Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold415
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: 1242643
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 8
Found at i:10785 original size:79 final size:79
Alignment explanation
Indices: 10685--10871 Score: 223
Period size: 79 Copynumber: 2.4 Consensus size: 79
10675 GTGTCTCCTT
* * * * * *
10685 GAAAATGACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGGAAAAAAAATCGGGA
1 GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGGAAAAAAAACCGGGA
10749 TTGGAGTATCCCCTC
65 TTGGAGTATCCCCTC
* * * * * *
10764 GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGT
1 GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGGAAAAAAAACCGGGAT
10829 TGGAGTATCCCCTC
66 TGGAGTATCCCCTC
* **
10843 GGAGGTAACGGGGTTGGAGTATCCCCGAT
1 GAAAATAACGGGGTTGGAGTATCCCCGAT
10872 GAAATAACGA
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 90 0.99
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (79 bp):
GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGGAAAAAAAACCGGGAT
TGGAGTATCCCCTC
Found at i:10879 original size:28 final size:28
Alignment explanation
Indices: 10823--10899 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
10813 GGAATAAAGC
*** **
10823 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
10851 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
10879 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
10900 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:10995 original size:52 final size:53
Alignment explanation
Indices: 10924--11059 Score: 186
Period size: 52 Copynumber: 2.6 Consensus size: 53
10914 ATGTTTTTGG
* * *
10924 AAATAAAATCGGAGCTGGAGTATCCCCGATTAAAGG-AAAATTGGTGTTTTAA
1 AAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTAGTGTTTTAA
** *
10976 AAATAAAATCGGGGTTGGAGTATCCCCGATT-GTGGAAAAATTAGTGTTTTAG
1 AAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTAGTGTTTTAA
* *
11028 CAATGAAATCGGGGTTGGAGTATCCCCGATTA
1 AAATAAAATCGGGGTTGGAGTATCCCCGATTA
11060 TGAGAAATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.03
52 72 0.97
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (53 bp):
AAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTAGTGTTTTAA
Found at i:11098 original size:51 final size:52
Alignment explanation
Indices: 10985--11105 Score: 140
Period size: 51 Copynumber: 2.3 Consensus size: 52
10975 AAAATAAAAT
* * * * *
10985 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATGAAAT
1 CGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGCAATGAAAG
*
11037 CGGGGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTAAG-AAT-AAAG
1 CGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTT-AGCAATGAAAG
*
11087 CAGGGGTTGGAGTGTCCCC
1 C-GGGGTTGGAGTATCCCC
11106 TTAGAAATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 4 0.07
51 31 0.52
52 25 0.42
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGCAATGAAAG
Found at i:11123 original size:28 final size:27
Alignment explanation
Indices: 11089--11163 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
11079 GAATAAAGCA
* *
11089 GGGGTTGGAGTGTCCCC-TTAGAAATAAC
1 GGGGTTGGAGTATCCCCGAT-G-AATAAC
*
11117 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
11144 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
11164 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.58
28 17 0.40
29 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.25
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:11210 original size:53 final size:51
Alignment explanation
Indices: 11147--11269 Score: 176
Period size: 51 Copynumber: 2.4 Consensus size: 51
11137 GATTAACGGG
*
11147 GTTGGAGTATCCCCGATTGT-GAAAAATTTGTGTTTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAG-AAAATTAGTG--TTTTGAAAATAAAATCGGA
*
11200 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAGAAAATTAGTGTTTTGAAAATAAAATCGGA
* *
11251 GATGGAATATCCCCGATTG
1 GTTGGAGTATCCCCGATTG
11270 AGGAGAATTG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
51 35 0.55
53 28 0.44
54 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTAGAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:11262 original size:51 final size:52
Alignment explanation
Indices: 10885--11268 Score: 182
Period size: 52 Copynumber: 7.3 Consensus size: 52
10875 ATAACGAGGT
* * * *
10885 TGGAGTATCCTCGATTGTGAAAAAAATT-GATGTTTTTGGAAATAAAATCGGAGC
1 TGGAGTATCCCCGATTATG--AAAAATTAG-TGTTTTTGAAAATAAAATCGGAGA
* * * * * *
10939 TGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTAAAAATAAAATCGGGGT
1 TGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTTGAAAATAAAATCGGAGA
* * * * * *
10991 TGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAG-CAATGAAATCGGGGT
1 TGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTTGAAAATAAAATCGGAGA
* * * * * * *
11043 TGGAGTATCCCCGATTATGAGAAATCAAT-ATTTT-AAGAAT-AAAGCAGGGGT
1 TGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAA-AATAAAATC-GGAGA
* * **** ** * * *
11094 TGGAGTGTCCCC--TTA-GAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGGGT
1 TGGAGTATCCCCGATTATGAAA-AA-----TT--AGTGTTTTTGAAAATAAAATCGGAGA
* * *
11149 TGGAGTATCCCCGATTGTGAAAAATTTGTGTTTTTTGAAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTTGAAAATAAAATCGGAGA
11202 TGGAGTATCCCCGATTAT-AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGA
1 TGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTTGAAAATAAAATCGGAGA
*
11253 TGGAATATCCCCGATT
1 TGGAGTATCCCCGATT
11269 GAGGAGAATT
Statistics
Matches: 254, Mismatches: 52, Indels: 51
0.71 0.15 0.14
Matches are distributed among these distances:
48 3 0.01
49 5 0.02
50 9 0.04
51 67 0.26
52 78 0.31
53 42 0.17
54 17 0.07
55 17 0.07
56 3 0.01
57 8 0.03
58 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (52 bp):
TGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAAAATAAAATCGGAGA
Found at i:13650 original size:13 final size:13
Alignment explanation
Indices: 13632--13657 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13622 ACAAAGATCC
13632 ATGTATCGATACA
1 ATGTATCGATACA
13645 ATGTATCGATACA
1 ATGTATCGATACA
13658 CAGAAAAATG
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:13653 original size:33 final size:33
Alignment explanation
Indices: 13611--13677 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
13601 AAAATTTCCA
***
13611 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
13644 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
13677 A
1 A
13678 TTTCCTTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:13721 original size:19 final size:18
Alignment explanation
Indices: 13697--13764 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
13687 TAGTAGCTAA
13697 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
13716 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
13731 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
13748 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
13765 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:13737 original size:13 final size:13
Alignment explanation
Indices: 13719--13743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13709 ACAATACTTA
13719 TGTATCGATACAT
1 TGTATCGATACAT
13732 TGTATCGATACA
1 TGTATCGATACA
13744 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:13741 original size:32 final size:32
Alignment explanation
Indices: 13700--13762 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
13690 TAGCTAATTA
*
13700 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
13732 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
13763 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:13829 original size:21 final size:20
Alignment explanation
Indices: 13800--13878 Score: 95
Period size: 21 Copynumber: 3.8 Consensus size: 20
13790 GTTGGGACCC
13800 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTA-AA
* **
13821 TGCATCGATACATTTCACAAA
1 TGTATCGATACATTT-GTAAA
*
13842 TGTATCGATACATTCTATAAA
1 TGTATCGATACATT-TGTAAA
13863 TGTATCGATACATTTG
1 TGTATCGATACATTTG
13879 AATTTTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 47 0.94
22 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTTGTAAA
Found at i:19701 original size:16 final size:17
Alignment explanation
Indices: 19680--19724 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
19670 ATGATTAGGC
19680 TTTTTTTTCTTTC-TTT
1 TTTTTTTTCTTTCATTT
*
19696 TTTTTTTTCTCTCATTT
1 TTTTTTTTCTTTCATTT
*
19713 TCTTTCTTTCTT
1 T-TTTTTTTCTT
19725 CATATTTTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.50
17 4 0.17
18 8 0.33
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTTTCTTTCATTT
Found at i:20521 original size:75 final size:75
Alignment explanation
Indices: 20363--20524 Score: 199
Period size: 76 Copynumber: 2.1 Consensus size: 75
20353 TTTAATTTAA
20363 AATTTTTTATTTTATTAAAAAATTAATAATTAATATTTCAATTTTTCAATACAATTTTTTCAAAT
1 AATTTTTTATTTTATTAAAAAATTAATAATTAATA--TCAATTTTTCAATACAATTTTTTCAAAT
*
20428 TTAATTTAATTT
64 TTAATTAAATTT
20440 AATTTTTTATTTT-TTAAAAAATTAATAATTAATA-C-ATTGATTTCAAT-CTAAGTTTTTTTC-
1 AATTTTTTATTTTATTAAAAAATTAATAATTAATATCAATT--TTTCAATAC-AA--TTTTTTCA
20500 AATTTAATTAAAATTT
61 AATTTAATT-AAATTT
*
20516 ATTTTTTTA
1 AATTTTTTA
20525 ATTTCCTTGG
Statistics
Matches: 77, Mismatches: 2, Indels: 13
0.84 0.02 0.14
Matches are distributed among these distances:
72 3 0.04
73 2 0.03
74 9 0.12
75 9 0.12
76 41 0.53
77 13 0.17
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (75 bp):
AATTTTTTATTTTATTAAAAAATTAATAATTAATATCAATTTTTCAATACAATTTTTTCAAATTT
AATTAAATTT
Found at i:21043 original size:20 final size:20
Alignment explanation
Indices: 21015--21056 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21005 TATCGAAATA
*
21015 ATAACTGAATGTATCGATAC
1 ATAACTGAATATATCGATAC
* *
21035 ATAAGTGAATATATTGATAC
1 ATAACTGAATATATCGATAC
21055 AT
1 AT
21057 GTCTGAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (20 bp):
ATAACTGAATATATCGATAC
Found at i:26632 original size:191 final size:191
Alignment explanation
Indices: 26289--26663 Score: 529
Period size: 191 Copynumber: 2.0 Consensus size: 191
26279 CTGACTCCTT
* * * *
26289 CAGTCTCCCTGGTGATCTATCTGAACCCAATAGCGGTCAATCAATTTATTCTTACTCAAGAGGCA
1 CAGTCACCCTAGTGATCTATCTAAACCCAATAGCGGTCAATCAATTTATTCCTACTCAAGAGGCA
* * **
26354 GGTGCGAGAGCATCACCAATCGACCTTACAACTATCAACTATGAGAGCCAAGAAAGGACGGAAGG
66 AGTGCGAGAGCATCACCAATCGACCTTACAACTATCAACCATGAGAGCCAAGAAAGGACAAAAGG
*
26419 CCAAAAGTCTGCAATAGCCATAGAAAAAATGGACAAATATCAACTCTTGGAGAAGCACCTC
131 CCAAAAGTCTGCAATAGCCATAGAAAAAATGGACAAATATCAACTCTTAGAGAAGCACCTC
* * * * *
26480 CAGTCACCCTAGTGATCTATTTAAACCCAATGGTGG-CAAATCAATTTATTCCTGCTCAAGGGGC
1 CAGTCACCCTAGTGATCTATCTAAACCCAATAGCGGTC-AATCAATTTATTCCTACTCAAGAGGC
* * *
26544 AAGTGC-AGATGCATTACTAATCGACCTTACAACTATCAACCATGAGAGCCAAGAATGGACAAAA
65 AAGTGCGAGA-GCATCACCAATCGACCTTACAACTATCAACCATGAGAGCCAAGAAAGGACAAAA
* * * *
26608 GGCCAAAAGTTTGCAATTGCCATAGAAGAAATGGATAAATATCAACTCTTAGAGAA
129 GGCCAAAAGTCTGCAATAGCCATAGAAAAAATGGACAAATATCAACTCTTAGAGAA
26664 ACGCCTCAAG
Statistics
Matches: 161, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
190 4 0.02
191 157 0.98
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (191 bp):
CAGTCACCCTAGTGATCTATCTAAACCCAATAGCGGTCAATCAATTTATTCCTACTCAAGAGGCA
AGTGCGAGAGCATCACCAATCGACCTTACAACTATCAACCATGAGAGCCAAGAAAGGACAAAAGG
CCAAAAGTCTGCAATAGCCATAGAAAAAATGGACAAATATCAACTCTTAGAGAAGCACCTC
Found at i:27338 original size:13 final size:13
Alignment explanation
Indices: 27320--27344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27310 ATGTTGCATA
27320 GTATCGATACATT
1 GTATCGATACATT
27333 GTATCGATACAT
1 GTATCGATACAT
27345 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:27463 original size:13 final size:13
Alignment explanation
Indices: 27445--27470 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27435 ACACACATTA
27445 TGTATCGATACAT
1 TGTATCGATACAT
27458 TGTATCGATACAT
1 TGTATCGATACAT
27471 CCCAAAATGT
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:27486 original size:33 final size:32
Alignment explanation
Indices: 27425--27492 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
27415 ACTTAACTAT
**
27425 TTGTATCGATACACACATTATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
27457 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
27490 TTG
1 TTG
27493 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:29082 original size:3 final size:3
Alignment explanation
Indices: 29074--29098 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
29064 GGATGACGAA
29074 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
29099 GTGACTCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:30852 original size:31 final size:31
Alignment explanation
Indices: 30814--30877 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
30804 GGTAAAAGAT
30814 ATGGATTTGTCATTGTGGATGATTATTCTAG
1 ATGGATTTGTCATTGTGGATGATTATTCTAG
30845 ATGGATTTGTCATTGTGGATGATTATTCTAG
1 ATGGATTTGTCATTGTGGATGATTATTCTAG
30876 AT
1 AT
30878 ACACTTGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.45
Consensus pattern (31 bp):
ATGGATTTGTCATTGTGGATGATTATTCTAG
Found at i:33438 original size:8 final size:8
Alignment explanation
Indices: 33425--33450 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
33415 ATTTAATTAA
33425 ATTTTGTG
1 ATTTTGTG
33433 ATTTTGTG
1 ATTTTGTG
33441 ATTTTGTG
1 ATTTTGTG
33449 AT
1 AT
33451 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:33672 original size:13 final size:13
Alignment explanation
Indices: 33654--33689 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
33644 GCATTCTCTA
*
33654 TATCGATACATTG
1 TATCGATACAGTG
*
33667 TATCGATATAGTG
1 TATCGATACAGTG
33680 TATCGATACA
1 TATCGATACA
33690 AAGGGATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:34168 original size:21 final size:20
Alignment explanation
Indices: 34124--34175 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
34114 CCTCTAGGCA
* *
34124 GCACCCACCAGGTCGCGACTG
1 GCACCC-CCAGGTCGCAACGG
34145 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAA-CGG
34166 GCAGCCCCCA
1 GCA-CCCCCA
34176 CACTAGTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 10 0.37
21 11 0.41
22 6 0.22
ACGTcount: A:0.19, C:0.48, G:0.27, T:0.06
Consensus pattern (20 bp):
GCACCCCCAGGTCGCAACGG
Found at i:35550 original size:22 final size:22
Alignment explanation
Indices: 35524--35568 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
35514 CGAAATTGTT
35524 AAATTATCTT-ATCAAGGGGGAG
1 AAATT-TCTTGATCAAGGGGGAG
* *
35546 AAATTTTTTGATTAAGGGGGAG
1 AAATTTCTTGATCAAGGGGGAG
35568 A
1 A
35569 GAAAAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (22 bp):
AAATTTCTTGATCAAGGGGGAG
Found at i:36142 original size:13 final size:13
Alignment explanation
Indices: 36124--36148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36114 ATGTTGCACA
36124 GTATCGATACATT
1 GTATCGATACATT
36137 GTATCGATACAT
1 GTATCGATACAT
36149 GACCAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:39850 original size:13 final size:13
Alignment explanation
Indices: 39832--39856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39822 ATGTTGCACA
39832 GTATCGATACATT
1 GTATCGATACATT
39845 GTATCGATACAT
1 GTATCGATACAT
39857 GACCAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:39981 original size:20 final size:20
Alignment explanation
Indices: 39938--39989 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
39928 CTTAACTATT
**
39938 TGTATCGATACA-CACATTA
1 TGTATCGATACATCACAAAA
*
39957 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
39977 TGTATCGATACAT
1 TGTATCGATACAT
39990 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:43922 original size:13 final size:13
Alignment explanation
Indices: 43904--43963 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
43894 CCTTAAGATT
43904 TTTTTTAATTTAA
1 TTTTTTAATTTAA
*
43917 TTTTTTAGTTTAATTTAG
1 --TTTT--T-TAATTTAA
*
43935 TTTTTTATTTTAA
1 TTTTTTAATTTAA
43948 TTTTTTAATTT-A
1 TTTTTTAATTTAA
43960 TTTT
1 TTTT
43964 AAAATTGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
12 5 0.13
13 16 0.42
14 1 0.03
15 4 0.11
16 4 0.11
17 1 0.03
18 7 0.18
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTTTAATTTAA
Found at i:43930 original size:18 final size:18
Alignment explanation
Indices: 43907--43950 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
43897 TAAGATTTTT
43907 TTTAATTTAATTTTTTAG
1 TTTAATTTAATTTTTTAG
* *
43925 TTTAATTTAGTTTTTTAT
1 TTTAATTTAATTTTTTAG
43943 TTTAATTT
1 TTTAATTT
43951 TTTAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTAATTTAATTTTTTAG
Found at i:43939 original size:31 final size:31
Alignment explanation
Indices: 43904--43964 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
43894 CCTTAAGATT
*
43904 TTTTTTAATTTAATTTTTTAGTTTAATTTAG
1 TTTTTTAATTTAATTTTTTAATTTAATTTAG
* *
43935 TTTTTTATTTTAATTTTTTAATTTATTTTA
1 TTTTTTAATTTAATTTTTTAATTTAATTTA
43965 AAATTGTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (31 bp):
TTTTTTAATTTAATTTTTTAATTTAATTTAG
Found at i:43975 original size:31 final size:31
Alignment explanation
Indices: 43912--43978 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
43902 TTTTTTTTAA
* *** *
43912 TTTAATTTTTTAGTTTAATTTAGTTTTTTAT
1 TTTAATTTTTTAATTTAATTTAAAATTGTAT
*
43943 TTTAATTTTTTAATTTATTTTAAAATTGTAT
1 TTTAATTTTTTAATTTAATTTAAAATTGTAT
43974 TTTAA
1 TTTAA
43979 GAGTATTAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (31 bp):
TTTAATTTTTTAATTTAATTTAAAATTGTAT
Found at i:46004 original size:2 final size:2
Alignment explanation
Indices: 45992--46031 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
45982 TGCTCCTTGA
45992 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46032 AAGAACTAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:48965 original size:84 final size:84
Alignment explanation
Indices: 48824--48996 Score: 249
Period size: 84 Copynumber: 2.1 Consensus size: 84
48814 ATACATTATA
* * * **
48824 TAAAAAAAAATTAAGATGATATCTAAATTTATTTCAAACACAAATTTACGAATTAGTATTATGCC
1 TAAAAAAAAATTAAGATGATATCCAAATTTATTTCAAACACAAATATACAAATTAGTAACATGCC
48889 A-CAAATACAACACGTGATG
66 ATC-AATACAACACGTGATG
* * *
48908 TAAAAGAAAATTAAGATGATATCCAAATTTATTTCAAACATATATATACAAATTAGTAACATGCC
1 TAAAAAAAAATTAAGATGATATCCAAATTTATTTCAAACACAAATATACAAATTAGTAACATGCC
*
48973 ATCAATACAACACGTGGTG
66 ATCAATACAACACGTGATG
48992 TAAAA
1 TAAAA
48997 TTAAGAGATA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 78 0.99
85 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (84 bp):
TAAAAAAAAATTAAGATGATATCCAAATTTATTTCAAACACAAATATACAAATTAGTAACATGCC
ATCAATACAACACGTGATG
Found at i:49207 original size:8 final size:8
Alignment explanation
Indices: 49188--49227 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
49178 ACATCAAACA
49188 AAAAATAT
1 AAAAATAT
49196 -AAAATAT
1 AAAAATAT
49203 AAAAATAT
1 AAAAATAT
* *
49211 AAAATTAA
1 AAAAATAT
49219 AAAAATAT
1 AAAAATAT
49227 A
1 A
49228 TATAAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAAATAT
Found at i:49208 original size:15 final size:16
Alignment explanation
Indices: 49187--49227 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
49177 TACATCAAAC
49187 AAAAAATATAAAA-TA
1 AAAAAATATAAAATTA
*
49202 TAAAAATATAAAATTA
1 AAAAAATATAAAATTA
49218 AAAAAATATA
1 AAAAAATATA
49228 TATAAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATATAAAATTA
Found at i:51990 original size:24 final size:25
Alignment explanation
Indices: 51963--52026 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
51953 ATACATACAC
*
51963 ATATAATCATATATGTA-TATATTA
1 ATATAATCATATATGTATTATATAA
*
51987 ATATAATCAGAATTATGTATTATATAA
1 ATATAATCA-TA-TATGTATTATATAA
*
52014 ATATTA-CATATAT
1 ATATAATCATATAT
52027 AAATACACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 12 0.36
25 2 0.06
26 8 0.24
27 11 0.33
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (25 bp):
ATATAATCATATATGTATTATATAA
Found at i:52916 original size:19 final size:18
Alignment explanation
Indices: 52892--52930 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
52882 ATATTTAAAA
*
52892 AAATTTAAATAATAATTTT
1 AAATTTAAA-AATAAATTT
52911 AAATTTAAAAATAAATTT
1 AAATTTAAAAATAAATTT
52929 AA
1 AA
52931 GTAAAGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTTAAAAATAAATTT
Found at i:54261 original size:31 final size:32
Alignment explanation
Indices: 54223--54310 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 32
54213 CTATCTCTTG
54223 AAGGTTAAGATAGAACTTCTCTA-TCTTTTCA
1 AAGGTTAAGATAGAACTTCTCTATTCTTTTCA
* * *
54254 TAGGTTAAGATAGAACCTTTTTTCCTATTTTTTTCA
1 AAGGTTAAGATAGAA-C--TTCT-CTATTCTTTTCA
*
54290 AAGGCTAAGATAGAACTTCTC
1 AAGGTTAAGATAGAACTTCTC
54311 AATCACTTCG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
31 14 0.30
32 2 0.04
33 3 0.07
34 3 0.07
35 4 0.09
36 20 0.43
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (32 bp):
AAGGTTAAGATAGAACTTCTCTATTCTTTTCA
Found at i:54873 original size:19 final size:20
Alignment explanation
Indices: 54845--54889 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
54835 TATTTCATAG
54845 TGTATCAATACAAAG-AACA
1 TGTATCAATACAAAGCAACA
* * *
54864 TGTATTAATACTAAGCAATA
1 TGTATCAATACAAAGCAACA
54884 TGTATC
1 TGTATC
54890 GATATATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (20 bp):
TGTATCAATACAAAGCAACA
Found at i:56319 original size:14 final size:12
Alignment explanation
Indices: 56293--56346 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 12
56283 TGTATATACA
56293 TTTAAAAAT-AT
1 TTTAAAAATAAT
56304 TTTAATAACATAAT
1 TTTAA-AA-ATAAT
56318 TTTAAAAAATAAT
1 TTT-AAAAATAAT
56331 TATTAAAAATAAT
1 T-TTAAAAATAAT
56344 TTT
1 TTT
56347 TTCGTGATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.13
12 4 0.11
13 18 0.47
14 9 0.24
15 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTAAAAATAAT
Found at i:56798 original size:6 final size:6
Alignment explanation
Indices: 56787--56819 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
56777 ATTTCCAGCA
56787 CCATAG CCATAG CCATAG CCATAG CCATAG CCA
1 CCATAG CCATAG CCATAG CCATAG CCATAG CCA
56820 AAAGCTTAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.36, G:0.15, T:0.15
Consensus pattern (6 bp):
CCATAG
Found at i:57847 original size:18 final size:19
Alignment explanation
Indices: 57824--57861 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
57814 AAGATAAATT
57824 ATTTATTTAA-ATTTAAAA
1 ATTTATTTAATATTTAAAA
57842 ATTTATTTAATATTTAAAA
1 ATTTATTTAATATTTAAAA
57861 A
1 A
57862 GTTTTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTATTTAATATTTAAAA
Found at i:57871 original size:18 final size:19
Alignment explanation
Indices: 57834--57871 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
57824 ATTTATTTAA
* *
57834 ATTTAAAAATTTATTTAAT
1 ATTTAAAAAGTTATTGAAT
57853 ATTTAAAAAGTT-TTGAAT
1 ATTTAAAAAGTTATTGAAT
57871 A
1 A
57872 AAAATATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
ATTTAAAAAGTTATTGAAT
Found at i:57923 original size:18 final size:17
Alignment explanation
Indices: 57882--57927 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
57872 AAAATATTAA
*
57882 ATTTAAAAAATAGATTT
1 ATTTAAAAAATAAATTT
**
57899 ACATAAAAAATAAATTTT
1 ATTTAAAAAATAAA-TTT
57917 ATTTAAAAAAT
1 ATTTAAAAAAT
57928 TAGATAGGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
ATTTAAAAAATAAATTT
Found at i:59185 original size:14 final size:14
Alignment explanation
Indices: 59168--59198 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59158 AAAAAAATAA
59168 TAAAAAAAAGAAAC
1 TAAAAAAAAGAAAC
*
59182 TAAAAAAAAGAAGC
1 TAAAAAAAAGAAAC
59196 TAA
1 TAA
59199 TGTCAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (14 bp):
TAAAAAAAAGAAAC
Found at i:63345 original size:20 final size:21
Alignment explanation
Indices: 63320--63371 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
63310 AATTTGAATA
63320 ATATTTTTATTATA-ACATT-T
1 ATATTTTTATTATATA-ATTAT
*
63340 ATA-TTTTATAATATAATTAT
1 ATATTTTTATTATATAATTAT
63360 ATATTTTT-TTAT
1 ATATTTTTATTAT
63372 TTATTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 12 0.44
20 11 0.41
21 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATTTTTATTATATAATTAT
Found at i:66307 original size:78 final size:77
Alignment explanation
Indices: 66152--66334 Score: 208
Period size: 78 Copynumber: 2.4 Consensus size: 77
66142 TAACCCACAA
* * * * * *
66152 ACTCGA-TTTCGATGCAATATCACCTAGGTAACCCTAATGGACGTGTATCAACATGAAAGTTCTT
1 ACTCGATTTTC-ATGTAATATTACCTAAGTAACCCTAATAGACATGTATCAACATGAAAGTTCAT
*
66216 ACATGATCTTAGAG
65 ACA-GATCGTAGAG
* * *
66230 ACTCGATTTTCATGTAATATTACCTAAGTAACCCTATTAGACATGTATTAGCATGAAAGTTCCCA
1 ACTCGATTTTCATGTAATATTACCTAAGTAACCCTAATAGACATGTATCAACATGAAAGTT--CA
66295 TACA-ATCGTAGAG
64 TACAGATCGTAGAG
* *
66308 ACTTGGTTTTCATGTAATATTACCTAA
1 ACTCGATTTTCATGTAATATTACCTAA
66335 ATACCTCTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 81 0.90
79 4 0.04
80 5 0.06
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (77 bp):
ACTCGATTTTCATGTAATATTACCTAAGTAACCCTAATAGACATGTATCAACATGAAAGTTCATA
CAGATCGTAGAG
Found at i:66788 original size:21 final size:21
Alignment explanation
Indices: 66762--66805 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
66752 AAAATTGAAA
66762 AATAATCCCATATGTGTATGC
1 AATAATCCCATATGTGTATGC
66783 AATAATCCCATATGTGTATGC
1 AATAATCCCATATGTGTATGC
66804 AA
1 AA
66806 AACATTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (21 bp):
AATAATCCCATATGTGTATGC
Found at i:68162 original size:20 final size:20
Alignment explanation
Indices: 68139--68231 Score: 141
Period size: 20 Copynumber: 4.6 Consensus size: 20
68129 ACAATTCAAA
68139 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
68159 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
68179 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
68200 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
68220 GTATCGATACAT
1 GTATCGATACAT
68232 AAAAAAGTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 48 0.75
21 16 0.25
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:68203 original size:21 final size:21
Alignment explanation
Indices: 68177--68252 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
68167 ACATGTTGCA
68177 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
68198 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
68218 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
68239 TTGTATCGATACAT
1 ATGTATCGATACAT
68253 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:68210 original size:41 final size:41
Alignment explanation
Indices: 68157--68252 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
68147 ACATGTTGCA
*
68157 ATGTATCGATACATGTTGCAATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGTTGCAATGTATCGATACATAAAAAAG
68198 ATGTATCGATACATGTTGCAATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGTTGCAATGTATCGATACATAAAAAAG
*
68239 TTGTATCGATACAT
1 ATGTATCGATACAT
68253 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (41 bp):
ATGTATCGATACATGTTGCAATGTATCGATACATAAAAAAG
Found at i:68309 original size:13 final size:13
Alignment explanation
Indices: 68291--68316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68281 TACAGCAAGT
68291 ATGTATCGATACA
1 ATGTATCGATACA
68304 ATGTATCGATACA
1 ATGTATCGATACA
68317 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:72398 original size:15 final size:15
Alignment explanation
Indices: 72378--72408 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
72368 TAAAAATGTC
*
72378 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
72393 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
72408 C
1 C
72409 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:74503 original size:20 final size:20
Alignment explanation
Indices: 74424--74503 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
74414 AATGTCCAAA
*
74424 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
74444 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
74469 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
74489 TTGTATCGATACATT
1 ATGTATCGATACATT
74504 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:74507 original size:13 final size:13
Alignment explanation
Indices: 74489--74527 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
74479 ACATTTTTCT
74489 TTGTATCGATACA
1 TTGTATCGATACA
74502 TTGTATCGATACA
1 TTGTATCGATACA
*
74515 CTGTATCGATACA
1 TTGTATCGATACA
74528 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:76977 original size:20 final size:21
Alignment explanation
Indices: 76952--77049 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 21
76942 AAAACCCCTA
76952 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACATAATTGC
*
76972 AAAGTATCGATACAT-GTTGC
1 AAAGTATCGATACATAATTGC
* *
76992 AATGTATCGATACATGAA---A
1 AAAGTATCGATACAT-AATTGC
*
77011 AAGATGTATCGATACAT-GTTGC
1 AA-A-GTATCGATACATAATTGC
*
77033 AATGTATCGATACATAA
1 AAAGTATCGATACATAA
77050 AAAAGTTGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
19 4 0.07
20 42 0.70
21 12 0.20
22 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (21 bp):
AAAGTATCGATACATAATTGC
Found at i:77019 original size:21 final size:21
Alignment explanation
Indices: 76993--77068 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
76983 ACATGTTGCA
76993 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
77014 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
77034 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
77055 TTGTATCGATACAT
1 ATGTATCGATACAT
77069 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:77027 original size:41 final size:41
Alignment explanation
Indices: 76975--77068 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
76965 ATAATTCAAA
*
76975 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
77016 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
77057 GTATCGATACAT
1 GTATCGATACAT
77069 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:77125 original size:13 final size:13
Alignment explanation
Indices: 77107--77132 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77097 TACAGCAAGT
77107 ATGTATCGATACA
1 ATGTATCGATACA
77120 ATGTATCGATACA
1 ATGTATCGATACA
77133 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:89814 original size:14 final size:14
Alignment explanation
Indices: 89791--89849 Score: 59
Period size: 15 Copynumber: 4.2 Consensus size: 14
89781 TCCAAAACTA
* *
89791 TTTAATAATACAAT
1 TTTAAAAATAAAAT
89805 TTTAAAAAT--AAT
1 TTTAAAAATAAAAT
89817 TATTAAAAATAAAAT
1 T-TTAAAAATAAAAT
*
89832 TTATAAAATTAAAAT
1 TT-TAAAAATAAAAT
89847 TTT
1 TTT
89850 TAAACTGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 4 0.10
13 8 0.21
14 10 0.26
15 17 0.44
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAAAATAAAAT
Found at i:89838 original size:15 final size:15
Alignment explanation
Indices: 89820--89853 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
89810 AAATAATTAT
89820 TAAAAATAAAATTTA
1 TAAAAATAAAATTTA
* *
89835 TAAAATTAAAATTTT
1 TAAAAATAAAATTTA
89850 TAAA
1 TAAA
89854 CTGATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAAATAAAATTTA
Found at i:89920 original size:28 final size:30
Alignment explanation
Indices: 89867--89923 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
89857 ATTTTTTATA
89867 TTTTAAAAATATTTATTAATCATATTTAAT
1 TTTTAAAAATATTTATTAATCATATTTAAT
*
89897 TTTTTAAAAT-TTTA-TAAT-ATTATTTAA
1 TTTTAAAAATATTTATTAATCA-TATTTAA
89924 GTTTCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 1 0.04
28 11 0.44
29 4 0.16
30 9 0.36
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTTAAAAATATTTATTAATCATATTTAAT
Found at i:91251 original size:2 final size:2
Alignment explanation
Indices: 91244--91275 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
91234 ATAGAAATCG
91244 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
91276 TTTATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:91658 original size:18 final size:17
Alignment explanation
Indices: 91605--91674 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
91595 AATATTTAAA
91605 AAATTTTACGTAAAAATATT
1 AAATTTTA--TAAAAA-ATT
91625 AAA--TT-TAAAAAA-T
1 AAATTTTATAAAAAATT
91638 AAATTTATATAAAAAATT
1 AAATTT-TATAAAAAATT
*
91656 AAATTTTTTAAAAAATT
1 AAATTTTATAAAAAATT
91673 AA
1 AA
91675 CTAAATCTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.09
14 1 0.02
15 7 0.16
16 1 0.02
17 19 0.43
18 9 0.20
20 3 0.07
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (17 bp):
AAATTTTATAAAAAATT
Found at i:91672 original size:17 final size:18
Alignment explanation
Indices: 91627--91674 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
91617 AAAATATTAA
91627 ATTTAAAAAA-TAAATTT
1 ATTTAAAAAATTAAATTT
*
91644 ATATAAAAAATTAAATTT
1 ATTTAAAAAATTAAATTT
91662 -TTTAAAAAATTAA
1 ATTTAAAAAATTAA
91675 CTAAATCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 21 0.75
18 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTTAAAAAATTAAATTT
Found at i:91751 original size:21 final size:19
Alignment explanation
Indices: 91725--91774 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
91715 AGTTTGAATA
91725 ATATTTTTAATTATAACATT-T
1 ATATTTTTAA-TAT-A-ATTAT
91746 ATATTTTATAATATAATTAT
1 ATATTTT-TAATATAATTAT
91766 ATATTTTTA
1 ATATTTTTA
91775 TATTTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 5 0.19
20 9 0.33
21 10 0.37
22 3 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTTTTAATATAATTAT
Found at i:91901 original size:16 final size:16
Alignment explanation
Indices: 91880--91928 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
91870 GATAATTGGA
*
91880 TGGATTCAAATTTATT
1 TGGATTTAAATTTATT
*
91896 TGGATTTAAATTTTTT
1 TGGATTTAAATTTATT
**
91912 TAAATTTAAATTTATT
1 TGGATTTAAATTTATT
91928 T
1 T
91929 AAATTTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (16 bp):
TGGATTTAAATTTATT
Found at i:91913 original size:10 final size:10
Alignment explanation
Indices: 91899--91945 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
91889 ATTTATTTGG
91899 ATTTAAATTT
1 ATTTAAATTT
*
91909 TTTTAAA--T
1 ATTTAAATTT
91917 -T-TAAATTT
1 ATTTAAATTT
91925 ATTTAAATTT
1 ATTTAAATTT
91935 ATTTAAATTT
1 ATTTAAATTT
91945 A
1 A
91946 AATTTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
6 4 0.12
7 1 0.03
8 2 0.06
9 1 0.03
10 24 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:91919 original size:6 final size:6
Alignment explanation
Indices: 91910--91951 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
91900 TTTAAATTTT
91910 TTTAAA TTTAAA TTT--A TTTAAA TTT--A TTTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
91952 TTTTATATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
4 8 0.25
6 24 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:91928 original size:26 final size:26
Alignment explanation
Indices: 91899--91977 Score: 104
Period size: 26 Copynumber: 2.9 Consensus size: 26
91889 ATTTATTTGG
91899 ATTTAAATTTTTTTAAATTTAAATTT
1 ATTTAAATTTTTTTAAATTTAAATTT
*
91925 ATTTAAATTTATTTAAATTTAAATTT
1 ATTTAAATTTTTTTAAATTTAAATTT
*
91951 ATTTTATATTATTTTTTAAAATTTAAA
1 A-TTTA-A--ATTTTTTTAAATTTAAA
91978 ATAATTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 26 0.57
27 4 0.09
28 1 0.02
30 15 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
ATTTAAATTTTTTTAAATTTAAATTT
Found at i:91954 original size:10 final size:10
Alignment explanation
Indices: 91915--91945 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
91905 ATTTTTTTAA
91915 ATTTAAATTT
1 ATTTAAATTT
91925 ATTTAAATTT
1 ATTTAAATTT
91935 ATTTAAATTT
1 ATTTAAATTT
91945 A
1 A
91946 AATTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:91954 original size:16 final size:16
Alignment explanation
Indices: 91887--91935 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
91877 GGATGGATTC
**
91887 AAATTTATTTGGATTT
1 AAATTTATTTAAATTT
*
91903 AAATTTTTTTAAATTT
1 AAATTTATTTAAATTT
91919 AAATTTATTTAAATTT
1 AAATTTATTTAAATTT
91935 A
1 A
91936 TTTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (16 bp):
AAATTTATTTAAATTT
Found at i:91992 original size:14 final size:15
Alignment explanation
Indices: 91973--92001 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
91963 TTTTTAAAAT
91973 TTAAAATAAT-TAAA
1 TTAAAATAATATAAA
91987 TTAAAATAATATAAA
1 TTAAAATAATATAAA
92002 AATTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAATAATATAAA
Found at i:92008 original size:40 final size:41
Alignment explanation
Indices: 91964--92041 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 41
91954 TTATATTATT
*
91964 TTTTAAAATTTAAAATAA-TTAAATTAAAATAATATAAAAA
1 TTTTAAAATTTAAAATAATTTAAATTAAAATAACATAAAAA
*
92004 TTTTAAAATTTAAAATAATTTAATTTAAAATAACATAA
1 TTTTAAAATTTAAAATAATTTAAATTAAAATAACATAA
92042 TCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 18 0.51
41 17 0.49
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (41 bp):
TTTTAAAATTTAAAATAATTTAAATTAAAATAACATAAAAA
Found at i:92042 original size:15 final size:15
Alignment explanation
Indices: 92010--92049 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
92000 AAAATTTTAA
**
92010 AATTTAAAATAATTT
1 AATTTAAAATAACAT
92025 AATTTAAAATAACAT
1 AATTTAAAATAACAT
*
92040 AATCTAAAAT
1 AATTTAAAAT
92050 TAACTTACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTTAAAATAACAT
Found at i:92838 original size:98 final size:100
Alignment explanation
Indices: 92729--92915 Score: 263
Period size: 98 Copynumber: 1.9 Consensus size: 100
92719 TATGAAATAT
* * * *
92729 TTACGTAAATAAAGAATTCAGGTTTAATAAAAAAATTACTCAATGTTTTGA-TCTAATAAAAA-A
1 TTACGTAAATAAAGAATTCAAGATTAATAAAAAAATTACTCAATATTTTAATTCTAATAAAAATA
*
92792 TTATTAATTAATTAAGAA-CATAATGGTTCATACTA
66 TCATTAATTAATTAA-AAGCATAATGGTTCATACTA
* * * *
92827 TTACGTTAATAAAGAATTCAAGATTAATAATAAAATTACTTAATATTTTAATTTTAATAAAAATA
1 TTACGTAAATAAAGAATTCAAGATTAATAAAAAAATTACTCAATATTTTAATTCTAATAAAAATA
92892 TCATTAATTAATTAAAAGCATAAT
66 TCATTAATTAATTAAAAGCATAAT
92916 AATCAATATT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
98 44 0.57
99 12 0.16
100 21 0.27
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (100 bp):
TTACGTAAATAAAGAATTCAAGATTAATAAAAAAATTACTCAATATTTTAATTCTAATAAAAATA
TCATTAATTAATTAAAAGCATAATGGTTCATACTA
Found at i:96185 original size:21 final size:21
Alignment explanation
Indices: 96161--96237 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
96151 AATTTATCCA
96161 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
96182 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
96203 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
96224 AATGTATCGATACA
1 AATGTATCGATACA
96238 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:96297 original size:19 final size:19
Alignment explanation
Indices: 96273--96327 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
96263 AATTCAATAG
96273 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
96292 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
96311 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
96328 TTAGCTACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:96385 original size:13 final size:13
Alignment explanation
Indices: 96367--96392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96357 CATTTTTCTG
96367 TGTATCGATACAT
1 TGTATCGATACAT
96380 TGTATCGATACAT
1 TGTATCGATACAT
96393 GGATCTTTGT
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:96389 original size:33 final size:33
Alignment explanation
Indices: 96347--96413 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
96337 GCCAAGGAAA
***
96347 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
96380 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
96413 T
1 T
96414 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:98794 original size:51 final size:51
Alignment explanation
Indices: 98727--99027 Score: 172
Period size: 51 Copynumber: 5.7 Consensus size: 51
98717 AATTCTCCAC
* * * *
98727 AATCGGAGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCTAT
* * *
98778 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC---AAAACACTAATTTTC-T-AT
* * * * *
98833 AATCGGGGACACTCCAACCCCG-TTAATCATCGGGGATACTCC-AACCCCGTTA-TTTC--T
1 AATCGGGGATACTCCAACCCCGATT--T--T-----AT-TTCCAAAACAC-TAATTTTCTAT
* * * * *
98890 GA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTT-TCAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCT-AT
* * *
98939 AATCGGGGATACTCCAACCCCGGTTTTAATTT-CAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTT-ATTTCCAAAACACTAATTTT-CTAT
*
98991 AATCGGGGATACTCCAACACCGATTTTATTTCCAAAA
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAA
99028 ATATCAAAAT
Statistics
Matches: 190, Mismatches: 32, Indels: 55
0.69 0.12 0.20
Matches are distributed among these distances:
46 5 0.03
47 7 0.04
49 2 0.01
51 66 0.35
52 36 0.19
53 5 0.03
54 13 0.07
55 38 0.20
56 2 0.01
57 1 0.01
58 1 0.01
60 4 0.02
61 5 0.03
63 2 0.01
64 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCTAT
Found at i:98904 original size:28 final size:27
Alignment explanation
Indices: 98837--98909 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
98827 CTTCACAATC
* *
98837 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
98864 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
98892 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
98910 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:99135 original size:211 final size:211
Alignment explanation
Indices: 98727--99135 Score: 538
Period size: 211 Copynumber: 1.9 Consensus size: 211
98717 AATTCTCCAC
* * * *
98727 AATCGGAGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGAGATACTCCAACCCCGATTTTAATTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* * ** *
98792 CAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTT
66 CAACACCGATTTTATTTCCAAAAAAACA-CAATATCTTCACAATCAAGGACACTCCAACCCCGTC
* * * * * *
98857 AATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTCCA
130 AATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCA
98922 AAATATTGATTTTTCAT
195 AAATATTGATTTTTCAT
* * *
98939 AATCGGGGATACTCCAACCCCGGTTTTAATTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGAGATACTCCAACCCCGATTTTAATTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* * * *
99004 CCAACACCGATTTTATTTCCAAAAATATCA-AA-AT-TTCACAATTAAGGATACTCCAACCTCGT
65 CCAACACCGATTTTATTTCCAAAAA-AACACAATATCTTCACAATCAAGGACACTCCAACCCCGT
*
99066 CAATTCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCG-TTATTATCT
129 CAA-TCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACT-TTATCT
99130 CCAAAA
192 CCAAAA
99136 CATTAAATTT
Statistics
Matches: 170, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
210 26 0.15
211 58 0.34
212 43 0.25
213 40 0.24
214 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (211 bp):
AATCGGAGATACTCCAACCCCGATTTTAATTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACACCGATTTTATTTCCAAAAAAACACAATATCTTCACAATCAAGGACACTCCAACCCCGTCA
ATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
AATATTGATTTTTCAT
Found at i:105338 original size:61 final size:58
Alignment explanation
Indices: 105194--106294 Score: 1256
Period size: 59 Copynumber: 19.1 Consensus size: 58
105184 TCTTTTAGCT
* * *
105194 CTTCCTAGTCCTCAAAGAGTAGGATGCC--TC--TTAAACCCCACACAAGTTGGTGGCA
1 CTTCC-AGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
105249 CCTT-CAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCCTT-T-CTTTTAAAGCCCACACAAGTTGGTGGCA
*
105309 CTTCCCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTT-CCAGTCCTCAAAGAGCAGGACGCCTT-T-CTTTTAAAGCCCACACAAGTTGGTGGCA
*
105370 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTT-CCAGTCCTCAAAGAGCAGGACGCCTT-T-CTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
105431 TTTTCCAGTCCTCAAAGAGCAGGACACC--TC--TCAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
105486 CCTTTCAGTCCTCAAAGAGCAGGAC-CC---CTCTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
105541 CTTCCCAGTCCTCAAAGAGCAGGATGCCTCATCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTT-CCAGTCCTCAAAGAGCAGGACGCCT--TTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
105602 TTTTCCAGTCCTCAAAGAGCAGGAC-AC---CTTTTAAAGCCCACACAAGTTGATGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
105657 TTTTCCAGTCCTCAAAGAGCAGGACGCCTCATCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCCT--TTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
105718 TTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAATTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
105778 GC-TCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
105837 TTTTCCAGTCCTCAAAGAGTAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
105897 CCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
105956 CCTT-CAGTCCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGCCCACACAAATTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
106015 CCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
106074 CCTT-CAGTCCTCAAAGAGCAGGACACCTTTC----AAAGCCCACACAAGTTGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
106128 CATT-CAGTCCCCAAAGAGCAGGACACCTTTC----AAAGCCCACACAAGTTGGTGGCA
1 C-TTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
106182 TTTTCCAGTCCTCAAAGAGCAGGACACC--TC--TTAAGGCCCACACAAGTGGGTGGCA
1 -CTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
106237 CCATT-CAGTCCTCAAAGAGCAGGACGCCTTTC----AAAGCCCACACGAGTTGGTGGCA
1 -C-TTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
106292 CTT
1 CTT
106295 TTTACTCCTC
Statistics
Matches: 954, Mismatches: 56, Indels: 73
0.88 0.05 0.07
Matches are distributed among these distances:
53 6 0.01
54 101 0.11
55 228 0.24
56 8 0.01
57 4 0.00
58 6 0.01
59 248 0.26
60 109 0.11
61 239 0.25
62 5 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (58 bp):
CTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:105495 original size:55 final size:54
Alignment explanation
Indices: 105200--106315 Score: 1070
Period size: 55 Copynumber: 19.3 Consensus size: 54
105190 AGCTCTTCCT
* ** * *
105200 AGTCCTCAAAGAGTAGGATGCCTCTTAAACCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTC
*
105254 AGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACA-C--CT-C--TTAAAGCCCACACAAGTTGGTGGCACTT-TC
*
105315 AGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACA-C--CT-C--TTAAAGCCCACACAAGTTGGTGGCACTT-TC
* *
105376 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGAC-AC--CT-C-TT-AAAGCCCACACAAGTTGGTGGCACTTT-C
*
105437 AGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* *
105492 AGTCCTCAAAGAGCAGGACCCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTT-TC
* *
105547 AGTCCTCAAAGAGCAGGATGCCTCATCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGA-----CA-CCTCTTAAAGCCCACACAAGTTGGTGGCACTTT-C
* * *
105608 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGATGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTT-C
* *
105663 AGTCCTCAAAGAGCAGGACGCCTCATCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGA-----CA-CCTCTTAAAGCCCACACAAGTTGGTGGCACTTT-C
* * * *
105724 AATCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAATTGGTGGCAGC-TCC
1 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
105783 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACTTT-C
* *
105843 AGTCCTCAAAGAGTAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
105902 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACTTTC
** * * *
105961 AGTCCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGCCCACACAAATTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
106020 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACTTTC
*
106079 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACATTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTC
* *
106133 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTT-C
* * *
106188 AGTCCTCAAAGAGCAGGACACCTCTTAAGGCCCACACAAGTGGGTGGCACCATTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
106243 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC-TTTC
* *
106298 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
106316 TACACTTTAT
Statistics
Matches: 960, Mismatches: 63, Indels: 77
0.87 0.06 0.07
Matches are distributed among these distances:
53 2 0.00
54 100 0.10
55 250 0.26
56 12 0.01
57 3 0.00
58 4 0.00
59 244 0.25
60 112 0.12
61 233 0.24
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:107090 original size:21 final size:21
Alignment explanation
Indices: 107066--107142 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
107056 AATTTATCCA
*
107066 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTATAG
*
107087 AATGTATCGATACATTTATGG
1 AATGTATCGATACATTTATAG
* *
107108 AATATATCGATACATTCTACA-
1 AATGTATCGATACATT-TATAG
107129 AATGTATCGATACA
1 AATGTATCGATACA
107143 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 47 0.96
22 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTATAG
Found at i:107202 original size:19 final size:19
Alignment explanation
Indices: 107178--107232 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
107168 AATTCAATAG
107178 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
107197 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
* *
107216 ATTATATCGATACATAA
1 TTTGTATCGATACATAA
107233 TTAGCTACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:107290 original size:13 final size:13
Alignment explanation
Indices: 107272--107297 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107262 CATTTTTCTG
107272 TGTATCGATACAT
1 TGTATCGATACAT
107285 TGTATCGATACAT
1 TGTATCGATACAT
107298 GGATCTTTAT
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:109857 original size:51 final size:52
Alignment explanation
Indices: 109797--109932 Score: 168
Period size: 51 Copynumber: 2.6 Consensus size: 52
109787 TTATTTCCGA
* * *** *
109797 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTC-ATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCTATAATC
* *
109848 GGGGATACTCCAACCCCGGTTTTAATTT-CAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTT-ATTTCCAAAACACCAATTTTCCTATAATC
*
109900 GGGGATACTCCAACACCGATTTTATTTCCAAAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAA
109933 ATATCAAATT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
51 37 0.51
52 35 0.49
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCTATAATC
Found at i:110040 original size:211 final size:211
Alignment explanation
Indices: 109632--110040 Score: 524
Period size: 211 Copynumber: 1.9 Consensus size: 211
109622 AATTCTCCAC
* * * *
109632 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAACCCCGATTTTAATTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* ** ** * *
109697 CAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTTTCAATCGGGGACACTCCAACCCTGTT
66 CAACACCGATTTTATTTCCAAAAAAACA-CAATTTCTTCACAATCAAGGACACTCCAACCCTATC
* * * *
109762 AATCATCGGAGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCA
130 AATCATCGGAGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCA
109827 AAATATTGATTTTTCAT
195 AAATATTGATTTTTCAT
* *
109844 AATCGGGGATACTCCAACCCCGGTTTTAATTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTAATTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* * *
109909 CCAACACCGATTTTATTTCCAAAAATATCA-AA-TT-TTCACAATTAAGGATACTCCAA-CCTCA
65 CCAACACCGATTTTATTTCCAAAAA-AACACAATTTCTTCACAATCAAGGACACTCCAACCCT-A
*
109970 TCAATTCATC-GAGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCG-TTATTAT
128 TCAA-TCATCGGA-GATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACT-TTAT
110033 CTCCAAAA
190 CTCCAAAA
110041 CATTAAATTT
Statistics
Matches: 170, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
209 3 0.02
210 22 0.13
211 58 0.34
212 44 0.26
213 40 0.24
214 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (211 bp):
AATCGGGGATACTCCAACCCCGATTTTAATTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACACCGATTTTATTTCCAAAAAAACACAATTTCTTCACAATCAAGGACACTCCAACCCTATCA
ATCATCGGAGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
AATATTGATTTTTCAT
Found at i:112623 original size:16 final size:16
Alignment explanation
Indices: 112602--112635 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
112592 TGGGTCAAGC
112602 TTGGGTTCAGGTTCTT
1 TTGGGTTCAGGTTCTT
**
112618 TTGGGTTTGGGTTCTT
1 TTGGGTTCAGGTTCTT
112634 TT
1 TT
112636 CGATTCGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.09, G:0.32, T:0.56
Consensus pattern (16 bp):
TTGGGTTCAGGTTCTT
Found at i:114974 original size:93 final size:92
Alignment explanation
Indices: 114803--114992 Score: 301
Period size: 93 Copynumber: 2.1 Consensus size: 92
114793 AAAATTTTCA
* * *
114803 TTTTAAAACTCTCCTAAAAAAATTCTTCCCCTTGATAAAATAATTAAGGCTCTAAAAAAAATTTC
1 TTTTAAAACCCTCCTAAAAAAATTCTCCCCCTTGATAAAATAATTAAAGCTCTAAAAAAAATTTC
***
114868 TTTTCCTTTTTTTGTTATAAAAATTCT
66 GCCTCCTTTTTTTGTTATAAAAATTCT
114895 TTTTAAAACCCTCCCTAAAAAAAATTCTCCCCCTTGATAAAATAATTAAAGCTCT-AAAAAAATT
1 TTTTAAAACCCT-CCT-AAAAAAATTCTCCCCCTTGATAAAATAATTAAAGCTCTAAAAAAAATT
114959 TCGCCTCCTTTTTTTGTTATAAAAATTCT
64 TCGCCTCCTTTTTTTGTTATAAAAATTCT
114988 TTTTA
1 TTTTA
114993 TTTATTCCCT
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
92 11 0.12
93 43 0.48
94 36 0.40
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (92 bp):
TTTTAAAACCCTCCTAAAAAAATTCTCCCCCTTGATAAAATAATTAAAGCTCTAAAAAAAATTTC
GCCTCCTTTTTTTGTTATAAAAATTCT
Found at i:122669 original size:20 final size:20
Alignment explanation
Indices: 122644--122714 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
122634 TTTTACCCAG
* * *
122644 ATGTATTGATATATTTTTTA
1 ATGTATCGATACATTTTTCA
* * *
122664 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
122684 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
122704 ATGTATCGATA
1 ATGTATCGATA
122715 TATTCTGTCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:131179 original size:27 final size:27
Alignment explanation
Indices: 131125--131494 Score: 372
Period size: 27 Copynumber: 13.5 Consensus size: 27
131115 CCATGATTCA
* *
131125 GTGGCATTTCTTTTAAAGTCCACTACTCT
1 GTGGCA-TCCTTTT-AAGTCCACAACTCT
*
131154 GTGGCA-CCTTCTTAAGTTCACAACTCT
1 GTGGCATCCTT-TTAAGTCCACAACTCT
*
131181 GTGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCT
131208 GTGGCATCCTTTTAAGTCCACAACT-T
1 GTGGCATCCTTTTAAGTCCACAACTCT
* *
131234 CGTGGTATCCTTTTAAAGTCCACAACTCC
1 -GTGGCATCCTTTT-AAGTCCACAACTCT
* *
131263 GTGGCATCCTTTTAAGTCCATAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCT
* * *
131290 GTGGCACCCTTTTAAAGTCCACCACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCT
* *
131318 GTGGCATCCTTTTAAGTTCACAATTCT
1 GTGGCATCCTTTTAAGTCCACAACTCT
*
131345 GTGGCATCCGTTTCAAGTCCACAACTCT
1 GTGGCATCC-TTTTAAGTCCACAACTCT
* * ** ** * *
131373 ATAGTGTTTTTTTAAAGTCCGCAACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCT
*
131401 GTGGCACCCTTTTAAGTCCACAACT-T
1 GTGGCATCCTTTTAAGTCCACAACTCT
* *
131427 CATGGCA-CTCTTTTAAGTTCACAACT-T
1 -GTGGCATC-CTTTTAAGTCCACAACTCT
*
131454 CGTGGCATCCTTTTAAGTCCACAACTTT
1 -GTGGCATCCTTTTAAGTCCACAACTCT
131482 GTGGCATCCTTTT
1 GTGGCATCCTTTT
131495 TAAGCCCCTA
Statistics
Matches: 286, Mismatches: 43, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.00
27 187 0.65
28 92 0.32
29 6 0.02
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (27 bp):
GTGGCATCCTTTTAAGTCCACAACTCT
Found at i:131193 original size:55 final size:54
Alignment explanation
Indices: 131125--131494 Score: 372
Period size: 55 Copynumber: 6.7 Consensus size: 54
131115 CCATGATTCA
* * *
131125 GTGGCATTTCTTTTAAAGTCCACTACTCTGTGGCA-CCTTCTTAAGTTCACAACTCT
1 GTGGCA-TCCTTTT-AAGTCCACAACTCTGTGGCATCCTT-TTAAGTCCACAACTCT
*
131181 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACT-T
1 GTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCT
* * * *
131234 CGTGGTATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCC
1 -GTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCT
* * * * *
131290 GTGGCACCCTTTTAAAGTCCACCACTCCGTGGCATCCTTTTAAGTTCACAATTCT
1 GTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCT
* * * ** ** * *
131345 GTGGCATCCGTTTCAAGTCCACAACTCTATAGTGTTTTTTTAAAGTCCGCAACTCC
1 GTGGCATCC-TTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCT
* * *
131401 GTGGCACCCTTTTAAGTCCACAACT-TCATGGCA-CTCTTTTAAGTTCACAACT-T
1 GTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATC-CTTTTAAGTCCACAACTCT
*
131454 CGTGGCATCCTTTTAAGTCCACAACTTTGTGGCATCCTTTT
1 -GTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
131495 TAAGCCCCTA
Statistics
Matches: 263, Mismatches: 40, Indels: 24
0.80 0.12 0.07
Matches are distributed among these distances:
53 1 0.00
54 88 0.33
55 147 0.56
56 27 0.10
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (54 bp):
GTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCT
Found at i:131495 original size:110 final size:110
Alignment explanation
Indices: 131125--131498 Score: 463
Period size: 110 Copynumber: 3.4 Consensus size: 110
131115 CCATGATTCA
* * * * * *
131125 GTGGCATTTCTTTTAAAGTCCACTACTCTGTGGCA-CCTTCTTAAGTTCACAACTCTGTGGCATC
1 GTGGCA-TCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTTAAGTCCACAACTCCGTGGCACC
*
131189 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTC
65 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTTCACAACTTC
* * *
131235 GTGGTATCCTTTTAAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCATAACTCCGTGGCACCC
1 GTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTTAAGTCCACAACTCCGTGGCACCC
*
131299 TTTTAAAGTCCACCACTCCGTGGCATCCTTTTAAGTTCACAA-TTC
66 TTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTTCACAACTTC
* * * * ** * *
131344 TGTGGCATCCGTTTCAAGTCCACAACTCTATAGTGT-TTTTTTAAAGTCCGCAACTCCGTGGCAC
1 -GTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTT-AAGTCCACAACTCCGTGGCAC
* *
131408 CCTTTTAAGTCCACAACTTCATGGCA-CTCTTTTAAGTTCACAACTTC
64 CCTTTTAAGTCCACAACTCCGTGGCATC-CTTTTAAGTTCACAACTTC
*
131455 GTGGCATCCTTTT-AAGTCCACAACTTTGTGGCATCCTTTTTAAG
1 GTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTTAAG
131499 CCCCTAAGTC
Statistics
Matches: 224, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
109 74 0.33
110 122 0.54
111 28 0.12
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.34
Consensus pattern (110 bp):
GTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTTAAGTCCACAACTCCGTGGCACCC
TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTTCACAACTTC
Found at i:131635 original size:59 final size:63
Alignment explanation
Indices: 131504--132123 Score: 283
Period size: 57 Copynumber: 10.6 Consensus size: 63
131494 TTAAGCCCCT
* * * *** *
131504 AAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
1 AAGTCGGTGGTAACCCATTTCAAAG-CCACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
* *
131568 AAGTCGGTGGTAACCCATTTCAAAGCC-CATAAGTCACT-GC-A-TCAGTTCAAAGCCCACAC
1 AAGTCGGTGGTAACCCATTTCAAAGCCACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
* *** *
131627 AAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
1 AAGTCGGTGGTAACCCATTTCAAAG-CCACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
* * *
131691 AAGTCGGTGGTAACCCATTTCAAAGCTCGCA-AA-TCAGTGGC-ACCC-TTTCAAAG-CC-CAC
1 AAGTCGGTGGTAACCCATTTCAAAGC-CACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
* * * ** * * **
131749 AAGTCAGTGGT-ATCC-TTTCAAAGTC-CACAAGTCGGTGAC-ATCCTTTTCAAAG-CC-CAC
1 AAGTCGGTGGTAACCCATTTCAAAGCCACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
** * * * *
131806 AAGTCAATGG-CACCC-TTTCAAAGCC-CACAAGTCAGTGGC-ACCC-TTTCAAA-ACC-CAC
1 AAGTCGGTGGTAACCCATTTCAAAGCCACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
* * * * * * * * * *
131862 AAGTCAGAGG-CACTCTTTTCAAAG-CTCACAAGTTAGTGGC-ATCC-TTTCAAAG-CC-CAC
1 AAGTCGGTGGTAACCCATTTCAAAGCCACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
** * * * *
131919 AAGTTAGTGG-CACCC-TTTCAAAGCC-CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CAC
1 AAGTCGGTGGTAACCCATTTCAAAGCCACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
** * * * ** *
131975 AAGTTAGTGG-CACCC-TTTCAAAGCC-CACAAGTCAGTGGC-ACTCTTTTTAAAG-CC-CAC
1 AAGTCGGTGGTAACCCATTTCAAAGCCACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
* * * * * *
132032 AAGTCAGTGG-CA-TCATTTCAAAGCC-CACAAGTTAGTGGC-ACCC-TTTCAAAGCCCACAC
1 AAGTCGGTGGTAACCCATTTCAAAGCCACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
* * * *
132090 GAGTCGGTGGCAACTCTTTTCAAAGCC-CACAAGT
1 AAGTCGGTGGTAACCCATTTCAAAGCCACACAAGT
132124 TAGTGGCGTC
Statistics
Matches: 482, Mismatches: 53, Indels: 46
0.83 0.09 0.08
Matches are distributed among these distances:
54 2 0.00
55 3 0.01
56 129 0.27
57 152 0.32
58 24 0.05
59 43 0.09
60 30 0.06
61 13 0.03
62 15 0.03
63 6 0.01
64 65 0.13
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (63 bp):
AAGTCGGTGGTAACCCATTTCAAAGCCACACAAGTCACTGGCAACCCAGTTCAAAGCCCACAC
Found at i:131744 original size:28 final size:28
Alignment explanation
Indices: 131533--132589 Score: 1056
Period size: 28 Copynumber: 36.6 Consensus size: 28
131523 TGAAAGCCCA
**
131533 CACAAGTTGGTGGCAACCCATTTCAAAGCCC
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC
* *
131564 ACACAAGTCGGTGGTAACCCATTTCAAAGCC
1 -CACAAGTCAGTGG-CACCC-TTTCAAAGCC
* * * **
131595 CATAAGTCACT-GCATCAGTTCAAAGCCC
1 CACAAGTCAGTGGCACCCTTTCAAAG-CC
*
131623 ACACAAGTCGGTGGCAACCCATTTCAAAGCCC
1 -CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC
**
131655 ACACAAGTTGGTGGCAACCCATTTCAAAGCCC
1 -CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC
* * *
131687 ACACAAGTCGGTGGTAACCCATTTCAAAGCT
1 -CACAAGTCAGTGG-CACCC-TTTCAAAGCC
* *
131718 CGCAAATCAGTGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
131746 CACAAGTCAGTGGTATCCTTTCAAAGTC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
131774 CACAAGTCGGTGACATCCTTTTCAAAGCC
1 CACAAGTCAGTGGCA-CCCTTTCAAAGCC
*
131803 CACAAGTCAATGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
*
131831 CACAAGTCAGTGGCACCCTTTCAAAACC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
131859 CACAAGTCAGAGGCACTCTTTTCAAAGCT
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCC
* *
131888 CACAAGTTAGTGGCATCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
*
131916 CACAAGTTAGTGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
*
131944 CACAAGTCAGTGGCATCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
*
131972 CACAAGTTAGTGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* *
132000 CACAAGTCAGTGGCACTCTTTTTAAAGCC
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCC
* *
132029 CACAAGTCAGTGGCATCATTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
*
132057 CACAAGTTAGTGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* *
132085 CACACGAGTCGGTGGCAACTCTTTTCAAAGCC
1 CACA--AGTCAGTGGC-AC-CCTTTCAAAGCC
* ** *
132117 CACAAGTTAGTGGCGTCTTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* ** * *
132145 CACGAGTTGGTGGTAACTCTTTTCAAAGCC
1 CACAAGTCAGTGG-CAC-CCTTTCAAAGCC
* **
132175 CACGAGTCAGTGGCACATTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
*
132203 CACAAGTCAGTGGCATCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
**
132231 CATGAGTCAGTGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
**
132259 CACAAGTCAGTGGCACATTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* *
132287 CACGAGTCAGTGGCACTCTTTTCAAAGCC
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCC
*
132316 CACAAGTCAGTGGCACCCTTTCAAAGTC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* * * *
132344 CACCAGTTAGTGGCACACTTTTAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
132372 CACAAGTTAGTAGCACTCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* **
132400 CACGAGTCAGTGGCACATTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* *
132428 CACAAGTTAGTGGCACTCTTTTCAAAGCC
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCC
* * *
132457 CACAAGTTAGTGGCATCCTTTCAAATCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
132485 CACAAGTCAGTGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
*
132513 CACAAGTCCA-TGGCACTCTTTTCAAAGCC
1 CACAAGT-CAGTGGCAC-CCTTTCAAAGCC
* * * *
132542 CACAAGCCAATGGTAACTCTTTTCAAAGCCC
1 CACAAGTCAGTGG-CAC-CCTTTCAAAG-CC
*
132573 ACACAAGTTAGTGGCAC
1 -CACAAGTCAGTGGCAC
132590 TATTTTTAAA
Statistics
Matches: 875, Mismatches: 126, Indels: 49
0.83 0.12 0.05
Matches are distributed among these distances:
27 7 0.01
28 510 0.58
29 158 0.18
30 72 0.08
31 11 0.01
32 117 0.13
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (28 bp):
CACAAGTCAGTGGCACCCTTTCAAAGCC
Found at i:131817 original size:85 final size:85
Alignment explanation
Indices: 131585--132589 Score: 1050
Period size: 85 Copynumber: 11.6 Consensus size: 85
131575 TGGTAACCCA
* * ** *
131585 TTTCAAAGCCCATAAGTCACT-GCAT-CAGTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTC
** * *
131648 AAAGCCCACACAAGTTGGTGGCAACCCA
62 AAAG-CC-CACAAGTCAGTGGC-A-TCT
* * * * * * *
131676 TTTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCTCGCAAATCAGTGGCACCCTTTCA
1 TTTCAAAG-CC-CACAAGTCAGTGG-CATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* *
131741 AAGCCCACAAGTCAGTGGTATCC
63 AAGCCCACAAGTCAGTGGCATCT
* * * *
131764 TTTCAAAGTCCACAAGTCGGTGACATCCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
131829 CCCACAAGTCAGTGGCACCC
66 CCCACAAGTCAGTGGCATCT
* * * * *
131849 TTTCAAAACCCACAAGTCAGAGGCA-CTCTTTTCAAAGCTCACAAGTTAGTGGCATCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * *
131913 GCCCACAAGTTAGTGGCACCC
65 GCCCACAAGTCAGTGGCATCT
*
131934 TTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
131998 CCCACAAGTCAGTGGCACTCT
66 CCCACAAGTCAGTGGCA-TCT
* * *
132019 TTTTAAAGCCCACAAGTCAGTGGCAT-CATTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
132083 CCCACACGAGTCGGTGGCAACTCT
66 CCCACA--AGTCAGTGGC-A-TCT
* * * ** * *
132107 TTTCAAAGCCCACAAGTTAGTGGCGT-CTTTTCAAAGCCCACGAGTTGGTGGTAACTCTTTTCAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGG-CAC-CCTTTCAA
*
132171 AGCCCACGAGTCAGTGGCA-CAT
64 AGCCCACAAGTCAGTGGCATC-T
**
132193 TTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCATGAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
132257 CCCACAAGTCAGTGGCA-CAT
66 CCCACAAGTCAGTGGCATC-T
*
132277 TTTCAAAGCCCACGAGTCAGTGGCA-CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * * *
132341 GTCCACCAGTTAGTGGCACACT
65 GCCCACAAGTCAGTGGCA-TCT
* * * **
132363 TTT-AAAGCCCACAAGTTAGTAGCA--CTCTTTCAAAGCCCACGAGTCAGTGGCACATTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCT-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
*
132425 GCCCACAAGTTAGTGGCACTCT
65 GCCCACAAGTCAGTGGCA-TCT
* *
132447 TTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAATCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
132511 CCCACAAGTCCA-TGGCACTCT
66 CCCACAAGT-CAGTGGCA-TCT
* * * * *
132532 TTTCAAAGCCCACAAGCCAATGGTAACTCTTTTCAAAGCCCACACAAGTTAGTGGCAC
1 TTTCAAAGCCCACAAGTCAGTGGCATC-CTTTTCAAAG-CC-CACAAGTCAGTGGCAC
132590 TATTTTTAAA
Statistics
Matches: 794, Mismatches: 91, Indels: 60
0.84 0.10 0.06
Matches are distributed among these distances:
83 3 0.00
84 159 0.20
85 379 0.48
86 64 0.08
87 21 0.03
88 70 0.09
89 18 0.02
90 25 0.03
91 10 0.01
92 10 0.01
93 12 0.02
94 12 0.02
95 2 0.00
96 9 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (85 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCATCT
Found at i:131969 original size:141 final size:141
Alignment explanation
Indices: 131533--132595 Score: 1153
Period size: 141 Copynumber: 7.4 Consensus size: 141
131523 TGAAAGCCCA
** * * * * *
131533 CACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCAT
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGG-CACTCTTTTCAAAGCCCAC
* ** *
131598 AAGTCACT-GCATCAGTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAG
61 AAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAG
**
131662 TTGGTGGCAACCCATTTCAAAGCCC
120 TCAGTGGC-ACCC-TTTCAAAG-CC
* * * * * *
131687 ACACAAGTCGGTGGTAACCCATTTCAAAGCTCGCAAATCAGTGGCAC-CCTTTCAAAGCCCACAA
1 -CACAAGTCAGTGG-CACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAA
* * * * * *
131751 GTCAGTGGTATCCTTTCAAAGTCCACAAGTCGGTGACATCCTTTTCAAAGCCCACAAGTCAATGG
63 GTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGG
131816 CACCCTTTCAAAGCC
127 CACCCTTTCAAAGCC
* * * *
131831 CACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAGAGGCACTCTTTTCAAAGCTCACAAGTT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
* *
131896 AGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATC
66 AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
131961 CTTTCAAAGCC
131 CTTTCAAAGCC
* *
131972 CACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAGTC
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
* * *
132037 AGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACACGAGTCGGTGGCA
66 AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA--AGTCAGTGGC-
*
132102 ACTCTTTTCAAAGCC
128 AC-CCTTTCAAAGCC
* ** * * ** * *
132117 CACAAGTTAGTGGCGTCTTTTCAAAGCCCACGAGTTGGTGGTAACTCTTTTCAAAGCCCACGAGT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG-CACTCTTTTCAAAGCCCACAAGT
* * **
132182 CAGTGGCA-CATTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATGAGTCAGTGGCA
65 CAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
132246 CCCTTTCAAAGCC
129 CCCTTTCAAAGCC
** *
132259 CACAAGTCAGTGGCACATTTTCAAAGCCCACGAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
* * * * * * * * *
132324 AGTGGCACCCTTTCAAAGTCCACCAGTTAGTGGCACACTTTTAAAGCCCACAAGTTAGTAGCACT
66 AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
132389 CTTTCAAAGCC
131 CTTTCAAAGCC
* ** * *
132400 CACGAGTCAGTGGCACATTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
*
132465 AGTGGCATCCTTTCAAATCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCCA-TGGCAC
66 AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT-CAGTGGCAC
*
132529 TCTTTTCAAAGCC
130 -CCTTTCAAAGCC
* * * * * *
132542 CACAAGCCAATGGTAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACTATTTT
1 CACAAGTCAGTGG-CAC-CCTTTCAAAG-CC-CACAAGTCAGTGGCACTCTTTT
132596 TAAAAAAAAA
Statistics
Matches: 787, Mismatches: 104, Indels: 43
0.84 0.11 0.05
Matches are distributed among these distances:
141 367 0.47
142 119 0.15
143 25 0.03
144 21 0.03
145 57 0.07
146 91 0.12
147 11 0.01
148 2 0.00
149 9 0.01
150 15 0.02
151 21 0.03
152 13 0.02
153 10 0.01
154 1 0.00
155 25 0.03
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (141 bp):
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
CTTTCAAAGCC
Found at i:137411 original size:20 final size:20
Alignment explanation
Indices: 137386--137478 Score: 75
Period size: 20 Copynumber: 4.5 Consensus size: 20
137376 TGCCACTTTC
137386 ATGTATCGATACAATTG-AGT
1 ATGTATCGATAC-ATTGAAGT
* *
137406 ATGTATCAATACAATGAACATGT
1 ATGTATCGATACATTG-A-A-GT
*
137429 ATGTATCGATACATTGCA-T
1 ATGTATCGATACATTGAAGT
*
137448 GATGTATCGATACATCTGGA-T
1 -ATGTATCGATACAT-TGAAGT
137469 ATGTATCGAT
1 ATGTATCGAT
137479 TCTTTCAAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.07
20 35 0.57
21 5 0.08
22 1 0.02
23 16 0.26
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGT
Found at i:137433 original size:23 final size:21
Alignment explanation
Indices: 137386--137461 Score: 86
Period size: 20 Copynumber: 3.6 Consensus size: 21
137376 TGCCACTTTC
137386 ATGTATCGATACAATTG-A-GT
1 ATGTATCGATACAA-TGCATGT
*
137406 ATGTATCAATACAATGAACATGT
1 ATGTATCGATACAATG--CATGT
*
137429 ATGTATCGATACATTGCATG-
1 ATGTATCGATACAATGCATGT
137449 ATGTATCGATACA
1 ATGTATCGATACA
137462 TCTGGATATG
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 2 0.04
20 26 0.53
21 4 0.08
22 1 0.02
23 16 0.33
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATGCATGT
Found at i:138089 original size:19 final size:19
Alignment explanation
Indices: 138065--138107 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
138055 CTAAGCTAGT
138065 AGAGCTCTATCTAAGAGCC
1 AGAGCTCTATCTAAGAGCC
*
138084 AGAGCTCTATCTAAGAGCT
1 AGAGCTCTATCTAAGAGCC
138103 AGAGC
1 AGAGC
138108 CTACGAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (19 bp):
AGAGCTCTATCTAAGAGCC
Found at i:140048 original size:77 final size:78
Alignment explanation
Indices: 139958--140166 Score: 246
Period size: 77 Copynumber: 2.7 Consensus size: 78
139948 GAGATGTATG
* * * *
139958 ACATGAAAATTCCCACATGACCCATA-A-ACTCGGTTTTGATGCAGTATCACCTAAGTAACCCTA
1 ACATGAAAGTTCCCACATGAACCATAGAGACTCGGTTTTCATGCAATAT-ACCTAAGTAACCCTA
*
140021 ATGGACATATATCA
65 ATAGACATATATCA
* * * * *
140035 ATATGAAAGTTCCCACATGATCC-TAGAGACTCAGTTTTCATGTAATATACCTAAGTAACCCTAT
1 ACATGAAAGTTCCCACATGAACCATAGAGACTCGGTTTTCATGCAATATACCTAAGTAACCCTAA
*
140099 TAGACATGTATCA
66 TAGACATATATCA
* * *
140112 GCATGAAAGTTCCCATAT-AACCATAGAGACTCGGTTTTCATGTAATATTACCTAA
1 ACATGAAAGTTCCCACATGAACCATAGAGACTCGGTTTTCATGCAATA-TACCTAA
140167 ATACCTATTA
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
76 5 0.04
77 85 0.75
78 23 0.20
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (78 bp):
ACATGAAAGTTCCCACATGAACCATAGAGACTCGGTTTTCATGCAATATACCTAAGTAACCCTAA
TAGACATATATCA
Found at i:152971 original size:51 final size:51
Alignment explanation
Indices: 152911--153007 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
152901 ATGCTTCTTA
152911 AATACACTCATTGCAAATTGTTTAGGCA-GAAGGATAGGAATTGTCATCCTG
1 AATACACTCATTGCAAATTGTTTAGGCATG-AGGATAGGAATTGTCATCCTG
*
152962 AATACACTCATTGCAAATTGTTTAGTCATGAGGATAGGAATTGTCA
1 AATACACTCATTGCAAATTGTTTAGGCATGAGGATAGGAATTGTCA
153008 GCATAGGCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (51 bp):
AATACACTCATTGCAAATTGTTTAGGCATGAGGATAGGAATTGTCATCCTG
Found at i:153320 original size:2 final size:2
Alignment explanation
Indices: 153313--153357 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
153303 TGACTTTCCC
153313 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
153355 TA T
1 TA T
153358 CCATGAGTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:161527 original size:15 final size:15
Alignment explanation
Indices: 161507--161537 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
161497 AAGCGAAATA
161507 GAAGATTTCATGGAG
1 GAAGATTTCATGGAG
161522 GAAGATTTCATGGAG
1 GAAGATTTCATGGAG
161537 G
1 G
161538 TCAAAGCCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.35, T:0.26
Consensus pattern (15 bp):
GAAGATTTCATGGAG
Found at i:162183 original size:2 final size:2
Alignment explanation
Indices: 162178--162204 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
162168 AAAAAAAATG
162178 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
162205 TAATTGTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:166923 original size:31 final size:31
Alignment explanation
Indices: 166888--166947 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
166878 AGGTAAAATG
*
166888 ATCATTAAAACTAATTAACGTTGAATAAAAA
1 ATCATTAAAACAAATTAACGTTGAATAAAAA
* *
166919 ATCATTAAAACAAATTCACGTTGACTAAA
1 ATCATTAAAACAAATTAACGTTGAATAAA
166948 GGCATAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (31 bp):
ATCATTAAAACAAATTAACGTTGAATAAAAA
Found at i:172139 original size:15 final size:16
Alignment explanation
Indices: 172119--172155 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
172109 CTCTGCTTTT
172119 TCCTTTCTCTT-TTGC
1 TCCTTTCTCTTCTTGC
172134 TCCTTT-TCTTCTTGC
1 TCCTTTCTCTTCTTGC
172149 T-CTTTCT
1 TCCTTTCT
172156 TCAATCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.00, C:0.32, G:0.05, T:0.62
Consensus pattern (16 bp):
TCCTTTCTCTTCTTGC
Found at i:186308 original size:19 final size:20
Alignment explanation
Indices: 186284--186326 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
186274 GAAAGTGCTC
*
186284 TTTTT-AGTAAAATTAAATA
1 TTTTTAAGTAAAAATAAATA
186303 TTTTTAAAGTAAAAATAAATA
1 TTTTT-AAGTAAAAATAAATA
186324 TTT
1 TTT
186327 AAATATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
21 16 0.76
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTTAAGTAAAAATAAATA
Found at i:190931 original size:6 final size:6
Alignment explanation
Indices: 190922--190960 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
190912 TTTATTTTTA
190922 TTAATT TTAA-T TTAATTT TTAATT TTAATT TTGAATT TT
1 TTAATT TTAATT TTAA-TT TTAATT TTAATT TT-AATT TT
190961 TACAAGCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.17
6 14 0.47
7 11 0.37
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:190943 original size:18 final size:20
Alignment explanation
Indices: 190922--190962 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
190912 TTTATTTTTA
190922 TTAATTTTAA-TTT-AATTT
1 TTAATTTTAATTTTGAATTT
190940 TTAATTTTAATTTTGAATTT
1 TTAATTTTAATTTTGAATTT
190960 TTA
1 TTA
190963 CAAGCTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTAATTTTAATTTTGAATTT
Found at i:190950 original size:13 final size:13
Alignment explanation
Indices: 190922--190960 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
190912 TTTATTTTTA
190922 TTAA-TTTTAA-T
1 TTAATTTTTAATT
190933 TTAATTTTTAATT
1 TTAATTTTTAATT
*
190946 TTAATTTTGAATT
1 TTAATTTTTAATT
190959 TT
1 TT
190961 TACAAGCTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 4 0.16
12 6 0.24
13 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (13 bp):
TTAATTTTTAATT
Found at i:194159 original size:34 final size:34
Alignment explanation
Indices: 194116--194183 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
194106 ATACATACCC
194116 TAAAAAATTATGAATATTCAAAAAATATGTGTTG
1 TAAAAAATTATGAATATTCAAAAAATATGTGTTG
194150 TAAAAAATTATGAATATTCAAAAAATATGTGTTG
1 TAAAAAATTATGAATATTCAAAAAATATGTGTTG
194184 CTATTTGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (34 bp):
TAAAAAATTATGAATATTCAAAAAATATGTGTTG
Found at i:194178 original size:17 final size:18
Alignment explanation
Indices: 194117--194175 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
194107 TACATACCCT
194117 AAAAAATTATGAATATTC
1 AAAAAATTATGAATATTC
* *
194135 AAAAAA-TATG--TGTTGT
1 AAAAAATTATGAATATT-C
194151 AAAAAATTATGAATATTC
1 AAAAAATTATGAATATTC
194169 AAAAAAT
1 AAAAAAT
194176 ATGTGTTGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 3 0.09
16 6 0.18
17 8 0.24
18 13 0.39
19 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.32
Consensus pattern (18 bp):
AAAAAATTATGAATATTC
Found at i:194778 original size:162 final size:164
Alignment explanation
Indices: 194485--194873 Score: 502
Period size: 164 Copynumber: 2.4 Consensus size: 164
194475 TTTAAATGTT
* * * *
194485 ATCAATTAATTACTATTAAATCAGTTTTGAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTT
1 ATCATTTAATTACCATTAAATTAGTTTTAAAAAATTCATTTATTTTCATGAGTTTTT-A-TTTTT
* * *
194550 CCTTAAAATTCCTCTATTTTCAAAAAACAGAGTTTTCTACTTCATAAATATTTTTGGAGAGATTT
64 CCTTAAAATTCCTCCACTCTCAAAAAACAGAGTTTTCTACTTCATAAATATTTTTGGAGAGATTT
* *
194615 TT-TCGGTTCAAAA-TTTTAATATTCATCAAATATC
129 TTCTCAGTTCAAAATTTTTAAAATTCATCAAATATC
194649 ATCATTTAATTACCATTAAATTAGTTTTAAAAAATTCATTTATTTTCATGAGTTTTTATTTTTCC
1 ATCATTTAATTACCATTAAATTAGTTTTAAAAAATTCATTTATTTTCATGAGTTTTTATTTTTCC
* * *
194714 TTAAAATTCTTCCACTCTCGAAAAATC-GAGTTTTCTA-TTCTATAAATGTTTTTGGAGAGATTT
66 TTAAAATTCCTCCACTCTC-AAAAAACAGAGTTTTCTACTTC-ATAAATATTTTTGGAGAGATTT
* * * *
194777 TTCTTAGTTTAAAATTTTTAAAATTCATCTAATATT
129 TTCTCAGTTCAAAATTTTTAAAATTCATCAAATATC
* * * *
194813 GTCATTAAATT-CACATTAAATTAGTTTTACAAAATTCAATTTATTTT-ATGAGTTTTGATTT
1 ATCATTTAATTAC-CATTAAATTAGTTTTAAAAAATTC-ATTTATTTTCATGAGTTTTTATTT
194874 CTTTTGTATT
Statistics
Matches: 199, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
161 3 0.02
162 55 0.28
163 16 0.08
164 116 0.58
165 9 0.05
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (164 bp):
ATCATTTAATTACCATTAAATTAGTTTTAAAAAATTCATTTATTTTCATGAGTTTTTATTTTTCC
TTAAAATTCCTCCACTCTCAAAAAACAGAGTTTTCTACTTCATAAATATTTTTGGAGAGATTTTT
CTCAGTTCAAAATTTTTAAAATTCATCAAATATC
Found at i:195230 original size:12 final size:12
Alignment explanation
Indices: 195210--195243 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
195200 ATGGCATGAC
*
195210 AAAATCAAAAAA
1 AAAAACAAAAAA
195222 AAAAACAAAAAA
1 AAAAACAAAAAA
195234 AAGAAACAAA
1 AA-AAACAAA
195244 TCAAGGTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.03
Consensus pattern (12 bp):
AAAAACAAAAAA
Done.