC
69156 ATCGATA
1 ATCGATA
69163 TTAGACCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 1 0.04
20 13 0.57
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (18 bp):
ATCGATACAAGTGAATGC
Found at i:75005 original size:13 final size:13
Alignment explanation
Indices: 74984--75013 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
74974 CGATACTATT
*
74984 TACACTGTATCGA
1 TACAATGTATCGA
74997 TACAATGTATCGA
1 TACAATGTATCGA
75010 TACA
1 TACA
75014 TGAATAGTGA
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:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:75088 original size:14 final size:15
Alignment explanation
Indices: 75071--75100 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
75061 GTGAACAGTG
75071 TGAAC-AGTGATGTA
1 TGAACTAGTGATGTA
75085 TGAACTAGTGATGTA
1 TGAACTAGTGATGTA
75100 T
1 T
75101 CGATACATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (15 bp):
TGAACTAGTGATGTA
Found at i:75116 original size:21 final size:21
Alignment explanation
Indices: 75091--75132 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
75081 TGTATGAACT
75091 AGTGATGTATCGATACATGAA
1 AGTGATGTATCGATACATGAA
75112 AGTGATGTATCGATACATGAA
1 AGTGATGTATCGATACATGAA
75133 TAGTAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (21 bp):
AGTGATGTATCGATACATGAA
Found at i:75157 original size:10 final size:10
Alignment explanation
Indices: 75128--75158 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
75118 GTATCGATAC
*
75128 ATGAATAGTA
1 ATGAATAGTG
75138 ATGAATAGTG
1 ATGAATAGTG
75148 ATGAATAGTG
1 ATGAATAGTG
75158 A
1 A
75159 AAATGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:75246 original size:53 final size:53
Alignment explanation
Indices: 75182--75318 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
75172 CTACTTCCAA
*
75182 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACT
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
75235 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
75288 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
75319 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:75351 original size:20 final size:20
Alignment explanation
Indices: 75288--75358 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
75278 GCCAATGTCC
**
75288 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
75308 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
75328 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
75348 TGTATCGATAC
1 TGTATCGATAC
75359 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:75424 original size:21 final size:21
Alignment explanation
Indices: 75398--75438 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
75388 GTCAACCTTG
75398 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
75419 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
75439 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:75853 original size:71 final size:71
Alignment explanation
Indices: 75756--75910 Score: 204
Period size: 71 Copynumber: 2.2 Consensus size: 71
75746 TAAGTAGAAG
** * * *
75756 TCCAGCTTTTTGT-GGACTAAGATGGATAGGTGTTGTCACAAACTTTTGTGGGCTTTAAAGTAGG
1 TCCAGCTTTTCATAGGACTAAGATGGATAGGTGGTGCCACAAACTTATGTGGGCTTTAAAGTAGG
75820 TAGGCA
66 TAGGCA
* * * *
75826 TCCAGCTTTTCATAGGACTAAGGTGGATAGGTGGTGCCATAAGCTTATGTGGGCTTTGAAGTAGG
1 TCCAGCTTTTCATAGGACTAAGATGGATAGGTGGTGCCACAAACTTATGTGGGCTTTAAAGTAGG
*
75891 TAGGTA
66 TAGGCA
*
75897 TCTAGCTTTTCATA
1 TCCAGCTTTTCATA
75911 AATGCCACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
70 11 0.15
71 62 0.85
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (71 bp):
TCCAGCTTTTCATAGGACTAAGATGGATAGGTGGTGCCACAAACTTATGTGGGCTTTAAAGTAGG
TAGGCA
Found at i:76781 original size:13 final size:13
Alignment explanation
Indices: 76763--76787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76753 ACATAAGTGT
76763 TGTATCGATACAA
1 TGTATCGATACAA
76776 TGTATCGATACA
1 TGTATCGATACA
76788 TAAGTTTTGT
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:76786 original size:32 final size:32
Alignment explanation
Indices: 76744--76814 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
76734 TTCAACAATT
*
76744 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
76776 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
76808 TGTATCG
1 TGTATCG
76815 CTATGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:76800 original size:19 final size:19
Alignment explanation
Indices: 76742--76806 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
76732 ATTTCAACAA
*
76742 TTTGTATTGATACATAAGT
1 TTTGTATCGATACATAAGT
*
76761 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
76776 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
76793 TTTGTATCGATACA
1 TTTGTATCGATACA
76807 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:76877 original size:13 final size:13
Alignment explanation
Indices: 76859--76883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76849 ATTACTCAAA
76859 TGTATCGATACAT
1 TGTATCGATACAT
76872 TGTATCGATACA
1 TGTATCGATACA
76884 CTGATCTTTG
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:76936 original size:52 final size:51
Alignment explanation
Indices: 76892--77072 Score: 308
Period size: 52 Copynumber: 3.5 Consensus size: 51
76882 CACTGATCTT
76892 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTACGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTAC-AAA
*
76944 TGTATCGATACATGCAGGAAAATTTACCCAGATGTATCGATACACTACGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTAC-AAA
* *
76996 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTA-CAAA
77048 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
77073 TCATATTTTG
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTACAAA
Found at i:81000 original size:16 final size:15
Alignment explanation
Indices: 80981--81026 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
80971 CATATTTTTG
80981 TTTTTTTGCTTTTTAT
1 TTTTTTTG-TTTTTAT
*
80997 TTTTTTATGTTTTTGT
1 TTTTTT-TGTTTTTAT
81013 TTTTTTTAGTTTTT
1 TTTTTTT-GTTTTT
81027 GCTTCTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.89
17 2 0.07
ACGTcount: A:0.07, C:0.02, G:0.09, T:0.83
Consensus pattern (15 bp):
TTTTTTTGTTTTTAT
Found at i:81027 original size:16 final size:15
Alignment explanation
Indices: 80975--81027 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
80965 GGTTCTCATA
80975 TTTTTGTTTTTTT-G
1 TTTTTGTTTTTTTAG
*
80989 CTTTTTATTTTTTTATG
1 -TTTTTGTTTTTTTA-G
81006 TTTTTGTTTTTTTTAG
1 TTTTTG-TTTTTTTAG
81022 TTTTTG
1 TTTTTG
81028 CTTCTTTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 12 0.36
16 12 0.36
17 9 0.27
ACGTcount: A:0.06, C:0.02, G:0.11, T:0.81
Consensus pattern (15 bp):
TTTTTGTTTTTTTAG
Found at i:81352 original size:7 final size:7
Alignment explanation
Indices: 81340--81364 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
81330 TAAGATGTTA
81340 CATGATG
1 CATGATG
81347 CATGATG
1 CATGATG
81354 CATGATG
1 CATGATG
81361 CATG
1 CATG
81365 GGAATGCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (7 bp):
CATGATG
Found at i:82277 original size:8 final size:8
Alignment explanation
Indices: 82264--82315 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
82254 GGTTCTCATA
82264 TTTTTGTT
1 TTTTTGTT
*
82272 TTTTTG-C
1 TTTTTGTT
*
82279 TTTTTATT
1 TTTTTGTT
* *
82287 TTTTTATG
1 TTTTTGTT
82295 TTTTTGTT
1 TTTTTGTT
82303 TTTTTAGTT
1 TTTTT-GTT
82312 TTTT
1 TTTT
82316 CTTTTTTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
7 5 0.14
8 24 0.67
9 7 0.19
ACGTcount: A:0.06, C:0.02, G:0.10, T:0.83
Consensus pattern (8 bp):
TTTTTGTT
Found at i:82315 original size:16 final size:16
Alignment explanation
Indices: 82264--82322 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
82254 GGTTCTCATA
*
82264 TTTTTGTTTTTTT-GC
1 TTTTTGTTTTTTTAGT
*
82279 TTTTTATTTTTTTA-T
1 TTTTTGTTTTTTTAGT
82294 GTTTTTGTTTTTTTAGT
1 -TTTTTGTTTTTTTAGT
*
82311 TTTTTCTTTTTT
1 TTTTTGTTTTTT
82323 AAAGTTGTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 12 0.32
16 24 0.65
17 1 0.03
ACGTcount: A:0.05, C:0.03, G:0.08, T:0.83
Consensus pattern (16 bp):
TTTTTGTTTTTTTAGT
Found at i:82320 original size:15 final size:15
Alignment explanation
Indices: 82264--82323 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
82254 GGTTCTCATA
*
82264 TTTTTGTTTTTTT-G
1 TTTTTATTTTTTTAG
82278 CTTTTTATTTTTTTATG
1 -TTTTTATTTTTTTA-G
*
82295 TTTTTGTTTTTTTAG
1 TTTTTATTTTTTTAG
82310 TTTTT-TCTTTTTTA
1 TTTTTAT-TTTTTTA
82324 AAGTTGTGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
14 1 0.03
15 25 0.62
16 13 0.32
17 1 0.03
ACGTcount: A:0.07, C:0.03, G:0.08, T:0.82
Consensus pattern (15 bp):
TTTTTATTTTTTTAG
Found at i:82321 original size:8 final size:8
Alignment explanation
Indices: 82279--82322 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
82269 GTTTTTTTGC
82279 TTTTTATT
1 TTTTTATT
*
82287 TTTTTATG
1 TTTTTATT
*
82295 TTTTTGTT
1 TTTTTATT
*
82303 TTTTTAGT
1 TTTTTATT
*
82311 TTTTTCTT
1 TTTTTATT
82319 TTTT
1 TTTT
82323 AAAGTTGTGG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (8 bp):
TTTTTATT
Found at i:83459 original size:13 final size:13
Alignment explanation
Indices: 83441--83466 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83431 TACAGCAAGT
83441 ATGTATCGATACA
1 ATGTATCGATACA
83454 ATGTATCGATACA
1 ATGTATCGATACA
83467 CAAAAAATTG
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:84875 original size:24 final size:24
Alignment explanation
Indices: 84831--84876 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
84821 GGCTATAACC
*
84831 CTCAAAAGAATCAAAACAGAAAGT
1 CTCAAAAGAAGCAAAACAGAAAGT
*
84855 CTCAAAAGAGAGCTAAA-AGAAA
1 CTCAAAAGA-AGCAAAACAGAAA
84877 AAATTTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (24 bp):
CTCAAAAGAAGCAAAACAGAAAGT
Found at i:90357 original size:17 final size:17
Alignment explanation
Indices: 90319--90357 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
90309 GATGAAGGGT
*
90319 TGATTTTTCCCATATAG
1 TGATTTTTCCCATACAG
*
90336 CGATTTTTCCCATACAG
1 TGATTTTTCCCATACAG
90353 TGATT
1 TGATT
90358 ATATTATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (17 bp):
TGATTTTTCCCATACAG
Found at i:97253 original size:32 final size:34
Alignment explanation
Indices: 97217--97299 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 34
97207 TCTTTCAAGA
**
97217 CTAAGATAGAAACCTC-C-CTATCTTTT-CACGGG
1 CTAAGATAG-AACCTCTCTCTATCTTTTACAAAGG
97249 CTAAGATAGAACCTTTCTCTCTATCTTTTACAAAGG
1 CTAAGATAGAACC--TCTCTCTATCTTTTACAAAGG
97285 CTAAGATAGAACCTC
1 CTAAGATAGAACCTC
97300 ACAATCACTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
31 4 0.09
32 9 0.20
33 2 0.05
34 3 0.07
35 9 0.20
36 17 0.39
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (34 bp):
CTAAGATAGAACCTCTCTCTATCTTTTACAAAGG
Found at i:97862 original size:32 final size:32
Alignment explanation
Indices: 97782--97919 Score: 183
Period size: 32 Copynumber: 4.4 Consensus size: 32
97772 GTATCGGTAC
* * *
97782 ATGAACAGTGATG-AACAATA-ATAAATAGTG
1 ATGAACAGTGATGTATCGATACATGAATAGTG
97812 ATGAACAGT-ATGTATCGATACATGAATAGTG
1 ATGAACAGTGATGTATCGATACATGAATAGTG
97843 ATGAACAGTGATGTATCGATACATGAATAGTG
1 ATGAACAGTGATGTATCGATACATGAATAGTG
* * *
97875 ATGAACAATGATGTATCGACACATGAACAGTG
1 ATGAACAGTGATGTATCGATACATGAATAGTG
* *
97907 ATAAATAGTGATG
1 ATGAACAGTGATG
97920 AAAAGTGAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
29 3 0.03
30 14 0.15
31 18 0.19
32 61 0.64
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.26
Consensus pattern (32 bp):
ATGAACAGTGATGTATCGATACATGAATAGTG
Found at i:97971 original size:13 final size:13
Alignment explanation
Indices: 97953--97977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97943 TGTCAGTTTT
97953 ATGTATCGATACA
1 ATGTATCGATACA
97966 ATGTATCGATAC
1 ATGTATCGATAC
97978 TAAGCAAAAT
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:101836 original size:11 final size:10
Alignment explanation
Indices: 101810--101843 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
101800 CTAACATCTT
101810 TTCATCAAAA
1 TTCATCAAAA
*
101820 TTCATCAAATC
1 TTCATCAAA-A
101831 TTCATCAAAA
1 TTCATCAAAA
101841 TTC
1 TTC
101844 TTATTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (10 bp):
TTCATCAAAA
Found at i:104245 original size:19 final size:19
Alignment explanation
Indices: 104216--104353 Score: 80
Period size: 20 Copynumber: 6.8 Consensus size: 19
104206 TGTATCGATA
* * *
104216 AATTATATCGATGCATGTT
1 AATTGTATCGATACATGAT
*
104235 CATTGTATCGATACATGGAT
1 AATTGTATCGATACAT-GAT
104255 AATTGTATCGATACATGA-
1 AATTGTATCGATACATGAT
* * * * * *
104273 AATTGGCAGTAGCTACCTTACC
1 AATT-GTA-TCGATACATGA-T
* *
104295 ACTGTTTGTATCGATACATGGT
1 A--AT-TGTATCGATACATGAT
104317 ACATTGTATCGATACATGAT
1 A-ATTGTATCGATACATGAT
104337 GAATTGTATCGATACAT
1 -AATTGTATCGATACAT
104354 TGCTTCTAAC
Statistics
Matches: 89, Mismatches: 21, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
18 4 0.04
19 17 0.19
20 54 0.61
21 2 0.02
22 2 0.02
23 6 0.07
24 3 0.03
25 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (19 bp):
AATTGTATCGATACATGAT
Found at i:104325 original size:20 final size:20
Alignment explanation
Indices: 104300--104353 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
104290 TTACCACTGT
*
104300 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
104320 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
104340 TTGTATCGATACAT
1 TTGTATCGATACAT
104354 TGCTTCTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:110424 original size:18 final size:20
Alignment explanation
Indices: 110382--110425 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
110372 ATAATCCCTT
*
110382 TATATCCATGAAAAAAAACA
1 TATATCAATGAAAAAAAACA
*
110402 TATATCAATGAAAAAAAAAA
1 TATATCAATGAAAAAAAACA
110422 TATA
1 TATA
110426 GTCTGAGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.64, C:0.09, G:0.05, T:0.23
Consensus pattern (20 bp):
TATATCAATGAAAAAAAACA
Found at i:113871 original size:24 final size:23
Alignment explanation
Indices: 113802--113871 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 23
113792 ATGCAAAATG
* *
113802 ACTAAAATGCCTTTCGAGGT-A-T
1 ACTAAAATGCCTTTAGA-ATAACT
*
113824 ACTAAAATGCCTTGCTA-AAAAACT
1 ACTAAAATGCCTT--TAGAATAACT
113848 ACTAAAATGCCTTTAGATATAACT
1 ACTAAAATGCCTTTAGA-ATAACT
113872 TCAACATGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
22 15 0.39
23 3 0.08
24 20 0.53
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (23 bp):
ACTAAAATGCCTTTAGAATAACT
Found at i:114112 original size:153 final size:148
Alignment explanation
Indices: 113839--114114 Score: 351
Period size: 153 Copynumber: 1.8 Consensus size: 148
113829 AATGCCTTGC
*
113839 TAAAAAACTACTAAAATGCCTTTAGATATAACTTCAACATGAAAATATCTTGGTAGCCCTAAAAA
1 TAAAAAACTACTAAAATGCCCTTAGATATAACTTCAACATGAAAATATCTTGGTAGCCCTAAAAA
* *
113904 ACATGAAAATGACAAAAGATGAACCTATCCTAAATGCATGCCTTTGGCATGAAAGCATACTGGTG
66 ACATGAAAATGAAAAAAGATGAACCTATCCTAAATGCATGCCTTTGGCATAAAAGCATACTGGTG
113969 ACTACCTAGGATTAGCTT
131 ACTACCTAGGATTAGCTT
* * * * *
113987 TAAAAAATTACTAAAATGCCCTTAGAATATATCTTTAACGTGAAAATATCCTT-GT-GACCTTAA
1 TAAAAAACTACTAAAATGCCCTTAG-ATATAACTTCAACATGAAAATAT-CTTGGTAG-CCCTAA
** * *
114050 AGGACATAGAAAAATTATAAAAAGGATGAACCTATCCTCAATGCACT-CCTTTGGCATAAAAGCA
63 AAAACAT-G-AAAATGA-AAAAA-GATGAACCTATCCTAAATGCA-TGCCTTTGGCATAAAAGCA
114114 T
123 T
114115 CCAATGACTA
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
148 24 0.22
149 32 0.30
150 4 0.04
151 6 0.06
152 4 0.04
153 37 0.34
154 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (148 bp):
TAAAAAACTACTAAAATGCCCTTAGATATAACTTCAACATGAAAATATCTTGGTAGCCCTAAAAA
ACATGAAAATGAAAAAAGATGAACCTATCCTAAATGCATGCCTTTGGCATAAAAGCATACTGGTG
ACTACCTAGGATTAGCTT
Found at i:117527 original size:17 final size:17
Alignment explanation
Indices: 117505--117538 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
117495 AATCTAGCAC
117505 TTACCCTTTTAAATGGA
1 TTACCCTTTTAAATGGA
*
117522 TTACCCTTTTAATTGGA
1 TTACCCTTTTAAATGGA
117539 CAACTAAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (17 bp):
TTACCCTTTTAAATGGA
Found at i:123279 original size:52 final size:53
Alignment explanation
Indices: 123217--123516 Score: 222
Period size: 52 Copynumber: 5.7 Consensus size: 53
123207 GAAAAGTGTT
* * * * * *
123217 AATGAGCTGATTCAAAGCTAGTGACATTGGACTTGAAGATGAGAAGA-ATGCC
1 AATGTGCTGATTCAAAGCCAGCGACATTAGACTTAAAAATGAGAAGAGATGCC
* * * *
123269 AATGTGCTGATTCAAGGCCAGCGACATT-GAACTTAAACATGATAA-AGGTGCC
1 AATGTGCTGATTCAAAGCCAGCGACATTAG-ACTTAAAAATGAGAAGAGATGCC
** * * *
123321 AATGTGCCAATTC-AAGACCAGTGACA-TCGAGCTTAAAAATGA-TAGAGATGCC
1 AATGTGCTGATTCAAAG-CCAGCGACATTAGA-CTTAAAAATGAGAAGAGATGCC
* * * * * * *
123373 AATATACTAATTCAAGGCCAGCGATATCAGACTTAAAAATGACAA-AGATGCC
1 AATGTGCTGATTCAAAGCCAGCGACATTAGACTTAAAAATGAGAAGAGATGCC
* * * *
123425 AATGTGCTGATT-TAAGACTAGCGACTTTAGACTTAAAGATGAGAAGA-ATGCC
1 AATGTGCTGATTCAAAG-CCAGCGACATTAGACTTAAAAATGAGAAGAGATGCC
* * * *
123477 AATATGCTGATTCAAGGCCAACAACATTAGACTTAGAAAA
1 AATGTGCTGATTCAAAGCCAGCGACATTAGACTTA-AAAA
123517 AGATAGTTTG
Statistics
Matches: 192, Mismatches: 43, Indels: 25
0.74 0.17 0.10
Matches are distributed among these distances:
51 9 0.05
52 172 0.90
53 11 0.06
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (53 bp):
AATGTGCTGATTCAAAGCCAGCGACATTAGACTTAAAAATGAGAAGAGATGCC
Found at i:123509 original size:104 final size:103
Alignment explanation
Indices: 123246--123516 Score: 303
Period size: 104 Copynumber: 2.6 Consensus size: 103
123236 AGTGACATTG
* * *
123246 GACTTGAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATT-GAACTTAAACATG
1 GACTTAAAGATGAGAAGAATGCCAATATGCTGATTCAAGGCCAGCGACATTAG-ACTTAAAAATG
* * * *
123310 ATAAAGGTGCCAATGTGCCAATTCAAGACCAGTGACATC
65 ACAAAGATGCCAATGTGCCAATTCAAGACCAGCGACATA
* * * * * *
123349 GAGCTTAAAAATGA-TAGAGATGCCAATATACTAATTCAAGGCCAGCGATATCAGACTTAAAAAT
1 GA-CTTAAAGATGAGAAGA-ATGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAAAT
** * * *
123413 GACAAAGATGCCAATGTGCTGATTTAAGACTAGCGACTTTA
64 GACAAAGATGCCAATGTGCCAATTCAAGACCAGCGAC-ATA
* *
123454 GACTTAAAGATGAGAAGAATGCCAATATGCTGATTCAAGGCCAACAACATTAGACTTAGAAAA
1 GACTTAAAGATGAGAAGAATGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTA-AAAA
123517 AGATAGTTTG
Statistics
Matches: 136, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
103 5 0.04
104 120 0.88
105 11 0.08
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (103 bp):
GACTTAAAGATGAGAAGAATGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAAATGA
CAAAGATGCCAATGTGCCAATTCAAGACCAGCGACATA
Found at i:123616 original size:32 final size:32
Alignment explanation
Indices: 123579--123693 Score: 92
Period size: 31 Copynumber: 3.6 Consensus size: 32
123569 TAGAAGGAGA
123579 TGCCACCAACCTGTGTGGGCTTTTGAGAAA-GT
1 TGCCACCAACCTGTGTGGGCTTTTGA-AAAGGT
* **
123611 TGCCACTAACCTGCATGGGC-TTT-AAAAGGGT
1 TGCCACCAACCTGTGTGGGCTTTTGAAAA-GGT
* * * * *
123642 TGCCATCGACTTGTGTGGGCTTTCGAAAAAGGA
1 TGCCACCAACCTGTGTGGGCTTTTG-AAAAGGT
* *
123675 TGCCACCAACTTATGTGGG
1 TGCCACCAACCTGTGTGGG
123694 TTTGCAAAAA
Statistics
Matches: 64, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
29 3 0.05
30 1 0.02
31 19 0.30
32 19 0.30
33 18 0.28
34 4 0.06
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (32 bp):
TGCCACCAACCTGTGTGGGCTTTTGAAAAGGT
Found at i:123692 original size:33 final size:32
Alignment explanation
Indices: 123577--123772 Score: 157
Period size: 33 Copynumber: 6.0 Consensus size: 32
123567 CTTAGAAGGA
* * *
123577 GATGCCACCAACCTGTGTGGGCTTTTGAGAAA-
1 GATGCCATCAACTTGTGTGGGC-TTTGAAAAAG
* * ** *
123609 GTTGCCA-CTAACCTGCATGGGCTTT-AAAAGG
1 GATGCCATC-AACTTGTGTGGGCTTTGAAAAAG
* *
123640 GTTGCCATCGACTTGTGTGGGCTTTCGAAAAAG
1 GATGCCATCAACTTGTGTGGGCTTT-GAAAAAG
* *
123673 GATGCCACCAACTTATGTGGG-TTTGCAAAAAAAAG
1 GATGCCATCAACTTGTGTGGGCTTTG----AAAAAG
* * *
123708 AATGCCATTAACTTGTGTGGGCTTTGAAAAAAT
1 GATGCCATCAACTTGTGTGGGCTTTG-AAAAAG
123741 GATGCCATCAACTTGTGTGGGCTTTGAAAAAG
1 GATGCCATCAACTTGTGTGGGCTTTGAAAAAG
123773 AGTTGCTCTA
Statistics
Matches: 132, Mismatches: 22, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
30 3 0.02
31 24 0.18
32 26 0.20
33 52 0.39
35 23 0.17
36 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (32 bp):
GATGCCATCAACTTGTGTGGGCTTTGAAAAAG
Found at i:126822 original size:10 final size:10
Alignment explanation
Indices: 126807--126833 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
126797 TAAGGAGGAA
126807 GTGTTTTGAG
1 GTGTTTTGAG
126817 GTGTTTTGAG
1 GTGTTTTGAG
126827 GTGTTTT
1 GTGTTTT
126834 TGTGGGAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.37, T:0.56
Consensus pattern (10 bp):
GTGTTTTGAG
Found at i:127391 original size:13 final size:13
Alignment explanation
Indices: 127373--127400 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
127363 ATACAAAGGT
127373 CAATGTATCGATA
1 CAATGTATCGATA
127386 CAATGTATCGATA
1 CAATGTATCGATA
127399 CA
1 CA
127401 TTTTCTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:127442 original size:13 final size:13
Alignment explanation
Indices: 127424--127475 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
127414 AGCTTCGTAG
127424 CGATACATTGTAT
1 CGATACATTGTAT
127437 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
127456 CGATACATTGTAT
1 CGATACATTGTAT
127469 CGATACA
1 CGATACA
127476 ACACTCATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:127456 original size:19 final size:18
Alignment explanation
Indices: 127432--127494 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
127422 AGCGATACAT
127432 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
127451 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
127464 TGTATCGATACAACACTCA
1 TGTATCGATACAA-ACTTA
127483 TGTATCGATACA
1 TGTATCGATACA
127495 GTTACAGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
19 23 0.62
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:127465 original size:32 final size:32
Alignment explanation
Indices: 127424--127494 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
127414 AGCTTCGTAG
*
127424 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTCATGTAT
*
127456 CGATACATTGTATCGATACAACACTCATGTAT
1 CGATACATTGTATCGATACAAAACTCATGTAT
127488 CGATACA
1 CGATACA
127495 GTTACAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTCATGTAT
Found at i:128400 original size:49 final size:49
Alignment explanation
Indices: 128242--128664 Score: 309
Period size: 49 Copynumber: 8.8 Consensus size: 49
128232 CGAAGAATGA
* * * * * **
128242 CAATGTGCTGATTCATGGCCAGCGATATTAGATTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGC
* ** * * * * * *
128289 CAATGTGCTGAGACAAGGCCAACGACATTTGGGCTTAGGAATGCTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATA-TTGGACTTA--AA-GATCAAGGTGC
* * * *
128342 CAATATGCTGATTCAAGGCTAACAATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGC
* * *
128391 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGC
* *
128439 CAATATGCTGATTCAAGGCCAGTGATATTGGGC-T-----T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGC
* * * * * *
128478 TAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGC
* * * *
128526 CAATATGCTGATTC-AGGACTAGTGATATTGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGG-CCAGCGATATTGGACTTAAAGATCAAGGTGC
* * * * *
128575 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGC
* *
128624 CAATATGCTAATTCAAGGCGAGCGATATTGGACTTAGAAGA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
128665 AGACGCCACC
Statistics
Matches: 295, Mismatches: 60, Indels: 39
0.75 0.15 0.10
Matches are distributed among these distances:
39 30 0.10
40 1 0.00
41 1 0.00
46 1 0.00
47 26 0.09
48 72 0.24
49 118 0.40
50 11 0.04
51 3 0.01
52 8 0.03
53 24 0.08
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGC
Found at i:128538 original size:87 final size:87
Alignment explanation
Indices: 128388--128659 Score: 339
Period size: 87 Copynumber: 3.0 Consensus size: 87
128378 AAGATGAAGG
128388 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
128453 AAGGCCAGTGATATTGGGCTTA
66 AAGGCCAGTGATATTGGACTTA
* * *
128475 TGCTAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
128540 -AGGACTAGTGATATTGGACTTAAAGATGAAGA
66 AAGG-CCAGTGATATTGGAC-T-----T----A
* * *
128572 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGATGCCAATATGCTAATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
* *
128637 CAAGGCGAGCGATATTGGACTTA
65 CAAGGCCAGTGATATTGGACTTA
128660 GAAGAAGACG
Statistics
Matches: 159, Mismatches: 13, Indels: 25
0.81 0.07 0.13
Matches are distributed among these distances:
86 3 0.02
87 75 0.47
88 2 0.01
92 1 0.01
93 1 0.01
97 42 0.26
98 32 0.20
99 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGTGATATTGGACTTA
Found at i:128739 original size:28 final size:29
Alignment explanation
Indices: 128681--128804 Score: 164
Period size: 28 Copynumber: 4.3 Consensus size: 29
128671 CACCAACTTG
**
128681 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAA-GGTTGCCACTGACT
*
128710 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
128738 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* *
128766 TGTGGGCTTTTGAAAAGGGTGCCATTGACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
128796 TGTGGGCTT
1 TGTGGGCTT
128805 AAAAGGAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
27 5 0.06
28 47 0.55
29 11 0.13
30 23 0.27
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.35
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGTTGCCACTGACT
Found at i:128777 original size:56 final size:58
Alignment explanation
Indices: 128681--128804 Score: 164
Period size: 58 Copynumber: 2.2 Consensus size: 58
128671 CACCAACTTG
* *
128681 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGGGCTTTTGAAAGGGTGCCACTGACT
** *
128738 TGTGGGCTTTTG-AA-GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCATTGACT
1 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGGGCTTTTG-AAAGGGTGCCACTGACT
128796 TGTGGGCTT
1 TGTGGGCTT
128805 AAAAGGAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
55 5 0.08
56 19 0.32
57 12 0.20
58 23 0.39
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.35
Consensus pattern (58 bp):
TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGGGCTTTTGAAAGGGTGCCACTGACT
Found at i:128856 original size:35 final size:34
Alignment explanation
Indices: 128795--128887 Score: 132
Period size: 35 Copynumber: 2.6 Consensus size: 34
128785 TGCCATTGAC
* *
128795 TTGTGGGCTTAAAAGGAAAAGGAATGCCACGGAG
1 TTGTGGGCTTAAAAAGAAAAGGAATGCAACGGAG
128829 TTGTGGGCTTACAAAAGAAAAGGAATGCAACGGAG
1 TTGTGGGCTTA-AAAAGAAAAGGAATGCAACGGAG
*
128864 TTGTGGACTTAAAAAAAGAAAAGG
1 TTGTGGGCTT--AAAAAGAAAAGG
128888 TGCCAATATG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
34 11 0.21
35 30 0.57
36 11 0.21
37 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.31, T:0.18
Consensus pattern (34 bp):
TTGTGGGCTTAAAAAGAAAAGGAATGCAACGGAG
Found at i:128975 original size:32 final size:33
Alignment explanation
Indices: 128939--129015 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
128929 GGTGCCACGG
128939 AGTTGTGGACTTAAAAAG-AAAAGACGCCACAA
1 AGTTGTGGACTTAAAAAGAAAAAGACGCCACAA
* * * **
128971 AGTTGTGGGCTTAAAAGGAAAAAGATGCCACGG
1 AGTTGTGGACTTAAAAAGAAAAAGACGCCACAA
*
129004 ATTTGTGGACTT
1 AGTTGTGGACTT
129016 TTGAAGGTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 16 0.43
33 21 0.57
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (33 bp):
AGTTGTGGACTTAAAAAGAAAAAGACGCCACAA
Found at i:129060 original size:30 final size:29
Alignment explanation
Indices: 129019--129162 Score: 166
Period size: 30 Copynumber: 4.9 Consensus size: 29
129009 TGGACTTTTG
* *
129019 AAGGTTGCCACTGATTTGTGGGCTTTGAAA
1 AAGGGTGCCACTGACTTGTGGGCTTTG-AA
*
129049 AAGGGTGCCACTGACTTGCGGGCTTTTG--
1 AAGGGTGCCACTGACTTGTGGGC-TTTGAA
* * * *
129077 AAGGTTGCCACTCACTTGTAGGCTTTAAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGAA
* *
129106 AAAGATGCCACTGACTTGTGGGCTTTTGAA
1 AAGGGTGCCACTGACTTGTGGGC-TTTGAA
129136 AAGGGTGCCACTGACTTGTGGGCTTTG
1 AAGGGTGCCACTGACTTGTGGGCTTTG
129163 GAAATGATGC
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
27 3 0.03
28 19 0.20
29 23 0.24
30 46 0.48
31 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (29 bp):
AAGGGTGCCACTGACTTGTGGGCTTTGAA
Found at i:129079 original size:58 final size:58
Alignment explanation
Indices: 128989--129175 Score: 225
Period size: 58 Copynumber: 3.2 Consensus size: 58
128979 GCTTAAAAGG
* * * * *
128989 AAAAAGATGCCACGGATTTGTGGACTTTTGAAGGTTGCCACTGATTTGTGGGCTTTGA
1 AAAAAGATGCCACTGACTTGCGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGA
* * * *
129047 AAAAGGGTGCCACTGACTTGCGGGCTTTTGAAGGTTGCCACTCACTTGTAGGCTTT-A
1 AAAAAGATGCCACTGACTTGCGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGA
* *
129104 AAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG-
1 AAAAAGATGCCACTGACTTGCGGGCTTTTG--AAGGTTGCCACTGACTTGTGGGCTTTGA
* *
129163 GAAATGATGCCAC
1 AAAAAGATGCCAC
129176 AACCAACGAA
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
57 28 0.26
58 47 0.43
59 34 0.31
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (58 bp):
AAAAAGATGCCACTGACTTGCGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGA
Found at i:130558 original size:8 final size:8
Alignment explanation
Indices: 130545--130626 Score: 53
Period size: 8 Copynumber: 10.2 Consensus size: 8
130535 CTTTTTGTTA
130545 TTGTTTTT
1 TTGTTTTT
*
130553 TTGTTTGT
1 TTGTTTTT
*
130561 TTGTTTGT
1 TTGTTTTT
130569 TTG-TTTT
1 TTGTTTTT
***
130576 TTAACTTT
1 TTGTTTTT
130584 TTG-TTTT
1 TTGTTTTT
* *
130591 GTATTTTT
1 TTGTTTTT
130599 TTGTTTTT
1 TTGTTTTT
130607 TT-TTATTT
1 TTGTT-TTT
130615 TGGTGTTTTT
1 T--TGTTTTT
130625 TT
1 TT
130627 TTGGAGGATG
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
7 11 0.19
8 40 0.69
10 5 0.09
11 2 0.03
ACGTcount: A:0.05, C:0.01, G:0.15, T:0.79
Consensus pattern (8 bp):
TTGTTTTT
Found at i:130560 original size:12 final size:12
Alignment explanation
Indices: 130545--130577 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
130535 CTTTTTGTTA
130545 TTGTTTTTTTGT
1 TTGTTTTTTTGT
*
130557 TTGTTTGTTTGT
1 TTGTTTTTTTGT
130569 TTGTTTTTT
1 TTGTTTTTT
130578 AACTTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (12 bp):
TTGTTTTTTTGT
Found at i:130561 original size:4 final size:4
Alignment explanation
Indices: 130545--130574 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
130535 CTTTTTGTTA
*
130545 TTGT TTTT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TT
130575 TTTAACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (4 bp):
TTGT
Found at i:130609 original size:12 final size:12
Alignment explanation
Indices: 130536--130629 Score: 55
Period size: 12 Copynumber: 7.5 Consensus size: 12
130526 ATTCGGACCC
130536 TTTTTGTTATTGTT
1 TTTTTGTT-TT-TT
*
130550 TTTTTGTTTGTT
1 TTTTTGTTTTTT
* *
130562 TGTTTGTTTGTT
1 TTTTTGTTTTTT
***
130574 TTTTAACTTTTT
1 TTTTTGTTTTTT
*
130586 GTTTTGTATTTTT
1 TTTTTGT-TTTTT
130599 TTGTTT-TTTTTT
1 TT-TTTGTTTTTT
* *
130611 ATTTTGGTGTTTT
1 -TTTTTGTTTTTT
130624 TTTTTG
1 TTTTTG
130630 GAGGATGCCT
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
12 35 0.57
13 15 0.25
14 11 0.18
ACGTcount: A:0.05, C:0.01, G:0.15, T:0.79
Consensus pattern (12 bp):
TTTTTGTTTTTT
Found at i:130615 original size:15 final size:14
Alignment explanation
Indices: 130536--130628 Score: 69
Period size: 15 Copynumber: 6.1 Consensus size: 14
130526 ATTCGGACCC
* *
130536 TTTTTGTTATTGTT
1 TTTTTGTTTTTTTT
130550 TTTTTGTTTGTTTGTT
1 TTTTTGTTT-TTT-TT
* **
130566 TGTTTGTTTTTTAAC
1 TTTTTGTTTTTT-TT
*
130581 TTTTTGTTTTGTATT
1 TTTTTGTTTT-TTTT
130596 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
130610 TATTTTGGTGTTTTTTT
1 T-TTTT-GT-TTTTTTT
130627 TT
1 TT
130629 GGAGGATGCC
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
14 12 0.19
15 28 0.45
16 14 0.23
17 8 0.13
ACGTcount: A:0.05, C:0.01, G:0.14, T:0.80
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:139788 original size:69 final size:69
Alignment explanation
Indices: 139677--139815 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
139667 GTTGGTCAGA
* *
139677 AAGAGTCATCATGGCTTCTTTCAAGCTAGCCCATGAAATGCACTCGCTACTTCCTTTGGCCTTAA
1 AAGAGTCATCATGGCTTCTTTCAAGCTAGCCCATGAAATGCACTCACTACTTCCTTTGACCTTAA
139742 TGTG
66 TGTG
*
139746 AAGAGTCATCATGGCTTCTTTCAGGCTAGCCCATGAAATGCACTCACTACTTCCTTTGACCTTAA
1 AAGAGTCATCATGGCTTCTTTCAAGCTAGCCCATGAAATGCACTCACTACTTCCTTTGACCTTAA
139811 TGTG
66 TGTG
139815 A
1 A
139816 CTACCGACCC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (69 bp):
AAGAGTCATCATGGCTTCTTTCAAGCTAGCCCATGAAATGCACTCACTACTTCCTTTGACCTTAA
TGTG
Found at i:141427 original size:13 final size:13
Alignment explanation
Indices: 141409--141433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141399 CATAAAGTGT
141409 TGTATCGATACAA
1 TGTATCGATACAA
141422 TGTATCGATACA
1 TGTATCGATACA
141434 TAAGTTTTGT
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:141446 original size:19 final size:19
Alignment explanation
Indices: 141388--141452 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
141378 ATTTCAACGA
141388 TTTGTA-CGATACATAAAGT
1 TTTGTATCGATACAT-AAGT
*
141407 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
141422 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
141439 TTTGTATCGATACA
1 TTTGTATCGATACA
141453 ATATAAGCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 17 0.45
20 6 0.16
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:141449 original size:32 final size:32
Alignment explanation
Indices: 141390--141454 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
141380 TTCAACGATT
141390 TGTACGATACATAAAGTGTTGTATCGATACAA
1 TGTACGATACATAAAGTGTTGTATCGATACAA
*
141422 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTA-CGATACATAAAGTGTTGTATCGATACAA
141454 T
1 T
141455 ATAAGCTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 23 0.74
33 8 0.26
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTACGATACATAAAGTGTTGTATCGATACAA
Found at i:141513 original size:13 final size:13
Alignment explanation
Indices: 141495--141519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141485 ATTACTCAAA
141495 TGTATCGATACAT
1 TGTATCGATACAT
141508 TGTATCGATACA
1 TGTATCGATACA
141520 CTGATCTTTG
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:141571 original size:52 final size:52
Alignment explanation
Indices: 141528--141656 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
141518 CACTGATCTT
*
141528 TGTATCGATACATGCAGGCAAGTTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
141580 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTTTGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
141632 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
141657 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:148045 original size:13 final size:13
Alignment explanation
Indices: 148027--148088 Score: 80
Period size: 13 Copynumber: 5.2 Consensus size: 13
148017 ATACAAAGGT
148027 CAATGTATCGATA
1 CAATGTATCGATA
148040 CAATGTATCGATA
1 CAATGTATCGATA
*
148053 C-AT-T-T-GA-G
1 CAATGTATCGATA
148061 CAATGTATCGATA
1 CAATGTATCGATA
148074 CAATGTATCGATA
1 CAATGTATCGATA
148087 CA
1 CA
148089 TTTGAGCAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
8 1 0.02
9 4 0.10
10 2 0.05
11 2 0.05
12 4 0.10
13 29 0.69
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:148070 original size:34 final size:34
Alignment explanation
Indices: 148027--148109 Score: 166
Period size: 34 Copynumber: 2.4 Consensus size: 34
148017 ATACAAAGGT
148027 CAATGTATCGATACAATGTATCGATACATTTGAG
1 CAATGTATCGATACAATGTATCGATACATTTGAG
148061 CAATGTATCGATACAATGTATCGATACATTTGAG
1 CAATGTATCGATACAATGTATCGATACATTTGAG
148095 CAATGTATCGATACA
1 CAATGTATCGATACA
148110 TTTTCTTGGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (34 bp):
CAATGTATCGATACAATGTATCGATACATTTGAG
Found at i:148151 original size:13 final size:13
Alignment explanation
Indices: 148133--148184 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
148123 AGCTTCGTAG
148133 CGATACATTGTAT
1 CGATACATTGTAT
148146 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
148165 CGATACATTGTAT
1 CGATACATTGTAT
148178 CGATACA
1 CGATACA
148185 ACACTCATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:148174 original size:32 final size:32
Alignment explanation
Indices: 148133--148201 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
148123 AGCTTCGTAG
*
148133 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTCATGTAT
*
148165 CGATACATTGTATCGATACAACACTCATGTAT
1 CGATACATTGTATCGATACAAAACTCATGTAT
148197 CGATA
1 CGATA
148202 TAGTTATAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTCATGTAT
Found at i:148197 original size:19 final size:18
Alignment explanation
Indices: 148141--148201 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
148131 AGCGATACAT
*
148141 TGTATCGATACAAAACTTA
1 TGTATCGATACAACAC-TA
148160 TGTATCGAT---ACA-T-
1 TGTATCGATACAACACTA
148173 TGTATCGATACAACACTCA
1 TGTATCGATACAACACT-A
148192 TGTATCGATA
1 TGTATCGATA
148202 TAGTTATAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
16 5 0.14
17 1 0.03
19 19 0.54
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAACACTA
Done.