Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2255
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: 10843
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Found at i:7004 original size:52 final size:52
Alignment explanation
Indices: 6924--7043 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
6914 AAAAGTTGTT
* *
6924 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
*
6976 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAATTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
7028 TGCATGTATCGATACA
1 TGCATGTATCGATACA
7044 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
Found at i:7056 original size:52 final size:51
Alignment explanation
Indices: 6924--7063 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 51
6914 AAAAGTTGTT
*
6924 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAATTGCC
* *
6976 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAATTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAATTGCC
*
7028 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTA-AT-AGTGTATCGATACA
7064 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
TGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAATTGCC
Found at i:7070 original size:13 final size:13
Alignment explanation
Indices: 7052--7076 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7042 CAAAGATCAG
7052 TGTATCGATACAA
1 TGTATCGATACAA
7065 TGTATCGATACA
1 TGTATCGATACA
7077 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7154 original size:33 final size:33
Alignment explanation
Indices: 7117--7183 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
7107 AGTAGCTTAA
7117 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
7150 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
7183 A
1 A
7184 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:7157 original size:13 final size:13
Alignment explanation
Indices: 7139--7163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7129 CAAAAAAATA
7139 TGTATCGATACAT
1 TGTATCGATACAT
7152 TGTATCGATACA
1 TGTATCGATACA
7164 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7262 original size:21 final size:21
Alignment explanation
Indices: 7221--7262 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7211 GTTGGGACCT
*
7221 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
7242 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
7263 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:7492 original size:55 final size:55
Alignment explanation
Indices: 7400--7648 Score: 347
Period size: 55 Copynumber: 4.5 Consensus size: 55
7390 AAAGGAGAGA
* *
7400 GCGTCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
7455 GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGACAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
7510 GCGTCCTGCTCTTTGAGGACTGGAGGGTGCCGCCAACTCGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
7565 GCGTCCTGCTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* **
7620 GCGTCCTACTCTTTGAGGACAAAAAGGTG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTG
7649 AAAGGAAGAG
Statistics
Matches: 169, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 3 0.02
55 166 0.98
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:7598 original size:110 final size:110
Alignment explanation
Indices: 7400--7639 Score: 392
Period size: 110 Copynumber: 2.2 Consensus size: 110
7390 AAAGGAGAGA
*
7400 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
1 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCT
* *
7465 CTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGACAG
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
7510 GCGTCCTGCTCTTTGAGGACT-GGAGGGTGCCGCCAACTCGTGTGGGCTTTAAAAGGCGTCCTGC
1 GCGTCCTACTCTTTGAGGACTAGGA-AGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGC
*
7574 TCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAG
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
7620 GCGTCCTACTCTTTGAGGAC
1 GCGTCCTACTCTTTGAGGAC
7640 AAAAAGGTGA
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
109 3 0.03
110 117 0.98
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (110 bp):
GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:7725 original size:93 final size:93
Alignment explanation
Indices: 7565--7800 Score: 395
Period size: 93 Copynumber: 2.5 Consensus size: 93
7555 GCTTTAAAAG
* *
7565 GCGTCCTGCTCTTTGAGGACT-GAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTAC
1 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTAC
*
7629 TCTTTGAGGACAAAAAGGTGAAAGGA-AGA
65 TCTTTGAGGAC-AAAAGGCGAAAGGAGAGA
* *
7658 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACT
7723 CTTTGAGGACAAAAGGCGAAAGGAGAGA
66 CTTTGAGGACAAAAGGCGAAAGGAGAGA
7751 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
7801 AAAAAGAGAA
Statistics
Matches: 135, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
92 13 0.10
93 119 0.88
94 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (93 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACT
CTTTGAGGACAAAAGGCGAAAGGAGAGA
Found at i:7913 original size:55 final size:55
Alignment explanation
Indices: 7751--7940 Score: 240
Period size: 55 Copynumber: 3.4 Consensus size: 55
7741 AAAGGAGAGA
*
7751 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTT--AAA-AG
* * * *
7809 AAAGCGTCCTACTTTTTGAGGACTG-AAGGTGCCATCAACTTGTGTGGGCTTTAAAAG
1 ---GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
7866 GTGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
7921 GCGTCCTGCTCTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGAC
7941 AAAAAGGTGA
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
54 19 0.17
55 48 0.42
57 2 0.02
58 3 0.03
60 24 0.21
61 19 0.17
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:8027 original size:55 final size:55
Alignment explanation
Indices: 7960--8727 Score: 929
Period size: 55 Copynumber: 13.5 Consensus size: 55
7950 AAAGGAGAGA
*
7960 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTCGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
8015 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT---A--A-AAG
* *
8076 GCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
8130 GCGTCCTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
8185 GAGTCCTGCTCTTTGAGGACT-GAAGGTTCCACCAACTTGTGTGGGCTTTGAATGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT--A---A-AAG
* *
8245 GCGTCCTGCTCTTTGAGGGCT-GAAGGTTCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
8299 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
8353 GCGTCCTGCTCTTTGAAGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* **
8408 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* * *
8469 GTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* ** * *
8524 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
8579 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-------AAAAG
*
8641 GCGTCCTGCTCTTTGAGGACT-GAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
8701 GCGTCCTGCTCTTTGAGGACTGGAAGG
1 GCGTCCTGCTCTTTGAGGACTGGAAGG
8728 GCTAAAAGAG
Statistics
Matches: 632, Mismatches: 50, Indels: 56
0.86 0.07 0.08
Matches are distributed among these distances:
53 3 0.00
54 121 0.19
55 268 0.42
56 4 0.01
58 2 0.00
59 1 0.00
60 107 0.17
61 102 0.16
62 24 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:8029 original size:94 final size:94
Alignment explanation
Indices: 7868--8043 Score: 282
Period size: 94 Copynumber: 1.9 Consensus size: 94
7858 TTTAAAAGGT
* * *
7868 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTCT
7933 TTGAGGACAAAAAGGTGAAAGGAGAGAGC
66 TTGAGGACAAAAAGGTGAAAGGAGAGAGC
*
7962 GTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTC
1 GTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTC
**
8026 TTTGAGGACTGAAAGGTG
65 TTTGAGGACAAAAAGGTG
8044 CCACCAACTT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 1 0.01
94 74 0.99
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (94 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGCTCT
TTGAGGACAAAAAGGTGAAAGGAGAGAGC
Found at i:8511 original size:116 final size:110
Alignment explanation
Indices: 7960--8727 Score: 924
Period size: 116 Copynumber: 6.7 Consensus size: 110
7950 AAAGGAGAGA
* * *
7960 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* *
8024 TCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAG
65 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAG
* *
8076 GCATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
* *
8140 CTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAG
66 CTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
8185 GAGTCCTGCTCTTTGAGGACTG-AAGGTTCCACCAACTTGTGTGGGCTTTGAATGGAGAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--A---A-AAGGCGT
* * *
8249 CCTGCTCTTTGAGGGCT-GAAGGTTCCACCAACTTGTGTGGGCTTTAAAAG
60 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
8299 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
* * *
8363 CTTTGAAGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
66 CTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
** *
8408 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAAGGTGT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGT
*
8473 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTT-AAGAG
60 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AG
* * *
8524 GCGTCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAGAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
*
8588 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAG
65 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-----G--AAAG
*
8641 GCGTCCTGCTCTTTGAGGACTG-AAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGT
8705 CCTGCTCTTTGAGGACTGGAAGG
60 CCTGCTCTTTGAGGACTGGAAGG
8728 GCTAAAAGAG
Statistics
Matches: 577, Mismatches: 40, Indels: 64
0.85 0.06 0.09
Matches are distributed among these distances:
108 21 0.04
109 101 0.18
110 77 0.13
112 1 0.00
113 3 0.01
114 76 0.13
115 97 0.17
116 143 0.25
117 27 0.05
118 2 0.00
122 29 0.05
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (110 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:8528 original size:171 final size:166
Alignment explanation
Indices: 7960--8696 Score: 990
Period size: 171 Copynumber: 4.3 Consensus size: 166
7950 AAAGGAGAGA
*
7960 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTCGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
* *
8024 TCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCATCCTGCTCTT
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---A-GAGAAGGCGTCCTGCTCTT
*
8089 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
126 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
8130 GCGTCCTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
*
8194 TCTTTGAGGACTG-AAGGTTCCACCAACTTGTGTGGGCTTTGAATGGAGAAGGCGTCCTGCTCTT
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--A--GAGAAGGCGTCCTGCTCTT
* *
8258 TGAGGGCTGAAGGTTCCACCAACTTGTGTGGGCTTTAAAAG
126 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
8299 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* *
8363 CTTTGAAGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT-GA-AAGGCGTCCTGCTCTTTGAGG
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCGTCCTGCTCTTTGAGG
**
8426 ACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAAAAAAG
131 ACTG-AAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* * * *
8469 GTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAGAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
*
8534 CTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTT-GAG-AGGCGTCCTGCTCTTTGAG
66 CTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCGTCCTGCTCTTTGAG
8596 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAG
130 GACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-------AAAAG
*
8641 GCGTCCTGCTCTTTGAGGACT-GAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
8697 AAAGGCGTCC
Statistics
Matches: 518, Mismatches: 35, Indels: 27
0.89 0.06 0.05
Matches are distributed among these distances:
163 24 0.05
164 26 0.05
167 2 0.00
168 49 0.09
169 129 0.25
170 100 0.19
171 155 0.30
172 33 0.06
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (166 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCGTCCTGCTCTTTGAGG
ACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:9840 original size:79 final size:78
Alignment explanation
Indices: 9666--9905 Score: 390
Period size: 79 Copynumber: 3.1 Consensus size: 78
9656 GGTGTTATCG
*
9666 CGATTATGAAGAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAATAACGGG
1 CGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAATAACGGG
*
9731 ATTGGAGTATCCC
66 GTTGGAGTATCCC
* * *
9744 CGATTATGAAAATTTGATGTTTTAGAGATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGG
1 CGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC-GAAATAACGG
9809 GGTTGGAGTATCCC
65 GGTTGGAGTATCCC
* *
9823 CGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCTCCTCGGAAATAACGG
1 CGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC-GAAATAACGG
*
9888 GGTTGAAGTATCCC
65 GGTTGGAGTATCCC
9902 CGAT
1 CGAT
9906 GATTAACGGG
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
78 50 0.34
79 99 0.66
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (78 bp):
CGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAATAACGGG
GTTGGAGTATCCC
Found at i:9924 original size:27 final size:28
Alignment explanation
Indices: 9857--9932 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
9847 GAAATAAAGC
9857 CGGGGTTGGAGTATCTCCTCG--GAAATAA
1 CGGGGTTGGAGTATC-CC-CGATGAAATAA
* *
9885 CGGGGTTGAAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
9912 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
9933 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 26 0.60
28 15 0.35
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Done.