Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012933.1 Kokia drynarioides strain JFW-HI SEQ_127951, whole genome shotgun sequence
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: 24247
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Warning! 66 characters in sequence are not A, C, G, or T
Found at i:1331 original size:29 final size:29
Alignment explanation
Indices: 1299--1921 Score: 282
Period size: 29 Copynumber: 21.5 Consensus size: 29
1289 CGATTTTTCC
* *
1299 AAAATTATCATTTTGCCCCCGAACATCCA
1 AAAATTACCATTTTACCCCCGAACATCCA
* * * ** *
1328 AAAATTACCATTTAACCCTCGGATGTTCA
1 AAAATTACCATTTTACCCCCGAACATCCA
*** *
1357 AAAATTA-CATTTTTGA-CATTGAACTTTCCA
1 AAAATTACCA-TTTT-ACCCCCGAAC-ATCCA
* * *
1387 AAAATTACTATTTT-CCCCCTAAAGATCCA
1 AAAATTACCATTTTACCCCC-GAACATCCA
* ***
1416 AAAATTACCATTTTACCCTCGAGTGTCC-
1 AAAATTACCATTTTACCCCCGAACATCCA
* * **
1444 AAAATTATCATTTTACCCTCGAATGTCCA
1 AAAATTACCATTTTACCCCCGAACATCCA
* * * * *
1473 AAAATTA-AATTTTAACCCCAAACTTTCTA
1 AAAATTACCATTTTACCCCCGAAC-ATCCA
*
1502 AAAATTACCATTTTACCCCCGAACATCTA
1 AAAATTACCATTTTACCCCCGAACATCCA
* * * ** *
1531 AAACTTATCATTTTACGCTTGAACTTTCCA
1 AAAATTACCATTTTACCCCCGAAC-ATCCA
** * * *
1561 AAAATTTGCATTTTACCCCTGAACGT-AA
1 AAAATTACCATTTTACCCCCGAACATCCA
* * * ** *
1589 AAAATTATCGTTTTATCCCTTAATATCCA
1 AAAATTACCATTTTACCCCCGAACATCCA
* * ** *
1618 AAAATTACCATTTTTTACCCTCGGATGTTCA
1 AAAATTACCA--TTTTACCCCCGAACATCCA
* * *
1649 AAAATTA-CATTTTTGA-CTCCAAACTTTCCA
1 AAAATTACCA-TTTT-ACCCCCGAAC-ATCCA
*
1679 AAAATTACCATTTTACCCCTGAACATCCA
1 AAAATTACCATTTTACCCCCGAACATCCA
** ***
1708 AAAATTACCATTTTACCCTTGAGTGTCCA
1 AAAATTACCATTTTACCCCCGAACATCCA
* * * **
1737 AAAATTATCATTTTACCCTCGAATATGAA
1 AAAATTACCATTTTACCCCCGAACATCCA
* * * * *
1766 AAAATTACAATTTTAACCTCGAACTTTTCA
1 AAAATTACCATTTTACCCCCGAAC-ATCCA
* *
1796 AAAATTACCATTTTA-CCCCAAACATCGA
1 AAAATTACCATTTTACCCCCGAACATCCA
* * ***
1824 AAAACTACCATTTTA-CCCCTAGTGTCCA
1 AAAATTACCATTTTACCCCCGAACATCCA
** * *
1852 AAAATTACTGTTTTACACCCGAACATCTA
1 AAAATTACCATTTTACCCCCGAACATCCA
* * *
1881 AAAATTACCGTTTTGCTCCCC-AGCATCC-
1 AAAATTACCATTTTAC-CCCCGAACATCCA
1909 AAAATTA-CATTTT
1 AAAATTACCATTTT
1922 TGACTCCATT
Statistics
Matches: 446, Mismatches: 127, Indels: 44
0.72 0.21 0.07
Matches are distributed among these distances:
27 5 0.01
28 102 0.23
29 220 0.49
30 97 0.22
31 22 0.05
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAACATCCA
Found at i:1434 original size:88 final size:86
Alignment explanation
Indices: 1267--1457 Score: 217
Period size: 88 Copynumber: 2.2 Consensus size: 86
1257 CTCAAACTTC
* * * ** *
1267 TCAAAAATCACATTTTTGCCCTCGATTTTTCCAAAATTATCATTTTGCCCCCGAACATCCAAAAA
1 TCAAAAATTACATTTTTGACATCGAACTTTCCAAAATTATCATTTTGCCCCCAAACATCCAAAAA
1332 TTACCATTTAACCCTCG-GATG
66 TTACCATTTAACCCTCGAG-TG
* *
1353 TTCAAAAATTACATTTTTGACATTGAACTTTCCAAAAATTA-CTATTTT-CCCCCTAAAGATCCA
1 -TCAAAAATTACATTTTTGACATCGAACTTTCC-AAAATTATC-ATTTTGCCCCC-AAACATCCA
*
1416 AAAATTACCATTTTACCCTCGAGTG
62 AAAATTACCATTTAACCCTCGAGTG
*
1441 TCCAAAATTATCATTTT
1 TCAAAAATTA-CATTTT
1458 ACCCTCGAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
87 41 0.46
88 47 0.53
89 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.35
Consensus pattern (86 bp):
TCAAAAATTACATTTTTGACATCGAACTTTCCAAAATTATCATTTTGCCCCCAAACATCCAAAAA
TTACCATTTAACCCTCGAGTG
Found at i:1514 original size:58 final size:59
Alignment explanation
Indices: 1324--1888 Score: 309
Period size: 59 Copynumber: 9.7 Consensus size: 59
1314 CCCCCGAACA
* * ** * * * ****
1324 TCCAAAAATTACCATTTAACCCTCGGATGTTCAAAAATTACATTTTTGACATTGAACTT
1 TCCAAAAATTACCATTTTACCCTCGAACATCCAAAAATTACAATTTTAACCCCAAACTT
* * * * * * * *
1383 TCCAAAAATTACTATTTT-CCCCCTAAAGATCCAAAAATTACCATTTT-ACCCTC-GAGTG
1 TCCAAAAATTACCATTTTACCCTC-GAACATCCAAAAATTACAATTTTAACCC-CAAACTT
* **
1441 TCC-AAAATTATCATTTTACCCTCGAATGTCCAAAAATTA-AATTTTAACCCCAAACTT
1 TCCAAAAATTACCATTTTACCCTCGAACATCCAAAAATTACAATTTTAACCCCAAACTT
* * * * ***
1498 TCTAAAAATTACCATTTTACCCCCGAACATCTAAAACTTATC-ATTTT-ACGCTTGAACTT
1 TCCAAAAATTACCATTTTACCCTCGAACATCCAAAAATTA-CAATTTTAAC-CCCAAACTT
** * * * * ** *
1557 TCCAAAAATTTGCATTTTACCC-CTGAACGT-AAAAAATTATC-GTTTTATCCCTTAA-TA
1 TCCAAAAATTACCATTTTACCCTC-GAACATCCAAAAATTA-CAATTTTAACCCCAAACTT
* ** * * * *
1614 TCCAAAAATTACCATTTTTTACCCTCGGATGTTCAAAAATTACATTTTTGACTCCAAACTT
1 TCCAAAAATTACCA--TTTTACCCTCGAACATCCAAAAATTACAATTTTAACCCCAAACTT
* *** * *
1675 TCCAAAAATTACCATTTTACCC-CTGAACATCCAAAAATTACCATTTT-ACCCTTGAGTG
1 TCCAAAAATTACCATTTTACCCTC-GAACATCCAAAAATTACAATTTTAACCCCAAACTT
* * ** * *
1733 TCCAAAAATTATCATTTTACCCTCGAATATGAAAAAATTACAATTTTAACCTCGAACTT
1 TCCAAAAATTACCATTTTACCCTCGAACATCCAAAAATTACAATTTTAACCCCAAACTT
* * * * * * * *
1792 TTCAAAAATTACCATTTTACCC-CAAACATCGAAAAACTACCATTTT-ACCCC-TAGTG
1 TCCAAAAATTACCATTTTACCCTCGAACATCCAAAAATTACAATTTTAACCCCAAACTT
** *
1848 TCCAAAAATTACTGTTTTACACC-CGAACATCTAAAAATTAC
1 TCCAAAAATTACCATTTTAC-CCTCGAACATCCAAAAATTAC
1889 CGTTTTGCTC
Statistics
Matches: 385, Mismatches: 100, Indels: 44
0.73 0.19 0.08
Matches are distributed among these distances:
56 25 0.06
57 67 0.17
58 129 0.34
59 132 0.34
60 17 0.04
61 15 0.04
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (59 bp):
TCCAAAAATTACCATTTTACCCTCGAACATCCAAAAATTACAATTTTAACCCCAAACTT
Found at i:1684 original size:118 final size:117
Alignment explanation
Indices: 1501--1859 Score: 345
Period size: 118 Copynumber: 3.1 Consensus size: 117
1491 CAAACTTTCT
* * ** * **
1501 AAAAATTACCATTTTACCCCCGAACATCTAAAACTTATC-ATTTT-ACGCTTGAACTTTCCAAAA
1 AAAAATTACCATTTTACCCTCGAATATGAAAAAATTA-CAATTTTAAC-CTCAAACTTTCCAAAA
** * * *
1564 ATTTGCATTTTACCCCTGAACGT-AAAAAATTATCGTTTTATCCCTT-AATATCC
64 ATTACCATTTTACCCCTGAACATCAAAAAATTACCATTTTA-CCCTTGAATATCC
* * ** * *
1617 AAAAATTACCATTTTTTACCCTCGGATGTTCAAAAATTACATTTTTGA-CTCCAAACTTTCCAAA
1 AAAAATTACCA--TTTTACCCTCGAATATGAAAAAATTACAATTTTAACCT-CAAACTTTCCAAA
* * *
1681 AATTACCATTTTACCCCTGAACATCCAAAAATTACCATTTTACCCTTGAGTGTCC
63 AATTACCATTTTACCCCTGAACATCAAAAAATTACCATTTTACCCTTGAATATCC
* * *
1736 AAAAATTATCATTTTACCCTCGAATATGAAAAAATTACAATTTTAACCTCGAACTTTTCAAAAAT
1 AAAAATTACCATTTTACCCTCGAATATGAAAAAATTACAATTTTAACCTCAAACTTTCCAAAAAT
* * * * * *
1801 TACCATTTTACCCC-AAACATCGAAAAACTACCATTTTACCCCT-AGTGTCC
66 TACCATTTTACCCCTGAACATCAAAAAATTACCATTTTACCCTTGAATATCC
1851 AAAAATTAC
1 AAAAATTAC
1860 TGTTTTACAC
Statistics
Matches: 203, Mismatches: 32, Indels: 17
0.81 0.13 0.07
Matches are distributed among these distances:
115 15 0.07
116 36 0.18
117 60 0.30
118 62 0.31
119 30 0.15
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCTCGAATATGAAAAAATTACAATTTTAACCTCAAACTTTCCAAAAAT
TACCATTTTACCCCTGAACATCAAAAAATTACCATTTTACCCTTGAATATCC
Found at i:1693 original size:90 final size:89
Alignment explanation
Indices: 1412--1750 Score: 277
Period size: 88 Copynumber: 3.9 Consensus size: 89
1402 CCCCTAAAGA
*** * * *
1412 TCCAAAAATTACCATTTTA-CCCTCGAGTGTCC-AAAATTATCATTTTACCCTCGAATGTCCAAA
1 TCCAAAAATTACCATTTTACCCCT-GAACATCCAAAAATTACCATTTTACCCTGGAGTGTCCAAA
* * *
1475 AATTA--AATTTTAACCCCAAACTT
65 AATTATCATTTTTGACTCCAAACTT
* * * * * * * * *
1498 TCTAAAAATTACCATTTTACCCCCGAACATCTAAAACTTATCATTTTACGCTTGAACTTTCCAAA
1 TCCAAAAATTACCATTTTACCCCTGAACATCCAAAAATTACCATTTTAC-CCTGGAGTGTCCAAA
* * *
1563 AATT-TGCA-TTTT-ACCCCTGAAC-G
65 AATTAT-CATTTTTGACTCC-AAACTT
* * * * * * *
1586 T-AAAAAATTATCGTTTTATCCCTTAATATCCAAAAATTACCATTTTTTACCCTCGGA-TGTTCA
1 TCCAAAAATTACCATTTTACCCCTGAACATCCAAAAATTACCA--TTTTACCCT-GGAGTGTCCA
1649 AAAATTA-CATTTTTGACTCCAAACTT
63 AAAATTATCATTTTTGACTCCAAACTT
*
1675 TCCAAAAATTACCATTTTACCCCTGAACATCCAAAAATTACCATTTTACCCTTGAGTGTCCAAAA
1 TCCAAAAATTACCATTTTACCCCTGAACATCCAAAAATTACCATTTTACCCTGGAGTGTCCAAAA
1740 ATTATCATTTT
66 ATTATCATTTT
1751 ACCCTCGAAT
Statistics
Matches: 197, Mismatches: 39, Indels: 31
0.74 0.15 0.12
Matches are distributed among these distances:
86 22 0.11
87 53 0.27
88 60 0.30
89 26 0.13
90 36 0.18
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (89 bp):
TCCAAAAATTACCATTTTACCCCTGAACATCCAAAAATTACCATTTTACCCTGGAGTGTCCAAAA
ATTATCATTTTTGACTCCAAACTT
Found at i:6147 original size:15 final size:14
Alignment explanation
Indices: 6120--6172 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
6110 TGATGTGTTT
6120 AAAAAAAACAAAAAG
1 AAAAAAAA-AAAAAG
6135 AAGAAAAAAAAAAAG
1 AA-AAAAAAAAAAAG
* *
6150 AAAAACAAAACAAAT
1 AAAAA-AAAAAAAAG
6165 AAAAAAAA
1 AAAAAAAA
6173 TAGGTTAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 6 0.18
15 22 0.65
16 6 0.18
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:6602 original size:13 final size:12
Alignment explanation
Indices: 6580--6610 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
6570 NNNNNNNNNN
6580 AAAAAAAAAAGA
1 AAAAAAAAAAGA
6592 AAAAGAAAAAAGA
1 AAAA-AAAAAAGA
6605 AAAAAA
1 AAAAAA
6611 GTGAATGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:7152 original size:13 final size:12
Alignment explanation
Indices: 7125--7219 Score: 66
Period size: 13 Copynumber: 7.2 Consensus size: 12
7115 TTCAATGAAG
*
7125 AAAAAATAAATAA
1 AAAAAAGAAA-AA
7138 AAAAAAGAAAGAA
1 AAAAAAGAAA-AA
*
7151 AAGAAAGAAAAA
1 AAAAAAGAAAAA
7163 ATAATAAA-AAAGAA
1 A-AA-AAAGAAA-AA
*
7177 AGAAAAGAAAAA
1 AAAAAAGAAAAA
*
7189 AAGGAAAGGAAAAA
1 AA--AAAAGAAAAA
7203 AAAAAAGGAGAAAA
1 AAAAAA-GA-AAAA
7217 AAA
1 AAA
7220 GAAGGAGAGG
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
12 12 0.18
13 30 0.45
14 24 0.36
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:7174 original size:30 final size:28
Alignment explanation
Indices: 7122--7190 Score: 111
Period size: 30 Copynumber: 2.4 Consensus size: 28
7112 GGATTCAATG
7122 AAGAAAAAATAAATAAAAAAAAGAAAGAA
1 AAGAAAAAA-AAATAAAAAAAAGAAAGAA
7151 AAGAAAGAAAAAATAATAAAAAAGAAAGAA
1 AAGAAA-AAAAAATAA-AAAAAAGAAAGAA
7181 AAGAAAAAAA
1 AAGAAAAAAA
7191 GGAAAGGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
29 16 0.42
30 22 0.58
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.06
Consensus pattern (28 bp):
AAGAAAAAAAAATAAAAAAAAGAAAGAA
Found at i:7202 original size:30 final size:30
Alignment explanation
Indices: 7122--7222 Score: 97
Period size: 30 Copynumber: 3.4 Consensus size: 30
7112 GGATTCAATG
7122 AAGAAAAAATA-AATAA-AAAAAAGAAAGAA
1 AAGAAAAAA-AGAATAAGAAAAAAGAAAGAA
*
7151 AAGAAAGAAAA-AATAATAAAAAAGAAAGAA
1 AAGAAA-AAAAGAATAAGAAAAAAGAAAGAA
*
7181 AAGAAAAAAAGGAA-AGGAAAAAA-AAA-AA
1 AAGAAAAAAA-GAATAAGAAAAAAGAAAGAA
*
7209 GGAGAAAAAAAGAA
1 -AAGAAAAAAAGAA
7223 GGAGAGGTTG
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
28 5 0.08
29 28 0.44
30 29 0.45
31 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (30 bp):
AAGAAAAAAAGAATAAGAAAAAAGAAAGAA
Found at i:7216 original size:14 final size:14
Alignment explanation
Indices: 7182--7227 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
7172 AAGAAAGAAA
7182 AGAAAAAAAGGAAAGG
1 AGAAAAAAA--AAAGG
7198 A-AAAAAAAAAAGG
1 AGAAAAAAAAAAGG
*
7211 AGAAAAAAAGAAGG
1 AGAAAAAAAAAAGG
7225 AGA
1 AGA
7228 GGTTGAGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 6 0.21
14 14 0.50
15 7 0.25
16 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAGG
Found at i:8251 original size:50 final size:50
Alignment explanation
Indices: 8133--8301 Score: 153
Period size: 50 Copynumber: 3.4 Consensus size: 50
8123 GTTTGATAGA
* * * * * * * *
8133 GAAAGATTGAGGCCACGACGGCGAATCCGATACCTTAA-AAAAT-TGAAGA
1 GAAAGGTTGAGGCCGCAACGACGAACCCAATACC-TAAGAAAATGTGATGG
* * *
8182 GAAAGGTTGAGGTCACAACGACGAACCTAATACCTAAGAAAATGTGATGG
1 GAAAGGTTGAGGCCGCAACGACGAACCCAATACCTAAGAAAATGTGATGG
* *** * *
8232 GACAGGTTGAGGCCGCAACGGTTAACCCAGTACCTAAGAAGATGTGATGG
1 GAAAGGTTGAGGCCGCAACGACGAACCCAATACCTAAGAAAATGTGATGG
*
8282 GAAAGGTTGAGGCTGCAACG
1 GAAAGGTTGAGGCCGCAACG
8302 GCCATGAAGA
Statistics
Matches: 98, Mismatches: 20, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
48 3 0.03
49 32 0.33
50 63 0.64
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (50 bp):
GAAAGGTTGAGGCCGCAACGACGAACCCAATACCTAAGAAAATGTGATGG
Found at i:8302 original size:50 final size:50
Alignment explanation
Indices: 8182--8572 Score: 267
Period size: 50 Copynumber: 8.1 Consensus size: 50
8172 AAATTGAAGA
* * * * * *
8182 GAAAGGTTGAGGTCACAACGACGAACCTAATACCTAAGAAAATGTGATGG
1 GAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGATGG
* **
8232 GACAGGTTGAGGCCGCAACGGTTAACCCAGTACCTAAGAAGATGTGATGG
1 GAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGATGG
* * *
8282 GAAAGGTTGAGGCTGCAAC-G-G---CC---A--T--GAAGATGTAAAGG
1 GAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGATGG
** * * *
8320 GAAAGGTTGAGATCGCAACGGCTAACCCAATACCTAAGAAGATGTGAAGG
1 GAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGATGG
***
8370 GAAAGGTTGA-GCCGCAACGGCGAACTTGGTACCTAAGAAGATGTGATGG
1 GAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGATGG
* * *
8419 AAAAGGTTGAGGCCGCAACGGCGAACCCAGTACC-ATGAAGA-GATGACAGG
1 GAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATG-TGA-TGG
* * * ** * * *
8469 G-GAGGATTGAGGCTGCAACTGCGAATTC-GATACCTTAAAAAGATGTAAAGG
1 GAAAGG-TTGAGGCCGCAACGGCGAACCCAG-TACC-TAAGAAGATGTGATGG
** * ** * * *
8520 GAAAGGTTGAGGTTGTAACGAAGAACCCGGTACCTAAGAAAATATGATGG
1 GAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGATGG
8570 GAA
1 GAA
8573 GGATTAAAGT
Statistics
Matches: 264, Mismatches: 55, Indels: 44
0.73 0.15 0.12
Matches are distributed among these distances:
38 27 0.10
39 1 0.00
40 1 0.00
42 1 0.00
43 2 0.01
45 2 0.01
46 1 0.00
48 2 0.01
49 54 0.20
50 138 0.52
51 23 0.09
52 11 0.04
53 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.17
Consensus pattern (50 bp):
GAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGATGG
Found at i:8430 original size:137 final size:138
Alignment explanation
Indices: 8182--8440 Score: 376
Period size: 137 Copynumber: 1.9 Consensus size: 138
8172 AAATTGAAGA
* * * *
8182 GAAAGGTTGAGGTCACAACGACGAACCTAATACCTAAGAAAATGTGATGGGACAGGTTGAGGCCG
1 GAAAGGTTGAGATCACAACGACGAACCCAATACCTAAGAAAATGTGAAGGGAAAGGTTGAGGCCG
** * *
8247 CAACGGTTAACCCAGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCTGCAACGGCCATGAAGA
66 CAACGGCGAACCCAGTACCTAAGAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGCCATGAAGA
8312 TGTAAAGG
131 TGTAAAGG
* * * *
8320 GAAAGGTTGAGATCGCAACGGCTAACCCAATACCTAAGAAGATGTGAAGGGAAAGGTTGA-GCCG
1 GAAAGGTTGAGATCACAACGACGAACCCAATACCTAAGAAAATGTGAAGGGAAAGGTTGAGGCCG
***
8384 CAACGGCGAACTTGGTACCTAAGAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGC
66 CAACGGCGAACCCAGTACCTAAGAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGC
8441 GAACCCAGTA
Statistics
Matches: 106, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
137 54 0.51
138 52 0.49
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (138 bp):
GAAAGGTTGAGATCACAACGACGAACCCAATACCTAAGAAAATGTGAAGGGAAAGGTTGAGGCCG
CAACGGCGAACCCAGTACCTAAGAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGCCATGAAGA
TGTAAAGG
Found at i:8479 original size:99 final size:101
Alignment explanation
Indices: 8307--8531 Score: 255
Period size: 99 Copynumber: 2.2 Consensus size: 101
8297 CAACGGCCAT
** *
8307 GAAGATGTAAAGGGAAAGGTTGAGATCGCAACGGCTAACCCAATACCTAAGAAGATGTGAAGGGA
1 GAAGATGTAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTAAGAAGATGTGAAGGGA
*
8372 AAGGTTGA-GCCGCAACGGCGAACTT-GGTACC-TAA
66 AAGGTTGAGGCCGCAACGGCGAA-TTCGATACCTTAA
* * * * *
8406 GAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGCGAACCCAGTACC-ATGAAGA-GATGACAGG
1 GAAGATGTAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTAAGAAGATG-TGA-AGG
* * *
8469 G-GAGGATTGAGGCTGCAACTGCGAATTCGATACCTTAA
64 GAAAGG-TTGAGGCCGCAACGGCGAATTCGATACCTTAA
*
8507 AAAGATGTAAAGGGAAAGGTTGAGG
1 GAAGATGTAAAGGGAAAGGTTGAGG
8532 TTGTAACGAA
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
97 1 0.01
98 12 0.12
99 50 0.48
100 17 0.16
101 24 0.23
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (101 bp):
GAAGATGTAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTAAGAAGATGTGAAGGGA
AAGGTTGAGGCCGCAACGGCGAATTCGATACCTTAA
Found at i:9542 original size:37 final size:37
Alignment explanation
Indices: 9501--9572 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
9491 ATAAAATGGT
* * *
9501 CGTCTTCATGATGAGATATAGAGAAGTGGACCAAATC
1 CGTCTTCATGATGAGACACAGAGAAGTGGAACAAATC
* *
9538 CGTCTTCCTGATGAGACACGGAGAAGTGGAACAAA
1 CGTCTTCATGATGAGACACAGAGAAGTGGAACAAA
9573 ACAAGTGATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (37 bp):
CGTCTTCATGATGAGACACAGAGAAGTGGAACAAATC
Found at i:9636 original size:209 final size:208
Alignment explanation
Indices: 9109--9771 Score: 947
Period size: 209 Copynumber: 3.2 Consensus size: 208
9099 TGAGACACAA
* * * * * * *
9109 AAGTGAACCAGATCTGTCTTCTTGATAAGACACAAAGAAGTGGATCAAAACAAGTGATGCGGTCA
1 AAGTGGACCAAATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGATCA
* * *
9174 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAAAAAGCTCAATATGAGCGAAATT
66 TCTTCCTGATGAGATACTGAGAAGTAAACCAAATCAATGAAACAAAGCTCAATATGAGCGAAACT
* * * * * *
9239 TCGAACCTCAGCTTCCTGATGAGGTACTAAGAAGCAGGTCGAAGTAATAAAATGATTGTCTTCCT
131 TCGAACCCCAACTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGTCTT-CT
9304 GATGAGATATAGAG
195 GATGAGATATAGAG
* * * * *
9318 -A--GGTCCAAATCCGTCTTCCTGATGAGATAAAGAGAAGTCGATTAAAACAAGTGATGC-AGTC
1 AAGTGGACCAAATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGA-TC
* * * * *
9379 ATCTTCTTGATAAGATACAGAGAAGTATACCAAATTAATGAAACAAAGCTCAATATGAGCGAAAC
65 ATCTTCCTGATGAGATACTGAGAAGTAAACCAAATCAATGAAACAAAGCTCAATATGAGCGAAAC
*
9444 TTCGAACCCCAACTTCCTGATGAGGTACTGAGAAACAGGTCGAAGCAATAAAATGGTCGTCTTCA
130 TTCGAACCCCAACTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGTCTTC-
9509 TGATGAGATATAGAG
194 TGATGAGATATAGAG
* *
9524 AAGTGGACCAAATCCGTCTTCCTGATGAGACACGGAGAAGTGGAACAAAACAAGTGATGCGATCA
1 AAGTGGACCAAATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGATCA
*
9589 TCTTCCTGATGAGATATTGAGAAGTAAACCAAATCAATGAAACAAAGCTCAATATGAGCGAAACT
66 TCTTCCTGATGAGATACTGAGAAGTAAACCAAATCAATGAAACAAAGCTCAATATGAGCGAAACT
* * *
9654 TCGAACCCTAACTTCCTGATGAGGTATTGAGAAGCAGGTCGAAGCAATAAAATGGTCATCTTTCT
131 TCGAACCCCAACTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGTC-TTCT
9719 GATGAGATATAGAG
195 GATGAGATATAGAG
* *
9733 AAGTGGACCAAATCTGTCTTCCTGATGAGATACAGAGAA
1 AAGTGGACCAAATCCGTCTTCCTGATGAGACACAGAGAA
9772 CTAGACCAAA
Statistics
Matches: 401, Mismatches: 46, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
205 1 0.00
206 176 0.44
207 1 0.00
208 1 0.00
209 218 0.54
210 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (208 bp):
AAGTGGACCAAATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGATCA
TCTTCCTGATGAGATACTGAGAAGTAAACCAAATCAATGAAACAAAGCTCAATATGAGCGAAACT
TCGAACCCCAACTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGTCTTCTG
ATGAGATATAGAG
Found at i:9758 original size:37 final size:37
Alignment explanation
Indices: 9712--9813 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
9702 AAAATGGTCA
* *
9712 TCTTTCTGATGAGATATAGAGAAGTGGACCAAATCTG
1 TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCTG
* *
9749 TCTTCCTGATGAGATACAGAGAACTAGACCAAATCTG
1 TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCTG
9786 TCTTCCTGATGAGATACAGAGAAGTGGA
1 TCTTCCTGATGAGATACAGAGAAGTGGA
9814 TTAAAACAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (37 bp):
TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCTG
Found at i:10173 original size:449 final size:452
Alignment explanation
Indices: 9295--10220 Score: 1402
Period size: 449 Copynumber: 2.1 Consensus size: 452
9285 ATAAAATGAT
* * *
9295 TGTCTTCCTGATGAGATATAGAG-AGGTCCAAATCCGTCTTCCTGATGAGATAAAGAGAAGTCGA
1 TGTCTTCCTGATGAGATACAGAGAAAGACCAAATCCGTCTTCCTGATGAGATAAAGAGAAGTCGA
* * *
9359 TTAAAACAAGTGATGCAGTCATCTTCTTGATAAGATACAGAGAAGTATACCAAATTAATGAAACA
66 TTAAAACAAGTGATGCAGTCATCCTCTTGATAAGATACAAAGAAGTATACCAAATCAATGAAACA
9424 AAGCTCAATATGAGCGAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAACAGGTCGAAG
131 AAGCTCAATATGAGCGAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAACAGGTCGAAG
*
9489 CAATAAAATGGTCGTCTTCATGATGAGATATAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGA
196 CAATAAAATGGTCGTCTTCATGATGAGATATAGAGAAGTGGACCAAATCCATCTTCCTGATGAGA
**
9554 CACGGAGAAGTGGAACAAAACAAGTGATGCGATCATCTTCCTGATGAGATATTGAGAAGTAAACC
261 CAC-GAGAAGTGGAACAAAACAAGTGATGCGATCATCTTCCTGATGAGATATAAAGAAGTAAACC
* * *
9619 AAATCAATGAAACAAAGCTCAATATGAGCGAAACTTCGAACCCTAACTTCCTGATGAGGTATTGA
325 AAATCAATGAAACAAAGCTCAATATGAACGAAACTTCGAACCCCAACTTCCTGATGAGGTACTGA
* *
9684 GAAGCAGGTCGAAGCAATAAAATGGTCATCTTTCTGATGAGATATAGAGAAGTGGACCAAATC
390 GAAGCAGGTCGAAACAATAAAATGGTCATCTTTCTGATGAGATACAGAGAAGTGGACCAAATC
* * *
9747 TGTCTTCCTGATGAGATACAGAGAACTAGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTG
1 TGTCTTCCTGATGAGATACAGAGAA--AGACCAAATCCGTCTTCCTGATGAGATAAAGAGAAGTC
* * * *
9812 GATTAAAACAATTGATGCGGTCATCCTCTTGATGATATACAAAGAAGTATACCAAATCAATGAAA
64 GATTAAAACAAGTGATGCAGTCATCCTCTTGATAAGATACAAAGAAGTATACCAAATCAATGAAA
* * *
9877 CAAAGCTCAATATGAGCGAAACTTCG-AGCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGA
129 CAAAGCTCAATATGAGCGAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAACAGGTCGA
* * * *
9941 AGCAATAAAATGGTTGTCTTCTTGATGAGATATAGAGAAGTGGACCAAATTCATC-TCCTTATGA
194 AGCAATAAAATGGTCGTCTTCATGATGAGATATAGAGAAGTGGACCAAATCCATCTTCCTGATGA
* * ** * *
10005 GATA-TAG-A-TGGATTAAAACAAGTGATG-GTGTCATCTTCCTGATGAGAT-TCAAAGAAGTAT
259 GACACGAGAAGTGGAACAAAACAAGTGATGCG-ATCATCTTCCTGATGAGATAT-AAAGAAGTAA
* *
10065 ACCAAATCGATGAAACAAAGCTCAATATGAACGAAACTTTGAACCCCAACTTCCTGATGAGGTAC
322 ACCAAATCAATGAAACAAAGCTCAATATGAACGAAACTTCGAACCCCAACTTCCTGATGAGGTAC
*
10130 TGAGAAGCAGGTCGAAACAATAAAATGGTCGTC-TTCATGATGAGATACAGAGAAGTGGACCAAA
387 TGAGAAGCAGGTCGAAACAATAAAATGGTCATCTTTC-TGATGAGATACAGAGAAGTGGACCAAA
10194 TC
451 TC
10196 TGTCTTCCTGATGAGATACAGAGAA
1 TGTCTTCCTGATGAGATACAGAGAA
10221 GTGGTTTAAA
Statistics
Matches: 431, Mismatches: 37, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
448 5 0.01
449 186 0.43
450 1 0.00
451 2 0.00
452 22 0.05
453 12 0.03
454 86 0.20
455 117 0.27
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (452 bp):
TGTCTTCCTGATGAGATACAGAGAAAGACCAAATCCGTCTTCCTGATGAGATAAAGAGAAGTCGA
TTAAAACAAGTGATGCAGTCATCCTCTTGATAAGATACAAAGAAGTATACCAAATCAATGAAACA
AAGCTCAATATGAGCGAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAACAGGTCGAAG
CAATAAAATGGTCGTCTTCATGATGAGATATAGAGAAGTGGACCAAATCCATCTTCCTGATGAGA
CACGAGAAGTGGAACAAAACAAGTGATGCGATCATCTTCCTGATGAGATATAAAGAAGTAAACCA
AATCAATGAAACAAAGCTCAATATGAACGAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAG
AAGCAGGTCGAAACAATAAAATGGTCATCTTTCTGATGAGATACAGAGAAGTGGACCAAATC
Found at i:10320 original size:209 final size:209
Alignment explanation
Indices: 9748--10431 Score: 990
Period size: 209 Copynumber: 3.3 Consensus size: 209
9738 GACCAAATCT
* *
9748 GTCTTCCTGATGAGATACAGAGAACTAGACCAAA-TCTGTCTTCCTGATGAGATACAGAGAAGTG
1 GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATTC-GTCTTCCTGATGAGATACAGAGAAGTG
* * * * *
9812 GATTAAAACAATTGATGCGGTCATCCTCTTGATGATATACAAAGAAGTATACCAAATCAATGAAA
65 GATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACAAAGAAGTATACCAAATCAATGAAA
*
9877 CAAAGCTCAATATGAGCGAAACTTCG-AGCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGA
130 CAAAGCTCAATATGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGA
*
9941 AGCAATAAAATGGTT
195 AGCAATAAAATGGTC
* * * * *
9956 GTCTTCTTGATGAGATATAGAGAAGTGGACCAAATTCATC-TCCTTATGAGAT--ATAG-A-TGG
1 GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGG
** * *
10016 ATTAAAACAAGTGATGGTGTCATCTTCCTGATGAGATTCAAAGAAGTATACCAAATCGATGAAAC
66 ATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACAAAGAAGTATACCAAATCAATGAAAC
* * *
10081 AAAGCTCAATATGAACGAAACTTTGAACCCCAACTTCCTGATGAGGTACTGAGAAGCAGGTCGAA
131 AAAGCTCAATATGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAA
*
10146 ACAATAAAATGGTC
196 GCAATAAAATGGTC
*
10160 GTCTTCATGATGAGATACAGAGAAGTGGACCAAA-TCTGTCTTCCTGATGAGATACAGAGAAGTG
1 GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATTC-GTCTTCCTGATGAGATACAGAGAAGTG
* * *
10224 GTTTAAAACAAGTGATACAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAA
65 GATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACAAAGAAGTATACCAAATCAATGAAA
* *
10289 CAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGA
130 CAAAGCTCAATATGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGA
* *
10354 AGCAATAATATGATC
195 AGCAATAAAATGGTC
* *
10369 AG-CTTCCTGATGAGATATAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAAAAGT
1 -GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGT
10432 ATACCTTATC
Statistics
Matches: 422, Mismatches: 44, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
203 85 0.20
204 84 0.20
205 14 0.03
207 14 0.03
208 33 0.08
209 189 0.45
210 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (209 bp):
GTCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGG
ATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACAAAGAAGTATACCAAATCAATGAAAC
AAAGCTCAATATGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAA
GCAATAAAATGGTC
Found at i:10630 original size:658 final size:659
Alignment explanation
Indices: 9177--10429 Score: 1619
Period size: 658 Copynumber: 1.9 Consensus size: 659
9167 GCGGTCATCT
** * * **
9177 TCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAA-AAAGCTCAATATGAGCGAAATTTC
1 TCCTGATGAGATACAAAGAAGTAGACCAAAGCAAT-AAAACAAAGCTCAATATGAGAGAAACGTC
* * * * ** * **
9241 GAACCTCAGCTTCCTGATGAGGTACTA-AGAAGCAGGTCGAAGTAATAAAATGATTGTCTTCCTG
65 G-ACCCCAGCTTCCTGATGAGATAC-AGAGAAGCAGGACAAAACAAT-AAATGGTCATCTTCCTG
* *
9305 ATGAGATATAGAG-A--GGTCCAAATCCGTCTTCCTGATGAGATAAAGAGAAGTCGATTAAAACA
127 ATGAGATATAGAGAAGTGGACCAAATCCATCTTCCTGATGAGAT-AAGAGAAGTCGATTAAAACA
* * *
9367 AGTGATGCAGTCATCTTCTTGATAAGATACAGAGAAGTATACCAAATTAATGAAACAAAGCTCAA
191 AGTGATGCAGTCATCTTCCTGATAAGATACAAAGAAGTATACCAAATCAATGAAACAAAGCTCAA
* *
9432 TATGAGCGAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAACAGGTCGAAGCAATAAAA
256 TATGAACGAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAACAGGTCGAAACAATAAAA
* *
9497 TGGTCGTCTTCATGATGAGATATAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGACACGGAGA
321 TGGTCGTCTTCATGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGACACAGAGA
* **
9562 AGTGGAACAAAACAAGTGATGCGATCATCTTCCTGATGAGATATTGAGAAGTAAACCAAATCAAT
386 AGTGGAACAAAACAAGTGATACGATCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAAT
* * *
9627 GAAACAAAGCTCAATATGAGCGAAACTTCGAACCCTAACTTCCTGATGAGGTATTGAGAAGCAGG
451 GAAACAAAGCTCAATATGAGCAAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAGCAGG
* * *
9692 TCGAAGCAATAAAATGGTCATCTTTCTGATGAGATATAGAGAAGTGGACCAAATCTGTCTTCCTG
516 TCGAAGCAATAAAATGATCAGCTTCCTGATGAGATATAGAGAAGTGGACCAAATCTGTCTTCCTG
* ** ** * *
9757 ATGAGATACAGAGAACTAGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACA
581 ATGAGATACAGAAAACTAGACCAAATCAATCTAAC-GAAGAGATACAGAGAAGTGGAGTAAAAC-
* ** *
9822 ATTGATGCGGTCATCC
644 ATTGATACCCTCAGCC
* * * * * * *
9838 TCTTGATGATATACAAAGAAGTATACCAAATCAATGAAACAAAGCTCAATATGAGCGAAACTTCG
1 TCCTGATGAGATACAAAGAAGTAGACCAAAGCAATAAAACAAAGCTCAATATGAGAGAAACGTCG
* * * * * * ** *
9903 AGCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTTGTCTTCTTGATG
66 ACCCCAGCTTCCTGATGAGATACAGAGAAGCAGGACAAAACAAT-AAATGGTCATCTTCCTGATG
* * * *
9968 AGATATAGAGAAGTGGACCAAATTCATC-TCCTTATGAGAT-ATAG-A-TGGATTAAAACAAGTG
130 AGATATAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATAAGAGAAGTCGATTAAAACAAGTG
** * * *
10029 ATGGTGTCATCTTCCTGATGAGATTCAAAGAAGTATACCAAATCGATGAAACAAAGCTCAATATG
195 ATGCAGTCATCTTCCTGATAAGATACAAAGAAGTATACCAAATCAATGAAACAAAGCTCAATATG
* *
10094 AACGAAACTTTGAACCCCAACTTCCTGATGAGGTACTGAGAAGCAGGTCGAAACAATAAAATGGT
260 AACGAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAACAGGTCGAAACAATAAAATGGT
* *
10159 CGTCTTCATGATGAGATACAGAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTG
325 CGTCTTCATGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGACACAGAGAAGTG
*** *
10224 GTTTAAAACAAGTGATAC-AGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAA
390 GAACAAAACAAGTGATACGA-TCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAA
* *
10288 ACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCG
454 ACAAAGCTCAATATGAGCAAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAGCAGGTCG
*
10353 AAGCAATAATATGATCAGCTTCCTGATGAGATATAGAGAAGTGGACCAAAT-TCGTCTTCCTGAT
519 AAGCAATAAAATGATCAGCTTCCTGATGAGATATAGAGAAGTGGACCAAATCT-GTCTTCCTGAT
10417 GAGATACAGAAAA
583 GAGATACAGAAAA
10430 GTATACCTTA
Statistics
Matches: 533, Mismatches: 52, Indels: 17
0.89 0.09 0.03
Matches are distributed among these distances:
657 2 0.00
658 379 0.71
659 1 0.00
660 74 0.14
661 55 0.10
662 11 0.02
663 11 0.02
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (659 bp):
TCCTGATGAGATACAAAGAAGTAGACCAAAGCAATAAAACAAAGCTCAATATGAGAGAAACGTCG
ACCCCAGCTTCCTGATGAGATACAGAGAAGCAGGACAAAACAATAAATGGTCATCTTCCTGATGA
GATATAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATAAGAGAAGTCGATTAAAACAAGTGA
TGCAGTCATCTTCCTGATAAGATACAAAGAAGTATACCAAATCAATGAAACAAAGCTCAATATGA
ACGAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAACAGGTCGAAACAATAAAATGGTC
GTCTTCATGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGACACAGAGAAGTGG
AACAAAACAAGTGATACGATCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAAC
AAAGCTCAATATGAGCAAAACTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAGCAGGTCGAA
GCAATAAAATGATCAGCTTCCTGATGAGATATAGAGAAGTGGACCAAATCTGTCTTCCTGATGAG
ATACAGAAAACTAGACCAAATCAATCTAACGAAGAGATACAGAGAAGTGGAGTAAAACATTGATA
CCCTCAGCC
Found at i:11553 original size:20 final size:20
Alignment explanation
Indices: 11529--11568 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11519 TATAATTAAT
11529 AATATAT-A-ATATTTATTA
1 AATATATAATATATTTATTA
*
11547 AATATATAATATATTTTTTA
1 AATATATAATATATTTATTA
11567 AA
1 AA
11569 AAAATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATATAATATATTTATTA
Found at i:12770 original size:30 final size:29
Alignment explanation
Indices: 12714--12808 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 29
12704 CTAACTATTT
*
12714 AAAAATCACGTTTTTACACC-TAAACTTCTA
1 AAAAATCAC-TTTTTAC-CCTTGAACTTCTA
* *
12744 AAAAATCACATTTTTACCCTTGAACTTTTC
1 AAAAATCAC-TTTTTACCCTTGAACTTCTA
* * *
12774 CAAAATTACTGTTTTACCCTTTGAACATCTA
1 AAAAATCACT-TTTTACCC-TTGAACTTCTA
12805 AAAA
1 AAAA
12809 TTACCATTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
29 3 0.06
30 38 0.73
31 11 0.21
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAAATCACTTTTTACCCTTGAACTTCTA
Found at i:12894 original size:29 final size:29
Alignment explanation
Indices: 12775--13281 Score: 238
Period size: 29 Copynumber: 17.5 Consensus size: 29
12765 GAACTTTTCC
** * *
12775 AAAATTACTGTTTTACCCTTTGAACATCTA
1 AAAATTACCATTTTACCC-TCGAACATCCA
**
12805 AAAATTACCATTTTACCCTCGAATGTCCA
1 AAAATTACCATTTTACCCTCGAACATCCA
* * * * *
12834 ATAATTA-TATTTTTGACCC-CAAACTTTTCA
1 AAAATTACCA-TTTT-ACCCTCGAAC-ATCCA
*
12864 AAAGTTACCATTTTACCCTCGAACATCCA
1 AAAATTACCATTTTACCCTCGAACATCCA
* **
12893 AAAATTACCATTTTACCCTCTAGTATCCA
1 AAAATTACCATTTTACCCTCGAACATCCA
** * ** *
12922 AAAATTACGGTTTTACCCTCAAATTTCAA
1 AAAATTACCATTTTACCCTCGAACATCCA
*** *
12951 AAAATTA-CATTTTTTTCTCGAACTTTCCA
1 AAAATTACCATTTTACCCTCGAAC-ATCCA
*
12980 AAAATTACAATTTTACCC-CTGAACATCCA
1 AAAATTACCATTTTACCCTC-GAACATCCA
* * **
13009 AAAATTACCAATTTACCCT-TAAGTGTCCA
1 AAAATTACCATTTTACCCTCGAA-CATCCA
** *
13038 AAAA-TATCCATTTTACCC-C-AGATGTTCA
1 AAAATTA-CCATTTTACCCTCGA-ACATCCA
* *
13066 AAAATTA-CATTTTTGATCCT-GAACTTTCCA
1 AAAATTACCA-TTTT-ACCCTCGAAC-ATCCA
* **
13096 AAAATTACCATTTTACCCCCGAATGTCCA
1 AAAATTACCATTTTACCCTCGAACATCCA
* *
13125 AAAATTTCCA-TTTACCC-CTAA-ATTTCCA
1 AAAATTACCATTTTACCCTCGAACA--TCCA
* *
13153 AAAATTA-CATTTTTAACCCT-AAACTTTCCA
1 AAAATTACCA-TTTT-ACCCTCGAAC-ATCCA
* * *
13183 AAAAGTACCATTTTATCC-CAAACATCCA
1 AAAATTACCATTTTACCCTCGAACATCCA
* ***
13211 AAAATTATCATTTTACCC-CGAGTGTCCA
1 AAAATTACCATTTTACCCTCGAACATCCA
* * * * *
13239 AAAATTATCGTTTTACCCTCAAACGTCTA
1 AAAATTACCATTTTACCCTCGAACATCCA
* *
13268 AAATTTACCGTTTT
1 AAAATTACCATTTT
13282 GCCACCTAGC
Statistics
Matches: 366, Mismatches: 79, Indels: 65
0.72 0.15 0.13
Matches are distributed among these distances:
27 7 0.02
28 87 0.24
29 183 0.50
30 84 0.23
31 5 0.01
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGAACATCCA
Found at i:12922 original size:88 final size:87
Alignment explanation
Indices: 12744--13016 Score: 250
Period size: 88 Copynumber: 3.1 Consensus size: 87
12734 TAAACTTCTA
* * ** ** * *
12744 AAAAATCACATTTTTACCCTTGAACTTTTCCAAAATTACTGTTTTACCCTTTGAACATCTAAAAA
1 AAAAATTACAGTTTTACCCTCAAACTTTT-CAAAATTACCATTTTACCC-TCGAACATCCAAAAA
*
12809 TTACCATTTTACCCTCGAATGTCC
64 TTACCATTTTACCCTCGAATATCC
* * *
12833 AATAATTATATTTTTGACCC-CAAACTTTTCAAAAGTTACCATTTTACCCTCGAACATCCAAAAA
1 AAAAATTACAGTTTT-ACCCTCAAACTTTTCAAAA-TTACCATTTTACCCTCGAACATCCAAAAA
* *
12897 TTACCATTTTACCCTCTAGTATCC
64 TTACCATTTTACCCTCGAATATCC
* *** *
12921 AAAAATTACGGTTTTACCCTCAAA--TTTCAAAAAATTA-CATTTTTTTCTCGAACTTTCCAAAA
1 AAAAATTACAGTTTTACCCTCAAACTTTTC--AAAATTACCATTTTACCCTCGAAC-ATCCAAAA
* *
12983 ATTACAATTTTACCC-CTGAACATCC
63 ATTACCATTTTACCCTC-GAATATCC
13008 AAAAATTAC
1 AAAAATTAC
13017 CAATTTACCC
Statistics
Matches: 153, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
86 18 0.12
87 42 0.27
88 58 0.38
89 31 0.20
90 4 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (87 bp):
AAAAATTACAGTTTTACCCTCAAACTTTTCAAAATTACCATTTTACCCTCGAACATCCAAAAATT
ACCATTTTACCCTCGAATATCC
Found at i:13096 original size:87 final size:84
Alignment explanation
Indices: 12978--13245 Score: 276
Period size: 87 Copynumber: 3.1 Consensus size: 84
12968 TCGAACTTTC
* * * *
12978 CAAAAATTACAATTTTACCCCTGAAC-ATCCAAAAATTACCAATTTACCCTTAAGTGTCCAAAAA
1 CAAAAATTACATTTTTA-CCCTGAACTTTCCAAAAATTACCATTTTACCC-CAA-TGTCCAAAAA
13042 TATCCATTTTACCCCAGATGTT
63 TATCCATTTTACCCCAGATGTT
*
13064 CAAAAATTACATTTTTGATCCTGAACTTTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAA
1 CAAAAATTACATTTTT-ACCCTGAACTTTCCAAAAATTACCATTTTA-CCCC-AATGTCCAAAAA
* *
13129 TTTCCA-TTTACCCCTAAAT-TT
63 TATCCATTTTACCCC-AGATGTT
* * * **
13150 CCAAAAATTACATTTTTAACCCTAAACTTTCCAAAAAGTACCATTTTATCCCAAACATCCAAAAA
1 -CAAAAATTACATTTTT-ACCCTGAACTTTCCAAAAATTACCATTTTA-CCCCAATGTCCAAAAA
*
13215 TTAT-CATTTTACCCC-GAGTGTC
63 -TATCCATTTTACCCCAGA-TGTT
13237 CAAAAATTA
1 CAAAAATTA
13246 TCGTTTTACC
Statistics
Matches: 154, Mismatches: 18, Indels: 20
0.80 0.09 0.10
Matches are distributed among these distances:
85 1 0.01
86 54 0.35
87 94 0.61
88 5 0.03
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (84 bp):
CAAAAATTACATTTTTACCCTGAACTTTCCAAAAATTACCATTTTACCCCAATGTCCAAAAATAT
CCATTTTACCCCAGATGTT
Found at i:18259 original size:29 final size:29
Alignment explanation
Indices: 18227--18319 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
18217 AGATTTCGGA
18227 TAAAAAATGGAGTTTTAGACATTCGGGGG
1 TAAAAAATGGAGTTTTAGACATTCGGGGG
* * *** *
18256 T--AAAATGGTGAATTTTGGA-ATGTTTTGGA
1 TAAAAAAT-G-GAGTTTTAGACAT-TCGGGGG
18285 TAAAAAATGGAGTTTTTAGACATTCGGGGG
1 TAAAAAATGGAG-TTTTAGACATTCGGGGG
18315 TAAAA
1 TAAAA
18320 TGGTAAATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 13
0.64 0.17 0.19
Matches are distributed among these distances:
27 5 0.11
28 3 0.07
29 15 0.33
30 15 0.33
31 7 0.16
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (29 bp):
TAAAAAATGGAGTTTTAGACATTCGGGGG
Found at i:18298 original size:235 final size:235
Alignment explanation
Indices: 17959--18449 Score: 684
Period size: 235 Copynumber: 2.1 Consensus size: 235
17949 GGACATTCGA
* ** *
17959 GGGTAAAATGGTAATTTTTTGAAGGTTTCGGATCGAAAATGAAGTTTTTAGAGATTCGGGGGTAA
1 GGGTAAAATGGTAA-TTTTTGAAGATTTCGGATAAAAAATGAAGTTTTTAGACATTCGGGGGTAA
18024 AATGGTAAATTTTGGAAGGTTGGGAATAAAAAATGGAGTTTTTAGACATCCGGGGGTAAAATGGT
65 AATGGTAAATTTTGGAAGGTTGGGAATAAAAAATGGAGTTTTTAGACATCCGGGGGTAAAATGGT
* ** * *
18089 AATTTTTGGAAGGTTTCGGATCGAAAATAAAGTTTTTAGACATTCGAGGGTAAAATGGTAAATTT
130 AAATTTTGGAAGGTTTCGGATAAAAAATAAAGTTTTTAGACATTCAAAGGTAAAATGGT-AATTT
* *
18154 T-GGAAGGTTCGAGATAAAAAATGAAGTTCGTAGACGATC-GG
194 TCGAAAGGTTCGAGATAAAAAATGAAGTTCGTAAAC-ATCTGG
* *
18195 GGGTAAAAGGGTAATTTTTGAAAGATTTCGGATAAAAAATGGAG-TTTTAGACATTCGGGGGTAA
1 GGGTAAAATGGTAATTTTTG-AAGATTTCGGATAAAAAATGAAGTTTTTAGACATTCGGGGGTAA
* * * *
18259 AATGGTGAATTTTGGAATGTTTTGG-ATAAAAAATGGAGTTTTTAGACATTCGGGGGTAAAATGG
65 AATGGTAAATTTTGGAA-GGTTGGGAATAAAAAATGGAGTTTTTAGACATCCGGGGGTAAAATGG
** *
18323 TAAATTTTGGAAGGTTTCGGATAAAAAATGGAGTTTTTAGACATTCAAAGGTAAAATTGTAATTT
129 TAAATTTTGGAAGGTTTCGGATAAAAAATAAAGTTTTTAGACATTCAAAGGTAAAATGGTAATTT
* * **
18388 TCGAAAGGTTCGAGATCAAAAATGGAGTTTTTAAACATCTGG
194 TCGAAAGGTTCGAGATAAAAAATGAAGTTCGTAAACATCTGG
*
18430 GGGTAAAATGGTAAATTTTG
1 GGGTAAAATGGTAATTTTTG
18450 GAAGTTTTGG
Statistics
Matches: 225, Mismatches: 26, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
234 9 0.04
235 179 0.80
236 37 0.16
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (235 bp):
GGGTAAAATGGTAATTTTTGAAGATTTCGGATAAAAAATGAAGTTTTTAGACATTCGGGGGTAAA
ATGGTAAATTTTGGAAGGTTGGGAATAAAAAATGGAGTTTTTAGACATCCGGGGGTAAAATGGTA
AATTTTGGAAGGTTTCGGATAAAAAATAAAGTTTTTAGACATTCAAAGGTAAAATGGTAATTTTC
GAAAGGTTCGAGATAAAAAATGAAGTTCGTAAACATCTGG
Found at i:18330 original size:29 final size:29
Alignment explanation
Indices: 18239--18330 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
18229 AAAAATGGAG
*
18239 TTTTAGACATTCGGGGGTAAAATGGTGAA
1 TTTTAGACATTCGGGGGTAAAATGGTAAA
* *** * **
18268 TTTTGGA-ATGTTTTGGATAAAAAATGG-AGT
1 TTTTAGACAT-TCGGGGGT--AAAATGGTAAA
18298 TTTTAGACATTCGGGGGTAAAATGGTAAA
1 TTTTAGACATTCGGGGGTAAAATGGTAAA
18327 TTTT
1 TTTT
18331 GGAAGGTTTC
Statistics
Matches: 43, Mismatches: 15, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
28 9 0.21
29 15 0.35
30 10 0.23
31 9 0.21
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (29 bp):
TTTTAGACATTCGGGGGTAAAATGGTAAA
Found at i:18467 original size:59 final size:59
Alignment explanation
Indices: 17934--18453 Score: 622
Period size: 59 Copynumber: 8.8 Consensus size: 59
17924 GCTCAAGGTC
* * * * * * *
17934 AAAAATGAATTTTTTGGACATTCGAGGGTAAAATGGTAATTTTTTGAAGGTTTCGGATC
1 AAAAATGGAGTTTTTAGACATTCGGGGGTAAAATGGTAAATTTTGGAAGGTTTCGGATA
* * * *
17993 GAAAATGAAGTTTTTAGAGATTCGGGGGTAAAATGGTAAATTTTGGAAGG-TTGGGAATA
1 AAAAATGGAGTTTTTAGACATTCGGGGGTAAAATGGTAAATTTTGGAAGGTTTCGG-ATA
* * *
18052 AAAAATGGAGTTTTTAGACATCCGGGGGTAAAATGGTAATTTTTGGAAGGTTTCGGATC
1 AAAAATGGAGTTTTTAGACATTCGGGGGTAAAATGGTAAATTTTGGAAGGTTTCGGATA
* ** *
18111 GAAAATAAAGTTTTTAGACATTCGAGGGTAAAATGGTAAATTTTGGAAGG-TTCGAGATA
1 AAAAATGGAGTTTTTAGACATTCGGGGGTAAAATGGTAAATTTTGGAAGGTTTCG-GATA
* ** * * * *
18170 AAAAATGAAGTTCGTAGACGA-TCGGGGGTAAAAGGGTAATTTTTGAAAGATTTCGGATA
1 AAAAATGGAGTTTTTAGAC-ATTCGGGGGTAAAATGGTAAATTTTGGAAGGTTTCGGATA
* * *
18229 AAAAATGGAG-TTTTAGACATTCGGGGGTAAAATGGTGAATTTTGGAATGTTTTGGATA
1 AAAAATGGAGTTTTTAGACATTCGGGGGTAAAATGGTAAATTTTGGAAGGTTTCGGATA
18287 AAAAATGGAGTTTTTAGACATTCGGGGGTAAAATGGTAAATTTTGGAAGGTTTCGGATA
1 AAAAATGGAGTTTTTAGACATTCGGGGGTAAAATGGTAAATTTTGGAAGGTTTCGGATA
*** * * *
18346 AAAAATGGAGTTTTTAGACATTCAAAGGTAAAATTGT-AATTTTCGAAAGG-TTCGAGATC
1 AAAAATGGAGTTTTTAGACATTCGGGGGTAAAATGGTAAATTTT-GGAAGGTTTCG-GATA
*
18405 AAAAATGGAGTTTTTAAACA-TCTGGGGGTAAAATGGTAAATTTTGGAAG
1 AAAAATGGAGTTTTTAGACATTC-GGGGGTAAAATGGTAAATTTTGGAAG
18454 TTTTGGGGTC
Statistics
Matches: 393, Mismatches: 57, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
57 1 0.00
58 67 0.17
59 310 0.79
60 15 0.04
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (59 bp):
AAAAATGGAGTTTTTAGACATTCGGGGGTAAAATGGTAAATTTTGGAAGGTTTCGGATA
Found at i:18490 original size:29 final size:29
Alignment explanation
Indices: 18428--18495 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
18418 TTAAACATCT
*
18428 GGGGGT-AAAATGGTAAATTTTGGAAGTTT
1 GGGGGTCAAAATGG-AAATTTTGGAAGTTC
*
18457 TGGGGTCAAAATGG-AATTTTGGAAAGTTC
1 GGGGGTCAAAATGGAAATTTTGG-AAGTTC
18486 GGGGG-CAAAA
1 GGGGGTCAAAA
18496 ATAATATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 13 0.38
29 14 0.41
30 7 0.21
ACGTcount: A:0.32, C:0.04, G:0.35, T:0.28
Consensus pattern (29 bp):
GGGGGTCAAAATGGAAATTTTGGAAGTTC
Found at i:18496 original size:29 final size:29
Alignment explanation
Indices: 18434--18603 Score: 98
Period size: 30 Copynumber: 5.7 Consensus size: 29
18424 ATCTGGGGGT
*
18434 AAAATGGTAAATTTTGG-AAGTTTTGGGGTC-
1 AAAATGG--AATTTTGGAAAG-TTCGGGGTCA
*
18464 AAAATGGAATTTTGGAAAGTTCGGGGGCA
1 AAAATGGAATTTTGGAAAGTTCGGGGTCA
* * **
18493 AAAAT-AATATTTATGAAAAGATT-AAGGTCA
1 AAAATGGA-ATTT-TGGAAAG-TTCGGGGTCA
* *
18523 AAAATGGTATTTTGGAAAGTTTGAGGGT-A
1 AAAATGGAATTTTGGAAAGTTCG-GGGTCA
* * ** *
18552 AAAATGTAATTTTTGAAAAAATCAGGGTCA
1 AAAATGGAA-TTTTGGAAAGTTCGGGGTCA
*
18582 AAAATGAAATTTTGGAGAAGTT
1 AAAATGGAATTTTGGA-AAGTT
18604 TGAGGGACAA
Statistics
Matches: 106, Mismatches: 23, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
28 18 0.17
29 36 0.34
30 50 0.47
31 2 0.02
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.31
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAAGTTCGGGGTCA
Found at i:18535 original size:59 final size:57
Alignment explanation
Indices: 18460--18626 Score: 183
Period size: 59 Copynumber: 2.8 Consensus size: 57
18450 GAAGTTTTGG
* * *
18460 GGTC-AAAATGGAATTTTGGAAAGTTCGGGGGCAAAAATAATATTTATGAAAAGATTAA
1 GGTCAAAAATGGAATTTTGGAAAGTTTGGGGGCAAAAATAAT-TTT-TGAAAAAATCAA
* * * *
18518 GGTCAAAAATGGTATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGAAAAAATCAG
1 GGTCAAAAATGGAATTTTGGAAAGTTTGGGGGCAAAAA--TAATTTTTGAAAAAATCAA
* *
18577 GGTCAAAAATGAAATTTTGGAGAAGTTTGAGGGACAAAATATAATTTTTG
1 GGTCAAAAATGGAATTTTGGA-AAGTTTG-GGGGCAAAA-ATAATTTTTG
18627 GACAGTTTAG
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
58 4 0.04
59 57 0.63
60 19 0.21
61 10 0.11
62 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (57 bp):
GGTCAAAAATGGAATTTTGGAAAGTTTGGGGGCAAAAATAATTTTTGAAAAAATCAA
Found at i:18616 original size:30 final size:29
Alignment explanation
Indices: 18442--18640 Score: 90
Period size: 30 Copynumber: 6.8 Consensus size: 29
18432 GTAAAATGGT
*
18442 AAATTTTGG-AAGTTTTG-GGGTCAAAATG
1 AAATTTTGGAAAG-TTTGAGGGACAAAATG
* * *
18470 GAATTTTGGAAAGTTCG-GGGGCAAAAAT-
1 AAATTTTGGAAAGTTTGAGGGAC-AAAATG
* * * *
18498 AATATTTATGAAAAGATT-AAGGTCAAAAATG
1 AA-ATTT-TGGAAAGTTTGAGGGAC-AAAATG
**
18529 GTATTTTGGAAAGTTTGAGGGTA-AAAATG
1 AAATTTTGGAAAGTTTGAGGG-ACAAAATG
* * *** * *
18558 TAATTTTTGAAAAAATCAGGGTCAAAAATG
1 AAATTTTGGAAAGTTTGAGGGAC-AAAATG
18588 AAATTTTGGAGAAGTTTGAGGGACAAAAT-
1 AAATTTTGGA-AAGTTTGAGGGACAAAATG
*
18617 ATAATTTTTGGACAGTTT-AGGGAC
1 A-AA-TTTTGGAAAGTTTGAGGGAC
18641 CTTGAGGGTA
Statistics
Matches: 127, Mismatches: 31, Indels: 25
0.69 0.17 0.14
Matches are distributed among these distances:
28 16 0.13
29 47 0.37
30 49 0.39
31 15 0.12
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (29 bp):
AAATTTTGGAAAGTTTGAGGGACAAAATG
Found at i:19571 original size:3 final size:3
Alignment explanation
Indices: 19556--19606 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
19546 TTAATACTAT
*
19556 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19604 TTA
1 TTA
19607 ATGTTGTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:21108 original size:158 final size:158
Alignment explanation
Indices: 20909--21249 Score: 501
Period size: 158 Copynumber: 2.2 Consensus size: 158
20899 TTTCGACTTG
* * *
20909 CTTCTCAATATCTCATCAGGAAGTTGAGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATT
1 CTTCTCAGTATCTCATCAGGAAGCTGAGGGTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATT
* * *
20974 TGGTCTTCTTCTTAGTATCTCATCAGGAAGAT-GACA-GTATTACTTGTTTCAATCTGCTTCTCT
66 TGGTCTTCTTCTCAGTATCTCATCAGGAAGATGGACATGTAGT--TTGTTTCAATCCGCTTCTCT
* ***
21037 TTATCTCATTTGGAAGATGAATT-TGGTCCA
129 ATATCTCATCAAGAAGATGAATTCT-GTCCA
*
21067 CTTCTCAGTATCTCATCAGGAAGCTGGGGGTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATT
1 CTTCTCAGTATCTCATCAGGAAGCTGAGGGTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATT
* *
21132 TGGTCTTCTTCTCAGTATCTCATCAGGAAGATGGCCATGTCGTTTGTTTCAATCCGCTTCTCTAT
66 TGGTCTTCTTCTCAGTATCTCATCAGGAAGATGGACATGTAGTTTGTTTCAATCCGCTTCTCTAT
21197 ATCTCATCAAGAAGATGAATTCTGTCCA
131 ATCTCATCAAGAAGATGAATTCTGTCCA
21225 CTTCTC-GATATCTCATCAGGAAGCT
1 CTTCTCAG-TATCTCATCAGGAAGCT
21250 AACCATTTTA
Statistics
Matches: 166, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
157 1 0.01
158 158 0.95
159 4 0.02
160 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (158 bp):
CTTCTCAGTATCTCATCAGGAAGCTGAGGGTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATT
TGGTCTTCTTCTCAGTATCTCATCAGGAAGATGGACATGTAGTTTGTTTCAATCCGCTTCTCTAT
ATCTCATCAAGAAGATGAATTCTGTCCA
Found at i:22074 original size:50 final size:49
Alignment explanation
Indices: 22020--22346 Score: 208
Period size: 50 Copynumber: 6.5 Consensus size: 49
22010 GCTGTTACGG
*
22020 CTTAAATTTTTCCCTTCTTGTCTTCTGAGGTACATGGTCTGCCGTTGCGA
1 CTTAAATCTTTCCCTTCTTGTCTTCTGAGGTAC-TGGTCTGCCGTTGCGA
* * * * *
22070 CTTAAACCTTT-CCTTTTTGTATTTTGGTGGTACTGGATCTGCCGTTGCGA
1 CTTAAATCTTTCCCTTCTTGTCTTCT-GAGGTACTGG-TCTGCCGTTGCGA
* * * * *
22120 TCTTAGATCTTTCCCTTCATGTCTTC--ATGGTACTAGAT-TCGTCGTTGTTGA
1 -CTTAAATCTTTCCCTTCTTGTCTTCTGA-GGTACT-GGTCT-GCCGTTG-CGA
* * *
22171 -TTAAATCTTTCCATTCGTGTCTTCTGAGGTACACGGTCTTGCCGTTGCGA
1 CTTAAATCTTTCCCTTCTTGTCTTCTGAGGTAC-TGGTC-TGCCGTTGCGA
*
22221 CTTAGA-CGTTTCCCTT-TTGTATCTTTCT--GGTACTGGAT-TCGCCGTTGCTG-
1 CTTAAATC-TTTCCCTTCTTG--TC-TTCTGAGGTACTGG-TCT-GCCGTTGC-GA
* * * *
22271 CTTAAATCTTTCCATTCGTGTCTTCTGAGGTACACGGTCTTGCCGTTGTGA
1 CTTAAATCTTTCCCTTCTTGTCTTCTGAGGTAC-TGGTC-TGCCGTTGCGA
* * *
22322 CTTAGACCTTTCCCTTCATGTCTTC
1 CTTAAATCTTTCCCTTCTTGTCTTC
22347 ATGGTACTGA
Statistics
Matches: 212, Mismatches: 36, Indels: 57
0.70 0.12 0.19
Matches are distributed among these distances:
48 4 0.02
49 39 0.18
50 82 0.39
51 70 0.33
52 13 0.06
53 4 0.02
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (49 bp):
CTTAAATCTTTCCCTTCTTGTCTTCTGAGGTACTGGTCTGCCGTTGCGA
Found at i:22219 original size:101 final size:99
Alignment explanation
Indices: 22109--22354 Score: 361
Period size: 101 Copynumber: 2.4 Consensus size: 99
22099 GTACTGGATC
* *
22109 TGCCGTTGCGATCTTAGATCTTTCCCTTCATGTCTTCATGGTACTAGATTCGTCGTTGTTGATTA
1 TGCCGTTGCGA-CTTAGA-CTTTCCCTTCATGTCTTCATGGTACTAGATTCGCCGTTGCTGATTA
22174 AATCTTTCCATTCGTGTCTTCTGAGGTACACGGTCT
64 AATCTTTCCATTCGTGTCTTCTGAGGTACACGGTCT
* * *
22210 TGCCGTTGCGACTTAGACGTTTCCCTT-TTGTATCTTTC-TGGTACTGGATTCGCCGTTGCTGCT
1 TGCCGTTGCGACTTAGAC-TTTCCCTTCATG--TC-TTCATGGTACTAGATTCGCCGTTGCTGAT
22273 TAAATCTTTCCATTCGTGTCTTCTGAGGTACACGGTCT
62 TAAATCTTTCCATTCGTGTCTTCTGAGGTACACGGTCT
*
22311 TGCCGTTGTGACTTAGACCTTTCCCTTCATGTCTTCATGGTACT
1 TGCCGTTGCGACTTAGA-CTTTCCCTTCATGTCTTCATGGTACT
22355 GAGACCTGTG
Statistics
Matches: 131, Mismatches: 7, Indels: 15
0.86 0.05 0.10
Matches are distributed among these distances:
99 6 0.05
100 23 0.18
101 96 0.73
102 6 0.05
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.41
Consensus pattern (99 bp):
TGCCGTTGCGACTTAGACTTTCCCTTCATGTCTTCATGGTACTAGATTCGCCGTTGCTGATTAAA
TCTTTCCATTCGTGTCTTCTGAGGTACACGGTCT
Found at i:22280 original size:150 final size:149
Alignment explanation
Indices: 22021--22295 Score: 385
Period size: 150 Copynumber: 1.8 Consensus size: 149
22011 CTGTTACGGC
* * * * *
22021 TTAAATTTTTCCCTTCTTGTCTTCTGAGGTACATGGTCTGCCGTTGCGACTTAAACCTTTCCTTT
1 TTAAATCTTTCCATTCGTGTCTTCTGAGGTACACGGTCTGCCGTTGCGACTTAAACCTTTCCCTT
* * *
22086 TTGTATTTTGGTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCATGTCTTCATGGT
66 TTGTATTTTGCTGGTACTGGATCTGCCGTTGCGA-CTTAAATCTTTCCATTCATGTCTTCATGGT
22151 ACTAGATTCGTCGTTGTTGA
130 ACTAGATTCGTCGTTGTTGA
* *
22171 TTAAATCTTTCCATTCGTGTCTTCTGAGGTACACGGTCTTGCCGTTGCGACTTAGACGTTTCCCT
1 TTAAATCTTTCCATTCGTGTCTTCTGAGGTACACGGTC-TGCCGTTGCGACTTAAACCTTTCCCT
*
22236 TTTGTATCTTT-CTGGTACTGGAT-TCGCCGTTGCTG-CTTAAATCTTTCCATTCGTGTCTTC
65 TTTGTAT-TTTGCTGGTACTGGATCT-GCCGTTGC-GACTTAAATCTTTCCATTCATGTCTTC
22296 TGAGGTACAC
Statistics
Matches: 110, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
150 57 0.52
151 49 0.45
152 4 0.04
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (149 bp):
TTAAATCTTTCCATTCGTGTCTTCTGAGGTACACGGTCTGCCGTTGCGACTTAAACCTTTCCCTT
TTGTATTTTGCTGGTACTGGATCTGCCGTTGCGACTTAAATCTTTCCATTCATGTCTTCATGGTA
CTAGATTCGTCGTTGTTGA
Done.