Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 77 of 343
Found at i:25381010 original size:28 final size:28
Alignment explanation
Indices: 25380911--25381001 Score: 159
Period size: 27 Copynumber: 3.3 Consensus size: 28
25380901 AAATTAACCC
*
25380911 TAGGGGTATAA-GGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25380938 TAGGGGTATAATGGTAA-TTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25380965 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25380993 TAGGGGTAT
1 TAGGGGTAT
25381002 TCTAGTAATC
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
27 38 0.62
28 23 0.38
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:25389096 original size:35 final size:35
Alignment explanation
Indices: 25389017--25389096 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
25389007 ATTGGAACTA
* * * *
25389017 AGACCATGTATGCAGAGTCAGATGGCTGTGTCGAC
1 AGACCGTGTATGCAGAGTCACACGACTGTGTCGAC
*
25389052 AGACTGTGTATGCAGAGTCACACGACTGTGTCGAC
1 AGACCGTGTATGCAGAGTCACACGACTGTGTCGAC
*
25389087 AGGCCGTGTA
1 AGACCGTGTA
25389097 ACTAACTCTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (35 bp):
AGACCGTGTATGCAGAGTCACACGACTGTGTCGAC
Found at i:25390766 original size:30 final size:30
Alignment explanation
Indices: 25390732--25390792 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
25390722 CAATGTTAGC
25390732 TTAATTTTATTTAAGCTAGGATGATTGCTT
1 TTAATTTTATTTAAGCTAGGATGATTGCTT
25390762 TTAATTTTATTTAAGCTAGGATGATTGCTT
1 TTAATTTTATTTAAGCTAGGATGATTGCTT
25390792 T
1 T
25390793 GATTAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (30 bp):
TTAATTTTATTTAAGCTAGGATGATTGCTT
Found at i:25406261 original size:28 final size:28
Alignment explanation
Indices: 25406230--25406284 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
25406220 CAAATTATCG
* *
25406230 AGGATCACAGTTAGTGTGTGAGACATCC
1 AGGATCACACTTAGTGTGTGACACATCC
*
25406258 AGGATGACACTTAGTGTGTGACACATC
1 AGGATCACACTTAGTGTGTGACACATC
25406285 TGTGAAGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (28 bp):
AGGATCACACTTAGTGTGTGACACATCC
Found at i:25409598 original size:29 final size:29
Alignment explanation
Indices: 25409556--25409634 Score: 131
Period size: 29 Copynumber: 2.7 Consensus size: 29
25409546 TATATATGTG
* *
25409556 AATTATTGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGAGAAGTAA
25409585 AATTATCGAGCACTAAGTGTGAGAAGTAA
1 AATTATCGAGCACTAAGTGTGAGAAGTAA
*
25409614 AACTATCGAGCACTAAGTGTG
1 AATTATCGAGCACTAAGTGTG
25409635 TGATCTCATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGAGAAGTAA
Found at i:25410867 original size:9 final size:9
Alignment explanation
Indices: 25410848--25410876 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25410838 CATACAAGAT
25410848 AAAAAAT-A
1 AAAAAATAA
25410856 AAAAAATAA
1 AAAAAATAA
25410865 AAAAAATAA
1 AAAAAATAA
25410874 AAA
1 AAA
25410877 TTGACTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:25413193 original size:18 final size:18
Alignment explanation
Indices: 25413155--25413189 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
25413145 ATCTTGTCTA
25413155 CCCGTGTGGGCCCACATG
1 CCCGTGTGGGCCCACATG
25413173 CCCGTGT-GGCCCACATG
1 CCCGTGTGGGCCCACATG
25413190 GCCCAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.11, C:0.40, G:0.31, T:0.17
Consensus pattern (18 bp):
CCCGTGTGGGCCCACATG
Found at i:25419973 original size:27 final size:26
Alignment explanation
Indices: 25419911--25420022 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
25419901 AGCATGGCTG
* * *
25419911 CCAGAACAGAAAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
25419937 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
25419965 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
25419992 CCAGATCAGATATTTGTAGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
25420019 CCAG
1 CCAG
25420023 GACACTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.07
27 54 0.71
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:25419974 original size:54 final size:54
Alignment explanation
Indices: 25419911--25420022 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
25419901 AGCATGGCTG
* *
25419911 CCAGAACAGA-AAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAATGTGACAGAGCCACCAGAT-CAGATAATCGTAGCAGAGCCA
* * * * *
25419965 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTAGCATAGCCA
1 CCAGAACAGATAAATGTGACAGAGCCACCAGATCAGATAATCGTAGCAGAGCCA
25420019 CCAG
1 CCAG
25420023 GACACTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 31 0.62
55 19 0.38
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAAATGTGACAGAGCCACCAGATCAGATAATCGTAGCAGAGCCA
Found at i:25427946 original size:27 final size:27
Alignment explanation
Indices: 25427909--25428001 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
25427899 AGCATGGCTG
* * *
25427909 CCAGA-ACAGATAACATGACAGAGTCA
1 CCAGATACAGATAACGTGGCAGAGCCA
25427935 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAA-CGTGGCAGAGCCA
* *
25427963 CCAG-GACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ACGTGGCAGAGCCA
25427990 CCAGAT-CAGATA
1 CCAGATACAGATA
25428002 TTTGTGGCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
26 5 0.09
27 37 0.65
28 15 0.26
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (27 bp):
CCAGATACAGATAACGTGGCAGAGCCA
Found at i:25427973 original size:54 final size:54
Alignment explanation
Indices: 25427909--25428023 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
25427899 AGCATGGCTG
* *
25427909 CCAGAACAGATA-ACATGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGGACAGATATACATGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
** * * * * *
25427963 CCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATATCCA
1 CCAGGACAGATATACATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
25428017 CCAGGAC
1 CCAGGAC
25428024 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 35 0.69
55 16 0.31
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGGACAGATATACATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:25428002 original size:27 final size:27
Alignment explanation
Indices: 25427927--25428020 Score: 111
Period size: 27 Copynumber: 3.4 Consensus size: 27
25427917 GATAACATGA
*
25427927 CAGAGTCACCAGATACAGATA-ATCGTGG
1 CAGAGCCACCAGAT-CAGATATAT-GTGG
25427955 CAGAGCCACCAGGA-CAGATATATGTGG
1 CAGAGCCACCA-GATCAGATATATGTGG
*
25427982 CAGAGCCACCAGATCAGATATTTGTGG
1 CAGAGCCACCAGATCAGATATATGTGG
* *
25428009 CATATCCACCAG
1 CAGAGCCACCAG
25428021 GACGCTTCCT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.03
27 43 0.73
28 12 0.20
29 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGAGCCACCAGATCAGATATATGTGG
Found at i:25435102 original size:16 final size:15
Alignment explanation
Indices: 25435083--25435125 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
25435073 CTAAATATAA
25435083 GTTGTTCAAAACAATG
1 GTTGTTCAAAAC-ATG
*
25435099 GTTGTTCTAAACATG
1 GTTGTTCAAAACATG
25435114 GTTGTTCCAAAA
1 GTTGTT-CAAAA
25435126 ATTCCATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (15 bp):
GTTGTTCAAAACATG
Found at i:25435116 original size:15 final size:15
Alignment explanation
Indices: 25435069--25435120 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
25435059 CACACACAAA
* *
25435069 TGTTCTAAATATAAGT
1 TGTTCTAAACAT-GGT
*
25435085 TGTTCAAAACAATGGT
1 TGTTCTAAAC-ATGGT
25435101 TGTTCTAAACATGGT
1 TGTTCTAAACATGGT
25435116 TGTTC
1 TGTTC
25435121 CAAAAATTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 10 0.32
16 19 0.61
17 2 0.06
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (15 bp):
TGTTCTAAACATGGT
Found at i:25437383 original size:13 final size:13
Alignment explanation
Indices: 25437365--25437389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25437355 CCAAGCACAC
25437365 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
25437378 GCCCGTGTCCTT
1 GCCCGTGTCCTT
25437390 CACACGGCCT
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:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:25443435 original size:11 final size:10
Alignment explanation
Indices: 25443409--25443442 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
25443399 GGAGAGCACC
*
25443409 AAGAGTCAAA
1 AAGAGCCAAA
25443419 AAGAGCCAAA
1 AAGAGCCAAA
25443429 AACGAGCCAAA
1 AA-GAGCCAAA
25443440 AAG
1 AAG
25443443 GGACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:25455864 original size:28 final size:28
Alignment explanation
Indices: 25455832--25455887 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
25455822 ATGGTTGACA
25455832 AAATTTTAGTTTTACGTAAACAAATGTT
1 AAATTTTAGTTTTACGTAAACAAATGTT
25455860 AAATTTTAGTTTTACGTAAACAAATGTT
1 AAATTTTAGTTTTACGTAAACAAATGTT
25455888 TTTGATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (28 bp):
AAATTTTAGTTTTACGTAAACAAATGTT
Found at i:25459335 original size:46 final size:47
Alignment explanation
Indices: 25459282--25459440 Score: 141
Period size: 46 Copynumber: 3.4 Consensus size: 47
25459272 AAGCAGACTT
25459282 GGACTCAACTCAACGAGCTCGAG-CGTTCGCATCCATAAGTGAACTC
1 GGACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTC
* * * * * *
25459328 AGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTC
1 GGACTCAACTCAACGAGCTC-GA-GAC--GTTCGCATCCATAAGTGAACTC
* * *
25459375 GGACTCAACTCTACGAACTC-AGACATTCGCATCCATAAGTGAACTC
1 GGACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTC
* *
25459421 GGACTCAAATCAATGAGCTC
1 GGACTCAACTCAACGAGCTC
25459441 AGATGCCCAA
Statistics
Matches: 86, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 3 0.03
46 40 0.47
47 24 0.28
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (47 bp):
GGACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTC
Found at i:25466509 original size:46 final size:46
Alignment explanation
Indices: 25466442--25466612 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
25466432 TAACCCGTCT
* *
25466442 ATAAGTGGACTCAGACTCAACTCAATGAGCTCGGGCTTTCGCATCC
1 ATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTTCGCATCC
* * *
25466488 ATAAGTGAACTCGGACTCAACTCAACGAACTCGGATGCCTAGTT-ACAT-C
1 ATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--G-CT--TTCGCATCC
* * * * * * *
25466537 -TCA-CGAACTCGGACTCAACTCAATGAGCTTGGACATTCGCATCC
1 ATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTTCGCATCC
25466581 ATAAGTGAACTCAGACTCAACTCAACGAGCTC
1 ATAAGTGAACTCAGACTCAACTCAACGAGCTC
25466613 AGATGCCCAA
Statistics
Matches: 98, Mismatches: 18, Indels: 18
0.73 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 53 0.54
47 25 0.26
48 3 0.03
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTTCGCATCC
Found at i:25466563 original size:93 final size:93
Alignment explanation
Indices: 25466450--25466619 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
25466440 CTATAAGTGG
* * *
25466450 ACTCAGACTCAACTCAATGAGCTCGGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCAGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACG
*
25466515 AACTCGGATGCCTAGTTACATCTCACGA
66 AACTCAGATGCCTAGTTACATCTCACGA
* *
25466543 ACTCGGACTCAACTCAATGAGCTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACG
1 ACTCAGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACG
*
25466608 AGCTCAGATGCC
66 AACTCAGATGCC
25466620 CAAATATCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (93 bp):
ACTCAGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACG
AACTCAGATGCCTAGTTACATCTCACGA
Found at i:25468863 original size:40 final size:40
Alignment explanation
Indices: 25468808--25468975 Score: 241
Period size: 40 Copynumber: 4.2 Consensus size: 40
25468798 ATATATTATA
* *
25468808 TATATTCGGGTCAAATCCCGTAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
* *
25468848 TATATCCGAGTCAAATCCCGCAGGCTTCATGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
25468888 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
* * * **
25468928 TATATCCGGGTTAAATCCCGCAAGCTTAGTATTGGT-AT-
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
25468966 TATATCCGGG
1 TATATCCGGG
25468976 CTTAAAGTTC
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 10 0.09
39 2 0.02
40 105 0.90
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (40 bp):
TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
Found at i:25476898 original size:40 final size:40
Alignment explanation
Indices: 25476796--25476881 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
25476786 ATATATTATA
* * * *
25476796 TATATCCGAGTCAAATCCCGTAGGCTTCGTGCTGGTAATG
1 TATATCCGAGTTAAATCTCGCAGGCTTAGTGCTGGTAATG
25476836 TATATCCGAGTTAAATCTCGCAGGCTTAGTGCTGGT-AT-
1 TATATCCGAGTTAAATCTCGCAGGCTTAGTGCTGGTAATG
25476874 TATATCCG
1 TATATCCG
25476882 GGCTTAAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 8 0.19
39 2 0.05
40 32 0.76
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (40 bp):
TATATCCGAGTTAAATCTCGCAGGCTTAGTGCTGGTAATG
Found at i:25482928 original size:177 final size:175
Alignment explanation
Indices: 25482609--25483150 Score: 568
Period size: 177 Copynumber: 3.1 Consensus size: 175
25482599 TGTTTTTATC
* ** * * * *
25482609 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTTAG
1 CTGCTCCACTACTGCTT-AGGGAGATAAGATCTGCAATCTTCAGTCTGCTTC-CTGCAACCTCAG
* * * *
25482674 GGAGATAAGACTACAATTGCCAACTTTCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAA
64 GGAGATAAGACTACAATT-TCAACCTGCTCTCTTGCTACCTCTGAGAGATAAGGCTAGTGGCTAA
* *
25482739 AATCTTCTCCATTACCGATACATAGAGATAAGATTCGCCGTCTTTGAT
128 AATCTGCTCCATTGCCGATACATAGAGATAAGATTCGCCGTCTTTGAT
* * * * *
25482787 TTGCTCCACTATTGCTTAGGGAGATAAGACCTGCCATCTTCAGTCTGCTTCCTTGCTACCTCAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCTGCTTCC-TGCAACCTCAGG
* * *
25482852 AAGATAAGACTACAATCTTTAACCTGCTCTCTTGCTACCTCTGAGAGATAAGGCTAGTGGCGAAA
65 GAGATAAGACTACAAT-TTCAACCTGCTCTCTTGCTACCTCTGAGAGATAAGGCTAGTGGCTAAA
* * *
25482917 ATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGAT
129 ATCTGCTCCATTGCCGATACATAGAGATAAGATTCGCCGTCTTTGAT
* ** * * * *
25482964 CCGCTCTGCTACTGCTTAAGGAGATATGATCTTCAATCTTCAGTCTGCTCTACTGCAACCTCAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCTGCT-TCCTGCAACCTCAGG
*** *** * * * *
25483029 GAGATAAGACTTGTATATTGGGCCTGCTCTAC-TGC-AACTTTAGAGAGATAAGGCTTGTGGCTT
65 GAGATAAGACTACAAT-TTCAACCTGCTCT-CTTGCTACCTCT-GAGAGATAAGGCTAGTGGCTA
* ** *
25483092 AAATCTGCTCCATTGCCAATACA-AGGAGATAAGATTTTCCGTCTTTGGT
127 AAATCTGCTCCATTGCCGATACATA-GAGATAAGATTCGCCGTCTTTGAT
25483141 CTGCTCCACT
1 CTGCTCCACT
25483151 GCAACTTTAG
Statistics
Matches: 300, Mismatches: 58, Indels: 13
0.81 0.16 0.04
Matches are distributed among these distances:
176 5 0.02
177 279 0.93
178 16 0.05
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (175 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCTGCTTCCTGCAACCTCAGGG
AGATAAGACTACAATTTCAACCTGCTCTCTTGCTACCTCTGAGAGATAAGGCTAGTGGCTAAAAT
CTGCTCCATTGCCGATACATAGAGATAAGATTCGCCGTCTTTGAT
Found at i:25483100 original size:44 final size:44
Alignment explanation
Indices: 25483052--25483254 Score: 114
Period size: 44 Copynumber: 4.7 Consensus size: 44
25483042 TATATTGGGC
*
25483052 CTGCTCTACTGCAACTTTAGAGAGATAAGGCTTGTGGCTTAAAT
1 CTGCTCCACTGCAACTTTAGAGAGATAAGGCTTGTGGCTTAAAT
* ** * * * ***
25483096 CTGCTCCATTGCCAA-TACA-AGGAGATAA-GATTTTCCGTCTTTGGT
1 CTGCTCCACTG-CAACTTTAGA-GAGATAAGGCTTGT--GGCTTAAAT
* * * * ** * *
25483141 CTGCTCCACTGCAACTTTAGGGAAATAAGACCTGTTACTTCAAC
1 CTGCTCCACTGCAACTTTAGAGAGATAAGGCTTGTGGCTTAAAT
* * *
25483185 CTGCTCCAGTGCAACTTTAGGGAGATAAGGC-T-T-GC-TATTAT
1 CTGCTCCACTGCAACTTTAGAGAGATAAGGCTTGTGGCTTA-AAT
*
25483226 CTGCTCTACTGCAACTTTAGAGAGATAAG
1 CTGCTCCACTGCAACTTTAGAGAGATAAG
25483255 ATTTGTTTAT
Statistics
Matches: 116, Mismatches: 35, Indels: 19
0.68 0.21 0.11
Matches are distributed among these distances:
40 1 0.01
41 28 0.24
42 1 0.01
43 6 0.05
44 52 0.45
45 26 0.22
46 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTTAGAGAGATAAGGCTTGTGGCTTAAAT
Found at i:25483242 original size:41 final size:43
Alignment explanation
Indices: 25483140--25483395 Score: 142
Period size: 44 Copynumber: 5.7 Consensus size: 43
25483130 CCGTCTTTGG
* *
25483140 TCTGCTCCACTGCAACTTTAGGGAAATAAGACCTGTTACTTCAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTGCTACTT-AA
* * * *
25483184 CCTGCTCCAGTGCAACTTTAGGGAGATAAGGCTTGCTA-TT-A
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTGCTACTTAA
* * ** *
25483225 TCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGTTTATTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTG-------CTA-CTT-AA
** * * * * *
25483277 TCTATTCCACTACAACTTCAGGGAAATAAGATTCT-CTATCTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGA-CCTGCTA-CTT-AA
*
25483322 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGAC-ACTTCAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTG-CTACTT-AA
* * * *
25483366 CCTACTCCACTACAACTTCAGGGAGATAAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAG
25483396 GTTTGTAATC
Statistics
Matches: 165, Mismatches: 33, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
41 30 0.18
43 2 0.01
44 66 0.40
45 35 0.21
46 1 0.01
48 2 0.01
50 2 0.01
52 25 0.15
53 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTGCTACTTAA
Found at i:25483382 original size:44 final size:44
Alignment explanation
Indices: 25483271--25483395 Score: 146
Period size: 44 Copynumber: 2.8 Consensus size: 44
25483261 TTATTTATAG
* * *
25483271 CTTCAATCTATTCCACTACAACTTCAGGGAAATAAGATTCTCTAT
1 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGA-TCTCTAA
* * *
25483316 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-CTGACA
1 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATCTCT-A-A
*
25483360 CTTCAACCTACTCCACTACAACTTCAGGGAGATAAG
1 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAG
25483396 GTTTGTAATC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 32 0.47
45 32 0.47
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (44 bp):
CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATCTCTAA
Found at i:25483422 original size:89 final size:89
Alignment explanation
Indices: 25483271--25483439 Score: 216
Period size: 89 Copynumber: 1.9 Consensus size: 89
25483261 TTATTTATAG
* * *
25483271 CTTCAATCTATTCCACTACAACTTCAGGGAAATAAGATTCTCTATCTTCAGTCTGCTCCACTGCA
1 CTTCAACCTACTCCACTACAACTTCAGGGAAATAAGATTCTCTATCTTCAGTCTACTCCACTGCA
*
25483336 ACTTCAGGGAGATAAGACCTGACA
66 ACTTCAAGGAGATAAGACCTGACA
* * * * *
25483360 CTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTT-TGTAATCTTC-GATCTATTTCACTG
1 CTTCAACCTACTCCACTACAACTTCAGGGAAATAAGATTCTCT-ATCTTCAG-TCTACTCCACTG
*
25483423 CAACTTCAATGAGATAA
64 CAACTTCAAGGAGATAA
25483440 AATCTGACTT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
88 3 0.04
89 65 0.96
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (89 bp):
CTTCAACCTACTCCACTACAACTTCAGGGAAATAAGATTCTCTATCTTCAGTCTACTCCACTGCA
ACTTCAAGGAGATAAGACCTGACA
Found at i:25492879 original size:21 final size:19
Alignment explanation
Indices: 25492854--25492905 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
25492844 TTTAAAAGCA
25492854 ATAAATTATATATAAATAGAT
1 ATAAATTATATAT-AA-AGAT
* * *
25492875 TTAAAATATATATAACGAT
1 ATAAATTATATATAAAGAT
25492894 ATAAATTATATA
1 ATAAATTATATA
25492906 CAAAACAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 13 0.50
20 2 0.08
21 11 0.42
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAAATTATATATAAAGAT
Found at i:25492993 original size:14 final size:15
Alignment explanation
Indices: 25492965--25492993 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25492955 AGTTTAATAT
25492965 AAATAATATATGTAA
1 AAATAATATATGTAA
25492980 AAATAATA-ATGTAA
1 AAATAATATATGTAA
25492994 TATTTGAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
AAATAATATATGTAA
Found at i:25493830 original size:11 final size:11
Alignment explanation
Indices: 25493814--25493847 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
25493804 CTCAAACAAT
25493814 AAACTCAAAGA
1 AAACTCAAAGA
25493825 AAACTCAAAG-
1 AAACTCAAAGA
*
25493835 AAACTTAAAGA
1 AAACTCAAAGA
25493846 AA
1 AA
25493848 CTTAAATCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.12
Consensus pattern (11 bp):
AAACTCAAAGA
Found at i:25493853 original size:10 final size:10
Alignment explanation
Indices: 25493814--25493849 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
25493804 CTCAAACAAT
25493814 AAACTCAAAG
1 AAACTCAAAG
25493824 AAAACTCAAAG
1 -AAACTCAAAG
*
25493835 AAACTTAAAG
1 AAACTCAAAG
25493845 AAACT
1 AAACT
25493850 TAAATCAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.61, C:0.17, G:0.08, T:0.14
Consensus pattern (10 bp):
AAACTCAAAG
Found at i:25494226 original size:17 final size:18
Alignment explanation
Indices: 25494218--25494252 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25494208 GTTTGTTTGG
25494218 GTTTAGGGTTTAGGGTTT
1 GTTTAGGGTTTAGGGTTT
*
25494236 GTTT-TGGTTTAGGGTTT
1 GTTTAGGGTTTAGGGTTT
25494253 AGTTAGTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.09, C:0.00, G:0.37, T:0.54
Consensus pattern (18 bp):
GTTTAGGGTTTAGGGTTT
Found at i:25495228 original size:41 final size:41
Alignment explanation
Indices: 25495094--25495288 Score: 232
Period size: 41 Copynumber: 4.8 Consensus size: 41
25495084 AATAGGGTTT
** *
25495094 TAGCGGCATTTTTGGTAAAATGCCGCTAAAAA-CAGAGCAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCAGAGCAA
** * * *
25495134 TAGCGGCATTTTTTTGTTAAAACACTGCTAAAAAT-AGAGCAA
1 TAGCGGC--GCTTTTGGTAAAACGCCGCTAAAAATCAGAGCAA
* * *
25495176 TAGCGGTGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCAGAGCAA
* *
25495217 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCAGAGCAA
*
25495258 TAGCGGCGCTTTTGGTAAAACGCCGTTAAAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
25495289 GTCATATAAC
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
40 27 0.20
41 72 0.55
42 33 0.25
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCAGAGCAA
Found at i:25495385 original size:53 final size:53
Alignment explanation
Indices: 25495301--25495415 Score: 133
Period size: 53 Copynumber: 2.2 Consensus size: 53
25495291 CATATAACCC
* * * * *
25495301 CTAAAACCCTAAACCCTAAAAATCATGAACACTGATCTATAACCCCTAAAATA
1 CTAAACCCCTAAACCCTAAAAATCATAAACACTAAACTATAACCCCTAAAACA
* ** *
25495354 CTAAACCCCTGAACCCTAAAAA-CACTAAACACTAAACTATAACTTCTAAAACC
1 CTAAACCCCTAAACCCTAAAAATCA-TAAACACTAAACTATAACCCCTAAAACA
25495407 CTAAACCCC
1 CTAAACCCC
25495416 AAAAAACATC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 2 0.04
53 50 0.96
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.19
Consensus pattern (53 bp):
CTAAACCCCTAAACCCTAAAAATCATAAACACTAAACTATAACCCCTAAAACA
Found at i:25495538 original size:7 final size:7
Alignment explanation
Indices: 25495526--25495589 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
25495516 TTTATTTTTT
*
25495526 GGTTTAC
1 GGTTTAA
25495533 GGTTTAA
1 GGTTTAA
**
25495540 TATTTAA
1 GGTTTAA
25495547 GGTTTAA
1 GGTTTAA
* *
25495554 GGTCTAT
1 GGTTTAA
*
25495561 GGTTTAG
1 GGTTTAA
*
25495568 GGTTTTAT
1 GG-TTTAA
25495576 GGTTTAA
1 GGTTTAA
25495583 GGTTTAA
1 GGTTTAA
25495590 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:25495578 original size:15 final size:15
Alignment explanation
Indices: 25495542--25495592 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
25495532 CGGTTTAATA
*
25495542 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
25495556 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
25495571 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
25495586 TTAATGG
1 TTTATGG
25495593 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:25496180 original size:7 final size:7
Alignment explanation
Indices: 25496170--25496244 Score: 55
Period size: 7 Copynumber: 10.6 Consensus size: 7
25496160 CATTACATCG
25496170 AAATAAA
1 AAATAAA
25496177 AAAT--A
1 AAATAAA
*
25496182 AACTCAAA
1 AAAT-AAA
*
25496190 AATTAAA
1 AAATAAA
*
25496197 AATTAAA
1 AAATAAA
*
25496204 AATTAAA
1 AAATAAA
25496211 AAATTAAA
1 AAA-TAAA
25496219 AAATTAAA
1 AAA-TAAA
*
25496227 AAATTAA
1 AAATAAA
*
25496234 AAATTAA
1 AAATAAA
25496241 AAAT
1 AAAT
25496245 TTAATATTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
5 4 0.07
7 37 0.62
8 19 0.32
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (7 bp):
AAATAAA
Found at i:25496205 original size:8 final size:8
Alignment explanation
Indices: 25496187--25496248 Score: 94
Period size: 8 Copynumber: 8.1 Consensus size: 8
25496177 AAATAAACTC
25496187 AAAAATT-
1 AAAAATTA
25496194 AAAAATT-
1 AAAAATTA
25496201 AAAAATTA
1 AAAAATTA
25496209 AAAAATTA
1 AAAAATTA
25496217 AAAAATTA
1 AAAAATTA
25496225 AAAAATT-
1 AAAAATTA
25496232 AAAAATTA
1 AAAAATTA
*
25496240 AAAATTTA
1 AAAAATTA
25496248 A
1 A
25496249 TATTTTAGTC
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
7 21 0.40
8 31 0.60
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAAATTA
Found at i:25496212 original size:15 final size:15
Alignment explanation
Indices: 25496187--25496248 Score: 99
Period size: 15 Copynumber: 4.1 Consensus size: 15
25496177 AAATAAACTC
25496187 AAAAATT-AAAAATT
1 AAAAATTAAAAAATT
25496201 AAAAATTAAAAAATT
1 AAAAATTAAAAAATT
25496216 AAAAAATTAAAAAATT
1 -AAAAATTAAAAAATT
*
25496232 AAAAATTAAAAATTT
1 AAAAATTAAAAAATT
25496247 AA
1 AA
25496249 TATTTTAGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
14 7 0.16
15 23 0.51
16 15 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:25496245 original size:7 final size:7
Alignment explanation
Indices: 25496187--25496245 Score: 91
Period size: 7 Copynumber: 8.0 Consensus size: 7
25496177 AAATAAACTC
25496187 AAAAATT
1 AAAAATT
25496194 AAAAATT
1 AAAAATT
25496201 AAAAATT
1 AAAAATT
25496208 AAAAAATT
1 -AAAAATT
25496216 AAAAAATT
1 -AAAAATT
25496224 AAAAAATT
1 -AAAAATT
25496232 AAAAATT
1 AAAAATT
25496239 AAAAATT
1 AAAAATT
25496246 TAATATTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 28 0.55
8 23 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:25499163 original size:23 final size:23
Alignment explanation
Indices: 25499133--25499460 Score: 260
Period size: 23 Copynumber: 14.3 Consensus size: 23
25499123 TGGCTGCTGT
25499133 TGTTTAAATGCTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
*
25499156 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* *
25499179 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* *
25499202 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* *
25499225 TGTTTAACTACTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
** *
25499248 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGCAAATTGAAG
* *
25499270 ATGTTT-TATCGCTG-TAATTG-AG
1 -TGTTTAAAT-GCTGCAAATTGAAG
* * ** *
25499292 TTGTATAAATGTTGTTAATCG-AG
1 -TGTTTAAATGCTGCAAATTGAAG
25499315 ATG-TTAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGCAAATTGAAG
*
25499339 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* * * *
25499362 TGCTTAAATGTTGTAAAATGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* *
25499385 TGTTT-TATGTACTACAAATTGAAG
1 TGTTTAAATG--CTGCAAATTGAAG
** *
25499409 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGCAAATTGAAG
*
25499431 ATGTTT-TATCGCTGCAAATTGAAG
1 -TGTTTAAAT-GCTGCAAATTGAAG
25499455 TGTTTA
1 TGTTTA
25499461 GTTGCTGGAA
Statistics
Matches: 249, Mismatches: 42, Indels: 27
0.78 0.13 0.08
Matches are distributed among these distances:
22 27 0.11
23 197 0.79
24 23 0.09
25 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (23 bp):
TGTTTAAATGCTGCAAATTGAAG
Found at i:25500253 original size:87 final size:86
Alignment explanation
Indices: 25500139--25500309 Score: 225
Period size: 87 Copynumber: 2.0 Consensus size: 86
25500129 TTTTTAAATT
* * * * *
25500139 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCATGGCTTTTAGCGGCGTTTG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAACACCGCTAAAGGTCACGACTTTTAGCGGCGTTTG
*
25500204 TAGGAAAAGTACCGCTAAAGG
66 TAGGAAAAGCACCGCTAAAGG
* * * *
25500225 TCATGACTTTTTAGCGGCGTTTGTGGGAAAAACACCGCTACATGTCGCGACTTTTAGCGGCGTTT
1 TCATGAC-CTTTAGCGGCGTTTGTGGGAAAAACACCGCTAAAGGTCACGACTTTTAGCGGCGTTT
* *
25500290 GTGGGAAAAGCGCCGCTAAA
65 GTAGGAAAAGCACCGCTAAA
25500310 AGCCTAAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 7 0.10
87 65 0.90
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (86 bp):
TCATGACCTTTAGCGGCGTTTGTGGGAAAAACACCGCTAAAGGTCACGACTTTTAGCGGCGTTTG
TAGGAAAAGCACCGCTAAAGG
Found at i:25500254 original size:44 final size:43
Alignment explanation
Indices: 25500139--25500309 Score: 225
Period size: 43 Copynumber: 4.0 Consensus size: 43
25500129 TTTTTAAATT
* * *
25500139 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGG
1 TCATGACTTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGG
* * *
25500182 TCATGGCTTTTAGCGGCGTTTGTAGGAAAAGTACCGCTAAAGG
1 TCATGACTTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGG
* * *
25500225 TCATGACTTTTTAGCGGCGTTTGTGGGAAAAACACCGCTACATG
1 TCATGAC-TTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGG
** *
25500269 TCGCGACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA
1 TCATGACTTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAA
25500310 AGCCTAAAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 74 0.67
44 36 0.33
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
TCATGACTTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGG
Found at i:25503222 original size:25 final size:26
Alignment explanation
Indices: 25503170--25503238 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
25503160 TCACTCTTTC
*
25503170 GAGCT-ATGAACAGTAAGCTCCTCCT
1 GAGCTAATGAACAGTAAGCTCCTACT
* *
25503195 GAGCTAATGGACAGTAAGCT-CTATT
1 GAGCTAATGAACAGTAAGCTCCTACT
*
25503220 GAGCTAA--AACGGTAAGCTC
1 GAGCTAATGAACAGTAAGCTC
25503239 TGACGAGCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 9 0.24
25 15 0.41
26 13 0.35
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (26 bp):
GAGCTAATGAACAGTAAGCTCCTACT
Found at i:25503238 original size:23 final size:23
Alignment explanation
Indices: 25503178--25503283 Score: 81
Period size: 23 Copynumber: 4.4 Consensus size: 23
25503168 TCGAGCTATG
**
25503178 AACAGTAAGCTCCTCCTGAGCTAA
1 AACAGTAAGCT-CTATTGAGCTAA
*
25503202 TGGACAGTAAGCTCTATTGAGCTAA
1 --AACAGTAAGCTCTATTGAGCTAA
* *
25503227 AACGGTAAGCTCTGA-CGAGCTGAA
1 AACAGTAAGCTCT-ATTGAGCT-AA
* *
25503251 AATAGTAAGCTCT-TATGAGCTGA
1 AACAGTAAGCTCTAT-TGAGCTAA
25503274 AACAGTAAGC
1 AACAGTAAGC
25503284 CCCAACGAGT
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
23 26 0.40
24 19 0.29
25 10 0.15
26 10 0.15
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTAA
Found at i:25503258 original size:24 final size:24
Alignment explanation
Indices: 25503231--25503320 Score: 101
Period size: 24 Copynumber: 3.8 Consensus size: 24
25503221 AGCTAAAACG
*
25503231 GTAAGCTCTGACGAGCTGAAAATA
1 GTAAGCTCTTACGAGCTGAAAATA
* *
25503255 GTAAGCTCTTATGAGCTG-AAACA
1 GTAAGCTCTTACGAGCTGAAAATA
* ** *
25503278 GTAAGCCCCAACGAGTTGAAAATA
1 GTAAGCTCTTACGAGCTGAAAATA
*
25503302 GTAATCTCTTACGAGCTGA
1 GTAAGCTCTTACGAGCTGA
25503321 TATATCGGTA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 17 0.33
24 34 0.67
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (24 bp):
GTAAGCTCTTACGAGCTGAAAATA
Found at i:25503261 original size:47 final size:47
Alignment explanation
Indices: 25503207--25503318 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
25503197 GCTAATGGAC
* * **
25503207 AGTAAGCTC-TATTGAGCTAAAACGGTAAGCTCTGACGAGCTGAAAAT
1 AGTAAGCTCTTA-TGAGCTAAAACAGTAAGCCCCAACGAGCTGAAAAT
* *
25503254 AGTAAGCTCTTATGAGCTGAAACAGTAAGCCCCAACGAGTTGAAAAT
1 AGTAAGCTCTTATGAGCTAAAACAGTAAGCCCCAACGAGCTGAAAAT
* *
25503301 AGTAATCTCTTACGAGCT
1 AGTAAGCTCTTATGAGCT
25503319 GATATATCGG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 54 0.96
48 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (47 bp):
AGTAAGCTCTTATGAGCTAAAACAGTAAGCCCCAACGAGCTGAAAAT
Found at i:25506820 original size:28 final size:28
Alignment explanation
Indices: 25506760--25506820 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
25506750 AATGACCAAA
*
25506760 ATACCCCTAAAGGGTAAAAATTACTATT
1 ATACCCCTAAAGGGTAAAAATAACTATT
* * ** *
25506788 CTACCCCTAATGGGTGGAAATAACTGTT
1 ATACCCCTAAAGGGTAAAAATAACTATT
25506816 ATACC
1 ATACC
25506821 TTACAGGTAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (28 bp):
ATACCCCTAAAGGGTAAAAATAACTATT
Found at i:25509565 original size:46 final size:44
Alignment explanation
Indices: 25509472--25509586 Score: 137
Period size: 46 Copynumber: 2.6 Consensus size: 44
25509462 CCAGCATTTC
* * * *
25509472 GCCTGCTAGGCTCG--AGGCCTGATATCATTTCACCGGTATTATA
1 GCCTGCTAGGCTCGAAAGGCCCGA-ATAATTTCACCGGCATAATA
25509515 GCCTGCTAGGCTCGAAAGGCCCGAATAATGTCTCACCGGCATAATA
1 GCCTGCTAGGCTCGAAAGGCCCGAATAAT-T-TCACCGGCATAATA
*
25509561 GCCTGCTAGGCTC-AAAGGCTCGAATA
1 GCCTGCTAGGCTCGAAAGGCCCGAATA
25509587 TAATACCAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
43 14 0.22
44 4 0.06
45 20 0.32
46 25 0.40
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (44 bp):
GCCTGCTAGGCTCGAAAGGCCCGAATAATTTCACCGGCATAATA
Found at i:25509635 original size:38 final size:38
Alignment explanation
Indices: 25509584--25509741 Score: 187
Period size: 38 Copynumber: 4.1 Consensus size: 38
25509574 AAAGGCTCGA
* *
25509584 ATATAATACCAGCACTAGGCCTACTGGG-TTTAACCCGG
1 ATATAATACCAGCACAAAGCCT-CTGGGATTTAACCCGG
*
25509622 ATATAATACCAGCACAAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACAAAGCCTCTGGGATTTAACCCGG
*
25509660 ATATATTACCAGCACAAAGCCTGC-GGGATTTAACCCGG
1 ATATAATACCAGCACAAAGCCT-CTGGGATTTAACCCGG
* * *
25509698 TTATATTACCAGCACGAAGCCTGC-GGGATTTTAAGCCCGG
1 ATATAATACCAGCACAAAGCCT-CTGGGA-TTTAA-CCCGG
25509738 ATAT
1 ATAT
25509742 CATATTTAGA
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
37 4 0.04
38 91 0.84
39 5 0.05
40 8 0.07
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACAAAGCCTCTGGGATTTAACCCGG
Found at i:25509710 original size:76 final size:78
Alignment explanation
Indices: 25509584--25509741 Score: 214
Period size: 76 Copynumber: 2.1 Consensus size: 78
25509574 AAAGGCTCGA
* * *
25509584 ATATAATACCAGCACTAGGCCTACTGGGTTTAACCCGGATATAATACCAGCACAAAGCCTGTGGG
1 ATATAATACCAGCACAAAGCCTACTGGGTTTAACCCGGATATAATACCAGCACAAAGCCTGCGGG
25509649 A-TTTAA-CCCGG
66 ATTTTAAGCCCGG
* * * * *
25509660 ATATATTACCAGCACAAAGCCTGC-GGGATTTAACCCGGTTATATTACCAGCACGAAGCCTGCGG
1 ATATAATACCAGCACAAAGCCTACTGGG-TTTAACCCGGATATAATACCAGCACAAAGCCTGCGG
25509724 GATTTTAAGCCCGG
65 GATTTTAAGCCCGG
25509738 ATAT
1 ATAT
25509742 CATATTTAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
75 3 0.04
76 54 0.76
77 5 0.07
78 9 0.13
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (78 bp):
ATATAATACCAGCACAAAGCCTACTGGGTTTAACCCGGATATAATACCAGCACAAAGCCTGCGGG
ATTTTAAGCCCGG
Found at i:25515457 original size:81 final size:80
Alignment explanation
Indices: 25515280--25515476 Score: 270
Period size: 81 Copynumber: 2.5 Consensus size: 80
25515270 TACTGAAATG
** * *
25515280 CCCTCGATTTGTAGAATTACCATTTTACCCTCAATTTATAGAATTACCTTTCACCCTCGATTTAC
1 CCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCTTTCACCCTCGATTTAC
**
25515345 AAAATTACTGTTTTA
66 AAAATTACCATTTTA
* ** *
25515360 CCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACC-TTTCACCCTCGATTTA
25515425 CAAAATTACCATTTTA
65 CAAAATTACCATTTTA
*
25515441 CCCTC-AGTTTACAAAATTACCGTTTTACCCTCAATT
1 CCCTCGA-TTTACAAAATTACCATTTTACCCTCAATT
25515477 GTGAAATTAC
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 44 0.43
81 59 0.57
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (80 bp):
CCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCTTTCACCCTCGATTTAC
AAAATTACCATTTTA
Found at i:25515473 original size:27 final size:27
Alignment explanation
Indices: 25515280--25515472 Score: 237
Period size: 27 Copynumber: 7.2 Consensus size: 27
25515270 TACTGAAATG
** *
25515280 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
25515307 CCCTCAATTTATAGAATTACC-TTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
**
25515333 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
25515360 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
25515387 CCCTTGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
25515414 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
25515441 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
25515468 CCCTC
1 CCCTC
25515473 AATTGTGAAA
Statistics
Matches: 145, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
26 22 0.15
27 123 0.85
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:25515638 original size:27 final size:27
Alignment explanation
Indices: 25515475--25515648 Score: 192
Period size: 27 Copynumber: 6.4 Consensus size: 27
25515465 TTACCCTCAA
* *
25515475 TTGTGAAATTACTAAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTAGT
* *
25515501 ATGATAGAATTACCAAAATACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
*
25515529 TTGTAAAATTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* *
25515556 TTGTAAAATTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* *
25515583 TTGTGAAATTA-CAGAAATA-CCCTCAAT
1 TTGTAAAATTACCA-AAATACCCCT-AGT
*
25515610 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTAGT
**
25515637 TTACAAAATTAC
1 TTGTAAAATTAC
25515649 AGAAACACCC
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.06
27 108 0.86
28 10 0.08
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:25515649 original size:54 final size:54
Alignment explanation
Indices: 25515508--25515715 Score: 202
Period size: 54 Copynumber: 3.8 Consensus size: 54
25515498 TGTATGATAG
* ** * *
25515508 AATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCACTAGTTTACAAAATTA-CAGAAATACCCTCAATTTGTAA
* ***
25515562 AATTACCAAAATACCACTGGTTTGTGAAATTACAGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTAGTTTACAAAATTACAGAAATACCCTCAATTTGTAA
* * * * * *
25515616 AATTACCAAAATACCCCTAATTTACAAAATTACAGAAACACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTAGTTTACAAAATTACAGAAATACCC-TCAATTTGT-AA
** * * *
25515672 AATTATAAAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCAAAATACCACTAGTTTACAAAATTACAGAAATACCCT
25515716 TGGTTTGTAG
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.02
54 82 0.64
55 7 0.05
56 37 0.29
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCACTAGTTTACAAAATTACAGAAATACCCTCAATTTGTAA
Found at i:25515658 original size:27 final size:28
Alignment explanation
Indices: 25515588--25515658 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
25515578 CTGGTTTGTG
**
25515588 AAATTACAGAAATA-CCCTCAATTTGTA
1 AAATTACAGAAATACCCCTCAATTTACA
25515615 AAATTACCA-AAATACCCCT-AATTTACA
1 AAATTA-CAGAAATACCCCTCAATTTACA
*
25515642 AAATTACAGAAACACCC
1 AAATTACAGAAATACCC
25515659 TTGACTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 2 0.05
27 30 0.79
28 6 0.16
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (28 bp):
AAATTACAGAAATACCCCTCAATTTACA
Found at i:25515703 original size:27 final size:27
Alignment explanation
Indices: 25515670--25515721 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
25515660 TGACTTTCTA
25515670 AAAATTA-TAAAAATACCATTGGTTTAC
1 AAAATTACT-AAAATACCATTGGTTTAC
* *
25515697 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTAAAATACCATTGGTTT
25515722 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (27 bp):
AAAATTACTAAAATACCATTGGTTTAC
Found at i:25515813 original size:26 final size:25
Alignment explanation
Indices: 25515762--25515833 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
25515752 AAATGACTAA
25515762 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-ATAGGGT--AAAGACCGT
25515789 AA-AGCCCCTATAGGGTAAAGTACCGT
1 AATA-CCCCTATAGGGTAAAG-ACCGT
* *
25515815 AATACCCCTGTATGGTAAA
1 AATACCCCTATAGGGTAAA
25515834 ATGACGAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 4 0.10
26 24 0.62
27 11 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (25 bp):
AATACCCCTATAGGGTAAAGACCGT
Found at i:25516701 original size:25 final size:25
Alignment explanation
Indices: 25516648--25516714 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
25516638 AGGAAGTGCT
* *
25516648 AAAAGGGCTATGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTA
25516673 AAAAGGGCTTTGCCCCAGTTTA-TCA
1 AAAAGGGCTTTGCCCCAGTTTACT-A
**
25516698 AAAATTGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
25516715 ATTATTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTA
Found at i:25517043 original size:29 final size:28
Alignment explanation
Indices: 25517001--25517055 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
25516991 AGACTAAATT
* *
25517001 AGGGCTTAGGCCCATACTGCTACTGTTTA
1 AGGGCTAAGGCCCAGACTG-TACTGTTTA
25517030 AGGGCTAAGGCCCAGACTGTACTGTT
1 AGGGCTAAGGCCCAGACTGTACTGTT
25517056 ACTAAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (28 bp):
AGGGCTAAGGCCCAGACTGTACTGTTTA
Found at i:25519218 original size:26 final size:27
Alignment explanation
Indices: 25519162--25519225 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
25519152 ATTACTAAAG
* *
25519162 TACCCTTGATTTATAGAATCACTGTTT
1 TACCCTCGATTTACAGAATCACTGTTT
*
25519189 TACCCTCGATTTACA-AATTACTGTTT
1 TACCCTCGATTTACAGAATCACTGTTT
25519215 TACCCTCGATT
1 TACCCTCGATT
25519226 GTGAAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 21 0.62
27 13 0.38
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATCACTGTTT
Found at i:25519287 original size:27 final size:27
Alignment explanation
Indices: 25519257--25519352 Score: 122
Period size: 27 Copynumber: 3.6 Consensus size: 27
25519247 TATAGGGTAG
* *
25519257 AATTACCAATATACCACTAGTTTGTAA
1 AATTACCAAAATACCACTAGTTTGTGA
* *
25519284 AATTACCAAAATATCACTGGTTTGTGA
1 AATTACCAAAATACCACTAGTTTGTGA
* *
25519311 AATTACCGAAATACC-CTCAATTTGTGA
1 AATTACCAAAATACCACT-AGTTTGTGA
25519338 AATTACCAAAATACC
1 AATTACCAAAATACC
25519353 CCTGATTTAC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.03
27 57 0.97
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCACTAGTTTGTGA
Found at i:25519368 original size:54 final size:54
Alignment explanation
Indices: 25519277--25519437 Score: 153
Period size: 54 Copynumber: 2.9 Consensus size: 54
25519267 ATACCACTAG
* * *** *
25519277 TTTGTAAAATTACCAAAATATCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAA
* * * *
25519331 TTTGTGAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCC-TCAA
* * * * *
25519386 TTTTTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 TTTGT-AAAATTACCA-AAATACCACTGATTTACAAAATTACAGAAATACCCT
25519438 TGGTTTGTAG
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
54 42 0.48
55 8 0.09
56 37 0.43
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAA
Found at i:25519431 original size:27 final size:27
Alignment explanation
Indices: 25519337--25519443 Score: 101
Period size: 27 Copynumber: 3.9 Consensus size: 27
25519327 TCAATTTGTG
** * *
25519337 AAATTACCAAAATACCCCTGATTTACA
1 AAATTACTGAAATACCCTTGGTTTACA
* *
25519364 AAATTACAGAAATACCCTTGACTTTTTA-A
1 AAATTACTGAAATACCCTTG---GTTTACA
*
25519393 AAATTA-TAGAAATACCATTGGTTTACA
1 AAATTACT-GAAATACCCTTGGTTTACA
25519420 AAATTACTGAAATACCCTTGGTTT
1 AAATTACTGAAATACCCTTGGTTT
25519444 GTAGATTTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
26 4 0.06
27 39 0.59
28 1 0.02
29 18 0.27
30 4 0.06
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGGTTTACA
Found at i:25519520 original size:27 final size:27
Alignment explanation
Indices: 25519488--25519539 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
25519478 GACTAAAATA
25519488 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAAAGACCGTAAAG
**
25519515 CCCCTATAGGGTAAAGTGACCGTAA
1 CCCCTATAGGGTAAAAAGACCGTAA
25519540 TACCCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:25520392 original size:25 final size:25
Alignment explanation
Indices: 25520354--25520423 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
25520344 AGGAAGTGCT
*
25520354 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
25520379 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
25520404 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
25520424 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:25520436 original size:24 final size:24
Alignment explanation
Indices: 25520354--25520468 Score: 106
Period size: 25 Copynumber: 4.5 Consensus size: 24
25520344 AGGAAGTGCT
*
25520354 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTA-TG
*
25520379 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTATGCCCCAGTTTAT-G
* *
25520404 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTATGCCCCAGTTTATG
*
25520427 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTATGCC-CCAGTT-TATG
*
25520454 ATAAAGTAGCTATGC
1 A-AAAG-GGCTATGC
25520469 TGCCAGTGGA
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
23 5 0.07
24 11 0.15
25 44 0.59
26 1 0.01
27 4 0.05
28 10 0.13
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTATGCCCCAGTTTATG
Found at i:25521637 original size:15 final size:15
Alignment explanation
Indices: 25521617--25521645 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25521607 TTAGATCACT
25521617 ATGTTTTGTATTGGG
1 ATGTTTTGTATTGGG
25521632 ATGTTTTGTATTGG
1 ATGTTTTGTATTGG
25521646 CATTTTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.31, T:0.55
Consensus pattern (15 bp):
ATGTTTTGTATTGGG
Found at i:25522289 original size:86 final size:85
Alignment explanation
Indices: 25522197--25522353 Score: 219
Period size: 86 Copynumber: 1.8 Consensus size: 85
25522187 TTTCGACATG
* * *
25522197 TGATTTTGTGTAAGACCAC-ATCTGGGACGTTGGCATCGAT-TTGAGATTTACGTGTAAGACCAT
1 TGATTTTGTGTAAGACC-CTATCTGGGACATTGGCATCGATATT-AGA-TTACATGTAAGACCAC
25522260 GTCTGGGACATCGACATCGTATT
63 GTCTGGGACATCGACATCGTATT
* * *
25522283 TGATTTTGTGTAAGACCCTGTCTGGGACATTGGCATCGATATTTGATTACATGTAAGACCACGTT
1 TGATTTTGTGTAAGACCCTATCTGGGACATTGGCATCGATATTAGATTACATGTAAGACCACGTC
25522348 TGGGAC
66 TGGGAC
25522354 GTTGGCATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
85 23 0.37
86 38 0.60
87 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (85 bp):
TGATTTTGTGTAAGACCCTATCTGGGACATTGGCATCGATATTAGATTACATGTAAGACCACGTC
TGGGACATCGACATCGTATT
Found at i:25522327 original size:43 final size:43
Alignment explanation
Indices: 25522197--25522361 Score: 174
Period size: 43 Copynumber: 3.8 Consensus size: 43
25522187 TTTCGACATG
* * *
25522197 TGATTTTGTGTAAGACCACATCTGGGACGTTGGCATCGAT-TT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATATT
* * * *
25522239 GAGATTTACGTGTAAGACCATGTCTGGGACATCGACATCG-TATT
1 -TGATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATT
*
25522283 TGATTTTGTGTAAGACC-CTGTCTGGGACATTGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATT
* * * *
25522326 TGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
25522362 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 27 0.27
43 44 0.44
44 29 0.29
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATATT
Found at i:25530538 original size:17 final size:17
Alignment explanation
Indices: 25530516--25530550 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
25530506 TTGATTTAAG
*
25530516 TCATTTATTTTTCTTAT
1 TCATTTATTTTTATTAT
25530533 TCATTTATTTTTATTAT
1 TCATTTATTTTTATTAT
25530550 T
1 T
25530551 TAAATTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (17 bp):
TCATTTATTTTTATTAT
Found at i:25530917 original size:6 final size:6
Alignment explanation
Indices: 25530906--25530930 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25530896 TTAATTTTTG
25530906 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
25530931 CAAGTCGATT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:25534473 original size:43 final size:41
Alignment explanation
Indices: 25534405--25534489 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 41
25534395 TAATACATTG
* * *
25534405 GCATCATATATGATTTCGTGTAAGACCCTGTCTTGGACAGTT
1 GCATCATATATGATTACATGTAAGACCATGTCTTGGAC-GTT
* *
25534447 GCATCGATATTTGATTACATGTAAGACTATGTCTTGGACGTT
1 GCATC-ATATATGATTACATGTAAGACCATGTCTTGGACGTT
25534489 G
1 G
25534490 GCATTGTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 9 0.24
43 28 0.76
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (41 bp):
GCATCATATATGATTACATGTAAGACCATGTCTTGGACGTT
Found at i:25537972 original size:28 final size:28
Alignment explanation
Indices: 25537939--25538057 Score: 157
Period size: 28 Copynumber: 4.2 Consensus size: 28
25537929 ATTGCATGAC
**
25537939 TATGAAAGTGATTGGGCCTGACAGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* *
25537967 TATGAAAGTGATTGCGCCTGATGGGCTA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
*
25537995 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* * *
25538023 TATGAATGAGATTGGGCCTAAATGGGCCA
1 TATGAAAGTGATTGGGCCT-GATGGGCCA
25538052 TATGAA
1 TATGAA
25538058 TGAATATAGA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 67 0.83
29 14 0.17
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (28 bp):
TATGAAAGTGATTGGGCCTGATGGGCCA
Found at i:25541917 original size:39 final size:38
Alignment explanation
Indices: 25541855--25542026 Score: 209
Period size: 39 Copynumber: 4.4 Consensus size: 38
25541845 AAGCCAGCGG
* * * * * *
25541855 GACTTTAGCCCGGACATATTTCCAGCACGTAGCCTGCG
1 GACTTAAGTCCGGATATAATTCCAGCACATAGCCTGCA
* *
25541893 GATCTTAAGTTCGGTTATAATTCCAGCACATAGCCTGCA
1 GA-CTTAAGTCCGGATATAATTCCAGCACATAGCCTGCA
*
25541932 GACCTTAAGTCCGGATATAATTCCAGCACATAGCTTGCA
1 GA-CTTAAGTCCGGATATAATTCCAGCACATAGCCTGCA
**
25541971 GACTCTAAGTCCGGATATAATTCCAGCACATAGCCTGTG
1 GACT-TAAGTCCGGATATAATTCCAGCACATAGCCTGCA
25542010 GACTCTAAGTCCGGATA
1 GACT-TAAGTCCGGATA
25542027 AACATCACTG
Statistics
Matches: 117, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 4 0.03
39 113 0.97
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (38 bp):
GACTTAAGTCCGGATATAATTCCAGCACATAGCCTGCA
Found at i:25547468 original size:51 final size:49
Alignment explanation
Indices: 25547338--25547582 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
25547328 TCAATTGTGA
* **
25547338 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
25547387 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * **
25547437 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
25547487 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * * *
25547537 GGCCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
25547583 GCTTTGGCTA
Statistics
Matches: 168, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 80 0.48
50 49 0.29
51 39 0.23
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:25554579 original size:28 final size:28
Alignment explanation
Indices: 25554539--25554650 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 28
25554529 CATGACGGTT
*
25554539 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
25554567 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* * *
25554596 AATGTGAATGTGCCTAATGGGCAATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* * * *
25554624 AAAGAGATTAGGCCTAGTGGGCCATAT
1 AATGTGATTGGGCCTAATGGGCCATAT
25554651 ATAGGTACGT
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 54 0.79
29 14 0.21
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:25559191 original size:28 final size:28
Alignment explanation
Indices: 25559158--25559260 Score: 116
Period size: 28 Copynumber: 3.7 Consensus size: 28
25559148 ATTGCATGAC
* *
25559158 TATGAAAGTGATTAGGCCTGACGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* * *
25559186 TATGAAATTAATTGGGCCTAATGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* *
25559214 TATGAATGTGATTGGGCCCGATGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* * *
25559242 AATGAATGAGATTGGGCCT
1 TATGAAAGTGATTGGGCCT
25559261 AAAGGGGCCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (28 bp):
TATGAAAGTGATTGGGCCTGATGGGCCA
Found at i:25559225 original size:56 final size:57
Alignment explanation
Indices: 25559158--25559278 Score: 147
Period size: 56 Copynumber: 2.1 Consensus size: 57
25559148 ATTGCATGAC
* * * * *
25559158 TATGAAAGTGATTAGGCCTGACGGGCCATATGAAATTA-ATTGGGCCT-AATGGGCCA
1 TATGAATGTGATTAGGCCCGACGGGCCAAATG-AATGAGATTGGGCCTAAAGGGGCCA
* *
25559214 TATGAATGTGATTGGGCCCGATGGGCCAAATGAATGAGATTGGGCCTAAAGGGGCCA
1 TATGAATGTGATTAGGCCCGACGGGCCAAATGAATGAGATTGGGCCTAAAGGGGCCA
*
25559271 AATGAATG
1 TATGAATG
25559279 AGTATGGATC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
55 4 0.07
56 36 0.65
57 15 0.27
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (57 bp):
TATGAATGTGATTAGGCCCGACGGGCCAAATGAATGAGATTGGGCCTAAAGGGGCCA
Found at i:25559277 original size:29 final size:28
Alignment explanation
Indices: 25559196--25559280 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
25559186 TATGAAATTA
* *
25559196 ATTGGGCCTAATGGGCCATATGAATGTG
1 ATTGGGCCTAATGGGCCAAATGAATGAG
**
25559224 ATTGGGCCCGATGGGCCAAATGAATGAG
1 ATTGGGCCTAATGGGCCAAATGAATGAG
*
25559252 ATTGGGCCTAAAGGGGCCAAATGAATGAG
1 ATTGGGCCT-AATGGGCCAAATGAATGAG
25559281 TATGGATCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.21
Consensus pattern (28 bp):
ATTGGGCCTAATGGGCCAAATGAATGAG
Found at i:25576205 original size:39 final size:39
Alignment explanation
Indices: 25576135--25576335 Score: 271
Period size: 39 Copynumber: 5.1 Consensus size: 39
25576125 CCAGAAAGCA
25576135 TGCGGGACTTTAAGCCCGGATATAATACCAGCATAAA-GCC
1 TGCGGGAC-TT-AGCCCGGATATAATACCAGCATAAATGCC
*
25576175 TGCGGGACTTTAGCTCGGATATAATACCAGCATAAATGCC
1 TGCGGGAC-TTAGCCCGGATATAATACCAGCATAAATGCC
* * *
25576215 TTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCC
1 TGCGGGACTTAGCCCGGATATAATACCAGCATAAATGCC
* * * * *
25576254 TTCGGGACTTAGCCTGGATATTACACCAGCACAAATGCC
1 TGCGGGACTTAGCCCGGATATAATACCAGCATAAATGCC
*
25576293 TTCGGGACTTAGCCCGGATATAATACCAGCATAAA-GCC
1 TGCGGGACTTAGCCCGGATATAATACCAGCATAAATGCC
25576331 TGCGG
1 TGCGG
25576336 ACCTCATGTC
Statistics
Matches: 148, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
38 7 0.05
39 120 0.81
40 21 0.14
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.21
Consensus pattern (39 bp):
TGCGGGACTTAGCCCGGATATAATACCAGCATAAATGCC
Found at i:25577101 original size:2 final size:2
Alignment explanation
Indices: 25577094--25577119 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25577084 TATACACATG
25577094 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
25577120 TATATATATA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:25584542 original size:18 final size:17
Alignment explanation
Indices: 25584504--25584536 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25584494 AGTCATTGTC
25584504 AAAAAGTTATTCACTTT
1 AAAAAGTTATTCACTTT
25584521 AAAAAGTTATT-ACTTT
1 AAAAAGTTATTCACTTT
25584537 TTAAAACGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (17 bp):
AAAAAGTTATTCACTTT
Found at i:25596789 original size:46 final size:47
Alignment explanation
Indices: 25596712--25596822 Score: 147
Period size: 46 Copynumber: 2.4 Consensus size: 47
25596702 TCAATCAATA
*
25596712 AGTACCAATACCATGGCCTATAGCCAAATCAAGGTAACT-TATC-CTAG
1 AGTACCTATACCATGGCCTATAGCCAAATCAAGGTAACTCT-TCTCT-G
*
25596759 AGTACCTATACCATGGCC-ATAGTCAAATCAAGGTAACTCTTCTCTG
1 AGTACCTATACCATGGCCTATAGCCAAATCAAGGTAACTCTTCTCTG
* *
25596805 AATACTTATACCATGGCC
1 AGTACCTATACCATGGCC
25596823 CGAAGCAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
46 38 0.66
47 20 0.34
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (47 bp):
AGTACCTATACCATGGCCTATAGCCAAATCAAGGTAACTCTTCTCTG
Found at i:25597084 original size:17 final size:19
Alignment explanation
Indices: 25597042--25597085 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25597032 ATGAAATTTT
*
25597042 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
25597061 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
25597079 AA-TATTA
1 AATTATTA
25597086 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:25604666 original size:29 final size:29
Alignment explanation
Indices: 25604621--25604700 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
25604611 TATATATGTG
25604621 AATTATCGAGCACTAAGTGTGCAAAGTAA
1 AATTATCGAGCACTAAGTGTGCAAAGTAA
* *
25604650 AATTATCGAGCATTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCAAAGTAA
*
25604679 AACTATCGAGCACTAAGTGTGC
1 AATTATCGAGCACTAAGTGTGC
25604701 TATCTCATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCAAAGTAA
Found at i:25622800 original size:29 final size:29
Alignment explanation
Indices: 25622755--25622839 Score: 134
Period size: 29 Copynumber: 2.9 Consensus size: 29
25622745 TATATATGTG
25622755 AATTATCGAGCACTAAGTGTGCAAAGTAA
1 AATTATCGAGCACTAAGTGTGCAAAGTAA
* *
25622784 AATTATCGAGCATTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCAAAGTAA
* *
25622813 AACTATCGAGCACTAAGTGTGCTAAGT
1 AATTATCGAGCACTAAGTGTGCAAAGT
25622840 GTGTGAATAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCAAAGTAA
Found at i:25631151 original size:41 final size:42
Alignment explanation
Indices: 25631130--25631240 Score: 143
Period size: 42 Copynumber: 2.6 Consensus size: 42
25631120 AAGTCTGAAC
* *
25631130 TCATTCACCGGCATT-TCGCCTGCTAGGCTGGAAGCCCGATA
1 TCATTCACCGGCATTATAGCCTGCTAGACTGGAAGCCCGATA
* **
25631171 TCATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATTCACCGGCATTATAGCCTGCTAGACTGGAAGCCCGATA
* *
25631213 TTATCTCACCGGCATTAGAGCCTGCTAG
1 TCAT-TCACCGGCATTATAGCCTGCTAG
25631241 GCCCGAAGCC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 15 0.24
42 26 0.41
43 22 0.35
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (42 bp):
TCATTCACCGGCATTATAGCCTGCTAGACTGGAAGCCCGATA
Found at i:25631236 original size:43 final size:42
Alignment explanation
Indices: 25631130--25631250 Score: 181
Period size: 43 Copynumber: 2.9 Consensus size: 42
25631120 AAGTCTGAAC
* **
25631130 TCATTCACCGGCATT-TCGCCTGCTAGGCTGGAAGCCCGATA
1 TCATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
25631171 TCATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
* *
25631213 TTATCTCACCGGCATTAGAGCCTGCTAGGCCCGAAGCC
1 TCAT-TCACCGGCATTATAGCCTGCTAGGCCCGAAGCC
25631251 TAATAATATT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 15 0.21
42 26 0.36
43 32 0.44
ACGTcount: A:0.21, C:0.33, G:0.23, T:0.22
Consensus pattern (42 bp):
TCATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
Found at i:25633207 original size:14 final size:15
Alignment explanation
Indices: 25633178--25633207 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25633168 CAAAATTTAG
25633178 ACATGATACTTTCAC
1 ACATGATACTTTCAC
25633193 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
25633207 A
1 A
25633208 AATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:25648480 original size:20 final size:20
Alignment explanation
Indices: 25648447--25648495 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
25648437 CTGACTAATT
* * *
25648447 GACACAGGCGTGTTGGATTG
1 GACACGGGCATGTTAGATTG
25648467 GACACGGGCATGTTAGATTG
1 GACACGGGCATGTTAGATTG
*
25648487 GAAACGGGC
1 GACACGGGC
25648496 GTGGGAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.39, T:0.20
Consensus pattern (20 bp):
GACACGGGCATGTTAGATTG
Found at i:25650195 original size:20 final size:19
Alignment explanation
Indices: 25650166--25650208 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
25650156 ATCCTGAATA
* *
25650166 ATTGACACGGGCGTGTTGG
1 ATTGACACGGACATGTTGG
25650185 ATTGCACACGGACATGTTGG
1 ATTG-ACACGGACATGTTGG
25650205 ATTG
1 ATTG
25650209 GACGCAGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (19 bp):
ATTGACACGGACATGTTGG
Found at i:25666862 original size:46 final size:46
Alignment explanation
Indices: 25666801--25666968 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 46
25666791 CGAGGCCAAT
* *
25666801 GCATGTCCCAAACATGTCTTACTCTGGCACTCATAATATGGCTGAA
1 GCATGTCCCAAACATGTCTTACACTGGCACTCATAATATGGCCGAA
* * * * * * *
25666847 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTAGAT-GCCGAT
1 GCATGTCCCAAACATGTCTTACACTGGCACTCAT-AATATGGCCGAA
* *
25666893 GCCATGT-CCAACACATGATCTTACACTGGCTCTCATAATGTGGCCGAA
1 G-CATGTCCCAA-ACATG-TCTTACACTGGCACTCATAATATGGCCGAA
25666941 GCATGTCCCAAACATGTCTTACACTGGC
1 GCATGTCCCAAACATGTCTTACACTGGC
25666969 GCACAAATCT
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
46 49 0.49
47 25 0.25
48 25 0.25
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
GCATGTCCCAAACATGTCTTACACTGGCACTCATAATATGGCCGAA
Found at i:25670280 original size:248 final size:248
Alignment explanation
Indices: 25669961--25670456 Score: 983
Period size: 248 Copynumber: 2.0 Consensus size: 248
25669951 TTATGGAGGA
25669961 ATATGAGTCCTAGTTGTGTTATAAACAACTTTTATGAAGGGTGTTAGCATGAAAACACCTAAAGA
1 ATATGAGTCCTAGTTGTGTTATAAACAACTTTTATGAAGGGTGTTAGCATGAAAACACCTAAAGA
25670026 AACTATTTTGCATAAGTTGCAAATTAAGTAATAAGTGTATGAAATAGTGAGAATGTTGGGTTGCT
66 AACTATTTTGCATAAGTTGCAAATTAAGTAATAAGTGTATGAAATAGTGAGAATGTTGGGTTGCT
25670091 CTAGTAGTAAAAAGAGTTTAGCTAGGCTTGAAATACGAAGAAATACGATAAAAATTGAATTTTGA
131 CTAGTAGTAAAAAGAGTTTAGCTAGGCTTGAAATACGAAGAAATACGATAAAAATTGAATTTTGA
25670156 GCATGGGGGTACAATGGTCATTTTGCTAAAGTCTAGGGGCAAAATGGTCATTT
196 GCATGGGGGTACAATGGTCATTTTGCTAAAGTCTAGGGGCAAAATGGTCATTT
*
25670209 ATATGAGTCCTAGTTGTGTTATAAACAACTTTTATGAAGGGTGTTAGCATGAAAACACCTAAAGG
1 ATATGAGTCCTAGTTGTGTTATAAACAACTTTTATGAAGGGTGTTAGCATGAAAACACCTAAAGA
25670274 AACTATTTTGCATAAGTTGCAAATTAAGTAATAAGTGTATGAAATAGTGAGAATGTTGGGTTGCT
66 AACTATTTTGCATAAGTTGCAAATTAAGTAATAAGTGTATGAAATAGTGAGAATGTTGGGTTGCT
25670339 CTAGTAGTAAAAAGAGTTTAGCTAGGCTTGAAATACGAAGAAATACGATAAAAATTGAATTTTGA
131 CTAGTAGTAAAAAGAGTTTAGCTAGGCTTGAAATACGAAGAAATACGATAAAAATTGAATTTTGA
25670404 GCATGGGGGTACAATGGTCATTTTGCTAAAGTCTAGGGGCAAAATGGTCATTT
196 GCATGGGGGTACAATGGTCATTTTGCTAAAGTCTAGGGGCAAAATGGTCATTT
25670457 TACCAAAGAT
Statistics
Matches: 247, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
248 247 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (248 bp):
ATATGAGTCCTAGTTGTGTTATAAACAACTTTTATGAAGGGTGTTAGCATGAAAACACCTAAAGA
AACTATTTTGCATAAGTTGCAAATTAAGTAATAAGTGTATGAAATAGTGAGAATGTTGGGTTGCT
CTAGTAGTAAAAAGAGTTTAGCTAGGCTTGAAATACGAAGAAATACGATAAAAATTGAATTTTGA
GCATGGGGGTACAATGGTCATTTTGCTAAAGTCTAGGGGCAAAATGGTCATTT
Found at i:25670877 original size:47 final size:45
Alignment explanation
Indices: 25670800--25671061 Score: 160
Period size: 47 Copynumber: 5.8 Consensus size: 45
25670790 TGGGTTATGT
* *
25670800 GAGA-GCTAGTATAAGACCATGTCTGGGACATGGCATCGGTATTGA
1 GAGAGGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGA
* *
25670845 GACGAGGGCTAGTGTAAGA-CGTGTCTGGGACATGCATCAGCCACATT-A
1 GA-GA-GGCTAGTGTAAGACCATGTCTGGGACATGCATC-G--GCATTGA
* * * *
25670893 TGATA-GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCGTAGA
1 -GAGAGGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGA
* *
25670939 GATGAGTGCTAGTGTAAGA-CATGTCTGGGGCATGCATCAGCCACATT-A
1 GA-GAG-GCTAGTGTAAGACCATGTCTGGGACATGCATC-G--GCATTGA
* *
25670987 TGATA-GCCAGTGTAAGACCATGTCTGGG--ATG-AT--GC---GA
1 -GAGAGGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGA
25671024 GATGAGTGCTAGTGTAAGA-CATGTCTGGGACATGCATC
1 GA-GAG-GCTAGTGTAAGACCATGTCTGGGACATGCATC
25671062 AGCCTCGATG
Statistics
Matches: 170, Mismatches: 21, Indels: 55
0.69 0.09 0.22
Matches are distributed among these distances:
36 2 0.01
37 2 0.01
38 10 0.06
39 12 0.07
40 3 0.02
41 2 0.01
44 2 0.01
45 9 0.05
46 36 0.21
47 52 0.31
48 31 0.18
49 9 0.05
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.24
Consensus pattern (45 bp):
GAGAGGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGA
Found at i:25670964 original size:94 final size:95
Alignment explanation
Indices: 25670811--25671205 Score: 415
Period size: 94 Copynumber: 4.3 Consensus size: 95
25670801 AGAGCTAGTA
* ** * * *
25670811 TAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGGGCTAGTGTAAGACGTGTCTGGGAC
1 TAAGACCATGTCTGGGACATGGCATTGGCGTAGAGACGAGTGCTAGTGTAAGACATGTCTGGGAC
* *
25670876 ATGCATCAGCCAC-ATTATGATAGCTAGTG
66 ATGCATCAGCCACGATGATGATAGCCAGTG
* *
25670905 TAAGACCATGTCTGGGACATGGCATTGGCGTAGAGATGAGTGCTAGTGTAAGACATGTCTGGGGC
1 TAAGACCATGTCTGGGACATGGCATTGGCGTAGAGACGAGTGCTAGTGTAAGACATGTCTGGGAC
*
25670970 ATGCATCAGCCAC-ATTATGATAGCCAGTG
66 ATGCATCAGCCACGATGATGATAGCCAGTG
*
25670999 TAAGACCATGTCTGGG--AT-G-A-T-GC---GAGATGAGTGCTAGTGTAAGACATGTCTGGGAC
1 TAAGACCATGTCTGGGACATGGCATTGGCGTAGAGACGAGTGCTAGTGTAAGACATGTCTGGGAC
* **
25671055 ATGCATCAGCCTCGATGATGATAGCCAGCA
66 ATGCATCAGCCACGATGATGATAGCCAGTG
* * * * * *
25671085 TAAGA-CGTGTCTGGGACAT-GCATCAGCACGTATACACGAGAT-CTAGTGTAAGACCATGTTTG
1 TAAGACCATGTCTGGGACATGGCAT-TG-GCGTAGAGACGAG-TGCTAGTGTAAGA-CATGTCTG
* * *
25671147 GGACATGGCACCAGCCTCGATGGA-GATAGCCAGCG
62 GGACAT-GCATCAGCCACGAT-GATGATAGCCAGTG
25671182 TAAGACCATGTCTGGGACATGGCA
1 TAAGACCATGTCTGGGACATGGCA
25671206 GCAACAACTT
Statistics
Matches: 260, Mismatches: 24, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
85 53 0.20
86 18 0.07
87 3 0.01
88 3 0.01
89 1 0.00
90 1 0.00
91 1 0.00
92 3 0.01
94 101 0.39
95 16 0.06
96 14 0.05
97 28 0.11
98 15 0.06
99 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (95 bp):
TAAGACCATGTCTGGGACATGGCATTGGCGTAGAGACGAGTGCTAGTGTAAGACATGTCTGGGAC
ATGCATCAGCCACGATGATGATAGCCAGTG
Found at i:25671090 original size:47 final size:48
Alignment explanation
Indices: 25671037--25671202 Score: 169
Period size: 49 Copynumber: 3.5 Consensus size: 48
25671027 GAGTGCTAGT
25671037 GTAAGA-CATGTCTGGGACATGCATCAGCCTCGAT-GATGATAGCCAGC
1 GTAAGACCATGTCTGGGACATGCATCAGCCTCGATAGA-GATAGCCAGC
* * * * * * * *
25671084 ATAAGA-CGTGTCTGGGACATGCATCAG-CACGTATACACGAGATCTAGT
1 GTAAGACCATGTCTGGGACATGCATCAGCCTCG-ATAGA-GATAGCCAGC
* * *
25671132 GTAAGACCATGTTTGGGACATGGCACCAGCCTCGATGGAGATAGCCAGC
1 GTAAGACCATGTCTGGGACAT-GCATCAGCCTCGATAGAGATAGCCAGC
25671181 GTAAGACCATGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
25671203 GCAGCAACAA
Statistics
Matches: 93, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
46 3 0.03
47 27 0.29
48 13 0.14
49 38 0.41
50 9 0.10
51 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGCATCAGCCTCGATAGAGATAGCCAGC
Found at i:25671096 original size:85 final size:85
Alignment explanation
Indices: 25670937--25671100 Score: 258
Period size: 85 Copynumber: 1.9 Consensus size: 85
25670927 CATTGGCGTA
* * **
25670937 GAGATGAGTGCTAGTGTAAGACATGTCTGGGGCATGCATCAGCCACATTATGATAGCCAGTGTAA
1 GAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGATAGCCAGCATAA
25671002 GACCATGTCTGGGATGATGC
66 GACCATGTCTGGGATGATGC
*
25671022 GAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGATAGCCAGCATA
1 GAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGATAGCCAGCATA
*
25671087 AGA-CGTGTCTGGGA
65 AGACCATGTCTGGGA
25671101 CATGCATCAG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
85 54 0.75
86 18 0.25
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (85 bp):
GAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGATAGCCAGCATAA
GACCATGTCTGGGATGATGC
Found at i:25672068 original size:55 final size:54
Alignment explanation
Indices: 25671953--25672083 Score: 129
Period size: 55 Copynumber: 2.4 Consensus size: 54
25671943 CTTAAACTTT
* * * *
25671953 TAAA-TCAGTATTGTCCACGGTTAGGCCACACGGGCATGTACCATAGCCATGTC
1 TAAAGTCACTATTGCCCACGGGTAGGCCACACGGGCATGTACCATAGCCATGCC
* * ** * *
25672006 TATAAGTCATTATTGCCCACGGGTAGGCCACACGGGCGTGTGTCATGGCCGTGCCC
1 TA-AAGTCACTATTGCCCACGGGTAGGCCACACGGGCATGTACCATAGCCATG-CC
* *
25672062 TAAAGTCACTATCGCACACGGG
1 TAAAGTCACTATTGCCCACGGG
25672084 CTGAGGAAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 56 0.89
56 3 0.05
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (54 bp):
TAAAGTCACTATTGCCCACGGGTAGGCCACACGGGCATGTACCATAGCCATGCC
Found at i:25672773 original size:12 final size:12
Alignment explanation
Indices: 25672756--25672780 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25672746 GTAGTCATAA
25672756 TACTATATAGTT
1 TACTATATAGTT
25672768 TACTATATAGTT
1 TACTATATAGTT
25672780 T
1 T
25672781 CATTTTTAAT
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TACTATATAGTT
Found at i:25674357 original size:19 final size:19
Alignment explanation
Indices: 25674329--25674367 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
25674319 CAGTTTGAAC
*
25674329 CTTAGGAATAGTCAGGATA
1 CTTAGAAATAGTCAGGATA
*
25674348 CTTAGAAATAGTTAGGATA
1 CTTAGAAATAGTCAGGATA
25674367 C
1 C
25674368 AAGTGACATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (19 bp):
CTTAGAAATAGTCAGGATA
Found at i:25674415 original size:21 final size:20
Alignment explanation
Indices: 25674391--25674467 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 20
25674381 TTAGGAATTA
25674391 TTGTGATCTGAACTCATTGAG
1 TTGTGATCTGAACTCA-TGAG
* ** *
25674412 TTGTGGTCTGAGTTCATGATAT
1 TTGTGATCTGAACTCATG--AG
25674434 TTGTGACATCTGAACTCACTGAG
1 TTGTG--ATCTGAACTCA-TGAG
*
25674457 TTGTGGTCTGA
1 TTGTGATCTGA
25674468 GTTCATGATG
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
20 2 0.05
21 18 0.43
22 6 0.14
23 6 0.14
24 8 0.19
25 2 0.05
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.39
Consensus pattern (20 bp):
TTGTGATCTGAACTCATGAG
Found at i:25674486 original size:45 final size:45
Alignment explanation
Indices: 25674396--25674486 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
25674386 AATTATTGTG
* * *
25674396 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATTTGTGAC
1 ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATATGAC
*
25674441 ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATGTATATGAC
1 ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATATGAC
25674486 A
1 A
25674487 CATGTTTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (45 bp):
ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATATGAC
Found at i:25682179 original size:10 final size:10
Alignment explanation
Indices: 25682164--25682198 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
25682154 AGTTTGAACC
25682164 TTAGGAATAG
1 TTAGGAATAG
*
25682174 TTAGG-ATAC
1 TTAGGAATAG
25682183 TTAGGAATAG
1 TTAGGAATAG
25682193 TTAGGA
1 TTAGGA
25682199 TGCAAGTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.31
Consensus pattern (10 bp):
TTAGGAATAG
Found at i:25682187 original size:19 final size:19
Alignment explanation
Indices: 25682163--25682199 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
25682153 TAGTTTGAAC
25682163 CTTAGGAATAGTTAGGATA
1 CTTAGGAATAGTTAGGATA
25682182 CTTAGGAATAGTTAGGAT
1 CTTAGGAATAGTTAGGAT
25682200 GCAAGTGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (19 bp):
CTTAGGAATAGTTAGGATA
Found at i:25682287 original size:45 final size:45
Alignment explanation
Indices: 25682235--25682320 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
25682225 TTGTGATTTG
** *
25682235 AACTCATTGAGTTGTGGTCTGTGTTCATGATATTTGTGACATCTA
1 AACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACATCTA
*
25682280 AACTCATTGAGTTGTGGTCTAAGTTCATGATGTATGTGACA
1 AACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACA
25682321 CATGTTTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (45 bp):
AACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACATCTA
Found at i:25689255 original size:27 final size:27
Alignment explanation
Indices: 25689211--25689450 Score: 243
Period size: 27 Copynumber: 9.0 Consensus size: 27
25689201 AGTCATACAT
* * *
25689211 CACAT-AGGGTAAAACAGTCAATTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
*
25689237 CACATAAAGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
25689264 CTCATAAGGGAAAAATC-GTCATTTTAT
1 CACATAAGGGCAAAA-CAGTCATTTTAC
* * *
25689291 CTCATAAGGGCAAAA-TGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
25689317 CTCATAAGGGAAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
25689344 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
25689371 CACATAAAGGCAAAACAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
25689398 CTCACAAGGGTAAAACGGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
25689425 CCCACAAGGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
25689451 TTAATCTCGG
Statistics
Matches: 180, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
26 27 0.15
27 152 0.84
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:25694171 original size:18 final size:17
Alignment explanation
Indices: 25694141--25694174 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25694131 TTTTGGGCCG
*
25694141 TGTGGGCCGCACGGGCA
1 TGTGGGCCACACGGGCA
25694158 TGTGGGCCTACACGGGC
1 TGTGGGCC-ACACGGGC
25694175 TGACAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.29, G:0.44, T:0.15
Consensus pattern (17 bp):
TGTGGGCCACACGGGCA
Found at i:25697496 original size:41 final size:41
Alignment explanation
Indices: 25697398--25697508 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
25697388 AAGAATGATG
* *
25697398 AATTGCACATGCGTGCCTCTATTTGTACTTCAGTACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCCTA
* ** * *
25697439 AATTGAACATTGGTGCCCCTGTTTGTACTTCAGTACCCCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCCTA
* *
25697480 ACTTGCGCATACGTG-CCCTATTTGTACTT
1 AATTGCACATACGTGCCCCTATTTGTACTT
25697509 GGGTTCTCTA
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 13 0.22
41 45 0.78
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCCTA
Found at i:25704699 original size:41 final size:41
Alignment explanation
Indices: 25704654--25704941 Score: 324
Period size: 41 Copynumber: 7.0 Consensus size: 41
25704644 AGAATAATGA
* *
25704654 TGAATTGCACATACGTGCCCCTGTTTATACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
** **
25704695 TGAATTGCATGTATATGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
25704736 TGAATTACACATAGGTGCCCCTATTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
25704777 AGAATTGCACATACATGCCCCTTTTTGTACTTCGATACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
** * * ** *
25704818 TGAATTGCACATATATGCCCCTCTTTGTTCTTCAATGCCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
25704859 TAAATTGCACATAGGTGCCCCTATTTGTACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
25704900 TAAATTGCACATCCGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
25704941 T
1 T
25704942 AGATGTACTT
Statistics
Matches: 207, Mismatches: 40, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 207 1.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:25704859 original size:123 final size:124
Alignment explanation
Indices: 25704655--25704941 Score: 391
Period size: 123 Copynumber: 2.3 Consensus size: 124
25704645 GAATAATGAT
* * * ** *
25704655 GAATTGCACATACGTGCCCCTGTTTATACTTCGGTACCCTTGAATTGCATGTATATGCCCCTGTT
1 GAATTGCACATACGTGCCCCTTTTTGTACTTCGGTACCCCTGAATTGCACATATATGCCCCTCTT
** * *
25704720 TGTACTTCGGTACCCCTGAATTACACATAGGTGCCCCTATTTGTACTTTGGTACCC-CA
66 TGTACTTCAATACCCCTAAATTACACATAGGTGCCCCTATTTGTACTTCGGTACCCTCA
* *
25704778 GAATTGCACATACATGCCCCTTTTTGTACTTCGATACCCCTGAATTGCACATATATGCCCCTCTT
1 GAATTGCACATACGTGCCCCTTTTTGTACTTCGGTACCCCTGAATTGCACATATATGCCCCTCTT
* * * *
25704843 TGTTCTTCAATGCCCCTAAATTGCACATAGGTGCCCCTATTTGTACTTCGGTACCCTTA
66 TGTACTTCAATACCCCTAAATTACACATAGGTGCCCCTATTTGTACTTCGGTACCCTCA
*
25704902 -AATTGCACATCCGTG-CCCTTGTTTGTACTTCGGTACCCCT
1 GAATTGCACATACGTGCCCCTT-TTTGTACTTCGGTACCCCT
25704942 AGATGTACTT
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
122 5 0.03
123 137 0.96
124 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.34
Consensus pattern (124 bp):
GAATTGCACATACGTGCCCCTTTTTGTACTTCGGTACCCCTGAATTGCACATATATGCCCCTCTT
TGTACTTCAATACCCCTAAATTACACATAGGTGCCCCTATTTGTACTTCGGTACCCTCA
Found at i:25717151 original size:14 final size:15
Alignment explanation
Indices: 25717113--25717153 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
25717103 TATTTAAAAA
25717113 TTATTTTCTGTG--T
1 TTATTTTCTGTGAAT
*
25717126 TTATTTTTTGTGAAT
1 TTATTTTCTGTGAAT
25717141 TTA-TTTCTGTGAA
1 TTATTTTCTGTGAA
25717154 ATTTTCGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 11 0.46
14 9 0.38
15 4 0.17
ACGTcount: A:0.17, C:0.05, G:0.15, T:0.63
Consensus pattern (15 bp):
TTATTTTCTGTGAAT
Found at i:25719229 original size:25 final size:27
Alignment explanation
Indices: 25719192--25719245 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
25719182 TCAAACATGC
25719192 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
25719218 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
25719244 AT
1 AT
25719246 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:25720764 original size:26 final size:26
Alignment explanation
Indices: 25720731--25720838 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
25720721 TCAAATGCCC
*
25720731 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
25720757 AT-AGTGGAACATTTACCTAACCCATT
1 ATCA-TGGAACATTTACCTAACCCATT
* *
25720783 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
25720809 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25720835 ATCA
1 ATCA
25720839 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
25 1 0.01
26 73 0.97
27 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25724559 original size:93 final size:93
Alignment explanation
Indices: 25724451--25724622 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
25724441 GCCCATAAGT
* * *
25724451 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
25724516 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
25724544 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
25724609 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
25724623 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:25724618 original size:46 final size:46
Alignment explanation
Indices: 25724443--25724618 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
25724433 TGTAACCCGC
* * *
25724443 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
*
25724489 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
25724535 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
25724582 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
25724619 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:25729993 original size:27 final size:27
Alignment explanation
Indices: 25729958--25730014 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
25729948 GTGCAAGATA
* * * *
25729958 TATATATATATAATATGATGTTAAGAG
1 TATACATATAAAATATAATGTTAAAAG
25729985 TATACATATAAAATATAATGTTAAAAG
1 TATACATATAAAATATAATGTTAAAAG
25730012 TAT
1 TAT
25730015 GTATGCATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.39
Consensus pattern (27 bp):
TATACATATAAAATATAATGTTAAAAG
Found at i:25730497 original size:27 final size:28
Alignment explanation
Indices: 25730449--25730515 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
25730439 AAATATATAT
25730449 AATA-ATAAATATAACAACAATATTGAA
1 AATACATAAATATAACAACAATATTGAA
* * *
25730476 AATACATATATATAAC-ATAATATTTAA
1 AATACATAAATATAACAACAATATTGAA
*
25730503 AAGACATACAATA
1 AATACATA-AATA
25730516 AATACATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 20 0.61
28 13 0.39
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.28
Consensus pattern (28 bp):
AATACATAAATATAACAACAATATTGAA
Found at i:25731984 original size:44 final size:44
Alignment explanation
Indices: 25731899--25732004 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
25731889 GATATATGTC
* * *
25731899 TTGTAGCTTTAATCTACTTCAATGTAACTTCAAAGATATGAGAT
1 TTGTAGCTTTAATCTGCTTCAATGCAACTTCAAAGAGATGAGAT
* * * *
25731943 TTGTAGCTTTGATCTGCTTCCATGCATCTTCAGAA-AGATGAGGT
1 TTGTAGCTTTAATCTGCTTCAATGCAACTTCA-AAGAGATGAGAT
**
25731987 TTACAGCTTTAATCTGCT
1 TTGTAGCTTTAATCTGCT
25732005 CTTCTATCGC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 49 0.96
45 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (44 bp):
TTGTAGCTTTAATCTGCTTCAATGCAACTTCAAAGAGATGAGAT
Found at i:25732326 original size:55 final size:55
Alignment explanation
Indices: 25732209--25732413 Score: 308
Period size: 55 Copynumber: 3.8 Consensus size: 55
25732199 GCGATCTTGA
* * * *
25732209 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAATAGATATTAAAAG
1 GCTCAACTCACTTCTCGCAATATGAGTTGACTTTTTGAAAAATAGAAATTAAAAG
*
25732263 GCTCAACTCACATCTCGCAATATGAGTTGACTTTTTGAAAAATAGAAATTAAAAG
1 GCTCAACTCACTTCTCGCAATATGAGTTGACTTTTTGAAAAATAGAAATTAAAAG
* *
25732318 GCTCAACTCA-TCTCTTGCAATATGAGTTGACTTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACT-TCTCGCAATATGAGTTGACTTTTTGAAAAATAGAAATTAAAAG
*
25732373 GCTCAACTCACTTCTCGTAATATGAGTTGA-TTTTTGAAAAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGACTTTTTGAAAAA
25732414 CATAAATTGA
Statistics
Matches: 138, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
54 43 0.31
55 94 0.68
56 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (55 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGACTTTTTGAAAAATAGAAATTAAAAG
Done.