Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold348
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: 1216543
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.31
Warning! 64198 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:970 original size:41 final size:38
Alignment explanation
Indices: 926--1060 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 38
916 GACTTCGAGT
* *
926 CGATGAGACACTGGGTGTCAATTTACTACTTTGGATTAATT
1 CGATGAGACACTGGGTGTCAA-TTA-TACTTCGGATT-ATC
* * * * *
967 CGATGAGGCATTGGGTGCCAATT-TACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTATACTTCGGATTATC
* * *
1004 CGATGAGACACTAGGTGTCAAACTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTC-AATTA-TACTTCGGATTATC
1044 CGATGAGACACTGGGTG
1 CGATGAGACACTGGGTG
1061 CCAAACTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 16 0.21
38 12 0.16
40 29 0.39
41 18 0.24
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATTATACTTCGGATTATC
Found at i:2144 original size:31 final size:31
Alignment explanation
Indices: 2109--2167 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
2099 CATACTTAGT
2109 CATTTTAACAACCATTCATCATCAGATATGC
1 CATTTTAACAACCATTCATCATCAGATATGC
2140 CATTTTAACAACCATTCATCATCAGATA
1 CATTTTAACAACCATTCATCATCAGATA
2168 CTTACATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (31 bp):
CATTTTAACAACCATTCATCATCAGATATGC
Found at i:6220 original size:41 final size:41
Alignment explanation
Indices: 6174--6294 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 41
6164 TTAGTGATAT
* ***
6174 TCAGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG-AGTTTTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTA-TCAGA
* *
6215 TCAGGCTTTATTCCTAGCAGGCTTTATGCTGGTGTATCAGA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCAGA
**
6256 TCAGGCTTTATGCCTAGCAGGCTTCGTGCCGGTGTATCA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCA
6295 TATCTAGATT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
41 68 0.99
42 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGTATCAGA
Found at i:6327 original size:41 final size:41
Alignment explanation
Indices: 6187--6327 Score: 115
Period size: 41 Copynumber: 3.4 Consensus size: 41
6177 GGCTTTGTGC
*** * **
6187 CTAGCAGGCTTTATGCCGGTG-AGTTTTATCAGGCTTTATTC
1 CTAGCAGGCTTTATGCCGGTGTA-TCAGATCAGGATTTATGA
* * *
6228 CTAGCAGGCTTTATGCTGGTGTATCAGATCAGGCTTTATGC
1 CTAGCAGGCTTTATGCCGGTGTATCAGATCAGGATTTATGA
** * *
6269 CTAGCAGGCTTCGTGCCGGTGTATCATATCTA-GATTTGTGA
1 CTAGCAGGCTTTATGCCGGTGTATCAGATC-AGGATTTATGA
* *
6310 TTAGTAGGCTTTATGCCG
1 CTAGCAGGCTTTATGCCG
6328 ATGTGGTATC
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 80 0.98
42 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.36
Consensus pattern (41 bp):
CTAGCAGGCTTTATGCCGGTGTATCAGATCAGGATTTATGA
Found at i:9800 original size:50 final size:50
Alignment explanation
Indices: 9736--10266 Score: 562
Period size: 50 Copynumber: 10.8 Consensus size: 50
9726 GGCAGTGAAT
* * * *
9736 GTGCCAGTGTAAGACCATGTCAGGGACATGACATTGGCACAGACCGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
* * * *
9786 GTGCTAGTGTAAGACCATGTCTAGAACATGGCATCGGCACGGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
* * * ** * *
9836 GAG-TCAATGTAAGACCATATCTGGGACATGGCATTAGCACAGATCAAGGA
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
* *
9886 GTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCACAGACCGAAGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
* * * *
9936 GTGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGTACGGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
* * * * *
9986 GAGTTAGTGTAAGACCATGTTTGGGACATGGCATCGGCTC-GA--GATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
* *
10033 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGACCGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
* * * * *
10083 GAGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTC-GA--GATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
* ** **
10130 GTGCTAGTGTAAGACCATGTCTGGGACATGTCATCGGCATGGATAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
* * * * *
10180 GAG-TCAGTGTAAGACCATGTATGGGACATGGCATCAGCTC-GA--GATGA
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
* *
10227 GTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
10267 CGATATACTA
Statistics
Matches: 396, Mismatches: 75, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
47 113 0.29
48 4 0.01
49 8 0.02
50 270 0.68
51 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.32, T:0.20
Consensus pattern (50 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
Found at i:10082 original size:97 final size:97
Alignment explanation
Indices: 9736--10266 Score: 648
Period size: 97 Copynumber: 5.4 Consensus size: 97
9726 GGCAGTGAAT
* * * * *
9736 GTGCCAGTGTAAGACCATGTCAGGGACATGACATTGGCACAGACCGAGGAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGTTAGTGTAAGAC
* * * *
9801 CATGTCTAGAACATGGCATCGGCACGGACAGAGGA
66 CATGTCTGGGACATGGCATCGGCTC-G--AGATGA
* * * * ** * * * *
9836 GAGTCAATGTAAGACCATATCTGGGACATGGCATTAGCACAGATCAAGGAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGTTAGTGTAAGAC
* * *
9901 CATGTCTGGGATATGGCATCGGCACAGACCGAAGA
66 CATGTCTGGGACATGGCATCGGCTC-GA--GATGA
* * * * *
9936 GTGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGTACGGACAGAGGAGAGTTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGTTAGTGTAAGAC
*
10001 CATGTTTGGGACATGGCATCGGCTCGAGATGA
66 CATGTCTGGGACATGGCATCGGCTCGAGATGA
*
10033 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGACCGAGGAGAGTTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGTTAGTGTAAGAC
*
10098 CATGTCTGGGACATGGCATCAGCTCGAGATGA
66 CATGTCTGGGACATGGCATCGGCTCGAGATGA
* * ** ** *
10130 GTGCTAGTGTAAGACCATGTCTGGGACATGTCATCGGCATGGATAGAGGAGAGTCAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGTTAGTGTAAGAC
* *
10195 CATGTATGGGACATGGCATCAGCTCGAGATGA
66 CATGTCTGGGACATGGCATCGGCTCGAGATGA
*
10227 GTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
10267 CGATATACTA
Statistics
Matches: 375, Mismatches: 54, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
97 217 0.58
98 1 0.00
99 2 0.01
100 155 0.41
ACGTcount: A:0.29, C:0.19, G:0.32, T:0.20
Consensus pattern (97 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGAGTTAGTGTAAGAC
CATGTCTGGGACATGGCATCGGCTCGAGATGA
Found at i:17864 original size:11 final size:11
Alignment explanation
Indices: 17846--17882 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
17836 ATATTTTGAA
17846 GCTGTTGATTT
1 GCTGTTGATTT
*
17857 GTTGTTGATTT
1 GCTGTTGATTT
17868 GCTGTTGATTT
1 GCTGTTGATTT
17879 GCTG
1 GCTG
17883 GTATTTCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.08, C:0.08, G:0.30, T:0.54
Consensus pattern (11 bp):
GCTGTTGATTT
Found at i:29326 original size:6 final size:6
Alignment explanation
Indices: 29316--29379 Score: 92
Period size: 6 Copynumber: 10.7 Consensus size: 6
29306 TTCGATTTCA
* * *
29316 ATTTTG TTTTTG ATTTTG ATTTTG ATTTAG ATTTTG ATTTTG ATTTCG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
*
29364 ATTTTA ATTTTG ATTT
1 ATTTTG ATTTTG ATTT
29380 AGGGTTATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.19, C:0.02, G:0.14, T:0.66
Consensus pattern (6 bp):
ATTTTG
Found at i:29842 original size:15 final size:15
Alignment explanation
Indices: 29821--29864 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
29811 TGAAGAAGAA
29821 ATGTCTGGTAGTGAC
1 ATGTCTGGTAGTGAC
* *
29836 GTGTCTGGTAGTGAT
1 ATGTCTGGTAGTGAC
*
29851 ATATCTGGTAGTGA
1 ATGTCTGGTAGTGA
29865 TGCATTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.34, T:0.36
Consensus pattern (15 bp):
ATGTCTGGTAGTGAC
Found at i:31680 original size:25 final size:27
Alignment explanation
Indices: 31621--31713 Score: 102
Period size: 26 Copynumber: 3.4 Consensus size: 27
31611 TTGGTGTGTA
*
31621 TGACTATTTTTTTAATATACATGCTGT
1 TGACTATTTTTTTAATATACATGCTGG
*
31648 TGACTA-TTTTTTAATATGCATGC-GG
1 TGACTATTTTTTTAATATACATGCTGG
* *
31673 TGAGTATTTTTTTAATAATATGCATG-TAG
1 TGACTATTTTTTTAAT-ATA--CATGCTGG
31702 TGACTATTTTTT
1 TGACTATTTTTT
31714 AGGTGTGCGT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
25 6 0.11
26 25 0.45
27 8 0.15
29 16 0.29
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.51
Consensus pattern (27 bp):
TGACTATTTTTTTAATATACATGCTGG
Found at i:32894 original size:22 final size:24
Alignment explanation
Indices: 32864--32908 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
32854 TTCTAACATA
*
32864 TGAGTATTGAGAAA-A-AAATGTG
1 TGAGAATTGAGAAATACAAATGTG
32886 TGAGAATTGAGAAATACAAATGT
1 TGAGAATTGAGAAATACAAATGT
32909 TTTTTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (24 bp):
TGAGAATTGAGAAATACAAATGTG
Found at i:34524 original size:24 final size:24
Alignment explanation
Indices: 34471--34566 Score: 74
Period size: 24 Copynumber: 4.1 Consensus size: 24
34461 CTAAATAATG
* * *
34471 ATATGATAAGTTTAAAATTATAGT
1 ATATGATAAATTTTAAATTAGAGT
*
34495 ACATGATAAATTTTAAATTAG-GAT
1 ATATGATAAATTTTAAATTAGAG-T
* *
34519 ATATGATAAA-TTTAAATAATA-T
1 ATATGATAAATTTTAAATTAGAGT
* * *
34541 TTATGAT-AATTTAAAATAAGAGT
1 ATATGATAAATTTTAAATTAGAGT
34564 ATA
1 ATA
34567 CTATATATTA
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
21 2 0.04
22 16 0.28
23 12 0.21
24 27 0.47
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (24 bp):
ATATGATAAATTTTAAATTAGAGT
Found at i:35995 original size:13 final size:13
Alignment explanation
Indices: 35977--36025 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
35967 TGTAACCAAC
35977 AACAATATTACAA
1 AACAATATTACAA
*
35990 AACAATTTGTAACCAA
1 AACAATAT-T-A-CAA
36006 CAACAATATTACAA
1 -AACAATATTACAA
36020 AACAAT
1 AACAAT
36026 TTGTAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 13 0.43
14 4 0.13
15 2 0.07
16 4 0.13
17 7 0.23
ACGTcount: A:0.57, C:0.18, G:0.02, T:0.22
Consensus pattern (13 bp):
AACAATATTACAA
Found at i:36000 original size:30 final size:30
Alignment explanation
Indices: 35966--36031 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
35956 TTTCTAACTG
35966 TTGTAACCAACAACAATATTACAAAACAAT
1 TTGTAACCAACAACAATATTACAAAACAAT
35996 TTGTAACCAACAACAATATTACAAAACAAT
1 TTGTAACCAACAACAATATTACAAAACAAT
36026 TTGTAA
1 TTGTAA
36032 GAAACAACCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.26
Consensus pattern (30 bp):
TTGTAACCAACAACAATATTACAAAACAAT
Found at i:36038 original size:30 final size:30
Alignment explanation
Indices: 35966--36048 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 30
35956 TTTCTAACTG
*
35966 TTGTAACCAACAACAATATTACAAAACAAT
1 TTGTAACAAACAACAATATTACAAAACAAT
*
35996 TTGTAACCAACAACAATATTACAAAACAAT
1 TTGTAACAAACAACAATATTACAAAACAAT
*
36026 TTGTAAGAAACAACCACATATTA
1 TTGTAACAAACAA-CA-ATATTA
36049 TATCCCATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 41 0.84
31 2 0.04
32 6 0.12
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (30 bp):
TTGTAACAAACAACAATATTACAAAACAAT
Found at i:36137 original size:36 final size:36
Alignment explanation
Indices: 36097--36169 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
36087 TGAGCTGGTT
36097 AGCCACGTATAACAACATAAGCAACAATATACCAAC
1 AGCCACGTATAACAACATAAGCAACAATATACCAAC
* * *
36133 AGCCATGTATAACAACATACGTAACAATATACCAAC
1 AGCCACGTATAACAACATAAGCAACAATATACCAAC
36169 A
1 A
36170 ACAATACTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.49, C:0.26, G:0.08, T:0.16
Consensus pattern (36 bp):
AGCCACGTATAACAACATAAGCAACAATATACCAAC
Found at i:36186 original size:36 final size:36
Alignment explanation
Indices: 36107--36190 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
36097 AGCCACGTAT
* * * *
36107 AACAACATAAGCAACAATATACCAACAGCCATGTAT
1 AACAACATAAGCAACAATATACCAACAACAATCTAC
* *
36143 AACAACATACGTAACAATATACCAACAACAATACTAC
1 AACAACATAAGCAACAATATACCAACAACAAT-CTAC
36180 AA-AACATAAGC
1 AACAACATAAGC
36191 TGGTTTTCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
36 35 0.90
37 4 0.10
ACGTcount: A:0.54, C:0.25, G:0.06, T:0.15
Consensus pattern (36 bp):
AACAACATAAGCAACAATATACCAACAACAATCTAC
Found at i:36531 original size:20 final size:20
Alignment explanation
Indices: 36506--36543 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
36496 CACACCTTCT
*
36506 TCTTCTTTTTCTTCTTCTCC
1 TCTTCTTTTTCTCCTTCTCC
36526 TCTTCTTTTTCTCCTTCT
1 TCTTCTTTTTCTCCTTCT
36544 TATTTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TCTTCTTTTTCTCCTTCTCC
Found at i:36537 original size:14 final size:15
Alignment explanation
Indices: 36514--36553 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
36504 CTTCTTCTTT
*
36514 TTCTTCTTCTCC-TC
1 TTCTTTTTCTCCTTC
36528 TTCTTTTTCTCCTTC
1 TTCTTTTTCTCCTTC
*
36543 TTATTTTTCTC
1 TTCTTTTTCTC
36554 TAACCGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.65
Consensus pattern (15 bp):
TTCTTTTTCTCCTTC
Found at i:37544 original size:55 final size:49
Alignment explanation
Indices: 37484--37621 Score: 158
Period size: 46 Copynumber: 2.8 Consensus size: 49
37474 AGTAGTTACG
*
37484 TAGGAATCAAATTGCTAAAAGATAATATCTCATATAATATAGTATAATGTCCCAT
1 TAGGAATCAAATTGATAAAAGATAATATCTC-TATAATATA--AT-A--TCCCAT
* *
37539 TAGGAATCAAATTGATAAGAGATAATAT-TCTAT-A-ATAATATCCTAT
1 TAGGAATCAAATTGATAAAAGATAATATCTCTATAATATAATATCCCAT
*
37585 TAGGAATCAAATTGTTAAAAGATAATATC-CTATAATA
1 TAGGAATCAAATTGATAAAAGATAATATCTCTATAATA
37622 ATATCCTAAC
Statistics
Matches: 75, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
46 35 0.47
47 1 0.01
48 2 0.03
49 2 0.03
51 3 0.04
52 1 0.01
53 3 0.04
54 2 0.03
55 26 0.35
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (49 bp):
TAGGAATCAAATTGATAAAAGATAATATCTCTATAATATAATATCCCAT
Found at i:37590 original size:46 final size:46
Alignment explanation
Indices: 37527--37629 Score: 161
Period size: 46 Copynumber: 2.2 Consensus size: 46
37517 ATAATATAGT
* * * *
37527 ATAATGTCCCATTAGGAATCAAATTGATAAGAGATAATATTCTATA
1 ATAATATCCTATTAGGAATCAAATTGATAAAAGATAATATCCTATA
*
37573 ATAATATCCTATTAGGAATCAAATTGTTAAAAGATAATATCCTATA
1 ATAATATCCTATTAGGAATCAAATTGATAAAAGATAATATCCTATA
37619 ATAATATCCTA
1 ATAATATCCTA
37630 ACACCTCACT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (46 bp):
ATAATATCCTATTAGGAATCAAATTGATAAAAGATAATATCCTATA
Found at i:41742 original size:21 final size:21
Alignment explanation
Indices: 41693--41882 Score: 213
Period size: 21 Copynumber: 9.0 Consensus size: 21
41683 GTACATCGTC
*
41693 AACAGAAGCTCATAAA-AGCTT
1 AACAGAAGCTCA-AAAGAGCTG
*
41714 AAC-GAAAGCTCAAAAGAGTTG
1 AACAG-AAGCTCAAAAGAGCTG
* * **
41735 AGCAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
* *
41756 AGCAAAAGCTCAAAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
*
41777 AACAGAAGCTCAAAAGATCTG
1 AACAGAAGCTCAAAAGAGCTG
* *
41798 AACAGAAGCTCAAACGATCTG
1 AACAGAAGCTCAAAAGAGCTG
* *
41819 AACAGAAGCTCATAAGACCTG
1 AACAGAAGCTCAAAAGAGCTG
* *
41840 AACAGAAGCTCATAAGACCTG
1 AACAGAAGCTCAAAAGAGCTG
41861 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
41882 A
1 A
41883 TCCACCCGAA
Statistics
Matches: 148, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
20 4 0.03
21 144 0.97
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTG
Found at i:48315 original size:17 final size:18
Alignment explanation
Indices: 48293--48326 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48283 TAGAATGTTT
*
48293 AGAAAAATTA-TTAATTG
1 AGAAAAAATAGTTAATTG
48310 AGAAAAAATAGTTAATT
1 AGAAAAAATAGTTAATT
48327 TGATAGATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
AGAAAAAATAGTTAATTG
Found at i:48899 original size:21 final size:21
Alignment explanation
Indices: 48802--48965 Score: 123
Period size: 21 Copynumber: 7.8 Consensus size: 21
48792 TTTTACTTTT
*
48802 TGTTTAGCTCTTATGAGCTTC
1 TGTTTAGCTCTTATGAGTTTC
* * **
48823 TGCTTAACTAATATGAGTTTC
1 TGTTTAGCTCTTATGAGTTTC
** * *
48844 CATTCAGCTCTT-TCGAGCTTC
1 TGTTTAGCTCTTAT-GAGTTTC
* * *
48865 TGTTAAACTATTATGAGTTTC
1 TGTTTAGCTCTTATGAGTTTC
* *
48886 TATTTAGCTCTTATGAGCTTC
1 TGTTTAGCTCTTATGAGTTTC
* * * *
48907 TGTTAAACCCTTATGGGTTTC
1 TGTTTAGCTCTTATGAGTTTC
* *
48928 TATTTAGCTCTTATGGGTTTC
1 TGTTTAGCTCTTATGAGTTTC
*
48949 TGTTTAGCTCTCATGAG
1 TGTTTAGCTCTTATGAG
48966 CTCCTGTTCA
Statistics
Matches: 104, Mismatches: 37, Indels: 4
0.72 0.26 0.03
Matches are distributed among these distances:
20 1 0.01
21 102 0.98
22 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTTTAGCTCTTATGAGTTTC
Found at i:48913 original size:42 final size:42
Alignment explanation
Indices: 48804--48952 Score: 194
Period size: 42 Copynumber: 3.5 Consensus size: 42
48794 TTACTTTTTG
* *
48804 TTTAGCTCTTATGAGCTTCTGCTT-AACTAATATGAGTTTCCA
1 TTTAGCTCTTATGAGCTTCTG-TTAAACTATTATGAGTTTCTA
*
48846 TTCAGCTCTT-TCGAGCTTCTGTTAAACTATTATGAGTTTCTA
1 TTTAGCTCTTAT-GAGCTTCTGTTAAACTATTATGAGTTTCTA
** *
48888 TTTAGCTCTTATGAGCTTCTGTTAAACCCTTATGGGTTTCTA
1 TTTAGCTCTTATGAGCTTCTGTTAAACTATTATGAGTTTCTA
* *
48930 TTTAGCTCTTATGGGTTTCTGTT
1 TTTAGCTCTTATGAGCTTCTGTT
48953 TAGCTCTCAT
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
41 3 0.03
42 91 0.96
43 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.46
Consensus pattern (42 bp):
TTTAGCTCTTATGAGCTTCTGTTAAACTATTATGAGTTTCTA
Found at i:48972 original size:21 final size:21
Alignment explanation
Indices: 48930--48973 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
48920 TGGGTTTCTA
* * * *
48930 TTTAGCTCTTATGGGTTTCTG
1 TTTAGCTCTCATGAGCTCCTG
48951 TTTAGCTCTCATGAGCTCCTG
1 TTTAGCTCTCATGAGCTCCTG
48972 TT
1 TT
48974 CAACTTTCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (21 bp):
TTTAGCTCTCATGAGCTCCTG
Found at i:56508 original size:21 final size:21
Alignment explanation
Indices: 56484--56663 Score: 153
Period size: 21 Copynumber: 8.6 Consensus size: 21
56474 GTGTTTTACT
*
56484 TTCTGTTTAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTATGAGC
* * *
56505 TTCTGTTTAACTCATATGAGT
1 TTCTGTTTAGCTCTTATGAGC
* * * * *
56526 TTCTGTTCAACTCTTTTAAAC
1 TTCTGTTTAGCTCTTATGAGC
* * * *
56547 TTTTGTTCAACTCTTATGAGT
1 TTCTGTTTAGCTCTTATGAGC
* *
56568 TTCTATTTAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTATGAGC
* * * * *
56589 TTCTGTTAAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGC
56610 TTCTGTTTAGCTCTTATGAGC
1 TTCTGTTTAGCTCTTATGAGC
* *
56631 TTCTGTTTAGCTCTCATTAGC
1 TTCTGTTTAGCTCTTATGAGC
*
56652 TTCTGTTCAGCT
1 TTCTGTTTAGCT
56664 TTCGAGCTTT
Statistics
Matches: 123, Mismatches: 36, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 123 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.47
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTATGAGC
Found at i:56530 original size:42 final size:42
Alignment explanation
Indices: 56483--56672 Score: 195
Period size: 42 Copynumber: 4.6 Consensus size: 42
56473 CGTGTTTTAC
*
56483 TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACTCATATGAG
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACTCTTATGAG
* * *** * * *
56525 TTTCTGTTCAACTCTTTTAAACTTTTGTTCAACTCTTATGAG
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACTCTTATGAG
* * * *
56567 TTTCTATTTAGCTCTTACGAGCTTCTGTTAAACCCTTATGGG
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACTCTTATGAG
* * * *
56609 TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAGCTCTCATTAG
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACTCTTATGAG
* *
56651 CTTCTGTTCAGCT-TT-CGAGCTT
1 TTTCTGTTTAGCTCTTACGAGCTT
56673 TTGAAAACGA
Statistics
Matches: 117, Mismatches: 31, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
40 6 0.05
41 2 0.02
42 109 0.93
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (42 bp):
TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACTCTTATGAG
Found at i:56640 original size:63 final size:64
Alignment explanation
Indices: 56481--56658 Score: 189
Period size: 63 Copynumber: 2.8 Consensus size: 64
56471 CTCGTGTTTT
* * * * * * *
56481 ACTTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACTCATATGAGTTTCTGTTCAACTCTTTTAA
1 ACTTTCTGTTTAGCTCTTATGAGCTTCTGTTTAGCTCTTATGAGCTTCTGTTAAACCCTTATAA
* * * * * *
56545 ACTTT-TGTTCAACTCTTATGAGTTTCTATTTAGCTCTTACGAGCTTCTGTTAAACCCTTAT-G
1 ACTTTCTGTTTAGCTCTTATGAGCTTCTGTTTAGCTCTTATGAGCTTCTGTTAAACCCTTATAA
** * *
56607 GGTTTCTGTTTAGCTCTTATGAGCTTCTGTTTAGCTCTCATTAGCTTCTGTT
1 ACTTTCTGTTTAGCTCTTATGAGCTTCTGTTTAGCTCTTATGAGCTTCTGTT
56659 CAGCTTTCGA
Statistics
Matches: 91, Mismatches: 22, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
62 3 0.03
63 83 0.91
64 5 0.05
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (64 bp):
ACTTTCTGTTTAGCTCTTATGAGCTTCTGTTTAGCTCTTATGAGCTTCTGTTAAACCCTTATAA
Found at i:58206 original size:24 final size:24
Alignment explanation
Indices: 58160--58211 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
58150 TGCAACCAGA
* * *
58160 GGTACAATCGGAAGTACAGCAGGT
1 GGTACAATAGGAAGTACAACAGGG
* *
58184 GGTACAATAGGGAGTCCAACAGGG
1 GGTACAATAGGAAGTACAACAGGG
58208 GGTA
1 GGTA
58212 GAGGTCATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.37, T:0.15
Consensus pattern (24 bp):
GGTACAATAGGAAGTACAACAGGG
Found at i:59870 original size:21 final size:21
Alignment explanation
Indices: 59840--59901 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
59830 CATAAGACCT
* *
59840 TTAACGGAAGCTAAAAAGAGA
1 TTAACAGAAGCTCAAAAGAGA
* * *
59861 TTAACAGAAGTTCATAAGAGC
1 TTAACAGAAGCTCAAAAGAGA
*
59882 TGAACAGAAGCTCAAAAGAG
1 TTAACAGAAGCTCAAAAGAG
59902 TTGATCCACC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.23, T:0.16
Consensus pattern (21 bp):
TTAACAGAAGCTCAAAAGAGA
Found at i:62037 original size:46 final size:46
Alignment explanation
Indices: 61977--62079 Score: 161
Period size: 46 Copynumber: 2.2 Consensus size: 46
61967 ATAATATCCT
* * * *
61977 ATAATGTCCCATTAAGAATCAAATTGCTAAGAGATAATATCCCATA
1 ATAATATCCTATTAAGAATCAAATTGCTAAAAGAAAATATCCCATA
*
62023 ATAATATCCTATTAAGAATCAAATTGCTAAAATAAAATATCCCATA
1 ATAATATCCTATTAAGAATCAAATTGCTAAAAGAAAATATCCCATA
62069 ATAATATCCTA
1 ATAATATCCTA
62080 ATAGATAACC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (46 bp):
ATAATATCCTATTAAGAATCAAATTGCTAAAAGAAAATATCCCATA
Found at i:65555 original size:30 final size:31
Alignment explanation
Indices: 65503--65561 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
65493 TTCTATTTGT
65503 TCAATTTCAGTCCTTATACTTTTCAAATTGG
1 TCAATTTCAGTCCTTATACTTTTCAAATTGG
*
65534 TCAATTTTAGTCCTT-TACTTTTCAAATT
1 TCAATTTCAGTCCTTATACTTTTCAAATT
65562 TTTAGCTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.49
Consensus pattern (31 bp):
TCAATTTCAGTCCTTATACTTTTCAAATTGG
Found at i:69881 original size:29 final size:30
Alignment explanation
Indices: 69822--69894 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 30
69812 TGAAAAAATC
* *
69822 ATTAAACCTTAAAATTTTTGAAAACTTTTA
1 ATTAAACCTCAAAATTTTTGAAAACGTTTA
* *
69852 ATTAAACCCCAAAATTTTTG-AAAGGTTTA
1 ATTAAACCTCAAAATTTTTGAAAACGTTTA
69881 ATTAAACCTCAAAA
1 ATTAAACCTCAAAA
69895 CTTCCAGGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 20 0.53
30 18 0.47
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (30 bp):
ATTAAACCTCAAAATTTTTGAAAACGTTTA
Found at i:71054 original size:60 final size:61
Alignment explanation
Indices: 70944--71103 Score: 214
Period size: 60 Copynumber: 2.6 Consensus size: 61
70934 GCAACTTTTT
* * * * * * *
70944 CCACATTGGGGCCTGAACTTTTTTTTTTGTTCAAGTTATGCCTTGAACTTGGCAATTGTTC
1 CCACATTGGGGCTTAAACTTTCTTTTTTGTCCAAGTTAGGCCCTGAACTTGGCAATTATTC
* *
71005 CCACATTGGGGTTTAAAC-TTCTTTTTTGGCCAAGTTAGGCCCTGAACTTGGCAATTATTC
1 CCACATTGGGGCTTAAACTTTCTTTTTTGTCCAAGTTAGGCCCTGAACTTGGCAATTATTC
* *
71065 CCACATTGGGGCTTGAACTTTTTTTTTTGTCCAAGTTAG
1 CCACATTGGGGCTTAAACTTTCTTTTTTGTCCAAGTTAG
71104 TAAAATCCTA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 52 0.61
61 33 0.39
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (61 bp):
CCACATTGGGGCTTAAACTTTCTTTTTTGTCCAAGTTAGGCCCTGAACTTGGCAATTATTC
Found at i:88908 original size:12 final size:12
Alignment explanation
Indices: 88891--88920 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
88881 AAACATAATG
88891 AAATCTGGTCCA
1 AAATCTGGTCCA
*
88903 AAATCTGGTCTA
1 AAATCTGGTCCA
88915 AAATCT
1 AAATCT
88921 TTGACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (12 bp):
AAATCTGGTCCA
Found at i:89762 original size:41 final size:41
Alignment explanation
Indices: 89705--89788 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
89695 CCACCTAATG
89705 TAGGAGTATTATGCATGTCACATAAATCACTATGTATCAAA
1 TAGGAGTATTATGCATGTCACATAAATCACTATGTATCAAA
89746 TAGGAGTATTATGCATGTCACATAAATCACTATGTATCAAA
1 TAGGAGTATTATGCATGTCACATAAATCACTATGTATCAAA
89787 TA
1 TA
89789 AAGCAATTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (41 bp):
TAGGAGTATTATGCATGTCACATAAATCACTATGTATCAAA
Found at i:93676 original size:29 final size:29
Alignment explanation
Indices: 93642--93700 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
93632 TCCACCTTGA
* * * *
93642 CACGAATTCTTAATGAACAAGTTCTTCAT
1 CACGAACTCTCAACGAACAAGTTCTCCAT
93671 CACGAACTCTCAACGAACAAGTTCTCCAT
1 CACGAACTCTCAACGAACAAGTTCTCCAT
93700 C
1 C
93701 TCTTCCATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.27
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAT
Found at i:101167 original size:54 final size:55
Alignment explanation
Indices: 101060--101170 Score: 206
Period size: 54 Copynumber: 2.0 Consensus size: 55
101050 TAATTGTATC
101060 AATATAATAGTTGGGTGATGAGTTAAAAAAAAGAAAAACGCATACTTAAGTGACT
1 AATATAATAGTTGGGTGATGAGTTAAAAAAAAGAAAAACGCATACTTAAGTGACT
*
101115 AATATAATAGTTGGGTGATGAGTT-AAAAAAAGAAAAACTCATACTTAAGTGACT
1 AATATAATAGTTGGGTGATGAGTTAAAAAAAAGAAAAACGCATACTTAAGTGACT
101169 AA
1 AA
101171 AAAAACATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 31 0.56
55 24 0.44
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (55 bp):
AATATAATAGTTGGGTGATGAGTTAAAAAAAAGAAAAACGCATACTTAAGTGACT
Found at i:102588 original size:19 final size:19
Alignment explanation
Indices: 102564--102603 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
102554 GATTACCGGA
102564 GGGCAGCCCTGAGAAAGGC
1 GGGCAGCCCTGAGAAAGGC
*
102583 GGGCAGCCTTGAGAAAGGC
1 GGGCAGCCCTGAGAAAGGC
102602 GG
1 GG
102604 CAAAGGGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.45, T:0.07
Consensus pattern (19 bp):
GGGCAGCCCTGAGAAAGGC
Found at i:109257 original size:16 final size:16
Alignment explanation
Indices: 109236--109269 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
109226 ACAAATGTTT
109236 ACCTAATGGTTACCTA
1 ACCTAATGGTTACCTA
109252 ACCTAATGGTTACCTA
1 ACCTAATGGTTACCTA
109268 AC
1 AC
109270 ACCACTAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (16 bp):
ACCTAATGGTTACCTA
Found at i:112442 original size:10 final size:10
Alignment explanation
Indices: 112427--112458 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
112417 AGTGAAAAAG
112427 AAAAGTGAGA
1 AAAAGTGAGA
112437 AAAAGTGAGA
1 AAAAGTGAGA
112447 AAAAGTGAGA
1 AAAAGTGAGA
112457 AA
1 AA
112459 TTCCCAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.09
Consensus pattern (10 bp):
AAAAGTGAGA
Found at i:112667 original size:51 final size:50
Alignment explanation
Indices: 112559--112730 Score: 179
Period size: 51 Copynumber: 3.4 Consensus size: 50
112549 GTGAAAGTGA
* * * * *
112559 ACTATGTGCAGGCTACTACGTGTACTAGA-A-TGATAGGTCGCATGTGTAGT
1 ACTATGTGCAGGCTACTATGCGTACCAGATAGT-AT-GATCACATGTGTAGT
112609 ACTATGTGCAGGCTACTATGCGTACCAGATAGCT-TCGATCACATGTGTAGT
1 ACTATGTGCAGGCTACTATGCGTACCAGATAG-TAT-GATCACATGTGTAGT
* * * * *
112660 ACTATGTGCAGACTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGT
1 ACTATGTGCAGGCTACTATGCGTACCAGATAGT-ATGATCACATGTGTAGT
*
112711 ACTATGTGTAGGCTACTATG
1 ACTATGTGCAGGCTACTATG
112731 TGAACCGATA
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
50 27 0.26
51 74 0.72
52 1 0.01
53 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
ACTATGTGCAGGCTACTATGCGTACCAGATAGTATGATCACATGTGTAGT
Found at i:112768 original size:101 final size:101
Alignment explanation
Indices: 112559--112740 Score: 253
Period size: 102 Copynumber: 1.8 Consensus size: 101
112549 GTGAAAGTGA
* *
112559 ACTATGTGCAGGCTACTACGTGTACTAGAATGATAGGTCGCATGTGTAGTACTATGTGCAGGCTA
1 ACTATGTGCAGACTACTACGTGTACTAGAATGATAGGTCACATGTGTAGTACTATGTGCAGGCTA
* * *
112624 CTATGCGTACCAGATAGCTTCGATCACATGTGTAGT
66 CTATGCGAACCAGATAGCTTCAATCACAAGTGTAGT
*
112660 ACTATGTGCAGACTACTACGTGTA-TCAGATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGG
1 ACTATGTGCAGACTACTACGTGTACT-AGA-A-TGATAGGTCACATGTGTAGTACTATGTGCAGG
*
112723 CTACTATGTGAACC-GATA
63 CTACTATGCGAACCAGATA
112741 TCATTAATTA
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
100 1 0.01
101 30 0.41
102 38 0.52
103 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (101 bp):
ACTATGTGCAGACTACTACGTGTACTAGAATGATAGGTCACATGTGTAGTACTATGTGCAGGCTA
CTATGCGAACCAGATAGCTTCAATCACAAGTGTAGT
Found at i:121210 original size:52 final size:52
Alignment explanation
Indices: 121074--121210 Score: 150
Period size: 53 Copynumber: 2.6 Consensus size: 52
121064 TAACAATATC
* * *
121074 TAAAAAAAATTTGGGTGCTGGGACACTGATGATCGACACCTCTTTGTCTGAT
1 TAAAAAAAATTTGGGTGCTGGGACACTGATGGTCGACACCCCTTTATCTGAT
* * * * ** *
121126 TAAGAAAAATTTTAGGTGCTGGAACATTGATGGTCGGTACCCCTTTATTTGA-
1 TAA-AAAAAATTTGGGTGCTGGGACACTGATGGTCGACACCCCTTTATCTGAT
*
121178 TAGAAAAAAATTTGGGTACTGGGACACTGATGG
1 TA-AAAAAAATTTGGGTGCTGGGACACTGATGG
121211 CTGGCACTCT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
52 29 0.43
53 39 0.57
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (52 bp):
TAAAAAAAATTTGGGTGCTGGGACACTGATGGTCGACACCCCTTTATCTGAT
Found at i:124842 original size:6 final size:6
Alignment explanation
Indices: 124831--124855 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
124821 TCGTGTTCTA
124831 GCCCGT GCCCGT GCCCGT GCCCGT G
1 GCCCGT GCCCGT GCCCGT GCCCGT G
124856 TAACTCTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.36, T:0.16
Consensus pattern (6 bp):
GCCCGT
Found at i:133013 original size:31 final size:31
Alignment explanation
Indices: 132978--133043 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
132968 TACAAATCAC
132978 ACATAGTCCAGTCATCATTAAAACATGCTCA
1 ACATAGTCCAGTCATCATTAAAACATGCTCA
133009 ACATAGTCCAGTCATCATTAAAACATGCTCA
1 ACATAGTCCAGTCATCATTAAAACATGCTCA
133040 ACAT
1 ACAT
133044 TCATCAAACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (31 bp):
ACATAGTCCAGTCATCATTAAAACATGCTCA
Found at i:153116 original size:18 final size:18
Alignment explanation
Indices: 153088--153139 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
153078 TAAGGGGAAA
*
153088 AAAAATAGGTGTTTAGCT
1 AAAAATGGGTGTTTAGCT
*
153106 GAAAATGGGTGTTTAGCT
1 AAAAATGGGTGTTTAGCT
153124 AAAAATGGGTGTTTAG
1 AAAAATGGGTGTTTAG
153140 TATCAAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.33
Consensus pattern (18 bp):
AAAAATGGGTGTTTAGCT
Found at i:155499 original size:6 final size:6
Alignment explanation
Indices: 155488--155517 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
155478 TATTATAACC
*
155488 ATGTTT ATGTTT ATTTTT ATGTTT ATGTTT
1 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT
155518 TGGGGTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (6 bp):
ATGTTT
Found at i:157342 original size:13 final size:13
Alignment explanation
Indices: 157295--157348 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
157285 GATGCTGATG
157295 GAAGATCCATATT
1 GAAGATCCATATT
*
157308 GATGAT---TACTT
1 GAAGATCCATA-TT
*
157319 GCAAAATCCATATT
1 G-AAGATCCATATT
157333 GAAGATCCATATT
1 GAAGATCCATATT
157346 GAA
1 GAA
157349 TAGCTAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 3 0.09
13 19 0.59
14 3 0.09
15 2 0.06
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
GAAGATCCATATT
Found at i:159773 original size:23 final size:23
Alignment explanation
Indices: 159743--159789 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
159733 CAAAGGACAG
*
159743 AGCGTCAGATAAACGTGTTCAAA
1 AGCGTCAGATAAACATGTTCAAA
*
159766 AGCGTCAGATAGACATGTTCAAA
1 AGCGTCAGATAAACATGTTCAAA
159789 A
1 A
159790 TATAGCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (23 bp):
AGCGTCAGATAAACATGTTCAAA
Found at i:173282 original size:43 final size:43
Alignment explanation
Indices: 173127--173283 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
173117 GGTGACTTTG
* *
173127 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTAAGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGATTT-CA
* * * * * *
173171 TGTAAAACCATGTTTGGGACATCGACATCGCATA--TGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATATTTGATTTCA
* * *
173213 TGTAAGACCTA-TTTTGAGAC-TGTGGCATCGATATTTGATTTCA
1 TGTAAGACC-ACGTCTGGGACGT-TGGCATCGATATTTGATTTCA
*
173256 TGTAAGACCACGTCTGGGGCGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
173284 TGTACGAGTT
Statistics
Matches: 88, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
41 4 0.05
42 23 0.26
43 34 0.39
44 25 0.28
45 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTCA
Found at i:174182 original size:2 final size:2
Alignment explanation
Indices: 174175--174212 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
174165 GGTAAATTGA
* *
174175 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
174213 GTCTATGATA
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:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:175225 original size:25 final size:25
Alignment explanation
Indices: 175196--175245 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
175186 ACGAATTTTC
* *
175196 TCAAAATTTTATCGGGGTAAAATTG
1 TCAAAATTTTACCAGGGTAAAATTG
175221 TCAAAATTTTACCAGGGTAAAATTG
1 TCAAAATTTTACCAGGGTAAAATTG
175246 GAATGAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (25 bp):
TCAAAATTTTACCAGGGTAAAATTG
Found at i:176799 original size:13 final size:13
Alignment explanation
Indices: 176781--176805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
176771 CCCAATGGGT
176781 AATTGAACTTGAA
1 AATTGAACTTGAA
176794 AATTGAACTTGA
1 AATTGAACTTGA
176806 GATCATAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:177135 original size:20 final size:19
Alignment explanation
Indices: 177072--177159 Score: 62
Period size: 20 Copynumber: 4.8 Consensus size: 19
177062 ACCAAATTTT
*
177072 AATATTTAATTTAAT-TT-
1 AATAATTAATTTAATATTA
* *
177089 AAT-ATTTATCTTAATAGTA
1 AATAATTAAT-TTAATATTA
**
177108 TTTAATTAATTTAATATTA
1 AATAATTAATTTAATATTA
177127 AAGTAATT-ATCTTAATATTA
1 AA-TAATTAAT-TTAATATTA
177147 AAT--TTAATTTAAT
1 AATAATTAATTTAAT
177160 GTTTATCTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
16 4 0.07
17 15 0.27
18 3 0.05
19 12 0.22
20 21 0.38
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
AATAATTAATTTAATATTA
Found at i:180164 original size:16 final size:16
Alignment explanation
Indices: 180143--180177 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
180133 TAGTGGTTCA
180143 ACGAAACAAGAAGTCT
1 ACGAAACAAGAAGTCT
* *
180159 ACGAAACGATAAGTCT
1 ACGAAACAAGAAGTCT
180175 ACG
1 ACG
180178 TGACAGAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (16 bp):
ACGAAACAAGAAGTCT
Found at i:191319 original size:13 final size:13
Alignment explanation
Indices: 191301--191325 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
191291 TCAAAAACAC
191301 TTTCCCACAGCAG
1 TTTCCCACAGCAG
191314 TTTCCCACAGCA
1 TTTCCCACAGCA
191326 CTTTTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (13 bp):
TTTCCCACAGCAG
Found at i:199470 original size:14 final size:14
Alignment explanation
Indices: 199435--199463 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
199425 TGACTTTCTC
199435 TAGTTTGTAGTGTT
1 TAGTTTGTAGTGTT
199449 TAGTTTGTAGTGTT
1 TAGTTTGTAGTGTT
199463 T
1 T
199464 GCTTTGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (14 bp):
TAGTTTGTAGTGTT
Found at i:202271 original size:24 final size:23
Alignment explanation
Indices: 202238--202293 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
202228 AAATGATCAA
*
202238 TTTGGGTTTTAAA-TATTAATGGG
1 TTTGGATTTTAAACT-TTAATGGG
202261 TATTGGATTTTAAACTTTAATGGG
1 T-TTGGATTTTAAACTTTAATGGG
*
202285 TTTAGATTT
1 TTTGGATTT
202294 ATTAAGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 8 0.28
24 20 0.69
25 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.21, T:0.50
Consensus pattern (23 bp):
TTTGGATTTTAAACTTTAATGGG
Found at i:204995 original size:19 final size:19
Alignment explanation
Indices: 204963--205001 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
204953 GGACTAAATC
*
204963 AGAAACATTTGAAACATTA
1 AGAAACATTTGAAAAATTA
204982 AGAAA-ATTTGGAAAAATTA
1 AGAAACATTT-GAAAAATTA
205001 A
1 A
205002 ACTGCAGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (19 bp):
AGAAACATTTGAAAAATTA
Found at i:206191 original size:21 final size:21
Alignment explanation
Indices: 206165--206205 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
206155 TAGTGTATTT
*
206165 ATTCATGGCATAGGTAAATTC
1 ATTCATAGCATAGGTAAATTC
* *
206186 ATTCATAGCGTATGTAAATT
1 ATTCATAGCATAGGTAAATT
206206 TTTCACATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (21 bp):
ATTCATAGCATAGGTAAATTC
Found at i:210622 original size:45 final size:45
Alignment explanation
Indices: 210558--210646 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
210548 AACAGATACT
* * *
210558 CGGTGGATTTAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
210603 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
210647 TCGATTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:210715 original size:51 final size:50
Alignment explanation
Indices: 210648--210824 Score: 158
Period size: 51 Copynumber: 3.5 Consensus size: 50
210638 CAATGATGTT
*
210648 CGATTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATC
* * * * * * *
210699 CGATACACGTAGTAGCCTGCATATAGTACTACAGACGTGATCGAAACTATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATC
** * * * * * *
210750 TAATACGCATAGTAACCTACACATAGTACTACACATGCGA-CATATCATTT
1 CGATACACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TC
* *
210800 CGGTACACGTAGTAGCCTGCACATA
1 CGATACACATAGTAGCCTGCACATA
210825 CTTTTACATA
Statistics
Matches: 94, Mismatches: 30, Indels: 5
0.73 0.23 0.04
Matches are distributed among these distances:
49 3 0.03
50 19 0.20
51 70 0.74
52 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
CGATACACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATC
Found at i:212339 original size:14 final size:15
Alignment explanation
Indices: 212320--212352 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
212310 GATTAGTATT
*
212320 AATTAAG-TGAAATA
1 AATTAAGCTCAAATA
212334 AATTAAGCTCAAATA
1 AATTAAGCTCAAATA
212349 AATT
1 AATT
212353 TTAATTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (15 bp):
AATTAAGCTCAAATA
Found at i:219461 original size:15 final size:15
Alignment explanation
Indices: 219441--219470 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
219431 TGAGTAAAGT
*
219441 GTGTGAACAAGTCTG
1 GTGTGAAAAAGTCTG
219456 GTGTGAAAAAGTCTG
1 GTGTGAAAAAGTCTG
219471 TAAAGAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.27
Consensus pattern (15 bp):
GTGTGAAAAAGTCTG
Found at i:219869 original size:29 final size:30
Alignment explanation
Indices: 219832--220087 Score: 249
Period size: 29 Copynumber: 8.7 Consensus size: 30
219822 GTTGTATGTG
* *
219832 TAAATGGATGCCTTCATGGCTA-CCTCTGT
1 TAAATGGATGCCTTTATGGCTATTCTCTGT
*
219861 TAAATGGATGCCTTTGTGGCTA-TCTCTGT
1 TAAATGGATGCCTTTATGGCTATTCTCTGT
* *
219890 TAAATGGATGCCTTTTTGGCTATTCTTTGT
1 TAAATGGATGCCTTTATGGCTATTCTCTGT
*
219920 TAAATGGATGCC--TAGTGGCTATTCTCTAT
1 TAAATGGATGCCTTTA-TGGCTATTCTCTGT
* *
219949 TAAATGGACG-CTTTGA-GGCTATTCTATGT
1 TAAATGGATGCCTTT-ATGGCTATTCTCTGT
* ** *
219978 TAAATGGATACCTTTGGGGCTA-TCTTTGT
1 TAAATGGATGCCTTTATGGCTATTCTCTGT
* *
220007 TAAATGGAAGCCTTTATGACTATTCTCTGT
1 TAAATGGATGCCTTTATGGCTATTCTCTGT
* * * *
220037 TAAATGGATGCCCTTGTAGCTATTCTCT-A
1 TAAATGGATGCCTTTATGGCTATTCTCTGT
* * *
220066 TAAAAGGATGCCCTTGTGGCTA
1 TAAATGGATGCCTTTATGGCTA
220088 CCTTTGTGAA
Statistics
Matches: 190, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.01
29 130 0.68
30 57 0.30
31 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.39
Consensus pattern (30 bp):
TAAATGGATGCCTTTATGGCTATTCTCTGT
Found at i:219931 original size:88 final size:88
Alignment explanation
Indices: 219832--220106 Score: 319
Period size: 88 Copynumber: 3.1 Consensus size: 88
219822 GTTGTATGTG
*
219832 TAAATGGATGCCTTCATGGCTA-CCTCTGTTAAATGGATGCCTTTGTGGCTA-TCTCTGTTAAAT
1 TAAATGGATGCCTT-ATGGCTATTCTCTGTTAAATGGATGCCTTTGTGGCTATTCTCTGTTAAAT
*
219895 GGATGCCTTTTTGGCTATTCTTTGT
65 GGATGCCTTTGTGGCTA-TCTTTGT
* * * *
219920 TAAATGGATGCC-TAGTGGCTATTCTCTATTAAATGGACG-CTTTGAGGCTATTCTATGTTAAAT
1 TAAATGGATGCCTTA-TGGCTATTCTCTGTTAAATGGATGCCTTTGTGGCTATTCTCTGTTAAAT
* *
219983 GGATACCTTTGGGGCTATCTTTGT
65 GGATGCCTTTGTGGCTATCTTTGT
* * * * * *
220007 TAAATGGAAGCCTTTATGACTATTCTCTGTTAAATGGATGCCCTTGTAGCTATTCTCT-ATAAAA
1 TAAATGGATGCC-TTATGGCTATTCTCTGTTAAATGGATGCCTTTGTGGCTATTCTCTGTTAAAT
* *
220071 GGATGCCCTTGTGGCTACCTTTG-
65 GGATGCCTTTGTGGCTATCTTTGT
*
220094 TGAATGGATGCCT
1 TAAATGGATGCCT
220107 GTGTAAAAGG
Statistics
Matches: 157, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
86 2 0.01
87 45 0.29
88 95 0.61
89 15 0.10
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (88 bp):
TAAATGGATGCCTTATGGCTATTCTCTGTTAAATGGATGCCTTTGTGGCTATTCTCTGTTAAATG
GATGCCTTTGTGGCTATCTTTGT
Found at i:222207 original size:30 final size:30
Alignment explanation
Indices: 222166--222472 Score: 265
Period size: 30 Copynumber: 10.3 Consensus size: 30
222156 CTTCTACAAA
* *
222166 AATATCCACAAAGGCTTCCATTTAACAAAG
1 AATAGCCACAAAGGCTTCCATTTAACAGAG
* *
222196 AATAGCCACAAAGGCTTCCATCTAACAAAG
1 AATAGCCACAAAGGCTTCCATTTAACAGAG
* * * * *
222226 AATAGACTCAAAGACTTCCATCTAATAGAG
1 AATAGCCACAAAGGCTTCCATTTAACAGAG
* * ** *
222256 AACAACCAGGAAGGCTTCCATTTAATAGAG
1 AATAGCCACAAAGGCTTCCATTTAACAGAG
* * * *
222286 AACAACCAGAAAGGCTTCCATTTAATAGAG
1 AATAGCCACAAAGGCTTCCATTTAACAGAG
* * *
222316 AATAGCCAAAAAGGCTTCCATCTAACAAAG
1 AATAGCCACAAAGGCTTCCATTTAACAGAG
* * * *
222346 AATAGACACAAAGACTTCCATCTAATAGAG
1 AATAGCCACAAAGGCTTCCATTTAACAGAG
* * ** *
222376 AACAACCAGGAAGGCTTCCATTTAATAGAG
1 AATAGCCACAAAGGCTTCCATTTAACAGAG
* * * *
222406 AACAACCAGAAAGGCTTCCATTTAACGGAG
1 AATAGCCACAAAGGCTTCCATTTAACAGAG
* * * *
222436 AATAGCCAAAAAGGTTTCCATTCAACAAAG
1 AATAGCCACAAAGGCTTCCATTTAACAGAG
222466 -ATAGCCA
1 AATAGCCA
222473 AAAAAGCTCA
Statistics
Matches: 233, Mismatches: 44, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
29 7 0.03
30 226 0.97
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (30 bp):
AATAGCCACAAAGGCTTCCATTTAACAGAG
Found at i:222318 original size:120 final size:120
Alignment explanation
Indices: 222175--222466 Score: 514
Period size: 120 Copynumber: 2.4 Consensus size: 120
222165 AAATATCCAC
* * *
222175 AAAGGCTTCCATTTAACAAAGAATAGCCACAAAGGCTTCCATCTAACAAAGAATAGACTCAAAGA
1 AAAGGCTTCCATTTAACAGAGAATAGCCAAAAAGGCTTCCATCTAACAAAGAATAGACACAAAGA
222240 CTTCCATCTAATAGAGAACAACCAGGAAGGCTTCCATTTAATAGAGAACAACCAG
66 CTTCCATCTAATAGAGAACAACCAGGAAGGCTTCCATTTAATAGAGAACAACCAG
*
222295 AAAGGCTTCCATTTAATAGAGAATAGCCAAAAAGGCTTCCATCTAACAAAGAATAGACACAAAGA
1 AAAGGCTTCCATTTAACAGAGAATAGCCAAAAAGGCTTCCATCTAACAAAGAATAGACACAAAGA
222360 CTTCCATCTAATAGAGAACAACCAGGAAGGCTTCCATTTAATAGAGAACAACCAG
66 CTTCCATCTAATAGAGAACAACCAGGAAGGCTTCCATTTAATAGAGAACAACCAG
* *
222415 AAAGGCTTCCATTTAACGGAGAATAGCCAAAAAGGTTTCCAT-TCAACAAAGA
1 AAAGGCTTCCATTTAACAGAGAATAGCCAAAAAGGCTTCCATCT-AACAAAGA
222467 TAGCCAAAAA
Statistics
Matches: 164, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
119 1 0.01
120 163 0.99
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (120 bp):
AAAGGCTTCCATTTAACAGAGAATAGCCAAAAAGGCTTCCATCTAACAAAGAATAGACACAAAGA
CTTCCATCTAATAGAGAACAACCAGGAAGGCTTCCATTTAATAGAGAACAACCAG
Found at i:222933 original size:30 final size:30
Alignment explanation
Indices: 222876--222933 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
222866 CAGACATATG
* *
222876 CTGACTTACACTTGACAGACTCATTCACAT
1 CTGACTTACACTTGACAAACCCATTCACAT
* *
222906 CTGACTTACTCTTGACAAACCCTTTCAC
1 CTGACTTACACTTGACAAACCCATTCAC
222934 GATAGTCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.31
Consensus pattern (30 bp):
CTGACTTACACTTGACAAACCCATTCACAT
Found at i:228050 original size:12 final size:10
Alignment explanation
Indices: 228019--228043 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
228009 CTACATCCTT
228019 TTCACATAGG
1 TTCACATAGG
228029 TTCACATAGG
1 TTCACATAGG
228039 TTCAC
1 TTCAC
228044 CCATAGGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (10 bp):
TTCACATAGG
Found at i:229613 original size:68 final size:69
Alignment explanation
Indices: 229487--229621 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 69
229477 TTATTAAATT
* * * * * *
229487 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATAAAAGTAATAAAACATCTATCAAGATAAATATTAAATTAAATTTAATATT
229552 AAGA
66 AAGA
* * * *
229556 TAATTACTTTAATATAAAAGTAATAAAACA-CTATTAAGATAAGTATTAAATTTAATTTAATATT
1 TAATCACTTTAATATAAAAGTAATAAAACATCTATCAAGATAAATATTAAATTAAATTTAATATT
229620 AA
66 AA
229622 ACTATTAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
68 31 0.55
69 25 0.45
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (69 bp):
TAATCACTTTAATATAAAAGTAATAAAACATCTATCAAGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:238736 original size:49 final size:49
Alignment explanation
Indices: 238681--238780 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
238671 ATATCTTACT
* *
238681 ACAAAAGTAATGGGACTAAAAATGCAGATAAATCTAAGTTACAGTGATA
1 ACAAAAGTAATGGGACTAAAAATGCAAATAAATCTAAGCTACAGTGATA
*
238730 ACAAAAGTAATGGGACTAAAAGTGCAAATAAATCTAAGCTACAGTGATA
1 ACAAAAGTAATGGGACTAAAAATGCAAATAAATCTAAGCTACAGTGATA
238779 AC
1 AC
238781 TAACTTAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (49 bp):
ACAAAAGTAATGGGACTAAAAATGCAAATAAATCTAAGCTACAGTGATA
Found at i:244172 original size:50 final size:48
Alignment explanation
Indices: 244048--244284 Score: 149
Period size: 50 Copynumber: 4.7 Consensus size: 48
244038 ATAGATCCCA
* *
244048 TGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGGTCCC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATGAAAGGT-CC
* * *
244103 ATGTAAGTCCATGTTTGGGACATGGCGTTGGCACCGAGATGAAAGGTCTC
1 -TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTC-C
* * *
244153 TCGTAAGACCATGTCTGGGATATGGCA-TGAGCACCGATATGAGAA-CTCC
1 T-GTAAGACCATGTCTGGGACATGGCATTG-GCACCGAGATGA-AAGGTCC
* * * * **
244202 TGTGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGAAACATCCC
1 --TGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAAAGGT-CC
* *
244252 ATGTAAGACCATGCCTGGGACATGGCTTTGGCA
1 -TGTAAGACCATGTCTGGGACATGGCATTGGCA
244285 TGTTATTATC
Statistics
Matches: 151, Mismatches: 20, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
48 3 0.02
49 38 0.25
50 72 0.48
51 5 0.03
52 1 0.01
53 2 0.01
55 1 0.01
56 29 0.19
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTCC
Found at i:252460 original size:12 final size:12
Alignment explanation
Indices: 252433--252472 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
252423 TTCTTTAATG
252433 TTATAGTAATATT
1 TTATAGTAA-ATT
252446 TTATAGTAAATT
1 TTATAGTAAATT
*
252458 TTAGTAATAAATT
1 TTA-TAGTAAATT
252471 TT
1 TT
252473 TTGATTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (12 bp):
TTATAGTAAATT
Found at i:253022 original size:21 final size:22
Alignment explanation
Indices: 252981--253023 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
252971 TAAATTAATT
* *
252981 CATTAAAATTGTAAAATATAAC
1 CATTAAAAATGTAAAACATAAC
253003 CATTAAAAAT-TAAAACATAAC
1 CATTAAAAATGTAAAACATAAC
253024 TAACAAGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (22 bp):
CATTAAAAATGTAAAACATAAC
Found at i:255594 original size:19 final size:19
Alignment explanation
Indices: 255551--255609 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
255541 TTTGATTTTT
255551 TTTAAAATAAAAAT-TCTGAAA
1 TTTAAAATAAAAATAT-T--AA
255572 TTTAAAATAAAAATATTAA
1 TTTAAAATAAAAATATTAA
* * *
255591 TTTAACATTAAACTATTAA
1 TTTAAAATAAAAATATTAA
255610 AAAAGACATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 18 0.53
21 15 0.44
22 1 0.03
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (19 bp):
TTTAAAATAAAAATATTAA
Found at i:259546 original size:16 final size:16
Alignment explanation
Indices: 259504--259550 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
259494 ATACTCACCC
259504 TTTATTGAAT-TAATAT
1 TTTATTGAATATAAT-T
*
259520 TTTAATGAATATAATT
1 TTTATTGAATATAATT
*
259536 TTTATTTAATA-AATT
1 TTTATTGAATATAATT
259551 ATGATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 4 0.15
16 19 0.70
17 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
TTTATTGAATATAATT
Found at i:260509 original size:17 final size:18
Alignment explanation
Indices: 260476--260519 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
260466 GGTTACAATG
260476 AGATGAAAGGTTTAAGGA
1 AGATGAAAGGTTTAAGGA
* *
260494 AGATGGAAGG-TTAAGGG
1 AGATGAAAGGTTTAAGGA
260511 AGATGAAAG
1 AGATGAAAG
260520 ATGAAAGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.39, T:0.18
Consensus pattern (18 bp):
AGATGAAAGGTTTAAGGA
Found at i:261496 original size:45 final size:44
Alignment explanation
Indices: 261278--261509 Score: 259
Period size: 45 Copynumber: 5.2 Consensus size: 44
261268 TTGGAAATAT
* * * ** * **
261278 AGGTGGATGCTATGTGCTGATTCCACTCGATATTAATGAAAATAA
1 AGGTGGTTGCTATGTGCTGATTTCAC-CGGTACCATTGAGTATAA
* * *
261323 ATGTGGTTGCTATGTGCTGATTTCACCGGATACCAATG-GTTATAT
1 AGGTGGTTGCTATGTGCTGATTTCACCGG-TACCATTGAG-TATAA
261368 AGGTGGTTGCTATGTGCTGATTTCACCCGGTACCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCA-CCGGTACCATTGAGTATAA
* *
261413 AGGTGGTTTCTATGTGCTAATTTCACCCGGTACCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCA-CCGGTACCATTGAGTATAA
* *
261458 AGGTGGTTGCTATGTGCTGATTTCACCGAGTACTATTGACTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCG-GTACCATTGAGTATAA
*
261503 GGGTGGT
1 AGGTGGT
261510 GTTGTGTGTT
Statistics
Matches: 163, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
44 5 0.03
45 153 0.94
46 5 0.03
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (44 bp):
AGGTGGTTGCTATGTGCTGATTTCACCGGTACCATTGAGTATAA
Found at i:268632 original size:740 final size:737
Alignment explanation
Indices: 266653--268695 Score: 3329
Period size: 737 Copynumber: 2.8 Consensus size: 737
266643 TGAGTTGTAA
* *
266653 CAAACAAAATTTGTCTCTATTTTCTTATTGTTATCCTTCAATGATTGTTGATATAGTTATACAAG
1 CAAACAAAATTTGTCTCTATTTTCTTCTTTTTATCCTTCAATGATTGTTGATATAGTTATACAAG
*
266718 ATGCTTT-AGTGTACGACAAGTACGGGACCAATGGTTTTTACCTTCACAACGATAACACAAACTT
66 ATGCTTTGA-TGTACGACAAGTACGGGACTAATGGTTTTTACCTTCACAACGATAACACAAACTT
* *
266782 TCCACTTTCCCAGTTGTATTTTTATCATTCTTTCCATCCTTATGATCCTAGTTCTAGTGGGTATT
130 TCCACTTTCCTAGTTGTATTTTTATCATTCTTTCCATCCTTATGATCCCAGTTCTAGTGGGTATT
266847 CTTGAAATGACCACCTCGCTGACGTCCACGTCCACGTCCTCGACCTTGACTGTGACCACGACCAC
195 CTTGAAATGACCACCTCGCT----T--ACGTCCACGTCCTCGACCTTGACTGTGACCACGACCAC
* *
266912 GATCATGTCCTCAACCACAACTACTAGTGTGGCCTTTATCTGTTTCACTATATGATGTCACATTT
254 GACCATGTCCTCAACCACAACTACTAGTGTGGCCTTTATCTGTTTCACTATATGATGTCACATTC
* * *
266977 GCTTTAGAGATTGGAGTAGAGTCAGTTGGACATGACTCAAGATTTTTCATTAACAGTTTATTATT
319 GCTTCAGAGATTGGAGTAGAGTCAGTTGGACATGACTCATGATTTTTCATTAACAGTTCATTATT
* * *
267042 TTGCTTAGCCAGAAGAAGGCAAGATATTAATTCAGAATATTTCTTAAAACCTTTTTCACGATATT
384 TTGCTCAGCCAGAAGAAGACAATATATTAATTCAGAATATTTCTTAAAACC-TTTTCACGATATT
* *
267107 GTGTCTACAGGACAACATTATTTACGTGAAATATGGAGTATGTTTTTTCTAACATATCTTCATCT
448 GTGTCTACAGGACAACATTATTTACGTGAAATGTGGAGTATGTTTTTTCTAACATATCTTCATCA
267172 GTTATGTTCTCTCCACATAATTTCAATTGGGAAGTGATTCTAAATATTTTAAAACATAATATAAT
513 GTTATGTTCTCTCCACATAATTTCAATTGGGAAGTGATTCTAAATATTTTAAAACATAATATAAT
* * *
267237 AATCATGTTGTTAAAAACATAACAAACTTGCATAACATTTATTCTTTAAAACTATAATAATAAAA
578 AATCATGTTGTTAAAAACATAACAAAATTGCATAAAATTTACTCTTTAAAACTATAATAATAAAA
* *
267302 TTAAAAGATCAATTATTCCCTTTAGGGGTGGTGAAGAAATTGACAACTTTCAAATGAGTTGTACC
643 TTAAAAGATCAATTATTCCCTTTAGGGGTGGTGAAGAAATTAACAACTTCCAAATGAGTTGTACC
*
267367 AACGATGCCATAATCATCTTTATCATTCTC
708 AACAATGCCATAATCATCTTTATCATTCTC
* * * * ** *
267397 AAAAAAAAAATTGTCTTTATTTTCTTCTTTAAATACTTCAATGATTGTTGATATAGTTATACAAG
1 CAAACAAAATTTGTCTCTATTTTCTTCTTTTTATCCTTCAATGATTGTTGATATAGTTATACAAG
* *
267462 ATGCTTTGGTGTACGACAACTACGGGA-TCAATGGTTTTTACCTTCACAACGATAACACAAACTT
66 ATGCTTTGATGTACGACAAGTACGGGACT-AATGGTTTTTACCTTCACAACGATAACACAAACTT
* *
267526 TCCACTTTCCTAGTTGTA-TTTTATCATTCTTTCCATCCTTATGATCCCAGTACTAGTGTGTATT
130 TCCACTTTCCTAGTTGTATTTTTATCATTCTTTCCATCCTTATGATCCCAGTTCTAGTGGGTATT
* * * *
267590 CTTGAAATGACCACCTCGCTTACGTCTACGTCCTCAACCTTGACCGTGACCATGACCACGACCAT
195 CTTGAAATGACCACCTCGCTTACGTCCACGTCCTCGACCTTGACTGTGACCACGACCACGACCAT
*
267655 GTCCTCAACCACAACTACTAGTGTGGCCTTTATCTGTTTCACTACATTG-TGTCACATTCGCTTC
260 GTCCTCAACCACAACTACTAGTGTGGCCTTTATCTGTTTCACTATA-TGATGTCACATTCGCTTC
* *
267719 AGAGATTGGAGTAGAGTCAGTTGGACATGACTCATGATTTTTCATTAATAGCTCATTATTTTGCT
324 AGAGATTGGAGTAGAGTCAGTTGGACATGACTCATGATTTTTCATTAACAGTTCATTATTTTGCT
* *
267784 CGGCCAAAAGAAGACAATATATTAATTCAGAATATTTCTTAAAACCTTTGTCACGATATTGTGTC
389 CAGCCAGAAGAAGACAATATATTAATTCAGAATATTTCTTAAAACCTTT-TCACGATATTGTGTC
** * *
267849 TGTAAGACAACATTATTTACGTGAAATGTGGAGTATGTTTTTTCTAACATATCCTCATCAGTTAT
453 TACAGGACAACATTATTTACGTGAAATGTGGAGTATGTTTTTTCTAACATATCTTCATCAGTTAT
*
267914 GTTCTCTCCACATAATTTCAATTGGGAAGTGATTTTAAATATTTTAAAACATAATATAATAATCA
518 GTTCTCTCCACATAATTTCAATTGGGAAGTGATTCTAAATATTTTAAAACATAATATAATAATCA
*
267979 TGTTGTTAAAAATATAACAAAATTGCATAAAATTTACTCTTTAAAACTATAATAATAAAATTAAA
583 TGTTGTTAAAAACATAACAAAATTGCATAAAATTTACTCTTTAAAACTATAATAATAAAATTAAA
* *
268044 ATATCAATTATTCCCTTTAGGGGTGGTGAAGAAATTAACAGCTTCCAAATGAGTTGTACCAACAA
648 AGATCAATTATTCCCTTTAGGGGTGGTGAAGAAATTAACAACTTCCAAATGAGTTGTACCAACAA
* *
268109 TGCCATAGTCATCTTTGTCATTCTCC
713 TGCCATAATCATCTTTATCATTCT-C
* *
268135 CAAACAAAATTTGTCTCTATTTTCTTCTTTTTATCCTTCAATCATTGTTGATATAGCTATACAAG
1 CAAACAAAATTTGTCTCTATTTTCTTCTTTTTATCCTTCAATGATTGTTGATATAGTTATACAAG
* **
268200 ATGCTTTGATGTATGACAAGTGTGGGACTAATGGTTTTTACCTTCACAACGATAACACAAACTTT
66 ATGCTTTGATGTACGACAAGTACGGGACTAATGGTTTTTACCTTCACAACGATAACACAAACTTT
* *
268265 TCACTTTTCTAGTTGTATTTTTTATCATTCTTTCCATCCTTATGATCCCAGTTCTAGTGGGTATT
131 CCACTTTCCTAGTTGTA-TTTTTATCATTCTTTCCATCCTTATGATCCCAGTTCTAGTGGGTATT
268330 CTTGAAATGACCACCTCGCTTACGTCCACGTCCTCGACCTTGACTGTGACCACGACCACGACCAT
195 CTTGAAATGACCACCTCGCTTACGTCCACGTCCTCGACCTTGACTGTGACCACGACCACGACCAT
* * *
268395 GTCCTCAACCACGACTACTAGTGTGGCGTTTATCTGTTTCAGTATATGATGTCACATTCGCTTCA
260 GTCCTCAACCACAACTACTAGTGTGGCCTTTATCTGTTTCACTATATGATGTCACATTCGCTTCA
* *
268460 GAGATTGGAGTAGAGTCAGTTGAACATGACTCATGATTTTTCATTAACAGTTCATTATTTAGCTC
325 GAGATTGGAGTAGAGTCAGTTGGACATGACTCATGATTTTTCATTAACAGTTCATTATTTTGCTC
* *
268525 ATCCAGAAGAAGACAATATATTAATTCAAAATATTTCTTAAAACCTTTTCACGATATTGTGTCTA
390 AGCCAGAAGAAGACAATATATTAATTCAGAATATTTCTTAAAACCTTTTCACGATATTGTGTCTA
268590 CAGGACAACATTATTTACGTGAAATGTGGAGTATGTTTTTTTCTAACATATCTTCATCAGTTATG
455 CAGGACAACATTATTTACGTGAAATGTGGAGTATG-TTTTTTCTAACATATCTTCATCAGTTATG
* *
268655 TTCTCTCGACATAATTTCAATTGGGAAGTGAGTCTAAATAT
519 TTCTCTCCACATAATTTCAATTGGGAAGTGATTCTAAATAT
268696 AGTCGAGTTA
Statistics
Matches: 1197, Mismatches: 92, Indels: 24
0.91 0.07 0.02
Matches are distributed among these distances:
736 3 0.00
737 480 0.40
738 132 0.11
739 53 0.04
740 334 0.28
743 63 0.05
744 132 0.11
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (737 bp):
CAAACAAAATTTGTCTCTATTTTCTTCTTTTTATCCTTCAATGATTGTTGATATAGTTATACAAG
ATGCTTTGATGTACGACAAGTACGGGACTAATGGTTTTTACCTTCACAACGATAACACAAACTTT
CCACTTTCCTAGTTGTATTTTTATCATTCTTTCCATCCTTATGATCCCAGTTCTAGTGGGTATTC
TTGAAATGACCACCTCGCTTACGTCCACGTCCTCGACCTTGACTGTGACCACGACCACGACCATG
TCCTCAACCACAACTACTAGTGTGGCCTTTATCTGTTTCACTATATGATGTCACATTCGCTTCAG
AGATTGGAGTAGAGTCAGTTGGACATGACTCATGATTTTTCATTAACAGTTCATTATTTTGCTCA
GCCAGAAGAAGACAATATATTAATTCAGAATATTTCTTAAAACCTTTTCACGATATTGTGTCTAC
AGGACAACATTATTTACGTGAAATGTGGAGTATGTTTTTTCTAACATATCTTCATCAGTTATGTT
CTCTCCACATAATTTCAATTGGGAAGTGATTCTAAATATTTTAAAACATAATATAATAATCATGT
TGTTAAAAACATAACAAAATTGCATAAAATTTACTCTTTAAAACTATAATAATAAAATTAAAAGA
TCAATTATTCCCTTTAGGGGTGGTGAAGAAATTAACAACTTCCAAATGAGTTGTACCAACAATGC
CATAATCATCTTTATCATTCTC
Found at i:269583 original size:18 final size:18
Alignment explanation
Indices: 269560--269594 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
269550 GGTTACAAAG
*
269560 AGATGAAATGTTTAAGGA
1 AGATGAAATGTTAAAGGA
269578 AGATGAAATGTTAAAGG
1 AGATGAAATGTTAAAGG
269595 TTAAAGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.26
Consensus pattern (18 bp):
AGATGAAATGTTAAAGGA
Found at i:269625 original size:24 final size:24
Alignment explanation
Indices: 269597--269651 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
269587 GTTAAAGGTT
269597 AAAGGTTAAAGAAAATGAAAGATG
1 AAAGGTTAAAGAAAATGAAAGATG
* * * * *
269621 GAAGGTCAAGGGAGATGAAAGATG
1 AAAGGTTAAAGAAAATGAAAGATG
269645 AAAGGTT
1 AAAGGTT
269652 GAACATCCAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.33, T:0.16
Consensus pattern (24 bp):
AAAGGTTAAAGAAAATGAAAGATG
Found at i:270048 original size:20 final size:21
Alignment explanation
Indices: 270015--270053 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
270005 ATATAATTAG
*
270015 ATTTTTTAAAAA-TTAAAAAT
1 ATTTTATAAAAATTTAAAAAT
*
270035 ATTTTATAATAATTTAAAA
1 ATTTTATAAAAATTTAAAA
270054 CATAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTTATAAAAATTTAAAAAT
Found at i:273191 original size:11 final size:11
Alignment explanation
Indices: 273175--273199 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
273165 TAGACTTGTA
273175 ATCCAACTTGC
1 ATCCAACTTGC
273186 ATCCAACTTGC
1 ATCCAACTTGC
273197 ATC
1 ATC
273200 TGAGTAACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.28
Consensus pattern (11 bp):
ATCCAACTTGC
Found at i:275181 original size:53 final size:53
Alignment explanation
Indices: 275095--275203 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 53
275085 AGTCGTCTAT
* * *
275095 AAAAGTGATAAAATATCATTTTCCACCTTTTGTTAGTTTTCTATTTAATTCAC
1 AAAAGTGATAAAATATCATTTTCCACCTCTTGTTAGTGTTCCATTTAATTCAC
* *
275148 AAAATTGATAAAATATCGTTTTCCACCTCTTGTTAGTGTTCCATTTAATTCAC
1 AAAAGTGATAAAATATCATTTTCCACCTCTTGTTAGTGTTCCATTTAATTCAC
275201 AAA
1 AAA
275204 CATTCGAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (53 bp):
AAAAGTGATAAAATATCATTTTCCACCTCTTGTTAGTGTTCCATTTAATTCAC
Found at i:278682 original size:777 final size:777
Alignment explanation
Indices: 277188--278698 Score: 3022
Period size: 777 Copynumber: 1.9 Consensus size: 777
277178 ATCAAATGCA
277188 ATTTCAAAATGGTCATACACAAATTGACTTTGAGTTATGACCAACGTCTTAGCATCATTAGCTAC
1 ATTTCAAAATGGTCATACACAAATTGACTTTGAGTTATGACCAACGTCTTAGCATCATTAGCTAC
277253 GGATCAAAACCAGTGAGAAATGCACACAGAGTGTCCCATGGAGATTAACTGATTAAATGGGGCTC
66 GGATCAAAACCAGTGAGAAATGCACACAGAGTGTCCCATGGAGATTAACTGATTAAATGGGGCTC
277318 ATTTGACCCATTTGAATTGGCTCGATTCATGGAATGTATGGAGAAACCCATCTACTTGAAGCCTT
131 ATTTGACCCATTTGAATTGGCTCGATTCATGGAATGTATGGAGAAACCCATCTACTTGAAGCCTT
277383 GGTGGCCCAATGAAATACTTCAATAAAACTAAAGTTACCAGGGTAATTATTGTAAATCTTAAGAG
196 GGTGGCCCAATGAAATACTTCAATAAAACTAAAGTTACCAGGGTAATTATTGTAAATCTTAAGAG
277448 ATAAGATTGTATAGAGTTTAAATCTCTTAGGACTCTAATATTTTAGATAGGCACTAATCTCAGTT
261 ATAAGATTGTATAGAGTTTAAATCTCTTAGGACTCTAATATTTTAGATAGGCACTAATCTCAGTT
277513 GTTGATGTAATTCAATCTGTACCGTTGGATCTTGAACAATTAAAATATAAACAGAGGCCATCCCC
326 GTTGATGTAATTCAATCTGTACCGTTGGATCTTGAACAATTAAAATATAAACAGAGGCCATCCCC
277578 TTTATTTGTAATCATTTTATTGTATTCCATTCAAAGTAAGAGAATACTTTTGAGAGAATTTACTC
391 TTTATTTGTAATCATTTTATTGTATTCCATTCAAAGTAAGAGAATACTTTTGAGAGAATTTACTC
277643 AAACACTTGGTGTGTTATTATTTCTTGTGGCTTTTTTGTTCGATTCAAGTCCATTTGTCTTTCCA
456 AAACACTTGGTGTGTTATTATTTCTTGTGGCTTTTTTGTTCGATTCAAGTCCATTTGTCTTTCCA
277708 AGTTGCTTTTTCTTTATCTTGGTGAATTAGAGAATTTCCTTTGTGAATTATCACTTTTCAAGAGT
521 AGTTGCTTTTTCTTTATCTTGGTGAATTAGAGAATTTCCTTTGTGAATTATCACTTTTCAAGAGT
277773 TAGGCGGATTTGAAACAAAGAAATCGCCTAAGTCACACGATTTGCCAGAATAAAGTTTTAGCCCC
586 TAGGCGGATTTGAAACAAAGAAATCGCCTAAGTCACACGATTTGCCAGAATAAAGTTTTAGCCCC
277838 GTGACATTAGTAGGTTCTAAATGCATTAGAATGATATAAGTGCATTACCACATTGTTTCAGTTCC
651 GTGACATTAGTAGGTTCTAAATGCATTAGAATGATATAAGTGCATTACCACATTGTTTCAGTTCC
277903 AAACAAGCTTAGTACTATGACGATTTGCCAGACTAAAGTTCTAGCCCCGTGAATTAGTAGGT
716 AAACAAGCTTAGTACTATGACGATTTGCCAGACTAAAGTTCTAGCCCCGTGAATTAGTAGGT
277965 ATTTCAAAATGGTCATACACAAATTGACTTTGAGTTATGACCAACGTCTTAGCATCATTAGCTAC
1 ATTTCAAAATGGTCATACACAAATTGACTTTGAGTTATGACCAACGTCTTAGCATCATTAGCTAC
278030 GGATCAAAACCAGTGAGAAATGCACACAGAGTGTCCCATGGAGATTAACTGATTAAATGGGGCTC
66 GGATCAAAACCAGTGAGAAATGCACACAGAGTGTCCCATGGAGATTAACTGATTAAATGGGGCTC
278095 ATTTGACCCATTTGAATTGGCTCGATTCATGGAATGTATGGAGAAACCCATCTACTTGAAGCCTT
131 ATTTGACCCATTTGAATTGGCTCGATTCATGGAATGTATGGAGAAACCCATCTACTTGAAGCCTT
278160 GGTGGCCCAATGAAATACTTCAATAAAACTAAAGTTACCAGGGTAATTATTGTAAATCTTAAGAG
196 GGTGGCCCAATGAAATACTTCAATAAAACTAAAGTTACCAGGGTAATTATTGTAAATCTTAAGAG
278225 ATAAGATTGTATAGAGTTTAAATCTCTTAGGACTCTAATATTTTAGATAGGCACTAATCTCAGTT
261 ATAAGATTGTATAGAGTTTAAATCTCTTAGGACTCTAATATTTTAGATAGGCACTAATCTCAGTT
278290 GTTGATGTAATTCAATCTGTACCGTTGGATCTTGAACAATTAAAATATAAACAGAGGCCATCCCC
326 GTTGATGTAATTCAATCTGTACCGTTGGATCTTGAACAATTAAAATATAAACAGAGGCCATCCCC
278355 TTTATTTGTAATCATTTTATTGTATTCCATTCAAAGTAAGAGAATACTTTTGAGAGAATTTACTC
391 TTTATTTGTAATCATTTTATTGTATTCCATTCAAAGTAAGAGAATACTTTTGAGAGAATTTACTC
278420 AAACACTTGGTGTGTTATTATTTCTTGTGGCTTTTTTGTTCGATTCAAGTCCATTTGTCTTTCCA
456 AAACACTTGGTGTGTTATTATTTCTTGTGGCTTTTTTGTTCGATTCAAGTCCATTTGTCTTTCCA
278485 AGTTGCTTTTTCTTTATCTTGGTGAATTAGAGAATTTCCTTTGTGAATTATCACTTTTCAAGAGT
521 AGTTGCTTTTTCTTTATCTTGGTGAATTAGAGAATTTCCTTTGTGAATTATCACTTTTCAAGAGT
278550 TAGGCGGATTTGAAACAAAGAAATCGCCTAAGTCACACGATTTGCCAGAATAAAGTTTTAGCCCC
586 TAGGCGGATTTGAAACAAAGAAATCGCCTAAGTCACACGATTTGCCAGAATAAAGTTTTAGCCCC
278615 GTGACATTAGTAGGTTCTAAATGCATTAGAATGATATAAGTGCATTACCACATTGTTTCAGTTCC
651 GTGACATTAGTAGGTTCTAAATGCATTAGAATGATATAAGTGCATTACCACATTGTTTCAGTTCC
278680 AAACAAGCTTAGTACTATG
716 AAACAAGCTTAGTACTATG
278699 TTGAAATCAT
Statistics
Matches: 734, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
777 734 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (777 bp):
ATTTCAAAATGGTCATACACAAATTGACTTTGAGTTATGACCAACGTCTTAGCATCATTAGCTAC
GGATCAAAACCAGTGAGAAATGCACACAGAGTGTCCCATGGAGATTAACTGATTAAATGGGGCTC
ATTTGACCCATTTGAATTGGCTCGATTCATGGAATGTATGGAGAAACCCATCTACTTGAAGCCTT
GGTGGCCCAATGAAATACTTCAATAAAACTAAAGTTACCAGGGTAATTATTGTAAATCTTAAGAG
ATAAGATTGTATAGAGTTTAAATCTCTTAGGACTCTAATATTTTAGATAGGCACTAATCTCAGTT
GTTGATGTAATTCAATCTGTACCGTTGGATCTTGAACAATTAAAATATAAACAGAGGCCATCCCC
TTTATTTGTAATCATTTTATTGTATTCCATTCAAAGTAAGAGAATACTTTTGAGAGAATTTACTC
AAACACTTGGTGTGTTATTATTTCTTGTGGCTTTTTTGTTCGATTCAAGTCCATTTGTCTTTCCA
AGTTGCTTTTTCTTTATCTTGGTGAATTAGAGAATTTCCTTTGTGAATTATCACTTTTCAAGAGT
TAGGCGGATTTGAAACAAAGAAATCGCCTAAGTCACACGATTTGCCAGAATAAAGTTTTAGCCCC
GTGACATTAGTAGGTTCTAAATGCATTAGAATGATATAAGTGCATTACCACATTGTTTCAGTTCC
AAACAAGCTTAGTACTATGACGATTTGCCAGACTAAAGTTCTAGCCCCGTGAATTAGTAGGT
Found at i:278971 original size:88 final size:87
Alignment explanation
Indices: 278790--279051 Score: 265
Period size: 87 Copynumber: 3.0 Consensus size: 87
278780 TATATCATAT
* * * * * *
278790 TATATATAAATAACTTTAAATTATAAGACCTCTCTTATGAATTTCTTCAAATGAAGAAACTCTAA
1 TATATAAAAATAACTTCAAACTATAAGACCTCACTCATGAATTTCTTCAAATGAAAAAACTCTAA
*
278855 AGAGCTCATAAAAATAGTGAGG
66 AAAGCTCATAAAAATAGTGAGG
* * * * *
278877 TGTATAAAAATAACTTCGAACTATAAGCCCTCACTCATTAATTTCTTTAAATGAAAAAAACTCTA
1 TATATAAAAATAACTTCAAACTATAAGACCTCACTCATGAATTTCTTCAAATG-AAAAAACTCTA
** *
278942 AAAAGCTCATGCAAATAGTGTGG
65 AAAAGCTCATAAAAATAGTGAGG
** * * * * *
278965 TATATAAAAATATTTTTAAACTATAAGTCCTCTCTCATGAACTTT-TTCAATTGAAGAAACTCTA
1 TATATAAAAATAACTTCAAACTATAAGACCTCACTCATGAA-TTTCTTCAAATGAAAAAACTCTA
** * *
279029 AGGAGATTATAAAAATAGTGAGG
65 AAAAGCTCATAAAAATAGTGAGG
279052 AAGTCGACAC
Statistics
Matches: 140, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
87 69 0.49
88 68 0.49
89 3 0.02
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (87 bp):
TATATAAAAATAACTTCAAACTATAAGACCTCACTCATGAATTTCTTCAAATGAAAAAACTCTAA
AAAGCTCATAAAAATAGTGAGG
Found at i:279283 original size:31 final size:29
Alignment explanation
Indices: 279229--279288 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
279219 ATAAATAATT
* *
279229 AAAAATTAAATAAAAAAGAGAAAGTTTTA
1 AAAAATTAAATAAAAAAAAGAAAGATTTA
*
279258 AAAAATTACATACAAAAAAATGAAAGATTTA
1 AAAAATTAAATA-AAAAAAA-GAAAGATTTA
279289 TATTCTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 11 0.42
30 6 0.23
31 9 0.35
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.23
Consensus pattern (29 bp):
AAAAATTAAATAAAAAAAAGAAAGATTTA
Found at i:285632 original size:99 final size:99
Alignment explanation
Indices: 285511--285707 Score: 349
Period size: 99 Copynumber: 2.0 Consensus size: 99
285501 GGGGAGACAT
*
285511 GACCGTGTCACATGGCCCTGTGTCACACACGGCTAAGACACACACCCTTATCTTAGGCCATGTGG
1 GACCGTGTCACATGGCCCTGTGTCACACACGGCTAAGACACACACCCGTATCTTAGGCCATGTGG
285576 ATAAGAAATAGGTCAAATTCAAGCCATTTCTTTC
66 ATAAGAAATAGGTCAAATTCAAGCCATTTCTTTC
* * **
285610 GACCGTGTCTCATGGCCCTGTGTCACACACGGCTAAGACACACACCCGTGTCTTAGGCTGTGTGG
1 GACCGTGTCACATGGCCCTGTGTCACACACGGCTAAGACACACACCCGTATCTTAGGCCATGTGG
285675 ATAAGAAATAGGTCAAATTCAAGCCATTTCTTT
66 ATAAGAAATAGGTCAAATTCAAGCCATTTCTTT
285708 TCAACCAATT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (99 bp):
GACCGTGTCACATGGCCCTGTGTCACACACGGCTAAGACACACACCCGTATCTTAGGCCATGTGG
ATAAGAAATAGGTCAAATTCAAGCCATTTCTTTC
Found at i:287659 original size:20 final size:20
Alignment explanation
Indices: 287634--287674 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
287624 ATAGTAAAAA
287634 AATTTACTTTATTTCAATTT
1 AATTTACTTTATTTCAATTT
287654 AATTTACTTTATTTCAATTT
1 AATTTACTTTATTTCAATTT
287674 A
1 A
287675 GTCATTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTACTTTATTTCAATTT
Found at i:290234 original size:12 final size:12
Alignment explanation
Indices: 290213--290245 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
290203 TCGATGCTTC
*
290213 AAATTGCTTGGA
1 AAATTTCTTGGA
290225 AAATTTCTTGGA
1 AAATTTCTTGGA
290237 AAATTTCTT
1 AAATTTCTT
290246 TTTAGGGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (12 bp):
AAATTTCTTGGA
Found at i:290267 original size:17 final size:17
Alignment explanation
Indices: 290238--290281 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
290228 TTTCTTGGAA
290238 AATTTCTTTTTAGGGGAT
1 AATTTC-TTTTAGGGGAT
290256 AATTTCTTTTAGGGGAT
1 AATTTCTTTTAGGGGAT
290273 AATTT-TTTT
1 AATTTCTTTT
290282 CCATTTAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 4 0.15
17 16 0.62
18 6 0.23
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.55
Consensus pattern (17 bp):
AATTTCTTTTAGGGGAT
Found at i:316940 original size:43 final size:43
Alignment explanation
Indices: 316890--317118 Score: 273
Period size: 43 Copynumber: 5.3 Consensus size: 43
316880 GTTATGTTTT
* * *
316890 TAGCGGCGTTT-TTGCGAAAAGCGCTGTTAAAGGTCATGATCTA
1 TAGCGGCGTTTATTG-GAAAAGCGCCGCTAAAGGTCATGGTCTA
* * * *
316933 TAGCGGCGTTTGTGGGAAAAGCGCCTCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTATTGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
316976 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGA-GGTCTA
1 TAGCGGCGTTTATTGGAAAAGCGCCGCTAAAGGTC-ATGGTCTA
* * * * *
317019 TAGCGGCGTTTCTTGGAAAAGCGCCGCCAAAGATCGTGGTTTA
1 TAGCGGCGTTTATTGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
317062 TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCATGGTATA
1 TAGCGGCGTTTATTGGAAAAGCGCCGCTAAAGGTCATGGTCTA
*
317105 TAGCGGTGTTTATT
1 TAGCGGCGTTTATT
317119 TCGAAAAACG
Statistics
Matches: 162, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
43 160 0.99
44 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTATTGGAAAAGCGCCGCTAAAGGTCATGGTCTA
Found at i:317037 original size:86 final size:86
Alignment explanation
Indices: 316890--317115 Score: 310
Period size: 86 Copynumber: 2.6 Consensus size: 86
316880 GTTATGTTTT
* * * * * *
316890 TAGCGGCGTTTTTGCGAAAAGCGCTGTTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTCTGGGAAAAGC
* * *
316955 GCCTCTAAAGGTCGTGGTCTA
66 GCCGCCAAAGATCGTGGTCTA
*
316976 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGA-GGTCTATAGCGGCGTTTCTTGGAAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-ATGGTCTATAGCGGCGTTTCTGGGAAAAG
*
317040 CGCCGCCAAAGATCGTGGTTTA
65 CGCCGCCAAAGATCGTGGTCTA
* * *
317062 TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCATGGTATATAGCGGTGTTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTT
317116 ATTTCGAAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
85 1 0.01
86 122 0.98
87 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.27
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTCTGGGAAAAGC
GCCGCCAAAGATCGTGGTCTA
Found at i:327708 original size:3 final size:3
Alignment explanation
Indices: 327700--327747 Score: 51
Period size: 3 Copynumber: 14.3 Consensus size: 3
327690 AGCAAATTAA
327700 AAT AAT AAT AAT AAT AAT AAT AAGT AAAT AAAT AAAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T -AAT -AAT -AAT -AAT AAT AAT
327747 A
1 A
327748 TAAGTTTGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 27 0.63
4 14 0.33
5 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:329423 original size:89 final size:89
Alignment explanation
Indices: 329317--329531 Score: 247
Period size: 89 Copynumber: 2.4 Consensus size: 89
329307 TAATTTATAA
* **
329317 CTTCAATCTGCTCCACTGCAACTTTAAGGAAATGAGATTTGCCATCTTCAGTCTACTCC-GCTAC
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAAATAAGATTTG-CATCTTCAACCTACTCCAG-TAC
329381 AACTTCAGGGAGACAAGACTTG-TAGT
64 AACTTCAGGGAGACAAGACTTGATA-T
* * * * * *
329407 -TTCAATCTGCCCCACTGCAACTTTAGGGGAATAAGATTTGTATCTTCAACCTGCTCCAGTGCAA
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAAATAAGATTTGCATCTTCAACCTACTCCAGTACAA
* **
329471 CTTCAGGGAGATAAGGTTTGATAT
66 CTTCAGGGAGACAAGACTTGATAT
* * *
329495 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAAATAAGA
329532 CTTGTAATGG
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
88 35 0.33
89 71 0.67
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTTAAGGAAATAAGATTTGCATCTTCAACCTACTCCAGTACAA
CTTCAGGGAGACAAGACTTGATAT
Found at i:329429 original size:44 final size:45
Alignment explanation
Indices: 329317--330749 Score: 545
Period size: 45 Copynumber: 31.8 Consensus size: 45
329307 TAATTTATAA
* * * * * *
329317 CTTCAATCTGCTCCACTGCAACTTTAAGGAAATGAGATTTGCCA-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAGT
* * * * *
329362 CTTCAGTCTACTCCGCTACAACTTCAGGGAGACAAGACTTGTAGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
* * *
329407 -TTCAATCTGCCCCACTGCAACTTTAGGG-GAATAAGATTTGTA-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAG-ATAAGACTTGTAGT
* * **
329450 CTTCAACCTGCTCCAGTGCAACTTCAGGGAGATAAGGTTTGATA-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAGT
* *
329495 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAATGGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A--GT
* * * * * * * *
329543 AGATTTAATCTGAC-CTACTACAACTTCAGAGG-TATAGGA-TTCATAAAT
1 --CTTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGACTT-GT-AGT
*
329591 -TT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAG-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAGT
* * * *
329633 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG-GTTTTATAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTA-GT
* *
329678 CTTCAACCTGCTCCACTGCAACTTCAGGGAGACAAGACTTG--GCT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAG-T
* * * * * * * * * *
329722 TTGGTGAATTTGATCCGACCTACTACAACTTCAAAGG-TATAGGATTTTTCA-T
1 CT--TCAATCTG---C-TCC-ACTGCAACTTC-AGGGAGATAAGACTTGT-AGT
* * **
329774 -TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTG-A-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
* * * * * *
329816 -AT-GATCTTCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGT-A---GT
* ** * * *
329863 AGCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTGCTA-T
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAGT
* * * * *
329910 CTTTAGTCTGCCCCACTACAACTTCAGGGGGATAAGACTTG-A--
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
* * * * *
329952 CTTCAATCCGCTCCACTACAACTTCAGGGAGATAGGA-TTGTTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
* * ** *
329996 CTTTAATCTGCTCCACTGCAACTTCACGGAGATAAGA--T-CCGC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
* * * * * *
330038 CAT-GATCTGCTCTACTACAACTTTAGAGAGATAAGATCTATGATTTA-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TG---TAGT
* * * *
330086 AGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGA-TTCGCTA-T
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAGT
* * * * *
330133 CTTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTTATA-A
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
*
330177 CTTCAATCTGCTCCACTGCAAATTCAGGGAGATAAGA-TT-T--T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
* ** * * *
330218 C--CATTATCTGCTCTACTAAAACTTCAGAGAGATGAGATCTAT-TATTTAT
1 CTTCA--ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTA---GT
* ** * *
330267 AGCCTCAATCTATTCCATTGCAACTTCAGGGAAATAAGA-TTCGCTA-T
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAGT
* * * * *
330314 CTTCAGTCTGCTCCACTGAAACTTCAGGGAGATAGGA-TTGTTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
* ** *
330358 CTTTAATCTAATCCACTGCAACTTCAGGGAGATAAGA-TTCGCCA-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAGT
* * * * *
330403 CTTTAGTCTGCCCCACTGCAACTTTAGGG-GCATAAGACTCGCTA-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAG-ATAAGACTTG-TAGT
* * * * *
330448 CTTCAGTCTGCTCCACTACAATTTTAGGGAGATAAGACTTGTA-A
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
* * * * * *
330492 CTTCAATC-ACTCTACTGTAACTTCAGGGAGATAAGA-TTATTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
* * * *
330535 CTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTATCA-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-AGT
* ** *
330580 CTTCAGTCTGC-CTCACTAAAACTTCAGGG-GATTAAGACTTGCT-TT
1 CTTCAATCTGCTC-CACTGCAACTTCAGGGAGA-TAAGACTTG-TAGT
* * * * * *
330625 CTTTAGTCTCCTCCACTGCAACTTCAGGGATATAAGACTTATA-A
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
* * * * * * * * *
330669 CTTTAATCCGCTCCACTACAACGTCAAGGAGAT-AGAATTATTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
*
330713 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
330750 TTCGCCATCT
Statistics
Matches: 1050, Mismatches: 238, Indels: 200
0.71 0.16 0.13
Matches are distributed among these distances:
39 2 0.00
40 1 0.00
41 88 0.08
42 41 0.04
43 56 0.05
44 341 0.32
45 343 0.33
46 15 0.01
47 6 0.01
48 4 0.00
49 13 0.01
50 32 0.03
51 100 0.10
52 6 0.01
53 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGT
Found at i:329608 original size:183 final size:185
Alignment explanation
Indices: 329418--329808 Score: 533
Period size: 183 Copynumber: 2.1 Consensus size: 185
329408 TCAATCTGCC
* * * * *
329418 CCACTGCAACTTTAGGGGA-ATAAGATTTGTATCTTCAACCTGCTCCAGTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGGAGATAAGATTAGTAGCTTCAACCTGCTCCACTGCAACTTCAGGAAGA
** * *
329482 TAAGGTTTGATATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTT-G-TAATGGT-A
66 TAAGGTTTGATATCTTCAACCTGCTCCACTGCAACTTCAGGGAGACAAGACTTGGCT-ATGGTGA
* *
329544 GATTTAATCTGACCTACTACAACTTCAGAGGTATAGGATTCATAAATTTAATCCGCT
130 -ATTTAATCCGACCTACTACAACTTCAAAGGTATAGGATTCATAAATTTAATCCGCT
*
329601 CCACTGCAACTTCA-GGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGA
1 CCACTGCAACTTCAGGGGAGATAAGATTAGTAGCTTCAACCTGCTCCACTGCAACTTCAGGAAGA
* *
329665 TAAGGTTTTATATCTTCAACCTGCTCCACTGCAACTTCAGGGAGACAAGACTTGGCTTTGGTGAA
66 TAAGGTTTGATATCTTCAACCTGCTCCACTGCAACTTCAGGGAGACAAGACTTGGCTATGGTGAA
* ** * * *
329730 TTTGATCCGACCTACTACAACTTCAAAGGTATAGGATTTTTCATTTTAATCTGCT
131 TTTAATCCGACCTACTACAACTTCAAAGGTATAGGATTCATAAATTTAATCCGCT
*
329785 CTACTGCAACTTCA-GGGAGATAAG
1 CCACTGCAACTTCAGGGGAGATAAG
329809 GTTTGATATG
Statistics
Matches: 183, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
182 4 0.02
183 101 0.55
184 76 0.42
185 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (185 bp):
CCACTGCAACTTCAGGGGAGATAAGATTAGTAGCTTCAACCTGCTCCACTGCAACTTCAGGAAGA
TAAGGTTTGATATCTTCAACCTGCTCCACTGCAACTTCAGGGAGACAAGACTTGGCTATGGTGAA
TTTAATCCGACCTACTACAACTTCAAAGGTATAGGATTCATAAATTTAATCCGCT
Found at i:329929 original size:45 final size:45
Alignment explanation
Indices: 329321--330760 Score: 606
Period size: 44 Copynumber: 32.0 Consensus size: 45
329311 TTATAACTTC
* * * * * * *
329321 AATCTGCTCCACTGCAACTTTAAGGAAATGAGATTTGCCATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * * *
329366 AGTCTACTCCGCTACAACTTCAGGGAGACAAGACTTG-TAGT-TTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTA-TCTTT
* * * *
329410 AATCTGCCCCACTGCAACTTTAGGG-GAATAAGATTTG-TATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAG-ATAAGATTTGCTATCTTT
* * * * * *
329454 AACCTGCTCCAGTGCAACTTCAGGGAGATAAGGTTTGATATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * **
329499 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAATGGTAGATTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGA--T-T--TGCTATCTTT
* * * **
329549 AATCTGAC-CTACTACAACTTCAGAGG-TATAGGA-TT-CATAAATTT
1 AATCTG-CTCCACTACAACTTCAG-GGAGATAAGATTTGC-TATCTTT
* * * * *
329593 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * ** *
329637 AATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTTATATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * * ** *
329682 AACCTGCTCCACTGCAACTTCAGGGAGACAAGACTTGGCTTTGGTG
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGA-TTTGCTATCTTT
* * * * * *
329728 AATTTGATCCGACCTACTACAACTTCAAAGG-TATAGGATTT-TTCAT-TTT
1 AATCTG---C-TCC-ACTACAACTTC-AGGGAGATAAGATTTGCT-ATCTTT
* * * *
329777 AATCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTG--A--TAT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * * **
329818 GATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAT-T-T--GCTAT--CTTT
** *
329869 AATCTATTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * *
329914 AGTCTGCCCCACTACAACTTCAGGGGGATAAGACTTG--A-CTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * **
329956 AATCCGCTCCACTACAACTTCAGGGAGATAGGA-TTGTTGGCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * ** *
330000 AATCTGCTCCACTGCAACTTCACGGAGATAAGATCCGC---C-AT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * *
330041 GATCTGCTCTACTACAACTTTAGAGAGATAAGATCTATGATTTATAGCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAT-T-TG--CTAT--CTTT
* * * * * *
330092 AATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * * *
330137 AGTCTGCTCCACTACAACTTTAGGGAGATAAGACTT-ATAACTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * *
330181 AATCTGCTCCACTGCAAATTCAGGGAGATAAGATTT--T-CCATT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * ** * *
330223 -ATCTGCTCTACTAAAACTTCAGAGAGATGAGATCTATTATTTATAGCCTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGA--T-TT-GCTAT--CTTT
** * * * * *
330273 AATCTATTCCATTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * **
330318 AGTCTGCTCCACTGA-AACTTCAGGGAGATAGGA-TTGTTGGCTTT
1 AATCTGCTCCACT-ACAACTTCAGGGAGATAAGATTTGCTATCTTT
** * * *
330362 AATCTAATCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * * * *
330407 AGTCTGCCCCACTGCAACTTTAGGG-GCATAAGACTCGCTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAG-ATAAGATTTGCTATCTTT
* * * * * *
330452 AGTCTGCTCCACTACAATTTTAGGGAGATAAGACTTG-TAACTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * ** **
330496 AATC-ACTCTACTGTAACTTCAGGGAGATAAGATTAT--TGGCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATT-TGCTATCTTT
* *
330539 AATCTGCTCCACTGA-AACTTCAGGGAGATAAGATTT-ATCATCTTC
1 AATCTGCTCCACT-ACAACTTCAGGGAGATAAGATTTGCT-ATCTTT
* * * *
330584 AGTCTGC-CTCACTAAAACTTCAGGG-GATTAAGACTTGCTTTCTTT
1 AATCTGCTC-CACTACAACTTCAGGGAGA-TAAGATTTGCTATCTTT
* * * * * * *
330629 AGTCTCCTCCACTGCAACTTCAGGGATATAAGACTT-ATAACTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * ** **
330673 AATCCGCTCCACTACAACGTCAAGGAGAT-AGAATTATTGGCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
* * *
330717 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTT
330761 CTTCAATCCA
Statistics
Matches: 1041, Mismatches: 274, Indels: 160
0.71 0.19 0.11
Matches are distributed among these distances:
41 90 0.09
42 36 0.03
43 50 0.05
44 352 0.34
45 336 0.32
46 15 0.01
47 12 0.01
48 2 0.00
49 11 0.01
50 38 0.04
51 96 0.09
52 3 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTT
Found at i:330005 original size:223 final size:223
Alignment explanation
Indices: 329774--330256 Score: 648
Period size: 223 Copynumber: 2.2 Consensus size: 223
329764 GATTTTTCAT
* ** * * *
329774 TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGATATGATCTTCTCTACTGCAACTTC
1 TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATCCGACATGATCTGCTCTACTACAACTTC
*
329839 AGAGAGATAAGATCTGTAATTTATAGCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATT
66 AGAGAGATAAGATCTATAATTTATAGCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATT
* * * *
329904 TGCTATCTTTAGTCTGCCCCACTACAACTTCAGGGGGATAAGAC-T-TGACTTCAATCCGCTCCA
131 CGCTATCTTCAGTCTGCCCCACTACAACTTCAGGGAGATAAGACTTATAACTTCAATCCGCTCCA
* * *
329967 CTACAACTTCAGGGAGATAGGATTGTTGGC
196 CTACAAATTCAGGGAGATAAGATT-TT-CC
* * * *
329997 TTTAATCTGCTCCACTGCAACTTCACGGAGATAAGATCCGCCATGATCTGCTCTACTACAACTTT
1 TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATCCGACATGATCTGCTCTACTACAACTTC
* * * *
330062 AGAGAGATAAGATCTATGATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATT
66 AGAGAGATAAGATCTATAATTTATAGCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATT
* * *
330127 CGCTATCTTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTTATAACTTCAATCTGCTCCA
131 CGCTATCTTCAGTCTGCCCCACTACAACTTCAGGGAGATAAGACTTATAACTTCAATCCGCTCCA
*
330192 CTGCAAATTCAGGGAGATAAGATTTTCC
196 CTACAAATTCAGGGAGATAAGATTTTCC
* ** * *
330220 ATT-ATCTGCTCTACTAAAACTTCAGAGAGATGAGATC
1 TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATC
330257 TATTATTTAT
Statistics
Matches: 225, Mismatches: 33, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
222 28 0.12
223 157 0.70
224 3 0.01
225 37 0.16
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (223 bp):
TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATCCGACATGATCTGCTCTACTACAACTTC
AGAGAGATAAGATCTATAATTTATAGCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATT
CGCTATCTTCAGTCTGCCCCACTACAACTTCAGGGAGATAAGACTTATAACTTCAATCCGCTCCA
CTACAAATTCAGGGAGATAAGATTTTCC
Found at i:330165 original size:181 final size:181
Alignment explanation
Indices: 329952--330757 Score: 675
Period size: 181 Copynumber: 4.5 Consensus size: 181
329942 TAAGACTTGA
* *
329952 CTTCAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGTTGGCTTTAATCTGCTCCACTGCAA
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAGGATTGTTGGCTTTAATCTGCTCCACTGCAA
* * * *
330017 CTTCACGGAGATAAGATCCGCCATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTATGAT
66 CTTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTAAAACTTCAGAGAGATAAGATCTATGAT
* * * *
330082 TTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTAT
131 TTATAGCCTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
* * * ** *
330133 CTTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTT-ATAACTTCAATCTGCTCCACTGCA
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAGGA-TTGTTGGCTTTAATCTGCTCCACTGCA
* ** * * *
330197 AATTCAGGGAGATAAGATTTTCCATTATCTGCTCTACTAAAACTTCAGAGAGATGAGATCTATTA
65 ACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTAAAACTTCAGAGAGATAAGATCTATGA
*
330262 TTTATAGCCTCAATCTATTCCATTGCAACTTCAGGGAAATAAGATTCGCTAT
130 TTTATAGCCTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
**
330314 CTTCAGTCTGCTCCACTGA-AACTTCAGGGAGATAGGATTGTTGGCTTTAATCTAATCCACTGCA
1 CTTCAGTCTGCTCCACT-ACAACTTCAGGGAGATAGGATTGTTGGCTTTAATCTGCTCCACTGCA
* * * ** * *
330378 ACTTCAGGGAGATAAGATTCGCCATCTTTAGTCTGCCCCACTGCAACTTTAG-GGGCATAAGA-C
65 ACTTCAGGGAGATAAGATTCGCCA---TGA-TCTGCTCTACTAAAACTTCAGAGAG-ATAAGATC
* * * * ** * * * * *
330441 T-CG--CTAT--CTTCAGTCTGCTCCACTACAATTTTAGGGAGATAAGACTT-G-TAA
125 TATGATTTATAGCCTCAATCTATTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTAT
* * * ** * * *
330492 CTTCAATC-ACTCTACTGTAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGAAA
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAGGATTGTTGGCTTTAATCTGCTCCACTGCAA
** * * *
330556 CTTCAGGGAGATAAGATTTATCATCTTCAGTCTGC-CTCACTAAAACTTCAG-GGGATTAAGA-C
66 CTTCAGGGAGATAAGA--T-TCGCCATGA-TCTGCTCT-ACTAAAACTTCAGAGAGA-TAAGATC
* * * * ** * * *
330618 T-TG-CTT-T--CTTTAGTCTCCTCCACTGCAACTTCAGGGATATAAGACTT--ATAA
125 TATGATTTATAGCCTCAATCTATTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTAT
* * * * * * *
330669 CTTTAATCCGCTCCACTACAACGTCAAGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAA
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAGGATTGTTGGCTTTAATCTGCTCCACTGCAA
330734 CTTCAGGGAGATAAGATTCGCCAT
66 CTTCAGGGAGATAAGATTCGCCAT
330758 CTTCTTCAAT
Statistics
Matches: 515, Mismatches: 92, Indels: 42
0.79 0.14 0.06
Matches are distributed among these distances:
175 4 0.01
176 3 0.01
177 137 0.27
178 73 0.14
179 30 0.06
180 7 0.01
181 230 0.45
182 3 0.01
184 7 0.01
185 21 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (181 bp):
CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAGGATTGTTGGCTTTAATCTGCTCCACTGCAA
CTTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTAAAACTTCAGAGAGATAAGATCTATGAT
TTATAGCCTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
Found at i:330455 original size:134 final size:133
Alignment explanation
Indices: 329877--330661 Score: 372
Period size: 134 Copynumber: 5.8 Consensus size: 133
329867 TTAATCTATT
* * * * * *
329877 CCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCCCCACTACAACTTCAGGGGGA
1 CCACTGCAACTTCAGGGAAATAAGACTCGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGA
** * * **** *
329942 TAAGACTTG--ACTTCAATCCGCTCCACTACAACTTCAGGGAGATAGGATT-GTTGGCTTTAATC
66 TAAGACTTGTAACTTCAAT-CAATCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTC
*
330004 TGCT
130 TGCC
* * * * * * *
330008 CCACTGCAACTTCACGGAGATAAGA-TCCGC---CATGA-TCTGCTCTACTACAACTTTAGAGAG
1 CCACTGCAACTTCAGGGAAATAAGACT-CGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAG
* ** * * *
330068 ATAAGATCTATGATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTAT
65 ATAAGA-CT-TG---TA-A-CTTCAATC-AATCCACTGCAACTTCAGGGAGATAAGATTCGCCAT
* *
330133 CTTCAGTCTGCT
122 CTTTAGTCTGCC
* * * ** * * * *
330145 CCACTACAACTTTAGGGAGATAAGACT-TATAACTTCAATCTGCTCCACTGCAAATTCAGGGAGA
1 CCACTGCAACTTCAGGGAAATAAGACTCGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGA
** ** * ** * * ***
330209 TAAGA-TT-TTCCATT--ATCTGCTCTACTAAAACTTCAGAGAGATGAGA-TCTATTAT-TTATA
66 TAAGACTTGTAAC-TTCAATC-AATCCACTGCAACTTCAGGGAGATAAGATTC-GCCATCTT-TA
*
330268 GCCTCAAT-CTATT
127 G--TC--TGC---C
* *
330281 CCATTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGA-AACTTCAGGGAG
1 CCACTGCAACTTCAGGGAAATAAGACTCGCTATCTTCAGTCTGCTCCACT-ACAACTTCAGGGAG
* ** *
330345 ATAGGA-TTGTTGGCTTTAATCTAATCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAG
65 ATAAGACTTG-TAACTTCAATC-AATCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAG
330409 TCTGCC
128 TCTGCC
* ** * *
330415 CCACTGCAACTTTAGGGGCATAAGACTCGCTATCTTCAGTCTGCTCCACTACAATTTTAGGGAGA
1 CCACTGCAACTTCAGGGAAATAAGACTCGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGA
* * * ***** *
330480 TAAGACTTGTAACTTCAATCACTCTACTGTAACTTCAGGGAGATAAGATT-ATTGGCTTTAATCT
66 TAAGACTTGTAACTTCAATCAATCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTCT
*
330544 GCT
131 GCC
* * *** *
330547 CCACTGAAACTTCAGGGAGATAAGA-TTTATCATCTTCAGTCTGC-CTCACTAAAACTTCAGGG-
1 CCACTGCAACTTCAGGGAAATAAGACTCGCT-ATCTTCAGTCTGCTC-CACTACAACTTCAGGGA
** * * ** *
330609 GATTAAGACTTGCTTTCTTTAGTCTCCTCCACTGCAACTTCAGGGATATAAGA
64 GA-TAAGACTTG-TAACTTCAATC-AATCCACTGCAACTTCAGGGAGATAAGA
330662 CTTATAACTT
Statistics
Matches: 502, Mismatches: 109, Indels: 83
0.72 0.16 0.12
Matches are distributed among these distances:
127 26 0.05
128 5 0.01
129 6 0.01
130 32 0.06
131 30 0.06
132 70 0.14
133 37 0.07
134 93 0.19
135 5 0.01
136 55 0.11
137 72 0.14
138 6 0.01
139 5 0.01
140 56 0.11
141 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (133 bp):
CCACTGCAACTTCAGGGAAATAAGACTCGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGA
TAAGACTTGTAACTTCAATCAATCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTCT
GCC
Found at i:333008 original size:25 final size:24
Alignment explanation
Indices: 332980--333033 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
332970 TTCCTTCTCC
*
332980 TTTTTCTTT-TTTTATTTGAAAAA
1 TTTTTTTTTATTTTATTTGAAAAA
* *
333003 TATTTTTTTTATTTTTTTTGAAATA
1 T-TTTTTTTTATTTTATTTGAAAAA
333028 TTTTTT
1 TTTTTT
333034 GATTGGATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 12 0.46
25 13 0.50
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTTTTTTATTTTATTTGAAAAA
Found at i:337879 original size:30 final size:29
Alignment explanation
Indices: 337845--337905 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
337835 AGAACAAGAG
337845 AATAAACA-AATAAATACACAAATAAACAAT
1 AATAAACAGAAT-AATACACAAA-AAACAAT
* *
337875 AATAAACAGAATAATAGACAAACAACAAT
1 AATAAACAGAATAATACACAAAAAACAAT
337904 AA
1 AA
337906 GGGCAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.29
30 17 0.61
31 3 0.11
ACGTcount: A:0.69, C:0.13, G:0.03, T:0.15
Consensus pattern (29 bp):
AATAAACAGAATAATACACAAAAAACAAT
Found at i:341344 original size:15 final size:15
Alignment explanation
Indices: 341324--341357 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
341314 AAAAATCTTT
341324 CTAAAATTATCAAAA
1 CTAAAATTATCAAAA
341339 CTAAAATTATCAAAA
1 CTAAAATTATCAAAA
341354 -TAAA
1 CTAAA
341358 GATGTACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (15 bp):
CTAAAATTATCAAAA
Found at i:354192 original size:55 final size:55
Alignment explanation
Indices: 354129--354250 Score: 199
Period size: 55 Copynumber: 2.2 Consensus size: 55
354119 TTGTAATATC
*
354129 TGAATGGATTGAATCATGTAATATGGCATGAGTATACTGTGAGTAGATGATGATT
1 TGAATGGATTGAATCATGTAATATGGCATGAGCATACTGTGAGTAGATGATGATT
* *
354184 TGAATGGATTGAATCATGTAATATGGCATGAGCATAGTGTGAGTAGATGATGGTT
1 TGAATGGATTGAATCATGTAATATGGCATGAGCATACTGTGAGTAGATGATGATT
354239 TGAGATGTGATT
1 TGA-ATG-GATT
354251 TTAAAATTGA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
55 55 0.89
56 3 0.05
57 4 0.06
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (55 bp):
TGAATGGATTGAATCATGTAATATGGCATGAGCATACTGTGAGTAGATGATGATT
Found at i:355957 original size:8 final size:8
Alignment explanation
Indices: 355944--355968 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
355934 AATTTACATC
355944 ATTAATTT
1 ATTAATTT
355952 ATTAATTT
1 ATTAATTT
355960 ATTAATTT
1 ATTAATTT
355968 A
1 A
355969 AATGAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTAATTT
Found at i:358083 original size:31 final size:31
Alignment explanation
Indices: 358047--358118 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
358037 GCTAAAACGA
358047 GTTCAAAAACATAAAAACCATTAAAAACGGG
1 GTTCAAAAACATAAAAACCATTAAAAACGGG
*
358078 GTTCAAAAACATAAAAATCATTAAAAACGGG
1 GTTCAAAAACATAAAAACCATTAAAAACGGG
358109 GTTCAAAAAC
1 GTTCAAAAAC
358119 CTCACCATGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.18
Consensus pattern (31 bp):
GTTCAAAAACATAAAAACCATTAAAAACGGG
Found at i:365942 original size:37 final size:37
Alignment explanation
Indices: 365835--365945 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
365825 TACTACCCTA
* * *
365835 ATTTGGTGTGCTATCGGGTGGATTAGCTCTTATAAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
365872 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
*
365909 ATTTGGCGTGTTACCGGGTGGATTAGCTCTTATGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
365946 GACTGGCGCG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.17, C:0.14, G:0.32, T:0.37
Consensus pattern (37 bp):
ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
Found at i:370995 original size:22 final size:22
Alignment explanation
Indices: 370970--371021 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
370960 GGTGGTGTTG
*
370970 TGGTGGTGCTATACTGGTCGTA
1 TGGTGGTGATATACTGGTCGTA
** *
370992 TGGTGGTGATATGGTGGTTGTA
1 TGGTGGTGATATACTGGTCGTA
371014 TGGTGGTG
1 TGGTGGTG
371022 TTTCGTCTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.12, C:0.06, G:0.44, T:0.38
Consensus pattern (22 bp):
TGGTGGTGATATACTGGTCGTA
Found at i:370998 original size:11 final size:10
Alignment explanation
Indices: 370937--371022 Score: 55
Period size: 11 Copynumber: 7.9 Consensus size: 10
370927 TCAGTTTTGG
*
370937 TGGTGGTGCA
1 TGGTGGTGTA
*
370947 AGGATGGTGGTA
1 TGG-TGGT-GTA
* *
370959 CGGTGGTGTTG
1 TGGTGGTG-TA
370970 TGGTGGTGCTA
1 TGGTGGTG-TA
**
370981 TACTGGTCGTA
1 TGGTGGT-GTA
370992 TGGTGGTGATA
1 TGGTGGTG-TA
371003 TGGTGGTTGTA
1 TGGTGG-TGTA
371014 TGGTGGTGT
1 TGGTGGTGT
371023 TTCGTCTTGT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
10 7 0.12
11 45 0.76
12 7 0.12
ACGTcount: A:0.12, C:0.06, G:0.47, T:0.36
Consensus pattern (10 bp):
TGGTGGTGTA
Found at i:384216 original size:26 final size:25
Alignment explanation
Indices: 384147--384220 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
384137 TTTCTCACCC
*
384147 CAATTTTACCCTAGTAAAATTTTGA
1 CAATTTTACCCTTGTAAAATTTTGA
*
384172 CAATTTTACCCTTAATAAAATTTTGA
1 CAATTTTACCCTT-GTAAAATTTTGA
**
384198 TGATTTTACCCCTTGTAAAATTT
1 CAATTTTA-CCCTTGTAAAATTT
384221 CAAGAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 12 0.29
26 25 0.60
27 5 0.12
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (25 bp):
CAATTTTACCCTTGTAAAATTTTGA
Found at i:384375 original size:6 final size:6
Alignment explanation
Indices: 384364--384390 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
384354 GGATTGCAAG
384364 TTTCCA TTTCCA TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTT
384391 TTGGAAACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:396428 original size:20 final size:20
Alignment explanation
Indices: 396400--396438 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
396390 GCTACTCATA
396400 TTTTCAAAA-ACTTATCAGAG
1 TTTTCAAAACACTTA-CAGAG
*
396420 TTTTTAAAACACTTACAGA
1 TTTTCAAAACACTTACAGA
396439 ATCGGCGCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (20 bp):
TTTTCAAAACACTTACAGAG
Found at i:402532 original size:50 final size:49
Alignment explanation
Indices: 402375--402539 Score: 179
Period size: 51 Copynumber: 3.3 Consensus size: 49
402365 NNNNNNNNNT
402375 ATAGTACTACACATGTGA-CCATTTCCATCCGATACACGTAGTAGCTTGCAC
1 ATAGTACTACACATGTGACCCA--T-CATCCGATACACGTAGTAGCTTGCAC
* ** * * * * * *
402426 ATAGTACTACACACGTGATCGAAGCAACCCGGTACGCATAGTAGCCTGCAC
1 ATAGTACTACACATGTGA-CCCATC-ATCCGATACACGTAGTAGCTTGCAC
*
402477 ATAGTACTACACATGCGACCCATCATTCCGATACACGTAGTAGCTTGCAC
1 ATAGTACTACACATGTGACCCATCA-TCCGATACACGTAGTAGCTTGCAC
402527 ATAGTACTACACA
1 ATAGTACTACACA
402540 CATGACCATC
Statistics
Matches: 91, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
49 1 0.01
50 36 0.40
51 53 0.58
53 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (49 bp):
ATAGTACTACACATGTGACCCATCATCCGATACACGTAGTAGCTTGCAC
Found at i:408090 original size:128 final size:128
Alignment explanation
Indices: 407901--408135 Score: 382
Period size: 128 Copynumber: 1.8 Consensus size: 128
407891 TTATTTGGTT
* * ** *
407901 CAAGTAATTTCTTGCATACTACAACAACTTGTTAGGATTCATTAGGCTCAAATTGGACTAATTGG
1 CAAGTAATTTATTGCACACTACAACAACTCATTAGAATTCATTAGGCTCAAATTGGACTAATTGG
407966 TCA-AGAAACATCATAAAAAGACTCATTTTATTCAATTATAGACCCATTTTATTCATTAGTGTG
66 TCACA-AAACATCATAAAAAGACTCATTTTATTCAATTATAGACCCATTTTATTCATTAGTGTG
* *
408029 CAAGTAATTTATTGCACACTACATCAACTCATTAGAATTCATTAGGCTCAAATTGGCCTAATTGG
1 CAAGTAATTTATTGCACACTACAACAACTCATTAGAATTCATTAGGCTCAAATTGGACTAATTGG
*
408094 TCACAAAACATCATAAAAAGATTCATTTTATTCAATTATAGA
66 TCACAAAACATCATAAAAAGACTCATTTTATTCAATTATAGA
408136 TAACTAACAT
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
128 97 0.99
129 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (128 bp):
CAAGTAATTTATTGCACACTACAACAACTCATTAGAATTCATTAGGCTCAAATTGGACTAATTGG
TCACAAAACATCATAAAAAGACTCATTTTATTCAATTATAGACCCATTTTATTCATTAGTGTG
Found at i:410500 original size:16 final size:16
Alignment explanation
Indices: 410479--410512 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
410469 TTCATCTCAC
410479 TCTAAAAATTAAAAGT
1 TCTAAAAATTAAAAGT
410495 TCTAAAAATTAAAAGT
1 TCTAAAAATTAAAAGT
410511 TC
1 TC
410513 CATAGAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (16 bp):
TCTAAAAATTAAAAGT
Found at i:419845 original size:21 final size:20
Alignment explanation
Indices: 419821--419863 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
419811 TTTTAGTTAC
419821 TATAAAGGTGAGATTAAATAT
1 TATAAAGGTGAGATTAAA-AT
*
419842 TATAATGGTGAGATTAAAAT
1 TATAAAGGTGAGATTAAAAT
419862 TA
1 TA
419864 GCAGTGAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.35
Consensus pattern (20 bp):
TATAAAGGTGAGATTAAAAT
Done.