Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold50
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: 2541760
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Warning! 26494 characters in sequence are not A, C, G, or T
File 13 of 16
Found at i:2059867 original size:54 final size:54
Alignment explanation
Indices: 2059794--2059983 Score: 269
Period size: 54 Copynumber: 3.5 Consensus size: 54
2059784 AAATGGGTAC
**
2059794 TGCCACAGAGTTGTGGAC-TTAAAAGGATGCCATAAAGTTCTGGACTTAAAAGGA
1 TGCCACAGAGTTGTGGACTTTAAAAGG-TGCCATAAAGTGGTGGACTTAAAAGGA
* **
2059848 TGCCACAGAGTTGTGGACTTAAAAAGGTGCCATTGAGTGGTGGACTTTAAAA-GA
1 TGCCACAGAGTTGTGGACTTTAAAAGGTGCCATAAAGTGGTGGAC-TTAAAAGGA
*
2059902 GTGCCACGGAGTTGTGGACTTTAAAAGGTGCCA-AAGAGTGGTGGACTTAAAAGGA
1 -TGCCACAGAGTTGTGGACTTTAAAAGGTGCCATAA-AGTGGTGGACTTAAAAGGA
2059957 TGCCACAGAGTTGTGGACTTTAAAAGG
1 TGCCACAGAGTTGTGGACTTTAAAAGG
2059984 GTCCCTCCAG
Statistics
Matches: 121, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
54 66 0.55
55 55 0.45
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (54 bp):
TGCCACAGAGTTGTGGACTTTAAAAGGTGCCATAAAGTGGTGGACTTAAAAGGA
Found at i:2059920 original size:82 final size:82
Alignment explanation
Indices: 2059794--2059982 Score: 233
Period size: 82 Copynumber: 2.3 Consensus size: 82
2059784 AAATGGGTAC
* *** *
2059794 TGCCACAGAGTTGTGGAC-TTAAAAG-GATGCCATAAAGTTCTGGAC-TTAAAAGGATGCCACAG
1 TGCCACAGAGTGGTGGACTTTAAAAGAG-TGCCACGGAGTTCTGGACTTTAAAAGG-TGCCAAAG
*
2059856 AGTTGTGGACTTAAAAAGG-
64 AGTGGTGGACTT-AAAAGGA
** *
2059875 TGCCATTGAGTGGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCAAAGAG
1 TGCCACAGAGTGGTGGACTTTAAAAGAGTGCCACGGAGTTCTGGACTTTAAAAGGTGCCAAAGAG
2059940 TGGTGGACTTAAAAGGA
66 TGGTGGACTTAAAAGGA
*
2059957 TGCCACAGAGTTGTGGACTTTAAAAG
1 TGCCACAGAGTGGTGGACTTTAAAAG
2059983 GGTCCCTCCA
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
81 21 0.23
82 62 0.67
83 9 0.10
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (82 bp):
TGCCACAGAGTGGTGGACTTTAAAAGAGTGCCACGGAGTTCTGGACTTTAAAAGGTGCCAAAGAG
TGGTGGACTTAAAAGGA
Found at i:2060097 original size:51 final size:51
Alignment explanation
Indices: 2060034--2060209 Score: 171
Period size: 51 Copynumber: 3.7 Consensus size: 51
2060024 TTTTAACTAG
2060034 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGAAAAAATACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGAAAAAATACAGA
* * * *
2060085 ATGTCTCGATACATTGAAGAATGCATCGATACA-TT-------CATAC---
1 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGAAAAAATACAGA
* * * *
2060125 ATGTATCGATACGTTG-AAAATGTATCAATACATCTGGGTAAAAAA-ATAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGG-AAAAAATACAGA
*
2060175 ATGTATCGATACATTGAAGAATGTATCGATACATT
1 ATGTATCGATACATTGAAAAATGTATCGATACATT
2060210 AAAAAATGTA
Statistics
Matches: 96, Mismatches: 16, Indels: 26
0.70 0.12 0.19
Matches are distributed among these distances:
39 13 0.14
40 15 0.16
43 4 0.04
47 1 0.01
48 1 0.01
50 17 0.18
51 45 0.47
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGAAAAAATACAGA
Found at i:2060188 original size:90 final size:91
Alignment explanation
Indices: 2060034--2060228 Score: 286
Period size: 90 Copynumber: 2.2 Consensus size: 91
2060024 TTTTAACTAG
* * *
2060034 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGAAAAAATACAGAATGTCTCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGAAAAAATACAGAATGTATCGATACAT
* * *
2060099 TGAAGAATGCATCGATACATTCATAC
66 TGAAGAATGCATCGATACATTAAAAA
* *
2060125 ATGTATCGATACGTTG-AAAATGTATCAATACATCTGGGTAAAAAA-ATAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCAATACATCTGGG-AAAAAATACAGAATGTATCGATACA
*
2060188 TTGAAGAATGTATCGATACATTAAAAA
65 TTGAAGAATGCATCGATACATTAAAAA
2060215 ATGTATCGATACAT
1 ATGTATCGATACAT
2060229 CTGGGTAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
90 72 0.77
91 21 0.23
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGAAAAAATACAGAATGTATCGATACAT
TGAAGAATGCATCGATACATTAAAAA
Found at i:2060199 original size:70 final size:71
Alignment explanation
Indices: 2060102--2060239 Score: 199
Period size: 70 Copynumber: 2.0 Consensus size: 71
2060092 GATACATTGA
* * *
2060102 AGAATGCATCGATACATTCATACATGTATCGATACGTT-GAAAATGTATCAATACATCTGGGTAA
1 AGAATGCATCGATACATTCATAAATGTATCGATACATTAAAAAATGTATCAATACATCTGGGTAA
2060166 AAAAAT
66 AAAAAT
* * *
2060172 AGAATGTATCGATACATTGA-AGAATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTA
1 AGAATGCATCGATACATTCATA-AATGTATCGATACATTAAAAAATGTATCAATACATCTGGGTA
2060236 AAAA
65 AAAA
2060240 TGTGACTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
69 1 0.02
70 32 0.53
71 27 0.45
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (71 bp):
AGAATGCATCGATACATTCATAAATGTATCGATACATTAAAAAATGTATCAATACATCTGGGTAA
AAAAAT
Found at i:2060242 original size:24 final size:20
Alignment explanation
Indices: 2060034--2060228 Score: 95
Period size: 20 Copynumber: 8.7 Consensus size: 20
2060024 TTTTAACTAG
2060034 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2060054 ATGTATCGATACATTTGGGAAAAAATACAGA
1 ATGTATCGATACA-TT--G-----A-A-A-A
* *
2060085 ATGTCTCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * *
2060105 ATGCATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
2060125 ATGTATCGATACGTTG-AAA
1 ATGTATCGATACATTGAAAA
*
2060144 ATGTATCAATACATCTGGGTAAAAAAATAGA
1 ATGTATCGATACAT-T--G------AA-A-A
*
2060175 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
*
2060195 ATGTATCGATACATTAAAAA
1 ATGTATCGATACATTGAAAA
2060215 ATGTATCGATACAT
1 ATGTATCGATACAT
2060229 CTGGGTAAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 46
0.67 0.10 0.23
Matches are distributed among these distances:
19 13 0.10
20 75 0.56
21 2 0.02
22 4 0.03
23 2 0.02
28 3 0.02
29 2 0.02
30 5 0.04
31 27 0.20
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:2061168 original size:16 final size:16
Alignment explanation
Indices: 2061147--2061177 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2061137 ATTTGGTTCT
*
2061147 TTGCTTGTTCTTAACC
1 TTGCTTGTACTTAACC
2061163 TTGCTTGTACTTAAC
1 TTGCTTGTACTTAAC
2061178 TTTCCTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.48
Consensus pattern (16 bp):
TTGCTTGTACTTAACC
Found at i:2065208 original size:13 final size:13
Alignment explanation
Indices: 2065190--2065214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2065180 TGCCAGTTTT
2065190 ATGTATCGATACA
1 ATGTATCGATACA
2065203 ATGTATCGATAC
1 ATGTATCGATAC
2065215 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2071900 original size:79 final size:79
Alignment explanation
Indices: 2071763--2071916 Score: 218
Period size: 79 Copynumber: 1.9 Consensus size: 79
2071753 GAGTACCCTG
* * * * ***
2071763 ATTATGGAAAATCGGTGTTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTTGGAAATAACAGGG
1 ATTATAGAAAATCGGTGTTCTGAAAATAAAATCAGGGTTGGAGTATCCACTCAAAAATAACAGGG
2071828 TTGGAGTATCACTA
66 TTGGAGTATCACTA
* * *
2071842 ATTATAGAAAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCACTCAAAAATAACGGGG
1 ATTATAGAAAATCGGTGTTCTGAAAATAAAATCAGGGTTGGAGTATCCACTCAAAAATAACAGGG
2071907 TTGGAGTATC
66 TTGGAGTATC
2071917 CCCGTGAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (79 bp):
ATTATAGAAAATCGGTGTTCTGAAAATAAAATCAGGGTTGGAGTATCCACTCAAAAATAACAGGG
TTGGAGTATCACTA
Found at i:2071946 original size:28 final size:28
Alignment explanation
Indices: 2071876--2071947 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
2071866 AATAAAATCA
*
2071876 GGGTTGGAGTATCCACTCAAAAATAACG
1 GGGTTGGAGTATCCCCTCAAAAATAACG
*
2071904 GGGTTGGAGTATCCCCGT-GAAAATAACG
1 GGGTTGGAGTATCCCC-TCAAAAATAACG
2071932 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
2071948 CATTGTGAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 40 0.98
29 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTCAAAAATAACG
Found at i:2071981 original size:107 final size:107
Alignment explanation
Indices: 2071795--2072027 Score: 299
Period size: 107 Copynumber: 2.2 Consensus size: 107
2071785 GAAATAAAAT
* * * ** *
2071795 CGGGGTTGGAGTATCCCCTTGGAAATAACAGGGTTGGAGTATCACTAATTATAGAAAATTGGTGT
1 CGGGGTTGGAGTATCCCCGTGAAAATAACAGGGTTGGAGTATCACCAATTATAGAAAATTAATAT
2071860 TTTGAAAATAAAATCAGGGTTGGAGTATCCACTCAAAAATAA
66 TTTGAAAATAAAATCAGGGTTGGAGTATCCACTCAAAAATAA
* * * *
2071902 CGGGGTTGGAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCCATTGT-GAGAAATTAATA
1 CGGGGTTGGAGTATCCCCGTGAAAATAACAGGGTTGGAGTATCACCAATTATAGA-AAATTAATA
* * * *
2071966 TTTT-AGGAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAA
65 TTTTGA-AAATAAAATCAGGGTTGGAGTATCCACTCAAAAATAA
*
2072009 CGGGGCTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
2072028 ATTGTGAGAA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
106 3 0.03
107 106 0.97
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCGTGAAAATAACAGGGTTGGAGTATCACCAATTATAGAAAATTAATAT
TTTGAAAATAAAATCAGGGTTGGAGTATCCACTCAAAAATAA
Found at i:2071985 original size:79 final size:79
Alignment explanation
Indices: 2071902--2072314 Score: 641
Period size: 79 Copynumber: 5.2 Consensus size: 79
2071892 TCAAAAATAA
* *
2071902 CGGGGTTGGAGTATCCCCGT-GAAAATAACGGGGTTGGAGTATCCCCCATTGTGAGAAATTAATA
1 CGGGGTTGGAGTATCCCC-TCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
**
2071966 TTTTAGGAATAAAAT
65 TTTTAGGAATAAAGC
*
2071981 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
2072046 TTTAGGAATAAAGC
66 TTTAGGAATAAAGC
* *
2072060 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATTCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
2072125 TTTAGAAATAAAGC
66 TTTAGGAATAAAGC
* * * * *
2072139 CGAGGTTAGAGTAACCCCTC-AGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATA
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
2072203 TTTTAGGAATAAAGC
65 TTTTAGGAATAAAGC
* * * *
2072218 CAGGGTTGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
2072283 TTTAGGAATAAAGC
66 TTTAGGAATAAAGC
2072297 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2072315 GATTGTGAAA
Statistics
Matches: 306, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
78 1 0.00
79 305 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
TTTAGGAATAAAGC
Found at i:2072400 original size:51 final size:51
Alignment explanation
Indices: 2072301--2072534 Score: 281
Period size: 51 Copynumber: 4.6 Consensus size: 51
2072291 TAAAGCCGGG
* *
2072301 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTTGAAAATAAAATCGGA
* * * * *
2072353 GTTGGAGTATCCCTGATTATAGAAATTTGGTGTTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGAAAATAAAATCGGA
* *
2072404 GTTGGAATATCCCCGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGAAAATAAAATCGGA
** * * *
2072455 GTTGGAGTATCCCTAATTGTGGAAAATTAGTGTTTT-AGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGA-AAATAAAATCGGA
* * * *
2072506 GTTGGAGTACCCCCAATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTGTGGAAAATTG
2072535 AGAAACTTAA
Statistics
Matches: 155, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
50 1 0.01
51 127 0.82
52 27 0.17
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:2072500 original size:102 final size:103
Alignment explanation
Indices: 2072250--2072534 Score: 351
Period size: 102 Copynumber: 2.8 Consensus size: 103
2072240 AGATAACGGG
** * * * * *
2072250 GTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCTAATTATAGA-AAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
* *
2072314 CGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
65 CGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCGGA
* * * * *
2072353 GTTGGAGTATCCCTGATTATAGAAATTTGGTGTTTT-GAAAATAAAATCGGGGTTGGAATATCCC
1 GTTGGAGTATCCCTAATTATAGAAAATTAGTGTTTTAG-AAATAAAACCGGGGTTGGAGTATCCC
*
2072417 CGATTGTGGAAAATTGGTG-TTTCGAAAATAAAATCGGA
65 CGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCGGA
* * *
2072455 GTTGGAGTATCCCTAATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTACCCCC
1 GTTGGAGTATCCCTAATTATAGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
* *
2072520 AATTATGAAAAATTG
66 GATTGTGAAAAATTG
2072535 AGAAACTTAA
Statistics
Matches: 155, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
102 85 0.55
103 68 0.44
104 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (103 bp):
GTTGGAGTATCCCTAATTATAGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
GATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCGGA
Found at i:2074961 original size:19 final size:20
Alignment explanation
Indices: 2074937--2074988 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
2074927 AGCGATACAC
2074937 TGTATCGATACA-TTA-GTT
1 TGTATCGATACATTTACGTT
2074955 ATGTATCGATACATTTACTGTT
1 -TGTATCGATACATTTAC-GTT
2074977 TGTATCGATACA
1 TGTATCGATACA
2074989 AATTATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.40
20 3 0.10
21 12 0.40
22 3 0.10
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTACGTT
Found at i:2078225 original size:31 final size:31
Alignment explanation
Indices: 2078190--2078253 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
2078180 GATTCGGTAG
2078190 ATGCGAACGGTTACTCACGAGAGCATAGGAA
1 ATGCGAACGGTTACTCACGAGAGCATAGGAA
2078221 ATGCGAACGGTTACTCACGAGAGCATAGGAA
1 ATGCGAACGGTTACTCACGAGAGCATAGGAA
2078252 AT
1 AT
2078254 TTAAATCTTG
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:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (31 bp):
ATGCGAACGGTTACTCACGAGAGCATAGGAA
Found at i:2079460 original size:20 final size:21
Alignment explanation
Indices: 2079430--2079468 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2079420 TGATTTCCCA
2079430 TGTGAATGTATCGATACAATT
1 TGTGAATGTATCGATACAATT
2079451 TGTG-ATGTATCGATACAA
1 TGTGAATGTATCGATACAA
2079469 GCATTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (21 bp):
TGTGAATGTATCGATACAATT
Found at i:2079547 original size:13 final size:13
Alignment explanation
Indices: 2079529--2079554 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2079519 CATTTTATGG
2079529 TGTATCGATACAT
1 TGTATCGATACAT
2079542 TGTATCGATACAT
1 TGTATCGATACAT
2079555 ACGTTGTGTA
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:2079652 original size:20 final size:20
Alignment explanation
Indices: 2079627--2079679 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
2079617 TCTTTTTCAA
2079627 GTATCGATACAATGCAACAT
1 GTATCGATACAATGCAACAT
**
2079647 GTATCGATACTGTGCAACAT
1 GTATCGATACAATGCAACAT
2079667 GTATCGATACAAT
1 GTATCGATACAAT
2079680 TAAATGTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (20 bp):
GTATCGATACAATGCAACAT
Found at i:2081978 original size:20 final size:21
Alignment explanation
Indices: 2081949--2081989 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2081939 TGTTTTTGAA
2081949 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
2081968 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
2081990 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:2090909 original size:21 final size:19
Alignment explanation
Indices: 2090885--2090953 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 19
2090875 TCCTTCGTAC
2090885 AAAAAAACAAACAAAAAAATG
1 AAAAAAACAAA-AAAAAAA-G
*
2090906 AAAAAACCCAAAAAAAAAAG
1 AAAAAA-ACAAAAAAAAAAG
*
2090926 AAAAAAACCAAAAAAACAAAC
1 AAAAAAA-CAAAAAAA-AAAG
2090947 AAAAAAA
1 AAAAAAA
2090954 GAAAGGTCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 15 0.36
21 23 0.55
22 4 0.10
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.01
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAG
Found at i:2092270 original size:28 final size:28
Alignment explanation
Indices: 2092232--2092850 Score: 494
Period size: 28 Copynumber: 21.6 Consensus size: 28
2092222 CGTCAATACG
* *
2092232 ACCCTTTTCAAAGCCCACGAGTCAGTGGC
1 ACCC-TTTCAAAGCCCACAAGTTAGTGGC
* * ** *
2092261 ATCTTTTCAAAAGCCCATGAGTTGGTGGC
1 ACCCTTTC-AAAGCCCACAAGTTAGTGGC
* * *
2092290 ATCCTTTCAAAAGCCCATAAAG-CAGTGGC
1 ACCCTTTC-AAAGCCCA-CAAGTTAGTGGC
2092319 ACCCTTTCAAAGCCCACCAA-TTAGTGGC
1 ACCCTTTCAAAGCCCA-CAAGTTAGTGGC
* * **
2092347 ACCCTTTTAAAAGCCCCCAAGACAGTGGC
1 ACCC-TTTCAAAGCCCACAAGTTAGTGGC
***
2092376 ACCCTTTCAAAGCCCGGGAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
**** *
2092404 ACCCTTTCAAAGTCTGGGAA-TCAGTGGC
1 ACCCTTTCAAAG-CCCACAAGTTAGTGGC
* * *
2092432 ACCATTTCAAAGCCCGA-GAGTTAGTGAC
1 ACCCTTTCAAAGCCC-ACAAGTTAGTGGC
*** * *
2092460 ACCCTTTCAAAGCCCGGGAGTTAATGAC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
*** *
2092488 ACCCTTTCAAAGCCCGGGAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* * ** *
2092516 ACCCTTCCAATGCCCATGAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* *
2092544 ACCCTTCCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
*
2092572 ACCCTTCCAAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
**
2092600 ACCCTTTCAAAGCCCACACAAGTCGGTGGC
1 ACCCTTTCAAAG-CC-CACAAGTTAGTGGC
*
2092630 AACCTCTCTCAAAGCCCACAAGTTAGTGGC
1 -ACC-CTTTCAAAGCCCACAAGTTAGTGGC
* *
2092660 ACCTTTTCGAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
**
2092688 ACCCTTTCAAAGCCCACACAAGTCGGTGGC
1 ACCCTTTCAAAG-CC-CACAAGTTAGTGGC
2092718 AACCTCTCTT-AAAGCCCACAAGTTAGTGGC
1 -ACC-CT-TTCAAAGCCCACAAGTTAGTGGC
* *
2092748 ACCTTTTCGAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* ** *
2092776 ACCTTTTTGAAGCCCACAAATTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* * * *
2092804 AACCTTTTAAAACCCACAAGGTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
2092832 AACCC-TTCTAAAGCCCACA
1 -ACCCTTTC-AAAGCCCACA
2092851 CAAGTTTGTG
Statistics
Matches: 492, Mismatches: 77, Indels: 42
0.81 0.13 0.07
Matches are distributed among these distances:
27 4 0.01
28 319 0.65
29 93 0.19
30 50 0.10
31 10 0.02
32 14 0.03
33 2 0.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (28 bp):
ACCCTTTCAAAGCCCACAAGTTAGTGGC
Found at i:2094976 original size:16 final size:16
Alignment explanation
Indices: 2094955--2094987 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2094945 TTCATTAAGG
*
2094955 AAAGTTAAATACAAGC
1 AAAGTTAAAAACAAGC
2094971 AAAGTTAAAAACAAGC
1 AAAGTTAAAAACAAGC
2094987 A
1 A
2094988 GAAAACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.12, G:0.12, T:0.15
Consensus pattern (16 bp):
AAAGTTAAAAACAAGC
Found at i:2095942 original size:20 final size:20
Alignment explanation
Indices: 2095917--2095974 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
2095907 GTTTTACCCA
2095917 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* **
2095937 AATGTATCGATGCATCCTTC
1 AATGTATCGATACATTTTTC
2095957 AATGTATCGATACATTTT
1 AATGTATCGATACATTTT
2095975 GTTTTTTTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:2096013 original size:20 final size:20
Alignment explanation
Indices: 2095988--2096040 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
2095978 TTTTTACCTA
2095988 GATGTATCGATACCTTTTTT
1 GATGTATCGATACCTTTTTT
2096008 GATGTATCGATACCTTTTTT
1 GATGTATCGATACCTTTTTT
* *
2096028 AATGTATCAATAC
1 GATGTATCGATAC
2096041 ATGTATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (20 bp):
GATGTATCGATACCTTTTTT
Found at i:2096032 original size:71 final size:71
Alignment explanation
Indices: 2095908--2096042 Score: 171
Period size: 71 Copynumber: 1.9 Consensus size: 71
2095898 AAAGTCACAG
* *
2095908 TTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATGCATCCTTCAATGTATCGATACATT
1 TTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATACATCCTTCAATGTATCAATACATT
2095973 TTGTTT
66 TTGTTT
* * * ** * ** *
2095979 TTTTACCTAGATGTATCGATACCTTTTTTGATGTATCGATACCTTTTTTAATGTATCAATACAT
1 TTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATACATCCTTCAATGTATCAATACAT
2096043 GTATAAATTT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (71 bp):
TTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATACATCCTTCAATGTATCAATACATT
TTGTTT
Found at i:2096210 original size:27 final size:27
Alignment explanation
Indices: 2096157--2096271 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
2096147 ACCTTGGATA
* * *
2096157 GTGGAACCCTTTTAAAGTCCACCACTCT
1 GTGGCACCCTTTT-AAGTCCACAACTCC
*
2096185 GTGGCACCCTTTTAAGTCCACAACTCT
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * * *
2096212 ATGGCAACCTTTTGAGTCCATAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
2096239 GTGGCATCCTTTTAAGTCCACAACGCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
2096266 GTGGCA
1 GTGGCA
2096272 GCACTCTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 63 0.84
28 12 0.16
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.28
Consensus pattern (27 bp):
GTGGCACCCTTTTAAGTCCACAACTCC
Found at i:2096386 original size:86 final size:86
Alignment explanation
Indices: 2096282--2096855 Score: 405
Period size: 86 Copynumber: 6.5 Consensus size: 86
2096272 GCACTCTTTT
* * *
2096282 AAAGCCCAC-AAGTTAGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCAACC-TTTCAAAGTCC
1 AAAGCCCACAAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCAACCATTTCAAAGCCC
*
2096345 ATAAGTTAGTGGCATCATTTC
66 ACAAGTTAGTGGCATCATTTC
* * **
2096366 AAACCCCACATAAGTCAGTGGCAACTCATTTGAAAGCCCGCACAAGTTGGTGGCAACCTATTTCA
1 AAAGCCCACA-AAGTCAGTGGC-A-TCATTTCAAAG-CC-CACAAGTCAGTGGCAACC-ATTTCA
*
2096431 AAGCCCACACTAGTTGGTGGCAATCTATTTC
60 AAGCCCACA--AGTTAGTGGC-ATC-ATTTC
* * * * **
2096462 AAAGCCTACACAAGTCGGTGGTAACTCATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCA
1 AAAGCCCACA-AAGTCAGTGG-CA-TCATTTCAAAG-CC-CACAAGTCAGTGGCAA-CCATTTCA
* *
2096527 AAGCCCACACAAGTTGGTGGCAACCCATTTC
60 AAG-CC-CACAAGTTAGTGGC-A-TCATTTC
* ** * * *
2096558 AAAGCCCA-TAAGTCAGTGGCA-CCCTTCTAAAGCCCATAAGTCAGTGGC-ACCTTTTCAATGCC
1 AAAGCCCACAAAGTCAGTGGCATCATTTC-AAAGCCCACAAGTCAGTGGCAACCATTTCAAAGCC
*
2096620 CACAAGTTAGTGGCATACCTTTTC
65 CACAAGTTAGTGGCAT--CATTTC
* * ** * * *
2096644 AAAGCCCAC-AAGTCAGTGGCACCTTTTCCTAGCCCACAAGACAGTGGC-ATCTTTTCAAAGCCC
1 AAAGCCCACAAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCAACCATTTCAAAGCCC
*
2096707 ACAAGTTAGTGGCATTC-TTCC
66 ACAAGTTAGTGGCA-TCATTTC
* * * * *
2096728 AAAAGCCCAC-AAGTCAGTGGCATCTTTTTCAAAGCTCACAAGTCAGTGGCATCCTTTTTAAAGC
1 -AAAGCCCACAAAGTCAGTGGCATC-ATTTCAAAGCCCACAAGTCAGTGGCAACCATTTCAAAGC
** * *
2096792 CCACATA-TCGGTGG-ACCCTTTC
64 CCACA-AGTTAGTGGCATCATTTC
** *
2096814 AAAGCCCACACAAGTTGGTGGCAACTCTTTTCAAAGCCCACA
1 AAAGCCCACA-AAGTCAGTGGC-A-TCATTTCAAAGCCCACA
2096856 TAAGTTAGTG
Statistics
Matches: 405, Mismatches: 53, Indels: 60
0.78 0.10 0.12
Matches are distributed among these distances:
84 11 0.03
85 34 0.08
86 116 0.29
87 37 0.09
88 35 0.09
89 5 0.01
90 28 0.07
91 5 0.01
92 16 0.04
93 1 0.00
94 18 0.04
95 3 0.01
96 87 0.21
97 5 0.01
98 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (86 bp):
AAAGCCCACAAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCAACCATTTCAAAGCCC
ACAAGTTAGTGGCATCATTTC
Found at i:2096805 original size:29 final size:29
Alignment explanation
Indices: 2096277--2096855 Score: 392
Period size: 28 Copynumber: 19.6 Consensus size: 29
2096267 TGGCAGCACT
*
2096277 CTTTT-AAAGCCCACAAGTTAGTGGCAT-
1 CTTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
2096304 CATTTCAAAGCCCACAAGTTAGTGGCAAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
2096333 C-TTTCAAAGTCCATAAGTTAGTGGCAT-
1 CTTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
2096360 CATTTCAAACCCCACATAAGTCAGTGGCAAC
1 CTTTTCAAAGCCCAC--AAGTCAGTGGCATC
* * ** *
2096391 TCATTTGAAAGCCCGCACAAGTTGGTGGCAAC
1 -CTTTTCAAAG-CC-CACAAGTCAGTGGCATC
**
2096423 CTATTTCAAAGCCCACACTAGTTGGTGGCAAT-
1 CT-TTTCAAAGCCCACA--AGTCAGTGGC-ATC
* * *
2096455 CTATTTCAAAGCCTACACAAGTCGGTGGTAAC
1 CT-TTTCAAAGCC--CACAAGTCAGTGGCATC
* * ** *
2096487 TCATTTGAAAGCCCACACAAGTTGGTGGCAACC
1 -CTTTTCAAAG-CC-CACAAGTCAGTGGC-ATC
* ** *
2096520 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCAGTGGC-ATC
* * *
2096552 CATTTCAAAGCCCATAAGTCAGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATC
* *
2096581 CTTCT-AAAGCCCATAAGTCAGTGGCA-C
1 CTTTTCAAAGCCCACAAGTCAGTGGCATC
* *
2096608 CTTTTCAATGCCCACAAGTTAGTGGCATAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT-C
2096638 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
1 CTTTTCAAAGCCCACAAGTCAGTGGCATC
** *
2096666 CTTTTCCTAGCCCACAAGACAGTGGCAT-
1 CTTTTCAAAGCCCACAAGTCAGTGGCATC
* *
2096694 CTTTTCAAAGCCCACAAGTTAGTGGCATT
1 CTTTTCAAAGCCCACAAGTCAGTGGCATC
*
2096723 C-TTCCAAAAGCCCACAAGTCAGTGGCATC
1 CTTTTC-AAAGCCCACAAGTCAGTGGCATC
* *
2096752 TTTTTCAAAGCTCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATC
* *
2096781 CTTTTTAAAGCCCACATA-TCGGTGG-A-C
1 CTTTTCAAAGCCCACA-AGTCAGTGGCATC
* ** *
2096808 CCTTTCAAAGCCCACACAAGTTGGTGGCAAC
1 CTTTTCAAAG-CC-CACAAGTCAGTGGCATC
2096839 TCTTTTCAAAGCCCACA
1 -CTTTTCAAAGCCCACA
2096856 TAAGTTAGTG
Statistics
Matches: 461, Mismatches: 58, Indels: 63
0.79 0.10 0.11
Matches are distributed among these distances:
27 19 0.04
28 149 0.32
29 80 0.17
30 61 0.13
31 9 0.02
32 128 0.28
33 8 0.02
34 7 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (29 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCATC
Found at i:2096826 original size:58 final size:56
Alignment explanation
Indices: 2096272--2096875 Score: 372
Period size: 58 Copynumber: 10.2 Consensus size: 56
2096262 CGCCGTGGCA
* * * * * *
2096272 GCACTCTTTTAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTTAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTG
* * * * * * *
2096328 GCAACCTTTCAAAGTCCATAAGTTAGTGGCATCATTTCAAACCCCACATAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCAC--AAGTCAGTG
* * ** **
2096386 GCAACTCATTTGAAAGCCCGCACAAGTTGGTGGCAACCTATTTCAAAGCCCACACTAGTTGGTG
1 GC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGC-ACCT-TTTCAAAGCCCACA--AGTCAGTG
** * * * * **
2096450 GCAATCTATTTCAAAGCCTACACAAGTCGGTGGTAACTCATTTGAAAGCCCACACAAGTTGGTG
1 GC-A-CCCTTTCAAAGCC--CACAAGTCAGTGG-CAC-CTTTTCAAAG-CC-CACAAGTCAGTG
** * *
2096514 GCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCATAAGTCAGTG
1 GC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCTTTTCAAAGCCCACAAGTCAGTG
* * *
2096576 GCACCC-TTCTAAAGCCCATAAGTCAGTGGCACCTTTTCAATGCCCACAAGTTAGTG
1 GCACCCTTTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTG
* ** *
2096632 GCATACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCCTAGCCCACAAGACAGTG
1 GC--ACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTG
* * *
2096690 GCATCTTTTCAAAGCCCACAAGTTAGTGGCA--TTCTTCCAAAAGCCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTT-TT-C-AAAGCCCACAAGTCAGTG
** * * *
2096747 GCATCTTTTTCAAAGCTCACAAGTCAGTGGCATCCTTTTTAAAGCCCACATA-TCGGTG
1 GCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACA-AGTCAGTG
** *
2096805 G-ACCCTTTCAAAGCCCACACAAGTTGGTGGCAACTCTTTTCAAAGCCCACATAAGTTAGTG
1 GCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CTTTTCAAAGCCCAC--AAGTCAGTG
2096866 GCACCTCTTT
1 GCACC-CTTT
2096876 TTTAAAAGCC
Statistics
Matches: 441, Mismatches: 66, Indels: 75
0.76 0.11 0.13
Matches are distributed among these distances:
54 2 0.00
55 2 0.00
56 101 0.23
57 21 0.05
58 119 0.27
59 25 0.06
60 15 0.03
61 13 0.03
62 27 0.06
63 11 0.02
64 94 0.21
65 7 0.02
66 4 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (56 bp):
GCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTG
Found at i:2096850 original size:32 final size:30
Alignment explanation
Indices: 2096274--2096876 Score: 421
Period size: 32 Copynumber: 20.3 Consensus size: 30
2096264 CCGTGGCAGC
2096274 ACTCTTTT-AAAGCCCACAAGTTAGTGGC-
1 ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
*
2096302 A-TCATTTCAAAGCCCACAAGTTAGTGGCA
1 ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
* *
2096331 AC-C-TTTCAAAGTCCATAAGTTAGTGGC-
1 ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
* * *
2096358 A-TCATTTCAAACCCCACATAAGTCAGTGGCA
1 ACTCTTTTCAAAGCCCAC--AAGTTAGTGGCA
* * *
2096389 ACTCATTTGAAAGCCCGCACAAGTTGGTGGCA
1 ACTCTTTTCAAAG-CC-CACAAGTTAGTGGCA
*
2096421 AC-CTATTTCAAAGCCCACACTAGTTGGTGGCA
1 ACTCT-TTTCAAAGCCCACA--AGTTAGTGGCA
** *
2096453 A-TCTATTTCAAAGCCTACACAAGTCGGTGGTA
1 ACTCT-TTTCAAAGCC--CACAAGTTAGTGGCA
* * *
2096485 ACTCATTTGAAAGCCCACACAAGTTGGTGGCA
1 ACTCTTTTCAAAG-CC-CACAAGTTAGTGGCA
* * *
2096517 ACCCATTTCAAAGCCCACACAAGTTGGTGGCA
1 ACTCTTTTCAAAG-CC-CACAAGTTAGTGGCA
* * * *
2096549 ACCCATTTCAAAGCCCATAAGTCAGTGGC-
1 ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
* * * *
2096578 ACCCTTCT-AAAGCCCATAAGTCAGTGGC-
1 ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
*
2096606 AC-CTTTTCAATGCCCACAAGTTAGTGGCA
1 ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
*
2096635 TAC-CTTTTCAAAGCCCACAAGTCAGTGGC-
1 -ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
** **
2096664 AC-CTTTTCCTAGCCCACAAGACAGTGGC-
1 ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
2096692 A-TCTTTTCAAAGCCCACAAGTTAGTGGC-
1 ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
* * *
2096720 ATTC-TTCCAAAAGCCCACAAGTCAGTGGCA
1 ACTCTTTTC-AAAGCCCACAAGTTAGTGGCA
* * *
2096750 TCT-TTTTCAAAGCTCACAAGTCAGTGGCA
1 ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
* * **
2096779 TC-CTTTTTAAAGCCCACATA-TCGGTGG--
1 ACTCTTTTCAAAGCCCACA-AGTTAGTGGCA
* *
2096806 AC-CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 ACTCTTTTCAAAG-CC-CACAAGTTAGTGGCA
2096837 ACTCTTTTCAAAGCCCACATAAGTTAGTGGCA
1 ACTCTTTTCAAAGCCCAC--AAGTTAGTGGCA
*
2096869 CCTCTTTT
1 ACTCTTTT
2096877 TTAAAAGCCC
Statistics
Matches: 483, Mismatches: 55, Indels: 70
0.79 0.09 0.12
Matches are distributed among these distances:
27 20 0.04
28 147 0.30
29 80 0.17
30 59 0.12
31 10 0.02
32 154 0.32
33 6 0.01
34 7 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (30 bp):
ACTCTTTTCAAAGCCCACAAGTTAGTGGCA
Found at i:2097036 original size:46 final size:46
Alignment explanation
Indices: 2096971--2097253 Score: 345
Period size: 46 Copynumber: 6.1 Consensus size: 46
2096961 AGTATATTGG
* *
2096971 CACCTTTACTAGCTTAATGTCGCTAGGCC-TGAATCAGCACATTGTC
1 CACCTTTATTAGCTCAATGTCGCT-GGCCTTGAATCAGCACATTGTC
*
2097017 CACCTTTATTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTC
1 CACCTTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTC
* * * *
2097063 CATCTTTATTAGCTCAATGTCGCTGGTCTTGAATCAGCACGTTGCC
1 CACCTTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTC
* *
2097109 CACCTTTATTAGCTTAATGTCGCTGGCCTTGAATCAACACATTGTC
1 CACCTTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTC
*
2097155 CACTTTTCCCA-TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTC
1 CACCTTT---ATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTC
* * * ** * *
2097203 CACTTTTCCTTTAGCTCAATGTCGTTGGTATTGAGTCAGCACATTATC
1 CACCTTT--ATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTC
2097251 CAC
1 CAC
2097254 TTTTCCCTTA
Statistics
Matches: 209, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
45 3 0.01
46 126 0.60
47 2 0.01
48 77 0.37
49 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.34
Consensus pattern (46 bp):
CACCTTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTC
Found at i:2097062 original size:25 final size:25
Alignment explanation
Indices: 2096988--2097062 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
2096978 ACTAGCTTAA
2096988 TGTCGCTAGGCC-TGAATCAGCACAT
1 TGTCGCTA-GCCTTGAATCAGCACAT
* * * *
2097013 TGTC-C-A-CCTT-TATTAGCTCAA
1 TGTCGCTAGCCTTGAATCAGCACAT
2097034 TGTCGCTAGCCTTGAATCAGCACAT
1 TGTCGCTAGCCTTGAATCAGCACAT
2097059 TGTC
1 TGTC
2097063 CATCTTTATT
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
21 13 0.35
22 2 0.05
23 2 0.05
24 5 0.14
25 15 0.41
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (25 bp):
TGTCGCTAGCCTTGAATCAGCACAT
Found at i:2097273 original size:48 final size:48
Alignment explanation
Indices: 2096980--2097296 Score: 335
Period size: 46 Copynumber: 6.7 Consensus size: 48
2096970 GCACCTTTAC
* * *
2096980 TAGCTTAATGTCGCTAGGCC-TGAATCAGCACATTGTCCACCTTT--AT
1 TAGCTCAATGTCGCT-GGCCTTGAATCAGCACATTGTCCACTTTTCCCT
* *
2097026 TAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCA-TCTTT--AT
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACT-TTTCCCT
* * * * *
2097072 TAGCTCAATGTCGCTGGTCTTGAATCAGCACGTTGCCCACCTTT--AT
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
* * *
2097118 TAGCTTAATGTCGCTGGCCTTGAATCAACACATTGTCCACTTTTCCCA
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
*
2097166 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCTT
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
* ** * *
2097214 TAGCTCAATGTCGTTGGTATTGAGTCAGCACATTATCCACTTTTCCCT
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
** * * **
2097262 TAGCTTGATGTCGTTGGCTTTGAATTGGCACATTG
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTG
2097297 GCAATCCTCT
Statistics
Matches: 232, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
45 3 0.01
46 116 0.50
48 113 0.49
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (48 bp):
TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
Found at i:2098268 original size:55 final size:54
Alignment explanation
Indices: 2098144--2098298 Score: 190
Period size: 55 Copynumber: 2.9 Consensus size: 54
2098134 CTGGTGGAAC
*
2098144 CCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCA-CAACTCCGTGACA
1 CCTTTTAAAGTCCACAACTCCGTGGCAT-CTTTTAAGTCCACCAACTCCGTGACA
* * * * *
2098198 CCCTTTAAAGTCCACAACTCCATGGCACTCTTTTAAAGTCCACCACCT-TGTGGCA
1 CCTTTTAAAGTCCACAACTCCGTGGCA-TCTTTT-AAGTCCACCAACTCCGTGACA
*
2098253 CCTTTTTAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCA-CAACT
1 CCTTTTAAAGTCCACAACTCCGTGGCA-TCTTTTAAGTCCACCAACT
2098299 TTATGGCAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
53 4 0.05
54 36 0.41
55 43 0.49
56 4 0.05
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.30
Consensus pattern (54 bp):
CCTTTTAAAGTCCACAACTCCGTGGCATCTTTTAAGTCCACCAACTCCGTGACA
Found at i:2098306 original size:27 final size:27
Alignment explanation
Indices: 2098137--2098298 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
2098127 ACCTTGGCTG
* *
2098137 GTGGAACCCTTTTAAAGTCCACAACTCT
1 GTGGCACCCTTTT-AAGTCCACAACTCC
*
2098165 GTGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
2098192 GTGACACCCTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * * *
2098219 ATGGCACTCTTTTAAAGTCCACCAC-CTT
1 GTGGCACCCTTTT-AAGTCCACAACTC-C
*
2098247 GTGGCACCTTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
**
2098274 GTGGCATTCTTTTAAGTCCACAACT
1 GTGGCACCCTTTTAAGTCCACAACT
2098299 TTATGGCAGC
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
27 79 0.71
28 32 0.29
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (27 bp):
GTGGCACCCTTTTAAGTCCACAACTCC
Found at i:2098306 original size:82 final size:82
Alignment explanation
Indices: 2098145--2098298 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 82
2098135 TGGTGGAACC
2098145 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGACACCCTTTAAAGTC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGACACCCTTTAAAGTC
2098210 CACAACTCCATGGCACT
66 CACAACTCCATGGCACT
* * ** *
2098227 CTTTTAAAGTCCACCAC-CTTGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCATTCTTTTAAG
1 CTTTTAAAGTCCACAACTC-TGTGGCATCC-TTTTAAGTCCACAACTCCGTGACACCCTTTAAAG
2098290 TCCACAACT
64 TCCACAACT
2098299 TTATGGCAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 3 0.05
82 62 0.95
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.31
Consensus pattern (82 bp):
CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGACACCCTTTAAAGTC
CACAACTCCATGGCACT
Found at i:2098540 original size:28 final size:28
Alignment explanation
Indices: 2098481--2098803 Score: 270
Period size: 28 Copynumber: 11.1 Consensus size: 28
2098471 TGAAAGCCCA
* *
2098481 CACAAGTC-GATGGCAACCCATATCAAAACC
1 CACAAGTCAG-TGGC-ACCC-TTTCAAAGCC
* * *
2098511 CACAAGTTAGTGTCACCCTTCCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
*
2098539 CACAAGTCAGTGGCACCCTTTCAAAGGC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* **
2098567 CATAAGTTTGTGGCATACCCTTTCAAAGCC
1 CACAAGTCAGTGGC--ACCCTTTCAAAGCC
* ** *
2098597 CACAAGTTAGTGGCACATTTTCAAAGCG
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
* * * *
2098625 TACAAGACAGTGGCATCTTTTCAAAGCC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC
*
2098653 CACAAGTCAGTGGCATCCTTTCAAAAGCC
1 CACAAGTCAGTGGCACCCTTTC-AAAGCC
* **
2098682 CACAAGCCAGTGGCATCTTTTTCAAAGCC
1 CACAAGTCAGTGGCA-CCCTTTCAAAGCC
* * *
2098711 CACAAGCCAGTGGCATCCTTTTTAAAGCC
1 CACAAGTCAGTGGCA-CCCTTTCAAAGCC
* * *
2098740 CACAAGTCGGTGGCGCCCTTTCAAGGCCC
1 CACAAGTCAGTGGCACCCTTTCAAAG-CC
* *
2098769 ACACAAGTCATTGGCAACTCTTTTCAAAGCC
1 -CACAAGTCAGTGGC-AC-CCTTTCAAAGCC
2098800 CACA
1 CACA
2098804 TAAGTTAGTA
Statistics
Matches: 240, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
28 102 0.43
29 71 0.30
30 55 0.23
31 4 0.02
32 8 0.03
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (28 bp):
CACAAGTCAGTGGCACCCTTTCAAAGCC
Found at i:2098553 original size:58 final size:58
Alignment explanation
Indices: 2098481--2098725 Score: 160
Period size: 58 Copynumber: 4.3 Consensus size: 58
2098471 TGAAAGCCCA
*
2098481 CACAAGTC-GATGGCAACCCATATCAAAACCCACAAGTTAGTGTC-ACCCTTCCAAAGCC
1 CACAAGTCAG-TGGCAACCC-TATCAAAACCCACAAGTTAGTGGCAACCCTTCCAAAGCC
* ** * * *
2098539 CACAAGTCAGTGGC-ACCCTTTCAAAGGCCATAAGTTTGTGGCATACCCTTTCAAAGCC
1 CACAAGTCAGTGGCAACCCTATCAAAACCCACAAGTTAGTGGCA-ACCCTTCCAAAGCC
* ** * * ** ** * * *
2098597 CACAAGTTAGTGGC-ACATTTTCAAAGCGTACAAGACAGTGGC-ATCTTTTCAAAGCC
1 CACAAGTCAGTGGCAACCCTATCAAAACCCACAAGTTAGTGGCAACCCTTCCAAAGCC
* * ** * ** *
2098653 CACAAGTCAGTGGC-ATCCTTTCAAAAGCCCACAAGCCAGTGGCATCTTTTTCAAAGCC
1 CACAAGTCAGTGGCAACCCTATCAAAA-CCCACAAGTTAGTGGCAACCCTTCCAAAGCC
*
2098711 CACAAGCCAGTGGCA
1 CACAAGTCAGTGGCA
2098726 TCCTTTTTAA
Statistics
Matches: 150, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
56 51 0.34
57 17 0.11
58 81 0.54
59 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (58 bp):
CACAAGTCAGTGGCAACCCTATCAAAACCCACAAGTTAGTGGCAACCCTTCCAAAGCC
Found at i:2098599 original size:86 final size:84
Alignment explanation
Indices: 2098503--2098803 Score: 287
Period size: 86 Copynumber: 3.5 Consensus size: 84
2098493 GCAACCCATA
* * ** * * * *
2098503 TCAAAACCCACAAGTTAGTGTCACCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGGCC
1 TCAAAGCCCACAAGTTAGTGGCACATTTTCAAAGCCCACAAGACAGTGGCATCCTTTCAAAGCCC
* **
2098568 ATAAGTTTGTGGCATACCCTT
66 ACAAGTCAGTGGCAT--CCTT
** *
2098589 TCAAAGCCCACAAGTTAGTGGCACATTTTCAAAGCGTACAAGACAGTGGCATCTTTTCAAAGCCC
1 TCAAAGCCCACAAGTTAGTGGCACATTTTCAAAGCCCACAAGACAGTGGCATCCTTTCAAAGCCC
2098654 ACAAGTCAGTGGCATCCTT
66 ACAAGTCAGTGGCATCCTT
** * * *
2098673 TCAAAAGCCCACAAGCCAGTGGCATCTTTTTCAAAGCCCACAAGCCAGTGGCATCCTTTTTAAAG
1 TC-AAAGCCCACAAGTTAGTGGCA-CATTTTCAAAGCCCACAAGACAGTGGCATCC-TTTCAAAG
* **
2098738 CCCACAAGTCGGTGGCGCCCTT
63 CCCACAAGTCAGTGGCATCCTT
* * * *
2098760 TCAAGGCCCACACAAGTCATTGGCAACTCTTTTCAAAGCCCACA
1 TCAAAG-CC-CACAAGTTAGTGGC-AC-ATTTTCAAAGCCCACA
2098804 TAAGTTAGTA
Statistics
Matches: 179, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
84 6 0.03
85 19 0.11
86 95 0.53
87 30 0.17
88 13 0.07
89 16 0.09
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (84 bp):
TCAAAGCCCACAAGTTAGTGGCACATTTTCAAAGCCCACAAGACAGTGGCATCCTTTCAAAGCCC
ACAAGTCAGTGGCATCCTT
Found at i:2098726 original size:58 final size:56
Alignment explanation
Indices: 2098532--2098803 Score: 249
Period size: 58 Copynumber: 4.7 Consensus size: 56
2098522 GTCACCCTTC
* * * *** *
2098532 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGGCCATAAGTTTGTGGCATACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGACAGTGGCAT--CTTTT
* * **
2098590 CAAAGCCCACAAGTTAGTGGCA-CATTTTCAAAGCGTACAAGACAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGACAGTGGCATCTTTT
*
2098646 CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGCCAGTGGCATCTTTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGACAGTGGCATC-TTTT
* * * * ** *
2098704 CAAAGCCCACAAGCCAGTGGCATCCTTTTTAAAGCCCACAAGTCGGTGGCGCCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGACAGTGGCATCTTTT
* * *
2098761 CAAGGCCCACACAAGTCATTGGCAACTCTTTTCAAAGCCCACA
1 CAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACA
2098804 TAAGTTAGTA
Statistics
Matches: 178, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
56 29 0.16
57 29 0.16
58 89 0.50
59 15 0.08
60 14 0.08
61 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (56 bp):
CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGACAGTGGCATCTTTT
Found at i:2098801 original size:32 final size:30
Alignment explanation
Indices: 2098312--2098803 Score: 259
Period size: 32 Copynumber: 16.5 Consensus size: 30
2098302 TGGCAGCACC
*
2098312 CTTTT-AAAGCCCACAAGTTAGTGGC-A-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCAACT
* *
2098339 CATTTCAAAGCTCACACAAGTCGGTGGCAACT
1 CTTTTCAAAGC-C-CACAAGTCAGTGGCAACT
* * * *
2098371 CATTTGAAAGCCCACACAAGT-TGCTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCAG-TGGCAACT
* * ** *
2098403 CATTTCAAAGCCCATACGAGTTGGTGGCAACC
1 CTTTTCAAAGCCC--ACAAGTCAGTGGCAACT
* ** *
2098435 CATTTCAAAGCCCACACAAGTTGGTGACAACT
1 CTTTTCAAAG-CC-CACAAGTCAGTGGCAACT
** * *
2098467 GATTTGAAAGCCCACACAAGTC-GATGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCAG-TGGCAACT
* * * * *
2098499 CATATCAAAACCCACAAGTTAGTGTC-AC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCAACT
* *
2098527 CCTTCCAAAGCCCACAAGTCAGTGGC-AC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCAACT
* * * **
2098555 CCTTTCAAAGGCCATAAGTTTGTGGCATAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-ACT
* *
2098585 CCTTTCAAAGCCCACAAGTTAGTGGC-AC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCAACT
* ** *
2098613 ATTTTCAAAGCGTACAAGACAGTGGC-A-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCAACT
2098641 CTTTTCAAAGCCCACAAGTCAGTGGC-A-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCAACT
* * *
2098669 CCTTTCAAAAGCCCACAAGCCAGTGGCATCT
1 CTTTTC-AAAGCCCACAAGTCAGTGGCAACT
* *
2098700 -TTTTCAAAGCCCACAAGCCAGTGGCATC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCAACT
* * *
2098728 CTTTTTAAAGCCCACAAGTCGGTGGC-GC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCAACT
* * *
2098756 CCTTTCAAGGCCCACACAAGTCATTGGCAACT
1 CTTTTCAAAG-CC-CACAAGTCAGTGGCAACT
2098788 CTTTTCAAAGCCCACA
1 CTTTTCAAAGCCCACA
2098804 TAAGTTAGTA
Statistics
Matches: 377, Mismatches: 63, Indels: 47
0.77 0.13 0.10
Matches are distributed among these distances:
27 4 0.01
28 108 0.29
29 69 0.18
30 68 0.18
31 12 0.03
32 111 0.29
33 4 0.01
34 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (30 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAACT
Found at i:2098954 original size:25 final size:25
Alignment explanation
Indices: 2098926--2098997 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
2098916 TGGGACCTTT
2098926 ATTAGCTCAATGTCACTAGCCTTGA
1 ATTAGCTCAATGTCACTAGCCTTGA
* *
2098951 ATTAG-TACATTGTC-C-A-CCTT-T
1 ATTAGCT-CAATGTCACTAGCCTTGA
2098972 ATTA-CTCAATGTCACTAGCCTTGA
1 ATTAGCTCAATGTCACTAGCCTTGA
2098996 AT
1 AT
2098998 CTACACATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
20 6 0.16
21 6 0.16
22 5 0.14
23 5 0.14
24 4 0.11
25 11 0.30
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (25 bp):
ATTAGCTCAATGTCACTAGCCTTGA
Found at i:2099183 original size:48 final size:46
Alignment explanation
Indices: 2098920--2099288 Score: 427
Period size: 46 Copynumber: 7.9 Consensus size: 46
2098910 GTATATTGGG
* * * *
2098920 ACCTTTATTAGCTCAATGTCACTAGCCTTGAATTAGTACATTGTCC
1 ACCTTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCC
* * *
2098966 ACCTTTATTA-CTCAATGTCACTAGCCTTGAATCTA-CACATTATCC
1 ACCTTTATTAGCTCAATGTCGCTGGCCTTGAATC-AGCACATTGTCC
* *
2099011 ACCTTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACGTTGCCC
1 ACCTTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCC
* *
2099057 ACCTTTATTAGCTCAATGTTGCTGGCCTTGAATCAGCACATTGTCT
1 ACCTTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCC
* *
2099103 ACCTTTATTTGCTCAATGTCGCTGGCCTTGAATCAACACATTGTCC
1 ACCTTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCC
* * *
2099149 ACTTTTCCCTTAACTCAATGTCGCTGGCCTTGAATCAGCACATTGTCC
1 ACCTTT--ATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCC
* * *
2099197 ACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATTAGCACATTGTCC
1 ACCTTT--ATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCC
* * * ** **
2099245 ACTTTTCCCTTAGCTCGATGTCATTGGCCTTGAATTGGCACATT
1 ACCTTT--ATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATT
2099289 AGCACTCCTC
Statistics
Matches: 291, Mismatches: 27, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
45 41 0.14
46 128 0.44
48 122 0.42
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (46 bp):
ACCTTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCC
Found at i:2100020 original size:20 final size:20
Alignment explanation
Indices: 2099991--2100045 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2099981 TTACCCAAAC
2099991 GTATCGATACATTTTTCAAT
1 GTATCGATACATTTTTCAAT
* * * *
2100011 GTATCAATACATGTATGAAT
1 GTATCGATACATTTTTCAAT
2100031 GTATCGATACATTTT
1 GTATCGATACATTTT
2100046 GTCTTTTTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTTTCAAT
Found at i:2100094 original size:71 final size:71
Alignment explanation
Indices: 2099978--2100114 Score: 213
Period size: 71 Copynumber: 1.9 Consensus size: 71
2099968 AAAAGTCACA
* *
2099978 TTTTTACCCAAACGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAAACGTATCGATACATTCTTCAATGTATCAATACATGTATGAATGTATCAATACAT
2100043 TTTGTC
66 TTTGTC
* * *
2100049 TTTTTACCCAGATGTATCGATATCA-TCTTCAATGTCTCAATACATGTATGAATGTATCAATACA
1 TTTTTACCCAAACGTATCGATA-CATTCTTCAATGTATCAATACATGTATGAATGTATCAATACA
2100113 TT
65 TT
2100115 CTTTAATGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 58 0.97
72 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (71 bp):
TTTTTACCCAAACGTATCGATACATTCTTCAATGTATCAATACATGTATGAATGTATCAATACAT
TTTGTC
Found at i:2100122 original size:20 final size:20
Alignment explanation
Indices: 2100060--2100136 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
2100050 TTTTACCCAG
*
2100060 ATGTATCGATATCA-TCTTCA
1 ATGTATCAATA-CATTCTTCA
* * *
2100080 ATGTCTCAATACATGT-ATGA
1 ATGTATCAATACAT-TCTTCA
*
2100100 ATGTATCAATACATTCTTTA
1 ATGTATCAATACATTCTTCA
*
2100120 ATGTATCGATACATTCT
1 ATGTATCAATACATTCT
2100137 GTCTTTTCTC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.07
20 42 0.91
21 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTATCAATACATTCTTCA
Found at i:2100171 original size:91 final size:91
Alignment explanation
Indices: 2100008--2100174 Score: 214
Period size: 91 Copynumber: 1.8 Consensus size: 91
2099998 TACATTTTTC
* * * *
2100008 AATGTATCAATACATGTATGAATGTATCGATACATTTTGTCTTTTTACCCAGATGTATCGATATC
1 AATGTATCAATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAAAAGTATCGACATC
2100073 ATCTTCAATGTCTCAATACATGTATG
66 ATCTTCAATGTCTCAATACATGTATG
* * *
2100099 AATGTATCAATACAT-TCTTTAATGTATCGATACATTCTGTCTTTTCT-CCTAAAAGTATCGACA
1 AATGTATCAATACATGT-ATGAATGTATCGATACATTCTGTCTTTT-TACCCAAAAGTATCGACA
*
2100162 -CATGTTTCAATGT
64 TCAT-CTTCAATGT
2100175 ATTGATACGT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
90 4 0.06
91 60 0.92
92 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (91 bp):
AATGTATCAATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAAAAGTATCGACATC
ATCTTCAATGTCTCAATACATGTATG
Found at i:2107176 original size:13 final size:13
Alignment explanation
Indices: 2107158--2107182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2107148 TTTGTCCAAA
2107158 TGTATCGATACAT
1 TGTATCGATACAT
2107171 TGTATCGATACA
1 TGTATCGATACA
2107183 AGGTCCCAAC
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:2107243 original size:19 final size:19
Alignment explanation
Indices: 2107219--2107269 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
2107209 ATTCAACGAT
2107219 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
2107238 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
2107257 TTGTATCGATACA
1 TTGTATCGATACA
2107270 ATGTATCGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2107400 original size:52 final size:52
Alignment explanation
Indices: 2107355--2107476 Score: 226
Period size: 52 Copynumber: 2.3 Consensus size: 52
2107345 CACTGATCTT
*
2107355 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
2107407 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
2107459 TGTATCGATACATGCAGG
1 TGTATCGATACATGCAGG
2107477 TAATTGTTCA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:2110962 original size:20 final size:21
Alignment explanation
Indices: 2110936--2110993 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
2110926 ATTTGCCTGC
2110936 ATGTATCGATACATTTTA-TA
1 ATGTATCGATACATTTTAGTA
* *
2110956 GTGTATCGATACATTTAAGTA
1 ATGTATCGATACATTTTAGTA
*
2110977 ATGTATCGATATATTTT
1 ATGTATCGATACATTTT
2110994 TTGGCAGTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (21 bp):
ATGTATCGATACATTTTAGTA
Found at i:2111035 original size:19 final size:19
Alignment explanation
Indices: 2111011--2111108 Score: 76
Period size: 19 Copynumber: 5.7 Consensus size: 19
2111001 TGGCTTACAT
2111011 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
2111030 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
2111043 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
2111062 TGTATCGAT---ATA--T-
1 TGTATCGATACAAAACTTA
*
2111075 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
2111095 TGTATCGATACAAA
1 TGTATCGATACAAA
2111109 TCGTTGAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 25
0.69 0.03 0.27
Matches are distributed among these distances:
13 20 0.32
14 2 0.03
16 6 0.10
18 1 0.02
19 21 0.33
20 13 0.21
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2111047 original size:32 final size:32
Alignment explanation
Indices: 2111006--2111106 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
2110996 GGCAGTGGCT
*
2111006 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
2111038 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
2111070 TATATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
2111103 TACA
1 TACA
2111107 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 51 0.78
33 14 0.22
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:2111048 original size:13 final size:13
Alignment explanation
Indices: 2111030--2111086 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2111020 ACAAAACTTA
2111030 TGTATCGATACAT
1 TGTATCGATACAT
2111043 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
2111061 ATGTATCGATATAT
1 -TGTATCGATACAT
2111075 TGTATCGATACA
1 TGTATCGATACA
2111087 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 5 0.14
18 1 0.03
19 9 0.25
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2111534 original size:29 final size:29
Alignment explanation
Indices: 2111502--2111560 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2111492 TTGTAGGGTT
2111502 TGTCCTCCCTACTAGGTTTTGGAATTTTC
1 TGTCCTCCCTACTAGGTTTTGGAATTTTC
2111531 TGTCCTCCCTACTAGGTTTTGGAATTTTC
1 TGTCCTCCCTACTAGGTTTTGGAATTTTC
2111560 T
1 T
2111561 AAGGGTTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.46
Consensus pattern (29 bp):
TGTCCTCCCTACTAGGTTTTGGAATTTTC
Found at i:2112082 original size:43 final size:43
Alignment explanation
Indices: 2112021--2112427 Score: 336
Period size: 43 Copynumber: 8.9 Consensus size: 43
2112011 TAAAGATGAC
*
2112021 AAAGGCGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT
* * * *
2112064 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT
* *
2112107 AAAAGATGAGGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT
1 ---A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT
** * * *
2112157 GGAGTTGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT
* * *
2112200 AAAGATGATGGTCCCAATATGCTGATTCAAGGCTAGCGATATTGGACAT
1 AAAG--G-T-G--CCAATATGCTGATTCAAGGCCAGTGATATTGGACTT
*
2112249 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCT-ATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT
2112292 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT
* * **
2112341 AAAGGTGCCAATGTACTGATTCAAGGCCAGCT-ACGTTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT
*
2112384 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTG
2112428 CAAGGCCAGC
Statistics
Matches: 297, Mismatches: 38, Indels: 52
0.77 0.10 0.13
Matches are distributed among these distances:
43 143 0.48
44 2 0.01
45 1 0.00
46 3 0.01
47 4 0.01
48 1 0.00
49 107 0.36
50 36 0.12
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT
Found at i:2112244 original size:49 final size:49
Alignment explanation
Indices: 2111909--2112542 Score: 551
Period size: 49 Copynumber: 13.1 Consensus size: 49
2111899 CTTAGGAATG
* * *
2111909 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGAAATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* ** *
2111958 TTAAAGATGACAGAGACGCCAATATGCTGATTCAAGGATAGCGATATTGAAC
1 TTAAAGATGA-AG-G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2112010 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGTGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2112062 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2112105 TTAAAAGATGAGGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
2112155 TT---G--G-AGTTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2112198 TTAAAGATGATGGTCCCAATATGCTGATTCAAGGCTAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2112247 ------ATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2112290 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * **
2112339 TT----A--AAGGTGCCAATGTACTGATTCAAGGCCAGCTACGTTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
2112382 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGCAAGGCCAGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT----GG--A-C
* ** * * * * * *
2112438 GATATTGCACTTGGAGGTGCTAATGTGTTGATTCAAGGCCAGCTACATTGGAC
1 -TTAAAG-A--TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2112491 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
2112540 TTA
1 TTA
2112543 GAAGGGTTGC
Statistics
Matches: 472, Mismatches: 71, Indels: 84
0.75 0.11 0.13
Matches are distributed among these distances:
43 147 0.31
44 1 0.00
45 1 0.00
46 2 0.00
47 1 0.00
48 3 0.01
49 151 0.32
50 39 0.08
51 2 0.00
52 77 0.16
53 4 0.01
54 3 0.01
55 2 0.00
56 3 0.01
57 3 0.01
58 1 0.00
60 32 0.07
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:2112258 original size:92 final size:92
Alignment explanation
Indices: 2111975--2112427 Score: 654
Period size: 92 Copynumber: 4.9 Consensus size: 92
2111965 TGACAGAGAC
* ** * * * *
2111975 GCCAATATGCTGATTCAAGGATAGCGATATTGAACTTAAAGATGACAAAGGCGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGA
*
2112040 TTCAAGGCCAGTGATATTGGACTTAAAGGT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
* * * *
2112070 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGCTAATT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATGCTGATT
** *
2112135 CAAGGCCAGCGATATTGGACTTGGAGTT
65 CAAGGCCAGCGATATTGGACTTAAAGGT
* *
2112163 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTCCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
* *
2112228 AAGGCTAGCGATATTGGACATAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* *
2112255 GCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
*
2112320 AAGGCCAGCTATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* *
2112347 GCCAATGTACTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
2112412 AAGGCCAGCGATATTG
66 AAGGCCAGCGATATTG
2112428 CAAGGCCAGC
Statistics
Matches: 322, Mismatches: 35, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
92 208 0.65
93 76 0.24
95 31 0.10
96 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:2112433 original size:17 final size:17
Alignment explanation
Indices: 2112411--2112446 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2112401 TATGCTGATT
2112411 CAAGGCCAGCGATATTG
1 CAAGGCCAGCGATATTG
2112428 CAAGGCCAGCGATATTG
1 CAAGGCCAGCGATATTG
2112445 CA
1 CA
2112447 CTTGGAGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.28, T:0.17
Consensus pattern (17 bp):
CAAGGCCAGCGATATTG
Found at i:2112510 original size:109 final size:109
Alignment explanation
Indices: 2112319--2112536 Score: 346
Period size: 109 Copynumber: 2.0 Consensus size: 109
2112309 TATGCTGATT
* * *
2112319 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTACTGATTCAAGGCCAGCTACGTTGGACTT
1 CAAGGCCAGCGATATTGCACTTAAAGGTGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTT
*
2112384 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
66 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
** * **
2112428 CAAGGCCAGCGATATTGCACTTGGAGGTGCTAATGTGTTGATTCAAGGCCAGCTACATTGGACTT
1 CAAGGCCAGCGATATTGCACTTAAAGGTGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTT
*
2112493 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTG
66 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
2112537 GGCTTAGAAG
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
109 99 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (109 bp):
CAAGGCCAGCGATATTGCACTTAAAGGTGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTT
AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
Found at i:2112621 original size:32 final size:33
Alignment explanation
Indices: 2112542--2112710 Score: 274
Period size: 32 Copynumber: 5.2 Consensus size: 33
2112532 TATTGGGCTT
2112542 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
2112575 AGAATGGTTGCCACCAACTTGTATGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2112608 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2112639 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2112671 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTA-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2112703 AAAAGGGT
1 AGAAGGGT
2112711 GAAAGATGCC
Statistics
Matches: 127, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
31 3 0.02
32 92 0.72
33 32 0.25
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:2112820 original size:31 final size:31
Alignment explanation
Indices: 2112717--2113382 Score: 328
Period size: 31 Copynumber: 20.7 Consensus size: 31
2112707 GGGTGAAAGA
* *
2112717 TGCCACGAAGTTGTGGAC-TTAAAAAGAACAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAG---AAGG
* *
2112750 TGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAAAG
1 TGCCACGGAGTTGTGGACTTTGAAAA--G----AAGG
* *
2112786 TGCCACGGAGTTGCGGGCTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* * * *
2112817 TGCCACGGAGTCGCGAACTTTGAAAGGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* ** *
2112848 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTGAA--AAGAAGG
* * *
2112881 TGCCAGGGGGTTGTGGACTTTAAAAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTGAAAA-G---AAG-G
* *
2112917 TGCTA-GAGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACG-GAGTTGTGGACTTTGAAAAGAAGG
* * *
2112948 TGCCACAGAGTCGTGGAC-TTAAAAAGAACAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAG---AAGG
*
2112981 TGCCACGGAGTTGTGGAATTT-AAAACGAAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTGAAAA-G----AAG-G
*
2113017 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* * *
2113048 TGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTGAA--AAGAAG-G
* *
2113082 TGCCACGGAGTTGTGGGC-TT-AAACG--GG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
*
2113109 TGCCACGGAGTTGTGGACTTAGAAGGTAA-AAGAG
1 TGCCACGGAGTTGTGGACTTTGAA---AAGAAG-G
* * *
2113143 TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTTGAAAA-G---AAGG
** *
2113178 TGCCATAGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* *
2113209 TGCCACAGAGTCGTGGACTTTGAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAG---AAGG
*
2113243 TGCCACGGAGTCGTGGACTTT-----G-A--
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* * * * *
2113266 TGCCACTGAGTCGTGGACTTTG-AGACAAGA
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
** * * *
2113296 TGCCACTAAGTTGGGGACTTAAAAGGAACAA-AAAG
1 TGCCACGGAGTTGTGGACTT----TGAA-AAGAAGG
*
2113331 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
*
2113362 TGCCACGGAGTCGTGGACTTT
1 TGCCACGGAGTTGTGGACTTT
2113383 AAGAAGGTAT
Statistics
Matches: 501, Mismatches: 77, Indels: 112
0.73 0.11 0.16
Matches are distributed among these distances:
23 20 0.04
25 1 0.00
27 18 0.04
28 3 0.01
29 3 0.01
30 27 0.05
31 142 0.28
32 9 0.02
33 75 0.15
34 70 0.14
35 54 0.11
36 71 0.14
37 8 0.02
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.20
Consensus pattern (31 bp):
TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
Found at i:2112821 original size:100 final size:95
Alignment explanation
Indices: 2112717--2113262 Score: 419
Period size: 100 Copynumber: 5.5 Consensus size: 95
2112707 GGGTGAAAGA
* * *
2112717 TGCCACGAAGTTGTGGAC-TTAAAAAGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 TGCCACGAAGTTGTGGACTTTGAAAAG---AAGGTGCCACGGAGTCGTGGAC-TTAAAA-GGAAA
*
2112781 AAAAGTGCCACGGAGTTGCGGGCTTTGAAAAGAAGG
61 AAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGG
* * * * * * *
2112817 TGCCACGGAGTCGCGAACTTTGAAAGGAAGGTGCCACGGAGTCGTGGACTTAAAAGG-AACAAGG
1 TGCCACGAAGTTGTGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAAAG
* * *
2112881 TGCCAGGGGGTTGTGGACTTTAAAAAGGAAAAAGAG
66 TGCCACGGAGTTGTGGGCTTT-AAAA-G---AAG-G
* * * * * *
2112917 TGCTA-GAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTTAAAAAG-AACAAG
1 TGCCACGA-AGTTGTGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAAA
**
2112980 GTGCCACGGAGTTGTGGAATTTAAAACGAAAAAAGAG
65 GTGCCACGGAGTTGTGGGCTTTAAAA-G----AAG-G
* * * * * *
2113017 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGAAGTTGTGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAAAG
*
2113082 TGCCACGGAGTTGTGGGC-TTAAACG--GG
66 TGCCACGGAGTTGTGGGCTTTAAAAGAAGG
* * * *
2113109 TGCCACGGAGTTGTGGACTTAGAAGGTAA-AAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
1 TGCCACGAAGTTGTGGACTTTGAA---AAGAAG-GTGCCACGGAGTCGTGGAC-TT-AAAAGGAA
* **
2113173 AAAGA-TGCCATAGAGTTGTGGGCTTTGAAAAGAAGG
60 AAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGG
*
2113209 TGCCAC-AGAGTCGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTCGTGGACTT
1 TGCCACGA-AGTTGTGGACTTTGAAAAG---AAGGTGCCACGGAGTCGTGGACTT
2113263 TGATGCCACT
Statistics
Matches: 367, Mismatches: 54, Indels: 51
0.78 0.11 0.11
Matches are distributed among these distances:
92 23 0.06
93 1 0.00
94 3 0.01
95 45 0.12
96 21 0.06
97 22 0.06
98 24 0.07
99 12 0.03
100 186 0.51
101 30 0.08
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.20
Consensus pattern (95 bp):
TGCCACGAAGTTGTGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAAAG
TGCCACGGAGTTGTGGGCTTTAAAAGAAGG
Found at i:2112868 original size:131 final size:134
Alignment explanation
Indices: 2112717--2113262 Score: 570
Period size: 131 Copynumber: 4.1 Consensus size: 134
2112707 GGGTGAAAGA
* * *
2112717 TGCCACGAAGTTGTGGACTTAAAAAG-AACAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAACAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
* * * *
2112780 AAAAAGTGCCACGGAGTTGCGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGAACTTTGAAAG-G
66 AAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTTTGAAAGAG
2112844 AAGG
131 AAGG
* * * *
2112848 TGCCACGGAGTCGTGGACTTAAAAGG-AACAAG-GTGCCAGGGGGTTGTGGACTTTAAAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAACAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
* * **
2112911 AAAGAGTGCTA-GAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTTAAAAAGA
66 AAAAAGTGCCACG-GAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTTTGAAAG-
*
2112975 ACAAGG
129 AGAAGG
* * * *
2112981 TGCCACGGAGTTGTGGAATTTAAAACGAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G-
1 TGCCACGGAGTTGTGG-ACTTAAAAGGAAACAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGA
* * * * * * * *
2113044 ---AAGGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
65 AAAAAAGTGCCACGGAGTTGTGGGCTTTGAA--AAGAAG-GTGCCACAGAGTCGTGGACTTTGAA
*
2113104 A-CG--GG
127 AGAGAAGG
* *
2113109 TGCCACGGAGTTGTGGACTTAGAAGGTAA-AAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAACAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
* **
2113173 AAAGA-TGCCATAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTTTGAAAAGA
66 AAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTTTG-AAAG-
*
2113237 AAAAGG
129 AGAAGG
*
2113243 TGCCACGGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
2113263 TGATGCCACT
Statistics
Matches: 337, Mismatches: 56, Indels: 41
0.78 0.13 0.09
Matches are distributed among these distances:
126 30 0.09
127 26 0.08
128 25 0.07
130 23 0.07
131 130 0.39
132 4 0.01
133 25 0.07
134 45 0.13
135 6 0.02
136 23 0.07
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.20
Consensus pattern (134 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAACAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
AAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTTTGAAAGAG
AAGG
Found at i:2113140 original size:61 final size:63
Alignment explanation
Indices: 2112978--2113167 Score: 267
Period size: 61 Copynumber: 3.0 Consensus size: 63
2112968 AAAAAGAACA
* * *
2112978 AGGTGCCACGGAGTTGTGGAATTTAAAACGAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AGGTGCCACGGAGTTGTGG-ACTTAGAA-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTGAAAA
2113043 G
63 G
* *
2113044 AAGGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-AAACG
1 -AGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTGAAAAG
* *
2113107 -GGTGCCACGGAGTTGTGGACTTAGAAGGTAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 AGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTGAAAA
2113168 AGGAAAAAGA
Statistics
Matches: 114, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
61 54 0.47
62 3 0.03
63 4 0.04
64 2 0.02
65 27 0.24
66 6 0.05
67 18 0.16
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (63 bp):
AGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTGAAAAG
Found at i:2113198 original size:161 final size:159
Alignment explanation
Indices: 2112905--2113381 Score: 512
Period size: 161 Copynumber: 3.0 Consensus size: 159
2112895 GGACTTTAAA
*
2112905 AAGGAAAAAGAGTGCTA-GAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTTA
1 AAGGAAAAAGAGTGCCACG-GAGTTGTGGGC-TT--AAAG--GGTGCCACAGAGTCGTGGACTT-
* ** * *
2112969 AAAAGAACAAG-GTGCCACGGAGTTGTGGAATTTAAAACGAAAAAAGAGTGCCACGGAGTTGTGG
59 AGAAGAA-AAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGG
*
2113033 GCTTTGAAAAGAAGGTGCCACGAAGTTGTGGACTTAG
123 GCTTTGAAAAGAAGGTGCCACGAAGTCGTGGACTTAG
* *
2113070 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAGG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAA-GGGTGCCACAGAGTCGTGGACTTAGAA-G
**
2113135 TAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA-TGCCATAGAGTTGTGGGCTTT
64 -AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
*
2113199 GAAAAGAAGGTGCCAC-AGAGTCGTGGACTTTG
128 GAAAAGAAGGTGCCACGA-AGTCGTGGACTTAG
* * * * * * *
2113231 AAAAGAAAAAG-GTGCCACGGAGTCGTGGACTT---TGATGCCACTGAGTCGTGGACTTTG-AGA
1 -AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGGGTGCCACAGAGTCGTGGACTTAGAAGA
* ** *
2113291 CAAGA-TGCCACTAAGTTG-GGGAC-TT-AAAAGGAACAAAAAGTGCCACGGAGTTGTGGGCTTT
65 AAAGAGTGCCACGGAGTTGTGGG-CTTTAAAAAGGAA-AAAGAGTGCCACGGAGTTGTGGGCTTT
*
2113352 GAAAAGAAGGTGCCACGGAGTCGTGGACTT
128 GAAAAGAAGGTGCCACGAAGTCGTGGACTT
2113382 TAAGAAGGTA
Statistics
Matches: 274, Mismatches: 27, Indels: 34
0.82 0.08 0.10
Matches are distributed among these distances:
151 8 0.03
152 9 0.03
153 59 0.22
154 5 0.02
155 1 0.00
156 1 0.00
157 20 0.07
160 4 0.01
161 90 0.33
162 46 0.17
163 1 0.00
164 2 0.01
165 27 0.10
166 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (159 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGGGTGCCACAGAGTCGTGGACTTAGAAGAA
AAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
AAGAAGGTGCCACGAAGTCGTGGACTTAG
Found at i:2113206 original size:231 final size:228
Alignment explanation
Indices: 2112692--2113265 Score: 620
Period size: 231 Copynumber: 2.5 Consensus size: 228
2112682 CACCGACTTG
*
2112692 TGTGGGCTTTAAAAAGGGTGAAAGATGCCACGAAGTTGTGGACTTAAAAAGAACAAGGTGCCACG
1 TGTGGGCTTTAAAAA--G-GAAAGATGCCAAG-AGTTGTGGACTTAAAAAGAACAAGGTGCCACG
* *
2112757 GAGTTGTGGGCTTTAAAAGGGAAAAAA-AGTGCCACGGAGTTGCGGGCTTTGAAAAGAAGGTGCC
62 GAGTTGTGGACTTTAAAA--GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCC
* *
2112821 ACGGAGTCGCGAACTTTGAAAGGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCA
125 ACGAAGTCGCGAACTTAGAAAGGAAGGTGCCACGGAGTCGTGGACTT--AA-GAACAAGGTGCCA
* * *
2112886 GGGGGTTGTGGACTTTAAAAAGGAAAAAGAGTGCTAGAGAGT
187 CGGAGTTGTGGACTTTAAAAAGGAAAAAGAGTGCCAGAGAGT
* * *
2112928 TGTGGGCTTTGAAAA-G-AAGGTGCCACAGAGTCGTGGACTTAAAAAGAACAAGGTGCCACGGAG
1 TGTGGGCTTTAAAAAGGAAAGATGCCA-AGAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAG
*
2112991 TTGTGGAATTTAAAACGAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGA
65 TTGTGGACTTTAAAA-GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGA
* * * * * *
2113056 AGTTGTGGACTTAG-AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-A-AAC-GGGTGCCACGG
129 AGTCGCGAACTTAGAAAGG---AAG-GTGCCACGGAGTCGTGGACTTAAGAACAAGGTGCCACGG
* *
2113117 AGTTGTGGAC-TT-AGAAGGTAAAAGAGTGCCACG-GAGT
190 AGTTGTGGACTTTAAAAAGGAAAAAGAGTGCCA-GAGAGT
* * *
2113154 TGTGGGCTTTAAAAAGGAAAAAGATGCCATAGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACA
1 TGTGGGCTTTAAAAAGG--AAAGATGCCA-AGAGTTGTGGAC-TTAAAAAGAACAAGGTGCCACG
* * *
2113216 GAGTCGTGGACTTTGAAAAG-AAAAAG-GTGCCACGGAGTCGTGGACTTTGA
62 GAGTTGTGGACTTT-AAAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
2113266 TGCCACTGAG
Statistics
Matches: 293, Mismatches: 32, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
226 56 0.19
227 10 0.03
228 41 0.14
229 7 0.02
230 29 0.10
231 112 0.38
232 2 0.01
233 3 0.01
234 19 0.06
236 14 0.05
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (228 bp):
TGTGGGCTTTAAAAAGGAAAGATGCCAAGAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGT
TGTGGACTTTAAAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGAAG
TCGCGAACTTAGAAAGGAAGGTGCCACGGAGTCGTGGACTTAAGAACAAGGTGCCACGGAGTTGT
GGACTTTAAAAAGGAAAAAGAGTGCCAGAGAGT
Found at i:2113263 original size:34 final size:34
Alignment explanation
Indices: 2113107--2113265 Score: 164
Period size: 34 Copynumber: 4.7 Consensus size: 34
2113097 GGCTTAAACG
* * *
2113107 GGTGCCACGGAGTTGTGGACTTAG-AAGGTAAAA
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
* *
2113140 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAA
1 G-GTGCCACGGAGTTGTGGACTTTGAAAA-GAAAAA
* ** *
2113176 GATGCCATAGAGTTGTGGGCTTTGAAAAG---AA
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
* *
2113207 GGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
*
2113241 GGTGCCACGGAGTCGTGGACTTTGA
1 GGTGCCACGGAGTTGTGGACTTTGA
2113266 TGCCACTGAG
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
31 27 0.25
33 1 0.01
34 47 0.44
35 25 0.24
36 6 0.06
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.21
Consensus pattern (34 bp):
GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
Found at i:2113276 original size:23 final size:23
Alignment explanation
Indices: 2113243--2113288 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
2113233 AAGAAAAAGG
2113243 TGCCACGGAGTCGTGGACTTTGA
1 TGCCACGGAGTCGTGGACTTTGA
*
2113266 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACGGAGTCGTGGACTTTGA
2113289 GACAAGATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (23 bp):
TGCCACGGAGTCGTGGACTTTGA
Found at i:2114349 original size:14 final size:13
Alignment explanation
Indices: 2114332--2114369 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
2114322 TTTTCCTTCT
2114332 TTTTTTTTTGTTTG
1 TTTTTTTTT-TTTG
2114346 TTTTTTTGTTTTTG
1 TTTTTTT-TTTTTG
2114360 TTTTTTTTTT
1 TTTTTTTTTT
2114370 GTGAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.13
14 18 0.78
15 2 0.09
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:2114357 original size:18 final size:17
Alignment explanation
Indices: 2114331--2114371 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
2114321 TTTTTCCTTC
2114331 TTTTT-TTTTTGTTTGTT
1 TTTTTGTTTTTGTTT-TT
2114348 TTTTTGTTTTTGTTTTT
1 TTTTTGTTTTTGTTTTT
2114365 TTTTTGT
1 TTTTTGT
2114372 GAAGATTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (17 bp):
TTTTTGTTTTTGTTTTT
Found at i:2114435 original size:14 final size:15
Alignment explanation
Indices: 2114411--2114443 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2114401 CTTACTGAGA
*
2114411 TTTTCTGTTTTGTTT
1 TTTTCTGTTTTCTTT
2114426 TTTTCT-TTTTCTTT
1 TTTTCTGTTTTCTTT
2114440 TTTT
1 TTTT
2114444 TGTGTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (15 bp):
TTTTCTGTTTTCTTT
Found at i:2114709 original size:37 final size:38
Alignment explanation
Indices: 2114668--2114750 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 38
2114658 TGTTGTTCCC
2114668 TTTTTGATTTTGCCTTTGGACCTTT-TTTCTGTGTTTA
1 TTTTTGATTTTGCCTTTGGACCTTTGTTTCTGTGTTTA
*** * * *
2114705 TTTTTG-TTTTTTTTTTTGACTTTTGTTTGTGTGTTTA
1 TTTTTGATTTTGCCTTTGGACCTTTGTTTCTGTGTTTA
*
2114742 CTTTTGATT
1 TTTTTGATT
2114751 GTTCCGGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
36 13 0.35
37 22 0.59
38 2 0.05
ACGTcount: A:0.07, C:0.08, G:0.16, T:0.69
Consensus pattern (38 bp):
TTTTTGATTTTGCCTTTGGACCTTTGTTTCTGTGTTTA
Found at i:2114746 original size:18 final size:18
Alignment explanation
Indices: 2114697--2114752 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
2114687 ACCTTTTTTC
* *
2114697 TGTGTTTATTTTTGTTTT
1 TGTGTTTACTTTTGTTTG
* *
2114715 TTTTTTTGACTTTTGTTTG
1 TGTGTTT-ACTTTTGTTTG
*
2114734 TGTGTTTACTTTTGATTG
1 TGTGTTTACTTTTGTTTG
2114752 T
1 T
2114753 TCCGGCATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.07, C:0.04, G:0.18, T:0.71
Consensus pattern (18 bp):
TGTGTTTACTTTTGTTTG
Found at i:2121716 original size:13 final size:13
Alignment explanation
Indices: 2121698--2121722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2121688 CAAAGATTAG
2121698 TGTATCGATACAA
1 TGTATCGATACAA
2121711 TGTATCGATACA
1 TGTATCGATACA
2121723 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2121875 original size:21 final size:21
Alignment explanation
Indices: 2121834--2121875 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2121824 CTTGGGACCT
* *
2121834 TGTATCGATACATTTTAACAA
1 TGTATCAATACATTTGAACAA
*
2121855 TGTATCAATACATTTGGACAA
1 TGTATCAATACATTTGAACAA
2121876 AAATGTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (21 bp):
TGTATCAATACATTTGAACAA
Found at i:2135567 original size:18 final size:18
Alignment explanation
Indices: 2135546--2135593 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
2135536 ATCCTCCACA
* *
2135546 AAAAAAAAAAGAAAGAAG
1 AAAAAAAAAACAAAAAAG
2135564 AAAAAAAAAACAAAAAAG
1 AAAAAAAAAACAAAAAAG
2135582 AAGGAAAAAAAA
1 AA--AAAAAAAA
2135594 AACAACAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 18 0.69
20 8 0.31
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAACAAAAAAG
Found at i:2135596 original size:22 final size:21
Alignment explanation
Indices: 2135545--2135620 Score: 84
Period size: 22 Copynumber: 3.6 Consensus size: 21
2135535 CATCCTCCAC
*
2135545 AAAAAAAAA-AAGAAAGAAGA
1 AAAAAAAAACAAAAAAGAAGA
2135565 AAAAAAAAACAAAAAAGAAGGA
1 AAAAAAAAACAAAAAAGAA-GA
* *
2135587 AAAAAAAAACAACAACA-AACA
1 AAAAAAAAACAA-AAAAGAAGA
2135608 AAAAAAAACACAA
1 AAAAAAAA-ACAA
2135621 CAACAAAAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
20 9 0.18
21 17 0.35
22 20 0.41
23 3 0.06
ACGTcount: A:0.83, C:0.09, G:0.08, T:0.00
Consensus pattern (21 bp):
AAAAAAAAACAAAAAAGAAGA
Found at i:2135600 original size:25 final size:24
Alignment explanation
Indices: 2135550--2135629 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 24
2135540 TCCACAAAAA
2135550 AAAAAAGAAAGAAGAAAAAAAA-AAC
1 AAAAAAG-AAGAA-AAAAAAAACAAC
2135575 AAAAAAGAAGGAAAAAAAAAACAAC
1 AAAAAAGAA-GAAAAAAAAAACAAC
* *
2135600 AACAAACAA-AAAAAAACACAACAAC
1 AAAAAAGAAGAAAAAAA-A-AACAAC
2135625 AAAAA
1 AAAAA
2135630 GGGTCCGGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
23 7 0.15
24 11 0.23
25 30 0.62
ACGTcount: A:0.81, C:0.11, G:0.07, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAGAAAAAAAAAACAAC
Found at i:2135610 original size:19 final size:18
Alignment explanation
Indices: 2135587--2135629 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 18
2135577 AAAAGAAGGA
2135587 AAAAAAAAACAACAACAAAC
1 AAAAAAAAAC-ACAAC-AAC
2135607 AAAAAAAAACACAACAAC
1 AAAAAAAAACACAACAAC
2135625 AAAAA
1 AAAAA
2135630 GGGTCCGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 10 0.43
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACACAACAAC
Found at i:2135621 original size:22 final size:21
Alignment explanation
Indices: 2135564--2135627 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
2135554 AAGAAAGAAG
* *
2135564 AAAAAAAAAACAA-AAAAGAAGG
1 AAAAAAAAAACAACAACA-AA-C
2135586 AAAAAAAAAACAACAACAAAC
1 AAAAAAAAAACAACAACAAAC
2135607 AAAAAAAAACACAACAACAAA
1 AAAAAAAAA-ACAACAACAAA
2135628 AAGGGTCCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.24
22 26 0.68
23 3 0.08
ACGTcount: A:0.81, C:0.14, G:0.05, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAACAACAACAAAC
Found at i:2137106 original size:29 final size:30
Alignment explanation
Indices: 2137068--2137157 Score: 105
Period size: 29 Copynumber: 3.1 Consensus size: 30
2137058 TTCCTCACTC
2137068 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* * * * *
2137098 TTC-AAAGCCCATAAATTAGTGGCAAC--C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
*
2137125 TTCAAAAGCCCACAAGTCCGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
2137155 TTC
1 TTC
2137158 CTTTTAACCC
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
27 3 0.07
28 18 0.39
29 19 0.41
30 6 0.13
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:2137253 original size:35 final size:34
Alignment explanation
Indices: 2137130--2137274 Score: 125
Period size: 33 Copynumber: 4.3 Consensus size: 34
2137120 CAACCTTCAA
* * * *
2137130 AAGCCCACAAGTCCGTGGCA-TCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGACACTCATTTTCTTTTT
* * * *
2137163 AACCCCATAACTCCGTGGCAC-C-CTTTCTTTTTT
1 AAGCCCACAACTCCGTGACACTCATTTTC-TTTTT
* *
2137196 AAGTCCACAACTCCGTGGCACTCATTTTCTTTTGT
1 AAGCCCACAACTCCGTGACACTCATTTTCTTTT-T
* * * *
2137231 AAGCCCACGACTCTGTGACACTCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGACACTCATTTTCTTTTT
2137265 AAGCCCACAA
1 AAGCCCACAA
2137275 GTTAGTGGCA
Statistics
Matches: 91, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
32 4 0.04
33 40 0.44
34 15 0.16
35 32 0.35
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.34
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGACACTCATTTTCTTTTT
Found at i:2137300 original size:30 final size:28
Alignment explanation
Indices: 2137265--2137335 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 28
2137255 TTTTCCTTTT
* *
2137265 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGCGGCAACC--TTCAA
*
2137295 AAGCCCACAAGTCAGCGGCAACCTTCAA
1 AAGCCCACAAGTTAGCGGCAACCTTCAA
*
2137323 AAGCACACAAGTT
1 AAGCCCACAAGTT
2137336 GGTGAAGTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 16 0.44
30 20 0.56
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (28 bp):
AAGCCCACAAGTTAGCGGCAACCTTCAA
Found at i:2137466 original size:91 final size:94
Alignment explanation
Indices: 2137346--2137584 Score: 297
Period size: 91 Copynumber: 2.5 Consensus size: 94
2137336 GGTGAAGTCT
* * * *
2137346 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGTACACTGGCACCTTTAAGTCCAATATTGCTGG
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAACTCCAATATCGCTGG
*
2137411 CCTTGAATCAGCATATTGGC-AC-C-TCA
66 CCTTGAATCAACATATTGGCGACTCGTCA
*
2137437 TCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAACTCCAATAT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAACTCCAATAT
*
2137502 CGCTGGCCTTGAATCAACATATTGGCGCCTTCGTCA
60 CGCTGGCCTTGAATCAACATATTGGCGAC-TCGTCA
* *
2137538 TCTTTCAA-ATCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTT
1 TCTTT-AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
2137585 CATCCTTAAG
Statistics
Matches: 127, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
91 40 0.31
95 4 0.03
97 39 0.31
98 1 0.01
100 1 0.01
101 40 0.31
102 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (94 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAACTCCAATATCGCTGG
CCTTGAATCAACATATTGGCGACTCGTCA
Found at i:2137583 original size:101 final size:97
Alignment explanation
Indices: 2137346--2137618 Score: 317
Period size: 101 Copynumber: 2.8 Consensus size: 97
2137336 GGTGAAGTCT
* * * *
2137346 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGTACACTGGCA----C--CTTTAAGTCCAATAT
1 TCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGTCCAATAT
* *
2137405 TGCTGGCCTTGAATCAGCATATTGGCACCTCA
66 CGCTGGCCTTGAATCAACATATTGGCACCTCA
* *
2137437 TCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAACTCCAATAT
1 TCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGTCCAATAT
*
2137502 CGCTGGCCTTGAATCAACATATTGGCGCCTTCGTCA
66 CGCTGGCCTTGAATCAACATATTGGC-AC--C-TCA
* * * *
2137538 TCTTTCAA-ATCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTCATCCTTAAGTCCAAAA
1 TCTTT-AAGACCAATGTCGCTAGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGTCCAATA
**
2137602 TCATTGGCCTTGAATCA
65 TCGCTGGCCTTGAATCA
2137619 GTGTATTGGC
Statistics
Matches: 156, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
91 40 0.26
95 1 0.01
97 38 0.24
98 1 0.01
100 1 0.01
101 73 0.47
102 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (97 bp):
TCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGTCCAATAT
CGCTGGCCTTGAATCAACATATTGGCACCTCA
Found at i:2137653 original size:101 final size:102
Alignment explanation
Indices: 2137350--2137678 Score: 283
Period size: 101 Copynumber: 3.4 Consensus size: 102
2137340 AAGTCTTCTT
* * * * * **
2137350 TAAGACCAATGTCGCTGGCCTTGAATCAGTACACTGGCA-C--C-T--TTAAGTCCAATATTGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTCATCCTTAACTCCAAAATCACT
* *
2137409 GGCCTTGAATCAGCATATTGGCA-C--CTCATCTT--
66 GGCCTTGAATCAACATATTGGCACCTTCTCAACTTCC
* * * * *
2137441 TAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAACTCCAATATCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTCATCCTTAACTCCAAAATCACT
* * *
2137506 GGCCTTGAATCAACATATTGGCGCCTTCGTCATCTTTC
66 GGCCTTGAATCAACATATTGGCACCTTC-TCAACTTCC
* * *
2137544 -AA-ATCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTCATCCTTAAGTCCAAAATCATT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTCATCCTTAACTCCAAAATCACT
*** *
2137607 GGCCTTGAATCAGTGTATTGGCATCTT-T-AACATTCC
66 GGCCTTGAATCAACATATTGGCACCTTCTCAAC-TTCC
* * **
2137643 TAAGCCCAATGTCGCCGGCCTTGCCTCAGCACATTG
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
2137679 GCATTTTTCT
Statistics
Matches: 196, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
91 36 0.18
92 1 0.01
94 1 0.01
95 1 0.01
97 36 0.18
98 3 0.02
99 4 0.02
100 3 0.02
101 109 0.56
102 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (102 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTCATCCTTAACTCCAAAATCACT
GGCCTTGAATCAACATATTGGCACCTTCTCAACTTCC
Found at i:2137924 original size:48 final size:49
Alignment explanation
Indices: 2137801--2137987 Score: 209
Period size: 48 Copynumber: 3.8 Consensus size: 49
2137791 ATCTTTAAAC
* ** *
2137801 CCAATGTCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTTAGGTTTAAGT-
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-T---CTTAAGTA
*
2137853 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTT-AGTA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTAAGTA
* * **
2137901 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAG-A
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC-TTAAGTA
* *
2137950 CCAATATCGCCGACCTTGAATCAGCATATTGGCACCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
2137988 CGTCATCTTT
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
47 3 0.03
48 39 0.33
49 37 0.31
50 2 0.02
51 1 0.01
52 36 0.31
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (49 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTAAGTA
Found at i:2137977 original size:97 final size:102
Alignment explanation
Indices: 2137786--2138035 Score: 307
Period size: 97 Copynumber: 2.5 Consensus size: 102
2137776 TTTATCCTTT
* ** * *
2137786 TTCTCATCTTTAAACCCAATGTCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTTAGGTTTAA
1 TTCTCATCTTTAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGTCAGCTTTAA
* *
2137851 GTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC
65 GACCAATATCGCGAGCCTTGAATCAGCATATTGGCACC
* * *
2137889 TT-T-GTC-TTAGTA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T-TCATCTTTAA
1 TTCTCATCTTTA-AACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCAGCTTTAA
2137948 GACCAATATCGCCGA-CCTTGAATCAGCATATTGGCACC
65 GACCAATATCG-CGAGCCTTGAATCAGCATATTGGCACC
* *
2137986 TTCGTCATCTTTAAACCCAATGTCGTTGGCCTTTAATCAGCACATTGGCA
1 TTC-TCATCTTTAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
2138036 TTCTTCTCTT
Statistics
Matches: 126, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
97 42 0.33
98 3 0.02
99 1 0.01
100 39 0.31
101 38 0.30
102 1 0.01
103 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (102 bp):
TTCTCATCTTTAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCAGCTTTAAG
ACCAATATCGCGAGCCTTGAATCAGCATATTGGCACC
Found at i:2138049 original size:52 final size:50
Alignment explanation
Indices: 2137390--2138052 Score: 315
Period size: 52 Copynumber: 13.1 Consensus size: 50
2137380 ACACTGGCAC
* * * *
2137390 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC--CTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCTCAT
* *
2137438 CTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCT-TCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCTCAT
** * * * *
2137487 CTTTAACTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTCGTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC-ACTTC-TCAT
* * *
2137539 CTTTCAA-ATCAATGTCGCTGGCCTTGAATCAGCACATTGACACCT-TCAT
1 CTTT-AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCTCAT
* * ** ** ***
2137588 CCTTAAGTCCAAAATCATTGGCCTTGAATCAGTGTATTGGCATCTT-TAACAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCT--CAT
* * * ** *
2137640 -TCCTAAGCCCAATGTCGCCGGCCTTGCCTCAGCACATTGGCA-TT-T-TT
1 CT-TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCTCAT
** * * * * * *
2137687 CTCCAAGTCTAAATGTTGCTGGCCATGAATCAGCACATTGTCATTCTTCACAT
1 CTTTAAGAC-CAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CTTCTCAT
** * * * * * ** * * **
2137740 CTTCGAGCCCAATATTGCTAG--TCGCATATTGGCTCCTTTATC-CTTTTTCTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTG-A-ATCAGC-ACATTGGCAC---TTCTCAT
* * * *
2137793 CTTTAA-ACCCAATGTCGCTGGCCTTGAATCAGCATATTGGTGC-CTTTGTTAG
1 CTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCAC-TTCTCAT
* * * * * *
2137845 GTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTT-T-GT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCTCAT
*
2137894 C-TT-AGTACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TCAT
1 CTTTAAG-ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCTCAT
* * * *
2137942 CTTTAAGACCAATATCGCCGACCTTGAATCAGCATATTGGCACCTTCGTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTC-TCAT
* * *
2137994 CTTTAA-ACCCAATGTCGTTGGCCTTTAATCAGCACATTGGCATTCTTCTCTT
1 CTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CTTCTCAT
2138046 CTTTAAG
1 CTTTAAG
2138053 TCTAATGACA
Statistics
Matches: 458, Mismatches: 115, Indels: 79
0.70 0.18 0.12
Matches are distributed among these distances:
47 11 0.02
48 102 0.22
49 104 0.23
50 17 0.04
51 9 0.02
52 168 0.37
53 42 0.09
54 3 0.01
55 2 0.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (50 bp):
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCTCAT
Found at i:2138802 original size:19 final size:18
Alignment explanation
Indices: 2138777--2138873 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 18
2138767 AATTCAACCA
2138777 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
2138795 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
*
2138811 --TGTATTGATACATAAG
1 TTTGTATCGATACATAAG
2138827 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2138843 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2138859 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2138874 ATGTATCGCT
Statistics
Matches: 62, Mismatches: 4, Indels: 25
0.68 0.04 0.27
Matches are distributed among these distances:
13 20 0.32
15 4 0.06
17 4 0.06
18 1 0.02
19 33 0.53
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2138821 original size:32 final size:32
Alignment explanation
Indices: 2138779--2138881 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
2138769 TTCAACCATT
*
2138779 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2138811 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2138843 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2138875 TGTATCG
1 TGTATCG
2138882 CTATGAAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2138848 original size:13 final size:13
Alignment explanation
Indices: 2138830--2138854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2138820 ACATAAGTGT
2138830 TGTATCGATACAA
1 TGTATCGATACAA
2138843 TGTATCGATACA
1 TGTATCGATACA
2138855 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2139004 original size:52 final size:52
Alignment explanation
Indices: 2138959--2139087 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
2138949 CACTGGTGTT
* *
2138959 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
* *
2139011 TGTATCAATACATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
* *
2139063 TGTATCGATACATGCAAGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2139088 TCATATTTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
Found at i:2142499 original size:27 final size:27
Alignment explanation
Indices: 2142404--2143098 Score: 599
Period size: 27 Copynumber: 25.7 Consensus size: 27
2142394 TTTTTTTTCA
* *
2142404 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
** *
2142431 AAAGTCCACAACTCTATGGCAGCCCTTTTT
1 -AAGTCCACAACTCCGTGGCA-ACC-TTTT
* **
2142461 AAGTCCATAACTCCGTGGCTCCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*
2142488 AAGTCCACAACTCCGTGGCAACCTTCT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*** *
2142515 AAGTCCACAACTCCACAGCAACCTTTA
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
2142542 AAGTCCCCAACACCGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
2142569 AAAGTCCATAACTCCGT-GCAGCCCTTTTT
1 -AAGTCCACAACTCCGTGGCA-ACC-TTTT
* *
2142598 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* * *
2142625 AAGCCCATAACTTCGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*
2142652 AAGTCCACAACTCCGTGGTAACCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* * *
2142679 AACTCCCCAACTCTGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
2142706 AAGTCCACAACTCCATGGCAACCTCTTA
1 AAGTCCACAACTCCGTGGCAACCT-TTT
* *
2142734 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
2142761 AAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
2142788 AAGTCCACAACTCTGGGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
2142815 AAAGTCCACAACTCCGTGG-TATCTTTT
1 -AAGTCCACAACTCCGTGGCAACCTTTT
* * *
2142842 CAAAGTCCACAAATTCGTGGCATCCTTTT
1 --AAGTCCACAACTCCGTGGCAACCTTTT
* * * *
2142871 AAAGTCCACACCACTGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCAACCTTTT
* *
2142899 AAAGTCCACAACTCCATGG-AATCTTTTT
1 -AAGTCCACAACTCCGTGGCAA-CCTTTT
2142927 AAGTCCACAACTCCGTGGC-ACCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* * *
2142953 GAAGTCCACAACTTCGTGGCACTCCTTTA
1 -AAGTCCACAACTCCGTGGCA-ACCTTTT
*
2142982 AAG-CC-C-AC-CAC-T-----CCTTTA
1 AAGTCCACAACTC-CGTGGCAACCTTTT
* * *
2143000 AAGCCCACCACTCCGTGGCAACCTTTC
1 AAGTCCACAACTCCGTGGCAACCTTTT
* ** *
2143027 AAGTCCACAACTCTGTGGCGTCCTCTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* ***
2143054 AAGTCCACAACTCTGTGGTGTCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*
2143081 AAGTCCACAACTTCGTGG
1 AAGTCCACAACTCCGTGG
2143099 TAGCACCCTT
Statistics
Matches: 548, Mismatches: 93, Indels: 53
0.79 0.13 0.08
Matches are distributed among these distances:
18 9 0.02
19 2 0.00
20 1 0.00
21 3 0.01
22 2 0.00
24 1 0.00
25 3 0.01
26 6 0.01
27 326 0.59
28 155 0.28
29 36 0.07
30 4 0.01
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCAACCTTTT
Found at i:2142982 original size:82 final size:81
Alignment explanation
Indices: 2142403--2143112 Score: 518
Period size: 82 Copynumber: 8.7 Consensus size: 81
2142393 ATTTTTTTTC
* ** * **
2142403 AAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCTATGGCAGCCCTTTTTAAGTCCA
1 AAAGTCCACAACTCCGTGG-AATCTTTTTAAGTCCACAACTCCGTGGCA-CCC-TTTTAAGTCCA
* * *
2142468 TAACTCCGTGGCTCCCTTT
63 CAACTTCGTGGCACCCTTT
* * * *** * * *
2142487 TAAGTCCACAACTCCGTGGCAA-CCTTCTAAGTCCACAACTCCACAGCAACCTTTAAAGTCCCCA
1 AAAGTCCACAACTCCGTGG-AATCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
** *
2142551 ACACCGTGGCAACCTTTT
65 ACTTCGTGGC-ACCCTTT
* * ** * * *
2142569 AAAGTCCATAACTCCGTGCAGCCCTTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCATA
1 AAAGTCCACAACTCCGTGGA-ATCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
*
2142634 ACTTCGTGGCAACCTTT
65 ACTTCGTGGCACCCTTT
* * * * * *
2142651 TAAGTCCACAACTCCGTGGTAA-CCTTTTAACTCCCCAACTCTGTGGCAACCTTTTAAGTCCACA
1 AAAGTCCACAACTCCGTGG-AATCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
* * *
2142715 ACTCCATGGCAACCTCTT
65 ACTTCGTGGCACCCT-TT
* * * * *
2142733 AAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAAGTCCACAA
1 AAAGTCCACAACTCCGTGGAATCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* *
2142798 C-TCTGGGGCAACCTTTT
66 CTTC-GTGGC-ACCCTTT
* * * * *
2142815 AAAGTCCACAACTCCGTGGTATCTTTTCAAAGTCCACAAATTCGTGGCATCCTTTTAAAGTCCAC
1 AAAGTCCACAACTCCGTGGAATCTTTT-TAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCAC
2142880 ACCAC-T-GTGGCACCCTTTT
64 A--ACTTCGTGGCACCC-TTT
*
2142899 AAAGTCCACAACTCCATGGAATCTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTGAAGTCCACA
1 AAAGTCCACAACTCCGTGGAATCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACA
2142963 ACTTCGTGGCACTCCTTT
65 ACTTCGTGGCAC-CCTTT
* * * * * * *
2142981 AAAG-CC-C-A--CC----ACTCCTTTAAAGCCCACCACTCCGTGGCAACCTTTCAAGTCCACAA
1 AAAGTCCACAACTCCGTGGAATCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
**
2143037 C-TCTGTGGCGTCCTCTT
66 CTTC-GTGGCACCCT-TT
* ** * *
2143054 -AAGTCCACAACTCTGTGGTGTCCTTTTAAGTCCACAACTTCGTGGTAGCACCCTTTTAA
1 AAAGTCCACAACTCCGTGGAATCTTTTTAAGTCCACAACTCCGT-G--GCACCCTTTTAA
2143113 AGACGACAAG
Statistics
Matches: 503, Mismatches: 92, Indels: 62
0.77 0.14 0.09
Matches are distributed among these distances:
72 8 0.02
73 44 0.09
74 6 0.01
75 1 0.00
77 3 0.01
79 1 0.00
80 3 0.01
81 93 0.18
82 161 0.32
83 110 0.22
84 70 0.14
86 3 0.01
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (81 bp):
AAAGTCCACAACTCCGTGGAATCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
CTTCGTGGCACCCTTT
Found at i:2142995 original size:18 final size:18
Alignment explanation
Indices: 2142972--2143013 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
2142962 AACTTCGTGG
2142972 CACTCCTTTAAAGCCCAC
1 CACTCCTTTAAAGCCCAC
2142990 CACTCCTTTAAAGCCCAC
1 CACTCCTTTAAAGCCCAC
2143008 CACTCC
1 CACTCC
2143014 GTGGCAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.48, G:0.05, T:0.21
Consensus pattern (18 bp):
CACTCCTTTAAAGCCCAC
Found at i:2143095 original size:127 final size:128
Alignment explanation
Indices: 2142868--2143098 Score: 308
Period size: 127 Copynumber: 1.8 Consensus size: 128
2142858 GTGGCATCCT
* * *
2142868 TTTAAAGTCCACACCACTGTGGCACCCTTTTAAAGTCCACAACTCCATGGAATCTTTTTAAGTCC
1 TTTAAAGTCCACACCACTGTGGCAACCTTTTAAAGTCCACAACTCCATGGAATCCTCTTAAGTCC
2142933 ACAACTCCGTGGCACCTTTTGAAGTCCACAACTTCGTGGCACTCCTTTAAAGCCCACCACTCC
66 ACAACTCCGTGGCACCTTTTGAAGTCCACAACTTCGTGGCACTCCTTTAAAGCCCACCACTCC
* ** **
2142996 TTTAAAG-CC-CACCACTCCGTGGCAACC-TTTCAAGTCCACAACTCTGTGGCGTCCTCTTAAGT
1 TTTAAAGTCCACACCACT--GTGGCAACCTTTTAAAGTCCACAACTCCATGGAATCCTCTTAAGT
* **
2143058 CCACAACTCTGTGGTGTCCTTTT-AAGTCCACAACTTCGTGG
64 CCACAACTCCGTGG-CACCTTTTGAAGTCCACAACTTCGTGG
2143099 TAGCACCCTT
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
126 7 0.08
127 61 0.69
128 21 0.24
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (128 bp):
TTTAAAGTCCACACCACTGTGGCAACCTTTTAAAGTCCACAACTCCATGGAATCCTCTTAAGTCC
ACAACTCCGTGGCACCTTTTGAAGTCCACAACTTCGTGGCACTCCTTTAAAGCCCACCACTCC
Found at i:2143151 original size:28 final size:28
Alignment explanation
Indices: 2143118--2143713 Score: 458
Period size: 28 Copynumber: 20.1 Consensus size: 28
2143108 TTTAAAGACG
*
2143118 ACAAGTTAGTGGCATCATTTCAAAGCCC
1 ACAAGTCAGTGGCATCATTTCAAAGCCC
* *
2143146 ACAAGTCAATGGCATCTTTTCAAAGCCC
1 ACAAGTCAGTGGCATCATTTCAAAGCCC
2143174 ACAAGTCAGTGGCATCATTTCAAAGCCCAC
1 ACAAGTCAGTGGCATCATTTCAAAG-CC-C
*
2143204 ACAAGTCAGTGGCAACTCATTTGAAAGCCCAC
1 ACAAGTCAGTGGC-A-TCATTTCAAAG-CC-C
** * *
2143236 ACAAGTTGGTGCCAGCCCATTTCAAAGCCCAC
1 ACAAGTCAGTGGCA--TCATTTCAAAG-CC-C
** * *
2143268 ACAAGTTGGTGGCAACCCATTTCCAAGCCCAC
1 ACAAGTCAGTGGC-A-TCATTTCAAAG-CC-C
*
2143300 ACAAGTCAGTGGCAACTCATTTGAAAGCCCAC
1 ACAAGTCAGTGGC-A-TCATTTCAAAG-CC-C
* *
2143332 ACAAGTCGGTGGCAACCCATTTCAAAGCCC
1 ACAAGTCAGTGGC-A-TCATTTCAAAGCCC
* * *
2143362 ACAGAAGTCGGTGGCAACCCATTTCAAAACCC
1 AC--AAGTCAGTGGC-A-TCATTTCAAAGCCC
* * * *
2143394 ACAAGTCAGTGGCACCGTTCCAGAGCCC
1 ACAAGTCAGTGGCATCATTTCAAAGCCC
* * *
2143422 ATAAGTCAGTGGCACCCTTTCAAAGCCC
1 ACAAGTCAGTGGCATCATTTCAAAGCCC
* * *
2143450 ACGAGTTAGTGGCATACCCTTTCAAAGCCC
1 ACAAGTCAGTGGCAT--CATTTCAAAGCCC
* * *
2143480 ACAAATCAGTGGCACCTTTTCAAAGCCC
1 ACAAGTCAGTGGCATCATTTCAAAGCCC
* *
2143508 ACAAGAT-AGTGGCATCTTTTCAAAGCCT
1 ACAAG-TCAGTGGCATCATTTCAAAGCCC
* *
2143536 AAAAGTCAGTGGCATCCTTTCAAAAGCCC
1 ACAAGTCAGTGGCATCATTTC-AAAGCCC
* *
2143565 ACAAGTCAGTGGCATCTTTTTCGAAGCCC
1 ACAAGTCAGTGGCATC-ATTTCAAAGCCC
*
2143594 ACAAGTCAGTGGCATCCTTTTCAAAGCCC
1 ACAAGTCAGTGGCAT-CATTTCAAAGCCC
* * *
2143623 ACAAGTCAGTGGCGTCCTTTTCAAAGCTC
1 ACAAGTCAGTGGCAT-CATTTCAAAGCCC
* * *
2143652 ACAAGTCGGTGGCACCCTTTCAAAGCCCAC
1 ACAAGTCAGTGGCATCATTTCAAAG-CC-C
*
2143682 ACAAGTCAATGGCAACTC-TTTCAAAGCCC
1 ACAAGTCAGTGGC-A-TCATTTCAAAGCCC
2143711 ACA
1 ACA
2143714 TAAGTCAATG
Statistics
Matches: 489, Mismatches: 60, Indels: 37
0.83 0.10 0.06
Matches are distributed among these distances:
27 1 0.00
28 154 0.31
29 101 0.21
30 70 0.14
31 13 0.03
32 149 0.30
33 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (28 bp):
ACAAGTCAGTGGCATCATTTCAAAGCCC
Found at i:2143231 original size:32 final size:32
Alignment explanation
Indices: 2143118--2143753 Score: 441
Period size: 32 Copynumber: 21.2 Consensus size: 32
2143108 TTTAAAGACG
*
2143118 ACAAGTTAGTGGC-A-TCATTTCAAAG-CC-C
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
* *
2143146 ACAAGTCAATGGC-A-TCTTTTCAAAG-CC-C
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
2143174 ACAAGTCAGTGGC-A-TCATTTCAAAGCCCAC
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
*
2143204 ACAAGTCAGTGGCAACTCATTTGAAAGCCCAC
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
** * * *
2143236 ACAAGTTGGTGCCAGCCCATTTCAAAGCCCAC
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
** * *
2143268 ACAAGTTGGTGGCAACCCATTTCCAAGCCCAC
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
*
2143300 ACAAGTCAGTGGCAACTCATTTGAAAGCCCAC
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
* *
2143332 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
* * * *
2143364 AGAAGTCGGTGGCAACCCATTTCAAA-ACC-C
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
* * *
2143394 ACAAGTCAGTGGC-AC-CGTTCCAGAG-CC-C
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
* *
2143422 ATAAGTCAGTGGC-AC-CCTTTCAAAG-CC-C
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
* * *
2143450 ACGAGTTAGTGGCATAC-CCTTTCAAAGCCCAC
1 ACAAGTCAGTGGCA-ACTCATTTCAAAGCCCAC
*
2143482 A-AA-TCAGTGGC-AC-CTTTTCAAAG-CC-C
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
* *
2143508 ACAAGAT-AGTGGC-A-TCTTTTCAAAGCCTA-
1 ACAAG-TCAGTGGCAACTCATTTCAAAGCCCAC
*
2143537 A-AAGTCAGTGGC-A-TCCTTTCAAAAG-CC-C
1 ACAAGTCAGTGGCAACTCATTTC-AAAGCCCAC
* * *
2143565 ACAAGTCAGTGGCATCT-TTTTCGAAG-CC-C
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
* *
2143594 ACAAGTCAGTGGCATC-CTTTTCAAAG-CC-C
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
** * *
2143623 ACAAGTCAGTGGCGTC-CTTTTCAAAG--CTC
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
* *
2143652 ACAAGTCGGTGGC-AC-CCTTTCAAAGCCCAC
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
*
2143682 ACAAGTCAATGGCAACTC-TTTCAAAGCCCAC
1 ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
* * * * *
2143713 ATAAGTCAATGGCACCTCTTTTTTAAAAGCCCAC
1 ACAAGTCAGTGGCAACTC--ATTTCAAAGCCCAC
*
2143747 GCAAGTC
1 ACAAGTC
2143754 GATGTCAACC
Statistics
Matches: 519, Mismatches: 59, Indels: 54
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.00
27 5 0.01
28 148 0.29
29 93 0.18
30 62 0.12
31 38 0.07
32 154 0.30
34 17 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (32 bp):
ACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
Found at i:2143479 original size:58 final size:57
Alignment explanation
Indices: 2143103--2143733 Score: 514
Period size: 58 Copynumber: 10.6 Consensus size: 57
2143093 TCGTGGTAGC
* * * * * * *
2143103 ACCCTTTTAAAGACGACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAATGGC-
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
2143159 ATCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCAGTGGCA
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCA
* * ** * **
2143218 ACTCATTTGAAAGCCCACACAAGTTGGTGCCAGCCCATTTCAAAGCCCACACAAGTTGGTGGCA
1 AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCA-CCC-TTTCAAAG-CC-CACAAGTCAGTGGCA
* * * *
2143282 ACCCATTTCCAAGCCCACACAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCA
* *
2143346 ACCCATTTCAAAGCCCACAGAAGTCGGTGGCAACCCATTTCAAAACCCACAAGTCAGTGGC-
1 ACCC-TTTCAAAGCCCAC--AAGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
2143407 ACCGTTCCAGAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTTAGTGGCA
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
2143464 TACCCTTTCAAAGCCCACAAATCAGTGGCACCTTTTCAAAGCCCACAAGAT-AGTGGC-
1 -ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG-TCAGTGGCA
* * * * *
2143521 ATCTTTTCAAAGCCTAAAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* ** * * *
2143579 TCTTTTTCGAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCG
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
2143637 TCCTTTTCAAAGCTCACAAGTCGGTGGCACCCTTTCAAAGCCCACACAAGTCAATGGCA
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCA
* *
2143696 ACTCTTTCAAAGCCCACATAAGTCAATGGCACCTCTTT
1 ACCCTTTCAAAGCCCAC--AAGTCAGTGGCACC-CTTT
2143734 TTTAAAAGCC
Statistics
Matches: 473, Mismatches: 76, Indels: 46
0.79 0.13 0.08
Matches are distributed among these distances:
56 85 0.18
57 34 0.07
58 140 0.30
59 33 0.07
60 18 0.04
61 17 0.04
62 32 0.07
63 7 0.01
64 105 0.22
65 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (57 bp):
ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:2143768 original size:34 final size:34
Alignment explanation
Indices: 2143673--2143753 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 34
2143663 GCACCCTTTC
* *
2143673 AAAGCCCACACAAGTCAATGGCAACTC---TTTC
1 AAAGCCCACACAAGTCAATGGCACCTCTTTTTTA
*
2143704 AAAGCCCACATAAGTCAATGGCACCTCTTTTTTA
1 AAAGCCCACACAAGTCAATGGCACCTCTTTTTTA
*
2143738 AAAGCCCACGCAAGTC
1 AAAGCCCACACAAGTC
2143754 GATGTCAACC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 25 0.60
34 17 0.40
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.21
Consensus pattern (34 bp):
AAAGCCCACACAAGTCAATGGCACCTCTTTTTTA
Found at i:2144049 original size:48 final size:46
Alignment explanation
Indices: 2143833--2144154 Score: 421
Period size: 46 Copynumber: 6.9 Consensus size: 46
2143823 TATTGGCACC
* * * *
2143833 TTTATGAGCTCAATGTTGCTAGCCTTGAATCAGCACATTGTCCACC
1 TTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACT
* *
2143879 TTTATTAGGTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACT
1 TTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACT
*
2143925 TTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACC
1 TTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACT
2143971 TTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACT
1 TTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACT
* * *
2144017 TTTCCTTTTGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACT
1 TTT--ATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACT
*
2144065 TTTCCTTTA-CTTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACT
1 TTT--ATTAGC-TCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACT
* * * * **
2144113 TTTCCCTTAGCTCGATGTTGTTGGCCTTGAATTGGCACATTG
1 TTT--ATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTG
2144155 GCACTCCTCT
Statistics
Matches: 253, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 133 0.53
47 1 0.00
48 118 0.47
49 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.36
Consensus pattern (46 bp):
TTTATTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACT
Found at i:2144883 original size:20 final size:20
Alignment explanation
Indices: 2144858--2145037 Score: 135
Period size: 20 Copynumber: 8.4 Consensus size: 20
2144848 CCAGATATAA
2144858 CGATACATTTTTCAATGTAT
1 CGATACATTTTTCAATGTAT
* * *
2144878 CGATACATGTATGAATGTAT
1 CGATACATTTTTCAATGTAT
* * * *
2144898 CGATACCTGTATGAATGTAT
1 CGATACATTTTTCAATGTAT
*
2144918 CGATACATTCTTCAATGTAT
1 CGATACATTTTTCAATGTAT
*
2144938 CAATACATTCTGTCTTTTTACCCAGATGTAT
1 CGATACA-------TTTTT---CA-ATGTAT
2144969 CGATACATTTTTCAATGTAT
1 CGATACATTTTTCAATGTAT
* * *
2144989 CGATACATGTATGAATGTAT
1 CGATACATTTTTCAATGTAT
*
2145009 CGATACATTCTTCAATGTAT
1 CGATACATTTTTCAATGTAT
*
2145029 CGATGCATT
1 CGATACATT
2145038 CTGTCTTTTT
Statistics
Matches: 129, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
20 104 0.81
21 2 0.02
24 5 0.04
27 4 0.03
30 2 0.02
31 12 0.09
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (20 bp):
CGATACATTTTTCAATGTAT
Found at i:2145027 original size:91 final size:91
Alignment explanation
Indices: 2144872--2145087 Score: 360
Period size: 91 Copynumber: 2.4 Consensus size: 91
2144862 ACATTTTTCA
* * *
2144872 ATGTATCGATACATGTATGAATGTATCGATACCTGTATGAATGTATCGATACATTCTTCAATGTA
1 ATGTATCGATACATGTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTA
2144937 TCAATACATTCTGTCTTTTTACCCAG
66 TCAATACATTCTGTCTTTTTACCCAG
*
2144963 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTA
1 ATGTATCGATACATGTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTA
* * *
2145028 TCGATGCATTCTGTCTTTTTTCCCAG
66 TCAATACATTCTGTCTTTTTACCCAG
*
2145054 ATGTATCGATACATGTTTCAATGTATCAATACAT
1 ATGTATCGATACATGTTTCAATGTATCGATACAT
2145088 CTAATTAAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (91 bp):
ATGTATCGATACATGTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTA
TCAATACATTCTGTCTTTTTACCCAG
Found at i:2149573 original size:13 final size:13
Alignment explanation
Indices: 2149551--2149587 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2149541 ATAGTGCCCT
* *
2149551 TGTATTGATACAG
1 TGTATCGATACAA
2149564 TGTATCGATACAA
1 TGTATCGATACAA
2149577 TGTATCGATAC
1 TGTATCGATAC
2149588 TAAGATCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2153106 original size:32 final size:33
Alignment explanation
Indices: 2153065--2153128 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2153055 CTTAACTGTT
* *
2153065 TGTATCGATACA-CACAAGATGTATTGATACAA
1 TGTATCGATACATCACAAAATGTATGGATACAA
*
2153097 TGTATCGATACATCCCAAAATGTATGGATACA
1 TGTATCGATACATCACAAAATGTATGGATACA
2153129 TTGGCTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (33 bp):
TGTATCGATACATCACAAAATGTATGGATACAA
Found at i:2159732 original size:21 final size:21
Alignment explanation
Indices: 2159695--2159739 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
2159685 GCAGCACTCA
*
2159695 CCAGGTCGCGACCGGC-ACCC
1 CCAGGTCGCAACCGGCAACCC
*
2159715 CCAGGTCGCAACTGGGCAACCC
1 CCAGGTCGCAAC-CGGCAACCC
2159737 CCA
1 CCA
2159740 CACTCACAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 3 0.14
22 7 0.33
ACGTcount: A:0.20, C:0.47, G:0.27, T:0.07
Consensus pattern (21 bp):
CCAGGTCGCAACCGGCAACCC
Found at i:2161132 original size:16 final size:16
Alignment explanation
Indices: 2161111--2161142 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2161101 GTGATTAAAA
2161111 GAAATTATTAAATTGC
1 GAAATTATTAAATTGC
*
2161127 GAAATTGTTAAATTGC
1 GAAATTATTAAATTGC
2161143 TTTATTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (16 bp):
GAAATTATTAAATTGC
Found at i:2161773 original size:20 final size:21
Alignment explanation
Indices: 2161748--2161800 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2161738 ATCGATACAT
*
2161748 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
2161768 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
2161789 TGTATCGATACA
1 TGTATCGATACA
2161801 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:2161878 original size:13 final size:13
Alignment explanation
Indices: 2161860--2161885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2161850 TACACACAAG
2161860 ATGTATCGATACA
1 ATGTATCGATACA
2161873 ATGTATCGATACA
1 ATGTATCGATACA
2161886 TCCCAAAATG
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:2161902 original size:33 final size:32
Alignment explanation
Indices: 2161842--2161905 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
2161832 CTTAACTGTT
*
2161842 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
2161874 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
2161906 TTGACTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:2163369 original size:3 final size:3
Alignment explanation
Indices: 2163361--2163398 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
2163351 TGAGTCGACT
**
2163361 TCA TCA TCA TCA TCA TCA TCA TCA TCA TTT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
2163399 TTTGATGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:2165254 original size:19 final size:19
Alignment explanation
Indices: 2165230--2165293 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
2165220 CTTAACTGTT
2165230 TGTATCGATACATACAAGA
1 TGTATCGATACATACAAGA
2165249 TGTATCGATACAT------
1 TGTATCGATACATACAAGA
*
2165262 TATATCGATACATACAAGA
1 TGTATCGATACATACAAGA
2165281 TGTATCGATACAT
1 TGTATCGATACAT
2165294 TGTATCGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 12 0.32
19 25 0.68
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (19 bp):
TGTATCGATACATACAAGA
Found at i:2165273 original size:32 final size:32
Alignment explanation
Indices: 2165232--2165329 Score: 153
Period size: 32 Copynumber: 3.0 Consensus size: 32
2165222 TAACTGTTTG
2165232 TATCGATACATACAAGATGTATCGATACATTA
1 TATCGATACATACAAGATGTATCGATACATTA
*
2165264 TATCGATACATACAAGATGTATCGATACATTG
1 TATCGATACATACAAGATGTATCGATACATTA
2165296 TATCGATACATGACCAA-ATTGTATCGATACATTA
1 TATCGATACAT-A-CAAGA-TGTATCGATACATTA
2165330 GCTTGTAACG
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
32 42 0.69
33 2 0.03
34 17 0.28
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (32 bp):
TATCGATACATACAAGATGTATCGATACATTA
Found at i:2165299 original size:13 final size:13
Alignment explanation
Indices: 2165281--2165306 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2165271 ACATACAAGA
2165281 TGTATCGATACAT
1 TGTATCGATACAT
2165294 TGTATCGATACAT
1 TGTATCGATACAT
2165307 GACCAAATTG
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:2169114 original size:10 final size:10
Alignment explanation
Indices: 2169101--2169130 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2169091 AATATTCTAG
2169101 AATATCTAAA
1 AATATCTAAA
2169111 AATATCT-AA
1 AATATCTAAA
2169120 AATATCTAAA
1 AATATCTAAA
2169130 A
1 A
2169131 TGAAAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (10 bp):
AATATCTAAA
Found at i:2169121 original size:9 final size:9
Alignment explanation
Indices: 2169090--2169131 Score: 57
Period size: 9 Copynumber: 4.4 Consensus size: 9
2169080 TAGAGAAAAT
2169090 AAATATTCTA
1 AAATA-TCTA
*
2169100 GAATATCTAA
1 AAATATCT-A
2169110 AAATATCTA
1 AAATATCTA
2169119 AAATATCTA
1 AAATATCTA
2169128 AAAT
1 AAAT
2169132 GAAAATTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 17 0.59
10 12 0.41
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATATCTA
Found at i:2169123 original size:19 final size:20
Alignment explanation
Indices: 2169090--2169130 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
2169080 TAGAGAAAAT
*
2169090 AAATATTCTAGAATATCTAA
1 AAATATTCTAAAATATCTAA
2169110 AAATA-TCTAAAATATCTAA
1 AAATATTCTAAAATATCTAA
2169129 AA
1 AA
2169131 TGAAAATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATATTCTAAAATATCTAA
Done.