Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold13
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: 2744999
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.26
Warning! 506982 characters in sequence are not A, C, G, or T
File 11 of 15
Found at i:2142764 original size:52 final size:51
Alignment explanation
Indices: 2142657--2142767 Score: 134
Period size: 52 Copynumber: 2.2 Consensus size: 51
2142647 AAAGAAAATG
* *
2142657 TATCGATACATTCTAAGTTTTAGCCCAAATGTATCAATACATTTTTCATTG
1 TATCGATACATTCTAAGTTTTAGCCCAAATGTATCAATACATTTTTCAATA
** * * *
2142708 TATCGATACATTCTGGGTTTTTGACGCAAATGTATCGATACATTCTTT-AATA
1 TATCGATACATTCTAAGTTTTAG-CCCAAATGTATCAATACATT-TTTCAATA
2142760 TATCGATA
1 TATCGATA
2142768 TATGCAGCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 20 0.39
52 28 0.55
53 3 0.06
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.41
Consensus pattern (51 bp):
TATCGATACATTCTAAGTTTTAGCCCAAATGTATCAATACATTTTTCAATA
Found at i:2143720 original size:15 final size:15
Alignment explanation
Indices: 2143700--2143751 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
2143690 TATTTGACAT
2143700 TAAAAAATAAATAAA
1 TAAAAAATAAATAAA
*
2143715 T-AAAAATATA-AAA
1 TAAAAAATAAATAAA
* * *
2143728 TATAAAATGATTAAA
1 TAAAAAATAAATAAA
2143743 TAAAAAATA
1 TAAAAAATA
2143752 TATATACATA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
13 4 0.14
14 13 0.46
15 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
TAAAAAATAAATAAA
Found at i:2143727 original size:7 final size:7
Alignment explanation
Indices: 2143712--2143753 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
2143702 AAAAATAAAT
2143712 AAATA-A
1 AAATATA
2143718 AAATATA
1 AAATATA
2143725 AAATATA
1 AAATATA
*
2143732 AAATGATT
1 AAAT-ATA
*
2143740 AAATAAA
1 AAATATA
2143747 AAATATA
1 AAATATA
2143754 TATACATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (7 bp):
AAATATA
Found at i:2144645 original size:23 final size:23
Alignment explanation
Indices: 2144605--2144682 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
2144595 AAAACCAGTA
* * *
2144605 AGCAACAATTGAAGCAACCAAAAC
1 AGCAGCAATAGAA-CAACCAAAAT
2144629 AGCAGCAATAGAACAACCAAAAT
1 AGCAGCAATAGAACAACCAAAAT
* * *
2144652 AGTAGCAAAATAACAACCAAAAT
1 AGCAGCAATAGAACAACCAAAAT
*
2144675 AGTAGCAA
1 AGCAGCAA
2144683 AACAGCAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 37 0.77
24 11 0.23
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.10
Consensus pattern (23 bp):
AGCAGCAATAGAACAACCAAAAT
Found at i:2144683 original size:23 final size:23
Alignment explanation
Indices: 2144619--2144684 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
2144609 ACAATTGAAG
* * *
2144619 CAACCAAAACAGCAGCAATAGAA
1 CAACCAAAATAGTAGCAAAAGAA
*
2144642 CAACCAAAATAGTAGCAAAATAA
1 CAACCAAAATAGTAGCAAAAGAA
2144665 CAACCAAAATAGTAGCAAAA
1 CAACCAAAATAGTAGCAAAA
2144685 CAGCAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.59, C:0.21, G:0.11, T:0.09
Consensus pattern (23 bp):
CAACCAAAATAGTAGCAAAAGAA
Found at i:2150195 original size:20 final size:20
Alignment explanation
Indices: 2150170--2150258 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 20
2150160 ATTACAAGCT
2150170 ATGTATCGATACATTTCTTC
1 ATGTATCGATACATTTCTTC
2150190 ATGTATCGATACA-------
1 ATGTATCGATACATTTCTTC
*
2150203 ATGTATCGATA-ATTATCGATAC
1 ATGTATCGATACATT-TC--TTC
2150225 AATGTATCGATACATTTCTTC
1 -ATGTATCGATACATTTCTTC
2150246 ATGTATCGATACA
1 ATGTATCGATACA
2150259 ATGTATCGAT
Statistics
Matches: 56, Mismatches: 1, Indels: 24
0.69 0.01 0.30
Matches are distributed among these distances:
12 1 0.02
13 11 0.20
20 26 0.46
21 2 0.04
23 13 0.23
24 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTCTTC
Found at i:2150208 original size:13 final size:13
Alignment explanation
Indices: 2150190--2150276 Score: 93
Period size: 13 Copynumber: 7.4 Consensus size: 13
2150180 ACATTTCTTC
2150190 ATGTATCGATACA
1 ATGTATCGATACA
2150203 ATGTATCGAT--A
1 ATGTATCGATACA
2150214 AT-TATCGATACA
1 ATGTATCGATACA
2150226 ATGTATCGATAC-
1 ATGTATCGATACA
*
2150238 AT-T-TC--TTC-
1 ATGTATCGATACA
2150246 ATGTATCGATACA
1 ATGTATCGATACA
2150259 ATGTATCGATACA
1 ATGTATCGATACA
*
2150272 TTGTA
1 ATGTA
2150277 CCATGTATCG
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
8 4 0.06
9 1 0.02
10 11 0.17
11 4 0.06
12 7 0.11
13 36 0.57
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2150223 original size:23 final size:23
Alignment explanation
Indices: 2150193--2150236 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
2150183 TTTCTTCATG
2150193 TATCGATACAATGTATCGATAAT
1 TATCGATACAATGTATCGATAAT
2150216 TATCGATACAATGTATCGATA
1 TATCGATACAATGTATCGATA
2150237 CATTTCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (23 bp):
TATCGATACAATGTATCGATAAT
Found at i:2150258 original size:33 final size:33
Alignment explanation
Indices: 2150216--2150292 Score: 122
Period size: 33 Copynumber: 2.3 Consensus size: 33
2150206 TATCGATAAT
2150216 TATCGATACAATGTATCGATACATT-T-CTTCATG
1 TATCGATACAATGTATCGATACATTGTAC--CATG
2150249 TATCGATACAATGTATCGATACATTGTACCATG
1 TATCGATACAATGTATCGATACATTGTACCATG
2150282 TATCGATACAA
1 TATCGATACAA
2150293 ATAGTGATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
33 40 0.95
34 1 0.02
35 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (33 bp):
TATCGATACAATGTATCGATACATTGTACCATG
Found at i:2150899 original size:19 final size:18
Alignment explanation
Indices: 2150875--2150952 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 18
2150865 GTTTTTGTTT
2150875 TTCTCCCCTTTAGAAAAAA
1 TTCTCCCCTTTA-AAAAAA
* * *
2150894 TTCTCCCCCTTAAACAAT
1 TTCTCCCCTTTAAAAAAA
2150912 TATCTCCTCCTTTATAAAAAA
1 T-TCTCC-CCTTTA-AAAAAA
2150933 TTTTCTCCCCCTTTAAAAAA
1 --TTCT-CCCCTTTAAAAAA
2150953 TTTATTTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
18 5 0.11
19 16 0.34
20 5 0.11
21 9 0.19
22 9 0.19
23 3 0.06
ACGTcount: A:0.33, C:0.29, G:0.01, T:0.36
Consensus pattern (18 bp):
TTCTCCCCTTTAAAAAAA
Found at i:2150929 original size:22 final size:21
Alignment explanation
Indices: 2150879--2150954 Score: 70
Period size: 22 Copynumber: 3.8 Consensus size: 21
2150869 TTGTTTTTCT
* *
2150879 CCCCTTTAGAAAAAAT-TCTC
1 CCCCTTTATAAAAATTATCTC
*
2150899 CCCC-TTA-AACAATTATCTC
1 CCCCTTTATAAAAATTATCTC
* *
2150918 CTCCTTTATAAAAAATTTTCTC
1 CCCCTTTAT-AAAAATTATCTC
2150940 CCCCTTTA-AAAAATT
1 CCCCTTTATAAAAATT
2150955 TATTTTCACA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.11
19 10 0.22
20 14 0.30
22 17 0.37
ACGTcount: A:0.34, C:0.29, G:0.01, T:0.36
Consensus pattern (21 bp):
CCCCTTTATAAAAATTATCTC
Found at i:2150953 original size:20 final size:20
Alignment explanation
Indices: 2150873--2150955 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
2150863 AAGTTTTTGT
2150873 TTTTCT-CCCCTTTAGAAAAA
1 TTTTCTCCCCCTTTA-AAAAA
* *
2150893 -ATTCTCCCCC-TTAAACAA
1 TTTTCTCCCCCTTTAAAAAA
* *
2150911 TTATCTCCTCCTTTATAAAAAA
1 TTTTCTCC-CCCTT-TAAAAAA
2150933 TTTTCTCCCCCTTTAAAAAA
1 TTTTCTCCCCCTTTAAAAAA
2150953 TTT
1 TTT
2150956 ATTTTCACAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
18 4 0.08
19 12 0.24
20 16 0.32
21 5 0.10
22 13 0.26
ACGTcount: A:0.31, C:0.28, G:0.01, T:0.40
Consensus pattern (20 bp):
TTTTCTCCCCCTTTAAAAAA
Found at i:2152954 original size:17 final size:19
Alignment explanation
Indices: 2152921--2152959 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2152911 CTATAGACCC
2152921 TAATTCATATCAAACAA-A
1 TAATTCATATCAAACAACA
*
2152939 TAATTCA-ATCATACAACA
1 TAATTCATATCAAACAACA
2152957 TAA
1 TAA
2152960 CAAACATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (19 bp):
TAATTCATATCAAACAACA
Found at i:2156127 original size:19 final size:19
Alignment explanation
Indices: 2156083--2156138 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2156073 CTGCCAGTTT
**
2156083 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
2156103 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2156122 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2156139 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2156141 original size:13 final size:13
Alignment explanation
Indices: 2156123--2156149 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2156113 TACAATGAAC
2156123 ATGTATCGATACA
1 ATGTATCGATACA
2156136 ATGTATCGATACA
1 ATGTATCGATACA
2156149 A
1 A
2156150 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2156164 original size:33 final size:32
Alignment explanation
Indices: 2156104--2156168 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
2156094 ACAATTGTCC
*
2156104 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
2156136 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
2156169 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:2158123 original size:21 final size:21
Alignment explanation
Indices: 2158097--2158141 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
2158087 AAACCAAGAT
2158097 AAATTCCATTTTGAAGACTAC
1 AAATTCCATTTTGAAGACTAC
*
2158118 AAATTCTATTTTGAAGACTAC
1 AAATTCCATTTTGAAGACTAC
2158139 AAA
1 AAA
2158142 GACAAAGTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (21 bp):
AAATTCCATTTTGAAGACTAC
Found at i:2158226 original size:21 final size:21
Alignment explanation
Indices: 2158187--2158248 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
2158177 AAAGGAGATG
2158187 AAGAAAGAAGACAA-AAAAAGC
1 AAGAAA-AAGACAAGAAAAAGC
*
2158208 AA-AAAAATGA-AATGAAAAATC
1 AAGAAAAA-GACAA-GAAAAAGC
2158229 AAGAAAAAGACAAGAAAAAG
1 AAGAAAAAGACAAGAAAAAG
2158249 GGGCATATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 18 0.53
22 7 0.21
ACGTcount: A:0.73, C:0.06, G:0.16, T:0.05
Consensus pattern (21 bp):
AAGAAAAAGACAAGAAAAAGC
Found at i:2158236 original size:11 final size:11
Alignment explanation
Indices: 2158187--2158248 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
2158177 AAAGGAGATG
2158187 AAGAAAGAAGAC
1 AAGAAA-AAGAC
2158199 AA-AAAAAG-C
1 AAGAAAAAGAC
2158208 AA-AAAAATGA-
1 AAGAAAAA-GAC
*
2158218 AATGAAAAA-TC
1 AA-GAAAAAGAC
2158229 AAGAAAAAGAC
1 AAGAAAAAGAC
2158240 AAGAAAAAG
1 AAGAAAAAG
2158249 GGGCATATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
9 8 0.19
10 12 0.29
11 15 0.36
12 7 0.17
ACGTcount: A:0.73, C:0.06, G:0.16, T:0.05
Consensus pattern (11 bp):
AAGAAAAAGAC
Found at i:2163112 original size:39 final size:39
Alignment explanation
Indices: 2163069--2163143 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
2163059 AAAAGTGGAC
2163069 CAATGTGCTGATTCAAGGCCAGCGACATTCAGCTAAGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTCAGCTAAGGA
* ** * *
2163108 CAATGTGTTGATTCAAGGTTAGTGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTCAGCTAA
2163144 AAAAAAGTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (39 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTCAGCTAAGGA
Found at i:2163426 original size:57 final size:56
Alignment explanation
Indices: 2163315--2164979 Score: 1051
Period size: 57 Copynumber: 28.3 Consensus size: 56
2163305 AGTGCCACTA
* * *
2163315 ACTTGTGTAGGCTTTGAAAA-GTTGCCACCGACTTGTGTGGGCTTTGAAAAGATGCCATCG
1 ACTTGTG--GGCTTTGAAAAGGATGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCA-CG
* **
2163375 ACTTGTGGGCTTTGAAAAGGATGCCACTGAGTTGTGGATTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC-G
* * *
2163432 ACTTGTGGGCTTTGAAAA-GATGCCACCGACTTGTGGTCTTTGAAAAGGATGCCATTG
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCA-CG
*
2163489 ACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG-AATGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCAC-G
* * * *
2163545 ACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGAGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCA-CG
* * * ** * *
2163603 ACTTATGTGAGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCA
1 AC-T-TGTGGGCTTTGAAA-AGGATGCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCA-CG
* * * * * *
2163667 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTCAAATAAGTTGCCACCG
1 AC-T-TGTGGGCTTTGAAAAG-GATGCCACTGAC-T-TGTGGGCTTT-GAA-AGGATGCCA-CG
* * *
2163731 ACTTGTGTGGGCTTTG-AAATGATGCCACTGACTTATGGGCTTTGAAATGGGTTGCCACCG
1 AC-T-TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCA-CG
* * * * *
2163791 ACTTGTGTGGGATTT-AAAACGGGTTGCCACTAACTTATGTGGGCTTTCAAATGAGTTGCCACCG
1 AC-T-TGTGGGCTTTGAAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAA-G-GATGCCA-CG
* * * * *
2163855 ACTTGTGTGGGCTTTCAAATGAGTTGCCACTGACTTGTGGGCTTTGAAATGGGTTACCACCG
1 AC-T-TGTGGGCTTTGAAAAG-GATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCA-CG
* * * * * * *
2163917 ACTTGTGTGGGCTTTGAAATGGGTTACCACCGACTTGTGTGGGCTTCGAAACGGGTTGCCACTA
1 AC-T-TGTGGGCTTTGAAA-AGGATGCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCAC-G
** * * * * * *
2163981 ACTTCTGTCAGCTTTCAAATAAGTTACCAC-GACTTGCGTGGGCTTTGAAAAGATACCACTG
1 AC-T-TGTGGGCTTTGAAA-AGGATGCCACTGACTT--GTGGGCTTTGAAAGGATGCCAC-G
* * * * **
2164042 ATTTGTGTGGGCTTTCAGAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATACCATTA
1 A-CT-TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCA-CG
* * *
2164102 ACTTGT-GGCTTTGAGAAGGATGCCACTGACTTTTGGGCTTTGAAAGGGTATGCCACTA
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAA-GG-ATGCCAC-G
* * * * *
2164160 ACTTGAGGGCTTTGAAAAGG-TGCCATTGACTTGTGGGCTTTGGAAGGGTGCCACTA
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC-G
* * * *
2164216 ACTTGTGGG-TTTTAAAAGGGA-GCCACTAACTTGTGGGCTTTAAAATGAGTTGCCACCG
1 ACTTGTGGGCTTTGAAAA-GGATGCCACTGACTTGTGGGCTTTGAAA-G-GATGCCA-CG
* * * *
2164274 ACATGTGTGGGCTTTGAAAA-GATACCACCGACCTGTGGGCTTTGAAATGGGTTGCCATCG
1 AC-T-TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCA-CG
* * * * * *
2164334 ATTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
1 A-CT-TGTGGGCTTTGAAA-AGGATGCCACTGAC-T-TGTGGGCTTTGAAA-G-GATGCCA-CG
* ** *
2164398 ACTTGTGTGGGCTTTGAAAA-GATGCTACCCACTTGTCGGCTTTGAAAAGGATGCCACTG
1 AC-T-TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCAC-G
* * * *
2164457 ACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAGGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC-G
* * * * **
2164513 ATTTGTGGGCTTGGAAAAGGATGCCGCTGACTTGTGGACTTTGAAAGGAACCCACTG
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC-G
* * * * *
2164570 ATTTGTGGGCTTTG--AAGGATGCCATTAACTTGTGGGCTTTGAAAGGGTGCCACTA
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC-G
* *
2164625 ACTTATGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGCCTTTGAAACGG-TGCCACTG
1 ACTTGTGGGCTTTGAAAAGGA-TGCCACTGACTTGTGGGCTTTGAAA-GGATGCCAC-G
* * * *
2164682 ACTTGTGGGCTTTG-AAAGGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGACATTG
1 ACTTGTGGGCTTTGAAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCA-CG
* * * * *
2164739 ACTTGTGGGCTTTG-AAAGGGTGCCACTAATTTGTGGGCTTGGAAAAGGATGCCACTA
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCAC-G
* * *
2164796 ATTTGTGGACTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG-AAGGATGCCATTG
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCA-CG
* *
2164851 ACTTGTGGGATTTGAAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTA
1 ACTTGTGGGCTTTGAAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCAC-G
* * * * * * *
2164909 ACTTGTGGGTTTTG-TAAGGGTGCCATTGACTTGTGGGCTTTGAGAGGGTGCCATTG
1 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCA-CG
*
2164965 AC-TGTGGACTTTGAA
1 ACTTGTGGGCTTTGAA
2164980 GAGGTCACAG
Statistics
Matches: 1325, Mismatches: 196, Indels: 172
0.78 0.12 0.10
Matches are distributed among these distances:
55 88 0.07
56 195 0.15
57 376 0.28
58 88 0.07
59 51 0.04
60 131 0.10
61 41 0.03
62 99 0.07
63 28 0.02
64 222 0.17
65 5 0.00
66 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (56 bp):
ACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACG
Found at i:2163462 original size:85 final size:85
Alignment explanation
Indices: 2163307--2164979 Score: 1169
Period size: 85 Copynumber: 18.9 Consensus size: 85
2163297 AAAAAAAAAG
* * * *
2163307 TGCCACTAACTTGTGTAGGCTTTGAAAAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGATGCCA
1 TGCCACTGACTTGTG--GGCTTTGAAAGGATGCCACTGAC-T-TGTGGGCTTTGAAAAGATGCCA
2163372 -TCGACTTGTGGGCTTTGAAAAGGA
62 CT-GACTTGTGGGCTTTGAAAAGGA
* ** *
2163396 TGCCACTGAGTTGTGGATTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACCGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGA
*
2163461 CTTGTGGTCTTTGAAAAGGA
66 CTTGTGGGCTTTGAAAAGGA
* *
2163481 TGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AATGAGTGCCACTG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTG
*
2163545 ACTTGTGGGCTTTG-AAAGGG
65 ACTTGTGGGCTTTGAAAAGGA
* * * * * * *
2163565 TGCCACTGATTTGTGAGCTTTGAAATGGGTTGCCACCGACTTATGTGAGCTTTGAAATGGGTTGC
1 TGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAA--AGATGC
** * *
2163630 CACCAACTTGTGTGGGCTTTGAAATGGGT
60 CACTGAC-T-TGTGGGCTTTGAAA-AGGA
** * * * *
2163659 TGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTCAAATAAGTT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA-G-GATGCCACTGAC-T-TGTGGGCTTT-GAA-AAGAT
* *
2163724 GCCACCGACTTGTGTGGGCTTTG-AAATGA
58 GCCACTGAC-T-TGTGGGCTTTGAAAAGGA
* * * * *
2163753 TGCCACTGACTTATGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGATTT-AAAACGGGTTG
1 TGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAAA---GATG
* * * *
2163817 CCACTAACTTATGTGGGCTTTCAAATGAGT
59 CCACTGAC-T-TGTGGGCTTTGAAAAG-GA
* * * * * *
2163847 TGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACTGACTTGTGGGCTTTGAAATGGGTTAC
1 TGCCACTGAC-T-TGTGGGCTTTGAAA-G-GATGCCACTGACTTGTGGGCTTTGAAA--AGATGC
* * *
2163912 CACCGACTTGTGTGGGCTTTGAAATGGGT
60 CACTGAC-T-TGTGGGCTTTGAAA-AGGA
* * * * * ** * *
2163941 TACCACCGACTTGTGTGGGCTTCGAAACGGGTTGCCACTAACTTCTGTCAGCTTTCAAATAAGTT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTT-GAA-AAGAT
*
2164006 ACCAC-GACTTGCGTGGGCTTTGAAAA-GA
58 GCCACTGACTT--GTGGGCTTTGAAAAGGA
* * * * *
2164034 TACCACTGATTTGTGTGGGCTTTCAGAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATACCA
1 TGCCACTGA-CT-TGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGA-AAAGATGCCA
* * *
2164099 TTAACTTGT-GGCTTTGAGAAGGA
62 CTGACTTGTGGGCTTTGAAAAGGA
* * * * *
2164122 TGCCACTGACTTTTGGGCTTTGAAAGGGTATGCCACTAACTTGAGGGCTTTGAAAAGGTGCCATT
1 TGCCACTGACTTGTGGGCTTTGAAA-GG-ATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACT
* *
2164187 GACTTGTGGGCTTTG-GAAGGG
64 GACTTGTGGGCTTTGAAAAGGA
* * * *
2164208 TGCCACTAACTTGTGGGTTTTAAAAGGGA-GCCACTAACTTGTGGGCTTT-AAAATGAGTTGCCA
1 TGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAA-GA--TGCCA
*
2164271 CCGACATGTGTGGGCTTTGAAAA-GA
62 CTGAC-T-TGTGGGCTTTGAAAAGGA
* * * * * * *
2164296 TACCACCGACCTGTGGGCTTTGAAATGGGTTGCCA-TCGATTTGTGTGGGCTTTGAAATGGGTTG
1 TGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACT-GA-CT-TGTGGGCTTTGAAA--AGATG
* * * *
2164360 CCACCGACTTGTGTGGGCTTTCAAATGAGT
59 CCACTGAC-T-TGTGGGCTTTGAAAAG-GA
* * * ** *
2164390 TGCCACCGACTTGTGTGGGCTTTGAAAAGATGCTACCCACTTGTCGGCTTTGAAAAGGATGCCAC
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCAC
*
2164455 TGACTTGTGGGCTTTG-AAAGGG
63 TGACTTGTGGGCTTTGAAAAGGA
* * * * * *
2164477 TGCCACTAACTTGTGGGCTTTGAAGGGGTGCCACTGATTTGTGGGCTTGGAAAAGGATGCCGCTG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTG
*
2164542 ACTTGTGGACTTTG-AAAGGA
65 ACTTGTGGGCTTTGAAAAGGA
** * * * * * *
2164562 ACCCACTGATTTGTGGGCTTTG-AAGGATGCCATTAACTTGTGGGCTTTGAAAGGGTGCCACTAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGA
*
2164626 CTTATGGGCTTTGAAAA-GA
66 CTTGTGGGCTTTGAAAAGGA
* *
2164645 GTGCCACTGACTTGTGGCCTTTGAAACGG-TGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
1 -TGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCAC
* *
2164709 TAACTTGTGGGCTTTG-AAAGGG
63 TGACTTGTGGGCTTTGAAAAGGA
* * * * * * *
2164731 TGACATTGACTTGTGGGCTTTGAAAGGGTGCCACTAATTTGTGGGCTTGGAAAAGGATGCCACTA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTG
* *
2164796 ATTTGTGGACTTTG-AAAGGA
65 ACTTGTGGGCTTTGAAAAGGA
* *
2164816 TGCCACTGACTTGTGGGCTTTG-AAGGATGCCATTGACTTGTGGGATTTGAAAAGAGTGCCACTG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTG
2164880 ACTTGTGGGCTTTG-AAAGGA
65 ACTTGTGGGCTTTGAAAAGGA
* * * * * * * * *
2164900 GTGCCACTAACTTGTGGGTTTTGTAAGGGTGCCATTGACTTGTGGGCTTTGAGAGGGTGCCATTG
1 -TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTG
*
2164965 AC-TGTGGACTTTGAA
65 ACTTGTGGGCTTTGAA
2164980 GAGGTCACAG
Statistics
Matches: 1294, Mismatches: 212, Indels: 160
0.78 0.13 0.10
Matches are distributed among these distances:
83 27 0.02
84 158 0.12
85 341 0.26
86 131 0.10
87 69 0.05
88 56 0.04
89 41 0.03
90 29 0.02
91 14 0.01
92 129 0.10
93 32 0.02
94 118 0.09
95 29 0.02
96 114 0.09
97 4 0.00
98 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (85 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGA
CTTGTGGGCTTTGAAAAGGA
Found at i:2163616 original size:32 final size:32
Alignment explanation
Indices: 2163315--2164529 Score: 743
Period size: 32 Copynumber: 40.6 Consensus size: 32
2163305 AGTGCCACTA
* *
2163315 ACTTGTGTAGGCTTTGAAA--AGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * *
2163345 ACTTGTGTGGGCTTTGAAA--AGATGCCATCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * *
2163375 AC-T-TGTGGGCTTTGAAA-AGGATGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* ** * *
2163404 A-GT-TGTGGATTTTGAAA--GGATGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
2163432 AC-T-TGTGGGCTTTGAAA--AGATGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * **
2163460 AC-T-TGTGGTCTTTGAAA-AGGATGCCATTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
2163489 AC-T-TGTGGGCTTTGAAA--GGATGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
2163517 AC-T-TGTGGGCTTTG-AATGAG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
2163545 AC-T-TGTGGGCTTTGAAA-GGG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
2163573 A-TT-TGTGAGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * *
2163603 ACTTATGTGAGCTTTGAAATGGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
2163635 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
2163667 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* **
2163699 ACTTGTGTGGGCTTTCAAATAAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
2163731 ACTTGTGTGGGCTTTGAAAT--GATGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
2163761 AC-T-TATGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * **
2163791 ACTTGTGTGGGATTTAAAACGGGTTGCCACTA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * *
2163823 ACTTATGTGGGCTTTCAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * *
2163855 ACTTGTGTGGGCTTTCAAATGAGTTGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
2163887 AC-T-TGTGGGCTTTGAAATGGGTTACCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
2163917 ACTTGTGTGGGCTTTGAAATGGGTTACCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * **
2163949 ACTTGTGTGGGCTTCGAAACGGGTTGCCACTA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* ** * ** *
2163981 ACTTCTGTCAGCTTTCAAATAAGTTACCA-CG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * * *
2164012 ACTTGCGTGGGCTTTGAAA--AGATACCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * *
2164042 ATTTGTGTGGGCTTTCAGAA--GGATGCCACTG
1 ACTTGTGTGGGCTTTGA-AATGGGTTGCCACCG
* * ***
2164073 AC-T-TGTGGGCTTTGAGAA--GGATACCATTA
1 ACTTGTGTGGGCTTTGA-AATGGGTTGCCACCG
* *
2164102 AC-T-TGT-GGCTTTGAGAA--GGATGCCACTG
1 ACTTGTGTGGGCTTTGA-AATGGGTTGCCACCG
**
2164130 ACTT-T-TGGGCTTTGAAA-GGGTATGCCACTA
1 ACTTGTGTGGGCTTTGAAATGGGT-TGCCACCG
* * **
2164160 AC-T-TGAGGGCTTTGAAA-AGG-TGCCATTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* **
2164188 AC-T-TGTGGGCTTTGGAA-GGG-TGCCACTA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * **
2164216 AC-T-TGTGGG-TTTTAAAAGGG-AGCCACTA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
2164244 AC-T-TGTGGGCTTTAAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * *
2164274 ACATGTGTGGGCTTTGAAA--AGATACCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
2164304 AC--CTGTGGGCTTTGAAATGGGTTGCCATCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
2164334 ATTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
2164366 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * *
2164398 ACTTGTGTGGGCTTTGAAA--AGATGCTACCC
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * *
2164428 AC-T-TGTCGGCTTTGAAA-AGGATGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
**
2164457 AC-T-TGTGGGCTTTGAAA-GGG-TGCCACTA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
2164485 AC-T-TGTGGGCTTTG-AA-GGGGTGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
2164513 A-TT-TGTGGGCTTGGAAA
1 ACTTGTGTGGGCTTTGAAA
2164530 AGGATGCCGC
Statistics
Matches: 1009, Mismatches: 138, Indels: 77
0.82 0.11 0.06
Matches are distributed among these distances:
27 12 0.01
28 297 0.29
29 139 0.14
30 156 0.15
31 32 0.03
32 373 0.37
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
Found at i:2164983 original size:28 final size:28
Alignment explanation
Indices: 2163306--2164979 Score: 1238
Period size: 28 Copynumber: 56.9 Consensus size: 28
2163296 TAAAAAAAAA
* *
2163306 GTGCCACTAACTTGTGTAGGCTTTGAAAAG
1 GTGCCACTGACTTGTG--GGCTTTGAAAGG
* * *
2163336 TTGCCACCGACTTGTGTGGGCTTTGAAAAG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGG
*
2163366 ATGCCA-TCGACTTGTGGGCTTTGAAAAGG
1 GTGCCACT-GACTTGTGGGCTTTG-AAAGG
* * **
2163395 ATGCCACTGAGTTGTGGATTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
2163423 ATGCCACTGACTTGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2163451 ATGCCACCGACTTGTGGTCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* *
2163480 ATGCCATTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2163508 ATGCCACTGACTTGTGGGCTTTGAATGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
2163536 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
2163564 GTGCCACTGATTTGTGAGCTTTGAAATGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GG
* *
2163593 GTTGCCACCGACTTATGTGAGCTTTGAAATGG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-GG
**
2163625 GTTGCCACCAACTTGTGTGGGCTTTGAAATGG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-GG
**
2163657 GTTGCCACCAACTTGTGTGGGCTTTGAAATGAG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-G-G
* * * *
2163690 TTGCCACCGACTTGTGTGGGCTTTCAAATAAG
1 GTGCCACTGAC-T-TGTGGGCTTT-GAA-AGG
* * *
2163722 TTGCCACCGACTTGTGTGGGCTTTGAAATG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGG
* *
2163752 ATGCCACTGACTTATGGGCTTTGAAATGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GG
* * *
2163781 GTTGCCACCGACTTGTGTGGGATTTAAAACGG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-GG
* *
2163813 GTTGCCACTAACTTATGTGGGCTTTCAAATGAG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-G-G
* * *
2163846 TTGCCACCGACTTGTGTGGGCTTTCAAATGAG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAA-G-G
*
2163878 TTGCCACTGACTTGTGGGCTTTGAAATGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GG
* *
2163907 GTTACCACCGACTTGTGTGGGCTTTGAAATGG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-GG
* * *
2163939 GTTACCACCGACTTGTGTGGGCTTCGAAACGG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-GG
* ** * *
2163971 GTTGCCACTAACTTCTGTCAGCTTTCAAATAAG
1 G-TGCCACTGAC-T-TGTGGGCTTT-GAA-AGG
* * *
2164004 TTACCAC-GACTTGCGTGGGCTTTGAAAAG
1 GTGCCACTGACTT--GTGGGCTTTGAAAGG
* * * *
2164033 ATACCACTGATTTGTGTGGGCTTTCAGAAGG
1 GTGCCACTGA-CT-TGTGGGCTTTGA-AAGG
*
2164064 ATGCCACTGACTTGTGGGCTTTGAGAAGG
1 GTGCCACTGACTTGTGGGCTTTGA-AAGG
* * * *
2164093 ATACCATTAACTTGT-GGCTTTGAGAAGG
1 GTGCCACTGACTTGTGGGCTTTGA-AAGG
* *
2164121 ATGCCACTGACTTTTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2164149 GTATGCCACTAACTTGAGGGCTTTGAAAAG
1 G--TGCCACTGACTTGTGGGCTTTGAAAGG
* *
2164179 GTGCCATTGACTTGTGGGCTTTGGAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2164207 GTGCCACTAACTTGTGGGTTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2164235 GAGCCACTAACTTGTGGGCTTTAAAATGAG
1 GTGCCACTGACTTGTGGGCTTTGAAA-G-G
* * *
2164265 TTGCCACCGACATGTGTGGGCTTTGAAAAG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGG
* * * *
2164295 ATACCACCGACCTGTGGGCTTTGAAATGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GG
*
2164324 GTTGCCA-TCGATTTGTGTGGGCTTTGAAATGG
1 G-TGCCACT-GA-CT-TGTGGGCTTTGAAA-GG
* *
2164356 GTTGCCACCGACTTGTGTGGGCTTTCAAATGAG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-G-G
* * *
2164389 TTGCCACCGACTTGTGTGGGCTTTGAAAAG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGG
* * ** *
2164419 ATGCTACCCACTTGTCGGCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
*
2164448 ATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
2164476 GTGCCACTAACTTGTGGGCTTTGAAGGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
2164504 GTGCCACTGATTTGTGGGCTTGGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* * *
2164533 ATGCCGCTGACTTGTGGACTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*** *
2164561 AACCCACTGATTTGTGGGCTTTG-AAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2164588 ATGCCATTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2164616 GTGCCACTAACTTATGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* *
2164645 GTGCCACTGACTTGTGGCCTTTGAAACG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
2164673 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
2164701 AGTGCCACTAACTTGTGGGCTTTGAAAGG
1 -GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
2164730 GTGACATTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2164758 GTGCCACTAATTTGTGGGCTTGGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* * * *
2164787 ATGCCACTAATTTGTGGACTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
2164815 ATGCCACTGACTTGTGGGCTTTG-AAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
2164842 ATGCCATTGACTTGTGGGATTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
2164871 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2164899 AGTGCCACTAACTTGTGGGTTTTGTAAGG
1 -GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
2164928 GTGCCATTGACTTGTGGGCTTTGAGAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
2164956 GTGCCATTGAC-TGTGGACTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
2164980 GAGGTCACAG
Statistics
Matches: 1385, Mismatches: 206, Indels: 109
0.81 0.12 0.06
Matches are distributed among these distances:
27 58 0.04
28 506 0.37
29 271 0.20
30 153 0.11
31 30 0.02
32 357 0.26
33 8 0.01
34 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:2170358 original size:13 final size:13
Alignment explanation
Indices: 2170340--2170365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2170330 TACACCAAGT
2170340 ATGTATCGATACA
1 ATGTATCGATACA
2170353 ATGTATCGATACA
1 ATGTATCGATACA
2170366 CAAAAAAATT
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:2176707 original size:20 final size:20
Alignment explanation
Indices: 2176664--2176709 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2176654 AAATCTTTTG
2176664 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2176685 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2176705 CAAAA
1 CAAAA
2176710 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2179138 original size:13 final size:13
Alignment explanation
Indices: 2179120--2179145 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2179110 TACACCAAGT
2179120 ATGTATCGATACA
1 ATGTATCGATACA
2179133 ATGTATCGATACA
1 ATGTATCGATACA
2179146 CAAAAAAATT
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:2182553 original size:20 final size:20
Alignment explanation
Indices: 2182528--2182578 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2182518 AGACAGAATG
* *
2182528 TATCGATACATTCATACATA
1 TATCGATACATTCAAAAATA
* *
2182548 TATCGATACATTGAAAAATG
1 TATCGATACATTCAAAAATA
2182568 TATCGATACAT
1 TATCGATACAT
2182579 CTAGGTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (20 bp):
TATCGATACATTCAAAAATA
Found at i:2183000 original size:43 final size:44
Alignment explanation
Indices: 2182837--2183041 Score: 125
Period size: 44 Copynumber: 4.7 Consensus size: 44
2182827 TAAACTTTTT
* ** * * * *
2182837 TCATTTCAATCTGATGTATGGTTACCACCCTAGTTAGATTCTTC
1 TCATTTTAATCTGACATATGGTTACCACCTTGGTCAAATTCTTC
* * * * *
2182881 TCATTTTGATTTGACGTATGGTTACCACATTGGTCAAATCCCTT-
1 TCATTTTAATCTGACATATGGTTACCACCTTGGTCAAAT-TCTTC
* ** **
2182925 TCCTCGT--T-TGACTATATTGGTGTTAGGACCTT-GTCAAACTT-TTC
1 TCATTTTAATCTGAC-ATA-T-G-GTTACCACCTTGGTCAAA-TTCTTC
*
2182969 TCATTTTAATCTGACGTATGGTTACCACCTTGGTCAAATTCTTC
1 TCATTTTAATCTGACATATGGTTACCACCTTGGTCAAATTCTTC
* * *
2183013 TTATTTTGATTTGACATATGGTTACCACC
1 TCATTTTAATCTGACATATGGTTACCACC
2183042 CAGTCAAATC
Statistics
Matches: 121, Mismatches: 28, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
41 4 0.03
42 3 0.02
43 14 0.12
44 80 0.66
45 13 0.11
46 3 0.02
47 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (44 bp):
TCATTTTAATCTGACATATGGTTACCACCTTGGTCAAATTCTTC
Found at i:2183035 original size:132 final size:132
Alignment explanation
Indices: 2182798--2183084 Score: 389
Period size: 132 Copynumber: 2.2 Consensus size: 132
2182788 TTCCACCCTT
* * * *
2182798 GTTTGAATGTATTGGTGTTAGGA-CTTGGTTAAACTTTTTTCATTTCAATCTGATGTATGGTTAC
1 GTTTGACTGTATTGGTGTTAGGACCTTGGTCAAACTTTTCTCATTTCAATCTGACGTATGGTTAC
* * * ***
2182862 CACCCTAGTTAGATTCTTCTCATTTTGATTTGACGTATGGTTACCACATTGGTCAAATCCCTTTC
66 CACCCTAGTCAAATTCTTCTCATTTTGATTTGACATATGGTTACCAC-CCAGTCAAATCCCTTTC
2182927 CTC
130 CTC
* *
2182930 GTTTGACTATATTGGTGTTAGGACCTT-GTCAAACTTTTCTCATTTTAATCTGACGTATGGTTAC
1 GTTTGACTGTATTGGTGTTAGGACCTTGGTCAAACTTTTCTCATTTCAATCTGACGTATGGTTAC
* * * *
2182994 CACCTTGGTCAAATTCTTCTTATTTTGATTTGACATATGGTTACCACCCAGTCAAATCCCTTTCT
66 CACCCTAGTCAAATTCTTCTCATTTTGATTTGACATATGGTTACCACCCAGTCAAATCCCTTTCC
2183059 TC
131 TC
**
2183061 GTTTGACTGTATTGGCATTAGGAC
1 GTTTGACTGTATTGGTGTTAGGAC
2183085 TTAGCCAAAC
Statistics
Matches: 135, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
131 37 0.27
132 95 0.70
133 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (132 bp):
GTTTGACTGTATTGGTGTTAGGACCTTGGTCAAACTTTTCTCATTTCAATCTGACGTATGGTTAC
CACCCTAGTCAAATTCTTCTCATTTTGATTTGACATATGGTTACCACCCAGTCAAATCCCTTTCC
TC
Found at i:2183181 original size:44 final size:44
Alignment explanation
Indices: 2183131--2183757 Score: 414
Period size: 44 Copynumber: 14.2 Consensus size: 44
2183121 GGCATTAGGA
* *
2183131 CCTGGTCAAACTTTTCTCATTTCAGTCTGACATATGGTTACCAC
1 CCTGGTCAAACTTTTCTCATTTCTGTTTGACATATGGTTACCAC
** **
2183175 CCTGGTCAGATTTTTTCTCATTT-TGATTTGATGTATGGTTACCAC
1 CCTGGTCA-AACTTTTCTCATTTCTG-TTTGACATATGGTTACCAC
*
2183220 CCTGGTCAAATCTCTTTC-C-TTTCTG-TTGACGTATGGTTACCAC
1 CCTGGTCAAA-CT-TTTCTCATTTCTGTTTGACATATGGTTACCAC
* * * * *
2183263 CTTGGTTAAACTTTTCTCATTT-TAGTCTCACATATGGTTACCAT
1 CCTGGTCAAACTTTTCTCATTTCT-GTTTGACATATGGTTACCAC
* ** *
2183307 TCTATTCAGA-TTCTTCTCATTT-TGATTTGACATATGGTTACCAC
1 CCTGGTCAAACTT-TTCTCATTTCTG-TTTGACATATGGTTACCAC
* * * * *
2183351 CCTAGTTAAATCCTTTTGT--TTTCTATTTGACGTATGGTTACCAC
1 CCTGGTCAAA--CTTTTCTCATTTCTGTTTGACATATGGTTACCAC
* ** * * *
2183395 CCTGGTTAAACTTTTCTCATTTCAATCTGACATTTAGTTACCAC
1 CCTGGTCAAACTTTTCTCATTTCTGTTTGACATATGGTTACCAC
* * * * * *
2183439 TCTAGTTAGA-TTCTTCTCATTT-TGAGTTGGCATATGGTTACCAC
1 CCTGGTCAAACTT-TTCTCATTTCTG-TTTGACATATGGTTACCAC
* *
2183483 CCTGGTCAAATCCTTTTC-C-TTTCTGTTTGACGTACGGTTACCAC
1 CCTGGTCAAA--CTTTTCTCATTTCTGTTTGACATATGGTTACCAC
* * *
2183527 CTTGGTCAAACTTTTCTCATTTCTGTCTGACATGTGGTTACCAC
1 CCTGGTCAAACTTTTCTCATTTCTGTTTGACATATGGTTACCAC
* * * ** *
2183571 CCTAGTTAGA-TTCTTCTCATTT-TGATTTGATGTATGGTTACTAC
1 CCTGGTCAAACTT-TTCTCATTTCTG-TTTGACATATGGTTACCAC
* * * *
2183615 CCTAGTCAAATCTTTTTTC-TTTCTGTTTGACGTATGGTGACCAC
1 CCTGGTCAAA-CTTTTCTCATTTCTGTTTGACATATGGTTACCAC
* * *
2183659 CCTGGTAAAATCCTTTTC-C-TTTCTGTTT-AGCGTATAGTTACCAC
1 CCTGGTCAAA--CTTTTCTCATTTCTGTTTGA-CATATGGTTACCAC
** ** *
2183703 CCTGGTCAAATCCCCTTCT--TTTCCATTTGACATATAGTTACCAC
1 CCTGGTCAAA--CTTTTCTCATTTCTGTTTGACATATGGTTACCAC
2183747 CCTGGTCAAAC
1 CCTGGTCAAAC
2183758 CCTTCAACTA
Statistics
Matches: 461, Mismatches: 88, Indels: 70
0.74 0.14 0.11
Matches are distributed among these distances:
41 4 0.01
42 17 0.04
43 40 0.09
44 328 0.71
45 56 0.12
46 12 0.03
47 4 0.01
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (44 bp):
CCTGGTCAAACTTTTCTCATTTCTGTTTGACATATGGTTACCAC
Found at i:2183300 original size:132 final size:132
Alignment explanation
Indices: 2183131--2183664 Score: 712
Period size: 132 Copynumber: 4.0 Consensus size: 132
2183121 GGCATTAGGA
* *
2183131 CCTGGTCAAACTTTTCTCATTTCAGTCTGACATATGGTTACCACCCTGGTCAGATTTTTTCTCAT
1 CCTGGTCAAACTTTTCTCATTTCAGTCTGACATATGGTTACCACCCTAGTCAGA-TTCTTCTCAT
** *
2183196 TTTGATTTGATGTATGGTTACCACCCTGGTCAAAT-CTCTTTCCTTTCTG-TTGACGTATGGTTA
65 TTTGATTTGACATATGGTTACCACCCTAGTCAAATCCT-TTTCCTTTCTGTTTGACGTATGGTTA
2183259 CCAC
129 CCAC
* * * * ** *
2183263 CTTGGTTAAACTTTTCTCATTTTAGTCTCACATATGGTTACCATTCTATTCAGATTCTTCTCATT
1 CCTGGTCAAACTTTTCTCATTTCAGTCTGACATATGGTTACCACCCTAGTCAGATTCTTCTCATT
* ** *
2183328 TTGATTTGACATATGGTTACCACCCTAGTTAAATCCTTTTGTTTTCTATTTGACGTATGGTTACC
66 TTGATTTGACATATGGTTACCACCCTAGTCAAATCCTTTTCCTTTCTGTTTGACGTATGGTTACC
2183393 AC
131 AC
* * * * * *
2183395 CCTGGTTAAACTTTTCTCATTTCAATCTGACATTTAGTTACCACTCTAGTTAGATTCTTCTCATT
1 CCTGGTCAAACTTTTCTCATTTCAGTCTGACATATGGTTACCACCCTAGTCAGATTCTTCTCATT
* * * *
2183460 TTGAGTTGGCATATGGTTACCACCCTGGTCAAATCCTTTTCCTTTCTGTTTGACGTACGGTTACC
66 TTGATTTGACATATGGTTACCACCCTAGTCAAATCCTTTTCCTTTCTGTTTGACGTATGGTTACC
2183525 AC
131 AC
* * * *
2183527 CTTGGTCAAACTTTTCTCATTTCTGTCTGACATGTGGTTACCACCCTAGTTAGATTCTTCTCATT
1 CCTGGTCAAACTTTTCTCATTTCAGTCTGACATATGGTTACCACCCTAGTCAGATTCTTCTCATT
** * * * *
2183592 TTGATTTGATGTATGGTTACTACCCTAGTCAAATCTTTTTTCTTTCTGTTTGACGTATGGTGACC
66 TTGATTTGACATATGGTTACCACCCTAGTCAAATCCTTTTCCTTTCTGTTTGACGTATGGTTACC
2183657 AC
131 AC
2183659 CCTGGT
1 CCTGGT
2183665 AAAATCCTTT
Statistics
Matches: 349, Mismatches: 51, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
131 48 0.14
132 301 0.86
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.43
Consensus pattern (132 bp):
CCTGGTCAAACTTTTCTCATTTCAGTCTGACATATGGTTACCACCCTAGTCAGATTCTTCTCATT
TTGATTTGACATATGGTTACCACCCTAGTCAAATCCTTTTCCTTTCTGTTTGACGTATGGTTACC
AC
Found at i:2183349 original size:310 final size:310
Alignment explanation
Indices: 2182787--2183363 Score: 763
Period size: 310 Copynumber: 1.9 Consensus size: 310
2182777 TGGTCAAATT
** * ** * * * *
2182787 TTTCCACCCTTGTTTGAATGTATTGGTGTTAGGACTTGGTTAAACTTTTTTCATTTCAATCTGAT
1 TTTCCACCCTCATTTGAATATATTGGCATTAGGACCTGGTCAAACTTTTCTCATTTCAATCTGAC
* * *
2182852 GTATGGTTACCACCCTAGTTAGATTCTTCTCATTTTGATTTGACGTATGGTTACCACATTGGTCA
66 ATATGGTTACCACCCTAGTCAGATTCTTCTCATTTTGATTTGACGTATGGTTACCACACTGGTCA
** *
2182917 AATCCCTTTCCTCGTTTGACTATATTGGTGTTAGGACCTTGTCAAACTTTTCTCATTTTAATCTG
131 AATCCCTTTCCTCGTTTGACTATATTGGTGTTACCACCTTGTCAAACTTTTCTCATTTTAATCTC
* *
2182982 ACGTATGGTTACCACCTTGGTCAAATTCTTCTTATTTTGATTTGACATATGGTTACCACCC-AGT
196 ACATATGGTTACCACCTT-GTCAAATTCTTCTCATTTTGATTTGACATATGGTTACCACCCTAGT
2183046 CAAATCCCTTTCTTCGTTTGACTGTATTGGCATTAGGACTTAGCCAAACTC
260 CAAATCCCTTTCTTCGTTTGACTGTATTGGCATTAGGACTTAGCCAAACTC
* *
2183097 TTTCCACCCTCATTTGACTATATTGGCATTAGGACCTGGTCAAACTTTTCTCATTTCAGTCTGAC
1 TTTCCACCCTCATTTGAATATATTGGCATTAGGACCTGGTCAAACTTTTCTCATTTCAATCTGAC
* * * *
2183162 ATATGGTTACCACCCTGGTCAGATTTTTTCTCATTTTGATTTGATGTATGGTTACCACCCTGGTC
66 ATATGGTTACCACCCTAGTCAGA-TTCTTCTCATTTTGATTTGACGTATGGTTACCACACTGGTC
* * *
2183227 AAATCTCTTTCCTTTC-TGTTGAC-GTA-T-G-GTTACCACCTTGGTTAAACTTTTCTCATTTTA
130 AAATCCCTTTCC--TCGT-TTGACTATATTGGTGTTACCACCTT-GTCAAACTTTTCTCATTTTA
* * *
2183287 GTCTCACATATGGTTACCATTCTAT-TCAGATTCTTCTCATTTTGATTTGACATATGGTTACCAC
191 ATCTCACATATGGTTACCA-CCT-TGTCAAATTCTTCTCATTTTGATTTGACATATGGTTACCAC
*
2183351 CCTAGTTAAATCC
254 CCTAGTCAAATCC
2183364 TTTTGTTTTC
Statistics
Matches: 229, Mismatches: 30, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
309 9 0.04
310 149 0.65
311 60 0.26
312 4 0.02
313 7 0.03
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (310 bp):
TTTCCACCCTCATTTGAATATATTGGCATTAGGACCTGGTCAAACTTTTCTCATTTCAATCTGAC
ATATGGTTACCACCCTAGTCAGATTCTTCTCATTTTGATTTGACGTATGGTTACCACACTGGTCA
AATCCCTTTCCTCGTTTGACTATATTGGTGTTACCACCTTGTCAAACTTTTCTCATTTTAATCTC
ACATATGGTTACCACCTTGTCAAATTCTTCTCATTTTGATTTGACATATGGTTACCACCCTAGTC
AAATCCCTTTCTTCGTTTGACTGTATTGGCATTAGGACTTAGCCAAACTC
Found at i:2183731 original size:132 final size:131
Alignment explanation
Indices: 2183131--2183761 Score: 520
Period size: 132 Copynumber: 4.8 Consensus size: 131
2183121 GGCATTAGGA
* * * * * **
2183131 CCTGGTCAAACTTTTCTCATTTCAGTCTGACATATGGTTACCACCCTGGTCAGATTTTTTCTCAT
1 CCTGGTAAAACTTTTCTCATTTCTGTCTGACATATAGTTACCACCCTAGTCA-AATCCTTCT-AT
** ** * *
2183196 TTTGATTTGATGTATGGTTACCACCCTGGTCAAAT-CTCTTTCCTTTCTG-TTGACGTATGGTTA
64 TTCCATTTGACATATGGTTACCACCCTGGTCAAATCCT-TTTCCTTTCTGTTTGACGTACGGTGA
2183259 CCAC
128 CCAC
* * * * ** * * *
2183263 CTTGGTTAAACTTTTCTCATTT-TAGTCTCACATATGGTTACCATTCTATTCAGATTCTTCTCAT
1 CCTGGTAAAACTTTTCTCATTTCT-GTCTGACATATAGTTACCACCCTAGTCAAATCCTTCT-AT
** * * ** * * *
2183327 TTTGATTTGACATATGGTTACCACCCTAGTTAAATCCTTTTGTTTTCTATTTGACGTATGGTTAC
64 TTCCATTTGACATATGGTTACCACCCTGGTCAAATCCTTTTCCTTTCTGTTTGACGTACGGTGAC
2183392 CAC
129 CAC
* ** * * * * *
2183395 CCTGGTTAAACTTTTCTCATTTCAATCTGACATTTAGTTACCACTCTAGTTAGATTCTTCTCATT
1 CCTGGTAAAACTTTTCTCATTTCTGTCTGACATATAGTTACCACCCTAGTCAAATCCTTCT-ATT
** * * *
2183460 TTGAGTTGGCATATGGTTACCACCCTGGTCAAATCCTTTTCCTTTCTGTTTGACGTACGGTTACC
65 TCCATTTGACATATGGTTACCACCCTGGTCAAATCCTTTTCCTTTCTGTTTGACGTACGGTGACC
2183525 AC
130 AC
* * * * * * *
2183527 CTTGGTCAAACTTTTCTCATTTCTGTCTGACATGTGGTTACCACCCTAGTTAGATTCTTCTCATT
1 CCTGGTAAAACTTTTCTCATTTCTGTCTGACATATAGTTACCACCCTAGTCAAATCCTTCT-ATT
** ** * * * * *
2183592 TTGATTTGATGTATGGTTACTACCCTAGTCAAATCTTTTTTCTTTCTGTTTGACGTATGGTGACC
65 TCCATTTGACATATGGTTACCACCCTGGTCAAATCCTTTTCCTTTCTGTTTGACGTACGGTGACC
2183657 AC
130 AC
* * *
2183659 CCTGGTAAAATCCTTTTC-C-TTTCTGT-TTAGCGTATAGTTACCACCCTGGTCAAATCCCCTTC
1 CCTGGTAAAA--CTTTTCTCATTTCTGTCTGA-CATATAGTTACCACCCTAGTCAAAT--CCTTC
* *
2183721 T-TTTCCATTTGACATATAGTTACCACCCTGGTCAAACCCTT
61 TATTTCCATTTGACATATGGTTACCACCCTGGTCAAATCCTT
2183762 CAACTAACCT
Statistics
Matches: 419, Mismatches: 71, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
131 50 0.12
132 357 0.85
133 1 0.00
134 11 0.03
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (131 bp):
CCTGGTAAAACTTTTCTCATTTCTGTCTGACATATAGTTACCACCCTAGTCAAATCCTTCTATTT
CCATTTGACATATGGTTACCACCCTGGTCAAATCCTTTTCCTTTCTGTTTGACGTACGGTGACCA
C
Found at i:2183957 original size:42 final size:41
Alignment explanation
Indices: 2183866--2184315 Score: 368
Period size: 42 Copynumber: 10.7 Consensus size: 41
2183856 TAACTTCCTT
* * * *
2183866 ACCTGTAGTCTACC-AGTCGGCTTTGACCTTAGAGACTTTTTC
1 ACCTTTAGTCTACCTA-TCGACTTTGACCTTGGAGAC-TTCTC
* * * * * * *
2183908 ATCTTTAGTTTGCCTGTCGACTTTAACTTTGGAGACTTTCTT
1 ACCTTTAGTCTACCTATCGACTTTGACCTTGGAGAC-TTCTC
* * ** * * *
2183950 ACGTTTAGTCTACCTATTGGTTTTAACCCTAGAGACCTTCTC
1 ACCTTTAGTCTACCTATCGACTTTGACCTTGGAGA-CTTCTC
* *
2183992 ACCTTTAGTCTACCTATCGGCTTTGACCTTGAAGACTTTCTC
1 ACCTTTAGTCTACCTATCGACTTTGACCTTGGAGAC-TTCTC
* * * * *
2184034 ACATTTAGTCTGCCTGTTGGCTTTGACCACTTTGGAGACTTCTTC
1 ACCTTTAGTCTACCTATCGACTTTGA-C-C-TTGGAGACTTC-TC
* * *
2184079 ACATTTAGTCTGCCTATCGACTTTGACCTTGGAGACTTCCCC
1 ACCTTTAGTCTACCTATCGACTTTGACCTTGGAGACTT-CTC
2184121 ACCTTTAGTCTACCTATCGACTTTGACCTTGGAGACTTCTC
1 ACCTTTAGTCTACCTATCGACTTTGACCTTGGAGACTTCTC
* * * *
2184162 ATCTTTTA-TCTGCCTATC-AGCATTGACCCTGGAGACTTCTTC
1 A-CCTTTAGTCTACCTATCGA-CTTTGACCTTGGAGACTTC-TC
* * *
2184204 ACCTTTAGTTTACCTGTCGATTTTGACCTTGGAGACTTCTTTC
1 ACCTTTAGTCTACCTATCGACTTTGACCTTGGAGACTTC--TC
* *
2184247 -CCTTTAGTCTACCTGTCGACTTTGACCTTGGAGACATTTTC
1 ACCTTTAGTCTACCTATCGACTTTGACCTTGGAGAC-TTCTC
* * *
2184288 ACCTTTTGTCTACTTGTCGACTTTGACC
1 ACCTTTAGTCTACCTATCGACTTTGACC
2184316 CGAGAGACTC
Statistics
Matches: 334, Mismatches: 58, Indels: 32
0.79 0.14 0.08
Matches are distributed among these distances:
40 1 0.00
41 37 0.11
42 249 0.75
43 10 0.03
44 5 0.01
45 32 0.10
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.39
Consensus pattern (41 bp):
ACCTTTAGTCTACCTATCGACTTTGACCTTGGAGACTTCTC
Found at i:2184251 original size:125 final size:128
Alignment explanation
Indices: 2183936--2184298 Score: 391
Period size: 125 Copynumber: 2.9 Consensus size: 128
2183926 GACTTTAACT
* * ** * * * *
2183936 TTGGAGACTTTCTT-ACGTTTAGTCTACCTATTGGTTTTAACCCTAGAGACCTT-CTCACCTTTA
1 TTGGAGAC-TTCTTCACATTTAGTCTACCTATCGACTTTGACCTTGGAGA-CTTCCCCACCTTTA
* * * ** *
2183999 GTCTACCTATCGGCTTTGACCTTGAAGACTTTCTCACATTTAGTCTGCCTGTTGGCTTTGACCAC
64 GTCTACCTATCGACTTTGACCTTGGAGACTTTCTCACATTTAGTCTGCCTATCAGCATTGACCAC
*
2184064 TTTGGAGACTTCTTCACATTTAGTCTGCCTATCGACTTTGACCTTGGAGACTTCCCCACCTTTAG
1 -TTGGAGACTTCTTCACATTTAGTCTACCTATCGACTTTGACCTTGGAGACTTCCCCACCTTTAG
*
2184129 TCTACCTATCGACTTTGACCTTGGAGAC-TTCTCATCTTTTA-TCTGCCTATCAGCATTGACC-C
65 TCTACCTATCGACTTTGACCTTGGAGACTTTCTCA-CATTTAGTCTGCCTATCAGCATTGACCAC
* * * * **
2184191 -TGGAGACTTCTTCACCTTTAGTTTACCTGTCGATTTTGACCTTGGAGACTTCTTTC-CCTTTAG
1 TTGGAGACTTCTTCACATTTAGTCTACCTATCGACTTTGACCTTGGAGACTTC-CCCACCTTTAG
* * *
2184254 TCTACCTGTCGACTTTGACCTTGGAGACATTT-TCACCTTTTGTCT
65 TCTACCTATCGACTTTGACCTTGGAGAC-TTTCTCACATTTAGTCT
2184299 ACTTGTCGAC
Statistics
Matches: 201, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
125 85 0.42
126 7 0.03
127 3 0.01
128 30 0.15
129 76 0.38
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (128 bp):
TTGGAGACTTCTTCACATTTAGTCTACCTATCGACTTTGACCTTGGAGACTTCCCCACCTTTAGT
CTACCTATCGACTTTGACCTTGGAGACTTTCTCACATTTAGTCTGCCTATCAGCATTGACCAC
Found at i:2184876 original size:15 final size:15
Alignment explanation
Indices: 2184856--2184910 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
2184846 TATTTGACAT
2184856 TAAAAAATAAATAAA
1 TAAAAAATAAATAAA
* *
2184871 TAAAAATTTAATAAA
1 TAAAAAATAAATAAA
* * *
2184886 AAATAAAATGATTAAA
1 TAA-AAAATAAATAAA
2184902 TAAAAAATA
1 TAAAAAATA
2184911 TATATCTATA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
15 20 0.65
16 11 0.35
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
TAAAAAATAAATAAA
Found at i:2184905 original size:20 final size:18
Alignment explanation
Indices: 2184860--2184910 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
2184850 TGACATTAAA
2184860 AAATAAATAAATAAAAATT
1 AAATAAA-AAATAAAAATT
*
2184879 TAATAAAAAATAAAATGATT
1 AAATAAAAAATAAAA--ATT
2184899 AAATAAAAAATA
1 AAATAAAAAATA
2184911 TATATCTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.29
19 6 0.21
20 14 0.50
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
AAATAAAAAATAAAAATT
Found at i:2186746 original size:166 final size:166
Alignment explanation
Indices: 2186516--2186816 Score: 371
Period size: 166 Copynumber: 1.8 Consensus size: 166
2186506 TATTGAGGGC
* *
2186516 AAAATGGTCTTTTCATGCCCACTCGAGTCATATTTTTTATATTTTTAAGGTTTTCTAGAGGGGTA
1 AAAATGGTCTTTT-ATGCCCACTCGAGTCATAGTTTTTATATTCTTAAGGTTTTCTAGAGGGGTA
* * * * * * *
2186581 T-AAATTTTTTTAAAAAATCTTTCGTATCCCTTAGTTTTT-CGTTGGGTACGAAACGTAATTTTT
65 TGAAA-ATTTTT--AAAACCTTTCATATCCCATAGTTTTTCCATCGGGTACGAAACGTAATTTTC
2186644 GAAATTTAGAAGTGCTTGGCCCTTCTCGATTGATATTAAA
127 GAAATTTAGAAGTGCTTGGCCCTTCTCGATTGATATTAAA
* *
2186684 AAAATGGTCATTTT-TTCCCACTCGAGTCAT-GTTTTTATATTCTTATA-GTTTTC-CGTAGGGG
1 AAAATGGTC-TTTTATGCCCACTCGAGTCATAGTTTTTATATTCTTA-AGGTTTTCTAG-AGGGG
* * *
2186745 TATGAAAATTTTTAAAACCTTTCATATCCCATGGTTTTTCCATCGGGTATGAAATGTAATTTTCG
63 TATGAAAATTTTTAAAACCTTTCATATCCCATAGTTTTTCCATCGGGTACGAAACGTAATTTTCG
2186810 AAATTTA
128 AAATTTA
2186817 CAAGCTAAAT
Statistics
Matches: 114, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
164 22 0.19
165 28 0.25
166 32 0.28
167 19 0.17
168 9 0.08
169 4 0.04
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (166 bp):
AAAATGGTCTTTTATGCCCACTCGAGTCATAGTTTTTATATTCTTAAGGTTTTCTAGAGGGGTAT
GAAAATTTTTAAAACCTTTCATATCCCATAGTTTTTCCATCGGGTACGAAACGTAATTTTCGAAA
TTTAGAAGTGCTTGGCCCTTCTCGATTGATATTAAA
Found at i:2188719 original size:20 final size:20
Alignment explanation
Indices: 2188694--2188734 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2188684 TGTTTGTCTT
2188694 AATAATATCTTGCCATCACC
1 AATAATATCTTGCCATCACC
2188714 AATAATATCTTGCCATCACC
1 AATAATATCTTGCCATCACC
2188734 A
1 A
2188735 TGCATTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (20 bp):
AATAATATCTTGCCATCACC
Found at i:2190136 original size:79 final size:78
Alignment explanation
Indices: 2190037--2190478 Score: 381
Period size: 79 Copynumber: 5.6 Consensus size: 78
2190027 CTAACCTCTG
* * *
2190037 TTTTTATTTTTGAAACATTAAATTTTTTATCTTGGGGATACTCCAACCCCGTTATTTCTGAGAGG
1 TTTTTATTTTTAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCGTTATTTCTGAGAGG
2190102 ATACTCCAACCTCA
66 ATACTCCAACC-CA
* * * * * * * *
2190116 TTTTTATTTTTGAAATATTAAATTTTTTATCTCGAGAATACTCCAACCTCTGTTATTT-TCAAGG
1 TTTTTATTTTTAAAATATTAAATTTTTCATCTTGGGGATACTCCAACC-CCGTTATTTCT-GAGA
** * *
2190180 GGATGGTCTAACCCT
64 GGATACTCCAACCCA
* * * * * *
2190195 TTTTTATTTTCAAGACATTAAAATTTTCATCTTGGGGATACTCTAATCCCGTTATTTCTGAG-GA
1 TTTTTATTTTTAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCGTTATTTCTGAGAG-
*
2190259 GATACTCTAACCCTA
65 GATACTCCAACCC-A
* * * * * * *
2190274 TTTTTATTTCTAAAAGATTAAATTTTTCATTTTGGGAATATTCCAACCCTGTTATTTTTGA-AGA
1 TTTTTATTTTTAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCGTTATTTCTGAGAG-
2190338 GATACTCCAACCCCA
65 GATACTCCAA-CCCA
* * ** * * * *
2190353 TTTTTATTTTCAAAATATT-AATTTTTCACCATCAGGGACACTCCAACCCCATAATTACTGAGAG
1 TTTTTATTTTTAAAATATTAAATTTTTCATC-TTGGGGATACTCCAACCCCGTTATTTCTGAGAG
2190417 GATACTCCAACCCCA
65 GATACTCCAA-CCCA
* *** * *
2190432 TTTTTACTCCCAAAATATTAAATTTTTCAT-TTCGGGATACTCTAACC
1 TTTTTATTTTTAAAATATTAAATTTTTCATCTTGGGGATACTCCAACC
2190479 TATCGTAACA
Statistics
Matches: 290, Mismatches: 63, Indels: 21
0.78 0.17 0.06
Matches are distributed among these distances:
77 1 0.00
78 43 0.15
79 212 0.73
80 34 0.12
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (78 bp):
TTTTTATTTTTAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCGTTATTTCTGAGAGG
ATACTCCAACCCA
Found at i:2190246 original size:158 final size:156
Alignment explanation
Indices: 2190017--2190478 Score: 466
Period size: 158 Copynumber: 2.9 Consensus size: 156
2190007 AAACATTAAG
* *
2190017 AGGGGATACTCTAACCTCTGTTTTTATTTTTGAAACATTAAATTTTTTATCTTGGGGATACTCCA
1 AGGGGATACTCTAACC-CT-TTTTTA-TTTTCAAACATTAAATTTTTCATCTTGGGGATACTCCA
* * * *
2190082 ACCCCGTTATTTCTGAGAGGATACTCCAACCTCATTTTTATTTTTGAAATATTAAATTTTTTATC
63 ACCCCGTTATTTCTGAGAGGATACTCCAACC-CATTTTTATTTCTAAAAGATTAAATTTTTCATC
2190147 TCGAGAATACTCCAACCTCTGTTA-TTTTCA
127 TCGAGAATACTCCAACC-CTGTTATTTTTCA
** * * *
2190177 AGGGGATGGTCTAACCCTTTTTTATTTTCAAGACATTAAAATTTTCATCTTGGGGATACTCTAAT
1 AGGGGATACTCTAACCCTTTTTTATTTTCAA-ACATTAAATTTTTCATCTTGGGGATACTCCAAC
* *
2190242 CCCGTTATTTCTGAG-GAGATACTCTAACCCTATTTTTATTTCTAAAAGATTAAATTTTTCATTT
65 CCCGTTATTTCTGAGAG-GATACTCCAACCC-ATTTTTATTTCTAAAAGATTAAATTTTTCATCT
* * * *
2190306 TGGGAATATTCCAACCCTGTTATTTTTGA
128 CGAGAATACTCCAACCCTGTTATTTTTCA
* * * * * ** *
2190335 A-GAGATACTCCAACCCCATTTTTATTTTCAAA-ATATTAATTTTTCACCATCAGGGACACTCCA
1 AGGGGATACTCTAA-CCCTTTTTTATTTTCAAACAT-TAAATTTTTCATC-TTGGGGATACTCCA
* * * * * * * *
2190398 ACCCCATAATTACTGAGAGGATACTCCAACCCCATTTTTACTCCCAAAATATTAAATTTTTCATT
63 ACCCCGTTATTTCTGAGAGGATACTCCAA-CCCATTTTTATTTCTAAAAGATTAAATTTTTCATC
* *
2190463 TCG-GGATACTCTAACC
127 TCGAGAATACTCCAACC
2190479 TATCGTAACA
Statistics
Matches: 251, Mismatches: 42, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
156 2 0.01
157 43 0.17
158 186 0.74
159 6 0.02
160 14 0.06
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.39
Consensus pattern (156 bp):
AGGGGATACTCTAACCCTTTTTTATTTTCAAACATTAAATTTTTCATCTTGGGGATACTCCAACC
CCGTTATTTCTGAGAGGATACTCCAACCCATTTTTATTTCTAAAAGATTAAATTTTTCATCTCGA
GAATACTCCAACCCTGTTATTTTTCA
Found at i:2190461 original size:237 final size:237
Alignment explanation
Indices: 2190016--2190476 Score: 511
Period size: 237 Copynumber: 1.9 Consensus size: 237
2190006 AAAACATTAA
* * * * * *
2190016 GAGGGGATACTCTAACCTCTGTTTTTATTTTTGAAACATTAAATTTTTTATCTTGGGGATACTCC
1 GAGGAGATACTCTAACCTCTATTTTTATTTCTAAAACATTAAATTTTTCATCTTGGGAATACTCC
* ** * *
2190081 AACCCCGTTATTTCTGAGAGGATACTCCAACCTCATTTTTATTTTTGAAATATTAAATTTTTTAT
66 AACCCCGTTATTTCTGAGAGGATACTCCAACCCCATTTTTATTTTCAAAATATTAAATTTTTCAC
* ** * * * ** * * * ** *
2190146 CTCGAGAATACTCCAACCTCTGTTATTTTCAAGGGGATGGTCTAACCCTTTTTTATTTTCAAGAC
131 CTCGAGAACACTCCAACCTCCATAATTCTCAAGAGGATACTCCAACCCATTTTTACTCCCAAAAC
*
2190211 ATTAAAATTTTCATCTTGGGGATACTCTAATCCCGTTATTTCT
196 ATTAAAATTTTCAT-TTCGGGATACTCTAATCCCGTTATTTCT
* * *
2190254 GAGGAGATACTCTAACC-CTATTTTTATTTCTAAAAGATTAAATTTTTCATTTTGGGAATATTCC
1 GAGGAGATACTCTAACCTCTATTTTTATTTCTAAAACATTAAATTTTTCATCTTGGGAATACTCC
* *
2190318 AACCCTGTTATTTTTGA-AGAGATACTCCAACCCCATTTTTATTTTCAAAATATT-AATTTTTCA
66 AACCCCGTTATTTCTGAGAG-GATACTCCAACCCCATTTTTATTTTCAAAATATTAAATTTTTCA
* *
2190381 CCATC-AGGGACACTCCAACC-CCATAATTACT-GAGAGGATACTCCAACCCCATTTTTACTCCC
130 CC-TCGA-GAACACTCCAACCTCCATAATT-CTCAAGAGGATACTCCAA-CCCATTTTTACTCCC
* *
2190443 AAAATATTAAATTTTTCATTTCGGGATACTCTAA
191 AAAACATTAAAATTTTCATTTCGGGATACTCTAA
2190477 CCTATCGTAA
Statistics
Matches: 183, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
236 41 0.22
237 126 0.69
238 16 0.09
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (237 bp):
GAGGAGATACTCTAACCTCTATTTTTATTTCTAAAACATTAAATTTTTCATCTTGGGAATACTCC
AACCCCGTTATTTCTGAGAGGATACTCCAACCCCATTTTTATTTTCAAAATATTAAATTTTTCAC
CTCGAGAACACTCCAACCTCCATAATTCTCAAGAGGATACTCCAACCCATTTTTACTCCCAAAAC
ATTAAAATTTTCATTTCGGGATACTCTAATCCCGTTATTTCT
Found at i:2192757 original size:9 final size:9
Alignment explanation
Indices: 2192743--2192778 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
2192733 AAAAAGAATT
2192743 TTGTTTTTG
1 TTGTTTTTG
2192752 TTGTTTTTG
1 TTGTTTTTG
2192761 TT-TTTTTG
1 TTGTTTTTG
*
2192769 TTTTTTTTG
1 TTGTTTTTG
2192778 T
1 T
2192779 AAGCCTCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (9 bp):
TTGTTTTTG
Found at i:2192766 original size:8 final size:8
Alignment explanation
Indices: 2192746--2192775 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
2192736 AAGAATTTTG
2192746 TTTTTGTT
1 TTTTTGTT
2192754 GTTTTTGTT
1 -TTTTTGTT
2192763 TTTTTGTT
1 TTTTTGTT
2192771 TTTTT
1 TTTTT
2192776 TGTAAGCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (8 bp):
TTTTTGTT
Found at i:2192768 original size:17 final size:17
Alignment explanation
Indices: 2192746--2192778 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2192736 AAGAATTTTG
2192746 TTTTTGTTGTTTTTGTT
1 TTTTTGTTGTTTTTGTT
*
2192763 TTTTTGTTTTTTTTGT
1 TTTTTGTTGTTTTTGT
2192779 AAGCCTCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTTTGTTGTTTTTGTT
Found at i:2192774 original size:15 final size:15
Alignment explanation
Indices: 2192741--2192773 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2192731 CAAAAAAGAA
2192741 TTTTGTTTTTGTTGT
1 TTTTGTTTTTGTTGT
2192756 TTTTGTTTTT-TTGT
1 TTTTGTTTTTGTTGT
2192770 TTTT
1 TTTT
2192774 TTTGTAAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (15 bp):
TTTTGTTTTTGTTGT
Found at i:2193674 original size:7 final size:8
Alignment explanation
Indices: 2193661--2193690 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2193651 TTCTTTTCAT
2193661 GTTTTTTC
1 GTTTTTTC
*
2193669 TTTTTTTC
1 GTTTTTTC
2193677 GTTTTTTC
1 GTTTTTTC
2193685 GTTTTT
1 GTTTTT
2193691 ATTTTTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (8 bp):
GTTTTTTC
Found at i:2194042 original size:16 final size:17
Alignment explanation
Indices: 2194013--2194054 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
2194003 GTAACGGCAT
2194013 TTCTTTTTTCCTTTTTC
1 TTCTTTTTTCCTTTTTC
2194030 -TCTTTGTTT-CTTTTTC
1 TTCTTT-TTTCCTTTTTC
2194046 TTCTTTTTT
1 TTCTTTTTT
2194055 TATTCTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (17 bp):
TTCTTTTTTCCTTTTTC
Found at i:2194051 original size:9 final size:8
Alignment explanation
Indices: 2194012--2194070 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 8
2194002 AGTAACGGCA
2194012 TTTCTTTT
1 TTTCTTTT
*
2194020 TTCCTTTT
1 TTTCTTTT
* *
2194028 TCTCTTTG
1 TTTCTTTT
2194036 TTTCTTTT
1 TTTCTTTT
2194044 TCTTCTTTT
1 T-TTCTTTT
* *
2194053 TTTATTCTC
1 TTTCTT-TT
2194062 TTTCTTTT
1 TTTCTTTT
2194070 T
1 T
2194071 GAAAATCCAT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
8 25 0.64
9 14 0.36
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (8 bp):
TTTCTTTT
Found at i:2197541 original size:154 final size:154
Alignment explanation
Indices: 2197278--2197823 Score: 523
Period size: 154 Copynumber: 3.6 Consensus size: 154
2197268 TGAAAAGGGA
* ** * * * * * * *
2197278 TGAACCTATCCTAGATACCCATATTTGGCATGAAAGCAGGACCCGGTGACAACCTAAGAGTTGGT
1 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCA-GACTCGATGACAACCTAGGACTCGAT
* * * *
2197343 TCTAAAAAATTACGAAAAA-GCCTTTAGGGGAGACTTTTGACGTAATAGTGCCCCATACCCCTAA
65 TCTAGAAAATTAC-AAAAATGCCTTTAGGGGATACTTTTGACGTAACAGTGCCCAATACCCCTAA
2197407 AGGACTTAAAAAGGATATGGATGGGG
129 AGGACTTAAAAAGGATATGGATGGGG
* * *
2197433 TGAACCTATCCTAAATACCCACTTTTGGCATAAAAGCAGACTCGACGACAACCTAGGACACGATT
1 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGATGACAACCTAGGACTCGATT
* * **
2197498 TTAGAAAATTACAAAAATGCCTTTAGGGGATACTTTTAACGTAACAGTGCCTGATACCCCTAAAG
66 CTAGAAAATTACAAAAATGCCTTTAGGGGATACTTTTGACGTAACAGTGCCCAATACCCCTAAAG
*
2197563 GACTTAAAAAGGATATGGATGTGG
131 GACTTAAAAAGGATATGGATGGGG
* * * * * *
2197587 TAAACCTATCGTCAATACCTACCTTTGGCATAAAATG--GAC-CCAGTAACAACCTAGGACTCGA
1 TGAACCTATCCTAAATACCCACCTTTGGCATAAAA-GCAGACTCGA-TGACAACCTAGGACTCGA
* * ** * ** * * *
2197649 TTTTGGAAAATTACAAAAAT--AATCAACGGATACCTTCGACGTAACAGTGCCCAATACCCTTAA
64 TTCTAGAAAATTACAAAAATGCCTTTAGGGGATACTTTTGACGTAACAGTGCCCAATACCCCTAA
* * ** * *
2197712 TGGACTTAAAAA-AATCATAAAAGGGA
129 AGGACTTAAAAAGGAT-ATGGATGGGG
* * * * * * *
2197738 TGAACTTATCCTAAATATCTACCTTCGGCATAAAAGCAGACTCGGTGGCAACCTAGGACTCAATT
1 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGATGACAACCTAGGACTCGATT
2197803 CTA-AGAAATTACAAAAATGCC
66 CTAGA-AAATTACAAAAATGCC
2197824 CCTATATGTA
Statistics
Matches: 319, Mismatches: 62, Indels: 21
0.79 0.15 0.05
Matches are distributed among these distances:
150 3 0.01
151 78 0.24
152 36 0.11
153 43 0.13
154 124 0.39
155 35 0.11
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (154 bp):
TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGATGACAACCTAGGACTCGATT
CTAGAAAATTACAAAAATGCCTTTAGGGGATACTTTTGACGTAACAGTGCCCAATACCCCTAAAG
GACTTAAAAAGGATATGGATGGGG
Found at i:2200190 original size:18 final size:18
Alignment explanation
Indices: 2200167--2200241 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 18
2200157 TAAAAACCTA
*
2200167 AAATGTATCGATACAATG
1 AAATGTATCGATACAATT
2200185 AAATGTATCGATACAAGTAT
1 AAATGTATCGATACAA-T-T
*
2200205 AAGCATGTATCGATACATTT
1 AA--ATGTATCGATACAATT
2200225 ACTAATGTATCGATACA
1 A--AATGTATCGATACA
2200242 TTTCCTTAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
18 16 0.33
19 1 0.02
20 17 0.35
21 1 0.02
22 14 0.29
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (18 bp):
AAATGTATCGATACAATT
Found at i:2200594 original size:20 final size:20
Alignment explanation
Indices: 2200571--2200643 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2200561 ACAATTCAAA
2200571 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2200591 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2200612 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2200632 GTATCGATACAT
1 GTATCGATACAT
2200644 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2200615 original size:21 final size:21
Alignment explanation
Indices: 2200589--2200664 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2200579 ACATGTTGCA
2200589 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2200610 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2200630 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
2200651 ATGTATCGATACAT
1 ATGTATCGATACAT
2200665 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2200622 original size:41 final size:41
Alignment explanation
Indices: 2200571--2200664 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2200561 ACAATTCAAA
*
2200571 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2200612 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2200653 GTATCGATACAT
1 GTATCGATACAT
2200665 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2200721 original size:13 final size:13
Alignment explanation
Indices: 2200703--2200728 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2200693 TACAGCAAGT
2200703 ATGTATCGATACA
1 ATGTATCGATACA
2200716 ATGTATCGATACA
1 ATGTATCGATACA
2200729 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2204810 original size:15 final size:15
Alignment explanation
Indices: 2204790--2204820 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2204780 TAAAAATGTC
*
2204790 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2204805 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2204820 C
1 C
2204821 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2206913 original size:20 final size:21
Alignment explanation
Indices: 2206834--2206912 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
2206824 AATGTCCAAA
*
2206834 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
2206854 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
2206879 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
2206899 TTGTATCGATACAT
1 ATGTATCGATACAT
2206913 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:2206917 original size:13 final size:13
Alignment explanation
Indices: 2206899--2206937 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2206889 ACATTTTTCT
2206899 TTGTATCGATACA
1 TTGTATCGATACA
2206912 TTGTATCGATACA
1 TTGTATCGATACA
*
2206925 CTGTATCGATACA
1 TTGTATCGATACA
2206938 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2208795 original size:31 final size:30
Alignment explanation
Indices: 2208732--2208791 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
2208722 TTTTGATATG
2208732 AATTACTTGATTAAGGGGGAGATTTTTTTT
1 AATTACTTGATTAAGGGGGAGATTTTTTTT
2208762 AATTACTTGATTAAGGGGGAGATTTTTTTT
1 AATTACTTGATTAAGGGGGAGATTTTTTTT
2208792 TAATAAACGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.23, T:0.47
Consensus pattern (30 bp):
AATTACTTGATTAAGGGGGAGATTTTTTTT
Found at i:2209436 original size:20 final size:20
Alignment explanation
Indices: 2209413--2209485 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2209403 ACAATTCAAA
2209413 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2209433 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2209454 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2209474 GTATCGATACAT
1 GTATCGATACAT
2209486 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2209457 original size:21 final size:21
Alignment explanation
Indices: 2209431--2209506 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2209421 ACATGTTGCA
2209431 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2209452 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2209472 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
2209493 ATGTATCGATACAT
1 ATGTATCGATACAT
2209507 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2209464 original size:41 final size:41
Alignment explanation
Indices: 2209413--2209506 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2209403 ACAATTCAAA
*
2209413 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2209454 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2209495 GTATCGATACAT
1 GTATCGATACAT
2209507 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2209563 original size:13 final size:13
Alignment explanation
Indices: 2209545--2209570 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2209535 TACAGCAAGT
2209545 ATGTATCGATACA
1 ATGTATCGATACA
2209558 ATGTATCGATACA
1 ATGTATCGATACA
2209571 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2210357 original size:20 final size:21
Alignment explanation
Indices: 2210332--2210385 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
2210322 CATTTTAGGC
2210332 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTAT
2210352 ATGTATCGATACATTCACTAT
1 ATGTATCGATACATTCACTAT
* *
2210373 TTGTATCAATACA
1 ATGTATCGATACA
2210386 AATTGTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:2211488 original size:10 final size:9
Alignment explanation
Indices: 2211469--2211505 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
2211459 GCTAGCTTAG
2211469 TTTTTTCTA
1 TTTTTTCTA
2211478 TTTTTTCCTA
1 TTTTTT-CTA
2211488 TTTTCTTCTA
1 TTTT-TTCTA
2211498 TTTTTTCT
1 TTTTTTCT
2211506 CTGGCTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 10 0.38
10 14 0.54
11 2 0.08
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTCTA
Found at i:2212168 original size:13 final size:13
Alignment explanation
Indices: 2212150--2212174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2212140 CATAAAGTGT
2212150 TGTATCGATACAA
1 TGTATCGATACAA
2212163 TGTATCGATACA
1 TGTATCGATACA
2212175 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2212172 original size:33 final size:33
Alignment explanation
Indices: 2212130--2212196 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2212120 TTCAACGATT
2212130 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2212163 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2212196 T
1 T
2212197 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2214479 original size:24 final size:26
Alignment explanation
Indices: 2214452--2214504 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
2214442 TCAAAATTTT
2214452 ATTCAT-CG-GGGACACTCCAACCCC
1 ATTCATCCGAGGGACACTCCAACCCC
*
2214476 ATTCTTCCGAGGGACACTCCAACCCC
1 ATTCATCCGAGGGACACTCCAACCCC
2214502 ATT
1 ATT
2214505 TTCAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 5 0.19
25 2 0.08
26 19 0.73
ACGTcount: A:0.25, C:0.40, G:0.15, T:0.21
Consensus pattern (26 bp):
ATTCATCCGAGGGACACTCCAACCCC
Found at i:2215839 original size:166 final size:166
Alignment explanation
Indices: 2215541--2215977 Score: 438
Period size: 165 Copynumber: 2.6 Consensus size: 166
2215531 AAATAAATTA
* * * * ** * * * **
2215541 AATTTTTCAAAACTGAATTAATAAGAGTTTAATAACAATATTAGCTGAATTCTAAAAATTTTAAA
1 AATTTTTTAAAACTGATTTAATATGAATCAAATAACAATATTTGATGAATTTTAAAAATTAAAAA
** * * * * *
2215606 CTGAGAAAAATTCCC-CAAAAAAATTTATGAAGAA-AAAA-ATTCG-ATTTCTCGAAAAAAAGGA
66 CCAAGAAAAAGTCCCTCGAAAAAATTTACGGAGAAGAAAACA-CCGCA-TT-TCGAAAAAAAGGA
*
2215667 AATTTCAAAGAAAAAAATTC-AAAACTCATGAAAATGAATT
128 AATTTC-AAG-AAAAAATTCAAAAACTCATGAAAATGAATG
* ** *
2215707 AATTTTTTAAAACTGATTTAATATGAATCAAATGATGATATTTGATTAATTTTAAAAATTAAAAA
1 AATTTTTTAAAACTGATTTAATATGAATCAAATAACAATATTTGATGAATTTTAAAAATTAAAAA
** * *
2215772 CTGAGAAAAA-TCCCCTCGAAAAAATTTACGGAGTAGAAAACACCGCATTTCGAAAAAGAGG-AA
66 CCAAGAAAAAGT-CCCTCGAAAAAATTTACGGAGAAGAAAACACCGCATTTCGAAAAAAAGGAAA
* * * *
2215835 TTTCATGGAAAAATTCAAAAATTTATGAAAATGAATG
130 TTTCAAGAAAAAATTCAAAAACTCATGAAAATGAATG
* * * *
2215872 AATTTTTTAGAATTGATTTAATATTAATTAAATAACAATATTTGATGAATTTTAAAAATTAAAAA
1 AATTTTTTAAAACTGATTTAATATGAATCAAATAACAATATTTGATGAATTTTAAAAATTAAAAA
* *
2215937 CCAAGAAAAAGTCTCTCGAAAAAATTTATGGAGAAGAAAAC
66 CCAAGAAAAAGTCCCTCGAAAAAATTTACGGAGAAGAAAAC
2215978 CCCATAATTT
Statistics
Matches: 225, Mismatches: 39, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
164 8 0.04
165 111 0.49
166 70 0.31
167 26 0.12
168 8 0.04
169 2 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (166 bp):
AATTTTTTAAAACTGATTTAATATGAATCAAATAACAATATTTGATGAATTTTAAAAATTAAAAA
CCAAGAAAAAGTCCCTCGAAAAAATTTACGGAGAAGAAAACACCGCATTTCGAAAAAAAGGAAAT
TTCAAGAAAAAATTCAAAAACTCATGAAAATGAATG
Found at i:2221296 original size:156 final size:152
Alignment explanation
Indices: 2221152--2221691 Score: 469
Period size: 165 Copynumber: 3.4 Consensus size: 152
2221142 ATGGGTTTAA
2221152 AATTTTAAAAATTCATCAAATATTATTATTTAATTCATATTAAATCATTTTTAAAAAAATTCATT
1 AATTTT-AAAATTCATCAAATATTATTATTTAATTCATATTAAATCATTTTTAAAAAAATTCATT
* * * * * **
2221217 CATTTTTCATTTTTTTTTGAAATTTTCCTATTTTTGAAGTATGAAGTTTTCCACTCCGTAAATTT
65 TATTTTTCATTTTTTCTTGAAATTCTCCTATTTCTGAAATACAAAGTTTTCCACTCCGTAAATTT
*
2221282 TTTCGGAGGGATTTTTCTTAGTTTTT
130 TTTCGG-GGGATTTTTCTT-G-GTTT
* *
2221308 AATTTTTAAAATTCATCAAATATTATTA-TTAATTTCATATTAAATTAGTTTTAAAAAATTCAAT
1 AA-TTTTAAAATTCATCAAATATTATTATTTAA-TTCATATTAAATCA-TTTT-TAAAA---AA-
* * *
2221372 CATTTGCATTTATTTTTTATTTTTTCTTGAAATTCTCCTATTTCTGAAATACAAAGTTTTTCATT
58 -A-TT-CATTTATTTTTCATTTTTTCTTGAAATTCTCCTATTTCTGAAATACAAAGTTTTCCACT
*
2221437 CCGTAAATTTTTTTGGGGGATTTTTCTTGGTATT
120 CCGTAAATTTTTTCGGGGGATTTTTCTTGGT-TT
* * * *
2221471 --TTTTTAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTCAAAAAATTCATTTA
1 AATTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCATTTTTAAAAAA---ATTCA
* * ** *
2221534 TTTTCATGAGTTTTTCATTTTTTCTTCGAAA-TCTCCCTATTTCTAAAAAACCGAGTTTTCTACT
63 --TT--T-A-TTTTTCATTTTTTCTT-GAAATTCT-CCTATTTCTGAAATACAAAGTTTTCCACT
* * *
2221598 CCGTAAATATTTTTTGGGGGATTTTTCTCGAGTTAA
120 CCGTAAAT-TTTTTCGGGGGATTTTTCTTG-GTT-T
* * * * * *
2221634 AATTTTTAAAATTCATCTACTATT-TTCATTAAATTCACATTAAATCAGTTTTGAAAAA
1 AA-TTTTAAAATTCATCAAATATTATT-ATTTAATTCATATTAAATCATTTTTAAAAAA
2221692 TTTAAATTAT
Statistics
Matches: 319, Mismatches: 36, Indels: 48
0.79 0.09 0.12
Matches are distributed among these distances:
154 1 0.00
155 8 0.03
156 41 0.13
157 8 0.03
158 9 0.03
159 4 0.01
160 55 0.17
161 40 0.13
162 22 0.07
163 6 0.02
164 14 0.04
165 66 0.21
166 45 0.14
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (152 bp):
AATTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCATTTTTAAAAAAATTCATTT
ATTTTTCATTTTTTCTTGAAATTCTCCTATTTCTGAAATACAAAGTTTTCCACTCCGTAAATTTT
TTCGGGGGATTTTTCTTGGTTT
Found at i:2221529 original size:160 final size:160
Alignment explanation
Indices: 2221160--2221693 Score: 538
Period size: 160 Copynumber: 3.3 Consensus size: 160
2221150 AAAATTTTAA
*
2221160 AAATTCATCAAATATTATTATTTAATTCATATTAAATCA-TTTT-TAAAA---AA--A-TT-CAT
1 AAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTAAAAAATTCAATCATTTGCAT
* * * * ** *
2221216 TCATTTTTCATTTTTTTTTGAAATTTTCCTATTTTTGAAGTATGAAGTTTTCCACTCCGTAAATT
66 TCATTTTTCATTTTTTCTTGAAATTCTCCTATTTCTGAAATACAAAGTTTTTCACTCCGTAAATT
* * *
2221281 TTTTCGGAGGGATTTTTCTTAGTTTTTAATTTTT
131 TTTTTGG-GGGATTTTTCTT-GGTATT--TTTTT
*
2221315 AAAATTCATCAAATATTATTA-TTAATTTCATATTAAATTAGTTTTAAAAAATTCAATCATTTGC
1 -AAATTCATCAAATATTATTATTTAA-TTCATATTAAATCAGTTTTAAAAAATTCAATCATTTGC
* * *
2221379 ATTTATTTTTTATTTTTTCTTGAAATTCTCCTATTTCTGAAATACAAAGTTTTTCATTCCGTAAA
64 ATTCATTTTTCATTTTTTCTTGAAATTCTCCTATTTCTGAAATACAAAGTTTTTCACTCCGTAAA
2221444 TTTTTTTGGGGGATTTTTCTTGGTATTTTTTT
129 TTTTTTTGGGGGATTTTTCTTGGTATTTTTTT
* * * *
2221476 AAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTCAAAAAATTCATTTATTTTCA-
1 AAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTAAAAAATTCAATCATTTGCAT
* * * **
2221540 TGAGTTTTTCATTTTTTCTTCGAAA-TCTCCCTATTTCTAAAAAACCGAG-TTTTCTACTCCGTA
66 TCA-TTTTTCATTTTTTCTT-GAAATTCT-CCTATTTCTGAAATACAAAGTTTTTC-ACTCCGTA
* * *
2221603 AATATTTTTTGGGGGATTTTTCTCGAGTTAAAATTTTTA
127 AAT-TTTTTTGGGGGATTTTTCTTG-G-T--ATTTTTTT
* * * * *
2221642 AAATTCATCTACTATT-TTCATTAAATTCACATTAAATCAGTTTTGAAAAATT
1 AAATTCATCAAATATTATT-ATTTAATTCATATTAAATCAGTTTTAAAAAATT
2221694 TAAATTATTT
Statistics
Matches: 321, Mismatches: 36, Indels: 32
0.83 0.09 0.08
Matches are distributed among these distances:
155 4 0.01
156 33 0.10
157 4 0.01
158 4 0.01
159 2 0.01
160 77 0.24
161 41 0.13
162 20 0.06
163 6 0.02
164 15 0.05
165 66 0.21
166 49 0.15
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (160 bp):
AAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTAAAAAATTCAATCATTTGCAT
TCATTTTTCATTTTTTCTTGAAATTCTCCTATTTCTGAAATACAAAGTTTTTCACTCCGTAAATT
TTTTTGGGGGATTTTTCTTGGTATTTTTTT
Found at i:2222079 original size:13 final size:15
Alignment explanation
Indices: 2222061--2222117 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
2222051 GGATCAGTTG
2222061 AAAAGAA-AGA-GAA
1 AAAAGAAGAGAGGAA
2222074 AAAAGAAGAGAGGAA
1 AAAAGAAGAGAGGAA
* * *
2222089 AAGAGAAGAAAAAGAA
1 AAAAGAAG-AGAGGAA
2222105 AAAA-AAGAGAGGA
1 AAAAGAAGAGAGGA
2222118 GGAAATAGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
13 7 0.20
14 7 0.20
15 13 0.37
16 8 0.23
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAGAGGAA
Found at i:2223530 original size:185 final size:190
Alignment explanation
Indices: 2223186--2223531 Score: 402
Period size: 184 Copynumber: 1.8 Consensus size: 190
2223176 ATATTTTCAA
* * * ** *
2223186 AAAAGAAATAAAGTAAAATTAAGTAAACAATGCATAAATATTATTTTATTGAATAAAAATTATTA
1 AAAAGAAATAAAGTAAAATTAAATAAACAATGAATAAATATTATCTTATCAAATAAAAATTAATA
* ** * * * * * *
2223251 TCCTAATTTTTTAAAATTTTTAATATTCTTATGGGTATCCGTAGGGTATGAAAATTTCAAAAACT
66 TCCTAATTTTTTAAAACTTCCAATACTCCTATGGGCATCCGTAGAGTATAAAAATCTCAAAAACT
* * *
2223316 TTTTGTATCTTTCTAGGCTTCCCTTAAGGTAGAAATGACATTTTCAAAAATAAACCAAAG
131 TTTCGTATCTTTCTAGGATTCCATTAAGGTAGAAATGACATTTTCAAAAATAAACCAAAG
*
2223376 AAAA-AAATAAA-T-AAATTAAATAAA-AATGAATAAATA-T-TCTTATCAAATAAAATTTAATA
1 AAAAGAAATAAAGTAAAATTAAATAAACAATGAATAAATATTATCTTATCAAATAAAAATTAATA
* * *
2223435 TCCTGATTTTTTGAAACTTCCAATACTCCTATGGGCATCCGTAGAAGTATAAAAGATCT-AATAA
66 TCCTAATTTTTTAAAACTTCCAATACTCCTATGGGCATCCGTAG-AGTATAAAA-ATCTCAAAAA
*
2223499 CTTTTCGTATCTTT-TCGGGATTCCATTAAGGTA
129 CTTTTCGTATCTTTCT-AGGATTCCATTAAGGTA
2223532 CTAGATAAAT
Statistics
Matches: 130, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
184 54 0.42
185 39 0.30
186 14 0.11
187 11 0.08
188 1 0.01
189 7 0.05
190 4 0.03
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (190 bp):
AAAAGAAATAAAGTAAAATTAAATAAACAATGAATAAATATTATCTTATCAAATAAAAATTAATA
TCCTAATTTTTTAAAACTTCCAATACTCCTATGGGCATCCGTAGAGTATAAAAATCTCAAAAACT
TTTCGTATCTTTCTAGGATTCCATTAAGGTAGAAATGACATTTTCAAAAATAAACCAAAG
Found at i:2224089 original size:155 final size:154
Alignment explanation
Indices: 2223794--2224329 Score: 557
Period size: 155 Copynumber: 3.5 Consensus size: 154
2223784 TTCCTACACA
* * * * * * * *
2223794 TTTTTAAATCCTTTA-GGGTATCAAGTATTTTTATGTCGAAGGTATCCCCTATGACGT-TTTTTG
1 TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCAAAGGTATCTCCTAAG-GGTATTTTTG
* * * ** * * * *
2223857 TAATTTTCTAGAACCAACTCCTAGGTCGTCATTGGGTTCGC-TTTATGCTGAAAGTAGATATTTA
65 TAATTTTTTAAAACCAACTCCTAGGTCATCACCGAGTCCACTTTTATGCTGAAGGTAGATATTTA
2223921 GGATAGGTTCATCCTTTTAAGGATCC
130 GGATAGGTTCATCCTTTTAA-GATCC
* * ** * *
2223947 TTTTTAAGTCCCTTAAGGGTATCAGGTACTTTTTTGTCAAAGGTATCTCCTAAGGGCATTTTTAT
1 TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCAAAGGTATCTCCTAAGGGTATTTTTGT
* *
2224012 AATTTTTTAGAACCAA-TCCCTAGGTCATCACCGAGTCCATTTTTATGCTGAAGGTAGATATTTA
66 AATTTTTTAAAACCAACT-CCTAGGTCATCACCGAGTCCACTTTTATGCTGAAGGTAGATATTTA
2224076 GGATAGGTTCATCCTTTTTAAGAT-C
130 GGATAGGTTCATCC-TTTTAAGATCC
* * * *
2224101 TTGTTTAAATCCTTTAGGGGTATCAAGTACTTTTACGTCGGAA-GTATCCCCTAAGGGTATTTTT
1 TT-TTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTC-AAAGGTATCTCCTAAGGGTATTTTT
* * * ** * * * *
2224165 GTAATTTTTCAAAACCAACTCTTATGTTGTCATCGGGTTCGCTTTTATG-TCGAAGGTAGATATT
64 GTAATTTTTTAAAACCAACTCCTAGGTCATCACCGAGTCCACTTTTATGCT-GAAGGTAGATATT
*
2224229 TAGGATAGGTTCATCCCTTTTAAAATCC
128 TAGGATAGGTTCAT-CCTTTTAAGATCC
* *
2224257 TTTTCAAGTCCTTTAGGGGTATTAGGTACTTTTACGTCAAAGGTATCCTCCTAA-GGTATTTTTG
1 TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCAAAGGTAT-CTCCTAAGGGTATTTTTG
*
2224321 TATTTTTTT
65 TAATTTTTT
2224330 GTATTTTTTC
Statistics
Matches: 320, Mismatches: 50, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
153 15 0.05
154 74 0.23
155 211 0.66
156 20 0.06
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.41
Consensus pattern (154 bp):
TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCAAAGGTATCTCCTAAGGGTATTTTTGT
AATTTTTTAAAACCAACTCCTAGGTCATCACCGAGTCCACTTTTATGCTGAAGGTAGATATTTAG
GATAGGTTCATCCTTTTAAGATCC
Found at i:2226539 original size:20 final size:21
Alignment explanation
Indices: 2226487--2226544 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
2226477 CTGCCAAGGA
2226487 AATGTATCGATACA-TTCACT
1 AATGTATCGATACATTTCACT
* * *
2226507 ATTTGTATTGATACATTTCTC-
1 A-ATGTATCGATACATTTCACT
2226528 AATGTATCGATACATTT
1 AATGTATCGATACATTT
2226545 AGGCATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 15 0.48
21 12 0.39
22 4 0.13
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCACT
Found at i:2229049 original size:79 final size:79
Alignment explanation
Indices: 2228916--2229069 Score: 213
Period size: 79 Copynumber: 1.9 Consensus size: 79
2228906 TTATTGATGT
* * *
2228916 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCTAATCCCATTATTTTCGAGAGGA
1 TTTTATTTCTAAAACACTAATTTTCCACCATCGGGGATACTCCAACCCCATTATTTTCGAGAGGA
2228981 TACTCCAACCCCAA
66 TACTCCAACCCCAA
* * * *
2228995 TTTTATTTCTAAAACACTAATTTAT-CACCAT-GGAGGGTAGTCCAACCCCGTTATTTTCGAGGG
1 TTTTATTTCTAAAACACTAATTT-TCCACCATCGG-GGATACTCCAACCCCATTATTTTCGAGAG
2229058 GATACTCCAACC
64 GATACTCCAACC
2229070 TTGTTTTCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
78 2 0.03
79 63 0.95
80 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (79 bp):
TTTTATTTCTAAAACACTAATTTTCCACCATCGGGGATACTCCAACCCCATTATTTTCGAGAGGA
TACTCCAACCCCAA
Found at i:2239295 original size:9 final size:9
Alignment explanation
Indices: 2239281--2239306 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2239271 AAATGACTTC
2239281 AAATCATCA
1 AAATCATCA
2239290 AAATCATCA
1 AAATCATCA
2239299 AAATCATC
1 AAATCATC
2239307 CTAAAACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATCATCA
Found at i:2241444 original size:39 final size:39
Alignment explanation
Indices: 2241381--2241796 Score: 265
Period size: 39 Copynumber: 9.7 Consensus size: 39
2241371 AAAGATGAAG
* * *
2241381 GTGCTAATATACTGATTCAGGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* *
2241420 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
2241459 AAAGGCAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * * **
2241507 ATGCTAATGTGTTGATTCAAGGCCAGCGACATTGGTCATAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-G-----G-G-C-TT
* *
2241555 GTGCCAATATGCTAATTCAAGGCCAGTGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * *
2241594 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T
* *
2241639 AAGGTGCCAATATGATAATTCAAGGCCAGCGATATTGGGCTT
1 ---GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * * *
2241681 ATGCCAATGTGTTGATTCAAGGCCAGCAACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
2241720 AGAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
2241768 GTGCCAATGTGCTGATTCAAGGCCAGCGA
1 GTGCCAATATGCTGATTCAAGGCCAGCGA
2241797 CATTAGTCTT
Statistics
Matches: 292, Mismatches: 49, Indels: 72
0.71 0.12 0.17
Matches are distributed among these distances:
39 153 0.52
40 3 0.01
41 1 0.00
42 2 0.01
45 2 0.01
46 1 0.00
47 3 0.01
48 127 0.43
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:2241523 original size:87 final size:87
Alignment explanation
Indices: 2241333--2241850 Score: 775
Period size: 87 Copynumber: 5.9 Consensus size: 87
2241323 ATGGTTAAGT
* ** * * * *
2241333 TGCCAATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCTAATATACTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTAATT
*
2241398 CAGGGCCAGCGATATTGGGCTTG
65 CAAGGCCAGCGATATTGGGCTTG
* * * *
2241421 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGGTACCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTC
*
2241486 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTG
* * * *
2241508 TGCTAATGTGTTGATTCAAGGCCAGCGACATTGGTCATAGAGACAAGGTGCCAATATGCTAATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTC
*
2241573 AAGGCCAGTGATATTGGGCTTG
66 AAGGCCAGCGATATTGGGCTTG
* * *
2241595 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAATAAGGTGCCAATATGATAATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTC
*
2241660 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTG
* * * *
2241682 TGCCAATGTGTTGATTCAAGGCCAGCAACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTC
2241747 AAGGCCAGCGATATTGGGCTTG
66 AAGGCCAGCGATATTGGGCTTG
*
2241769 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGACAAGGTGCCAATATGCTAATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTC
*
2241834 AAGGGCAGCGATATTGG
66 AAGGCCAGCGATATTGG
2241851 ACTCAAGATG
Statistics
Matches: 386, Mismatches: 44, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
87 348 0.90
88 38 0.10
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTC
AAGGCCAGCGATATTGGGCTTG
Found at i:2242044 original size:101 final size:98
Alignment explanation
Indices: 2241770--2242196 Score: 516
Period size: 101 Copynumber: 4.4 Consensus size: 98
2241760 TTGGGCTTGT
* * * *
2241770 GCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGACAAGGTGCCAATATGCTAATTCA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-A-AAGGTGCCAATATGCTAATTCA
* * * * ** *
2241835 AGGGCAGCGATATTGGAC-TCAAGATGGTAAAGGT
64 AGGCCAGCGACATTGGTCTTAAAGATGACAAAGGC
*
2241869 GCCAATATGCTGATTCAAGG-CAACGATATTGGACTT---AAAGGTGCCAATATGCTAATTCAAG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAAGGTGCCAATATGCTAATTCAAG
* *
2241930 GCCAGCGACATTGGTTTTAAAGATAACAAAGGC
66 GCCAGCGACATTGGTCTTAAAGATGACAAAGGC
* * *
2241963 GCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-A--AAGGTGCCAATATGCTAATTC
* *
2242028 AAGGCCAGCAACATTGGACTTAAAGATGACAAAGGC
63 AAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGC
* *
2242064 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---AAAGGTGCCAATGTGCTGATTCAAG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAAGGTGCCAATATGCTAATTCAAG
* *
2242126 GCTAGCGACATTGGTCTTAAAGAT---AAAGGT
66 GCCAGCGACATTGGTCTTAAAGATGACAAAGGC
*
2242156 GCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAA
2242197 GTGCCAAGGA
Statistics
Matches: 289, Mismatches: 28, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
92 41 0.14
93 36 0.12
94 32 0.11
95 60 0.21
97 1 0.00
98 12 0.04
99 20 0.07
101 87 0.30
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (98 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAAGGTGCCAATATGCTAATTCAAG
GCCAGCGACATTGGTCTTAAAGATGACAAAGGC
Found at i:2242119 original size:43 final size:43
Alignment explanation
Indices: 2242058--2242203 Score: 175
Period size: 43 Copynumber: 3.3 Consensus size: 43
2242048 TAAAGATGAC
*
2242058 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
2242101 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T
*
2242150 AAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
2242193 AAAAGTGCCAA
1 AAAGGTGCCAA
2242204 GGAGTTATGG
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
43 47 0.55
44 1 0.01
48 1 0.01
49 37 0.43
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:2242188 original size:49 final size:49
Alignment explanation
Indices: 2241904--2242195 Score: 344
Period size: 49 Copynumber: 6.0 Consensus size: 49
2241894 ATATTGGACT
* **
2241904 TAAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGTTTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* * *
2241953 TAACAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
1 T---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* * *
2242005 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* *
2242054 TGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----
1 T---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* * *
2242100 TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* *
2242149 TAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
2242196 AGTGCCAAGG
Statistics
Matches: 204, Mismatches: 27, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
43 36 0.18
44 1 0.00
46 1 0.00
49 86 0.42
51 1 0.00
52 79 0.39
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
Found at i:2242365 original size:31 final size:30
Alignment explanation
Indices: 2242304--2243006 Score: 746
Period size: 31 Copynumber: 22.6 Consensus size: 30
2242294 AGGTGCCATG
* *
2242304 GAGTTGTGGACTTTGGGAAGAGATGCCACT
1 GAGTCGTGGACTTTGAGAAGAGATGCCACT
2242334 GAGTCGTGGACTTTGAGAAGAGATTGCCACT
1 GAGTCGTGGACTTTGAGAAGAGA-TGCCACT
*
2242365 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTG-AGAAGAGATGCCACT
* *
2242396 GAGTCATGGACTTTAAGAAGAGATTGCCACT
1 GAGTCGTGGACTTTGAGAAGAGA-TGCCACT
*
2242427 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTG-AGAAGAGATGCCACT
*
2242458 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTG-AGAAGAGATGCCACT
*
2242489 AAGTCGTGGACTTT-AGGAAGAGATGCCACT
1 GAGTCGTGGACTTTGA-GAAGAGATGCCACT
* * * *
2242519 GAGTCATGGACTTTGAAAAGAAAAATGTGCCACA
1 GAGTCGTGGACTTTGAGAAG--AGA--TGCCACT
*
2242553 GAGTCGTGGACTTTGGGAAGAGATGCCACT
1 GAGTCGTGGACTTTGAGAAGAGATGCCACT
* * * *
2242583 AAGTCATGAACTTAGAGAAGAGATTGCCACT
1 GAGTCGTGGACTTTGAGAAGAGA-TGCCACT
* *
2242614 GAGTCATGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTG-AGAAGAGATGCCACT
* *
2242645 GAGTCGCGGACTTTGAGAAGAGATTGCCATT
1 GAGTCGTGGACTTTGAGAAGAGA-TGCCACT
* *
2242676 GAGTCGTGGACTTTGAAGAAAAGATGCCACA
1 GAGTCGTGGACTTTG-AGAAGAGATGCCACT
* *
2242707 AAGTCATGGACTTTG-GAAAGAGATGCCACT
1 GAGTCGTGGACTTTGAG-AAGAGATGCCACT
* * *
2242737 GAGTTGTGAACTTAGAGAAGAGATTGCCACT
1 GAGTCGTGGACTTTGAGAAGAGA-TGCCACT
* * * *
2242768 AAGTCATGGATTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTG-AGAAGAGATGCCACT
*
2242799 GAGTCGTGGACTTTGAGAAGAGATTGCCATT
1 GAGTCGTGGACTTTGAGAAGAGA-TGCCACT
* *
2242830 GAGTTGTGGACTTTCAAGGAA-AGATGCCACT
1 GAGTCGTGGACTTT-GA-GAAGAGATGCCACT
* *
2242861 GAGTCGTGGACTTTGGGAAGAGATGCCGCT
1 GAGTCGTGGACTTTGAGAAGAGATGCCACT
* *
2242891 AAGTCGTGGACTTTGAAGAAAAAAGATGCCACT
1 GAGTCGTGGACTTTG-AG--AAGAGATGCCACT
* * *
2242924 AAGTCGTGGACTTGGAAGAAAAGGATGCCACT
1 GAGTCGTGGACTTTG-AGAAGA-GATGCCACT
* *
2242956 GAGTCATAGACTTTGAGAAAAGAGATGCCACT
1 GAGTCGTGGACTTTGAG--AAGAGATGCCACT
2242988 GAGTCGTGGACTTTGAGAA
1 GAGTCGTGGACTTTGAGAA
2243007 AAGAGATTTG
Statistics
Matches: 567, Mismatches: 78, Indels: 56
0.81 0.11 0.08
Matches are distributed among these distances:
29 5 0.01
30 146 0.26
31 272 0.48
32 87 0.15
33 34 0.06
34 23 0.04
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (30 bp):
GAGTCGTGGACTTTGAGAAGAGATGCCACT
Found at i:2242467 original size:154 final size:154
Alignment explanation
Indices: 2242288--2243010 Score: 906
Period size: 154 Copynumber: 4.7 Consensus size: 154
2242278 TGGACTTAAA
* * * *
2242288 AAGAAAAGGTGCCA-TGGAGTTGTGGACTTTG-GGAAGAGATGCCACTGAGTCGTGGACTTTGAG
1 AAGAAAAGATGCCACT-GAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAG
* **
2242351 AAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTAAGAAG
65 AAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCATGGACTTTGGGAAG
* * *
2242416 AGATTGCCACTGAGTCGTGGACTTTG
130 AGA-TGCCACTAAGTCGTGAACTTAG
*
2242442 AAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTT-AGG
1 AAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGA-G
* *
2242506 AAGAGA-TGCCACTGAGTCATGGACTTTGAAAAGAAAA-ATGTGCCACAGAGTCGTGGACTTTGG
65 AAGAGATTGCCACTGAGTCGTGGACTTTG--AAGAAAAGA--TGCCACAGAGTCATGGACTTTGG
*
2242569 GAAGAGATGCCACTAAGTCATGAACTTAG
126 GAAGAGATGCCACTAAGTCGTGAACTTAG
* * *
2242598 -AGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGCGGACTTTGAG
1 AAGAAAAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAG
* * *
2242662 AAGAGATTGCCATTGAGTCGTGGACTTTGAAGAAAAGATGCCACAAAGTCATGGACTTTGGAAAG
65 AAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCATGGACTTTGGGAAG
* *
2242727 AGATGCCACTGAGTTGTGAACTTAG
130 AGATGCCACTAAGTCGTGAACTTAG
* * * *
2242752 -AGAAGAGATTGCCACTAAGTCATGGATTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAG
1 AAGAAAAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAG
* * * * * *
2242816 AAGAGATTGCCATTGAGTTGTGGACTTTCAAGGAAAGATGCCACTGAGTCGTGGACTTTGGGAAG
65 AAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCATGGACTTTGGGAAG
* * *
2242881 AGATGCCGCTAAGTCGTGGACTTTG
130 AGATGCCACTAAGTCGTGAACTTAG
* * * *
2242906 AAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAAGAAAAGGATGCCACTGAGTCATAGACTTTG
1 AAG--AAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTG
2242971 AGAAAAGAGA-TGCCACTGAGTCGTGGACTTTG-AGAAAAGA
63 AG--AAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGA
2243011 GATTTGAAGA
Statistics
Matches: 501, Mismatches: 51, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
154 234 0.47
155 51 0.10
156 108 0.22
157 83 0.17
158 19 0.04
159 6 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.23
Consensus pattern (154 bp):
AAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGA
AGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCATGGACTTTGGGAAGA
GATGCCACTAAGTCGTGAACTTAG
Found at i:2244324 original size:16 final size:16
Alignment explanation
Indices: 2244285--2244327 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
2244275 TTTGCACTCT
*
2244285 TTTTTTTGTGTGTTTTTG
1 TTTTTTT-T-TGTTTTTA
2244303 TTTTTTTTTGTTTTTA
1 TTTTTTTTTGTTTTTA
2244319 TTTTTTTTT
1 TTTTTTTTT
2244328 TTTGTGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.67
17 1 0.04
18 7 0.29
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTGTTTTTA
Found at i:2244338 original size:20 final size:20
Alignment explanation
Indices: 2244284--2244343 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
2244274 CTTTGCACTC
*
2244284 TTTTTTTTGTGTGTTT-TTGT
1 TTTTTTTTGTGT-TTTATTTT
2244304 TTTTTTTTGT-TTTTATTTT
1 TTTTTTTTGTGTTTTATTTT
2244323 TTTTTTTTGTGTTTTACTTTT
1 TTTTTTTTGTGTTTTA-TTTT
2244344 GACTTTTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 3 0.08
19 14 0.39
20 15 0.42
21 4 0.11
ACGTcount: A:0.03, C:0.02, G:0.12, T:0.83
Consensus pattern (20 bp):
TTTTTTTTGTGTTTTATTTT
Found at i:2244827 original size:20 final size:20
Alignment explanation
Indices: 2244802--2244851 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2244792 CAGATATATT
2244802 GATACATTCTTCAATGTATC
1 GATACATTCTTCAATGTATC
* *
2244822 GATACATGT-ATGAATGTATC
1 GATACAT-TCTTCAATGTATC
2244842 GATACATTCT
1 GATACATTCT
2244852 GCCTTTTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (20 bp):
GATACATTCTTCAATGTATC
Found at i:2244875 original size:51 final size:52
Alignment explanation
Indices: 2244815--2244952 Score: 208
Period size: 53 Copynumber: 2.6 Consensus size: 52
2244805 ACATTCTTCA
* * *
2244815 ATGTATCGATACATGTATGAATGTATCGATACATTCTG-C-CTTTTTACCTGG
1 ATGTATCGATACAT-TTTCAATGTATCGATACATTCTGTCTCTTTTTACCCGG
2244866 ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTCTTTTTACCCGG
1 ATGTATCGATACATT-TTCAATGTATCGATACATTCTGTCTCTTTTTACCCGG
2244919 ATGTATCGATACATTTTTCAATGTATCGATACAT
1 ATGTATCGATACA-TTTTCAATGTATCGATACAT
2244953 CTAGTTAAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
50 1 0.01
51 34 0.43
52 1 0.01
53 42 0.52
54 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (52 bp):
ATGTATCGATACATTTTCAATGTATCGATACATTCTGTCTCTTTTTACCCGG
Found at i:2249936 original size:19 final size:18
Alignment explanation
Indices: 2249911--2249975 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
2249901 ATTTCAACGA
2249911 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
2249929 TGTTGTATCGATTC--AA-
1 T-TTGTATCGATACATAAG
2249945 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2249961 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2249976 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
17 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2249949 original size:32 final size:32
Alignment explanation
Indices: 2249913--2249983 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
2249903 TTCAACGATT
*
2249913 TGTATCGATACATAAGTGTTGTATCGATTCAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2249945 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2249977 TGTATCG
1 TGTATCG
2249984 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2250032 original size:20 final size:20
Alignment explanation
Indices: 2250007--2250071 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
2249997 GCCAAGAAAA
2250007 TGTATCGATACACTGATCTT
1 TGTATCGATACACTGATCTT
2250027 TGTATCGAT--AC--A---T
1 TGTATCGATACACTGATCTT
*
2250040 TGTATCAATACACTGATCTT
1 TGTATCGATACACTGATCTT
2250060 TGTATCGATACA
1 TGTATCGATACA
2250072 TGCAGGCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 9 0.25
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
20 21 0.58
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (20 bp):
TGTATCGATACACTGATCTT
Found at i:2250051 original size:33 final size:33
Alignment explanation
Indices: 2250007--2250072 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
2249997 GCCAAGAAAA
*
2250007 TGTATCGATACACTGATCTTTGTATCGATACAT
1 TGTATCAATACACTGATCTTTGTATCGATACAT
2250040 TGTATCAATACACTGATCTTTGTATCGATACAT
1 TGTATCAATACACTGATCTTTGTATCGATACAT
2250073 GCAGGCAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCAATACACTGATCTTTGTATCGATACAT
Found at i:2252230 original size:23 final size:26
Alignment explanation
Indices: 2252204--2252253 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
2252194 ATCAAAATTT
2252204 ATTCAT-CGA-GGAC-CTCCAACCCC
1 ATTCATCCGAGGGACACTCCAACCCC
*
2252227 ATTCCTCCGAGGGGACACTCCAACCCC
1 ATTCATCCGA-GGGACACTCCAACCCC
2252254 GTTTTCAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 5 0.23
24 3 0.14
26 4 0.18
27 10 0.45
ACGTcount: A:0.24, C:0.44, G:0.16, T:0.16
Consensus pattern (26 bp):
ATTCATCCGAGGGACACTCCAACCCC
Found at i:2259026 original size:12 final size:12
Alignment explanation
Indices: 2259011--2259035 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2259001 GGTGAAGTTG
2259011 ATTTTGAAGAAA
1 ATTTTGAAGAAA
2259023 ATTTTGAAGAAA
1 ATTTTGAAGAAA
2259035 A
1 A
2259036 CTCTGTGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATTTTGAAGAAA
Found at i:2259508 original size:13 final size:13
Alignment explanation
Indices: 2259490--2259517 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2259480 TACATAAAAT
2259490 ATTGTATCGATAC
1 ATTGTATCGATAC
2259503 ATTGTATCGATAC
1 ATTGTATCGATAC
2259516 AT
1 AT
2259518 AAATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:2259532 original size:32 final size:33
Alignment explanation
Indices: 2259471--2259535 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
2259461 TTTCAACGAT
2259471 TTGTATCGATACATAAAATATTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
*
2259504 TTGTATCGATACAT-AAATTTTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
2259536 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATAAAATATTGTATCGATACA
Found at i:2275046 original size:29 final size:29
Alignment explanation
Indices: 2275007--2275094 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
2274997 TCACCCTTCA
2275007 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
** *
2275036 AAAGCCCACAAGTTGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
2275065 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
2275095 TTTTTAAAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
29 43 0.86
30 7 0.14
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:2275129 original size:36 final size:34
Alignment explanation
Indices: 2275065--2275193 Score: 156
Period size: 36 Copynumber: 3.8 Consensus size: 34
2275055 CATCTTTTCC
*
2275065 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTC-TTTT
2275100 AAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTT-CTTTT
* *
2275136 AAAGCCTACAACTCCGTGGCAC-CTTGTTCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* * *
2275169 -ATGTCCACAACTTCGTGGCA-TCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT
2275194 CACCCTTTCT
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
32 19 0.23
33 5 0.06
34 4 0.05
35 24 0.29
36 30 0.36
37 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.36
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
Found at i:2275207 original size:68 final size:71
Alignment explanation
Indices: 2275072--2275209 Score: 176
Period size: 68 Copynumber: 2.0 Consensus size: 71
2275062 TCCAAAGTCC
* ***
2275072 ACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTA
1 ACAACTCCGTGGCACTCTTGTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTTTA
2275137 AAGCCT
66 AAGCCT
* * *
2275143 ACAACTCCGTGGCAC-CTTGTTC-TTTT-ATGTCCACAACTTCGTGGCA-TCTTTCACCCTTTCT
1 ACAACTCCGTGGCACTCTTGTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTT-T
2275204 AAAGCC
65 AAAGCC
2275210 CACACAAGTC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
67 10 0.17
68 24 0.41
69 4 0.07
70 6 0.10
71 15 0.25
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (71 bp):
ACAACTCCGTGGCACTCTTGTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTTTA
AAGCCT
Found at i:2275238 original size:33 final size:33
Alignment explanation
Indices: 2275197--2275455 Score: 391
Period size: 33 Copynumber: 7.9 Consensus size: 33
2275187 CATCTTTCAC
2275197 CCTT-TCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
2275229 CCTTCTCTAAAGCCCACACAATTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
2275262 CCTTTTCTAAAGCCCACACAAGTCAGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
2275295 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
2275328 CCTTTTCTGAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
2275361 CCTTCTCTAAAGCCCACACAAGT-GGTGGC-AA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
** *
2275392 CCCCCTCTAAAGGCCACACAAGTCGGTGGC-AA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
2275424 CCTTCTTCAAAAGCCCACACAAGTTGGTGGCA
1 CCTTC-TCTAAAGCCCACACAAGTCGGTGGCA
2275456 TCTACCTTTA
Statistics
Matches: 205, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
31 22 0.11
32 21 0.10
33 162 0.79
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:2275518 original size:49 final size:48
Alignment explanation
Indices: 2275461--2275643 Score: 207
Period size: 43 Copynumber: 3.8 Consensus size: 48
2275451 TGGCATCTAC
*
2275461 CTTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCACCTTCTT
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACCTTC-T
*
2275510 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCT
* *
2275553 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCAGATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-C-T
* * *
2275605 CTTTAAGTTCAATGTAGCTGCCCTTGAATCAGCACATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
2275644 ACATCCTTTT
Statistics
Matches: 114, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
43 39 0.34
45 1 0.01
48 1 0.01
49 38 0.33
50 1 0.01
52 34 0.30
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (48 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCT
Found at i:2275635 original size:52 final size:55
Alignment explanation
Indices: 2275553--2275674 Score: 160
Period size: 52 Copynumber: 2.3 Consensus size: 55
2275543 ACATTGGCAC
* * *
2275553 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCAGATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGCCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
* * *
2275605 CTTTAAGTTCAATGTAGCTGCCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGCCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
*
2275660 CTTTAAGCCCAATAT
1 CTTTAAGTCCAATAT
2275675 CGTTGGCCGT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 36 0.62
53 2 0.03
54 5 0.09
55 15 0.26
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGCCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:2275764 original size:67 final size:68
Alignment explanation
Indices: 2275656--2275782 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
2275646 ATCCTTTTTC
* * *
2275656 TCATCTTTAAGCCCAATATCGTTGGCCGTGAAACAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGATGGCCGTGAAACAACATATTGGCACCTTCATCATCTTTTCTCA
2275720 TCT
66 TCT
* * * * *
2275723 TCATCTTTAAGTCCAATATTGATGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGATGGCCGTGAAACAACATATTGGCACCTTCATCATCTTT
2275783 AAAAATGACG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGATGGCCGTGAAACAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:2276683 original size:52 final size:52
Alignment explanation
Indices: 2276619--2276747 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2276609 ACACTGATCT
*
2276619 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
2276671 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
2276723 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2276748 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:2282063 original size:34 final size:35
Alignment explanation
Indices: 2282025--2282091 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2282015 CCTTACAACA
2282025 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2282059 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2282092 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2282567 original size:13 final size:13
Alignment explanation
Indices: 2282549--2282574 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2282539 CAATTTTTTG
2282549 TGTATCGATACAT
1 TGTATCGATACAT
2282562 TGTATCGATACAT
1 TGTATCGATACAT
2282575 ACTTGCTTGT
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:2282640 original size:21 final size:21
Alignment explanation
Indices: 2282614--2282689 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2282604 CTGCCAAGAA
2282614 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
2282635 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2282655 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2282676 ATGTATCGATACAT
1 ATGTATCGATACAT
2282690 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2282659 original size:20 final size:20
Alignment explanation
Indices: 2282634--2282707 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2282624 ACATCTTTTT
2282634 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
2282654 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
2282675 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
2282695 CATGTATCGATAC
1 CATGTATCGATAC
2282708 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:2282671 original size:41 final size:41
Alignment explanation
Indices: 2282614--2282707 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2282604 CTGCCAAGAA
2282614 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2282655 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2282696 ATGTATCGATAC
1 ATGTATCGATAC
2282708 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2284248 original size:10 final size:10
Alignment explanation
Indices: 2284233--2284289 Score: 80
Period size: 10 Copynumber: 5.7 Consensus size: 10
2284223 CCTTTGCACC
2284233 AAAAAAACAA
1 AAAAAAACAA
2284243 AAAAAAACAA
1 AAAAAAACAA
2284253 AAAAAAACAA
1 AAAAAAACAA
*
2284263 AAAACAA-AA
1 AAAAAAACAA
*
2284272 AAAAAACCAA
1 AAAAAAACAA
2284282 GAAAAAAA
1 -AAAAAAA
2284290 TAGTAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
9 7 0.17
10 28 0.68
11 6 0.15
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:2284256 original size:17 final size:17
Alignment explanation
Indices: 2284232--2284277 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
2284222 TCCTTTGCAC
2284232 CAAAAAAACAAAAAAAAA
1 CAAAAAAA-AAAAAAAAA
*
2284250 CAAAAAAAAACAAAAAA
1 CAAAAAAAAAAAAAAAA
2284267 CAAAAAAAAAA
1 CAAAAAAAAAA
2284278 CCAAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAA
Found at i:2284289 original size:1 final size:1
Alignment explanation
Indices: 2284233--2284277 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
2284223 CCTTTGCACC
* * * *
2284233 AAAAAAACAAAAAAAAACAAAAAAAAACAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2284278 CCAAGAAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2284304 original size:20 final size:18
Alignment explanation
Indices: 2284233--2284305 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 18
2284223 CCTTTGCACC
*
2284233 AAAAAAACAAAAAAAAACAA
1 AAAAAAAC-AGAAAAAA-AA
2284253 AAAAAAACA-AAAAACAAA
1 AAAAAAACAGAAAAA-AAA
2284271 AAAAAAACCAAGAAAAAAATA
1 AAAAAAA-C-AGAAAAAAA-A
*
2284292 GTAAAAAACAGAAA
1 -AAAAAAACAGAAA
2284306 GGGGTCTAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
18 14 0.30
19 3 0.07
20 16 0.35
21 7 0.15
22 6 0.13
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.03
Consensus pattern (18 bp):
AAAAAAACAGAAAAAAAA
Found at i:2294000 original size:28 final size:28
Alignment explanation
Indices: 2293939--2294020 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2293929 TTTTGGAGAT
*
2293939 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
2293967 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
2293995 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
2294021 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:2294064 original size:52 final size:51
Alignment explanation
Indices: 2294004--2294388 Score: 289
Period size: 52 Copynumber: 7.4 Consensus size: 51
2293994 AAATAACGAG
* * *
2294004 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGT-GTTTTGGAAATAAAATCGGA
* * * * *
2294056 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * *
2294108 GTTGGAGTATCCCCGATTGTGCAAAAATTAGTGTTTTAGCAATAAAACCAGG-
1 GTTGGAGTATCCCCGATTATG-AAAAATTGGTGTTTTGGAAATAAAATC-GGA
*** * * *
2294160 GTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * ** * * *
2294211 GTTGGAGTATCCCC--TCA-GAAATAACAGGGTTGGAGTATCTCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTATG-AA-AA-A---TTGGTGT-T-TTGGA-AATAAAATCGGA
*
2294266 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAA-AAATTGGTG--TTTTGGAAATAAAATCGGA
* * *
2294320 GTTGGAGTATCCCTGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGGAAATAAAATCGGA
*
2294371 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
2294389 GTGGAGAATT
Statistics
Matches: 263, Mismatches: 49, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
48 1 0.00
49 4 0.02
50 4 0.02
51 70 0.27
52 95 0.36
53 31 0.12
54 25 0.10
55 20 0.08
56 5 0.02
57 7 0.03
58 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:2294243 original size:28 final size:27
Alignment explanation
Indices: 2294209--2294279 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
2294199 AATAAAGTCG
2294209 GGGTTGGAGTATCCCCTCA-GAAATAACA
1 GGGTTGGAGTATCCCC-CATG-AATAACA
* * * *
2294237 GGGTTGGAGTATCTCCGATGATTAACG
1 GGGTTGGAGTATCCCCCATGAATAACA
2294264 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
2294280 GATTGTGAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCCATGAATAACA
Found at i:2296214 original size:16 final size:14
Alignment explanation
Indices: 2296192--2296227 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
2296182 TGGAATAGTG
2296192 TTTTTTTTTTTGTGT
1 TTTTTTTTTTTG-GT
2296207 TGTTTTTTTTTTGGT
1 T-TTTTTTTTTTGGT
2296222 TTTTTT
1 TTTTTT
2296228 GCTAAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 4 0.20
16 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTTTGGT
Found at i:2296778 original size:13 final size:13
Alignment explanation
Indices: 2296760--2296785 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2296750 CAAAGAATAG
2296760 ATGTATCGATACA
1 ATGTATCGATACA
2296773 ATGTATCGATACA
1 ATGTATCGATACA
2296786 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2296782 original size:34 final size:33
Alignment explanation
Indices: 2296739--2296805 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
2296729 AACTTCCTAG
*
2296739 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
2296773 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
2296806 TTCCCTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Done.