Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold511
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: 1668812
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 8 of 12
Found at i:1071799 original size:61 final size:61
Alignment explanation
Indices: 1071604--1072262 Score: 369
Period size: 61 Copynumber: 11.3 Consensus size: 61
1071594 TGCAACACTA
* * * * * ** * *
1071604 GACTTAAAGATGATAAGGATGAAAAAAGTGCCAATATGCTGATTCAAAGTTAGCGACATAG
1 GACTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * * * * *
1071665 GACTTAAAGATGTGAAGAATGATAAAGGTGCCAATATGTTGATTCACGACCAGTGATATCG
1 GACTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* *
1071726 GGCTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * * * * * *
1071787 GGCTTAAAGATGA-CA-AA-GCT-----T-CCAATATGCTGATTCAAGACCGATGAGAAAAAT-
1 GACTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCC-A-GCG-ATATTG
* * * * * * *
1071841 GA--TAAAGGTGCCGATATG-TTGATTCAAGGCCGCCGATATGTTGATTCAAGGCCAGCGATATT
1 GACTTAAAGATG-AGA-A-GAATGA-TAAAGG-TGCCAATATGCTGATTCAAGGCCAGCGATA-T
1071903 TG
60 TG
* * * * * *
1071905 G-C-T-----T-A-AAG-ATGATAAGGGTGCCAATGTGTTGATTCAAGGTCAGCAACATT-
1 GACTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* *
1071955 GACTTAAAGAT-ACGAAGAATGATAAAAGTGCCGATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGA-GAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * * * * *
1072016 GGCTTAAAGAT--G-ACAA-G---CA--TGCCAATGTGCTGATTCAAGGCCAACGACATTG
1 GACTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * * **
1072068 GACTTGAAGATGAGAAGAATGATAAAGGTGTCGATATGCTGATTCAAGGCCAATGATATTG
1 GACTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * * ** * *
1072129 GAC-T-----T-A-AAG-ATGACAAAGGTGCCAATGTGCCGATTCAAGGCCAGTAACATTA
1 GACTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * * *
1072181 CACTTGAAGATAAGAAGAATGATAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
*
1072242 GACTTAAAGATGCGAAGAATG
1 GACTTAAAGATGAGAAGAATG
1072263 CCAATGTGTT
Statistics
Matches: 451, Mismatches: 98, Indels: 98
0.70 0.15 0.15
Matches are distributed among these distances:
50 1 0.00
51 3 0.01
52 126 0.28
53 10 0.02
54 10 0.02
55 9 0.02
56 2 0.00
57 4 0.01
58 7 0.02
59 9 0.02
60 39 0.09
61 205 0.45
62 2 0.00
63 3 0.01
64 3 0.01
65 18 0.04
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (61 bp):
GACTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
Found at i:1071876 original size:22 final size:23
Alignment explanation
Indices: 1071850--1071901 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
1071840 TGATAAAGGT
1071850 GCCGATATGTTGATTCAAGGCC-
1 GCCGATATGTTGATTCAAGGCCA
1071872 GCCGATATGTTGATTCAAGGCCA
1 GCCGATATGTTGATTCAAGGCCA
1071895 G-CGATAT
1 GCCGATAT
1071902 TTGGCTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (23 bp):
GCCGATATGTTGATTCAAGGCCA
Found at i:1072078 original size:52 final size:51
Alignment explanation
Indices: 1071991--1072491 Score: 311
Period size: 52 Copynumber: 9.3 Consensus size: 51
1071981 AGTGCCGATA
* *
1071991 TGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGACAAGCATGCCAATG
1 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGACAAG-ATGCCAATG
* * * **
1072043 TGCTGATTCAAGGCCAACGACATTGGACTTGAAGATGAGAAGAATGATAAAGGTGTCG
1 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGACAAG-ATG-CCAA----T-G
* *
1072101 ATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGACAAAGGTGCCAATG
1 ---TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAC-AAGATGCCAATG
* * * * * *
1072156 TGCCGATTCAAGGCCAGTAAC-ATTACACTTGAAGA-TAAGAAGAATGATAAAGGTGCCGATA
1 TGCTGATTCAAGGCC---AACGA-T--A-TTG--GACTTA-AAG-ATGA-CAAGATGCCAATG
*
1072217 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG-CGAAGAATGCCAATG
1 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAC-AAG-ATGCCAATG
* ** * *
1072269 TG-TTATTTCATA-GCCAGTGATATTAGACTTAAAGATGAGAAGAATG-CAATG
1 TGCTGA-TTCA-AGGCCAACGATATTGGACTTAAAGATGACAAG-ATGCCAATG
* * * *
1072320 TGTTGATTCAAGGCCAACAACATTAGG-CTTAGGAATGAT-A-AAGATGCCAATA
1 TGCTGATTCAAGGCCAACGATATT-GGACTTA--AA-GATGACAAGATGCCAATG
** * *
1072372 TGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGACAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAC-AAGATGCCAATG
* * * * *
1072424 TGCTGATTCAAGGCCAACAATATTGGACTT-AAGAAAGAAAAGGTACCAATG
1 TGCTGATTCAAGGCCAACGATATTGGACTTAAAG-ATGACAAGATGCCAATG
1072475 TGCTGATTCAAGGCCAA
1 TGCTGATTCAAGGCCAA
1072492 TGACATTCTG
Statistics
Matches: 356, Mismatches: 52, Indels: 83
0.73 0.11 0.17
Matches are distributed among these distances:
49 3 0.01
50 4 0.01
51 62 0.17
52 174 0.49
53 11 0.03
54 6 0.02
55 7 0.02
56 2 0.01
57 2 0.01
58 7 0.02
59 3 0.01
60 7 0.02
61 65 0.18
62 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (51 bp):
TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGACAAGATGCCAATG
Found at i:1072126 original size:113 final size:113
Alignment explanation
Indices: 1071732--1072314 Score: 603
Period size: 113 Copynumber: 5.1 Consensus size: 113
1071722 ATCGGGCTTG
*
1071732 AAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGA
1 AAGATGAGAAGAATGATAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGA
* * * * * *
1071797 TGACAAAGC-TTCCAATATGCTGATTCAAGACCGATGAGAAAAATGA--TA
66 TGACAAAGCATGCCAATGTGCTGATTCAAGGCC-A-GCG-ACATTGACTTA
* * * * * * *
1071845 AAGGTGCCGATATG-TTGATTCAAGGCCGCCGATATGTTGATTCAAGGCCAGCGATATTTGGCTT
1 AAGATG-AGA-A-GAATGA-TAAAGG-TGCCGATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* ** * * *
1071909 AAAGATGA-TAAGGGTGCCAATGTGTTGATTCAAGGTCAGCAACATTGACTTA
61 AAAGATGACAAAGCATGCCAATGTGCTGATTCAAGGCCAGCGACATTGACTTA
*
1071961 AAGAT-ACGAAGAATGATAAAAGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAG
1 AAGATGA-GAAGAATGATAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAG
* *
1072025 ATGAC-AAGCATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTG
65 ATGACAAAGCATGCCAATGTGCTGATTCAAGGCCAGCGACATT-GACTTA
* ** *
1072074 AAGATGAGAAGAATGATAAAGGTGTCGATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGA
1 AAGATGAGAAGAATGATAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGA
* * ** * *
1072139 TGACAAAG-GTGCCAATGTGCCGATTCAAGGCCAGTAACATTACACTTG
66 TGACAAAGCATGCCAATGTGCTGATTCAAGGCCAGCGACATT-GACTTA
* *
1072187 AAGATAAGAAGAATGATAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
1 AAGATGAGAAGAATGATAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGA
* * * * *
1072252 TG-CGAAGAATGCCAATGTG-TTATTTCATA-GCCAGTGATATTAGACTTA
66 TGACAAAGCATGCCAATGTGCTGA-TTCA-AGGCCAGCGACATT-GACTTA
1072300 AAGATGAGAAGAATG
1 AAGATGAGAAGAATG
1072315 CAATGTGTTG
Statistics
Matches: 394, Mismatches: 59, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
112 79 0.20
113 216 0.55
114 16 0.04
115 7 0.02
116 16 0.04
117 60 0.15
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (113 bp):
AAGATGAGAAGAATGATAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGA
TGACAAAGCATGCCAATGTGCTGATTCAAGGCCAGCGACATTGACTTA
Found at i:1072409 original size:103 final size:103
Alignment explanation
Indices: 1072287--1072491 Score: 263
Period size: 103 Copynumber: 2.0 Consensus size: 103
1072277 CATAGCCAGT
* * * *
1072287 GATATTAGACTTAAAGATGA-GAAGAATG-CAATGTGTTGATTCAAGGCCAACAACATTAGG-CT
1 GATATCAGACTTAAAGATGACAAAG-ATGCCAATATGCTGATTCAAGGCCAACAACATT-GGACT
* * *
1072349 TAGGAATGATAAAGATGCCAATATGCTGATTCAAGGCCAAC
64 TAAGAAAGA-AAAGATACCAATATGCTGATTCAAGGCCAAC
* *
1072390 GATATCAGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTA
1 GATATCAGACTTAAAGATGACAAAGATGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTA
* *
1072455 AGAAAGAAAAGGTACCAATGTGCTGATTCAAGGCCAA
66 AGAAAGAAAAGATACCAATATGCTGATTCAAGGCCAA
1072492 TGACATTCTG
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
103 50 0.57
104 38 0.43
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.23
Consensus pattern (103 bp):
GATATCAGACTTAAAGATGACAAAGATGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTA
AGAAAGAAAAGATACCAATATGCTGATTCAAGGCCAAC
Found at i:1072474 original size:155 final size:159
Alignment explanation
Indices: 1072086--1072491 Score: 400
Period size: 155 Copynumber: 2.5 Consensus size: 159
1072076 GATGAGAAGA
* * * *
1072086 ATGATAAAGGTGTCGATATGCTGATTCAAGGCCAATGATATTGGACTTAA-AGATGACAAAGGTG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAGAGAAGA-AAAGGT-
* * *
1072150 CCAATGTGCCGATTCAAGGCCAGTAACATTACACTTGAAGATAAGAAGAATGATAAAGGTGCCGA
64 CCAATGTGCTGATTCAAGGCC---AACA-TACACTTGAAGATAAG-AGAATGATAAAGATGCCAA
* **
1072215 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
124 TATGCTGATTCAAGGCCAACGATATCAGACTTAAAG
* * * * * * * *
1072251 ATG-CGAAGAATGCCAATGTG-TTATTTCATA-GCCAGTGATATTAGACTTAA-AGATGAGAAGA
1 ATGACAAAG-GTGCCAATATGCTGA-TTCA-AGGCCAATGATATTGGACTTAAGAGAAGAAAAG-
* * * * * *
1072312 ATGCAATGTGTTGATTCAAGGCCAACA-ACA-TT-AGGCTTAG-GAATGATAAAGATGCCAATAT
62 GTCCAATGTGCTGATTCAAGGCCAACATACACTTGAAGATAAGAGAATGATAAAGATGCCAATAT
1072373 GCTGATTCAAGGCCAACGATATCAGACTTAAAG
127 GCTGATTCAAGGCCAACGATATCAGACTTAAAG
**
1072406 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAGA-AAGAAAAGGTAC
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAGAGAAGAAAAGGT-C
1072470 CAATGTGCTGATTCAAGGCCAA
65 CAATGTGCTGATTCAAGGCCAA
1072492 TGACATTCTG
Statistics
Matches: 197, Mismatches: 35, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
154 2 0.01
155 108 0.55
156 7 0.04
157 5 0.03
158 2 0.01
159 3 0.02
161 4 0.02
164 26 0.13
165 39 0.20
166 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (159 bp):
ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAGAGAAGAAAAGGTCC
AATGTGCTGATTCAAGGCCAACATACACTTGAAGATAAGAGAATGATAAAGATGCCAATATGCTG
ATTCAAGGCCAACGATATCAGACTTAAAG
Found at i:1072583 original size:31 final size:31
Alignment explanation
Indices: 1072514--1072933 Score: 371
Period size: 31 Copynumber: 13.2 Consensus size: 31
1072504 TAGAAATAGA
* *
1072514 TGCCACCGACTTGTGTGGGCTTTTGAGAGGGT
1 TGCCACTGACTTGTGTGGGCTTTAGA-AGGGT
*
1072546 TTCCACTGA-TCTGTGTGGGCTTTAGAAGGGT
1 TGCCACTGACT-TGTGTGGGCTTTAGAAGGGT
* *
1072577 TGCCACTGACTTATGTGGGCTTTAGAAGGGC
1 TGCCACTGACTTGTGTGGGCTTTAGAAGGGT
* * *
1072608 TGCCACTAAATTGTGCGGGCTTTAGAAGGGT
1 TGCCACTGACTTGTGTGGGCTTTAGAAGGGT
* * *
1072639 TGCCACTGACTTGTATGGGTTTTAGAAAGGT
1 TGCCACTGACTTGTGTGGGCTTTAGAAGGGT
* * *
1072670 TGCCACCGACTTGTATGGGCTTTTAGAAAGGT
1 TGCCACTGACTTGTGTGGGC-TTTAGAAGGGT
* ** * *
1072702 TTCCACCAACTTGTGTGGACTTTAGAAAAGGT
1 TGCCACTGACTTGTGTGGGCTTTAG-AAGGGT
* *
1072734 TGCCA-TCAACTTGTGTGGGCTTTAGATGGGT
1 TGCCACT-GACTTGTGTGGGCTTTAGAAGGGT
* * * **
1072765 TGCCACCGACTTATGTGTGCTTTAGAGAAAAGT
1 TGCCACTGACTTGTGTGGGCTTT--AGAAGGGT
* *
1072798 TGCC-CTTGACTTATGTGGGCTTTAGGAGAGGT
1 TGCCAC-TGACTTGTGTGGGCTTTAGAAG-GGT
* * *
1072830 TGCCACTAACTTATATGGGCTTTAGAGAAGGGT
1 TGCCACTGACTTGTGTGGGCTTT--AGAAGGGT
*
1072863 TGCCACTGACTTGTGTAGGCTTTTGAGAAGGGT
1 TGCCACTGACTTGTGTGGGC-TTT-AGAAGGGT
* *
1072896 TGCCA-TCGACTTGTGTGGACTTTAGAAAGGGG
1 TGCCACT-GACTTGTGTGGGCTTTAG-AAGGGT
1072928 TGCCAC
1 TGCCAC
1072934 GGAGTTATGG
Statistics
Matches: 321, Mismatches: 50, Indels: 33
0.79 0.12 0.08
Matches are distributed among these distances:
31 133 0.41
32 112 0.35
33 69 0.21
34 7 0.02
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (31 bp):
TGCCACTGACTTGTGTGGGCTTTAGAAGGGT
Found at i:1072727 original size:63 final size:62
Alignment explanation
Indices: 1072514--1072925 Score: 389
Period size: 63 Copynumber: 6.5 Consensus size: 62
1072504 TAGAAATAGA
* * *
1072514 TGCCACCGACTTGTGTGGGCTTTTGAGAGGGTTTCCACTGA-TCTGTGTGGGCTTTAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGA-AAGGTTGCCACTGACT-TGTGTGGGCTTTAGAAGGGT
* * * * * * *
1072577 TGCCACTGACTTATGTGGGCTTTAGAAGGGCTGCCACTAAATTGTGCGGGCTTTAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGGGT
* * * * * *
1072639 TGCCACTGACTTGTATGGGTTTTAGAAAGGTTGCCACCGACTTGTATGGGCTTTTAGAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGTTGCCACTGACTTGTGTGGGC-TTTAGAAGGGT
* * * * *
1072702 TTCCACCAACTTGTGTGGACTTTAGAAAAGGTTGCCA-TCAACTTGTGTGGGCTTTAGATGGGT
1 TGCCACCGACTTGTGTGGGCTTTAG-AAAGGTTGCCACT-GACTTGTGTGGGCTTTAGAAGGGT
* * * * *
1072765 TGCCACCGACTTATGTGTGCTTTAGAGAAAAGTTGCC-CTTGACTTATGTGGGCTTTAGGAGAGG
1 TGCCACCGACTTGTGTGGGCTTT--AGAAAGGTTGCCAC-TGACTTGTGTGGGCTTTAGAAG-GG
1072829 T
62 T
** * * *
1072830 TGCCACTAACTTATATGGGCTTTAGAGAAGGGTTGCCACTGACTTGTGTAGGCTTTTGAGAAGGG
1 TGCCACCGACTTGTGTGGGCTTTAGA-AA-GGTTGCCACTGACTTGTGTGGGC-TTT-AGAAGGG
1072895 T
62 T
* *
1072896 TGCCATCGACTTGTGTGGACTTTAGAAAGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGG
1072926 GGTGCCACGG
Statistics
Matches: 282, Mismatches: 53, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
62 71 0.25
63 83 0.29
64 52 0.18
65 45 0.16
66 27 0.10
67 4 0.01
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (62 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGGGT
Found at i:1072831 original size:65 final size:64
Alignment explanation
Indices: 1072557--1072921 Score: 241
Period size: 64 Copynumber: 5.7 Consensus size: 64
1072547 TCCACTGATC
** * * * * *
1072557 TGTGTGGGCTTTAGA-AGGGTTGCCACTGACTTATGTGGGCTTT--AGAAGGGCTGCCAC-TAAA
1 TGTGTGGGCTTTAGAGA-GGTTGCCACCAACTTATGTGGACTTTAGAGAAAGGTTGCC-CTTGAC
1072618 T
64 T
* ** * * * * *
1072619 TGTGCGGGCTTTAGA-AGGGTTGCCACTGACTTGTATGG-GTTT-TAGAAAGGTTGCCAC-CGAC
1 TGTGTGGGCTTTAGAGA-GGTTGCCACCAACTTATGTGGACTTTAGAGAAAGGTTGCC-CTTGAC
1072680 T
64 T
* * * * * **
1072681 TGTATGGGCTTTTAGAAAGGTTTCCACCAACTTGTGTGGACTTTAGA-AAAGGTTGCCATCAACT
1 TGTGTGGGC-TTTAGAGAGGTTGCCACCAACTTATGTGGACTTTAGAGAAAGGTTGCCCTTGACT
* *
1072745 TGTGTGGGCTTTAGATG-GGTTGCCACCGACTTATGTGTG-CTTTAGAGAAAAGTTGCCCTTGAC
1 TGTGTGGGCTTTAGA-GAGGTTGCCACCAACTTATGTG-GACTTTAGAGAAAGGTTGCCCTTGAC
1072808 T
64 T
* * * * *
1072809 TATGTGGGCTTTAGGAGAGGTTGCCACTAACTTATATGGGCTTTAGAGAAGGGTTGCCAC-TGAC
1 TGTGTGGGCTTTA-GAGAGGTTGCCACCAACTTATGTGGACTTTAGAGAAAGGTTGCC-CTTGAC
1072873 T
64 T
* * * * *
1072874 TGTGTAGGCTTTTGAGAAGGGTTGCCATCGACTTGTGTGGACTTTAGA
1 TGTGTGGGCTTTAGAG-A-GGTTGCCACCAACTTATGTGGACTTTAGA
1072922 AAGGGGTGCC
Statistics
Matches: 245, Mismatches: 43, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
61 3 0.01
62 56 0.23
63 53 0.22
64 57 0.23
65 52 0.21
66 24 0.10
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.32
Consensus pattern (64 bp):
TGTGTGGGCTTTAGAGAGGTTGCCACCAACTTATGTGGACTTTAGAGAAAGGTTGCCCTTGACT
Found at i:1072965 original size:33 final size:33
Alignment explanation
Indices: 1072926--1073046 Score: 154
Period size: 33 Copynumber: 3.7 Consensus size: 33
1072916 TTTAGAAAGG
*
1072926 GGTGCCACGGAGTTATGGACTTAAAAGGAAAAA
1 GGTGCCACAGAGTTATGGACTTAAAAGGAAAAA
* * *
1072959 GGTGCCAC-GAAATTGTGGATTTAAAAGGAAAAA
1 GGTGCCACAG-AGTTATGGACTTAAAAGGAAAAA
* *
1072992 GGTGCCACAGAGTTGTAGACTTAAAAGGAAAAA
1 GGTGCCACAGAGTTATGGACTTAAAAGGAAAAA
* *
1073025 GGTGCCATAGAGTCATGGACTT
1 GGTGCCACAGAGTTATGGACTT
1073047 TGAGAAAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.01
33 74 0.97
34 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (33 bp):
GGTGCCACAGAGTTATGGACTTAAAAGGAAAAA
Found at i:1073174 original size:30 final size:30
Alignment explanation
Indices: 1073034--1073178 Score: 120
Period size: 30 Copynumber: 4.8 Consensus size: 30
1073024 AGGTGCCATA
1073034 GAGTCATGGACTTTGAGAA-AA-GATGCCACT
1 GAGTCATGGAC-TT-AGAAGAAGGATGCCACT
* * *
1073064 -AGGTCATGGACTT-CAAGAATGG-TGCTATT
1 GA-GTCATGGACTTAGAAGAA-GGATGCCACT
* *
1073093 GAGTCATGGACTTAGAAAGAAAAAGTTGCCACT
1 GAGTCATGGACTTAG-AAG--AAGGATGCCACT
* *
1073126 AAGTCATGGACTTTGAAGAAGGATGCCACT
1 GAGTCATGGACTTAGAAGAAGGATGCCACT
*
1073156 GAGTCGTGGACTTAGAAGAAGGA
1 GAGTCATGGACTTAGAAGAAGGA
1073179 AAAAGATTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
27 2 0.02
28 2 0.02
29 19 0.21
30 41 0.45
31 3 0.03
32 4 0.04
33 20 0.22
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.23
Consensus pattern (30 bp):
GAGTCATGGACTTAGAAGAAGGATGCCACT
Found at i:1078067 original size:21 final size:21
Alignment explanation
Indices: 1078042--1078100 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
1078032 TACAAGTCAC
* *
1078042 TGTATTGATACAAATTTGCCA
1 TGTATTGATACAAATTTACAA
* * *
1078063 TGTATCGATAC-AATCTATAA
1 TGTATTGATACAAATTTACAA
1078083 TGTATTGATACAAATTTA
1 TGTATTGATACAAATTTA
1078101 AGCTTGTATC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTGATACAAATTTACAA
Found at i:1079229 original size:16 final size:17
Alignment explanation
Indices: 1079205--1079239 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1079195 ACAAATCTTA
1079205 TATTAAAA-TAAATATT
1 TATTAAAATTAAATATT
*
1079221 TATTCAAATTAAATATT
1 TATTAAAATTAAATATT
1079238 TA
1 TA
1079240 CCCTAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAAATTAAATATT
Found at i:1085417 original size:20 final size:20
Alignment explanation
Indices: 1085355--1085426 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
1085345 AATAATACAA
* *
1085355 ATACATTTAAGCAATATATCG
1 ATACA-TTAGGCAATATATTG
* *
1085376 ATACATTAGCCTAAAATATTG
1 ATACATTAGGC-AATATATTG
*
1085397 ATACATTAGGCAATGTATTG
1 ATACATTAGGCAATATATTG
*
1085417 ATACCTTAGG
1 ATACATTAGG
1085427 GCCCAAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 20 0.48
21 22 0.52
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (20 bp):
ATACATTAGGCAATATATTG
Found at i:1085621 original size:14 final size:14
Alignment explanation
Indices: 1085602--1085629 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1085592 CTTCGATCAC
1085602 TTTACCTTAACATG
1 TTTACCTTAACATG
1085616 TTTACCTTAACATG
1 TTTACCTTAACATG
1085630 GATTATAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
TTTACCTTAACATG
Found at i:1087515 original size:141 final size:143
Alignment explanation
Indices: 1087347--1087840 Score: 558
Period size: 141 Copynumber: 3.5 Consensus size: 143
1087337 CCTTAATAGT
* * *
1087347 GAACC-AAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCT-TGGAAAACCATAGGAGTATA
1 GAACCGAAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTACGGAAAACCATAGGAATATA
* *
1087410 GAAATCTTGACAAATTAAGACAATAATTTTTATTTAATTTTTTTAATTTCCAAAAAATTTGTTTC
66 GAAATCTTGAAAAATTAAGACAATAATTTTTATTTAATTTTTTTAATTTCCAAAAAATTTATTTC
*
1087475 GTACCTTAACGAA
131 GTACCTTAAAGAA
* ** *
1087488 GAA-CGAAAAAGATACAAAAAGTTTTGAAAATTTCTATA-CCCTATAGAAAACTATAGGAATATA
1 GAACCGAAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTACGGAAAACCATAGGAATATA
* * *
1087551 GAAATCTTAAAAAATTAAGACAATAATTTCTATTTAATTTTTTTAATTTCCAAAAAATTCATTTC
66 GAAATCTTGAAAAATTAAGACAATAATTTTTATTTAATTTTTTTAATTTCCAAAAAATTTATTTC
* *
1087616 ATATCC-TAAAGGA
131 GTA-CCTTAAAGAA
* ** * *
1087629 GAACCG-AAAAGATTCAAAAAGTTTTGCGGATTTCTATACCTCTACGAAAAACCATAGGAATATT
1 GAACCGAAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTACGGAAAACCATAGGAATA-T
* * * * * ** *
1087693 AGGAATATTGAAAAATTAAGAAAATAATTTTTATTTGA--TTTTTAGTTTTTAAGAAATTTCATT
65 AGAAATCTTGAAAAATTAAGACAATAATTTTTATTTAATTTTTTTAATTTCCAAAAAATTT-ATT
* **
1087756 TTGTACCTTATTGGAA
129 TCGTACCTTA-AAGAA
* * * *
1087772 -AATC-AAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTACGGATAACAATAGGAATAAT
1 GAACCGAAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTACGGAAAACCATAGGAAT-AT
1087835 AGAAAT
65 AGAAAT
1087841 ATATCAAAAT
Statistics
Matches: 294, Mismatches: 48, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
140 5 0.02
141 167 0.57
142 86 0.29
143 36 0.12
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (143 bp):
GAACCGAAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTACGGAAAACCATAGGAATATA
GAAATCTTGAAAAATTAAGACAATAATTTTTATTTAATTTTTTTAATTTCCAAAAAATTTATTTC
GTACCTTAAAGAA
Found at i:1088778 original size:13 final size:13
Alignment explanation
Indices: 1088760--1088784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1088750 TTCCCGTGTA
1088760 AATGTATCGATAG
1 AATGTATCGATAG
1088773 AATGTATCGATA
1 AATGTATCGATA
1088785 CATATTTGAA
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:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAG
Found at i:1091445 original size:13 final size:13
Alignment explanation
Indices: 1091427--1091465 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1091417 ATAATCACCC
1091427 TGTATCGATACAA
1 TGTATCGATACAA
1091440 TGTATCGATACAA
1 TGTATCGATACAA
1091453 TGTATCGATACAA
1 TGTATCGATACAA
1091466 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1093334 original size:15 final size:15
Alignment explanation
Indices: 1093314--1093344 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1093304 ATTTCGTTTG
*
1093314 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1093329 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1093344 G
1 G
1093345 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1095177 original size:21 final size:21
Alignment explanation
Indices: 1095148--1095192 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1095138 AAGTTTTCAT
*
1095148 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1095168 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1095190 TTT
1 TTT
1095193 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1097427 original size:13 final size:13
Alignment explanation
Indices: 1097409--1097434 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1097399 CAATTTTTTG
1097409 TGTATCGATACAT
1 TGTATCGATACAT
1097422 TGTATCGATACAT
1 TGTATCGATACAT
1097435 ACTTGGTGTA
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:1097449 original size:32 final size:33
Alignment explanation
Indices: 1097389--1097452 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1097379 TACAAGCCAA
** *
1097389 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1097422 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1097453 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1098507 original size:10 final size:10
Alignment explanation
Indices: 1098473--1098512 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
1098463 AGGGTTTAGC
1098473 TTTTTTTCTAT
1 TTTTTTTCT-T
* *
1098484 TTTCTCTCTT
1 TTTTTTTCTT
1098494 TTTTTTTCTT
1 TTTTTTTCTT
1098504 TTTTTTTCT
1 TTTTTTTCT
1098513 CTCTTTTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:1098508 original size:22 final size:22
Alignment explanation
Indices: 1098472--1098524 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
1098462 AAGGGTTTAG
1098472 CTTTTTTTC-TATTTTCTCTCT
1 CTTTTTTTCTTATTTTCTCTCT
* * *
1098493 TTTTTTTTCTTTTTTTTTCTCT
1 CTTTTTTTCTTATTTTCTCTCT
*
1098515 CTTTTCTTCT
1 CTTTTTTTCT
1098525 CCACTTGCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (22 bp):
CTTTTTTTCTTATTTTCTCTCT
Found at i:1098519 original size:12 final size:12
Alignment explanation
Indices: 1098483--1098525 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
1098473 TTTTTTTCTA
1098483 TTTTCTCTCTTT
1 TTTTCTCTCTTT
* *
1098495 TTTTTTCTTTTT
1 TTTTCTCTCTTT
1098507 TTTTCTCTCTTT
1 TTTTCTCTCTTT
*
1098519 TCTTCTC
1 TTTTCTC
1098526 CACTTGCTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTCTCTCTTT
Found at i:1099507 original size:165 final size:165
Alignment explanation
Indices: 1099175--1099508 Score: 399
Period size: 165 Copynumber: 2.0 Consensus size: 165
1099165 CATTTCAAGG
* * *
1099175 AAAAATGAAAAATGAATGAAAATGAATGAATTTTTCAAAACTGATTTAATATGAATTAAATAATG
1 AAAAATGAAAAATGAATGAAAATGAATGAATTTCTCAAAACTAATTTAATATGAATTAAATAATA
* * * *
1099240 ATAGTTGAAGAATTTCAAAAATTAAAAACCAAGAAAAACCCCTCCAAAAACTATTATGAAATAGA
66 ATAGTTGAACAATTTCAAAAATAAAAAACCAAGAAAAACCCCTACAAAAAC-ATCATGAAATAGA
* ** * **
1099305 AAACTCAGTTTTCGAGAGAAAGGGGAATTTTAAAGA
130 AAACTCAGTTTTCGAGAAAAAAAGAAATTCAAAAGA
1099341 AAAAATGAAAAATGAATGAAAATGAATGAA-TTCTCAAAACTAATTTAATATGAATTAAATAATA
1 AAAAATGAAAAATGAATGAAAATGAATGAATTTCTCAAAACTAATTTAATATGAATTAAATAATA
* * * * *
1099405 ATATTTGATCAATTTTAAAAATAAAAAACCAAGAAAAATCCCTACAAGAAA-ATGCA-GAGA-AG
66 ATAGTTGAACAATTTCAAAAATAAAAAACCAAGAAAAACCCCTACAA-AAACAT-CATGAAATAG
**
1099467 AAAACTTTGTATTTCGA-AAATAAAAGAAATTCCAAAAGA
129 AAAACTCAGT-TTTCGAGAAA-AAAAGAAATT-CAAAAGA
1099506 AAA
1 AAA
1099509 TCAATAACTT
Statistics
Matches: 143, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
163 12 0.08
164 18 0.13
165 80 0.56
166 33 0.23
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (165 bp):
AAAAATGAAAAATGAATGAAAATGAATGAATTTCTCAAAACTAATTTAATATGAATTAAATAATA
ATAGTTGAACAATTTCAAAAATAAAAAACCAAGAAAAACCCCTACAAAAACATCATGAAATAGAA
AACTCAGTTTTCGAGAAAAAAAGAAATTCAAAAGA
Found at i:1100666 original size:44 final size:44
Alignment explanation
Indices: 1100609--1100754 Score: 107
Period size: 44 Copynumber: 3.3 Consensus size: 44
1100599 CAACCAAAAA
* *
1100609 TGAAATGAATTTGATCGGGGTAGAACTATCACATCAAATGGGAG
1 TGAAAGGAATTTGATCGGGGTAGAACCATCACATCAAATGGGAG
* * * * * * ** *
1100653 TGAAAGGAGTTTGACTAGGGCTA-AGCCATCACGTTAAATGAAAA
1 TGAAAGGAATTTGA-TCGGGGTAGAACCATCACATCAAATGGGAG
* * * * * *
1100697 TGAAAAGAGTTTGA-CAAGGGTAGAACCATTACATCAAAAGGGGG
1 TGAAAGGAATTTGATC-GGGGTAGAACCATCACATCAAATGGGAG
1100741 TGAAAGGAATTTGA
1 TGAAAGGAATTTGA
1100755 CCAAGCCTAA
Statistics
Matches: 73, Mismatches: 26, Indels: 6
0.70 0.25 0.06
Matches are distributed among these distances:
43 4 0.05
44 63 0.86
45 6 0.08
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.23
Consensus pattern (44 bp):
TGAAAGGAATTTGATCGGGGTAGAACCATCACATCAAATGGGAG
Found at i:1101152 original size:13 final size:13
Alignment explanation
Indices: 1101134--1101159 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1101124 GCCAAGGAAA
1101134 TGTATCGATACAT
1 TGTATCGATACAT
1101147 TGTATCGATACAT
1 TGTATCGATACAT
1101160 CGATCTTTGT
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:1103547 original size:51 final size:51
Alignment explanation
Indices: 1103478--1103656 Score: 200
Period size: 51 Copynumber: 3.5 Consensus size: 51
1103468 AAATTTCTAG
* * * * *
1103478 ATTTTTCAT-CTCGAGGATACTCCAA-TCCCAGTTTCATTTTTAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACTCCGA-TTTTATTTTTAAAACACCA
* * *
1103528 ATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTTTAAAACACCA
* * * *
1103579 ATTTTCCATAATCGGGGATACACCAACTCCGATTTTATTTTCAAAACACCG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTTTAAAACACCA
* * *
1103630 ACTTTTAACAATCGGGGATACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
1103657 CCCGTTATTT
Statistics
Matches: 108, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
50 8 0.07
51 96 0.89
52 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTTTAAAACACCA
Found at i:1103740 original size:76 final size:76
Alignment explanation
Indices: 1103640--1104007 Score: 348
Period size: 76 Copynumber: 4.8 Consensus size: 76
1103630 ACTTTTAACA
* * *
1103640 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACATTCCAACCCCGGTTTTATTTCAAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCAGTTTTATTTCTAAAAC
1103705 ATCAATTTTTC
66 ATCAATTTTTC
* * * *
1103716 ATCGGGGATACTCTAACCCCGTTATTTCCGAGGGGACACTCCAACCCCAGTTTTGTTCCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCAGTTTTATTTCTAAAAC
1103781 ATCAATTTTTC
66 ATCAATTTTTC
* * * * * *
1103792 ATCGAGGATACTCCAACCCCGTTATTTTTG-GGGGATACTCTAACCCTAGTTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCAGTTTTATTTCTAAAAC
* * *
1103856 ATTGATTTTTAATA
66 A-TCAATTTT--TC
* * * * * *
1103870 ATTGGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCAAATTTTATTT-TCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCAGTTTTATTTCT-AAAA
*
1103934 CA-CTAATTTTCTATA
65 CATC-AA-TTT-T-TC
** ** ** * *
1103949 ATTAGGGATACTCCAACCCTTTTATTTCCAAGGAGATACTCCAACCCC-GATTTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCAG-TTTTATTTC
1104008 CAGAACACCT
Statistics
Matches: 244, Mismatches: 38, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
75 29 0.12
76 101 0.41
78 30 0.12
79 83 0.34
80 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (76 bp):
ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCAGTTTTATTTCTAAAAC
ATCAATTTTTC
Found at i:1103943 original size:79 final size:77
Alignment explanation
Indices: 1103592--1104049 Score: 342
Period size: 79 Copynumber: 5.9 Consensus size: 77
1103582 TTCCATAATC
* * * * * *
1103592 GGGGATACACCAACTCCGATTTTATTTTCAAAACACCGACTTTTAACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAATTTTATTTTCAAAACA-CTAATTTT-ATAATCGGGGATACTCCAAC
1103657 CCCGTTATTTCTGA
64 CCCGTTATTTCTGA
* * ** * *
1103671 GGGGACATTCCAACCCCGGTTTTA-TTTCAAAA-ACATCAATTTT-TCATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCAATTTTATTTTCAAAACAC-T-AATTTTATAATCGGGGATACTCCAAC
*
1103733 CCCGTTATTTCCGA
64 CCCGTTATTTCTGA
* * * * * *
1103747 GGGGACACTCCAACCCCAGTTTT-GTTCCTAAAACA-TCAATTTT-TCATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCAATTTTATTTTC-AAAACACT-AATTTTATAATCGGGGATACTCCAAC
*
1103809 CCCGTTATTTTTG-
64 CCCGTTATTTCTGA
* * * * * * *
1103822 GGGGATACTCTAACCCTAGTTTTA-TTTCTAAAATATTGATTTTTAATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCAATTTTATTTTC-AAAACACT-AATTTT-ATAATCGGGGATACTCCAA
* *
1103886 CCCCATTATTTTTGA
63 CCCCGTTATTTCTGA
* **
1103901 GGGGATACTCCAACCCAAATTTTATTTTCAAAACACTAATTTTCTATAATTAGGGATACTCCAAC
1 GGGGATACTCCAACCCCAATTTTATTTTCAAAACACTAA-TTT-TATAATCGGGGATACTCCAAC
** **
1103966 CCTTTTATTTCCAA
64 CCCGTTATTTCTGA
* * * *
1103980 GGAGATACTCCAACCCCGATTTTATTTCCAGAACACCT-ATTTTCCATAATCAGGGG-TACTCCA
1 GGGGATACTCCAACCCCAATTTTATTTTCAAAACA-CTAATTTT--ATAATC-GGGGATACTCCA
*
1104043 GCCCCGT
62 ACCCCGT
1104050 CATCATGTCC
Statistics
Matches: 311, Mismatches: 51, Indels: 34
0.79 0.13 0.09
Matches are distributed among these distances:
75 29 0.09
76 96 0.31
77 6 0.02
78 46 0.15
79 124 0.40
80 10 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (77 bp):
GGGGATACTCCAACCCCAATTTTATTTTCAAAACACTAATTTTATAATCGGGGATACTCCAACCC
CGTTATTTCTGA
Found at i:1105083 original size:44 final size:44
Alignment explanation
Indices: 1105036--1106045 Score: 537
Period size: 44 Copynumber: 22.9 Consensus size: 44
1105026 TCAAACACGG
* **
1105036 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGGGGG
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGAGAA
* * *
1105080 TGAAAGGAGTTTGACCAAGG-TAGAACCATCATGTTAAACAAAAAA
1 TGAAAGGAGTTTGACCAAGGCT-GAACCATCATGTCAAAC-GAGAA
* * * * **
1105125 TGAAGGGAGTTTGACTAGGGCTGAACCATCATGTCAAA-TAGGGG
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGA-GAA
* * * * * **
1105169 TGAGAGGAGTTTGACCAGGGTTGAACCATCATGTCAGATG-GGG
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGAGAA
* * * * * *
1105212 TGAAAGGAGTTT-AACTAGGGTAGAACCATCACGTCAAACAAAAAA
1 TGAAAGGAGTTTGACCAAGGCT-GAACCATCATGTCAAAC-GAGAA
* * * * *** * **
1105257 TGAAGGGAGTTCGACTAAGGTTGAACCATCACAACAAA-TAGGGG
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGA-GAA
* * * * *
1105301 TGAGAGGAGTTCT-ACCCAGGCTAAACCATCATGTCAAACGGGGA
1 TGAAAGGAGTT-TGACCAAGGCTGAACCATCATGTCAAACGAGAA
* **
1105345 TGAAAGGAGCTTGACCAAGG-TAGAACCATCATGTCAAACGAGGG
1 TGAAAGGAGTTTGACCAAGGCT-GAACCATCATGTCAAACGAGAA
* * * * *
1105389 TGAGAGGAGTTTGACCAGGGTTGAACCATCATGTCAAATGGGAA
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGAGAA
* * *
1105433 TGAAAGGAGTTTGACCAGGGTTGAACCATC-TAGTCAAACGAAAAA
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCAT-GTCAAACG-AGAA
* * * *
1105478 TGAAAGAAGTTTGACCAGGGCAGAACCATCATGTCAAACGAATAA
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACG-AGAA
* * * *
1105523 TGAAAGGAGTTTGACTAAGGCTGAACCATCACGTCAAATGAAAA
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGAGAA
* * * * * *
1105567 GTGAAACGA-TTAGACCAGGGCTGAACCATCATGTTAAATGAAAA
1 -TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGAGAA
* * * * *
1105611 GTGAAAGGA-TTTGACCAAGGCAGAATCATCACGTCAAATGAAAAA
1 -TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACG-AGAA
* * * * * * * *
1105656 TGAAAGGTGTTTGACTAGGGCTAAACCATTACGTCAAATGAGGA
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGAGAA
* ** * *
1105700 TGAAAAGAGTTTGACCAAGG-TAGAACCATCACATTAAGA-GAAAAA
1 TGAAAGGAGTTTGACCAAGGCT-GAACCATCATGTCAA-ACG-AGAA
** * *
1105745 TGAAAAAAG-TTGACC-AGTGCTGAACCATCA-GTCAAATGAGGA
1 TGAAAGGAGTTTGACCAAG-GCTGAACCATCATGTCAAACGAGAA
* * * *
1105787 TGAAAAGAGTTTGACCAAGG-TAGAACCATCACGTCAAATGAGGA
1 TGAAAGGAGTTTGACCAAGGCT-GAACCATCATGTCAAACGAGAA
* * * * * * * ** * *
1105831 TAAAAAGAGTTTGACCAGGGTTAAAACATCACGTCAAATTATAG
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGAGAA
* * * * ** * *
1105875 TGAAACGAAGTTTGA-CTAGGGTAGAATCATCACATCAAACGATAG
1 TGAAA-GGAGTTTGACCAAGGCT-GAACCATCATGTCAAACGAGAA
* * * * * * *
1105920 TGAAAAGGGGTTT-AACTAGGGTAGAACCATCACGTCAAACAAGGA
1 TG-AAAGGAGTTTGACCAAGGCT-GAACCATCATGTCAAACGAGAA
* * * ** *
1105965 TGAAAAGAGTTTGACCAGGGCAGAACCATCACCTCAAACGAGGA
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGAGAA
* * * *
1106009 TGAAAAGAGTGTGACCAAGGCTAAACCA-CTTGTCAAA
1 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAA
1106046 TGATACTGAA
Statistics
Matches: 763, Mismatches: 166, Indels: 75
0.76 0.17 0.07
Matches are distributed among these distances:
42 17 0.02
43 63 0.08
44 431 0.56
45 242 0.32
46 10 0.01
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (44 bp):
TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGAGAA
Found at i:1105195 original size:89 final size:89
Alignment explanation
Indices: 1105036--1106046 Score: 639
Period size: 89 Copynumber: 11.4 Consensus size: 89
1105026 TCAAACACGG
* ** *
1105036 TGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGGGGGTGAAAGGAGTTTGACCAAGGT
1 TGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAATAGGGATGAAAGGAGTTTGACCAAGGT
* *
1105101 AGAACCATCATGTTAAACAAAAAA
66 AGAACCATCATGTCAAACGAAAAA
* * * * *
1105125 TGAAGGGAGTTTGACTAGGGCTGAACCATCATGTCAAATAGGGGTGAGAGGAGTTTGACCAGGGT
1 TGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAATAGGGATGAAAGGAGTTTGACCAAGGT
* * * ***
1105190 TGAACCATCATGTCAGATG--GGG
66 AGAACCATCATGTCAAACGAAAAA
* * * * *** * * *
1105212 TGAAAGGAGTTTAACTAGGG-TAGAACCATCACGTCAAACAAAAAATGAAGGGAGTTCGACTAAG
1 TGAAAGGAGTTTGACCAGGGCT-GAACCATCATGTCAAA-TAGGGATGAAAGGAGTTTGACCAAG
* *** * ****
1105276 GTTGAACCATCACAACAAA-TAGGGG
64 GTAGAACCATCATGTCAAACGAAAAA
* * ** *
1105301 TGAGAGGAGTTCT-ACCCA-GGCTAAACCATCATGTCAAACGGGGATGAAAGGAGCTTGACCAAG
1 TGAAAGGAGTT-TGA-CCAGGGCTGAACCATCATGTCAAATAGGGATGAAAGGAGTTTGACCAAG
***
1105364 GTAGAACCATCATGTCAAACG-AGGG
64 GTAGAACCATCATGTCAAACGAAAAA
* * *
1105389 TGAGAGGAGTTTGACCAGGGTTGAACCATCATGTCAAAT-GGGAATGAAAGGAGTTTGACCAGGG
1 TGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAATAGGG-ATGAAAGGAGTTTGACCAAGG
*
1105453 TTGAACCATC-TAGTCAAACGAAAAA
65 TAGAACCATCAT-GTCAAACGAAAAA
* * * *** *
1105478 TGAAAGAAGTTTGACCAGGGCAGAACCATCATGTCAAACGAATAATGAAAGGAGTTTGACTAAGG
1 TGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAA-TAGGGATGAAAGGAGTTTGACCAAGG
* * *
1105543 CT-GAACCATCACGTCAAATGAAAAG
65 -TAGAACCATCATGTCAAACGAAAAA
* * * **
1105568 TGAAACGA-TTAGACCAGGGCTGAACCATCATGTTAAAT-GAAAAGTGAAAGGA-TTTGACCAAG
1 TGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAATAG-GGA-TGAAAGGAGTTTGACCAAG
* * * *
1105630 GCAGAATCATCACGTCAAATGAAAAA
64 GTAGAACCATCATGTCAAACGAAAAA
* * * * * *
1105656 TGAAAGGTGTTTGACTAGGGCTAAACCATTACGTCAAAT-GAGGATGAAAAGAGTTTGACCAAGG
1 TGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAATAG-GGATGAAAGGAGTTTGACCAAGG
** *
1105720 TAGAACCATCACATTAAGA-GAAAAA
65 TAGAACCATCATGTCAA-ACGAAAAA
** * *
1105745 TGAAAAAAG-TTGACCAGTGCTGAACCATCA-GTCAAAT-GAGGATGAAAAGAGTTTGACCAAGG
1 TGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAATAG-GGATGAAAGGAGTTTGACCAAGG
* * **
1105807 TAGAACCATCACGTCAAATG-AGGA
65 TAGAACCATCATGTCAAACGAAAAA
* * * * * * ** * * *
1105831 TAAAAAGAGTTTGACCAGGGTTAAAACATCACGTCAAATTATAG-TGAAACGAAGTTTGACTAGG
1 TGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAA-TAGGGATGAAA-GGAGTTTGACCAAG
* ** * *
1105895 GTAGAATCATCACATCAAACG-ATAG
64 GTAGAACCATCATGTCAAACGAAAAA
* * * * * * * *
1105920 TGAAAAGGGGTTTAACTAGGG-TAGAACCATCACGTCAAACAAGGATGAAAAGAGTTTGACCAGG
1 TG-AAAGGAGTTTGACCAGGGCT-GAACCATCATGTCAAATAGGGATGAAAGGAGTTTGACCAAG
* ** **
1105984 GCAGAACCATCACCTCAAACG-AGGA
64 GTAGAACCATCATGTCAAACGAAAAA
* * * * *
1106009 TGAAAAGAGTGTGACCAAGGCTAAACCA-CTTGTCAAAT
1 TGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAAT
1106047 GATACTGAAA
Statistics
Matches: 730, Mismatches: 159, Indels: 68
0.76 0.17 0.07
Matches are distributed among these distances:
86 11 0.02
87 113 0.15
88 221 0.30
89 302 0.41
90 82 0.11
91 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (89 bp):
TGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAATAGGGATGAAAGGAGTTTGACCAAGGT
AGAACCATCATGTCAAACGAAAAA
Found at i:1105683 original size:133 final size:134
Alignment explanation
Indices: 1105035--1106160 Score: 743
Period size: 132 Copynumber: 8.5 Consensus size: 134
1105025 ATCAAACACG
* * *
1105035 GTGAAAGGAGTTTGACCAAGGCTGAACCATCATGTCAAACGGGGGTGAAAGGAGTTTGACCAAGG
1 GTGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAACGAGAGTGAAAGGAGTTTGACCAAGG
* * * *
1105100 TAGAACCATCATGTTAAACAAAAAATGAAGGGAGTTTGACTAGGGCTGAACCATCATGTCAAAT-
66 TAGAACCATCATGTCAAACGAAAAATGAAAGGAGTTTGACTAGGGCTGAACCATCACGTCAAATG
**
1105164 AGGG
131 AGAA
* * * * * * * *
1105168 GTGAGAGGAGTTTGACCAGGGTTGAACCATCATGTCAGATG-GGGTGAAAGGAGTTTAACTAGGG
1 GTGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAACGAGAGTGAAAGGAGTTTGACCAAGG
* * * * * * **
1105232 TAGAACCATCACGTCAAACAAAAAATGAAGGGAGTTCGACTAAGGTTGAACCATCACAACAAAT-
66 TAGAACCATCATGTCAAACGAAAAATGAAAGGAGTTTGACTAGGGCTGAACCATCACGTCAAATG
**
1105296 AGGG
131 AGAA
* * * *
1105300 GTGAGAGGAGTTCT-ACCCA-GGCTAAACCATCATGTCAAACG-GGGATGAAAGGAGCTTGACCA
1 GTGAAAGGAGTT-TGA-CCAGGGCTGAACCATCATGTCAAACGAGAG-TGAAAGGAGTTTGACCA
*** * * * *
1105362 AGGTAGAACCATCATGTCAAACG-AGGGTGAGAGGAGTTTGACCAGGGTTGAACCATCATGTCAA
63 AGGTAGAACCATCATGTCAAACGAAAAATGAAAGGAGTTTGACTAGGGCTGAACCATCACGTCAA
*
1105426 ATGGGAA
128 ATGAGAA
* * * * *
1105433 -TGAAAGGAGTTTGACCAGGGTTGAACCATC-TAGTCAAACGAAAAATGAAAGAAGTTTGACCAG
1 GTGAAAGGAGTTTGACCAGGGCTGAACCATCAT-GTCAAACG-AGAGTGAAAGGAGTTTGACCAA
* * *
1105496 GGCAGAACCATCATGTCAAACGAATAATGAAAGGAGTTTGACTAAGGCTGAACCATCACGTCAAA
64 GGTAGAACCATCATGTCAAACGAAAAATGAAAGGAGTTTGACTAGGGCTGAACCATCACGTCAAA
*
1105561 TGAAAA
129 TGAGAA
* * * * *
1105567 GTGAAACGA-TTAGACCAGGGCTGAACCATCATGTTAAATGAAAAGTGAAAGGA-TTTGACCAAG
1 GTGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAACG-AGAGTGAAAGGAGTTTGACCAAG
* * * * * * *
1105630 GCAGAATCATCACGTCAAATGAAAAATGAAAGGTGTTTGACTAGGGCTAAACCATTACGTCAAAT
65 GTAGAACCATCATGTCAAACGAAAAATGAAAGGAGTTTGACTAGGGCTGAACCATCACGTCAAAT
*
1105695 GAGGA
130 GAGAA
* * ** * * * **
1105700 -TGAAAAGAGTTTGACCAAGG-TAGAACCATCACATTAAGA-GAAAAATGAAAAAAG-TTGACC-
1 GTGAAAGGAGTTTGACCAGGGCT-GAACCATCATGTCAA-ACG-AGAGTGAAAGGAGTTTGACCA
* ** * * *
1105760 AGTGCT-GAACCATCA-GTCAAATG-AGGATGAAAAGAGTTTGACCAAGG-TAGAACCATCACGT
63 AG-G-TAGAACCATCATGTCAAACGAAAAATGAAAGGAGTTTGACTAGGGCT-GAACCATCACGT
*
1105821 CAAATGAGGA
125 CAAATGAGAA
* * * * * * ** * * * *
1105831 -TAAAAAGAGTTTGACCAGGGTTAAAACATCACGTCAAATTATAGTGAAACGAAGTTTGACTAGG
1 GTGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAACGAGAGTGAAA-GGAGTTTGACCAAG
* ** * * * *
1105895 GTAGAATCATCACATCAAACG-ATAGTGAAAAGGGGTTTAACTAGGG-TAGAACCATCACGTCAA
65 GTAGAACCATCATGTCAAACGAAAAATG-AAAGGAGTTTGACTAGGGCT-GAACCATCACGTCAA
** *
1105958 ACAAGGA
128 ATGAGAA
* * ** * *
1105965 -TGAAAAGAGTTTGACCAGGGCAGAACCATCACCTCAAACGAG-GATGAAAAGAGTGTGACCAAG
1 GTGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAACGAGAG-TGAAAGGAGTTTGACCAAG
* * * * * * * *
1106028 GCTA-AACCA-CTTGTCAAATG-ATACTGAAAAAGG-GTCTGACTAAGGCAGAACCATCACATCA
65 G-TAGAACCATCATGTCAAACGAAAAATG--AAAGGAGTTTGACTAGGGCTGAACCATCACGTCA
1106089 AAT--GAA
127 AATGAGAA
* * * *
1106095 GATGAACA-GAGTTTGACCAGGGCTAAATGCCAATACA-GTCAAACGAGGGTAAAAAGAGTTTGA
1 G-TGAA-AGGAGTTTGACCAGGGCTGAA--CC-AT-CATGTCAAACGAGAGTGAAAGGAGTTTGA
1106158 CCA
60 CCA
1106161 GATATAGTTA
Statistics
Matches: 801, Mismatches: 153, Indels: 76
0.78 0.15 0.07
Matches are distributed among these distances:
130 11 0.01
131 76 0.09
132 265 0.33
133 260 0.32
134 152 0.19
135 34 0.04
136 3 0.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.19
Consensus pattern (134 bp):
GTGAAAGGAGTTTGACCAGGGCTGAACCATCATGTCAAACGAGAGTGAAAGGAGTTTGACCAAGG
TAGAACCATCATGTCAAACGAAAAATGAAAGGAGTTTGACTAGGGCTGAACCATCACGTCAAATG
AGAA
Found at i:1106186 original size:35 final size:35
Alignment explanation
Indices: 1106147--1106269 Score: 192
Period size: 35 Copynumber: 3.5 Consensus size: 35
1106137 ACGAGGGTAA
*
1106147 AAAGAGTTTGACCAGATATAGTTAAACGATGATGG
1 AAAGAGTTTGACCAGATATAGTCAAACGATGATGG
*
1106182 AAAGAGTTTGACTAGATATAGTCAAACGATGATGG
1 AAAGAGTTTGACCAGATATAGTCAAACGATGATGG
* * * *
1106217 AAAGAGTTAGACCAGATACAGCCAAACAATGATGG
1 AAAGAGTTTGACCAGATATAGTCAAACGATGATGG
1106252 AAAGAGTTTGACCAGATA
1 AAAGAGTTTGACCAGATA
1106270 CAGCCAAATG
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 80 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (35 bp):
AAAGAGTTTGACCAGATATAGTCAAACGATGATGG
Found at i:1106270 original size:35 final size:35
Alignment explanation
Indices: 1106147--1106295 Score: 190
Period size: 35 Copynumber: 4.3 Consensus size: 35
1106137 ACGAGGGTAA
* **
1106147 AAAGAGTTTGACCAGATATAGTTAAACGATGATGG
1 AAAGAGTTTGACCAGATACAGCCAAACGATGATGG
* * *
1106182 AAAGAGTTTGACTAGATATAGTCAAACGATGATGG
1 AAAGAGTTTGACCAGATACAGCCAAACGATGATGG
* *
1106217 AAAGAGTTAGACCAGATACAGCCAAACAATGATGG
1 AAAGAGTTTGACCAGATACAGCCAAACGATGATGG
* * **
1106252 AAAGAGTTTGACCAGATACAGCCAAATGTTGATTA
1 AAAGAGTTTGACCAGATACAGCCAAACGATGATGG
1106287 AAAGAGTTT
1 AAAGAGTTT
1106296 ATTTAGTAAG
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 101 1.00
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.23
Consensus pattern (35 bp):
AAAGAGTTTGACCAGATACAGCCAAACGATGATGG
Found at i:1106291 original size:70 final size:70
Alignment explanation
Indices: 1106127--1106294 Score: 192
Period size: 70 Copynumber: 2.4 Consensus size: 70
1106117 CTAAATGCCA
* * * * * * ** *
1106127 ATACAGTCAAACGAGGGTAAAAAGAGTTTGACCAGATATAGTTAAACGATGATGGAAAGAGTTTG
1 ATACAGCCAAACGATGATGAAAAGAGTTAGACCAGATACAGCCAAACAATGATGGAAAGAGTTTG
*
1106192 ACTAG
66 ACCAG
* * *
1106197 ATATAGTCAAACGATGATGGAAAGAGTTAGACCAGATACAGCCAAACAATGATGGAAAGAGTTTG
1 ATACAGCCAAACGATGATGAAAAGAGTTAGACCAGATACAGCCAAACAATGATGGAAAGAGTTTG
1106262 ACCAG
66 ACCAG
* * *
1106267 ATACAGCCAAATGTTGATTAAAAGAGTT
1 ATACAGCCAAACGATGATGAAAAGAGTT
1106295 TATTTAGTAA
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
70 81 1.00
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (70 bp):
ATACAGCCAAACGATGATGAAAAGAGTTAGACCAGATACAGCCAAACAATGATGGAAAGAGTTTG
ACCAG
Found at i:1107742 original size:44 final size:43
Alignment explanation
Indices: 1107604--1107747 Score: 128
Period size: 43 Copynumber: 3.3 Consensus size: 43
1107594 ATGTGCGTGT
* * *
1107604 AATGATGCAAATGCAAGCATCAATAAAAAAGGCAAATGCATATGG
1 AATGATGCAAATGCAAACATCAACAAAAAA--CAAATGCATATGA
* * * ** * * ** *
1107649 AATGATGAAAATACTAATGTTATCTAAAATGCAAATAC-TATGA
1 AATGATGCAAATGCAAACATCAAC-AAAAAACAAATGCATATGA
1107692 AATGATGCAAATGCAAACATCAACAAAGAAACAAATGCATATGA
1 AATGATGCAAATGCAAACATCAACAAA-AAACAAATGCATATGA
1107736 AATGATGCAAAT
1 AATGATGCAAAT
1107748 ACGAATGTGG
Statistics
Matches: 73, Mismatches: 23, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
42 3 0.04
43 28 0.38
44 23 0.32
45 15 0.21
46 4 0.05
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (43 bp):
AATGATGCAAATGCAAACATCAACAAAAAACAAATGCATATGA
Found at i:1109184 original size:8 final size:7
Alignment explanation
Indices: 1109174--1109219 Score: 76
Period size: 7 Copynumber: 6.6 Consensus size: 7
1109164 TTTTTTTCCT
1109174 TTTTTTG
1 TTTTTTG
1109181 TTTTTTTG
1 -TTTTTTG
1109189 TTTTTTG
1 TTTTTTG
1109196 TTTTTTG
1 TTTTTTG
1109203 TTTTTTG
1 TTTTTTG
1109210 -TTTTTG
1 TTTTTTG
1109216 TTTT
1 TTTT
1109220 CTTTAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
6 6 0.16
7 24 0.65
8 7 0.19
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTTTTTG
Found at i:1112587 original size:22 final size:22
Alignment explanation
Indices: 1112546--1112589 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1112536 AATTTTCTTA
* *
1112546 TTTTTGAGAATTTTCTAAAATT
1 TTTTTGAAAATTTTCAAAAATT
*
1112568 TTTTTGAAAATTTTGAAAAATT
1 TTTTTGAAAATTTTCAAAAATT
1112590 AGTCATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (22 bp):
TTTTTGAAAATTTTCAAAAATT
Found at i:1113249 original size:165 final size:165
Alignment explanation
Indices: 1113033--1113349 Score: 418
Period size: 165 Copynumber: 1.9 Consensus size: 165
1113023 TTTTTTACGT
* * * * ** **
1113033 TATTAAATCAGTTTTGAAAATTTTATTTATTTTCACGAATTTTTCATTTTTCCTTGAAATTTTCT
1 TATTAAATCAGTTTTAAAAAATTCATTCATTTTCACGAATTTTGAATTTTTCCTTGAAATTCCCT
* * * * *
1113098 TGTTTTCGAAATACGGAGTTTTCTACTCCGTAAATATTTTCGGGGAGATTTTTCTTGATTTTTAA
66 TGTTTTCAAAATACAGAGTTTTCTACTCCATAAATATTTTCAGGGAGATTTTGCTTGATTTTTAA
1113163 TTTTTAAAATTCATCAAATATTATCACTTGATTCA
131 TTTTTAAAATTCATCAAATATTATCACTTGATTCA
* ** * * *
1113198 TATTAAATTAGTTTTAAAAAATTCATTCATTTTCTTGAGTTTTGAATTTTTCTTTGGAATTCCCT
1 TATTAAATCAGTTTTAAAAAATTCATTCATTTTCACGAATTTTGAATTTTTCCTTGAAATTCCCT
* * * *
1113263 TGTTTTTAAAATACAGAGTTTTCTACTCTATAAATGTTTTCAGGGAGATTTTGCTTGGTTTTTAA
66 TGTTTTCAAAATACAGAGTTTTCTACTCCATAAATATTTTCAGGGAGATTTTGCTTGATTTTTAA
*
1113328 TTTTTAAAATTCATCTAATATT
131 TTTTTAAAATTCATCAAATATT
1113350 GTTATTAAAC
Statistics
Matches: 128, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
165 128 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (165 bp):
TATTAAATCAGTTTTAAAAAATTCATTCATTTTCACGAATTTTGAATTTTTCCTTGAAATTCCCT
TGTTTTCAAAATACAGAGTTTTCTACTCCATAAATATTTTCAGGGAGATTTTGCTTGATTTTTAA
TTTTTAAAATTCATCAAATATTATCACTTGATTCA
Found at i:1113568 original size:14 final size:15
Alignment explanation
Indices: 1113549--1113581 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
1113539 ATAAAATTTT
1113549 ATTTTAATTTTTA-A
1 ATTTTAATTTTTACA
1113563 ATTTTAATTTTTACA
1 ATTTTAATTTTTACA
1113578 ATTT
1 ATTT
1113582 AATCCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTAATTTTTACA
Found at i:1113901 original size:14 final size:12
Alignment explanation
Indices: 1113872--1113912 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
1113862 GCGTAAGAGG
1113872 AAGAAGAAGAAA
1 AAGAAGAAGAAA
1113884 AAGAGAGAAGAGAA
1 AAGA-AGAAGA-AA
*
1113898 AAGAAAAAGAAA
1 AAGAAGAAGAAA
1113910 AAG
1 AAG
1113913 GATATATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 9 0.35
13 11 0.42
14 6 0.23
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAA
Found at i:1113901 original size:20 final size:18
Alignment explanation
Indices: 1113866--1113907 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
1113856 ACATAAGCGT
*
1113866 AAGAGGAAGAAGAAGAAA
1 AAGAGGAAGAAAAAGAAA
1113884 AAGAGAGAAGAGAAAAGAAA
1 AAGAG-GAAGA-AAAAGAAA
1113904 AAGA
1 AAGA
1113908 AAAAGGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 5 0.24
20 11 0.52
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AAGAGGAAGAAAAAGAAA
Found at i:1115170 original size:141 final size:143
Alignment explanation
Indices: 1114844--1115202 Score: 501
Period size: 141 Copynumber: 2.5 Consensus size: 143
1114834 CTTATAAGTA
* * *
1114844 TCCATAAGGGTATAGAAATATTCAAAGTTTTTCGTATCTTTTCGGTTCTCCATTAAGGTACGAAA
1 TCCATAGGGGTATAGAAATATTCAAAGCTTTTCGTATCTTTTCGGTTCTTCATTAAGGTACGAAA
*
1114909 TAAATTTTCTTAAAAATTAAAAAATTAAATAAAAATTGTTATCTTAATTTTTCAAGATTTCTAAT
66 TAAATTTTCTTAAAAATTAAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAAT
1114974 ATTCATATGGTTT
131 ATTCATATGGTTT
* * * * *
1114987 TCCATAGGGGTATAAAAATTTTTAGAA-CTTTTCGTATTTTTTCGGTTCTTCATTAAGGTACAAA
1 TCCATAGGGGTATAGAAATATTCA-AAGCTTTTCGTATCTTTTCGGTTCTTCATTAAGGTACGAA
* *
1115051 ATAAATTTT-TTGAAAATT-AAAAATTAAAATAAAAATTATTGTCTTAATTTTTCAAGATTTCT-
65 ATAAATTTTCTTAAAAATTAAAAAATT-AAATAAAAATTATTATCTTAATTTTTCAAGATTTCTA
*
1115113 ATATTCCTATGGTTT
129 ATATTCATATGGTTT
** * * *
1115128 TCTGTAGGGGTATAGAAATCTTCAAAGCTTTTCATATCTTTTCGGTTTTTCATTAAGGTACGAAA
1 TCCATAGGGGTATAGAAATATTCAAAGCTTTTCGTATCTTTTCGGTTCTTCATTAAGGTACGAAA
*
1115193 TGAGATTTTC
66 T-AAATTTTC
1115203 GAAATTTACA
Statistics
Matches: 189, Mismatches: 22, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
140 2 0.01
141 75 0.40
142 48 0.25
143 62 0.33
144 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (143 bp):
TCCATAGGGGTATAGAAATATTCAAAGCTTTTCGTATCTTTTCGGTTCTTCATTAAGGTACGAAA
TAAATTTTCTTAAAAATTAAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAAT
ATTCATATGGTTT
Found at i:1115927 original size:154 final size:154
Alignment explanation
Indices: 1115575--1116236 Score: 614
Period size: 155 Copynumber: 4.3 Consensus size: 154
1115565 ATTTTTGTAA
* * ** * * * *
1115575 TTTCTCTAGAGTCGAGTTTTAGGTTGTCACCAGG-T-TGCTTTTATGCCAAAGATGGATATTTAG
1 TTTCTTTAGAATCGAGTCCTAGGTTGTCACC-GGATCAGCTTTTATGCCGAAGGTGGGTATTTAG
* * * * *
1115638 GATAGGTTCATCCCTTTTAAAATCTTGTTTTAAGTCTGTTAGGGGTATC-GAGTACTTTTACGAT
65 GATAGGTTCATCCCATCTATAATCTT-TTTTAAGTCTTTTAGGGGTATCAG-GTACTTCTACG-T
* * *
1115702 -GAAAGTATCCCCTAGGGGCTTTTTCGT
127 CGAAGGTATCCCCTAGAGGCATTTTCGT
* *
1115729 ATTTCTTTAGAACCGAGTCCTAGGTTGTCACC-AAGTCAGCTTTTATGCCGAAGGTGGGTATTTA
1 -TTTCTTTAGAATCGAGTCCTAGGTTGTCACCGGA-TCAGCTTTTATGCCGAAGGTGGGTATTTA
* * *
1115793 GGATAGGTTCATCCCATCTATAATCTTTTTTAAGTCTTTTAGAGGTATCAGGTACTTCTATGTTG
64 GGATAGGTTCATCCCATCTATAATCTTTTTTAAGTCTTTTAGGGGTATCAGGTACTTCTACGTCG
1115858 AAGGTATCCCCTAGAGGCATTTTCGT
129 AAGGTATCCCCTAGAGGCATTTTCGT
** * *
1115884 TTTCTTTAGAATCGAGTCCTAGGTTGTCACCGGATCAGCTTTTATGGTGAAAGTAGGTATTTAGG
1 TTTCTTTAGAATCGAGTCCTAGGTTGTCACCGGATCAGCTTTTATGCCGAAGGTGGGTATTTAGG
* * * * * *
1115949 ATAGGTTCATCCCATCTATAATCATTTTTAAGTCCTTTAGGGGCATCGGGTACTTCTACATCAAA
66 ATAGGTTCATCCCATCTATAATCTTTTTTAAGTCTTTTAGGGGTATCAGGTACTTCTACGTCGAA
**
1116014 GGTATCCCCTAGAGGCATCTTTATAAT
131 GGTATCCCCTAGAGGCA--TTT-TCGT
** * * ** * *
1116041 TTTC-CCA-AATCAACTCCTAGGTTGTCACTAGCTCCGCTTTT-TAGCCGAAGGTGGGTATTTAG
1 TTTCTTTAGAATCGAGTCCTAGGTTGTCACCGGATCAGCTTTTAT-GCCGAAGGTGGGTATTTAG
* * * * * *
1116103 GATAGGTTCATCCCTTCTATAATC-CTTTTAAGTCTTTTAGGGTTACCATGATACTT-TCATGTC
65 GATAGGTTCATCCCATCTATAATCTTTTTTAAGTCTTTTAGGGGTATCA-GGTACTTCT-ACGTC
** *
1116166 GAAGGTATACCTATAGGGGCA-TTT--T
128 GAAGGTAT-CCCCTAGAGGCATTTTCGT
* * * * *
1116191 TTT-TTTAGAATCGACTCTTAGGTTGTCACTGGGTCTGCTTTTATGC
1 TTTCTTTAGAATCGAGTCCTAGGTTGTCACCGGATCAGCTTTTATGC
1116237 TAAAGGTACA
Statistics
Matches: 421, Mismatches: 70, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
150 5 0.01
151 31 0.07
152 2 0.00
153 2 0.00
154 151 0.36
155 163 0.39
156 61 0.14
157 6 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (154 bp):
TTTCTTTAGAATCGAGTCCTAGGTTGTCACCGGATCAGCTTTTATGCCGAAGGTGGGTATTTAGG
ATAGGTTCATCCCATCTATAATCTTTTTTAAGTCTTTTAGGGGTATCAGGTACTTCTACGTCGAA
GGTATCCCCTAGAGGCATTTTCGT
Found at i:1116158 original size:155 final size:152
Alignment explanation
Indices: 1115594--1116145 Score: 515
Period size: 154 Copynumber: 3.6 Consensus size: 152
1115584 AGTCGAGTTT
* * * * * * * *
1115594 TAGGTTGTCACCAGGT-TGCTTTTATGCCAAAGATGGATATTTAGGATAGGTTCATCCCTTTTAA
1 TAGGTTGTCA-CAAGTCAGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTAT
* * * * *
1115658 AATCTTGTTTTAAGTCTGTTAGGGGTATC-GAGTACTTTTACGATGAAA-GTATCCCCTAGGGGC
65 AATCAT-TTTTAAGTCTTTTA-GGGTATCAG-GTACTTCTAC-ATCAAAGGTATCCCCTAGAGGC
* ** ** * * *
1115721 TTTTTCGTATTTCTTTAGAACCGAGTCC
126 ATTTTAAT-TTTCTCCAGAATCAACTCC
1115749 TAGGTTGTCACCAAGTCAGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTAT
1 TAGGTTGTCA-CAAGTCAGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTAT
* ** **
1115814 AATCTTTTTTAAGTCTTTTAGAGGTATCAGGTACTTCTATGTTGAAGGTATCCCCTAGAGGCATT
65 AATCATTTTTAAGTCTTTTAG-GGTATCAGGTACTTCTACATCAAAGGTATCCCCTAGAGGCATT
** ** * *
1115879 TTCGTTTTCTTTAGAATCGAGTCC
129 TTAATTTTCTCCAGAATCAACTCC
** ** * *
1115903 TAGGTTGTCACCGGATCAGCTTTTATGGTGAAAGTAGGTATTTAGGATAGGTTCATCCCATCTAT
1 TAGGTTGTCACAAG-TCAGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTAT
* * *
1115968 AATCATTTTTAAGTCCTTTAGGGGCATCGGGTACTTCTACATCAAAGGTATCCCCTAGAGGCATC
65 AATCATTTTTAAGTCTTTTA-GGGTATCAGGTACTTCTACATCAAAGGTATCCCCTAGAGGCA--
1116033 TTTATAATTTTC-CCA-AATCAACTCC
127 TTT-TAATTTTCTCCAGAATCAACTCC
* * *
1116058 TAGGTTGTCACTAGCTCCGCTTTT-TAGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTCTA
1 TAGGTTGTCACAAG-TCAGCTTTTAT-GCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTA
*
1116122 TAATC-CTTTTAAGTCTTTTAGGGT
64 TAATCATTTTTAAGTCTTTTAGGGT
1116146 TACCATGATA
Statistics
Matches: 338, Mismatches: 49, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
153 5 0.01
154 145 0.43
155 130 0.38
156 52 0.15
157 6 0.02
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (152 bp):
TAGGTTGTCACAAGTCAGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATA
ATCATTTTTAAGTCTTTTAGGGTATCAGGTACTTCTACATCAAAGGTATCCCCTAGAGGCATTTT
AATTTTCTCCAGAATCAACTCC
Found at i:1119580 original size:52 final size:52
Alignment explanation
Indices: 1119432--1119560 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1119422 CAAAATATGA
1119432 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
1119484 AAATTTGCCTGTATGTATCGAGACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1119536 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1119561 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1119587 original size:13 final size:13
Alignment explanation
Indices: 1119569--1119593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1119559 CAAAGATCAG
1119569 TGTATCGATACAA
1 TGTATCGATACAA
1119582 TGTATCGATACA
1 TGTATCGATACA
1119594 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1119679 original size:32 final size:32
Alignment explanation
Indices: 1119638--1119708 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1119628 AGCTTCGTAG
* *
1119638 CGATACATTGTATCGATAGAAAACTTATGTAT
1 CGATACATTGTATCAATACAAAACTTATGTAT
*
1119670 CGATACATTGTATCAATACAACACTTATGTAT
1 CGATACATTGTATCAATACAAAACTTATGTAT
1119702 CGATACA
1 CGATACA
1119709 AATCGTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCAATACAAAACTTATGTAT
Found at i:1121957 original size:142 final size:138
Alignment explanation
Indices: 1121621--1122138 Score: 513
Period size: 142 Copynumber: 3.7 Consensus size: 138
1121611 GAAAATCTCA
* * * * *
1121621 TTCGTACCTTATTAGAGAACCAGAAAGATACAAAAAGTTTTCAAGATTTTTGTA-CCTATCGGAA
1 TTCGTACCTTAATAGAGAACCA-AAAGATACAAAAAGTTTTGAAGATTTCTATACCCTA-C-AAA
* * * * * *
1121685 AACCAT-AGAAATTTAGAAATC-TAGAAAAATTAAGATAACAATATTTATTTAATTGTTTAATTT
63 AACCATAAG-AATATAAAAATCTTA-AAAAATTAAGATAATAATTTTTATTGAATTTTTTAATTT
* * *
1121748 CCAAAAAGTTCAT
126 CAAAAAAATTTAT
* * * * *
1121761 TTCGTACCTTAATAGAGATCAAAAAGATACGAAGAGTTTTGAAGATTTCTATACCCATATGAAAA
1 TTCGTACCTTAATAGAGAACCAAAAGATACAAAAAGTTTTGAAGATTTCTATACCC-TA-CAAAA
*
1121826 ACCATAAGAATATAAAAATCTTAAAAAATTAAGACAATAATTTTTATTGAATTTTTTTAATTTCA
64 ACCATAAGAATATAAAAATCTTAAAAAATTAAGATAATAATTTTTATTGAA-TTTTTTAATTTCA
1121891 AAAAAATTTAT
128 AAAAAATTTAT
* * *
1121902 TTCGTACCTTAGTAGAGAACCAAAACGATACGAAAAGTTTTGAAGATTTTTATACCCTTACAGAA
1 TTCGTACCTTAATAGAGAACCAAAA-GATACAAAAAGTTTTGAAGATTTCTATACCC-TACA-AA
* * * * * *
1121967 AACCATAGGAATATTAACAATCTTGAATAATTAAGATAATAATTTTTATTTG-ATTTTTCATTTT
63 AACCATAAGAATA-TAAAAATCTTAAAAAATTAAGATAATAATTTTTA-TTGAATTTTTTAATTT
* *
1122031 TAAGAAAATTTAT
126 CAAAAAAATTTAT
* * * *
1122044 TTCGTACTTTAATTGAAAACCGAAAAGAGACAAAAAGTTTTGAAGATTTCTATACCCCTACAAAT
1 TTCGTACCTTAATAGAGAACC-AAAAGATACAAAAAGTTTTGAAGATTTCTATA-CCCTACAAA-
* *
1122109 AACCATAGGAATAATAAAAATATATAAAAA
63 AACCATAAGAAT-ATAAAAATCT-TAAAAA
1122139 TAATTAATTT
Statistics
Matches: 317, Mismatches: 47, Indels: 25
0.81 0.12 0.06
Matches are distributed among these distances:
139 26 0.08
140 63 0.20
141 52 0.16
142 130 0.41
143 43 0.14
144 3 0.01
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.34
Consensus pattern (138 bp):
TTCGTACCTTAATAGAGAACCAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCTACAAAAAC
CATAAGAATATAAAAATCTTAAAAAATTAAGATAATAATTTTTATTGAATTTTTTAATTTCAAAA
AAATTTAT
Found at i:1122941 original size:28 final size:29
Alignment explanation
Indices: 1122887--1122941 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
1122877 AAATACACCA
* *
1122887 ACATTCAAGCATATACTAACATGAACAAC
1 ACATTCAAGCATAGACTAACATAAACAAC
1122916 ACATATCAAGCA-AGAC-AACATAAACA
1 ACAT-TCAAGCATAGACTAACATAAACA
1122942 CACGTGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.39
29 7 0.30
30 7 0.30
ACGTcount: A:0.53, C:0.24, G:0.07, T:0.16
Consensus pattern (29 bp):
ACATTCAAGCATAGACTAACATAAACAAC
Found at i:1123062 original size:20 final size:21
Alignment explanation
Indices: 1123037--1123088 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1123027 CAAGGTTTAG
1123037 CTTTTTTTTCTATTTTC-TCT
1 CTTTTTTTTCTATTTTCGTCT
*
1123057 CTTTTTCTTTCTTTTTTCGTCT
1 CTTTTT-TTTCTATTTTCGTCT
1123079 -TTTTTTTTCT
1 CTTTTTTTTCT
1123089 CACTTGCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 11 0.38
21 15 0.52
22 3 0.10
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (21 bp):
CTTTTTTTTCTATTTTCGTCT
Found at i:1124054 original size:154 final size:153
Alignment explanation
Indices: 1123753--1124029 Score: 337
Period size: 154 Copynumber: 1.8 Consensus size: 153
1123743 AAAAAATGAA
* * * *
1123753 AAACTCATGAAAATGAATGAATTTTTAAAACTGACTTAATATATATTAAATGATAATATTTGATG
1 AAACTCATGAAAATGAATGAATTTTTAAAAATAACTTAATATAAATTAAATAATAATATTTGATG
* * * *
1123818 AATTTTAAAAATTATAAACTAAGAAAAATCCCTCTAAAAATTGTTATGGAATAGAAAACTCATTT
66 AATTTTAAAAATTAAAAACCAAGAAAAATCCCTCTAAAAA-TGATACGGAATAGAAAACTCATTT
*
1123883 TTCGAGAAAAAGCAAATTTTAAGG
130 TTCGAGAAAAAGAAAATTTTAAGG
* * * * *
1123907 AAACTCTTGAAAATGAAT-ATTTTTTCAAAAATAATTTAATGTAAATTAACTAATAATATTTGAT
1 AAACTCATGAAAATGAATGAATTTTT-AAAAATAACTTAATATAAATTAAATAATAATATTTGAT
* * *
1123971 GAATTTTAAAAATTAAAAACCGATAAAAATCCC-CTTAAAA-GAATACGGAGA-AGAAAACT
65 GAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCTAAAAATG-ATACGGA-ATAGAAAACT
1124030 TTGTATTTCG
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
151 1 0.01
152 13 0.12
153 13 0.12
154 77 0.74
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (153 bp):
AAACTCATGAAAATGAATGAATTTTTAAAAATAACTTAATATAAATTAAATAATAATATTTGATG
AATTTTAAAAATTAAAAACCAAGAAAAATCCCTCTAAAAATGATACGGAATAGAAAACTCATTTT
TCGAGAAAAAGAAAATTTTAAGG
Found at i:1128810 original size:38 final size:38
Alignment explanation
Indices: 1128768--1128899 Score: 99
Period size: 38 Copynumber: 3.5 Consensus size: 38
1128758 CATAAGTTAG
*
1128768 AACAAAAACTACTATTCTAAACTAATGGTATGGCTT-AA
1 AACAAAAACTACTATTCTAAACTAATGGCATGG-TTCAA
* * ** *
1128806 AACAAAAA-TCACTATTCTTAATTGGTTGCATGGTTCAA
1 AACAAAAACT-ACTATTCTAAACTAATGGCATGGTTCAA
* ** * *
1128844 AACAAAAACCACTATTCTAAA-TCGGTGACACGGTTCAA
1 AACAAAAACTACTATTCTAAACT-AATGGCATGGTTCAA
* *
1128882 AGCAAAAACCACTATTCT
1 AACAAAAACTACTATTCT
1128900 CAATTGATGG
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
37 4 0.05
38 74 0.95
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (38 bp):
AACAAAAACTACTATTCTAAACTAATGGCATGGTTCAA
Found at i:1131791 original size:21 final size:20
Alignment explanation
Indices: 1131745--1131791 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
1131735 TTTGAAGTTG
*
1131745 ATTTTGATGAAAAACGATGT
1 ATTTTGATGAAAAACGAAGT
*
1131765 AATTTGAAGTGAAAAAC-AAGT
1 ATTTTG-A-TGAAAAACGAAGT
1131786 ATTTTG
1 ATTTTG
1131792 CAAAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAACGAAGT
Found at i:1131929 original size:13 final size:13
Alignment explanation
Indices: 1131911--1131936 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1131901 TATAATCCCC
1131911 CTGTATCGATACA
1 CTGTATCGATACA
1131924 CTGTATCGATACA
1 CTGTATCGATACA
1131937 AAGAAAGATG
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:1138368 original size:58 final size:58
Alignment explanation
Indices: 1138249--1138590 Score: 255
Period size: 58 Copynumber: 5.9 Consensus size: 58
1138239 TATATGTTTG
** * * **
1138249 AAATTGCATAAAAGTCCCTAGAT-ATGAAAAATGACCTAAATGACCCCAATATACATG
1 AAATTGCATAAAAGTCCCTAGATCATGAAAAATGACCTAAATGACATCAAAATTCAAA
* * * *
1138306 AAATTGCATAAAAGTTCTTAGATCATGAAAAATAACCTAAATGGCATCAAAATTCAAA
1 AAATTGCATAAAAGTCCCTAGATCATGAAAAATGACCTAAATGACATCAAAATTCAAA
* * * *
1138364 AAATT--ATACCAAAGTCCCTAAATCAT-AGTAAATGACCTAAATGACATAAAAATTCACA
1 AAATTGCATA--AAAGTCCCTAGATCATGA-AAAATGACCTAAATGACATCAAAATTCAAA
* ** * * * * * * *
1138422 AAATTACATCTAAGTCCCTATATCATGAAAAATGACTTGAATGAAATTAAAA-TGAATG
1 AAATTGCATAAAAGTCCCTAGATCATGAAAAATGACCTAAATGACATCAAAATTCAA-A
* * * * * *
1138480 AAA-TGATATAAAAGTCCTTAGATCATGGAAAATGGCTTAAATGGCATCAAAATTCAAA
1 AAATTG-CATAAAAGTCCCTAGATCATGAAAAATGACCTAAATGACATCAAAATTCAAA
** * * ** * *
1138538 AAATTGCATCTAAGTTCCTAGATCTTGGTAAATGACCTAAATGATATAAAAAT
1 AAATTGCATAAAAGTCCCTAGATCATGAAAAATGACCTAAATGACATCAAAAT
1138591 ACAAGAATTC
Statistics
Matches: 219, Mismatches: 55, Indels: 21
0.74 0.19 0.07
Matches are distributed among these distances:
56 3 0.01
57 25 0.11
58 183 0.84
59 6 0.03
60 2 0.01
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.27
Consensus pattern (58 bp):
AAATTGCATAAAAGTCCCTAGATCATGAAAAATGACCTAAATGACATCAAAATTCAAA
Found at i:1138630 original size:174 final size:174
Alignment explanation
Indices: 1138313--1138639 Score: 419
Period size: 174 Copynumber: 1.9 Consensus size: 174
1138303 ATGAAATTGC
* *
1138313 ATAAAAGTTCTTAGATCATGAAAAATAACCTAAATGGCATCAAAATTCAAAAAATTATACCAAAG
1 ATAAAAGTCCTTAGATCATGAAAAATAACCTAAATGGCATCAAAATTCAAAAAATTACACCAAAG
* * *
1138378 TCCCTAAATCATAGTAAATGACCTAAATGACATAAAAATTCACAAAATTACATCTAAGTCCCTAT
66 TCCCTAAATCATAGTAAATGACCTAAATGACATAAAAATTCACAAAATTACATCGAAGTCACTAA
*
1138443 ATCATGAAAAATGACTTGAATGAAATTAAAATGAATGAAATGAT
131 ATCATGAAAAATGACTAGAATGAAATTAAAATGAATGAAATGAT
* ** * * * *
1138487 ATAAAAGTCCTTAGATCATGGAAAATGGCTTAAATGGCATCAAAATTCAAAAAATTGCATCTAAG
1 ATAAAAGTCCTTAGATCATGAAAAATAACCTAAATGGCATCAAAATTCAAAAAATTACACCAAAG
* * * * *
1138552 TTCCTAGATCTTGGTAAATGACCTAAATGATATAAAAA-T-ACAAGAATTCACAT-GAATGGTCA
66 TCCCTAAATCATAGTAAATGACCTAAATGACATAAAAATTCACAA-AATT-ACATCGAA--GTCA
*
1138614 C-AAATCATGGAAAATGACTAGAATGA
127 CTAAATCATGAAAAATGACTAGAATGA
1138640 CCCAAAGCAC
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
172 4 0.03
173 7 0.05
174 115 0.88
175 4 0.03
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (174 bp):
ATAAAAGTCCTTAGATCATGAAAAATAACCTAAATGGCATCAAAATTCAAAAAATTACACCAAAG
TCCCTAAATCATAGTAAATGACCTAAATGACATAAAAATTCACAAAATTACATCGAAGTCACTAA
ATCATGAAAAATGACTAGAATGAAATTAAAATGAATGAAATGAT
Found at i:1139807 original size:15 final size:15
Alignment explanation
Indices: 1139777--1139815 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1139767 AGAAAAAAAA
*
1139777 AGGAAAAGAGAGAGAG
1 AGGAAAA-AAAGAGAG
1139793 AGGAAAAAAAGAGAG
1 AGGAAAAAAAGAGAG
1139808 A-GAAAAAA
1 AGGAAAAAA
1139816 CATGAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.32
15 8 0.36
16 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AGGAAAAAAAGAGAG
Found at i:1141070 original size:16 final size:15
Alignment explanation
Indices: 1141039--1141085 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
1141029 ATAAGTTTTA
1141039 TTATCTAAT-AAA-T
1 TTATCTAATAAAATT
1141052 TTATCTAACTAAAATT
1 TTATCTAA-TAAAATT
*
1141068 TTATTTAATTAAAATT
1 TTATCTAA-TAAAATT
1141084 TT
1 TT
1141086 TATTTACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 8 0.28
14 1 0.03
15 3 0.10
16 17 0.59
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATCTAATAAAATT
Found at i:1141088 original size:17 final size:16
Alignment explanation
Indices: 1141051--1141091 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1141041 ATCTAATAAA
*
1141051 TTTATCTAACTAAAAT
1 TTTATTTAACTAAAAT
*
1141067 TTTATTTAATTAAAATT
1 TTTATTTAACTAAAA-T
1141084 TTTATTTA
1 TTTATTTA
1141092 CAAATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTATTTAACTAAAAT
Found at i:1141199 original size:14 final size:14
Alignment explanation
Indices: 1141180--1141206 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1141170 TCAGTTCAAA
1141180 AATATTTTTATATT
1 AATATTTTTATATT
1141194 AATATTTTTATAT
1 AATATTTTTATAT
1141207 ATATTGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATATTTTTATATT
Found at i:1156469 original size:28 final size:28
Alignment explanation
Indices: 1156422--1156503 Score: 76
Period size: 33 Copynumber: 2.8 Consensus size: 28
1156412 ATTTTTAACT
** *
1156422 AGGGGGAGAAAATCTCTTTAACCGATTA
1 AGGGGGAGAATTTCTTTTTAACCGATTA
1156450 AGGGGGAGAATTTCTTTTTAATGAAACCGATTA
1 AGGGGGAGAATTTC-TTTT--T--AACCGATTA
*
1156483 AAGGGGAGAATTT-TTTTTAAC
1 AGGGGGAGAATTTCTTTTTAAC
1156504 GAAGGCCTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
27 3 0.07
28 12 0.27
29 4 0.09
31 5 0.11
33 21 0.47
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (28 bp):
AGGGGGAGAATTTCTTTTTAACCGATTA
Found at i:1156478 original size:33 final size:32
Alignment explanation
Indices: 1156441--1156502 Score: 106
Period size: 33 Copynumber: 1.9 Consensus size: 32
1156431 AAATCTCTTT
*
1156441 AACCGATTAAGGGGGAGAATTTCTTTTTAATGA
1 AACCGATTAAAGGGGAGAATTT-TTTTTAATGA
1156474 AACCGATTAAAGGGGAGAATTTTTTTTAA
1 AACCGATTAAAGGGGAGAATTTTTTTTAA
1156503 CGAAGGCCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (32 bp):
AACCGATTAAAGGGGAGAATTTTTTTTAATGA
Found at i:1157115 original size:20 final size:19
Alignment explanation
Indices: 1157072--1157125 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
1157062 ACATTATGCT
* **
1157072 TTGTATCGATACATGTTCA
1 TTGTATAGATACATGGACA
*
1157091 TTGTATTGATACATGGACAA
1 TTGTATAGATACATGGAC-A
1157111 TTGTATAGATACATG
1 TTGTATAGATACATG
1157126 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (19 bp):
TTGTATAGATACATGGACA
Found at i:1158481 original size:20 final size:20
Alignment explanation
Indices: 1158439--1158482 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
1158429 ATTTATTATT
* *
1158439 AAAATAAAAAATTGTTTTAG
1 AAAATAAAAAAATGATTTAG
1158459 AAAATGAAAAAAATGATTT-G
1 AAAAT-AAAAAAATGATTTAG
1158479 AAAA
1 AAAA
1158483 ATGATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.27
Consensus pattern (20 bp):
AAAATAAAAAAATGATTTAG
Found at i:1158906 original size:15 final size:16
Alignment explanation
Indices: 1158886--1158915 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1158876 TTTTCAATTG
1158886 CTTTC-ATGAAAAAAT
1 CTTTCAATGAAAAAAT
1158901 CTTTCAATGAAAAAA
1 CTTTCAATGAAAAAA
1158916 GTTTATTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (16 bp):
CTTTCAATGAAAAAAT
Found at i:1160616 original size:106 final size:105
Alignment explanation
Indices: 1160443--1160759 Score: 391
Period size: 107 Copynumber: 3.0 Consensus size: 105
1160433 CCCTAAAGAT
* * * * *
1160443 AAAATTATAAAAATATGTAGAAACAAAGAGAAAATTTAAGTTTTTTTATGGAGAATGGGGTTGGA
1 AAAATTATAAAAATATTTAGGAACAAAGAGAAAATTTGAG-TTTTTTATGAAGAATGGGGTTAGA
* * * **
1160508 GTATCCCCTCGGAGTAGTGGGTTTGGAATATCCCCAAAGTGG
65 GTATCCCCTCGGAGTAGTGGG-TTAGAGTTTCCCCAAAGTCA
* * * * *
1160550 AAGATTATGAAAATATTTAGGAATAAAGAGAAAATTTGAGTTTTTTATGAAGAATGAGGTCAGAG
1 AAAATTATAAAAATATTTAGGAACAAAGAGAAAATTTGAGTTTTTTATGAAGAATGGGGTTAGAG
* * *
1160615 TATCCCTTTGGGAGTAGTAGGGTTAGAGTTTCTCCAAAGTCA
66 TATCCC-CTCGGAGTAGT-GGGTTAGAGTTTCCCCAAAGTCA
* *
1160657 AAAATTATAAAAATATTTAGGAACAAAGAGAAAATTTGAGTTTTTTATGAAGAACGGGGTTAGAA
1 AAAATTATAAAAATATTTAGGAACAAAGAGAAAATTTGAGTTTTTTATGAAGAATGGGGTTAGAG
* *
1160722 TATCTCCTCAGAGTAGTGGGGTTAGAGTTTCCCCAAAG
66 TATCCCCTCGGAGTAGT-GGGTTAGAGTTTCCCCAAAG
1160760 ATAAAATTAT
Statistics
Matches: 177, Mismatches: 31, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
106 54 0.31
107 120 0.68
108 3 0.02
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (105 bp):
AAAATTATAAAAATATTTAGGAACAAAGAGAAAATTTGAGTTTTTTATGAAGAATGGGGTTAGAG
TATCCCCTCGGAGTAGTGGGTTAGAGTTTCCCCAAAGTCA
Found at i:1161063 original size:168 final size:169
Alignment explanation
Indices: 1160785--1161122 Score: 588
Period size: 168 Copynumber: 2.0 Consensus size: 169
1160775 GAGAAAATTC
* * * *
1160785 AAGTTTTTTATGGAGAACGAGGTTAGAGTATCCCCTCCAAGTTGTGGGTTTGGTGTTTTCCCAAA
1 AAGTTTTTTATAGAGAACGAGGTTAGAGTATCCCCTCAAAGTAGTGGGTTTGGAGTTTTCCCAAA
*
1160850 GTCAAAGATAATAAAAATATTACGAACAAAGAGAAAAGGGTAAAAGACACTTACCTTCTAAAATT
66 GTCAAAGATAATAAAAATATTACGAACAAAGAGAAAAGGGTAAAAGACACTTACCTCCTAAAATT
*
1160915 TTATAAAAAATACACTTAC-CCCCTAACATTTAAAAAAT
131 TTATAAAAAAAACACTTACTCCCCTAACATTTAAAAAAT
*
1160953 AAGTTTTTTATAGAGAACGAGGTTAGAGTATCTCCTCAAAGTAGTGGGTTTGGAGTTTTCCCAAA
1 AAGTTTTTTATAGAGAACGAGGTTAGAGTATCCCCTCAAAGTAGTGGGTTTGGAGTTTTCCCAAA
*
1161018 GTCAAAGATAATAAAAATATTATGAACAAAGAGAAAAGGGTAAAAGACACTTACCTCCTAAAATT
66 GTCAAAGATAATAAAAATATTACGAACAAAGAGAAAAGGGTAAAAGACACTTACCTCCTAAAATT
*
1161083 TTATAAAAAAAACACTTACTCCCCTAACGTTTAAAAAAT
131 TTATAAAAAAAACACTTACTCCCCTAACATTTAAAAAAT
1161122 A
1 A
1161123 TCCACTCACC
Statistics
Matches: 160, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
168 141 0.88
169 19 0.12
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (169 bp):
AAGTTTTTTATAGAGAACGAGGTTAGAGTATCCCCTCAAAGTAGTGGGTTTGGAGTTTTCCCAAA
GTCAAAGATAATAAAAATATTACGAACAAAGAGAAAAGGGTAAAAGACACTTACCTCCTAAAATT
TTATAAAAAAAACACTTACTCCCCTAACATTTAAAAAAT
Found at i:1164030 original size:21 final size:19
Alignment explanation
Indices: 1163996--1164053 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 19
1163986 ATAGGAGTGG
1163996 AAAATGC-AGATTTTTAGAAA
1 AAAATGCAAG-TTTTT-GAAA
*
1164016 AGAAATGCAAGTTTTTGTAGAT
1 A-AAATGCAAGTTTTTG-A-AA
1164038 AAAATGCAAGTTTTTG
1 AAAATGCAAGTTTTTG
1164054 GAAAGGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 2 0.06
21 27 0.82
22 4 0.12
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.34
Consensus pattern (19 bp):
AAAATGCAAGTTTTTGAAA
Found at i:1165639 original size:84 final size:85
Alignment explanation
Indices: 1165482--1165648 Score: 185
Period size: 84 Copynumber: 2.0 Consensus size: 85
1165472 CCCCAAAGAT
* * * * * * *
1165482 AAAATTATACGAAGGAAAAGTTTAAGTTTTTTTTGGAGATTAAGGTTATAGTATCCCCTTAGAGA
1 AAAATTATACGAAAGAAAAGTTTAAG-TTTTTTTAGAGATCAAGATTAGAGTATCCCCTCAGAAA
* * *
1165547 AGTGGGGATTGAGTTTCCTAA
65 AGTAGGGATGGAATTTCCTAA
* * *
1165568 AAAATTATGCGAAAGAAAAGTTTGAG-TTTTTTAGAGGTCAAGATTAGAGTATCCCCTCA-AAAT
1 AAAATTATACGAAAGAAAAGTTTAAGTTTTTTTAGAGATCAAGATTAGAGTATCCCCTCAGAAA-
1165631 AGTAGGGATGGAATTTCC
65 AGTAGGGATGGAATTTCC
1165649 CCAAATCGAA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
83 2 0.03
84 42 0.63
86 23 0.34
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (85 bp):
AAAATTATACGAAAGAAAAGTTTAAGTTTTTTTAGAGATCAAGATTAGAGTATCCCCTCAGAAAA
GTAGGGATGGAATTTCCTAA
Found at i:1167561 original size:54 final size:53
Alignment explanation
Indices: 1167502--1167614 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 53
1167492 TGAAACCGAT
* *
1167502 TCATGCAATT-AAAGCATCAATATGCATGGAATTAAATCATGGCAAAAAGAAAAA
1 TCATGCAATTGAAAGCATCAATATACATGGAATCAAATCATGGC--AAAGAAAAA
* * *
1167556 TCATGC-ATTGCATGGATCAATATACATGGAATCAAATCATGGCAAAGAAAAA
1 TCATGCAATTGAAAGCATCAATATACATGGAATCAAATCATGGCAAAGAAAAA
1167608 TCATGCA
1 TCATGCA
1167615 CGAGGGCAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
52 15 0.29
53 3 0.06
54 34 0.65
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.23
Consensus pattern (53 bp):
TCATGCAATTGAAAGCATCAATATACATGGAATCAAATCATGGCAAAGAAAAA
Found at i:1167933 original size:20 final size:21
Alignment explanation
Indices: 1167904--1167949 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1167894 AAATGAACAG
* * *
1167904 CAAAATAAAAGGAAGCAAAAA
1 CAAAAAAAAAGAAAACAAAAA
1167925 -AAAAAAAAAGAAAACAAAAA
1 CAAAAAAAAAGAAAACAAAAA
1167945 CAAAA
1 CAAAA
1167950 TTGAAATAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.80, C:0.09, G:0.09, T:0.02
Consensus pattern (21 bp):
CAAAAAAAAAGAAAACAAAAA
Found at i:1169289 original size:158 final size:155
Alignment explanation
Indices: 1169093--1169546 Score: 520
Period size: 158 Copynumber: 2.9 Consensus size: 155
1169083 AGATATTTTC
1169093 ATATTAATCGTTTTTAATCTTTTATATTCCTATGGGTGTCCGTAGGGGTATAAAAGATCAAAAAA
1 ATATTAATC-TTTTTAATCTTTTATATTCCTATGGGTGTCCGTAGGGGTATAAAAGATCAAAAAA
* *
1169158 AATTTCTTATCTTTTCAGGTTTCCATTAAGGTACGAAATGATATTTTTCAAAAATAAATAAAACT
65 AATTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAATGATATTTTT-AAAAATAAATAAAA-T
* * ** *
1169223 TAAATTAATACTCCA-ATAATTAAAATAA
128 AAAATTAATACT-CATACAACCAAAAGAA
* * * * * **
1169251 ATATTAATCATTTTTAATATTTTATAGTCCTATAGGTGTCCATAGGGGTATAAAGGATCTTAAAA
1 ATATTAATC-TTTTTAATCTTTTATATTCCTATGGGTGTCCGTAGGGGTATAAAAGATCAAAAAA
** * ** *
1169316 CTTTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAAAGGCATTTCTTAAAAACAAAT-AAATA
65 AATTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAATGATATTT-TTAAAAATAAATAAAATA
* *
1169380 AAATTAATACTTATACAACCGAAAGAA
129 AAATTAATACTCATACAACCAAAAGAA
* * * * *
1169407 ACATTAATCTTTTCAATCTTTTGTATTCCCATGGGGGTCCGTAGGGGTATAAAAGATTTCAAAAA
1 ATATTAATCTTTTTAATCTTTTATATTCCTATGGGTGTCCGTAGGGGTATAAAAGA--TC-AAAA
* *
1169472 AAAAATT-GTATCTTTTCGGGTTTCCATTAAGATACGAAATGATATTTTTTAAAAAATAAATAAA
63 AAAATTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAATGATA-TTTTT-AAAAATAAATAAA
1169536 ATAAAA-TAATA
126 ATAAAATTAATA
1169547 AATAAAATAA
Statistics
Matches: 245, Mismatches: 43, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
155 39 0.16
156 28 0.11
157 40 0.16
158 128 0.52
159 10 0.04
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (155 bp):
ATATTAATCTTTTTAATCTTTTATATTCCTATGGGTGTCCGTAGGGGTATAAAAGATCAAAAAAA
ATTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAATGATATTTTTAAAAATAAATAAAATAAA
ATTAATACTCATACAACCAAAAGAA
Found at i:1169546 original size:17 final size:16
Alignment explanation
Indices: 1169521--1169557 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
1169511 TGATATTTTT
1169521 TAAAAAATAAATAAAA
1 TAAAAAATAAATAAAA
1169537 TAAAATAATAAATAAAA
1 TAAAA-AATAAATAAAA
1169554 TAAA
1 TAAA
1169558 TACATATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAAATAAATAAAA
Found at i:1174705 original size:13 final size:13
Alignment explanation
Indices: 1174687--1174712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1174677 CAATTTTTTG
1174687 TGTATCGATACAT
1 TGTATCGATACAT
1174700 TGTATCGATACAT
1 TGTATCGATACAT
1174713 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1174777 original size:21 final size:21
Alignment explanation
Indices: 1174751--1174826 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1174741 CTGCCAAGAA
*
1174751 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1174772 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1174792 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1174813 ATGTATCGATACAT
1 ATGTATCGATACAT
1174827 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1174797 original size:20 final size:20
Alignment explanation
Indices: 1174772--1174844 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1174762 CATCTTTTTT
1174772 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1174792 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1174813 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1174833 ATGTATCGATAC
1 ATGTATCGATAC
1174845 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1174808 original size:41 final size:41
Alignment explanation
Indices: 1174751--1174844 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1174741 CTGCCAAGAA
*
1174751 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1174792 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1174833 ATGTATCGATAC
1 ATGTATCGATAC
1174845 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1177279 original size:13 final size:13
Alignment explanation
Indices: 1177261--1177299 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1177251 ATAATCACCC
*
1177261 TGTATCGATACAG
1 TGTATCGATACAA
1177274 TGTATCGATACAA
1 TGTATCGATACAA
1177287 TGTATCGATACAA
1 TGTATCGATACAA
1177300 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1177310 original size:20 final size:20
Alignment explanation
Indices: 1177285--1177363 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1177275 GTATCGATAC
1177285 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1177305 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1177330 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
1177350 CATGTATCGATACA
1 AATGTATCGATACA
1177364 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1179398 original size:15 final size:15
Alignment explanation
Indices: 1179378--1179408 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1179368 ATTTCGTTTG
*
1179378 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1179393 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1179408 G
1 G
1179409 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1182755 original size:13 final size:13
Alignment explanation
Indices: 1182737--1182762 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1182727 CAATTTTTTG
1182737 TGTATCGATACAT
1 TGTATCGATACAT
1182750 TGTATCGATACAT
1 TGTATCGATACAT
1182763 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1182827 original size:21 final size:21
Alignment explanation
Indices: 1182801--1182876 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1182791 CTGCCAAGAA
*
1182801 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1182822 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1182842 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1182863 ATGTATCGATACAT
1 ATGTATCGATACAT
1182877 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1182847 original size:20 final size:20
Alignment explanation
Indices: 1182822--1182894 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1182812 CATCTTTTTT
1182822 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1182842 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1182863 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1182883 ATGTATCGATAC
1 ATGTATCGATAC
1182895 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1182858 original size:41 final size:41
Alignment explanation
Indices: 1182801--1182894 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1182791 CTGCCAAGAA
*
1182801 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1182842 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1182883 ATGTATCGATAC
1 ATGTATCGATAC
1182895 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1190530 original size:3 final size:3
Alignment explanation
Indices: 1190524--1190555 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1190514 AAACAAGAGC
1190524 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1190556 ATGAAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1192047 original size:43 final size:44
Alignment explanation
Indices: 1191990--1192084 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 44
1191980 TGGGAAATGA
* * * * *
1191990 CCTTTGTCTTATTGTTTACCGGTTGGCTTAGTCC-CTAGTCAA-C
1 CCTTTATCTCATTGTTTACCGATTGGCTCAGTCCTC-AGTAAACC
*
1192033 CCTTTATCTCATTGTTTACCTATTGGCTCAGTCCTCAGTAAACC
1 CCTTTATCTCATTGTTTACCGATTGGCTCAGTCCTCAGTAAACC
1192077 CCTTTATC
1 CCTTTATC
1192085 CCCTCGGTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 34 0.77
44 10 0.23
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.41
Consensus pattern (44 bp):
CCTTTATCTCATTGTTTACCGATTGGCTCAGTCCTCAGTAAACC
Found at i:1192195 original size:87 final size:87
Alignment explanation
Indices: 1192016--1192211 Score: 207
Period size: 87 Copynumber: 2.3 Consensus size: 87
1192006 TACCGGTTGG
* * * *
1192016 CTTAGTCCCTAGTCAACCCTTTATCTCATTGTTTACCTATTGGCTCAGTCCTCAGTAAACCCCTT
1 CTTAGTCCCTGGTCAACCCTTCATCTCATTGTTTACCTATCGGCTCAGTCCTCAGCAAACCCCTT
*
1192081 TATCCCCTCGGTGACCTATCGA
66 TATCCCCTCGGTGACCTATCAA
* * * * * *
1192103 TTTAGTGCCTGGTCAACCCTTCATCTCATTGTTTACTTGTCGGC-CTAGTCC-CTGACAAACCTC
1 CTTAGTCCCTGGTCAACCCTTCATCTCATTGTTTACCTATCGGCTC-AGTCCTCAG-CAAACCCC
* * * *
1192166 TTTATCCCTTTGGTGGCCTGTCAA
64 TTTATCCCCTCGGTGACCTATCAA
* *
1192190 CTTAGTCCCCGGCCAACCCTTC
1 CTTAGTCCCTGGTCAACCCTTC
1192212 TTTATCCTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
86 3 0.03
87 85 0.97
ACGTcount: A:0.17, C:0.34, G:0.15, T:0.34
Consensus pattern (87 bp):
CTTAGTCCCTGGTCAACCCTTCATCTCATTGTTTACCTATCGGCTCAGTCCTCAGCAAACCCCTT
TATCCCCTCGGTGACCTATCAA
Found at i:1192266 original size:42 final size:42
Alignment explanation
Indices: 1192208--1192964 Score: 415
Period size: 42 Copynumber: 18.4 Consensus size: 42
1192198 CCGGCCAACC
* * *
1192208 CTTCTTTATCC-TTTGTCTGCCTATTGACTTTGACCCGGGAGA
1 CTTCTTTA-CCTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
* * * ***
1192250 CTTTTTTACCTTTTGTCTGCCTGTTGGCTTTGACCTTAAAGA
1 CTTCTTTACCTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
* * *
1192292 ---CTTT---TTTTGTCTGCATGTCGGCTTTGACCTAGGAGA
1 CTTCTTTACCTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
** ** * *
1192328 CTTCTTTTTCTTTTGTCTGCCTATCGATTTTGAGCTGAGAGA
1 CTTCTTTACCTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
* ** * * ***
1192370 TTTCTTTACCTTTTGTCTGCCCGTCAGCTTCGACCCAAGAGA
1 CTTCTTTACCTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
* * * * **
1192412 CTTCTTTACCTTTTTTCTG-CTCGTCAGCTTTAACCTAAGAGA
1 CTTCTTTACCTTTTGTCTGCCT-ATCGGCTTTGACCTGGGAGA
** * * * *
1192454 CTT-TTTTTCTTTTGTTTGCC-AGTCAGCTTTGACCCGAGAGA
1 CTTCTTTACCTTTTGTCTGCCTA-TCGGCTTTGACCTGGGAGA
* * * *
1192495 CTTTTTTACCTTTTCTCTGCTCGT-T-GGCTTCGA-CTCGAGAGA
1 CTTCTTTACCTTTTGTCTGC-C-TATCGGCTTTGACCT-GGGAGA
* * *
1192537 CTTCTTTACCTTTTGTCTACCTGTCAGCTTTGACACT-GGAGA
1 CTTCTTTACCTTTTGTCTGCCTATCGGCTTTGAC-CTGGGAGA
* * **
1192579 CTTCTTTACCTTTTATCTGCCTGTCGGCTTTGACCTTAGAGA
1 CTTCTTTACCTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
* * * *
1192621 CTTTTTTATC-TTTGTCTACTCGT-T-GGCTTTGACCTAGGAGA
1 CTTCTTTACCTTTTGTCTGC-C-TATCGGCTTTGACCTGGGAGA
** * * * *
1192662 CTTCTTTTTCTTTTGTCTGCCCATCGGTTTTGACTTAGGAGA
1 CTTCTTTACCTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
* * *
1192704 CTTCTTTATC-TTTGTATG-CTCATCGGCTTTGACTTGGGAGA
1 CTTCTTTACCTTTTGTCTGCCT-ATCGGCTTTGACCTGGGAGA
* * ** * * *
1192745 CTTCTTTACCCTTTGTCTACCCGTTGGCTTTGACTTTGGAGA
1 CTTCTTTACCTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
* * *
1192787 CTTCTTTACGC-TTTGTCTACCCATCGGCTTTGACCCGGGAGA
1 CTTCTTTAC-CTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
* *
1192829 -TT-TATT---TTTTGTCTGGCC-ATCGGCATTGACTTGGGAGA
1 CTTCT-TTACCTTTTGTCT-GCCTATCGGCTTTGACCTGGGAGA
* *
1192867 CTTCTTTACCTTTTGTCTG-CTCATCGACTTTGACTTGGGAGA
1 CTTCTTTACCTTTTGTCTGCCT-ATCGGCTTTGACCTGGGAGA
* ** * * * *
1192909 ----TTTATCTTTCATTTGCCCATCGACTTTGACCCGGGAGA
1 CTTCTTTACCTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
*
1192947 CTTCTTTACCATTTGTCT
1 CTTCTTTACCTTTTGTCT
1192965 CTCCATCGAC
Statistics
Matches: 561, Mismatches: 110, Indels: 88
0.74 0.14 0.12
Matches are distributed among these distances:
36 27 0.05
38 53 0.09
39 14 0.02
40 5 0.01
41 109 0.19
42 346 0.62
43 5 0.01
44 2 0.00
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (42 bp):
CTTCTTTACCTTTTGTCTGCCTATCGGCTTTGACCTGGGAGA
Found at i:1192329 original size:36 final size:37
Alignment explanation
Indices: 1192260--1192336 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
1192250 CTTTTTTACC
* *
1192260 TTTTGTCTGCCTGTTGGCTTTGACCTTAAAGACTT-T
1 TTTTGTCTGCATGTCGGCTTTGACCTTAAAGACTTCT
*
1192296 TTTTGTCTGCATGTCGGCTTTGACC-TAGGAGACTTCT
1 TTTTGTCTGCATGTCGGCTTTGACCTTA-AAGACTTCT
1192333 TTTT
1 TTTT
1192337 CTTTTGTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 2 0.06
36 29 0.81
37 5 0.14
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (37 bp):
TTTTGTCTGCATGTCGGCTTTGACCTTAAAGACTTCT
Found at i:1192643 original size:125 final size:126
Alignment explanation
Indices: 1192208--1192884 Score: 475
Period size: 125 Copynumber: 5.5 Consensus size: 126
1192198 CCGGCCAACC
* * * * * * * *
1192208 CTTCTTTATCCTTTGTCTGCCTATTGACTTTGACCCGGGAGACTTTTTTACCTTTTGTCTGCCTG
1 CTTCTTTATCTTTTATCTGCCTATCGGCTTTGACCTGAGAGACTTTTTTACCTTTTGTCTACCCG
* * * * * *
1192273 TTGGCTTTGAC-CTTAAAGA---CTTT---TTTTGTCTGCATGTCGGCTTTGACCTAGGAGA
66 TTGGCTTCGACTC-GAGAGACTTCTTTACCTTTTGTCTACCTGTCAGCTTTGACCTAGGAGA
* * ** * *
1192328 CTTCTTTTTCTTTTGTCTGCCTATCGATTTTGAGCTGAGAGA-TTTCTTTACCTTTTGTCTGCCC
1 CTTCTTTATCTTTTATCTGCCTATCGGCTTTGACCTGAGAGACTTT-TTTACCTTTTGTCTACCC
** * * * * * *
1192392 GTCAGCTTCGACCCAAGAGACTTCTTTACCTTTTTTCT-GCTCGTCAGCTTTAACCTAAGAGA
65 GTTGGCTTCGACTCGAGAGACTTCTTTACCTTTTGTCTACCT-GTCAGCTTTGACCTAGGAGA
* * * * * * * *
1192454 CTT-TTTTTCTTTTGTTTGCC-AGTCAGCTTTGACCCGAGAGACTTTTTTACCTTTTCTCTGCTC
1 CTTCTTTATCTTTTATCTGCCTA-TCGGCTTTGACCTGAGAGACTTTTTTACCTTTTGTCTACCC
1192517 GTTGGCTTCGACTCGAGAGACTTCTTTACCTTTTGTCTACCTGTCAGCTTTGACACT-GGAGA
65 GTTGGCTTCGACTCGAGAGACTTCTTTACCTTTTGTCTACCTGTCAGCTTTGAC-CTAGGAGA
* * * * *
1192579 CTTCTTTACCTTTTATCTGCCTGTCGGCTTTGACCTTAGAGACTTTTTTATC-TTTGTCTACTCG
1 CTTCTTTATCTTTTATCTGCCTATCGGCTTTGACCTGAGAGACTTTTTTACCTTTTGTCTACCCG
* * ** * ** * * *
1192643 TTGGCTTTGAC-CTAGGAGACTTCTTTTTCTTTTGTCTGCCCATCGGTTTTGACTTAGGAGA
66 TTGGCTTCGACTCGA-GAGACTTCTTTACCTTTTGTCTACCTGTCAGCTTTGACCTAGGAGA
* * * *
1192704 CTTCTTTATCTTTGTA--TG-CTCATCGGCTTTGACTTGGGAGACTTCTTTACCCTTTGTCTACC
1 CTTCTTTATCTTT-TATCTGCCT-ATCGGCTTTGACCTGAGAGACTTTTTTACCTTTTGTCTACC
* * ** * **
1192766 CGTTGGCTTTGACTTTG-GAGACTTCTTTACGC-TTTGTCTACCCATCGGCTTTGACCCGGGAGA
64 CGTTGGCTTCGAC-TCGAGAGACTTCTTTAC-CTTTTGTCTACCTGTCAGCTTTGACCTAGGAGA
* * * * * *
1192829 ----TTTATTTTTTGTCTGGCC-ATCGGCATTGACTTGGGAGACTTCTTTACCTTTTGTCT
1 CTTCTTTATCTTTTATCT-GCCTATCGGCTTTGACCTGAGAGACTTTTTTACCTTTTGTCT
1192885 GCTCATCGAC
Statistics
Matches: 453, Mismatches: 77, Indels: 52
0.78 0.13 0.09
Matches are distributed among these distances:
119 3 0.01
120 66 0.15
121 9 0.02
122 37 0.08
123 7 0.02
124 31 0.07
125 225 0.50
126 75 0.17
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (126 bp):
CTTCTTTATCTTTTATCTGCCTATCGGCTTTGACCTGAGAGACTTTTTTACCTTTTGTCTACCCG
TTGGCTTCGACTCGAGAGACTTCTTTACCTTTTGTCTACCTGTCAGCTTTGACCTAGGAGA
Found at i:1192652 original size:167 final size:162
Alignment explanation
Indices: 1192235--1192884 Score: 511
Period size: 167 Copynumber: 4.0 Consensus size: 162
1192225 TGCCTATTGA
* * * *
1192235 CTTTGACCCGGGAGACTTTTTTACCTTTTGTCTGCCTGTTGGCTTTGACCTTAAAGACTTTTTTT
1 CTTTGACCCTGGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTTTTT
* * * *
1192300 GTCTG-C-A-T-GTCGGCTTTGACCTAGGAGACTTCTTTTTCTTTTGTCTGCCTATCGATTTTGA
66 CTTTGTCTACTCGTCGGCTTTGACCGAGGAGACTTCTTTTTCTTTTGTCTGCCT-T-GGTTTTGA
* *
1192361 GCTGAGAGATTTCTTTACCTTTTGTCTGCCCGTCAG
129 -CTGAGAGACTTCTTTACCTTTTGTCT-CCTGTCAG
* ** * * * *
1192397 CTTCGACCCAAGAGACTTCTTTACCTTTTTTCTG-CTCGTCAGCTTTAACCTAAGAGACTTTTTT
1 CTTTGACCCTGGAGACTTCTTTACCTTTTGTCTGCCT-GTCGGCTTTGACCTTAGAGACTTTTTT
* * * * * *
1192461 TCTTTTGTTTGC-CAGTCAGCTTTGACCCGA-GAGACTT-TTTTACCTTTTCTCTGCTCGTTGGC
65 TC-TTTGTCTACTC-GTCGGCTTTGA-CCGAGGAGACTTCTTTT-TCTTTTGTCTGC-C-TTGGT
*
1192523 TTCGACTCGAGAGACTTCTTTACCTTTTGTCTACCTGTCAG
124 TTTGACT-GAGAGACTTCTTTACCTTTTGTCT-CCTGTCAG
* *
1192564 CTTTGACACTGGAGACTTCTTTACCTTTTATCTGCCTGTCGGCTTTGACCTTAGAGACTTTTTTA
1 CTTTGACCCTGGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTTTT-
* * *
1192629 TCTTTGTCTACTCGTTGGCTTTGACCTAGGAGACTTCTTTTTCTTTTGTCTGCCCATCGGTTTTG
65 TCTTTGTCTACTCGTCGGCTTTGACCGAGGAGACTTCTTTTTCTTTTGTCTG-CC-TTGGTTTTG
* * * * * *
1192694 ACTTAGGAGACTTCTTTATC-TTTGTATGCTCATCGG
128 ACTGA-GAGACTTCTTTACCTTTTGTCTCCT-GTCAG
* * * * * * *
1192730 CTTTGA-CTTGGGAGACTTCTTTACCCTTTGTCTACCCGTTGGCTTTGACTTTGGAGACTTCTTT
1 CTTTGACCCT-GGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGACCTTAGAGACTT-TTT
** * * * * **
1192794 ACGCTTTGTCTACCCATCGGCTTTGACCCG-GGAGA--T-TTATT-TTTTGTCTGGCCATCGGCA
64 -TTCTTTGTCTACTCGTCGGCTTTGA-CCGAGGAGACTTCTTTTTCTTTTGTCT-GCC-TTGGTT
*
1192854 TTGACTTGGGAGACTTCTTTACCTTTTGTCT
125 TTGAC-TGAGAGACTTCTTTACCTTTTGTCT
1192885 GCTCATCGAC
Statistics
Matches: 390, Mismatches: 71, Indels: 52
0.76 0.14 0.10
Matches are distributed among these distances:
161 2 0.01
162 52 0.13
163 36 0.09
164 12 0.03
165 4 0.01
166 68 0.17
167 198 0.51
168 17 0.04
169 1 0.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (162 bp):
CTTTGACCCTGGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTTTTT
CTTTGTCTACTCGTCGGCTTTGACCGAGGAGACTTCTTTTTCTTTTGTCTGCCTTGGTTTTGACT
GAGAGACTTCTTTACCTTTTGTCTCCTGTCAG
Found at i:1192840 original size:38 final size:38
Alignment explanation
Indices: 1192798--1192946 Score: 120
Period size: 38 Copynumber: 3.8 Consensus size: 38
1192788 TTCTTTACGC
* *
1192798 TTTGTCTACCCATCGGCTTTGACCCGGGAGATTTATTT
1 TTTGTCTGCCCATCGACTTTGACCCGGGAGATTTATTT
* * * **
1192836 TTTGTCTGGCCATCGGCATTGACTTGGGAGACTTCT-TTACCT
1 TTTGTCTGCCCATCGACTTTGACCCGGGAGA-TT-TATT---T
* ** *
1192878 TTTGTCTGCTCATCGACTTTGACTTGGGAGATTTATCT
1 TTTGTCTGCCCATCGACTTTGACCCGGGAGATTTATTT
** *
1192916 TTCATTTGCCCATCGACTTTGACCCGGGAGA
1 TTTGTCTGCCCATCGACTTTGACCCGGGAGA
1192947 CTTCTTTACC
Statistics
Matches: 89, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
38 52 0.58
39 4 0.04
40 2 0.02
41 3 0.03
42 28 0.31
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (38 bp):
TTTGTCTGCCCATCGACTTTGACCCGGGAGATTTATTT
Found at i:1192872 original size:80 final size:80
Alignment explanation
Indices: 1192672--1192983 Score: 279
Period size: 80 Copynumber: 3.9 Consensus size: 80
1192662 CTTCTTTTTC
* * * * * *
1192672 TTTTGTCTGCCCATCGGTTTTGACTTAGGAGACTTCTTTATC-TTTGTATGCTCATCGGCTTTGA
1 TTTTGTCTGCCCATCGGCTTTGACTTGGGAGACTTCTTTACCATTTGTCTGCCCATCGACTTTGA
** * *
1192736 CTTGGGAGACTTCTT
66 CCCGGGAGATTTATT
* * * * * *
1192751 TACCCTTTGTCTACCCGTTGGCTTTGACTTTGGAGACTTCTTTACGC-TTTGTCTACCCATCGGC
1 T----TTTGTCTGCCCATCGGCTTTGACTTGGGAGACTTCTTTAC-CATTTGTCTGCCCATCGAC
1192815 TTTGACCCGGGAGATTTATT
61 TTTGACCCGGGAGATTTATT
* * * *
1192835 TTTTGTCTGGCCATCGGCATTGACTTGGGAGACTTCTTTACCTTTTGTCTGCTCATCGACTTTGA
1 TTTTGTCTGCCCATCGGCTTTGACTTGGGAGACTTCTTTACCATTTGTCTGCCCATCGACTTTGA
** *
1192900 CTTGGGAGATTTATC
66 CCCGGGAGATTTATT
** * * ** *
1192915 TTTCATTTGCCCATCGACTTTGACCCGGGAGACTTCTTTACCATTTGTCT-CTCCATCGACTTAG
1 TTTTGTCTGCCCATCGGCTTTGACTTGGGAGACTTCTTTACCATTTGTCTGC-CCATCGACTTTG
1192979 ACCCG
65 ACCCG
1192984 AGAAACTCCT
Statistics
Matches: 188, Mismatches: 38, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
79 3 0.02
80 119 0.63
83 34 0.18
84 32 0.17
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (80 bp):
TTTTGTCTGCCCATCGGCTTTGACTTGGGAGACTTCTTTACCATTTGTCTGCCCATCGACTTTGA
CCCGGGAGATTTATT
Found at i:1192962 original size:122 final size:121
Alignment explanation
Indices: 1192699--1192972 Score: 283
Period size: 122 Copynumber: 2.2 Consensus size: 121
1192689 TTTTGACTTA
* *
1192699 GGAGACTTCTTTATCTTTGTATGCTCATCGGCTTTGACTTGGGAGACTTCTTTACCCTTTGTCTA
1 GGAGACTTCTTTA-CTTTGTCTGCTCATCGGCATTGACTTGGGAGACTTCTTTACCCTTTGTCTA
* * * * * *
1192764 CCCGTTGGCTTTGACTTTGGAGACTTCTTTACGCTTTGTCTACCCATCGGCTTTGACCCG
65 CCCATCGACTTTGACTTGGGAGACTTCTTTACGATTTG--T-CCCATCGACTTTGACCCG
* * * *
1192824 GGAGATTTATTT--TTTGTCTGGC-CATCGGCATTGACTTGGGAGACTTCTTTACCTTTTGTCTG
1 GGAGACTTCTTTACTTTGTCT-GCTCATCGGCATTGACTTGGGAGACTTCTTTACCCTTTGTCTA
* *
1192886 CTCATCGACTTTGACTTGGGAGATTTATCTTT-C-ATTTG-CCCATCGACTTTGACCCG
65 CCCATCGACTTTGACTTGGGAGA-CT-TCTTTACGATTTGTCCCATCGACTTTGACCCG
1192942 GGAGACTTCTTTACCATTTGTCT-CTCCATCG
1 GGAGACTTCTTTA-C-TTTGTCTGCT-CATCG
1192973 ACTTAGACCC
Statistics
Matches: 124, Mismatches: 16, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
118 27 0.22
120 1 0.01
122 77 0.62
123 4 0.03
124 5 0.04
125 10 0.08
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.40
Consensus pattern (121 bp):
GGAGACTTCTTTACTTTGTCTGCTCATCGGCATTGACTTGGGAGACTTCTTTACCCTTTGTCTAC
CCATCGACTTTGACTTGGGAGACTTCTTTACGATTTGTCCCATCGACTTTGACCCG
Found at i:1194177 original size:26 final size:26
Alignment explanation
Indices: 1194146--1194202 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
1194136 GCAAAAGGAA
* *
1194146 GAAAAAAATAGAAACAA-AGCAGCAATC
1 GAAAAAAA-AGAAA-AACACCAACAATC
1194173 GAAAAAAAAGAAAAACACCAACAATC
1 GAAAAAAAAGAAAAACACCAACAATC
1194199 GAAA
1 GAAA
1194203 CTAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 17 0.63
27 8 0.30
ACGTcount: A:0.67, C:0.16, G:0.12, T:0.05
Consensus pattern (26 bp):
GAAAAAAAAGAAAAACACCAACAATC
Found at i:1195704 original size:162 final size:159
Alignment explanation
Indices: 1195287--1195733 Score: 442
Period size: 162 Copynumber: 2.8 Consensus size: 159
1195277 ATAGTTCCAT
* * *
1195287 ATTAATCGTTTTTAATCTTTAATATTCCTATGGGTGT-TCGTAGGGGTATAAAAGA-TAAAAAAA
1 ATTAATCGTTTTCAATCTTTTATATTCCTATGGGTGTCT-GTAGGGGTATAAAAGATTTAAAAAA
* * * * * *
1195350 AATTCGTATC-TTTTCAAGTTTTCATTAAGGTACGAAATGATATTTTTCAAAAATAAATAAAAAT
65 AATTTGTATCTTTTTCAGGTTTCCATTAAGGTACGAAAGGACATTTTTCAAAAATAAATAAAAAC
* * * *
1195414 TAAATTAACACTCTAATAATTAAAATAAAT
130 TAAATTAACACTCTAACAACTAAAAGAAAC
* * * *
1195444 ATTAATCGTTTTGAATTTTTTATATTCCTATGGGTATCTGTAGGGGTATAAAGGATCTT-AAAAA
1 ATTAATCGTTTTCAATCTTTTATATTCCTATGGGTGTCTGTAGGGGTATAAAAGAT-TTAAAAAA
** * * * * * *
1195508 CTTTTATTAT-TTTTTCGGGTCTCCATTAAGGTACGAAAGGGCATTTCTTGAAAACT-AATAAAT
65 AATTT-GTATCTTTTTCAGGTTTCCATTAAGGTACGAAAGGACATTT-TTCAAAAATAAAT-AA-
* *
1195571 AAACTAAATTTAATACT-TGTACAACTAAAAGAAAC
126 AAACTAAA-TTAACACTCT-AACAACTAAAAGAAAC
* * *
1195606 ATTAATC-TTTTCAATCTTTTGTATTCCCATGGGGGTCTGTAGGGGTATAAAAGATTTCAAAAAA
1 ATTAATCGTTTTCAATCTTTTATATTCCTATGGGTGTCTGTAGGGGTATAAAAGATTT-AAAAAA
* * **
1195670 AATTTGTATCTTTTTCAGGTTTCCATTAAGGTACGAAATGATACTTTTAAAAAAATAAATAAAA
65 AATTTGTATCTTTTTCAGGTTTCCATTAAGGTACGAAAGGACA-TTTTTCAAAAATAAATAAAA
1195734 TAAAGTAATA
Statistics
Matches: 231, Mismatches: 44, Indels: 26
0.77 0.15 0.09
Matches are distributed among these distances:
157 48 0.21
158 8 0.03
159 35 0.15
160 11 0.05
161 54 0.23
162 69 0.30
163 6 0.03
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (159 bp):
ATTAATCGTTTTCAATCTTTTATATTCCTATGGGTGTCTGTAGGGGTATAAAAGATTTAAAAAAA
ATTTGTATCTTTTTCAGGTTTCCATTAAGGTACGAAAGGACATTTTTCAAAAATAAATAAAAACT
AAATTAACACTCTAACAACTAAAAGAAAC
Found at i:1195737 original size:17 final size:17
Alignment explanation
Indices: 1195717--1195754 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1195707 ATGATACTTT
1195717 TAAAAAAATAAATAAAA
1 TAAAAAAATAAATAAAA
**
1195734 TAAAGTAATAAATAAAA
1 TAAAAAAATAAATAAAA
1195751 TAAA
1 TAAA
1195755 TGCATATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAAAAATAAATAAAA
Found at i:1201040 original size:21 final size:20
Alignment explanation
Indices: 1200989--1201042 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
1200979 TATTTAAGAC
1200989 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
*
1201009 ATGTATTGATACATTCACTT
1 ATGTATCGATACATTCACTT
1201029 ATTGTATCGATACA
1 A-TGTATCGATACA
1201043 AATTGTCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:1201726 original size:52 final size:52
Alignment explanation
Indices: 1201664--1201771 Score: 135
Period size: 52 Copynumber: 2.1 Consensus size: 52
1201654 GTAATGTGCA
* *
1201664 GATTCATGGCCTACAACACCAGACCTAATGATGATAAAAGTGCCAATATGCT
1 GATTCATGGCCAACAACACCAGACCTAAAGATGATAAAAGTGCCAATATGCT
**** * * *
1201716 GATTCATGGCCAACAACTTTGGACTTAAAGATGATAAAGGTGCCAATGTGCT
1 GATTCATGGCCAACAACACCAGACCTAAAGATGATAAAAGTGCCAATATGCT
1201768 GATT
1 GATT
1201772 TAAGGCTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (52 bp):
GATTCATGGCCAACAACACCAGACCTAAAGATGATAAAAGTGCCAATATGCT
Found at i:1201846 original size:50 final size:50
Alignment explanation
Indices: 1201706--1201942 Score: 172
Period size: 52 Copynumber: 4.6 Consensus size: 50
1201696 GATAAAAGTG
* * * * * *
1201706 CCAATATGCTGATTCATGGCCAACAACTTTGGACTTAAAGATGATAAAGG-TG
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGATTTAAAGATG---AAGGTTA
* * * *
1201758 CCAATGTGCTGATTTAAGGCTAATGATATTTGGATTTAAAGATGAAGGTTA
1 CCAATGTGCTGATTCAAGGCCAACGACA-TTGGATTTAAAGATGAAGGTTA
* * * *
1201809 CCAATGTGCTGATTCAAGGCTAGCGACATTGGATTTAAAGACAAT-AAGGGTG
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGATTTAAAG---ATGAAGGTTA
* ** ** * * * *
1201861 CCAATGTGCTGATTCAATGCCATTGATGTTGGACTTACAGATGAATGTTT
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGATTTAAAGATGAAGGTTA
* *
1201911 CCAATGAGCTGATTTAAGGCCAACGACATTGG
1 CCAATGTGCTGATTCAAGGCCAACGACATTGG
1201943 GCTTAGAAGG
Statistics
Matches: 145, Mismatches: 34, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
49 2 0.01
50 45 0.31
51 25 0.17
52 57 0.39
53 16 0.11
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (50 bp):
CCAATGTGCTGATTCAAGGCCAACGACATTGGATTTAAAGATGAAGGTTA
Found at i:1201930 original size:102 final size:103
Alignment explanation
Indices: 1201713--1201947 Score: 274
Period size: 103 Copynumber: 2.3 Consensus size: 103
1201703 GTGCCAATAT
* * * ** *
1201713 GCTGATTCATGGCCAACAACTTTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTTAAGGC
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGACAATAAAGGTGCCAATGTGCTGATTCAAGGC
* * * *
1201778 TAATGATATTTGGATTTAAAGATGAAGGTTACCAATGT
66 CAATGATAGTTGGACTTAAAGATGAAGGTTACCAATGA
* * * * *
1201816 GCTGATTCAAGGCTAGCGACATTGGATTTAAAGACAATAAGGGTGCCAATGTGCTGATTCAATGC
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGACAATAAAGGTGCCAATGTGCTGATTCAAGGC
* * * *
1201881 CATTGAT-GTTGGACTTACAGATGAATGTTTCCAATGA
66 CAATGATAGTTGGACTTAAAGATGAAGGTTACCAATGA
* *
1201918 GCTGATTTAAGGCCAACGACATTGGGCTTA
1 GCTGATTCAAGGCCAACGACATTGGACTTA
1201948 GAAGGAGATG
Statistics
Matches: 108, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
102 49 0.45
103 59 0.55
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (103 bp):
GCTGATTCAAGGCCAACGACATTGGACTTAAAGACAATAAAGGTGCCAATGTGCTGATTCAAGGC
CAATGATAGTTGGACTTAAAGATGAAGGTTACCAATGA
Found at i:1202082 original size:33 final size:33
Alignment explanation
Indices: 1202027--1202148 Score: 158
Period size: 33 Copynumber: 3.7 Consensus size: 33
1202017 ATATGCCATT
1202027 AACTTATGTGGGC-TTAAAAAGAGGTTACCACC
1 AACTTATGTGGGCTTTAAAAAGAGGTTACCACC
* * *
1202059 AACTTATGTGAGCTTTAAAAAGAGGTTGCCACT
1 AACTTATGTGGGCTTTAAAAAGAGGTTACCACC
* * *
1202092 AACTTGTGTGGGCTTTAAAATGAGG-TAGCTACC
1 AACTTATGTGGGCTTTAAAAAGAGGTTA-CCACC
*
1202125 AACTTGTGTGGGCTTTAAAAAGAG
1 AACTTATGTGGGCTTTAAAAAGAG
1202149 TTGTTCCATT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.17
33 65 0.83
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (33 bp):
AACTTATGTGGGCTTTAAAAAGAGGTTACCACC
Found at i:1202140 original size:66 final size:65
Alignment explanation
Indices: 1202020--1202148 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 65
1202010 TGAAAAAATA
*
1202020 TGCCATTAACTTATGTGGGCTTAAAAAGAGGTTACCACCAACTTATGTGAGCTTTAAAAAGAGGT
1 TGCCACTAACTTATGTGGGCTTAAAAAGAGGTTACCACCAACTTATGTGAGCTTTAAAAAGAGGT
* * * * *
1202085 TGCCACTAACTTGTGTGGGCTTTAAAATGAGG-TAGCTACCAACTTGTGTGGGCTTTAAAAAGAG
1 TGCCACTAACTTATGTGGGC-TTAAAAAGAGGTTA-CCACCAACTTATGTGAGCTTTAAAAAGAG
1202149 TTGTTCCATT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
65 20 0.36
66 36 0.64
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (65 bp):
TGCCACTAACTTATGTGGGCTTAAAAAGAGGTTACCACCAACTTATGTGAGCTTTAAAAAGAGGT
Found at i:1202688 original size:35 final size:35
Alignment explanation
Indices: 1202649--1202719 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
1202639 ACGTTTTTGA
*
1202649 CAAAACTTTGACAATAGTTTCTTGGTAAAAAGGGT
1 CAAAACTTTAACAATAGTTTCTTGGTAAAAAGGGT
1202684 CAAAACTTTAACAATAGTTTCTTGGTAAAAAGGGT
1 CAAAACTTTAACAATAGTTTCTTGGTAAAAAGGGT
1202719 C
1 C
1202720 TTGTCATGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (35 bp):
CAAAACTTTAACAATAGTTTCTTGGTAAAAAGGGT
Found at i:1202889 original size:14 final size:14
Alignment explanation
Indices: 1202870--1202896 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1202860 TGGTAATATA
1202870 AATGCATGATGTGG
1 AATGCATGATGTGG
1202884 AATGCATGATGTG
1 AATGCATGATGTG
1202897 AAGTCTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (14 bp):
AATGCATGATGTGG
Found at i:1206287 original size:20 final size:20
Alignment explanation
Indices: 1206262--1206302 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1206252 TGGCCTTGAC
1206262 TTTGTCTAGGTCAACTTCAA
1 TTTGTCTAGGTCAACTTCAA
1206282 TTTGTCTAGGTCAACTTCAA
1 TTTGTCTAGGTCAACTTCAA
1206302 T
1 T
1206303 CCTTTTCTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (20 bp):
TTTGTCTAGGTCAACTTCAA
Found at i:1214882 original size:19 final size:19
Alignment explanation
Indices: 1214858--1214925 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1214848 AATTCAACAA
1214858 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1214877 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1214892 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1214909 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1214926 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1214897 original size:13 final size:13
Alignment explanation
Indices: 1214879--1214903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1214869 ACATAAGTTT
1214879 TGTATCGATACAA
1 TGTATCGATACAA
1214892 TGTATCGATACA
1 TGTATCGATACA
1214904 TAAGTATTGT
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:1214901 original size:32 final size:32
Alignment explanation
Indices: 1214860--1214922 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1214850 TTCAACAATT
*
1214860 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1214892 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1214923 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1214983 original size:13 final size:13
Alignment explanation
Indices: 1214965--1214991 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1214955 CATTTTTCTA
1214965 TGTATCGATACAT
1 TGTATCGATACAT
1214978 TGTATCGATACAT
1 TGTATCGATACAT
1214991 T
1 T
1214992 TGGAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1217526 original size:28 final size:27
Alignment explanation
Indices: 1217459--1217527 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
1217449 CTTCACAATC
**
1217459 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
1217486 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
1217514 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1217528 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:1217569 original size:107 final size:105
Alignment explanation
Indices: 1217404--1217796 Score: 307
Period size: 107 Copynumber: 3.7 Consensus size: 105
1217394 TTCTATAATC
* *
1217404 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTC
1 GGGGATACTCCAACTCCGGTTTTA-TTCC--AAAAACACCAATTT-TTCACAATCGGGGATACTC
1217469 CAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
62 CAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* *
1217514 GGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCGGTTTTATTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCCA
** * ** * * * ** * *
1217578 ATCCTGGTTTTATTTTC---AAAACGCCAATTTTCCTTTAAT-C--
64 A-CCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTCCGA
* * * *
1217618 -GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATGCTCCAA
1 GGGGATACTCCAACTCCGGTTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* * *
1217682 CCTCGTTATTTCATCGGGGATACTCCAACCTCGTTACTTCCGA
65 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* * * * *** * * *
1217725 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
1217790 CCCGTTA
66 CCCGTTA
1217797 TTTTCGAAGG
Statistics
Matches: 218, Mismatches: 48, Indels: 37
0.72 0.16 0.12
Matches are distributed among these distances:
101 2 0.01
102 7 0.03
103 44 0.20
104 15 0.07
105 10 0.05
106 10 0.05
107 71 0.33
108 30 0.14
109 7 0.03
110 22 0.10
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (105 bp):
GGGGATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTCCGA
Found at i:1217599 original size:52 final size:53
Alignment explanation
Indices: 1217514--1217682 Score: 172
Period size: 52 Copynumber: 3.3 Consensus size: 53
1217504 TTATTTCCGA
* *
1217514 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTC-CAAAAACACCAATTTTTCCACAATC
* * **
1217566 GGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATTTCCAAAAACACCAATTTTTCC-ACAATC
* *
1217618 -GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTCCAAAAACACCAATTTTTCCACAATC
* *
1217669 GAGGATGCTCCAAC
1 GGGGATACTCCAAC
1217683 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
51 35 0.36
52 55 0.57
53 5 0.05
54 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (53 bp):
GGGGATACTCCAACTCCGGTTTTATTTCCAAAAACACCAATTTTTCCACAATC
Found at i:1217728 original size:28 final size:28
Alignment explanation
Indices: 1217671--1217739 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
1217661 TCACAATCGA
* * **
1217671 GGATGCTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCTCGTTACTTCAGAGG
*
1217699 GGATACTCCAACCTCGTTACTTCCGAGG
1 GGATACTCCAACCTCGTTACTTCAGAGG
1217727 GGATACTCCAACC
1 GGATACTCCAACC
1217740 CCGGCTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (28 bp):
GGATACTCCAACCTCGTTACTTCAGAGG
Found at i:1219612 original size:27 final size:27
Alignment explanation
Indices: 1219582--1219645 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
1219572 AAAATGGGGA
1219582 TGGAGTGTCCCCTCGGAGGAATGGAGT
1 TGGAGTGTCCCCTCGGAGGAATGGAGT
1219609 TGGAGTGTCCCCTCGGAGGAATGGAGT
1 TGGAGTGTCCCCTCGGAGGAATGGAGT
1219636 TGGAGTGTCC
1 TGGAGTGTCC
1219646 TCAACGATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.17, C:0.19, G:0.41, T:0.23
Consensus pattern (27 bp):
TGGAGTGTCCCCTCGGAGGAATGGAGT
Found at i:1221743 original size:21 final size:19
Alignment explanation
Indices: 1221719--1221774 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
1221709 TTCAACAATT
1221719 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAA-AGT-AA
* **
1221740 TGTATCGATACATAAGTGT
1 TGTATCGATACAAAAGTAA
1221759 TGTATCGATACAAAAG
1 TGTATCGATACAAAAG
1221775 CTACCCTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.48
20 3 0.10
21 13 0.42
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAA
Found at i:1224669 original size:13 final size:13
Alignment explanation
Indices: 1224651--1224675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1224641 CATAAAGTGT
1224651 TGTATCGATACAA
1 TGTATCGATACAA
1224664 TGTATCGATACA
1 TGTATCGATACA
1224676 TATTTTTTGT
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
Done.