Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold186
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: 1043505
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.30
Warning! 56388 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:1310 original size:20 final size:19
Alignment explanation
Indices: 1285--1323 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1275 TACGTGCATA
1285 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
1305 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
1324 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:3115 original size:13 final size:13
Alignment explanation
Indices: 3097--3153 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
3087 CATAAAGTGT
3097 TGTATCGATACAA
1 TGTATCGATACAA
3110 TGTATCGATACATAA
1 TGTATCGATAC--AA
3125 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
3142 TGTATCGATACA
1 TGTATCGATACA
3154 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3132 original size:32 final size:32
Alignment explanation
Indices: 3077--3177 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
3067 TTCAATGATT
3077 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
3110 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
3142 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3174 TGTA
1 TGTA
3178 AGGTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3134 original size:19 final size:18
Alignment explanation
Indices: 3075--3172 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
3065 ATTTCAATGA
3075 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
3094 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
3110 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3126 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
3142 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
3158 TTTTGTATTGATACA
1 -TTTGTATCGATACA
3173 ATGTAAGGTA
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 23 0.35
20 12 0.18
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:3304 original size:52 final size:52
Alignment explanation
Indices: 3248--3428 Score: 326
Period size: 52 Copynumber: 3.5 Consensus size: 52
3238 CATTGATCTT
*
3248 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
3300 TGTATCGATACATGCAGGCAAATTTGCCGAGATGTATCGATAGACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3352 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3404 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3429 TCATATTTCG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:7708 original size:19 final size:20
Alignment explanation
Indices: 7684--7739 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
7674 TGTATCGATA
* *
7684 CATTGTATCGATTCAT-GTT
1 CATTGTATCGATACATACTT
7703 CATTGTATCGATACATACTT
1 CATTGTATCGATACATACTT
*
7723 AATTGTATCGATACATA
1 CATTGTATCGATACATA
7740 AAACTGACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (20 bp):
CATTGTATCGATACATACTT
Found at i:7793 original size:20 final size:21
Alignment explanation
Indices: 7768--7821 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
7758 TTACCACTAT
*
7768 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATAGTGACA
*
7788 TTGTATCAATACATAGTGACA
1 TTGTATCGATACATAGTGACA
*
7809 -AGTATCGATACAT
1 TTGTATCGATACAT
7822 TGTCCTAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACATAGTGACA
Found at i:8800 original size:52 final size:52
Alignment explanation
Indices: 8505--9165 Score: 531
Period size: 52 Copynumber: 12.8 Consensus size: 52
8495 GACGAAGGAT
** * * * * * *
8505 AATGTGCTGATTCAAGGCCAATGATATTAGACTTAAGGACGACAAAGGTACC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCC
* * * * * *
8557 AATGTACTGATCCAAGGCCAGTGATATTGGACTTAAAGATGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCC
* * * * * * *
8609 AATGT--TAATTCATGGCCAGCGACTTTGGT-TT-TAGATAACAAGGGTGCT
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCC
* * * * * *
8657 AGTATGCTGATTCATGGCTAGCAACATTGGTTTTAAAGATGACAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCC
* * ** ** *
8709 AATGTGATGATTC-TGGCCAGTAACATTGAACTTAAAGATGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCC
* * * *
8760 AATGTGCTGATTCATGGCCAGTGACATTGGTTTTAAAGATGACGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCC
*
8812 AATGTGCTGA-TCTAAGGCCAACGACATTGGTCTTAGAA-ATGACAAAGGTGCC
1 AATGTGCTGATTC-AAGGCCAGCGACATTGGTCTTA-AAGATGACAAAGGTGCC
* * * * * *
8864 AATGTGCTGATCCAAGGCCAACAACATTAGG-CTTAAAGGTGA-TAAGGTTGCT
1 AATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGACAAAGG-TGCC
* * * * *
8916 AATGTGCTGATTCATGGCTAGCGACATTGATTTTAAAGATGACGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCC
*
8968 AATGTGCTGA-TCTAAGGCCAACGACATTGGTCTTAGAA-ATGACAAAGGTGCC
1 AATGTGCTGATTC-AAGGCCAGCGACATTGGTCTTA-AAGATGACAAAGGTGCC
* * * * * *
9020 AATGTGCTGA-TCTAAGGCCAACAACATTGGGCTTAAAGGTGA-TAAGGCTGCT
1 AATGTGCTGATTC-AAGGCCAGCGACATTGGTCTTAAAGATGACAAAGG-TGCC
* * * * *
9072 AATGTGCTGATTCATGGCTAGCGACATTGATTTTAAAGATGA-AAAGAGTGAC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAG-GTGCC
* * * * * *
9124 AATATACTAATCCAAGGCTAGCGACATTGGGCTTAAAGATGA
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGA
9166 TAAGTTTTGA
Statistics
Matches: 494, Mismatches: 96, Indels: 38
0.79 0.15 0.06
Matches are distributed among these distances:
48 15 0.03
49 2 0.00
50 37 0.07
51 63 0.13
52 363 0.73
53 14 0.03
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (52 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCC
Found at i:8942 original size:156 final size:155
Alignment explanation
Indices: 8545--9113 Score: 690
Period size: 156 Copynumber: 3.7 Consensus size: 155
8535 ACTTAAGGAC
* * *** *
8545 GACAAAGGTACCAATGTACTGATCCAAGGCCAGTGATATTGGACTTAAAGATGATAAAGGTGCCA
1 GACAAAGGTGCCAATGTGCTGATCCAAGGCCAACAACATTGG-CTTAAAGATGATAAAGGTGCCA
* * * * * * *
8610 ATGT--TAATTCATGGCCAGCGACTTTGGTTTT--AGATAAC-AAGGGTGCTAGTATGCTGAT-T
65 ATGTGCTGATTCATGGCCAGCGACATTGATTTTAAAGATGACGAA-GGTGCCAATGTGCTGATCT
* * * * *
8669 CATGGCTAGCAACATTGGTTTTA-AAGAT
129 -AAGGCCAACGACATTGGTCTTAGAA-AT
* * * ** *
8697 GACAAAGGTGCCAATGTGATGATTC-TGGCCAGTAACATTGAACTTAAAGATGATAAAGGTGCCA
1 GACAAAGGTGCCAATGTGCTGATCCAAGGCCAACAACATTG-GCTTAAAGATGATAAAGGTGCCA
* *
8761 ATGTGCTGATTCATGGCCAGTGACATTGGTTTTAAAGATGACGAAGGTGCCAATGTGCTGATCTA
65 ATGTGCTGATTCATGGCCAGCGACATTGATTTTAAAGATGACGAAGGTGCCAATGTGCTGATCTA
8826 AGGCCAACGACATTGGTCTTAGAAAT
130 AGGCCAACGACATTGGTCTTAGAAAT
* *
8852 GACAAAGGTGCCAATGTGCTGATCCAAGGCCAACAACATTAGGCTTAAAGGTGAT-AAGGTTGCT
1 GACAAAGGTGCCAATGTGCTGATCCAAGGCCAACAACATT-GGCTTAAAGATGATAAAGG-TGCC
*
8916 AATGTGCTGATTCATGGCTAGCGACATTGATTTTAAAGATGACGAAGGTGCCAATGTGCTGATCT
64 AATGTGCTGATTCATGGCCAGCGACATTGATTTTAAAGATGACGAAGGTGCCAATGTGCTGATCT
8981 AAGGCCAACGACATTGGTCTTAGAAAT
129 AAGGCCAACGACATTGGTCTTAGAAAT
* * *
9008 GACAAAGGTGCCAATGTGCTGATCTAAGGCCAACAACATTGGGCTTAAAGGTGAT-AAGGCTGCT
1 GACAAAGGTGCCAATGTGCTGATCCAAGGCCAACAACATT-GGCTTAAAGATGATAAAGG-TGCC
*
9072 AATGTGCTGATTCATGGCTAGCGACATTGATTTTAAAGATGA
64 AATGTGCTGATTCATGGCCAGCGACATTGATTTTAAAGATGA
9114 AAAGAGTGAC
Statistics
Matches: 372, Mismatches: 34, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
151 38 0.10
152 21 0.06
153 24 0.06
155 66 0.18
156 222 0.60
157 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (155 bp):
GACAAAGGTGCCAATGTGCTGATCCAAGGCCAACAACATTGGCTTAAAGATGATAAAGGTGCCAA
TGTGCTGATTCATGGCCAGCGACATTGATTTTAAAGATGACGAAGGTGCCAATGTGCTGATCTAA
GGCCAACGACATTGGTCTTAGAAAT
Found at i:12279 original size:16 final size:17
Alignment explanation
Indices: 12258--12292 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
12248 AATCCTACTA
12258 TTTTTCCATT-TTTTCT
1 TTTTTCCATTCTTTTCT
*
12274 TTTTTCCTTTCTTTTCT
1 TTTTTCCATTCTTTTCT
12291 TT
1 TT
12293 CTCTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCCATTCTTTTCT
Found at i:12434 original size:19 final size:20
Alignment explanation
Indices: 12406--12448 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
12396 TGAAAGTCCC
12406 TTTTTGTTTC-TTCTTATCT
1 TTTTTGTTTCATTCTTATCT
* * *
12425 TTTTTTTTTCATTTTTTTCT
1 TTTTTGTTTCATTCTTATCT
12445 TTTT
1 TTTT
12449 ATTGTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTGTTTCATTCTTATCT
Found at i:12445 original size:20 final size:20
Alignment explanation
Indices: 12422--12461 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12412 TTTCTTCTTA
*
12422 TCTTTTT-TTTTTCATTTTTT
1 TCTTTTTATTGTT-ATTTTTT
12442 TCTTTTTATTGTTATTTTTT
1 TCTTTTTATTGTTATTTTTT
12462 CTTCTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.07, C:0.07, G:0.03, T:0.82
Consensus pattern (20 bp):
TCTTTTTATTGTTATTTTTT
Found at i:14156 original size:20 final size:20
Alignment explanation
Indices: 14131--14183 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
14121 CATTTCAAAC
14131 ATGTATCGATATATAT-ACTT
1 ATGTATCGATATAT-TCACTT
*
14151 ATGTATCGATACATTCACTT
1 ATGTATCGATATATTCACTT
14171 ATTGTATCGATAT
1 A-TGTATCGATAT
14184 TGTCGCAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 18 0.62
21 10 0.34
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATATATTCACTT
Found at i:16990 original size:20 final size:21
Alignment explanation
Indices: 16959--17002 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
16949 AGATCAATGT
16959 ATTGATATAATGTATCGATAC
1 ATTGATATAATGTATCGATAC
16980 ATTGA-ATAATGTATCGATAC
1 ATTGATATAATGTATCGATAC
17000 ATT
1 ATT
17003 TCCTTGGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATTGATATAATGTATCGATAC
Found at i:16991 original size:33 final size:33
Alignment explanation
Indices: 16935--16998 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
16925 AAATTTCTAG
*
16935 ATGTATCGATACAAAGATCAATGTATTGATATA
1 ATGTATCGATACAAAGATCAATGTATCGATATA
**
16968 ATGTATCGATACATTGAAT-AATGTATCGATA
1 ATGTATCGATACAAAG-ATCAATGTATCGATA
16999 CATTTCCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTATCGATATA
Found at i:18006 original size:101 final size:99
Alignment explanation
Indices: 17868--18398 Score: 610
Period size: 101 Copynumber: 5.4 Consensus size: 99
17858 AAGAAGAATG
** **
17868 CCAATGTGCTGAGACAAGGCCAGCGACATTCGG-CTTAGGAATGTTAAAGATGCCAATATGCTGA
1 CCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTA--AATGACAAAGATGCCAATATGCTGA
* * *
17932 TTCAAGGCCAATGATATCAGACTTAAATATGAAGATA
63 TTCAAGGCCAACGATATCGGACTTAAAGATGAAGATA
* * * * * *
17969 CCAACGTCCTGATCCAAGGCCAGCGACATTGGTCTTAGAGATGACGAAGACGCCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-A-ATGACAAAGATGCCAATATGCTGAT
* * *
18034 TCAAGGCCAACGATATTGGACTTAAAGATGAAGGTG
64 TCAAGGCCAACGATATCGGACTTAAAGATGAAGATA
* *
18070 CCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAATATGACAAAGACGCCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AA-ATGACAAAGATGCCAATATGCTGAT
* * * *
18135 TCAAGGCCAACGATATTGGGCTTAAAAATGAAGGTA
64 TCAAGGCCAACGATATCGGACTTAAAGATGAAGATA
* * * * *
18171 -CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAA-GATAATGGTGCCAATATGCTGATTC
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATGACAAAGATGCCAATATGCTGATTC
* *
18234 AAGGCCAGCGATATCGGACTTAAAGATGAAGATG
66 AAGGCCAACGATATCGGACTTAAAGATGAAGATA
*
18268 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA-G--AAAGGTGCCAATATGCTGATTC
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATGACAAAGATGCCAATATGCTGATTC
* * * *
18330 AAGGCCAGCGATATTGGACTTAAAGA--AAGGTG
66 AAGGCCAACGATATCGGACTTAAAGATGAAGATA
* * *
18362 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
18399 TGCCAATGTG
Statistics
Matches: 381, Mismatches: 45, Indels: 15
0.86 0.10 0.03
Matches are distributed among these distances:
94 39 0.10
96 46 0.12
97 49 0.13
98 38 0.10
99 2 0.01
100 36 0.09
101 170 0.45
102 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (99 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATGACAAAGATGCCAATATGCTGATTC
AAGGCCAACGATATCGGACTTAAAGATGAAGATA
Found at i:18414 original size:39 final size:40
Alignment explanation
Indices: 18359--18835 Score: 293
Period size: 39 Copynumber: 11.0 Consensus size: 40
18349 TTAAAGAAAG
* *
18359 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
* * *
18399 -TGCCAATGTGCTGATTCAAGGCTAGTGACA-TGAGTCTTAAAGATAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTG-GTC-T-----T-A
* * *
18445 GGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGGCTTA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
* *
18486 -TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTGGAGACAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-------A
* * *
18532 GGTGCCAATATGCTGATTCAAAGCCAGTGATATTAGG-CTT-
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGTCTTA
*
18572 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-------A
* * *
18619 GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
* * *
18660 -TGCCAATGTGCTGATTCATGGCCAGCGACATCGGTCTTAAAGATGAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTC-T-----T--A
18707 GGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGGCAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-------A
* * * *
18755 GGTGCCAATATGCTGATTCAAGGCTAGAGATATTGGGCTT-
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
*
18795 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
18835 G
1 G
18836 AGACAAGGTG
Statistics
Matches: 342, Mismatches: 48, Indels: 94
0.71 0.10 0.19
Matches are distributed among these distances:
38 4 0.01
39 157 0.46
40 3 0.01
41 2 0.01
42 1 0.00
43 1 0.00
45 2 0.01
46 2 0.01
47 2 0.01
48 131 0.38
49 37 0.11
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (40 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
Found at i:18473 original size:87 final size:87
Alignment explanation
Indices: 18313--18747 Score: 658
Period size: 87 Copynumber: 5.0 Consensus size: 87
18303 TAAAGAAAGG
* * *
18313 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-AAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
18377 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * *
18399 TGCCAATGTGCTGATTCAAGGCTAGTGACA-TGAGTCTTAAAGATAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTG-GTCTTAAAGACAAGGTGCCAATATGCTGATT
*
18463 CAAGGTCAGCGATATTGGGCTTA
65 CAAGGCCAGCGATATTGGGCTTA
* **
18486 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTGGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* * * *
18551 AAAGCCAGTGATATTAGGCTTG
66 AAGGCCAGCGATATTGGGCTTA
18573 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
18638 AAGGCCAACGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * *
18660 TGCCAATGTGCTGATTCATGGCCAGCGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
* *
18725 CAAGGCCAGCGACATTGGTCTTA
65 CAAGGCCAGCGATATTGGGCTTA
18748 GAGGCAAGGT
Statistics
Matches: 314, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
85 2 0.01
86 35 0.11
87 235 0.75
88 42 0.13
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTA
Found at i:18579 original size:174 final size:172
Alignment explanation
Indices: 18216--18736 Score: 691
Period size: 174 Copynumber: 2.9 Consensus size: 172
18206 AAAGATAATG
* * * * *
18216 GTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACAT-GGTCTTAAAGAT-AAGGTGCCAATATGCTGAT
* * * *
18281 TCAAGGCCAGCGACATTGGACTTAAAGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
64 TCAAGGCCAGCGATATTGGGCTT------A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTG
* *
18346 GACTTAAAGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
121 GTCTTAAAGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT
* * *
18398 ATGCCAATGTGCTGATTCAAGGCTAGTGACATGAGTCTTAAAGATAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATG-GTCTTAAAGATAAGGTGCCAATATGCTGATT
* * **
18463 CAAGGTCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTGGAG
65 CAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
* *
18528 ACAAGGTGCCAATATGCTGATTCAAAGCCAGTGATATTAGGCTT
130 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT
*
18572 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACA-TGGTCTTAAAGATAAGGTGCCAATATGCTGATT
* * *
18637 CAAGGCCAACGATATTGGGCTTATGCCAATGTGCTGATTCATGGCCAGCGACATCGGTCTTAAAG
65 CAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
18702 ATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
130 A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGA
18737 CATTGGTCTT
Statistics
Matches: 301, Mismatches: 34, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
173 37 0.12
174 156 0.52
175 33 0.11
181 38 0.13
182 37 0.12
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (172 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATGGTCTTAAAGATAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT
Found at i:18643 original size:48 final size:48
Alignment explanation
Indices: 18572--18885 Score: 322
Period size: 48 Copynumber: 6.9 Consensus size: 48
18562 TATTAGGCTT
*
18572 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
18620 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT-------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
18660 -TGCCAATGTGCTGATTCATGGCCAGCGACATCGGTCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
* *
18708 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGGCAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
18756 GTGCCAATATGCTGATTCAAGGCTAGAGATATTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
18795 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
18843 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
18886 GTGCCACAGA
Statistics
Matches: 217, Mismatches: 30, Indels: 38
0.76 0.11 0.13
Matches are distributed among these distances:
39 66 0.30
41 1 0.00
47 1 0.00
48 111 0.51
49 38 0.18
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
Found at i:18740 original size:136 final size:135
Alignment explanation
Indices: 18572--18885 Score: 495
Period size: 136 Copynumber: 2.3 Consensus size: 135
18562 TATTAGGCTT
*
18572 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
18637 CAAGGCCA-ACGATATTGGGCTTATGCCAATGTGCTGATTCATGGCCAGCGACATCGGTCTTAAA
66 CAAGGCCAGA-GATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTTAAA
*
18701 GATGAAG
130 GA-CAAG
* *
18708 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGGCAAGGTGCCAATATGCTGATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* * * *
18773 CAAGGCTAGAGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAG
66 CAAGGCCAGAGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTTAAAG
18838 ACAAG
131 ACAAG
* * *
18843 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
18886 GTGCCACAGA
Statistics
Matches: 164, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
135 42 0.26
136 121 0.74
137 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (135 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGAGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTTAAAG
ACAAG
Found at i:18854 original size:87 final size:87
Alignment explanation
Indices: 18708--18881 Score: 305
Period size: 87 Copynumber: 2.0 Consensus size: 87
18698 AAAGATGAAG
*
18708 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGGCAAGGTGCCAATATGCTGATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
*
18773 CAAGGCTAG-AGATATTGGGCTT
66 CAAGGCCAGCA-ATATTGGGCTT
*
18795 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
18860 CAAGGCCAGCAATATTGGGCTT
66 CAAGGCCAGCAATATTGGGCTT
18882 AAAGGTGCCA
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
87 82 0.99
88 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (87 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCAATATTGGGCTT
Found at i:19060 original size:34 final size:33
Alignment explanation
Indices: 19022--19917 Score: 779
Period size: 33 Copynumber: 28.4 Consensus size: 33
19012 GGGTAATACA
*
19022 GAGTTGTGGACTTAAAAGGAAAAAGAGTGACACG
1 GAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACG
* *
19056 GAGTTGTGGGCTTAAAA-G-----GGTGCTACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
*
19083 AAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACG
*
19117 GAGTTGTGGGCTTTAAAA-G-----GGTGCCACG
1 GAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACG
*
19145 GAATTGTGGACTTAAAAGGAAAAAGAGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACG
* * * *
19179 AAGTTGTGGGCTTTAAAAAGGAACAAGGTGCCATG
1 GAGTTGTGGAC-TT-AAAAGGAAAAAGGTGCCACG
*
19214 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
19247 GAGTTGTGGACTTAAAA-G-----GGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
*
19274 GAGTTATGGACTTAAAAGGAAAAAGAGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACG
* * * ** *
19308 GAGTTATGGGCTTTAAAAAG-AAAAGGTGTTATG
1 GAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACG
* ** *
19341 GAGCTGTGGACTTAAAAGG--GTA-CTG-CA--
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
* *
19368 AAGTTGTGGACTTAAAAGGAACAAGGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
* *
19401 GAGTTATGGACTTAAAAGGAAAAAGATGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
19434 GAGTTGTGGACTT------AAAAAGGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
19461 GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACG
19495 GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACG
* ** *
19529 GAGTTTTGGACTTAAAAGGAAAAAAATGCCATG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
* *
19562 GAGTTGTGGACTTCAAA-G-----GGTGCCACA
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
* *
19589 GAGTTGTGGACTTAAAAGGAACAAGGTGCCATG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
* *
19622 GAGTTGTGGACTTCAAAGGAAAAAGATGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
**
19655 GAGTTGTGGACTTAAAAGG----A--TGCCATA
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
*
19682 GAGTTGTGGACTTCAAA-G-----GGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
*
19709 GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACA
1 GAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACG
* *
19743 GAGTTGTGGGCTTTAAAAAG-AAAAGGTGCCACG
1 GAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACG
* *
19776 GAGCTGTGGACTTAAAA-G-----GGTGCCATG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
* *
19803 GAGTTGTGGACATAAAAGGAAAAAGGATACCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGG-TGCCACG
* * *
19837 GAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCACA
1 GAGTTGTGGAC-TTAAAAGGAAAAA-GGTGCCACG
** * *
19872 GAGTCATGGACTTAAAAAGAAAAAGGTGCCACA
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
*
19905 GAGTCGTGGACTT
1 GAGTTGTGGACTT
19918 TGGGAAAAGA
Statistics
Matches: 709, Mismatches: 90, Indels: 127
0.77 0.10 0.14
Matches are distributed among these distances:
26 1 0.00
27 180 0.25
28 24 0.03
29 4 0.01
30 4 0.01
31 4 0.01
32 15 0.02
33 213 0.30
34 189 0.27
35 62 0.09
36 13 0.02
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (33 bp):
GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
Found at i:19087 original size:27 final size:27
Alignment explanation
Indices: 19042--19821 Score: 146
Period size: 27 Copynumber: 25.2 Consensus size: 27
19032 CTTAAAAGGA
* * * *
19042 AAAAGAGTGACACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGAAGTTGTGGACTT
*
19069 AAAAGGGTGCTACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGAAGTTGTGGACTT
* *
19096 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAA-G-----G-GTGCCACGAAGTTGTGGAC-TT
19131 AAAAGGGTGCCACGGAA-TTGTGGACTT
1 AAAAGGGTGCCAC-GAAGTTGTGGACTT
*
19158 AAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTT
1 AAAA-G-----G-GTGCCACGAAGTTGTGGAC-TT
* *
19193 AAAAAGGAACAAGGTGCCATGGAGTTGTGGACTT
1 -AAAA-G-----GGTGCCACGAAGTTGTGGACTT
*
19227 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGG-----G-TGCCACGAAGTTGTGGACTT
* *
19260 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGAAGTTGTGGACTT
* * *
19287 AAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTT
1 AAAA-G-----G-GTGCCACGAAGTTGTGGAC-TT
** * * *
19322 AAAAAGAAAAGGTGTTATGGAGCTGTGGACTT
1 -AAAAG----GGTGCCACGAAGTTGTGGACTT
* ** *
19354 AAAAGGGTACTGCAAAGTTGTGGACTT
1 AAAAGGGTGCCACGAAGTTGTGGACTT
* *
19381 AAAAGGAACAAGGTGCCACGGAGTTATGGACTT
1 AAAA-G-----GGTGCCACGAAGTTGTGGACTT
*
19414 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGG-----G-TGCCACGAAGTTGTGGACTT
* *
19447 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGAAGTTGTGGACTT
*
19474 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
1 AAAA-G-----G-GTGCCACGAAGTTGTGGACTT
* *
19508 AAAAGGAAAAAGAGTGCCACGGAGTTTTGGACTT
1 AAAA-G-----G-GTGCCACGAAGTTGTGGACTT
* * *
19542 AAAAGGAAAAAAATGCCATGGAGTTGTGGACTT
1 AAAAGG------GTGCCACGAAGTTGTGGACTT
*
19575 CAAAGGGTGCCAC-AGAGTTGTGGACTT
1 AAAAGGGTGCCACGA-AGTTGTGGACTT
* *
19602 AAAAGGAACAAGGTGCCATGGAGTTGTGGACTT
1 AAAA-G-----GGTGCCACGAAGTTGTGGACTT
* *
19635 CAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGG-----G-TGCCACGAAGTTGTGGACTT
* *
19668 AAAAGGATGCCA-TAGAGTTGTGGACTT
1 AAAAGGGTGCCACGA-AGTTGTGGACTT
* *
19695 CAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGAAGTTGTGGACTT
*
19722 AAAAGGAAAAAGAGTGCCAC-AGAGTTGTGGGCTTT
1 AAAA-G-----G-GTGCCACGA-AGTTGTGGAC-TT
* *
19757 AAAAAGAAAAGGTGCCACGGAGCTGTGGACTT
1 -AAAAG----GGTGCCACGAAGTTGTGGACTT
* * *
19789 AAAAGGGTGCCATGGAGTTGTGGACAT
1 AAAAGGGTGCCACGAAGTTGTGGACTT
19816 AAAAGG
1 AAAAGG
19822 AAAAAGGATA
Statistics
Matches: 598, Mismatches: 70, Indels: 170
0.71 0.08 0.20
Matches are distributed among these distances:
27 188 0.31
28 23 0.04
29 3 0.01
31 10 0.02
32 10 0.02
33 180 0.30
34 135 0.23
35 30 0.05
36 19 0.03
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGAAGTTGTGGACTT
Found at i:19298 original size:60 final size:60
Alignment explanation
Indices: 19205--19794 Score: 529
Period size: 60 Copynumber: 9.5 Consensus size: 60
19195 AAAGGAACAA
*
19205 GGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
* * *
19265 GGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGAC-TT-AAAAG
** * * ** * *
19328 AAAAGGTGTTATGGAGCTGTGGACTTAAAAGG--GTA-CTG-CA--AAGTTGTGGACTTAAAAGG
1 ----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA-G
* *
19387 AACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAA
1 -----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
19452 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTTAAAA-G
* * * *
19514 AAAAAGAGTGCCACGGAGTTTTGGACTTAAAAGGAAAAAAATGCCATGGAGTTGTGGACTTCAAA
1 -----G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA
19579 G
60 G
* * * * *
19580 GGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTCAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
** *
19640 GAAAAAGATGCCACGGAGTTGTGGACTTAAAA-G-----GATGCCATAGAGTTGTGGACTTCAAA
1 G-----G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA
19699 G
60 G
* *
19700 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGAC-TT-AAAAG
*
19763 AAAAGGTGCCACGGAGCTGTGGACTTAAAAGG
1 ----GGTGCCACGGAGTTGTGGACTTAAAAGG
19795 GTGCCATGGA
Statistics
Matches: 444, Mismatches: 44, Indels: 77
0.79 0.08 0.14
Matches are distributed among these distances:
54 24 0.05
55 2 0.00
58 4 0.01
59 3 0.01
60 184 0.41
61 57 0.13
62 7 0.02
63 13 0.03
64 2 0.00
65 3 0.01
66 40 0.09
67 73 0.16
68 32 0.07
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.21
Consensus pattern (60 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
Found at i:19446 original size:187 final size:191
Alignment explanation
Indices: 19022--19794 Score: 732
Period size: 187 Copynumber: 4.1 Consensus size: 191
19012 GGGTAATACA
* * * *
19022 GAGTTGTGGACTTAAAAGGAAAAAGAGTGACACGGAGTTGTGGGCTTAAAAGGGTGCTACGAAGT
1 GAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
19087 TGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG----GGTGCCACGGA
65 TGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTGCCACGGA
* * *
19147 ATTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGGAACAAGGTGCCA
130 ACTGTGGACTTAAAAGG----AGACTGCCAC-AAGTTGTGGACTTTAAAAAGGAACAAGGTGCCA
*
19212 TG
190 CG
19214 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
1 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
* * ** * *
19279 ATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAGGTGTTATGGAG
66 GTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTGCCACGGAA
19344 CTGTGGACTTAAAAGG-GTACTG-CA-AAGTTGTGGAC-TT-AAAAGGAACAAGGTGCCACG
131 CTGTGGACTTAAAAGGAG-ACTGCCACAAGTTGTGGACTTTAAAAAGGAACAAGGTGCCACG
* *
19401 GAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTT
1 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
* *
19466 GTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGG
66 GTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAAG-GTGCCACGG
** * * * ** *
19530 AGTTTTGGACTTAAAAGGAAAAAAATGCCATGGAGTTGTGGAC-TT-CAAA-G-----GGTGCCA
129 AACTGTGGACTTAAAAGG---AGACTGCCA-CAAGTTGTGGACTTTAAAAAGGAACAAGGTGCCA
*
19587 CA
190 CG
* * * *
19589 GAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTCAAAGGAAAAAGATGCCAC
1 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGG-----G-TGCCAC
** * *
19654 GGAGTTGTGGACTTAAAA-G-----GA-TGCCATAGAGTTGTGGAC-TT-CAAAG----GGTGCC
60 GGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTGCC
** * *
19706 ACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA-GAA-AAGG
125 ACGGAACTGTGGACTTAAAAGG----AGACTGCCACA-AGTTGTGGACTTTAAAAAGGAACAAGG
19769 TGCCACG
185 TGCCACG
*
19776 GAGCTGTGGACTTAAAAGG
1 GAGTTGTGGACTTAAAAGG
19795 GTGCCATGGA
Statistics
Matches: 503, Mismatches: 49, Indels: 63
0.82 0.08 0.10
Matches are distributed among these distances:
180 26 0.05
181 20 0.04
182 2 0.00
183 4 0.01
186 10 0.02
187 168 0.33
188 80 0.16
189 10 0.02
191 82 0.16
192 36 0.07
193 3 0.01
194 39 0.08
196 23 0.05
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (191 bp):
GAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
GTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTGCCACGGAA
CTGTGGACTTAAAAGGAGACTGCCACAAGTTGTGGACTTTAAAAAGGAACAAGGTGCCACG
Found at i:19806 original size:94 final size:93
Alignment explanation
Indices: 19069--19888 Score: 576
Period size: 94 Copynumber: 8.7 Consensus size: 93
19059 TTGTGGGCTT
* * * * *
19069 AAAAGGGTGCTACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAG-AAAAG-GTGCCACGGAGTTGTGGAC-TTAAA
*
19134 AGGGTGCCACGGAATTGTGGACTTAAAAGGA
63 AGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
19165 AAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAA-GAA-AAGGTGCCACGGAGTTGTGGACTTAAA
19230 AGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA-G-
63 AGG-----G-TGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
19265 ----G-GTGCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAG-AAAAG-GTGCCACGGAGTTGTGGAC-TT-AA
** * *
19325 AAGAAAAGGTGTTATGGAGCTGTGGACTTAAAAGG-
62 AAG----GGTGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
19360 ----GTACTG-CA--AAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTAAAA
1 AAAAG-AGTGCCACGGAGTTGTGGACTTAAAAAGAA-AAGGTGCCACGGAGTTGTGGACTTAAAA
19418 GGAAAAAGATGCCACGGAGTTGTGGACTT------A
64 GG-----G-TGCCACGGAGTTGTGGACTTAAAAGGA
*
19448 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAG-AAAAG-GTGCCACGGAGTTGTGGACTTAAAA
*
19512 GGAAAAAGAGTGCCACGGAGTTTTGGACTTAAAAGGA
64 -G-----G-GTGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
19549 AAAA-AATGCCATGGAGTTGTGGACTT-CAAAG----GGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G
* *
19608 AACAAGGTGCCATGGAGTTGTGGACTTCAAAGGA
65 -----GGTGCCACGGAGTTGTGGACTTAAAAGGA
* ** *
19642 AAAAGA-TGCCACGGAGTTGTGGACTT-AAAAG----GATGCCATAGAGTTGTGGACTTCAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
19701 GTGCCACGGAGTTGTGGACTTAAAAGGA
66 GTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
19729 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAGGTGCCACGGAGCTGTGGACTTAAAAG
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
* *
19794 GGTGCCATGGAGTTGTGGACATAAAAGGA
65 GGTGCCACGGAGTTGTGGACTTAAAAGGA
* * * **
19823 AAAAG-GATACCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCACAGAGTCATGGACTTAA
1 AAAAGAG-TGCCACGGAGTTGTGGAC-TTAAAAAG-AAAA-GGTGCCACGGAGTTGTGGACTTAA
19887 AA
62 AA
19889 AGAAAAAGGT
Statistics
Matches: 602, Mismatches: 61, Indels: 122
0.77 0.08 0.16
Matches are distributed among these distances:
87 34 0.06
88 16 0.03
89 2 0.00
90 7 0.01
91 7 0.01
92 5 0.01
93 137 0.23
94 201 0.33
95 46 0.08
96 62 0.10
97 27 0.04
98 4 0.01
100 5 0.01
101 26 0.04
102 23 0.04
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.20
Consensus pattern (93 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
GTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:19942 original size:129 final size:126
Alignment explanation
Indices: 19447--19917 Score: 289
Period size: 121 Copynumber: 3.8 Consensus size: 126
19437 TTGTGGACTT
* * * **
19447 AAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGAC-TTAA
1 AAAAAGGATACCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTCATGGACTTTAA
* * * * * *
19510 AAGGAAAAAGAGTGCCACGGAGTTTTGGACTTAAAAGGAAAAAAATGCCATGGAGTTGTGGACTT
66 AAAG-AAAAG-GTGCCACAGAGCTGTGGACTTAAAAGG------ATGCCATGGA--TATGGACAT
*
19575 CAAA-G
121 AAAAGG
* * * * ** ** *
19580 -----GG-TGCCACAGAGTTGTGGACTTAAAAGGAACAAG-GTGCCATGGAGTTGTGGAC-TTCA
1 AAAAAGGATACCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTCATGGACTTTAA
* * * * * * * *
19637 AAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCATAGAGTTGTGGACTTCAAA-G
66 AAAG-AAAAGGTGCCACAGAGCTGTGGACTTAAAAGGATGCCAT-G-GATATGGACATAAAAGG
* * ** *
19700 -----GG-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAAAAGGATACCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTCATGGACTTTAA
* * *
19759 AAAGAAAAGGTGCCACGGAGCTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACATAAAAGG
66 AAAGAAAAGGTGCCACAGAGCTGTGGACTTAAAAGGATGCCATGGA--TATGGACATAAAAGG
* *
19822 AAAAAGGATACCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCACAGAGTCATGGAC-TTA
1 AAAAAGGATACCACGGAGTTGTGGAC-TTAAAAAGAAAAAGAGTGCCACAGAGTCATGGACTTTA
19886 AAAAGAAAAAGGTGCCACAGAG-TCGTGGACTT
65 AAAAG-AAAAGGTGCCACAGAGCT-GTGGACTT
19918 TGGGAAAAGA
Statistics
Matches: 294, Mismatches: 28, Indels: 36
0.82 0.08 0.10
Matches are distributed among these distances:
119 1 0.00
120 54 0.18
121 64 0.22
122 8 0.03
126 25 0.09
127 33 0.11
128 57 0.19
129 52 0.18
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (126 bp):
AAAAAGGATACCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTCATGGACTTTAA
AAAGAAAAGGTGCCACAGAGCTGTGGACTTAAAAGGATGCCATGGATATGGACATAAAAGG
Found at i:20021 original size:31 final size:31
Alignment explanation
Indices: 19892--20129 Score: 281
Period size: 31 Copynumber: 7.9 Consensus size: 31
19882 CTTAAAAAGA
* *
19892 AAAAGGTGCCACAGAGTCGTGGACTTTG-GG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGG
* * *
19922 AAAAGATGTCACTGA---ATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGG
* *
19950 AAAAGATGCCACTGAGTAGTAGACTTTG-GG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGG
*
19980 AAGAGATGCCACTGAGTCGTGGACTTTGAGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGG
*
20011 AAAAGATGCCATTGAGTCGTGGACTTTGAGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGG
* * *
20042 AAAATATGCCACTAAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGG
* * *
20073 AAAAGGTGCCACTAAGTCATGGACTTTG-GG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGG
* *
20103 AAGAGATGCCACTAAGTCGTGGACTTT
1 AAAAGATGCCACTGAGTCGTGGACTTT
20130 AAGAAGAGAT
Statistics
Matches: 178, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
27 9 0.05
28 15 0.08
30 63 0.35
31 91 0.51
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAGG
Found at i:20021 original size:61 final size:61
Alignment explanation
Indices: 19892--20139 Score: 292
Period size: 61 Copynumber: 4.1 Consensus size: 61
19882 CTTAAAAAGA
* * * *
19892 AAAAGGTGCCACAGAGTCGTGGACTTTGGGAAAAGATGTCACTGAA----TGGACTTTGAAG
1 AAAAGATGCCACTGAGTAGTGGACTTTGGGAAAAGATGCCACT-AAGTCGTGGACTTTGAAG
* * * *
19950 AAAAGATGCCACTGAGTAGTAGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAGG
1 AAAAGATGCCACTGAGTAGTGGACTTTGGGAAAAGATGCCACTAAGTCGTGGACTTTGAAG
* * *
20011 AAAAGATGCCATTGAGTCGTGGACTTTGAGGAAAATATGCCACTAAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTAGTGGACTTTG-GGAAAAGATGCCACTAAGTCGTGGACTTTGAAG
* * *
20073 AAAAGGTGCCACTAAGTCA-TGGACTTTGGGAAGAGATGCCACTAAGTCGTGGACTTT-AAG
1 AAAAGATGCCACTGAGT-AGTGGACTTTGGGAAAAGATGCCACTAAGTCGTGGACTTTGAAG
*
20133 AAGAGAT
1 AAAAGAT
20140 TTAAAGAATT
Statistics
Matches: 161, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
57 1 0.01
58 37 0.23
60 8 0.05
61 63 0.39
62 52 0.32
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (61 bp):
AAAAGATGCCACTGAGTAGTGGACTTTGGGAAAAGATGCCACTAAGTCGTGGACTTTGAAG
Found at i:20098 original size:123 final size:119
Alignment explanation
Indices: 19905--20129 Score: 328
Period size: 123 Copynumber: 1.9 Consensus size: 119
19895 AGGTGCCACA
* *
19905 GAGTCGTGGACTTTGGGAAAAGATGTCACTGAATGGACTTTGAAGAAAAGATGCCACTGAGTAGT
1 GAGTCGTGGACTTTGGGAAAAGATGCCACTGAATGGACTTTGAAGAAAAGATGCCACTAAGTAGT
*
19970 AGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAGGAAAAGATGCCATT
66 AGACTTTGGGAAGAGATGCCACTAAGTCGTGGACTTTGAGGAAAAGATGCCATT
* *
20024 GAGTCGTGGACTTTGAGGAAAATATGCCACT-AAGTCGTGGACTTTGAAGAAAAGGTGCCACTAA
1 GAGTCGTGGACTTTG-GGAAAAGATGCCACTGAA----TGGACTTTGAAGAAAAGATGCCACTAA
*
20088 GTCA-TGGACTTTGGGAAGAGATGCCACTAAGTCGTGGACTTT
61 GT-AGTAGACTTTGGGAAGAGATGCCACTAAGTCGTGGACTTT
20130 AAGAAGAGAT
Statistics
Matches: 94, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
119 17 0.18
120 13 0.14
123 63 0.67
124 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (119 bp):
GAGTCGTGGACTTTGGGAAAAGATGCCACTGAATGGACTTTGAAGAAAAGATGCCACTAAGTAGT
AGACTTTGGGAAGAGATGCCACTAAGTCGTGGACTTTGAGGAAAAGATGCCATT
Found at i:25077 original size:52 final size:52
Alignment explanation
Indices: 25007--25127 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
24997 GAAAATTTAT
*
25007 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
25059 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
25111 CTGTATGTATCGATACA
1 CTGCATGTATCGATACA
25128 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:25140 original size:52 final size:52
Alignment explanation
Indices: 25007--25147 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 52
24997 GAAAATTTAT
*
25007 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*** *
25059 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
25111 CTGTATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
25148 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 76 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:25154 original size:13 final size:13
Alignment explanation
Indices: 25136--25160 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25126 CAAAGATCAG
25136 TGTATCGATACAA
1 TGTATCGATACAA
25149 TGTATCGATACA
1 TGTATCGATACA
25161 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:25244 original size:13 final size:13
Alignment explanation
Indices: 25226--25250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25216 CAAAAAAATA
25226 TGTATCGATACAT
1 TGTATCGATACAT
25239 TGTATCGATACA
1 TGTATCGATACA
25251 ACATTTTATG
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:25246 original size:33 final size:33
Alignment explanation
Indices: 25204--25270 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
25194 AGTAGCTTAA
25204 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
25237 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
25270 A
1 A
25271 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:26238 original size:22 final size:21
Alignment explanation
Indices: 26213--26281 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
26203 ATGCTGATTC
26213 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTA-ATTGGACTTA
* *
26235 AAGG--TGCTAATGTGCTGA-TTC
1 AAGGCCAGCTAAT-TG--GACTTA
26256 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTA-ATTGGACTTA
26278 AAGG
1 AAGG
26282 TGAGGTGCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.22
22 12 0.33
23 6 0.17
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
AAGGCCAGCTAATTGGACTTA
Found at i:26361 original size:49 final size:49
Alignment explanation
Indices: 26147--27198 Score: 1497
Period size: 49 Copynumber: 21.7 Consensus size: 49
26137 AAAAGGATGT
*
26147 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
26199 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
26242 TAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
26290 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTAC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
26339 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
26387 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
26436 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
26485 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
26534 TAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
26583 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
26626 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
26674 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
26723 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
26771 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
26820 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
26869 CAATATGCTGATTCAAGGCCAGCGACACTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
26918 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
26967 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
27016 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
27065 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
27114 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
27163 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
27199 GAAGGGTTGC
Statistics
Matches: 886, Mismatches: 98, Indels: 35
0.87 0.10 0.03
Matches are distributed among these distances:
43 78 0.09
45 1 0.00
48 182 0.21
49 594 0.67
52 31 0.03
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:26618 original size:384 final size:384
Alignment explanation
Indices: 26147--27198 Score: 1807
Period size: 384 Copynumber: 2.7 Consensus size: 384
26137 AAAAGGATGT
* * *
26147 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
*
26212 CAAGGCCAGCTATATTGGACTTAAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
63 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
26277 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTACCAA
128 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
26342 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTGAGGTGCCAATGTGCTGATTCAAGGCC
193 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTGAGGTGCCAATGTGCTGATTCAAGGCC
*
26407 AGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
258 AGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
*
26472 AAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAATGGTGAAGGTGC
323 AAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGACACTGGACTTAATGGTGAAGGTGC
*
26534 TAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
26599 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
26664 GGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATGT
131 GGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
26729 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTGAGGTGCCAATGTGCTGATTCAAGGCCAGC
196 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTGAGGTGCCAATGTGCTGATTCAAGGCCAGC
26794 TACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
261 TACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
26859 ATGATGATGCCAATATGCTGATTCAAGGCCAGCGACACTGGACTTAATGGTGAAGGTGC
326 ATGATGATGCCAATATGCTGATTCAAGGCCAGCGACACTGGACTTAATGGTGAAGGTGC
26918 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
26983 GGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
66 GGCCAGCTATATTGGACTT-A-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
* * * * * *
27048 CTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTG
125 CTTAAAGGT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* *
27113 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
189 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTG-AGGTGCCAATGTGCTGATTCA
* * *
27178 GGGCCAGCTATATTGGGCTTA
253 AGGCCAGCTACATTGGACTTA
27199 GAAGGGTTGC
Statistics
Matches: 632, Mismatches: 25, Indels: 11
0.95 0.04 0.02
Matches are distributed among these distances:
384 419 0.66
385 1 0.00
387 38 0.06
390 46 0.07
391 90 0.14
392 38 0.06
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (384 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
GGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTGAGGTGCCAATGTGCTGATTCAAGGCCAGC
TACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
ATGATGATGCCAATATGCTGATTCAAGGCCAGCGACACTGGACTTAATGGTGAAGGTGC
Found at i:27242 original size:33 final size:34
Alignment explanation
Indices: 27198--27338 Score: 241
Period size: 34 Copynumber: 4.2 Consensus size: 34
27188 TATTGGGCTT
27198 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
27231 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
27264 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
27298 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
27332 AGAAGGG
1 AGAAGGG
27339 AGAAAGATGC
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
33 36 0.36
34 65 0.64
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:27280 original size:67 final size:67
Alignment explanation
Indices: 27198--27338 Score: 239
Period size: 67 Copynumber: 2.1 Consensus size: 67
27188 TATTGGGCTT
*
27198 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTTT
*
27262 GG
66 AG
*
27264 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
27329 TAG
65 TAG
27332 AGAAGGG
1 AGAAGGG
27339 AGAAAGATGC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 7 0.10
67 32 0.46
68 31 0.44
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (67 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTTT
AG
Found at i:27372 original size:34 final size:34
Alignment explanation
Indices: 27320--28132 Score: 821
Period size: 34 Copynumber: 24.4 Consensus size: 34
27310 CACCGACTTG
* *
27320 TGTGGGCTTTAGAGAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA-A-AA-GGAAAAAGGTGCCACGGAGT
*
27357 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
*
27392 TGTGGGCTTTAAAA-GAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
27425 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
27462 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGT
* *
27496 TGTGGGCTTT--AA--AAAGA-GTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
27525 CGTGGGCTTTGAAAA-GAAGAAGGTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGT
* * *
27559 TGTGGGCTTTGAAAA-GAAGAAGGTGCCATGGAGC
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGT
* *
27593 TGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
27627 TGTGGGCTTT-AAA-G----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
27654 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAG-GAAAAAG-GTGCCACGGAGT
27691 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGT
*
27725 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
*
27762 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGT
27796 TGTGGGCTTT-AAA-G----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* *
27823 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCATGGAGT
1 TGTGGGCTTT-AAAAG-GAAAAAG-GTGCCACGGAGT
27860 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGT
*
27894 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
27931 TGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
27964 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
27998 TGTGGGC-TT-AAACG-----GGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * * * *
28025 TGTGGAC-TTAAAGATGAAAAAAGTGCCACAGAAT
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGT
28059 TGTGGGCTTTAAAA-G-----GGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* *
28087 TGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
28120 TGTGGGCTTTAAA
1 TGTGGGCTTTAAA
28133 GAAAAAATGC
Statistics
Matches: 677, Mismatches: 40, Indels: 121
0.81 0.05 0.14
Matches are distributed among these distances:
27 69 0.10
28 21 0.03
29 28 0.04
30 4 0.01
31 3 0.00
32 12 0.02
33 79 0.12
34 242 0.36
35 58 0.09
36 42 0.06
37 119 0.18
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:27730 original size:71 final size:66
Alignment explanation
Indices: 27341--28160 Score: 849
Period size: 71 Copynumber: 12.4 Consensus size: 66
27331 GAGAAGGGAG
* *
27341 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
27405 AGAA
63 AGAA
*
27409 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAA
27474 ACAGAA
62 A-AGAA
* * *
27480 AAAGGTGCCACGGAGTTGTGGGCTTT--AA-AAAGA-GTGCCACAGAGTCGTGGGCTTTGAAAAG
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
27541 AA
65 AA
* * * * *
27543 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCATGGAGCTGTGGGCTTTAAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA
27608 GAA
64 GAA
* *
27611 GAAGGTGCCACGGAGTTGTGGGCTTT-AAAG----A-GTGCCACGGAGTCGTGGGCTTTGAAAAG
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT--AAA-
27670 AGAA
63 AGAA
27674 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAA
27739 AGGGAA
63 A--GAA
* *
27745 AAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
27809 G--
64 GAA
* *
27810 --A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT--AAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAA
27872 ACAGAA
62 A-AGAA
*
27878 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAA
27943 AAGAA
62 AAGAA
*
27948 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAAACG
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
28012 --
65 AA
* * * *
28012 ---GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACAGAATTGTGGGCTTTAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
28073 G--
64 GAA
* *
28074 ---GGTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT-AAAG
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
28134 AA
65 AA
* * * *
28136 AAA-ATGCCACTGAGTCGTGGACTTT
1 AAAGGTGCCACGGAGTTGTGGGCTTT
28161 GAGACAAAAT
Statistics
Matches: 659, Mismatches: 50, Indels: 89
0.83 0.06 0.11
Matches are distributed among these distances:
59 3 0.00
60 7 0.01
61 107 0.16
62 39 0.06
63 63 0.10
64 62 0.09
65 10 0.02
66 16 0.02
67 22 0.03
68 79 0.12
69 7 0.01
70 81 0.12
71 160 0.24
72 3 0.00
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (66 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGA
A
Found at i:27815 original size:169 final size:167
Alignment explanation
Indices: 27321--28134 Score: 877
Period size: 169 Copynumber: 4.9 Consensus size: 167
27311 ACCGACTTGT
* * * * * **
27321 GTGGGCTTTAGAGAAGGGAGAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCC
1 GTGGGCTTT-GAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG-GTGCC
*
27385 ACGGAGTTGTGGGCTTT-AAAAGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAA
64 ACGGAGTTGTGGGCTTTGAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA--GAAAAA
*
27448 GAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTT
127 G-GTGCCACGGAGTTGTGGGCTTT-AA-AG----A-GTGCCACGGAGTC
* * *
27497 GTGGGCTTT--------AAAAAGAGTGCCACAGAGTCGTGGGCTTTGAAA-AGAAGAAGGTGCCA
1 GTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAACAGAAAAAGGTGCCA
* * ** * * *
27553 CAGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCATGGAGCTGTGGGCTTTAAAAAGAAGAAGGT
65 CGGAGTTGTGGGCTTTGAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGT
27617 GCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTC
130 GCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTC
27655 GTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCAC
1 GTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCAC
*
27720 GGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGG
66 GGAGTTGTGGGCTTTGAAAA--GAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGG
27785 TGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTC
129 TGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTC
*
27824 GTGGGCTTTGAAAAGAGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCAC
1 GTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCAC
27889 GGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGG
66 GGAGTTGTGGGCTTTGAAAA--GAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGG
*
27953 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTT
129 TGCCACGGAGTTGTGGGCTTT--AAAG----A-GTGCCACGGAGTC
* * * *
27999 GTGGGC-TT--AAA-CG-----G-GTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCA
1 GTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGCCA
* * * * *
28053 CAGAATTGTGGGCTTT-AAAAG-----G-GTGCCACGGAGTTGTGGAC-TT-AAAAGGAACAAGG
65 CGGAGTTGTGGGCTTTGAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA-GAAAAAGG
28109 TGCCACGGAGTTGTGGGCTTTAAAGA
129 TGCCACGGAGTTGTGGGCTTTAAAGA
28135 AAAAATGCCA
Statistics
Matches: 577, Mismatches: 36, Indels: 76
0.84 0.05 0.11
Matches are distributed among these distances:
150 1 0.00
154 4 0.01
155 6 0.01
156 45 0.08
157 1 0.00
158 21 0.04
159 1 0.00
162 1 0.00
163 2 0.00
164 12 0.02
165 68 0.12
166 67 0.12
167 27 0.05
168 94 0.16
169 189 0.33
170 4 0.01
171 1 0.00
172 3 0.01
174 3 0.01
175 18 0.03
176 9 0.02
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.21
Consensus pattern (167 bp):
GTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCAC
GGAGTTGTGGGCTTTGAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTG
CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTC
Found at i:28023 original size:27 final size:26
Alignment explanation
Indices: 27985--28098 Score: 93
Period size: 27 Copynumber: 4.0 Consensus size: 26
27975 AAAAGAAAAA
*
27985 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGACTTAAA-G
28012 GGTGCCACGGAGTTGTGGACTTAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAG
* * *
28038 ATGAAAAAAGTGCCACAGAATTGTGGGCTTTAAAAG
1 --G------GTGCCACGGAGTTGTGGAC-TT-AAAG
28074 GGTGCCACGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTGTGGACTTAAA
28099 AGGAACAAGG
Statistics
Matches: 70, Mismatches: 7, Indels: 21
0.71 0.07 0.21
Matches are distributed among these distances:
26 4 0.06
27 26 0.37
28 17 0.24
34 17 0.24
35 2 0.03
36 4 0.06
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (26 bp):
GGTGCCACGGAGTTGTGGACTTAAAG
Found at i:28051 original size:61 final size:62
Alignment explanation
Indices: 27876--28132 Score: 281
Period size: 61 Copynumber: 4.0 Consensus size: 62
27866 CTTTAAACAG
* *
27876 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAAA-AGTGCCACGGAGTTGTGGGCTTT
* *
27941 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-
1 AAAAG-----GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
28005 TT
61 TT
* * * *
28007 AAACGGGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAA-A-GAAAAAAGTGCCACGGAGTTGTGGGCTTT
* * *
28069 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAAGTGCCACGGAGTTGTGGGCTTT
28130 AAA
1 AAA
28133 GAAAAAATGC
Statistics
Matches: 169, Mismatches: 15, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
59 3 0.02
60 3 0.02
61 71 0.42
62 31 0.18
65 4 0.02
66 6 0.04
67 18 0.11
68 6 0.04
70 27 0.16
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.21
Consensus pattern (62 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
Found at i:29225 original size:11 final size:11
Alignment explanation
Indices: 29204--29239 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
29194 CTTATCGAGA
29204 TTTTCTATTTTT
1 TTTTCT-TTTTT
29216 TTTTCTTTTTT
1 TTTTCTTTTTT
29227 TTTTCCTTTTTT
1 TTTT-CTTTTTT
29239 T
1 T
29240 GTGTTTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:36483 original size:52 final size:52
Alignment explanation
Indices: 36413--36533 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
36403 GAAAATTTAT
*
36413 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
36465 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
36517 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
36534 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:36546 original size:52 final size:51
Alignment explanation
Indices: 36413--36553 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
36403 GAAAATTTAT
36413 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
36465 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
36517 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
36554 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:36560 original size:13 final size:13
Alignment explanation
Indices: 36542--36566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36532 CAAAGATCAG
36542 TGTATCGATACAA
1 TGTATCGATACAA
36555 TGTATCGATACA
1 TGTATCGATACA
36567 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:36650 original size:13 final size:13
Alignment explanation
Indices: 36632--36656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36622 CAAAAAAATA
36632 TGTATCGATACAT
1 TGTATCGATACAT
36645 TGTATCGATACA
1 TGTATCGATACA
36657 ACATTTTATG
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:36652 original size:33 final size:33
Alignment explanation
Indices: 36610--36676 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
36600 AGTAGCTTAA
36610 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
36643 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
36676 A
1 A
36677 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:41117 original size:401 final size:401
Alignment explanation
Indices: 40364--41149 Score: 1358
Period size: 401 Copynumber: 2.0 Consensus size: 401
40354 GTCGCCAAAC
* *
40364 TGTCGCAACGTGCGCTCGACCCCGGCGATAGGGCAAATGAGGCGCGCTCGACTTAATATCCCTTG
1 TGTCGCAACGTGCGCTCGACCCCGGCGATAGGGCAAATGAGGCACGCTCGACTTAATATCCCTCG
* * *
40429 CGATTGGGGATTTCTATAGCATGATGGGAAGTATGTTGATTAAAGGGGGAAGGTCGGTAGATGAA
66 CGATTGGGGATTTCTATAGCATGATGGGAAGCATGTTGATTAAAGGGGGAAGATCAGTAGATGAA
40494 TCGCCCATCTAATTGATCTTCAATGGTCACTACGAAGTGACCGAAATTTTGGAGTCGCCACCGAT
131 TCGCCCATCTAATTGATCTTCAATGGTCACTACGAAGTGACCGAAATTTTGGAGTCGCCACCGAT
* *
40559 TATTTCGGGATAGGCATGATCGGATGCCTATTGAAACCTATGTCTTGAGTTATGAAACTCAAAAC
196 CATTTCGGGATAGGCATGATCGGATGCCTATTGAAACCTATGTCTTGAGTTACGAAACTCAAAAC
* * *
40624 ATCGATCCTGTCGTCTACGTAATTTAGAGATTTGTCGGTTGGGTTCGGGAGTTGGTTACGAGCAA
261 ATCGATCCCGTCGTCTACGTAATTTAGAGATTCGCCGGTTGGGTTCGGGAGTTGGTTACGAGCAA
40689 AGAGGTACGAACCTCCTCGCAACGCCCGAAATCGGTACCTTACTAGCAATGTTTTGACTTGATGT
326 AGAGGTACGAACCTCCTCGCAACGCCCGAAATCGGTACCTTACTAGCAATGTTTTGACTTGATGT
40754 TGATTACATTG
391 TGATTACATTG
*
40765 TGTCGTAACGTGCGCTCGACCCCGGCGATAGGGCAAATGAGGCACGCTCGACTTAATATCCCTCG
1 TGTCGCAACGTGCGCTCGACCCCGGCGATAGGGCAAATGAGGCACGCTCGACTTAATATCCCTCG
* * * *
40830 TGATTGGGGATTTCTGTGGCATGATGGGAAGCGTGTTGATTAAAGGGGGAAGATCAGTAGATGAA
66 CGATTGGGGATTTCTATAGCATGATGGGAAGCATGTTGATTAAAGGGGGAAGATCAGTAGATGAA
* *
40895 TCGCCCATCTAATTGATCTTCCATGGTCACTACGAAGTGACCGAGATTTTGGAGTCGCCACCGAT
131 TCGCCCATCTAATTGATCTTCAATGGTCACTACGAAGTGACCGAAATTTTGGAGTCGCCACCGAT
*
40960 CATTTCGGGCTAGGCATGATCGGATGCCTATTGAAACCTATGTCTTGAGTTACGAAACTCAAAAC
196 CATTTCGGGATAGGCATGATCGGATGCCTATTGAAACCTATGTCTTGAGTTACGAAACTCAAAAC
* * *
41025 ATCGATCCCGTGGTCTGCGTACTTTAGAGATTCGCCGGTTGGGTTCGGGAGTTGGTTACGCA-CA
261 ATCGATCCCGTCGTCTACGTAATTTAGAGATTCGCCGGTTGGGTTCGGGAGTTGGTTACG-AGCA
*
41089 AAGAGGTACGAACCTCCTCGCGACGCCCGAAATCGGTACCTTACTAGCAATGTTTTGACTT
325 AAGAGGTACGAACCTCCTCGCAACGCCCGAAATCGGTACCTTACTAGCAATGTTTTGACTT
41150 AATATTGGTT
Statistics
Matches: 362, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
401 361 1.00
402 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (401 bp):
TGTCGCAACGTGCGCTCGACCCCGGCGATAGGGCAAATGAGGCACGCTCGACTTAATATCCCTCG
CGATTGGGGATTTCTATAGCATGATGGGAAGCATGTTGATTAAAGGGGGAAGATCAGTAGATGAA
TCGCCCATCTAATTGATCTTCAATGGTCACTACGAAGTGACCGAAATTTTGGAGTCGCCACCGAT
CATTTCGGGATAGGCATGATCGGATGCCTATTGAAACCTATGTCTTGAGTTACGAAACTCAAAAC
ATCGATCCCGTCGTCTACGTAATTTAGAGATTCGCCGGTTGGGTTCGGGAGTTGGTTACGAGCAA
AGAGGTACGAACCTCCTCGCAACGCCCGAAATCGGTACCTTACTAGCAATGTTTTGACTTGATGT
TGATTACATTG
Found at i:43897 original size:52 final size:52
Alignment explanation
Indices: 43819--44019 Score: 341
Period size: 52 Copynumber: 3.9 Consensus size: 52
43809 CGAAATATGA
*
43819 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
43871 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
43923 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
43975 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
44020 ATGTATCGAT
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
51 2 0.01
52 141 0.99
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:44026 original size:13 final size:13
Alignment explanation
Indices: 44008--44032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43998 CAAAGATCAG
44008 TGTATCGATACAA
1 TGTATCGATACAA
44021 TGTATCGATACA
1 TGTATCGATACA
44033 TTTAAGTGAT
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:44113 original size:13 final size:13
Alignment explanation
Indices: 44095--44119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44085 CAAAAAAACA
44095 TGTATCGATACAT
1 TGTATCGATACAT
44108 TGTATCGATACA
1 TGTATCGATACA
44120 ACACTTTATG
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:44218 original size:21 final size:21
Alignment explanation
Indices: 44177--44218 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44167 GTTGGGACCT
*
44177 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
44198 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
44219 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:51513 original size:31 final size:31
Alignment explanation
Indices: 51478--52035 Score: 560
Period size: 31 Copynumber: 17.7 Consensus size: 31
51468 ATCTCTCTTC
*
51478 TCAAAGTCCACGACTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
51509 TCAAAGTCCATGACTCAGTGGTAATCTCTTTC-
1 TCAAAGTCCACGACTCAGTGG-CATCT-TTTCT
*
51541 -CAAAGTCCACGACTCAGTGGCACCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
51571 TCAAAGTCCACAACTCAGCGGCATC-TCTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
51601 TCAAAGTCCACGACTTAGTGGCATCCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAT-CTTTTCT
*
51633 TCCAAGTCCACGACTCAGTGGCATCTCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCA--TCTTTTCT
* * **
51666 TCAAAGTCCACGACTTAGTGGCGTCCCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* **
51696 CCAAAGTCCAAAACTCAGTGGCATC-TTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
51726 TCAAAGTCCATGACTTAGTGGCAATCTCTT-T
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
*
51757 TCTAAGTCCACGACTCAGTGGCATCTTTTTTCCT
1 TCAAAGTCCACGACTCAGTGGCATC--TTTT-CT
* *
51791 TCAAAGTCCATGACTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
51822 TCAAAGTCCACAACTTAGTGGCATCTTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATC--TTTTCT
*
51855 TCAAAGTCCACGACTCAGTGGTATCTCTTT-T
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTCT
* *
51886 CCTAAAGTCCACAACTCAGTGGCATCTTTTCT
1 TC-AAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
51918 TCAAAGTCCACAACTCAATCGCATCTCTTT-T
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTCT
* *
51949 CTCAAAGTCCACAACTCATTGGCATCTCTTT-T
1 -TCAAAGTCCACGACTCAGTGGCATCT-TTTCT
* *
51981 CTCAAAGTCCACAACTTAGTGGCAATCTTTTC-
1 -TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* *
52013 TCAAAGTCCACAACTCCGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
52036 CCCTTTTATG
Statistics
Matches: 447, Mismatches: 56, Indels: 49
0.81 0.10 0.09
Matches are distributed among these distances:
29 7 0.02
30 70 0.16
31 162 0.36
32 121 0.27
33 63 0.14
34 24 0.05
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:51701 original size:95 final size:95
Alignment explanation
Indices: 51468--52035 Score: 615
Period size: 95 Copynumber: 6.0 Consensus size: 95
51458 AATTCTTCAA
* * * **
51468 ATCTCTCTTCTCAAAGTCCACGACTTAGTGGCA--TCTTTTCTTCAAAGTCCATGACTCAGTGGT
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTTTC-CCAAAGTCCACAACTCAGTGG-
* *
51531 AATCTCTTTC--CAAAGTCCACGACTCAGTGGC
64 CATCT-TTTCTTCAAAGTCCACAACTCAGTGGC
* * * * *
51562 A-C-CTTTTCTTCAAAGTCCACAACTCAGCGGCATCTCTCTT--CAAAGTCCACGACTTAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGCATCTCTTTTCCCAAAGTCCACAACTCAGTGGC
* *
51623 ATCCTTTTCTTCCAAGTCCACGACTCAGTGGC
65 AT-CTTTTCTTCAAAGTCCACAACTCAGTGGC
* * * *
51655 ATCTCTTTTCTTCAAAGTCCACGACTTAGTGGCGTC-C-CTTCCCAAAGTCCAAAACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGCATCTCTTTTCCCAAAGTCCACAACTCAGTGGC
** *
51718 ATC-TTTCTTCAAAGTCCATGACTTAGTGGC
65 ATCTTTTCTTCAAAGTCCACAACTCAGTGGC
* ** *
51748 AATCTCTTTTCT--AAGTCCACGACTCAGTGGCATCTTTTTTCCTTCAAAGTCCATGACTTAGTG
1 -ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTTTCC--CAAAGTCCACAACTCAGTG
*
51811 GCATCTTTTCTTCAAAGTCCACAACTTAGTGGC
63 GCATCTTTTCTTCAAAGTCCACAACTCAGTGGC
* * *
51844 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGTATCTCTTTTCCTAAAGTCCACAACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGCATCTCTTTTCCCAAAGTCCACAACTCAGTGGC
* *
51909 ATCTTTTCTTCAAAGTCCACAACTCAATCGC
65 ATCTTTTCTTCAAAGTCCACAACTCAGTGGC
* * * *
51940 ATCTCTTTTCTCAAAGTCCACAACTCATTGGCATCTCTTTTCTCAAAGTCCACAACTTAGTGGCA
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTTTCCCAAAGTCCACAACTCAGTGGC-
*
52005 ATCTTTTC-TCAAAGTCCACAACTCCGTGGC
65 ATCTTTTCTTCAAAGTCCACAACTCAGTGGC
52035 A
1 A
52036 CCCTTTTATG
Statistics
Matches: 406, Mismatches: 48, Indels: 39
0.82 0.10 0.08
Matches are distributed among these distances:
91 26 0.06
92 25 0.06
93 74 0.18
94 14 0.03
95 151 0.37
96 88 0.22
98 28 0.07
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (95 bp):
ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTTTCCCAAAGTCCACAACTCAGTGGCA
TCTTTTCTTCAAAGTCCACAACTCAGTGGC
Found at i:51811 original size:65 final size:61
Alignment explanation
Indices: 51478--52035 Score: 579
Period size: 65 Copynumber: 8.9 Consensus size: 61
51468 ATCTCTCTTC
* ** *
51478 TCAAAGTCCACGACTTAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGTAATCTCTTTC-
1 TCAAAGTCCACGACTTAGTGGCATCTCTT-TTCAAAGTCCACAACTCAGTGG-CATCT-TTTCT
* * * * *
51541 -CAAAGTCCACGACTCAGTGGCACCTTTTCTTCAAAGTCCACAACTCAGCGGCATC-TCTCT
1 TCAAAGTCCACGACTTAGTGGCATCTCTT-TTCAAAGTCCACAACTCAGTGGCATCTTTTCT
* * *
51601 TCAAAGTCCACGACTTAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTCTTTTCT
1 TCAAAGTCCACGACTTAGTGGCAT-CTCTT-TTCAAAGTCCACAACTCAGTGGCA--TCTTTTCT
* * ** *
51666 TCAAAGTCCACGACTTAGTGGCGTCCCTTCCCAAAGTCCAAAACTCAGTGGCATC-TTTCT
1 TCAAAGTCCACGACTTAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTTTTCT
* * *
51726 TCAAAGTCCATGACTTAGTGGCAATCTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTTTCCT
1 TCAAAGTCCACGACTTAGTGGC-ATCTCTTTTCAAAGTCCACAACTCAGTGGCATC--TTTT-CT
* * *
51791 TCAAAGTCCATGACTTAGTGGCATCTTTTCTTCAAAGTCCACAACTTAGTGGCATCTTTTTTCT
1 TCAAAGTCCACGACTTAGTGGCATCTCTT-TTCAAAGTCCACAACTCAGTGGCATC--TTTTCT
* *
51855 TCAAAGTCCACGACTCAGTGGTATCTCTTTTCCTAAAGTCCACAACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTTAGTGGCATCTCTTTT-C-AAAGTCCACAACTCAGTGGCATCTTTTCT
* * * * *
51918 TCAAAGTCCACAACTCAATCGCATCTCTTTTCTCAAAGTCCACAACTCATTGGCATCTCTTT-T
1 TCAAAGTCCACGACTTAGTGGCATCTC-TTT-TCAAAGTCCACAACTCAGTGGCATCT-TTTCT
* *
51981 CTCAAAGTCCACAACTTAGTGGCAATCT-TTTCTCAAAGTCCACAACTCCGTGGCA
1 -TCAAAGTCCACGACTTAGTGGC-ATCTCTTT-TCAAAGTCCACAACTCAGTGGCA
52036 CCCTTTTATG
Statistics
Matches: 428, Mismatches: 48, Indels: 38
0.83 0.09 0.07
Matches are distributed among these distances:
59 3 0.01
60 26 0.06
61 52 0.12
62 73 0.17
63 99 0.23
64 68 0.16
65 107 0.25
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (61 bp):
TCAAAGTCCACGACTTAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTTTTCT
Found at i:52114 original size:27 final size:28
Alignment explanation
Indices: 52070--52127 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
52060 GCACATTTTT
52070 CTTTTAAAGCCCACAACTCTGTGGCA-C
1 CTTTTAAAGCCCACAACTCTGTGGCATC
* * *
52097 CTTTTTAAGTCCATAACTCTGTGGCATC
1 CTTTTAAAGCCCACAACTCTGTGGCATC
52125 CTT
1 CTT
52128 GTTCCTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.34
Consensus pattern (28 bp):
CTTTTAAAGCCCACAACTCTGTGGCATC
Found at i:52149 original size:34 final size:32
Alignment explanation
Indices: 52048--52781 Score: 373
Period size: 34 Copynumber: 22.9 Consensus size: 32
52038 CTTTTATGTT
* *
52048 CACAACTCCGTGGCACATTTTTCTTTTAAAGC-C
1 CACAACTCCGTGGCACCTTTTCCTTTT-AA-CTC
* *
52081 CACAACTCTGTGGCACC---T--TTTTAAGTC
1 CACAACTCCGTGGCACCTTTTCCTTTTAACTC
* *
52108 CATAACTCTGTGGCATCCTTGTTCCTTTTAACTC
1 CACAACTCCGTGGCA-CCTT-TTCCTTTTAACTC
* *
52142 CACAACTCCGTGGCACCTTTTTCTATTTAAAGTC
1 CACAACTCCGTGGCACCTTTTCCT-TTT-AACTC
52176 CACAACTCCGTGGCA-C----CCTTTTAAAGC-C
1 CACAACTCCGTGGCACCTTTTCCTTTT-AA-CTC
*
52204 CACAACTCCGTGGCACTCTTTTTCCTTTTAAGTC
1 CACAACTCCGTGGCAC-C-TTTTCCTTTTAACTC
* *
52238 CACAACTCCGTGGCACCTTTTTCTGTTTAAAGTC
1 CACAACTCCGTGGCACCTTTTCCT-TTT-AACTC
* * * **
52272 CACCACTCTGTGGCACC-CTT--TTAAAAC-C
1 CACAACTCCGTGGCACCTTTTCCTTTTAACTC
** *
52300 CACAACTTTGCGGCACTCTTTTTCCTTTTAAGC-C
1 CACAACTCCGTGGCAC-C-TTTTCCTTTTAA-CTC
* * *
52334 CACAACTCTGTGGCACCTTTTTCTGTTTAAAGTC
1 CACAACTCCGTGGCACCTTTTCCT-TTT-AACTC
*
52368 CACCACTCCGTGGCA-C----CCTTTTAAAGC-C
1 CACAACTCCGTGGCACCTTTTCCTTTT-AA-CTC
52396 CACAACTCCGTGGCACTCTTTTTCCTTTTAAGC-C
1 CACAACTCCGTGGCAC-C-TTTTCCTTTTAA-CTC
52430 CACAACTCCGTGGCACTCTTTTTCCTTTTAAGC-C
1 CACAACTCCGTGGCAC-C-TTTTCCTTTTAA-CTC
* *
52464 CACAACTCCGTGGCACC---T--TTATAAGTC
1 CACAACTCCGTGGCACCTTTTCCTTTTAACTC
* *
52491 CACAACTCCGTGGCACTTTTTTCTTTTTAAAGC-C
1 CACAACTCCGTGGCAC-CTTTTCCTTTT-AA-CTC
* * *
52525 CATAACTCTGTAGCACTCTTTTTCCTTTTAAGC-C
1 CACAACTCCGTGGCAC-C-TTTTCCTTTTAA-CTC
*
52559 CACAACTCCGTGGCA-----T-CTTTGTAAGTC
1 CACAACTCCGTGGCACCTTTTCCTTT-TAACTC
* *
52586 CATAACTCCGTGGCACCTTTTTCTTTTTAAAGC-C
1 CACAACTCCGTGGCACC-TTTTCCTTTT-AA-CTC
* * *
52620 CACAACTCCGTTGCATCTGTTTCCTTTGT-AGTC
1 CACAACTCCGTGGCACCT-TTTCCTTT-TAACTC
* * *
52653 CACAACTCTGTGATTC-CCTTTTCCTTTTAAGTC
1 CACAACTCCGTG--GCACCTTTTCCTTTTAACTC
* *
52686 CACAACTCCGTGGCACCCTGTTCCTTTTAAGTC
1 CACAACTCCGTGGCA-CCTTTTCCTTTTAACTC
* * *
52719 CACAACTCTGTGGCACCTTTT-CTTTCAAAGTC
1 CACAACTCCGTGGCACCTTTTCCTTT-TAACTC
* *
52751 CACGACTCCGTGGTACCCTTTTCCCTTTTAA
1 CACAACTCCGTGGCA-CCTTTT-CCTTTTAA
52782 GCCCACACCT
Statistics
Matches: 560, Mismatches: 70, Indels: 141
0.73 0.09 0.18
Matches are distributed among these distances:
26 4 0.01
27 58 0.10
28 63 0.11
29 8 0.01
30 4 0.01
31 9 0.02
32 40 0.07
33 116 0.21
34 231 0.41
35 27 0.05
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (32 bp):
CACAACTCCGTGGCACCTTTTCCTTTTAACTC
Found at i:52240 original size:96 final size:95
Alignment explanation
Indices: 52048--52772 Score: 785
Period size: 96 Copynumber: 7.6 Consensus size: 95
52038 CTTTTATGTT
* * * * *
52048 CACAACTCCGTGGCACATTTTTCTTTTAAAGCCCACAACTCTGTGGCA-CCTTTTTAAGTCCATA
1 CACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACA
* *
52112 ACTCTGTGGCA-TCCTTGTTCCTTTTAA-CTC
66 ACTCCGTGGCACT-CTTTTTCCTTTTAAGC-C
*
52142 CACAACTCCGTGGCACCTTTTTCTATTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCAC
1 CACAACTCCGTGGCACCTTTTTCT-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
*
52207 AACTCCGTGGCACTCTTTTTCCTTTTAAGTC
65 AACTCCGTGGCACTCTTTTTCCTTTTAAGCC
* * **
52238 CACAACTCCGTGGCACCTTTTTCTGTTTAAAGTCCACCACTCTGTGGCACCCTTTTAAAACCCAC
1 CACAACTCCGTGGCACCTTTTTCT-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
** *
52303 AACTTTGCGGCACTCTTTTTCCTTTTAAGCC
65 AACTCCGTGGCACTCTTTTTCCTTTTAAGCC
* * *
52334 CACAACTCTGTGGCACCTTTTTCTGTTTAAAGTCCACCACTCCGTGGCACCCTTTTAAAGCCCAC
1 CACAACTCCGTGGCACCTTTTTCT-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
52399 AACTCCGTGGCACTCTTTTTCCTTTTAAGCC
65 AACTCCGTGGCACTCTTTTTCCTTTTAAGCC
*
52430 CACAACTCCGTGGCACTCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCA-CC-TTTATAAGTCC
1 CACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTA-AAGTCC
*
52492 ACAACTCCGTGGCACT-TTTTTCTTTTTAAAGCC
63 ACAACTCCGTGGCACTCTTTTTCCTTTT-AAGCC
* * * * *
52525 CATAACTCTGTAGCACTCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCA-TCTTTGT-AAGTCC
1 CACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGTCCACAACTCCGTGGCACCCTTT-TAAAGTCC
* *
52587 ATAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCC
63 ACAACTCCGTGGCACTCTTTTTCCTTTT-AAGCC
* * * * ** * * *
52620 CACAACTCCGTTGCATCTGTTTCCTTTGTAGTCCACAACTCTGTGATTCCCTTTTCCTTTT-AAG
1 CACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTG--GCAC----CCTTTTAAAG
* * *
52684 TCCACAACTCCGTGGCAC-CCTGTTCCTTTTAAGTC
60 TCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCC
* * * *
52719 CACAACTCTGTGGCACC-TTTTCTTTCAAAGTCCACGACTCCGTGGTACCCTTTT
1 CACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
52773 CCCTTTTAAG
Statistics
Matches: 549, Mismatches: 63, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
92 6 0.01
93 4 0.01
94 56 0.10
95 146 0.27
96 252 0.46
97 11 0.02
98 22 0.04
99 18 0.03
100 30 0.05
101 4 0.01
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.34
Consensus pattern (95 bp):
CACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACA
ACTCCGTGGCACTCTTTTTCCTTTTAAGCC
Found at i:52482 original size:26 final size:26
Alignment explanation
Indices: 52453--52511 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
52443 CACTCTTTTT
52453 CCTTTTAAGCCCACAACTCCGTGGCA
1 CCTTTTAAGCCCACAACTCCGTGGCA
*
52479 CCTTTATAAGTCCACAACTCCGTGGCA
1 CCTTT-TAAGCCCACAACTCCGTGGCA
*
52506 CTTTTT
1 CCTTTT
52512 TCTTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.31
Consensus pattern (26 bp):
CCTTTTAAGCCCACAACTCCGTGGCA
Found at i:52675 original size:67 final size:66
Alignment explanation
Indices: 52604--52788 Score: 182
Period size: 66 Copynumber: 2.8 Consensus size: 66
52594 CGTGGCACCT
* * *
52604 TTTTCTTTTTAAAGCCCACAACTCCGTTGCA-TCTGTTTCCTTTGT-AGTCCACAACTCTGTGAT
1 TTTTCCTTTT-AAGCCCACAACTCCGTGGCACCCTG-TTCCTTT-TAAGTCCACAACTCTGTGAT
52667 TCCC
63 TCCC
* *
52671 TTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTGTTCCTTTTAAGTCCACAACTCTGTG--GCA
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTGTTCCTTTTAAGTCCACAACTCTGTGATTC-
52734 CC
65 CC
* * * * * *
52736 TTTT-CTTTCAAAGTCCACGACTCCGTGGTACCCTTTTCCCTTTTAAGCCCACA
1 TTTTCCTTT-TAAGCCCACAACTCCGTGGCACCCTGTT-CCTTTTAAGTCCACA
52789 CCTCCATCGC
Statistics
Matches: 103, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
64 5 0.05
65 31 0.30
66 55 0.53
67 12 0.12
ACGTcount: A:0.18, C:0.32, G:0.12, T:0.37
Consensus pattern (66 bp):
TTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTGTTCCTTTTAAGTCCACAACTCTGTGATTCC
C
Found at i:52721 original size:66 final size:65
Alignment explanation
Indices: 52037--52788 Score: 482
Period size: 62 Copynumber: 11.7 Consensus size: 65
52027 TCCGTGGCAC
* * * * * *
52037 CCTTTTATGTTCACAACTCCGTGGCA-CATTTTTCTTTTAAAGCCCACAACTCTGTGGCACC---
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTGTTCCTTTT-AAGTCCACAACTCTGTGGCACCTTT
52098 T
65 T
* * * * *
52099 --TTTTAAGTCCATAACTCTGTGGCATCCTTGTTCCTTTTAACTCCACAACTCCGTGGCACCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CCCTGTTCCTTTTAAGTCCACAACTCTGTGGCACCTTT
52162 T
65 T
* * * *
52163 TCTATTTAAAGTCCACAACTCCGTGGCACCC---T--TTTAAAGCCCACAACTCCGTGGCACTCT
1 CCT-TTT-AAGTCCACAACTCCGTGGCACCCTGTTCCTTTTAAGTCCACAACTCTGTGGCAC-C-
52223 TTTT
62 TTTT
* * *
52227 CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCTGTTTAAAGTCCACCACTCTGTGGCA-C--
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTGTTCCT-TTT-AAGTCCACAACTCTGTGGCACCTT
52288 --
64 TT
** ** * * * *
52288 CCTTTTAAAACCCACAACTTTGCGGCACTCTTTTTCCTTTTAAGCCCACAACTCTGTGGCACCTT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC-CCTGTTCCTTTTAAGTCCACAACTCTGTGGCACCTT
52353 TT
64 TT
* * * * *
52355 TCTGTTTAAAGTCCACCACTCCGTGGCACCC---T--TTTAAAGCCCACAACTCCGTGGCACTCT
1 CCT-TTT-AAGTCCACAACTCCGTGGCACCCTGTTCCTTTTAAGTCCACAACTCTGTGGCAC-C-
52415 TTTT
62 TTTT
* * * * *
52419 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACC---
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CCTGTTCCTTTTAAGTCCACAACTCTGTGGCACCTTT
52481 T
65 T
* ** * * * * *
52482 --TTATAAGTCCACAACTCCGTGGCACTTTTTTCTTTTTAAAGCCCATAACTCTGTAGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTGTTCCTTTT-AAGTCCACAACTCTGTGGCAC-C-T
52545 TTT
63 TTT
* * *
52548 CCTTTTAAGCCCACAACTCCGTGGCA------T-CTTTGTAAGTCCATAACTCCGTGGCACCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTGTTCCTTT-TAAGTCCACAACTCTGTGGCACC-TT
52606 TT
64 TT
* * * * *
52608 CTTTTTAAAGCCCACAACTCCGTTGCA-TCTGTTTCCTTTGT-AGTCCACAACTCTGTGATTC-C
1 CCTTTT-AAGTCCACAACTCCGTGGCACCCTG-TTCCTTT-TAAGTCCACAACTCTGTG--GCAC
52670 CTTTT
61 CTTTT
52675 CCTTTTAAGTCCACAACTCCGTGGCACCCTGTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTGTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTT
* * * * *
52740 -CTTTCAAAGTCCACGACTCCGTGGTACCCTTTTCCCTTTTAAGCCCACA
1 CCTTT-TAAGTCCACAACTCCGTGGCACCCTGTT-CCTTTTAAGTCCACA
52789 CCTCCATCGC
Statistics
Matches: 558, Mismatches: 73, Indels: 114
0.75 0.10 0.15
Matches are distributed among these distances:
60 41 0.07
61 108 0.19
62 129 0.23
63 14 0.03
64 28 0.05
65 31 0.06
66 60 0.11
67 38 0.07
68 108 0.19
69 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (65 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTGTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTT
Found at i:52935 original size:39 final size:39
Alignment explanation
Indices: 52874--53166 Score: 244
Period size: 39 Copynumber: 7.0 Consensus size: 39
52864 ACCTTGTCTT
* * *
52874 CAAGCCCAATGTTGCTGACCTTGAATCAGCACATTGGCA
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
52913 CAAGCCCAATATCACTAGCCTTGAATCAGCACATTGGCATCTTCA
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGG------CA
* * *
52958 TCTTTAAGACCAATATCGTTGGCCTTGAATCAGCATATTGGCA
1 -C---AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
53001 CCTTGTCTTTAAGACCAATGTCGCTGGCCTTGACTCAGCACATTGGCA
1 ------C---AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
53049 CAAGCCTAGTATCGCTGGCCTTGAATCAGCACATTGGCA
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
53088 CAAGCCCAATGTCGCTGACCTTGAATCAGCACATTGGCA
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
53127 CGAGCCCAATATCGATGGCCTTGAATGAGCATATTGGCA
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
53166 C
1 C
53167 CTTCATCTCG
Statistics
Matches: 210, Mismatches: 29, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
39 134 0.64
42 1 0.00
43 2 0.01
45 2 0.01
46 1 0.00
48 39 0.19
49 31 0.15
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:52990 original size:49 final size:48
Alignment explanation
Indices: 52930--53459 Score: 299
Period size: 49 Copynumber: 11.4 Consensus size: 48
52920 AATATCACTA
* * *
52930 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGTTG
1 GCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATGTCGCTG
* * *
52979 GCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATGTCGCTG
* * * *
53027 GCCTTGACTCAGCACATTGGCAC--AAGC-CT-AGT---A--TCGCTG
1 GCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATGTCGCTG
*
53066 GCCTTGAATCAGCACATTGG-----CA-C---AAGCCCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATGTCGCTG
* * * * *
53105 ACCTTGAATCAGCACATTGG-----CA-C---GAGCCCAATATCGATG
1 GCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATGTCGCTG
* * ** * * **
53144 GCCTTGAATGAGCATATTGGCACCTTCATCTCGAAGACCGATGTCATTG
1 GCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATGTCGCTG
* *
53193 GCCTTGAATCAGCACATCGGCACCTCAACCATCTTTAAGTCCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCA-CT---TCATCTTTAAGTCCAATGTCGCTG
* * * * *
53245 GCCTTGAATAAGCATATTGGCACCTTTATCTTCAAGTCTAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATGTCGCTG
* * * * * **
53294 GCCTTGAATCATCGCATTGGCACCTTCATCCTTAAGTCCGATATCATTG
1 GCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATGTCGCTG
* * * * *
53343 GCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGCCGCTG
1 GCCTTGAATCAGCACATTGGCA-CTTCATC-TT--TAAGTCCAATGTCGCTG
** * * *
53395 GCCTTGTCTCAGCACATTGGCA-TTCTTCTTCAAGTCTAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATGTCGCTG
*
53442 GCCATGAATCAGCACATT
1 GCCTTGAATCAGCACATT
53460 ATCATTTTTC
Statistics
Matches: 376, Mismatches: 82, Indels: 48
0.74 0.16 0.09
Matches are distributed among these distances:
34 2 0.01
35 1 0.00
36 1 0.00
37 1 0.00
39 83 0.22
41 1 0.00
44 2 0.01
45 3 0.01
46 2 0.01
47 29 0.08
48 39 0.10
49 139 0.37
50 4 0.01
52 69 0.18
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATGTCGCTG
Found at i:52993 original size:136 final size:136
Alignment explanation
Indices: 52823--53087 Score: 422
Period size: 136 Copynumber: 1.9 Consensus size: 136
52813 TCCGTGGCAC
* * * *
52823 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGCCCAATGTTG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGACCAATGTCG
52888 CTGACCTTGAATCAGCACATTGGCACAAGCCCAATATCACTAGCCTTGAATCAGCACATTGGCAT
66 CTGACCTTGAATCAGCACATTGGCACAAGCCCAATATCACTAGCCTTGAATCAGCACATTGGCAT
52953 CTTCAT
131 CTTCAT
* *
52959 CTTTAAGACCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGACCAATGTCG
* * * * * *
53024 CTGGCCTTGACTCAGCACATTGGCACAAGCCTAGTATCGCTGGCCTTGAATCAGCACATTGGCA
66 CTGACCTTGAATCAGCACATTGGCACAAGCCCAATATCACTAGCCTTGAATCAGCACATTGGCA
53088 CAAGCCCAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
136 117 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (136 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGACCAATGTCG
CTGACCTTGAATCAGCACATTGGCACAAGCCCAATATCACTAGCCTTGAATCAGCACATTGGCAT
CTTCAT
Found at i:53217 original size:214 final size:215
Alignment explanation
Indices: 52874--53267 Score: 567
Period size: 214 Copynumber: 1.8 Consensus size: 215
52864 ACCTTGTCTT
*
52874 CAAGCCCAATGTTGCTGACCTTGAATCAGCACATTGGCACAAGCCCAATATCACTAGCCTTGAAT
1 CAAGCCCAATGTCGCTGACCTTGAATCAGCACATTGGCACAAGCCCAATATCACTAGCCTTGAAT
* ** * * *
52939 CAGCACATTGGCATCTTCATCTTTAAGACCAATATCGTTGGCCTTGAATCAGCATATTGGCACCT
66 CAGCACATTGGCACCTTCATCTCGAAGACCAATATCATTGGCCTTGAATCAGCACATCGGCACCT
** * *
53004 -TGTCTTTAAGACCAATGTCGCTGGCCTTGACTCAGCACATTGGCACAAGCCTAGTATCGCTGGC
131 ACATCTTTAAGACCAATGTCGCTGGCCTTGAATAAGCACATTGGCACAAGCCTAGTATCGCTGGC
53068 CTTGAATCAGCACATTGGCA
196 CTTGAATCAGCACATTGGCA
* *
53088 CAAGCCCAATGTCGCTGACCTTGAATCAGCACATTGGCACGAGCCCAATATCGA-TGGCCTTGAA
1 CAAGCCCAATGTCGCTGACCTTGAATCAGCACATTGGCACAAGCCCAATATC-ACTAGCCTTGAA
* * * *
53152 TGAGCATATTGGCACCTTCATCTCGAAGACCGATGTCATTGGCCTTGAATCAGCACATCGGCACC
65 TCAGCACATTGGCACCTTCATCTCGAAGACCAATATCATTGGCCTTGAATCAGCACATCGGCACC
* *
53217 TCAACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATAAGCATATTGGCAC
130 T--A-CATCTTTAAGACCAATGTCGCTGGCCTTGAATAAGCACATTGGCAC
53268 CTTTATCTTC
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
214 115 0.74
215 1 0.01
218 40 0.26
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (215 bp):
CAAGCCCAATGTCGCTGACCTTGAATCAGCACATTGGCACAAGCCCAATATCACTAGCCTTGAAT
CAGCACATTGGCACCTTCATCTCGAAGACCAATATCATTGGCCTTGAATCAGCACATCGGCACCT
ACATCTTTAAGACCAATGTCGCTGGCCTTGAATAAGCACATTGGCACAAGCCTAGTATCGCTGGC
CTTGAATCAGCACATTGGCA
Found at i:53316 original size:101 final size:98
Alignment explanation
Indices: 53132--53370 Score: 266
Period size: 101 Copynumber: 2.4 Consensus size: 98
53122 TGGCACGAGC
* * * *
53132 CCAATATCGATGGCCTTGAATGAGCATATTGGCACCTTCATCTCGAAGACCGATGTCATTGGCCT
1 CCAATATCGATGGCCTTGAATAAGCATATTGGCACCTTTATCTCGAAGACCAATGTCACTGGCCT
*
53197 TGAATCAGCACATCGGCACCTCAACCATCTTTAAGT
66 TGAATCAGCACATCGGCACCT---CCATCCTTAAGT
* * * * *
53233 CCAATGTCGCTGGCCTTGAATAAGCATATTGGCACCTTTATCTTC-AAGTCTAATGTCGCTGGCC
1 CCAATATCGATGGCCTTGAATAAGCATATTGGCACCTTTATC-TCGAAGACCAATGTCACTGGCC
* * * *
53297 TTGAATCATCGCATTGGCACCTTCATCCTTAAGT
65 TTGAATCAGCACATCGGCACCTCCATCCTTAAGT
* * *
53331 CCGATATC-ATTGGCCTTGAATCAGCATATTGGCATCTTTA
1 CCAATATCGA-TGGCCTTGAATAAGCATATTGGCACCTTTA
53371 ACATTCCTAA
Statistics
Matches: 117, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
98 44 0.38
101 71 0.61
102 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
CCAATATCGATGGCCTTGAATAAGCATATTGGCACCTTTATCTCGAAGACCAATGTCACTGGCCT
TGAATCAGCACATCGGCACCTCCATCCTTAAGT
Found at i:53414 original size:150 final size:148
Alignment explanation
Indices: 53159--53452 Score: 371
Period size: 150 Copynumber: 2.0 Consensus size: 148
53149 GAATGAGCAT
*
53159 ATTGGCACCTTCATCTCGAAGACCGATGTCATTGGCCTTGAATCAGCACATCGGCACCTCAACCA
1 ATTGGCACCTTCATCTCGAAGACCGATATCATTGGCCTTGAATCAGCACATCGGCACCTCAACCA
* * * *
53224 TCTTTAAGTCCAATGTCGCTGGCCTTGAATAAGCATATTGGCACCTT-TATCTTCAAGTCTAATG
66 TCTCTAAGCCCAATGCCGCTGGCCTTGAATAAGCACATTGGCA--TTCT-TCTTCAAGTCTAATG
*
53288 TCGCTGGCCTTGAATCATCGC
128 TCGCTGGCCATGAATCATCGC
* * * * * *
53309 ATTGGCACCTTCATC-CTTAAGTCCGATATCATTGGCCTTGAATCAGCATATTGGCATCTTTAA-
1 ATTGGCACCTTCATCTC-GAAGACCGATATCATTGGCCTTGAATCAGCACATCGGCA-CCTCAAC
** *
53372 CAT-TCCTAAGCCCAATGCCGCTGGCCTTGTCTCAGCACATTGGCATTCTTCTTCAAGTCTAATG
64 CATCT-CTAAGCCCAATGCCGCTGGCCTTGAATAAGCACATTGGCATTCTTCTTCAAGTCTAATG
53436 TCGCTGGCCATGAATCA
128 TCGCTGGCCATGAATCA
53453 GCACATTATC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
148 33 0.26
149 3 0.02
150 85 0.68
151 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (148 bp):
ATTGGCACCTTCATCTCGAAGACCGATATCATTGGCCTTGAATCAGCACATCGGCACCTCAACCA
TCTCTAAGCCCAATGCCGCTGGCCTTGAATAAGCACATTGGCATTCTTCTTCAAGTCTAATGTCG
CTGGCCATGAATCATCGC
Found at i:60742 original size:13 final size:13
Alignment explanation
Indices: 60724--60749 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60714 CAATTTTTTG
60724 TGTATCGATACAT
1 TGTATCGATACAT
60737 TGTATCGATACAT
1 TGTATCGATACAT
60750 ACTTTGTGTA
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:64267 original size:12 final size:10
Alignment explanation
Indices: 64211--64260 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
64201 TTAAAGACAC
64211 AAAAAAAACA
1 AAAAAAAACA
64221 AAAAACAAACA
1 AAAAA-AAACA
* *
64232 AAAACAAA-T
1 AAAAAAAACA
*
64241 AGAAAAAACA
1 AAAAAAAACA
64251 AAAAAAAACA
1 AAAAAAAACA
64261 CACAAAAGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 6 0.19
10 17 0.53
11 9 0.28
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:65585 original size:31 final size:31
Alignment explanation
Indices: 65550--66064 Score: 533
Period size: 31 Copynumber: 16.4 Consensus size: 31
65540 ATCTCTCTTC
* *
65550 TCAAAGTCCATGACTCGGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
65581 TCAAAGTCCACGACTCAGTGACAATCTCTTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCT-TTTCT
*
65613 -CAAAGTCCACGACTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
65643 TCAAAGTCCACAACTCAGTGGCATCTCTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
65673 TCAAAGTCCACGACTTAGTGGCATCCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAT-CTTTTCT
*
65705 TCCAAGTCCACGACTCAGTGGCATCTCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCA--TCTTTTCT
* **
65738 TCAAAGTCCACGACTCAGTGGCGTCCCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* **
65768 CCAAAGTCCATAACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * * *
65799 TTAAAGTCCATGACTTAGGGGCAATCTCTT-T
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
*
65830 TCTAAGTCCACGACTCAGTGGCATCTTTTTTCCT
1 TCAAAGTCCACGACTCAGTGGCATC--TTTT-CT
65864 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
65895 TCAAAGTCCACGACTTAGTAGCATCTCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCA--TCTTTTCT
* *
65928 TCAAAGTCCACAACTTAGTGGCATCTCTTT-T
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTCT
* * *
65959 CCTAAAGTCCACAACTCAGGGGCATCTTTTCT
1 TC-AAAGTCCACGACTCAGTGGCATCTTTTCT
* * * *
65991 ACAAAATCCACAACTTAGTGGCATCTCTTT-T
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTCT
* *
66022 CTCAAAGTCCACAACTTAGTGGCAATCTTTTC-
1 -TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
66054 TCAAAGTCCAC
1 TCAAAGTCCAC
66065 ATCTCCGTGG
Statistics
Matches: 412, Mismatches: 49, Indels: 46
0.81 0.10 0.09
Matches are distributed among these distances:
29 4 0.01
30 54 0.13
31 171 0.42
32 92 0.22
33 65 0.16
34 26 0.06
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:65754 original size:95 final size:93
Alignment explanation
Indices: 65540--66064 Score: 596
Period size: 96 Copynumber: 5.5 Consensus size: 93
65530 AATTCTTCAA
* ** * * *
65540 ATCTCTCTTCTCAAAGTCCATGACTCGGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGACAA
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTCTT-TTCAAAGTCCACGACTCAGTGGC-A
65605 TCTCTTTC--CAAAGTCCACGACTTAGTGGC
64 TCT-TTTCTTCAAAGTCCACGACTTAGTGGC
*
65634 A--TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACGACTTAGTGGCAT
1 ATCTCTTTTC-TCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCAT
* *
65697 CCTTTTCTTCCAAGTCCACGACTCAGTGGC
65 -CTTTTCTTCAAAGTCCACGACTTAGTGGC
* * * ** **
65727 ATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCGTCCCTTCCCAAAGTCCATAACTCAGTGGCAT
1 ATCTCTTTTC-TCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCAT
* * *
65792 CTTTTCTTTAAAGTCCATGACTTAGGGGC
65 CTTTTCTTCAAAGTCCACGACTTAGTGGC
* *
65821 AATCTCTTTTCT--AAGTCCACGACTCAGTGGCATCTTTTTTCCTTCAAAGTCCACGACTCAGTG
1 -ATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATC--TCTT--TTCAAAGTCCACGACTCAGTG
*
65884 GCATCTTTTCTTCAAAGTCCACGACTTAGTAGC
61 GCATCTTTTCTTCAAAGTCCACGACTTAGTGGC
* * *
65917 ATCTCTTTTCTTCAAAGTCCACAACTTAGTGGCATCTCTTTTCCTAAAGTCCACAACTCAGGGGC
1 ATCTCTTTTC-TCAAAGTCCACAACTCAGTGGCATCTCTTTT-C-AAAGTCCACGACTCAGTGGC
* * *
65982 ATCTTTTCTACAAAATCCACAACTTAGTGGC
63 ATCTTTTCTTCAAAGTCCACGACTTAGTGGC
*
66013 ATCTCTTTTCTCAAAGTCCACAACTTAGTGGCAATCT-TTTCTCAAAGTCCAC
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC-ATCTCTTT-TCAAAGTCCAC
66065 ATCTCCGTGG
Statistics
Matches: 371, Mismatches: 42, Indels: 36
0.83 0.09 0.08
Matches are distributed among these distances:
91 6 0.02
92 50 0.13
93 45 0.12
94 39 0.11
95 101 0.27
96 110 0.30
98 20 0.05
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (93 bp):
ATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCATC
TTTTCTTCAAAGTCCACGACTTAGTGGC
Found at i:66129 original size:34 final size:33
Alignment explanation
Indices: 66080--66647 Score: 449
Period size: 34 Copynumber: 17.5 Consensus size: 33
66070 CGTGGCACCC
* *
66080 TTTTAAGTCTACAACTCCGTGGCACATTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
* *
66113 TTTTAAAGCCCACAACTCCGTTGCA-C-----CT
1 TTTT-AAGTCCACAACTCCGTGGCACCTTTTTCT
* *
66141 TTTTAAGTCCACAACTCCGTGGCATCCTTGTTCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCT
66175 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
* * *
66208 GTTTAAAGTCCACCACTCTGTGGCACC-----CT
1 -TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
* * *
66237 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCAC-CTTTTTCT
*
66271 TTTTAA-TCCCACAACTTCGTGGCA-C-----CT
1 TTTTAAGT-CCACAACTCCGTGGCACCTTTTTCT
*
66298 TTGTAAGTCCACAACTCCGTGGCACCTTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
* * *
66331 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 TTTT-AAGTCCACAACTCCGTGGCAC-CTTTTTCT
* *
66366 TTTTAAGCCCACAACTTCGTGGCACCTTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
* ** * *
66399 TTTTAAAGCCCACAACTCTATGGCATCTGTTTCCT
1 TTTT-AAGTCCACAACTCCGTGGCACCT-TTTTCT
*
66434 TTGTAAGTCCACAACTCCGTGGCA-CTTTTT-T
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
** * * * * *
66465 TTGAAAGCCCACAACTCTGTGGCATCTGTTTCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
* *** * *
66498 TTTTAAGTCCACAACTCTGTGATTCCCTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
* * * *
66531 TTTTAAGTCCACAACTGCGTGGCACCCTATTCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
*
66564 TTTTAAGTCCACAACTCTGTGGCACCTTTTT-T
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
* ** * *
66596 GTTTAAGTCCACGGCTCCGTGGCACCCTTTTCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCT
* *
66630 TTTTAAGCCCACACCTCC
1 TTTTAAGTCCACAACTCC
66648 ATCGCATCCC
Statistics
Matches: 430, Mismatches: 74, Indels: 61
0.76 0.13 0.11
Matches are distributed among these distances:
27 39 0.09
28 30 0.07
29 4 0.01
31 22 0.05
32 29 0.07
33 113 0.26
34 174 0.40
35 19 0.04
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (33 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
Found at i:66146 original size:61 final size:62
Alignment explanation
Indices: 66047--66205 Score: 214
Period size: 61 Copynumber: 2.6 Consensus size: 62
66037 TTAGTGGCAA
* * * *
66047 TCTTTTCTCAAAGTCCACATCTCCGTGGCACCCTTTTAAGTCTACAACTCCGTGGCA-CATTTT
1 TCTTTT-T-AAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCATCATTGT
* * *
66110 TCTTTTTAAAGCCCACAACTCCGTTGCACCTTTTTAAGTCCACAACTCCGTGGCATCCTTGT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCATCATTGT
*
66172 TCCTTTT-AAGTCCACAACTCCGTGGCACCTTTTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTT
66206 CTGTTTAAAG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
61 68 0.80
62 11 0.13
63 6 0.07
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (62 bp):
TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCATCATTGT
Found at i:66192 original size:95 final size:96
Alignment explanation
Indices: 66078--66626 Score: 439
Period size: 95 Copynumber: 5.7 Consensus size: 96
66068 TCCGTGGCAC
* * *
66078 CCTTTTAAGTCTACAACTCCGTGGCACATTTTTCTTTTTAAAGCCCACAACTCCGTTGCA-CCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCCTT
* *
66142 TTTAAGTCCACAACTCCGTGGCA-TCCTTGTT
66 TTTAAGCCCACAACTCCGTGGCACT-CTTTTT
* * * *
66173 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGTCCACCACTCTGTGGCACCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCCTT
*
66238 TTAAAGCCCACAACTCCGTGGCACTCTTTTT
66 TTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
66269 CCTTTTAA-TCCCACAACTTCGTGGCA-C-----CTTTGT-AAGTCCACAACTCCGTGGCACCTT
1 CCTTTTAAGT-CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC--
*
66326 TTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
63 ---CTTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
* * **
66364 CCTTTTAAGCCCACAACTTCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTATGGCATCTGT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA-C---
* *
66429 TTCCTTTGTAAGTCCACAACTCCGTGGCACT-TTTTT
62 --CCTTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
** * * * * * * * ***
66465 --TTGAAAGCCCACAACTCTGTGGCATCTGTTTCCTTTT-AAGTCCACAACTCTGTGATTCCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCC--
* * * *
66527 TTCCTTTTAAGTCCACAACTGCGTGGCAC-CCTATT
64 -T--TTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * **
66562 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT-TGTTT-AAGTCCACGGCTCCGTGGCACCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCCTT
66625 TT
66 TT
66627 CCCTTTTAAG
Statistics
Matches: 369, Mismatches: 54, Indels: 64
0.76 0.11 0.13
Matches are distributed among these distances:
89 20 0.05
90 4 0.01
92 2 0.01
93 3 0.01
94 5 0.01
95 108 0.29
96 54 0.15
97 28 0.08
98 35 0.09
99 56 0.15
101 10 0.03
102 37 0.10
103 6 0.02
108 1 0.00
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.36
Consensus pattern (96 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCCTT
TTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:66743 original size:48 final size:48
Alignment explanation
Indices: 66685--67410 Score: 395
Period size: 48 Copynumber: 15.6 Consensus size: 48
66675 ACCTTTAAGT
* * *
66685 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTTCAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGA
* * *
66733 CCAATGTCGCTGACCTTGAATCAGCACATTGG--C---A----CAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGA
* ** * *
66772 CCAATATCGCTGGCCTTGAATCAAAACATTGGCATC-TTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CATT-ATCTTCAAGA
* * * *
66821 CCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGA
* *
66869 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGA
* * *
66917 CCAATGTCGCTGGCCTTGACTCAACACT-TTGGCACA--AGC--CAAG-
1 CCAATGTCGCTGGCCTTGAATCAGCA-TATTGGCACATTATCTTCAAGA
* * * * *
66960 ----TATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGA
* *
67004 CCAATGTCGCTAGCCTTGAATCAGCATATTGG--C---A----CAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGA
* * * * *
67043 CCAATGTCGCTGACCTTGAAT-----TA---GCACATTAGCAT-GAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGA
* * *
67082 CCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTCATC-TCGAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACATT-ATCTTC-AAGA
* * * * ** * *
67131 CCGATGTCGTTGGCCTTGAATCAGCACATCGGCATCTCAACCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA---C-ATTATCTTCAAGA
* * * *
67183 CCAGTGTCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CATTATCTTCAAGA
* * * *
67232 CTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTT-AAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACATT-AT-CTTCAAGA
* * * * * *
67281 CCGATATCGTTGGCCTTGAATCAACATATTGGCATCTTTAACATTCCTAAG-
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CATTATC-TT-C-AAGA
* ** * * *
67332 CCTAATATCGCTGGCCTTGTCTCAGCACATTGG--CATTCTTCTTCAAGT
1 CC-AATGTCGCTGGCCTTGAATCAGCATATTGGCACATT-ATCTTCAAGA
* * *
67380 CTAATGTCGCTGGCCATGAATCAGCACATTG
1 CCAATGTCGCTGGCCTTGAATCAGCATATTG
67411 TCATTCTTCG
Statistics
Matches: 529, Mismatches: 92, Indels: 115
0.72 0.12 0.16
Matches are distributed among these distances:
31 1 0.00
33 1 0.00
34 2 0.00
36 1 0.00
38 1 0.00
39 103 0.19
41 1 0.00
42 1 0.00
43 3 0.01
44 5 0.01
45 1 0.00
46 4 0.01
47 35 0.07
48 150 0.28
49 147 0.28
50 8 0.02
51 2 0.00
52 62 0.12
53 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGA
Found at i:66774 original size:39 final size:39
Alignment explanation
Indices: 66728--67116 Score: 188
Period size: 39 Copynumber: 9.0 Consensus size: 39
66718 ACATTGTCTT
* * *
66728 CAAGCCCAATGTCGCTGACCTTGAATCAGCACATTGGCA
1 CAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
* * ** *
66767 CAAGCCCAATATCGCTGGCCTTGAATCAAAACATTGGCATCTTCA
1 CAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGG------CA
* *
66812 TCTTTAAGACCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTA
1 -C---AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGG---C--A
66860 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
1 -C---AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGG---C--A
* *
66908 TCTTTAAGACCAATGTCGCTGGCCTTGACTCAACACT-TTGGCA
1 -C---AAGACCAATGTCGCTGGCCTTGAATCAGCA-TATTGGCA
* *
66951 CAAG-CCAAGTATCACTGGCCTTGAATCAGCATATTGGCA
1 CAAGACCAA-TGTCGCTGGCCTTGAATCAGCATATTGGCA
*
66990 CCTTGTCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCATATTGGCA
1 ------C---AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
* * * * *
67038 CAAGCCCAATGTCGCTGACCTTGAATTAGCACATTAGCA
1 CAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
** * * *
67077 TGAGCCCAATATCGCTGACCTTGAATCAGCATATTGGCA
1 CAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
67116 C
1 C
67117 CTTCATCTCG
Statistics
Matches: 290, Mismatches: 35, Indels: 50
0.77 0.09 0.13
Matches are distributed among these distances:
38 5 0.02
39 125 0.43
42 2 0.01
43 1 0.00
45 4 0.01
46 3 0.01
48 114 0.39
49 36 0.12
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (39 bp):
CAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
Found at i:66852 original size:49 final size:49
Alignment explanation
Indices: 66772--67410 Score: 418
Period size: 49 Copynumber: 13.6 Consensus size: 49
66762 TGGCACAAGC
* ** * *
66772 CCAATATCGCTGGCCTTGAATCAAAACATTGGCATCTTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* *
66821 CCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
66869 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* *
66917 CCAATGTCGCTGGCCTTGACTCAACACT-TTGG------CA-C---AAG-
1 CCAATGTCGCTGGCCTTGAATCAGCA-TATTGGCACCTTCATCTTTAAGA
* * *
66955 CCAAGTATCACTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGA
1 CCAA-TGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* *
67004 CCAATGTCGCTAGCCTTGAATCAGCATATTGG------CA-C---AAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * * * * *
67043 CCAATGTCGCTGACCTTGAAT-----TA---GCACATT-AGC-ATGAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * **
67082 CCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTCATCTCGAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * * * ** *
67131 CCGATGTCGTTGGCCTTGAATCAGCACATCGGCATCTCAACCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-C-C-TTCATCTTTAAGA
* * * * *
67183 CCAGTGTCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * * *
67232 CTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * * * * * *
67281 CCGATATCGTTGGCCTTGAATCAACATATTGGCATCTTTAACATTCCTAAG-
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TT--TAAGA
* ** * * * *
67332 CCTAATATCGCTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGT
1 CC-AATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * *
67380 CTAATGTCGCTGGCCATGAATCAGCACATTG
1 CCAATGTCGCTGGCCTTGAATCAGCATATTG
67411 TCATTCTTCG
Statistics
Matches: 465, Mismatches: 82, Indels: 88
0.73 0.13 0.14
Matches are distributed among these distances:
31 1 0.00
34 2 0.00
36 1 0.00
37 1 0.00
38 5 0.01
39 70 0.15
42 2 0.00
43 1 0.00
44 2 0.00
45 1 0.00
47 34 0.07
48 115 0.25
49 154 0.33
50 6 0.01
51 4 0.01
52 66 0.14
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
Found at i:66989 original size:184 final size:183
Alignment explanation
Indices: 66677--67038 Score: 528
Period size: 184 Copynumber: 2.0 Consensus size: 183
66667 TCTGTGGCAC
* * *
66677 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTTCAAGCCCAATGTCG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGACCAATGTCG
* * *
66742 CTGACCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAAAACATTGGCAT
66 CTGACCTTGAATCAACACATTGGCACAAGCCCAATATCACTGGCCTTGAATCAAAACATTGGCAC
* *
66807 CTTCATCTTTAAGACCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTAT
131 CTT-ATCTTTAAGACCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTAT
* * *
66861 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGACCAATGTCG
* * * ** *
66926 CTGGCCTTGACTCAACACTTTGGCACAAG-CCAAGTATCACTGGCCTTGAATCAGCATATTGGCA
66 CTGACCTTGAATCAACACATTGGCACAAGCCCAA-TATCACTGGCCTTGAATCAAAACATTGGCA
* *
66990 CCTTGTCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCATATTGGCAC
130 CCTTATCTTTAAGACCAATATCGCTAGCCTTGAATCAGCATATTGGCAC
67039 AAGCCCAATG
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
183 45 0.28
184 113 0.72
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (183 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTCAAGACCAATGTCG
CTGACCTTGAATCAACACATTGGCACAAGCCCAATATCACTGGCCTTGAATCAAAACATTGGCAC
CTTATCTTTAAGACCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTAT
Found at i:67060 original size:87 final size:86
Alignment explanation
Indices: 66869--67068 Score: 294
Period size: 87 Copynumber: 2.3 Consensus size: 86
66859 ATCTTTAAGA
*
66869 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTT
*
66934 GACTCAACACTTTGGCACAAG
66 GAATCAACACTTTGGCACAAG
* * *
66955 CCAAGTATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTAGCCT
1 CCAA-TGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCT
*
67020 TGAATCAGCA-TATTGGCACAAG
65 TGAATCAACACT-TTGGCACAAG
* *
67042 CCCAATGTCGCTGACCTTGAATTAGCA
1 -CCAATGTCGCTGGCCTTGAATCAGCA
67069 CATTAGCATG
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
86 5 0.05
87 92 0.91
88 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (86 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTT
GAATCAACACTTTGGCACAAG
Found at i:67364 original size:150 final size:148
Alignment explanation
Indices: 67088--67410 Score: 395
Period size: 150 Copynumber: 2.2 Consensus size: 148
67078 GAGCCCAATA
* * *
67088 TCGCTGACCTTGAATCAGCATATTGGCACCTTCATCTCGAAGACCGATGTCGTTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTCGAAGACCGATATCGTTGGCCTTGAATC
* * * * *
67153 AGCACATCGGCATCTCAACCATCTTTAAGTCCAGTGTCACTGGCCTTGAATCAGCATATTGGCAC
66 AACACATCGGCATCTCAACCATCTCTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCA-
67218 CTT-TATCTTCAAGTCTAATG
130 -TTCT-TCTTCAAGTCTAATG
* *
67238 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-CTTAAGTCCGATATCGTTGGCCTTGAAT
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTC-GAAGACCGATATCGTTGGCCTTGAAT
* * * * **
67302 CAACATATTGGCATCTTTAA-CAT-TCCTAAG-CCTAATATCGCTGGCCTTGTCTCAGCACATTG
65 CAACACATCGGCATC-TCAACCATCT-CTAAGTCC-AATATCACTGGCCTTGAATCAGCACATTG
67364 GCATTCTTCTTCAAGTCTAATG
127 GCATTCTTCTTCAAGTCTAATG
*
67386 TCGCTGGCCATGAATCAGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
67411 TCATTCTTCG
Statistics
Matches: 151, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
148 41 0.27
149 5 0.03
150 102 0.68
151 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (148 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTCGAAGACCGATATCGTTGGCCTTGAATC
AACACATCGGCATCTCAACCATCTCTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCAT
TCTTCTTCAAGTCTAATG
Found at i:71917 original size:33 final size:33
Alignment explanation
Indices: 71862--71926 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
71852 TACCACTGTT
* *
71862 TGTATCGATACGTGGCATATTGTATTGATACAA
1 TGTATCGATACATGGCATATTGTATCGATACAA
*
71895 TGTATCGATACATGAGGA-ATTGTATCGATACA
1 TGTATCGATACATG-GCATATTGTATCGATACA
71927 TTATCTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGGCATATTGTATCGATACAA
Found at i:73485 original size:16 final size:16
Alignment explanation
Indices: 73464--73499 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
73454 ACTTTTATTT
**
73464 CTTTGCTTGTTTTTAA
1 CTTTGCTTGTACTTAA
73480 CTTTGCTTGTACTTAA
1 CTTTGCTTGTACTTAA
73496 CTTT
1 CTTT
73500 TCTTAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.58
Consensus pattern (16 bp):
CTTTGCTTGTACTTAA
Found at i:73755 original size:21 final size:21
Alignment explanation
Indices: 73715--73753 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
73705 TTTCTGAAAA
73715 AAAAAGGAGAAATTATTTTAT
1 AAAAAGGAGAAATTATTTTAT
73736 AAAAA-GAGAAATTATTTT
1 AAAAAGGAGAAATTATTTT
73754 TAAGAAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (21 bp):
AAAAAGGAGAAATTATTTTAT
Found at i:73831 original size:21 final size:22
Alignment explanation
Indices: 73789--73833 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
73779 GAGCATTATT
*
73789 TTTTTTATTAAGGGGGAAAATTA
1 TTTTTAATTAAGGGGG-AAATTA
*
73812 TTTTTAATTAATGGGG-AATTA
1 TTTTTAATTAAGGGGGAAATTA
73833 T
1 T
73834 AAATTAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (22 bp):
TTTTTAATTAAGGGGGAAATTA
Found at i:74583 original size:20 final size:20
Alignment explanation
Indices: 74540--74594 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
74530 ACCACTGTTT
* * **
74540 GTATCGATACATGGTACATT
1 GTATCGATACATTGTAAAAA
74560 GTATCGATACATTGTAAAAA
1 GTATCGATACATTGTAAAAA
*
74580 GTATCGATACTTTGT
1 GTATCGATACATTGT
74595 GTCTAACGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
GTATCGATACATTGTAAAAA
Found at i:78440 original size:52 final size:52
Alignment explanation
Indices: 78359--78479 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
78349 TGAAAAGTTA
*
78359 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
78411 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
78463 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
78480 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:78492 original size:52 final size:51
Alignment explanation
Indices: 78359--78499 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
78349 TGAAAAGTTA
78359 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
78411 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
78463 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
78500 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:78506 original size:13 final size:13
Alignment explanation
Indices: 78488--78512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78478 CAAAGATCAG
78488 TGTATCGATACAA
1 TGTATCGATACAA
78501 TGTATCGATACA
1 TGTATCGATACA
78513 TGTGAATAAT
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:78594 original size:33 final size:33
Alignment explanation
Indices: 78552--78621 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
78542 GGCAGTAGCT
78552 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
78585 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
78618 TACA
1 TACA
78622 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:78595 original size:13 final size:13
Alignment explanation
Indices: 78577--78601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78567 CAAAAAAATA
78577 TGTATCGATACAT
1 TGTATCGATACAT
78590 TGTATCGATACA
1 TGTATCGATACA
78602 ACATTTTATG
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:79718 original size:33 final size:30
Alignment explanation
Indices: 79652--79728 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 30
79642 AAGTTTCATA
*
79652 TTATATTTAATAATACATAAAATAATATTAT
1 TTAT-TTTAATAATACATAAAATAATATAAT
* *
79683 TTATTTTAATAATATATAGTAAATTAGTATAAT
1 TTATTTTAATAATACATA--AAA-TAATATAAT
79716 TTATTTTTAATAA
1 TTA-TTTTAATAA
79729 AATTATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 13 0.33
31 4 0.10
32 3 0.08
33 10 0.26
34 9 0.23
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (30 bp):
TTATTTTAATAATACATAAAATAATATAAT
Found at i:79739 original size:18 final size:19
Alignment explanation
Indices: 79716--79759 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
79706 TTAGTATAAT
79716 TTATTTTTA-ATAAAATTA
1 TTATTTTTATATAAAATTA
*
79734 TTA-TTTAATATAAAATTA
1 TTATTTTTATATAAAATTA
79752 TTATTTTT
1 TTATTTTT
79760 TAGTAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 15 0.68
19 3 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATTTTTATATAAAATTA
Found at i:80060 original size:16 final size:16
Alignment explanation
Indices: 80041--80078 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
80031 AAGGATTTAA
80041 TATTAATATAATATT-T
1 TATTAATA-AATATTAT
*
80057 TATTATTAAATATTAT
1 TATTAATAAATATTAT
80073 TATTAA
1 TATTAA
80079 AATATTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTAATAAATATTAT
Found at i:80074 original size:13 final size:14
Alignment explanation
Indices: 80056--80084 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
80046 ATATAATATT
80056 TTATTATT-AAATA
1 TTATTATTAAAATA
80069 TTATTATTAAAATA
1 TTATTATTAAAATA
80083 TT
1 TT
80085 TGTAATGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTATTATTAAAATA
Found at i:80362 original size:14 final size:14
Alignment explanation
Indices: 80303--80364 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
80293 ATATAATATT
80303 TTAATATT-AAATA
1 TTAATATTAAAATA
*
80316 TTATTATTGAAAA-A
1 TTAATATT-AAAATA
*
80330 TTAGTATTTAAAAT-
1 TTAATA-TTAAAATA
*
80344 CTAATATTAAAATA
1 TTAATATTAAAATA
80358 TTAATAT
1 TTAATAT
80365 CTTAATAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 14 0.36
14 20 0.51
15 5 0.13
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (14 bp):
TTAATATTAAAATA
Found at i:80675 original size:20 final size:20
Alignment explanation
Indices: 80650--80775 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
80640 TTTTCACAAT
80650 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
**
80670 TTGTATCGATACATTACTCA
1 TTGTATCGATACATTGTTCA
* *
80690 TTATATCAATACATTCTGGGTTTACCCA
1 TTGTATCGATACA-T-T--G-TT---CA
*
80718 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
80739 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
80759 TTGTATCCATACATTGT
1 TTGTATCGATACATTGT
80776 ATCGATACAT
Statistics
Matches: 82, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
20 60 0.73
21 4 0.05
22 1 0.01
23 2 0.02
25 1 0.01
27 1 0.01
28 3 0.04
29 10 0.12
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:80773 original size:13 final size:13
Alignment explanation
Indices: 80757--80786 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
80747 ATACATTGCT
80757 CATTGTATCCATA
1 CATTGTATCCATA
*
80770 CATTGTATCGATA
1 CATTGTATCCATA
80783 CATT
1 CATT
80787 CAGGCATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTGTATCCATA
Found at i:82041 original size:19 final size:19
Alignment explanation
Indices: 82017--82101 Score: 65
Period size: 20 Copynumber: 4.7 Consensus size: 19
82007 ACAATTTGGC
82017 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
82036 CATGTATCAATAC-----A
1 CATGTATCGATACAATGAA
* *
82050 -ATGTATCGATACAAAGCAG
1 CATGTATCGATACAATG-AA
* *
82069 CATGTATCGATACAATTAC
1 CATGTATCGATACAATGAA
82088 CTATGTATCGATAC
1 C-ATGTATCGATAC
82102 TTTGAGTATG
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
13 11 0.21
14 1 0.02
19 14 0.27
20 26 0.50
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:82082 original size:33 final size:32
Alignment explanation
Indices: 82018--82084 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
82008 CAATTTGGCC
*
82018 ATGTATCGATACAATGAACATGTATCAATACA
1 ATGTATCGATACAAAGAACATGTATCAATACA
* *
82050 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCAATACA
82083 AT
1 AT
82085 TACCTATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCAATACA
Found at i:82578 original size:18 final size:18
Alignment explanation
Indices: 82555--82608 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
82545 TATTCTCCCC
82555 CTTAAACGATTATCTTCT
1 CTTAAACGATTATCTTCT
** * **
82573 CTTAAAAAATTCTCCCCT
1 CTTAAACGATTATCTTCT
82591 -TTAAACGATTATCTTCT
1 CTTAAACGATTATCTTCT
82608 C
1 C
82609 CCCTTTTTAT
Statistics
Matches: 25, Mismatches: 10, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.41
Consensus pattern (18 bp):
CTTAAACGATTATCTTCT
Found at i:82595 original size:35 final size:36
Alignment explanation
Indices: 82540--82608 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
82530 TCTCCCCTTA
82540 AAAAATATTCTCCCCCTTAAACGATTATCTTCTCTT
1 AAAAATATTCTCCCCCTTAAACGATTATCTTCTCTT
*
82576 AAAAA-ATTCTCCCCTTTAAACGATTATCTTCTC
1 AAAAATATTCTCCCCCTTAAACGATTATCTTCTC
82609 CCCTTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 27 0.84
36 5 0.16
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.38
Consensus pattern (36 bp):
AAAAATATTCTCCCCCTTAAACGATTATCTTCTCTT
Found at i:82623 original size:18 final size:19
Alignment explanation
Indices: 82600--82638 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
82590 TTTAAACGAT
82600 TATCTTCTC-CCCTTTTTA
1 TATCTTCTCTCCCTTTTTA
82618 TATCTTCTCTCCCTTTTTA
1 TATCTTCTCTCCCTTTTTA
82637 TA
1 TA
82639 AAAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.13, C:0.31, G:0.00, T:0.56
Consensus pattern (19 bp):
TATCTTCTCTCCCTTTTTA
Found at i:84498 original size:13 final size:13
Alignment explanation
Indices: 84480--84510 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
84470 AATAGTACCC
84480 ATACAATGTATCG
1 ATACAATGTATCG
84493 ATACAATGTATCG
1 ATACAATGTATCG
84506 ATACA
1 ATACA
84511 TGTCGCTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (13 bp):
ATACAATGTATCG
Found at i:90450 original size:13 final size:13
Alignment explanation
Indices: 90432--90462 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
90422 ACATTTCTTC
90432 ATGTATCGATACA
1 ATGTATCGATACA
90445 ATGTATCGATACA
1 ATGTATCGATACA
*
90458 TTGTA
1 ATGTA
90463 CCATGTATCG
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:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:90450 original size:33 final size:33
Alignment explanation
Indices: 90412--90478 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
90402 GTTACAAGCT
90412 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
90445 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
90478 A
1 A
90479 ATAGTAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:92826 original size:51 final size:51
Alignment explanation
Indices: 92790--92915 Score: 173
Period size: 51 Copynumber: 2.5 Consensus size: 51
92780 TCCCGGCTTC
*
92790 ATTTTCAAAACATCAATTTTTCTTAATCGAGGATACTCCAACTCCGATTTT
1 ATTTTCAAAACATCAATTTTTCATAATCGAGGATACTCCAACTCCGATTTT
* * * * *
92841 A-TTTCTAAAACACCCATTTTCCATAATCGGGGATACTCTAACTCCGATTTT
1 ATTTTC-AAAACATCAATTTTTCATAATCGAGGATACTCCAACTCCGATTTT
*
92892 ATTTCCAAAACATCAATTTTTCAT
1 ATTTTCAAAACATCAATTTTTCAT
92916 CGGGGATGCT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
50 4 0.06
51 56 0.89
52 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (51 bp):
ATTTTCAAAACATCAATTTTTCATAATCGAGGATACTCCAACTCCGATTTT
Found at i:93017 original size:79 final size:79
Alignment explanation
Indices: 92869--93199 Score: 411
Period size: 79 Copynumber: 4.2 Consensus size: 79
92859 TTCCATAATC
* * * * *
92869 GGGGATACTCTAA-CTCCGATTTTATTTCCAAAACATCAATTT-T--TCATCGGGGATGCTCCAA
1 GGGGATACTCCAACCCCCG-TTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAA
92930 CCCCGTTATTTTCGA
65 CCCCGTTATTTTCGA
* * *
92945 GGGGATACCCCAACCCCCGCTTTATTTCTAAAATATCAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCCGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
93010 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * ***
93024 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATCCAAGATACTCCAAC
1 GGGGATACTCCAACCCCCGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
93089 CCCGTTA-TTTCTGA
66 CCCGTTATTTTC-GA
* * * *
93103 GGGGATACTCCAACCCCTGTTTTATTTCTGAAACATCAATTTTTCATAATATTGGGGATACTCCA
1 GGGGATACTCCAACCCCCGTTTTATTTCTAAAACATCAATTTCTCAT-A-ATCGGGGATACTCCA
*
93168 ACCCCGTTATTTTTGA
64 ACCCCGTTATTTTCGA
*
93184 GGAGATACTCCAACCC
1 GGGGATACTCCAACCC
93200 TGTTATTATC
Statistics
Matches: 221, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
76 31 0.14
77 5 0.02
78 4 0.02
79 140 0.63
80 1 0.00
81 37 0.17
82 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCCGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:94260 original size:17 final size:17
Alignment explanation
Indices: 94207--94262 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
94197 TTGTTATTTG
**
94207 AAAAAA-ATTATTTTTT
1 AAAAAATATTATTAATT
*
94223 AAAATAATATTAAATAA-T
1 AAAA-AATATT-ATTAATT
94241 AAAAAATATTATTAATT
1 AAAAAATATTATTAATT
94258 AAAAA
1 AAAAA
94263 TCTGAATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
16 8 0.25
17 14 0.44
18 8 0.25
19 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAAAATATTATTAATT
Found at i:96118 original size:2 final size:2
Alignment explanation
Indices: 96111--96138 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
96101 TTTTTATAGA
96111 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
96139 GTGTCACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:96153 original size:2 final size:2
Alignment explanation
Indices: 96143--96172 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
96133 CTCTCTGTGT
*
96143 CA CA GA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
96173 TATGGAGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:96694 original size:18 final size:18
Alignment explanation
Indices: 96671--96712 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
96661 ACTGTCATTG
96671 TTTAGAATTTGAATTTGT
1 TTTAGAATTTGAATTTGT
96689 TTTAGAATTTGAATTTGT
1 TTTAGAATTTGAATTTGT
96707 TTTAGA
1 TTTAGA
96713 TTTTAAGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.55
Consensus pattern (18 bp):
TTTAGAATTTGAATTTGT
Found at i:100830 original size:71 final size:71
Alignment explanation
Indices: 100714--100856 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
100704 ATTAGGGCTT
100714 TGGTAATTTAATGTAGCTTAGCATCTCTTATTTGCTAAAGTCCTAGTGAATGAGGGAGAAGTCTC
1 TGGTAATTTAATGTAGCTTAGCATCTCTTATTTGCTAAAGTCCTAGTGAATGAGGGAGAAGTCTC
100779 GGGAGC
66 GGGAGC
100785 TGGTAATTTAATGTAGCTTAGCATCTCTTATTTGCTAAAGTCCTAGTGAATGAGGGAGAAGTCTC
1 TGGTAATTTAATGTAGCTTAGCATCTCTTATTTGCTAAAGTCCTAGTGAATGAGGGAGAAGTCTC
100850 GGGAGC
66 GGGAGC
100856 T
1 T
100857 CCATATAAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (71 bp):
TGGTAATTTAATGTAGCTTAGCATCTCTTATTTGCTAAAGTCCTAGTGAATGAGGGAGAAGTCTC
GGGAGC
Found at i:103562 original size:3 final size:3
Alignment explanation
Indices: 103554--103591 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
103544 CAGTCATAAT
103554 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
103592 GCTTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:104144 original size:49 final size:49
Alignment explanation
Indices: 104072--104171 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
104062 CTTAATGTTG
104072 GTTATGGTTGCTGCATATCGGTGAACTAGGGGACAGGGATTAGTAGCCA
1 GTTATGGTTGCTGCATATCGGTGAACTAGGGGACAGGGATTAGTAGCCA
*
104121 GTTATGGTTGCTGCATATCGGTGAACTAGGGGACGGGGATTAGTAGCCA
1 GTTATGGTTGCTGCATATCGGTGAACTAGGGGACAGGGATTAGTAGCCA
104170 GT
1 GT
104172 CAGACAGCAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.27
Consensus pattern (49 bp):
GTTATGGTTGCTGCATATCGGTGAACTAGGGGACAGGGATTAGTAGCCA
Found at i:109839 original size:38 final size:35
Alignment explanation
Indices: 109766--109844 Score: 88
Period size: 38 Copynumber: 2.2 Consensus size: 35
109756 TATTTACATC
* *
109766 AAATAATTAATATAAATAAATTATATTGTTGTTAA
1 AAATAATTAAAATAAATAAATTATATTGTTATTAA
*
109801 ATAATAATTAAAATTCAATACAATTATATT-TATATTAA
1 A-AATAATTAAAA-TAAATA-AATTATATTGT-TATTAA
109839 AAATAA
1 AAATAA
109845 ATTATATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
35 1 0.03
36 10 0.27
37 11 0.30
38 15 0.41
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (35 bp):
AAATAATTAAAATAAATAAATTATATTGTTATTAA
Done.