Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 14 of 47
Found at i:1936469 original size:34 final size:35
Alignment explanation
Indices: 1936406--1936472 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1936396 TTAAGTGATT
1936406 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1936442 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1936473 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1937689 original size:32 final size:32
Alignment explanation
Indices: 1937645--1937707 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1937635 GGCACTTAAA
*
1937645 CTTTTTCAAAAGCCTACATGAGCTAGTGGCAT
1 CTTTTTCAAAAGCCTACACGAGCTAGTGGCAT
*
1937677 CTTTTCTC-AAAGCCTGCACGAGCTAGTGGCA
1 CTTTT-TCAAAAGCCTACACGAGCTAGTGGCA
1937708 CTCAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (32 bp):
CTTTTTCAAAAGCCTACACGAGCTAGTGGCAT
Found at i:1937719 original size:37 final size:36
Alignment explanation
Indices: 1937623--1937723 Score: 88
Period size: 32 Copynumber: 2.9 Consensus size: 36
1937613 CAAATAGTAG
* * *
1937623 ACACAAGCTGGTGGCACTTAAACTTTT-TCAAAAGCCT
1 ACACGAGCTAGTGGCACTCAAA-TTTTCTC-AAAGCCT
*
1937660 ACATGAGCTAGTGGCA-TC---TTTTCTCAAAGCCT
1 ACACGAGCTAGTGGCACTCAAATTTTCTCAAAGCCT
*
1937692 GCACGAGCTAGTGGCACTCAAAATTTTC-CAAA
1 ACACGAGCTAGTGGCACTC-AAATTTTCTCAAA
1937724 AGCCCATACA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
32 25 0.48
33 4 0.08
36 5 0.10
37 18 0.35
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (36 bp):
ACACGAGCTAGTGGCACTCAAATTTTCTCAAAGCCT
Found at i:1937724 original size:69 final size:69
Alignment explanation
Indices: 1937628--1937759 Score: 171
Period size: 69 Copynumber: 1.9 Consensus size: 69
1937618 AGTAGACACA
* * * *
1937628 AGCTGGTGGCACTTAAACTTTTTCAAAAG-CC-TACATGAGCTAGTGGCAT-CTTTTCTCAAAGC
1 AGCTAGTGGCACTCAAAATTTTCCAAAAGCCCATACA--AGCTAGTGGCATCCTTTT-TCAAAGC
1937690 CTGCACG
63 CTGCACG
*
1937697 AGCTAGTGGCACTCAAAATTTTCCAAAAGCCCATACAAGCTGGTGGCATCCTTTTTCAAAGCC
1 AGCTAGTGGCACTCAAAATTTTCCAAAAGCCCATACAAGCTAGTGGCATCCTTTTTCAAAGCC
1937760 CGCAGAGTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
69 44 0.80
70 7 0.13
71 4 0.07
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (69 bp):
AGCTAGTGGCACTCAAAATTTTCCAAAAGCCCATACAAGCTAGTGGCATCCTTTTTCAAAGCCTG
CACG
Found at i:1937822 original size:165 final size:159
Alignment explanation
Indices: 1937623--1938059 Score: 451
Period size: 158 Copynumber: 2.7 Consensus size: 159
1937613 CAAATAGTAG
* * * * *
1937623 ACACAAGCTGGTGGCACTTAAACTTTTTCAAAAGCCTACATGAGCTAGTGGCATCTTTTCTCAAA
1 ACACGAGCTGGTGGCACTCAAACCTTTCCAAAAGCCTACATGAGCTAGTGGCATCCTTTCTCAAA
* * * *
1937688 GCCTGCACGAGCTAG-TGGCACTCAAAATTTTCCAAAAGCCCATACAAGCTGGTGGCATCCTTTT
66 GCCTGCACGAGCTAGACGACACTC---A------AAAAGCCCACACAAGCTGGTGGCATCCTTTC
* * *
1937752 TCAAAGCCCGCA-GAGTTGGCGATA-CCTAAAAAG-CC
122 TCAAAGCCCGCATGAATTGGCGACACCCCAAAAAGTCC
*
1937787 TACACGAGCTGGTGGCACTCAAACCTTTCCAAAAGCCTACACGAGCTAGTGGCATCCTTTCTCAA
1 -ACACGAGCTGGTGGCACTCAAACCTTTCCAAAAGCCTACATGAGCTAGTGGCATCCTTTCTCAA
* * *
1937852 AGCTTGCACGAGC-AGACGACACTCAAAAAGCCTACACGAGCTGGTGGCATCCTTTCTCAAAGCC
65 AGCCTGCACGAGCTAGACGACACTCAAAAAGCCCACACAAGCTGGTGGCATCCTTTCTCAAAGCC
*
1937916 CGCATGAATTGGCGGCACCCCAAAAAGTCC
130 CGCATGAATTGGCGACACCCCAAAAAGTCC
* * * * * * *
1937946 ACATGAGTTAGTGGCACTCAAACCTTTCCAAAAGCCCACATGAACTGGTGGCATCGTTTCTCAAA
1 ACACGAGCTGGTGGCACTCAAACCTTTCCAAAAGCCTACATGAGCTAGTGGCATCCTTTCTCAAA
* * *
1938011 GACC-GCACGAGCT-GGC-AGCAC-CTAAAAAGCCCACACAAGTTAGTGGCAT
66 G-CCTGCACGAGCTAGACGA-CACTC-AAAAAGCCCACACAAGCTGGTGGCAT
1938060 TTAAACCTTT
Statistics
Matches: 233, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
156 39 0.17
157 11 0.05
158 101 0.43
159 3 0.01
162 1 0.00
164 2 0.01
165 76 0.33
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (159 bp):
ACACGAGCTGGTGGCACTCAAACCTTTCCAAAAGCCTACATGAGCTAGTGGCATCCTTTCTCAAA
GCCTGCACGAGCTAGACGACACTCAAAAAGCCCACACAAGCTGGTGGCATCCTTTCTCAAAGCCC
GCATGAATTGGCGACACCCCAAAAAGTCC
Found at i:1937852 original size:96 final size:97
Alignment explanation
Indices: 1937685--1937900 Score: 274
Period size: 96 Copynumber: 2.2 Consensus size: 97
1937675 ATCTTTTCTC
* * * * *
1937685 AAAGCCTGCACGAGCTAGTGGCACTCAAAATTTTCCAAAAGCCCATACAAGCTGGTGGCATCCTT
1 AAAGCCTACACGAGCTGGTGGCACTCAAAACTTTCCAAAAGCCCACACAAGCTAGTGGCATCCTT
* ** * *
1937750 TTTCAAAGCCCGCA-GAGTTGGCGATAC-CTAA
66 TCTCAAAGCCCGCACGAGCAGACGACACTC-AA
* * *
1937781 AAAGCCTACACGAGCTGGTGGCACTCAAACCTTTCCAAAAGCCTACACGAGCTAGTGGCATCCTT
1 AAAGCCTACACGAGCTGGTGGCACTCAAAACTTTCCAAAAGCCCACACAAGCTAGTGGCATCCTT
**
1937846 TCTCAAAGCTTGCACGAGCAGACGACACTCAA
66 TCTCAAAGCCCGCACGAGCAGACGACACTCAA
1937878 AAAGCCTACACGAGCTGGTGGCA
1 AAAGCCTACACGAGCTGGTGGCA
1937901 TCCTTTCTCA
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
96 68 0.66
97 34 0.33
98 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (97 bp):
AAAGCCTACACGAGCTGGTGGCACTCAAAACTTTCCAAAAGCCCACACAAGCTAGTGGCATCCTT
TCTCAAAGCCCGCACGAGCAGACGACACTCAA
Found at i:1938077 original size:97 final size:98
Alignment explanation
Indices: 1937877--1938078 Score: 262
Period size: 98 Copynumber: 2.1 Consensus size: 98
1937867 ACGACACTCA
* * * * * *
1937877 AAAAGCCTACACGAGCTGGTGGCATCCTTTCTCAAAGCCCGCATGAATTGGCGGCACCCCAAAAA
1 AAAAGCCCACACGAACTGGTGGCATCCTTTCTCAAAGACCGCACGAACTGGCAGCACCCCAAAAA
* **
1937942 GTCCACATGAGTTAGTGGCACTCAAACCTTTCC
66 GCCCACACAAGTTAGTGGCACTCAAACCTTTCC
* * * *
1937975 AAAAGCCCACATGAACTGGTGGCATCGTTTCTCAAAGACCGCACGAGCTGGCAGCA-CCTAAAAA
1 AAAAGCCCACACGAACTGGTGGCATCCTTTCTCAAAGACCGCACGAACTGGCAGCACCCCAAAAA
* *
1938039 GCCCACACAAGTTAGTGGCATTTAAACCTTTCC
66 GCCCACACAAGTTAGTGGCACTCAAACCTTTCC
1938072 AAAAGCC
1 AAAAGCC
1938079 TGCATGAGCT
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
97 42 0.47
98 47 0.53
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (98 bp):
AAAAGCCCACACGAACTGGTGGCATCCTTTCTCAAAGACCGCACGAACTGGCAGCACCCCAAAAA
GCCCACACAAGTTAGTGGCACTCAAACCTTTCC
Found at i:1938085 original size:97 final size:98
Alignment explanation
Indices: 1937877--1938085 Score: 267
Period size: 97 Copynumber: 2.1 Consensus size: 98
1937867 ACGACACTCA
* * * * * *
1937877 AAAAGCCTACACGAGCTGGTGGCATCCTTTCTCAAAGCCCGCATGAATTGGCGGCACCCCAAAAA
1 AAAAGCCTACATGAACTGGTGGCATCCTTTCTCAAAGACCGCACGAACTGGCAGCACCCCAAAAA
* **
1937942 GTCCACATGAGTTAGTGGCACTCAAACCTTTCC
66 GCCCACACAAGTTAGTGGCACTCAAACCTTTCC
* * * *
1937975 AAAAGCCCACATGAACTGGTGGCATCGTTTCTCAAAGACCGCACGAGCTGGCAGCA-CCTAAAAA
1 AAAAGCCTACATGAACTGGTGGCATCCTTTCTCAAAGACCGCACGAACTGGCAGCACCCCAAAAA
* *
1938039 GCCCACACAAGTTAGTGGCATTTAAACCTTTCC
66 GCCCACACAAGTTAGTGGCACTCAAACCTTTCC
*
1938072 AAAAGCCTGCATGA
1 AAAAGCCTACATGA
1938086 GCTAGCGGCA
Statistics
Matches: 94, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
97 47 0.50
98 47 0.50
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (98 bp):
AAAAGCCTACATGAACTGGTGGCATCCTTTCTCAAAGACCGCACGAACTGGCAGCACCCCAAAAA
GCCCACACAAGTTAGTGGCACTCAAACCTTTCC
Found at i:1943447 original size:13 final size:13
Alignment explanation
Indices: 1943426--1943456 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1943416 CGATACATGG
*
1943426 TACAATGTATCGA
1 TACATTGTATCGA
1943439 TACATTGTATCGA
1 TACATTGTATCGA
1943452 TACAT
1 TACAT
1943457 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1943452 original size:33 final size:33
Alignment explanation
Indices: 1943410--1943476 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1943400 CTACCACTGT
*
1943410 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
1943443 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
1943476 T
1 T
1943477 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:1949467 original size:13 final size:13
Alignment explanation
Indices: 1949449--1949486 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1949439 TATTCCTTGA
1949449 ATCGATACATTGT
1 ATCGATACATTGT
*
1949462 ATCGATACACTGT
1 ATCGATACATTGT
*
1949475 ATCGATATATTG
1 ATCGATACATTG
1949487 GGTACTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
ATCGATACATTGT
Found at i:1952029 original size:20 final size:19
Alignment explanation
Indices: 1951987--1952040 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
1951977 GTATCAATAC
**
1951987 ATTGTATGATACAT-GTTA
1 ATTGTATGATACATGGACA
1952005 ATTGTATCGATACATGGACA
1 ATTGTAT-GATACATGGACA
1952025 ATTGTATTGATACATG
1 ATTGTA-TGATACATG
1952041 AGATTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.23
19 7 0.23
20 16 0.52
21 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (19 bp):
ATTGTATGATACATGGACA
Found at i:1953903 original size:69 final size:71
Alignment explanation
Indices: 1953774--1953937 Score: 242
Period size: 70 Copynumber: 2.3 Consensus size: 71
1953764 GGAGACATGT
* * *
1953774 TTGGGTTCCTTGATTAATTTAAGTCAAAAAAACGAGTATGACTCGAAATTTAGGATAG-AAAAAA
1 TTGGGTTCCTTGATTAATTGAAGTCAAAAAAACAAGTATGACTCGAAATTTAGGAGAGAAAAAAA
1953838 ACGTGC
66 ACGTGC
* * * *
1953844 TTGGGTTCCTTGATGAATTGAAGTC-GAAAAACAAGTATGACTCGAAATTTGGGGGAGAAAAAAA
1 TTGGGTTCCTTGATTAATTGAAGTCAAAAAAACAAGTATGACTCGAAATTTAGGAGAGAAAAAAA
*
1953908 ATGTGC
66 ACGTGC
1953914 TTGGGTTCCTTGATTAATTGAAGT
1 TTGGGTTCCTTGATTAATTGAAGT
1953938 TCAATTTTTG
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
69 27 0.32
70 57 0.68
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (71 bp):
TTGGGTTCCTTGATTAATTGAAGTCAAAAAAACAAGTATGACTCGAAATTTAGGAGAGAAAAAAA
ACGTGC
Found at i:1960165 original size:52 final size:51
Alignment explanation
Indices: 1960095--1960224 Score: 154
Period size: 51 Copynumber: 2.5 Consensus size: 51
1960085 GCATGTATTA
* * **
1960095 ATACATTGAAGAGTGTATCGATACATGTGGT-TCAAAAACCTATGATGTATCG
1 ATACAATGAAGAATGTATCGATACAT-TGGTGTC-AAAACCTAAAATGTATCG
*
1960147 ATACAATGAAGAATGTATCGATACATTTGTGTCAAAACCTAAAATGTATCG
1 ATACAATGAAGAATGTATCGATACATTGGTGTCAAAACCTAAAATGTATCG
* * * *
1960198 ATATAATAAAAAATATATCGATACATT
1 ATACAATGAAGAATGTATCGATACATT
1960225 TTCATTCCAG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
51 42 0.62
52 26 0.38
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (51 bp):
ATACAATGAAGAATGTATCGATACATTGGTGTCAAAACCTAAAATGTATCG
Found at i:1960308 original size:20 final size:20
Alignment explanation
Indices: 1960283--1960322 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1960273 TTTCAAACAG
*
1960283 GTATCGATACATTTACTTAT
1 GTATCGATACATTCACTTAT
1960303 GTATCGATACATTCACTTAT
1 GTATCGATACATTCACTTAT
1960323 TATATCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTCACTTAT
Found at i:1962596 original size:156 final size:156
Alignment explanation
Indices: 1962162--1963323 Score: 891
Period size: 156 Copynumber: 7.5 Consensus size: 156
1962152 AAAGGGCTAA
* * * * * * *
1962162 GTTCAAAAAACATTACGAAAAT-GCTTCTAGGGGATAACTTCGATGTAAAAGTACCT-GATACCC
1 GTTCTAAAAA-ATTACGAAAATACCCT-TAGGGGATACCTTCGACGTGAAAGTATCTCGATA-CC
* * * * * * * *
1962225 CTAAAGGATTTAAAAAGGATTACAAATTGGGATGAACTTATCCTAAATACCCATCTTCGGCATAA
63 CTAAAGGACTTAAAAAGGACTATAAAATGGGATGAACCTATCCTAAATATCCACCTTCAGCATAA
** * * * *
1962290 AAGCAGACTC---GATGA-C---GAGTTG
128 AAATAGACCCAGTGATAACCTAGGACTCG
* * * * *
1962312 GTTCTGAAATATTACAAAAATACCCCTAGGGGATACCTTCGACGTGGAAGTATCT-GATACCCCT
1 GTTCTAAAAAATTACGAAAATACCCTTAGGGGATACCTTCGACGTGAAAGTATCTCGATA-CCCT
* * * * * * **
1962376 AAAAGACTTAAAAAGAATTAT-AGATAGGATGAGCCTATCCTAAATA-CTCACCTTCAATATAAA
65 AAAGGACTTAAAAAGGACTATAAAATGGGATGAACCTATCCTAAATATC-CACCTTCAGCATAAA
* * *
1962439 AATAGACCTAGTGATAACTTAAGACTCG
129 AATAGACCCAGTGATAACCTAGGACTCG
* * *
1962467 GTTCTACAAAATTACGAAAATACCCTTAGGGGATACCTTCAACGTGAAAGTATCTCGGTACCCTT
1 GTTCTAAAAAATTACGAAAATACCCTTAGGGGATACCTTCGACGTGAAAGTATCTCGATACCC-T
* * *
1962532 AAAAGACTTAAAAAGGACTATAAAAGGGGA-GAACCTATCCTAAATATCCACCTTTAGCATAAAA
65 AAAGGACTTAAAAAGGACTATAAAATGGGATGAACCTATCCTAAATATCCACCTTCAGCATAAAA
* * *
1962596 ATGGACCCGGTGATAACTTAGGACTCG
130 ATAGACCCAGTGATAACCTAGGACTCG
* * * * * *
1962623 GCTT-T-GAAAATTATGAAAATATCTTTAGGGGATACCTTTGACGTGAAAGTATCCCGATACCCC
1 G-TTCTAAAAAATTACGAAAATACCCTTAGGGGATACCTTCGACGTGAAAGTATCTCGATA-CCC
* * **
1962686 TAAAGGACTT-AAAAGGACTATAAAATGAG-TGAACCTATCCTAAATACCCACCTTTGGCATAAA
64 TAAAGGACTTAAAAAGGACTATAAAATGGGATGAACCTATCCTAAATATCCACCTTCAGCATAAA
* * *
1962749 AGTGGACCCAGTGATAACCTAGGTCTCG
129 AATAGACCCAGTGATAACCTAGGACTCG
* * * * * * *
1962777 GTTCTAAAAAA-TATGAAAATGCCCCTAGGGGTATACCTTTGACATTAAAGTATTTCGATAACCC
1 GTTCTAAAAAATTACGAAAATACCCTTAGGGG-ATACCTTCGACGTGAAAGTATCTCGAT-ACCC
* * * * *
1962841 TAAATGACTTAAAAAGGATTATAAAA-AGGATAAACCTATCCTAAATACCCACCTTCAGCATAAA
64 TAAAGGACTTAAAAAGGACTATAAAATGGGATGAACCTATCCTAAATATCCACCTTCAGCATAAA
** * *** *
1962905 AGCAAACTTGGTGATAACCTAGTACTCG
129 AATAGACCCAGTGATAACCTAGGACTCG
* * * ** * *
1962933 ATTCTAAAAAATTACGAAAATGCTCC-TACAGTTATATCTTCGACGTAAAAGTATCTCGATAACC
1 GTTCTAAAAAATTACGAAAATAC-CCTTA-GGGGATACCTTCGACGTGAAAGTATCTCGAT-ACC
* * * * * *
1962997 CTAAAGGACATAAAAA-GACTA-GAGATGGGATGAACCTATCATAAATATCTACCTTCAACATAA
63 CTAAAGGACTTAAAAAGGACTATAAAATGGGATGAACCTATCCTAAATATCCACCTTCAGCATAA
* * *
1963060 AAGTAGACCCGGTGACAACCTAGGACTCG
128 AAATAGACCCAGTGATAACCTAGGACTCG
* * * * * * * * * *
1963089 GCTCAAAAAAATTACGAAAATGCTCTTATGGGTATACCTTTGACGTAAAAGTATCCCGGTAACCT
1 GTTCTAAAAAATTACGAAAATACCCTTA-GGGGATACCTTCGACGTGAAAGTATCTCGAT-ACCC
* * * * *
1963154 TAAAGGACTTAAAAA-GACTA-GAGATGGGATGAACCTATCTTAAATATCTACCTTCGGCAT-AA
64 TAAAGGACTTAAAAAGGACTATAAAATGGGATGAACCTATCCTAAATATCCACCTTCAGCATAAA
** * *
1963216 AAGCGAACCCAATGACAACCTAGGACTCG
129 AATAG-ACCCAGTGATAACCTAGGACTCG
* * * * * * *
1963245 GTTCTAAAAAATTATGAAAATGCCCCCTTAAGGTATACCTTCGACGTGAGAGTA-CCCAATATCC
1 GTTCTAAAAAATTACGAAAAT--ACCCTTAGGGGATACCTTCGACGTGAAAGTATCTCGATA-CC
1963309 CTAAAGGACTTAAAA
63 CTAAAGGACTTAAAA
1963324 TGATAAGAGA
Statistics
Matches: 826, Mismatches: 155, Indels: 56
0.80 0.15 0.05
Matches are distributed among these distances:
147 1 0.00
148 36 0.04
149 60 0.07
150 8 0.01
151 4 0.00
153 2 0.00
154 90 0.11
155 158 0.19
156 379 0.46
157 80 0.10
158 8 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (156 bp):
GTTCTAAAAAATTACGAAAATACCCTTAGGGGATACCTTCGACGTGAAAGTATCTCGATACCCTA
AAGGACTTAAAAAGGACTATAAAATGGGATGAACCTATCCTAAATATCCACCTTCAGCATAAAAA
TAGACCCAGTGATAACCTAGGACTCG
Found at i:1963191 original size:312 final size:311
Alignment explanation
Indices: 1962341--1963323 Score: 989
Period size: 312 Copynumber: 3.2 Consensus size: 311
1962331 ATACCCCTAG
* * * * *
1962341 GGGATACCTTCGACGTGGAAGTATCT-GATACCCCTAAAAGACTTAAAAAGAATTATAGATAGGA
1 GGGATACCTTCGACGTGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAG-ACTAAAGATGGGA
* * * * * *
1962405 TGAGCCTATCCTAAATACTCACCTTCAATATAAAAATAGACCTAGTGATAACTTAAGACTCGGTT
65 TGAACCTATCCTAAATACT-ACCTTCAACATAAAAGTAGACCCAGTGATAACCTAGGACTCGGTT
* * * ** * *
1962470 CTACAAAATTACGAAAATACCCTTAGGGGATACCTTCAACGTGAAAGTATCTCGGTACCCTTAAA
129 CTAAAAAATTACGAAAATGCCCTTAGGGTATACCTTTGACGTAAAAGTATCTCGGTAACCTTAAA
* * **
1962535 AGACTTAAAAAGGACTATAAAAGGGGA-GAACCTATCCTAAATATCCACCTTTAGCATAAAAATG
194 AGACTTAAAAAGGACTA-AAAAAGGGATGAACCTATCCTAAATATCCACCTTCAGCATAAAAGCG
* * * * * * *
1962599 GACCCGGTGATAACTTAGGACTCGGCTT-T-GAAAATTATGAAAAT-ATCTTTAG
258 AACCCGGTGATAACCTAGGACTC-GATTCTAAAAAATTATGAAAATGCTCTCTAA
* * * * *
1962651 GGGATACCTTTGACGTGAAAGTATCCCGATACCCCTAAAGGACTTAAAAGGACTATAAAATGAG-
1 GGGATACCTTCGACGTGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGACTA-AAGATGGGA
* *** * *
1962715 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGTGGACCCAGTGATAACCTAGGTCTCGGTT
65 TGAACCTATCCTAAATA-CTACCTTCAACATAAAAGTAGACCCAGTGATAACCTAGGACTCGGTT
* * * * * * *
1962780 CTAAAAAA-TATGAAAATGCCCCTAGGGGTATACCTTTGACATTAAAGTATTTCGATAACCCTAA
129 CTAAAAAATTACGAAAATGCCCTTA-GGGTATACCTTTGACGTAAAAGTATCTCGGTAACCTTAA
* * * *
1962844 ATGACTTAAAAAGGATTATAAAAA-GGATAAACCTATCCTAAATACCCACCTTCAGCATAAAAGC
193 AAGACTTAAAAAGGACTA-AAAAAGGGATGAACCTATCCTAAATATCCACCTTCAGCATAAAAGC
* ** * *
1962908 AAACTTGGTGATAACCTAGTACTCGATTCTAAAAAATTACGAAAATGCTC-CTACA
257 GAACCCGGTGATAACCTAGGACTCGATTCTAAAAAATTATGAAAATGCTCTCTA-A
** * * * * *
1962963 GTTATATCTTCGACGTAAAAGTATCTCGATAACCCTAAAGGACATAAAAAGACTAGAGATGGGAT
1 GGGATACCTTCGACGTGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGACTAAAGATGGGAT
* * * *
1963028 GAACCTATCATAAATATCTACCTTCAACATAAAAGTAGACCCGGTGACAACCTAGGACTCGGCTC
66 GAACCTATCCTAAATA-CTACCTTCAACATAAAAGTAGACCCAGTGATAACCTAGGACTCGGTTC
* * *
1963093 AAAAAAATTACGAAAATGCTCTTATGGGTATACCTTTGACGTAAAAGTATCCCGGTAACCTTAAA
130 TAAAAAATTACGAAAATGCCCTTA-GGGTATACCTTTGACGTAAAAGTATCTCGGTAACCTTAAA
* * * * * * *
1963158 GGACTTAAAAA-GACTAGAGATGGGATGAACCTATCTTAAATATCTACCTTCGGCATAAAAGCGA
194 AGACTTAAAAAGGACTAAAAAAGGGATGAACCTATCCTAAATATCCACCTTCAGCATAAAAGCGA
** * * * *
1963222 ACCCAATGACAACCTAGGACTCGGTTCTAAAAAATTATGAAAATGCCCCCTTAA
259 ACCCGGTGATAACCTAGGACTCGATTCTAAAAAATTATGAAAATGCTCTC-TAA
* * * * *
1963276 GGTATACCTTCGACGTGAGAGTA-CCCAATATCCCTAAAGGACTTAAAA
1 GGGATACCTTCGACGTGAAAGTATCTCGATACCCCTAAAGGACTTAAAA
1963324 TGATAAGAGA
Statistics
Matches: 542, Mismatches: 117, Indels: 26
0.79 0.17 0.04
Matches are distributed among these distances:
309 19 0.04
310 185 0.34
311 49 0.09
312 209 0.39
313 78 0.14
314 2 0.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (311 bp):
GGGATACCTTCGACGTGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGACTAAAGATGGGAT
GAACCTATCCTAAATACTACCTTCAACATAAAAGTAGACCCAGTGATAACCTAGGACTCGGTTCT
AAAAAATTACGAAAATGCCCTTAGGGTATACCTTTGACGTAAAAGTATCTCGGTAACCTTAAAAG
ACTTAAAAAGGACTAAAAAAGGGATGAACCTATCCTAAATATCCACCTTCAGCATAAAAGCGAAC
CCGGTGATAACCTAGGACTCGATTCTAAAAAATTATGAAAATGCTCTCTAA
Found at i:1964214 original size:19 final size:19
Alignment explanation
Indices: 1964187--1964242 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1964177 TGCATCCATA
* *
1964187 CATTATATCGATACATGTT
1 CATTGTATCGATACATGCT
* *
1964206 CATTGTATCGATACCTACT
1 CATTGTATCGATACATGCT
1964225 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
1964243 AAAGTAGCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:1974995 original size:166 final size:162
Alignment explanation
Indices: 1974812--1975397 Score: 610
Period size: 166 Copynumber: 3.6 Consensus size: 162
1974802 GAAAATACAG
*
1974812 ATTTCAAAGAAAAAATTCAAAAACTCATGAAGATGAAAGAATTTTT-AGAAACTAAATTAATATG
1 ATTTC-AAGAAAAAATTCAAAAACTCATGAAAATGAAAGAATTTTTGA-AAACTAAATTAATATG
* *
1974876 AAATAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCTCAAAAAATCCCCTTGAAAAAAA
64 AAATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACC-CAAAAAAT-CCCTTGAAAAAAA
*
1974941 TTACGGAGTAAAAACTACCGTATTTTAGAAAAAGAGA
127 TTACGGAGTAAAAAC-ACCGTATTTTAGAAAAAAAGA
*
1974978 ATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATA-AATTTTTAAAAACTAAATTAATATG
1 ATTTCAA-GAAAAAATTCAAAAACTCATGAAAATGAA-AGAATTTTTGAAAACTAAATTAATATG
* * * *
1975042 AATTAAATAATGATGTTTGATAAATTTTAAAAATTGAAAA-CC------T--C----AAAAAATT
64 AAATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCCAAAAAATCCCTTGAAAAAAATT
* * *
1975094 ACGAAGTAAAAAACACTGTATTTTGGAAAAAAAGGA
129 ACGGAGT-AAAAACACCGTATTTTAGAAAAAAA-GA
* * * * * * * *
1975130 ATTTCAAGAAAAAATTAAAAAAATAATGAAAATGAATGTATTTTTGAAAAATGAATTAATATCAA
1 ATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAAAGAATTTTTGAAAACTAAATTAATATGAA
** * *
1975195 ATAAATTGTAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCTCTTGAAAAAATTT
66 ATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCCA-AAAAATCC-CTTGAAAAAAATT
** * *
1975260 ATAGAGTAGAAAACACCGTATTTCAAAAAAAAAGAA
129 ACGGAGTA-AAAACACCGTATTTTAGAAAAAAAG-A
* ** * * * * *
1975296 ATTTCAAGAAAAAAAT-AAAAACTCATGAAAATGAATTAATTTTTGTAAAGTGATTTAATATAAA
1 ATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAAAGAATTTTTGAAAACTAAATTAATATGAA
*
1975360 ATAAATAATAATATTTGATGAATTTTAAAAATTAAAAA
66 ATAAATAATAATATTTGATGAATTTTAAAAATTGAAAA
1975398 TTAAGAATAA
Statistics
Matches: 354, Mismatches: 43, Indels: 47
0.80 0.10 0.11
Matches are distributed among these distances:
151 110 0.31
152 16 0.05
155 1 0.00
158 1 0.00
159 1 0.00
162 1 0.00
164 1 0.00
165 80 0.23
166 141 0.40
167 2 0.01
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.29
Consensus pattern (162 bp):
ATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAAAGAATTTTTGAAAACTAAATTAATATGAA
ATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCCAAAAAATCCCTTGAAAAAAATTAC
GGAGTAAAAACACCGTATTTTAGAAAAAAAGA
Found at i:1975092 original size:151 final size:151
Alignment explanation
Indices: 1974935--1975234 Score: 399
Period size: 151 Copynumber: 2.0 Consensus size: 151
1974925 ATCCCCTTGA
* * *
1974935 AAAAAATTACGGAGT-AAAAACTACCGTATTTTAGAAAAAGA-GAATTTCAAGGAAAAAATTCAA
1 AAAAAATTACGAAGTAAAAAAC-ACCGTATTTTAGAAAAAAAGGAATTTCAA-GAAAAAATTAAA
* * * * * *
1974998 AAACTCATGAAAATGAATAAATTTTT-AAAAACTAAATTAATATGAATTAAATAATGATGTTTGA
64 AAAATAATGAAAATGAATAAATTTTTGAAAAA-TAAATTAATATCAAATAAATAATAATATTTGA
1975062 TAAATTTTAAAAATTGAAAACCTC
128 TAAATTTTAAAAATTGAAAACCTC
* *
1975086 AAAAAATTACGAAGTAAAAAACACTGTATTTTGGAAAAAAAGGAATTTCAAGAAAAAATTAAAAA
1 AAAAAATTACGAAGTAAAAAACACCGTATTTTAGAAAAAAAGGAATTTCAAGAAAAAATTAAAAA
** * ** *
1975151 AATAATGAAAATGAATGTATTTTTGAAAAATGAATTAATATCAAATAAATTGTAATATTTGATGA
66 AATAATGAAAATGAATAAATTTTTGAAAAATAAATTAATATCAAATAAATAATAATATTTGATAA
1975216 ATTTTAAAAATTGAAAACC
131 ATTTTAAAAATTGAAAACC
1975235 AAGAAAAATC
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
151 109 0.84
152 20 0.16
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.29
Consensus pattern (151 bp):
AAAAAATTACGAAGTAAAAAACACCGTATTTTAGAAAAAAAGGAATTTCAAGAAAAAATTAAAAA
AATAATGAAAATGAATAAATTTTTGAAAAATAAATTAATATCAAATAAATAATAATATTTGATAA
ATTTTAAAAATTGAAAACCTC
Found at i:1976535 original size:170 final size:170
Alignment explanation
Indices: 1976345--1977118 Score: 639
Period size: 170 Copynumber: 4.5 Consensus size: 170
1976335 TTGACAAAGG
* * * * *
1976345 AAGTCTCCCGGGTTTAAGCCAATAGGCAAACAATTGACAAAGGAAGTCTCTCGGGTCTGAGCCGA
1 AAGTCTCCCGAGTCTAAGCCAACAGGCAAACAATTGACAAAGGAAGTCTCCCGGGTCTAAGCCGA
* * * * *
1976410 TGGGCAGACAATTGACAAAGAAAGTTTCCCGAGTCTAAGTCGACCGACAAACGATTGATGGAAAA
66 TGGGCAGACAATTGATAAAGGAAGTCTCCCGAGTCTAAGTCGACGGGCAAACGATTGATGGAAAA
** ** *
1976475 ATCTCCTGGGTCTAAGCTGACAAGCAGACGATTGATGGAA
131 ATCTCCTGGGTCTAAGCCAACGGGCAGACAATTGATGGAA
* * * * * *
1976515 AAGTCTCTCGAGACTAAGCCAACGGGTAGACAATTGACAAAGGAAGTCTCCCTGGTCTAAGCCGA
1 AAGTCTCCCGAGTCTAAGCCAACAGGCAAACAATTGACAAAGGAAGTCTCCCGGGTCTAAGCCGA
* * * *
1976580 TGGGCAAACGATTGATAAAGGAAGTCTCCCTGA-TCTAAGCCGACGGGCAAACAATTGATGGAAA
66 TGGGCAGACAATTGATAAAGGAAGTCTCCC-GAGTCTAAGTCGACGGGCAAACGATTGATGGAAA
* ** *
1976644 AGTCTCCCAGGTCTAAGCCAACGGGCAGACAATTGATAGAA
130 AATCTCCTGGGTCTAAGCCAACGGGCAGACAATTGATGGAA
** * ** * * * *
1976685 AAGTCTCCCGAGTCTAAGCCAATGGGTAAATGATTGATGAAA--AATTCTCTCGGGTCTAAGCCA
1 AAGTCTCCCGAGTCTAAGCCAACAGGCAAACAATTGA-CAAAGGAAGTCTCCCGGGTCTAAGCCG
* * ** * * * *
1976748 ACGGCCAGATGATTGATAAAGGAAGTCTCCCGAGTCTGAACT-GACGGGCAGATGATTGAT-AAA
65 ATGGGCAGACAATTGATAAAGGAAGTCTCCCGAGTCT-AAGTCGACGGGCAAACGATTGATGGAA
* *
1976811 ATAAGTCT-CTCGGGTCTAAACCCACGGGCAGACAATTGATGGAA
129 A-AA-TCTCCT-GGGTCTAAGCCAACGGGCAGACAATTGATGGAA
* * * * * ** *
1976855 AAGTCTCCCAAGTCTAAGCCGACAAGCAGACGATTGACAAAATAAGTCTCCCGGGTCTAAGCTGA
1 AAGTCTCCCGAGTCTAAGCCAACAGGCAAACAATTGACAAAGGAAGTCTCCCGGGTCTAAGCCGA
* * * * * * * * *
1976920 TGGGCAGACAATTAATAAAGGAATGTCTCCTGGGTCTAAGCCGATGGGTAGATGATTGATGGGAA
66 TGGGCAGACAATTGATAAAGGAA-GTCTCCCGAGTCTAAGTCGACGGGCAAACGATTGATGGAAA
* ** ** * *
1976985 AGTCT-CTCAAGTCTAAGCTGATGGGCAGA-AGATTGATGAAA
130 AATCTCCT-GGGTCTAAGCCAACGGGCAGACA-ATTGATGGAA
* ** * * * * *
1977026 AAGTCTCCCGGGTCTAAGCTGACGGGCAGACAATTGACAAA-AAGAGTCTCACGAGTCTAAGCCG
1 AAGTCTCCCGAGTCTAAGCCAACAGGCAAACAATTGACAAAGGA-AGTCTCCCGGGTCTAAGCCG
* ** *
1977090 ACGGGCAGATGATTGAAAAAGGAAGTCTC
65 ATGGGCAGACAATTGATAAAGGAAGTCTC
1977119 TCAGGTTTGA
Statistics
Matches: 485, Mismatches: 105, Indels: 28
0.78 0.17 0.05
Matches are distributed among these distances:
168 5 0.01
169 67 0.14
170 239 0.49
171 144 0.30
172 28 0.06
173 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (170 bp):
AAGTCTCCCGAGTCTAAGCCAACAGGCAAACAATTGACAAAGGAAGTCTCCCGGGTCTAAGCCGA
TGGGCAGACAATTGATAAAGGAAGTCTCCCGAGTCTAAGTCGACGGGCAAACGATTGATGGAAAA
ATCTCCTGGGTCTAAGCCAACGGGCAGACAATTGATGGAA
Found at i:1976804 original size:43 final size:43
Alignment explanation
Indices: 1976263--1977383 Score: 575
Period size: 43 Copynumber: 26.4 Consensus size: 43
1976253 AATGATGAAA
* * ** *
1976263 AAGTCTCTCGAGTCTAAG-C--CGGGCAGACAAAAGATAAA-A
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * * * *
1976302 AAGTCTCCTGAGTCTGAGCCGACGAGCAGTCGATTGACAAAGG
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * * ** * * *
1976345 AAGTCTCCCGGGTTTAAGCCAATAGGCAAACAATTGACAAAGG
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * * * * * *
1976388 AAGTCTCTCGGGTCTGAGCCGATGGGCAGACAATTGACAAAGA
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * * * *
1976431 AAGTTTCCCGAGTCTAAGTCGACCGACAAACGATTGATGGAAA--
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGAT--AAAGG
* * * ** *
1976474 AA-TCTCCTGGGTCTAAGCTGACAAGCAGACGATTGATGGAA--
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGAT-AAAGG
* * * * * *
1976515 AAGTCTCTCGAGACTAAGCCAACGGGTAGACAATTGACAAAGG
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* *
1976558 AAGTCTCCCTG-GTCTAAGCCGATGGGCAAACGATTGATAAAGG
1 AAGTCTCCC-GAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * *
1976601 AAGTCTCCCTGA-TCTAAGCCGACGGGCAAACAATTGATGGAA--
1 AAGTCTCCC-GAGTCTAAGCCGACGGGCAGACGATTGAT-AAAGG
* *
1976643 AAGTCTCCC-AGGTCTAAGCCAACGGGCAGACAATTGATAGAA--
1 AAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGATA-AAGG
* * * * *
1976685 AAGTCTCCCGAGTCTAAGCCAATGGGTAAATGATTGATGAAA--
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGAT-AAAGG
* * * * * *
1976727 AATTCTCTCGGGTCTAAGCCAACGGCCAGATGATTGATAAAGG
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * **
1976770 AAGTCTCCCGAGTCTGAA-CTGACGGGCAGATGATTGATAAAAT
1 AAGTCTCCCGAGTCT-AAGCCGACGGGCAGACGATTGATAAAGG
* * * * * *
1976813 AAGTCTCTCGGGTCTAAACCCACGGGCAGACAATTGATGGAA--
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGAT-AAAGG
* ** * **
1976855 AAGTCTCCCAAGTCTAAGCCGACAAGCAGACGATTGACAAAAT
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * * * *
1976898 AAGTCTCCCGGGTCTAAGCTGATGGGCAGACAATTAATAAAGG
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * * * * *
1976941 AATGTCTCCTGGGTCTAAGCCGATGGGTAGATGATTGAT--GGG
1 AA-GTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * * * *
1976983 AAAGTCTCTCAAGTCTAAGCTGATGGGCAGAAGATTGATGAAA--
1 -AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGAT-AAAGG
* * * * *
1977026 AAGTCTCCCGGGTCTAAGCTGACGGGCAGACAATTGACAAA-A
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * *
1977068 AGAGTCTCACGAGTCTAAGCCGACGGGCAGATGATTGAAAAAGG
1 A-AGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * * *
1977112 AAGTCTCTC-AGGTTTGAA-CCAACGGGCAGACGATTGACAAAGG
1 AAGTCTCCCGA-GTCT-AAGCCGACGGGCAGACGATTGATAAAGG
* * * * * * * *
1977155 AAGTCTTCAGCGTCTAAGCCGATGGGTAGATGATTTATAAATG
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * * ** * * *
1977198 AAGTCTCTCGGGTCTAAGTCGATAGGTAGACAATTGATGGAA--
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGAT-AAAGG
* * * *
1977240 AAGTATCCCGGGTCTAAGCCGACGGGTAGATGATTGATGAAA--
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGAT-AAAGG
** * * *
1977282 AAGTCTTTC-AGGTCTAAGCCGACGGGCATACGGTTGATAAAAG
1 AAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGATAAAGG
* * * ** * *
1977325 AAGTCTTCCGAGACTGAGCCGATAGGCAAACAATTGATGAAA--
1 AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGAT-AAAGG
*
1977367 AAGTCTCTCGAGTCTAA
1 AAGTCTCCCGAGTCTAA
1977384 ATCGATGAGC
Statistics
Matches: 833, Mismatches: 207, Indels: 81
0.74 0.18 0.07
Matches are distributed among these distances:
39 15 0.02
40 2 0.00
41 18 0.02
42 335 0.40
43 414 0.50
44 46 0.06
45 3 0.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (43 bp):
AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGG
Found at i:1977141 original size:214 final size:212
Alignment explanation
Indices: 1976528--1977330 Score: 632
Period size: 214 Copynumber: 3.8 Consensus size: 212
1976518 TCTCTCGAGA
* * ** * * *
1976528 CTAAGCCAACGGGTAGACAATTGACAAAGGAAGTCTCCCTG-GTCTAAGCCGATGGGCA-AACGA
1 CTAAGCCGATGGGTAGATGATTGATAAA-GAAGTCTCTC-GAGTCTAAGCTGATGGGCAGAA-GA
* * * * *
1976591 TTGAT-AAAGGAAGTCTCCCTGATCTAAGCCGACGGGCAAACAATTGATGGAAAAGTCTC-CCAG
63 TTGATGAAA--AAGTCTCCCGGGTCTAAGCCGACGGGCAGACAATTGATGAAAAAGTCTCACGA-
* * * * * * * **
1976654 GTCTAAGCCAACGGGCAGACAATTGATAGAA-AAGTCTCCC-GAGTCTAAGCCAATGGGTAAATG
125 GTCTAAGCCGACGGGCAGACGATTGACAAAAGAAGTCTCCCAG-GTCTAAGCCAACGGGCAGACA
** * *
1976717 ATTGATGAAA--AATTCTCTC-GGGT
189 ATT-AACAAAGGAAGTCTC-CAGCGT
* * ** * * *
1976740 CTAAGCCAACGGCCAGATGATTGATAAAGGAAGTCTCCCGAGTCTGAA-CTGACGGGCAGATGAT
1 CTAAGCCGATGGGTAGATGATTGATAAA-GAAGTCTCTCGAGTCT-AAGCTGATGGGCAGAAGAT
* * * * * * *
1976804 TGATAAAATAAGTCTCTCGGGTCTAAACCCACGGGCAGACAATTGATGGAAAAGTCTCCCAAGTC
64 TGATGAAA-AAGTCTCCCGGGTCTAAGCCGACGGGCAGACAATTGATGAAAAAGTCTCACGAGTC
** * * ** *
1976869 TAAGCCGACAAGCAGACGATTGACAAAATAAGTCTCCCGGGTCTAAGCTGATGGGCAGACAATTA
128 TAAGCCGACGGGCAGACGATTGACAAAAGAAGTCTCCCAGGTCTAAGCCAACGGGCAGACAATTA
* * *
1976934 ATAAAGGAATGTCTCCTGGGT
193 ACAAAGGAA-GTCTCCAGCGT
** *
1976955 CTAAGCCGATGGGTAGATGATTGAT-GGGAAAGTCTCTCAAGTCTAAGCTGATGGGCAGAAGATT
1 CTAAGCCGATGGGTAGATGATTGATAAAG-AAGTCTCTCGAGTCTAAGCTGATGGGCAGAAGATT
* **
1977019 GATGAAAAAGTCTCCCGGGTCTAAGCTGACGGGCAGACAATTGACAAAAAGAGTCTCACGAGTCT
65 GATGAAAAAGTCTCCCGGGTCTAAGCCGACGGGCAGACAATTGATGAAAA-AGTCTCACGAGTCT
* * * *
1977084 AAGCCGACGGGCAGATGATTGA-AAAAGGAAGTCTCTCAGGTTTGAA-CCAACGGGCAGACGATT
129 AAGCCGACGGGCAGACGATTGACAAAA-GAAGTCTCCCAGGTCT-AAGCCAACGGGCAGACAATT
* *
1977147 GACAAAGGAAGTCTTCAGCGT
192 AACAAAGGAAGTCTCCAGCGT
* * * *
1977168 CTAAGCCGATGGGTAGATGATTTATAAATGAAGTCTCTCGGGTCTAAG-TCGATAGGTAGACA-A
1 CTAAGCCGATGGGTAGATGATTGATAAA-GAAGTCTCTCGAGTCTAAGCT-GATGGGCAGA-AGA
* * * **
1977231 TTGATGGAAAAGTATCCCGGGTCTAAGCCGACGGGTAGATGATTGATGAAAAAGTCTTTCA-G-G
63 TTGATGAAAAAGTCTCCCGGGTCTAAGCCGACGGGCAGACAATTGATGAAAAAGTC--TCACGAG
* * *
1977294 TCTAAGCCGACGGGCATACGGTTGATAAAAGAAGTCT
126 TCTAAGCCGACGGGCAGACGATTGACAAAAGAAGTCT
1977331 TCCGAGACTG
Statistics
Matches: 483, Mismatches: 85, Indels: 45
0.79 0.14 0.07
Matches are distributed among these distances:
211 1 0.00
212 125 0.26
213 145 0.30
214 176 0.36
215 36 0.07
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (212 bp):
CTAAGCCGATGGGTAGATGATTGATAAAGAAGTCTCTCGAGTCTAAGCTGATGGGCAGAAGATTG
ATGAAAAAGTCTCCCGGGTCTAAGCCGACGGGCAGACAATTGATGAAAAAGTCTCACGAGTCTAA
GCCGACGGGCAGACGATTGACAAAAGAAGTCTCCCAGGTCTAAGCCAACGGGCAGACAATTAACA
AAGGAAGTCTCCAGCGT
Found at i:1977172 original size:171 final size:170
Alignment explanation
Indices: 1976345--1977383 Score: 635
Period size: 170 Copynumber: 6.1 Consensus size: 170
1976335 TTGACAAAGG
* * ** * * * * *
1976345 AAGTCTCCCGGGTTTAAGCCAATAGGCAAACAATTGACAAAGGAAGTCTCTCGGGTCTGAGCCGA
1 AAGTCTCCCGAGTCTAAGCTGACAGGCAGACAATTGACAAA-AAAGTCTCCCGGGTCTAAGCCGA
* ** * * * * * * * * *
1976410 TGGGCAGACAATTGACAAAGAAAGTTTCCCGAGTCTAAGTCGACCGACAAACGATTGATGGAAA-
65 CGGGCAGATGATTGAAAAAGGAAGTCTCCAG-GTCTAAGCCGACGGGCAGACGATTGAT-AAAAG
* * * *** * *
1976474 AA-TCTC-CTGGGTCTAAGCTGACAAGCAGACGATTGATGGAA
128 AAGTCTCTCAGAGTCTAAGCCGATGGGCAGAAGATTGATGAAA
* * ** * * * *
1976515 AAGTCTCTCGAGACTAAGCCAACGGGTAGACAATTGACAAAGGAAGTCTCCCTGGTCTAAGCCGA
1 AAGTCTCCCGAGTCTAAGCTGACAGGCAGACAATTGACAAA-AAAGTCTCCCGGGTCTAAGCCGA
* * * * * * * * **
1976580 TGGGCAAACGATTGATAAAGGAAGTCTCCCTGATCTAAGCCGACGGGCAAACAATTGATGGAA-A
65 CGGGCAGATGATTGAAAAAGGAAGTCT-CCAGGTCTAAGCCGACGGGCAGACGATTGATAAAAGA
* * *
1976644 AGTCTCCCAG-GTCTAAGCCAACGGGCAGACA-ATTGAT-AGAA
129 AGTCTCTCAGAGTCTAAGCCGATGGGCAGA-AGATTGATGA-AA
** ** * * ** ** * * *
1976685 AAGTCTCCCGAGTCTAAGCCAATGGGTAAATGATTGATGAAAAATTCTCTCGGGTCTAAGCCAAC
1 AAGTCTCCCGAGTCTAAGCTGACAGGCAGACAATTGACAAAAAAGTCTCCCGGGTCTAAGCCGAC
* * * * * *
1976750 GGCCAGATGATTGATAAAGGAAGTCTCCCGAGTCTGAA-CTGACGGGCAGATGATTGATAAAATA
66 GGGCAGATGATTGAAAAAGGAAGTCTCCAG-GTCT-AAGCCGACGGGCAGACGATTGATAAAAGA
* * * * *
1976814 AGTCTCTC-GGGTCTAAACCCACGGGCAGACA-ATTGATGGAA
129 AGTCTCTCAGAGTCTAAGCCGATGGGCAGA-AGATTGATGAAA
* * * * *
1976855 AAGTCTCCCAAGTCTAAGCCGACAAGCAGACGATTGACAAAATAAGTCTCCCGGGTCTAAGCTGA
1 AAGTCTCCCGAGTCTAAGCTGACAGGCAGACAATTGACAAAA-AAGTCTCCCGGGTCTAAGCCGA
* ** * * * * ***
1976920 TGGGCAGACAATT-AATAAAGGAATGTCTCCTGGGTCTAAGCCGATGGGTAGATGATTGATGGGA
65 CGGGCAGATGATTGAA-AAAGGAA-GTCTCC-AGGTCTAAGCCGACGGGCAGACGATTGATAAAA
*
1976984 -AAGTCTCTCA-AGTCTAAGCTGATGGGCAGAAGATTGATGAAA
127 GAAGTCTCTCAGAGTCTAAGCCGATGGGCAGAAGATTGATGAAA
* * * *
1977026 AAGTCTCCCGGGTCTAAGCTGACGGGCAGACAATTGACAAAAAGAGTCTCACGAGTCTAAGCCGA
1 AAGTCTCCCGAGTCTAAGCTGACAGGCAGACAATTGACAAAAA-AGTCTCCCGGGTCTAAGCCGA
* * * *
1977091 CGGGCAGATGATTGAAAAAGGAAGTCTCTCAGGTTTGAA-CCAACGGGCAGACGATTGACAAAGG
65 CGGGCAGATGATTGAAAAAGGAAGTCTC-CAGGTCT-AAGCCGACGGGCAGACGATTGATAAAAG
* * * *
1977155 AAGTCT-TCAGCGTCTAAGCCGATGGGTAGATGATTTAT-AAA
128 AAGTCTCTCAGAGTCTAAGCCGATGGGCAGAAGATTGATGAAA
* * * * *** *
1977196 TGAAGTCTCTCGGGTCTAAG-TCGATAGGTAGACAATTGATGGAAAAGTATCCCGGGTCTAAGCC
1 --AAGTCTCCCGAGTCTAAGCT-GACAGGCAGACAATTGACAAAAAAGTCTCCCGGGTCTAAGCC
* * * * *
1977260 GACGGGTAGATGATTGATGAAA--AAGTCTTTCAGGTCTAAGCCGACGGGCATACGGTTGATAAA
63 GACGGGCAGATGATTGA-AAAAGGAAGTC-TCCAGGTCTAAGCCGACGGGCAGACGATTGATAAA
* * * * *
1977323 AGAAGTCT-TCCGAGACTGAGCCGATAGGCA-AACAATTGATGAAA
126 AGAAGTCTCTCAGAGTCTAAGCCGATGGGCAGAA-GATTGATGAAA
*
1977367 AAGTCTCTCGAGTCTAA
1 AAGTCTCCCGAGTCTAA
1977384 ATCGATGAGC
Statistics
Matches: 690, Mismatches: 148, Indels: 63
0.77 0.16 0.07
Matches are distributed among these distances:
168 3 0.00
169 87 0.13
170 318 0.46
171 214 0.31
172 67 0.10
173 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (170 bp):
AAGTCTCCCGAGTCTAAGCTGACAGGCAGACAATTGACAAAAAAGTCTCCCGGGTCTAAGCCGAC
GGGCAGATGATTGAAAAAGGAAGTCTCCAGGTCTAAGCCGACGGGCAGACGATTGATAAAAGAAG
TCTCTCAGAGTCTAAGCCGATGGGCAGAAGATTGATGAAA
Found at i:1977647 original size:42 final size:42
Alignment explanation
Indices: 1977599--1977679 Score: 85
Period size: 43 Copynumber: 1.9 Consensus size: 42
1977589 AGAGATTGAA
* *
1977599 CCGACGGGCAGACAATAGATGAAGAAGTCTCTCGGGTCTAAG
1 CCGACGGGCAGACAATTGATAAAGAAGTCTCTCGGGTCTAAG
* *
1977641 TCGACGGGCAGAC--TTAAGGTCAAAGAAGTCTCTCGGGTC
1 CCGACGGGCAGACAATT--GAT-AAAGAAGTCTCTCGGGTC
1977680 AAGGTCGACA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
40 1 0.03
42 14 0.44
43 17 0.53
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.19
Consensus pattern (42 bp):
CCGACGGGCAGACAATTGATAAAGAAGTCTCTCGGGTCTAAG
Found at i:1977674 original size:43 final size:41
Alignment explanation
Indices: 1977620--1977744 Score: 135
Period size: 43 Copynumber: 3.0 Consensus size: 41
1977610 ACAATAGATG
1977620 AAGAAGTCTCTCGGGTCTAAGTCGACGGGCAGACTTAAGGTCA
1 AAGAAGTCTCTCGGGTC-AAGTCGACGGGCAGACTTAAGGT-A
* * *
1977663 AAGAAGTCTCTCGGGTCAAGGTCGACAGGTAGA-TAAAGGGTA
1 AAGAAGTCTCTCGGGTCAA-GTCGACGGGCAGACTTAA-GGTA
* * * *
1977705 AAGAAGACTTTAGGGTCAAAGTCGATGGGCAGACTTAAGG
1 AAGAAGTCTCTCGGGTC-AAGTCGACGGGCAGACTTAAGG
1977745 GTGAGGTCTC
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (41 bp):
AAGAAGTCTCTCGGGTCAAGTCGACGGGCAGACTTAAGGTA
Found at i:1978060 original size:43 final size:44
Alignment explanation
Indices: 1978002--1978139 Score: 122
Period size: 43 Copynumber: 3.2 Consensus size: 44
1977992 AAAAGGTAAA
* *
1978002 GAAGTCT-TCAGGGTCAAAGCTAACAGGCAAACTTAAGGGTGAA-
1 GAAGTCTCT-AGGGTCAAAGCTAACAGACAAACTTAAGAGTGAAG
* ** * *
1978045 GAAGTGTCTAGGGTCAAAGCCGATAGACAGACTTAAGAGTGAAG
1 GAAGTCTCTAGGGTCAAAGCTAACAGACAAACTTAAGAGTGAAG
* * * * *
1978089 GAAGTCTCTTGGGTCGAAGCTGACA-AGTAGACTTAAGA-TGAAG
1 GAAGTCTCTAGGGTCAAAGCTAACAGA-CAAACTTAAGAGTGAAG
1978132 GAAGTCTC
1 GAAGTCTC
1978140 CCAAGTTTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
43 48 0.61
44 31 0.39
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (44 bp):
GAAGTCTCTAGGGTCAAAGCTAACAGACAAACTTAAGAGTGAAG
Found at i:1978158 original size:298 final size:297
Alignment explanation
Indices: 1977514--1978163 Score: 663
Period size: 298 Copynumber: 2.2 Consensus size: 297
1977504 AGGTCAAAAT
* * *
1977514 TGACGAGTAGAC-TAGAGATGAAGAAGTCTCCCAGGTCTAAGTCGATAGGCACACGGTTGATAAA
1 TGACAAGTAGACTTA-AGATGAAGAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGGTTGATAAA
* * * * *
1977578 GAAAAGCTTCTAGAGATTGAACCGACGGGCAGACAATAGATGAAGAAGTCTCTCGGGTCTAAGTC
65 GAAAAGCTCCTAGAGACTGAACCGACAGGCAGACAATAGATGAAGAAGTCTCTCAGGTCTAAGCC
* * * * *
1977643 GACGGGCAGACTTAAGGTCAAAGAAGTCTCTCGGGTCAAGGTCGACAGGTAGATAAAGGGTAAAG
130 GACGGGCAGAATTAAGGTCAAAGAAGTCTCCCGGGTCAAAGTCGACAGGCAGATAAAAGGTAAAG
* * ** * *
1977708 AAGACTTTAGGGTCAAAGTCGATGGGCAGACTTAAGGGTGAGGTCTCCAAGGTCAAAGCTGACAG
195 AAGACTTCAGGGTCAAAGTCAACAGGCAAACTTAAGGGTGAGGTCTCCAAGGTCAAAGCCGACAG
* *
1977773 GCAGACTTAAGGGTGAAGAAAGTCTTCTTGGTCTGAAC
260 ACAGACTTAAGAGTGAAGAAAGTCTTCTTGGTCTGAAC
** * * * * * *
1977811 CAAGAGGCAAACTTAAGATGAAAGAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGGTTGATAAA
1 TGACAAGTAGACTTAAGATG-AAGAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGGTTGATAAA
* * * * * * * * *
1977876 G-GAAGCCTCCTAG-GACTGAGCCGATAGGTAGATAATGGATGGAGAAGTCTCTTAGGTCTATGC
65 GAAAAG-CTCCTAGAGACTGAACCGACAGGCAGACAATAGATGAAGAAGTCTCTCAGGTCTAAGC
* * **
1977939 C-AGTGGGCAGAATTAAGGT-GAAGAAAGTCTCCCGGGTCAAAGTCGATGGGCA-A-AAAAGGTA
129 CGA-CGGGCAGAATTAAGGTCAAAG-AAGTCTCCCGGGTCAAAGTCGACAGGCAGATAAAAGGTA
* * * *
1978000 AAGAAGTCTTCAGGGTCAAAG-CTAACAGGCAAACTTAAGGGTGAAGAAGTGTCTAGGGTCAAAG
192 AAGAAGACTTCAGGGTCAAAGTC-AACAGGCAAACTTAAGGGTG-AG--GTCTCCAAGGTCAAAG
* *
1978064 CCGATAGACAGACTTAAGAGTGAAGGAAGTC-TCTTGGGTC-GAAGC
253 CCGACAGACAGACTTAAGAGTGAAGAAAGTCTTCTT-GGTCTGAA-C
* * *
1978109 TGACAAGTAGACTTAAGATGAAGGAAGTCTCCCAAGTTTAAGTCGATGGGTAGAC
1 TGACAAGTAGACTTAAGATGAA-GAAGTCTCCCAGGTCTAAGTCGATGGGCAGAC
1978164 AAAAGATGAA
Statistics
Matches: 282, Mismatches: 59, Indels: 23
0.77 0.16 0.06
Matches are distributed among these distances:
294 1 0.00
295 42 0.15
296 7 0.02
297 98 0.35
298 134 0.48
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.20
Consensus pattern (297 bp):
TGACAAGTAGACTTAAGATGAAGAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGGTTGATAAAG
AAAAGCTCCTAGAGACTGAACCGACAGGCAGACAATAGATGAAGAAGTCTCTCAGGTCTAAGCCG
ACGGGCAGAATTAAGGTCAAAGAAGTCTCCCGGGTCAAAGTCGACAGGCAGATAAAAGGTAAAGA
AGACTTCAGGGTCAAAGTCAACAGGCAAACTTAAGGGTGAGGTCTCCAAGGTCAAAGCCGACAGA
CAGACTTAAGAGTGAAGAAAGTCTTCTTGGTCTGAAC
Found at i:1979930 original size:80 final size:80
Alignment explanation
Indices: 1979844--1979998 Score: 229
Period size: 80 Copynumber: 1.9 Consensus size: 80
1979834 ATGCGATTAA
* * * ** *
1979844 AGTACATCCCCCGATAAAAAATTTAATATTTTGGAGATAAAAACGGGATTGGAGTATCTTCTCGA
1 AGTACATCCCCCGATAAAAAATTTAATACTTTGGAGACAAAAACGGGATCGGAGTATCCCCTCAA
1979909 AAATAACGGGGTTGG
66 AAATAACGGGGTTGG
* * *
1979924 AGTACATCCCCTGATGAAAAATTTAATACTTTGGAGACAAAAACGGGATCGGATTATCCCCTCAA
1 AGTACATCCCCCGATAAAAAATTTAATACTTTGGAGACAAAAACGGGATCGGAGTATCCCCTCAA
1979989 AAATAACGGG
66 AAATAACGGG
1979999 ATTATAGTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (80 bp):
AGTACATCCCCCGATAAAAAATTTAATACTTTGGAGACAAAAACGGGATCGGAGTATCCCCTCAA
AAATAACGGGGTTGG
Found at i:1980290 original size:79 final size:78
Alignment explanation
Indices: 1979978--1980298 Score: 254
Period size: 79 Copynumber: 4.1 Consensus size: 78
1979968 GGGATCGGAT
* ** * *
1979978 TATCCCCTCAAAAATAACGGGATTATAGTAT-CCCGATAGTGAAAAATCGATATTTTA-AGAATG
1 TATCCCCTCGAAAATAACGGG-TTGGAGTATCCCCGATAGTGAAAAATCAATATTTTAGA-AATA
* *
1980041 AAACTGGGGTTAGAG
64 AAACTGAGATTAGAG
*** * * * * * * *
1980056 TATCTTTTTGAAAATAACGGGATTAGAGTATCCCCGATAATGGAAAATCAGTGTTTTAAAAATAA
1 TATCCCCTCGAAAATAACGGG-TTGGAGTATCCCCGATAGTGAAAAATCAATATTTTAGAAATAA
*
1980121 AACCGAGATTAGAG
65 AACTGAGATTAGAG
* * ** * * * * *
1980135 TAT-CCCTCAAAAATAATGGGGTTGGAGTATCCTTGATTGTGGAAAATCAATGTTTTGGAAATTA
1 TATCCCCTCGAAAATAA-CGGGTTGGAGTATCCCCGATAGTGAAAAATCAATATTTTAGAAATAA
*
1980199 AA-TCAAGATTAGAG
65 AACT-GAGATTAGAG
* * * *
1980213 TACCCCCTCGAAAATAACAGGGTTGGAATATCCCCGATGGTGAAAAACCAATATTTTAGAAATAA
1 TATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATAGTGAAAAATCAATATTTTAGAAATAA
* *
1980278 AACTGGGGTTAGAG
65 AACTGAGATTAGAG
1980292 TATCCCC
1 TATCCCC
1980299 AATATAAAAA
Statistics
Matches: 188, Mismatches: 48, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
78 80 0.43
79 106 0.56
80 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (78 bp):
TATCCCCTCGAAAATAACGGGTTGGAGTATCCCCGATAGTGAAAAATCAATATTTTAGAAATAAA
ACTGAGATTAGAG
Found at i:1982574 original size:30 final size:30
Alignment explanation
Indices: 1982538--1982631 Score: 100
Period size: 30 Copynumber: 3.5 Consensus size: 30
1982528 AAAATGCCTG
*
1982538 AATGTATAGATACATCTAGGTGAAACCTAT
1 AATGTATCGATACATCTAGGTGAAACCTAT
1982568 AATGTATCGATACA---A--TG--A---AT
1 AATGTATCGATACATCTAGGTGAAACCTAT
*
1982588 AATGTATCGATACATCTAGGTGAAACCTAG
1 AATGTATCGATACATCTAGGTGAAACCTAT
1982618 AATGTATCGATACA
1 AATGTATCGATACA
1982632 ATGAATAACG
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
20 16 0.31
23 2 0.04
25 4 0.08
27 2 0.04
30 28 0.54
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (30 bp):
AATGTATCGATACATCTAGGTGAAACCTAT
Found at i:1982600 original size:50 final size:50
Alignment explanation
Indices: 1982538--1982699 Score: 245
Period size: 50 Copynumber: 3.2 Consensus size: 50
1982528 AAAATGCCTG
* *
1982538 AATGTATAGATACATCTAGGTGAAACCTATAATGTATCGATACAATGAAT
1 AATGTATCGATACATCTAGGTGAAACCTAGAATGTATCGATACAATGAAT
1982588 AATGTATCGATACATCTAGGTGAAACCTAGAATGTATCGATACAATGAAT
1 AATGTATCGATACATCTAGGTGAAACCTAGAATGTATCGATACAATGAAT
* * * * *
1982638 AACGTATCGATATATCT-GGAGAAAACCCAGAATGTATCGATACAATAAAT
1 AATGTATCGATACATCTAGGTG-AAACCTAGAATGTATCGATACAATGAAT
1982688 AATGTATCGATA
1 AATGTATCGATA
1982700 GAAATTGTGA
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 3 0.03
50 100 0.97
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (50 bp):
AATGTATCGATACATCTAGGTGAAACCTAGAATGTATCGATACAATGAAT
Found at i:1983513 original size:44 final size:44
Alignment explanation
Indices: 1983462--1984184 Score: 256
Period size: 44 Copynumber: 16.9 Consensus size: 44
1983452 AAAGTACGTT
* * *
1983462 CTGCTCTTTGAAGATAAATGGAAAATAAGAAAATGAGGTGTGCC
1 CTGCTCTTTGAAGACAAAGGGAAAAGAAGAAAATGAGGTGTGCC
* * *
1983506 TTGCTCTTTGAAGACAAAGGGGAAAGAAGGAAATGAGGTGTGCC
1 CTGCTCTTTGAAGACAAAGGGAAAAGAAGAAAATGAGGTGTGCC
* * * * * *
1983550 CTACTCTTTGAGGACAAA-GG-AAAG-AGGAAATAAAGTGTGTC
1 CTGCTCTTTGAAGACAAAGGGAAAAGAAGAAAATGAGGTGTGCC
** * * *
1983591 CTGCTCTTT-AAGGACAAAAAAGAAAAGAAGGAAATGAAGTGTGTC
1 CTGCTCTTTGAA-GAC-AAAGGGAAAAGAAGAAAATGAGGTGTGCC
* * * *
1983636 CTACTCTTTGAGGACAAA-GG-AAA-AAGAAAA--AAGTGTGTC
1 CTGCTCTTTGAAGACAAAGGGAAAAGAAGAAAATGAGGTGTGCC
* * * *
1983675 CTACTCTTTG-AGAACAAAGGAAAAAGAA-AAAA--A-ATGTGTC
1 CTGCTCTTTGAAG-ACAAAGGGAAAAGAAGAAAATGAGGTGTGCC
* *
1983715 CTGCTCTTTGAGGACAAA-GGAGAAA-AAGAAAA-G-GCAT-T---
1 CTGCTCTTTGAAGACAAAGGGA-AAAGAAGAAAATGAG-GTGTGCC
* * * *
1983753 CTACTCTTTGAAGACTAAGGGGAAAGAAGAAAATGAGGTGCGCC
1 CTGCTCTTTGAAGACAAAGGGAAAAGAAGAAAATGAGGTGTGCC
* * * * * * ***
1983797 CTGCTTTTTGAGGAC-AATGG-AAA-AAGGAAATAAAGTGCATC
1 CTGCTCTTTGAAGACAAAGGGAAAAGAAGAAAATGAGGTGTGCC
* * * * * ** * *
1983838 CTGCTTTTTGAGGATAAAAGAGAAAAGAAGGAAATGAAATGCGTC
1 CTGCTCTTTGAAGA-CAAAGGGAAAAGAAGAAAATGAGGTGTGCC
* * * * * **
1983883 CTGTTCTTTGAGGACAAAAGGAAAATAAGGAAATGAGGTGCACC
1 CTGCTCTTTGAAGACAAAGGGAAAAGAAGAAAATGAGGTGTGCC
* ** * ** * * *
1983927 CTGCTCTTTGAGGACAAAGAAAAAAGGAAAAACGAAAAAAGTGAGTC
1 CTGCTCTTTGAAGACAAAGGGAAAA-GAAGAA--AATGAGGTGTGCC
* * * ** *
1983974 TTGCTTTTTGAAGACAAAAGGGAAAATAAGGAAAA-GAAATGTGTC
1 CTGCTCTTTGAAGAC-AAAGGGAAAAGAA-GAAAATGAGGTGTGCC
* * * * *
1984019 CTACTCTTTG-AGAACAAAGGAGAAAAAAAGGAAATAAGGTGCGCC
1 CTGCTCTTTGAAG-ACAAAGG-GAAAAGAAGAAAATGAGGTGTGCC
* * * * *
1984064 CTACTCTTTGAAGACAAAAGAAAAAGGAAAAAAAT-A--CGT--C
1 CTGCTCTTTGAAGACAAAGGGAAAA-GAAGAAAATGAGGTGTGCC
* * * * * *
1984104 CTCCTCTTTAAAGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTC
1 CTGCTCTTTGAAGAC-AAAGGGAAAAGAAGAAAATGAGGTGTGCC
* *
1984149 CTACTCTTT-AAGGACAAA-GGAAAA-AAGGAAATGAGG
1 CTGCTCTTTGAA-GACAAAGGGAAAAGAAGAAAATGAGG
1984185 AAAGTGTCCT
Statistics
Matches: 527, Mismatches: 107, Indels: 92
0.73 0.15 0.13
Matches are distributed among these distances:
38 19 0.04
39 37 0.07
40 52 0.10
41 78 0.15
42 29 0.06
43 18 0.03
44 139 0.26
45 119 0.23
46 5 0.01
47 21 0.04
48 10 0.02
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (44 bp):
CTGCTCTTTGAAGACAAAGGGAAAAGAAGAAAATGAGGTGTGCC
Found at i:1983633 original size:45 final size:45
Alignment explanation
Indices: 1983528--1984182 Score: 288
Period size: 45 Copynumber: 15.3 Consensus size: 45
1983518 GACAAAGGGG
* * * *
1983528 AAAGAAGGAAATGAGGTGTGCCCTACTCTTTGAGGAC---AAAGG
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* * * *
1983570 AAAG-AGGAAATAAAGTGTGTCCTGCTCTTTAAGGACAAAAAAGA
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* *
1983614 AAAGAAGGAAATGAAGTGTGTCCTACTCTTTGAGGAC---AAAGG
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* * * **
1983656 AAA-AA-GAAA-AAAGTGTGTCCTACTCTTTGAGAACAAAGGA-A
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* * * **
1983697 AAAGAA--AAA--AAATGTGTCCTGCTCTTTGAGGACAAAGGAG-
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* * * * ** *
1983737 AAA-AA-G-AA--AAG-GCATTCTACTCTTTGAAGAC-TAAGGGG
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* * * * * * *
1983775 AAAGAAGAAAATGAGGTGCGCCCTGCTTTTTGAGGAC---AATGG
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* * * * * *
1983817 AAA-AAGGAAATAAAGTGCATCCTGCTTTTTGAGGATAAAAGAGA
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* ** *
1983861 AAAGAAGGAAATGAAATGCGTCCTGTTCTTTGAGGAC-AAAAGGA
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* * ** * *
1983905 AAATAAGGAAATGAGGTGCACCCTGCTCTTTGAGGACAAAGAAAAA
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAA-AAAGA
* * * * * * * * **
1983951 AGGAAAAACGAAA-AAAGTGAGTCTTGCTTTTTGAAGACAAAAGGGA
1 A--AAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* * * * * **
1983997 AAATAAGGAAAAGAAATGTGTCCTACTCTTTGAGAACAAAGGAGA
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* * *
1984042 AAAAAAGGAAAT-AAGGTGCGCCCTACTCTTTGAAGAC--AAAAG-
1 AAAGAAGGAAATGAA-GTGCGTCCTACTCTTTGAGGACAAAAAAGA
* * * * * * **
1984084 AAA-AAGGAAA-AAAATACGTCCTCCTCTTTAAAGACAAAAGGGA
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
* *
1984127 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTAAGGAC--AAAGGA
1 AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
1984170 AAA-AAGGAAATGA
1 AAAGAAGGAAATGA
1984183 GGAAAGTGTC
Statistics
Matches: 471, Mismatches: 109, Indels: 66
0.73 0.17 0.10
Matches are distributed among these distances:
37 3 0.01
38 18 0.04
39 31 0.07
40 51 0.11
41 73 0.15
42 36 0.08
43 16 0.03
44 80 0.17
45 128 0.27
46 7 0.01
47 20 0.04
48 8 0.02
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (45 bp):
AAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAAAAGA
Found at i:1983633 original size:86 final size:85
Alignment explanation
Indices: 1983509--1984179 Score: 488
Period size: 86 Copynumber: 7.8 Consensus size: 85
1983499 GTGTGCCTTG
* * * * * *
1983509 CTCTTTGAAGAC-AAAGGGGAAAGAAGGAAATGAGGTGTGCCCTACTCTTTGAGGACAAAGGAAA
1 CTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAGGAAA
* * *
1983573 GAGGAAATAAAGTGTGTCCTG
66 AAGGAAA-AAAGTGCGTCCTA
* * *
1983594 CTCTTTAAGGACAAAAAAGAAAAGAAGGAAATGAAGTGTGTCCTACTCTTTGAGGACAAAGGAAA
1 CTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAGGAAA
*
1983659 AA-GAAAAAAGTGTGTCCTA
66 AAGGAAAAAAGTGCGTCCTA
* * * * *
1983678 CTCTTTGAGAACAAAGGA-AAAAGAA--AAA--AAATGTGTCCTGCTCTTTGAGGACAAAGGAGA
1 CTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAGGA-A
* * *
1983738 AAA--AGAAAAG-GCATTCTA
65 AAAGGAAAAAAGTGCGTCCTA
* * * * * * * * * *
1983756 CTCTTTGAAGAC-TAAGGGGAAAGAAGAAAATGAGGTGCGCCCTGCTTTTTGAGGACAATGGAAA
1 CTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAGGAAA
* *
1983820 AAGGAAATAAAGTGCATCCTG
66 AAGGAAA-AAAGTGCGTCCTA
* * * **
1983841 CTTTTTGAGGATAAAAGAGAAAAGAAGGAAATGAAATGCGTCCTGTTCTTTGAGGACAAAAGGAA
1 CTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC-AAAGG-A
* * ** *
1983906 AATAAGGAAATGAGGTGCACCCTG
64 AA-AAGGAAA-AAAGTGCGTCCTA
* * * * * * * *
1983930 CTCTTTGAGGAC-AAAGAAAAAAGGAAAAACGAAA-AAAGTGAGTCTTGCTTTTTGAAGACAAAA
1 CTCTTTGAGGACAAAAGAGAAAA-G---AAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC-AAA
* *
1983993 GGGAAAATAAGGAAAAGAAATGTGTCCTA
61 -GG-AAA-AAGGAAAA-AAGTGCGTCCTA
* * * * * *
1984022 CTCTTTGAGAACAAAGGAGAAAAAAAGGAAAT-AAGGTGCGCCCTACTCTTTGAAGACAAAAGAA
1 CTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAA-GTGCGTCCTACTCTTTGAGGACAAAGGAA
* * *
1984086 AAAGGAAAAAAATACGTCCTC
65 AAAGGAAAAAAGTGCGTCCTA
* * * *
1984107 CTCTTTAAAGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTAAGGACAAAGGAAA
1 CTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAGG-AA
1984172 AAAGGAAA
65 AAAGGAAA
1984180 TGAGGAAAGT
Statistics
Matches: 468, Mismatches: 92, Indels: 51
0.77 0.15 0.08
Matches are distributed among these distances:
77 2 0.00
78 21 0.04
79 34 0.07
80 7 0.01
81 7 0.01
82 24 0.05
83 9 0.02
84 30 0.06
85 87 0.19
86 103 0.22
87 7 0.01
88 13 0.03
89 40 0.09
90 17 0.04
91 22 0.05
92 37 0.08
93 8 0.02
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (85 bp):
CTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAGGAAA
AAGGAAAAAAGTGCGTCCTA
Found at i:1983930 original size:130 final size:129
Alignment explanation
Indices: 1983441--1984184 Score: 631
Period size: 130 Copynumber: 5.8 Consensus size: 129
1983431 GACAACAAGA
* * * * * * ** *
1983441 AAAAAGGAAATAAAGTACGTTCTGCTCTTTGAAGATAAATG-GAAAATAAGAAAATGAGGTGTG-
1 AAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAAGACAAAAGAGAAAAGAAGGAAATGAAATGCGT
* * * * *
1983504 CCTTGCTCTTTGAAGACAAAGGGGAAAGAAGGAAATGAGGTGTGCCCTACTCTTTGAGGACAAAG
66 CC-TACTCTTTGAGGACAAA-AGGAAAAAAGGAAATGAGGTGCGCCCTACTCTTTGAGGACAAAG
1983569 G
129 G
* * * * *
1983570 AAAGAGGAAATAAAGTGTGTCCTGCTCTTT-AAGGACAAAAAAGAAAAGAAGGAAATGAAGTGTG
1 AAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAA-GACAAAAGAGAAAAGAAGGAAATGAAATGCG
* * * * *
1983634 TCCTACTCTTTGAGGAC-AAAGG-AAAAA-GAAA-AAAGTGTGTCCTACTCTTTGAGAACAAAGG
65 TCCTACTCTTTGAGGACAAAAGGAAAAAAGGAAATGAGGTGCGCCCTACTCTTTGAGGACAAAGG
* * * * * * *
1983695 AAAAA-GAAAAAAAATGTGTCCTGCTCTTTGAGGACAAAGGAG-AAA-AA-G--A--AAAGGCAT
1 AAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAAGACAAAAGAGAAAAGAAGGAAATGAAATGCGT
* * ** * * * * *
1983752 TCTACTCTTTGAAGACTAAGGGGAAAGAAGAAAATGAGGTGCGCCCTGCTTTTTGAGGACAATGG
66 CCTACTCTTTGAGGAC-AAAAGGAAAAAAGGAAATGAGGTGCGCCCTACTCTTTGAGGACAAAGG
* * * *
1983817 AAAAAGGAAATAAAGTGCATCCTGCTTTTTGAGGATAAAAGAGAAAAGAAGGAAATGAAATGCGT
1 AAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAAGACAAAAGAGAAAAGAAGGAAATGAAATGCGT
** * * *
1983882 CCTGTTCTTTGAGGACAAAAGGAAAATAAGGAAATGAGGTGCACCCTGCTCTTTGAGGACAAAGA
66 CCTACTCTTTGAGGACAAAAGGAAAA-AAGGAAATGAGGTGCGCCCTACTCTTTGAGGACAAAGG
* * * * * * *
1983947 AAAAAGGAAAAACGAAAAAAGTGAGTCTTGCTTTTTGAAGACAAAAGGGAAAATAAGGAAAAGAA
1 AAAAAGG----A--AATAAAGTGCGTCCTGCTCTTTGAAGACAAAAGAGAAAAGAAGGAAATGAA
* * * * *
1984012 ATGTGTCCTACTCTTTGAGAACAAAGGAGAAAAAAAGGAAATAAGGTGCGCCCTACTCTTTGAAG
60 ATGCGTCCTACTCTTTGAGGACAAA--AGGAAAAAAGGAAATGAGGTGCGCCCTACTCTTTGAGG
*
1984077 ACAAAAG
123 ACAAAGG
* * * * * *
1984084 AAAAAGGAAA-AAAATACGTCCTCCTCTTTAAAGACAAAAGGGAAAAGAAGGAAATGAAGTGCGT
1 AAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAAGACAAAAGAGAAAAGAAGGAAATGAAATGCGT
*
1984148 CCTACTCTTTAAGGAC-AAAGGAAAAAAGGAAATGAGG
66 CCTACTCTTTGAGGACAAAAGGAAAAAAGGAAATGAGG
1984185 AAAGTGTCCT
Statistics
Matches: 491, Mismatches: 98, Indels: 54
0.76 0.15 0.08
Matches are distributed among these distances:
117 18 0.04
119 4 0.01
120 4 0.01
121 4 0.01
122 29 0.06
123 33 0.07
124 33 0.07
125 33 0.07
126 5 0.01
127 21 0.04
128 5 0.01
129 42 0.09
130 146 0.30
131 4 0.01
133 1 0.00
134 1 0.00
136 63 0.13
137 39 0.08
138 6 0.01
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (129 bp):
AAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAAGACAAAAGAGAAAAGAAGGAAATGAAATGCGT
CCTACTCTTTGAGGACAAAAGGAAAAAAGGAAATGAGGTGCGCCCTACTCTTTGAGGACAAAGG
Found at i:1984194 original size:44 final size:45
Alignment explanation
Indices: 1983986--1984214 Score: 140
Period size: 45 Copynumber: 5.2 Consensus size: 45
1983976 GCTTTTTGAA
* * * * *
1983986 GACAAAAGGGAAAATAAGGAAAAGAAATGTGTCCTACTCTTTGAG
1 GACAAAAGGGAAAAGAAGGAAATGAAAAGCGTCCTACTCTTTAAG
* * ** *
1984031 AAC-AAAGGAGAAAAAAAGGAAAT-AAGGTGCGCCCTACTCTTTGAA-
1 GACAAAAGG-GAAAAGAAGGAAATGAA-AAGCGTCCTACTCTTT-AAG
* * *
1984076 GACAAAA--G-AAA-AAGGAAA--AAAATACGTCCTCCTCTTTAAA
1 GACAAAAGGGAAAAGAAGGAAATGAAAA-GCGTCCTACTCTTTAAG
**
1984116 GACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTAAG
1 GACAAAAGGGAAAAGAAGGAAATGAAAAGCGTCCTACTCTTTAAG
* * *
1984161 GAC-AAA-GGAAAA-AAGGAAATGAGGAAAGTGTCCTACACCTTAAG
1 GACAAAAGGGAAAAGAAGGAAATGA--AAAGCGTCCTACTCTTTAAG
*
1984205 GGCTAAAAGG
1 GAC-AAAAGG
1984215 TGCATCAAAT
Statistics
Matches: 143, Mismatches: 24, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
39 2 0.01
40 20 0.14
41 7 0.05
42 14 0.10
43 10 0.07
44 34 0.24
45 46 0.32
46 9 0.06
47 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.17
Consensus pattern (45 bp):
GACAAAAGGGAAAAGAAGGAAATGAAAAGCGTCCTACTCTTTAAG
Found at i:1984369 original size:62 final size:62
Alignment explanation
Indices: 1984207--1985012 Score: 880
Period size: 62 Copynumber: 13.1 Consensus size: 62
1984197 ACCTTAAGGG
* * * * * * * * *
1984207 CTAAAAGGTG-CATCAAATCGTGTGGGCTTTAAAAAGAAAAATGAGTCTTGCTTTTTGAGGA
1 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
* * * * * * * *
1984268 TTAAAAGGTGCCACCAACT-ATGTGGGCTTTAAAAAGAAAAAGGTGTCCTGCACTTTCAGGA
1 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
* * * *
1984329 CTAAAGGGTGCTAGCAACTCGTGTAGGCTTTGAAAAGAAAAAGGTGTCC--CGTACTTTGAGGA
1 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTAC-T-CTTTGAGGA
**
1984391 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAACGTCCTACTCTTTGAGGA
1 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
* * * *
1984453 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAACGACGTCCTGCTCTTTAAGGA
1 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
* * * * ** * *
1984515 CTAGAA-AGTGCCACCAATTTGTGTGGGCTTT-AAAAG-GAAAGGAATCTTACTCTTTGAAGA
1 CTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
* ** * * *
1984575 CTAAAAGGTGCCACCAACTTATGTGGACTTTG-AAAGAAAAAAGTGTCCTACTCTTTGAGGA
1 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
* * *
1984636 CTAGAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTACTCTTTAAGGA
1 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
* * * * *
1984698 CTAAAGGGTGCCACCAACTCGTGTAGGCTTTGACAAGGAAAAA-GAGTCCTACCCTTTAAGGA
1 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGA-AAAGAAAAAGGCGTCCTACTCTTTGAGGA
* * * *
1984760 CTAAAGGGTGCCACTAACTCATGTGGACTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGA
1 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
* * *
1984822 CTAACA-GGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGA
1 CTAA-AGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
* * *
1984884 TTAAAGGGTGTCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTATTCTTTGAGGA
1 CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
* * * * * *
1984946 CATAAA-AGTGCTACCAACTCGTGTGGGCTTT-AAAAAAGAAAAGGCGTCATGCTCTTTAAGGA
1 C-TAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AAAAGGCGTCCTACTCTTTGAGGA
1985008 CTAAA
1 CTAAA
1985013 AGAGCTAAAA
Statistics
Matches: 636, Mismatches: 92, Indels: 34
0.83 0.12 0.04
Matches are distributed among these distances:
59 2 0.00
60 44 0.07
61 127 0.20
62 446 0.70
63 16 0.03
64 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (62 bp):
CTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGA
Found at i:1984824 original size:307 final size:307
Alignment explanation
Indices: 1984224--1985012 Score: 1007
Period size: 307 Copynumber: 2.6 Consensus size: 307
1984214 GTGCATCAAA
* * *
1984224 TCGTGTGGGCTTTAAAAAGAAAAATGAGTCTTGCTTTTTGAGGATTAAAAGGTGCCACCAAC-TA
1 TCGTGTGGGCTTTAAAAAGAAAAAGGAATCTTGCTCTTTGAGGATTAAAAGGTGCCACCAACTTA
* * * * *
1984288 TGTGGGCTTTAAAAAGAAAAAGGTGTCCTGCACTTTCAGGACTAAAGGGTGCTAGCAACTCGTGT
66 TGTGGGCTTT-GAAAGAAAAAGGTGTCCTACTCTTTGAGGACT-AAGGGTGCTACCAACTCGTGT
* * *
1984353 AGGCTTTGAAAAGAAAAAGGTGTCC-CGTACTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGG
129 GGGCTTTGAAAAGAAAAAGGTGTCCTC-T-CTTTAAGGACTAAAGGGTGCCACCAACTCGTGTAG
* * * *
1984417 GCTTTGAAAAGAAAAAAACGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCT
192 GCTTTGAAAAGAAAAAAACGTCCTACCCTTTAAGGACTAAAGGGTGCCACCAACTCATGTGGACT
* * * *
1984482 TTGAAAAGAAAACGACGTCCTGCTCTTTAAGGACTAGA-AAGTGCCACCAAT
257 TTGAAAAGAAAAAGACATCCTACTCTTTAAGGACTA-ACAAGTGCCACCAAC
* * * * *
1984533 TTGTGTGGGCTTT-AAAAG-GAAAGGAATCTTACTCTTTGAAGACTAAAAGGTGCCACCAACTTA
1 TCGTGTGGGCTTTAAAAAGAAAAAGGAATCTTGCTCTTTGAGGATTAAAAGGTGCCACCAACTTA
* * *
1984596 TGTGGACTTTGAAAGAAAAAAGTGTCCTACTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTG
66 TGTGGGCTTTGAAAGAAAAAGGTGTCCTACTCTTTGAGGACTA-AGGGTGCTACCAACTCGTGTG
1984661 GGCTTTGAAAAGAAAAAGGTGTCCTACTCTTTAAGGACTAAAGGGTGCCACCAACTCGTGTAGGC
130 GGCTTTGAAAAGAAAAAGGTGTCCT-CTCTTTAAGGACTAAAGGGTGCCACCAACTCGTGTAGGC
* * *
1984726 TTTGACAAGGAAAAAGA-GTCCTACCCTTTAAGGACTAAAGGGTGCCACTAACTCATGTGGACTT
194 TTTGA-AAAGAAAAAAACGTCCTACCCTTTAAGGACTAAAGGGTGCCACCAACTCATGTGGACTT
* * *
1984790 TGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAACAGGTGCCACCAAC
258 TGAAAAGAAAAAGACATCCTACTCTTTAAGGACTAACAAGTGCCACCAAC
* * * * **
1984840 TCGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGATTAAAGGGTGTCACCAACTCG
1 TCGTGTGGGCTTTAAAAAGAAAAAGGAATCTTGCTCTTTGAGGATTAAAAGGTGCCACCAACTTA
* * **
1984905 TGTGGGCTTTGAAAAGAAAAAGGCGTCCTATTCTTTGAGGACATAAAAGTGCTACCAACTCGTGT
66 TGTGGGCTTTG-AAAGAAAAAGGTGTCCTACTCTTTGAGGAC-TAAGGGTGCTACCAACTCGTGT
* * *
1984970 GGGCTTT-AAAAAAGAAAAGGCGTCATGCTCTTTAAGGACTAAA
129 GGGCTTTGAAAAGA-AAAAGGTGTCCT-CTCTTTAAGGACTAAA
1985013 AGAGCTAAAA
Statistics
Matches: 414, Mismatches: 55, Indels: 21
0.84 0.11 0.04
Matches are distributed among these distances:
306 2 0.00
307 239 0.58
308 31 0.07
309 63 0.15
310 77 0.19
311 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (307 bp):
TCGTGTGGGCTTTAAAAAGAAAAAGGAATCTTGCTCTTTGAGGATTAAAAGGTGCCACCAACTTA
TGTGGGCTTTGAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAGGGTGCTACCAACTCGTGTGG
GCTTTGAAAAGAAAAAGGTGTCCTCTCTTTAAGGACTAAAGGGTGCCACCAACTCGTGTAGGCTT
TGAAAAGAAAAAAACGTCCTACCCTTTAAGGACTAAAGGGTGCCACCAACTCATGTGGACTTTGA
AAAGAAAAAGACATCCTACTCTTTAAGGACTAACAAGTGCCACCAAC
Found at i:1991391 original size:160 final size:159
Alignment explanation
Indices: 1991188--1991563 Score: 390
Period size: 160 Copynumber: 2.4 Consensus size: 159
1991178 AATCCCCCGA
* * *
1991188 TGAAAAATTTAATATTTTAGAGATAAAAAA--GGGGTTGGAGTATCCCTTA-AGAAATAACAGGG
1 TGAAAAA-TCAATATTTTA-AGA-AAAAAACTGGGGTTGGAGTATCCCCTAGA-AAATAACAGAG
* * *
1991250 TTGGAGTACAACCCCCA-A-TGAAAAATTTAATACTTT-GGAGATAAAAATGGGATTGGAGTA-T
62 TTGAAGT--AACCCCCATAGTGAAAAAATTAATACTTTAGGA-ATAAAAATGGGATTAGAGTATT
* * *
1991311 CCCTTTAAAAATAATGGGGTTAGACTATCTCCGATAG
124 CCC-TCAAAAATAACGGGGTTAGACTATCCCCGATAG
* *
1991348 TGGAAAAATCAATATTTTAAGAAAAAAACTGGGGTTAGAGTATCCCCTCGAAAATAACAGAGTTG
1 T-GAAAAATCAATATTTTAAGAAAAAAACTGGGGTTGGAGTATCCCCTAGAAAATAACAGAGTTG
* * * * ** * *
1991413 AAGTATCCTCGATAGTGAAAAAATTAGTGTTTTAGGAATAAAACTGGGGTTAGAGTATTCCCTCA
65 AAGTAACCCCCATAGTGAAAAAATTAATACTTTAGGAATAAAAATGGGATTAGAGTATTCCCTCA
* * *
1991478 AAAATAACGGGGTTGGAGTATCCCCGATTG
130 AAAATAACGGGGTTAGACTATCCCCGATAG
* *
1991508 TGAAAAATCAATATTTTGAA-AATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAA
1 TGAAAAATCAATATTTT-AAGAAAAAAACTGGGGTTGGAGTATCCCCTAGAAAATAA
1991564 TGATGTTGGA
Statistics
Matches: 183, Mismatches: 24, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
158 11 0.06
159 54 0.30
160 104 0.57
161 14 0.08
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (159 bp):
TGAAAAATCAATATTTTAAGAAAAAAACTGGGGTTGGAGTATCCCCTAGAAAATAACAGAGTTGA
AGTAACCCCCATAGTGAAAAAATTAATACTTTAGGAATAAAAATGGGATTAGAGTATTCCCTCAA
AAATAACGGGGTTAGACTATCCCCGATAG
Found at i:1991548 original size:159 final size:160
Alignment explanation
Indices: 1991290--1991593 Score: 411
Period size: 159 Copynumber: 1.9 Consensus size: 160
1991280 TACTTTGGAG
* * * *
1991290 ATAAAAATGGGATTGGAGTATCCCTTTAAAAATAATGGGGTTAGACTATCTCCGATAGTGGAAAA
1 ATAAAAATGGGATTAGAGTATCCCTTCAAAAATAACGGGGTTAGACTATCCCCGATAGTGGAAAA
1991355 ATCAATATTTTAAGAAAAAAACTGGGGTTAGAGTATCCCCTCGAAAATAACAGA-GTTGAAGTAT
66 ATCAATATTTTAAGAAAAAAACTGGGGTTAGAGTATCCCCTCGAAAATAA-AGATGTTGAAGTAT
1991419 -CCTCGATAGTGAAAAAATTAGTGTTTTAGGA
130 CCCT-GATAGTGAAAAAATTAGTGTTTTAGGA
* * * * *
1991450 ATAAAACTGGGGTTAGAGTATTCCC-TCAAAAATAACGGGGTTGGAGTATCCCCGATTGT-GAAA
1 ATAAAAATGGGATTAGAGTA-TCCCTTCAAAAATAACGGGGTTAGACTATCCCCGATAGTGGAAA
* * * *
1991513 AATCAATATTTTGAA-AATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAATGATGTTGGAGTA
65 AATCAATATTTT-AAGAAAAAAACTGGGGTTAGAGTATCCCCTCGAAAATAAAGATGTTGAAGTA
*
1991577 TCCCTGATGGTGAAAAA
129 TCCCTGATAGTGAAAAA
1991594 TCGGTATTTT
Statistics
Matches: 126, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
158 2 0.02
159 70 0.56
160 50 0.40
161 4 0.03
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (160 bp):
ATAAAAATGGGATTAGAGTATCCCTTCAAAAATAACGGGGTTAGACTATCCCCGATAGTGGAAAA
ATCAATATTTTAAGAAAAAAACTGGGGTTAGAGTATCCCCTCGAAAATAAAGATGTTGAAGTATC
CCTGATAGTGAAAAAATTAGTGTTTTAGGA
Found at i:1991555 original size:79 final size:78
Alignment explanation
Indices: 1991188--1991614 Score: 338
Period size: 80 Copynumber: 5.3 Consensus size: 78
1991178 AATCCCCCGA
* * ** * *
1991188 TGAAAAATTTAATATTTTAGAGATAAAAAAGGGGTTGGAGTAT-CCCTTAAGAAATAACAGGGTT
1 TGAAAAA-TCAATATTTTA-AAATAAAACTGGGGTTGGAGTATCCCCTCAA-AAATAACGGGGTT
* *
1991252 GGAGTACAACCCCCA-A-
63 GGAGT--ATCCCCGATAG
* ** * * * * * * *
1991268 TGAAAAATTTAATACTTTGGAGATAAAAATGGGATTGGAGTATCCCTTTAAAAATAATGGGGTTA
1 TGAAAAA-TCAATA-TTTTAAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTG
* *
1991333 GACTATCTCCGATAG
64 GAGTATCCCCGATAG
* * * * *
1991348 TGGAAAAATCAATATTTTAAGAAAAAAACTGGGGTTAGAGTATCCCCTCGAAAATAACAGAGTTG
1 T-GAAAAATCAATATTTTAA-AATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTG
* *
1991413 AAGTATCCTCGATAG
64 GAGTATCCCCGATAG
* * * * * *
1991428 TGAAAAAATTAGTGTTTTAGGAATAAAACTGGGGTTAGAGTATTCCCTCAAAAATAACGGGGTTG
1 TG-AAAAATCAATATTTTA-AAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTG
*
1991493 GAGTATCCCCGATTG
64 GAGTATCCCCGATAG
* * **
1991508 TGAAAAATCAATATTTTGAAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAATGATGTTGG
1 TGAAAAATCAATATTTT-AAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGG
* *
1991573 AGTATCCCTGATGG
65 AGTATCCCCGATAG
**
1991587 TGAAAAATCGGTATTTTAGAAATAAAAC
1 TGAAAAATCAATATTTTA-AAATAAAAC
1991615 CAGGGTTAAA
Statistics
Matches: 280, Mismatches: 57, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
78 6 0.02
79 93 0.33
80 166 0.59
81 15 0.05
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.28
Consensus pattern (78 bp):
TGAAAAATCAATATTTTAAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGA
GTATCCCCGATAG
Found at i:1991630 original size:79 final size:78
Alignment explanation
Indices: 1991343--1991614 Score: 307
Period size: 79 Copynumber: 3.4 Consensus size: 78
1991333 GACTATCTCC
1991343 GATAGTGGAAAAATCAATATTTTAAGAAA-AAAACTGGGGTTAGAGTATCCCCTCGAAAATAACA
1 GATAGT-GAAAAATCAATATTTT-AGAAATAAAACTGGGGTTAGAGTATCCCCTCGAAAATAA-A
*
1991407 GAGTTGAAGTAT-CCT
63 GAGTTGGAGTATCCCT
* * * * * * *
1991422 CGATAGTGAAAAAATTAGTGTTTTAGGAATAAAACTGGGGTTAGAGTATTCCCTCAAAAATAACG
1 -GATAGTG-AAAAATCAATATTTTAGAAATAAAACTGGGGTTAGAGTATCCCCTCGAAAATAA-A
* *
1991487 GGGTTGGAGTATCCCC
63 GAGTTGGAGTATCCCT
* * *
1991503 GATTGTGAAAAATCAATATTTT-GAAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAATGA
1 GATAGTGAAAAATCAATATTTTAG-AAATAAAACTGGGGTTAGAGTATCCCCTCGAAAATAAAGA
1991567 TGTTGGAGTATCCCT
65 -GTTGGAGTATCCCT
* **
1991582 GATGGTGAAAAATCGGTATTTTAGAAATAAAAC
1 GATAGTGAAAAATCAATATTTTAGAAATAAAAC
1991615 CAGGGTTAAA
Statistics
Matches: 162, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.01
79 91 0.56
80 67 0.41
81 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (78 bp):
GATAGTGAAAAATCAATATTTTAGAAATAAAACTGGGGTTAGAGTATCCCCTCGAAAATAAAGAG
TTGGAGTATCCCT
Found at i:1993985 original size:20 final size:20
Alignment explanation
Indices: 1993958--1994016 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
1993948 GGTGAAACCT
1993958 AGAATGTATCGATAAAATGA
1 AGAATGTATCGATAAAATGA
* *
1993978 ATAATGTATCGATACAATGA
1 AGAATGTATCGATAAAATGA
*
1993998 AGAATGTATTGATACAAAT
1 AGAATGTATCGATA-AAAT
1994017 TGTGAAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (20 bp):
AGAATGTATCGATAAAATGA
Found at i:1996004 original size:22 final size:22
Alignment explanation
Indices: 1995979--1996021 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1995969 TTTGTTTTTT
1995979 GTTTTTT-TCTCTTTTTATTTCA
1 GTTTTTTAT-TCTTTTTATTTCA
*
1996001 GTTTTTTATTTTTTTTATTTC
1 GTTTTTTATTCTTTTTATTTC
1996022 GAGAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (22 bp):
GTTTTTTATTCTTTTTATTTCA
Found at i:1999822 original size:156 final size:156
Alignment explanation
Indices: 1999422--2000530 Score: 899
Period size: 156 Copynumber: 7.1 Consensus size: 156
1999412 TAAGTTCAAG
* * * * * * *
1999422 AAAAATTACGAAAATGTCTCTAGGGG-ATAACTTCAACGT-AAAAGTA-CCTGATACCCATAAAG
1 AAAAATTATGAAAATGCCCCTAGGGGTATACCTTCGACGTGAAAA-TATCCTGGTACCCCTAAAG
* * * *
1999484 GATTTAACAAGGATTACAAACT-GGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGTAG
65 GACTTAA-AAGGACTATAAA-TGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAG
* * ** ** ** * *
1999547 ACTC-GATAAGGACCT-AGGGTTGGTTTTA
128 ACCCAG-TGATAACCTAAGACTCAGCTCTA
* * * * **
1999575 AAAAATTATGAAAATACCCTTAGGGG-ATACCTTCGACGTGGAAGTA-CCTAATACCCCTAAAGG
1 AAAAATTATGAAAATGCCCCTAGGGGTATACCTTCGACGTGAAAATATCCTGGTACCCCTAAAGG
* * *
1999638 ACTTAAAAAGAATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGAC
66 ACTT-AAAAGGACTATAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGAC
* *
1999703 CCAGTGATAACCTAGGACTCAACTCTA
130 CCAGTGATAACCTAAGACTCAGCTCTA
** * * *
1999730 AAAAATTACAAAAATGCCCCTAAGAG-ATACCTTCGACGTGAAAATATCCTGGTACCCCTAAAAG
1 AAAAATTATGAAAATGCCCCTAGGGGTATACCTTCGACGTGAAAATATCCTGGTACCCCTAAAGG
** ** * *
1999794 ACTTTAAAAGGACTATAAA-AAGAGTGAACCTATTTTAAATATCCACCTTTGGCATAAAAGCAGA
66 AC-TTAAAAGGACTATAAATGGGA-TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGA
** * * * *
1999858 CCTGGTAATAACTTAAGACTCAGCTTTG
129 CCCAGTGATAACCTAAGACTCAGCTCTA
* * * *
1999886 AAAAATTATGAAAATGCTCCTAGGAG-ATACCTTTGACGTGAAAGTAT-CTCGGTACCCCTAAAG
1 AAAAATTATGAAAATGCCCCTAGGGGTATACCTTCGACGTGAAAATATCCT-GGTACCCCTAAAG
* * * * * *
1999949 GACTTAAAAAGATTATAAA-AGGAGTGAACTTATCCTAAATACCCACCTTTGGCATAAAAGCAAA
65 GACTTAAAAGGACTATAAATGGGA-TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGA
* * * * *
2000013 CCTAGTGATAACATAAGACTTAGTTTTGA
129 CCCAGTGATAACCTAAGACTCAGCTCT-A
* * * * *
2000042 AAAAAATATGAAAATGCCCCTAGGGGTATACCTTCGAAGTGAAAGTATCCCGGTAACCCTAAAGG
1 AAAAATTATGAAAATGCCCCTAGGGGTATACCTTCGACGTGAAAATATCCTGGTACCCCTAAAGG
* * * * * *
2000107 ACTTAAAAAGGACTATAAATGGGATGAACCGATCCTAAACACCCACTTTCGGCATCAGAGTAGAC
66 ACTT-AAAAGGACTATAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGAC
* * * * *
2000172 CCATTGATAACCTAGGACTCGGCTTTG
130 CCAGTGATAACCTAAGACTCAGCTCTA
* * * * * * *
2000199 AAAAATTATGAAAATGCTCTTACGGGTATACCTTTGACGT-AAAAGTATCCTAGCAACCCTAAAG
1 AAAAATTATGAAAATGCCCCTAGGGGTATACCTTCGACGTGAAAA-TATCCTGGTACCCCTAAAG
* * * * * *
2000263 GACTTAAACA-GACTAGAGATGGGATGAACCTATCCTAAATATCTACCTTCGACATAAAAGCAAA
65 GACTTAAA-AGGACTATAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGA
* *
2000327 CCCAGTGACAACCTAAGACTCGGCTCTA
129 CCCAGTGATAACCTAAGACTCAGCTCTA
* * * * **
2000355 AAAAATTACGAAAATGCTCTTACGGGTATACCTTCGACGT-AAAAGTAT-CT-CAACAACCCTAA
1 AAAAATTATGAAAATGCCCCTAGGGGTATACCTTCGACGTGAAAA-TATCCTGGTAC--CCCTAA
* * * * * * *
2000417 ATGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATATCTACCTTCGGCATAAACA-CG
63 AGGACTTAAAAGGACTATAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAA-AGCA
* * * *
2000481 GACCTAGTGACAACCTAGGACTCAGTTCTA
127 GACCCAGTGATAACCTAAGACTCAGCTCTA
**
2000511 AAAAATTACAAAAATGCCCC
1 AAAAATTATGAAAATGCCCC
2000531 CTTAAAGGCT
Statistics
Matches: 788, Mismatches: 147, Indels: 39
0.81 0.15 0.04
Matches are distributed among these distances:
152 1 0.00
153 81 0.10
154 34 0.04
155 126 0.16
156 384 0.49
157 95 0.12
158 64 0.08
159 3 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.24
Consensus pattern (156 bp):
AAAAATTATGAAAATGCCCCTAGGGGTATACCTTCGACGTGAAAATATCCTGGTACCCCTAAAGG
ACTTAAAAGGACTATAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACC
CAGTGATAACCTAAGACTCAGCTCTA
Found at i:2000211 original size:313 final size:311
Alignment explanation
Indices: 1999422--2000476 Score: 997
Period size: 313 Copynumber: 3.4 Consensus size: 311
1999412 TAAGTTCAAG
* * * * * * * * *
1999422 AAAAATTACGAAAATGTCTCT-AGGGGATAACTTCAACGTAAAAGTA-CCTGAT-ACCCATAAAG
1 AAAAATTACGAAAATGCCCCTAAGGGTATACCTTCGACGTGAAAGTATCCCGGTAACCC-TAAAA
* * * * * * *
1999484 GATTTAACAAGGATTACAAACT-GGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGTAG
65 GACTTAAAAAGGACTATAAA-TGGGATGAACCTATCCTAAACACCCACCTTTGGCATAAAAGCAG
* ** ** ** * * * *
1999547 ACTC-GATAAGGACCT-AGGGTTGGTTTTAAAAAATTATGAAAATAC-CCTTAGGGGATACCTTC
129 ACCCAG-TAATAACCTAAGACTCAGCTTTGAAAAATTATGAAAATGCTCC-TA-GGGATACCTTT
* * *
1999609 GACGTGGAAGTACCT-AATACCCCTAAAGGACTTAAAAAGAATTATAGATGGGATGAACCTATCC
191 GACGTGAAAGTATCTCAGTACCCCTAAAGGACTTAAAAAG-ATTATAGATGGGATGAACCTATCC
* * *
1999673 TAAATACCCACCTTCGGCATAAAAGCAGACCCAGTGATAACCTAGGACTCAACTCTA
255 TAAATACCCACCTTCGGCATAAAAGCAAACCCAGTGATAACCTAAGACTCAGCTCTA
* * * * *
1999730 AAAAATTACAAAAATGCCCCTAAGAG-ATACCTTCGACGTGAAAATATCCTGGTACCCCTAAAAG
1 AAAAATTACGAAAATGCCCCTAAGGGTATACCTTCGACGTGAAAGTATCCCGGTAACCCTAAAAG
* ** ** * *
1999794 ACTTTAAAAGGACTATAAA-AAGAGTGAACCTATTTTAAATATCCACCTTTGGCATAAAAGCAGA
66 ACTTAAAAAGGACTATAAATGGGA-TGAACCTATCCTAAACACCCACCTTTGGCATAAAAGCAGA
** *
1999858 CCTGGTAATAACTTAAGACTCAGCTTTGAAAAATTATGAAAATGCTCCTAGGAGATACCTTTGAC
130 CCCAGTAATAACCTAAGACTCAGCTTTGAAAAATTATGAAAATGCTCCTAGG-GATACCTTTGAC
* ** *
1999923 GTGAAAGTATCTCGGTACCCCTAAAGGACTTAAAAAGATTATA-AAAGGAGTGAACTTATCCTAA
194 GTGAAAGTATCTCAGTACCCCTAAAGGACTTAAAAAGATTATAGATGGGA-TGAACCTATCCTAA
* * * * * *
1999987 ATACCCACCTTTGGCATAAAAGCAAACCTAGTGATAACATAAGACTTAGTTTTGA
258 ATACCCACCTTCGGCATAAAAGCAAACCCAGTGATAACCTAAGACTCAGCTCT-A
* * * * *
2000042 AAAAAATATGAAAATGCCCCTAGGGGTATACCTTCGAAGTGAAAGTATCCCGGTAACCCTAAAGG
1 AAAAATTACGAAAATGCCCCTAAGGGTATACCTTCGACGTGAAAGTATCCCGGTAACCCTAAAAG
* * * *
2000107 ACTTAAAAAGGACTATAAATGGGATGAACCGATCCTAAACACCCA-CTTTCGGCATCAGAGTAGA
66 ACTTAAAAAGGACTATAAATGGGATGAACCTATCCTAAACACCCACCTTT-GGCATAAAAGCAGA
* * * * *
2000171 CCCATTGATAACCTAGGACTCGGCTTTGAAAAATTATGAAAATGCTCTTACGGGTATACCTTTGA
130 CCCAGTAATAACCTAAGACTCAGCTTTGAAAAATTATGAAAATGCTCCTA-GGG-ATACCTTTGA
* * * * * *
2000236 CGTAAAAGTATC-CTAGCAACCCTAAAGGACTTAAACAGACTAGAGATGGGATGAACCTATCCTA
193 CGTGAAAGTATCTC-AGTACCCCTAAAGGACTTAAAAAGATTATAGATGGGATGAACCTATCCTA
* * * * *
2000300 AATATCTACCTTCGACATAAAAGCAAACCCAGTGACAACCTAAGACTCGGCTCTA
257 AATACCCACCTTCGGCATAAAAGCAAACCCAGTGATAACCTAAGACTCAGCTCTA
* * * * * *** *
2000355 AAAAATTACGAAAATGCTCTTACGGGTATACCTTCGACGTAAAAGTATCTCAACAACCCTAAATG
1 AAAAATTACGAAAATGCCCCTAAGGGTATACCTTCGACGTGAAAGTATCCCGGTAACCCTAAAAG
* * * * * *
2000420 ACTTAAAAA-GACTAGAGATGGGATGAACCTATCCTAAATATCTACCTTCGGCATAAA
66 ACTTAAAAAGGACTATAAATGGGATGAACCTATCCTAAACACCCACCTTTGGCATAAA
2000477 CACGGACCTA
Statistics
Matches: 605, Mismatches: 121, Indels: 38
0.79 0.16 0.05
Matches are distributed among these distances:
308 36 0.06
309 42 0.07
310 36 0.06
311 110 0.18
312 85 0.14
313 188 0.31
314 104 0.17
315 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (311 bp):
AAAAATTACGAAAATGCCCCTAAGGGTATACCTTCGACGTGAAAGTATCCCGGTAACCCTAAAAG
ACTTAAAAAGGACTATAAATGGGATGAACCTATCCTAAACACCCACCTTTGGCATAAAAGCAGAC
CCAGTAATAACCTAAGACTCAGCTTTGAAAAATTATGAAAATGCTCCTAGGGATACCTTTGACGT
GAAAGTATCTCAGTACCCCTAAAGGACTTAAAAAGATTATAGATGGGATGAACCTATCCTAAATA
CCCACCTTCGGCATAAAAGCAAACCCAGTGATAACCTAAGACTCAGCTCTA
Found at i:2000527 original size:469 final size:466
Alignment explanation
Indices: 1999422--2000530 Score: 1067
Period size: 469 Copynumber: 2.4 Consensus size: 466
1999412 TAAGTTCAAG
* * * * * *
1999422 AAAAATTACGAAAATG-TCTCTAGGGGATAACTTCAACGTAAAAGTACCTGATAC--CCATAAAG
1 AAAAATTACGAAAATGCTC-CTAGGAGATACCTTCGACGTAAAAGTATCTCA-ACAACCCTAAAG
* * * * * * *
1999484 GATTTAACAAGGATTACAAACTGGA-TGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGTAG
64 GACTTAA-AAAGACTAGAAA-AGGAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAA
* * ** * ** ** * * *
1999547 A-CTCGATAAGGACCT-AGGGTTGGTTTTAAAAAATTATGAAAATACCCTTAGGGGATACCTTCG
127 ACCTAG-TGACAACATAAGACTCAGTTCTAAAAAATTATGAAAATGCCCCTAGGGGATACCTTCG
* * * * * * *
1999610 ACGTGGAAGTACCTAATACCCCTAAAGGACTTAAAAAGAATTATAGATGGGATGAACCTATCCTA
191 AAGTGAAAGTACCCAATAACCCTAAAGGACTTAAAAAGAACTATAAATGGGATGAACCGATCCTA
*
1999675 AATACCCACCTTCGGCATAAAAGCAGACCCAGTGATAACCTAGGACTCAACTCTAAAAAATTACA
256 AACACCCACCTTCGGCATAAAAGCAGACCCAGTGATAACCTAGGACTCAACTCTAAAAAATTACA
* * *
1999740 AAAATGCCCCTAAGAGATACCTTCGACGTGAAAATATCCTGGTACCCCTAAAAGACTTTAAAAGG
321 AAAATGCCCCTAAGAGATACCTTCGACGTGAAAATATCCTAGCAACCCTAAAAGACTTTAAAAGG
* ** * * * ** *
1999805 ACTATAAAAAGAGTGAACCTATTTTAAATATCCACCTTTGGCATAAAAGCAGACCTGGTAATAAC
386 ACTAGAAAAAGAGTGAACCTATCCTAAATATCCACCTTCGACATAAAAGCAAACCCAGTAACAAC
* * *
1999870 TTAAGACTCAGCTTTG
451 CTAAGACTCAGCTCTA
* * * *** *
1999886 AAAAATTATGAAAATGCTCCTAGGAGATACCTTTGACGTGAAAGTATCTCGGTACCCCTAAAGGA
1 AAAAATTACGAAAATGCTCCTAGGAGATACCTTCGACGTAAAAGTATCTCAACAACCCTAAAGGA
* * * *
1999951 CTTAAAAAGATTATAAAAGGAGTGAACTTATCCTAAATACCCACCTTTGGCATAAAAGCAAACCT
66 CTTAAAAAGACTAGAAAAGGAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAAACCT
* * * *
2000016 AGTGATAACATAAGACTTAGTTTTGAAAAAAATATGAAAATGCCCCTAGGGGTATACCTTCGAAG
131 AGTGACAACATAAGACTCAGTTCT-AAAAAATTATGAAAATGCCCCTAGGGG-ATACCTTCGAAG
** *
2000081 TGAAAGTATCCCGGTAACCCTAAAGGACTTAAAAAGGACTATAAATGGGATGAACCGATCCTAAA
194 TGAAAGTA-CCCAATAACCCTAAAGGACTTAAAAAGAACTATAAATGGGATGAACCGATCCTAAA
* * * * * ** * * **
2000146 CACCCACTTTCGGCATCAGAGTAGACCCATTGATAACCTAGGACTCGGCTTTGAAAAATTATGAA
258 CACCCACCTTCGGCATAAAAGCAGACCCAGTGATAACCTAGGACTCAACTCTAAAAAATTACAAA
* * * * * *
2000211 AATGCTCTTACGGGTATACCTTTGACGT-AAAAGTATCCTAGCAACCCTAAAGGAC-TTAAACA-
323 AATGCCCCTAAGAG-ATACCTTCGACGTGAAAA-TATCCTAGCAACCCTAAAAGACTTTAAA-AG
* * * * *
2000273 GACTAG-AGATGGGATGAACCTATCCTAAATATCTACCTTCGACATAAAAGCAAACCCAGTGACA
385 GACTAGAAAAAGAG-TGAACCTATCCTAAATATCCACCTTCGACATAAAAGCAAACCCAGTAACA
*
2000337 ACCTAAGACTCGGCTCTA
449 ACCTAAGACTCAGCTCTA
* *
2000355 AAAAATTACGAAAATGCTCTTACGG-GTATACCTTCGACGTAAAAGTATCTCAACAACCCTAAAT
1 AAAAATTACGAAAATGCTCCTA-GGAG-ATACCTTCGACGTAAAAGTATCTCAACAACCCTAAAG
* * * * **
2000419 GACTTAAAAAGACTAGAGATGG-GATGAACCTATCCTAAATATCTACCTTCGGCATAAACA-CGG
64 GACTTAAAAAGACTAGAAAAGGAG-TGAACCTATCCTAAATACCCACCTTCGGCATAAA-AGCAA
* * **
2000482 ACCTAGTGACAACCTAGGACTCAGTTCTAAAAAATTACAAAAATGCCCC
127 ACCTAGTGACAACATAAGACTCAGTTCTAAAAAATTATGAAAATGCCCC
2000531 CTTAAAGGCT
Statistics
Matches: 520, Mismatches: 107, Indels: 31
0.79 0.16 0.05
Matches are distributed among these distances:
463 3 0.01
464 65 0.12
465 39 0.08
466 12 0.02
467 24 0.05
468 22 0.04
469 219 0.42
470 135 0.26
471 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.24
Consensus pattern (466 bp):
AAAAATTACGAAAATGCTCCTAGGAGATACCTTCGACGTAAAAGTATCTCAACAACCCTAAAGGA
CTTAAAAAGACTAGAAAAGGAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAAACCT
AGTGACAACATAAGACTCAGTTCTAAAAAATTATGAAAATGCCCCTAGGGGATACCTTCGAAGTG
AAAGTACCCAATAACCCTAAAGGACTTAAAAAGAACTATAAATGGGATGAACCGATCCTAAACAC
CCACCTTCGGCATAAAAGCAGACCCAGTGATAACCTAGGACTCAACTCTAAAAAATTACAAAAAT
GCCCCTAAGAGATACCTTCGACGTGAAAATATCCTAGCAACCCTAAAAGACTTTAAAAGGACTAG
AAAAAGAGTGAACCTATCCTAAATATCCACCTTCGACATAAAAGCAAACCCAGTAACAACCTAAG
ACTCAGCTCTA
Found at i:2001524 original size:22 final size:22
Alignment explanation
Indices: 2001496--2001539 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2001486 TGCATTCAAG
2001496 TTCCTAAACTTCTACATATTTA
1 TTCCTAAACTTCTACATATTTA
2001518 TTCCTAAACTTCTACATATTTA
1 TTCCTAAACTTCTACATATTTA
2001540 CATTTTGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (22 bp):
TTCCTAAACTTCTACATATTTA
Found at i:2002072 original size:9 final size:9
Alignment explanation
Indices: 2002055--2002107 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
2002045 TTTCAATCTA
*
2002055 TTTTCTCCT
1 TTTTTTCCT
2002064 TTTTTTCCT
1 TTTTTTCCT
2002073 TTTTTT-CT
1 TTTTTTCCT
*
2002081 TTTTTTTCT
1 TTTTTTCCT
2002090 TTTCTTTCTCT
1 TTT-TTTC-CT
*
2002101 CTTTTTC
1 TTTTTTC
2002108 AGCTGAACTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
8 8 0.21
9 19 0.50
10 7 0.18
11 4 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTCCT
Found at i:2002084 original size:18 final size:18
Alignment explanation
Indices: 2002062--2002098 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2002052 CTATTTTCTC
*
2002062 CTTTTTTTCCTTTT-TTT
1 CTTTTTTTTCTTTTCTTT
2002079 CTTTTTTTTCTTTTCTTT
1 CTTTTTTTTCTTTTCTTT
2002097 CT
1 CT
2002099 CTCTTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
CTTTTTTTTCTTTTCTTT
Found at i:2003035 original size:162 final size:164
Alignment explanation
Indices: 2002774--2003253 Score: 486
Period size: 175 Copynumber: 2.9 Consensus size: 164
2002764 GAAAATGAGG
* * * ***
2002774 ATTTCAAAGAAAAAATTGAAAAACTCATGAAGATGGATGAATTTTTTAAAACGAAATTAATAAAA
1 ATTTC-AAGAAAAAATTCAAAAACTAATGAAAACAAATGAATTTTTT-AAACGAAATTAATAAAA
* * *
2002839 AATAAATAATGATGTTTGATGAATTTTAAAAATTGAAAA-CTATGAAAGATCCCCTCG-AAAAAA
64 AATAAAAAAAGATGTTTGATGAATTTTAAAAATTGAAAACCT-TGAAAAATCCCCTCGAAAAAAA
2002902 TTACGGAGTAAAAAACACCATATTTTGGAAAAAGGGA
128 TTACGGAGTAAAAAACACCATATTTTGGAAAAAGGGA
* ** *
2002939 ATTTCAAGGAAAAAATTCAAAAACTAATGAAAACAAATGAA-TTTTT-AACTAAATTAATATGAT
1 ATTTCAA-GAAAAAATTCAAAAACTAATGAAAACAAATGAATTTTTTAAACGAAATTAATAAAAA
* *
2003002 ATAAAAAAAGATGTTTGATGAATTTTCAAAATTGAAAACCTTGAAAAATCCGCTCGAAAAAAATT
65 ATAAAAAAAGATGTTTGATGAATTTTAAAAATTGAAAACCTTGAAAAATCCCCTCGAAAAAAATT
** *
2003067 ACGGAGTACGAAACACCGTATTTTGGAAAAAGGGA
130 ACGGAGTAAAAAACACCATATTTTGGAAAAAGGGA
** *
2003102 ATTTCAAGAAAAAATTCAAAAAACTCAAAAAACTCAAGAAAATTAATGAATTTTTGAAAACTG-A
1 ATTTCAAGAAAAAATTC-AAAAACT-----AA-T---GAAAACAAATGAATTTTT-TAAAC-GAA
* * * * * ** **
2003166 ATTAATATAAAATAAATGATA-ATTTTTGATGAATTTCAAAAATTGAAAACCAAGAAAAATTACC
54 ATTAATAAAAAATAAA-AAAAGATGTTTGATGAATTTTAAAAATTGAAAACCTTGAAAAATCCCC
*
2003230 TCGAAAAAAATTACAGAGTAAAAA
118 TCGAAAAAAATTACGGAGTAAAAA
2003254 GCACTGTATT
Statistics
Matches: 260, Mismatches: 37, Indels: 26
0.80 0.11 0.08
Matches are distributed among these distances:
162 71 0.27
163 56 0.22
164 7 0.03
165 32 0.12
168 2 0.01
169 1 0.00
172 11 0.04
173 4 0.02
175 74 0.28
176 2 0.01
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.26
Consensus pattern (164 bp):
ATTTCAAGAAAAAATTCAAAAACTAATGAAAACAAATGAATTTTTTAAACGAAATTAATAAAAAA
TAAAAAAAGATGTTTGATGAATTTTAAAAATTGAAAACCTTGAAAAATCCCCTCGAAAAAAATTA
CGGAGTAAAAAACACCATATTTTGGAAAAAGGGA
Found at i:2003131 original size:8 final size:9
Alignment explanation
Indices: 2003110--2003143 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2003100 GAATTTCAAG
*
2003110 AAAAAATTC
1 AAAAAACTC
2003119 AAAAAACTC
1 AAAAAACTC
2003128 AAAAAACTC
1 AAAAAACTC
2003137 AAGAAAA
1 AA-AAAA
2003144 TTAATGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.71, C:0.15, G:0.03, T:0.12
Consensus pattern (9 bp):
AAAAAACTC
Found at i:2005608 original size:120 final size:120
Alignment explanation
Indices: 2005400--2005625 Score: 278
Period size: 120 Copynumber: 1.9 Consensus size: 120
2005390 CTTCAACACG
* * * * *
2005400 AAAGTATCCTGATAACCCTAAAAAATTTAAAAGCGATCATAACAAGAGGAACTTATCCTAATTGC
1 AAAGTATCCTGATAACCCTAAAAAACTTAAAAACGATCATAACAAGAGGAACCTATCCTAAATAC
* *
2005465 ACACCTTTGGTATAAAATCATCCCGGTGACTACCTAAGACTTGACCTTCGACATT
66 ACACCTTTGGCATAAAATCATCCCAGTGACTACCTAAGACTTGACCTTCGACATT
* * * * *
2005520 AAAGTATCTTGATAACCCT-AAAAACTTAAAAACGATCATAA-ATTGGATGAACCTCTTCTAAAT
1 AAAGTATCCTGATAACCCTAAAAAACTTAAAAACGATCATAACA--AGAGGAACCTATCCTAAAT
* *
2005583 ACACACCTTTGGCATTAAAGT-ATCCCAGTGACTACCTATGACT
64 ACACACCTTTGGCA-TAAAATCATCCCAGTGACTACCTAAGACT
2005626 GGGTTCTAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
118 1 0.01
119 20 0.22
120 63 0.71
121 5 0.06
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.27
Consensus pattern (120 bp):
AAAGTATCCTGATAACCCTAAAAAACTTAAAAACGATCATAACAAGAGGAACCTATCCTAAATAC
ACACCTTTGGCATAAAATCATCCCAGTGACTACCTAAGACTTGACCTTCGACATT
Found at i:2006031 original size:159 final size:162
Alignment explanation
Indices: 2005813--2006132 Score: 395
Period size: 159 Copynumber: 2.0 Consensus size: 162
2005803 TTTCATACTC
*
2005813 AACGAAAAATCGAGAGGATAAGAAAAGTCTTGAAAATATTTATACACCTACGAAAGGCCATAAGG
1 AACGAAAAATCGAGAGAATAAGAAAAGTCTTGAAAATATTTATACACCTACGAAAGGCCAT-AGG
** * *
2005878 -AGGAATCTTTAAAAATGA-TAAAATGATTATTTTACCTTTAAAAACTAA-ATTTGCTATTTAAT
65 AAAAAATCTTTAAAAATGACTAAAATGATGATTTTACCTTTAAAAACTAAGATTTGCTATTCAAT
*
2005940 CCTTAAACCATTGAAAATTTT-ATTTTGTACCT
130 CCTTAAACCATTCAAAATTTTCATTTTGTACCT
* * *
2005972 AACGAAAAATCGAGAGAATACA-AAAAGAT-TT-AAAATTTTCTATAC-CTCTATGGAAGGCCAT
1 AACGAAAAATCGAGAGAATA-AGAAAAG-TCTTGAAAATATT-TATACAC-CTACGAAAGGCCAT
2006033 AGGAATAATAAAAATCTTTAAAAATGACTAAAATGATGATTTTACCTTTAAAAACTAAGATTTGC
62 AGG----A-AAAAATCTTTAAAAATGACTAAAATGATGATTTTACCTTTAAAAACTAAGATTTGC
**
2006098 TATTCAATCCTTAAACTTTTCAAAATTTTCATTTT
122 TATTCAATCCTTAAACCATTCAAAATTTTCATTTT
2006133 AGTCCCTACA
Statistics
Matches: 137, Mismatches: 11, Indels: 18
0.83 0.07 0.11
Matches are distributed among these distances:
158 11 0.08
159 43 0.31
160 2 0.01
164 16 0.12
165 29 0.21
166 31 0.23
167 5 0.04
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (162 bp):
AACGAAAAATCGAGAGAATAAGAAAAGTCTTGAAAATATTTATACACCTACGAAAGGCCATAGGA
AAAAATCTTTAAAAATGACTAAAATGATGATTTTACCTTTAAAAACTAAGATTTGCTATTCAATC
CTTAAACCATTCAAAATTTTCATTTTGTACCT
Found at i:2006711 original size:34 final size:35
Alignment explanation
Indices: 2006673--2006739 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2006663 CCTTACAACA
2006673 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2006707 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2006740 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:2007215 original size:13 final size:13
Alignment explanation
Indices: 2007197--2007222 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2007187 CAATTTTTTG
2007197 TGTATCGATACAT
1 TGTATCGATACAT
2007210 TGTATCGATACAT
1 TGTATCGATACAT
2007223 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2007287 original size:21 final size:21
Alignment explanation
Indices: 2007261--2007336 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2007251 CTGCCAAGAA
2007261 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
2007282 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2007302 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2007323 ATGTATCGATACAT
1 ATGTATCGATACAT
2007337 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:2007306 original size:20 final size:20
Alignment explanation
Indices: 2007281--2007354 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2007271 ACATCTTTTT
2007281 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
2007301 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
2007322 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
2007342 CATGTATCGATAC
1 CATGTATCGATAC
2007355 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:2007318 original size:41 final size:41
Alignment explanation
Indices: 2007261--2007354 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2007251 CTGCCAAGAA
2007261 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2007302 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2007343 ATGTATCGATAC
1 ATGTATCGATAC
2007355 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:2009289 original size:13 final size:13
Alignment explanation
Indices: 2009271--2009295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2009261 ACTGAAGCAA
2009271 TGTATCGATACAT
1 TGTATCGATACAT
2009284 TGTATCGATACA
1 TGTATCGATACA
2009296 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2010949 original size:84 final size:84
Alignment explanation
Indices: 2010794--2010958 Score: 194
Period size: 84 Copynumber: 2.0 Consensus size: 84
2010784 CATTTTCGAC
* * * *
2010794 TTGCAACTCATTTCTTTTCTCTTCTAATTCATTTATTTTCTTTTTGAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCTTCTAATTCACTTAATTTCTTTTTGAAAGAATTATTCTCTAAAC
2010859 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
*
2010878 TTGCAACTC-TTTCATATTCT-TCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCT
1 TTGCAACTCATTTC-TATTCTCT-TCTAATTCACTTAATTTCTTTTTGAAAGAAT-T-ATTCTCT
* * *
2010939 ACACTTATTGATTTATTTTC
62 AAACTCATTGATTTACTTTC
2010959 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
82 6 0.09
83 10 0.14
84 53 0.77
ACGTcount: A:0.24, C:0.19, G:0.04, T:0.53
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCTTCTAATTCACTTAATTTCTTTTTGAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:2011371 original size:21 final size:21
Alignment explanation
Indices: 2011347--2011388 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2011337 ATCCATTTCT
* *
2011347 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
2011368 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
2011389 ACGGTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:2012519 original size:34 final size:35
Alignment explanation
Indices: 2012481--2012547 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2012471 CCTTACAACA
2012481 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2012515 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2012548 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:2013023 original size:13 final size:13
Alignment explanation
Indices: 2013005--2013030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2012995 CAATTTTTTG
2013005 TGTATCGATACAT
1 TGTATCGATACAT
2013018 TGTATCGATACAT
1 TGTATCGATACAT
2013031 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2013095 original size:21 final size:21
Alignment explanation
Indices: 2013069--2013144 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2013059 CTGCCAAGAA
2013069 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
2013090 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2013110 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
*
2013131 ATGTATCGACACAT
1 ATGTATCGATACAT
2013145 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2013114 original size:20 final size:20
Alignment explanation
Indices: 2013089--2013162 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
2013079 ACATCTTTTT
2013089 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
2013109 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
*
2013130 CATGTATCGACACATTGCAA
1 CATGTATCGATACATTGCAA
2013150 CATGTATCGATAC
1 CATGTATCGATAC
2013163 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:2013126 original size:41 final size:41
Alignment explanation
Indices: 2013069--2013162 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2013059 CTGCCAAGAA
*
2013069 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGACACATTGCAAC
2013110 ATGTATCGATACATCTTTTTCATGTATCGACACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGACACATTGCAAC
2013151 ATGTATCGATAC
1 ATGTATCGATAC
2013163 TTTGAATTGT
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:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGACACATTGCAAC
Found at i:2016591 original size:20 final size:20
Alignment explanation
Indices: 2016545--2016601 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
2016535 GTCGAACCTA
2016545 ATCAAACTTAAGTCAAGCTTG
1 ATCAAACTT-AGTCAAGCTTG
*
2016566 ACCAAACTTAGTCAAGAC-TG
1 ATCAAACTTAGTCAAG-CTTG
* *
2016586 ATCAAAATTGGTCAAG
1 ATCAAACTTAGTCAAG
2016602 GAAAGTCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (20 bp):
ATCAAACTTAGTCAAGCTTG
Found at i:2016990 original size:23 final size:24
Alignment explanation
Indices: 2016964--2017008 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
2016954 TAATTAAATT
2016964 TTTATGTATA-AAGTTTTTAAACA
1 TTTATGTATAGAAGTTTTTAAACA
*
2016987 TTTATGTATAGAATTTTTTAAA
1 TTTATGTATAGAAGTTTTTAAA
2017009 TATCCCATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (24 bp):
TTTATGTATAGAAGTTTTTAAACA
Found at i:2019423 original size:11 final size:12
Alignment explanation
Indices: 2019396--2019422 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2019386 AATAGAAAAC
2019396 TTTTCATCACTT
1 TTTTCATCACTT
2019408 TTTTCATCACTT
1 TTTTCATCACTT
2019420 TTT
1 TTT
2019423 CTTTAGCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTCATCACTT
Found at i:2020956 original size:35 final size:33
Alignment explanation
Indices: 2020896--2020964 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 33
2020886 TTTTCCCCCA
* *
2020896 TGCATTCATAATAATATCAAGGCAAACATTCAT
1 TGCATTCATAAAAATAGCAAGGCAAACATTCAT
2020929 TGCATTCATGAAAAAATAGCAAGGCAAACATTCAT
1 TGCATTCAT--AAAAATAGCAAGGCAAACATTCAT
2020964 T
1 T
2020965 AAAATCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 9 0.28
35 23 0.72
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (33 bp):
TGCATTCATAAAAATAGCAAGGCAAACATTCAT
Found at i:2024807 original size:21 final size:21
Alignment explanation
Indices: 2024781--2024822 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2024771 GTAACGATAC
2024781 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
2024802 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
2024823 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:2024871 original size:19 final size:19
Alignment explanation
Indices: 2024847--2024932 Score: 58
Period size: 19 Copynumber: 4.7 Consensus size: 19
2024837 AGCGATACAT
2024847 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
2024866 TGTATCAATAC---A--T-
1 TGTATCGATACAAAACTTA
**
2024879 TGTATCGATACAGCACTTA
1 TGTATCGATACAAAACTTA
** *
2024898 TGTATCGATACATTTACTATT
1 TGTATCGATACA-AAACT-TA
2024919 TGTATCGATACAAA
1 TGTATCGATACAAA
2024933 TTGTTTGAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
16 2 0.04
18 1 0.02
19 22 0.42
20 3 0.06
21 13 0.25
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2024882 original size:32 final size:32
Alignment explanation
Indices: 2024841--2024911 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
2024831 CTTCGTAGCG
2024841 ATACATTGTATCGATACAAAACTTATGTATCA
1 ATACATTGTATCGATACAAAACTTATGTATCA
** *
2024873 ATACATTGTATCGATACAGCACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCA
2024905 ATACATT
1 ATACATT
2024912 TACTATTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (32 bp):
ATACATTGTATCGATACAAAACTTATGTATCA
Found at i:2025731 original size:42 final size:41
Alignment explanation
Indices: 2025684--2025776 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 41
2025674 CGTCCCATTT
* *
2025684 TTTGAGGACAAAGGAAAAAGGGAAACGAAA-TACGTCCTGCTC
1 TTTGAGGACAAA-GAAAAA-GGAAAAGAAAGTACATCCTGCTC
* * * *
2025726 TTTGAGGATGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTC
1 TTTGAGGA-CAAAGAAAAAGGAAAAGAAAGTACATCCTGCTC
2025768 TTTGAGGAC
1 TTTGAGGAC
2025777 TAAAAAGTGC
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
41 8 0.19
42 31 0.74
43 3 0.07
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (41 bp):
TTTGAGGACAAAGAAAAAGGAAAAGAAAGTACATCCTGCTC
Found at i:2025848 original size:61 final size:57
Alignment explanation
Indices: 2025760--2026064 Score: 343
Period size: 55 Copynumber: 5.3 Consensus size: 57
2025750 ATAAAGTGCA
** *
2025760 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--AAAGG-AA-GTG
* * *
2025821 TCCTGCTCTTCGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGTA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--AAAG-G-AAGTG
* * * *
2025882 TCCTGCCCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AA-GAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAGTG
* * *
2025937 TCCTGCTCTTTGAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AA-GAAGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAGTG
* * *
2025992 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAA--AGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAGTG
*
2026047 TCCTACTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
2026065 AAAGGGCGAA
Statistics
Matches: 218, Mismatches: 24, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
55 118 0.54
56 3 0.01
58 2 0.01
61 91 0.42
62 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (57 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAGTG
Found at i:2026050 original size:110 final size:113
Alignment explanation
Indices: 2025757--2026064 Score: 379
Period size: 110 Copynumber: 2.7 Consensus size: 113
2025747 AAAATAAAGT
* *
2025757 GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGTGT
1 GCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----A--AAAGGTGT
* **
2025822 CCTGCTCTTCGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA
60 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---AAGAGAAA
* * * *
2025879 GTATCCTGCCCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCT
1 GCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCT
*
2025944 CTTTGAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-A-AG-AA
66 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGAAA
* ** * *
2025989 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACT
1 GCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCT
2026054 CTTTGAGGACT
66 CTTTGAGGACT
2026065 AAAGGGCGAA
Statistics
Matches: 166, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
110 68 0.41
111 2 0.01
112 1 0.01
116 49 0.30
118 1 0.01
122 45 0.27
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (113 bp):
GCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCT
CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGAAA
Found at i:2026169 original size:55 final size:55
Alignment explanation
Indices: 2026083--2026493 Score: 504
Period size: 55 Copynumber: 7.4 Consensus size: 55
2026073 AAAGGAGGGA
* * **
2026083 GCATCTTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
2026138 GCATCCTGCTCTTTGGGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAGG
1 GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
** **
2026193 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAG
1 GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT--AAA-AG
* *
2026251 AAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAG
1 ---GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
** * *
2026309 GTGTCCTGTTCTTTGAGGACT-AGAAAATGCCACCAACTTGTGT-GGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
2026363 GCGTCCTACTCTTTGAGGACT-AGAAAATGCCACCAACTTGTGTGGGCTTTAAGAG
1 GCATCCTGCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* ** *
2026418 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
*
2026473 GCATCCTACTCTTTGAGGACT
1 GCATCCTGCTCTTTGAGGACT
2026494 AAAGGGTGAA
Statistics
Matches: 309, Mismatches: 38, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
54 49 0.16
55 207 0.67
56 1 0.00
57 2 0.01
58 3 0.01
59 2 0.01
61 45 0.15
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (55 bp):
GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:2026566 original size:429 final size:432
Alignment explanation
Indices: 2025760--2026567 Score: 1236
Period size: 429 Copynumber: 1.9 Consensus size: 432
2025750 ATAAAGTGCA
**
2025760 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCCT
**
2025825 GCTCTTCGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGTATCCTGCCC
66 GCTCTTCGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAGAG--AGTATCCTGCCC
* *
2025890 TTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAAGACT
127 TTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTACTCTTTGAAGACT
* *
2025955 GGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCC
192 AGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAGCGTCCTGCTCTTTGAGGACTGGAAAGTGCC
* *
2026020 ACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGGGAGC
257 ACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGC
* ** *
2026085 ATCTTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
322 ATCCTGCTCTTTGAGGAAAGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGCATCCTGCTCT
2026150 TTGGGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAGGGTG
387 TTGGGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAGGGTG
* * * *
2026196 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GCATCC
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAG-GAAAGGCATCC
* * **
2026260 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAG-GTGTCCTGTTCTTT
65 TGCTCTTCGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGAGTATCCTGCCCTTT
*
2026323 GAGGACT-AGAAAATGCCACCAACTTGTGT-GGCTTTGAA-AGGCGTCCTACTCTTTGAGGACTA
130 GAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCCTACTCTTTGAAGACTA
*
2026385 GAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCC
193 GAAAATGCCACCAACTTGTGTGGGCTTTAAGAAGCGTCCTGCTCTTTGAGGACTGGAAA-GTGCC
* *
2026449 ACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
257 ACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGC
*
2026514 GTCCTGCTCTTTGAGGAAA-AGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGG
322 ATCCTGCTCTTTGAGGAAAGA-AAGGTGCCACCAACTTGTATGGGCTTTAAAAGG
2026568 AAAAGGCATC
Statistics
Matches: 340, Mismatches: 27, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
428 4 0.01
429 193 0.57
430 40 0.12
433 5 0.01
436 94 0.28
437 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (432 bp):
TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCCT
GCTCTTCGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGAGTATCCTGCCCTTTG
AGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTACTCTTTGAAGACTAGAA
AATGCCACCAACTTGTGTGGGCTTTAAGAAGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCA
ACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCATCC
TGCTCTTTGAGGAAAGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGCATCCTGCTCTTTGG
GGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAGGGTG
Found at i:2027572 original size:13 final size:13
Alignment explanation
Indices: 2027554--2027578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2027544 TTAAGCAGAT
2027554 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
2027567 TCTTTTTTTTTT
1 TCTTTTTTTTTT
2027579 AGAAGAGAAG
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:2031788 original size:29 final size:29
Alignment explanation
Indices: 2031743--2031799 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
2031733 TTGTGTACCA
2031743 GTGACCCCTCTTGGACATAAGTTGCGTTT
1 GTGACCCCTCTTGGACATAAGTTGCGTTT
*
2031772 GTGACCCCTCTTTGACATAAGTTGCGTT
1 GTGACCCCTCTTGGACATAAGTTGCGTT
2031800 CACAAACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (29 bp):
GTGACCCCTCTTGGACATAAGTTGCGTTT
Found at i:2041559 original size:19 final size:19
Alignment explanation
Indices: 2041535--2041618 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 19
2041525 CGATACATTA
2041535 TATCGATACAAAACTTTTG
1 TATCGATACAAAACTTTTG
2041554 TATCGATAC---A---TTG
1 TATCGATACAAAACTTTTG
* *
2041567 TATCGATACAACACTTATG
1 TATCGATACAAAACTTTTG
**
2041586 TATCGATACATTTACTGTTTG
1 TATCGATACA-AAACT-TTTG
*
2041607 TATCAATACAAA
1 TATCGATACAAA
2041619 TTGTTTGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
13 12 0.24
16 2 0.04
19 21 0.42
20 3 0.06
21 12 0.24
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TATCGATACAAAACTTTTG
Found at i:2041569 original size:13 final size:13
Alignment explanation
Indices: 2041551--2041576 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2041541 TACAAAACTT
2041551 TTGTATCGATACA
1 TTGTATCGATACA
2041564 TTGTATCGATACA
1 TTGTATCGATACA
2041577 ACACTTATGT
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):
TTGTATCGATACA
Found at i:2041571 original size:32 final size:32
Alignment explanation
Indices: 2041525--2041597 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
2041515 AGCTTCGTAG
*
2041525 CGATACATTATATCGATACAAAACTTTTGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
* *
2041557 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
2041589 CGATACATT
1 CGATACATT
2041598 TACTGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:2041989 original size:20 final size:19
Alignment explanation
Indices: 2041946--2041999 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
2041936 ACATTATGCT
* **
2041946 TTGTTTCGATACATGTTCA
1 TTGTATCGATACATGGACA
2041965 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGAC-A
*
2041985 TTGTATCAATACATG
1 TTGTATCGATACATG
2042000 AGATTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:2042065 original size:13 final size:13
Alignment explanation
Indices: 2042044--2042096 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
2042034 AGATACATGG
*
2042044 TACAATGTATCGA
1 TACATTGTATCGA
2042057 TACATTGTATCGA
1 TACATTGTATCGA
2042070 TACA-TG-AT-G-
1 TACATTGTATCGA
2042079 -A-ATTGTATCGA
1 TACATTGTATCGA
2042090 TACATTG
1 TACATTG
2042097 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2042072 original size:33 final size:33
Alignment explanation
Indices: 2042028--2042096 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2042018 CTACCATTGT
*
2042028 TTGTATAGATACATGGT-ACAATGTATCGATACA
1 TTGTATAGATACATGATGA-AATGTATCGATACA
* *
2042061 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATAGATACATGATGAAATGTATCGATACA
2042094 TTG
1 TTG
2042097 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATAGATACATGATGAAATGTATCGATACA
Found at i:2042951 original size:13 final size:13
Alignment explanation
Indices: 2042933--2042960 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2042923 ATACAAAGAT
2042933 CAATGTATCGATA
1 CAATGTATCGATA
2042946 CAATGTATCGATA
1 CAATGTATCGATA
2042959 CA
1 CA
2042961 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2043973 original size:13 final size:13
Alignment explanation
Indices: 2043955--2043979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2043945 TATACTGCTT
2043955 TGTATCGATACAC
1 TGTATCGATACAC
2043968 TGTATCGATACA
1 TGTATCGATACA
2043980 TGGTCAACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2050041 original size:20 final size:18
Alignment explanation
Indices: 2050002--2050043 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
2049992 TTTGATGTTT
2050002 ATTATCTTGTGTGAATGA
1 ATTATCTTGTGTGAATGA
*
2050020 ATTATGCTTGTTTGATATGA
1 ATTAT-CTTGTGTGA-ATGA
2050040 ATTA
1 ATTA
2050044 AGGTCTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (18 bp):
ATTATCTTGTGTGAATGA
Found at i:2055044 original size:52 final size:52
Alignment explanation
Indices: 2054959--2055083 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
2054949 ATATGAAAAG
* * * *
2054959 TTGCTTGCATGTATCGATACGTTTAATAGTGTATCGATACATCTGGGCAACT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2055011 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
2055063 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2055084 AAAATCAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2055096 original size:52 final size:51
Alignment explanation
Indices: 2054959--2055103 Score: 200
Period size: 52 Copynumber: 2.8 Consensus size: 51
2054949 ATATGAAAAG
* * *
2054959 TTGCTTGCATGTATCGATACGTTTAATAGTGTATCGATACATCTGGGCAACT
1 TTGCCTGCATGTATCGATAC-ATTAATAGTGTATCGATACATCTGGGCAAAT
* *
2055011 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
**
2055063 TTGCCTGCATGTATCGATACAAAAATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTAAT-AGTGTATCGATACA
2055104 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:2055110 original size:13 final size:13
Alignment explanation
Indices: 2055092--2055116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2055082 CAAAAATCAG
2055092 TGTATCGATACAA
1 TGTATCGATACAA
2055105 TGTATCGATACA
1 TGTATCGATACA
2055117 TGTGAGTAAT
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:2055708 original size:20 final size:19
Alignment explanation
Indices: 2055685--2055722 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2055675 AAAAGCGGAG
2055685 AAATTTTTGATTAAGGGGGT
1 AAATTTTT-ATTAAGGGGGT
*
2055705 AAATTTTTTTTAAGGGGG
1 AAATTTTTATTAAGGGGG
2055723 AGAAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
AAATTTTTATTAAGGGGGT
Found at i:2056307 original size:19 final size:19
Alignment explanation
Indices: 2056282--2056338 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
2056272 TTGTATCAAT
2056282 ACATTGTATCGATATATGG
1 ACATTGTATCGATATATGG
* * **
2056301 TCATTGTATCGATACAAAG
1 ACATTGTATCGATATATGG
2056320 ACAATTGTATCGATATATG
1 AC-ATTGTATCGATATATG
2056339 AGATTGGTAG
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATATATGG
Found at i:2056397 original size:20 final size:20
Alignment explanation
Indices: 2056368--2056420 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
2056358 TACCACTATT
* *
2056368 TGTATTGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
*
2056388 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAA
2056408 TGTATCGATACAT
1 TGTATCGATACAT
2056421 TGCTTGTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:2064942 original size:13 final size:13
Alignment explanation
Indices: 2064924--2064951 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2064914 ATACAAAGAT
2064924 CAATGTATCGATA
1 CAATGTATCGATA
2064937 CAATGTATCGATA
1 CAATGTATCGATA
2064950 CA
1 CA
2064952 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2064962 original size:33 final size:33
Alignment explanation
Indices: 2064841--2064971 Score: 117
Period size: 33 Copynumber: 4.0 Consensus size: 33
2064831 ATTTGCCTGT
* *
2064841 ATGTATTGATACATTGAATAATGTATCAATTTCA
1 ATGTATCGATACATTGAATAATGTATCAA-TACA
** ** *
2064875 ATGTATCGATACATCTGGGTAAAAT-TC-CTA-A
1 ATGTATCGATACAT-TGAATAATGTATCAATACA
** *
2064906 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACATTGAAT-AATGTATCAATACA
2064939 ATGTATCGATACATTGAATAATGTATCAATACA
1 ATGTATCGATACATTGAATAATGTATCAATACA
2064972 TTTCCTTGGC
Statistics
Matches: 75, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
29 1 0.01
30 4 0.05
31 16 0.21
32 3 0.04
33 28 0.37
34 17 0.23
35 6 0.08
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACATTGAATAATGTATCAATACA
Found at i:2065964 original size:13 final size:13
Alignment explanation
Indices: 2065946--2065970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2065936 TATACTGCTT
2065946 TGTATCGATACAC
1 TGTATCGATACAC
2065959 TGTATCGATACA
1 TGTATCGATACA
2065971 TGGTCAACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2073281 original size:9 final size:9
Alignment explanation
Indices: 2073267--2073307 Score: 59
Period size: 8 Copynumber: 4.8 Consensus size: 9
2073257 ATGGATGTTT
2073267 TTTTTTTAG
1 TTTTTTTAG
2073276 -TTTTTTAG
1 TTTTTTTAG
2073284 TTTTTTTA-
1 TTTTTTTAG
*
2073292 TTTTTTTTG
1 TTTTTTTAG
2073301 TTTTTTT
1 TTTTTTT
2073308 GGTATGGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 15 0.52
9 14 0.48
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (9 bp):
TTTTTTTAG
Found at i:2073289 original size:17 final size:17
Alignment explanation
Indices: 2073267--2073307 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
2073257 ATGGATGTTT
2073267 TTTTTTTAGTTTTTTAG
1 TTTTTTTAGTTTTTTAG
* *
2073284 TTTTTTTATTTTTTTTG
1 TTTTTTTAGTTTTTTAG
2073301 TTTTTTT
1 TTTTTTT
2073308 GGTATGGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (17 bp):
TTTTTTTAGTTTTTTAG
Found at i:2074744 original size:48 final size:48
Alignment explanation
Indices: 2074673--2074770 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
2074663 TAACTCTCGA
2074673 TTAACTTTGAACATGGATGACAAGGTGGCCAATGCATCGACTATTTGG
1 TTAACTTTGAACATGGATGACAAGGTGGCCAATGCATCGACTATTTGG
*
2074721 TTAACTTTGAACATGGATGACAAGGTGGCCAATGCATCGGCTATTTGG
1 TTAACTTTGAACATGGATGACAAGGTGGCCAATGCATCGACTATTTGG
2074769 TT
1 TT
2074771 TTCTTCTCGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (48 bp):
TTAACTTTGAACATGGATGACAAGGTGGCCAATGCATCGACTATTTGG
Found at i:2087558 original size:49 final size:49
Alignment explanation
Indices: 2087501--2087704 Score: 215
Period size: 49 Copynumber: 4.2 Consensus size: 49
2087491 ATGTCTACGG
* *
2087501 GACTTAAAGGTGAAGGTGCTAATGTGCTGATTCAAGGCCAGCGATATTA
1 GACTTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTA
* *
2087550 GACTTAAAGATGACAAAG-GCATCAATATGCTGATTCAAGGCCAACGATATTA
1 GACTTAAAGATG--AAGGTGC-T-AATATGCTGATTCAAGGCCAGCGATATTA
* * * * * *
2087602 GACTTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCCAGCAACATTG
1 GACTTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTA
*
2087651 GACTT----A--AAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTA
2087694 GACTTAGAAGA
1 GACTTA-AAGA
2087705 AGATGCCACC
Statistics
Matches: 128, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
43 37 0.29
45 1 0.01
48 1 0.01
49 39 0.30
50 5 0.04
51 6 0.05
52 39 0.30
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (49 bp):
GACTTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTA
Found at i:2087678 original size:43 final size:43
Alignment explanation
Indices: 2087614--2087699 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
2087604 CTTAAAGATG
*
2087614 AAGGTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTA
1 AAGGTGCCAATATGCTAATTCAAGGCCAGCAACATTGGACTTA
* * * *
2087657 AAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGGTGCCAATATGCTAATTCAAGGCCAGCAACATTGGACTTA
2087700 GAAGAAGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
AAGGTGCCAATATGCTAATTCAAGGCCAGCAACATTGGACTTA
Found at i:2087786 original size:28 final size:29
Alignment explanation
Indices: 2087721--2088148 Score: 404
Period size: 29 Copynumber: 15.3 Consensus size: 29
2087711 CACCAACTTG
* **
2087721 TGTGGGCTTTTGAATGTGTTG-CACCAACT
1 TGTGGGCTTTTGAAAG-GTTGCCACTGACT
* *
2087750 TGTGTGCTTTTG-AAGGTTACCACTG-CTT
1 TGTGGGCTTTTGAAAGGTTGCCACTGAC-T
*
2087778 TGTGGGC-TTTGAAAGGGGTGCCACTGACT
1 TGTGGGCTTTTGAAA-GGTTGCCACTGACT
* *
2087807 TGTGGGC-TTTGAAAAGG-TGCCATTAACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
2087835 TGTGGGCTTTTGAAA---TGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
2087861 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
2087889 TGTGGG-TTTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
* * *
2087917 TGTAGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
2087946 TGTGGACTTTTG-AAGGTTGCCACTGAC-
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
2087973 T-T--G----TGAAAGGGGTGCCA-TCGACT
1 TGTGGGCTTTTGAAA-GGTTGCCACT-GACT
*
2087996 TGTGGGCTTCTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
2088024 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
* *
2088052 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
2088081 TGTGGGC-TTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
* * *
2088110 TGTGAGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
2088139 TGTGGGCTTT
1 TGTGGGCTTT
2088149 GGAAGTTGAG
Statistics
Matches: 336, Mismatches: 31, Indels: 64
0.78 0.07 0.15
Matches are distributed among these distances:
20 2 0.01
21 3 0.01
22 10 0.03
23 1 0.00
24 1 0.00
25 2 0.01
26 23 0.07
27 17 0.05
28 126 0.38
29 141 0.42
30 10 0.03
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGTTGCCACTGACT
Found at i:2088027 original size:78 final size:76
Alignment explanation
Indices: 2087898--2088055 Score: 178
Period size: 78 Copynumber: 2.0 Consensus size: 76
2087888 TTGTGGGTTT
* *
2087898 TGAAAAGGTGCCA-CTAACTTGTAGGCTTTTGAAAAGATGCCACTGACTTGTGGACTTTTGAAGG
1 TGAAAAGGTGCCATC-AACTTGTGGGCTTTTG--AAGATGCCACTGACTTGTGGGCTTTTGAAGG
2087962 TTGCCACTGACTTG
63 TTGCCACTGACTTG
* * * *
2087976 TGAAAGGGGTGCCATCGACTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGC-TTTGAAAAG
1 TGAAA-AGGTGCCATCAACTTGTGGGCTTTTGAA-GATGCCACTGACTTGTGGGCTTTTG--AAG
2088040 G-TGCCACTGACTTG
62 GTTGCCACTGACTTG
2088054 TG
1 TG
2088056 GGCTTTTGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
77 6 0.09
78 38 0.55
79 24 0.35
80 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (76 bp):
TGAAAAGGTGCCATCAACTTGTGGGCTTTTGAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTG
CCACTGACTTG
Found at i:2088035 original size:135 final size:135
Alignment explanation
Indices: 2087857--2088114 Score: 437
Period size: 135 Copynumber: 1.9 Consensus size: 135
2087847 AAATGCCACT
* *
2087857 GACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGTTTTGAAAAGGTGCCACTAACTTGTAG
1 GACTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTAG
*
2087922 GCTTTTGAAAAGATGCCACTGACTTGTGGACTTTTG-AAGGTTGCCACTGACTTGTGAAAGGGGT
66 GCTTTTGAAAAGATGCCACTGACTTGTGGAC-TTTGAAAGGGTGCCACTGACTTGTGAAAGGGGT
2087986 GCCATC
130 GCCATC
* *
2087992 GACTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGG
1 GACTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTAG
*
2088057 GCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGA
66 GCTTTTGAAAAGATGCCACTGACTTGTGGACTTTG-AAAGGGTGCCACTGACTTGTGA
2088115 GCTTTTGAAA
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
134 4 0.03
135 91 0.79
136 20 0.17
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (135 bp):
GACTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTAG
GCTTTTGAAAAGATGCCACTGACTTGTGGACTTTGAAAGGGTGCCACTGACTTGTGAAAGGGGTG
CCATC
Found at i:2089606 original size:13 final size:12
Alignment explanation
Indices: 2089584--2089631 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
2089574 ATCCGGACTC
*
2089584 TTTTTATTGTTT
1 TTTTTTTTGTTT
2089596 TTTTTGTTTGTTT
1 TTTTT-TTTGTTT
*
2089609 GTTTTTTTTGTCTC
1 -TTTTTTTTGT-TT
2089623 TTTTTTTTG
1 TTTTTTTTG
2089632 CGAAAGATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 5 0.16
13 20 0.65
14 6 0.19
ACGTcount: A:0.02, C:0.04, G:0.12, T:0.81
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:2089630 original size:17 final size:17
Alignment explanation
Indices: 2089590--2089630 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
2089580 ACTCTTTTTA
* *
2089590 TTGTTTTTTTTGTTTGT
1 TTGTTTTTTTTGTCTCT
2089607 TTGTTTTTTTTGTCTCT
1 TTGTTTTTTTTGTCTCT
2089624 TT-TTTTT
1 TTGTTTTT
2089631 GCGAAAGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (17 bp):
TTGTTTTTTTTGTCTCT
Found at i:2093205 original size:15 final size:16
Alignment explanation
Indices: 2093174--2093207 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2093164 ATAAAGCTAG
*
2093174 AGGCAAAGAGTAATAA
1 AGGCAAAGAGAAATAA
2093190 AGGCAAAGA-AAATAA
1 AGGCAAAGAGAAATAA
2093205 AGG
1 AGG
2093208 GTGATGGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.59, C:0.06, G:0.26, T:0.09
Consensus pattern (16 bp):
AGGCAAAGAGAAATAA
Found at i:2097042 original size:20 final size:20
Alignment explanation
Indices: 2097017--2097056 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2097007 GTAGAGACAA
*
2097017 TTGATTCTTGGAATAGTTTC
1 TTGATTCTTGGAACAGTTTC
2097037 TTGATTCTTGGAACAGTTTC
1 TTGATTCTTGGAACAGTTTC
2097057 GTCAATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.47
Consensus pattern (20 bp):
TTGATTCTTGGAACAGTTTC
Found at i:2103300 original size:30 final size:30
Alignment explanation
Indices: 2103265--2103333 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
2103255 CATTCCCTAT
*
2103265 GGTGGCTGGCAGAACTCAGGGAGAAGATAG
1 GGTGGCTGGCAGAACTCAAGGAGAAGATAG
2103295 GGTGGCTGGCAGAACTCAAGGAGAAGATAG
1 GGTGGCTGGCAGAACTCAAGGAGAAGATAG
2103325 GGTGGCTGG
1 GGTGGCTGG
2103334 AATCAATGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.28, C:0.13, G:0.45, T:0.14
Consensus pattern (30 bp):
GGTGGCTGGCAGAACTCAAGGAGAAGATAG
Found at i:2104899 original size:3 final size:3
Alignment explanation
Indices: 2104891--2104917 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2104881 CGAGTCAACT
2104891 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
2104918 CCATTGATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:2107209 original size:18 final size:18
Alignment explanation
Indices: 2107186--2107220 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2107176 AATCATAAAG
2107186 ATAAAATCT-AGTTAAATC
1 ATAAAAT-TAAGTTAAATC
2107204 ATAAAATTAAGTTAAAT
1 ATAAAATTAAGTTAAAT
2107221 TTTTAAGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (18 bp):
ATAAAATTAAGTTAAATC
Found at i:2108778 original size:24 final size:21
Alignment explanation
Indices: 2108751--2108801 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 21
2108741 AATCATAAGC
2108751 AAATTTGAATATAATAAACAATTT
1 AAATTTGAATA-AAT-AA-AATTT
*
2108775 AAATTTTTAATAAATAAAATTT
1 AAA-TTTGAATAAATAAAATTT
2108797 AAATT
1 AAATT
2108802 CAAATATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 8 0.32
23 2 0.08
24 6 0.24
25 7 0.28
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
AAATTTGAATAAATAAAATTT
Found at i:2109711 original size:22 final size:22
Alignment explanation
Indices: 2109684--2109733 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
2109674 ATACAAGTTT
2109684 TATCATATAAAAAATAAATATA
1 TATCATATAAAAAATAAATATA
2109706 TATC--ATAAAAAATAAATATA
1 TATCATATAAAAAATAAATATA
*
2109726 TATAATAT
1 TATCATAT
2109734 TATAGTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 19 0.76
22 6 0.24
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (22 bp):
TATCATATAAAAAATAAATATA
Found at i:2109715 original size:20 final size:20
Alignment explanation
Indices: 2109690--2109728 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2109680 GTTTTATCAT
2109690 ATAAAAAATAAATATATATC
1 ATAAAAAATAAATATATATC
2109710 ATAAAAAATAAATATATAT
1 ATAAAAAATAAATATATAT
2109729 AATATTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAAAATAAATATATATC
Found at i:2109856 original size:24 final size:23
Alignment explanation
Indices: 2109816--2109879 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
2109806 ATTTTAAAAA
*
2109816 AAAAATATTTTTAAAATATAAATT
1 AAAAATATATTTAAAATA-AAATT
*
2109840 AAAAATATAATTT-AAATAAATTT
1 AAAAATAT-ATTTAAAATAAAATT
* *
2109863 AAATTATTTATTTAAAA
1 AAA-AATATATTTAAAA
2109880 ATTTAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 11 0.33
24 19 0.58
25 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAAATATATTTAAAATAAAATT
Found at i:2109899 original size:7 final size:7
Alignment explanation
Indices: 2109887--2109911 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2109877 AAAATTTAAA
2109887 TAAATTT
1 TAAATTT
2109894 TAAATTT
1 TAAATTT
2109901 TAAATTT
1 TAAATTT
2109908 TAAA
1 TAAA
2109912 GTGAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Done.