Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold171
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: 2364178
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 278680 characters in sequence are not A, C, G, or T
File 1 of 13
Found at i:1288 original size:28 final size:28
Alignment explanation
Indices: 1183--1413 Score: 248
Period size: 28 Copynumber: 8.0 Consensus size: 28
1173 CATTCTTCAC
* *
1183 CCTTCAAAAGCCCACAAGTCAGTCGCAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* * *
1211 CTTTTTCAAAAGGCCACAGGTCAGTGGCAA
1 C--CTTCAAAAGCCCACAAGTCAGTGGCAA
*
1241 TCTTTTTC-AAAGCCCACAAGTCAGTGGCAA
1 -C--CTTCAAAAGCCCACAAGTCAGTGGCAA
1271 CCTTCAAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
1299 TCTTTTTCAAAAGCCCACAAGTTAGTGGCAA
1 -C--CTTCAAAAGCCCACAAGTCAGTGGCAA
* *
1330 CCTTCAAAAACCCATAAGTCAGTGGCAAA
1 CCTTCAAAAGCCCACAAGTCAGTGGC-AA
* *
1359 CCTTCAAAAGCCCAAAAGTCAGTGGAAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
1387 CCCTCAAAAGCCCACAAGTCTGTGGCA
1 CCTTCAAAAGCCCACAAGTCAGTGGCA
1414 TCTTTTTTCC
Statistics
Matches: 174, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.02
28 69 0.40
29 27 0.16
30 43 0.25
31 32 0.18
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:1338 original size:59 final size:59
Alignment explanation
Indices: 1185--1420 Score: 300
Period size: 59 Copynumber: 4.0 Consensus size: 59
1175 TTCTTCACCC
* * * * *
1185 TTCAAAAGCCCACAAGTCAGTCGCATCTTTTTCAAAAGGCCACAGGTCAGTGGCAATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAGCCCACAAGTCAGTGGCAATCTTT
1246 TTC-AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAATCTTT
* * * * *
1304 TTCAAAAGCCCACAAGTTAGTGGCAACCTTCAAAAACCCATAAGTCAGTGGCAAAC--C
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAATCTTT
* * * *
1361 TTCAAAAGCCCAAAAGTCAGTGGAAACCCTCAAAAGCCCACAAGTCTGTGGC-ATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAATCTTT
1419 TT
1 TT
1421 TCCTTTTAAG
Statistics
Matches: 153, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
56 2 0.01
57 45 0.29
58 34 0.22
59 48 0.31
60 21 0.14
61 3 0.02
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAATCTTT
Found at i:1361 original size:88 final size:87
Alignment explanation
Indices: 1183--1413 Score: 281
Period size: 88 Copynumber: 2.7 Consensus size: 87
1173 CATTCTTCAC
* * * *
1183 CCTTCAAAAGCCCACAAGTCAGTCGCATCTTTTTCAAAAGGCCACAGGTCAGTGGCAATCTTTTT
1 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAAGCCCACAAGTCAGTGGCAATC-TCTT
*
1248 CAAAGCCCACAAGTCAGTGGCAA
65 CAAAACCCACAAGTCAGTGGCAA
*
1271 CCTTCAAAAGCCCACAAGTCAGTGGCAATCTTTTTCAAAAGCCCACAAGTTAGTGGCAA-C-CTT
1 CCTTCAAAAGCCCACAAGTCAGTGGC-ATCTTTTTCAAAAGCCCACAAGTCAGTGGCAATCTCTT
*
1334 CAAAAACCCATAAGTCAGTGGCAAA
65 C-AAAACCCACAAGTCAGTGGC-AA
* * * ** *
1359 CCTTCAAAAGCCCAAAAGTCAGTGGAAAC--CCTCAAAAGCCCACAAGTCTGTGGCA
1 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAAGCCCACAAGTCAGTGGCA
1414 TCTTTTTTCC
Statistics
Matches: 126, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
85 22 0.17
86 3 0.02
87 20 0.16
88 52 0.41
89 29 0.23
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (87 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAAGCCCACAAGTCAGTGGCAATCTCTTC
AAAACCCACAAGTCAGTGGCAA
Found at i:1453 original size:34 final size:33
Alignment explanation
Indices: 1398--1584 Score: 166
Period size: 34 Copynumber: 5.6 Consensus size: 33
1388 CCTCAAAAGC
* * *
1398 CCACAAGTCTGTGGCATCTTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCA-CCTTTTTCCTTTTAAGT
* * * * *
1432 CCACAATTTCGTGTCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTT-AAGT
*
1466 CCACAACTCTGTGGCA-CTTTTT--TTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
* * *
1496 CCACGACTCCGTGGCACCCTTTTCCCTTTTAAGC
1 CCACAACTCCGTGGCA-CCTTTTTCCTTTTAAGT
* *
1530 CCACACCTCCGTGGCATCCCTTTTTCC-TATAAGT
1 CCACAACTCCGTGGCA--CCTTTTTCCTTTTAAGT
*
1564 CCACAATTCCGTGGCACCTTT
1 CCACAACTCCGTGGCACCTTT
1585 AAGCCCAATA
Statistics
Matches: 124, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
30 17 0.14
31 4 0.03
32 10 0.08
33 17 0.14
34 67 0.54
35 9 0.07
ACGTcount: A:0.18, C:0.32, G:0.13, T:0.37
Consensus pattern (33 bp):
CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
Found at i:1653 original size:49 final size:49
Alignment explanation
Indices: 1581--1996 Score: 298
Period size: 49 Copynumber: 8.9 Consensus size: 49
1571 TCCGTGGCAC
* * * *
1581 CTTTAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCAT
1 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
1630 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACATTCAT
1 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
1679 CTTTAAGACCAATGTCGTTAGCCCTGAATCAGCACATTGG------CA-
1 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * ** *
1721 C---GAGCCCAATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * *
1767 CTTTAAGTCTAATATCGTTGGCCTTGAATTAGCATATTGGCGCCTTCGTCAT
1 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACC-T--TCAT
* *** * *
1819 CTTTAAGACCAAGGTCACCGGCTTTGAATCAGCACATTGG------CA-
1 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * ** *
1861 ---TAAGCCCAATATTGTTGGCCTTGAATCAATATATTGGCACCTT-GT
1 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTCAT
* ** * *
1906 CGTTAAGACCAATGTCACTGGCCTTGAATTAGCATATTGGCACTTTCAT
1 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
1955 CTTTAAGTCCGATATCGTTGGCCTTGAATTAGCATATTGGCA
1 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCA
1997 TCTTTAACAT
Statistics
Matches: 282, Mismatches: 61, Indels: 48
0.72 0.16 0.12
Matches are distributed among these distances:
39 56 0.20
42 1 0.00
43 4 0.01
45 2 0.01
46 1 0.00
48 34 0.12
49 149 0.53
50 1 0.00
52 34 0.12
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (49 bp):
CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTCAT
Found at i:1795 original size:88 final size:88
Alignment explanation
Indices: 1638--1807 Score: 250
Period size: 88 Copynumber: 1.9 Consensus size: 88
1628 ATCTTTAAGA
** *
1638 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACATTCATCTTTAAGACCAATGTCGTTAGCCC
1 CCAATGTCGCCGGCCTTGAATCAGCACATTGGCACATTCATCTTTAAGACCAATATCGTTAGCCC
1703 TGAATCAGCACATTGGCACGAGC
66 TGAATCAGCACATTGGCACGAGC
* * * * *
1726 CCAATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGTTGGCCT
1 CCAATGTCGCCGGCCTTGAATCAGCACATTGGCACATTCATCTTTAAGACCAATATCGTTAGCCC
* *
1791 TGAATTAGCATATTGGC
66 TGAATCAGCACATTGGC
1808 GCCTTCGTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 72 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (88 bp):
CCAATGTCGCCGGCCTTGAATCAGCACATTGGCACATTCATCTTTAAGACCAATATCGTTAGCCC
TGAATCAGCACATTGGCACGAGC
Found at i:9455 original size:79 final size:79
Alignment explanation
Indices: 9302--9655 Score: 326
Period size: 79 Copynumber: 4.5 Consensus size: 79
9292 CCTATCTTGA
* * * *
9302 CCCTCGAAAACAACAAGGTTGGAGTAT-CTCCGATGATGAAAAATCGATATTTTAAAAATAGAAT
1 CCCTCGAAAATAACAAGGTTGGAGTATCCT-CGATGGTGGAAAATCGATATTTTAAAAATAAAAT
* *
9366 CAAAGTTGGAGTATC
65 CGAGGTTGGAGTATC
** *
9381 CCCTTAAAAATAACAAGGTTAGAGTATCCTCGATGGTGGAAAATCGATATTTTAAAAATAAAA-C
1 CCCTCGAAAATAACAAGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAAAAATAAAATC
* *
9445 TGGGGATGGAGTATC
66 -GAGGTTGGAGTATC
* * * * * ** *
9460 TCCTCG-AAATAAC-AGTGATGGAGTATCCCCGATAGTGAAAAATTTATTTTTTAAAAA-AAGAA
1 CCCTCGAAAATAACAAG-GTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAAAAATAA-AA
*
9522 -CTAGGTTGGAGTATC
64 TCGAGGTTGGAGTATC
*** * * *
9537 CCCTCGAAAATAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCGATATTTTAAAAATAGAATC
1 CCCTCGAAAATAACAAGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAAAAATAAAATC
*
9602 GGGGTTGGAGTATC
66 GAGGTTGGAGTATC
* ** **
9616 TCCTCGAAAATAACGGGGTTAAAGTA-CCTCTGATGGTGGA
1 CCCTCGAAAATAACAAGGTTGGAGTATCCTC-GATGGTGGA
9656 GTATCCCCTC
Statistics
Matches: 224, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
77 20 0.09
78 91 0.41
79 111 0.50
80 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (79 bp):
CCCTCGAAAATAACAAGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAAAAATAAAATC
GAGGTTGGAGTATC
Found at i:9516 original size:78 final size:79
Alignment explanation
Indices: 9303--9629 Score: 315
Period size: 78 Copynumber: 4.2 Consensus size: 79
9293 CTATCTTGAC
* * * * * *
9303 CCTCGAAAACAACAAGGTTGGAGTATCTCCGAT-GATGAAAAATCGATATTTTAAAAATAGAA-T
1 CCTCGAAAATAACAGGGATGGAGTATCCCCGATAG-TGGAAAATCGATATTTTAAAAATAAAACT
*** *
9366 CAAAGTTGGAGTATCC
65 -GGGGTTGGAGTATCT
** * * * * *
9382 CCTTAAAAATAACAAGGTTAGAGTATCCTCGATGGTGGAAAATCGATATTTTAAAAATAAAACTG
1 CCTCGAAAATAACAGGGATGGAGTATCCCCGATAGTGGAAAATCGATATTTTAAAAATAAAACTG
*
9447 GGGATGGAGTATCT
66 GGGTTGGAGTATCT
* * ** *
9461 CCTCG-AAATAACAGTGATGGAGTATCCCCGATAGTGAAAAATTTATTTTTTAAAAA-AAGAACT
1 CCTCGAAAATAACAGGGATGGAGTATCCCCGATAGTGGAAAATCGATATTTTAAAAATAA-AACT
* *
9524 -AGGTTGGAGTATCC
65 GGGGTTGGAGTATCT
** * *
9538 CCTCGAAAATAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCGATATTTTAAAAATAGAA-TC
1 CCTCGAAAATAACAGGGATGGAGTATCCCCGATAGTGGAAAATCGATATTTTAAAAATAAAACT-
9602 GGGGTTGGAGTATCT
65 GGGGTTGGAGTATCT
9617 CCTCGAAAATAAC
1 CCTCGAAAATAAC
9630 GGGGTTAAAG
Statistics
Matches: 201, Mismatches: 40, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
77 19 0.09
78 90 0.45
79 90 0.45
80 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (79 bp):
CCTCGAAAATAACAGGGATGGAGTATCCCCGATAGTGGAAAATCGATATTTTAAAAATAAAACTG
GGGTTGGAGTATCT
Found at i:9611 original size:156 final size:158
Alignment explanation
Indices: 9303--9629 Score: 421
Period size: 156 Copynumber: 2.1 Consensus size: 158
9293 CTATCTTGAC
* * * *
9303 CCTCGAAAACAACAAG-GTTGGAGTATCTCCGATGATGAAAAATCGATATTTTAAAAATAGAATC
1 CCTCGAAAATAAC-AGTGATGGAGTATCCCCGATGATGAAAAATCGATATTTTAAAAAAAGAATC
* * *
9367 AAAGTTGGAGTATCCCCTTAAAAATAACAAGGTTAGAGTATCCTCGATGGTGGAAAATCGATATT
65 AAAGTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATAGTGGAAAATCGATATT
9432 TTAAAAATAAAACTGGGGATGGAGTATCT
130 TTAAAAATAAAACTGGGGATGGAGTATCT
** *
9461 CCTCG-AAATAACAGTGATGGAGTATCCCCGAT-AGTGAAAAATTTATTTTTTAAAAAAAGAA-C
1 CCTCGAAAATAACAGTGATGGAGTATCCCCGATGA-TGAAAAATCGATATTTTAAAAAAAGAATC
* * * *** *
9523 TAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCGATATT
65 AAAGTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATAGTGGAAAATCGATATT
* *
9588 TTAAAAATAGAA-TCGGGGTTGGAGTATCT
130 TTAAAAATAAAACT-GGGGATGGAGTATCT
9617 CCTCGAAAATAAC
1 CCTCGAAAATAAC
9630 GGGGTTAAAG
Statistics
Matches: 146, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
155 1 0.01
156 89 0.61
157 51 0.35
158 5 0.03
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (158 bp):
CCTCGAAAATAACAGTGATGGAGTATCCCCGATGATGAAAAATCGATATTTTAAAAAAAGAATCA
AAGTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATAGTGGAAAATCGATATTT
TAAAAATAAAACTGGGGATGGAGTATCT
Found at i:9696 original size:45 final size:45
Alignment explanation
Indices: 9607--9701 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
9597 GAATCGGGGT
* * *
9607 TGGAGTATCTCCTCGAAAATAACGGGGTTAAAGTACCTCTGATGG
1 TGGAGTATCCCCTCGAAAATAACGGGGTTAAACTACCTCCGATGG
* * **
9652 TGGAGTATCCCCTCGATAATAACGGGGTTAGACTGTCTCCGATGG
1 TGGAGTATCCCCTCGAAAATAACGGGGTTAAACTACCTCCGATGG
9697 TGGAG
1 TGGAG
9702 AAAATTATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (45 bp):
TGGAGTATCCCCTCGAAAATAACGGGGTTAAACTACCTCCGATGG
Found at i:12228 original size:21 final size:21
Alignment explanation
Indices: 12202--12256 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
12192 GTTACAAGCA
*
12202 ATGTATCGATACAATT-TCATC
1 ATGTATCGATACAATTGTC-CC
12223 ATGTATCGATAC-ATTGTCCC
1 ATGTATCGATACAATTGTCCC
*
12243 ATGTATCGTTACAA
1 ATGTATCGATACAA
12257 ACAACGGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACAATTGTCCC
Found at i:12753 original size:28 final size:28
Alignment explanation
Indices: 12722--12776 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
12712 GAATTTTCGG
12722 GGTAGCGTTTACCTTACCAATTCGTATA
1 GGTAGCGTTTACCTTACCAATTCGTATA
12750 GGTAGCGTTTACCTTACCAATTCGTAT
1 GGTAGCGTTTACCTTACCAATTCGTAT
12777 TGGCTTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (28 bp):
GGTAGCGTTTACCTTACCAATTCGTATA
Found at i:14864 original size:13 final size:13
Alignment explanation
Indices: 14846--14886 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
14836 AATAGTACCT
14846 AATGTATCGATAC
1 AATGTATCGATAC
14859 AATGTATCGATAC
1 AATGTATCGATAC
14872 AATGTATCGATAC
1 AATGTATCGATAC
14885 AA
1 AA
14887 GGAATGTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:15058 original size:31 final size:29
Alignment explanation
Indices: 15017--15078 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
15007 GACCTTAATT
* *
15017 CATATCAAACATGCATAATTCAATCATACAA
1 CATAACAAACAT-CAAAATTCAATCA-ACAA
*
15048 CATAACAAACATCAAAATTCATTCAACAA
1 CATAACAAACATCAAAATTCAATCAACAA
15077 CA
1 CA
15079 AAGCATGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.21
30 11 0.39
31 11 0.39
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.23
Consensus pattern (29 bp):
CATAACAAACATCAAAATTCAATCAACAA
Found at i:21090 original size:13 final size:13
Alignment explanation
Indices: 21049--21097 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
21039 CCGTTACAAG
*
21049 CAATGTATCAATA
1 CAATGTATCGATA
21062 CAAT-T-TC-AT-
1 CAATGTATCGATA
21071 C-ATGTATCGATA
1 CAATGTATCGATA
21083 CAATGTATCGATA
1 CAATGTATCGATA
21096 CA
1 CA
21098 TTGTCCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:21113 original size:33 final size:34
Alignment explanation
Indices: 21049--21118 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
21039 CCGTTACAAG
*
21049 CAATGTATCAATACAATTTCATCATGTATCGATA
1 CAATGTATCAATACAATTTCACCATGTATCGATA
*
21083 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
1 CAATGTATCAATACAATT-TCACCATGTATCGATA
21116 CAA
1 CAA
21119 ACAGTGATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (34 bp):
CAATGTATCAATACAATTTCACCATGTATCGATA
Found at i:22653 original size:20 final size:21
Alignment explanation
Indices: 22599--22656 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
22589 TACATAAGAA
22599 AATGTATCGATACATGCTTAC
1 AATGTATCGATACATGCTTAC
* * **
22620 AATGGTACCGATACAT-TTTTT
1 AAT-GTATCGATACATGCTTAC
22641 AATGTATCGATACATG
1 AATGTATCGATACATG
22657 TAGGCAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 11 0.37
21 8 0.27
22 11 0.37
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATGCTTAC
Found at i:25103 original size:76 final size:76
Alignment explanation
Indices: 25019--25452 Score: 273
Period size: 76 Copynumber: 5.7 Consensus size: 76
25009 ATTTATCGGA
* *** * * *
25019 GATACTCCAACCCTATTATTTCCGAAAGGATACTGCAACATTGTTCTTATTTCTTAAAATATCGA
1 GATACTCCAACCCTATTATTTCCGAAAGGATACTCCAACCCCGTTTTTATTTCTAAAAATATCAA
25084 TTTTTATTGAG
66 TTTTTATTGAG
* * * * *
25095 GATACTCCAACTCC-ATTATTTTC-AATAAGATACTCCAACCCCATTTTTACTTCTAAAAATGTC
1 GATACTCCAAC-CCTATTATTTCCGAA-AGGATACTCCAACCCCGTTTTTATTTCTAAAAATATC
25158 AATTTTTATT-AGG
64 AATTTTTATTGA-G
* * *
25171 GATACTCCAA-CCTCATTATTTCCGAGAGCATACTTCAACCCCGTTTTTACTTTC-AAAAATATC
1 GATACTCCAACCCT-ATTATTTCCGAAAGGATACTCCAACCCCGTTTTTA-TTTCTAAAAATATC
* *
25234 AATTTTCATTGGG
64 AATTTTTATTGAG
* * * * * * *
25247 GATACTCCAACCCCATTAATT-CG-AGGGAATACTTCAACCCCATTTTTATTT-TCAAAATATCG
1 GATACTCCAACCCTATTATTTCCGAAAGG-ATACTCCAACCCCGTTTTTATTTCTAAAAATATCA
25309 ATTTTTCACCATTG-G
65 ATTTTT----ATTGAG
* * * * ** * *
25324 GAATACTCCAACCCCATTATTTCTG-AGGAGATACTTCAACCCTATTTTTA-TTC-CAAAATATT
1 G-ATACTCCAACCCTATTATTTCCGAAAG-GATACTCCAACCCCGTTTTTATTTCTAAAAATATC
*
25386 GATCTTTTACTATCG-G
64 AAT-TTTTA-T-T-GAG
* * ** **
25402 GAATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCTATTTTTAT
1 G-ATACTCCAACCCTATTATTTCCGAAAGGATACTCCAACCCCGTTTTTAT
25453 CTCCAAAATA
Statistics
Matches: 294, Mismatches: 39, Indels: 47
0.77 0.10 0.12
Matches are distributed among these distances:
74 19 0.06
75 25 0.09
76 128 0.44
77 11 0.04
78 81 0.28
79 29 0.10
80 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (76 bp):
GATACTCCAACCCTATTATTTCCGAAAGGATACTCCAACCCCGTTTTTATTTCTAAAAATATCAA
TTTTTATTGAG
Found at i:25381 original size:78 final size:79
Alignment explanation
Indices: 25065--25463 Score: 334
Period size: 76 Copynumber: 5.2 Consensus size: 79
25055 AACATTGTTC
* * * **
25065 TTATTTCTTAAAATATCGATTTTT---ATTGAGG-ATACTCCAACTCCATTATTT-TCAATA-AG
1 TTATTTC-CAAAATATCGATTTTTACCATTG-GGAATACTCCAACCCCATTATTTCTGAGGAGA-
*
25124 ATACTCCAACCCCATTT
63 ATACTTCAACCCCATTT
* * * * * * *
25141 TTACTTCTAAAAATGTCAATTTTT---ATTAGGG-ATACTCCAACCTCATTATTTCCGA-GAGCA
1 TTATTTC-CAAAATATCGATTTTTACCATT-GGGAATACTCCAACCCCATTATTTCTGAGGAGAA
*
25201 TACTTCAACCCCGTTT
64 TACTTCAACCCCATTT
* * * *
25217 TTACTTTCAAAAATATC-AATTTT--CATTGGGGATACTCCAACCCCATTAATTC-GAGG-GAAT
1 TTA-TTTCCAAAATATCGATTTTTACCATTGGGAATACTCCAACCCCATTATTTCTGAGGAGAAT
25277 ACTTCAACCCCATTT
65 ACTTCAACCCCATTT
*
25292 TTATTTTCAAAATATCGATTTTTCACCATTGGGAATACTCCAACCCCATTATTTCTGAGGAG-AT
1 TTATTTCCAAAATATCGATTTTT-ACCATTGGGAATACTCCAACCCCATTATTTCTGAGGAGAAT
*
25356 ACTTCAACCCTATTT
65 ACTTCAACCCCATTT
* * * *
25371 TTA-TTCCAAAATATTGATCTTTTACTATCGGGAATACTCCAACCCCATTATTT-TCGAGG-GGA
1 TTATTTCCAAAATATCGAT-TTTTACCATTGGGAATACTCCAACCCCATTATTTCT-GAGGAGAA
* *
25433 TACTCCAACCCTATTT
64 TACTTCAACCCCATTT
*
25449 TTATCTCCAAAATAT
1 TTATTTCCAAAATAT
25464 TAAATTTTTT
Statistics
Matches: 275, Mismatches: 31, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
74 11 0.04
75 35 0.13
76 93 0.34
77 7 0.03
78 91 0.33
79 37 0.13
80 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (79 bp):
TTATTTCCAAAATATCGATTTTTACCATTGGGAATACTCCAACCCCATTATTTCTGAGGAGAATA
CTTCAACCCCATTT
Found at i:25482 original size:78 final size:77
Alignment explanation
Indices: 25084--25494 Score: 342
Period size: 78 Copynumber: 5.3 Consensus size: 77
25074 AAAATATCGA
* * *** *
25084 TTTTTATTGAGG-ATACTCCAACTCCATTATTTTCAATAAGATACTCCAACCCCATTTTTA-CTT
1 TTTTTATTG-GGAATACTCCAACCCCATTATTTTCGAGGGGATACTTCAACCCCATTTTTATC-T
*
25147 CTAAAA-ATGTCAA-
64 CCAAAATAT-TCAAT
* * * * * *
25160 TTTTTATTAGGG-ATACTCCAACCTCATTATTTCCGAGAGCATACTTCAACCCCGTTTTTACTTT
1 TTTTTATT-GGGAATACTCCAACCCCATTATTTTCGAGGGGATACTTCAACCCCATTTTTA-TCT
*
25224 CAAAAATA-TCAA-
64 CCAAAATATTCAAT
* * * * * *
25236 TTTTCATTGGGGATACTCCAACCCCATTA-ATTCGAGGGAATACTTCAACCCCATTTTTATTTTC
1 TTTTTATTGGGAATACTCCAACCCCATTATTTTCGAGGGGATACTTCAACCCCATTTTTATCTCC
*
25300 AAAATA-TCGAT
66 AAAATATTCAAT
* * *
25311 TTTTCACCATTGGGAATACTCCAACCCCATTA-TTTCTGAGGAGATACTTCAACCCTATTTTTAT
1 TTTT---TATTGGGAATACTCCAACCCCATTATTTTC-GAGGGGATACTTCAACCCCATTTTTAT
*
25375 -TCCAAAATATT-GAT
62 CTCCAAAATATTCAAT
* * *
25389 CTTTTACTATCGGGAATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCTATTTTTATC
1 -TTTT--TATTGGGAATACTCCAACCCCATTATTTTCGAGGGGATACTTCAACCCCATTTTTATC
*
25454 TCCAAAATATTAAAT
63 TCCAAAATATTCAAT
25469 TTTTTATTAGGGAATGTACTCCAACC
1 TTTTTATT-GGGAA--TACTCCAACC
25495 TCGTACTCTA
Statistics
Matches: 284, Mismatches: 33, Indels: 32
0.81 0.09 0.09
Matches are distributed among these distances:
74 12 0.04
75 32 0.11
76 76 0.27
77 10 0.04
78 94 0.33
79 48 0.17
80 12 0.04
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (77 bp):
TTTTTATTGGGAATACTCCAACCCCATTATTTTCGAGGGGATACTTCAACCCCATTTTTATCTCC
AAAATATTCAAT
Found at i:25829 original size:26 final size:23
Alignment explanation
Indices: 25778--25821 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
25768 GGATATGATT
*
25778 AAATGTTTTTCAAGCAATAAATC
1 AAATGTTTTTCAAGAAATAAATC
25801 AAATGTTTTTCAAGAAA-AAAT
1 AAATGTTTTTCAAGAAATAAAT
25822 AATTCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (23 bp):
AAATGTTTTTCAAGAAATAAATC
Found at i:25930 original size:20 final size:21
Alignment explanation
Indices: 25893--25931 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
25883 AGGTCAAAAT
**
25893 CCTAGAATGTATTGATACACA
1 CCTAGAATGTATCAATACACA
25914 CCTAG-ATGTATCAATACA
1 CCTAGAATGTATCAATACA
25932 TATTGCTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (21 bp):
CCTAGAATGTATCAATACACA
Found at i:26428 original size:20 final size:21
Alignment explanation
Indices: 26383--26438 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
26373 AAAACCCTTG
26383 TTTGTATCGATACA-TATCCA
1 TTTGTATCGATACATTATCCA
** *
26403 GATGTATCGATACATTATGC-
1 TTTGTATCGATACATTATCCA
26423 TTTGTATCGATACATT
1 TTTGTATCGATACATT
26439 GTATCGATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (21 bp):
TTTGTATCGATACATTATCCA
Found at i:26442 original size:13 final size:13
Alignment explanation
Indices: 26424--26450 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26414 ACATTATGCT
26424 TTGTATCGATACA
1 TTGTATCGATACA
26437 TTGTATCGATACA
1 TTGTATCGATACA
26450 T
1 T
26451 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:26480 original size:20 final size:19
Alignment explanation
Indices: 26434--26490 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
26424 TTGTATCGAT
*
26434 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
*
26453 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
26472 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
26491 AAACTGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:28089 original size:67 final size:67
Alignment explanation
Indices: 27981--28108 Score: 238
Period size: 67 Copynumber: 1.9 Consensus size: 67
27971 CAAAGGCACT
* *
27981 ACAATCGAAGAGTCCAAGGATCCCAACACTCTATCCTTGGATAAGCTCATAGGTTCTCTATCCTT
1 ACAATCGAAAAGTCCAAGAATCCCAACACTCTATCCTTGGATAAGCTCATAGGTTCTCTATCCTT
28046 GG
66 GG
28048 ACAATCGAAAAGTCCAAGAATCCCAACACTCTATCCTTGGATAAGCTCATAGGTTCTCTAT
1 ACAATCGAAAAGTCCAAGAATCCCAACACTCTATCCTTGGATAAGCTCATAGGTTCTCTAT
28109 TAACCTATGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (67 bp):
ACAATCGAAAAGTCCAAGAATCCCAACACTCTATCCTTGGATAAGCTCATAGGTTCTCTATCCTT
GG
Found at i:28216 original size:12 final size:12
Alignment explanation
Indices: 28193--28226 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
28183 ACCATCAAAG
*
28193 ATAATGAAGATA
1 ATAATGATGATA
*
28205 ATGATGATGATA
1 ATAATGATGATA
28217 ATAATGATGA
1 ATAATGATGA
28227 AGCTGACTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (12 bp):
ATAATGATGATA
Found at i:32760 original size:13 final size:13
Alignment explanation
Indices: 32710--32768 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
32700 GAAACCCAGA
32710 TGTATCGATACAT
1 TGTATCGATACAT
* *
32723 TGAATCGATACAA
1 TGTATCGATACAT
32736 TGT-TC--T---T
1 TGTATCGATACAT
32743 TGTATCGATACAT
1 TGTATCGATACAT
32756 TGTATCGATACAT
1 TGTATCGATACAT
32769 AGGTTACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
7 3 0.08
8 2 0.06
10 2 0.06
12 2 0.06
13 27 0.75
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:36942 original size:13 final size:13
Alignment explanation
Indices: 36924--36949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36914 CAATTTTTTG
36924 TGTATCGATACAT
1 TGTATCGATACAT
36937 TGTATCGATACAT
1 TGTATCGATACAT
36950 ACTTGCTATA
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):
TGTATCGATACAT
Found at i:39500 original size:13 final size:13
Alignment explanation
Indices: 39482--39520 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
39472 ATAATCACCC
39482 TGTATCGATACAA
1 TGTATCGATACAA
39495 TGTATCGATACAA
1 TGTATCGATACAA
39508 TGTATCGATACAA
1 TGTATCGATACAA
39521 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:43462 original size:21 final size:21
Alignment explanation
Indices: 43433--43477 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
43423 AAGTTTTCAT
*
43433 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
43453 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
43475 TTT
1 TTT
43478 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:45712 original size:13 final size:13
Alignment explanation
Indices: 45694--45719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45684 CAATTTTTTG
45694 TGTATCGATACAT
1 TGTATCGATACAT
45707 TGTATCGATACAT
1 TGTATCGATACAT
45720 ACTTACTGTA
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):
TGTATCGATACAT
Found at i:46665 original size:20 final size:20
Alignment explanation
Indices: 46640--46764 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
46630 TTTTACCTAG
*
46640 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * *
46660 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
46680 ATGTATCGATAGATTCTTCA
1 ATGTATCGATACATTTTTCA
46700 ATGTATCGATACATTCTATCTTTTTACCCAA
1 ATGTATCGAT--A--C-A--TTTTT---C-A
46731 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
46751 ATGTATCGATACAT
1 ATGTATCGATACAT
46765 CTAGTTAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 57 0.68
21 1 0.01
22 1 0.01
24 5 0.06
25 1 0.01
26 1 0.01
27 5 0.06
29 1 0.01
30 1 0.01
31 11 0.13
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:47998 original size:20 final size:21
Alignment explanation
Indices: 47959--47998 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
47949 TAATACTCTT
*
47959 GAAAAGAAAGTAAATGAGTTG
1 GAAAAGAAAATAAATGAGTTG
*
47980 GAAAA-AAAATAAGTGAGTT
1 GAAAAGAAAATAAATGAGTT
47999 ACAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAGTTG
Found at i:48031 original size:21 final size:22
Alignment explanation
Indices: 47984--48034 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
47974 GAGTTGGAAA
47984 AAAAATAAGTGAGTTACAAAAT
1 AAAAATAAGTGAGTTACAAAAT
* *
48006 TAAAATAA-TGAGTTA-ACTAAT
1 AAAAATAAGTGAGTTACA-AAAT
48027 AAAAATAA
1 AAAAATAA
48035 AAAGTTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.25
Consensus pattern (22 bp):
AAAAATAAGTGAGTTACAAAAT
Found at i:49357 original size:13 final size:13
Alignment explanation
Indices: 49339--49365 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49329 ACATGTTGCT
49339 TTGTATCGATACA
1 TTGTATCGATACA
49352 TTGTATCGATACA
1 TTGTATCGATACA
49365 T
1 T
49366 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:49362 original size:33 final size:32
Alignment explanation
Indices: 49320--49384 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 32
49310 CACACCCAGA
*
49320 TGTATCGATACATGTTGCTTTGTATCGATACAT
1 TGTATCGATACATGTT-CATTGTATCGATACAT
49353 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTTCATTGTATCGATACAT
49385 AGCCAAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:49472 original size:13 final size:13
Alignment explanation
Indices: 49451--49481 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49441 CGATACATGG
*
49451 TACAATGTATCGA
1 TACATTGTATCGA
49464 TACATTGTATCGA
1 TACATTGTATCGA
49477 TACAT
1 TACAT
49482 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:49472 original size:33 final size:32
Alignment explanation
Indices: 49435--49501 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
49425 CTATCACTAT
49435 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
49468 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
49501 T
1 T
49502 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:55650 original size:20 final size:20
Alignment explanation
Indices: 55625--55689 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
55615 AAAACCCAGA
55625 TGTATCGATACAACATTCCT
1 TGTATCGATACAACATTCCT
55645 TGTATCGAT---ACA----T
1 TGTATCGATACAACATTCCT
55658 TGTATCGATACAACATTCCT
1 TGTATCGATACAACATTCCT
55678 TGTATCGATACA
1 TGTATCGATACA
55690 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
16 3 0.08
17 3 0.08
20 22 0.58
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAACATTCCT
Found at i:55662 original size:13 final size:13
Alignment explanation
Indices: 55644--55705 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
55634 ACAACATTCC
55644 TTGTATCGATACA
1 TTGTATCGATACA
55657 TTGTATCGATACA
1 TTGTATCGATACA
* *
55670 ----A-C-ATTCC
1 TTGTATCGATACA
55677 TTGTATCGATACA
1 TTGTATCGATACA
55690 TTGTATCGATACA
1 TTGTATCGATACA
55703 TTG
1 TTG
55706 GGTACTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
9 1 0.03
11 1 0.03
12 1 0.03
13 32 0.82
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:55667 original size:33 final size:33
Alignment explanation
Indices: 55625--55702 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
55615 AAAACCCAGA
55625 TGTATCGATACAACATTCCTTGTATCGATACAT
1 TGTATCGATACAACATTCCTTGTATCGATACAT
55658 TGTATCGATACAACATTCCTTGTATCGATACAT
1 TGTATCGATACAACATTCCTTGTATCGATACAT
55691 TGTATCGATACA
1 TGTATCGATACA
55703 TTGGGTACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAACATTCCTTGTATCGATACAT
Found at i:57581 original size:18 final size:19
Alignment explanation
Indices: 57550--57589 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
57540 ATAAATTTTT
*
57550 ATATAAAAAGGGGGAGAAG
1 ATATAAAAAGGGGGAAAAG
57569 ATATAAAAA-GGGGAAAAG
1 ATATAAAAAGGGGGAAAAG
57587 ATA
1 ATA
57590 ATCGTTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.12
Consensus pattern (19 bp):
ATATAAAAAGGGGGAAAAG
Found at i:57616 original size:17 final size:17
Alignment explanation
Indices: 57594--57647 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
57584 AAGATAATCG
57594 TTTAAGGGGGAGAATTT
1 TTTAAGGGGGAGAATTT
* * **
57611 TTTAAGAGGAGATAATCG
1 TTTAAG-GGGGAGAATTT
57629 TTTAAGGGGGAGAATTT
1 TTTAAGGGGGAGAATTT
57646 TT
1 TT
57648 GTTTAAGGGG
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.35
Consensus pattern (17 bp):
TTTAAGGGGGAGAATTT
Found at i:57634 original size:18 final size:17
Alignment explanation
Indices: 57585--57636 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
57575 AAAGGGGAAA
57585 AGATAATCGTTTAAGGG
1 AGATAATCGTTTAAGGG
* * **
57602 GGAGAATTTTTTAAGAGG
1 AGATAATCGTTTAAG-GG
57620 AGATAATCGTTTAAGGG
1 AGATAATCGTTTAAGGG
57637 GGAGAATTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.35, C:0.04, G:0.31, T:0.31
Consensus pattern (17 bp):
AGATAATCGTTTAAGGG
Found at i:58181 original size:13 final size:13
Alignment explanation
Indices: 58163--58188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58153 AACCCTTAAA
58163 TGTATCGATACAT
1 TGTATCGATACAT
58176 TGTATCGATACAT
1 TGTATCGATACAT
58189 GTTCATTGTA
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):
TGTATCGATACAT
Found at i:58219 original size:21 final size:19
Alignment explanation
Indices: 58173--58229 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
58163 TGTATCGATA
**
58173 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGGC
58192 CATTGTATCGATACATGGC
1 CATTGTATCGATACATGGC
58211 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
58230 AAGCTGGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGGC
Found at i:61284 original size:20 final size:20
Alignment explanation
Indices: 61248--61288 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
61238 ATGTATCAAA
*
61248 ACATATTGCTTAGTATCGAT
1 ACATATTGATTAGTATCGAT
61268 ACATATTGAATTA-TATCGAT
1 ACATATTG-ATTAGTATCGAT
61288 A
1 A
61289 TATGTAACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (20 bp):
ACATATTGATTAGTATCGAT
Found at i:61887 original size:35 final size:36
Alignment explanation
Indices: 61816--61887 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
61806 TTAAGTGGTT
**
61816 GAGAGGTTCTATCTTAGCCTTTGGAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCCATGGAAAAGATAGGGA
61852 GAGAGGTTCTATCTTAGCCCATGG-AAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCCATGGAAAAGATAGGGA
61887 G
1 G
61888 GTTTTTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 12 0.35
36 22 0.65
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCCATGGAAAAGATAGGGA
Found at i:61902 original size:32 final size:33
Alignment explanation
Indices: 61816--61913 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 33
61806 TTAAGTGGTT
*
61816 GAGAGGTTCTATCTTAGCCTTTGGAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCC-CTGG-AAAGATA-GGA
61852 GAGAGGTTCTATCTTAGCCCATGGAAAGATAGG-
1 GAGAGGTTCTATCTTAGCCC-TGGAAAGATAGGA
* *
61885 GAG-GTTTTTATCTTAGCCCT-GAAAGATAG
1 GAGAGGTTCTATCTTAGCCCTGGAAAGATAG
61914 TGTTGTAAGG
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
30 9 0.16
31 1 0.02
32 14 0.24
33 3 0.05
34 2 0.03
35 7 0.12
36 22 0.38
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.29
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCCCTGGAAAGATAGGA
Found at i:64985 original size:19 final size:20
Alignment explanation
Indices: 64952--65000 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
64942 AATTTAGTAC
*
64952 TCCCCTTAACAAAATTTTCT
1 TCCCTTTAACAAAATTTTCT
*
64972 TCCCTTTAAC-AAATTTTTT
1 TCCCTTTAACAAAATTTTCT
64991 TCCCCTTTAA
1 T-CCCTTTAA
65001 GAGAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.45
Consensus pattern (20 bp):
TCCCTTTAACAAAATTTTCT
Found at i:65158 original size:42 final size:40
Alignment explanation
Indices: 65101--65178 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 40
65091 AGCTTTAAAA
*
65101 CAAATTTAATTGCAAATTACTTCTTCCCTTTTTTGTTATCCCC
1 CAAATTTAATTGCAAAATACTTC-T--CTTTTTTGTTATCCCC
65144 CAAATTT-ATTGCAAAATACTTCTCTTTTTTGTTAT
1 CAAATTTAATTGCAAAATACTTCTCTTTTTTGTTAT
65179 AGCAAAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 12 0.35
41 1 0.03
42 14 0.41
43 7 0.21
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.49
Consensus pattern (40 bp):
CAAATTTAATTGCAAAATACTTCTCTTTTTTGTTATCCCC
Found at i:67457 original size:32 final size:32
Alignment explanation
Indices: 67416--67488 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
67406 ACAAATAGTG
*
67416 AATGTATCGATACATAAGTGTTGTATTGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
67448 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
67480 AATGTATCG
1 AATGTATCG
67489 CTACGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:67474 original size:19 final size:19
Alignment explanation
Indices: 67395--67480 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
67385 TTTAAAACAA
*
67395 TTTGTATCGATACAAATAGT
1 TTTGTATCGATACATA-AGT
**
67415 GAATGTATCGATACATAAGT
1 -TTTGTATCGATACATAAGT
* *
67435 GTTGTATTGATAC--AA--
1 TTTGTATCGATACATAAGT
67450 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
67467 TTTGTATCGATACA
1 TTTGTATCGATACA
67481 ATGTATCGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
13 10 0.19
15 2 0.04
17 2 0.04
19 22 0.42
20 3 0.06
21 13 0.25
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:67549 original size:13 final size:13
Alignment explanation
Indices: 67531--67555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67521 ACATTAAGGA
67531 AATGTATCGATAT
1 AATGTATCGATAT
67544 AATGTATCGATA
1 AATGTATCGATA
67556 CATTGATCTT
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:67622 original size:20 final size:21
Alignment explanation
Indices: 67589--67631 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
67579 TCTGAAAATT
*
67589 TTACCCATATGTATTGATACA
1 TTACCCATATGTATCGATACA
67610 TTACCCA-ATGTATCGATACA
1 TTACCCATATGTATCGATACA
67630 TT
1 TT
67632 CAGGCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (21 bp):
TTACCCATATGTATCGATACA
Found at i:70071 original size:79 final size:79
Alignment explanation
Indices: 69981--70281 Score: 401
Period size: 79 Copynumber: 3.8 Consensus size: 79
69971 TTTCTTAATC
* *
69981 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCGGAGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACTCCAAC
70046 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
70060 GGGGATACTCCAACCCCGGTTTTATTTCT-AAACATCAA-TTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTC-CATAATCGGGGATACTCCAA
*
70123 CCCCGTTATTTTTGA
65 CCCCGTTATTTTCGA
* * * * *
70138 GGGGATACTCCAAC-CCCAGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGAATACTCTAA
1 GGGGATACTCCAACTCCGA-TTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACTCCAA
* * *
70202 TCCCGTTATTTCCAA
65 CCCCGTTATTTTCGA
* * *
70217 GGGGATACTCCAACTCTGATTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACTCCAAC
70282 TCTGGTTAAT
Statistics
Matches: 191, Mismatches: 26, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
77 6 0.03
78 63 0.33
79 117 0.61
80 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:70323 original size:25 final size:27
Alignment explanation
Indices: 70265--70336 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 27
70255 ATTCTCCACA
**
70265 ATCGGGGATACTCCAACTCTGGTTAATT
1 ATCGGGGATACTCCAAC-CCCGTTAATT
70293 CATCGGGGATACTCCAACCCCGTT-ATT
1 -ATCGGGGATACTCCAACCCCGTTAATT
*
70320 -TCGGGGATACTCTAACC
1 ATCGGGGATACTCCAACC
70337 TCGGCTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
25 16 0.40
27 3 0.08
28 4 0.10
29 17 0.43
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATT
Found at i:70398 original size:51 final size:51
Alignment explanation
Indices: 70320--70440 Score: 183
Period size: 51 Copynumber: 2.4 Consensus size: 51
70310 CCCCGTTATT
* *
70320 TCGGGGATAC-TCTAACCTCGGCTTTATTT-TCAAAATATTGATTTCTCACAA
1 TCGGGGATACTTC-AACCCCGGCCTTATTTCT-AAAATATTGATTTCTCACAA
70371 TCGGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAA
1 TCGGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAA
*
70422 TCGGGGATACTCCAACCCC
1 TCGGGGATACTTCAACCCC
70441 ATTATTTTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
51 62 0.95
52 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (51 bp):
TCGGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAA
Found at i:71702 original size:25 final size:26
Alignment explanation
Indices: 71653--71703 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
71643 ATCACCCTAT
*
71653 CAATCCAATATCAAAACATTCAAACA
1 CAATCCAATATCAAAACATTAAAACA
71679 CAATCC-AT-TCAAATACATTAAAACA
1 CAATCCAATATCAAA-ACATTAAAACA
71704 ACATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 12 0.52
26 6 0.26
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (26 bp):
CAATCCAATATCAAAACATTAAAACA
Found at i:76869 original size:24 final size:23
Alignment explanation
Indices: 76842--76889 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
76832 AGAACCTCTC
*
76842 AATCTTTCAAAGAATTATACCCCA
1 AATCCTTCAAAG-ATTATACCCCA
*
76866 AATCCTTGAAAGATTATACCCCA
1 AATCCTTCAAAGATTATACCCCA
76889 A
1 A
76890 GGTTGAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.27
Consensus pattern (23 bp):
AATCCTTCAAAGATTATACCCCA
Found at i:80938 original size:40 final size:40
Alignment explanation
Indices: 80878--80959 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
80868 CTCATTCTTG
80878 TCCTCCAATATACTTAGTCATCATTGTTGAAAACTAGAGA
1 TCCTCCAATATACTTAGTCATCATTGTTGAAAACTAGAGA
*
80918 TCCTCCAATATACTTCGTCATCATTGTTGAAAACTAGAGA
1 TCCTCCAATATACTTAGTCATCATTGTTGAAAACTAGAGA
80958 TC
1 TC
80960 TCATGATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (40 bp):
TCCTCCAATATACTTAGTCATCATTGTTGAAAACTAGAGA
Found at i:81434 original size:32 final size:31
Alignment explanation
Indices: 81380--81475 Score: 115
Period size: 32 Copynumber: 3.0 Consensus size: 31
81370 ACCTTACACA
81380 CTATC-TTTCAAGGCTAAGATAGAAACCTCC
1 CTATCTTTTCAAGGCTAAGATAGAAACCTCC
*
81410 CTATCTTTTCACAGGCTAAAATAGAACCACTCTCC
1 CTATCTTTTCA-AGGCTAAGATAGAA--AC-CTCC
81445 CTATCTTTTTCAAAGGCTAAGATAG-AACCTC
1 CTATC-TTTTC-AAGGCTAAGATAGAAACCTC
81476 TTAATCACTT
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
30 5 0.09
31 5 0.09
32 16 0.28
33 2 0.04
34 2 0.04
35 10 0.18
36 16 0.28
37 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.29
Consensus pattern (31 bp):
CTATCTTTTCAAGGCTAAGATAGAAACCTCC
Found at i:81462 original size:36 final size:34
Alignment explanation
Indices: 81380--81473 Score: 124
Period size: 36 Copynumber: 2.8 Consensus size: 34
81370 ACCTTACACA
81380 CTATC-TTTC-AAGGCTAAGATAGAA--ACCTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCACCTCC
* *
81410 CTATCTTTTCACAGGCTAAAATAGAACCACTCTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCAC-CTCC
81445 CTATCTTTTTCAAAGGCTAAGATAGAACC
1 CTATC-TTTTCAAAGGCTAAGATAGAACC
81474 TCTTAATCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 13 0.24
34 2 0.04
35 9 0.17
36 21 0.39
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (34 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCACCTCC
Found at i:91127 original size:13 final size:13
Alignment explanation
Indices: 91109--91134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91099 TACAGCAAGT
91109 ATGTATCGATACA
1 ATGTATCGATACA
91122 ATGTATCGATACA
1 ATGTATCGATACA
91135 CAAAAATTGT
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:91132 original size:32 final size:32
Alignment explanation
Indices: 91091--91153 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
91081 TAGCCAAACT
**
91091 TGTATCGATACAGCAAGTA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAATTGTATCGATACAA
91123 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
91154 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:95215 original size:15 final size:15
Alignment explanation
Indices: 95195--95225 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
95185 TAAAAATGTC
*
95195 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
95210 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
95225 C
1 C
95226 CAAACGAAAT
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:97311 original size:13 final size:13
Alignment explanation
Indices: 97293--97331 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
97283 ACATTTTTCC
97293 TTGTATCGATACA
1 TTGTATCGATACA
97306 TTGTATCGATACA
1 TTGTATCGATACA
*
97319 CTGTATCGATACA
1 TTGTATCGATACA
97332 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:99793 original size:20 final size:20
Alignment explanation
Indices: 99770--99842 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
99760 ACAATTCAAA
99770 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
99790 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
99811 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
99831 GTATCGATACAT
1 GTATCGATACAT
99843 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:99813 original size:21 final size:21
Alignment explanation
Indices: 99787--99863 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
99777 TACATGTTGC
99787 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
99808 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
99828 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
99848 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
99864 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:99821 original size:41 final size:41
Alignment explanation
Indices: 99770--99863 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
99760 ACAATTCAAA
99770 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
99811 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
99852 GTATCGATACAT
1 GTATCGATACAT
99864 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:99920 original size:13 final size:13
Alignment explanation
Indices: 99902--99927 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99892 TACAGCAAGT
99902 ATGTATCGATACA
1 ATGTATCGATACA
99915 ATGTATCGATACA
1 ATGTATCGATACA
99928 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:101417 original size:52 final size:52
Alignment explanation
Indices: 101334--101433 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
101324 GAAGGTATGA
* * * *
101334 TGCCAATGTGCTGCTTCAGGGGTAGCAACATTAGATTTAAAGATGATGAGGG
1 TGCCAATGTGCTGATTCAAGGCTAGCAACATTAGACTTAAAGATGATGAGGG
* *
101386 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGATG
1 TGCCAATGTGCTGATTCAAGGCTAGCAACATTAGACTTAAAGATGATG
101434 CCACTAACTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGGCTAGCAACATTAGACTTAAAGATGATGAGGG
Found at i:101600 original size:112 final size:112
Alignment explanation
Indices: 101447--101690 Score: 341
Period size: 112 Copynumber: 2.2 Consensus size: 112
101437 CTAACTAGTA
101447 TGGGCTTTAAAAAGGAAAAAAAGAAAAGGATACCACCAACTTGTGTGGGCTTAAAAAGAGAAAAA
1 TGGGCTTTAAAAAGG-AAAAAAGAAAAGGATACCACCAACTTGTGTGGGCTTAAAAAGAGAAAAA
* *
101512 AGAAAGGCATTC-TGCTCTTTAAGGACT-AAAAGATACCACCAACTCGTG
65 AGAAAAGCA-TCATACTCTTTAAGGACTAAAAAG-TACCACCAACTCGTG
* * * *
101560 TGGGCTTTAAAAAGGAAAAAAGAAAGGGATGCCACCAACTTGTGTGGGCTTAAAAAGGGAAAAAG
1 TGGGCTTTAAAAAGGAAAAAAGAAAAGGATACCACCAACTTGTGTGGGCTTAAAAAGAGAAAAAA
* * * * *
101625 GAAAAGCATCATACTGTTTGAGGACTAAAAAGTGCCACTAACTTGTG
66 GAAAAGCATCATACTCTTTAAGGACTAAAAAGTACCACCAACTCGTG
101672 TGGGCTTTAAAAA-GAAAAA
1 TGGGCTTTAAAAAGGAAAAA
101691 GGCGAGGCAT
Statistics
Matches: 118, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
111 8 0.07
112 90 0.76
113 20 0.17
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (112 bp):
TGGGCTTTAAAAAGGAAAAAAGAAAAGGATACCACCAACTTGTGTGGGCTTAAAAAGAGAAAAAA
GAAAAGCATCATACTCTTTAAGGACTAAAAAGTACCACCAACTCGTG
Found at i:101721 original size:67 final size:68
Alignment explanation
Indices: 101589--101747 Score: 196
Period size: 67 Copynumber: 2.4 Consensus size: 68
101579 AAGAAAGGGA
*
101589 TGCCACCAACTTGTGTGGGC-TTAAAAAGGGAAAAAGGAAAAGCATCATACTGTTTGAGGACTAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAA-GGAAAAAGGAAAAGCATCATACTGTTTGAGAACTAA
101653 AAAG
65 AAAG
* ** * * * * *
101657 TGCCACTAACTTGTGTGGGCTTTAAAAA-GAAAAAGGCGAGGCATCTTGCTTTTTGAGAATTAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAAGGAAAAGCATCATACTGTTTGAGAACTAAA
*
101721 AGG
66 AAG
*
101724 TGCCACCAACTTATGTGGGCTTTA
1 TGCCACCAACTTGTGTGGGCTTTA
101748 GAAGGGTTGC
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
67 52 0.67
68 19 0.24
69 7 0.09
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (68 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAAGGAAAAGCATCATACTGTTTGAGAACTAAA
AAG
Found at i:101759 original size:31 final size:31
Alignment explanation
Indices: 101724--101945 Score: 320
Period size: 31 Copynumber: 7.2 Consensus size: 31
101714 AATTAAAAGG
* *
101724 TGCCACCAACTTATGTGGGCTTTAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGGAAGGGT
** *
101755 TGCCATTAACTTGTGTGGGCTTTAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGGAAGGGT
* * *
101786 TGCCATCGACTTGTATGGGCTTTGGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGGAAGGGT
*
101817 TGCCACCTACTTGTGTGGGCTTTGGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGGAAGGGT
*
101848 TGCCACTAACTTGTGTGGGCTTTGGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGGAAGGGT
* *
101879 TGCCACCGACTTGTGTGGGCTTTAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGGAAGGGT
*
101910 TGCCACCAACTTGTGTGGGCTTCGGAAGGG-
1 TGCCACCAACTTGTGTGGGCTTTGGAAGGGT
101940 TGCCAC
1 TGCCAC
101946 GGGGTTGTAG
Statistics
Matches: 173, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 6 0.03
31 167 0.97
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.30
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTGGAAGGGT
Found at i:101846 original size:93 final size:93
Alignment explanation
Indices: 101724--101945 Score: 356
Period size: 93 Copynumber: 2.4 Consensus size: 93
101714 AATTAAAAGG
* * *
101724 TGCCACCAACTTATGTGGGCTTTAGAAGGGTTGCCATTAACTTGTGTGGGCTTTAGAAGGGTTGC
1 TGCCACCAACTTGTGTGGGCTTTGGAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAAGGGTTGC
* *
101789 CATCGACTTGTATGGGCTTTGGAAGGGT
66 CACCGACTTGTATGGGCTTTAGAAGGGT
* *
101817 TGCCACCTACTTGTGTGGGCTTTGGAAGGGTTGCCACTAACTTGTGTGGGCTTTGGAAGGGTTGC
1 TGCCACCAACTTGTGTGGGCTTTGGAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAAGGGTTGC
*
101882 CACCGACTTGTGTGGGCTTTAGAAGGGT
66 CACCGACTTGTATGGGCTTTAGAAGGGT
*
101910 TGCCACCAACTTGTGTGGGCTTCGGAAGGG-TGCCAC
1 TGCCACCAACTTGTGTGGGCTTTGGAAGGGTTGCCAC
101946 GGGGTTGTAG
Statistics
Matches: 119, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
92 6 0.05
93 113 0.95
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.30
Consensus pattern (93 bp):
TGCCACCAACTTGTGTGGGCTTTGGAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAAGGGTTGC
CACCGACTTGTATGGGCTTTAGAAGGGT
Found at i:101971 original size:28 final size:28
Alignment explanation
Indices: 101935--102798 Score: 243
Period size: 27 Copynumber: 28.9 Consensus size: 28
101925 TGGGCTTCGG
* *
101935 AAGGGTGCCACGGGGTTGTAGACTTAAA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
* * *
101963 AATGGTGCCACAGAGTTGTGGAATTTTAAAAGAA
1 AAGGGTGCCACGGAGTTGTGG-A-CTT---A-AA
* *
101997 AATGGTGCCACAGAGTTGTGGACTT-AA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
*
102024 AAGGGTGCCACGGGGTTGTGGA-TTGAAA
1 AAGGGTGCCACGGAGTTGTGGACTT-AAA
* *
102052 AAGGGTGCCATGGCGTTGTGGACTT-AA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
**
102079 AAGGGTGCCACAAAGTTGTGGACTTTAAATGTA
1 AAGGGTGCCACGGAGTTGTGGAC-TT-AA---A
* * * *
102112 AAAGCTGCCACAGAGTTATGGACTTAAAAAGAAA
1 AAGGGTGCCACGGAGTTGTGGACTT------AAA
* *
102146 AAGGGTGCCACAGAGTTGCGGACTTTAAAAGAA
1 AAGGGTGCCACGGAGTTGTGGAC-TT---A-AA
* * **
102179 AAAGATGCCATAGAGTTGTGGACTT-AA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
*
102206 AAGGGTGCCATGGAGTTGTGGACTTTAAAAGA
1 AAGGGTGCCACGGAGTTGTGGAC-TT--AA-A
* * *
102238 TAAAGATGCCATGGAGTTGTGGACTT-AA
1 -AAGGGTGCCACGGAGTTGTGGACTTAAA
* * *
102266 AAGGGTCCCATGGAGTTATGGACTTAAAAGAAAA
1 AAGGGTGCCACGGAGTTGTGGACTT------AAA
* **
102300 AAGGGTACCATAGAGTTGTGGACTTTTAAAAGAA
1 AAGGGTGCCACGGAGTTGTGGAC--TT---A-AA
* ** *
102334 AAAGGTGCCATAGAGTTATGGACTTAAA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
*
102362 AA-GGTGCCA-TGAGGTTGTGGACTTAAA
1 AAGGGTGCCACGGA-GTTGTGGACTTAAA
** *
102389 AAGGGTGCCACCAAGTTGTAGACTTTTAAAAGAAA
1 AAGGGTGCCACGGAGTTGTGGAC--TT-----AAA
* * *
102424 AAGGG-GCTATGAAGTTGTGGACTT-AA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
** *
102450 AA-GGCACCACGGAGTTGTGGACTTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
* *
102477 AAGGAAAAGATGCCATGGAATTGTGGACTTAAAAAGAAA
1 AAGG----G-TGCCACGGAGTTGTGGACTT------AAA
** *
102516 AAGGGTGCCACAAAGTTGTAGACTT-AA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
* *
102543 AAGGGTGCCATGGAGTTGTGGAATTAAA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
** *** * * ***
102571 AAGGAAAG-GGTGGA-CT-TGAAAAGAAA
1 AAGG-GTGCCACGGAGTTGTGGACTTAAA
* * *
102597 AAGGGTACCACAGAGTTGTAGACTT-AA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
* * *
102624 AAGAGTGCCACGGAGTTATGGA-TTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
* * *
102651 AAGGGTG-CATGAAGTTGTCGACTTAAAAAGAAA
1 AAGGGTGCCACGGAGTTGTGGACTT------AAA
102684 AAGGGTGCCACGGAGTTGTGGACTTTTAAAAAAA
1 AAGGGTGCCACGGAGTTGTGGAC--TT----AAA
* *
102718 AAAGGTGCCACAGAGTTGTGGACTT-AA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA
* * *
102745 AAGGGTGCTACGGGGTTGTGGACTGAGAA
1 AAGGGTGCCACGGAGTTGTGGACTTA-AA
*
102774 AAGGGTGCCACAGAGTTGTGGACTT
1 AAGGGTGCCACGGAGTTGTGGACTT
102799 TTTTTAAAAA
Statistics
Matches: 636, Mismatches: 120, Indels: 159
0.70 0.13 0.17
Matches are distributed among these distances:
25 2 0.00
26 48 0.08
27 186 0.29
28 76 0.12
29 30 0.05
30 5 0.01
31 1 0.00
32 19 0.03
33 92 0.14
34 154 0.24
35 11 0.02
36 4 0.01
37 2 0.00
39 6 0.01
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (28 bp):
AAGGGTGCCACGGAGTTGTGGACTTAAA
Found at i:102122 original size:33 final size:33
Alignment explanation
Indices: 102084--102364 Score: 192
Period size: 33 Copynumber: 8.8 Consensus size: 33
102074 CTTAAAAGGG
* * * *
102084 TGCCACAAAGTTGTGGACTTTAAATGTAAAAGC
1 TGCCACAGAGTTGTGGACTTTAAAAGAAAAAGA
* * *
102117 TGCCACAGAGTTATGGACTTAAAAAGAAAAAGGG
1 TGCCACAGAGTTGTGGACTTTAAAAGAAAAA-GA
*
102151 TGCCACAGAGTTGCGGACTTTAAAAGAAAAAGA
1 TGCCACAGAGTTGTGGACTTTAAAAGAAAAAGA
* *
102184 TGCCATAGAGTTGTGGAC-TTAAAAG-----GG
1 TGCCACAGAGTTGTGGACTTTAAAAGAAAAAGA
** *
102211 TGCCATGGAGTTGTGGACTTTAAAAGATAAAGA
1 TGCCACAGAGTTGTGGACTTTAAAAGAAAAAGA
** *
102244 TGCCATGGAGTTGTGGAC-TTAAAAG-----GG
1 TGCCACAGAGTTGTGGACTTTAAAAGAAAAAGA
* ** * *
102271 TCCCATGGAGTTATGGAC-TTAAAAGAAAAAAGGG
1 TGCCACAGAGTTGTGGACTTTAAAAG-AAAAA-GA
* * *
102305 TACCATAGAGTTGTGGACTTTTAAAAGAAAAAGG
1 TGCCACAGAGTTGTGGAC-TTTAAAAGAAAAAGA
* * *
102339 TGCCATAGAGTTATGGACTTAAAAAG
1 TGCCACAGAGTTGTGGACTTTAAAAG
102365 GTGCCATGAG
Statistics
Matches: 208, Mismatches: 24, Indels: 32
0.79 0.09 0.12
Matches are distributed among these distances:
27 42 0.20
28 7 0.03
32 14 0.07
33 69 0.33
34 64 0.31
35 5 0.02
36 7 0.03
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.24
Consensus pattern (33 bp):
TGCCACAGAGTTGTGGACTTTAAAAGAAAAAGA
Found at i:102160 original size:34 final size:34
Alignment explanation
Indices: 102077--102545 Score: 247
Period size: 34 Copynumber: 15.0 Consensus size: 34
102067 TTGTGGACTT
* * * *
102077 AAAAGGGTGCCACAAAGTTGTGGACTTTAAATGT
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAGA
* * * *
102111 AAAA-GCTGCCACAGAGTTATGGACTTAAAAAGA
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAGA
* *
102144 AAAAGGGTGCCACAGAGTTGCGGACTTTAAAAGA
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAGA
*
102178 AAAA-GATGCCATAGAGTTGTGGAC-TT------
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAGA
*
102204 AAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGA
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAGA
* * *
102238 TAAA-GATGCCATGGAGTTGTGGAC-TT------
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAGA
* * *
102264 AAAAGGGTCCCATGGAGTTATGGAC-TTAAAAGAA
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAG-A
*
102298 AAAAGGGTACCATAGAGTTGTGGACTTTTAAAAGA
1 AAAAGGGTGCCATAGAGTTGTGGAC-TTTAAAAGA
*
102333 AAAA-GGTGCCATAGAGTTATGGAC-TT-----A
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAGA
102360 AAAA-GGTGCCAT-GAGGTTGTGGAC-TT-----A
1 AAAAGGGTGCCATAGA-GTTGTGGACTTTAAAAGA
* *
102387 AAAAGGGTGCCACCA-AGTTGTAGACTTTTAAAAGA
1 AAAAGGGTGCCA-TAGAGTTGTGGAC-TTTAAAAGA
*
102422 AAAAGGG-GCTAT-GAAGTTGTGGAC-TT------
1 AAAAGGGTGCCATAG-AGTTGTGGACTTTAAAAGA
** ** *
102448 AAAA-GGCACCACGGAGTTGTGGACTTTAAAAGG
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAGA
* * * *
102481 AAAA-GATGCCATGGAATTGTGGACTTAAAAAGA
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAGA
* * *
102514 AAAAGGGTGCCACAAAGTTGTAGAC-TTAAAAG
1 AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAG
102546 GGTGCCATGG
Statistics
Matches: 344, Mismatches: 49, Indels: 85
0.72 0.10 0.18
Matches are distributed among these distances:
25 2 0.01
26 25 0.07
27 68 0.20
28 17 0.05
29 1 0.00
30 2 0.01
32 8 0.02
33 99 0.29
34 102 0.30
35 13 0.04
36 7 0.02
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.23
Consensus pattern (34 bp):
AAAAGGGTGCCATAGAGTTGTGGACTTTAAAAGA
Found at i:102188 original size:67 final size:64
Alignment explanation
Indices: 101960--102545 Score: 345
Period size: 60 Copynumber: 9.5 Consensus size: 64
101950 TTGTAGACTT
* * * * *
101960 AAAAATGGTGCCACAGAGTTGTGGAATTTTAAAAGAAAATGGTGCCACAGAGTTGTGGACTT---
1 AAAAAGGGTGCCACAGAGTTGTGG-ACTTTAAAAGAAAAAGATGCCATAGAGTTGTGGACTTAAA
* * * * *
102022 -AAAAGGGTGCCACGGGGTTGTGGA--TT----GAAAAAGGGTGCCATGGCGTTGTGGACTT---
1 AAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAA-GATGCCATAGAGTTGTGGACTTAAA
* * * * * *
102077 -AAAAGGGTGCCACAAAGTTGTGGACTTTAAATGTAAAAGCTGCCACAGAGTTATGGACTTAAAA
1 AAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAAGATGCCATAGAGTTGTGGACTT--AA
102141 A
64 A
*
102142 GAAAAAGGGTGCCACAGAGTTGCGGACTTTAAAAGAAAAAGATGCCATAGAGTTGTGGACTT---
1 -AAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAAGATGCCATAGAGTTGTGGACTTAAA
** * *
102204 -AAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGATAAAGATGCCATGGAGTTGTGGACTT---
1 AAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAAGATGCCATAGAGTTGTGGACTTAAA
* ** * * *
102264 -AAAAGGGTCCCATGGAGTTATGGAC-TTAAAAGAAAAAAGGGTACCATAGAGTTGTGGACTTTT
1 AAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG-AAAAA-GATGCCATAGAGTTGTGGAC--TT
102327 AAA
62 AAA
* * * *
102330 AGAAAAAGGTGCCATAGAGTTATGGAC-TT-----AAAAAGGTGCCAT-GAGGTTGTGGACTT--
1 A-AAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAAGATGCCATAGA-GTTGTGGACTTAA
102386 -
64 A
* ** *
102386 AAAAAGGGTGCCACCA-AGTTGTAGACTTTTAAAAGAAAAAGGGGCTAT-GAAGTTGTGGACTT-
1 AAAAAGGGTGCCA-CAGAGTTGTGGAC-TTTAAAAGAAAAAGATGCCATAG-AGTTGTGGACTTA
102448 --
63 AA
** * * * *
102448 -AAAA-GGCACCACGGAGTTGTGGACTTTAAAAGGAAAAGATGCCATGGAATTGTGGACTTAAAA
1 AAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAAGATGCCATAGAGTTGTGGACTT--AA
102511 A
64 A
* *
102512 GAAAAAGGGTGCCACAAAGTTGTAGAC-TTAAAAG
1 -AAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG
102546 GGTGCCATGG
Statistics
Matches: 423, Mismatches: 58, Indels: 82
0.75 0.10 0.15
Matches are distributed among these distances:
54 5 0.01
55 59 0.14
56 2 0.00
57 4 0.01
58 2 0.00
59 38 0.09
60 117 0.28
61 62 0.15
62 28 0.07
63 3 0.01
66 11 0.03
67 68 0.16
68 24 0.06
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (64 bp):
AAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAAAAAGATGCCATAGAGTTGTGGACTTAAA
Found at i:102512 original size:60 final size:61
Alignment explanation
Indices: 102359--102512 Score: 163
Period size: 59 Copynumber: 2.5 Consensus size: 61
102349 TTATGGACTT
* **
102359 AAAAAG-GTGCCATGAGGTTGTGGACTTAAAAAGGGTGCCACCAAGTTGTAGACTTTTAAAAG
1 AAAAAGAG-GCCATGAAGTTGTGGACTTAAAAA-GGCACCACCAAGTTGTAGACTTTTAAAAG
* * ** *
102421 AAAAAGGGGCTATGAAGTTGTGGACTT-AAAAGGCACCACGGAGTTGTGGAC-TTTAAAAG
1 AAAAAGAGGCCATGAAGTTGTGGACTTAAAAAGGCACCACCAAGTTGTAGACTTTTAAAAG
* *
102480 GAAAAGATGCCATGGAA-TTGTGGACTTAAAAAG
1 AAAAAGAGGCCAT-GAAGTTGTGGACTTAAAAAG
102513 AAAAAGGGTG
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
59 27 0.35
60 23 0.29
61 4 0.05
62 23 0.29
63 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.23
Consensus pattern (61 bp):
AAAAAGAGGCCATGAAGTTGTGGACTTAAAAAGGCACCACCAAGTTGTAGACTTTTAAAAG
Found at i:102708 original size:34 final size:32
Alignment explanation
Indices: 102649--102867 Score: 152
Period size: 34 Copynumber: 6.8 Consensus size: 32
102639 TTATGGATTT
* * *
102649 AAAAGGGTG-CATGAAGTTGTCGACTTAAAAAGA
1 AAAAGGGTGCCACGGAGTTGTGGACTT-AAAA-A
102682 AAAAGGGTGCCACGGAGTTGTGGACTTTTAAAAA
1 AAAAGGGTGCCACGGAGTTGTGGAC--TTAAAAA
* *
102716 AAAAAGGTGCCACAGAGTTGTGGACTT-----
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAA
* * * *
102743 AAAAGGGTGCTACGGGGTTGTGGAC-T--GAG
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAA
* *
102772 AAAAGGGTGCCACAGAGTTGTGGACTTTTTTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGAC----TTAAAAA
* *
102808 AAAAGGGTGCCACAGAG-TATGGACTTTAAAAGA
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA-A
*
102841 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
102868 TGAAGAAAAA
Statistics
Matches: 152, Mismatches: 19, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
26 1 0.01
27 21 0.14
29 22 0.14
32 8 0.05
33 27 0.18
34 43 0.28
35 10 0.07
36 20 0.13
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.23
Consensus pattern (32 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAA
Found at i:102819 original size:36 final size:37
Alignment explanation
Indices: 102772--102868 Score: 123
Period size: 36 Copynumber: 2.8 Consensus size: 37
102762 GTGGACTGAG
*
102772 AAAAGGGTGCCACAGAGTTGTGGACTTTTTTTAAA-A
1 AAAAGGGTGCCACAGAGTTGTGGACTTTTTTAAAAGA
*
102808 AAAAGGGTGCCACAGAG-TATGGAC---TTTAAAAGA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTTTTAAAAGA
* *
102841 AAAAAGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTT
102869 GAAGAAAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
32 6 0.12
33 16 0.31
34 6 0.12
35 6 0.12
36 17 0.33
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (37 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTTTTTAAAAGA
Found at i:102850 original size:33 final size:34
Alignment explanation
Indices: 102772--102877 Score: 110
Period size: 33 Copynumber: 3.1 Consensus size: 34
102762 GTGGACTGAG
* *
102772 AAAAGGGTGCCACAGAGTTGTGGACTTTTTTTAA-AA
1 AAAAGGGTGCCACAGAGTTATGGAC---TTTAAAGAA
102808 AAAAGGGTGCCACAGAG-TATGGACTTTAAAAGAA
1 AAAAGGGTGCCACAGAGTTATGGACTTT-AAAGAA
* * *
102842 AAAA-GGTGCCACGGAGTTGTGGACTTTGAAGAA
1 AAAAGGGTGCCACAGAGTTATGGACTTTAAAGAA
102875 AAA
1 AAA
102878 GATTTGAAGG
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
32 3 0.05
33 21 0.34
34 15 0.24
35 6 0.10
36 17 0.27
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.23
Consensus pattern (34 bp):
AAAAGGGTGCCACAGAGTTATGGACTTTAAAGAA
Found at i:105036 original size:20 final size:22
Alignment explanation
Indices: 105011--105069 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 22
105001 CAAAAATTGT
105011 TGACATTTAA-ATT-TGAATTC
1 TGACATTTAATATTATGAATTC
105031 TGACATTTAATATTGACATGAATTC
1 TGACATTTAATATT---ATGAATTC
105056 TGACATTTAATATT
1 TGACATTTAATATT
105070 GGCGAAGGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.29
21 3 0.09
25 21 0.62
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (22 bp):
TGACATTTAATATTATGAATTC
Found at i:106019 original size:44 final size:44
Alignment explanation
Indices: 105970--106054 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
105960 TTAAAGATGC
105970 TGCCACCAACTAGTGTGGGCTTTAAAAAG-GAAAAAAGAAAGAGA
1 TGCCACCAACTAGTGTGGGC-TTAAAAAGAGAAAAAAGAAAGAGA
* *
106014 TGCCACCAACTTGTGTGGGCTTAAAAAGAGAAAACAGAAAG
1 TGCCACCAACTAGTGTGGGCTTAAAAAGAGAAAAAAGAAAG
106055 GCGTCCTGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 8 0.21
44 30 0.79
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.16
Consensus pattern (44 bp):
TGCCACCAACTAGTGTGGGCTTAAAAAGAGAAAAAAGAAAGAGA
Found at i:106858 original size:10 final size:10
Alignment explanation
Indices: 106843--106867 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
106833 TCTTTTTCAT
106843 TTTTCCTTTC
1 TTTTCCTTTC
106853 TTTTCCTTTC
1 TTTTCCTTTC
106863 TTTTC
1 TTTTC
106868 TTATTTAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTCCTTTC
Found at i:111252 original size:156 final size:156
Alignment explanation
Indices: 110638--111389 Score: 659
Period size: 157 Copynumber: 4.8 Consensus size: 156
110628 ATAGGGTATG
* ** * * * * * *
110638 CCTATCCTAAATACACATATTTGACATAAAAGCCTC-CTGATGGCAACTTAGGACTCGATTCCA-
1 CCTATCCTAAATACTCACCTTTGGCATAAAAGCATCTC-GATGACAACCTAAGACTCGATTCTAG
* * * * ** *
110701 AAAAGATTACAAAAATGCCTTTAT-AGGTATACCTTCGACATGAAAG-AAACCAGTAACCCTAAA
65 AAAA-ATTATAAAAATGCC-TTATGA-GTATACTTTAGACATAAAAGTATCCCAGTAACCCTAAG
* * *
110764 AGACTTAAAAAGGATCGCA-AAATGGGATGAA
127 GGTCTTAAAAAGGAT--CATAGATGGGATGAA
* * * *
110795 CTTATCCTAAATA-TGCATCTTTGGCATAAAAGCATCT-TAGTGACAACCTAAGACTCAATTCTA
1 CCTATCCTAAATACT-CACCTTTGGCATAAAAGCATCTCGA-TGACAACCTAAGACTCGATTCTA
* * * ** * *
110858 GAAAAATTATGAAAATACCCTTATGGGTATACTTTAGACATGGAAGTGTCCTAGTAACCCTAAGG
64 GAAAAATTATAAAAAT-GCCTTATGAGTATACTTTAGACATAAAAGTATCCCAGTAACCCTAAGG
* * *
110923 GACTTAAAAAATG-TCATAAATGGGATGAA
128 GTCTT-AAAAAGGATCATAGATGGGATGAA
* ** * * *
110952 CCTATCCTAAATACTCACCTTTGGGATAAAAGCATCTCGGCGACAACCTAGGACTCTATTGTAGA
1 CCTATCCTAAATACTCACCTTTGGCATAAAAGCATCTCGATGACAACCTAAGACTCGATTCTAGA
* * * * *
111017 AAAATTATAAAAATACCTCTATAAGTATACTTTCGACATGAAAGTATCTC-GATAACCCTAAGGG
66 AAAATTATAAAAATGCCT-TATGAGTATACTTTAGACATAAAAGTATCCCAG-TAACCCTAAGGG
*
111081 AT-TTAAAAAGGATCATAGATGGGATAAA
129 -TCTTAAAAAGGATCATAGATGGGATGAA
* * * * * *
111109 CCTATCCTAAATACCCACCTTTGGCATAAAAGCATCTCGATGAAAATCTAAGACTTGGTTCTA-T
1 CCTATCCTAAATACTCACCTTTGGCATAAAAGCATCTCGATGACAACCTAAGACTCGATTCTAGA
* * * *
111173 AAAATTATGAAAATGCCTATATGGGTATACCTTT-GATATAAAAGTATCCCAGTAACCTTAAGGG
66 AAAATTATAAAAATGCCT-TATGAGTATA-CTTTAGACATAAAAGTATCCCAGTAACCCTAAGGG
*
111237 TCATAAAAAGGATCATAGATGGGATGAA
129 TCTTAAAAAGGATCATAGATGGGATGAA
* * * ** * *
111265 CCTATCC-AAATACTCACATTTGGCATAAAAGCATCTTGGTGTGAACCTAAGACTCGATTTTAGG
1 CCTATCCTAAATACTCACCTTTGGCATAAAAGCATCTCGATGACAACCTAAGACTCGATTCTAGA
* * *
111329 AAAATT-TAAAAAATGCCTTTATGAGTATACCTTCGACATAAAAGTATCCCAATAACCCTAA
66 AAAATTAT-AAAAATGCC-TTATGAGTATACTTTAGACATAAAAGTATCCCAGTAACCCTAA
111390 AGGACAAAAA
Statistics
Matches: 486, Mismatches: 87, Indels: 45
0.79 0.14 0.07
Matches are distributed among these distances:
155 50 0.10
156 139 0.29
157 266 0.55
158 25 0.05
159 6 0.01
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (156 bp):
CCTATCCTAAATACTCACCTTTGGCATAAAAGCATCTCGATGACAACCTAAGACTCGATTCTAGA
AAAATTATAAAAATGCCTTATGAGTATACTTTAGACATAAAAGTATCCCAGTAACCCTAAGGGTC
TTAAAAAGGATCATAGATGGGATGAA
Found at i:117915 original size:13 final size:13
Alignment explanation
Indices: 117897--117922 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117887 CAATTTTTTG
117897 TGTATCGATACAT
1 TGTATCGATACAT
117910 TGTATCGATACAT
1 TGTATCGATACAT
117923 ACTTGCTGTA
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):
TGTATCGATACAT
Found at i:118670 original size:21 final size:21
Alignment explanation
Indices: 118629--118672 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
118619 CTCCCCTTTA
* *
118629 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
118650 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
118671 TC
1 TC
118673 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:118689 original size:36 final size:36
Alignment explanation
Indices: 118648--118719 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
118638 TTTATTAATA
118648 ATTCTCCCCCTTAATCAAGTAATTCATATCAAAAAT
1 ATTCTCCCCCTTAATCAAGTAATTCATATCAAAAAT
118684 ATTCTCCCCCTTAATCAAGTAATTCATATCAAAAAT
1 ATTCTCCCCCTTAATCAAGTAATTCATATCAAAAAT
118720 TTATTTGCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.33
Consensus pattern (36 bp):
ATTCTCCCCCTTAATCAAGTAATTCATATCAAAAAT
Found at i:120529 original size:13 final size:13
Alignment explanation
Indices: 120511--120536 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
120501 ATAATCACCC
120511 TGTATCGATACAA
1 TGTATCGATACAA
120524 TGTATCGATACAA
1 TGTATCGATACAA
120537 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:124480 original size:21 final size:21
Alignment explanation
Indices: 124451--124495 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
124441 AAGTTTTCAT
*
124451 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
124471 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
124493 TTT
1 TTT
124496 CATCTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:126726 original size:13 final size:13
Alignment explanation
Indices: 126708--126733 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
126698 CAATTTTTTG
126708 TGTATCGATACAT
1 TGTATCGATACAT
126721 TGTATCGATACAT
1 TGTATCGATACAT
126734 ACTTGCTGTA
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):
TGTATCGATACAT
Found at i:128036 original size:12 final size:12
Alignment explanation
Indices: 128019--128045 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
128009 TGCAGATCTA
128019 AAGATACCATCC
1 AAGATACCATCC
128031 AAGATACCATCC
1 AAGATACCATCC
128043 AAG
1 AAG
128046 CATTTTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.30, G:0.11, T:0.15
Consensus pattern (12 bp):
AAGATACCATCC
Found at i:128593 original size:14 final size:14
Alignment explanation
Indices: 128574--128600 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
128564 TCATTATCAA
128574 AATAAAATAATTAC
1 AATAAAATAATTAC
128588 AATAAAATAATTA
1 AATAAAATAATTA
128601 ATTTAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAATAATTAC
Found at i:132842 original size:96 final size:97
Alignment explanation
Indices: 132727--132946 Score: 316
Period size: 96 Copynumber: 2.3 Consensus size: 97
132717 CTCCAATCCT
* *** *
132727 ATTCCTCCGAAGGGATACTCCAACCTTGCTTTTGAACACATCAAAGTTTAAATCTTATTCTCACT
1 ATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTTAAATCTTATTCTCACT
*
132792 TAAATTGTCATCATCGGGGACA-ATCAACCCC
66 TAAATTGCCATCATCGGGGACACATCAACCCC
* * * *
132823 ATTCCTCCGAGGGGATACTCTAACCCCACTTTTAAACGCATCAAAGTTTAAATTTTATTCTCGCT
1 ATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTTAAATCTTATTCTCACT
* *
132888 TAAGTTGCCATCATCGGGGACACTTCAACCCC
66 TAAATTGCCATCATCGGGGACACATCAACCCC
*
132920 ATTCCTCCGAGGAGATACTCCAACCCC
1 ATTCCTCCGAGGGGATACTCCAACCCC
132947 GTTTTTTTAA
Statistics
Matches: 109, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
96 76 0.70
97 33 0.30
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.29
Consensus pattern (97 bp):
ATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTTAAATCTTATTCTCACT
TAAATTGCCATCATCGGGGACACATCAACCCC
Found at i:134112 original size:16 final size:16
Alignment explanation
Indices: 134091--134121 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
134081 AAGGATTTAA
*
134091 TGAAAAATCCCATATG
1 TGAAAAATCCAATATG
134107 TGAAAAATCCAATAT
1 TGAAAAATCCAATAT
134122 AAATCCTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (16 bp):
TGAAAAATCCAATATG
Found at i:134259 original size:27 final size:27
Alignment explanation
Indices: 134201--134268 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
134191 ATTCATACAC
* *
134201 AAAAAGTATAATTGAAAATTTATATGA
1 AAAAAGTTTAATTAAAAATTTATATGA
*
134228 AAAAAGTTTAATTCAAAAATTTAT-TTA
1 AAAAAGTTTAATT-AAAAATTTATATGA
*
134255 TAAAAGGTTTAATT
1 -AAAAAGTTTAATT
134269 TATTCTATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 14 0.40
28 21 0.60
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (27 bp):
AAAAAGTTTAATTAAAAATTTATATGA
Found at i:149785 original size:61 final size:61
Alignment explanation
Indices: 149715--150001 Score: 281
Period size: 61 Copynumber: 4.8 Consensus size: 61
149705 ATATAGGTGA
* * * *
149715 AAAGAGTGCCAATGTGCTGATTCAAGGTTAGTGACATTAGACTTGAGGATGCA-AAGAATGAT
1 AAAG-GTGCCAATATGCTGATTCAAGGCTAGTGACATTGGACTTGAAGATG-AGAAGAATGAT
* * * **
149777 AAAGGTGCCAATATGCTGATTCATGGGC-AGCGATATTGGGTTTGAAGATGAGAAGAATGAT
1 AAAGGTGCCAATATGCTGATTCA-AGGCTAGTGACATTGGACTTGAAGATGAGAAGAATGAT
* * * * *
149838 AAAGGTGCTAATATGCTGATTCAAGACTAGTG--A-T--A-TTG-GGATTA-AAG-ATGAC
1 AAAGGTGCCAATATGCTGATTCAAGGCTAGTGACATTGGACTTGAAGATGAGAAGAATGAT
*
149890 AAAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTGAAGATGAGAAGAATGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCTAGTGACATTGGACTTGAAGATGAGAAGAATGAT
* * * * * *
149951 AAAGGTGTCGATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAGATGA
1 AAAGGTGCCAATATGCTGATTCAAGGCTAGTGACATTGGACTTGAAGATGA
150002 CAAAGGCACC
Statistics
Matches: 183, Mismatches: 30, Indels: 25
0.77 0.13 0.11
Matches are distributed among these distances:
52 33 0.18
53 3 0.02
54 5 0.03
55 4 0.02
57 1 0.01
58 4 0.02
59 5 0.03
60 6 0.03
61 116 0.63
62 6 0.03
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.27
Consensus pattern (61 bp):
AAAGGTGCCAATATGCTGATTCAAGGCTAGTGACATTGGACTTGAAGATGAGAAGAATGAT
Found at i:149920 original size:52 final size:52
Alignment explanation
Indices: 149833--150562 Score: 414
Period size: 52 Copynumber: 14.0 Consensus size: 52
149823 GATGAGAAGA
* * * * * *
149833 ATGATAAAGGTGCTAATATGCTGATTCAAGACTAGTGATATTGGGA-TTAAAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAG
* * *
149885 ATGACAAAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTGAAGATGAGAAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T-----T-A-AAG
* * * * * *
149945 AATGATAAAGGTGTCGATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAG
1 -ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
** * *
149998 ATGACAAAGGCACCAGTATGCTGATTCAAGGCCAGCGATATTGGACTT-AAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * * * * * *
150049 AAAGAAAAAGGTACCAATGTGTTAATTCAAAGCCAGCGACATTGGACTTAAAA
1 -ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* ** * *** * *
150102 ATGAGAAAAATGCCAATTTGCTGATTCAAGGCCAATAACATTGG-GTTAAAA
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
** * *** * *
150153 ATGGTAAAGGTGCCCATATGCTGATTCAAGGCCAATAACATTGG-GTTAAAA
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
** * **
150204 ATGGTAAAGGTGCTC-ATATGCTGATTCAA-GCCAGCGATATCAGACTTAAAG
1 ATGACAAAGGTGC-CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * * *
150255 ATGAC-AAGAGTGCCAATGTGTTGATTTAAGGCCAGCGACAATGGACTTACAG
1 ATGACAAAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * * * * *
150307 ATGACAAGGGTTCC-A-ACG-TG-CTCAAGGCCAACGACATTAGG-TTTAGAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAG
** * * * *
150355 AAAATAAA-GTGCCAATATGTTGATTCAAGGCTAGCGATATTGGACTTAAAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * * * *
150406 ATGAC-AAGAGTGCCAATGTGTTGATTCAATGCTAGCGACAATGGACTTACAG
1 ATGACAAAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * **
150458 ATGAC-AAGG-GCTCTAACATGCTGATTCATGGCTAGCGACATTGGGTTTAGAA-
1 ATGACAAAGGTGC-C-AATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAG
** * * * **
150510 AAAATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
150562 A
1 A
150563 AAGAAGATTC
Statistics
Matches: 528, Mismatches: 118, Indels: 64
0.74 0.17 0.09
Matches are distributed among these distances:
47 4 0.01
48 24 0.05
49 6 0.01
50 21 0.04
51 133 0.25
52 277 0.52
53 14 0.03
54 3 0.01
55 1 0.00
58 1 0.00
59 1 0.00
60 4 0.01
61 39 0.07
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (52 bp):
ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
Found at i:149975 original size:113 final size:112
Alignment explanation
Indices: 149767--150049 Score: 365
Period size: 113 Copynumber: 2.5 Consensus size: 112
149757 TTGAGGATGC
* * **
149767 AAAGAATGATAAAGGTGCCAATATGCTGATTCATGGGCAGCGATATTGGGTTTGAAGATGAGAAG
1 AAAG-ATGACAAAGGTGCCAATATGCTGATTCA-AGGCAGCGATATTGGACTTGAAGATGAGAAG
*
149832 AATGATAAAGGTGCTAATATGCTGATTCAAGACTAGTGATATTGGGA-TT
64 AATGATAAAGGTGCTAATATGCTGATTCAAGACCAGTGATATT-GGACTT
* * *
149881 AAAGATGACAAAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTGAAGATGAGAAGA
1 AAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC-AGCGATATTGGACTTGAAGATGAGAAGA
* * *
149946 ATGATAAAGGTG-TCGATATGTTGATTCAAGGCCAGTGATATTGGACTT
65 ATGATAAAGGTGCT-AATATGCTGATTCAAGACCAGTGATATTGGACTT
** *
149994 AAAGATGACAAAGGCACCAGTATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGA
1 AAAGATGACAAAGGTGCCAATATGCTGATTCAAGG-CAGCGATATTGGACTTGAAGA
150050 AAGAAAAAGG
Statistics
Matches: 148, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
112 11 0.07
113 132 0.89
114 5 0.03
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (112 bp):
AAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCAGCGATATTGGACTTGAAGATGAGAAGAA
TGATAAAGGTGCTAATATGCTGATTCAAGACCAGTGATATTGGACTT
Found at i:150175 original size:51 final size:51
Alignment explanation
Indices: 150120--150233 Score: 219
Period size: 51 Copynumber: 2.2 Consensus size: 51
150110 AATGCCAATT
150120 TGCTGATTCAAGGCCAATAACATTGGGTTAAAAATGGTAAAGGTGCCCATA
1 TGCTGATTCAAGGCCAATAACATTGGGTTAAAAATGGTAAAGGTGCCCATA
*
150171 TGCTGATTCAAGGCCAATAACATTGGGTTAAAAATGGTAAAGGTGCTCATA
1 TGCTGATTCAAGGCCAATAACATTGGGTTAAAAATGGTAAAGGTGCCCATA
150222 TGCTGATTCAAG
1 TGCTGATTCAAG
150234 CCAGCGATAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (51 bp):
TGCTGATTCAAGGCCAATAACATTGGGTTAAAAATGGTAAAGGTGCCCATA
Found at i:150253 original size:51 final size:50
Alignment explanation
Indices: 150093--150233 Score: 167
Period size: 51 Copynumber: 2.8 Consensus size: 50
150083 AGCGACATTG
** * *
150093 GACTTAAAAATGAG-AAAAATGCCAATTTGCTGATTCAAGGCCAATAACATT
1 GACTTAAAAATG-GTAAAGGTGCCCATATGCTGATTCAAGGCCAATAACA-T
**
150144 GGGTTAAAAATGGTAAAGGTGCCCATATGCTGATTCAAGGCCAATAACATT
1 GACTTAAAAATGGTAAAGGTGCCCATATGCTGATTCAAGGCCAATAACA-T
** *
150195 GGGTTAAAAATGGTAAAGGTGCTCATATGCTGATTCAAG
1 GACTTAAAAATGGTAAAGGTGCCCATATGCTGATTCAAG
150234 CCAGCGATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 1 0.01
51 81 0.99
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (50 bp):
GACTTAAAAATGGTAAAGGTGCCCATATGCTGATTCAAGGCCAATAACAT
Found at i:150412 original size:151 final size:155
Alignment explanation
Indices: 150208--150562 Score: 506
Period size: 151 Copynumber: 2.3 Consensus size: 155
150198 TTAAAAATGG
150208 TAAAGGTGCTC-ATATGCTGATTCAA-GCCAGCGATATCAGACTTAAAGATGACAAGAGTGCCAA
1 TAAAGGTGC-CAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGACAAGAGTGCCAA
* *
150271 TGTGTTGATTTAAGGCCAGCGACAATGGACTTACAGATGACAAGGGTTCCAAC-G-TG-CTCAAG
65 TGTGTTGATTCAAGGCCAGCGACAATGGACTTACAGATGACAAGGGCTCCAACAGCTGACTCAAG
*
150333 GCCAACGACATTAGGTTTAGAGAAAA
130 GCCAACGACATTAGGTTTAGAAAAAA
* * **
150359 TAAA-GTGCCAATATGTTGATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAGAGTGCCAAT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGACAAGAGTGCCAAT
* * * * *
150423 GTGTTGATTCAATGCTAGCGACAATGGACTTACAGATGACAAGGGCTCTAACATGCTGATTCATG
66 GTGTTGATTCAAGGCCAGCGACAATGGACTTACAGATGACAAGGGCTCCAACA-GCTGACTCAAG
* * *
150488 GCTAGCGACATTGGGTTTAGAAAAAA
130 GCCAACGACATTAGGTTTAGAAAAAA
*
150514 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGA
150563 AAGAAGATTC
Statistics
Matches: 177, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
149 1 0.01
150 17 0.10
151 87 0.49
153 1 0.01
154 2 0.01
155 30 0.17
156 39 0.22
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (155 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGACAAGAGTGCCAAT
GTGTTGATTCAAGGCCAGCGACAATGGACTTACAGATGACAAGGGCTCCAACAGCTGACTCAAGG
CCAACGACATTAGGTTTAGAAAAAA
Found at i:150836 original size:32 final size:32
Alignment explanation
Indices: 150618--151120 Score: 558
Period size: 32 Copynumber: 15.9 Consensus size: 32
150608 ATTAGGTTTT
* *
150618 GAAGGGGTTGCCACTGACTTGTGTGGGTTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
150650 GAA-GGGTTGCCACCGACTTGTGTGGGCTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
* *
150681 GAA-GGGTTGCCACCGACTTATGTAGGCTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
150712 GAA-GGGTTGCCACCGACTTGTGTGGGCTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
** * * * *
150743 GAA-GGGTCACTTACTGACTAGGTGTAGGCTTTA
1 GAAGGGGTTGC-CACCGACT-TGTGTGGGCTTTA
* * * * *
150776 GAA-GGGTTACCATCGATTTATATGGGCTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
*
150807 GAAGGGGTTGCCACCGACTTGTGTAGGCTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
* * *
150839 GAAAGGGTTGCCACCGACTTGTGTAGGCTTTG
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
150871 GAA-GGGTTGCCACC-AGCTTGTGTGGGCTTTA
1 GAAGGGGTTGCCACCGA-CTTGTGTGGGCTTTA
* * * *
150902 GAAGAGGTTTCCATCGACTTGTGTAGGCTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
* * *
150934 GAAGTGGTTGCCACCAACTTATGTGGGCTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
150966 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
* **
150998 GAAGAGGTTGCCACTAACTTGTGTGGG-TTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
* * * *
151029 GAAGAGGTTGGCACCGACATGTATGGGCTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
* ** *
151061 GAAGAGGTTGCCACTAACTTGTATGGGCTTTA
1 GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
*
151093 GAA-GGGTTGCCACC-AGTTTGTGTGGGCT
1 GAAGGGGTTGCCACCGA-CTTGTGTGGGCT
151121 ATAAAAGAGG
Statistics
Matches: 403, Mismatches: 60, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
30 2 0.00
31 176 0.44
32 204 0.51
33 21 0.05
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (32 bp):
GAAGGGGTTGCCACCGACTTGTGTGGGCTTTA
Found at i:150961 original size:159 final size:158
Alignment explanation
Indices: 150622--151107 Score: 628
Period size: 159 Copynumber: 3.1 Consensus size: 158
150612 GGTTTTGAAG
** * *
150622 GGGTTGCCACTGACTTGTGTGGGTTTTAGAA-GGGTTGCCACCGACTTGTGTGGGCTTTAGAAGG
1 GGGTTGCCACCAACTTATGTGGGCTTTAGAAGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGG
*
150686 GTTGCCACCGACTTATGTAGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAG-GG-
66 GTTGCCACCGACTTGTGTAGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGGT
* *
150749 -TCACTTACTGACTAGGTGTAGGCTTTAGAA
131 TTC-CAT-CTGACT-TGTGTAGGCTTTAGAA
* * * * * *
150779 GGGTTACCATCGATTTATATGGGCTTTAGAAGGGGTTGCCACCGACTTGTGTAGGCTTTAGAAAG
1 GGGTTGCCACCAACTTATGTGGGCTTTAGAAGGGGTTGCCACCGACTTGTGTGGGCTTTAG-AAG
*
150844 GGTTGCCACCGACTTGTGTAGGCTTTGGAAGGGTTGCCACC-AGCTTGTGTGGGCTTTAGAAGAG
65 GGTTGCCACCGACTTGTGTAGGCTTTAGAAGGGTTGCCACCGA-CTTGTGTGGGCTTTAGAAGAG
150908 GTTTCCATC-GACTTGTGTAGGCTTTAGAA
129 GTTTCCATCTGACTTGTGTAGGCTTTAGAA
150937 GTGGTTGCCACCAACTTATGTGGGCTTTAGAAGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAG
1 G-GGTTGCCACCAACTTATGTGGGCTTTAGAAGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAG
** * * * *
151002 AGGTTGCCACTAACTTGTGT-GGGTTTAGAAGAGGTTGGCACCGACATGTATGGGCTTTAGAAGA
65 -GGTTGCCACCGACTTGTGTAGGCTTTAGAAG-GGTTGCCACCGACTTGTGTGGGCTTTAGAAGA
* * * *
151066 GGTTGCCA-CTAACTTGTATGGGCTTTAGAA
128 GGTTTCCATCTGACTTGTGTAGGCTTTAGAA
151096 GGGTTGCCACCA
1 GGGTTGCCACCA
151108 GTTTGTGTGG
Statistics
Matches: 289, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
157 24 0.08
158 69 0.24
159 188 0.65
160 4 0.01
161 2 0.01
162 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.30
Consensus pattern (158 bp):
GGGTTGCCACCAACTTATGTGGGCTTTAGAAGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGG
GTTGCCACCGACTTGTGTAGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGGT
TTCCATCTGACTTGTGTAGGCTTTAGAA
Found at i:151131 original size:95 final size:93
Alignment explanation
Indices: 150622--151120 Score: 581
Period size: 95 Copynumber: 5.3 Consensus size: 93
150612 GGTTTTGAAG
* *
150622 GGGTTGCCACTGACTTGTGTGGGTTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGG
1 GGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGG
* *
150687 TTGCCACCGACTTATGTAGGCTTTAGAA
66 TTGCCACCGACTTGTGTGGGCTTTAGAA
** * * * *
150715 GGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTCACTTACTGACTAGGTGTAGGCTTTAGAAG
1 GGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGC-CACCGACT-TGTGTGGGCTTTAGAAG
* * * * *
150780 GGTTACCATCGATTTATATGGGCTTTAGAA
64 GGTTGCCACCGACTTGTGTGGGCTTTAGAA
* * *
150810 GGGGTTGCCACCGACTTGTGTAGGCTTTAGAAAGGGTTGCCACCGACTTGTGTAGGCTTTGGAAG
1 -GGGTTGCCACCGACTTGTGTGGGCTTTAG-AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAG
150875 GGTTGCCACC-AGCTTGTGTGGGCTTTAGAA
64 GGTTGCCACCGA-CTTGTGTGGGCTTTAGAA
* * * * *
150905 GAGGTTTCCATCGACTTGTGTAGGCTTTAGAAGTGGTTGCCACCAACTTATGTGGGCTTTAGAAG
1 G-GGTTGCCACCGACTTGTGTGGGCTTTAGAAG-GGTTGCCACCGACTTGTGTGGGCTTTAGAA-
150970 GGGTTGCCACCGACTTGTGTGGGCTTTAGAA
63 GGGTTGCCACCGACTTGTGTGGGCTTTAGAA
** * * *
151001 GAGGTTGCCACTAACTTGTGTGGG-TTTAGAAGAGGTTGGCACCGACATGTATGGGCTTTAGAAG
1 G-GGTTGCCACCGACTTGTGTGGGCTTTAGAAG-GGTTGCCACCGACTTGTGTGGGCTTTAGAAG
** *
151065 AGGTTGCCACTAACTTGTATGGGCTTTAGAA
64 -GGTTGCCACCGACTTGTGTGGGCTTTAGAA
*
151096 GGGTTGCCACC-AGTTTGTGTGGGCT
1 GGGTTGCCACCGA-CTTGTGTGGGCT
151121 ATAAAAGAGG
Statistics
Matches: 347, Mismatches: 47, Indels: 22
0.83 0.11 0.05
Matches are distributed among these distances:
93 35 0.10
94 30 0.09
95 192 0.55
96 82 0.24
97 8 0.02
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (93 bp):
GGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGG
TTGCCACCGACTTGTGTGGGCTTTAGAA
Found at i:152326 original size:19 final size:19
Alignment explanation
Indices: 152302--152338 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
152292 TTTACTGAGG
*
152302 TTTTTTGTGTTTTTGTTGT
1 TTTTTTGTGTTTGTGTTGT
*
152321 TTTTTTTTGTTTGTGTTG
1 TTTTTTGTGTTTGTGTTG
152339 GGAAAAGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (19 bp):
TTTTTTGTGTTTGTGTTGT
Found at i:158902 original size:12 final size:12
Alignment explanation
Indices: 158885--158923 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
158875 AAATTTCGTA
158885 ACATGTTTTATG
1 ACATGTTTTATG
158897 ACATGTTTTATG
1 ACATGTTTTATG
* **
158909 AGATGGGTTATG
1 ACATGTTTTATG
158921 ACA
1 ACA
158924 AAAATGCAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (12 bp):
ACATGTTTTATG
Found at i:169474 original size:132 final size:132
Alignment explanation
Indices: 169237--169496 Score: 520
Period size: 132 Copynumber: 2.0 Consensus size: 132
169227 TTCTAGACAT
169237 AAGTGACTGATGAGCCAAATGTGAAGGAGTGGTGCACATCTGATGAAGCGGCCCGTACCCATCTT
1 AAGTGACTGATGAGCCAAATGTGAAGGAGTGGTGCACATCTGATGAAGCGGCCCGTACCCATCTT
169302 CTTGCAAAAATTGAGAGCTTGAAAAGTTTCAGCTAGGATGGCTGGTGCCGGATTGATGTTACATA
66 CTTGCAAAAATTGAGAGCTTGAAAAGTTTCAGCTAGGATGGCTGGTGCCGGATTGATGTTACATA
169367 TG
131 TG
169369 AAGTGACTGATGAGCCAAATGTGAAGGAGTGGTGCACATCTGATGAAGCGGCCCGTACCCATCTT
1 AAGTGACTGATGAGCCAAATGTGAAGGAGTGGTGCACATCTGATGAAGCGGCCCGTACCCATCTT
169434 CTTGCAAAAATTGAGAGCTTGAAAAGTTTCAGCTAGGATGGCTGGTGCCGGATTGATGTTACA
66 CTTGCAAAAATTGAGAGCTTGAAAAGTTTCAGCTAGGATGGCTGGTGCCGGATTGATGTTACA
169497 GCATAATTGA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 128 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (132 bp):
AAGTGACTGATGAGCCAAATGTGAAGGAGTGGTGCACATCTGATGAAGCGGCCCGTACCCATCTT
CTTGCAAAAATTGAGAGCTTGAAAAGTTTCAGCTAGGATGGCTGGTGCCGGATTGATGTTACATA
TG
Found at i:172564 original size:12 final size:11
Alignment explanation
Indices: 172542--172617 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
172532 AGAGAAAGAA
*
172542 GAGAGAGGAGG
1 GAGATAGGAGG
172553 GATGATAGGAGG
1 GA-GATAGGAGG
*
172565 AGAGACAGGA--
1 -GAGATAGGAGG
*
172575 GAGATAGTA--
1 GAGATAGGAGG
172584 GAGATAGGAGG
1 GAGATAGGAGG
172595 GATGATAGGAGG
1 GA-GATAGGAGG
*
172607 AGAGACAGGAG
1 -GAGATAGGAG
172618 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:172574 original size:24 final size:24
Alignment explanation
Indices: 172541--172626 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
172531 AAGAGAAAGA
*
172541 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
172565 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
172583 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
172607 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
172627 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:172593 original size:42 final size:42
Alignment explanation
Indices: 172532--172650 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
172522 TAGCCCTCAA
* *
172532 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
172574 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
172616 AGAGATAATAGAGAGAGGAGGGATGACAAGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
172651 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:172634 original size:18 final size:19
Alignment explanation
Indices: 172607--172656 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
172597 TGATAGGAGG
*
172607 AGAGACAGGAGAGAT-A-A
1 AGAGAGAGGAGAGATGACA
*
172624 TAGAGAGAGGAGGGATGACA
1 -AGAGAGAGGAGAGATGACA
172644 AGAG-GAGGAGAGA
1 AGAGAGAGGAGAGA
172657 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 21 0.78
19 5 0.19
20 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.44, T:0.06
Consensus pattern (19 bp):
AGAGAGAGGAGAGATGACA
Found at i:179100 original size:79 final size:78
Alignment explanation
Indices: 179006--179587 Score: 539
Period size: 79 Copynumber: 7.4 Consensus size: 78
178996 TTCCCCGATG
* ** * * * *
179006 GTGGAAAATCAATGTTTTGGTGATAAAACTGGGGTTGGGGTATCCCCTCGAAAATAACAAGGTTA
1 GTGGAAAATCGATGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTG
179071 GAGTATCTCTTATT
66 GAGTATC-CTTATT
* * * * *
179085 GTGGAAAATCGATGTTTTAGAAATAAAGCCAAGGTTGGAGCATCCCCTC-AGAAATAACAGGGTT
1 GTGGAAAATCGATGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCGA-AAATAACAGGGTT
179149 GGAGTATCCTTGATT
65 GGAGTATCCTT-ATT
* * * * * * * *
179164 GTGGAAAATTGGTGTTTTAGAAATAAAAATCGGGGTTAGAGTATTCCCTCGAAAATAATAGGGTT
1 GTGGAAAATCGATGTTTTGGAAATAAAACT-AGGGTTGGAGTATCCCCTCGAAAATAACAGGGTT
* * *
179229 GAAGTATCCTCGATG
65 GGAGTATCCT-TATT
* * * *
179244 GTGAAAAATCGATGTTTTGG-AATAAAA-TCAGGGTTAGAGTATCCCCTCAAAAATAA-TGGTGT
1 GTGGAAAATCGATGTTTTGGAAATAAAACT-AGGGTTGGAGTATCCCCTCGAAAATAACAGG-GT
*
179306 TGGAGTATCCTTGATG
64 TGGAGTATCCTT-ATT
* * * **
179322 GTGGAAAATCGATGTTTTGGAAATAAAACCAAGGTTGGAGTATCCCCTCGGAAATAATGGGGTTG
1 GTGGAAAATCGATGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTG
**
179387 GAGTATCCCCGATT
66 GAGTAT-CCTTATT
* *
179401 GTGAAAAATCGATGTTTTTGAAAATAAAACTAGGGTTGGAGTATCCCCTC-AGAAATAACAGGGT
1 GTGGAAAATCGATG-TTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCGA-AAATAACAGGGT
* *
179465 TGGAGTATCGTCAATT
64 TGGAGTATCCT-TATT
* * * * *
179481 ATGGAAAATC-AGTGTTGTGGAAATAAAACTGGGGTTGGAGTATCCCCT-TAGAAATAACAGGAT
1 GTGGAAAATCGA-TGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCGA-AAATAACAGGGT
* *
179544 CGGAGTATCCCTAATT
64 TGGAGTAT-CCTTATT
* * *
179560 ATGGAAAATCGGTGTTTTAGAAATAAAA
1 GTGGAAAATCGATGTTTTGGAAATAAAA
179588 ACATGAATGA
Statistics
Matches: 418, Mismatches: 67, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
77 2 0.00
78 64 0.15
79 229 0.55
80 122 0.29
81 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (78 bp):
GTGGAAAATCGATGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTG
GAGTATCCTTATT
Found at i:179466 original size:237 final size:236
Alignment explanation
Indices: 179001--179587 Score: 680
Period size: 237 Copynumber: 2.5 Consensus size: 236
178991 GTACATTCCC
** * * *
179001 CGATGGTGGAAAATCAATGTTTTGGTGATAAAACTGGGGTTGGGGTATCCCCTCGAAAATAACAA
1 CGATGGTGGAAAATC-ATGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACAG
* *
179066 GGTTAGAGTATCTCTTATTGTGGAAAATCGATGTTTTAGAAATAAAGCCAAGGTTGGAGCATCCC
65 GGTTGGAGTATC-CTTATTGTGGAAAATCGATGTTTTAGAAATAAAACCAAGGTTGGAGCATCCC
** * * * *
179131 CTCAGAAATAACAGGGTTGGAGTATCCTTGATTGTGGAAAATTGGTGTTTTAGAAATAAAAATCG
129 CTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAATCA
* *
179196 GGGTTAGAGTATTCCCTCGAAAATAATAGGGTTGAAGTATCCT
194 GGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGAAGTATCCT
* * * *
179239 CGATGGTGAAAAATCGATGTTTTGG-AATAAAA-TCAGGGTTAGAGTATCCCCTCAAAAATAA-T
1 CGATGGTGGAAAATC-ATGTTTTGGAAATAAAACT-GGGGTTGGAGTATCCCCTCAAAAATAACA
* * *
179301 GGTGTTGGAGTATCCTTGATGGTGGAAAATCGATGTTTTGGAAATAAAACCAAGGTTGGAGTATC
64 GG-GTTGGAGTATCCTT-ATTGTGGAAAATCGATGTTTTAGAAATAAAACCAAGGTTGGAGCATC
* ** * *
179366 CCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTTGAAAATAAAAC
127 CCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAG-AAATAAAAA
* * *
179431 T-AGGGTTGGAGTATCCCCTC-AGAAATAACAGGGTTGGAGTATCGT
191 TCAGGGTTAGAGTATCCCCTCGA-AAATAACAGGGTTGAAGTATCCT
* ** * * *
179476 CAATTATGGAAAATCAGTGTTGTGGAAATAAAACTGGGGTTGGAGTATCCCCTTAGAAATAACAG
1 CGATGGTGGAAAATCA-TGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACAG
* * * * *
179541 GATCGGAGTATCCCTAATTATGGAAAATCGGTGTTTTAGAAATAAAA
65 GGTTGGAGTAT-CCTTATTGTGGAAAATCGATGTTTTAGAAATAAAA
179588 ACATGAATGA
Statistics
Matches: 292, Mismatches: 47, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
236 7 0.02
237 182 0.62
238 97 0.33
239 6 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (236 bp):
CGATGGTGGAAAATCATGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACAGG
GTTGGAGTATCCTTATTGTGGAAAATCGATGTTTTAGAAATAAAACCAAGGTTGGAGCATCCCCT
CAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAATCAGG
GTTAGAGTATCCCCTCGAAAATAACAGGGTTGAAGTATCCT
Found at i:179589 original size:159 final size:158
Alignment explanation
Indices: 179006--179590 Score: 633
Period size: 159 Copynumber: 3.7 Consensus size: 158
178996 TTCCCCGATG
* ** * * *
179006 GTGGAAAATCAATGTTTTGGTGATAAAACTGGGGTTGGGGTATCCCCTCGAAAATAACAAGGTTA
1 GTGGAAAATCAGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTG
* * * ** * *
179071 GAGTATCTCTTATTGTGGAAAATCGATGTTTTAGAAATAAAGCCAAGGTTGGAGCATCCCCTCAG
66 GAGTATCCCTGATTGTGAAAAATCGATGTTTTAGAAATAAAAACAGGGTTGGAGTATCCCCTCAG
179136 AAATAACAGGGTTGGAGTATCCTTGATT
131 AAATAACAGGGTTGGAGTATCCTTGATT
** * * * * *
179164 GTGGAAAATTGGTGTTTTAGAAATAAAAATCGGGGTTAGAGTATTCCCTCGAAAATAATAGGGTT
1 GTGGAAAATCAGTGTTTTGGAAATAAAACT-GGGGTTGGAGTATCCCCTCGAAAATAACAGGGTT
* * * * *
179229 GAAGTAT-CCTCGATGGTGAAAAATCGATGTTTT-GGAATAAAATCAGGGTTAGAGTATCCCCTC
65 GGAGTATCCCT-GATTGTGAAAAATCGATGTTTTAGAAATAAAAACAGGGTTGGAGTATCCCCTC
* * *
179292 AAAAATAA-TGGTGTTGGAGTATCCTTGATG
129 AGAAATAACAGG-GTTGGAGTATCCTTGATT
*** * **
179322 GTGGAAAATC-GATGTTTTGGAAATAAAACCAAGGTTGGAGTATCCCCTCGGAAATAATGGGGTT
1 GTGGAAAATCAG-TGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTT
* *
179386 GGAGTATCCCCGATTGTGAAAAATCGATGTTTTTGAAA-ATAAAACTAGGGTTGGAGTATCCCCT
65 GGAGTATCCCTGATTGTGAAAAATCGATGTTTTAGAAATA-AAAAC-AGGGTTGGAGTATCCCCT
* **
179450 CAGAAATAACAGGGTTGGAGTATCGTCAATT
128 CAGAAATAACAGGGTTGGAGTATCCTTGATT
* * * * *
179481 ATGGAAAATCAGTGTTGTGGAAATAAAACTGGGGTTGGAGTATCCCCT-TAGAAATAACAGGATC
1 GTGGAAAATCAGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCGA-AAATAACAGGGTT
* * * *
179545 GGAGTATCCCTAATTATGGAAAATCGGTGTTTTAGAAATAAAAACA
65 GGAGTATCCCTGATTGTGAAAAATCGATGTTTTAGAAATAAAAACA
179591 TGAATGAAAT
Statistics
Matches: 349, Mismatches: 66, Indels: 24
0.79 0.15 0.05
Matches are distributed among these distances:
157 59 0.17
158 107 0.31
159 179 0.51
160 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (158 bp):
GTGGAAAATCAGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTG
GAGTATCCCTGATTGTGAAAAATCGATGTTTTAGAAATAAAAACAGGGTTGGAGTATCCCCTCAG
AAATAACAGGGTTGGAGTATCCTTGATT
Found at i:181963 original size:18 final size:18
Alignment explanation
Indices: 181942--181976 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
181932 AAAATGCCTG
181942 AATGTATCGATACATCTC
1 AATGTATCGATACATCTC
181960 AATGTATCGATACATCT
1 AATGTATCGATACATCT
181977 GGGTAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (18 bp):
AATGTATCGATACATCTC
Done.