Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 87 of 276
Found at i:27037774 original size:27 final size:27
Alignment explanation
Indices: 27037744--27037803 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
27037734 ATGTGTTCGA
* *
27037744 GTTTAGGGTTATGTATTTGAGTTTAAG
1 GTTTAGGGTAACGTATTTGAGTTTAAG
* * *
27037771 GTTTAGTGTAACGTGTTTGAGTTTAGG
1 GTTTAGGGTAACGTATTTGAGTTTAAG
27037798 GTTTAG
1 GTTTAG
27037804 ACTTTTAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.47
Consensus pattern (27 bp):
GTTTAGGGTAACGTATTTGAGTTTAAG
Found at i:27037793 original size:47 final size:48
Alignment explanation
Indices: 27037697--27037801 Score: 142
Period size: 47 Copynumber: 2.2 Consensus size: 48
27037687 GGTTATTAGT
* * * *
27037697 TTTAGGGTTTGTGTTTAGCGTTTAAGGGTTTAGTGTTATGTGTTCGAG
1 TTTAGGGTTTGTATTTAGAGTTTAAGGGTTTAGTGTAACGTGTTCGAG
*
27037745 TTTAGGGTTATGTATTT-GAGTTTAA-GGTTTAGTGTAACGTGTTTGAG
1 TTTAGGGTT-TGTATTTAGAGTTTAAGGGTTTAGTGTAACGTGTTCGAG
27037792 TTTAGGGTTT
1 TTTAGGGTTT
27037802 AGACTTTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 1 0.02
47 28 0.55
48 16 0.31
49 6 0.12
ACGTcount: A:0.17, C:0.03, G:0.31, T:0.49
Consensus pattern (48 bp):
TTTAGGGTTTGTATTTAGAGTTTAAGGGTTTAGTGTAACGTGTTCGAG
Found at i:27044377 original size:95 final size:95
Alignment explanation
Indices: 27044255--27044437 Score: 339
Period size: 95 Copynumber: 1.9 Consensus size: 95
27044245 ATTTGATATA
*
27044255 TTTGTTGATTTGCATATAAATGTATAAGATGCCAAAGGGATTTCATGCTTAATTCCAATGTATTT
1 TTTGTTGATTTACATATAAATGTATAAGATGCCAAAGGGATTTCATGCTTAATTCCAATGTATTT
*
27044320 TAATTGCCTAATTGTTGGTATGTAAAGGTG
66 TAATTGCCTAATTGTTCGTATGTAAAGGTG
27044350 TTTGTTGATTTACATATAAATGTATAAGATGCCAAAGGGATTTCATGCTTAATTCCAATGTATTT
1 TTTGTTGATTTACATATAAATGTATAAGATGCCAAAGGGATTTCATGCTTAATTCCAATGTATTT
*
27044415 TAGTTGCCTAATTGTTCGTATGT
66 TAATTGCCTAATTGTTCGTATGT
27044438 TAACGTAAGT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (95 bp):
TTTGTTGATTTACATATAAATGTATAAGATGCCAAAGGGATTTCATGCTTAATTCCAATGTATTT
TAATTGCCTAATTGTTCGTATGTAAAGGTG
Found at i:27050487 original size:46 final size:45
Alignment explanation
Indices: 27050435--27050611 Score: 257
Period size: 46 Copynumber: 3.9 Consensus size: 45
27050425 GCTCTCTGAT
27050435 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-CGAC
*
27050481 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-GAC
*
27050527 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-CGAC
* * * *
27050573 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
27050612 TCATGTCAAA
Statistics
Matches: 121, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
45 2 0.02
46 119 0.98
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (45 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCGAC
Found at i:27050587 original size:92 final size:92
Alignment explanation
Indices: 27050430--27050611 Score: 294
Period size: 92 Copynumber: 2.0 Consensus size: 92
27050420 AGTGTGCTCT
*
27050430 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGACATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGACATGAAATGAGTAAG
* *
27050495 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATAGTTGAAAGACACCATGGCAAC
**
27050522 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACA-GAAAATGAGTAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGACATG-AAATGAGTAA
*
27050586 GACCATAGTTGAAAGACACTATGGCA
65 GACCATAGTTGAAAGACACCATGGCA
27050612 TCATGTCAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
91 1 0.01
92 82 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGACATGAAATGAGTAAG
ACCATAGTTGAAAGACACCATGGCAAC
Found at i:27050915 original size:15 final size:17
Alignment explanation
Indices: 27050897--27050928 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
27050887 ATGATGGAGC
27050897 ATGAAAT-ATT-ATATA
1 ATGAAATGATTGATATA
27050912 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
27050929 TACTTATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:27056036 original size:29 final size:29
Alignment explanation
Indices: 27055994--27056052 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
27055984 TGTCTCAGGC
27055994 CATGTAAAAATCAAATTAGAGACACACGA
1 CATGTAAAAATCAAATTAGAGACACACGA
27056023 CATGTAAAAATCAAATTAGAGACACACGA
1 CATGTAAAAATCAAATTAGAGACACACGA
27056052 C
1 C
27056053 CATATCCAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.17
Consensus pattern (29 bp):
CATGTAAAAATCAAATTAGAGACACACGA
Found at i:27058768 original size:25 final size:26
Alignment explanation
Indices: 27058740--27058802 Score: 101
Period size: 25 Copynumber: 2.5 Consensus size: 26
27058730 GAATTCTCAA
27058740 AAGCTTGTGTGAACAACCC-TGTTTG
1 AAGCTTGTGTGAACAACCCTTGTTTG
*
27058765 AAGCTTGTGTGAGCAACCCTTGTTTG
1 AAGCTTGTGTGAACAACCCTTGTTTG
*
27058791 AAACTTGTGTGA
1 AAGCTTGTGTGA
27058803 GTAGCTTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 18 0.51
26 17 0.49
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (26 bp):
AAGCTTGTGTGAACAACCCTTGTTTG
Found at i:27058797 original size:26 final size:25
Alignment explanation
Indices: 27058743--27058803 Score: 95
Period size: 26 Copynumber: 2.4 Consensus size: 25
27058733 TTCTCAAAAG
* *
27058743 CTTGTGTGAACAACCCTGTTTGAAG
1 CTTGTGTGAGCAACCCTGTTTGAAA
27058768 CTTGTGTGAGCAACCCTTGTTTGAAA
1 CTTGTGTGAGCAACCC-TGTTTGAAA
27058794 CTTGTGTGAG
1 CTTGTGTGAG
27058804 TAGCTTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 15 0.45
26 18 0.55
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (25 bp):
CTTGTGTGAGCAACCCTGTTTGAAA
Found at i:27068278 original size:31 final size:31
Alignment explanation
Indices: 27068240--27068301 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
27068230 ACGGTTACTG
*
27068240 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCATTTCATAAATCATATCACTA
27068271 GGCCGAAGCCATTTCATAAATCATATCACTA
1 GGCCGAAGCCATTTCATAAATCATATCACTA
27068302 AGCCCTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (31 bp):
GGCCGAAGCCATTTCATAAATCATATCACTA
Found at i:27068311 original size:26 final size:28
Alignment explanation
Indices: 27068248--27068317 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 28
27068238 TGGGCCGAAG
*
27068248 CCTTTTCATAAATCATATCACTAGGCCGAA
1 CCTTTTCATAAATCATATCACTAAGCC--A
*
27068278 GCCATTTCATAAATCATATCACTAAG-C-
1 -CCTTTTCATAAATCATATCACTAAGCCA
27068305 CCTTTTCAATAAA
1 CCTTTTC-ATAAA
27068318 CTGGGGTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 6 0.17
27 5 0.14
30 1 0.03
31 23 0.66
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (28 bp):
CCTTTTCATAAATCATATCACTAAGCCA
Found at i:27068329 original size:26 final size:26
Alignment explanation
Indices: 27068300--27068440 Score: 201
Period size: 26 Copynumber: 5.4 Consensus size: 26
27068290 ATCATATCAC
*
27068300 TAAGCCCTTTTCAATAAACTGGGGTA
1 TAAGCCCTTTTCAATAAACTGGGGCA
** *
27068326 TAAGCCCTTTTCGGTAAACTGGCGCA
1 TAAGCCCTTTTCAATAAACTGGGGCA
27068352 TAAGCCCTTTTCAATAAACTGGGGCA
1 TAAGCCCTTTTCAATAAACTGGGGCA
** * *
27068378 TAAGCCCTTTTCGGTAAATTAGGGCA
1 TAAGCCCTTTTCAATAAACTGGGGCA
*
27068404 TAAGCCCTTTTCAATAAACTAGGGCA
1 TAAGCCCTTTTCAATAAACTGGGGCA
27068430 TAAGCCCTTTT
1 TAAGCCCTTTT
27068441 GCCCTTCCTG
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
TAAGCCCTTTTCAATAAACTGGGGCA
Found at i:27068359 original size:52 final size:52
Alignment explanation
Indices: 27068300--27068440 Score: 239
Period size: 52 Copynumber: 2.7 Consensus size: 52
27068290 ATCATATCAC
*
27068300 TAAGCCCTTTTCAATAAACTGGGGTATAAGCCCTTTTCGGTAAACT-GGCGCA
1 TAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGG-GCA
*
27068352 TAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAATTAGGGCA
1 TAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCA
*
27068404 TAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
1 TAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
27068441 GCCCTTCCTG
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
52 83 0.98
53 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (52 bp):
TAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCA
Found at i:27069227 original size:27 final size:27
Alignment explanation
Indices: 27069192--27069275 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
27069182 GGGCATATTC
*
27069192 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
27069219 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
* *
27069246 GTCTCTTTACC-TAACAGGAGCTTTACG
1 GTCACTTTACCAT-ACAGGGGCTTTACG
27069273 GTC
1 GTC
27069276 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 49 0.96
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:27069276 original size:27 final size:27
Alignment explanation
Indices: 27069214--27069286 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
27069204 TACAGGGGTA
* *
27069214 TTACGGTCACTTTACCCT-ACAGGGGCT
1 TTACGGTCTCTTTA-CCTAACAGGAGCT
27069241 TTACGGTCTCTTTACCTAACAGGAGCT
1 TTACGGTCTCTTTACCTAACAGGAGCT
*
27069268 TTACGGTCTTTTTACCTAA
1 TTACGGTCTCTTTACCTAA
27069287 TAGGGGTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (27 bp):
TTACGGTCTCTTTACCTAACAGGAGCT
Found at i:27069367 original size:27 final size:27
Alignment explanation
Indices: 27069337--27069646 Score: 166
Period size: 27 Copynumber: 11.4 Consensus size: 27
27069327 GTAAATCTAC
*
27069337 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
* *
27069364 AAACCAATGGTATTTCCA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
* *
27069390 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTTAGTAATTTTGT
* * * **
27069420 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
*** * ***
27069447 AAAATGAGGGTATTTCAGTAATTTCAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
27069474 AAACC-AGTGGTATTTTGGTAATTTT-T
1 AAACCAAG-GGTATTTTAGTAATTTTGT
* *
27069500 CAAACC-AGTGGTATTTTAGCAATTTTAT
1 -AAACCAAG-GGTATTTTAGTAATTTTGT
* * * *
27069528 AGA-CTAGGGTATTTTGGTAATTTTACT
1 AAACCAAGGGTATTTTAGTAATTTT-GT
* * * *
27069555 -GATCGAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
27069581 AAACCAAAGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * *** * *
27069608 AAATCGAGGGTAAAATAGTAATTCTGC
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
27069635 AAATCAAGGGTA
1 AAACCAAGGGTA
27069647 AAATGGTAAT
Statistics
Matches: 226, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
26 22 0.10
27 177 0.78
28 9 0.04
29 17 0.08
30 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:27069604 original size:54 final size:54
Alignment explanation
Indices: 27069314--27069673 Score: 251
Period size: 54 Copynumber: 6.6 Consensus size: 54
27069304 TTTCATCCTA
* * * * * *
27069314 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAAC
* *** * * * *
27069368 CAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-TCGAGGGTATTTTAGTAATTTTGTAAAC
* * ***
27069424 CAGGGGTATTTTGGTAATTTTACAAAAT-GAGGGTATTTCAGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTAC-AAATCGAGGGTATTTTAGTAATTTTGTAAAC
* * * * *
27069478 C-AGTGGTATTTTGGTAATTTTTCAAA-CCAGTGGTATTTTAGCAATTTTATAGA-
1 CAAG-GGTATTTTGGTAATTTTACAAATCGAG-GGTATTTTAGTAATTTTGTAAAC
* ** *
27069531 CTAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAAC
* * ** *** * * *
27069585 CAAAGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAAC
*** * **
27069639 CAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTA
27069674 AAATGATAAT
Statistics
Matches: 236, Mismatches: 61, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
53 44 0.19
54 141 0.60
55 12 0.05
56 39 0.17
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAAC
Found at i:27069647 original size:27 final size:27
Alignment explanation
Indices: 27069596--27069700 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
27069586 AAAGGTATTT
*
27069596 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
27069623 TAGTAATTCTGCAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
27069650 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
27069677 T-GATAATTCTATAAATCGAGGGTA
1 TAG-TAATTCTGTAAATCGAGGGTA
27069701 CTTTGGTAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 69 0.99
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:27069708 original size:54 final size:54
Alignment explanation
Indices: 27069589--27069711 Score: 149
Period size: 54 Copynumber: 2.3 Consensus size: 54
27069579 GTAAACCAAA
* * * *
27069589 GGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGCAAATCAAG
1 GGTAATTTGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTACAAATCAAG
** * *
27069643 GGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAT-GATAATTCTATAAATCGAG
1 GGTAATTTGGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTCTACAAATCAAG
*
27069697 GGTACTTTGGTAATT
1 GGTAATTTGGTAATT
27069712 TTAATATTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 1 0.02
54 56 0.98
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (54 bp):
GGTAATTTGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTACAAATCAAG
Found at i:27069710 original size:27 final size:27
Alignment explanation
Indices: 27069556--27069711 Score: 132
Period size: 27 Copynumber: 5.8 Consensus size: 27
27069546 AATTTTACTG
* *
27069556 ATCGAGGGTATTTTGGTAATTTTGTAA
1 ATCGAGGGTAATTTGGTAATTCTGTAA
* * * * * *
27069583 ACCAAAGGTATTTTAGTAATTTTGTAA
1 ATCGAGGGTAATTTGGTAATTCTGTAA
** * *
27069610 ATCGAGGGTAAAATAGTAATTCTGCAA
1 ATCGAGGGTAATTTGGTAATTCTGTAA
* **
27069637 ATCAAGGGTAAAATGGTAATTCTGTAA
1 ATCGAGGGTAATTTGGTAATTCTGTAA
** * *
27069664 ATCGAGGGTAAAATGATAATTCTATAA
1 ATCGAGGGTAATTTGGTAATTCTGTAA
*
27069691 ATCGAGGGTACTTTGGTAATT
1 ATCGAGGGTAATTTGGTAATT
27069712 TTAATATTTG
Statistics
Matches: 107, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.35
Consensus pattern (27 bp):
ATCGAGGGTAATTTGGTAATTCTGTAA
Found at i:27080344 original size:74 final size:74
Alignment explanation
Indices: 27080245--27080392 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
27080235 AAGATTCGTC
27080245 TTAGGTTTTATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTTAAAAGGAAAACATCTCAG
1 TTAGGTTTTATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTTAAAAGGAAAACATCTCAG
27080310 AAGAATAAT
66 AAGAATAAT
*
27080319 TTAGGTTTTATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTTAAAAGGAAAACATCTTAG
1 TTAGGTTTTATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTTAAAAGGAAAACATCTCAG
*
27080384 AAGAGTAAT
66 AAGAATAAT
27080393 GAATAGAAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (74 bp):
TTAGGTTTTATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTTAAAAGGAAAACATCTCAG
AAGAATAAT
Found at i:27087305 original size:30 final size:30
Alignment explanation
Indices: 27087269--27087328 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
27087259 TTCCCGAGCC
*
27087269 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
27087299 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
27087329 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:27087802 original size:27 final size:27
Alignment explanation
Indices: 27087772--27087850 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
27087762 TGGAGTTGAG
27087772 TCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGTTCGTGAGATGTAACTAGGCA
** *
27087799 TCCGAACTCGT-TGA-GT---T--G-A
1 TCCGAGTTCGTGAGATGTAACTAGGCA
27087818 GTCCGAGTTCGTGAGATGTAACTAGGCA
1 -TCCGAGTTCGTGAGATGTAACTAGGCA
27087846 TCCGA
1 TCCGA
27087851 ACTCGTTGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 18
0.61 0.10 0.30
Matches are distributed among these distances:
19 1 0.03
20 10 0.27
21 2 0.05
22 3 0.08
25 3 0.08
26 2 0.05
27 15 0.41
28 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (27 bp):
TCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:27087821 original size:47 final size:47
Alignment explanation
Indices: 27087752--27087892 Score: 273
Period size: 47 Copynumber: 3.0 Consensus size: 47
27087742 ATATTTGAGT
*
27087752 TCCGAACTCGTGGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
27087799 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
27087846 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
27087893 GCTATTGAGT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:27097013 original size:16 final size:16
Alignment explanation
Indices: 27096994--27097025 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27096984 TATCGTTCAA
27096994 AATCACATAATAAAAT
1 AATCACATAATAAAAT
*
27097010 AATCATATAATAAAAT
1 AATCACATAATAAAAT
27097026 TAAAGCTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (16 bp):
AATCACATAATAAAAT
Found at i:27109727 original size:20 final size:20
Alignment explanation
Indices: 27109702--27109741 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27109692 AACAACAAGA
27109702 AATAATCAAGAATTGAACTT
1 AATAATCAAGAATTGAACTT
27109722 AATAATCAAGAATTGAACTT
1 AATAATCAAGAATTGAACTT
27109742 GTAGCAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AATAATCAAGAATTGAACTT
Found at i:27111038 original size:34 final size:34
Alignment explanation
Indices: 27110966--27111064 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 34
27110956 TCTGTTATGA
* * *
27110966 TATATGATTATGAAAATATAACATTTGGATACGT
1 TATATGATTCTGAAAATATAACATTTTGATACGG
* *
27111000 TATATGGTTCTGAAAATATGACATTTTGAT-CTGG
1 TATATGATTCTGAAAATATAACATTTTGATAC-GG
* * *
27111034 TATATGTTTCTGGAAATGTAACATTTTGATA
1 TATATGATTCTGAAAATATAACATTTTGATA
27111065 TGATAATTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
33 1 0.02
34 53 0.98
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (34 bp):
TATATGATTCTGAAAATATAACATTTTGATACGG
Found at i:27113725 original size:40 final size:38
Alignment explanation
Indices: 27113680--27113797 Score: 98
Period size: 40 Copynumber: 3.1 Consensus size: 38
27113670 ACTAGTACTA
27113680 GGCACACATTTGATATCGTTGGTTTACCTGACTAGCATTG
1 GGCACACATTTGATAT-GTTGGTTTACC-GACTAGCATTG
* ** * * *
27113720 GGCACA-ACTT-AT-TGTTGGTACATCCAACTAGCGTCG
1 GGCACACATTTGATATGTTGGTTTA-CCGACTAGCATTG
* *
27113756 GGCACACATTTGATATAGTCGGTTTACCCGACTAGCACTG
1 GGCACACATTTGATAT-GTTGGTTTA-CCGACTAGCATTG
27113796 GG
1 GG
27113798 TGCAACTCAT
Statistics
Matches: 58, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
36 21 0.36
37 6 0.10
38 4 0.07
39 4 0.07
40 23 0.40
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
GGCACACATTTGATATGTTGGTTTACCGACTAGCATTG
Found at i:27113770 original size:76 final size:76
Alignment explanation
Indices: 27113645--27113924 Score: 284
Period size: 76 Copynumber: 3.7 Consensus size: 76
27113635 TTTGTTAGTT
* * *
27113645 GGCACAACTCATTGTT-GCACATCCAACTA-GTACTAGGCACACATTTGATATCGTTGGTTTACC
1 GGCACAACTCATTGTTGGTACATCCAACTAGGT-CTGGGCACACATTTGATATCGTCGGTTTACC
* *
27113708 TGACTAGCATTG
65 CGACTAGCACTG
* *
27113720 GGCACAACTTATTGTTGGTACATCCAACTAGCGTC-GGGCACACATTTGATATAGTCGGTTTACC
1 GGCACAACTCATTGTTGGTACATCCAACTAG-GTCTGGGCACACATTTGATATCGTCGGTTTACC
27113784 CGACTAGCACTG
65 CGACTAGCACTG
** * *
27113796 GGTGCAACTCATTGTTGATATATCCAACTA-GTGCTGGGCACACATTTGATATCGTCGGTTTACC
1 GGCACAACTCATTGTTGGTACATCCAACTAGGT-CTGGGCACACATTTGATATCGTCGGTTTACC
* * *
27113860 CAACTAGCCCTT
65 CGACTAGCACTG
* * * ** * *
27113872 TGCTCAACTCATT-TTCGCTATTTCCAACTA-GTGCTGGGTAGACATTTGATATC
1 GGCACAACTCATTGTT-GGTACATCCAACTAGGT-CTGGGCACACATTTGATATC
27113925 ATCAGTGTAT
Statistics
Matches: 176, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
74 2 0.01
75 18 0.10
76 153 0.87
77 1 0.01
78 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (76 bp):
GGCACAACTCATTGTTGGTACATCCAACTAGGTCTGGGCACACATTTGATATCGTCGGTTTACCC
GACTAGCACTG
Found at i:27116342 original size:43 final size:43
Alignment explanation
Indices: 27116277--27116388 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
27116267 CCTACATTAC
* *
27116277 GCCTGCTAGGCACGAAGTCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGACACGAA
27116320 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGACACGAA
27116363 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
27116389 TAATACCAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGACACGAA
Found at i:27116434 original size:38 final size:38
Alignment explanation
Indices: 27116381--27116677 Score: 499
Period size: 38 Copynumber: 7.8 Consensus size: 38
27116371 GGCACGAAGG
* * * *
27116381 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* *
27116419 CCCGGATATATTACCAGCACGAAGCTTGTGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
27116457 CCAGGATATATTA-CAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
27116494 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
27116532 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
27116570 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
27116608 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
27116646 CCCGGATATATTACCAGCA-TATAGCCTGCGGG
1 CCCGGATATATTACCAGCACGA-AGCCTGCGGG
27116678 TCTTTAGGCC
Statistics
Matches: 246, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
37 35 0.14
38 211 0.86
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:27122012 original size:43 final size:42
Alignment explanation
Indices: 27121956--27122110 Score: 179
Period size: 43 Copynumber: 3.7 Consensus size: 42
27121946 CTATCGTACC
* * * *
27121956 ATGCCACCGTCCCAGACGTGGTCTTACATGCCATCACATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACG-AATCACATATCG
* *
27121999 ATGCCACTGTCCCAGACAGGGTCTTACACGAATCAAATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACACGAATCACATATCG
* * * *
27122040 ATGCAAATGTCCCAAACATGGTCTTACACGTAATAACATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACG-AATCACATATCG
27122083 ATGCCAAC-GTCCCAGACATGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
27122111 TAAGAACACA
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 27 0.29
42 16 0.17
43 50 0.53
44 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:27127878 original size:12 final size:13
Alignment explanation
Indices: 27127856--27127891 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
27127846 CAAGAGAATA
27127856 ATTTCTCATTTTC
1 ATTTCTCATTTTC
27127869 ATTT-TCATTTTC
1 ATTTCTCATTTTC
27127881 ATTTCT-ATTTT
1 ATTTCTCATTTT
27127892 GAGAAAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTCTCATTTTC
Found at i:27130590 original size:104 final size:104
Alignment explanation
Indices: 27130410--27130618 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 104
27130400 GCCTGATCAG
27130410 CAAGCTAAATCATCAATTATATCATTAAAATCATTATTAACATTCAATTTTTTGAGTTAGGACTC
1 CAAGCTAAATCATCAATTATATCATTAAAATCATTATTAACATTCAATTTTTTGAGTTAGGACTC
27130475 ACACCTTATTTTACATTCTTCCGCAAAACACTTGTAAAT
66 ACACCTTATTTTACATTCTTCCGCAAAACACTTGTAAAT
27130514 CAAGCTAAATCATCAATTATATCATTAAAATCATTATTAACATTCAATTTTTTGAGTTAGGACTC
1 CAAGCTAAATCATCAATTATATCATTAAAATCATTATTAACATTCAATTTTTTGAGTTAGGACTC
*
27130579 ACACCTTATTTTACATTCTTCCGCAACACACTTGTAAAT
66 ACACCTTATTTTACATTCTTCCGCAAAACACTTGTAAAT
27130618 C
1 C
27130619 TTGCGATTTC
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (104 bp):
CAAGCTAAATCATCAATTATATCATTAAAATCATTATTAACATTCAATTTTTTGAGTTAGGACTC
ACACCTTATTTTACATTCTTCCGCAAAACACTTGTAAAT
Found at i:27134085 original size:19 final size:21
Alignment explanation
Indices: 27134061--27134099 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27134051 ACATTTTAGT
27134061 TACTTAA-AG-ACTAAAATGA
1 TACTTAAGAGAACTAAAATGA
27134080 TACTTAAGAGAACTAAAATG
1 TACTTAAGAGAACTAAAATG
27134100 GAAATTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (21 bp):
TACTTAAGAGAACTAAAATGA
Found at i:27139358 original size:28 final size:28
Alignment explanation
Indices: 27139298--27139358 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
27139288 AGTGCATTGA
27139298 GGTGCATTCACGTAGCAATGAGCACCGT
1 GGTGCATTCACGTAGCAATGAGCACCGT
* ** * * *
27139326 AGTGCATTTGCGTAGTAGTGAGCACTGT
1 GGTGCATTCACGTAGCAATGAGCACCGT
27139354 GGTGC
1 GGTGC
27139359 TTAACAGAAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (28 bp):
GGTGCATTCACGTAGCAATGAGCACCGT
Found at i:27141011 original size:21 final size:21
Alignment explanation
Indices: 27140959--27141012 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
27140949 AAATAGAATT
* *
27140959 ATTTAAAACAAT-TTTTTTTCT
1 ATTTAAAA-AATATCTTTTTCA
**
27140980 ATTTACCAAATATCTTTTTCA
1 ATTTAAAAAATATCTTTTTCA
27141001 ATTTAAAAAATA
1 ATTTAAAAAATA
27141013 AATATTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTAAAAAATATCTTTTTCA
Found at i:27141639 original size:30 final size:31
Alignment explanation
Indices: 27141603--27141666 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
27141593 ACTTATTTTA
27141603 TTGTTAA-CTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATCTTTGTTATTATTTTAAAGGCAT
* * * *
27141633 TTGTTAATTTTTTTTATTATTTTAGAGGTAT
1 TTGTTAATCTTTGTTATTATTTTAAAGGCAT
27141664 TTG
1 TTG
27141667 CTTATTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.59
Consensus pattern (31 bp):
TTGTTAATCTTTGTTATTATTTTAAAGGCAT
Found at i:27152499 original size:18 final size:19
Alignment explanation
Indices: 27152476--27152511 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27152466 CTAAAGATGA
*
27152476 TCCAAAGAAAA-AATATAG
1 TCCAAACAAAATAATATAG
27152494 TCCAAACAAAATAATATA
1 TCCAAACAAAATAATATA
27152512 ATATCTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.19
Consensus pattern (19 bp):
TCCAAACAAAATAATATAG
Found at i:27161904 original size:48 final size:47
Alignment explanation
Indices: 27161831--27161952 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 47
27161821 TTTAGTTCGC
* * * *
27161831 AGTGGTTATACGACCACCGGTTGAAGTATAAC-TAGGGCTCCAGTTGACT
1 AGTGGTTATGCGATCACGGGTTGAAGTATAACTTA-GGCT-CAATTGA-T
*
27161880 A-TGGTTATGCGGTCACGGGTTGAAGTATAACTTAGGCTCAATTGAT
1 AGTGGTTATGCGATCACGGGTTGAAGTATAACTTAGGCTCAATTGAT
* *
27161926 AGTGGTTATGCGATCATGGGTTCAAGT
1 AGTGGTTATGCGATCACGGGTTGAAGT
27161953 TTCATGATAC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 2 0.03
47 28 0.44
48 30 0.48
49 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (47 bp):
AGTGGTTATGCGATCACGGGTTGAAGTATAACTTAGGCTCAATTGAT
Found at i:27162570 original size:49 final size:49
Alignment explanation
Indices: 27162517--27162618 Score: 132
Period size: 49 Copynumber: 2.1 Consensus size: 49
27162507 AAGGGGTTGG
* * * *
27162517 GTTATACTTTAACCCGTGGCAGTATAACCACCATCAACTGGAAGCCCTA
1 GTTATACTTCAACCCGTGACAGTATAACCACCATAAACTGGAAGCCCAA
* * * *
27162566 GTTATACTTCAACCCGTGACCGTATAATCACCGTAAACTGGCAGCCCAA
1 GTTATACTTCAACCCGTGACAGTATAACCACCATAAACTGGAAGCCCAA
27162615 GTTA
1 GTTA
27162619 CAATGCGATT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
GTTATACTTCAACCCGTGACAGTATAACCACCATAAACTGGAAGCCCAA
Found at i:27163087 original size:33 final size:33
Alignment explanation
Indices: 27163044--27163111 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
27163034 TTAGCTGAGT
* *
27163044 TGGCAAAAGGGATGTTGAAAGCTTCAACTAAGG
1 TGGCAAAAGGGATGCTAAAAGCTTCAACTAAGG
* *
27163077 TGGCAGAAGGGATGCTAAAAGCTTCAACTGAGG
1 TGGCAAAAGGGATGCTAAAAGCTTCAACTAAGG
27163110 TG
1 TG
27163112 TTTGCCATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (33 bp):
TGGCAAAAGGGATGCTAAAAGCTTCAACTAAGG
Found at i:27166726 original size:17 final size:17
Alignment explanation
Indices: 27166701--27166749 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
27166691 TAAGCGGAAT
27166701 AAAAATAAATAAATAAC
1 AAAAATAAATAAATAAC
* *
27166718 AAAAGTAAATAAATAAAG
1 AAAAATAAATAAAT-AAC
*
27166736 AAAAATAAACAAAT
1 AAAAATAAATAAAT
27166750 GAATTAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAAATAAATAAATAAC
Found at i:27172343 original size:6 final size:6
Alignment explanation
Indices: 27172332--27172367 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
27172322 AAAGGTAACT
*
27172332 GTGGCA GTGGCA GTGGCA GTGGCA GTGACA GTGGCA
1 GTGGCA GTGGCA GTGGCA GTGGCA GTGGCA GTGGCA
27172368 CCACCATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.47, T:0.17
Consensus pattern (6 bp):
GTGGCA
Found at i:27173120 original size:22 final size:20
Alignment explanation
Indices: 27173070--27173122 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
27173060 TACATTTTTG
*
27173070 AATTGTAAAATTTTAAAATT
1 AATTGAAAAATTTTAAAATT
* **
27173090 TATAAAAAAATTATTAGAAATT
1 AATTGAAAAATT-TTA-AAATT
27173112 AATTGAAAAAT
1 AATTGAAAAAT
27173123 CATAAATTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 8 0.33
21 3 0.12
22 13 0.54
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
AATTGAAAAATTTTAAAATT
Found at i:27174317 original size:60 final size:60
Alignment explanation
Indices: 27174242--27174354 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
27174232 GAATCAAACA
* * *
27174242 AAAAAAATTAGGTACCAAAT-AAGGAAAAAAAGTTAAGTTCATGTACCAAATTGGACCCCC
1 AAAAAAATTAAGTACCAAATGAA-GAAAAAAAGTCAAGTTCAGGTACCAAATTGGACCCCC
* * * * *
27174302 AAAAAGATTAAGTACCAATTGAAGAAAAAATGTCAAGTTTAGGTACCAGATTG
1 AAAAAAATTAAGTACCAAATGAAGAAAAAAAGTCAAGTTCAGGTACCAAATTG
27174355 ACTAAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
60 42 0.95
61 2 0.05
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (60 bp):
AAAAAAATTAAGTACCAAATGAAGAAAAAAAGTCAAGTTCAGGTACCAAATTGGACCCCC
Found at i:27176135 original size:34 final size:34
Alignment explanation
Indices: 27176097--27176161 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
27176087 TTTTGTTGTC
27176097 TTAAAAGCCATGTTCTTTAATGTTTTTTTCTGTT
1 TTAAAAGCCATGTTCTTTAATGTTTTTTTCTGTT
27176131 TTAAAAGCCATGTTCTTTAATGTTTTTTTCT
1 TTAAAAGCCATGTTCTTTAATGTTTTTTTCT
27176162 TTCTTTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.12, G:0.11, T:0.55
Consensus pattern (34 bp):
TTAAAAGCCATGTTCTTTAATGTTTTTTTCTGTT
Found at i:27176970 original size:63 final size:63
Alignment explanation
Indices: 27176774--27176972 Score: 222
Period size: 63 Copynumber: 3.2 Consensus size: 63
27176764 GGCTGTGTGG
* * * *
27176774 TAGGCTGTGTAACTCACTGTTTGTGAATTA-AGGTTACACGGGCTAGGGACACGGGTGTGTGTC
1 TAGGCCGTGTAACTCACTATTTGTGAATTAGA-GTTACACGGGCTAGGGACACGAGCGTGTGTC
* * * * * * **
27176837 TAGGCCATGTAATTCATTATTTGTGAATTAGAGTCACACGGGCTAGGGACACGAACATACGTAC
1 TAGGCCGTGTAACTCACTATTTGTGAATTAGAGTTACACGGGCTAGGGACACGAGCGTGTGT-C
* * *
27176901 -AGGCCGTGTAACTGACTATTTGTGAATTAGAGTTACACGGGCCAGAGACACGAGCGTGTGTC
1 TAGGCCGTGTAACTCACTATTTGTGAATTAGAGTTACACGGGCTAGGGACACGAGCGTGTGTC
*
27176963 TAAGCCGTGT
1 TAGGCCGTGT
27176973 GAGAGATATT
Statistics
Matches: 109, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
62 1 0.01
63 106 0.97
64 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (63 bp):
TAGGCCGTGTAACTCACTATTTGTGAATTAGAGTTACACGGGCTAGGGACACGAGCGTGTGTC
Found at i:27178835 original size:48 final size:48
Alignment explanation
Indices: 27178779--27178871 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
27178769 TCCGTGTGAG
* * * *
27178779 GTGGCTTAGGCCGTGTTAGAGTCTGCTAAATAAACACGGCTGTGTGGT
1 GTGGCTTAGACCGTGTTACAATCTACTAAATAAACACGGCTGTGTGGT
* * *
27178827 GTGGCTTAGACCGTGTTACAATCTATTAAATAGACACGGGTGTGT
1 GTGGCTTAGACCGTGTTACAATCTACTAAATAAACACGGCTGTGT
27178872 AGTCTACCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (48 bp):
GTGGCTTAGACCGTGTTACAATCTACTAAATAAACACGGCTGTGTGGT
Found at i:27183512 original size:45 final size:46
Alignment explanation
Indices: 27183431--27183522 Score: 168
Period size: 45 Copynumber: 2.0 Consensus size: 46
27183421 AAACGTTTGA
27183431 CAAATACTGAATCACAAAAAAAAAAGGTACCAAATTAGGAAAAAGAG
1 CAAATACTGAATCAC-AAAAAAAAAGGTACCAAATTAGGAAAAAGAG
27183478 CAAATACTGAATCAC-AAAAAAAAGGTACCAAATTAGGAAAAAGAG
1 CAAATACTGAATCACAAAAAAAAAGGTACCAAATTAGGAAAAAGAG
27183523 TCAAGTTCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 30 0.67
47 15 0.33
ACGTcount: A:0.59, C:0.13, G:0.15, T:0.13
Consensus pattern (46 bp):
CAAATACTGAATCACAAAAAAAAAGGTACCAAATTAGGAAAAAGAG
Found at i:27186159 original size:63 final size:63
Alignment explanation
Indices: 27185963--27186161 Score: 222
Period size: 63 Copynumber: 3.2 Consensus size: 63
27185953 GGCTGTGTGG
* * * *
27185963 TAGGCTGTGTAACTCACTGTTTGTGAATTA-AGGTTACACGGGCTAGGGACACGGGTGTGTGTC
1 TAGGCCGTGTAACTCACTATTTGTGAATTAGA-GTTACACGGGCTAGGGACACGAGCGTGTGTC
* * * * * * **
27186026 TAGGCCATGTAATTCATTATTTGTGAATTAGAGTCACACGGGCTAGGGACACGAACATACGTAC
1 TAGGCCGTGTAACTCACTATTTGTGAATTAGAGTTACACGGGCTAGGGACACGAGCGTGTGT-C
* * *
27186090 -AGGCCGTGTAACTGACTATTTGTGAATTAGAGTTACACGGGCCAGAGACACGAGCGTGTGTC
1 TAGGCCGTGTAACTCACTATTTGTGAATTAGAGTTACACGGGCTAGGGACACGAGCGTGTGTC
*
27186152 TAAGCCGTGT
1 TAGGCCGTGT
27186162 GAGAGATATT
Statistics
Matches: 109, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
62 1 0.01
63 106 0.97
64 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (63 bp):
TAGGCCGTGTAACTCACTATTTGTGAATTAGAGTTACACGGGCTAGGGACACGAGCGTGTGTC
Found at i:27188024 original size:48 final size:48
Alignment explanation
Indices: 27187968--27188060 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
27187958 TCCGTGTGAG
* * * *
27187968 GTGGCTTAGGCCGTGTTAGAGTCTGCTAAATAAACACGGCTGTGTGGT
1 GTGGCTTAGACCGTGTTACAATCTACTAAATAAACACGGCTGTGTGGT
* * *
27188016 GTGGCTTAGACCGTGTTACAATCTATTAAATAGACACGGGTGTGT
1 GTGGCTTAGACCGTGTTACAATCTACTAAATAAACACGGCTGTGT
27188061 AGTCTACCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (48 bp):
GTGGCTTAGACCGTGTTACAATCTACTAAATAAACACGGCTGTGTGGT
Found at i:27190332 original size:13 final size:13
Alignment explanation
Indices: 27190316--27190359 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
27190306 AAATTAATTT
27190316 TAAAAAAAATAAG
1 TAAAAAAAATAAG
*
27190329 TAAAAATAA-AAG
1 TAAAAAAAATAAG
*
27190341 TAAAAAATAATAAA
1 TAAAAAA-AATAAG
27190355 TAAAA
1 TAAAA
27190360 GTCTTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 9 0.35
13 10 0.38
14 7 0.27
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (13 bp):
TAAAAAAAATAAG
Found at i:27197063 original size:14 final size:14
Alignment explanation
Indices: 27197044--27197070 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27197034 TATTAAAGCA
27197044 ATAATTAAGAACAC
1 ATAATTAAGAACAC
27197058 ATAATTAAGAACA
1 ATAATTAAGAACA
27197071 AATCAAGTAT
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:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:27197522 original size:48 final size:48
Alignment explanation
Indices: 27197445--27197539 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
27197435 CTGTGTGAGG
* * * * *
27197445 TGGCTTAGGCCGTGTTAGAGTTTGCTAAATAAACACGATTGTGTGGTA
1 TGGCTTAGGCCGTGTTACAATCTACTAAATAAACACGAGTGTGTGGTA
* * *
27197493 TGGCTTAGGCCGTGTTACAATCTATTAAATAGACACGGGTGTGTGGT
1 TGGCTTAGGCCGTGTTACAATCTACTAAATAAACACGAGTGTGTGGT
27197540 CTACCTGTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (48 bp):
TGGCTTAGGCCGTGTTACAATCTACTAAATAAACACGAGTGTGTGGTA
Found at i:27198936 original size:40 final size:40
Alignment explanation
Indices: 27198887--27198963 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
27198877 TTACAGTACC
* *
27198887 ACTTGGTGTGTAAGG-CTGGATGGGTCGATTTTATCCCCAT
1 ACTTAGTGTGT-AGGACTGGATGGGTCAATTTTATCCCCAT
* *
27198927 ACTTAGTGTGTGGGACTGGGTGGGTCAATTTTATCCC
1 ACTTAGTGTGTAGGACTGGATGGGTCAATTTTATCCC
27198964 AACATGGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (40 bp):
ACTTAGTGTGTAGGACTGGATGGGTCAATTTTATCCCCAT
Found at i:27208043 original size:17 final size:18
Alignment explanation
Indices: 27208003--27208043 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
27207993 TTCTTTTATC
27208003 CTATTTCCTATTTCTTTT
1 CTATTTCCTATTTCTTTT
*
27208021 CT-TTTCCT-TTTTTTTT
1 CTATTTCCTATTTCTTTT
*
27208037 TTATTTC
1 CTATTTC
27208044 TTCTTTCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 10 0.50
18 2 0.10
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (18 bp):
CTATTTCCTATTTCTTTT
Found at i:27216867 original size:35 final size:35
Alignment explanation
Indices: 27216821--27216895 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
27216811 ATAATGTAAC
27216821 CAATTCTTGTATGTGTTTTTATTACTTTCCTCTTT
1 CAATTCTTGTATGTGTTTTTATTACTTTCCTCTTT
27216856 CAATTCTTGTATGTGTTTTTATTACTTTCCTCTTT
1 CAATTCTTGTATGTGTTTTTATTACTTTCCTCTTT
27216891 CAATT
1 CAATT
27216896 TTTTTTAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.16, C:0.17, G:0.08, T:0.59
Consensus pattern (35 bp):
CAATTCTTGTATGTGTTTTTATTACTTTCCTCTTT
Found at i:27220589 original size:21 final size:20
Alignment explanation
Indices: 27220565--27220604 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
27220555 TAAATTGTGA
27220565 TATTTATATTCTTAATTATAT
1 TATTTATATT-TTAATTATAT
*
27220586 TATTTATATTTTATTTATA
1 TATTTATATTTTAATTATA
27220605 ACAAATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTATATTTTAATTATAT
Found at i:27221620 original size:19 final size:20
Alignment explanation
Indices: 27221584--27221623 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27221574 TTATTTTCTC
* *
27221584 CAATTTTATTTGTTAGTTTT
1 CAATTTAATTTGTAAGTTTT
27221604 CAATTTAATTTG-AAGTTTT
1 CAATTTAATTTGTAAGTTTT
27221623 C
1 C
27221624 TTTAGAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.57
Consensus pattern (20 bp):
CAATTTAATTTGTAAGTTTT
Found at i:27227734 original size:29 final size:28
Alignment explanation
Indices: 27227696--27227751 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
27227686 ATTTTTTGAC
*
27227696 TTTTTTTCTAATTTGTTACCTAAACTTT
1 TTTTTTTCTAATTTGATACCTAAACTTT
27227724 TTTTTTGTCTAATTTGATACCTAAACTT
1 TTTTTT-TCTAATTTGATACCTAAACTT
27227752 GTCAATGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.57
Consensus pattern (28 bp):
TTTTTTTCTAATTTGATACCTAAACTTT
Found at i:27228658 original size:18 final size:19
Alignment explanation
Indices: 27228621--27228660 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
27228611 ATTTACATTT
* *
27228621 TTATTTGTTATTGTTTATA
1 TTATTTGTTAATGTTAATA
27228640 TTATTTG-TAATGTTAATA
1 TTATTTGTTAATGTTAATA
27228658 TTA
1 TTA
27228661 ATGGTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTATTTGTTAATGTTAATA
Found at i:27229520 original size:25 final size:24
Alignment explanation
Indices: 27229474--27229520 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
27229464 ATATATTTAC
*
27229474 TTCATTTTTTTATACATTATTAAT
1 TTCATTTTTTTATACATAATTAAT
27229498 TTCATTCTTTTTAT-CAATAATTA
1 TTCATT-TTTTTATAC-ATAATTA
27229521 TACCCAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCATTTTTTTATACATAATTAAT
Found at i:27234859 original size:88 final size:88
Alignment explanation
Indices: 27234730--27235071 Score: 504
Period size: 88 Copynumber: 3.9 Consensus size: 88
27234720 GTAATTTTCA
* * * * **
27234730 GCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATTTGCTCCACTACTGCTTAG
1 GCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCACTACTGCTTAG
* * *
27234795 GGAGGCAAGATCTATAATCTTTG
66 GGAGACAAGATCTACAATCTTCG
* * * ** * * *
27234818 ACCTGTTACCCTACTACATAGGGGGTTAAGGCTCACTGTCTTCGATTTGTTCAACTATTGCTTAG
1 GCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCACTACTGCTTAG
* *
27234883 GGAGACAAAATTTACAATCTTCG
66 GGAGACAAGATCTACAATCTTCG
27234906 GCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCACTACTGCTTAG
1 GCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCACTACTGCTTAG
27234971 GGAGACAAGATCTACAATCTTCG
66 GGAGACAAGATCTACAATCTTCG
27234994 GCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCACTACTGCTTAG
1 GCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCACTACTGCTTAG
*
27235059 GGAGATAAGATCT
66 GGAGACAAGATCT
27235072 GGGAATTCAC
Statistics
Matches: 230, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 230 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (88 bp):
GCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCACTACTGCTTAG
GGAGACAAGATCTACAATCTTCG
Found at i:27234926 original size:44 final size:44
Alignment explanation
Indices: 27234878--27235016 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
27234868 TCAACTATTG
*
27234878 CTTAGGGAGACAAAATTTACAATCTTCGGCCTGTTACCCTACTA
1 CTTAGGGAGACAAGATTTACAATCTTCGGCCTGTTACCCTACTA
* ** ** * *** * * *
27234922 CTTAGGGGGTTAAGGCTCACTGCCTTCGATCC-GCT-CCACTACTG
1 CTTAGGGAGACAAGATTTACAATCTTCG-GCCTGTTACC-CTACTA
*
27234966 CTTAGGGAGACAAGATCTACAATCTTCGGCCTGTTACCCTACTA
1 CTTAGGGAGACAAGATTTACAATCTTCGGCCTGTTACCCTACTA
27235010 CTTAGGG
1 CTTAGGG
27235017 GGTTAAGGCT
Statistics
Matches: 65, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 4 0.06
44 57 0.88
45 4 0.06
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (44 bp):
CTTAGGGAGACAAGATTTACAATCTTCGGCCTGTTACCCTACTA
Found at i:27235037 original size:44 final size:44
Alignment explanation
Indices: 27234901--27235037 Score: 138
Period size: 44 Copynumber: 3.1 Consensus size: 44
27234891 AATTTACAAT
27234901 CTTCGGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGC
1 CTTCGGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGC
* * * * ** * *
27234945 CTTCGATCC-GCT-CCACTACTGCTTAGGGAGACAAGATCTACAAT--
1 CTTCG-GCCTGTTACC-CTACTACTTAGGGGGTTAAG-GCT-CACTGC
27234989 CTTCGGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGC
1 CTTCGGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGC
27235033 CTTCG
1 CTTCG
27235038 ATCCGCTCCA
Statistics
Matches: 69, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
42 3 0.04
43 6 0.09
44 51 0.74
45 6 0.09
46 3 0.04
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (44 bp):
CTTCGGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGC
Found at i:27235052 original size:44 final size:44
Alignment explanation
Indices: 27234916--27235060 Score: 145
Period size: 44 Copynumber: 3.3 Consensus size: 44
27234906 GCCTGTTACC
27234916 CTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCA
1 CTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCA
* * ** * * * *
27234960 CTACTGCTTAGGGAGACAAGATCTACAAT--CTTCG-GCCTGTTACC-
1 CTACTACTTAGGGGGTTAAG-GCT-CACTGCCTTCGATCC-GCT-CCA
27235004 CTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCA
1 CTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCA
*
27235048 CTACTGCTTAGGG
1 CTACTACTTAGGG
27235061 AGATAAGATC
Statistics
Matches: 76, Mismatches: 17, Indels: 16
0.70 0.16 0.15
Matches are distributed among these distances:
42 3 0.04
43 6 0.08
44 58 0.76
45 6 0.08
46 3 0.04
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.28
Consensus pattern (44 bp):
CTACTACTTAGGGGGTTAAGGCTCACTGCCTTCGATCCGCTCCA
Found at i:27243073 original size:19 final size:19
Alignment explanation
Indices: 27243049--27243088 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
27243039 TATGACCTTA
*
27243049 AATGCATATG-ATGTAATGC
1 AATGCAAATGCATG-AATGC
27243068 AATGCAAATGCATGAATGC
1 AATGCAAATGCATGAATGC
27243087 AA
1 AA
27243089 AAGAGGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (19 bp):
AATGCAAATGCATGAATGC
Found at i:27246646 original size:18 final size:19
Alignment explanation
Indices: 27246609--27246648 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
27246599 ATTTACATTT
* *
27246609 TTATTTGTTATTGTTTATA
1 TTATTTGTTAATGTTAATA
27246628 TTATTTG-TAATGTTAATA
1 TTATTTGTTAATGTTAATA
27246646 TTA
1 TTA
27246649 ATGGTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTATTTGTTAATGTTAATA
Found at i:27247507 original size:25 final size:24
Alignment explanation
Indices: 27247461--27247507 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
27247451 ATATATTTAC
*
27247461 TTCATTTTTTTATACATTATTAAT
1 TTCATTTTTTTATACATAATTAAT
27247485 TTCATTCTTTTTAT-CAATAATTA
1 TTCATT-TTTTTATAC-ATAATTA
27247508 TACCCAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCATTTTTTTATACATAATTAAT
Found at i:27254085 original size:106 final size:105
Alignment explanation
Indices: 27253894--27254100 Score: 306
Period size: 106 Copynumber: 2.0 Consensus size: 105
27253884 TATCTTTTTC
* *
27253894 AATGATAATGAGATTCCACCAGGAGGGATAGAATCTACCAAAGCTTTGCATATAACTACTAGATG
1 AATGATAATGAGATTCCACCAGGAGGAATAGAATCTACCAAAGCTTTGCATATAACTACCAGATG
* * *
27253959 TAAAGGGTACATGCTACCAGGGGTATTGGTAGATAACGGT
66 TAAAGGATACACGCTACCAGGGGTATTGCTAGATAACGGT
* * * *
27253999 NAATGATGATGAGATTCCACCAGGAGGAATGGGATTTACCAAAGCTTTGCATATAACTACCAGAT
1 -AATGATAATGAGATTCCACCAGGAGGAATAGAATCTACCAAAGCTTTGCATATAACTACCAGAT
* *
27254064 GTAAAGGATACACGTTGCCAGGGGTATTGCTAGATAA
65 GTAAAGGATACACGCTACCAGGGGTATTGCTAGATAA
27254101 TGGTTCAGCA
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 90 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (105 bp):
AATGATAATGAGATTCCACCAGGAGGAATAGAATCTACCAAAGCTTTGCATATAACTACCAGATG
TAAAGGATACACGCTACCAGGGGTATTGCTAGATAACGGT
Found at i:27260299 original size:180 final size:180
Alignment explanation
Indices: 27259983--27260573 Score: 846
Period size: 180 Copynumber: 3.3 Consensus size: 180
27259973 ATTGGTAAAG
* * * ** *
27259983 ATTGAAGATCTTATTTCCCTGAAGTTGCAGTGGAATAGATCCTT-GCAGATGATGAATCTTATCT
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGAT-CTTCGCAGATGGTGAATCTTATCT
* * * * * *
27260047 CTATGTATC-AGCAATAAAGCAGATTTTACCACCAAGCCTTGA-CTCTCTGAGGTAGCAAGAGAG
65 CCATGTATCGA-CAATAGAGCAGATTTTACTACTAAGCCTT-ATCTCTCTGAAGTAGCAGGAGAG
* * *
27260110 CAAGTTGAAGAATGAGTCTTATATTCCTGAGGTAGCAAGGAAGCAGACTGAGA
128 CAGGTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAGA
*
27260163 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAGATGGTGAATCTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGTGAATCTTATCTC
* * * *
27260228 CATGTATCGACAATTGAGAAGATTTTACTACTAAGCCTTATCTCTCTGAAGTAGTAGGAGAGTAG
66 CATGTATCGACAATAGAGCAGATTTTACTACTAAGCCTTATCTCTCTGAAGTAGCAGGAGAGCAG
* *
27260293 GTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGTAAGTAGACTGAGA
131 GTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAGA
* *
27260343 ATTGAATATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATCTTCGCAGATGGTGAATCTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGTGAATCTTATCTC
* *
27260408 CATGTATCGGCAATGGAGCAGATTTTACTACTAAGCCTTATCTCTCTGAAGTAGCAGGAGAGCAG
66 CATGTATCGACAATAGAGCAGATTTTACTACTAAGCCTTATCTCTCTGAAGTAGCAGGAGAGCAG
*
27260473 GTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGATTGAGA
131 GTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAGA
* * * * *
27260523 ATTGAATATTTTATCTCCCCGAAGTTGCAGCAGAGCAAATTTTCGCAGATG
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATG
27260574 TAGGAGAGCA
Statistics
Matches: 370, Mismatches: 38, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
179 4 0.01
180 365 0.99
181 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (180 bp):
ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGTGAATCTTATCTC
CATGTATCGACAATAGAGCAGATTTTACTACTAAGCCTTATCTCTCTGAAGTAGCAGGAGAGCAG
GTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAGA
Found at i:27260505 original size:43 final size:42
Alignment explanation
Indices: 27260444--27260524 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
27260434 ACTACTAAGC
*
27260444 CTTATCTCTCTGAAGTAGC-AGGAGAGCAGGTTGAAGAATGAGT
1 CTTATCTCTCTGAAGTAGCAAGGA-AGCAGATTG-AGAATGAGT
*
27260487 CTTATCT-TCTTGAGGTAGCAAGGAAGCAGATTGAGAAT
1 CTTATCTCTC-TGAAGTAGCAAGGAAGCAGATTGAGAAT
27260525 TGAATATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 7 0.21
43 23 0.68
44 4 0.12
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (42 bp):
CTTATCTCTCTGAAGTAGCAAGGAAGCAGATTGAGAATGAGT
Found at i:27260660 original size:112 final size:112
Alignment explanation
Indices: 27260463--27260671 Score: 373
Period size: 112 Copynumber: 1.9 Consensus size: 112
27260453 CTGAAGTAGC
*
27260463 AGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGATTGAGAATTGA
1 AGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGA
*
27260528 ATATTTTATCTCCCCGAAGTTGCAGCAGAGCAAATTTTCGCAGATGT
66 AGATTTTATCTCCCCGAAGTTGCAGCAGAGCAAATTTTCGCAGATGT
*
27260575 AGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGATTGAGAATTGA
1 AGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGA
* *
27260640 AGATTTTATCTCCCTGAAGTTGCAGCGGAGCA
66 AGATTTTATCTCCCCGAAGTTGCAGCAGAGCA
27260672 GATATTTGCA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 92 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (112 bp):
AGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGA
AGATTTTATCTCCCCGAAGTTGCAGCAGAGCAAATTTTCGCAGATGT
Found at i:27260805 original size:292 final size:292
Alignment explanation
Indices: 27260281--27260839 Score: 922
Period size: 292 Copynumber: 1.9 Consensus size: 292
27260271 CTCTGAAGTA
* * *
27260281 GTAGGAGAGTAGGTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGTAAGTAGACTGAGAATT
1 GTAGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAGAATT
* * *
27260346 GAATATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATCTTCGCAGATGGTGAATCTTATCTCCAT
66 GAAGATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATATTCGCAAATGGTGAATCTTATCTCCAT
27260411 GTATCGGCAATGGAGCAGATTTTACTACTAAGCCTTATCTCTCTGAAGTAGCAGGAGAGCAGGTT
131 GTATCGGCAATGGAGCAGATTTTACTACTAAGCCTTATCTCTCTGAAGTAGCAGGAGAGCAGGTT
* * * * *
27260476 GAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGATTGAGAATTGAATATTTTATCTCC
196 GAAGAATGAGTCTTATCTTCCTAAGATAGCAAGGAAGCAAATTGAGAATTGAAGATTTTATCTCC
27260541 CCGAAGTTGCAGCAGAGCAAATTTTCGCAGAT
261 CCGAAGTTGCAGCAGAGCAAATTTTCGCAGAT
*
27260573 GTAGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGATTGAGAATT
1 GTAGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAGAATT
* * *
27260638 GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATATTTGCAAATGGTGAATCTTATCTTCAT
66 GAAGATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATATTCGCAAATGGTGAATCTTATCTCCAT
* * *
27260703 GTATCGGCAATGGAGCAGATTTTACTATTAAGCCTTATCTCTCTGAGGTAGCAGGAGAGTAGGTT
131 GTATCGGCAATGGAGCAGATTTTACTACTAAGCCTTATCTCTCTGAAGTAGCAGGAGAGCAGGTT
*
27260768 GAAGAATGAGT-TTGATCTTCCTAAGATAGCAAGGAAGCAAATTGAGAATTGAAGATTTTGTCTC
196 GAAGAATGAGTCTT-ATCTTCCTAAGATAGCAAGGAAGCAAATTGAGAATTGAAGATTTTATCTC
*
27260832 CCTGAAGT
260 CCCGAAGT
27260840 CGCAACGGAG
Statistics
Matches: 246, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
291 2 0.01
292 244 0.99
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (292 bp):
GTAGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAGAATT
GAAGATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATATTCGCAAATGGTGAATCTTATCTCCAT
GTATCGGCAATGGAGCAGATTTTACTACTAAGCCTTATCTCTCTGAAGTAGCAGGAGAGCAGGTT
GAAGAATGAGTCTTATCTTCCTAAGATAGCAAGGAAGCAAATTGAGAATTGAAGATTTTATCTCC
CCGAAGTTGCAGCAGAGCAAATTTTCGCAGAT
Found at i:27260877 original size:180 final size:180
Alignment explanation
Indices: 27260574--27260960 Score: 564
Period size: 180 Copynumber: 2.2 Consensus size: 180
27260564 TTCGCAGATG
* * * *
27260574 TAGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGATTGAGAATTG
1 TAGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGATAGCAAGGAAGCAAATTGAGAATTG
* * * * *
27260639 AAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATATTTGCAAATGGTGAATCTTATCTTCATG
66 AAGATTTTATCTCCCTGAAGTCGCAACGGAGCAGATATTTACAAATGGTGAATCTTATCTCCATA
* *
27260704 TATCGGCAATGGAGCAGATTTTACTATTAAGCCTTATCTCTCTGAGGTAGC
131 TATCGGCAATGGAGCAGATTTTAC-ATCAAGCCTCATCTCTCTGAGGTAGC
*
27260755 -AGGAGAGTAGGTTGAAGAATGAGT-TTGATCTTCCTAAGATAGCAAGGAAGCAAATTGAGAATT
1 TAGGAGAGCAGGTTGAAGAATGAGTCTT-ATCTTCCTAAGATAGCAAGGAAGCAAATTGAGAATT
* * * *
27260818 GAAGATTTTGTCTCCCTGAAGTCGCAACGGAGTAGATCTTTACAAGTGGTGAATCTTATCTCCAT
65 GAAGATTTTATCTCCCTGAAGTCGCAACGGAGCAGATATTTACAAATGGTGAATCTTATCTCCAT
* * *
27260883 ATATTGGCAATGGAGCAGATTTTACCTCCAGCCTCATCTCTCTGAGGTAGC
130 ATATCGGCAATGGAGCAGATTTTACATCAAGCCTCATCTCTCTGAGGTAGC
27260934 TAGG-GAGCAGGTTGAAGAATGAGTCTT
1 TAGGAGAGCAGGTTGAAGAATGAGTCTT
27260961 CCTGAAGTAG
Statistics
Matches: 183, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
179 43 0.23
180 140 0.77
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (180 bp):
TAGGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGATAGCAAGGAAGCAAATTGAGAATTG
AAGATTTTATCTCCCTGAAGTCGCAACGGAGCAGATATTTACAAATGGTGAATCTTATCTCCATA
TATCGGCAATGGAGCAGATTTTACATCAAGCCTCATCTCTCTGAGGTAGC
Found at i:27264055 original size:131 final size:131
Alignment explanation
Indices: 27263813--27264152 Score: 501
Period size: 131 Copynumber: 2.6 Consensus size: 131
27263803 AAAAAACCGA
* * * * *
27263813 AACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-GTTTT--A
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAATTACCAAACATCGAACATTGCCTTCGTTTTAAA
** * *
27263874 GAATTTAGAAA-ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAATT
65 GAATTTTTAAAGACATGAATGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATT
27263938 GC
130 GC
* *
27263940 AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACGTTGCCTTCATTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTGCCTTCGTTTTAAAG
*
27264005 AATTTTTAAAGACATGAATGAAATTCCAAAGGAATATTCTATTATTTTGAACAAACGGGAAATTG
66 AATTTTTAAAGACATGAATGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTG
27264070 C
131 C
* * *
27264071 AACCTAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTGCCTTCGTTTTAAAG
27264136 AATTTTTAAAGACATGA
66 AATTTTTAAAGACATGA
27264153 TTATAAAACT
Statistics
Matches: 191, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
127 47 0.25
128 5 0.03
130 10 0.05
131 129 0.68
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (131 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTGCCTTCGTTTTAAAG
AATTTTTAAAGACATGAATGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTG
C
Found at i:27266771 original size:21 final size:20
Alignment explanation
Indices: 27266747--27266786 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
27266737 TAAATTGTGA
27266747 TATTTATATTCTTAATTATAT
1 TATTTATATT-TTAATTATAT
*
27266768 TATTTATATTTTATTTATA
1 TATTTATATTTTAATTATA
27266787 ACAAATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTATATTTTAATTATAT
Found at i:27267802 original size:19 final size:20
Alignment explanation
Indices: 27267766--27267805 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27267756 TTATTTTCTC
* *
27267766 CAATTTTATTTGTTAGTTTT
1 CAATTTAATTTGTAAGTTTT
27267786 CAATTTAATTTG-AAGTTTT
1 CAATTTAATTTGTAAGTTTT
27267805 C
1 C
27267806 TTTAGAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.57
Consensus pattern (20 bp):
CAATTTAATTTGTAAGTTTT
Found at i:27273916 original size:29 final size:28
Alignment explanation
Indices: 27273878--27273933 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
27273868 ATTTTTTGAC
*
27273878 TTTTTTTCTAATTTGTTACCTAAACTTT
1 TTTTTTTCTAATTTGATACCTAAACTTT
27273906 TTTTTTGTCTAATTTGATACCTAAACTT
1 TTTTTT-TCTAATTTGATACCTAAACTT
27273934 GTCAATGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.57
Consensus pattern (28 bp):
TTTTTTTCTAATTTGATACCTAAACTTT
Found at i:27274693 original size:29 final size:30
Alignment explanation
Indices: 27274641--27274702 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
27274631 TTTTGAGTAA
*
27274641 TTTAATTTTTTTCTTTTATGTTCTTTTAAC
1 TTTAATTTTTTTCTTTTATGTTCTATTAAC
* * *
27274671 TTTACTTTTTTTC-TTTATTTTCTATTATC
1 TTTAATTTTTTTCTTTTATGTTCTATTAAC
27274700 TTT
1 TTT
27274703 TGTTTCTCCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.73
Consensus pattern (30 bp):
TTTAATTTTTTTCTTTTATGTTCTATTAAC
Found at i:27275167 original size:31 final size:29
Alignment explanation
Indices: 27275106--27275168 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
27275096 ACATAAGTGG
** * *
27275106 CTAAAATGTAATATTTCAAATATAAGTGA
1 CTAAAATGTAATATGGCAAATAAAAATGA
27275135 CTAAAATGTAATATGAGGCAAATAAAAATGA
1 CTAAAATGTAATAT--GGCAAATAAAAATGA
27275166 CTA
1 CTA
27275169 TTTTGATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 14 0.50
31 14 0.50
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (29 bp):
CTAAAATGTAATATGGCAAATAAAAATGA
Found at i:27276496 original size:118 final size:114
Alignment explanation
Indices: 27276352--27276619 Score: 331
Period size: 115 Copynumber: 2.3 Consensus size: 114
27276342 CAAAATCAAA
* * * * *
27276352 AGACTTCTTTATCAAATTTAATTTTTTTTTACTTA-GAAATACACATATTTTTGCAATTTCATTC
1 AGACTTCATTGTCAAATTTAA--TTTTTTTACTTATG-AATACAC--ATTTCTGAAATTTCACTC
* **
27276416 ATTATAAAATTCATTATAATAGTAATAAAATAAAAATTATTACACCAAATTAAG
61 ATTACAAAATTCATTATAATAGTAATAAAATAAAAATTATTACACCAAACCAAG
* *
27276470 AGACTTCATTGTCAAATTTTAATTTTTATATTTATGAATACACATTTCTGAAATTTCACTCATTA
1 AGACTTCATTGTCAAA-TTTAATTTTTTTACTTATGAATACACATTTCTGAAATTTCACTCATTA
* * *
27276535 CAAAATTCATTATAATATTAATAGAATAAAAATTATTAGACCAAACCAAG
65 CAAAATTCATTATAATAGTAATAAAATAAAAATTATTACACCAAACCAAG
* *
27276585 AGACTTCATTGTCAAAATCTAATATTTTTACTTAT
1 AGACTTCATTGTC-AAATTTAATTTTTTTACTTAT
27276620 CAACTCAATT
Statistics
Matches: 130, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
115 90 0.69
116 3 0.02
117 17 0.13
118 15 0.12
119 5 0.04
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (114 bp):
AGACTTCATTGTCAAATTTAATTTTTTTACTTATGAATACACATTTCTGAAATTTCACTCATTAC
AAAATTCATTATAATAGTAATAAAATAAAAATTATTACACCAAACCAAG
Found at i:27279117 original size:17 final size:17
Alignment explanation
Indices: 27279091--27279124 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27279081 TATATAATTG
*
27279091 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
27279108 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
27279125 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:27280673 original size:40 final size:39
Alignment explanation
Indices: 27280561--27280710 Score: 219
Period size: 39 Copynumber: 3.8 Consensus size: 39
27280551 ATTTGATGTA
* *
27280561 TATCCGGACTTAAGGTCCGCAGGCTTTGTGCTGGAATTG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
27280600 TATCCGAACTTAAGGTCTGCAGGCTTCCTGCTGGAATTG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* *
27280639 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAATTG
27280679 TATCCGGACTTAAGATCCGCAGGCTTCGTGCT
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCT
27280711 ATATGTGAAT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
39 64 0.65
40 34 0.35
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
Found at i:27284517 original size:451 final size:452
Alignment explanation
Indices: 27283658--27284545 Score: 1472
Period size: 451 Copynumber: 2.0 Consensus size: 452
27283648 AAGCTTGAAG
* * * *
27283658 CTTTCGCTTGTTGACACTAATAAGAAATCATCATCTCTTTCTCCGATCATACTAGCATTAGCAAC
1 CTTTCACTCGTTGACACCAATAAGAAATCATCATCTCTTTCTCCGACCATACTAGCATTAGCAAC
* *
27283723 ATCTGCTTTACCTTTCTCGTCGTTTTTGGCATCCCTCTTAATTTTATTTTGAAGTTTCTAGCATT
66 ATCTGCTTTACCTTTCTCGTCATTTTCGGCATCCCTCTTAATTTTATTTTGAAGTTTCTAGCATT
* *
27283788 CTACCTTAACGTAACCCATCTTTTTGCAATAGCCACCGTATTTCTCACGATTCCTAGATTTGGAT
131 CTACCTTAACATAACCCATCTTTTTGCAATAGCCACAGTATTTCTCACGATTCCTAGATTTGGAT
* *
27283853 CTCACTTTAGACCTGTTCTAATATGAATTTTTGGAATGTTATTAGCCTCTTGAACATTCTAAACG
196 CTCACTTTAGACCTGTTCTAACATGAATTTTTGGAATGTTATCAGCCTCTTGAACATTCTAAACG
* * *
27283918 TGTAGAAACGTTTTTTTAACACTAACCTATTGGCTAAGGATTTCATCGTGTACAAGGCTTCCAGT
261 TGTAGAAACGTTATTTTAACACTAACCTATTGGCCAAGGATTTCATCATGTACAAGGCTTCCAGT
*
27283983 TTCTTCCATAATTTAATTGTTGTTTTCTCCTTCAAAACCTCTTGTAACACATTATTAGTTAAACA
326 TTCTTCCATAATTTAATCGTTGTTTTCTCCTTCAAAACCTCTTGTAACACATTATTAGTTAAACA
27284048 AAATTGAATTACGGATAGAGTC-TTTTTTTCTAACCTATCACATTCTACACATTATTGGAGT
391 AAATTGAATTACGGATAGAGTCTTTTTTTTCTAACCTATCACATTCTACACATTATTGGAGT
*
27284109 CTTTCACTCGTTGACACCAATAAGAAATCATCATCTCTTTCTCCGACCATACTGGCATTAGCAAC
1 CTTTCACTCGTTGACACCAATAAGAAATCATCATCTCTTTCTCCGACCATACTAGCATTAGCAAC
* *
27284174 ATCTGCTTTATCTTTCTCGTCATTTTCGGCATCCTTCTTAATTTTATTTTGAAGTTTCTAGCATT
66 ATCTGCTTTACCTTTCTCGTCATTTTCGGCATCCCTCTTAATTTTATTTTGAAGTTTCTAGCATT
* * * *
27284239 CTACTTTAACATGACCCATCTTTTTGCAATAGCCACAGTATTTGTCATGATTCCTAGATTTGGAT
131 CTACCTTAACATAACCCATCTTTTTGCAATAGCCACAGTATTTCTCACGATTCCTAGATTTGGAT
* * * * * *
27284304 CTCGCTTTAGACCTGTTCTAACATGAATTTTTGGATTTTTGTCAGTCTCTTGAACATTCTGAACG
196 CTCACTTTAGACCTGTTCTAACATGAATTTTTGGAATGTTATCAGCCTCTTGAACATTCTAAACG
*
27284369 TGTAGAAACGTTATTTTAACACTAACCTGTTGGCCAAGGATTTCATCATGTACAAGGCTTCCAGT
261 TGTAGAAACGTTATTTTAACACTAACCTATTGGCCAAGGATTTCATCATGTACAAGGCTTCCAGT
*
27284434 TTCTTCCATAATTTAATCGTTGTTTTCTCCTTCAAAATCTCTTGTAACACATTATTAGTTAAACA
326 TTCTTCCATAATTTAATCGTTGTTTTCTCCTTCAAAACCTCTTGTAACACATTATTAGTTAAACA
* ** *
27284499 TAATTGAATTGTGGATAGAGTCTTTTTTTTCTAACCTATCCCATTCT
391 AAATTGAATTACGGATAGAGTCTTTTTTTTCTAACCTATCACATTCT
27284546 GACCGTTCCA
Statistics
Matches: 403, Mismatches: 33, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
451 380 0.94
452 23 0.06
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (452 bp):
CTTTCACTCGTTGACACCAATAAGAAATCATCATCTCTTTCTCCGACCATACTAGCATTAGCAAC
ATCTGCTTTACCTTTCTCGTCATTTTCGGCATCCCTCTTAATTTTATTTTGAAGTTTCTAGCATT
CTACCTTAACATAACCCATCTTTTTGCAATAGCCACAGTATTTCTCACGATTCCTAGATTTGGAT
CTCACTTTAGACCTGTTCTAACATGAATTTTTGGAATGTTATCAGCCTCTTGAACATTCTAAACG
TGTAGAAACGTTATTTTAACACTAACCTATTGGCCAAGGATTTCATCATGTACAAGGCTTCCAGT
TTCTTCCATAATTTAATCGTTGTTTTCTCCTTCAAAACCTCTTGTAACACATTATTAGTTAAACA
AAATTGAATTACGGATAGAGTCTTTTTTTTCTAACCTATCACATTCTACACATTATTGGAGT
Found at i:27290188 original size:18 final size:19
Alignment explanation
Indices: 27290162--27290200 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
27290152 ATATATATTT
* *
27290162 ATTTTTATATAGTA-TATA
1 ATTTATATATAATACTATA
27290180 ATTTATATATAATACTATA
1 ATTTATATATAATACTATA
27290199 AT
1 AT
27290201 GTAACCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTATATATAATACTATA
Found at i:27292495 original size:16 final size:16
Alignment explanation
Indices: 27292476--27292514 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27292466 AAAATAAAGA
27292476 AAATAAAT-AGATAAAT
1 AAATAAATAAGAT-AAT
*
27292492 AAATAAGTAAGATAAT
1 AAATAAATAAGATAAT
27292508 AAATAAA
1 AAATAAA
27292515 ACAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (16 bp):
AAATAAATAAGATAAT
Found at i:27292570 original size:24 final size:23
Alignment explanation
Indices: 27292528--27292572 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
27292518 ATTTAATTGG
* *
27292528 AAAACGAAAGAATGTAAGTAAAT
1 AAAACAAAAGAATGAAAGTAAAT
27292551 AAAACAAAAGTAATGAAAGTAA
1 AAAACAAAAG-AATGAAAGTAA
27292573 GAAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (23 bp):
AAAACAAAAGAATGAAAGTAAAT
Found at i:27292641 original size:41 final size:41
Alignment explanation
Indices: 27292595--27292675 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
27292585 ATGAAACAAA
*
27292595 AAAATATAATAATAGTGACAATAATTTAAAATAACTAATTG
1 AAAATATAATAATAGTGACAATAATTTAAAATAACGAATTG
* *
27292636 AAAATATAATAATAGTGATAATAATTTAAACTAACGAATT
1 AAAATATAATAATAGTGACAATAATTTAAAATAACGAATT
27292676 TAATAACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (41 bp):
AAAATATAATAATAGTGACAATAATTTAAAATAACGAATTG
Found at i:27293943 original size:19 final size:19
Alignment explanation
Indices: 27293892--27293944 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
27293882 TAATGGACTG
*
27293892 TTTTC-ATTTATTTTGGTTT
1 TTTTCTATTTATTTT-GTTA
* *
27293911 TTTTGT-TTTGTTTTGTTA
1 TTTTCTATTTATTTTGTTA
27293929 TTTTCTATTTATTTTG
1 TTTTCTATTTATTTTG
27293945 CTTTGTCTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.09, C:0.04, G:0.11, T:0.75
Consensus pattern (19 bp):
TTTTCTATTTATTTTGTTA
Found at i:27296009 original size:14 final size:15
Alignment explanation
Indices: 27295984--27296012 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27295974 GTACGAAATT
27295984 AATAATGTATATAAA
1 AATAATGTATATAAA
27295999 AATAA-GTATATAAA
1 AATAATGTATATAAA
27296013 TTATACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
AATAATGTATATAAA
Found at i:27305246 original size:3 final size:3
Alignment explanation
Indices: 27305238--27305265 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27305228 TAAAGCAGAT
27305238 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27305266 AAAGAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27307528 original size:27 final size:25
Alignment explanation
Indices: 27307485--27307534 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
27307475 GAATAGTTTT
27307485 TAAAATACTTTTAATTTTGAAAAAA
1 TAAAATACTTTTAATTTTGAAAAAA
* *
27307510 TAAAATCACATTTTCATTTTTAAAA
1 TAAAAT-AC-TTTTAATTTTGAAAA
27307535 TTCAATCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 2 0.10
27 13 0.62
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (25 bp):
TAAAATACTTTTAATTTTGAAAAAA
Found at i:27308160 original size:13 final size:13
Alignment explanation
Indices: 27308142--27308173 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27308132 AAATGCCTCT
*
27308142 TTAATATTTTTCA
1 TTAATATTTGTCA
27308155 TTAATATTTGTCA
1 TTAATATTTGTCA
27308168 TTAATA
1 TTAATA
27308174 CATTCATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (13 bp):
TTAATATTTGTCA
Found at i:27309047 original size:7 final size:7
Alignment explanation
Indices: 27309035--27309068 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
27309025 TAATATTCAT
27309035 TTCTAAA
1 TTCTAAA
27309042 TTCTAAA
1 TTCTAAA
27309049 TTCTAAA
1 TTCTAAA
*
27309056 TTTTAAA
1 TTCTAAA
*
27309063 ATCTAA
1 TTCTAA
27309069 TGGGGATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCTAAA
Found at i:27310901 original size:9 final size:9
Alignment explanation
Indices: 27310889--27310957 Score: 59
Period size: 9 Copynumber: 7.2 Consensus size: 9
27310879 TAATTAAAAA
27310889 TTATAATTT
1 TTATAATTT
*
27310898 TTATACTTT
1 TTATAATTT
27310907 TTCAATAATTT
1 TT--ATAATTT
*
27310918 TAATAATTT
1 TTATAATTT
27310927 TTA-AATTT
1 TTATAATTT
*
27310935 TAAAAATAATTT
1 T---TATAATTT
27310947 TTATAATTT
1 TTATAATTT
27310956 TT
1 TT
27310958 TTATCACATG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
8 6 0.12
9 28 0.58
11 8 0.17
12 6 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATAATTT
Found at i:27310916 original size:20 final size:20
Alignment explanation
Indices: 27310891--27310928 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27310881 ATTAAAAATT
* *
27310891 ATAATTTTTATACTTTTTCA
1 ATAATTTTAATAATTTTTCA
27310911 ATAATTTTAATAATTTTT
1 ATAATTTTAATAATTTTT
27310929 AAATTTTAAA
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:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
ATAATTTTAATAATTTTTCA
Found at i:27314013 original size:104 final size:104
Alignment explanation
Indices: 27313890--27314381 Score: 673
Period size: 104 Copynumber: 4.7 Consensus size: 104
27313880 CAGCGAACTA
* **
27313890 TTAGAAGTTGCGATCTTAAATCAATGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
1 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
*
27313955 CCTTAATAACATCATA-TGTGAACGTAGGTCAGT-GAGCTG
66 CCTTAATAACATCA-ACTGTGAACGTAGGTCA-TCAAGCTG
* * * *
27313994 TTAGGAGTTGCGATATTAAATTAGCGAACTTAAATAATTGGAGGCTGCGATCTTAAATCAGCTAG
1 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
* * * * * * *
27314059 CCTTAATAACATTAACTATGAATGGAGGTTAGCGAGCTG
66 CCTTAATAACATCAACTGTGAACGTAGGTCATCAAGCTG
* **
27314098 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGGGATCTTAAATCAATTAG
1 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
* *
27314163 CCTTAATAACATCAGCTGTGAACGTAGGTCATCAAGCAG
66 CCTTAATAACATCAACTGTGAACGTAGGTCATCAAGCTG
* *
27314202 TTAGGAGTTGCGATATTAAATCAGCGAACTCAAATAATTAGAGGTTGCGATCTTAAATCAGCTAG
1 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
*
27314267 CCTTAATAATATCAACTGTGAACGTAGGTCATCAAGCTG
66 CCTTAATAACATCAACTGTGAACGTAGGTCATCAAGCTG
* * * * * * *
27314306 ATAAGAGTTGCGATCTTAAATCAGCGAACTAAAATAATTGAAGGTTGTGATCTTAAATCAACTAA
1 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
*
27314371 CCCTAATAACA
66 CCTTAATAACA
27314382 CCAGTTGCAA
Statistics
Matches: 338, Mismatches: 48, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
103 1 0.00
104 337 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (104 bp):
TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
CCTTAATAACATCAACTGTGAACGTAGGTCATCAAGCTG
Found at i:27316311 original size:2 final size:2
Alignment explanation
Indices: 27316294--27316331 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
27316284 TTATTTATGC
* *
27316294 AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27316332 TCTTTCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:27320303 original size:40 final size:40
Alignment explanation
Indices: 27320225--27320405 Score: 224
Period size: 40 Copynumber: 4.5 Consensus size: 40
27320215 AGTGGCGACA
* * * *
27320225 GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG
* *
27320265 ACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAATCCGG
1 GCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
*
27320305 GTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
* *
27320345 GTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGG
*
27320385 GCTATGTCCCGAAGGCATTTG
1 GCTAAGTCCCGAAGGCATTTG
27320406 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 113 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
Found at i:27320412 original size:80 final size:79
Alignment explanation
Indices: 27320273--27320438 Score: 210
Period size: 80 Copynumber: 2.1 Consensus size: 79
27320263 GGACTAAGAT
* * **
27320273 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCAATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
27320337 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
27320353 CCGAAGGCAATTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCAATTGTGCGAGATACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
27320417 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
27320432 CCGAAGG
1 CCGAAGG
27320439 TACGTGATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 16 0.21
80 57 0.76
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:27327131 original size:18 final size:18
Alignment explanation
Indices: 27327076--27327132 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
27327066 GTTCATAACT
* * *
27327076 AAATAAGAAAACATCTCA
1 AAATAAAAAAAAAACTCA
**
27327094 AAATAAAAAAAAAAAACA
1 AAATAAAAAAAAAACTCA
* *
27327112 AAATATAAAGAAAACTCA
1 AAATAAAAAAAAAACTCA
27327130 AAA
1 AAA
27327133 CTCTTAAAGG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.74, C:0.11, G:0.04, T:0.12
Consensus pattern (18 bp):
AAATAAAAAAAAAACTCA
Found at i:27327362 original size:13 final size:13
Alignment explanation
Indices: 27327344--27327370 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27327334 GCTCGGCAGG
27327344 GACACGCCCGTGT
1 GACACGCCCGTGT
27327357 GACACGCCCGTGT
1 GACACGCCCGTGT
27327370 G
1 G
27327371 CGATTACTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:27338313 original size:16 final size:15
Alignment explanation
Indices: 27338288--27338317 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27338278 AAATAATTTA
27338288 TAAAGAAAATATAAT
1 TAAAGAAAATATAAT
27338303 TAAAGATAAATATAA
1 TAAAGA-AAATATAA
27338318 AGTGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
TAAAGAAAATATAAT
Found at i:27340194 original size:21 final size:21
Alignment explanation
Indices: 27340160--27340209 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
27340150 CTAATTCTAA
27340160 AAAAATAT-ATAAT-ATTTTC
1 AAAAATATAATAATAATTTTC
*
27340179 AAAGAATATAATAATAATTTTT
1 AAA-AATATAATAATAATTTTC
27340201 AAAAATATA
1 AAAAATATA
27340210 TAAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 3 0.11
20 5 0.19
21 11 0.41
22 8 0.30
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAAATATAATAATAATTTTC
Found at i:27340210 original size:23 final size:23
Alignment explanation
Indices: 27340157--27340237 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 23
27340147 ATCCTAATTC
*
27340157 TAAAAAAATAT-ATAAT-ATTTT
1 TAAAAATATATAATAATAATTTT
* *
27340178 CAAAGA-ATATAATAATAATTTT
1 TAAAAATATATAATAATAATTTT
*
27340200 TAAAAATATATAAAAATAAATGTTT
1 TAAAAATATATAATAAT-AAT-TTT
*
27340225 AAAAAATATATAA
1 TAAAAATATATAA
27340238 CAAATTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.08
21 9 0.18
22 9 0.18
23 9 0.18
24 3 0.06
25 15 0.31
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAAAATATATAATAATAATTTT
Found at i:27340235 original size:25 final size:23
Alignment explanation
Indices: 27340151--27340242 Score: 75
Period size: 25 Copynumber: 4.0 Consensus size: 23
27340141 AATTTGATCC
* *
27340151 TAATTCTAAAAAA-ATAT-ATAA
1 TAATTTTAAAAAATATATAAAAA
* * *
27340172 T-ATTTTCAAAGA-ATATAATAA
1 TAATTTTAAAAAATATATAAAAA
*
27340193 TAATTTTTAAAAATATATAAAAA
1 TAATTTTAAAAAATATATAAAAA
27340216 TAAATGTTTAAAAAATATATAACAAA
1 T-AAT-TTTAAAAAATATATAA-AAA
27340242 T
1 T
27340243 TAAAATTTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
20 12 0.21
21 6 0.10
22 9 0.16
23 9 0.16
24 3 0.05
25 15 0.26
26 4 0.07
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATTTTAAAAAATATATAAAAA
Found at i:27340252 original size:27 final size:24
Alignment explanation
Indices: 27340184--27340252 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
27340174 TTTTCAAAGA
* *
27340184 ATATAATAAT-AATTTTTAAAAAT
1 ATATAAAAATAAATTTTAAAAAAT
27340207 ATATAAAAATAAATGTTTAAAAAAT
1 ATATAAAAATAAAT-TTTAAAAAAT
27340232 ATATAACAAATTAAAATTTTA
1 ATATAA-AAA-T-AAATTTTA
27340253 TATTAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.23
24 3 0.08
25 15 0.38
26 3 0.08
27 5 0.13
28 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (24 bp):
ATATAAAAATAAATTTTAAAAAAT
Found at i:27340283 original size:25 final size:24
Alignment explanation
Indices: 27340250--27340298 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
27340240 AATTAAAATT
*
27340250 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATGAAATAAA-ATAA
27340275 TTATATTAATATGAAATAAAATAA
1 TTATATTAATATGAAATAAAATAA
27340299 AATCTGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
TTATATTAATATGAAATAAAATAA
Found at i:27340892 original size:18 final size:17
Alignment explanation
Indices: 27340867--27340902 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
27340857 TTTAATGTTG
*
27340867 ATTATAATTTTAAAAAT
1 ATTATAATTCTAAAAAT
27340884 ATTATTAATTCTAAAAAT
1 ATTA-TAATTCTAAAAAT
27340902 A
1 A
27340903 CTTTTCAAAA
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:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTATAATTCTAAAAAT
Found at i:27341453 original size:11 final size:11
Alignment explanation
Indices: 27341428--27341461 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
27341418 TTGTGTGTTC
27341428 TTTATTTTA--
1 TTTATTTTATT
27341437 TTTATTTTATT
1 TTTATTTTATT
27341448 TTTATTTTATT
1 TTTATTTTATT
27341459 TTT
1 TTT
27341462 TCACAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:27341461 original size:6 final size:5
Alignment explanation
Indices: 27341428--27341460 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
27341418 TTGTGTGTTC
27341428 TTTAT TTTA- TTTAT TTTATT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTT
27341461 TTCACAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:27350471 original size:66 final size:66
Alignment explanation
Indices: 27350400--27350527 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
27350390 ATTCGTATGG
* * * * * *
27350400 CCGAAGAGAACCAATGACCTAGATACAAATAGGCAGAAAATAATTTATCTCTCAACGGTCAGATG
1 CCGAAGAGAACCAACGACCCAGATACAAACAAGCAAAAAATAATTCATCTCTCAACGGTCAGATG
27350465 C
66 C
* * *
27350466 CCGAAGAGAACCAACGACCCAGATGCAAGCAAGCAAAAAATGATTCATCTCTCAACGGTCAG
1 CCGAAGAGAACCAACGACCCAGATACAAACAAGCAAAAAATAATTCATCTCTCAACGGTCAG
27350528 TACGTACCCA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (66 bp):
CCGAAGAGAACCAACGACCCAGATACAAACAAGCAAAAAATAATTCATCTCTCAACGGTCAGATG
C
Found at i:27355034 original size:25 final size:25
Alignment explanation
Indices: 27355000--27355050 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
27354990 ACCAACATGC
27355000 TAGTTTACTTGGCGATTATCTTTGA
1 TAGTTTACTTGGCGATTATCTTTGA
*
27355025 TAGTTTACTTGGTGATTATCTTTGA
1 TAGTTTACTTGGCGATTATCTTTGA
27355050 T
1 T
27355051 CCACGATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (25 bp):
TAGTTTACTTGGCGATTATCTTTGA
Found at i:27358480 original size:26 final size:25
Alignment explanation
Indices: 27358421--27358477 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
27358411 TAATAACATT
* * *
27358421 ATAAAAATAAAAATATCAAATTATG
1 ATAAAAATTAAAATATAAAATTATA
27358446 ATAAAAATTAAAATATAAAGATTA-A
1 ATAAAAATTAAAATATAAA-ATTATA
27358471 ATAAAAA
1 ATAAAAA
27358478 ATTTAAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (25 bp):
ATAAAAATTAAAATATAAAATTATA
Found at i:27364326 original size:20 final size:20
Alignment explanation
Indices: 27364283--27364351 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
27364273 ATCCCTAGGT
*
27364283 CACACAGGCGTGTGCCTCCTTC
1 CACACGGGCGTGTGCC-CC-TC
*
27364305 CACACGGGTGTGTGCCCCTC
1 CACACGGGCGTGTGCCCCTC
* *
27364325 CACATGGGCGTGTGGACCC-C
1 CACACGGGCGTGT-GCCCCTC
27364345 CACACGG
1 CACACGG
27364352 CCTAGGCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 20 0.50
21 6 0.15
22 14 0.35
ACGTcount: A:0.14, C:0.39, G:0.29, T:0.17
Consensus pattern (20 bp):
CACACGGGCGTGTGCCCCTC
Found at i:27368492 original size:28 final size:28
Alignment explanation
Indices: 27368456--27368514 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
27368446 TTTATAATTG
* *
27368456 AAACCTTGTTAAAAATCTTCATAATTTC
1 AAACATTGTTAAAAATCTTCATAATATC
27368484 AAACATTGTTAAAAATCTTCATAATATC
1 AAACATTGTTAAAAATCTTCATAATATC
27368512 AAA
1 AAA
27368515 TGTTGAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (28 bp):
AAACATTGTTAAAAATCTTCATAATATC
Found at i:27368833 original size:40 final size:40
Alignment explanation
Indices: 27368757--27368833 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
27368747 ATTGCATGTT
* ***
27368757 AAACACGCCCTACATGATATTATCCGATTTGTATGTTAAA
1 AAACACGCCCTACATGATATTATCCAATTCACATGTTAAA
* *
27368797 AAACATGCCCTACATGATATTATGCAATTCACATGTT
1 AAACACGCCCTACATGATATTATCCAATTCACATGTT
27368834 CAATATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (40 bp):
AAACACGCCCTACATGATATTATCCAATTCACATGTTAAA
Found at i:27368970 original size:24 final size:24
Alignment explanation
Indices: 27368942--27368998 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
27368932 GAGAAAGAAT
* *
27368942 TGGTGGTTTCATTCACAACCTACA
1 TGGTGGCTTCATCCACAACCTACA
* * *
27368966 TGGTGGCTTCGTCCACAACGTATA
1 TGGTGGCTTCATCCACAACCTACA
27368990 TGGTGGCTT
1 TGGTGGCTT
27368999 GTTTGCAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (24 bp):
TGGTGGCTTCATCCACAACCTACA
Done.