Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 28 of 144
Found at i:6937883 original size:30 final size:29
Alignment explanation
Indices: 6937843--6938105 Score: 202
Period size: 29 Copynumber: 9.0 Consensus size: 29
6937833 GAAGGTCCCT
* * *
6937843 AAACTATCCAAAAATTATATTTTTAACCCC
1 AAACTTTCCAAAAATTACA-TTTTGACCCC
* *
6937873 AAACTTTCCAAAAATCATATTTTGACCCC
1 AAACTTTCCAAAAATTACATTTTGACCCC
* *
6937902 TAAAATTTCTAAAAAATTACATTTTG-CCCC
1 -AAACTTTC-CAAAAATTACATTTTGACCCC
**
6937932 AAACTTTCCAAAAATTATGTTTTGACCCC
1 AAACTTTCCAAAAATTACATTTTGACCCC
*
6937961 TAAAC-TTCATAAAAATTACATTTT-ACCCCC
1 -AAACTTTC-CAAAAATTACATTTTGA-CCCC
* * * *
6937991 TAAC-TTCCAAAAATTCCATTTTTAATCCC
1 AAACTTTCCAAAAATTACA-TTTTGACCCC
6938020 AAAC-TTCCAAAAATTACCA-TTTGACCCTC
1 AAACTTTCCAAAAATTA-CATTTTGACCC-C
* * *
6938049 GAA-TGTCCAAAAATTCCATTTTTGACCCC
1 AAACTTTCCAAAAATTACA-TTTTGACCCC
*
6938078 AAAATTTCCAAAAA-TACCATTTT-ACCCC
1 AAACTTTCCAAAAATTA-CATTTTGACCCC
6938106 CGGATGTCTA
Statistics
Matches: 190, Mismatches: 28, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
28 35 0.18
29 72 0.38
30 70 0.37
31 13 0.07
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (29 bp):
AAACTTTCCAAAAATTACATTTTGACCCC
Found at i:6937900 original size:29 final size:29
Alignment explanation
Indices: 6937843--6938092 Score: 185
Period size: 30 Copynumber: 8.5 Consensus size: 29
6937833 GAAGGTCCCT
* *
6937843 AAACTATCCAAAAATTATATTTTTAACCCC
1 AAACTTTCCAAAAATTATA-TTTTGACCCC
*
6937873 AAACTTTCCAAAAATCATATTTTGACCCC
1 AAACTTTCCAAAAATTATATTTTGACCCC
* * *
6937902 TAAAATTTCTAAAAAATTACATTTTG-CCCC
1 -AAACTTTC-CAAAAATTATATTTTGACCCC
*
6937932 AAACTTTCCAAAAATTATGTTTTGACCCC
1 AAACTTTCCAAAAATTATATTTTGACCCC
* *
6937961 TAAAC-TTCATAAAAATTACATTTT-ACCCCC
1 -AAACTTTC-CAAAAATTATATTTTGA-CCCC
* * *
6937991 TAAC-TTCCAAAAATTCCAT-TTTTAATCCC
1 AAACTTTCCAAAAATT--ATATTTTGACCCC
*
6938020 AAAC-TTCCAAAAATTACCA-TTTGACCCTC
1 AAACTTTCCAAAAATTA-TATTTTGACCC-C
* *
6938049 GAA-TGTCCAAAAATTCCAT-TTTTGACCCC
1 AAACTTTCCAAAAATT--ATATTTTGACCCC
*
6938078 AAAATTTCCAAAAAT
1 AAACTTTCCAAAAAT
6938093 ACCATTTTAC
Statistics
Matches: 176, Mismatches: 27, Indels: 34
0.74 0.11 0.14
Matches are distributed among these distances:
27 1 0.01
28 26 0.15
29 67 0.38
30 68 0.39
31 14 0.08
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.33
Consensus pattern (29 bp):
AAACTTTCCAAAAATTATATTTTGACCCC
Found at i:6938003 original size:58 final size:58
Alignment explanation
Indices: 6937839--6938162 Score: 256
Period size: 58 Copynumber: 5.5 Consensus size: 58
6937829 CCTAGAAGGT
* *
6937839 CCCTAAACTATCCAAAAATTATATTTTTAACCCCAAACTTTCCAAAAA-TCATATTTTGAC
1 CCCTAAACT-TCCAAAAATTACA-TTTTACCCCCAAACTTTCCAAAAATTCAT-TTTTGAC
* * *
6937899 CCCTAAAATTTCTAAAAAATTACATTTT-GCCCCAAACTTTCCAAAAATT-ATGTTTTGAC
1 CCCT-AAACTTC-CAAAAATTACATTTTACCCCCAAACTTTCCAAAAATTCAT-TTTTGAC
* * * *
6937958 CCCTAAACTTCATAAAAATTACATTTTACCCCCTAAC-TTCCAAAAATTCCATTTTTAAT
1 CCCTAAACTTC-CAAAAATTACATTTTACCCCCAAACTTTCCAAAAATT-CATTTTTGAC
* * * *
6938017 CCC-AAACTTCCAAAAATTACCATTTGACCCTCGAA-TGTCCAAAAATTCCATTTTTGAC
1 CCCTAAACTTCCAAAAATTA-CATTTTACCCCCAAACTTTCCAAAAATT-CATTTTTGAC
* * ** * * *
6938075 CCCAAAATTTCCAAAAA-TACCATTTTACCCCCGGA-TGTCTAAAAATTCCATTTTT-AA
1 CCCTAAACTTCCAAAAATTA-CATTTTACCCCCAAACTTTCCAAAAATT-CATTTTTGAC
*
6938132 CCTTAAACCTT--AAAAATTATCATTTTACCCC
1 CCCTAAA-CTTCCAAAAATTA-CATTTTACCCC
6938163 TGAATGTTCA
Statistics
Matches: 224, Mismatches: 29, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
56 5 0.02
57 27 0.12
58 108 0.48
59 58 0.26
60 13 0.06
61 13 0.06
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.33
Consensus pattern (58 bp):
CCCTAAACTTCCAAAAATTACATTTTACCCCCAAACTTTCCAAAAATTCATTTTTGAC
Found at i:6938238 original size:29 final size:29
Alignment explanation
Indices: 6937971--6938303 Score: 172
Period size: 29 Copynumber: 11.5 Consensus size: 29
6937961 TAAACTTCAT
* *
6937971 AAAAATTA-CATTTTACCCCCTAACT-TCC
1 AAAAATTACCATTTTACCCTCGAA-TGTCC
* *
6937999 AAAAATT-CCATTTTTAATCC-CAAACT-TCC
1 AAAAATTACCA-TTTT-ACCCTCGAA-TGTCC
*
6938028 AAAAATTACCATTTGACCCTCGAATGTCC
1 AAAAATTACCATTTTACCCTCGAATGTCC
* *
6938057 AAAAATT-CCATTTTTGACCC-CAAAATTTCC
1 AAAAATTACCA-TTTT-ACCCTC-GAATGTCC
* * *
6938087 AAAAA-TACCATTTTACCCCCGGATGTCT
1 AAAAATTACCATTTTACCCTCGAATGTCC
* ** ** *
6938115 AAAAATT-CCATTTTTAACCTTAAACCT-T
1 AAAAATTACCA-TTTTACCCTCGAATGTCC
* *
6938143 AAAAATTATCATTTTACCC-CTGAATGTTC
1 AAAAATTACCATTTTACCCTC-GAATGTCC
* * **
6938172 AAAACTTA-CATTTTTTA-CCTCGAACTTTTG
1 AAAAATTACCA--TTTTACCCTCGAA-TGTCC
* *
6938202 AAAGATTACCATTTTACCCTCGGATGTCC
1 AAAAATTACCATTTTACCCTCGAATGTCC
* **
6938231 AAAAATTA-CATTTTTGCCCTCGAGCGTCC
1 AAAAATTACCA-TTTTACCCTCGAATGTCC
* ** *
6938260 AAAAATTACCGTTTTACCCTCGAACCTCT
1 AAAAATTACCATTTTACCCTCGAATGTCC
6938289 AAAAATTACCATTTT
1 AAAAATTACCATTTT
6938304 GTCCCTGGGC
Statistics
Matches: 235, Mismatches: 46, Indels: 47
0.72 0.14 0.14
Matches are distributed among these distances:
28 54 0.23
29 133 0.57
30 46 0.20
31 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTCGAATGTCC
Found at i:6938277 original size:58 final size:58
Alignment explanation
Indices: 6937913--6938303 Score: 282
Period size: 58 Copynumber: 6.7 Consensus size: 58
6937903 AAAATTTCTA
* * * * *
6937913 AAAAATTA-CATTTTGCCC-CAAACTTTCCAAAAATT--ATGTTTTGACCCCTAAACTTCAT
1 AAAAATTACCATTTTACCCTCGAA-TGTCCAAAAATTACAT-TTTTGACCTC-AAACTTC-C
* * * *
6937971 AAAAATTA-CATTTTACCCCCTAACT-TCCAAAAATTCCATTTTTAATCC-CAAACTTCC
1 AAAAATTACCATTTTACCCTCGAA-TGTCCAAAAATTACATTTTTGA-CCTCAAACTTCC
* * * *
6938028 AAAAATTACCATTTGACCCTCGAATGTCCAAAAATTCCATTTTTGACCCCAAAATTTCC
1 AAAAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTGACCTC-AAACTTCC
* * * * * *
6938087 AAAAA-TACCATTTTACCCCCGGATGTCTAAAAATTCCATTTTTAACCTTAAACCTT--
1 AAAAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTGACCTCAAA-CTTCC
* * * * * **
6938143 AAAAATTATCATTTTACCC-CTGAATGTTCAAAACTTACATTTTTTACCTCGAACTTTTG
1 AAAAATTACCATTTTACCCTC-GAATGTCCAAAAATTACATTTTTGACCTCAAAC-TTCC
* * * * * *
6938202 AAAGATTACCATTTTACCCTCGGATGTCCAAAAATTACATTTTTGCCCTCGAGCGTCC
1 AAAAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTGACCTCAAACTTCC
* ** *
6938260 AAAAATTACCGTTTTACCCTCGAACCTCTAAAAATTACCATTTT
1 AAAAATTACCATTTTACCCTCGAATGTCCAAAAATTA-CATTTT
6938304 GTCCCTGGGC
Statistics
Matches: 274, Mismatches: 43, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
56 7 0.03
57 52 0.19
58 137 0.50
59 73 0.27
60 5 0.02
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTGACCTCAAACTTCC
Found at i:6941144 original size:71 final size:66
Alignment explanation
Indices: 6941045--6941191 Score: 188
Period size: 71 Copynumber: 2.1 Consensus size: 66
6941035 ACGTCTCGTG
*
6941045 CTCTCTGATTAGCACTATGTGTGCTCTCTGATT-AGCACTTTGTGTGCTCTCTGATTAGTACTTT
1 CTCTCTGATTAGCACTATGTGTGCTCTCTG-TTCAGCAC-TTATGTGCTCTCTG-TTAGTACTTT
6941109 GTGTA
63 G-GTA
*
6941114 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGTTGCCCAGCACTTATGTGCTCTCTGTTAGTACT
1 CTCTCTG--ATTAGCACTATGTGTGCTCTCTGTT---CAGCACTTATGTGCTCTCTGTTAGTACT
6941179 TTGGTA
61 TTGGTA
6941185 CTCTCTG
1 CTCTCTG
6941192 CTTGTTCCGT
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
69 7 0.10
70 2 0.03
71 32 0.46
72 11 0.16
73 13 0.19
74 5 0.07
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (66 bp):
CTCTCTGATTAGCACTATGTGTGCTCTCTGTTCAGCACTTATGTGCTCTCTGTTAGTACTTTGGT
A
Found at i:6941147 original size:25 final size:24
Alignment explanation
Indices: 6941021--6941146 Score: 145
Period size: 23 Copynumber: 5.4 Consensus size: 24
6941011 ACACTAGCGC
*
6941021 GCTCTCTGT-TTAGCAC-GTCTCGT
1 GCTCTCTGTATTAGCACTGTGT-GT
*
6941044 GCTCTCTG-ATTAGCACTATGTGT
1 GCTCTCTGTATTAGCACTGTGTGT
*
6941067 GCTCTCTG-ATTAGCACTTTGTGT
1 GCTCTCTGTATTAGCACTGTGTGT
* *
6941090 GCTCTCTG-ATTAGTACTTTGTGT
1 GCTCTCTGTATTAGCACTGTGTGT
*
6941113 ACTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-TATTAGCACTGTGTGT
6941138 GCTCTCTGT
1 GCTCTCTGT
6941147 TGCCCAGCAC
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
23 68 0.75
24 3 0.03
25 20 0.22
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (24 bp):
GCTCTCTGTATTAGCACTGTGTGT
Found at i:6945683 original size:25 final size:23
Alignment explanation
Indices: 6945557--6945681 Score: 162
Period size: 23 Copynumber: 5.3 Consensus size: 23
6945547 ACACTAGCGC
*
6945557 GCTCTCTGATTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
*
6945580 GCTCTCTGATTAGCACTATGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
6945603 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
6945626 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
6945649 ACTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
6945674 GCTCTCTG
1 GCTCTCTG
6945682 TTGCCCAGCA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 69 0.76
24 2 0.02
25 20 0.22
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.42
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:6945722 original size:71 final size:69
Alignment explanation
Indices: 6945581--6945727 Score: 194
Period size: 71 Copynumber: 2.1 Consensus size: 69
6945571 ACGTCTCGTG
*
6945581 CTCTCTGATTAGCACTATGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTTTG
1 CTCTCTGATTAGCACTATGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTTTG
6945646 TGTA
66 TGTA
*
6945650 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTG-TTGCCCAGCAC-TTATGTGCTCTCTG-TTAGT
1 CTCTCTG--ATTAGCACTATGTGTGCTCTCTGATT----AGCACTTTATGTGCTCTCTGATTAGT
6945712 ACTTTG-GTA
60 ACTTTGTGTA
6945721 CTCTCTG
1 CTCTCTG
6945728 CTTGTTCCGT
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
69 7 0.10
70 2 0.03
71 32 0.46
72 11 0.16
73 13 0.19
74 5 0.07
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (69 bp):
CTCTCTGATTAGCACTATGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTTTG
TGTA
Found at i:6948514 original size:20 final size:20
Alignment explanation
Indices: 6948478--6948515 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6948468 GGTAGAACTA
*
6948478 CATATTATATAAAAATTATT
1 CATATTATAAAAAAATTATT
6948498 CATATT-TAAAAAGAATTA
1 CATATTATAAAAA-AATTA
6948516 ATTACAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
CATATTATAAAAAAATTATT
Found at i:6949364 original size:15 final size:16
Alignment explanation
Indices: 6949318--6949368 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
6949308 AAAAAATTAT
*
6949318 TAATCTAAATAATATAA
1 TAAT-TAAATAATTTAA
*
6949335 TAATTAACT-ATTTAA
1 TAATTAAATAATTTAA
6949350 -AATTAAATAATTTAA
1 TAATTAAATAATTTAA
6949365 TAAT
1 TAAT
6949369 ATTTTCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 11 0.38
16 7 0.24
17 4 0.14
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTAAATAATTTAA
Found at i:6951176 original size:15 final size:16
Alignment explanation
Indices: 6951130--6951180 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
6951120 AAAAAATTAT
*
6951130 TAATCTAAATAATATAA
1 TAAT-TAAATAATTTAA
*
6951147 TAATTAACT-ATTTAA
1 TAATTAAATAATTTAA
6951162 -AATTAAATAATTTAA
1 TAATTAAATAATTTAA
6951177 TAAT
1 TAAT
6951181 ATTTTCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 11 0.38
16 7 0.24
17 4 0.14
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTAAATAATTTAA
Found at i:6952987 original size:15 final size:16
Alignment explanation
Indices: 6952941--6952991 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
6952931 AAAAAATTAT
*
6952941 TAATCTAAATAATATAA
1 TAAT-TAAATAATTTAA
*
6952958 TAATTAACT-ATTTAA
1 TAATTAAATAATTTAA
6952973 -AATTAAATAATTTAA
1 TAATTAAATAATTTAA
6952988 TAAT
1 TAAT
6952992 ATTTTCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 11 0.38
16 7 0.24
17 4 0.14
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTAAATAATTTAA
Found at i:6954798 original size:15 final size:16
Alignment explanation
Indices: 6954752--6954802 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
6954742 AAAAAATTAT
*
6954752 TAATCTAAATAATATAA
1 TAAT-TAAATAATTTAA
*
6954769 TAATTAACT-ATTTAA
1 TAATTAAATAATTTAA
6954784 -AATTAAATAATTTAA
1 TAATTAAATAATTTAA
6954799 TAAT
1 TAAT
6954803 ATTTTCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 11 0.38
16 7 0.24
17 4 0.14
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTAAATAATTTAA
Found at i:6956225 original size:38 final size:38
Alignment explanation
Indices: 6956174--6956249 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
6956164 TGTGCCTCGT
6956174 CTATGCAGAAGTGTAAAACTTTCTGGAATCTATTTACG
1 CTATGCAGAAGTGTAAAACTTTCTGGAATCTATTTACG
6956212 CTATGCAGAAGTGTAAAACTTTCTGGAATCTATTTACG
1 CTATGCAGAAGTGTAAAACTTTCTGGAATCTATTTACG
6956250 AGCATTTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (38 bp):
CTATGCAGAAGTGTAAAACTTTCTGGAATCTATTTACG
Found at i:6962577 original size:17 final size:17
Alignment explanation
Indices: 6962555--6962587 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6962545 GCAAACGAAA
6962555 AAGTCA-AACAGAAAACC
1 AAGTCAGAA-AGAAAACC
6962572 AAGTCAGAAAGAAAAC
1 AAGTCAGAAAGAAAAC
6962588 ATGCCTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.61, C:0.18, G:0.15, T:0.06
Consensus pattern (17 bp):
AAGTCAGAAAGAAAACC
Found at i:6966072 original size:26 final size:26
Alignment explanation
Indices: 6966009--6966082 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
6965999 AAAAAAAAAA
* *
6966009 TTAAAAATAATTTTAAAATATAAAATAT
1 TTAAAAA-AATTATAAAAT-TTAAATAT
* * * *
6966037 TTATAAAAATTCTAAAATTTATATTT
1 TTAAAAAAATTATAAAATTTAAATAT
6966063 TTAAAAAAATTATAAAATTT
1 TTAAAAAAATTATAAAATTT
6966083 CAAAAAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 23 0.59
27 10 0.26
28 6 0.15
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAAAAAAATTATAAAATTTAAATAT
Found at i:6966631 original size:13 final size:13
Alignment explanation
Indices: 6966613--6966638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6966603 ATTAAATTCA
6966613 TTTAATTTAAAAT
1 TTTAATTTAAAAT
6966626 TTTAATTTAAAAT
1 TTTAATTTAAAAT
6966639 GTCCCAAAAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAATTTAAAAT
Found at i:6967577 original size:23 final size:22
Alignment explanation
Indices: 6967528--6967575 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
6967518 ATAAATTTGG
*
6967528 AAAACAAGGAATTAAAAAAATC
1 AAAACAAGGAATTAAAAAAAAC
**
6967550 AAAACAAGGTTTTAAAAAAAAC
1 AAAACAAGGAATTAAAAAAAAC
6967572 AAAA
1 AAAA
6967576 ACCCAGATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAACAAGGAATTAAAAAAAAC
Found at i:6968258 original size:30 final size:30
Alignment explanation
Indices: 6968222--6968441 Score: 175
Period size: 29 Copynumber: 7.5 Consensus size: 30
6968212 TATTTTATCT
6968222 AAAAATCACATTTTGACCCCCAAACTTTCC
1 AAAAATCACATTTTGACCCCCAAACTTTCC
* *
6968252 AAAAATCACATTTT-AGCCCTCGAACTTTCC
1 AAAAATCACATTTTGA-CCCCCAAACTTTCC
* * * **
6968282 AAAAATTATATTTTGACACCCAAACTTTTT
1 AAAAATCACATTTTGACCCCCAAACTTTCC
* * * * *
6968312 AAAAATTATATTTTTG-CCTCCGAAC-ATCC
1 AAAAATCACA-TTTTGACCCCCAAACTTTCC
* * * *
6968341 AAAAATTACATTTTTACCCACGAAC-TTCC
1 AAAAATCACATTTTGACCCCCAAACTTTCC
* *
6968370 AAAAATCACATTTTAACCCTCAAAC-TTCC
1 AAAAATCACATTTTGACCCCCAAACTTTCC
* *
6968399 CAAAATCACATTTTGA-CCCTAAACTTTTCC
1 AAAAATCACATTTTGACCCCCAAAC-TTTCC
*
6968429 -AAAATTACATTTT
1 AAAAATCACATTTT
6968442 TACCACTGAA
Statistics
Matches: 155, Mismatches: 29, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
28 10 0.06
29 72 0.46
30 67 0.43
31 6 0.04
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (30 bp):
AAAAATCACATTTTGACCCCCAAACTTTCC
Found at i:6968354 original size:29 final size:29
Alignment explanation
Indices: 6968312--6968645 Score: 211
Period size: 29 Copynumber: 11.5 Consensus size: 29
6968302 CAAACTTTTT
* *
6968312 AAAAATTA-TATTTTTGCCTCCGAACATCC
1 AAAAATTACCATTTTTACC-CCGAACATCC
*
6968341 AAAAATTA-CATTTTTACCCACGAACTTCC
1 AAAAATTACCATTTTTACCC-CGAACATCC
* * * *
6968370 AAAAATCA-CATTTTAACCCTCAAACTTCC
1 AAAAATTACCATTTTTACCC-CGAACATCC
* * * ** *
6968399 CAAAATCA-CATTTTGACCCTAAACTTTTCC
1 AAAAATTACCATTTTTACCCCGAAC--ATCC
*
6968429 -AAAATTA-CATTTTTACCACTGAACATCC
1 AAAAATTACCATTTTTACC-CCGAACATCC
* * * * **
6968457 AAAAATTACCATTTTAACCTCAAATATGT
1 AAAAATTACCATTTTTACCCCGAACATCC
* * *
6968486 TAAAATTACCA-TTTTCCCCCGAGCATCC
1 AAAAATTACCATTTTTACCCCGAACATCC
* *
6968514 AAAAACTACCATTTTGACCCCGAACATCC
1 AAAAATTACCATTTTTACCCCGAACATCC
* *
6968543 AAAAATTACCA-TTCTACCCTCAAACATCC
1 AAAAATTACCATTTTTACCC-CGAACATCC
* * *
6968572 AAAAATTACCATTTTAAACCCGAACTTTTCC
1 AAAAATTACCATTTTTACCCCGAAC--ATCC
*
6968603 -AAAATTACCA-TTTTACCCCCGAGCATCC
1 AAAAATTACCATTTTTA-CCCCGAACATCC
* *
6968631 AAAATTTACCGTTTT
1 AAAAATTACCATTTT
6968646 GCCCTCAAAT
Statistics
Matches: 241, Mismatches: 50, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
28 35 0.15
29 161 0.67
30 42 0.17
31 3 0.01
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.30
Consensus pattern (29 bp):
AAAAATTACCATTTTTACCCCGAACATCC
Found at i:6968402 original size:59 final size:58
Alignment explanation
Indices: 6968222--6968480 Score: 220
Period size: 58 Copynumber: 4.4 Consensus size: 58
6968212 TATTTTATCT
*
6968222 AAAAATCACATTTTGACCCCCAAACTTTCCAAAAATCACATTTTAGCCCTCGAACTTTCC
1 AAAAATCACATTTTGA-CCCCAAACTTTCCAAAAATCACATTTTAACCCTCGAAC-TTCC
* * ** * * ** *
6968282 AAAAATTATATTTTGACACCCAAACTTTTTAAAAATTATATTTT-TGCCTCCGAACATCC
1 AAAAATCACATTTTGAC-CCCAAACTTTCCAAAAATCACATTTTAACCCT-CGAACTTCC
* * * *
6968341 AAAAATTACATTTTTACCCACGAAC-TTCCAAAAATCACATTTTAACCCTCAAACTTCC
1 AAAAATCACATTTTGACCC-CAAACTTTCCAAAAATCACATTTTAACCCTCGAACTTCC
* * * * *
6968399 CAAAATCACATTTTGACCCTAAACTTTTCC-AAAATTACATTTTTACCACT-GAACATCC
1 AAAAATCACATTTTGACCCCAAAC-TTTCCAAAAATCACATTTTAACC-CTCGAACTTCC
* * *
6968457 AAAAATTACCATTTTAACCTCAAA
1 AAAAATCA-CATTTTGACCCCAAA
6968481 TATGTTAAAA
Statistics
Matches: 157, Mismatches: 34, Indels: 17
0.75 0.16 0.08
Matches are distributed among these distances:
57 3 0.02
58 66 0.42
59 47 0.30
60 41 0.26
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (58 bp):
AAAAATCACATTTTGACCCCAAACTTTCCAAAAATCACATTTTAACCCTCGAACTTCC
Found at i:6968624 original size:30 final size:29
Alignment explanation
Indices: 6968230--6968624 Score: 133
Period size: 29 Copynumber: 13.5 Consensus size: 29
6968220 CTAAAAATCA
* *
6968230 CATTTTGACCCCCAAACTTTCCAAAAAT-C
1 CATTTT-ACCCCCGAACTTTCCAAAATTAC
*
6968259 ACATTTTAGCCCTCGAACTTTCCAAAAATTA-
1 -CATTTTA-CCCCCGAACTTTCC-AAAATTAC
* * * **
6968290 TATTTTGACACCCAAACTTTTTAAAAATTA-
1 CATTTT-ACCCCCGAAC-TTTCCAAAATTAC
* * * *
6968320 TATTTTTGCCTCCGAAC-ATCCAAAAATTA-
1 CA-TTTTACCCCCGAACTTTCC-AAAATTAC
* *
6968349 CATTTTTACCCACGAAC-TTCCAAAAAT-C
1 CA-TTTTACCCCCGAACTTTCCAAAATTAC
* * * *
6968377 ACATTTTAACCCTCAAACTTCCCAAAATCA-
1 -CATTTT-ACCCCCGAACTTTCCAAAATTAC
**
6968407 CATTTTGA-CCCTAAACTTTTCCAAAATTA-
1 CATTTT-ACCCCCGAAC-TTTCCAAAATTAC
* * *
6968436 CATTTTTACCACTGAAC-ATCCAAAAATTAC
1 CA-TTTTACCCCCGAACTTTCC-AAAATTAC
* * * *
6968466 CATTTTAACCTC-AAATATGT-TAAAATTAC
1 CATTTTACCCCCGAACT-T-TCCAAAATTAC
* * *
6968495 CATTTT-CCCCCGAGC-ATCCAAAAACTAC
1 CATTTTACCCCCGAACTTTCC-AAAATTAC
*
6968523 CATTTTGA-CCCCGAAC-ATCCAAAAATTAC
1 CATTTT-ACCCCCGAACTTTCC-AAAATTAC
* * * *
6968552 CATTCTACCCTCAAAC-ATCCAAAAATTAC
1 CATTTTACCCCCGAACTTTCC-AAAATTAC
**
6968581 CATTTTAAACCCGAACTTTTCCAAAATTAC
1 CATTTTACCCCCGAAC-TTTCCAAAATTAC
6968611 CATTTTACCCCCGA
1 CATTTTACCCCCGA
6968625 GCATCCAAAA
Statistics
Matches: 275, Mismatches: 62, Indels: 56
0.70 0.16 0.14
Matches are distributed among these distances:
26 1 0.00
28 38 0.14
29 136 0.49
30 83 0.30
31 17 0.06
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.31
Consensus pattern (29 bp):
CATTTTACCCCCGAACTTTCCAAAATTAC
Found at i:6975920 original size:50 final size:50
Alignment explanation
Indices: 6975838--6976346 Score: 366
Period size: 50 Copynumber: 10.4 Consensus size: 50
6975828 TTTGACAAGG
* *
6975838 AAGGATTGAGGCCGCAACGACGAATCCGGTACCTTAAAAGATGTGAAGGGA
1 AAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGAAGGGA
* * * * * *
6975889 AAGGTTGAGGCCTCAACGGTGAACCCAGTACCTAAAAAAATGTGATA-AGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGA-AGGGA
* * ***
6975939 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGAAACGAAGGG-
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGAAGGGA
* * * * * * * *
6975987 AAGGATTAAGGTCGTAATGGTGAATCCGATACCTTAACAGATGTGAAGGGA
1 AAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGAAGGGA
* * **
6976038 AAGGTTGAGGCCGTAACGGCGAACCCGATACCATT--AAGATACGAAGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACC-TTAAAAGATGTGAAGGGA
*
6976087 AAGGTTGAGGCCGCAACGGCGAACCCGGTACC-TAAGAAGATGTGATGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAA-AAGATGTGAAGGGA
** * ** * * *
6976137 AAGGTTGAGGCCATAACGACGAACCCGAAACCAT-GAAGA--T--A-CG-
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGAAGGGA
* * * *
6976180 AAGGTTGAGGCAGCAACGACGAACCCGATACCTAAAAAGATGTGATA-GGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGA-AGGGA
* * *** **
6976230 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATACAAAGATA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGAAGGGA
** * * * * *
6976279 AAGGTTGAGGTTGCAACGGCGAACCTGGTATCTAAAAAGATATGATGGG-
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGAAGGGA
*
6976328 AAGGATTGAGGTCGCAACG
1 AAGG-TTGAGGCCGCAACG
6976347 AAAAATCCAA
Statistics
Matches: 353, Mismatches: 85, Indels: 41
0.74 0.18 0.09
Matches are distributed among these distances:
43 28 0.08
44 5 0.01
46 1 0.00
47 2 0.01
48 6 0.02
49 114 0.32
50 185 0.52
51 12 0.03
ACGTcount: A:0.36, C:0.18, G:0.30, T:0.16
Consensus pattern (50 bp):
AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGAAGGGA
Found at i:6976031 original size:99 final size:97
Alignment explanation
Indices: 6975838--6976401 Score: 444
Period size: 99 Copynumber: 5.7 Consensus size: 97
6975828 TTTGACAAGG
* * * * * ** *
6975838 AAGGATTGAGGCCGCAACGACGAATCCGGTACCTTAAAAGATGTGAAGGGAAAGGTTGAGGCCTC
1 AAGG-TTGAGGCCGCAACGGCGAACCCGATACCAT-GAAGATACGAAGGG-AAGGTTGAGG-CGC
* * * *
6975903 AACGGTGAACCC-AGTACCTAAAAAAATGTGATAAGA
62 AACGGCGAACCCGA-TACCTTAAAAGATGTGATAGGA
* * * *
6975939 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGAAACGAAGGGAAGGATTAAGGTCGTAA
1 AAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATACGAAGGGAAGG-TTGAGG-CGCAA
* * * *
6976004 TGGTGAATCCGATACCTTAACAGATGTGA-AGGGA
64 CGGCGAACCCGATACCTTAAAAGATGTGATA-GGA
* *
6976038 AAGGTTGAGGCCGTAACGGCGAACCCGATACCATTAAGATACGAAGGGAAAGGTTGAGGCCGCAA
1 AAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATACGAAGGG-AAGGTTGAGG-CGCAA
* *
6976103 CGGCGAACCCGGTACC-TAAGAAGATGTGATGGGA
64 CGGCGAACCCGATACCTTAA-AAGATGTGATAGGA
** * *
6976137 AAGGTTGAGGCCATAACGACGAACCCGAAACCATGAAGATAC-----GAAGGTTGAGGCAGCAAC
1 AAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATACGAAGGGAAGGTTGAGGC-GCAAC
* *
6976197 GACGAACCCGATACCTAAAAAGATGTGATAGGA
65 GGCGAACCCGATACCTTAAAAGATGTGATAGGA
* * ** *
6976230 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATACAAAGATAAAGGTTGAGGTTGCAA
1 AAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATACGAAG-GGAAGGTTGAGG-CGCAA
* * * * * *
6976295 CGGCGAACCTGGTATCTAAAAAGATATGAT-GGG
64 CGGCGAACCCGATACCTTAAAAGATGTGATAGGA
* *** * * *** * *
6976328 AAGGATTGAGGTCGCAACGAAAAATCCAATACCATGAAGATGTAAAGGGAACGTTGAGCCCGCAA
1 AAGG-TTGAGGCCGCAACGGCGAACCCGATACCATGAAGATACGAAGGGAAGGTTGAG-GCGCAA
*
6976393 TGGCGAACC
64 CGGCGAACC
6976402 TAGCACCTTG
Statistics
Matches: 380, Mismatches: 66, Indels: 37
0.79 0.14 0.08
Matches are distributed among these distances:
92 1 0.00
93 78 0.21
94 3 0.01
98 34 0.09
99 228 0.60
100 32 0.08
101 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (97 bp):
AAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATACGAAGGGAAGGTTGAGGCGCAACG
GCGAACCCGATACCTTAAAAGATGTGATAGGA
Found at i:6976364 original size:192 final size:192
Alignment explanation
Indices: 6975887--6976368 Score: 486
Period size: 192 Copynumber: 2.5 Consensus size: 192
6975877 GATGTGAAGG
* * * * * ** *
6975887 GAAAGGTTGAGGCCTCAACGGTGAACCCAGTACCTAAAAAAATGTGATAAGAAAGGTTGAGGCCG
1 GAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAAAAGATATGATGGGAAAGGTTGAGGCCA
*** ** * * * * ** *
6975952 CAACGGCGAACCCGGTACCATGAAGAAACGAAGGGAAGGATTAAGGTC-GTAATGGTGAATCCGA
66 CAACGAAAAACCCGAAACCATGAAGATAC-----GAAGG-TTGAGG-CAGCAACGACGAACCCGA
* * * * *
6976016 TACCTTAACAGATGTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGATACCATTAAGATACG
124 TACCTAAAAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATACA
*
6976081 AAGG
189 AAGA
* *
6976085 GAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCA
1 GAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAAAAGATATGATGGGAAAGGTTGAGGCCA
* **
6976150 TAACGACGAACCCGAAACCATGAAGATACGAAGGTTGAGGCAGCAACGACGAACCCGATACCTAA
66 CAACGAAAAACCCGAAACCATGAAGATACGAAGGTTGAGGCAGCAACGACGAACCCGATACCTAA
*
6976215 AAAGATGTGATA-GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATACAAAGA
131 AAAGATGTGA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATACAAAGA
* ** * * *
6976277 TAAAGGTTGAGGTTGCAACGGCGAACCTGGTATCTAAAAAGATATGATGGG-AAGGATTGAGGTC
1 GAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAAAAGATATGATGGGAAAGG-TTGAGGCC
* *
6976341 GCAACGAAAAATCC-AATACCATGAAGAT
65 ACAACGAAAAACCCGAA-ACCATGAAGAT
6976369 GTAAAGGGAA
Statistics
Matches: 241, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
191 7 0.03
192 147 0.61
193 6 0.02
198 81 0.34
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (192 bp):
GAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAAAAGATATGATGGGAAAGGTTGAGGCCA
CAACGAAAAACCCGAAACCATGAAGATACGAAGGTTGAGGCAGCAACGACGAACCCGATACCTAA
AAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATACAAAGA
Found at i:6977416 original size:21 final size:21
Alignment explanation
Indices: 6977374--6977417 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6977364 ATGCATTTAC
*
6977374 TTATTATTTTAATAATGTCAT
1 TTATTATTTTAAGAATGTCAT
*
6977395 TTATTATTTTCAAGCATG-CAT
1 TTATTATTTT-AAGAATGTCAT
6977416 TT
1 TT
6977418 CATGTACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.55
Consensus pattern (21 bp):
TTATTATTTTAAGAATGTCAT
Found at i:6978705 original size:30 final size:30
Alignment explanation
Indices: 6978622--6978685 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
6978612 TGTTTTGTCT
*
6978622 AAAAATCACATTTTCACCCTCGAACTTCCC
1 AAAAAGCACATTTTCACCCTCGAACTTCCC
*
6978652 AAAAAGCACATTTTCACCCTCGAACTTTCC
1 AAAAAGCACATTTTCACCCTCGAACTTCCC
6978682 AAAA
1 AAAA
6978686 TTTATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.38, C:0.33, G:0.05, T:0.25
Consensus pattern (30 bp):
AAAAAGCACATTTTCACCCTCGAACTTCCC
Found at i:6978783 original size:58 final size:58
Alignment explanation
Indices: 6978709--6978911 Score: 189
Period size: 58 Copynumber: 3.5 Consensus size: 58
6978699 CCTCGAAATT
* *
6978709 TTCTAAAATTACCATTTTAACCCCAAACTTTTGAAAAATTACATTTTTTCCCCT-GAAC
1 TTCTAAAATTA-CATTTTAACCCCAAACTTTTAAAAAATTACATTTTTTACCCTCGAAC
** * * *
6978767 TTCTAAAAATTACATTTTTGCTCTCAAAC-TTTAAAAAATCACA-TTTTTACTCTCGAAC
1 TTCT-AAAATTACATTTTAAC-CCCAAACTTTTAAAAAATTACATTTTTTACCCTCGAAC
* ** *
6978825 TTCCTAAAATTACATTTTAACCCAAAACTTTTCCAAAATTACA-TTTTTACCTTCGAAC
1 TT-CTAAAATTACATTTTAACCCCAAACTTTTAAAAAATTACATTTTTTACCCTCGAAC
* * * *
6978883 ATCCAAAAATCACCATTTTGACCCCAAAC
1 -TTCTAAAATTA-CATTTTAACCCCAAAC
6978912 ATCCAAAAAT
Statistics
Matches: 117, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
57 13 0.11
58 74 0.63
59 30 0.26
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (58 bp):
TTCTAAAATTACATTTTAACCCCAAACTTTTAAAAAATTACATTTTTTACCCTCGAAC
Found at i:6978891 original size:29 final size:28
Alignment explanation
Indices: 6978622--6978961 Score: 157
Period size: 29 Copynumber: 11.6 Consensus size: 28
6978612 TGTTTTGTCT
* * *
6978622 AAAAATCACATTTTCACCCTCGAACTTCCC
1 AAAAATTACATTTTTA-CCTCAAACTT-CC
** * *
6978652 AAAAAGCACATTTTCACCCTCGAACTTTCC
1 AAAAATTACATTTTTA-CCTCAAAC-TTCC
* * * * *
6978682 AAAATTTATATTTTGACCCTCGAAATTTTC
1 AAAAATTACATTTTTA-CCTC-AAACTTCC
* * * **
6978712 TAAAATTACCATTTTAACCCCAAACTTTTG
1 AAAAATTA-CATTTTTACCTCAAAC-TTCC
* * * *
6978742 AAAAATTACATTTTTTCCCCTGAACTTCT
1 AAAAATTACATTTTTACCTC-AAACTTCC
* **
6978771 AAAAATTACATTTTTGCTCTCAAACTTTA
1 AAAAATTACATTTTTAC-CTCAAACTTCC
* *
6978800 AAAAATCACATTTTTACTCTCGAACTTCC
1 AAAAATTACATTTTTAC-CTCAAACTTCC
* *
6978829 TAAAATTACATTTTAACC-CAAAACTTTTCC
1 AAAAATTACATTTTTACCTC-AAAC--TTCC
* *
6978859 -AAAATTACATTTTTACCTTCGAACATCC
1 AAAAATTACATTTTTACC-TCAAACTTCC
* * * *
6978887 AAAAATCACCATTTTGACCCCAAACATCC
1 AAAAATTA-CATTTTTACCTCAAACTTCC
* *
6978916 AAAAATTACCA-TTTTGCACTCAAACATCC
1 AAAAATTA-CATTTTTAC-CTCAAACTTCC
*
6978945 -AAAATTACAATTTTACC
1 AAAAATTACATTTTTACC
6978962 CCTGAGCATC
Statistics
Matches: 247, Mismatches: 48, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
27 4 0.02
28 23 0.09
29 124 0.50
30 85 0.34
31 11 0.04
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.34
Consensus pattern (28 bp):
AAAAATTACATTTTTACCTCAAACTTCC
Found at i:6978972 original size:57 final size:58
Alignment explanation
Indices: 6978880--6978996 Score: 139
Period size: 57 Copynumber: 2.0 Consensus size: 58
6978870 TTTACCTTCG
*
6978880 AACATCCAAAAATCACCATTTTGACCCCAAACATCCAAAAATTACCATTTTGCACTCA
1 AACATCCAAAAATCACAATTTTGACCCCAAACATCCAAAAATTACCATTTTGCACTCA
* * * * * * *
6978938 AACATCC-AAAATTACAATTTT-ACCCCTGAGCATCCAAAATTTACCGTTTTTCCCTCA
1 AACATCCAAAAATCACAATTTTGACCCC-AAACATCCAAAAATTACCATTTTGCACTCA
6978995 AA
1 AA
6978997 TTTCCAAATG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
56 5 0.10
57 38 0.76
58 7 0.14
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.27
Consensus pattern (58 bp):
AACATCCAAAAATCACAATTTTGACCCCAAACATCCAAAAATTACCATTTTGCACTCA
Found at i:6981024 original size:403 final size:403
Alignment explanation
Indices: 6980277--6981086 Score: 1620
Period size: 403 Copynumber: 2.0 Consensus size: 403
6980267 AATTTAAAAA
6980277 CAAATAACAAGTATACTTTACATAGTATTTGTAGATGGATTGTAAATAGAAATCCGTTGAGACCT
1 CAAATAACAAGTATACTTTACATAGTATTTGTAGATGGATTGTAAATAGAAATCCGTTGAGACCT
6980342 GTATAAACAGTCTCCTTAAGACAGATTCGTCGTCTCCTCGGTGCTAAAGAAATTTTGGAGGTCTA
66 GTATAAACAGTCTCCTTAAGACAGATTCGTCGTCTCCTCGGTGCTAAAGAAATTTTGGAGGTCTA
6980407 TCTCCCAAGATACAACAACGATTAGTTACCAAAAGCAGCACAACTTTTGTAACATGCGAATGCTA
131 TCTCCCAAGATACAACAACGATTAGTTACCAAAAGCAGCACAACTTTTGTAACATGCGAATGCTA
6980472 ACCAAGCCTCCTCTATCACCAAAAACAGAACTGGAATTTTGAGAGAAAATATGAACAATTTTTTA
196 ACCAAGCCTCCTCTATCACCAAAAACAGAACTGGAATTTTGAGAGAAAATATGAACAATTTTTTA
6980537 GAGAGAGCAAAAGTGATTGTTCTTCACTTGATTTGTAAAAATGAAAAGAAGAAAGGGCTATTTAG
261 GAGAGAGCAAAAGTGATTGTTCTTCACTTGATTTGTAAAAATGAAAAGAAGAAAGGGCTATTTAG
6980602 TGAAATTTCATGAAACGGTTACATAAAATTTAAAACGAACATAATGAGGAGAGTTACAAAACAGT
326 TGAAATTTCATGAAACGGTTACATAAAATTTAAAACGAACATAATGAGGAGAGTTACAAAACAGT
6980667 ATGAGGAGAGGTT
391 ATGAGGAGAGGTT
6980680 CAAATAACAAGTATACTTTACATAGTATTTGTAGATGGATTGTAAATAGAAATCCGTTGAGACCT
1 CAAATAACAAGTATACTTTACATAGTATTTGTAGATGGATTGTAAATAGAAATCCGTTGAGACCT
6980745 GTATAAACAGTCTCCTTAAGACAGATTCGTCGTCTCCTCGGTGCTAAAGAAATTTTGGAGGTCTA
66 GTATAAACAGTCTCCTTAAGACAGATTCGTCGTCTCCTCGGTGCTAAAGAAATTTTGGAGGTCTA
6980810 TCTCCCAAGATACAACAACGATTAGTTACCAAAAGCAGCACAACTTTTGTAACATGCGAATGCTA
131 TCTCCCAAGATACAACAACGATTAGTTACCAAAAGCAGCACAACTTTTGTAACATGCGAATGCTA
6980875 ACCAAGCCTCCTCTATCACCAAAAACAGAACTGGAATTTTGAGAGAAAATATGAACAATTTTTTA
196 ACCAAGCCTCCTCTATCACCAAAAACAGAACTGGAATTTTGAGAGAAAATATGAACAATTTTTTA
6980940 GAGAGAGCAAAAGTGATTGTTCTTCACTTGATTTGTAAAAATGAAAAGAAGAAAGGGCTATTTAG
261 GAGAGAGCAAAAGTGATTGTTCTTCACTTGATTTGTAAAAATGAAAAGAAGAAAGGGCTATTTAG
6981005 TGAAATTTCATGAAACGGTTACATAAAATTTAAAACGAACATAATGAGGAGAGTTACAAAACAGT
326 TGAAATTTCATGAAACGGTTACATAAAATTTAAAACGAACATAATGAGGAGAGTTACAAAACAGT
6981070 ATGAGGAGAGGTT
391 ATGAGGAGAGGTT
6981083 CAAA
1 CAAA
6981087 CATTATGAGA
Statistics
Matches: 407, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
403 407 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (403 bp):
CAAATAACAAGTATACTTTACATAGTATTTGTAGATGGATTGTAAATAGAAATCCGTTGAGACCT
GTATAAACAGTCTCCTTAAGACAGATTCGTCGTCTCCTCGGTGCTAAAGAAATTTTGGAGGTCTA
TCTCCCAAGATACAACAACGATTAGTTACCAAAAGCAGCACAACTTTTGTAACATGCGAATGCTA
ACCAAGCCTCCTCTATCACCAAAAACAGAACTGGAATTTTGAGAGAAAATATGAACAATTTTTTA
GAGAGAGCAAAAGTGATTGTTCTTCACTTGATTTGTAAAAATGAAAAGAAGAAAGGGCTATTTAG
TGAAATTTCATGAAACGGTTACATAAAATTTAAAACGAACATAATGAGGAGAGTTACAAAACAGT
ATGAGGAGAGGTT
Found at i:6981073 original size:22 final size:21
Alignment explanation
Indices: 6981048--6981095 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
6981038 AACGAACATA
6981048 ATGAGGAGA-GTTACAAAACAGT
1 ATGAGGAGAGGTT-C-AAACAGT
*
6981070 ATGAGGAGAGGTTCAAACATT
1 ATGAGGAGAGGTTCAAACAGT
6981091 ATGAG
1 ATGAG
6981096 AAAATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
22 10 0.42
23 3 0.12
ACGTcount: A:0.42, C:0.08, G:0.29, T:0.21
Consensus pattern (21 bp):
ATGAGGAGAGGTTCAAACAGT
Found at i:6981093 original size:21 final size:22
Alignment explanation
Indices: 6981042--6981095 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
6981032 ATTTAAAACG
*
6981042 AACATAATGAGGAGAGTTACAA
1 AACATTATGAGGAGAGTTACAA
*
6981064 AACAGTATGAGGAGAGGTT-C-A
1 AACATTATGAGGAGA-GTTACAA
6981085 AACATTATGAG
1 AACATTATGAG
6981096 AAAATATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.39
22 14 0.50
23 3 0.11
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.20
Consensus pattern (22 bp):
AACATTATGAGGAGAGTTACAA
Found at i:6985050 original size:23 final size:23
Alignment explanation
Indices: 6985006--6985093 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
6984996 TTAATGTTCA
**
6985006 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-CGAACATTAAT
* *
6985029 CGAACATGTTCACGAATATTAAA
1 CGAACATGTTCACGAACATTAAT
*
6985052 CGAACATGTTCATGAACATATAAT
1 CGAACATGTTCACGAACAT-TAAT
*
6985076 TGAACATGTTCACGAACA
1 CGAACATGTTCACGAACA
6985094 ATGTTAATGA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
22 2 0.04
23 33 0.61
24 19 0.35
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (23 bp):
CGAACATGTTCACGAACATTAAT
Found at i:6985825 original size:34 final size:33
Alignment explanation
Indices: 6985707--6985827 Score: 145
Period size: 33 Copynumber: 3.6 Consensus size: 33
6985697 ACTCCATGGT
6985707 GTCCATCGGGACAGTAAACACGAAATAGAGTAA
1 GTCCATCGGGACAGTAAACACGAAATAGAGTAA
*
6985740 GTCCATCGGGATAGTAAACACGAAATAGAAG-AA
1 GTCCATCGGGACAGTAAACACGAAATAG-AGTAA
** * * *
6985773 GTCCATCGATACAATAAACATGGAATAGAGGTAA
1 GTCCATCGGGACAGTAAACACGAAATAGA-GTAA
**
6985807 GTCTGTCGGGACAGTAAACAC
1 GTCCATCGGGACAGTAAACAC
6985828 AGGTGAGTCC
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
32 1 0.01
33 52 0.72
34 19 0.26
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (33 bp):
GTCCATCGGGACAGTAAACACGAAATAGAGTAA
Found at i:6990203 original size:24 final size:24
Alignment explanation
Indices: 6990170--6990283 Score: 138
Period size: 24 Copynumber: 4.8 Consensus size: 24
6990160 AGTTTAGTGT
* * *
6990170 GTTTACGCTCGCCAGCTAATGTAC
1 GTTTATGCTCGTCAGCCAATGTAC
*
6990194 GTTTATGCTCGTCAGCTAATGTAC
1 GTTTATGCTCGTCAGCCAATGTAC
* * * *
6990218 ATTTATACTTGTCAGCCACTGTAC
1 GTTTATGCTCGTCAGCCAATGTAC
* *
6990242 GTTTATGCTTGTCAGCCAATGTAT
1 GTTTATGCTCGTCAGCCAATGTAC
6990266 GTTTATGCTCGTCAGCCA
1 GTTTATGCTCGTCAGCCA
6990284 CTATAAATAA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 78 1.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (24 bp):
GTTTATGCTCGTCAGCCAATGTAC
Found at i:7000547 original size:19 final size:19
Alignment explanation
Indices: 7000523--7000570 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
7000513 GAATATATTT
7000523 AAATATTA-TTATATTTGAA
1 AAATATTATTTA-ATTTGAA
* *
7000542 AAATATAAATTTAATTTGAT
1 AAATAT-TATTTAATTTGAA
7000562 AAATATTAT
1 AAATATTAT
7000571 AAATATGTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 8 0.33
20 13 0.54
21 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (19 bp):
AAATATTATTTAATTTGAA
Found at i:7000743 original size:13 final size:13
Alignment explanation
Indices: 7000725--7000751 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7000715 TATTTTTTCA
7000725 ATAAATAAAATTT
1 ATAAATAAAATTT
7000738 ATAAATAAAATTT
1 ATAAATAAAATTT
7000751 A
1 A
7000752 AAAAAAAAGC
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAATAAAATTT
Found at i:7003874 original size:37 final size:38
Alignment explanation
Indices: 7003833--7003912 Score: 92
Period size: 40 Copynumber: 2.1 Consensus size: 38
7003823 GTATTGGGTA
*
7003833 CCACTTTA-CTTC-AGCTAGGCCGATGAGACACTAGGTG
1 CCACTTTATCTTCAAACTA-GCCGATGAGACACTAGGTG
* *
7003870 CCACTTTATTGCTTCAAACTATCCGATGAGGCACTAGGTG
1 CCACTTTA-T-CTTCAAACTAGCCGATGAGACACTAGGTG
7003910 CCA
1 CCA
7003913 TTCTGGTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 8 0.22
40 24 0.67
41 4 0.11
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
CCACTTTATCTTCAAACTAGCCGATGAGACACTAGGTG
Found at i:7009103 original size:11 final size:11
Alignment explanation
Indices: 7009085--7009118 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
7009075 AGAAACAGTT
7009085 AAGA-AGATTA
1 AAGATAGATTA
7009095 AAGATAGATTA
1 AAGATAGATTA
7009106 AAGATAGATTA
1 AAGATAGATTA
7009117 AA
1 AA
7009119 AGCAGCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (11 bp):
AAGATAGATTA
Found at i:7015547 original size:21 final size:21
Alignment explanation
Indices: 7015504--7015545 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
7015494 ATAAAGATTG
*
7015504 ATTGTGTGATTAATTGGTGAA
1 ATTGTGTGATTAATTGGAGAA
*
7015525 ATTGTG-GATTAATTTGAGAA
1 ATTGTGTGATTAATTGGAGAA
7015545 A
1 A
7015546 ATAAATGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.40
Consensus pattern (21 bp):
ATTGTGTGATTAATTGGAGAA
Found at i:7015761 original size:26 final size:25
Alignment explanation
Indices: 7015732--7015792 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
7015722 TGCTTCTGTT
*
7015732 CAGCACTGTGTGTGCCTACTATTT-CC
1 CAGCACT-TATGTG-CTACTATTTCCC
* *
7015758 CAGCACTTATGTGCTCCTGTTTCCC
1 CAGCACTTATGTGCTACTATTTCCC
7015783 CAGCACTTAT
1 CAGCACTTAT
7015793 ACACTTCTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.23
25 17 0.55
26 7 0.23
ACGTcount: A:0.16, C:0.33, G:0.16, T:0.34
Consensus pattern (25 bp):
CAGCACTTATGTGCTACTATTTCCC
Found at i:7015802 original size:25 final size:25
Alignment explanation
Indices: 7015756--7015803 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7015746 CCTACTATTT
***
7015756 CCCAGCACTTATGTGCTCCTGTTTC
1 CCCAGCACTTATACACTCCTGTTTC
*
7015781 CCCAGCACTTATACACTTCTGTT
1 CCCAGCACTTATACACTCCTGTT
7015804 AAGTACTTCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.17, C:0.35, G:0.12, T:0.35
Consensus pattern (25 bp):
CCCAGCACTTATACACTCCTGTTTC
Found at i:7017737 original size:9 final size:10
Alignment explanation
Indices: 7017715--7017756 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
7017705 CGTGTACCAA
*
7017715 TTTGTAAAGAT
1 TTTG-AAAGTT
7017726 TTT-AAAGTT
1 TTTGAAAGTT
7017735 TTTGAAAGTT
1 TTTGAAAGTT
7017745 TTTGAAAGTT
1 TTTGAAAGTT
7017755 TT
1 TT
7017757 CATTGTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 8 0.28
10 18 0.62
11 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (10 bp):
TTTGAAAGTT
Found at i:7018947 original size:18 final size:17
Alignment explanation
Indices: 7018921--7018956 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
7018911 AATGATATAT
*
7018921 TAATTAATAATATTATTA
1 TAATAAATAATATT-TTA
7018939 TAATAAATAATATTTTA
1 TAATAAATAATATTTTA
7018956 T
1 T
7018957 TATTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATAAATAATATTTTA
Found at i:7025556 original size:23 final size:23
Alignment explanation
Indices: 7025477--7025784 Score: 206
Period size: 23 Copynumber: 13.5 Consensus size: 23
7025467 TAAACGGAAC
* * *
7025477 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
7025499 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7025521 GGGCAACAAAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
7025547 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
7025567 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7025586 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
7025609 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7025632 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
* * *
7025657 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7025680 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
7025703 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7025726 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
7025751 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
7025774 AATCAGAGAGC
1 AAACAGAGAGC
7025785 GCACTAGTGT
Statistics
Matches: 223, Mismatches: 43, Indels: 39
0.73 0.14 0.13
Matches are distributed among these distances:
16 10 0.04
18 3 0.01
19 1 0.00
20 1 0.00
21 2 0.01
22 19 0.09
23 132 0.59
24 4 0.02
25 42 0.19
26 9 0.04
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:7025585 original size:39 final size:39
Alignment explanation
Indices: 7025531--7025605 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
7025521 GGGCAACAAA
*
7025531 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
7025570 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
7025606 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:7025644 original size:48 final size:46
Alignment explanation
Indices: 7025570--7025784 Score: 317
Period size: 48 Copynumber: 4.6 Consensus size: 46
7025560 ACAAAGTACT
*
7025570 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTGCTAATCGGA
*
7025616 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAATCGGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTGCTAATCGGA
7025664 GAGCACACACAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTGCTAATCGGA
* * *
7025710 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTGCTAATCGGA
7025758 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
7025785 GCACTAGTGT
Statistics
Matches: 156, Mismatches: 6, Indels: 14
0.89 0.03 0.08
Matches are distributed among these distances:
45 1 0.01
46 69 0.44
48 84 0.54
49 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGAAGTGCTAATCGGA
Found at i:7025686 original size:94 final size:94
Alignment explanation
Indices: 7025570--7025784 Score: 403
Period size: 94 Copynumber: 2.3 Consensus size: 94
7025560 ACAAAGTACT
*
7025570 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAAT
1 GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAAT
* *
7025635 AACAGAGAGCACGAGACGTGCTAATCGGA
66 AACAGAGAGCACGAGACGTGCTAAACAGA
7025664 GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAAT
1 GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAAT
7025729 AACAGAGAGCACGAGACGTGCTAAACAGA
66 AACAGAGAGCACGAGACGTGCTAAACAGA
7025758 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
7025785 GCACTAGTGT
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 118 1.00
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.12
Consensus pattern (94 bp):
GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAAT
AACAGAGAGCACGAGACGTGCTAAACAGA
Found at i:7035308 original size:55 final size:58
Alignment explanation
Indices: 7035249--7035382 Score: 175
Period size: 61 Copynumber: 2.3 Consensus size: 58
7035239 AAATTATTTT
* *
7035249 TATGTTTAAATCGATTGTCATGTTGGAATA-C-TAT-TTCTTTTTAATCGATTGTTTA
1 TATGTTTAAATCGATTGTCATGGTGGAATATCTTATCTTCTTTTGAATCGATTGTTTA
* * *
7035304 TATGTTTAAATTGATTGTTATGGTGGAATATTGCTTCTCCTTCTTTTGAATCGATTGTTTA
1 TATGTTTAAATCGATTGTCATGGTGGAATA-T-CTTAT-CTTCTTTTGAATCGATTGTTTA
7035365 TATGTTTAAATCGATTGT
1 TATGTTTAAATCGATTGT
7035383 TACATAACAC
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
55 27 0.40
58 1 0.01
59 2 0.03
61 37 0.55
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (58 bp):
TATGTTTAAATCGATTGTCATGGTGGAATATCTTATCTTCTTTTGAATCGATTGTTTA
Found at i:7042311 original size:30 final size:29
Alignment explanation
Indices: 7042236--7042313 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
7042226 AACTTTGATT
** * *
7042236 AAAATAACAAAATAATCATTAAACTTTGA
1 AAAATAACAAACCAATCACTAAAATTTGA
* *
7042265 AAATTTAC-AACTCAATCACTAAAATTTAGA
1 AAAATAACAAAC-CAATCACTAAAATTT-GA
7042295 AAAATAACAAACCAATCAC
1 AAAATAACAAACCAATCAC
7042314 CAGTAACCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 2 0.05
29 18 0.47
30 15 0.39
31 3 0.08
ACGTcount: A:0.56, C:0.17, G:0.03, T:0.24
Consensus pattern (29 bp):
AAAATAACAAACCAATCACTAAAATTTGA
Found at i:7044277 original size:37 final size:37
Alignment explanation
Indices: 7044224--7044295 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
7044214 ACCACAAAGA
* *
7044224 CTTTCCTTTCACAGGTTCGCCATAAAGGCTTACCTAG
1 CTTTCCTTTAACAGGTTCGCCACAAAGGCTTACCTAG
*
7044261 CTTTCCTTTAAGAGGTTCGCCACAAAGGCTTACCT
1 CTTTCCTTTAACAGGTTCGCCACAAAGGCTTACCT
7044296 TTCCAGAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (37 bp):
CTTTCCTTTAACAGGTTCGCCACAAAGGCTTACCTAG
Found at i:7044310 original size:28 final size:28
Alignment explanation
Indices: 7044260--7044370 Score: 102
Period size: 28 Copynumber: 4.0 Consensus size: 28
7044250 GGCTTACCTA
* *
7044260 GCTTTCCTTT-AAGAGGTTCGCCACAAAG
1 GCTTACCTTTCAAGA-GTTTGCCACAAAG
* * *
7044288 GCTTACCTTTCCAGAGTTTGCCATAAAC
1 GCTTACCTTTCAAGAGTTTGCCACAAAG
* *
7044316 ACGTT-CCTTT-AAGAGGTTCGCCACAAAG
1 GC-TTACCTTTCAAGA-GTTTGCCACAAAG
*
7044344 GCTTACCTTTCTAGAGTTTGCCACAAA
1 GCTTACCTTTCAAGAGTTTGCCACAAA
7044371 AACATTCCTT
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
27 5 0.08
28 52 0.80
29 8 0.12
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (28 bp):
GCTTACCTTTCAAGAGTTTGCCACAAAG
Found at i:7044349 original size:56 final size:55
Alignment explanation
Indices: 7044263--7044467 Score: 250
Period size: 56 Copynumber: 3.7 Consensus size: 55
7044253 TTACCTAGCT
7044263 TTCCTTTAAGAGGTTCGCCACAAAGGCTTACCTTTCCAGAGTTTGCCATAAACACG
1 TTCCTTTAAGAGGTTCGCCACAAAGGCTTACCTTTCCAGAGTTTGCCATAAA-ACG
* * *
7044319 TTCCTTTAAGAGGTTCGCCACAAAGGCTTACCTTTCTAGAGTTTGCCACAAAAACA
1 TTCCTTTAAGAGGTTCGCCACAAAGGCTTACCTTTCCAGAGTTTGCCA-TAAAACG
* * * ** * **
7044375 TTCCTTTAA-CGGTTCGTCACAATGGCTTACCTTTCCTTAATTTGCCAATAAAGTG
1 TTCCTTTAAGAGGTTCGCCACAAAGGCTTACCTTTCCAGAGTTTGCC-ATAAAACG
* * *
7044430 TTCATTTAAGAGGTTCGCCGCAAAGACTTACCTTTCCA
1 TTCCTTTAAGAGGTTCGCCACAAAGGCTTACCTTTCCA
7044468 AACTTTTCCA
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
55 41 0.33
56 81 0.65
57 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (55 bp):
TTCCTTTAAGAGGTTCGCCACAAAGGCTTACCTTTCCAGAGTTTGCCATAAAACG
Found at i:7048439 original size:56 final size:56
Alignment explanation
Indices: 7048316--7048631 Score: 267
Period size: 56 Copynumber: 5.6 Consensus size: 56
7048306 TGCTTGTCAC
* * * * * ** *
7048316 AAAGGCTTTCCTTTCAGAGGTTCACCAAAAAAGCTTACCTTTCAAGAGTTTGGCAT
1 AAAGGCGTTCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTCCAGAGTTTACCAA
** *
7048372 AAAGGTATTCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTCTAGAGTTTACCAA
1 AAAGGCGTTCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTCCAGAGTTTACCAA
** ** * * * *
7048428 AAACACGTTCCTTTAAGAGGTTCGGCACAAAGGCTTACCTTTCTAGATTTTGCCAC
1 AAAGGCGTTCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTCCAGAGTTTACCAA
* * * ** *
7048484 AAAGGTGTTGCTTAAAGAGGTTCGA-CACAAAGGCTTAAATTTCCAGAGTTTTCCATA
1 AAAGGCGTTCCTTTAAGAGGTTC-ACCACAAAGGCTTACCTTTCCAGAGTTTACCA-A
** * * ** ** *
7048541 AAA-AAGTTCCTTTGATACATTGGCCACAAAGGCTTACCTTTCCAGAGTTTACCAC
1 AAAGGCGTTCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTCCAGAGTTTACCAA
* * *
7048596 AAAGGCGTTCCTTTATGAGGTTCACTACAAATGCTT
1 AAAGGCGTTCCTTTAAGAGGTTCACCACAAAGGCTT
7048632 TCCCTTCTTG
Statistics
Matches: 201, Mismatches: 55, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
55 3 0.01
56 195 0.97
57 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (56 bp):
AAAGGCGTTCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTCCAGAGTTTACCAA
Found at i:7048469 original size:84 final size:84
Alignment explanation
Indices: 7048313--7048469 Score: 189
Period size: 84 Copynumber: 1.9 Consensus size: 84
7048303 CGATGCTTGT
* * *
7048313 CACAAAGGCTTTCCTTTCAGAGGTTCACCAAAAAAGCTTACCTTTCAAGAGTTTGGCATAAAGGT
1 CACAAAGGCTTACCTTTCAGAGGTTCACCAAAAAAGCTTACCTTTCAAGAGTTCGGCACAAAGGT
*
7048378 ATTCCTTTAAGAGGTTCAC
66 ATACCTTTAAGAGGTTCAC
*
7048397 CACAAAGGCTTACCTTTCTAGA-GTTTACCAAAAACA-CGTT-CCTTT-AAGAGGTTCGGCACAA
1 CACAAAGGCTTACCTTTC-AGAGGTTCACCAAAAA-AGC-TTACCTTTCAAGA-GTTCGGCACAA
7048458 AGGCT-TACCTTT
62 AGG-TATACCTTT
7048470 CTAGATTTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
83 4 0.06
84 52 0.83
85 7 0.11
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (84 bp):
CACAAAGGCTTACCTTTCAGAGGTTCACCAAAAAAGCTTACCTTTCAAGAGTTCGGCACAAAGGT
ATACCTTTAAGAGGTTCAC
Found at i:7048484 original size:28 final size:28
Alignment explanation
Indices: 7048313--7048488 Score: 92
Period size: 28 Copynumber: 6.3 Consensus size: 28
7048303 CGATGCTTGT
* **
7048313 CACAAAGGCTTTCCTTTC-AGAGGTTCAC
1 CACAAAGGCTTACCTTTCTAGA-GTTTGC
* * * *
7048341 CAAAAAAGCTTACCTTTCAAGAGTTTGG
1 CACAAAGGCTTACCTTTCTAGAGTTTGC
* * * **
7048369 CATAAAGG-TATTCCTTT-AAGAGGTTCAC
1 CACAAAGGCT-TACCTTTCTAGA-GTTTGC
*
7048397 CACAAAGGCTTACCTTTCTAGAGTTTAC
1 CACAAAGGCTTACCTTTCTAGAGTTTGC
* ** * * *
7048425 CAAAAACACGTT-CCTTT-AAGAGGTTCGG
1 CACAAAGGC-TTACCTTTCTAGA-GTTTGC
*
7048453 CACAAAGGCTTACCTTTCTAGATTTTGC
1 CACAAAGGCTTACCTTTCTAGAGTTTGC
7048481 CACAAAGG
1 CACAAAGG
7048489 TGTTGCTTAA
Statistics
Matches: 109, Mismatches: 30, Indels: 18
0.69 0.19 0.11
Matches are distributed among these distances:
27 10 0.09
28 87 0.80
29 12 0.11
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (28 bp):
CACAAAGGCTTACCTTTCTAGAGTTTGC
Found at i:7048520 original size:112 final size:111
Alignment explanation
Indices: 7048323--7048631 Score: 325
Period size: 112 Copynumber: 2.8 Consensus size: 111
7048313 CACAAAGGCT
* ** * * * * *
7048323 TTCCTTTCAGAGGTTCACCAAAAAAGCTTACCTTTCAAGAGTTTGGCATAAAGGTATTCCTTTAA
1 TTCCTTTAAGAGGTTCGGCACAAAGGCTTACCTTTCAAGAGTTTGCCACAAAGGTGTTCCTTTAA
** * *
7048388 GAGGTTCACCACAAAGGCTTACCTTTCTAGAGTTTACCA-AAAACACG
66 GAGGTTCA-CACAAAGGCTTAAATTTCCAGAGTTTACCATAAAA-AAG
* * * *
7048435 TTCCTTTAAGAGGTTCGGCACAAAGGCTTACCTTTCTAGATTTTGCCACAAAGGTGTTGCTTAAA
1 TTCCTTTAAGAGGTTCGGCACAAAGGCTTACCTTTCAAGAGTTTGCCACAAAGGTGTTCCTTTAA
*
7048500 GAGGTTCGACACAAAGGCTTAAATTTCCAGAGTTTTCCATAAAAAAG
66 GAGGTTC-ACACAAAGGCTTAAATTTCCAGAGTTTACCATAAAAAAG
* * ** * * *
7048547 TTCCTTTGATACATT-GGCCACAAAGGCTTACCTTTCCAGAGTTTACCACAAAGGCGTTCCTTTA
1 TTCCTTTAAGAGGTTCGG-CACAAAGGCTTACCTTTCAAGAGTTTGCCACAAAGGTGTTCCTTTA
* *
7048611 TGAGGTTCACTACAAATGCTT
65 AGAGGTTCAC-ACAAAGGCTT
7048632 TCCCTTCTTG
Statistics
Matches: 164, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
111 4 0.02
112 155 0.95
113 5 0.03
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (111 bp):
TTCCTTTAAGAGGTTCGGCACAAAGGCTTACCTTTCAAGAGTTTGCCACAAAGGTGTTCCTTTAA
GAGGTTCACACAAAGGCTTAAATTTCCAGAGTTTACCATAAAAAAG
Found at i:7061163 original size:76 final size:76
Alignment explanation
Indices: 7061081--7061309 Score: 235
Period size: 76 Copynumber: 3.0 Consensus size: 76
7061071 ATATAAATCG
* * * * *
7061081 ACAATGATTTGCACCCAAAGCTAGTCGGATAACTTGACGATATCAAAGGTGTTCCCAACACTAGT
1 ACAATGATTTGCGCCCAACGCTAGTCGGATAACTCGACGATATCAAATGTGTACCCAACACTAGT
7061146 TGGATGTACCA
66 TGGATGTACCA
* * * * * * *
7061157 ATAATGATTTGCGTCCAACGCTATTCGAATAACTCGACAATATCAAATGTGTACCTAGCACTAGT
1 ACAATGATTTGCGCCCAACGCTAGTCGGATAACTCGACGATATCAAATGTGTACCCAACACTAGT
**
7061222 CAGATGTACCA
66 TGGATGTACCA
* * * * * * * * *
7061233 CCAATTATTTGCGCCTAGCTCTAGTCGGATAAAC-CAAGGATATCAAATGTGTGCCCATCACTAG
1 ACAATGATTTGCGCCCAACGCTAGTCGGAT-AACTCGACGATATCAAATGTGTACCCAACACTAG
7061297 TTGGATGTACCA
65 TTGGATGTACCA
7061309 A
1 A
7061310 AAATTCTTCA
Statistics
Matches: 120, Mismatches: 32, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
76 117 0.98
77 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (76 bp):
ACAATGATTTGCGCCCAACGCTAGTCGGATAACTCGACGATATCAAATGTGTACCCAACACTAGT
TGGATGTACCA
Found at i:7064625 original size:21 final size:20
Alignment explanation
Indices: 7064599--7064656 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
7064589 AACTATGAAT
7064599 CTAAAATCTCAAACCCTAAA
1 CTAAAATCTCAAACCCTAAA
* * *
7064619 CTCAAAATATAAAACCCAAAA
1 CT-AAAATCTCAAACCCTAAA
* *
7064640 CTTAAACCTCAAACCCT
1 CTAAAATCTCAAACCCT
7064657 TGAACTCGAA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (20 bp):
CTAAAATCTCAAACCCTAAA
Found at i:7065288 original size:13 final size:13
Alignment explanation
Indices: 7065267--7065305 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
7065257 TTATTTGTAA
*
7065267 AAAAATTAAAATT
1 AAAAATTAAAAAT
*
7065280 AAAATTTAAAAAT
1 AAAAATTAAAAAT
7065293 AAAAA-TAAAAAT
1 AAAAATTAAAAAT
7065305 A
1 A
7065306 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAATTAAAAAT
Found at i:7065290 original size:20 final size:20
Alignment explanation
Indices: 7065267--7065304 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7065257 TTATTTGTAA
* *
7065267 AAAAATTAAAATTAAAATTT
1 AAAAATAAAAATAAAAATTT
7065287 AAAAATAAAAATAAAAAT
1 AAAAATAAAAATAAAAAT
7065305 ATTTTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATAAAAATAAAAATTT
Found at i:7083073 original size:52 final size:52
Alignment explanation
Indices: 7083011--7083232 Score: 306
Period size: 52 Copynumber: 4.3 Consensus size: 52
7083001 TTCCCATTTA
* * * *
7083011 ATACTCACGATGACATAAAGTCATTGGACCTTA-AATCCGTAAAAGGATCCAT
1 ATACTCACGATGACACAAAGTCATCGGACCTCATAATCCGT-AAAGGATTCAT
* *
7083063 ATACTCACGATGACACAAAGTCATCGGACCTTA-AATTCGTAAAGGATTCAT
1 ATACTCACGATGACACAAAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
7083114 ATACTCACGATGACA-AATAGTCATCGAACCTCATAATCCGTAAAGGATTCAA
1 ATACTCACGATGACACAA-AGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* **
7083166 ATACTCACGATAACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACAAAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
7083218 ATACTCACGATGACA
1 ATACTCACGATGACA
7083233 TGTAGTCATC
Statistics
Matches: 153, Mismatches: 14, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
50 2 0.01
51 38 0.25
52 113 0.74
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (52 bp):
ATACTCACGATGACACAAAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:7083190 original size:103 final size:104
Alignment explanation
Indices: 7083011--7083247 Score: 327
Period size: 103 Copynumber: 2.3 Consensus size: 104
7083001 TTCCCATTTA
* * * * *
7083011 ATACTCACGATGACATAA-AGTCATTGGACCTTAAATCCGTAAAAGGATCCATATACTCACGATG
1 ATACTCACGATGACA-AATAGTCATCGAACCTCAAATCCGTAAAAGGATCCAAATACTCACGATA
* *
7083075 ACACAAAGTCATCGGACCTTA-AATTCGTAAAGGATTCAT
65 ACACAAAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
7083114 ATACTCACGATGACAAATAGTCATCGAACCTCATAATCCGT-AAAGGATTCAAATACTCACGATA
1 ATACTCACGATGACAAATAGTCATCGAACCTCA-AATCCGTAAAAGGATCCAAATACTCACGATA
**
7083178 ACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
65 ACACAAAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
**
7083218 ATACTCACGATGACATGTAGTCATCGAACC
1 ATACTCACGATGACAAATAGTCATCGAACC
7083248 ATTTTCATTT
Statistics
Matches: 119, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
102 2 0.02
103 65 0.55
104 52 0.44
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (104 bp):
ATACTCACGATGACAAATAGTCATCGAACCTCAAATCCGTAAAAGGATCCAAATACTCACGATAA
CACAAAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:7084501 original size:97 final size:97
Alignment explanation
Indices: 7084335--7084528 Score: 334
Period size: 97 Copynumber: 2.0 Consensus size: 97
7084325 AACCTTGAAA
* *
7084335 AAGGGTATTCGATTATCCCGATTTGAAGAAAAGTCGTGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
*
7084400 AAACCCAAAATAAAGTAATATTGCCTCGATTT
66 AAACCCAAAATAAAGAAATATTGCCTCGATTT
* *
7084432 AAGGGTATTCGATTATCCCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACGAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
*
7084497 AAACCCGAAATAAAGAAATATTGCCTCGATTT
66 AAACCCAAAATAAAGAAATATTGCCTCGATTT
7084529 TAAATATTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACCCAAAATAAAGAAATATTGCCTCGATTT
Found at i:7084711 original size:15 final size:14
Alignment explanation
Indices: 7084659--7084711 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
7084649 AAATATATGG
7084659 AAATAAATATGAGAA
1 AAATAAA-ATGAGAA
7084674 AAATAAAAT-ACGAGA
1 AAATAAAATGA-GA-A
7084689 AAAT-AAATGAGAA
1 AAATAAAATGAGAA
7084702 AATATAAAAT
1 AA-ATAAAAT
7084712 TAATTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.12
14 12 0.36
15 17 0.52
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.19
Consensus pattern (14 bp):
AAATAAAATGAGAA
Found at i:7084863 original size:29 final size:29
Alignment explanation
Indices: 7084816--7084937 Score: 120
Period size: 29 Copynumber: 4.2 Consensus size: 29
7084806 TAAAACACAA
* * *
7084816 TTTTGGAAAGTTCTAAGGTAAAAATGTTAT
1 TTTTGGAAAATT-TGAGGTAAAAATGTAAT
* * *
7084846 TTTAGGAAAATTTGAGGTAAAAACGTGAT
1 TTTTGGAAAATTTGAGGTAAAAATGTAAT
* *
7084875 TTTTGG-AAGTTTGAGGGCAAAAATGTAAT
1 TTTTGGAAAATTTGA-GGTAAAAATGTAAT
** *
7084904 TTTTGGAAGTTTTGGGGTAAAAATGTAAT
1 TTTTGGAAAATTTGAGGTAAAAATGTAAT
7084933 TTTTG
1 TTTTG
7084938 AGAAGTTTTG
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
28 7 0.09
29 54 0.71
30 15 0.20
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (29 bp):
TTTTGGAAAATTTGAGGTAAAAATGTAAT
Found at i:7084885 original size:58 final size:58
Alignment explanation
Indices: 7084816--7084945 Score: 145
Period size: 58 Copynumber: 2.2 Consensus size: 58
7084806 TAAAACACAA
* * *
7084816 TTTTGGAAAGTTCT-AAGGTAAAAATGTTATTTTAGGAAAATTTGAGGTAAAAACGTGAT
1 TTTTGG-AAGTT-TGAAGGCAAAAATGTAATTTTAGGAAAATTTGAGGTAAAAACGTAAT
* * ** * *
7084875 TTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTTTGGGGTAAAAATGTAAT
1 TTTTGGAAGTTTGAAGGCAAAAATGTAATTTTAGGAAAATTTGAGGTAAAAACGTAAT
7084933 TTTTGAGAAGTTT
1 TTTTG-GAAGTTT
7084946 TGGGGTCAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 1 0.02
58 46 0.77
59 13 0.22
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (58 bp):
TTTTGGAAGTTTGAAGGCAAAAATGTAATTTTAGGAAAATTTGAGGTAAAAACGTAAT
Found at i:7084914 original size:87 final size:86
Alignment explanation
Indices: 7084816--7085001 Score: 203
Period size: 87 Copynumber: 2.1 Consensus size: 86
7084806 TAAAACACAA
* *
7084816 TTTTGGAAAGTTCTAAGGTAAAAATGTTATTTTAG-GAAAATTTGAGGTAAAAACGTGATTTTTG
1 TTTTGG-AAGTTCTAAGGTAAAAATGTAATTTTAGAGAAAATTTGAGGTAAAAACGTG-GTTTTG
* *
7084880 GAAGTTTGAGGGCAAAAATGTAAT
64 GAAGTTTAAGGG-AAAAATGCAAT
* ** * ** * * *
7084904 TTTTGGAAGTTTTGGGGTAAAAATGTAATTTTTGAGAAGTTTTGGGGTCAAAATGTGGTTTTGGA
1 TTTTGGAAGTTCTAAGGTAAAAATGTAATTTTAGAGAAAATTTGAGGTAAAAACGTGGTTTTGGA
*
7084969 AGTTTAAGGGTAAAATGCAAT
66 AGTTTAAGGGAAAAATGCAAT
7084990 TTTTGAGAAGTT
1 TTTTG-GAAGTT
7085002 TGGGAGTCAA
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
86 14 0.17
87 45 0.55
88 23 0.28
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (86 bp):
TTTTGGAAGTTCTAAGGTAAAAATGTAATTTTAGAGAAAATTTGAGGTAAAAACGTGGTTTTGGA
AGTTTAAGGGAAAAATGCAAT
Found at i:7084965 original size:29 final size:28
Alignment explanation
Indices: 7084836--7085021 Score: 137
Period size: 29 Copynumber: 6.4 Consensus size: 28
7084826 TTCTAAGGTA
* ** * *
7084836 AAAATGTTATTTTAGGAAAATTTGAGGTA
1 AAAATG-TATTTTTGGAAGTTTTGGGGTC
*
7084865 AAAACGTGATTTTTGGAAG-TTTGAGGG-C
1 AAAATGT-ATTTTTGGAAGTTTTG-GGGTC
*
7084893 AAAAATGTAATTTTTGGAAGTTTTGGGGTA
1 -AAAATGT-ATTTTTGGAAGTTTTGGGGTC
7084923 AAAATGTAATTTTTGAGAAGTTTTGGGGTC
1 AAAATGT-ATTTTTG-GAAGTTTTGGGGTC
** **
7084953 AAAATGTGGTTTTGGAAGTTTAAGGGT-
1 AAAATGTATTTTTGGAAGTTTTGGGGTC
*
7084980 AAAATGCAATTTTTGAGAAG-TTTGGGAGTC
1 AAAATG-TATTTTTG-GAAGTTTTGGG-GTC
7085010 AAAATGTGATTT
1 AAAATGT-ATTT
7085022 CTAGACAGTT
Statistics
Matches: 127, Mismatches: 19, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
27 6 0.05
28 25 0.20
29 62 0.49
30 34 0.27
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (28 bp):
AAAATGTATTTTTGGAAGTTTTGGGGTC
Found at i:7084966 original size:58 final size:57
Alignment explanation
Indices: 7084856--7085017 Score: 186
Period size: 58 Copynumber: 2.8 Consensus size: 57
7084846 TTTAGGAAAA
* * * **
7084856 TTTGAGGTAAAAACGTGATTTTTG-GAAGTTTGAGGG-CAAAAATGTAATTTTTGGAAGT
1 TTTGGGGTAAAAATGTAATTTTTGAGAAGTTTG-GGGTC-AAAATGT-GGTTTTGGAAGT
7084914 TTTGGGGTAAAAATGTAATTTTTGAGAAGTTTTGGGGTCAAAATGTGGTTTTGGAAGT
1 TTTGGGGTAAAAATGTAATTTTTGAGAAG-TTTGGGGTCAAAATGTGGTTTTGGAAGT
** *
7084972 TTAAGGGT-AAAATGCAATTTTTGAGAAGTTTGGGAGTCAAAATGTG
1 TTTGGGGTAAAAATGTAATTTTTGAGAAGTTTGGG-GTCAAAATGTG
7085018 ATTTCTAGAC
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
56 6 0.07
57 30 0.33
58 37 0.40
59 14 0.15
60 5 0.05
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.36
Consensus pattern (57 bp):
TTTGGGGTAAAAATGTAATTTTTGAGAAGTTTGGGGTCAAAATGTGGTTTTGGAAGT
Found at i:7085000 original size:57 final size:58
Alignment explanation
Indices: 7084904--7085017 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 58
7084894 AAAATGTAAT
** *
7084904 TTTTGGAAGTTTTGGGGTAAAAATGTAATTTTTGAGAAGTTTTGGG-GTCAAAATGTGG
1 TTTTGGAAGTTTAAGGGTAAAAATGCAATTTTTGAGAAG-TTTGGGAGTCAAAATGTGG
7084962 TTTTGGAAGTTTAAGGGT-AAAATGCAATTTTTGAGAAGTTTGGGAGTCAAAATGTG
1 TTTTGGAAGTTTAAGGGTAAAAATGCAATTTTTGAGAAGTTTGGGAGTCAAAATGTG
7085018 ATTTCTAGAC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
56 6 0.12
57 30 0.58
58 16 0.31
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.38
Consensus pattern (58 bp):
TTTTGGAAGTTTAAGGGTAAAAATGCAATTTTTGAGAAGTTTGGGAGTCAAAATGTGG
Found at i:7086807 original size:6 final size:6
Alignment explanation
Indices: 7086796--7086872 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
7086786 TAGATTTGAA
* *
7086796 TAAATT TAAATT TAAA-- TAATTT TAAATT TAAA-A T-AATT TAAACTT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAA-TT
* * *
7086841 AAAAAT T-AATT TAAATT TAAA-A TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
7086873 CCTAAAACAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
4 5 0.09
5 10 0.19
6 34 0.63
7 5 0.09
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:7086808 original size:16 final size:16
Alignment explanation
Indices: 7086784--7086872 Score: 90
Period size: 16 Copynumber: 5.4 Consensus size: 16
7086774 TATTATTTAT
* *
7086784 TTTAGATTTGAATAAA
1 TTTAAATTTAAATAAA
*
7086800 TTTAAATTTAAATAAT
1 TTTAAATTTAAATAAA
7086816 TTTAAATTTAAA-ATAA
1 TTTAAATTTAAATA-AA
* *
7086832 TTTAAACTTAAAAATTAA
1 TTTAAA-TT-TAAATAAA
7086850 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
7086867 TTTAAA
1 TTTAAA
7086873 CCTAAAACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
15 1 0.02
16 32 0.53
17 16 0.27
18 11 0.18
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:7086831 original size:17 final size:16
Alignment explanation
Indices: 7086798--7086872 Score: 98
Period size: 17 Copynumber: 4.5 Consensus size: 16
7086788 GATTTGAATA
7086798 AATTTAAATTT-AAAT
1 AATTTAAATTTAAAAT
7086813 AATTTTAAATTTAAAAT
1 AA-TTTAAATTTAAAAT
*
7086830 AATTTAAACTTAAAAATT
1 AATTTAAA-TTTAAAA-T
7086848 AATTTAAATTTAAAAT
1 AATTTAAATTTAAAAT
7086864 AAATTTAAA
1 -AATTTAAA
7086873 CCTAAAACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.04
16 16 0.30
17 26 0.49
18 9 0.17
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTTAAATTTAAAAT
Found at i:7086878 original size:17 final size:17
Alignment explanation
Indices: 7086794--7086889 Score: 97
Period size: 17 Copynumber: 5.7 Consensus size: 17
7086784 TTTAGATTTG
*
7086794 AATAAATTTAAA-TTTA
1 AATAAATTTAAACTTAA
* *
7086810 AATAATTTTAAATTTAA
1 AATAAATTTAAACTTAA
7086827 AAT-AATTTAAACTTAAA
1 AATAAATTTAAACTT-AA
* *
7086844 AATTAATTTAAATTTAA
1 AATAAATTTAAACTTAA
*
7086861 AATAAATTTAAACCTAA
1 AATAAATTTAAACTTAA
* *
7086878 AACAAAATTAAA
1 AATAAATTTAAA
7086890 AAAATGAGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
16 20 0.30
17 37 0.55
18 10 0.15
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAAATTTAAACTTAA
Found at i:7087420 original size:77 final size:78
Alignment explanation
Indices: 7087316--7087480 Score: 183
Period size: 77 Copynumber: 2.1 Consensus size: 78
7087306 CCATGATTGG
* * * * *
7087316 GGTAAGAGATTGGCTGATGATGATCTGCCTC-AGGTTCGAGGTAAGAGATCGAATGGTTGCAATC
1 GGTAAGAGATTGGCTAATGATGATCTGCCCCAAGCTT-GAGGTAAGAGATCGAATGATGGCAATC
* *
7087380 TGTCCTAGGCTTGA
65 TGCCCTAGGCTCGA
* * * **
7087394 -GTAAGAGATTGGTTAATTG-TGATCTGCCCCAAGCTTGGGGTAAGAGATCGACTGATGGTGATC
1 GGTAAGAGATTGGCTAA-TGATGATCTGCCCCAAGCTTGAGGTAAGAGATCGAATGATGGCAATC
7087457 TGCCCTAGGCTCGA
65 TGCCCTAGGCTCGA
7087471 GGTAAGAGAT
1 GGTAAGAGAT
7087481 CGAATGGCTA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
77 57 0.79
78 15 0.21
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (78 bp):
GGTAAGAGATTGGCTAATGATGATCTGCCCCAAGCTTGAGGTAAGAGATCGAATGATGGCAATCT
GCCCTAGGCTCGA
Found at i:7087497 original size:116 final size:116
Alignment explanation
Indices: 7087293--7087506 Score: 313
Period size: 116 Copynumber: 1.8 Consensus size: 116
7087283 ACTTCGAATG
* * * * *
7087293 ATTGTCATCTTCCCCATGATTGGGGTAAGAGATTGGCTGATGATGATCTGCCTCAGGTTCGAGGT
1 ATTGTCATCTGCCCCAAGATTGGGGTAAGAGATCGACTGATGATGATCTGCCTCAGGCTCGAGGT
* * *
7087358 AAGAGATCGAATGGTTGCAATCTGTCCTAGGCTTGAGTAAGAGATTGGTTA
66 AAGAGATCGAATGGCTACAATCTGCCCTAGGCTTGAGTAAGAGATTGGTTA
* * *
7087409 ATTGTGATCTGCCCCAAGCTTGGGGTAAGAGATCGACTGATGGTGATCTGCC-CTAGGCTCGAGG
1 ATTGTCATCTGCCCCAAGATTGGGGTAAGAGATCGACTGATGATGATCTGCCTC-AGGCTCGAGG
7087473 TAAGAGATCGAATGGCTACAATCTGCCCTAGGCT
65 TAAGAGATCGAATGGCTACAATCTGCCCTAGGCT
7087507 CAGGGTAGGA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
115 1 0.01
116 85 0.99
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (116 bp):
ATTGTCATCTGCCCCAAGATTGGGGTAAGAGATCGACTGATGATGATCTGCCTCAGGCTCGAGGT
AAGAGATCGAATGGCTACAATCTGCCCTAGGCTTGAGTAAGAGATTGGTTA
Found at i:7087519 original size:78 final size:78
Alignment explanation
Indices: 7087431--7087793 Score: 306
Period size: 78 Copynumber: 4.7 Consensus size: 78
7087421 CCCAAGCTTG
* * * *
7087431 GGGTAAGAGATCGACTGATGGTGATCTGCCCTAGGCTCGAGGTAAGAGATCGAATGGCTACAATC
1 GGGTAAGAGATTGACTGATGGTGATCTACCCTAGGCTCGGGGTAAGAGATCGAATGGCTGCAATC
* *
7087496 TGCCCTAGGCTCA
66 TGCCCCAGGATCA
* * * * * * * *
7087509 GGGTAGGAGATCGA---ATGGCTACAATCTACTCTAGGTTCGAGGTAAGAGATCAAATGGCTGTA
1 GGGTAAGAGATTGACTGATGG-T--GATCTACCCTAGGCTCGGGGTAAGAGATCGAATGGCTGCA
* ** *
7087571 ATCTGCTCCACTATCG
63 ATCTGCCCCAGGATCA
* *
7087587 GGGTAAGAGATTTACTGATGGTGATCTACCCCT-GGCTCGGGGTAAGAGATCGAATGGTTGCAAT
1 GGGTAAGAGATTGACTGATGGTGATCTA-CCCTAGGCTCGGGGTAAGAGATCGAATGGCTGCAAT
* *
7087651 CTGCCCCATGATCG
65 CTGCCCCAGGATCA
* * * * * * * * * * *
7087665 GGGTAAGAGATTGGCTGGTGATGATTTGCCCTAAGCTCGGGGTAAGAGACCGAACGGTTGTAATT
1 GGGTAAGAGATTGACTGATGGTGATCTACCCTAGGCTCGGGGTAAGAGATCGAATGGCTGCAATC
7087730 TGCCCCA-GACTCA
66 TGCCCCAGGA-TCA
* * *
7087743 GGGTAAGAGATTGGCTGATGATGATCTACTCC-AGGCTCGGGGTAAAAGATC
1 GGGTAAGAGATTGACTGATGGTGATCTAC-CCTAGGCTCGGGGTAAGAGATC
7087794 AAAATCATTA
Statistics
Matches: 230, Mismatches: 45, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
75 4 0.02
76 1 0.00
77 6 0.03
78 209 0.91
79 5 0.02
80 1 0.00
81 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (78 bp):
GGGTAAGAGATTGACTGATGGTGATCTACCCTAGGCTCGGGGTAAGAGATCGAATGGCTGCAATC
TGCCCCAGGATCA
Found at i:7087709 original size:156 final size:156
Alignment explanation
Indices: 7087415--7087793 Score: 370
Period size: 156 Copynumber: 2.4 Consensus size: 156
7087405 GTTAATTGTG
* * * *
7087415 ATCTGCCCCA-AGCTTGGGGTAAGAGATCGACTGATGGTGATCT-GCCCTAGGCTCGAGGTAAGA
1 ATCTGCCCCAGA-CTCGGGGTAAGAGATTGACTGATGGTGATCTACCCCT-GGCTCGGGGTAAGA
* * * * *
7087478 GATCGAATGGCTACAATCTGCCCTAGGCTCAGGGTAGGAGATCGAATGGCTACAATCTACTCTAG
64 GATCGAATGGCTACAATCTGCCCCAGGATCAGGGTAAGAGATCGAATGGCTACAATCTACCCTAA
* * *
7087543 GTTCGAGGTAAGAGATCAAATGGCTGTA
129 GCTCGAGGTAAGAGACCAAACGGCTGTA
* * *
7087571 ATCTGCTCCACTA-TCGGGGTAAGAGATTTACTGATGGTGATCTACCCCTGGCTCGGGGTAAGAG
1 ATCTGCCCCA-GACTCGGGGTAAGAGATTGACTGATGGTGATCTACCCCTGGCTCGGGGTAAGAG
* * * * * ** ** * *
7087635 ATCGAATGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGCTGG-TGATGATTTGCCCTAA
65 ATCGAATGGCTACAATCTGCCCCAGGATCAGGGTAAGAGATCGAATGGCT-ACAATCTACCCTAA
* * *
7087699 GCTCGGGGTAAGAGACCGAACGGTTGTA
129 GCTCGAGGTAAGAGACCAAACGGCTGTA
* * * * * * *
7087727 ATTTGCCCCAGACTCAGGGTAAGAGATTGGCTGATGATGATCTACTCCAGGCTCGGGGTAAAAGA
1 ATCTGCCCCAGACTCGGGGTAAGAGATTGACTGATGGTGATCTACCCCTGGCTCGGGGTAAGAGA
7087792 TC
66 TC
7087794 AAAATCATTA
Statistics
Matches: 180, Mismatches: 38, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
155 2 0.01
156 173 0.96
157 4 0.02
158 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (156 bp):
ATCTGCCCCAGACTCGGGGTAAGAGATTGACTGATGGTGATCTACCCCTGGCTCGGGGTAAGAGA
TCGAATGGCTACAATCTGCCCCAGGATCAGGGTAAGAGATCGAATGGCTACAATCTACCCTAAGC
TCGAGGTAAGAGACCAAACGGCTGTA
Found at i:7087786 original size:39 final size:39
Alignment explanation
Indices: 7087314--7087792 Score: 150
Period size: 39 Copynumber: 12.3 Consensus size: 39
7087304 CCCCATGATT
* * *
7087314 GGGGTAAGAGATTGGCTGATGATGATCTGCCTCAGGTTC
1 GGGGTAAGAGATTGACTGATGATGATCTGCCCCAGGCTC
* * * * * *
7087353 GAGGTAAGAGATCGAATG--GTTGCAATCTGTCCTAGGCT-
1 GGGGTAAGAGATTGACTGATGATG--ATCTGCCCCAGGCTC
* * ** * * *
7087391 TGAGTAAGAGATTGGTTAATTG-TGATCTGCCCCAAGCTT
1 GGGGTAAGAGATTGACTGA-TGATGATCTGCCCCAGGCTC
* * *
7087430 GGGGTAAGAGATCGACTGATGGTGATCTGCCCTAGGCTC
1 GGGGTAAGAGATTGACTGATGATGATCTGCCCCAGGCTC
* * * * ** *
7087469 GAGGTAAGAGATCGAATGGCT-ACAATCTGCCCTAGGCTC
1 GGGGTAAGAGATTGACT-GATGATGATCTGCCCCAGGCTC
* * * * * ** * * * *
7087508 AGGGTAGGAGATCGAATGGCT-ACAATCTACTCTAGGTTC
1 GGGGTAAGAGATTGACT-GATGATGATCTGCCCCAGGCTC
* ** * * * * ***
7087547 GAGGTAAGAGATCAAATGGCTG-TAATCTGCTCCACTATC
1 GGGGTAAGAGATTGACT-GATGATGATCTGCCCCAGGCTC
* * * *
7087586 GGGGTAAGAGATTTACTGATGGTGATCTACCCCTGGCTC
1 GGGGTAAGAGATTGACTGATGATGATCTGCCCCAGGCTC
* * * * *
7087625 GGGGTAAGAGATCGAATG--GTTGCAATCTGCCCCATGATC
1 GGGGTAAGAGATTGACTGATGATG--ATCTGCCCCAGGCTC
* * * * *
7087664 GGGGTAAGAGATTGGCTGGTGATGATTTGCCCTAAGCTC
1 GGGGTAAGAGATTGACTGATGATGATCTGCCCCAGGCTC
** * * * * *
7087703 GGGGTAAGAGACCGAACGGTTG-TAATTTGCCCCAGACTC
1 GGGGTAAGAGATTG-ACTGATGATGATCTGCCCCAGGCTC
* * * *
7087742 AGGGTAAGAGATTGGCTGATGATGATCTACTCCAGGCTC
1 GGGGTAAGAGATTGACTGATGATGATCTGCCCCAGGCTC
*
7087781 GGGGTAAAAGAT
1 GGGGTAAGAGAT
7087793 CAAAATCATT
Statistics
Matches: 324, Mismatches: 100, Indels: 32
0.71 0.22 0.07
Matches are distributed among these distances:
37 6 0.02
38 31 0.10
39 275 0.85
40 8 0.02
41 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (39 bp):
GGGGTAAGAGATTGACTGATGATGATCTGCCCCAGGCTC
Found at i:7099401 original size:97 final size:97
Alignment explanation
Indices: 7099235--7099414 Score: 297
Period size: 97 Copynumber: 1.9 Consensus size: 97
7099225 AACCTTGAAA
* * ** * *
7099235 AAGGGTATTTGATTATCTCGGTTTGAAGAAAAGTCGCGCCTTGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGACTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
7099300 AAACCCGAAATAAAGGAATATTACCTCAATTT
66 AAACCCGAAATAAAGGAATATTACCTCAATTT
*
7099332 AAGGGTATTCGATTATCCCGACTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACGAATTTTCA
1 AAGGGTATTCGATTATCCCGACTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
7099397 AAACCCGAAATAAAGGAA
66 AAACCCGAAATAAAGGAA
7099415 CATTGCATCG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 76 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGACTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACCCGAAATAAAGGAATATTACCTCAATTT
Found at i:7099572 original size:15 final size:15
Alignment explanation
Indices: 7099552--7099602 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
7099542 AAATATAAGG
7099552 AAATAAATATGAGAA
1 AAATAAATATGAGAA
*
7099567 AAATAAAATACGAG-A
1 AAAT-AAATATGAGAA
7099582 AAAT-AAT-TGAGAA
1 AAATAAATATGAGAA
7099595 AATATAAA
1 AA-ATAAA
7099603 ATTAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 3 0.10
13 6 0.20
14 2 0.07
15 11 0.37
16 8 0.27
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.20
Consensus pattern (15 bp):
AAATAAATATGAGAA
Found at i:7099576 original size:30 final size:29
Alignment explanation
Indices: 7099542--7099604 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
7099532 AAGAATGAAC
* *
7099542 AAATATAAGGAAATAAATATGAGAAAA-ATA
1 AAATACAAGAAAAT-AAT-TGAGAAAATATA
*
7099572 AAATACGAGAAAATAATTGAGAAAATATA
1 AAATACAAGAAAATAATTGAGAAAATATA
7099601 AAAT
1 AAAT
7099605 TAATTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 8 0.28
29 10 0.34
30 11 0.38
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.21
Consensus pattern (29 bp):
AAATACAAGAAAATAATTGAGAAAATATA
Found at i:7099734 original size:30 final size:29
Alignment explanation
Indices: 7099664--7099843 Score: 97
Period size: 30 Copynumber: 6.1 Consensus size: 29
7099654 AAAGAAAAAA
7099664 AGGGGTCAAAAATG-AAGTTTT-GAAGAGTTT
1 AGGGGT-AAAAATGTAA-TTTTGGAA-AGTTT
*
7099694 -GGGGTTAAAATGTAATTTTGGAAAGTTTT
1 AGGGGTAAAAATGTAATTTTGGAAAG-TTT
* *
7099723 AGGGGTAAAAATGTTATTTTAGGAAAATTT
1 AGGGGTAAAAATGTAATTTT-GGAAAGTTT
* * *
7099753 -GAGGTAAAAACGTGATTTTTGG-AAG-TT
1 AGGGGTAAAAATGT-AATTTTGGAAAGTTT
* * *
7099780 CGAGGG-AAAAATATAATTTTTGAGAAA-TTC
1 AG-GGGTAAAAATGTAA-TTTTG-GAAAGTTT
* * * *
7099810 GGGGGTCAAAATGTGATTTTTGGATAGTTT
1 AGGGGTAAAAATGT-AATTTTGGAAAGTTT
7099840 AGGG
1 AGGG
7099844 ATCTTCTGGG
Statistics
Matches: 114, Mismatches: 21, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
27 3 0.03
28 26 0.23
29 35 0.31
30 44 0.39
31 6 0.05
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.34
Consensus pattern (29 bp):
AGGGGTAAAAATGTAATTTTGGAAAGTTT
Found at i:7099790 original size:29 final size:28
Alignment explanation
Indices: 7099753--7099838 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 28
7099743 AGGAAAATTT
* *
7099753 GAGGTAAAAACGTGATTTTTGGAAGTTC
1 GAGGGAAAAAAGTGATTTTTGGAAGTTC
* *
7099781 GAGGGAAAAATA-TAATTTTTGAGAAATTC
1 GAGGGAAAAA-AGTGATTTTTG-GAAGTTC
* * *
7099810 GGGGGTCAAAATGTGATTTTTGGATAGTT
1 GAGGG-AAAAAAGTGATTTTTGGA-AGTT
7099839 TAGGGATCTT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
28 17 0.39
29 12 0.27
30 15 0.34
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.34
Consensus pattern (28 bp):
GAGGGAAAAAAGTGATTTTTGGAAGTTC
Found at i:7101669 original size:16 final size:16
Alignment explanation
Indices: 7101645--7101733 Score: 97
Period size: 17 Copynumber: 5.4 Consensus size: 16
7101635 CATTATTTAT
* * *
7101645 TTTAGATTTGAATAAC
1 TTTAAATTTAAATAAA
*
7101661 TTTAAATTTAAATAAT
1 TTTAAATTTAAATAAA
7101677 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
* *
7101694 TTTAAACTTAAAATTAA
1 TTTAAA-TTTAAATAAA
7101711 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
7101728 TTTAAA
1 TTTAAA
7101734 CCTAAAACAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
16 24 0.39
17 36 0.58
18 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:7101672 original size:6 final size:6
Alignment explanation
Indices: 7101661--7101733 Score: 66
Period size: 6 Copynumber: 13.0 Consensus size: 6
7101651 TTTGAATAAC
* * *
7101661 TTTAAA TTTAAA --TAAT TTTAAA TTTAAA -ATAAA TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
7101706 ATT-AA TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
7101734 CCTAAAACAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
4 3 0.06
5 12 0.23
6 38 0.72
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:7101692 original size:17 final size:17
Alignment explanation
Indices: 7101655--7101733 Score: 115
Period size: 17 Copynumber: 4.7 Consensus size: 17
7101645 TTTAGATTTG
*
7101655 AATAACTTTAAATTT-A
1 AATAAATTTAAATTTAA
*
7101671 AATAATTTTAAATTTAA
1 AATAAATTTAAATTTAA
*
7101688 AATAAATTTAAACTTAA
1 AATAAATTTAAATTTAA
*
7101705 AATTAATTTAAATTTAA
1 AATAAATTTAAATTTAA
7101722 AATAAATTTAAA
1 AATAAATTTAAA
7101734 CCTAAAACAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
16 14 0.25
17 42 0.75
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:7101695 original size:11 final size:11
Alignment explanation
Indices: 7101679--7101733 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
7101669 TAAATAATTT
7101679 TAAATTTAAAA
1 TAAATTTAAAA
*
7101690 TAAATTTAAACT
1 TAAATTTAAA-A
* **
7101702 TAAAATTAATT
1 TAAATTTAAAA
7101713 TAAATTTAAAA
1 TAAATTTAAAA
7101724 TAAATTTAAA
1 TAAATTTAAA
7101734 CCTAAAACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
11 29 0.78
12 8 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:7101739 original size:17 final size:17
Alignment explanation
Indices: 7101655--7101750 Score: 104
Period size: 17 Copynumber: 5.7 Consensus size: 17
7101645 TTTAGATTTG
* *
7101655 AATAACTTTAAA-TTTA
1 AATAAATTTAAACTTAA
* *
7101671 AATAATTTTAAATTTAA
1 AATAAATTTAAACTTAA
7101688 AATAAATTTAAACTTAA
1 AATAAATTTAAACTTAA
* *
7101705 AATTAATTTAAATTTAA
1 AATAAATTTAAACTTAA
*
7101722 AATAAATTTAAACCTAA
1 AATAAATTTAAACTTAA
* *
7101739 AACAAAATTAAA
1 AATAAATTTAAA
7101751 AAATAAGTTC
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
16 11 0.16
17 57 0.84
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAAATTTAAACTTAA
Found at i:7106256 original size:14 final size:14
Alignment explanation
Indices: 7106237--7106263 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7106227 ACCTGACCAA
7106237 TTGACCGTTGACTG
1 TTGACCGTTGACTG
7106251 TTGACCGTTGACT
1 TTGACCGTTGACT
7106264 TTTCAATTGA
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:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (14 bp):
TTGACCGTTGACTG
Found at i:7107975 original size:17 final size:17
Alignment explanation
Indices: 7107933--7107975 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
7107923 AGAATTCACC
*
7107933 ATTTGGTGAATTCTAAG
1 ATTTGGTGAAATCTAAG
* *
7107950 A-TCGGTGAAATCTAGG
1 ATTTGGTGAAATCTAAG
7107966 ATTTGGTGAA
1 ATTTGGTGAA
7107976 CTCTTTTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (17 bp):
ATTTGGTGAAATCTAAG
Found at i:7108503 original size:22 final size:19
Alignment explanation
Indices: 7108474--7108513 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
7108464 TTTTATATGG
7108474 AATTTTGAATTGAAGAATTTT
1 AATTTTGAATT-AA-AATTTT
7108495 AATTATTGAATTAAAATTT
1 AATT-TTGAATTAAAATTT
7108514 AGTATAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (19 bp):
AATTTTGAATTAAAATTTT
Found at i:7109105 original size:20 final size:20
Alignment explanation
Indices: 7109066--7109103 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7109056 CCATTGAGGA
7109066 CTTAATTGATTTTATGAAAT
1 CTTAATTGATTTTATGAAAT
7109086 CTTAATTGATTTT-TGAAA
1 CTTAATTGATTTTATGAAA
7109104 ATTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (20 bp):
CTTAATTGATTTTATGAAAT
Found at i:7109302 original size:10 final size:10
Alignment explanation
Indices: 7109266--7109307 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
7109256 TAATTCATAT
7109266 ATAATTTTT-
1 ATAATTTTTA
7109275 ATAATATTTTA
1 ATAAT-TTTTA
7109286 AT-A-TTTTA
1 ATAATTTTTA
7109294 ATAATTTTTA
1 ATAATTTTTA
7109304 ATAA
1 ATAA
7109308 AAATTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.24
9 6 0.21
10 14 0.48
11 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:7109302 original size:18 final size:19
Alignment explanation
Indices: 7109269--7109306 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7109259 TTCATATATA
*
7109269 ATTTTTATAATATTTTAAT
1 ATTTTAATAATATTTTAAT
7109288 ATTTTAATAAT-TTTTAAT
1 ATTTTAATAATATTTTAAT
7109306 A
1 A
7109307 AAAATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTAATAATATTTTAAT
Found at i:7109691 original size:10 final size:10
Alignment explanation
Indices: 7109667--7109741 Score: 54
Period size: 10 Copynumber: 7.8 Consensus size: 10
7109657 TTTTCATAAT
*
7109667 ATATTTTATT
1 ATATTTTATA
*
7109677 TTATTTTATA
1 ATATTTTATA
7109687 ATA-TTTATA
1 ATATTTTATA
*
7109696 GCT-TTTTATA
1 -ATATTTTATA
7109706 A-ATTTTATA
1 ATATTTTATA
7109715 AT-TTTCTA-A
1 ATATTT-TATA
7109724 A-ATTGTTATA
1 ATATT-TTATA
7109734 ATATTTTA
1 ATATTTTA
7109742 ATATTTTTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
9 23 0.45
10 25 0.49
11 3 0.06
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (10 bp):
ATATTTTATA
Found at i:7109827 original size:30 final size:30
Alignment explanation
Indices: 7109754--7109845 Score: 112
Period size: 31 Copynumber: 3.0 Consensus size: 30
7109744 ATTTTTAGGC
* * *
7109754 TTAAATGATTAGAAAATCAATTAAGTTCTCA
1 TTAAATAATTA-AAAATTAATTAAGTCCTCA
*
7109785 TAAAAGTAATTAAAAATTAATTAAGTCCTCA
1 TTAAA-TAATTAAAAATTAATTAAGTCCTCA
*
7109816 TTAAATAATTAAAAATTCAATTAAGCCCTC
1 TTAAATAATTAAAAATT-AATTAAGTCCTC
7109846 CACATTAACA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 12 0.23
31 36 0.68
32 5 0.09
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.34
Consensus pattern (30 bp):
TTAAATAATTAAAAATTAATTAAGTCCTCA
Found at i:7112629 original size:31 final size:30
Alignment explanation
Indices: 7112594--7112712 Score: 104
Period size: 31 Copynumber: 3.9 Consensus size: 30
7112584 ATTTGGCACT
7112594 TAAATTTGACATTTTTTCTTAATTTGGTATC
1 TAAATTTGAC-TTTTTTCTTAATTTGGTATC
* *
7112625 TAAATTT---TTTTTTGTCCAATTTGGTAT-
1 TAAATTTGACTTTTTTCT-TAATTTGGTATC
* *
7112652 TCAAACTTGACATTTTTTCTTAATTTGGTACC
1 T-AAATTTGAC-TTTTTTCTTAATTTGGTATC
*
7112684 TAAATTTCGTACTTTTTT-TTAAGTTGGTA
1 TAAATTT-G-ACTTTTTTCTTAATTTGGTA
7112713 CTTAAACTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
27 8 0.11
28 15 0.21
31 31 0.44
32 15 0.21
33 2 0.03
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (30 bp):
TAAATTTGACTTTTTTCTTAATTTGGTATC
Found at i:7113094 original size:189 final size:188
Alignment explanation
Indices: 7112768--7113144 Score: 567
Period size: 189 Copynumber: 2.0 Consensus size: 188
7112758 TTCCTAGTTT
* ** * * *
7112768 GGTACTTAATTTTTTTTAAAAATTAATTCGTTAAGCATAGTTCCATACCTATTTTTAACATGGAT
1 GGTACTTAATCTTTTTTAAAAATTAATTCGTTAAGCATAACTCAATACCTATTTCTAACATGAAT
* *
7112833 TTTCTCTAAAACTGACAATATTTTTGTAGCATAACAAAAAAAAATTCAACACCGTTATTGTTTTG
66 TTTCTCTAAAACTGACAATATTTTTGTAGCATAACAAAAAAAAATTCAACACCATTATTGATTTG
* *
7112898 TGTAATTTTTATAATATTTAATAAATTTATGTACCAAATTGAATCTTAAAAAAAAGCTTA
131 CGTAA-TTTTATAATATTTAATAAATTTAAGTACCAAATTGAATCTT-AAAAAAAGCTTA
** *
7112958 GGTACTTAATCTTTTTT-ATTATTAATTCGTTAAGCATAACTCAATATCTATTTCTAACATGAAT
1 GGTACTTAATCTTTTTTAAAAATTAATTCGTTAAGCATAACTCAATACCTATTTCTAACATGAAT
* * * * *
7113022 TTTCTTTATAATTGACAATATTTTTGTAGCATAACAAAAAAAATTTCAACACTATTATTGATTTG
66 TTTCTCTAAAACTGACAATATTTTTGTAGCATAACAAAAAAAAATTCAACACCATTATTGATTTG
7113087 CGTAATTTTATAATATTTAATAAATTTAAGTACCAAATTGAATCTTAAAAAAAGCTTA
131 CGTAATTTTATAATATTTAATAAATTTAAGTACCAAATTGAATCTTAAAAAAAGCTTA
7113145 AGTTCGAAAT
Statistics
Matches: 169, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
187 12 0.07
188 40 0.24
189 101 0.60
190 16 0.09
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (188 bp):
GGTACTTAATCTTTTTTAAAAATTAATTCGTTAAGCATAACTCAATACCTATTTCTAACATGAAT
TTTCTCTAAAACTGACAATATTTTTGTAGCATAACAAAAAAAAATTCAACACCATTATTGATTTG
CGTAATTTTATAATATTTAATAAATTTAAGTACCAAATTGAATCTTAAAAAAAGCTTA
Found at i:7113219 original size:60 final size:60
Alignment explanation
Indices: 7113133--7113305 Score: 183
Period size: 60 Copynumber: 2.9 Consensus size: 60
7113123 ATTGAATCTT
* * * * **
7113133 AAAAAAAGCTTAAGT-TCGAAATTAGGAAAAAAATATCAAGTTCAGGTATTAAATTGGGTA
1 AAAAAAAGTTTAGGTATC-AAATTAGGAAAAAAATATCAAGTTCAGATACTAAATTGAATA
* * * *
7113193 AAAAAAAGTTTAGGTATCAAACTAGGAAAAAGA-GTCAAGTTCAGATACTAAATTGAATC
1 AAAAAAAGTTTAGGTATCAAATTAGGAAAAAAATATCAAGTTCAGATACTAAATTGAATA
* *
7113252 AAAAAAAGTTTAGGTACCAAATTA--AAAAATATATATCAAGTTCAGATACCAAAT
1 AAAAAAAGTTTAGGTATCAAATTAGGAAAAA-A-ATATCAAGTTCAGATACTAAAT
7113306 ATTATATTAA
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
57 5 0.05
59 43 0.46
60 44 0.47
61 2 0.02
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.25
Consensus pattern (60 bp):
AAAAAAAGTTTAGGTATCAAATTAGGAAAAAAATATCAAGTTCAGATACTAAATTGAATA
Found at i:7116268 original size:21 final size:19
Alignment explanation
Indices: 7116244--7116286 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
7116234 TTACTTCAAT
*
7116244 TATTTGAAAATTTATAATAAA
1 TATTAGAAAATTT-TAA-AAA
*
7116265 TATTAGCAAATTTTAAAAA
1 TATTAGAAAATTTTAAAAA
7116284 TAT
1 TAT
7116287 ATATTCGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 3 0.15
21 11 0.55
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (19 bp):
TATTAGAAAATTTTAAAAA
Found at i:7137235 original size:30 final size:29
Alignment explanation
Indices: 7137195--7137262 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
7137185 ATAATCTGTC
* *
7137195 TTTATAATTTTTAAAGGGTTAAATTA-AATT
1 TTTATCATTTTT-AAGGGTTAAAGTATAA-T
**
7137225 TTTATCATTTTTGGGGGTTAAAGTATAAT
1 TTTATCATTTTTAAGGGTTAAAGTATAAT
7137254 TTTATCATT
1 TTTATCATT
7137263 ACTAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.51
Consensus pattern (29 bp):
TTTATCATTTTTAAGGGTTAAAGTATAAT
Found at i:7141149 original size:6 final size:6
Alignment explanation
Indices: 7141138--7141163 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7141128 CACACACCTC
7141138 TCATCT TCATCT TCATCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TC
7141164 TTCCCTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (6 bp):
TCATCT
Found at i:7141367 original size:6 final size:6
Alignment explanation
Indices: 7141356--7141405 Score: 91
Period size: 6 Copynumber: 8.3 Consensus size: 6
7141346 CAAAAGGGAA
*
7141356 GAAGAT GAAGAT GAAAAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
7141404 GA
1 GA
7141406 GAGGTGTGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
GAAGAT
Found at i:7148678 original size:20 final size:21
Alignment explanation
Indices: 7148641--7148679 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
7148631 GAGAGCGACA
* *
7148641 AAGACGAAGAGAATGAAGATG
1 AAGACGAAGAAAAAGAAGATG
7148662 AAGA-GAAGAAAAAGAAGA
1 AAGACGAAGAAAAAGAAGA
7148680 AAGAAGGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.62, C:0.03, G:0.31, T:0.05
Consensus pattern (21 bp):
AAGACGAAGAAAAAGAAGATG
Found at i:7150761 original size:27 final size:27
Alignment explanation
Indices: 7150723--7150788 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
7150713 TGAAATGGAG
7150723 GCCAATTTAAACAAGTGGAGCAATCAA
1 GCCAATTTAAACAAGTGGAGCAATCAA
* *
7150750 GCCAATTTAAACACGTGGAGCTATCAA
1 GCCAATTTAAACAAGTGGAGCAATCAA
7150777 GCCAATTTAAAC
1 GCCAATTTAAAC
7150789 TTTTGAAGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (27 bp):
GCCAATTTAAACAAGTGGAGCAATCAA
Found at i:7153816 original size:16 final size:15
Alignment explanation
Indices: 7153790--7153820 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
7153780 ACCCTAAATC
7153790 CTAAATTATTTCACA
1 CTAAATTATTTCACA
7153805 CTAAACTTATTTCACA
1 CTAAA-TTATTTCACA
7153821 TGTTATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (15 bp):
CTAAATTATTTCACA
Found at i:7164989 original size:22 final size:22
Alignment explanation
Indices: 7164957--7164998 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7164947 CAACAGTAGA
*
7164957 CACACATAGTGCTAAATAGAAG
1 CACACACAGTGCTAAATAGAAG
*
7164979 CACACACAGTGCTGAATAGA
1 CACACACAGTGCTAAATAGA
7164999 GGGCACGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (22 bp):
CACACACAGTGCTAAATAGAAG
Found at i:7170032 original size:7 final size:7
Alignment explanation
Indices: 7170020--7170052 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
7170010 AATTATTGAA
7170020 TTATAGC
1 TTATAGC
7170027 TTATAGC
1 TTATAGC
7170034 TTATAGC
1 TTATAGC
7170041 TTATAGC
1 TTATAGC
7170048 TTATA
1 TTATA
7170053 TGTGTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (7 bp):
TTATAGC
Found at i:7171152 original size:23 final size:23
Alignment explanation
Indices: 7171126--7171275 Score: 203
Period size: 23 Copynumber: 6.4 Consensus size: 23
7171116 ACACTAGCGC
7171126 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
7171149 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
7171172 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
* *
7171197 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* * *
7171220 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
7171243 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
7171266 GCTCTCTGTT
1 GCTCTCTGTT
7171276 GCCCAGCACT
Statistics
Matches: 113, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
22 3 0.03
23 89 0.79
24 1 0.01
25 17 0.15
26 3 0.03
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:7171194 original size:46 final size:45
Alignment explanation
Indices: 7171126--7171300 Score: 167
Period size: 48 Copynumber: 3.7 Consensus size: 45
7171116 ACACTAGCGC
7171126 GCTCTCTGT-TTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGTATTAGCACT-TGTGTGCTCTCTGTTTAGCACGTCT-GT
* * *
7171172 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTG-TATTAGCACT-TGTGTGCTCTCTGTTTAGCAC-GTCTGT
* * *
7171220 GCTCTCTG-ATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTATTAGCAC-TTGTGTGCTCTCTGTTTAGCAC-GTCTGT
* *
7171266 GCTCTCTGT-TGCCCAGCACTTATGTGCTCTCTGTT
1 GCTCTCTGTAT---TAGCACTTGTGTGCTCTCTGTT
7171301 CAGTACTTCG
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
46 49 0.45
47 2 0.02
48 53 0.48
49 6 0.05
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (45 bp):
GCTCTCTGTATTAGCACTTGTGTGCTCTCTGTTTAGCACGTCTGT
Found at i:7171292 original size:71 final size:68
Alignment explanation
Indices: 7171126--7171323 Score: 197
Period size: 71 Copynumber: 2.8 Consensus size: 68
7171116 ACACTAGCGC
* * * * * *
7171126 GCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCTC-GTGCTCTCTGTTATTAGCAC
1 GCTCTCTGATTAGCACTTTATGTGCTCTCTGTTCAGTAC-T-TCGGTACTCTCTG-T-TTAGCAC
7171190 TGTGTGT
62 TGTGTGT
* *
7171197 GCTCTCTGATTAGCACTTTGTGTGCTCTCTGATT-AGTACTTTGTGTACTCTCTGTTTAGCACTG
1 GCTCTCTGATTAGCACTTTATGTGCTCTCTG-TTCAGTACTTCG-GTACTCTCTGTTTAGCACTG
7171261 TGTGT
64 TGTGT
*
7171266 GCTCTCTG-TTGCCCAGCAC-TTATGTGCTCTCTGTTCAGTACTTCGGTACTCTCCGTTT
1 GCTCTCTGATT----AGCACTTTATGTGCTCTCTGTTCAGTACTTCGGTACTCTCTGTTT
7171324 GTTCCGTTTA
Statistics
Matches: 111, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
68 2 0.02
69 23 0.21
70 16 0.14
71 63 0.57
72 7 0.06
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (68 bp):
GCTCTCTGATTAGCACTTTATGTGCTCTCTGTTCAGTACTTCGGTACTCTCTGTTTAGCACTGTG
TGT
Found at i:7182931 original size:18 final size:17
Alignment explanation
Indices: 7182903--7182944 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
7182893 CCACGTCAGC
7182903 AAAAA-AAATTAAACTTA
1 AAAAATAAATTAAA-TTA
*
7182920 AAATATAAATTAAATTA
1 AAAAATAAATTAAATTA
7182937 AAAAATAA
1 AAAAATAA
7182945 TATAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATAAATTAAATTA
Found at i:7183249 original size:32 final size:32
Alignment explanation
Indices: 7183176--7183251 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
7183166 AATGTAAGGT
* * *
7183176 TTTTTGGGTTTTAGATTTCAAAATTTTTGAGA
1 TTTTTGGGATTTAGATTTCAAAAATTTAGAGA
* * *
7183208 ATTTGGGGATTTAGATTTTAAAAATTTAGAGA
1 TTTTTGGGATTTAGATTTCAAAAATTTAGAGA
7183240 TTTTTGGGATTT
1 TTTTTGGGATTT
7183252 TTAGGATTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.28, C:0.01, G:0.21, T:0.50
Consensus pattern (32 bp):
TTTTTGGGATTTAGATTTCAAAAATTTAGAGA
Found at i:7184170 original size:87 final size:87
Alignment explanation
Indices: 7184039--7184213 Score: 314
Period size: 87 Copynumber: 2.0 Consensus size: 87
7184029 TTTGAGACTT
* *
7184039 ACTTTTGCCTCTAGGCTTAGGAGTTATGTTTTTGTCTTATGTTTGATTGGTATGCTGTATAAGTC
1 ACTTTTGCCTCTAGGCTTAGGAGTTATGTTTTTGTCTAATGTTTGATTGGTATGCTGCATAAGTC
* *
7184104 GGCAGTGTTTGTCTTGTCAGGG
66 GACAGTGTTTATCTTGTCAGGG
7184126 ACTTTTGCCTCTAGGCTTAGGAGTTATGTTTTTGTCTAATGTTTGATTGGTATGCTGCATAAGTC
1 ACTTTTGCCTCTAGGCTTAGGAGTTATGTTTTTGTCTAATGTTTGATTGGTATGCTGCATAAGTC
7184191 GACAGTGTTTATCTTGTCAGGG
66 GACAGTGTTTATCTTGTCAGGG
7184213 A
1 A
7184214 TTGATTTTAG
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (87 bp):
ACTTTTGCCTCTAGGCTTAGGAGTTATGTTTTTGTCTAATGTTTGATTGGTATGCTGCATAAGTC
GACAGTGTTTATCTTGTCAGGG
Found at i:7184480 original size:22 final size:22
Alignment explanation
Indices: 7184455--7184499 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7184445 TGTTTAATAA
7184455 TGTTTAATCGATGTTGCTATTT
1 TGTTTAATCGATGTTGCTATTT
*
7184477 TGTTTAATCGATGTTGCTGTTT
1 TGTTTAATCGATGTTGCTATTT
7184499 T
1 T
7184500 ACCGACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.09, G:0.20, T:0.56
Consensus pattern (22 bp):
TGTTTAATCGATGTTGCTATTT
Found at i:7188973 original size:63 final size:63
Alignment explanation
Indices: 7188874--7188994 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 63
7188864 AAATATCATC
* * *
7188874 TTCACTAACAGCACCTTTACCCAAACCCTCACCACCTCCTTCACCCTTAACACCTTCAACACT
1 TTCACTAACAGCACCCTTACCCAAACCCTCACCACCTCCCTCACCCTCAACACCTTCAACACT
** *
7188937 TTCACTAACAGCACCCCTT-CCCTCACCCTCATCACCTCCCTCACCCTCAACACCTTCA
1 TTCACTAACAGCA-CCCTTACCCAAACCCTCACCACCTCCCTCACCCTCAACACCTTCA
7188995 CTAACACCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
63 47 0.92
64 4 0.08
ACGTcount: A:0.26, C:0.50, G:0.02, T:0.23
Consensus pattern (63 bp):
TTCACTAACAGCACCCTTACCCAAACCCTCACCACCTCCCTCACCCTCAACACCTTCAACACT
Done.