Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 43 of 91
Found at i:14796058 original size:19 final size:18
Alignment explanation
Indices: 14796030--14796065 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14796020 GCTAAAATAC
*
14796030 TTTTAATATATATATATA
1 TTTTAATATAAATATATA
14796048 TTTTAAATATAAATATAT
1 TTTT-AATATAAATATAT
14796066 TTATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTAATATAAATATATA
Found at i:14796063 original size:17 final size:18
Alignment explanation
Indices: 14796030--14796067 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
14796020 GCTAAAATAC
*
14796030 TTTTAATATATATATATA
1 TTTTAATATATAAATATA
14796048 TTTTAA-ATATAAATATA
1 TTTTAATATATAAATATA
14796065 TTT
1 TTT
14796068 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAATATATAAATATA
Found at i:14796108 original size:16 final size:17
Alignment explanation
Indices: 14796083--14796125 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
14796073 TTATTTTTCG
14796083 TTAATATTATAAAAATTA
1 TTAAT-TTATAAAAATTA
14796101 -TAATTTAT-AAAATTA
1 TTAATTTATAAAAATTA
14796116 TTAA-TTATAA
1 TTAATTTATAA
14796126 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 11 0.48
16 8 0.35
17 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATTTATAAAAATTA
Found at i:14800019 original size:26 final size:26
Alignment explanation
Indices: 14799982--14800033 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
14799972 GCAGTAAGAA
*
14799982 ATAATACCTTATTTCTCTAGAGTAGC
1 ATAATACCTTATTTCTCTAAAGTAGC
* *
14800008 ATAATACTTTATTTTTCTAAAGTAGC
1 ATAATACCTTATTTCTCTAAAGTAGC
14800034 CACAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (26 bp):
ATAATACCTTATTTCTCTAAAGTAGC
Found at i:14807386 original size:12 final size:12
Alignment explanation
Indices: 14807369--14807393 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14807359 AGAGGTAGAG
14807369 GAGAGAGAGATC
1 GAGAGAGAGATC
14807381 GAGAGAGAGATC
1 GAGAGAGAGATC
14807393 G
1 G
14807394 CGATTTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.44, T:0.08
Consensus pattern (12 bp):
GAGAGAGAGATC
Found at i:14808918 original size:15 final size:16
Alignment explanation
Indices: 14808900--14808943 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14808890 CCAAACAACC
14808900 AAAATTAAAACTACTA
1 AAAATTAAAACTACTA
*
14808916 AAAATTAAATA-AACT-
1 AAAATTAAA-ACTACTA
14808931 AAAATTAAAACTA
1 AAAATTAAAACTA
14808944 TAAGCAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 1 0.04
15 10 0.42
16 12 0.50
17 1 0.04
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATTAAAACTACTA
Found at i:14811881 original size:18 final size:19
Alignment explanation
Indices: 14811845--14811882 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14811835 TTCGAAGAAG
* *
14811845 CTTTAGTCTTCCTCTTTAT
1 CTTTAGTCTACCTCATTAT
14811864 CTTTA-TCTACCTCATTAT
1 CTTTAGTCTACCTCATTAT
14811882 C
1 C
14811883 GCCCATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.16, C:0.29, G:0.03, T:0.53
Consensus pattern (19 bp):
CTTTAGTCTACCTCATTAT
Found at i:14815626 original size:38 final size:40
Alignment explanation
Indices: 14815584--14815682 Score: 130
Period size: 38 Copynumber: 2.5 Consensus size: 40
14815574 ATAGTGCCCG
* * *
14815584 TGTGCACAATGTGGGGGGATGTACACGATGGCACT-GA-C
1 TGTGCACAATGTGGGGGGATGTACACAATGACACTGGATA
* *
14815622 TGTGCACAATGTGAGGGGATGTACACAATGACTCTGGATA
1 TGTGCACAATGTGGGGGGATGTACACAATGACACTGGATA
*
14815662 TGTGCACGATGTGGGGGGATG
1 TGTGCACAATGTGGGGGGATG
14815683 CACATGAGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
38 31 0.60
39 2 0.04
40 19 0.37
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.23
Consensus pattern (40 bp):
TGTGCACAATGTGGGGGGATGTACACAATGACACTGGATA
Found at i:14819924 original size:35 final size:35
Alignment explanation
Indices: 14819897--14820152 Score: 293
Period size: 35 Copynumber: 7.3 Consensus size: 35
14819887 TTAATTGTTT
*
14819897 AATTTAATCAATTAGGCCGAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * *
14819932 AATTTAATTAATTAAGCCCAACAATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
14819967 AATTTTAATGAACTAGGCCCAATGACTTAATTAAAC
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC
***
14820003 AAATTTAATCAATTAGGCCCAATAACTTAATTATTT
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *
14820039 AATTTAATTAATTAGGCCCAATGACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
14820074 AATTTAATTAATTAGGCCCAATGATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
14820109 AATTTAGTTAATTAGG--C-ACAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
14820141 AATTTTAATCAA
1 AA-TTTAATCAA
14820153 GTGCTTGAGA
Statistics
Matches: 189, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
32 14 0.07
33 8 0.04
35 111 0.59
36 54 0.29
37 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
Found at i:14820015 original size:107 final size:104
Alignment explanation
Indices: 14819897--14820145 Score: 331
Period size: 107 Copynumber: 2.4 Consensus size: 104
14819887 TTAATTGTTT
*
14819897 AATTTAATCAATTAGGCCGAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAATTTAAT
1 AATTTAATCAATTAGGCC-AATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAAT
14819962 TAAACAATTTTAATGAACTAGGCCCAATGACTTAATTAAAC
65 TAAACAA-TTTAATGAACTAGGCCCAATGACTTAATTAAAC
*** * **
14820003 AAATTTAATCAATTAGGCCCAATAACTTAATTATTTAATTTAATTAATTAGGCCCAATGACTTAA
1 -AATTTAATCAATTAGG-CCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAA
* * *
14820068 TTAAACAATTTAATTAATTAGGCCCAATGATTTAATTAAAC
64 TTAAACAATTTAATGAACTAGGCCCAATGACTTAATTAAAC
* * *
14820109 AATTTAGTTAATTAGG-C-ACAACTTAATTAAACAATTT
1 AATTTAATCAATTAGGCCAATAACTTAATTAAACAATTT
14820146 TAATCAAGTG
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
102 16 0.13
103 1 0.01
105 14 0.11
106 30 0.24
107 62 0.50
108 2 0.02
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.35
Consensus pattern (104 bp):
AATTTAATCAATTAGGCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAACTTAATT
AAACAATTTAATGAACTAGGCCCAATGACTTAATTAAAC
Found at i:14820040 original size:142 final size:139
Alignment explanation
Indices: 14819876--14820152 Score: 403
Period size: 142 Copynumber: 2.0 Consensus size: 139
14819866 TCCTTTAGAA
* *
14819876 GCCCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCGAATAACTTAATTAAACAATTTAATT
1 GCCCAATTAACTTAATTATTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATT
*
14819941 AATTAAGCCCAACAATTTAATTAAACAATTTTAATGAACTAGGCCCAATGACTTAATTAAACAAA
66 AATTAAGCCCAACAATTTAATTAAACAA-TTTAATGAACTAGGCAC-A--ACTTAATTAAACAAA
14820006 TTTAATCAATTAG
127 TTTAATCAATTAG
* *
14820019 GCCCAA-TAACTTAATTATTTAATTTAATTAATTAGGCCCAATGACTTAATTAAACAATTTAATT
1 GCCCAATTAACTTAATTATTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATT
* ** * * * *
14820083 AATTAGGCCCAATGATTTAATTAAACAATTTAGTTAATTAGGCACAACTTAATTAAACAATTTTA
66 AATTAAGCCCAACAATTTAATTAAACAATTTAATGAACTAGGCACAACTTAATTAAACAAATTTA
14820148 ATCAA
131 ATCAA
14820153 GTGCTTGAGA
Statistics
Matches: 122, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
138 23 0.19
140 1 0.01
141 13 0.11
142 79 0.65
143 6 0.05
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (139 bp):
GCCCAATTAACTTAATTATTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATT
AATTAAGCCCAACAATTTAATTAAACAATTTAATGAACTAGGCACAACTTAATTAAACAAATTTA
ATCAATTAG
Found at i:14826041 original size:42 final size:42
Alignment explanation
Indices: 14825994--14826284 Score: 402
Period size: 42 Copynumber: 6.9 Consensus size: 42
14825984 TGTTGATTTG
* *
14825994 GACCCGGTTATGTGCGAGTAGGAGTGCATATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
14826036 GACCCGGCTATGTGAGAGTAGGAGTGCACATAAGCCATTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
14826078 GACCCGGCTATGTACGAGTAGGAGTGAACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
14826120 GACCCGGCTATGTACGAGTAGGAGTGCACATAAGCTGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* ** *
14826162 AACCCTACTATGTGCGAATAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * *
14826204 GTCCCGGCTATGTGCTAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * * * *
14826246 GACCCGGCTATATGTGAGTGGGAGTACGCATAAGCCGTT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTT
14826285 TCATATGAGA
Statistics
Matches: 220, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 220 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:14826329 original size:26 final size:26
Alignment explanation
Indices: 14826293--14826354 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
14826283 TTTCATATGA
14826293 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGGTGTGCAT
14826319 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGGTGTGCAT
*
14826345 GTTGATGATG
1 GATGATGATG
14826355 GGTATATGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.23, C:0.03, G:0.42, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGGTGTGCAT
Found at i:14838466 original size:19 final size:19
Alignment explanation
Indices: 14838442--14838479 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14838432 ACTTCTAAAC
14838442 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14838461 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14838480 AGTGAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:14840550 original size:180 final size:180
Alignment explanation
Indices: 14840312--14840636 Score: 474
Period size: 180 Copynumber: 1.8 Consensus size: 180
14840302 TTAATAGCCT
* * * * *
14840312 AAATCAGCTTGTTTGGCCATGAAAATTTCCAGAAATAATCCTCATTGAACTTTTTAATAAAGATA
1 AAATCAGCATATTTGACCATGAAAATTTCCAGAAATAATCCTCATTGAACATTTTAATAAAGAGA
* * *
14840377 ATTTT-TCTGGAATTTTTCAGAATTAATTTTCAAGAGTTTCTTGTCAATTAAAACTGAAATTCAT
66 ATTTTCT-TAGAATTTTTCAGAATTAATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCAT
14840441 GCCA-ACACAGTGAGCTTGACAGATTTATGTTTGCACCAATTTTCTTGTTCG
130 GCCATA-ACAGTGAGCTTGACAGATTTATGTTTGCACCAATTTTCTTGTTCG
* * * *
14840492 AAATCAGCATATTTGACCATGATATTTTCCAGAAATAATCCTTATTGGACATTTTAATAAAGAGA
1 AAATCAGCATATTTGACCATGAAAATTTCCAGAAATAATCCTCATTGAACATTTTAATAAAGAGA
* * *
14840557 ATTTTCTTAGAATTTTTCAGAATTAATTTCCGAGACTTTCTTGTTAATTAGAACTGAAATTCATG
66 ATTTTCTTAGAATTTTTCAGAATTAATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATG
*
14840622 TCATAACAGTGAGCT
131 CCATAACAGTGAGCT
14840637 GGACTGCTTT
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
180 125 0.98
181 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (180 bp):
AAATCAGCATATTTGACCATGAAAATTTCCAGAAATAATCCTCATTGAACATTTTAATAAAGAGA
ATTTTCTTAGAATTTTTCAGAATTAATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATG
CCATAACAGTGAGCTTGACAGATTTATGTTTGCACCAATTTTCTTGTTCG
Found at i:14846374 original size:42 final size:42
Alignment explanation
Indices: 14846313--14846468 Score: 188
Period size: 42 Copynumber: 3.7 Consensus size: 42
14846303 TATGACTTAG
*
14846313 CCATGTGCGGTGTAGGAGTGCACATGAGCTGTGCTGACCCAA
1 CCATGTGCGGTGTATGAGTGCACATGAGCTGTGCTGACCCAA
* *
14846355 CCATGTGTGGTGTATGAGTGCACATGAGCTGTGCTGACCCAG
1 CCATGTGCGGTGTATGAGTGCACATGAGCTGTGCTGACCCAA
* * * * **
14846397 CCATGTGCGGTGTATGAGTGAACAAGAGTTGTGTTGACCCGG
1 CCATGTGCGGTGTATGAGTGCACATGAGCTGTGCTGACCCAA
* * *
14846439 CTATGTGCGGTGT-GGTAGTGCACATAAGCT
1 CCATGTGCGGTGTATG-AGTGCACATGAGCT
14846469 AAGACAGAGT
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 1 0.01
42 97 0.99
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.26
Consensus pattern (42 bp):
CCATGTGCGGTGTATGAGTGCACATGAGCTGTGCTGACCCAA
Found at i:14846505 original size:2 final size:2
Alignment explanation
Indices: 14846498--14846536 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
14846488 GGCCGGTGGT
* *
14846498 TA TA TA TA TG TT TA TA TA TGA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
14846537 GAGGTTTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14846523 original size:19 final size:19
Alignment explanation
Indices: 14846499--14846535 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14846489 GCCGGTGGTT
* *
14846499 ATATATATGTTTATATATG
1 ATATATATATATATATATG
14846518 ATATATATATATATATAT
1 ATATATATATATATATAT
14846536 AGAGGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
ATATATATATATATATATG
Found at i:14850860 original size:14 final size:15
Alignment explanation
Indices: 14850836--14850864 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14850826 TTTTGGAGAA
14850836 ATATCCAAGGAAATG
1 ATATCCAAGGAAATG
14850851 ATAT-CAAGGAAATG
1 ATATCCAAGGAAATG
14850865 TAATCTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (15 bp):
ATATCCAAGGAAATG
Found at i:14852540 original size:18 final size:20
Alignment explanation
Indices: 14852509--14852545 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
14852499 TAAACTCGAG
14852509 GAGAAGAAGAAAGAAAAAGA
1 GAGAAGAAGAAAGAAAAAGA
14852529 GAGAA-AAG-AAGAAAAAG
1 GAGAAGAAGAAAGAAAAAG
14852546 CTTGGTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (20 bp):
GAGAAGAAGAAAGAAAAAGA
Found at i:14853680 original size:42 final size:42
Alignment explanation
Indices: 14853611--14853698 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
14853601 GTGATAATTA
* *
14853611 TGACTCAGCCATGTGTGGTGTAGGAGTGCACATGAGCAGTGC
1 TGACCCAGCCATGTGTGGAGTAGGAGTGCACATGAGCAGTGC
* *
14853653 TGACCCAGCCATGT-TCGGAGTATGAGTGCACATGAGCTGTGC
1 TGACCCAGCCATGTGT-GGAGTAGGAGTGCACATGAGCAGTGC
14853695 TGAC
1 TGAC
14853699 TCGACTATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 40 0.98
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.24
Consensus pattern (42 bp):
TGACCCAGCCATGTGTGGAGTAGGAGTGCACATGAGCAGTGC
Found at i:14853723 original size:42 final size:42
Alignment explanation
Indices: 14853611--14853733 Score: 117
Period size: 42 Copynumber: 2.9 Consensus size: 42
14853601 GTGATAATTA
* * *
14853611 TGACTCAGCCATGTGTGGTGTAGG-AGTGCACATGAGCAGTGC
1 TGACCCAGCCATGTGCGGTGT-GGTAGTGCACATGAGCTGTGC
* * *
14853653 TGACCCAGCCATGTTCGGAGT-ATGAGTGCACATGAGCTGTGC
1 TGACCCAGCCATGTGCGGTGTGGT-AGTGCACATGAGCTGTGC
* * *
14853695 TGACTC-GACTATGTGCGGTGTGGTAGTGCACATAAGCTG
1 TGACCCAG-CCATGTGCGGTGTGGTAGTGCACATGAGCTG
14853734 AGATAGAGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.25
Consensus pattern (42 bp):
TGACCCAGCCATGTGCGGTGTGGTAGTGCACATGAGCTGTGC
Found at i:14855324 original size:19 final size:19
Alignment explanation
Indices: 14855300--14855363 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
14855290 TAGCCGGAGC
14855300 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
* ****
14855319 CATCGTGCACAGTCAGTGC-
1 CATCGTGTACA-TCCCCCCA
14855338 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
14855357 CATCGTG
1 CATCGTG
14855364 CACACGGGCA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
18 3 0.09
19 27 0.82
20 3 0.09
ACGTcount: A:0.20, C:0.41, G:0.17, T:0.22
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:14872347 original size:35 final size:35
Alignment explanation
Indices: 14872317--14872571 Score: 254
Period size: 35 Copynumber: 7.3 Consensus size: 35
14872307 TTAATTGTTT
14872317 AATTTAATCAATTAGGCCCAATATCTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATATCTTAATTAAAC
* ** *
14872352 AATTTAATTAATTAAACCCAACAAT-TTAATTAAAC
1 AATTTAATCAATTAGGCCCAA-TATCTTAATTAAAC
14872387 AATTTTAATCAATTAGGCCCAATGA-CTTAATTAAAC
1 AA-TTTAATCAATTAGGCCCAAT-ATCTTAATTAAAC
* * ****
14872423 AAATTTAATCAATTAGACCCAATAACTTAATTGTTT
1 -AATTTAATCAATTAGGCCCAATATCTTAATTAAAC
* *
14872459 AATTTAATTAATTAGTCCCAATGAT-TTAATTAAAC
1 AATTTAATCAATTAGGCCCAAT-ATCTTAATTAAAC
*
14872494 AATTTAATTAATTAGGCCCAATGAT-TTAATTAAAC
1 AATTTAATCAATTAGGCCCAAT-ATCTTAATTAAAC
* * * *
14872529 AATTTAATTAATTAGG--C-GTAACTTTATTAAAC
1 AATTTAATCAATTAGGCCCAATATCTTAATTAAAC
14872561 AATTTAATCAA
1 AATTTAATCAA
14872572 GTGTTTAAGA
Statistics
Matches: 187, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
31 1 0.01
32 20 0.11
33 1 0.01
35 107 0.57
36 56 0.30
37 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATATCTTAATTAAAC
Found at i:14872395 original size:71 final size:71
Alignment explanation
Indices: 14872317--14872545 Score: 302
Period size: 71 Copynumber: 3.2 Consensus size: 71
14872307 TTAATTGTTT
* *
14872317 AATTTAATCAATTAGGCCCAAT-ATCTTAATTAAACAATTTAATTAATTAAACCCAACAATTTAA
1 AATTTAATCAATTAGGCCCAATGATCTTAATTAAACAATTTAATTAATTAGACCCAATAATTTAA
14872381 TTAAAC
66 TTAAAC
* *
14872387 AATTTTAATCAATTAGGCCCAATGA-CTTAATTAAACAAATTTAATCAATTAGACCCAATAACTT
1 AA-TTTAATCAATTAGGCCCAATGATCTTAATTAAAC-AATTTAATTAATTAGACCCAATAATTT
****
14872451 AATTGTTT
64 AATTAAAC
* * * *
14872459 AATTTAATTAATTAGTCCCAATGAT-TTAATTAAACAATTTAATTAATTAGGCCCAATGATTTAA
1 AATTTAATCAATTAGGCCCAATGATCTTAATTAAACAATTTAATTAATTAGACCCAATAATTTAA
14872523 TTAAAC
66 TTAAAC
*
14872529 AATTTAATTAATTAGGC
1 AATTTAATCAATTAGGC
14872546 GTAACTTTAT
Statistics
Matches: 136, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
70 45 0.33
71 61 0.45
72 30 0.22
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.37
Consensus pattern (71 bp):
AATTTAATCAATTAGGCCCAATGATCTTAATTAAACAATTTAATTAATTAGACCCAATAATTTAA
TTAAAC
Found at i:14872430 original size:107 final size:105
Alignment explanation
Indices: 14872317--14872568 Score: 330
Period size: 107 Copynumber: 2.4 Consensus size: 105
14872307 TTAATTGTTT
*
14872317 AATTTAATCAATTAGGCCCAATATCTTAATTAAACAATTTAATTAATTAAACCCAACAATTTAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAACCCAACAATTTAAT
14872382 TAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
66 TAAACAA-TTTAATCAATTAGGCCCAATGACTTAATTAAAC
* **** ** **
14872423 AAATTTAATCAATTAGACCCAATAACTTAATTGTTTAATTTAATTAATTAGTCCCAATGATTTAA
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAACCCAACAATTTAA
* *
14872488 TTAAACAATTTAATTAATTAGGCCCAATGATTTAATTAAAC
65 TTAAACAATTTAATCAATTAGGCCCAATGACTTAATTAAAC
* * *
14872529 AATTTAATTAATTAGG--C-GTAACTTTATTAAACAATTTAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAAT
14872569 CAAGTGTTTA
Statistics
Matches: 125, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
102 17 0.14
103 1 0.01
105 14 0.11
106 31 0.25
107 62 0.50
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (105 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAACCCAACAATTTAAT
TAAACAATTTAATCAATTAGGCCCAATGACTTAATTAAAC
Found at i:14872489 original size:18 final size:17
Alignment explanation
Indices: 14872466--14872525 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
14872456 TTTAATTTAA
14872466 TTAATTAGTCCCAATGAT
1 TTAATTAG-CCCAATGAT
** * *
14872484 TTAATTA-AACAATTTAA
1 TTAATTAGCCCAA-TGAT
14872501 TTAATTAGGCCCAATGAT
1 TTAATTA-GCCCAATGAT
14872519 TTAATTA
1 TTAATTA
14872526 AACAATTTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 3 0.10
17 9 0.29
18 16 0.52
19 3 0.10
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (17 bp):
TTAATTAGCCCAATGAT
Found at i:14882245 original size:43 final size:43
Alignment explanation
Indices: 14882175--14882305 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 43
14882165 GTAATTATAT
* *
14882175 TGACTCGGCTATGTGCGAGTAGAGAGTGCGCATAAGC-CGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAA-CTCG-GTGA
* *
14882218 TGACCCGGTTATGTGCAAGTAGGGAGTGCGCATAACTCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACTCGGTGA
* * *
14882261 TGACCCAGCCATGTGCGAGTAGGGAG-GCGCATGAGCT-GGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT-AACTCGGTGA
14882303 TGA
1 TGA
14882306 TGATGATGTG
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
42 16 0.21
43 60 0.79
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACTCGGTGA
Found at i:14890364 original size:22 final size:23
Alignment explanation
Indices: 14890313--14890355 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
14890303 CTGTAAATAT
14890313 CATCTTCCAGCAGCTTCTTCTCA
1 CATCTTCCAGCAGCTTCTTCTCA
*
14890336 CAT-TTCCAGCATCTTCTTCT
1 CATCTTCCAGCAGCTTCTTCT
14890356 TCTTCTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.16, C:0.37, G:0.07, T:0.40
Consensus pattern (23 bp):
CATCTTCCAGCAGCTTCTTCTCA
Found at i:14891242 original size:41 final size:42
Alignment explanation
Indices: 14891139--14891312 Score: 262
Period size: 42 Copynumber: 4.1 Consensus size: 42
14891129 TTATGTGATA
*
14891139 ATGATGACCCAGCTATGTGCATGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
* *
14891181 ATGATGACCCAGCTATGTGCGTGTGGGAGTGAACATGAGCTT
1 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
* *
14891223 AT-TTGACCCAGCTATGTGCG-GTGTGGAGCGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTG-GGAGTGCACATGAGCTG
*
14891264 ATGATGACCCAGCTATGTGCGAGTGGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGT-GGGAGTGCACATGAGCTG
14891307 ATGATG
1 ATGATG
14891313 GTGGGATGGT
Statistics
Matches: 119, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
40 3 0.03
41 33 0.28
42 58 0.49
43 24 0.20
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.24
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
Found at i:14891282 original size:83 final size:84
Alignment explanation
Indices: 14891143--14891305 Score: 267
Period size: 83 Copynumber: 2.0 Consensus size: 84
14891133 GTGATAATGA
* *
14891143 TGACCCAGCTATGTGCATGTGGGAGTGCACATGAGCTGATGATGACCCAGCTATGTGCGTGT-GG
1 TGACCCAGCTATGTGCATGTGGGAGCGCACATGAGCTGATGATGACCCAGCTATGTGCGAGTGGG
14891207 GAGTGAACATGAGCTTATT
66 GAGTGAACATGAGCTTATT
*
14891226 TGACCCAGCTATGTGC-GGTGTGGAGCGCACATGAGCTGATGATGACCCAGCTATGTGCGAGTGG
1 TGACCCAGCTATGTGCATGTG-GGAGCGCACATGAGCTGATGATGACCCAGCTATGTGCGAGTGG
*
14891290 GGAGTGCACATGAGCT
65 GGAGTGAACATGAGCT
14891306 GATGATGGTG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
82 3 0.04
83 55 0.74
84 16 0.22
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (84 bp):
TGACCCAGCTATGTGCATGTGGGAGCGCACATGAGCTGATGATGACCCAGCTATGTGCGAGTGGG
GAGTGAACATGAGCTTATT
Found at i:14891921 original size:19 final size:19
Alignment explanation
Indices: 14891899--14891945 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
14891889 AAATGAGGGG
14891899 GCCAGTTGAGAAACCCTCA
1 GCCAGTTGAGAAACCCTCA
** * *
14891918 GCCACCTAAGAAACCCTCG
1 GCCAGTTGAGAAACCCTCA
14891937 GCCAGTTGA
1 GCCAGTTGA
14891946 CAGTTTGAGT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.15
Consensus pattern (19 bp):
GCCAGTTGAGAAACCCTCA
Found at i:14897301 original size:41 final size:42
Alignment explanation
Indices: 14897247--14897346 Score: 130
Period size: 43 Copynumber: 2.4 Consensus size: 42
14897237 GACATACTCG
* * *
14897247 CACATAGCCGGGTCATCATTAGCTC-GTGCACTCCCACACTA
1 CACATAGCTGGGTCATCATCAGCTCAGTGCACTCCCACACCA
* *
14897288 CACGTAGCTGGGTCATCATCAGCTCATGTGCACTCTCACACCA
1 CACATAGCTGGGTCATCATCAGCTCA-GTGCACTCCCACACCA
*
14897331 CACATAACTGGGTCAT
1 CACATAGCTGGGTCAT
14897347 TAATATCACA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 22 0.44
43 28 0.56
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (42 bp):
CACATAGCTGGGTCATCATCAGCTCAGTGCACTCCCACACCA
Found at i:14904438 original size:13 final size:13
Alignment explanation
Indices: 14904420--14904444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14904410 AGAGAAATTG
14904420 TGATTTTATAAAA
1 TGATTTTATAAAA
14904433 TGATTTTATAAA
1 TGATTTTATAAA
14904445 TTTTCTGGAA
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:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14910528 original size:43 final size:43
Alignment explanation
Indices: 14910455--14910585 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 43
14910445 ACAATGCAGT
*
14910455 ATCATC-A-TCATGCGCACTCCCTAC-TCGCACATAGTCGGGTC
1 ATCATCAACTCATGCGCACTCCC-ACACCGCACATAGTCGGGTC
* * * * *
14910496 ATCATCAGCTTATGTGCACTCTCACACTGCACATAGGT-GGGTC
1 ATCATCAACTCATGCGCACTCCCACACCGCACATA-GTCGGGTC
14910539 ATCATCAACTCATGCGCACTCCCACACCGCACATAG-CTGGGTC
1 ATCATCAACTCATGCGCACTCCCACACCGCACATAGTC-GGGTC
14910582 ATCA
1 ATCA
14910586 ATATCACACA
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
41 6 0.08
42 3 0.04
43 62 0.85
44 2 0.03
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (43 bp):
ATCATCAACTCATGCGCACTCCCACACCGCACATAGTCGGGTC
Found at i:14911869 original size:2 final size:2
Alignment explanation
Indices: 14911859--14911902 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
14911849 TATAACACAC
*
14911859 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14911901 AT
1 AT
14911903 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:14912073 original size:2 final size:2
Alignment explanation
Indices: 14912056--14912115 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
14912046 NNNNCACAAC
* *
14912056 AT AT AT TT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14912098 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
14912116 CAACATGATA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14912883 original size:23 final size:23
Alignment explanation
Indices: 14912853--14912897 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
14912843 CAACGTGAAA
14912853 GAGAAGAAGCTACTGGAAAATGG
1 GAGAAGAAGCTACTGGAAAATGG
**
14912876 GAGAAGAAGCTGTTGGAAAATG
1 GAGAAGAAGCTACTGGAAAATG
14912898 ATATTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.36, T:0.16
Consensus pattern (23 bp):
GAGAAGAAGCTACTGGAAAATGG
Found at i:14913594 original size:37 final size:37
Alignment explanation
Indices: 14913521--14913596 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
14913511 CATCAGCATC
** *
14913521 CAAATCCTAACCATCAGCAATTATCACCGCAGAATGT
1 CAAATCCTAACCATCAGCAATTATCACAACAAAATGT
14913558 CAAATCCTAACCATCAGCAATTATCACAACAAAATGT
1 CAAATCCTAACCATCAGCAATTATCACAACAAAATGT
14913595 CA
1 CA
14913597 TAAGTAACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (37 bp):
CAAATCCTAACCATCAGCAATTATCACAACAAAATGT
Found at i:14915210 original size:42 final size:42
Alignment explanation
Indices: 14915164--14915323 Score: 187
Period size: 42 Copynumber: 3.8 Consensus size: 42
14915154 TTATGTGATA
* * *
14915164 ATGATAACCTAGCTCTATGCGTGTGGGAGTGCACATGAGTTG
1 ATGATAACCCAGCTATGTGCGTGTGGGAGTGCACATGAGTTG
* * *
14915206 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTA
1 ATGATAACCCAGCTATGTGCGTGTGGGAGTGCACATGAGTTG
* * *
14915248 ATGATGACCCAGCTATGTGC-TAGTAGAGAGTGCACATGAGTCG
1 ATGATAACCCAGCTATGTGCGT-GT-GGGAGTGCACATGAGTTG
* *
14915291 ATGATAACCCAGCTATGTGAGAGTAGGGAGTGC
1 ATGATAACCCAGCTATGTGCGTGT-GGGAGTGC
14915324 GCATATGTGA
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 58 0.57
43 42 0.42
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (42 bp):
ATGATAACCCAGCTATGTGCGTGTGGGAGTGCACATGAGTTG
Found at i:14915295 original size:43 final size:43
Alignment explanation
Indices: 14915188--14915323 Score: 179
Period size: 43 Copynumber: 3.2 Consensus size: 43
14915178 CTATGCGTGT
*
14915188 GGGAGTGCACATGAGTTGATGATGACCCAGCTATGTGCGT-GT-
1 GGGAGTGCACATGAGTCGATGATGACCCAGCTATGTGC-TAGTA
*
14915230 GGGAGTGCACATGAG-CTAATGATGACCCAGCTATGTGCTAGTA
1 GGGAGTGCACATGAGTC-GATGATGACCCAGCTATGTGCTAGTA
* * **
14915273 GAGAGTGCACATGAGTCGATGATAACCCAGCTATGTGAGAGTA
1 GGGAGTGCACATGAGTCGATGATGACCCAGCTATGTGCTAGTA
14915316 GGGAGTGC
1 GGGAGTGC
14915324 GCATATGTGA
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.01
42 37 0.45
43 43 0.52
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.34, T:0.23
Consensus pattern (43 bp):
GGGAGTGCACATGAGTCGATGATGACCCAGCTATGTGCTAGTA
Found at i:14917278 original size:38 final size:39
Alignment explanation
Indices: 14917236--14917338 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
14917226 ATAGTGCCCG
*
14917236 TGTGCACGATGTGGGGGGATGTACACGAT-AGCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGAGC-CGGATA
* ** * *
14917274 TGTGCACGATGTGGGGGGATGCACGTGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGAT-GAGCCGGATA
14917314 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
14917339 TGAGCCGGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 26 0.48
39 3 0.06
40 25 0.46
ACGTcount: A:0.19, C:0.16, G:0.42, T:0.23
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGTACACGATGAGCCGGATA
Found at i:14946943 original size:35 final size:34
Alignment explanation
Indices: 14946877--14946946 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
14946867 TTTCACCAAG
* * *
14946877 CTTTACAATGGCTTTTACCAGGCTTAGCCAAAAC
1 CTTTACAATGGCTTTTACCAGGATCAACCAAAAC
* *
14946911 CTTTCACAATGGTTTTTACCGGGATCAACCAAAAC
1 CTTT-ACAATGGCTTTTACCAGGATCAACCAAAAC
14946946 C
1 C
14946947 CAAAGTGGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 4 0.13
35 26 0.87
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (34 bp):
CTTTACAATGGCTTTTACCAGGATCAACCAAAAC
Found at i:14947006 original size:35 final size:35
Alignment explanation
Indices: 14946904--14947011 Score: 98
Period size: 35 Copynumber: 3.2 Consensus size: 35
14946894 CCAGGCTTAG
*
14946904 CCAAAACCTTTCACAATGGTTTTT-ACCGGGATCAA
1 CCAAAACCTTTAACAATGGTTTTTCA-CGGGATCAA
* * * * ** *
14946939 CCAAAACC--CAA-AGTGGCTTTGCAAAGGCTCAA
1 CCAAAACCTTTAACAATGGTTTTTCACGGGATCAA
*
14946971 CCACAACCTTTAACAATGGTTTTTCACGGGATCAA
1 CCAAAACCTTTAACAATGGTTTTTCACGGGATCAA
14947006 CCAAAA
1 CCAAAA
14947012 TCCAAAACTA
Statistics
Matches: 52, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
32 20 0.38
33 2 0.04
34 2 0.04
35 28 0.54
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (35 bp):
CCAAAACCTTTAACAATGGTTTTTCACGGGATCAA
Found at i:14947541 original size:73 final size:73
Alignment explanation
Indices: 14947402--14947601 Score: 203
Period size: 73 Copynumber: 2.8 Consensus size: 73
14947392 GATAGATTGA
* * *
14947402 TCTTAGTCGACTAACTACGTTCTTAGTTGACTAAGTTGTCTCTATCTTCTGAACCCAGTTTTTGG
1 TCTTAGTCGACTAACTTCCTTCTTAGTTGACTAAGTTGTCTCTATCTTCTGAACCCAGTTTCTGG
14947467 CAGT-GAGC
66 CAGTAG-GC
* * * * * *
14947475 TCTTAGTTGACTAACTTCCTTCTTAGTTGATTAAGTTGTTTTTGTC-T-TGAAGTCCAGATTTCT
1 TCTTAGTCGACTAACTTCCTTCTTAGTTGACTAAGTTGTCTCTATCTTCTGAA-CCCAG-TTTCT
14947538 GGCAGTAGGC
64 GGCAGTAGGC
* * * * *
14947548 TTTTAGTCGACTAACTTACTTCTTGGTCGACTAAGTCT-TCTCTGT-TTCTGAACC
1 TCTTAGTCGACTAACTTCCTTCTTAGTTGACTAAGT-TGTCTCTATCTTCTGAACC
14947602 AACCATCTTC
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
71 4 0.04
72 5 0.05
73 88 0.85
74 6 0.06
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (73 bp):
TCTTAGTCGACTAACTTCCTTCTTAGTTGACTAAGTTGTCTCTATCTTCTGAACCCAGTTTCTGG
CAGTAGGC
Found at i:14948177 original size:37 final size:37
Alignment explanation
Indices: 14948127--14948202 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
14948117 CATTAGCATC
*
14948127 CAAATCCTAACCATCAGCAATTATCACAGCAGAATGT
1 CAAATCCTAACCATCAGCAATTATCACAACAGAATGT
14948164 CAAATCCTAACCATCAGCAATTATCACAACAGAATGT
1 CAAATCCTAACCATCAGCAATTATCACAACAGAATGT
14948201 CA
1 CA
14948203 TAAGTAACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.42, C:0.28, G:0.09, T:0.21
Consensus pattern (37 bp):
CAAATCCTAACCATCAGCAATTATCACAACAGAATGT
Found at i:14954005 original size:42 final size:42
Alignment explanation
Indices: 14953959--14954082 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
14953949 CATATGGCTG
* *
14953959 GGTCAGTATCGGCTTATGCGCACTCCTACTCGCACATAG-TT
1 GGTCAGCATCGGCTTATGCGCACTCTTACTCGCACATAGCTT
* * *
14954000 AGGTCAGCATCGGCTTATGTGCAAT-TTCACTTGCACATAGCTT
1 -GGTCAGCATCGGCTTATGCGCACTCTT-ACTCGCACATAGCTT
* *
14954043 GATCAGCATCGGCTTATGCACACTCTTACTCGCACATAGC
1 GGTCAGCATCGGCTTATGCGCACTCTTACTCGCACATAGC
14954083 CGGGTCAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 64 0.93
43 4 0.06
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (42 bp):
GGTCAGCATCGGCTTATGCGCACTCTTACTCGCACATAGCTT
Found at i:14954345 original size:104 final size:103
Alignment explanation
Indices: 14954161--14954362 Score: 352
Period size: 104 Copynumber: 2.0 Consensus size: 103
14954151 GTCCTTTTAC
**
14954161 ACATTTCACATTTTAGTAACATCAAGACATTTTATCAAGGGCTTGTTCCTCGGCACACATTTTGA
1 ACATTTCACATTTTACCAACATCAAGACATTTTATCAAGGGCTTGTTCCTCGGCACACATTTTGA
*
14954226 AAGAAAAGTTGGTTAAAATCATTCAAATGTTTTATACA
66 AAGAAAAGTTAGTTAAAATCATTCAAATGTTTTATACA
14954264 ANCATTTCACATTTTACCAACATCAAGACATTTTATCAAGGGCTTGTTCC-CTGGCACACATTTT
1 A-CATTTCACATTTTACCAACATCAAGACATTTTATCAAGGGCTTGTTCCTC-GGCACACATTTT
14954328 GAAAGAAAAGTTAGTTAAAATCATTCAAATGTTTT
64 GAAAGAAAAGTTAGTTAAAATCATTCAAATGTTTT
14954363 GTGCAAATAC
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
103 2 0.02
104 92 0.98
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (103 bp):
ACATTTCACATTTTACCAACATCAAGACATTTTATCAAGGGCTTGTTCCTCGGCACACATTTTGA
AAGAAAAGTTAGTTAAAATCATTCAAATGTTTTATACA
Found at i:14965846 original size:35 final size:35
Alignment explanation
Indices: 14965800--14965869 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
14965790 ACCATACACT
14965800 TGTCCCACATATCCATAGCTTAGATAAAATTCTCA
1 TGTCCCACATATCCATAGCTTAGATAAAATTCTCA
14965835 TGTCCCACATATCCATAGCTTAGATAAAATTCTCA
1 TGTCCCACATATCCATAGCTTAGATAAAATTCTCA
14965870 GACTTATCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (35 bp):
TGTCCCACATATCCATAGCTTAGATAAAATTCTCA
Found at i:14974593 original size:36 final size:36
Alignment explanation
Indices: 14974545--14974786 Score: 156
Period size: 36 Copynumber: 6.7 Consensus size: 36
14974535 TATAACCATG
* *
14974545 CGTGTGCGGTGTGGGAGTGCACATGACGGTGATGGT
1 CGTGTGCAGTGTGGGAGTGCACATGACGATGATGGT
* *
14974581 CGTGTGTAGTGTGGCAGTGCACATGACGATGATGGT
1 CGTGTGCAGTGTGGGAGTGCACATGACGATGATGGT
* * * *
14974617 GGTGTGCAGTGTGGGAGTGCACACGTTGATGAT-ATATGC
1 CGTGTGCAGTGTGGGAGTGCACA---TGACGATGAT-GGT
* ** * * *
14974656 CATGTGCAGTGTAAGAGTGCACATGATGAT-ATATGC
1 CGTGTGCAGTGTGGGAGTGCACATGACGATGAT-GGT
* * * * *
14974692 CTTGTGCGGTGTGGGAGTGCACATGA-TAT--TTGC
1 CGTGTGCAGTGTGGGAGTGCACATGACGATGATGGT
* * * *
14974725 CATGTGCGGTGTGGGAGTGCACATGAGGAT-ATTAG-
1 CGTGTGCAGTGTGGGAGTGCACATGACGATGA-TGGT
*
14974760 CTATGTGCAGTGTGGGAGTGCACATGA
1 C-GTGTGCAGTGTGGGAGTGCACATGA
14974787 GCTGAGTTGA
Statistics
Matches: 175, Mismatches: 23, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
33 28 0.16
34 3 0.02
35 3 0.02
36 113 0.65
38 2 0.01
39 26 0.15
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.28
Consensus pattern (36 bp):
CGTGTGCAGTGTGGGAGTGCACATGACGATGATGGT
Found at i:14974674 original size:39 final size:36
Alignment explanation
Indices: 14974619--14974786 Score: 209
Period size: 36 Copynumber: 4.7 Consensus size: 36
14974609 ATGATGGTGG
14974619 TGTGCAGTGTGGGAGTGCACACGTTGATGATATATGCCA
1 TGTGCAGTGTGGGAGTGCACA---TGATGATATATGCCA
** *
14974658 TGTGCAGTGTAAGAGTGCACATGATGATATATGCCT
1 TGTGCAGTGTGGGAGTGCACATGATGATATATGCCA
*
14974694 TGTGCGGTGTGGGAGTGCACATGAT-AT-T-TGCCA
1 TGTGCAGTGTGGGAGTGCACATGATGATATATGCCA
* * *
14974727 TGTGCGGTGTGGGAGTGCACATGAGGATAT-TAGCTA
1 TGTGCAGTGTGGGAGTGCACATGATGATATAT-GCCA
14974763 TGTGCAGTGTGGGAGTGCACATGA
1 TGTGCAGTGTGGGAGTGCACATGA
14974787 GCTGAGTTGA
Statistics
Matches: 116, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
33 28 0.24
34 3 0.03
35 4 0.03
36 62 0.53
39 19 0.16
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.29
Consensus pattern (36 bp):
TGTGCAGTGTGGGAGTGCACATGATGATATATGCCA
Found at i:14974743 original size:69 final size:69
Alignment explanation
Indices: 14974645--14974786 Score: 198
Period size: 69 Copynumber: 2.1 Consensus size: 69
14974635 GCACACGTTG
* *
14974645 ATGATATATGCCATGTGCAGTGTAAGAGTGCACATGATGATA-TATGCCT-TGTGCGGTGTGGGA
1 ATGATATATGCCATGTGCAGTGTAAGAGTGCACATGAGGATATTA-G-CTATGTGCAGTGTGGGA
14974708 GTGCAC
64 GTGCAC
* * **
14974714 ATGATATTTGCCATGTGCGGTGTGGGAGTGCACATGAGGATATTAGCTATGTGCAGTGTGGGAGT
1 ATGATATATGCCATGTGCAGTGTAAGAGTGCACATGAGGATATTAGCTATGTGCAGTGTGGGAGT
14974779 GCAC
66 GCAC
14974783 ATGA
1 ATGA
14974787 GCTGAGTTGA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
68 2 0.03
69 61 0.94
70 2 0.03
ACGTcount: A:0.24, C:0.13, G:0.34, T:0.29
Consensus pattern (69 bp):
ATGATATATGCCATGTGCAGTGTAAGAGTGCACATGAGGATATTAGCTATGTGCAGTGTGGGAGT
GCAC
Found at i:14977746 original size:106 final size:106
Alignment explanation
Indices: 14977561--14977778 Score: 382
Period size: 106 Copynumber: 2.1 Consensus size: 106
14977551 CAAAAGAATC
* * * *
14977561 AACAAGACCGGTGAGTGAACTTGCATCAAAGTGTTTTTAGGAAATACATGTGTTGGGATGAAGCA
1 AACAAGACCGATGAGTGAACTTGCATCAAAGTATTTTTAGGAAATACATGTATTGAGATGAAGCA
14977626 TTTAAATGATTTTACTTGGTTTTCATTAAATTATGCATGGG
66 TTTAAATGATTTTACTTGGTTTTCATTAAATTATGCATGGG
* *
14977667 AACAAGATCGATGAGTGAACTTGCATCAAAGTATTTTTAGGAAATACATGTATTGAGCTGAAGCA
1 AACAAGACCGATGAGTGAACTTGCATCAAAGTATTTTTAGGAAATACATGTATTGAGATGAAGCA
14977732 TTTAAATGATTTTACTTGGTTTTCATTAAATTATGCATGGG
66 TTTAAATGATTTTACTTGGTTTTCATTAAATTATGCATGGG
14977773 AACAAG
1 AACAAG
14977779 CCCTTGATAA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (106 bp):
AACAAGACCGATGAGTGAACTTGCATCAAAGTATTTTTAGGAAATACATGTATTGAGATGAAGCA
TTTAAATGATTTTACTTGGTTTTCATTAAATTATGCATGGG
Found at i:14978047 original size:46 final size:43
Alignment explanation
Indices: 14977910--14978045 Score: 175
Period size: 43 Copynumber: 3.2 Consensus size: 43
14977900 TTGTGTGATA
* * * * *
14977910 ATGATGACCCAGCTATGTGTGATGT-GGGAGTGCACATGAGCTG
1 ATGATGACCCGGCTATGTG-CAAGTAGGGAGTGCGCATAAGCTG
* *
14977953 ATGATGACCTGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTG
1 ATGATGACCCGGCTATGTGCAAGTAGGGAGTGCGCATAAGCTG
* *
14977996 ATGATGACCCGGCTATGTGCAAGTAGGGAGTGTGCATAAGCCG
1 ATGATGACCCGGCTATGTGCAAGTAGGGAGTGCGCATAAGCTG
14978039 ATGATGA
1 ATGATGA
14978046 TGATCCGGCT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 2 0.02
43 79 0.98
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (43 bp):
ATGATGACCCGGCTATGTGCAAGTAGGGAGTGCGCATAAGCTG
Found at i:14982590 original size:25 final size:25
Alignment explanation
Indices: 14982541--14982592 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
14982531 AGTGCAAATG
* *
14982541 AATTTGTGGGTTTTTTTTTTGTTTT
1 AATTTATGGGTTTTTTATTTGTTTT
*
14982566 AATTTATGGGTTTTTTAATTTTTTTT
1 AATTTATGGGTTTTTT-ATTTGTTTT
14982592 A
1 A
14982593 TTTGCTGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (25 bp):
AATTTATGGGTTTTTTATTTGTTTT
Found at i:14985388 original size:30 final size:30
Alignment explanation
Indices: 14985354--14985418 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
14985344 TTAATGCTTT
14985354 GATATGAATTAAGCCGAAGAGATACACACA
1 GATATGAATTAAGCCGAAGAGATACACACA
* **
14985384 GATATGAATTAAGCCTAAGAGATGTACACA
1 GATATGAATTAAGCCGAAGAGATACACACA
14985414 GATAT
1 GATAT
14985419 CTATAAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.22
Consensus pattern (30 bp):
GATATGAATTAAGCCGAAGAGATACACACA
Found at i:14988053 original size:40 final size:39
Alignment explanation
Indices: 14988004--14988137 Score: 157
Period size: 39 Copynumber: 3.4 Consensus size: 39
14987994 TATGATGAAC
* *
14988004 ATTGCTTTATGAATGATTTTGTTTACTT-ATGTGACAAAT
1 ATTGATTTATGAATGATTTTGTTTA-TTCATATGACAAAT
* * *
14988043 AATGGATTTATGAATGA-TTTGATTTATTCATATGACGAAC
1 -ATTGATTTATGAATGATTTTG-TTTATTCATATGACAAAT
*
14988083 ATTGCTTTATGAATG-TTTTGGTTTATTCATATGACAAAT
1 ATTGATTTATGAATGATTTT-GTTTATTCATATGACAAAT
14988122 ATTGATTTATGAATGA
1 ATTGATTTATGAATGA
14988138 AATGAAATCT
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
39 52 0.66
40 27 0.34
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.46
Consensus pattern (39 bp):
ATTGATTTATGAATGATTTTGTTTATTCATATGACAAAT
Found at i:14988089 original size:79 final size:78
Alignment explanation
Indices: 14987993--14988137 Score: 222
Period size: 79 Copynumber: 1.8 Consensus size: 78
14987983 GGGCTTAATA
* *
14987993 ATATGATGAACATTGCTTTATGAATGATTTT-GTTTACTT-ATGTGACAAATAATGGATTTATGA
1 ATATGACGAACATTGCTTTATGAATG-TTTTGGTTTA-TTCATATGACAAAT-ATGGATTTATGA
14988056 ATGATTTGATTTATTC
63 ATGATTTGATTTATTC
*
14988072 ATATGACGAACATTGCTTTATGAATGTTTTGGTTTATTCATATGACAAATATTGATTTATGAATG
1 ATATGACGAACATTGCTTTATGAATGTTTTGGTTTATTCATATGACAAATATGGATTTATGAATG
14988137 A
66 A
14988138 AATGAAATCT
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
78 21 0.34
79 40 0.66
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (78 bp):
ATATGACGAACATTGCTTTATGAATGTTTTGGTTTATTCATATGACAAATATGGATTTATGAATG
ATTTGATTTATTC
Found at i:14991212 original size:28 final size:27
Alignment explanation
Indices: 14991176--14991228 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
14991166 ATATCCTGGT
*
14991176 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
14991203 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
14991229 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:14991296 original size:20 final size:20
Alignment explanation
Indices: 14991273--14991318 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
14991263 CTTCTAAACC
14991273 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
14991293 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
14991313 TCAAAT
1 TCAAAT
14991319 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:15010340 original size:2 final size:2
Alignment explanation
Indices: 15010271--15010328 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
15010261 ATATATCTGC
15010271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15010313 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
15010329 TCTGAATATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15010932 original size:73 final size:72
Alignment explanation
Indices: 15010779--15010941 Score: 172
Period size: 73 Copynumber: 2.2 Consensus size: 72
15010769 AAATAGAAAA
* **
15010779 GACTTAGTTGACTAAGAAGTGGGTTAGTCAACTAAGAAGCTACTGCCAGAAATCTGGACTTCAAG
1 GACTTAGTCGACTAAGAAGTAAGTTAGTCAACTAAGAAGCTACTGCCAGAAATCTGGAC-TCAAG
15010844 ATAGAACC
65 ATAGAACC
* * * * *
15010852 AATTTAGTCGACCAAGAAGTAAGTTAGTCAATTAAG-TGCTCACTGCCAGAAAT-TGGGA-TCAG
1 GACTTAGTCGACTAAGAAGTAAGTTAGTCAACTAAGAAGCT-ACTGCCAGAAATCT-GGACTC--
15010914 AAGATAGAGA-C
62 AAGATAGA-ACC
15010925 GACTTAGTCGACTAAGA
1 GACTTAGTCGACTAAGA
15010942 GCATTCTGCC
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
71 2 0.03
72 4 0.05
73 67 0.91
74 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (72 bp):
GACTTAGTCGACTAAGAAGTAAGTTAGTCAACTAAGAAGCTACTGCCAGAAATCTGGACTCAAGA
TAGAACC
Found at i:15017237 original size:2 final size:2
Alignment explanation
Indices: 15017225--15017254 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15017215 ACCATATACC
*
15017225 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15017255 CAATCATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15017347 original size:42 final size:42
Alignment explanation
Indices: 15017300--15017421 Score: 181
Period size: 42 Copynumber: 2.9 Consensus size: 42
15017290 CATATGCAAC
*
15017300 GGCTTATGCGCACTCCCACTCACACATAGCCGGGTCAACAAT
1 GGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAACAAT
* *
15017342 GGCTTATGTGCACTCCCACTCACACATAGTCGGGTCAGCAAT
1 GGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAACAAT
* * * *
15017384 GGCTTATGTTCACTCCTACTCGCACATAGCCGAGTCAA
1 GGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAA
15017422 TATCATTACA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (42 bp):
GGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAACAAT
Found at i:15020441 original size:10 final size:10
Alignment explanation
Indices: 15020422--15020456 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
15020412 TAACTTTTCC
15020422 TAAAATAAAT
1 TAAAATAAAT
*
15020432 TAAGATAAAT
1 TAAAATAAAT
15020442 TAAAATGAAAT
1 TAAAAT-AAAT
15020453 TAAA
1 TAAA
15020457 GTAACAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (10 bp):
TAAAATAAAT
Found at i:15027757 original size:75 final size:73
Alignment explanation
Indices: 15027663--15027810 Score: 262
Period size: 75 Copynumber: 2.0 Consensus size: 73
15027653 AAATATTTTG
15027663 ATGTTGTGAAAATGTGAAATGT-GTAAAAAGACAGACCTATGTGCTCCTATATTGTGTTGATATA
1 ATGTTGTGAAAATGTGAAATGTAGT-AAAAGACAGACCTATGTGCTCCTATATTGTGTTGATATA
15027727 TGATATATA
65 TGATATATA
15027736 NATGTTGTAGAAAATGTGAAATGTAGTAAAAGACAGACCTATGTGCTCCTATATTGTGTTGATAT
1 -ATGTTGT-GAAAATGTGAAATGTAGTAAAAGACAGACCTATGTGCTCCTATATTGTGTTGATAT
15027801 ATGATATATA
64 ATGATATATA
15027811 TATATATATA
Statistics
Matches: 72, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
74 7 0.10
75 63 0.88
76 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.35
Consensus pattern (73 bp):
ATGTTGTGAAAATGTGAAATGTAGTAAAAGACAGACCTATGTGCTCCTATATTGTGTTGATATAT
GATATATA
Found at i:15027900 original size:42 final size:42
Alignment explanation
Indices: 15027844--15027955 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
15027834 GTAATGATAT
* * * * * *
15027844 TGACTCGGTTATGTGTGAGTAGGAGTGTGCATAAGCTGATGC
1 TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
*
15027886 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGA
1 TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* * *
15027928 TGACCCAG-TCATGTGCTAGTGGGAGTGC
1 TGACCCGGCT-ATGTGCGAGTAGGAGTGC
15027956 ATATGAGCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.25
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
Found at i:15033168 original size:20 final size:20
Alignment explanation
Indices: 15033143--15033182 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15033133 GCATAAATAT
*
15033143 CTCATTCCTCCAGCAGCTTC
1 CTCATTCCTCCAGCAACTTC
**
15033163 CTCATTTTTCCAGCAACTTC
1 CTCATTCCTCCAGCAACTTC
15033183 TTCTTTTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.40, G:0.07, T:0.35
Consensus pattern (20 bp):
CTCATTCCTCCAGCAACTTC
Found at i:15033191 original size:19 final size:20
Alignment explanation
Indices: 15033151--15033191 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
15033141 ATCTCATTCC
*
15033151 TCCAGCAGCTTCCTCATTTT
1 TCCAGCAACTTCCTCATTTT
*
15033171 TCCAGCAACTTCTTC-TTTT
1 TCCAGCAACTTCCTCATTTT
15033190 TC
1 TC
15033192 TTCCTCCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.15, C:0.34, G:0.07, T:0.44
Consensus pattern (20 bp):
TCCAGCAACTTCCTCATTTT
Found at i:15037391 original size:22 final size:23
Alignment explanation
Indices: 15037366--15037417 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
15037356 CAATCCAACC
15037366 GAGAGGAAGAAGAA-AAAAAAAA
1 GAGAGGAAGAAGAAGAAAAAAAA
* * * *
15037388 GAGAGAAAGAGGAAGGAAAGAAA
1 GAGAGGAAGAAGAAGAAAAAAAA
15037411 GAGAGGA
1 GAGAGGA
15037418 GAAAGGAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (23 bp):
GAGAGGAAGAAGAAGAAAAAAAA
Found at i:15037419 original size:26 final size:26
Alignment explanation
Indices: 15037373--15037441 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
15037363 ACCGAGAGGA
* * *
15037373 AGAAGAAAAAAAAAAGA-GAGAAA-G
1 AGAAGGAAAGAAAGAGAGGAGAAAGG
15037397 AGGAAGGAAAGAAAGAGAGGAGAAAGG
1 A-GAAGGAAAGAAAGAGAGGAGAAAGG
* *
15037424 AGAAGGAAGGAAGGAGAG
1 AGAAGGAAAGAAAGAGAG
15037442 AAAAGCTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 13 0.35
26 21 0.57
27 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (26 bp):
AGAAGGAAAGAAAGAGAGGAGAAAGG
Found at i:15041719 original size:63 final size:63
Alignment explanation
Indices: 15041618--15041788 Score: 229
Period size: 63 Copynumber: 2.7 Consensus size: 63
15041608 TAATGGATGT
* * ** *
15041618 AACCGTGCATGTGCGGAGTTGGCAGTACACATGCCGGTTGAATGATGAGGTTTTGATAGTTAC
1 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTTGAATGATGAGGTTGCGATAATTAC
* * * *
15041681 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGTCGGTTGAATGACGATGTTGCGATAATTGC
1 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTTGAATGATGAGGTTGCGATAATTAC
* *
15041744 TACTGTGCATGTGCGGAGTGGGCAGTGCACATGCCGG-T-AATGATG
1 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTTGAATGATG
15041789 CATATGAGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
61 6 0.06
62 1 0.01
63 88 0.93
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (63 bp):
AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTTGAATGATGAGGTTGCGATAATTAC
Found at i:15047183 original size:43 final size:44
Alignment explanation
Indices: 15047113--15047244 Score: 162
Period size: 43 Copynumber: 3.1 Consensus size: 44
15047103 GTAATTATAT
* *
15047113 TGACTCGGCTATGTGCTAGTAGGGAGTGCGCATAAGCTGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGAGTGA
* * **
15047156 TGACCCGGTTATGTGCGAGTAGGGAGTGTGCATAA-CCCAGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGAGTGA
* * *
15047199 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATGAGCTG-GTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGAGTGA
15047242 TGA
1 TGA
15047245 TGATGATGGG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
42 3 0.04
43 70 0.95
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (44 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGAGTGA
Found at i:15047707 original size:39 final size:40
Alignment explanation
Indices: 15047620--15047709 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 40
15047610 TGTGTTCTCG
* * * * **
15047620 CTGCAGCGAGAAACTTTTTGTTTTCTGGGTTGCAATTTTG
1 CTGCAGCGAGAAACATTCTGTTTTCTGGGTAGAAATTTCA
15047660 CTGCAGCGAGAAACATTCTGTTTT-TGGGTAGAAATTTCA
1 CTGCAGCGAGAAACATTCTGTTTTCTGGGTAGAAATTTCA
*
15047699 CTGTAGCGAGA
1 CTGCAGCGAGA
15047710 TTAAATCTCG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 21 0.49
40 22 0.51
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (40 bp):
CTGCAGCGAGAAACATTCTGTTTTCTGGGTAGAAATTTCA
Found at i:15047881 original size:19 final size:18
Alignment explanation
Indices: 15047855--15047890 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
15047845 ATGAGGAGGT
15047855 TTAGTGAGAAACCCTCGG
1 TTAGTGAGAAACCCTCGG
15047873 TTAGTTGAGAAACCCTCG
1 TTAG-TGAGAAACCCTCG
15047891 TTCGGTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (18 bp):
TTAGTGAGAAACCCTCGG
Found at i:15050254 original size:42 final size:43
Alignment explanation
Indices: 15050207--15050340 Score: 173
Period size: 43 Copynumber: 3.1 Consensus size: 43
15050197 TTGTGTGATA
* *
15050207 ATGATGACCCAGCTATTTGC-ATGTGGGAGTGCATATAAGCTG
1 ATGATGACCCAGCTATGTGCGATGTGGGAGTGCATATGAGCTG
* * *
15050249 ATGATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGATGTGGGAGTGCATATGAGCTG
* **
15050292 ATGATGATCCAATTATGTGCGA-GTAGGGAGTGCATATGAGCTG
1 ATGATGACCCAGCTATGTGCGATGT-GGGAGTGCATATGAGCTG
15050335 ATGATG
1 ATGATG
15050341 GTGGGATGGT
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 21 0.27
43 58 0.73
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGATGTGGGAGTGCATATGAGCTG
Found at i:15050707 original size:39 final size:39
Alignment explanation
Indices: 15050653--15050743 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
15050643 CGCTGCAGTC
* * * **
15050653 AGAAACTTTCTGTTTTGTCACCTGAATCTTGTTGTAGCG
1 AGAAACTTTCTGTTTTGTCACATGAATCTCGCTACAGCG
* *
15050692 AGAAACTTTCTGTTTTGTCGCATGAATCTCGCTACAGTG
1 AGAAACTTTCTGTTTTGTCACATGAATCTCGCTACAGCG
15050731 AGAAACTTTCTGT
1 AGAAACTTTCTGT
15050744 CCAGCATGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (39 bp):
AGAAACTTTCTGTTTTGTCACATGAATCTCGCTACAGCG
Found at i:15053615 original size:43 final size:43
Alignment explanation
Indices: 15053567--15053685 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
15053557 TCACCAGCTC
** * *
15053567 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
15053610 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
15053653 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
15053686 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:15063940 original size:17 final size:17
Alignment explanation
Indices: 15063918--15063950 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15063908 TTTGTAGGTG
15063918 TTTAAT-GAAGGAAGAAT
1 TTTAATGGAA-GAAGAAT
15063935 TTTAATGGAAGAAGAA
1 TTTAATGGAAGAAGAA
15063951 GAGCAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.27
Consensus pattern (17 bp):
TTTAATGGAAGAAGAAT
Found at i:15066400 original size:21 final size:21
Alignment explanation
Indices: 15066376--15066427 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
15066366 GTTTATGCAG
*
15066376 TTCATGACAAAGACTGATA-CA
1 TTCATGACAAAGACCGA-AGCA
*
15066397 TTCATGATAAAGACCGAAGCA
1 TTCATGACAAAGACCGAAGCA
*
15066418 TTTATGACAA
1 TTCATGACAA
15066428 GGATTAATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (21 bp):
TTCATGACAAAGACCGAAGCA
Found at i:15070190 original size:52 final size:52
Alignment explanation
Indices: 15070119--15070219 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
15070109 GCACATGACG
15070119 GTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGATATATGCCATGAGC
1 GTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGATATATGCCATGAGC
* *
15070171 GTGATAGTGGTGTGCTGTGTGAGTGCACGCACTGATGATATATGCCATG
1 GTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGATATATGCCATG
15070220 TGTGATGTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.30
Consensus pattern (52 bp):
GTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGATATATGCCATGAGC
Found at i:15070264 original size:35 final size:36
Alignment explanation
Indices: 15070180--15070310 Score: 124
Period size: 35 Copynumber: 3.6 Consensus size: 36
15070170 CGTGATAGTG
* * *
15070180 GTGTGCTGTGTGAGTGCACGCACTGATGATATATGCCAT
1 GTGTGGTGTGGGAGTGCA--CA-TGATGATATATGCCTT
*
15070219 GTGTGATGTGGGAGTGCACATGATGATAT-TGCCTT
1 GTGTGGTGTGGGAGTGCACATGATGATATATGCCTT
* *
15070254 GTGTGGTGTGGGAGTGCACAAGATGAT-TGTAG-CTAT
1 GTGTGGTGTGGGAGTGCACATGATGATATAT-GCCT-T
* *
15070290 GTGTGGTGTAGAAGTGCACAT
1 GTGTGGTGTGGGAGTGCACAT
15070311 TAGCTAGTGA
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
34 1 0.01
35 33 0.41
36 29 0.36
37 2 0.02
39 16 0.20
ACGTcount: A:0.21, C:0.12, G:0.35, T:0.31
Consensus pattern (36 bp):
GTGTGGTGTGGGAGTGCACATGATGATATATGCCTT
Found at i:15071156 original size:21 final size:22
Alignment explanation
Indices: 15071131--15071171 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15071121 CCTAGGTGGA
*
15071131 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
15071152 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
15071172 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:15071172 original size:20 final size:21
Alignment explanation
Indices: 15071131--15071175 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
15071121 CCTAGGTGGA
*
15071131 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
15071152 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
15071172 AAAA
1 AAAA
15071176 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:15071176 original size:21 final size:20
Alignment explanation
Indices: 15071129--15071176 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
15071119 ACCCTAGGTG
*
15071129 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
15071149 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
15071171 GAAAAA
1 GAAAAA
15071177 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:15074406 original size:22 final size:22
Alignment explanation
Indices: 15074372--15074413 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
15074362 TACTAATAAT
15074372 AATAACAATAAATGAATAAATA
1 AATAACAATAAATGAATAAATA
15074394 AATAA-AATGAAATGAATAAA
1 AATAACAAT-AAATGAATAAA
15074414 GAAAAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAACAATAAATGAATAAATA
Found at i:15074581 original size:2 final size:2
Alignment explanation
Indices: 15074574--15074614 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
15074564 TTAGTTAAGA
15074574 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15074615 TAGTGATAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:15083580 original size:42 final size:42
Alignment explanation
Indices: 15083439--15083580 Score: 187
Period size: 42 Copynumber: 3.4 Consensus size: 42
15083429 ACGGCTTATG
* * *
15083439 CGCATATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACAGCTTATGTGCACTCCTACT
* * * * *
15083481 CACACATAGTCGAGTCAGCAACAACTTATGTGTACTCCTACT
1 CGCACATAGCCGGGTCAGCAACAGCTTATGTGCACTCCTACT
*
15083523 CGCACATAGCTGGGTCAGCAACAGCTTATGTGCACTCCTACT
1 CGCACATAGCCGGGTCAGCAACAGCTTATGTGCACTCCTACT
15083565 CGCA-AGTAGCCGGGTC
1 CGCACA-TAGCCGGGTC
15083581 CAAATCAACA
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 1 0.01
42 83 0.99
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.23
Consensus pattern (42 bp):
CGCACATAGCCGGGTCAGCAACAGCTTATGTGCACTCCTACT
Found at i:15086132 original size:13 final size:13
Alignment explanation
Indices: 15086114--15086138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15086104 TTTAGAAATG
15086114 ATGATTGGGATTA
1 ATGATTGGGATTA
15086127 ATGATTGGGATT
1 ATGATTGGGATT
15086139 GCATAAATAG
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:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (13 bp):
ATGATTGGGATTA
Found at i:15089983 original size:36 final size:36
Alignment explanation
Indices: 15089920--15090019 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 36
15089910 ATAGAGTTCA
* * * * *
15089920 TTGTTTGCTACGGTAATAGGGCATGACAAGACTCCT
1 TTGTTTGCTTCAGCAATGGGGCGTGACAAGACTCCT
* * *
15089956 TTGTTTGCTTCTGCAATGGGGCGTGACATGACTTCT
1 TTGTTTGCTTCAGCAATGGGGCGTGACAAGACTCCT
*
15089992 TTGTTTACTAT-AGCAATGGGGCGTGACA
1 TTGTTTGCT-TCAGCAATGGGGCGTGACA
15090020 TGATATTGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 53 0.98
37 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (36 bp):
TTGTTTGCTTCAGCAATGGGGCGTGACAAGACTCCT
Found at i:15092668 original size:35 final size:35
Alignment explanation
Indices: 15092629--15092780 Score: 187
Period size: 35 Copynumber: 4.1 Consensus size: 35
15092619 GTGTGGATAG
*
15092629 TGATGTTGATGTGTGCTAGTAGGGAGTGCACACGA
1 TGATGTTGATGTGTGCGAGTAGGGAGTGCACACGA
*
15092664 TGATGTTGATGTGTGCGAGTAGGGAGTGCACATGATGA
1 TGATGTTGATGTGTGCGAGTAGGGAGTGCAC---ACGA
* *
15092702 TGTTGATGATGCTGATGTGTGCGAGTAGGGAATGCAGACGA
1 ---TGATG-T--TGATGTGTGCGAGTAGGGAGTGCACACGA
15092743 TGATGTTGATGTGTGCGAGTAGGGAGTGCACACGA
1 TGATGTTGATGTGTGCGAGTAGGGAGTGCACACGA
15092778 TGA
1 TGA
15092781 CTCCGGCTAT
Statistics
Matches: 101, Mismatches: 7, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
35 60 0.59
37 1 0.01
38 8 0.08
41 8 0.08
42 1 0.01
44 23 0.23
ACGTcount: A:0.24, C:0.10, G:0.39, T:0.28
Consensus pattern (35 bp):
TGATGTTGATGTGTGCGAGTAGGGAGTGCACACGA
Found at i:15092724 original size:44 final size:44
Alignment explanation
Indices: 15092662--15092753 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 44
15092652 GAGTGCACAC
* * *
15092662 GATGATGTTGATGTGTGCGAGTAGGGAGTGCACATGATGATGTT
1 GATGATGCTGATGTGTGCGAGTAGGGAATGCACACGATGATGTT
*
15092706 GATGATGCTGATGTGTGCGAGTAGGGAATGCAGACGATGATGTT
1 GATGATGCTGATGTGTGCGAGTAGGGAATGCACACGATGATGTT
15092750 GATG
1 GATG
15092754 TGTGCGAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.24, C:0.08, G:0.39, T:0.29
Consensus pattern (44 bp):
GATGATGCTGATGTGTGCGAGTAGGGAATGCACACGATGATGTT
Found at i:15092760 original size:79 final size:79
Alignment explanation
Indices: 15092629--15092780 Score: 259
Period size: 79 Copynumber: 1.9 Consensus size: 79
15092619 GTGTGGATAG
* * *
15092629 TGATGTTGATGTGTGCTAGTAGGGAGTGCACACGATGATGTTGATGTGTGCGAGTAGGGAGTGCA
1 TGATGCTGATGTGTGCGAGTAGGGAATGCACACGATGATGTTGATGTGTGCGAGTAGGGAGTGCA
*
15092694 CATGATGATGTTGA
66 CACGATGATGTTGA
*
15092708 TGATGCTGATGTGTGCGAGTAGGGAATGCAGACGATGATGTTGATGTGTGCGAGTAGGGAGTGCA
1 TGATGCTGATGTGTGCGAGTAGGGAATGCACACGATGATGTTGATGTGTGCGAGTAGGGAGTGCA
15092773 CACGATGA
66 CACGATGA
15092781 CTCCGGCTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.24, C:0.10, G:0.39, T:0.28
Consensus pattern (79 bp):
TGATGCTGATGTGTGCGAGTAGGGAATGCACACGATGATGTTGATGTGTGCGAGTAGGGAGTGCA
CACGATGATGTTGA
Found at i:15097901 original size:29 final size:28
Alignment explanation
Indices: 15097858--15097999 Score: 167
Period size: 29 Copynumber: 4.9 Consensus size: 28
15097848 GGCAGCTTTG
15097858 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
*
15097886 ACATGTTCGGTCTTAATTTAGACAAGAAA
1 ACATGTT-TGTCTTAATTTAGACAAGAAA
* *
15097915 ATATGTTTGCCTTAATTTAAGACAAGAAAA
1 ACATGTTTGTCTTAATTT-AGACAAG-AAA
* * *
15097945 ATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACA-TGTTTGTCTTAATTTAGACAAGAAA
* * *
15097974 ACATATTTGTCTCAATTTATACAAGA
1 ACATGTTTGTCTTAATTTAGACAAGA
15098000 TAAAATATTT
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
28 35 0.36
29 38 0.39
30 12 0.12
31 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:15097971 original size:59 final size:58
Alignment explanation
Indices: 15097858--15098032 Score: 208
Period size: 59 Copynumber: 3.0 Consensus size: 58
15097848 GGCAGCTTTG
* * **
15097858 ACATGTTTGTCTTAATTTAGACAAG-AAAACATGTTCGGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
* * *
15097915 ATATGTTTGCCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACATGTTTGTCTTAATTT-AGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
* * * *
15097974 ACATATTTGTCTCAATTTATACAAGATAAAATATTTTTTTGTCTTAATTACAGACAAGA
1 ACATGTTTGTCTTAATTTAGACAAGA-AAAATA-TTTTTTGTCTTAATT-TAGACAAGA
15098033 GTTGTCTTAA
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
57 16 0.16
58 14 0.14
59 47 0.47
60 15 0.15
61 7 0.07
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (58 bp):
ACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
Found at i:15098007 original size:28 final size:28
Alignment explanation
Indices: 15097858--15098009 Score: 155
Period size: 28 Copynumber: 5.3 Consensus size: 28
15097848 GGCAGCTTTG
*
15097858 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATATTTGTCTTAATTTAGACAAGAAA
* *
15097886 ACATGTTCGGTCTTAATTTAGACAAGAAA
1 ACATATT-TGTCTTAATTTAGACAAGAAA
* * *
15097915 ATATGTTTGCCTTAATTTAAGACAAGAAA
1 ACATATTTGTCTTAATTT-AGACAAGAAA
*
15097944 A-ATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACATA---TTTGTCTTAATTTAGACAAGAAA
* *
15097974 ACATATTTGTCTCAATTTATACAAGATAA
1 ACATATTTGTCTTAATTTAGACAAGA-AA
15098003 A-ATATTT
1 ACATATTT
15098010 TTTTGTCTTA
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
28 42 0.39
29 40 0.37
30 10 0.09
31 15 0.14
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (28 bp):
ACATATTTGTCTTAATTTAGACAAGAAA
Found at i:15099393 original size:31 final size:31
Alignment explanation
Indices: 15099358--15099442 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 31
15099348 GCTGCCGAGA
*
15099358 AGCACATAGCCCCTGCTGTGT-TC-TATTAGGC
1 AGCACATAGCCCCTGCTGTGTGTCGT-TT-GAC
* *
15099389 AGCACACAACCCCTGCTGTGTGTCGTTTGAC
1 AGCACATAGCCCCTGCTGTGTGTCGTTTGAC
*
15099420 AGCACATAGCACACTGCTGTGTG
1 AGCACATAGC-CCCTGCTGTGTG
15099443 CTGCTACCGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 29 0.64
32 15 0.33
33 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (31 bp):
AGCACATAGCCCCTGCTGTGTGTCGTTTGAC
Found at i:15099598 original size:16 final size:17
Alignment explanation
Indices: 15099564--15099600 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15099554 GCCCCTTTTC
*
15099564 AATTTTTTTAATAATAA
1 AATTTTTTTAATAAAAA
15099581 AATTTTTTTAA-AAAAA
1 AATTTTTTTAATAAAAA
15099597 AATT
1 AATT
15099601 AATTTTAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTTTTAATAAAAA
Found at i:15099868 original size:2 final size:2
Alignment explanation
Indices: 15099861--15099899 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
15099851 TGTTGCTTAT
15099861 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15099900 GTANACTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15105496 original size:20 final size:20
Alignment explanation
Indices: 15105451--15105488 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15105441 TTTTGGCTCT
*
15105451 ATTTGGCTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
15105471 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
15105489 AGATTTGAGG
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:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:15109188 original size:17 final size:17
Alignment explanation
Indices: 15109158--15109190 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15109148 TTCTTGATAA
15109158 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
15109175 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
15109191 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:15109433 original size:29 final size:30
Alignment explanation
Indices: 15109343--15109467 Score: 75
Period size: 28 Copynumber: 4.3 Consensus size: 30
15109333 TCTTGTCTGT
** *
15109343 AATTAAGACAAAAAATATTTTATTTTGTCTA
1 AATTAAGAC-AAAAATATTTTATCATCTCTA
* * **
15109374 AATTGAGAC--AAATATGTTT-TCTTAACTA
1 AATTAAGACAAAAATAT-TTTATCATCTCTA
15109402 AATTAAGACAAAAAATATTTT-TCATCT-TA
1 AATTAAGAC-AAAAATATTTTATCATCTCTA
* * * *
15109431 AATTAAGGCAAACATA-TTT-TCTTGTCTA
1 AATTAAGACAAAAATATTTTATCATCTCTA
15109459 AATTAAGAC
1 AATTAAGAC
15109468 CAAGCATGTT
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
27 7 0.09
28 36 0.47
29 13 0.17
30 6 0.08
31 14 0.18
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.38
Consensus pattern (30 bp):
AATTAAGACAAAAATATTTTATCATCTCTA
Found at i:15109460 original size:28 final size:28
Alignment explanation
Indices: 15109333--15109502 Score: 144
Period size: 29 Copynumber: 5.9 Consensus size: 28
15109323 TTAAGACAAC
* *
15109333 TCTTGTCTGTAATTAAGACAAAAAATATTTT
1 TCTTGTCT-AAATTAAGAC-AAACATA-TTT
* * * *
15109364 ATTTTGTCTAAATTGAGACAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATATTT
** *
15109393 TCTTAACTAAATTAAGACAAAAAATATTT
1 TCTTGTCTAAATTAAGAC-AAACATATTT
** *
15109422 T-TCATCTTAAATTAAGGCAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
* *
15109450 TCTTGTCTAAATTAAGACCAAGCATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATATTT
15109479 TCTTGTCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAACAT
15109503 GTCAAAGCTG
Statistics
Matches: 113, Mismatches: 21, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
28 42 0.37
29 51 0.45
30 5 0.04
31 8 0.07
32 7 0.06
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:15109460 original size:57 final size:59
Alignment explanation
Indices: 15109333--15109502 Score: 159
Period size: 57 Copynumber: 2.9 Consensus size: 59
15109323 TTAAGACAAC
* ** * * * *
15109333 TCTTGTCTGTAATTAAGACAAAAAATATTTTATTTTGTCTAAATTGAGACAAATATGTTT
1 TCTTGTCT-AAATTAAGACAAAAAATATTTTATCATCTCTAAATTAAGACAAACATATTT
** *
15109393 TCTTAACTAAATTAAGACAAAAAATATTTT-TCATCT-TAAATTAAGGCAAACATATTT
1 TCTTGTCTAAATTAAGACAAAAAATATTTTATCATCTCTAAATTAAGACAAACATATTT
* ** * * *
15109450 TCTTGTCTAAATTAAGACCAAGCAT-GTTT-TCTTGTCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAAAAATATTTTATCATCTCTAAATTAAGACAAACAT
15109503 GTCAAAGCTG
Statistics
Matches: 90, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
56 7 0.08
57 53 0.59
58 3 0.03
59 21 0.23
60 6 0.07
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (59 bp):
TCTTGTCTAAATTAAGACAAAAAATATTTTATCATCTCTAAATTAAGACAAACATATTT
Found at i:15111352 original size:18 final size:18
Alignment explanation
Indices: 15111329--15111369 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
15111319 AGGAATGAAT
15111329 AAATAAACCATAAAG-TAA
1 AAATAAA-CATAAAGATAA
15111347 AAAT-AACATAAAGAATAA
1 AAATAAACATAAAG-ATAA
15111365 AAATA
1 AAATA
15111370 TGAGTGGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 11 0.55
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (18 bp):
AAATAAACATAAAGATAA
Found at i:15131706 original size:25 final size:25
Alignment explanation
Indices: 15131678--15131764 Score: 92
Period size: 25 Copynumber: 3.5 Consensus size: 25
15131668 ATGGACTTCT
15131678 CCCATTTCTT-TTTAATTGGACCATG
1 CCCATTTCTTCTTT-ATTGGACCATG
15131703 CCCA-TTCTTCCTTTATTGGACCATG
1 CCCATTTCTT-CTTTATTGGACCATG
* *
15131728 TCCATTT-TTCCTTTATTGGGCCATG
1 CCCATTTCTT-CTTTATTGGACCATG
*
15131753 TCCATTT-TTCTT
1 CCCATTTCTTCTT
15131765 GCTTGTTATT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
24 8 0.14
25 44 0.77
26 5 0.09
ACGTcount: A:0.15, C:0.26, G:0.11, T:0.47
Consensus pattern (25 bp):
CCCATTTCTTCTTTATTGGACCATG
Found at i:15132515 original size:2 final size:2
Alignment explanation
Indices: 15132508--15132533 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15132498 NNNNNNNNNN
15132508 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15132534 TATTCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15132755 original size:2 final size:2
Alignment explanation
Indices: 15132720--15132745 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15132710 TGGTATTCTA
15132720 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15132746 TTGTTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15134185 original size:11 final size:11
Alignment explanation
Indices: 15134169--15134193 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15134159 CTCAGTAAAA
15134169 TATTATTATTT
1 TATTATTATTT
15134180 TATTATTATTT
1 TATTATTATTT
15134191 TAT
1 TAT
15134194 CACATAAGGA
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:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTATTT
Found at i:15138347 original size:54 final size:53
Alignment explanation
Indices: 15138239--15138359 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 53
15138229 ACTGATGAAA
* * *** * *
15138239 AATTCTATTGGAAATGCATCTCCAATGAAAATTTTGTTGGAAATTTTTGACAG
1 AATTCCATTGGAAATGCATCTCCAACGAAAATTCCATTAGAAATTTCTGACAG
*
15138292 AATTCCATTGGAAATGCTTCTCCAACCGAAAATTCCATTAGAAATTTCTGACAG
1 AATTCCATTGGAAATGCATCTCCAA-CGAAAATTCCATTAGAAATTTCTGACAG
*
15138346 AATTTCATTGGAAA
1 AATTCCATTGGAAA
15138360 AGCAATTCTA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
53 23 0.40
54 35 0.60
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (53 bp):
AATTCCATTGGAAATGCATCTCCAACGAAAATTCCATTAGAAATTTCTGACAG
Found at i:15146147 original size:35 final size:35
Alignment explanation
Indices: 15146077--15146218 Score: 166
Period size: 35 Copynumber: 4.1 Consensus size: 35
15146067 CACTTGATTA
* *
15146077 AAATTGTTTAATTAAG---TTGTGCCTAATTAACT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
15146109 AAATTGTTTAATTGAA-TCATTGGGCCTAATTAATT
1 AAATTGTTTAATT-AAGTCATTGGGCCTAATTAATT
*
15146144 AAATTGTTTAATTAAGTCATTTGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
**** * *
15146179 AAATTAAACAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
15146214 AAATT
1 AAATT
15146219 AAACAATTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
32 13 0.14
33 2 0.02
34 2 0.02
35 78 0.82
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:15146219 original size:35 final size:35
Alignment explanation
Indices: 15146127--15146239 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 35
15146117 TAATTGAATC
**** *
15146127 ATTGGGCCTAATTAATTAAATTGTTTAATTAAGTC
1 ATTGGGCCTAATTAATTAAATTAAACAATTAAGTT
*
15146162 ATTTGGCCTAATTAATTAAATTAAACAATTAAGTT
1 ATTGGGCCTAATTAATTAAATTAAACAATTAAGTT
*
15146197 ATTGGGCCTAATTGATTAAATTAAACAATTAAGTT
1 ATTGGGCCTAATTAATTAAATTAAACAATTAAGTT
15146232 AATTGGGC
1 -ATTGGGC
15146240 TTCTTAAGGA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
35 62 0.90
36 7 0.10
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (35 bp):
ATTGGGCCTAATTAATTAAATTAAACAATTAAGTT
Found at i:15155259 original size:20 final size:20
Alignment explanation
Indices: 15155242--15155279 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
15155232 CCTCAAATCT
15155242 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
15155262 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
15155280 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:15168735 original size:34 final size:35
Alignment explanation
Indices: 15168697--15168773 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
15168687 AAGGGAAATG
15168697 AGCTTTTTAT-GGGATCAAACAAAACCCTCACAAT
1 AGCTTTTTATGGGGATCAAACAAAACCCTCACAAT
* *
15168731 AGCTTTTCATGGGGATCAAGCAAAACCCTCACAAT
1 AGCTTTTTATGGGGATCAAACAAAACCCTCACAAT
*
15168766 AGTTTTTT
1 AGCTTTTT
15168774 CACATGATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
34 9 0.24
35 29 0.76
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (35 bp):
AGCTTTTTATGGGGATCAAACAAAACCCTCACAAT
Found at i:15168783 original size:35 final size:33
Alignment explanation
Indices: 15168709--15168841 Score: 113
Period size: 35 Copynumber: 3.8 Consensus size: 33
15168699 CTTTTTATGG
* ***
15168709 GATCAAACAAAACCCTCACAATAGCTTTTCATGGG
1 GATCAAGCAAAACCCTCACAAT-GCTTTTCA-CAA
* *
15168744 GATCAAGCAAAACCCTCACAATAGTTTTTTCACAT
1 GATCAAGCAAAACCCTCACAAT-G-CTTTTCACAA
* * *
15168779 GATCAAGAAAAATCCTTACAATGCTTTTCACAA
1 GATCAAGCAAAACCCTCACAATGCTTTTCACAA
* *
15168812 GATCAAGCGAAACCCTTCAACAATGATTTT
1 GATCAAGCAAAACCC-TC-ACAATGCTTTT
15168842 TCACGAGCTC
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
33 20 0.25
34 2 0.03
35 52 0.65
36 6 0.08
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.26
Consensus pattern (33 bp):
GATCAAGCAAAACCCTCACAATGCTTTTCACAA
Found at i:15170218 original size:60 final size:60
Alignment explanation
Indices: 15170119--15170271 Score: 175
Period size: 60 Copynumber: 2.5 Consensus size: 60
15170109 CATCACCAAC
* * * * * *
15170119 TCATGGGAACTGCCCATGCCA-CCAGATATAAATCGAGGCTTCAGGTTCTCCTTTACCTACT
1 TCATGGGAACTGCCCACGCCACCCA-ATATGAATCCAGGCTTCAGGTCCCCCATTACCTA-T
* *
15170180 T-GTGGGAACTACCCACGCCACCCAATATGAATCCAGGCTTCAGGTCCCCCATTACCTAT
1 TCATGGGAACTGCCCACGCCACCCAATATGAATCCAGGCTTCAGGTCCCCCATTACCTAT
* * *
15170239 TCATGGGAATTGCCCACACCACCTAATATGAAT
1 TCATGGGAACTGCCCACGCCACCCAATATGAAT
15170272 TAGGGCTTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
59 2 0.03
60 71 0.92
61 4 0.05
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (60 bp):
TCATGGGAACTGCCCACGCCACCCAATATGAATCCAGGCTTCAGGTCCCCCATTACCTAT
Found at i:15177792 original size:28 final size:29
Alignment explanation
Indices: 15177751--15177810 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
15177741 GTCTATTGGA
*
15177751 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* *
15177779 AATTTTTCACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
15177809 AA
1 AA
15177811 ATTTCCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 13 0.48
30 14 0.52
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:15191552 original size:22 final size:22
Alignment explanation
Indices: 15191524--15191566 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15191514 GAGTGGTATC
*
15191524 AGAGCTTTTGGTTTTAAAGTTT
1 AGAGCTTTTGGGTTTAAAGTTT
15191546 AGAGCTTTTGGGTTTAAAGTT
1 AGAGCTTTTGGGTTTAAAGTT
15191567 GTTTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.47
Consensus pattern (22 bp):
AGAGCTTTTGGGTTTAAAGTTT
Found at i:15200046 original size:28 final size:27
Alignment explanation
Indices: 15200010--15200062 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
15200000 ATAACCTGGT
*
15200010 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
15200037 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
15200063 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:15200130 original size:20 final size:19
Alignment explanation
Indices: 15200107--15200152 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
15200097 CTTCTAAACC
15200107 TCAAATCATACT-TCAATAAG
1 TCAAAT-ATACTCT-AATAAG
15200127 TCAAAATATACTCTAATAAG
1 TC-AAATATACTCTAATAAG
15200147 TCAAAT
1 TCAAAT
15200153 GGCGCCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.30
Consensus pattern (19 bp):
TCAAATATACTCTAATAAG
Done.