Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 70 of 203
Found at i:22445117 original size:19 final size:18
Alignment explanation
Indices: 22445077--22445117 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
22445067 AATATTACAC
*
22445077 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
22445095 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
22445114 ATTT
1 ATTT
22445118 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:22445983 original size:30 final size:31
Alignment explanation
Indices: 22445943--22446017 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
22445933 GATTTTGAAA
*
22445943 AGTTGAGTGACTAAAACA-AAAAAAATTAAT
1 AGTTGGGTGACTAAAACAGAAAAAAATTAAT
* * *
22445973 AGTTGGGTGACCAAAACAGAAAGAACTTAAT
1 AGTTGGGTGACTAAAACAGAAAAAAATTAAT
*
22446004 AGTTTGGTGACTAA
1 AGTTGGGTGACTAA
22446018 TTATGTAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
30 16 0.42
31 22 0.58
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (31 bp):
AGTTGGGTGACTAAAACAGAAAAAAATTAAT
Found at i:22446723 original size:15 final size:16
Alignment explanation
Indices: 22446687--22446724 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22446677 CATAATAATA
* *
22446687 AAATTTAATTATAACG
1 AAATTTAATAAGAACG
22446703 AAATTTAATAAGAAC-
1 AAATTTAATAAGAACG
22446718 AAATTTA
1 AAATTTA
22446725 TCATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (16 bp):
AAATTTAATAAGAACG
Found at i:22447645 original size:91 final size:91
Alignment explanation
Indices: 22447547--22447727 Score: 265
Period size: 91 Copynumber: 2.0 Consensus size: 91
22447537 TGAAATTTAA
* * * *
22447547 ATCAGATTAAGAATACTAAATAACTACATAAA-TCTTAAGTTGGTGTCAAGTTAATTTGTGATAC
1 ATCAGATTAAGAAGACTAAATAAATACATAAATTC-TAAATTGGTGTCAAGTTAATTTGTGACAC
*
22447611 CAACTCAATCAATAACATTATTAATAC
65 CAACTCAATCAATAACAATATTAATAC
* * * *
22447638 ATCAGATTAAGAGGACTAAATAAATATATCAATTCTAAATTGGTGTCGAGTTAATTTGTGACACC
1 ATCAGATTAAGAAGACTAAATAAATACATAAATTCTAAATTGGTGTCAAGTTAATTTGTGACACC
22447703 AACTCAATCAATAACAATATTAATA
66 AACTCAATCAATAACAATATTAATA
22447728 TATATACAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 78 0.98
92 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (91 bp):
ATCAGATTAAGAAGACTAAATAAATACATAAATTCTAAATTGGTGTCAAGTTAATTTGTGACACC
AACTCAATCAATAACAATATTAATAC
Found at i:22450076 original size:110 final size:110
Alignment explanation
Indices: 22449939--22450341 Score: 770
Period size: 110 Copynumber: 3.7 Consensus size: 110
22449929 GAAAAACGAA
* *
22449939 AAAAAAAATTTTGGGGTGCTGGTCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAATTT
1 AAAAAAAATTTT-GGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAATTT
22450004 CTTTTTTTTTTCGTGTTAGAATCAAATATAAATATAGGAAAAAGTT
65 CTTTTTTTTTTCGTGTTAGAATCAAATATAAATATAGGAAAAAGTT
22450050 AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAATTTC
1 AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAATTTC
22450115 TTTTTTTTTTCGTGTTAGAATCAAATATAAATATAGGAAAAAGTT
66 TTTTTTTTTTCGTGTTAGAATCAAATATAAATATAGGAAAAAGTT
22450160 AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAATTTC
1 AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAATTTC
22450225 TTTTTTTTTTCGTGTTAGAATCAAATATAAATATAGGAAAAAGTT
66 TTTTTTTTTTCGTGTTAGAATCAAATATAAATATAGGAAAAAGTT
*
22450270 AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTTC
1 AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAATTTC
22450335 TTTTTTT
66 TTTTTTT
22450342 AATTAGATAT
Statistics
Matches: 289, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
110 277 0.96
111 12 0.04
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (110 bp):
AAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAATTTC
TTTTTTTTTTCGTGTTAGAATCAAATATAAATATAGGAAAAAGTT
Found at i:22450499 original size:57 final size:56
Alignment explanation
Indices: 22450425--22450540 Score: 196
Period size: 57 Copynumber: 2.1 Consensus size: 56
22450415 AATTTAAAAT
22450425 TTTTTTTCGTATATTTATATCTGATTCTAACACAAAAAAAAAGAAATTTTTTTTAAA
1 TTTTTTTCGTATATTTATATCTGATTCTAACAC-AAAAAAAAGAAATTTTTTTTAAA
* * *
22450482 TTTTTTTCGTATATTTATATTTGATTCTGACACAAAAAAAAGAATTTTTTTTTAAA
1 TTTTTTTCGTATATTTATATCTGATTCTAACACAAAAAAAAGAAATTTTTTTTAAA
22450538 TTT
1 TTT
22450541 GTACTGGGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 25 0.45
57 31 0.55
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (56 bp):
TTTTTTTCGTATATTTATATCTGATTCTAACACAAAAAAAAGAAATTTTTTTTAAA
Found at i:22450612 original size:16 final size:16
Alignment explanation
Indices: 22450577--22450614 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22450567 CAACACCAAA
*
22450577 TTTTTTTTTTTTTGCG
1 TTTTTTTTTTTTTGCC
22450593 TTTTTCTTTTTTTT-CC
1 TTTTT-TTTTTTTTGCC
22450609 TTTTTT
1 TTTTTT
22450615 CGTATATCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTTTTTGCC
Found at i:22450613 original size:17 final size:17
Alignment explanation
Indices: 22450577--22450615 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
22450567 CAACACCAAA
*
22450577 TTTTT-TTTTTTTTGCG
1 TTTTTCTTTTTTTTCCG
*
22450593 TTTTTCTTTTTTTTCCT
1 TTTTTCTTTTTTTTCCG
22450610 TTTTTC
1 TTTTTC
22450616 GTATATCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (17 bp):
TTTTTCTTTTTTTTCCG
Found at i:22455659 original size:10 final size:10
Alignment explanation
Indices: 22455627--22455680 Score: 57
Period size: 10 Copynumber: 6.0 Consensus size: 10
22455617 ATATTTTCTC
22455627 TTAAAAA-TA
1 TTAAAAATTA
*
22455636 ATAAAAA--A
1 TTAAAAATTA
22455644 TT-AAAATTA
1 TTAAAAATTA
22455653 TTAAAAATTA
1 TTAAAAATTA
22455663 -T-AAAATTA
1 TTAAAAATTA
22455671 TTAAAAATTA
1 TTAAAAATTA
22455681 AAAATATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 4 0.11
8 9 0.24
9 11 0.29
10 14 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:22455729 original size:9 final size:9
Alignment explanation
Indices: 22455628--22455891 Score: 88
Period size: 9 Copynumber: 28.7 Consensus size: 9
22455618 TATTTTCTCT
*
22455628 TAAAAATAA
1 TAAAAATTA
22455637 TAAAAA--A
1 TAAAAATTA
*
22455644 TTAAAATTA
1 TAAAAATTA
22455653 TTAAAAATTA
1 -TAAAAATTA
22455663 T-AAAATTA
1 TAAAAATTA
22455671 TTAAAAATTA
1 -TAAAAATTA
22455681 -AAAATATT-
1 TAAAA-ATTA
*
22455689 TAAAAAATA
1 TAAAAATTA
22455698 -ATAAAATTGA
1 TA-AAAATT-A
*
22455708 TATAAACTTA
1 TA-AAAATTA
22455718 TAAAAATTA
1 TAAAAATTA
*
22455727 T--AAA-GA
1 TAAAAATTA
22455733 -AAAAATTA
1 TAAAAATTA
*
22455741 -AAAACTTA
1 TAAAAATTA
22455749 TAATCAAATTAA
1 TAA--AAATT-A
* *
22455761 CAAAACATATTT
1 -TAAA-A-ATTA
* **
22455773 TGAATTTTA
1 TAAAAATTA
*
22455782 TAAAAA-CA
1 TAAAAATTA
22455790 TATAAAATTA
1 TA-AAAATTA
22455800 TTAAAAACTTA
1 -TAAAAA-TTA
22455811 TAAAAA-TA
1 TAAAAATTA
*
22455819 -AAAAAATA
1 TAAAAATTA
*
22455827 TTAAAATTGA
1 TAAAAATT-A
**
22455837 TATAACCTTA
1 TA-AAAATTA
*
22455847 TAAAAGTTA
1 TAAAAATTA
22455856 TAAAAGATTA
1 TAAAA-ATTA
*
22455866 TTAAATATTA
1 -TAAAAATTA
22455876 TAAAAATTTA
1 TAAAAA-TTA
22455886 TAAAAA
1 TAAAAA
22455892 AAATCTAATA
Statistics
Matches: 191, Mismatches: 32, Indels: 63
0.67 0.11 0.22
Matches are distributed among these distances:
6 1 0.01
7 17 0.09
8 29 0.15
9 59 0.31
10 51 0.27
11 27 0.14
12 2 0.01
13 5 0.03
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:22455816 original size:11 final size:10
Alignment explanation
Indices: 22455793--22455892 Score: 50
Period size: 10 Copynumber: 10.4 Consensus size: 10
22455783 AAAAACATAT
22455793 AAAATTATTAA
1 AAAATTA-TAA
*
22455804 AAACTTAT-A
1 AAAATTATAA
22455813 AAAA-TA-AA
1 AAAATTATAA
*
22455821 AAAA-TAT-T
1 AAAATTATAA
*
22455829 AAAATTGATAT
1 AAAATT-ATAA
**
22455840 AACCTTAT-A
1 AAAATTATAA
*
22455849 AAAGTTATAA
1 AAAATTATAA
* *
22455859 AAGATTATTA
1 AAAATTATAA
*
22455869 AATATTATAA
1 AAAATTATAA
*
22455879 AAATTTATAA
1 AAAATTATAA
22455889 AAAA
1 AAAA
22455893 AATCTAATAA
Statistics
Matches: 67, Mismatches: 16, Indels: 13
0.70 0.17 0.14
Matches are distributed among these distances:
8 13 0.19
9 11 0.16
10 32 0.48
11 11 0.16
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAATTATAA
Found at i:22459342 original size:28 final size:26
Alignment explanation
Indices: 22459285--22459342 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
22459275 GTTAACACTT
* *
22459285 AAAAACTAAAGAATTTAAAGTTCATC
1 AAAAACTAAAGAAATTAAAGTGCATC
* *
22459311 AAAACACTAAATAAATTAATGTGCATGC
1 AAAA-ACTAAAGAAATTAAAGTGCAT-C
22459339 AAAA
1 AAAA
22459343 TGTATGAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 17 0.65
28 5 0.19
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (26 bp):
AAAAACTAAAGAAATTAAAGTGCATC
Found at i:22463506 original size:140 final size:141
Alignment explanation
Indices: 22463254--22463541 Score: 526
Period size: 140 Copynumber: 2.1 Consensus size: 141
22463244 TATGGTTCAT
*
22463254 ATCAAG-GTCATGAAGGTTATGATGAGTGAATTAAATTTGTATGTAATTGTAATGGAATGGCTTG
1 ATCAAGTGTCATGAAGGTTATGATGAGTGAATTAAATTTGTATGTAATTGTAATGGAATAGCTTG
*
22463318 ATTCAATATGATATAGCATAGTTGAAGGTCGACATTTGAATGTTTGAGCTAATTGATATGTCTTG
66 ATTCAATATGATATAGCATAGTTGAACGTCGACATTTGAATGTTTGAGCTAATTGATATGTCTTG
22463383 ATTTGCTTTAA
131 ATTTGCTTTAA
22463394 ATCAAGTG-CATGAAGGTTATGATGAGTGAATTAAATTTGTATGTAATTGTAATGGAATAGCTTG
1 ATCAAGTGTCATGAAGGTTATGATGAGTGAATTAAATTTGTATGTAATTGTAATGGAATAGCTTG
* *
22463458 ATTCAATATGATATGGCATAGTTGAACGTTGACATTTGAATGTTTGAGCTAATTGATATGTCTTG
66 ATTCAATATGATATAGCATAGTTGAACGTCGACATTTGAATGTTTGAGCTAATTGATATGTCTTG
22463523 ATTTGCTTTAA
131 ATTTGCTTTAA
22463534 ATCAAGTG
1 ATCAAGTG
22463542 GATGTAGTAA
Statistics
Matches: 143, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
140 142 0.99
141 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (141 bp):
ATCAAGTGTCATGAAGGTTATGATGAGTGAATTAAATTTGTATGTAATTGTAATGGAATAGCTTG
ATTCAATATGATATAGCATAGTTGAACGTCGACATTTGAATGTTTGAGCTAATTGATATGTCTTG
ATTTGCTTTAA
Found at i:22476152 original size:47 final size:47
Alignment explanation
Indices: 22476079--22476464 Score: 301
Period size: 47 Copynumber: 7.9 Consensus size: 47
22476069 TTGATAAATT
* *
22476079 TGGTGCCAGCCATTGACAGGCCAGCACC-AAATTTTTTTTCGTACTTC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTCGTA-TAC
* * * *
22476126 TGGTGCCGTCTATTGACAGGCTAGCACTCAAAAAAGTTATTTTTTTGTATAC
1 TGGTGCCGGCCATTGACAGGCCAGCAC-C--AAAA-TT-TTTTTTCGTATAC
* *
22476178 TGGTGCAGGCCATTGACAGGCCAGCA-CAAATTTTTTTTTTCGTATAC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAA-ATTTTTTTTCGTATAC
* * * ** * *
22476225 TGGTGTCGGCCATTGACAAGCCAACACCAAAAAAAAAAATTTTTCCGTACTGC
1 TGGTGCCGGCCATTGACAGGCCAGCACC-----AAAATTTTTTTTCGTA-TAC
* * *
22476278 TGGTGCCGGCCATTAACAGGCCAGCACCAAAATTTTTTTTTTCATATTGC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAA--TTTTTTTTCGTA-TAC
* * * * * **
22476328 TTGTACCGACCATTGACAAGCCAGCATCACAAATTTTTTTTCGTATTGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCA-AAATTTTTTTTCGTA-TAC
**
22476377 TGGTGCCGGCCATTGACAATCCAGCACCTAAAATTTTTTTTCGTATAC
1 TGGTGCCGGCCATTGACAGGCCAGCACC-AAAATTTTTTTTCGTATAC
* * *
22476425 TGGTGCCGGCCATTAACAAGG-CAGCACCCAATTTTTTTTT
1 TGGTGCCGGCCATTGAC-AGGCCAGCACCAAAATTTTTTTT
22476465 GTTTTTTTTT
Statistics
Matches: 270, Mismatches: 50, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
47 67 0.25
48 35 0.13
49 53 0.20
50 36 0.13
51 6 0.02
52 35 0.13
53 38 0.14
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (47 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTCGTATAC
Found at i:22476299 original size:100 final size:100
Alignment explanation
Indices: 22476079--22476452 Score: 352
Period size: 99 Copynumber: 3.8 Consensus size: 100
22476069 TTGATAAATT
* * * *
22476079 TGGTGCCAGCCATTGACAGGCCAGCACC-AAA-TTTTTTTTCGTACTTCTGGTGCCGTCTATTGA
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTCGTACTACTGGTGCCGGCCATTGA
* * ** * *
22476142 CAGGCTAGCACTCAAAAAAGTTATTTTTTTGTATAC
66 CAAGCCAGCAC-CAAAAAAAATATTTTTTCGTATGC
* * *
22476178 TGGTGCAGGCCATTGACAGGCCAGCA-CAAATTTTTTTTTTCGTA-TACTGGTGTCGGCCATTGA
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTCGTACTACTGGTGCCGGCCATTGA
* * *
22476241 CAAGCCAACACCAAAAAAAAAAATTTTTCCGTACTGC
66 CAAGCCAGCACC-AAAAAAAATATTTTTTCGTA-TGC
* * * * * * *
22476278 TGGTGCCGGCCATTAACAGGCCAGCACCAAAATTTTTTTTTTCATATTGCTTGTACCGACCATTG
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAA-TTTTTTTTTCGTACTACTGGTGCCGGCCATTG
* * * *
22476343 ACAAGCCAGCATC---ACAAATTTTTTTTCGTATTGG
65 ACAAGCCAGCACCAAAAAAAATATTTTTTCGTA-TGC
** *
22476377 TGGTGCCGGCCATTGACAATCCAGCACCTAAAA-TTTTTTTTCGTA-TACTGGTGCCGGCCATTA
1 TGGTGCCGGCCATTGACAGGCCAGCACC-AAAATTTTTTTTTCGTACTACTGGTGCCGGCCATTG
*
22476440 ACAAGGCAGCACC
65 ACAAGCCAGCACC
22476453 CAATTTTTTT
Statistics
Matches: 223, Mismatches: 44, Indels: 18
0.78 0.15 0.06
Matches are distributed among these distances:
97 24 0.11
98 13 0.06
99 104 0.47
100 42 0.19
101 4 0.02
102 12 0.05
103 24 0.11
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (100 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTCGTACTACTGGTGCCGGCCATTGA
CAAGCCAGCACCAAAAAAAATATTTTTTCGTATGC
Found at i:22476351 original size:50 final size:50
Alignment explanation
Indices: 22476187--22476464 Score: 160
Period size: 49 Copynumber: 5.6 Consensus size: 50
22476177 CTGGTGCAGG
* * * ** *
22476187 CCATTGACAGGCCAGCA-C-AAATTTTTTTTTTCGTA-TACTGGTGTCGG
1 CCATTGACAAGCCAGCACCAAAATTTTTTTTTTCATATTGCTGGTACCGA
* **** * * * * *
22476234 CCATTGACAAGCCAACACCAAAAAAAAAAATTTTTCCGTACTGCTGGTGCCGG
1 CCATTGACAAGCCAGCACC---AAAATTTTTTTTTTCATATTGCTGGTACCGA
* * *
22476287 CCATTAACAGGCCAGCACCAAAATTTTTTTTTTCATATTGCTTGTACCGA
1 CCATTGACAAGCCAGCACCAAAATTTTTTTTTTCATATTGCTGGTACCGA
* * * * *
22476337 CCATTGACAAGCCAGCATCACAAA--TTTTTTTTCGTATTGGTGGTGCCGG
1 CCATTGACAAGCCAGCACCA-AAATTTTTTTTTTCATATTGCTGGTACCGA
* * * * *
22476386 CCATTGACAATCCAGCACCTAAAA--TTTTTTTTCGTA-TACTGGTGCCGG
1 CCATTGACAAGCCAGCACC-AAAATTTTTTTTTTCATATTGCTGGTACCGA
* * *
22476434 CCATTAACAAGGCAGCACC-CAATTTTTTTTT
1 CCATTGACAAGCCAGCACCAAAATTTTTTTTT
22476465 GTTTTTTTTT
Statistics
Matches: 183, Mismatches: 38, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
46 2 0.01
47 15 0.08
48 34 0.19
49 52 0.28
50 39 0.21
51 3 0.02
52 12 0.07
53 26 0.14
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (50 bp):
CCATTGACAAGCCAGCACCAAAATTTTTTTTTTCATATTGCTGGTACCGA
Found at i:22480654 original size:3 final size:3
Alignment explanation
Indices: 22480646--22480670 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22480636 TAATCCCCAT
22480646 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
22480671 CTTACATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22501456 original size:18 final size:18
Alignment explanation
Indices: 22501419--22501456 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22501409 CAAAACTCAC
*
22501419 TTAACAAAAGTTGTTTAT
1 TTAACAAAAGATGTTTAT
22501437 TTAACAAAA-ATGTTTCAT
1 TTAACAAAAGATGTTT-AT
22501455 TT
1 TT
22501457 TCTTCCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (18 bp):
TTAACAAAAGATGTTTAT
Found at i:22503465 original size:79 final size:79
Alignment explanation
Indices: 22503324--22503488 Score: 213
Period size: 79 Copynumber: 2.1 Consensus size: 79
22503314 TACCGTTAAC
* * * * * * * *
22503324 AATAAAAAATCAAATAAATTTTGTTGAACGGTAGGAATAGAATCCTAAAACAGAATTTTTCAATT
1 AATAGAAAATCAAACAAATTCTGTTGAACAGCAAGAATAAAATCCTAAAACAGAATTGTTCAATT
* **
22503389 GATTTCTGTTTGGA
66 GATTTCTATTTACA
* *
22503403 AATAGAAAATCAAACAAATTCTGTTGAATAGCAAGAATAAAATCCTAAAATAGAATTGTTCAATT
1 AATAGAAAATCAAACAAATTCTGTTGAACAGCAAGAATAAAATCCTAAAACAGAATTGTTCAATT
22503468 GATTTCTATTTACA
66 GATTTCTATTTACA
22503482 AATAGAA
1 AATAGAA
22503489 TACAATTTCA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (79 bp):
AATAGAAAATCAAACAAATTCTGTTGAACAGCAAGAATAAAATCCTAAAACAGAATTGTTCAATT
GATTTCTATTTACA
Found at i:22514572 original size:87 final size:87
Alignment explanation
Indices: 22514418--22514678 Score: 234
Period size: 87 Copynumber: 3.0 Consensus size: 87
22514408 CTTTTTTTAG
** * * *
22514418 TCGATGGTCGAAACCATCCATTTTCTTTAATCGATAGCCAAAACTATCCCTTTTCATAATCGTTA
1 TCGATGGTCGTCACCATCCCTTTTC-ATAATCGATAGCCAAAACTATCCCTTTTCATAATCGATA
* *
22514483 GCCGAAGATATCCCTTTTCGTAT
65 GCCAAAGATATCCCTTTTCATAT
** ** * * * *
22514506 TCGATGGTCGTTGCCATCCCTTTTCATAATCGATAGCTGAAGCTATCTCTTTTCATCATTGATAG
1 TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAACTATCCCTTTTCATAATCGATAG
* **
22514571 CCAAAGCTATCGTTTTTCATAT
66 CCAAAGATATCCCTTTTCATAT
* * * * * *** * * *
22514593 TCGATGGTCGTCACCATTCCTTTTCATAGTAGATGGTCGCCACAATCCCTTTTCATGATCTATAG
1 TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAACTATCCCTTTTCATAATCGATAG
* *
22514658 CCGAAGCTATCCCTTTTCATA
66 CCAAAGATATCCCTTTTCATA
22514679 ATTGATAGCC
Statistics
Matches: 137, Mismatches: 36, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
87 116 0.85
88 21 0.15
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.36
Consensus pattern (87 bp):
TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAACTATCCCTTTTCATAATCGATAG
CCAAAGATATCCCTTTTCATAT
Found at i:22514692 original size:29 final size:29
Alignment explanation
Indices: 22514445--22514703 Score: 150
Period size: 29 Copynumber: 8.9 Consensus size: 29
22514435 CCATTTTCTT
* * *
22514445 TAATCGATAGCCAAAACTATCCCTTTTCA
1 TAATTGATAGCCGAAGCTATCCCTTTTCA
* * * *
22514474 TAATCGTTAGCCGAAGATATCCCTTTTCG
1 TAATTGATAGCCGAAGCTATCCCTTTTCA
* * ** *
22514503 T-ATTCGATGGTCGTTGCCATCCCTTTTCA
1 TAATT-GATAGCCGAAGCTATCCCTTTTCA
* * *
22514532 TAATCGATAGCTGAAGCTATCTCTTTTCA
1 TAATTGATAGCCGAAGCTATCCCTTTTCA
* * **
22514561 TCATTGATAGCCAAAGCTATCGTTTTTCA
1 TAATTGATAGCCGAAGCTATCCCTTTTCA
* * * * *
22514590 T-ATTCGATGGTCGTCA-CCATTCCTTTTCA
1 TAATT-GATAGCCG-AAGCTATCCCTTTTCA
* * * * * *
22514619 TAGTAGATGGTCGCCA-CAATCCCTTTTCA
1 TAATTGATAGCCG-AAGCTATCCCTTTTCA
*
22514648 TGATCT-ATAGCCGAAGCTATCCCTTTTCA
1 TAAT-TGATAGCCGAAGCTATCCCTTTTCA
*
22514677 TAATTGATAGCCGAAGCTATCCTTTTT
1 TAATTGATAGCCGAAGCTATCCCTTTT
22514704 TTTTGGTCGA
Statistics
Matches: 172, Mismatches: 50, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
28 7 0.04
29 161 0.94
30 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (29 bp):
TAATTGATAGCCGAAGCTATCCCTTTTCA
Found at i:22527680 original size:22 final size:20
Alignment explanation
Indices: 22527649--22527709 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 20
22527639 TTGGGTTCGG
22527649 AGTTC-AGGTTGAGGGTTTA
1 AGTTCAAGGTTGAGGGTTTA
* *
22527668 AGGATTCAAGGTTGAAGGTTTG
1 A-G-TTCAAGGTTGAGGGTTTA
22527690 AGTTCAAGGTTGAAGGGTTT
1 AGTTCAAGGTTG-AGGGTTT
22527710 GGGGTTTGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 10 0.29
22 13 0.37
ACGTcount: A:0.25, C:0.05, G:0.36, T:0.34
Consensus pattern (20 bp):
AGTTCAAGGTTGAGGGTTTA
Found at i:22527697 original size:20 final size:20
Alignment explanation
Indices: 22527648--22527710 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
22527638 TTTGGGTTCG
*
22527648 GAGTTC-AGGTTGAGGGTTT
1 GAGTTCAAGGTTGAAGGTTT
*
22527667 AAGGATTCAAGGTTGAAGGTTT
1 GA-G-TTCAAGGTTGAAGGTTT
22527689 GAGTTCAAGGTTGAAGGGTTT
1 GAGTTCAAGGTTGAA-GGTTT
22527710 G
1 G
22527711 GGGTTTGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.03
20 13 0.35
21 10 0.27
22 13 0.35
ACGTcount: A:0.24, C:0.05, G:0.38, T:0.33
Consensus pattern (20 bp):
GAGTTCAAGGTTGAAGGTTT
Found at i:22527738 original size:28 final size:28
Alignment explanation
Indices: 22527684--22527740 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
22527674 CAAGGTTGAA
* *
22527684 GGTTTGAGTTCAAGGTTGAAGGGTTTGG
1 GGTTTGAGTTCAAGGTTGAAAGATTTGG
* * *
22527712 GGTTTGGGTTCAAGGTTTAAATATTTGG
1 GGTTTGAGTTCAAGGTTGAAAGATTTGG
22527740 G
1 G
22527741 ATTACGGGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.19, C:0.04, G:0.39, T:0.39
Consensus pattern (28 bp):
GGTTTGAGTTCAAGGTTGAAAGATTTGG
Found at i:22537032 original size:5 final size:5
Alignment explanation
Indices: 22537022--22537051 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
22537012 GTTTAGTTAT
22537022 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
22537052 CTTTGGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:22539855 original size:7 final size:7
Alignment explanation
Indices: 22539843--22540678 Score: 1672
Period size: 7 Copynumber: 119.4 Consensus size: 7
22539833 AGTCGATTCT
22539843 TATTTAG
1 TATTTAG
22539850 TATTTAG
1 TATTTAG
22539857 TATTTAG
1 TATTTAG
22539864 TATTTAG
1 TATTTAG
22539871 TATTTAG
1 TATTTAG
22539878 TATTTAG
1 TATTTAG
22539885 TATTTAG
1 TATTTAG
22539892 TATTTAG
1 TATTTAG
22539899 TATTTAG
1 TATTTAG
22539906 TATTTAG
1 TATTTAG
22539913 TATTTAG
1 TATTTAG
22539920 TATTTAG
1 TATTTAG
22539927 TATTTAG
1 TATTTAG
22539934 TATTTAG
1 TATTTAG
22539941 TATTTAG
1 TATTTAG
22539948 TATTTAG
1 TATTTAG
22539955 TATTTAG
1 TATTTAG
22539962 TATTTAG
1 TATTTAG
22539969 TATTTAG
1 TATTTAG
22539976 TATTTAG
1 TATTTAG
22539983 TATTTAG
1 TATTTAG
22539990 TATTTAG
1 TATTTAG
22539997 TATTTAG
1 TATTTAG
22540004 TATTTAG
1 TATTTAG
22540011 TATTTAG
1 TATTTAG
22540018 TATTTAG
1 TATTTAG
22540025 TATTTAG
1 TATTTAG
22540032 TATTTAG
1 TATTTAG
22540039 TATTTAG
1 TATTTAG
22540046 TATTTAG
1 TATTTAG
22540053 TATTTAG
1 TATTTAG
22540060 TATTTAG
1 TATTTAG
22540067 TATTTAG
1 TATTTAG
22540074 TATTTAG
1 TATTTAG
22540081 TATTTAG
1 TATTTAG
22540088 TATTTAG
1 TATTTAG
22540095 TATTTAG
1 TATTTAG
22540102 TATTTAG
1 TATTTAG
22540109 TATTTAG
1 TATTTAG
22540116 TATTTAG
1 TATTTAG
22540123 TATTTAG
1 TATTTAG
22540130 TATTTAG
1 TATTTAG
22540137 TATTTAG
1 TATTTAG
22540144 TATTTAG
1 TATTTAG
22540151 TATTTAG
1 TATTTAG
22540158 TATTTAG
1 TATTTAG
22540165 TATTTAG
1 TATTTAG
22540172 TATTTAG
1 TATTTAG
22540179 TATTTAG
1 TATTTAG
22540186 TATTTAG
1 TATTTAG
22540193 TATTTAG
1 TATTTAG
22540200 TATTTAG
1 TATTTAG
22540207 TATTTAG
1 TATTTAG
22540214 TATTTAG
1 TATTTAG
22540221 TATTTAG
1 TATTTAG
22540228 TATTTAG
1 TATTTAG
22540235 TATTTAG
1 TATTTAG
22540242 TATTTAG
1 TATTTAG
22540249 TATTTAG
1 TATTTAG
22540256 TATTTAG
1 TATTTAG
22540263 TATTTAG
1 TATTTAG
22540270 TATTTAG
1 TATTTAG
22540277 TATTTAG
1 TATTTAG
22540284 TATTTAG
1 TATTTAG
22540291 TATTTAG
1 TATTTAG
22540298 TATTTAG
1 TATTTAG
22540305 TATTTAG
1 TATTTAG
22540312 TATTTAG
1 TATTTAG
22540319 TATTTAG
1 TATTTAG
22540326 TATTTAG
1 TATTTAG
22540333 TATTTAG
1 TATTTAG
22540340 TATTTAG
1 TATTTAG
22540347 TATTTAG
1 TATTTAG
22540354 TATTTAG
1 TATTTAG
22540361 TATTTAG
1 TATTTAG
22540368 TATTTAG
1 TATTTAG
22540375 TATTTAG
1 TATTTAG
22540382 TATTTAG
1 TATTTAG
22540389 TATTTAG
1 TATTTAG
22540396 TATTTAG
1 TATTTAG
22540403 TATTTAG
1 TATTTAG
22540410 TATTTAG
1 TATTTAG
22540417 TATTTAG
1 TATTTAG
22540424 TATTTAG
1 TATTTAG
22540431 TATTTAG
1 TATTTAG
22540438 TATTTAG
1 TATTTAG
22540445 TATTTAG
1 TATTTAG
22540452 TATTTAG
1 TATTTAG
22540459 TATTTAG
1 TATTTAG
22540466 TATTTAG
1 TATTTAG
22540473 TATTTAG
1 TATTTAG
22540480 TATTTAG
1 TATTTAG
22540487 TATTTAG
1 TATTTAG
22540494 TATTTAG
1 TATTTAG
22540501 TATTTAG
1 TATTTAG
22540508 TATTTAG
1 TATTTAG
22540515 TATTTAG
1 TATTTAG
22540522 TATTTAG
1 TATTTAG
22540529 TATTTAG
1 TATTTAG
22540536 TATTTAG
1 TATTTAG
22540543 TATTTAG
1 TATTTAG
22540550 TATTTAG
1 TATTTAG
22540557 TATTTAG
1 TATTTAG
22540564 TATTTAG
1 TATTTAG
22540571 TATTTAG
1 TATTTAG
22540578 TATTTAG
1 TATTTAG
22540585 TATTTAG
1 TATTTAG
22540592 TATTTAG
1 TATTTAG
22540599 TATTTAG
1 TATTTAG
22540606 TATTTAG
1 TATTTAG
22540613 TATTTAG
1 TATTTAG
22540620 TATTTAG
1 TATTTAG
22540627 TATTTAG
1 TATTTAG
22540634 TATTTAG
1 TATTTAG
22540641 TATTTAG
1 TATTTAG
22540648 TATTTAG
1 TATTTAG
22540655 TATTTAG
1 TATTTAG
22540662 TATTTAG
1 TATTTAG
22540669 TATTTAG
1 TATTTAG
22540676 TAT
1 TAT
22540679 ATAACTATAT
Statistics
Matches: 829, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 829 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
TATTTAG
Found at i:22543520 original size:126 final size:126
Alignment explanation
Indices: 22543290--22543560 Score: 418
Period size: 126 Copynumber: 2.2 Consensus size: 126
22543280 TCAGCCAAAT
* * *
22543290 AAGAACTACTGTAGCAAAATAACGTCTACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGTA
1 AAGAACTACTGTAGCAAAAGAACGTCTACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCA
* * *
22543355 TCCTGTTTAAAGCGTTTTTTACACTATTTACTCAGAAACGTCTTCTCGAAATTATTTTTTC
66 TCCTGCTTAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTTCTCGAAATTATTTTTTC
* * * *
22543416 AAGAACCACTGTAGCAAAAGAGCGTCTATGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
1 AAGAACTACTGTAGCAAAAGAACGTCTACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCA
*
22543481 TCCTGCTTAAAGCGTTTTTGCCACTATTTACTCAAAAACGTCTTCTCGAAATTATTTTTTC
66 TCCTGCTTAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTTCTCGAAATTATTTTTTC
*
22543542 -AGTAACTACTGTAGTAAAA
1 AAG-AACTACTGTAGCAAAA
22543561 AAACATCCAT
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 2 0.02
126 129 0.98
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (126 bp):
AAGAACTACTGTAGCAAAAGAACGTCTACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCA
TCCTGCTTAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTTCTCGAAATTATTTTTTC
Found at i:22543713 original size:103 final size:100
Alignment explanation
Indices: 22543578--22543913 Score: 300
Period size: 96 Copynumber: 3.4 Consensus size: 100
22543568 CATGTAGAAG
* * * * * *
22543578 TTTTTT-AAAATTAACAAATAATTTAATTAAGTAACCCTAAATCCCAAACCCTAATTTATTTGAG
1 TTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAAT---AAACCCTAATTTATTT-AA
* *
22543642 TTTTTCCTT-AAAACCCTAAACATTAAACCCTAAT-TTA
62 TTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTGA
22543679 TTTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCC----TAAACCCTAATTTATTTAATTT
1 -TTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAATAAACCCTAATTTATTTAATTT
* * *
22543740 TTTCTTAAAAACCCTTAACACTAAACTCTAATCTGA
65 TTCCTTAAAAACCCTAAACACTAAACCCTAATCTGA
* * * * *
22543776 TTTCTTAAAAATTTATAATTAATTTACTCAAATAACCC----TAAACCTTAATTTAATTGACTTT
1 TTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAATAAACCCTAATTT-ATTTAATTT
** *
22543837 TTCCTTAAAAACTATAAACACGAAACCCTAATCT-A
65 TTCCTTAAAAACCCTAAACACTAAACCCTAATCTGA
* * * * * * *
22543872 ATTTTGAAAATTTTATAATCAATTTAATTAAGAAACCCTAAA
1 TTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAA
22543914 CCCTAATCCT
Statistics
Matches: 195, Mismatches: 31, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
95 9 0.05
96 116 0.59
97 37 0.19
99 1 0.01
102 6 0.03
103 26 0.13
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (100 bp):
TTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAATAAACCCTAATTTATTTAATTTT
TCCTTAAAAACCCTAAACACTAAACCCTAATCTGA
Found at i:22543771 original size:96 final size:95
Alignment explanation
Indices: 22543623--22543920 Score: 355
Period size: 96 Copynumber: 3.1 Consensus size: 95
22543613 CCTAAATCCC
* *
22543623 AAACCCTAATTTATTTGAGTTTTTCCTT-AAAACCCTAAACATTAAACCCTAATTTATTTTTTTA
1 AAACCCTAATTTATTT-AATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATTTA-TTTTTTA
22543687 AAAATTTATAATTAATTTACTCAAGTAACCCT
64 AAAATTTATAATTAATTTACTCAAGTAACCCT
* * * * *
22543719 AAACCCTAATTTATTTAATTTTTTCTTAAAAACCCTTAACACTAAACTCTAATCTGATTTCTTAA
1 AAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCCTAAT-TTATTTTTTAA
*
22543784 AAATTTATAATTAATTTACTCAAATAACCCT
65 AAATTTATAATTAATTTACTCAAGTAACCCT
* * * ** * * * *
22543815 AAACCTTAATTTAATTGACTTTTTCCTTAAAAACTATAAACACGAAACCCTAATCTAATTTTGAA
1 AAACCCTAATTT-ATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATTTATTTTTTAA
* * * * *
22543880 AATTTTATAATCAATTTAATTAAGAAACCCT
65 AAATTTATAATTAATTTACTCAAGTAACCCT
22543911 AAACCCTAAT
1 AAACCCTAAT
22543921 CCTTTGTTTA
Statistics
Matches: 170, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
95 9 0.05
96 126 0.74
97 35 0.21
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.39
Consensus pattern (95 bp):
AAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATTTATTTTTTAAA
AATTTATAATTAATTTACTCAAGTAACCCT
Found at i:22545717 original size:14 final size:14
Alignment explanation
Indices: 22545698--22545728 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22545688 GAAAATCACC
22545698 TAAATATAATACAA
1 TAAATATAATACAA
*
22545712 TAAATATAGTACAA
1 TAAATATAATACAA
22545726 TAA
1 TAA
22545729 TACCATTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (14 bp):
TAAATATAATACAA
Found at i:22548548 original size:16 final size:15
Alignment explanation
Indices: 22548520--22548558 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
22548510 ATTTTTGTTC
22548520 TTTTTTT-TTCCTTT
1 TTTTTTTCTTCCTTT
22548534 TTTTTTTCTTCCCTTT
1 TTTTTTTCTT-CCTTT
*
22548550 TATTTTTCT
1 TTTTTTTCT
22548559 CTCTTCTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.32
15 2 0.09
16 13 0.59
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTTCTTCCTTT
Found at i:22564801 original size:26 final size:26
Alignment explanation
Indices: 22564770--22564826 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
22564760 TCCGTTATAT
*
22564770 GGCTCTTC-GTAAGTTTCCCAATTAAA
1 GGCTCTTCTGTAAGCTTCCC-ATTAAA
* *
22564796 GGCTC-TCTGTGAGCTTCCCATTAAT
1 GGCTCTTCTGTAAGCTTCCCATTAAA
22564821 GGCTCT
1 GGCTCT
22564827 CCGGAGCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (26 bp):
GGCTCTTCTGTAAGCTTCCCATTAAA
Found at i:22564824 original size:25 final size:25
Alignment explanation
Indices: 22564784--22564837 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
22564774 CTTCGTAAGT
*
22564784 TTCCCAATTAAAGGCTCTCTGTGAGC
1 TTCCCAATTAAAGGCTCTCCG-GAGC
*
22564810 TTCCC-ATTAATGGCTCTCCGGAGC
1 TTCCCAATTAAAGGCTCTCCGGAGC
22564834 TTCC
1 TTCC
22564838 TAATATGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 8 0.31
25 13 0.50
26 5 0.19
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (25 bp):
TTCCCAATTAAAGGCTCTCCGGAGC
Found at i:22564845 original size:23 final size:23
Alignment explanation
Indices: 22564796--22564884 Score: 61
Period size: 25 Copynumber: 3.7 Consensus size: 23
22564786 CCCAATTAAA
* *
22564796 GGCTCTCTGTGAGCTTCCCATTAAT
1 GGCTCTCCG-GAGCTTCCCAAT-AT
*
22564821 GGCTCTCCGGAGCTTCCTAATAT
1 GGCTCTCCGGAGCTTCCCAATAT
* ** * *
22564844 GGCTCGCTTGAACTTCTCGATATAT
1 GGCTCTCCGGAGCTTC-CCA-ATAT
*
22564869 GGCTATCCGGAGCTTC
1 GGCTCTCCGGAGCTTC
22564885 TCGATTAAAG
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
23 14 0.29
24 12 0.24
25 23 0.47
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (23 bp):
GGCTCTCCGGAGCTTCCCAATAT
Found at i:22564897 original size:25 final size:25
Alignment explanation
Indices: 22564856--22564907 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
22564846 CTCGCTTGAA
*
22564856 CTTCTCGATATATGGCTATCCGGAG
1 CTTCTCGATATAAGGCTATCCGGAG
* *
22564881 CTTCTCGAT-TAAAGGCTCTTCGGAG
1 CTTCTCGATAT-AAGGCTATCCGGAG
22564906 CT
1 CT
22564908 ACCCGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (25 bp):
CTTCTCGATATAAGGCTATCCGGAG
Found at i:22566560 original size:43 final size:40
Alignment explanation
Indices: 22566512--22566720 Score: 105
Period size: 43 Copynumber: 5.2 Consensus size: 40
22566502 TATATTGTTT
22566512 CTTATGTTATTATACATGGCTGTTGGTATACATGGCTAACCAG
1 CTTATGTT-TTATACATGGCTGTTGGTATACATGG-TAA-CAG
* * * * * * *
22566555 CTTATGTTTTGTAATATTGTTGCTGGTAT--ATTGT---TG
1 CTTATGTTTTAT-ACATGGCTGTTGGTATACATGGTAACAG
* *
22566591 CTTATGTTGTTATACATGGCTGTTGGTATACATGGAGAACCCG
1 CTTATGTT-TTATACATGGCTGTTGGTATACATGG-TAA-CAG
* * * * * *
22566634 CTTATGTTTTGTAATATTGTTGTTGGTAT--ATTGT---TG
1 CTTATGTTTTAT-ACATGGCTGTTGGTATACATGGTAACAG
*
22566670 CTTATGTTGTTATACATGGCTGCTGGTATACATGGCTAACTAG
1 CTTATGTT-TTATACATGGCTGTTGGTATACATGG-TAAC-AG
22566713 CTTATGTT
1 CTTATGTT
22566721 GTTGCTTACA
Statistics
Matches: 119, Mismatches: 29, Indels: 36
0.65 0.16 0.20
Matches are distributed among these distances:
36 42 0.35
37 6 0.05
38 6 0.05
39 1 0.01
40 1 0.01
41 6 0.05
42 6 0.05
43 51 0.43
ACGTcount: A:0.21, C:0.12, G:0.22, T:0.44
Consensus pattern (40 bp):
CTTATGTTTTATACATGGCTGTTGGTATACATGGTAACAG
Found at i:22566566 original size:79 final size:79
Alignment explanation
Indices: 22566474--22566720 Score: 422
Period size: 79 Copynumber: 3.1 Consensus size: 79
22566464 ACTGAAAACT
* *
22566474 AGCTTATGTTTTGTAATATTGTTGCTGGTATATTGTTTCTTATGTTATTATACATGGCTGTTGGT
1 AGCTTATGTTTTGTAATATTGTTGCTGGTATATTGTTGCTTATGTTGTTATACATGGCTGTTGGT
22566539 ATACATGGCTAACC
66 ATACATGGCTAACC
22566553 AGCTTATGTTTTGTAATATTGTTGCTGGTATATTGTTGCTTATGTTGTTATACATGGCTGTTGGT
1 AGCTTATGTTTTGTAATATTGTTGCTGGTATATTGTTGCTTATGTTGTTATACATGGCTGTTGGT
**
22566618 ATACATGGAGAACC
66 ATACATGGCTAACC
* * *
22566632 CGCTTATGTTTTGTAATATTGTTGTTGGTATATTGTTGCTTATGTTGTTATACATGGCTGCTGGT
1 AGCTTATGTTTTGTAATATTGTTGCTGGTATATTGTTGCTTATGTTGTTATACATGGCTGTTGGT
*
22566697 ATACATGGCTAACT
66 ATACATGGCTAACC
22566711 AGCTTATGTT
1 AGCTTATGTT
22566721 GTTGCTTACA
Statistics
Matches: 157, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 157 1.00
ACGTcount: A:0.21, C:0.11, G:0.22, T:0.46
Consensus pattern (79 bp):
AGCTTATGTTTTGTAATATTGTTGCTGGTATATTGTTGCTTATGTTGTTATACATGGCTGTTGGT
ATACATGGCTAACC
Found at i:22566618 original size:36 final size:36
Alignment explanation
Indices: 22566578--22566699 Score: 93
Period size: 36 Copynumber: 3.2 Consensus size: 36
22566568 ATATTGTTGC
22566578 TGGTATATTGTTGCTTATGTTGTTATACATGGCTGT
1 TGGTATATTGTTGCTTATGTTGTTATACATGGCTGT
* ** * * * *
22566614 TGGTATACATGGAGAACCCGCTTATGTT-TTGTAATATTGTTGT
1 TGGTAT--AT--TG---TTGCTTATGTTGTTAT-ACATGGCTGT
*
22566657 TGGTATATTGTTGCTTATGTTGTTATACATGGCTGC
1 TGGTATATTGTTGCTTATGTTGTTATACATGGCTGT
22566693 TGGTATA
1 TGGTATA
22566700 CATGGCTAAC
Statistics
Matches: 62, Mismatches: 15, Indels: 18
0.65 0.16 0.19
Matches are distributed among these distances:
36 28 0.45
37 3 0.05
38 2 0.03
39 1 0.02
40 1 0.02
41 2 0.03
42 3 0.05
43 22 0.35
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.46
Consensus pattern (36 bp):
TGGTATATTGTTGCTTATGTTGTTATACATGGCTGT
Found at i:22566620 original size:16 final size:16
Alignment explanation
Indices: 22566595--22566625 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22566585 TTGTTGCTTA
*
22566595 TGTTGTTATACATGGC
1 TGTTGGTATACATGGC
22566611 TGTTGGTATACATGG
1 TGTTGGTATACATGG
22566626 AGAACCCGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (16 bp):
TGTTGGTATACATGGC
Found at i:22567480 original size:21 final size:21
Alignment explanation
Indices: 22567455--22567530 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
22567445 CAGTTTGTAA
*
22567455 CTGAGTTGGGGCAGC-CTCTTG
1 CTGAGTTGGGGTA-CTCTCTTG
*
22567476 TTGAGTTGGGGTACTCTCTTG
1 CTGAGTTGGGGTACTCTCTTG
*
22567497 CTGAGTTGGGGTACTCTCTTA
1 CTGAGTTGGGGTACTCTCTTG
*
22567518 CTGATTTGGGGTA
1 CTGAGTTGGGGTA
22567531 GCCTGTTGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 1 0.02
21 48 0.98
ACGTcount: A:0.12, C:0.17, G:0.34, T:0.37
Consensus pattern (21 bp):
CTGAGTTGGGGTACTCTCTTG
Found at i:22568327 original size:77 final size:77
Alignment explanation
Indices: 22568238--22568406 Score: 239
Period size: 77 Copynumber: 2.2 Consensus size: 77
22568228 ACGTTACTGT
* * *
22568238 ATGCATATTAAAAAATAGTCAACAACATATAACTATCCCCACCAACAATCATACACAGACAAATT
1 ATGCATATTAAAAAATAGTCAACAACATACAACCAACCCCACCAACAATCATACACAGACAAATT
*
22568303 AAAAAACACTAC
66 AAAAAAAACTAC
* * * * * *
22568315 ATGTATATTAAAAAATAGTCAATAGCATGCGACCAACCCCACCAACAATCATACACAGATAAATT
1 ATGCATATTAAAAAATAGTCAACAACATACAACCAACCCCACCAACAATCATACACAGACAAATT
*
22568380 AAAAAAAACTGC
66 AAAAAAAACTAC
22568392 ATGCATATTAAAAAA
1 ATGCATATTAAAAAA
22568407 CACTCACTAA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.51, C:0.22, G:0.07, T:0.20
Consensus pattern (77 bp):
ATGCATATTAAAAAATAGTCAACAACATACAACCAACCCCACCAACAATCATACACAGACAAATT
AAAAAAAACTAC
Found at i:22570603 original size:6 final size:6
Alignment explanation
Indices: 22570587--22570621 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
22570577 AAATAACCCT
*
22570587 AAATCCA AAATCA AAATCA AAATTA AAATCA AAAT
1 AAAT-CA AAATCA AAATCA AAATCA AAATCA AAAT
22570622 AACCCAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATCA
Found at i:22570645 original size:16 final size:17
Alignment explanation
Indices: 22570625--22570663 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
22570615 TCAAAATAAC
22570625 CCAAAATAACCCTAAAT
1 CCAAAATAACCCTAAAT
*
22570642 -CAAAATGACCCTAAAT
1 CCAAAATAACCCTAAAT
22570658 CCAAAA
1 CCAAAA
22570664 AATAAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.54, C:0.28, G:0.03, T:0.15
Consensus pattern (17 bp):
CCAAAATAACCCTAAAT
Found at i:22577584 original size:22 final size:23
Alignment explanation
Indices: 22577545--22577597 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
22577535 TTGACAAGCC
* *
22577545 ACCACATAATTACCGATAAAC-G
1 ACCACATAATCACAGATAAACTG
*
22577567 ACCACATAATCGCAGATAAACTG
1 ACCACATAATCACAGATAAACTG
22577590 -CCACATAA
1 ACCACATAA
22577598 CTTCCACCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.45, C:0.28, G:0.09, T:0.17
Consensus pattern (23 bp):
ACCACATAATCACAGATAAACTG
Found at i:22580742 original size:25 final size:25
Alignment explanation
Indices: 22580714--22580844 Score: 163
Period size: 25 Copynumber: 5.2 Consensus size: 25
22580704 CCATAATGAA
*
22580714 TTTCCAGATAATTCGCCACAAAGGC
1 TTTCCAAATAATTCGCCACAAAGGC
* *
22580739 TTTCCAAATAATACGCCACAAGGGC
1 TTTCCAAATAATTCGCCACAAAGGC
22580764 TTTCCAAATAATTCGCCACAAAGGC
1 TTTCCAAATAATTCGCCACAAAGGC
* * *
22580789 TTTCCAAATGATACGCCACAAAAGC
1 TTTCCAAATAATTCGCCACAAAGGC
** * * *
22580814 TTTTTAGAGAATTCACCACAAAGGC
1 TTTCCAAATAATTCGCCACAAAGGC
22580839 TTTCCA
1 TTTCCA
22580845 GAGAATTCTC
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 88 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (25 bp):
TTTCCAAATAATTCGCCACAAAGGC
Found at i:22580769 original size:50 final size:50
Alignment explanation
Indices: 22580714--22580844 Score: 190
Period size: 50 Copynumber: 2.6 Consensus size: 50
22580704 CCATAATGAA
**
22580714 TTTCCAGATAATTCGCCACAAAGGCTTTCCAAATAATACGCCACAAGGGC
1 TTTCCAGATAATTCGCCACAAAGGCTTTCCAAATAATACGCCACAAAAGC
* *
22580764 TTTCCAAATAATTCGCCACAAAGGCTTTCCAAATGATACGCCACAAAAGC
1 TTTCCAGATAATTCGCCACAAAGGCTTTCCAAATAATACGCCACAAAAGC
** * *
22580814 TTTTTAGAGAATTCACCACAAAGGCTTTCCA
1 TTTCCAGATAATTCGCCACAAAGGCTTTCCA
22580845 GAGAATTCTC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (50 bp):
TTTCCAGATAATTCGCCACAAAGGCTTTCCAAATAATACGCCACAAAAGC
Found at i:22589651 original size:17 final size:17
Alignment explanation
Indices: 22589629--22589661 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22589619 TTTAAATTAG
22589629 TGAATTTTGTGATTTAT
1 TGAATTTTGTGATTTAT
22589646 TGAATTTTGTGATTTA
1 TGAATTTTGTGATTTA
22589662 AAAAGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (17 bp):
TGAATTTTGTGATTTAT
Found at i:22590955 original size:46 final size:46
Alignment explanation
Indices: 22590888--22591026 Score: 217
Period size: 46 Copynumber: 3.0 Consensus size: 46
22590878 CATGGAAAAG
*
22590888 TGTGAAACA-TAGGTATGGTATTTCAATGAAGAAAACCATACTGAGT
1 TGTGAAA-AGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
** *
22590934 TGTGAAAAGTAGGTATGGTATTTTGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
*
22590980 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
22591026 T
1 T
22591027 ATAGCCTTGT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 84 0.99
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:22595017 original size:24 final size:23
Alignment explanation
Indices: 22594990--22595052 Score: 54
Period size: 25 Copynumber: 2.6 Consensus size: 23
22594980 CAGCTCGAAA
*
22594990 GAGCGTTCCGTTATTAGCTCTCAT
1 GAGC-TTCCGTTATTAGCTCTCAC
* * *
22595014 GAGCATTCTGATATTTGGCTCTCAC
1 GAGC-TTCCGTTA-TTAGCTCTCAC
22595039 GAGCTTCCCGTTAT
1 GAGCTT-CCGTTAT
22595053 ATGGTTCTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (23 bp):
GAGCTTCCGTTATTAGCTCTCAC
Found at i:22626064 original size:28 final size:28
Alignment explanation
Indices: 22626032--22626101 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
22626022 TATTTCTCAC
* *
22626032 GTCTTGATAGACTTACCCCGTGTTTACT
1 GTCTTGATAGACTTAACCCGTATTTACT
*
22626060 GTCTTG-GAGAACTTAACCCGTATTTACT
1 GTCTTGATAG-ACTTAACCCGTATTTACT
* *
22626088 GTCTCGATAAACTT
1 GTCTTGATAGACTT
22626102 TATCTGTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 2 0.06
28 31 0.91
29 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (28 bp):
GTCTTGATAGACTTAACCCGTATTTACT
Found at i:22628729 original size:18 final size:18
Alignment explanation
Indices: 22628699--22628740 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22628689 ACTACTTAAT
22628699 TTAATT-TTCAATT-CAAA
1 TTAATTATTCAATTAC-AA
*
22628716 TTAATTATTTAATTACAA
1 TTAATTATTCAATTACAA
22628734 TTAATTA
1 TTAATTA
22628741 AATAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 15 0.68
19 1 0.05
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAATTATTCAATTACAA
Found at i:22634839 original size:12 final size:12
Alignment explanation
Indices: 22634822--22634864 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
22634812 TATTACACAT
22634822 TTAATTTTTTAA
1 TTAATTTTTTAA
22634834 TTAA-TTTTTAA
1 TTAATTTTTTAA
*
22634845 ATAATATTTTTAA
1 TTAAT-TTTTTAA
22634858 TT-ATTTT
1 TTAATTTT
22634865 GATTAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 13 0.48
12 6 0.22
13 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTAATTTTTTAA
Found at i:22634870 original size:13 final size:13
Alignment explanation
Indices: 22634822--22634893 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 13
22634812 TATTACACAT
22634822 TTAATT-TTTTAA
1 TTAATTATTTTAA
22634834 TTAA-T-TTTTAA
1 TTAATTATTTTAA
*
22634845 ATAA-TA-TTT--
1 TTAATTATTTTAA
*
22634854 TTAATTATTTTGA
1 TTAATTATTTTAA
22634867 TTAA-TATTTTAA
1 TTAATTATTTTAA
* *
22634879 TTCATTATTTGAA
1 TTAATTATTTTAA
22634892 TT
1 TT
22634894 GTTAAATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
9 3 0.06
10 2 0.04
11 17 0.35
12 14 0.29
13 13 0.27
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (13 bp):
TTAATTATTTTAA
Found at i:22636261 original size:13 final size:13
Alignment explanation
Indices: 22636243--22636270 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22636233 TATGTTGTCA
22636243 ATGTTATTTTTCT
1 ATGTTATTTTTCT
22636256 ATGTTATTTTTCT
1 ATGTTATTTTTCT
22636269 AT
1 AT
22636271 ATACAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.68
Consensus pattern (13 bp):
ATGTTATTTTTCT
Found at i:22637222 original size:43 final size:43
Alignment explanation
Indices: 22637171--22637840 Score: 643
Period size: 43 Copynumber: 15.6 Consensus size: 43
22637161 ATAGGTTATA
* * * *** *
22637171 CTTCGGTATATCTAACGATGTACTACATGTGCCTGTATATTTG
1 CTTCGGTATATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* *
22637214 CTTCGGTATATCCGATGATGCATTGTGTGTGCCAGTATATTTG
1 CTTCGGTATATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* *
22637257 CTTCGGTATATCTGATTAAGCACTGTGTGTGCCAGTATATTTG
1 CTTCGGTATATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* *
22637300 CTTTGGTATATCTGATGATGCAC--TGTGTGCTAGTATATTTG
1 CTTCGGTATATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* * *
22637341 CTTCGGTATATCCGATGATGCACCGTGTGTGCCAGTATATTTT
1 CTTCGGTATATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* * * * *
22637384 CTTTGATTTATCCGATGATGCACTGTATGTGCCAGTATATTTG
1 CTTCGGTATATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* * *
22637427 CTTCGATATAT-TCGATGATGCATTGTGTGTGCCAGTATATTTT
1 CTTCGGTATATCT-GATGATGCACTGTGTGTGCCAGTATATTTG
* * * * * *
22637470 CTTTGATTTATAC-AATGATGCACTGTGTGTGCCAGTATAGTAG
1 CTTCGGTATAT-CTGATGATGCACTGTGTGTGCCAGTATATTTG
* *
22637513 CTTCGGTTTCAT-TCGATGATGCACTGTGTGTGCCAGTATATTTT
1 CTTCGGTAT-ATCT-GATGATGCACTGTGTGTGCCAGTATATTTG
** * ** * *
22637557 CTTCGGT-TGATCCAATGATGCACTATGTGTGCCAAAATAGTAG
1 CTTCGGTAT-ATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* * * *
22637600 TTTCAGTTTCATCTGATGATGCACTGTGTGTGCTAGTATATTTG
1 CTTCGGTAT-ATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* * *
22637644 CTTCGATATATTTGATGATGCACTGTGTGTGCCAGTATATTTT
1 CTTCGGTATATCTGATGATGCACTGTGTGTGCCAGTATATTTG
** * ** * *
22637687 CTTCGGT-TGATCCAATGATGCACTATGTGTGCCAAAATAGTAG
1 CTTCGGTAT-ATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* * * *
22637730 TTTCAGTTTCATCTGATGATGCACTGTGTGTGCTAGTATATTTG
1 CTTCGGTAT-ATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* * *
22637774 CTTCGATATATTTGATGATGCACTGTGTGTGCCAGTATATTTT
1 CTTCGGTATATCTGATGATGCACTGTGTGTGCCAGTATATTTG
* * **
22637817 CTTCGATTTATCCAATGATGCACT
1 CTTCGGTATATCTGATGATGCACT
22637841 TACGTACCGG
Statistics
Matches: 510, Mismatches: 105, Indels: 24
0.80 0.16 0.04
Matches are distributed among these distances:
41 38 0.07
42 1 0.00
43 372 0.73
44 99 0.19
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.40
Consensus pattern (43 bp):
CTTCGGTATATCTGATGATGCACTGTGTGTGCCAGTATATTTG
Found at i:22637573 original size:87 final size:85
Alignment explanation
Indices: 22637198--22637840 Score: 650
Period size: 87 Copynumber: 7.5 Consensus size: 85
22637188 ATGTACTACA
* * * *
22637198 TGTGCCTGTATATTTGCTTCGGTATATCCGATGATGCATTGTGTGTGCCAGTATATTTGCTTCGG
1 TGTGCCAGTATATTTTCTTCGAT-TATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGG
* *
22637263 TATA-TCTGATTAAGCACTGTG
65 TATATTC-GATGATGCACTGTG
* * * * *
22637284 TGTGCCAGTATATTTGCTTTGGTATATCTGATGATGCAC--TGTGTGCTAGTATATTTGCTTCGG
1 TGTGCCAGTATATTTTCTTCGAT-TATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGG
* *
22637347 TATATCCGATGATGCACCGTG
65 TATATTCGATGATGCACTGTG
* * *
22637368 TGTGCCAGTATATTTTCTTTGATTTATCCGATGATGCACTGTATGTGCCAGTATATTTGCTTCGA
1 TGTGCCAGTATATTTTCTTCGA-TTATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGG
*
22637433 TATATTCGATGATGCATTGTG
65 TATATTCGATGATGCACTGTG
* * * * *
22637454 TGTGCCAGTATATTTTCTTTGATTTATACAATGATGCACTGTGTGTGCCAGTATAGTAGCTTCGG
1 TGTGCCAGTATATTTTCTTCGA-TTATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGG
*
22637519 TTTCATTCGATGATGCACTGTG
65 TAT-ATTCGATGATGCACTGTG
* * * ** * * * *
22637541 TGTGCCAGTATATTTTCTTCGGTTGATCCAATGATGCACTATGTGTGCCAAAATAGTAGTTTCAG
1 TGTGCCAGTATATTTTCTTCGATT-ATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGG
*
22637606 TTTCA-TCTGATGATGCACTGTG
65 TAT-ATTC-GATGATGCACTGTG
* * ** *
22637628 TGTGCTAGTATATTTGCTTCGATATATTTGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGG
1 TGTGCCAGTATATTTTCTTCGAT-TATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGG
* * *
22637693 T-TGATCCAATGATGCACTATG
65 TAT-ATTCGATGATGCACTGTG
** ** * * *
22637714 TGTGCCAAAATAGTAGT-TTCAGTTTCATCTGATGATGCACTGTGTGTGCTAGTATATTTGCTTC
1 TGTGCCAGTATA-TTTTCTTC-GATT-ATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTC
* *
22637778 GATATATTTGATGATGCACTGTG
63 GGTATATTCGATGATGCACTGTG
*
22637801 TGTGCCAGTATATTTTCTTCGATTTATCCAATGATGCACT
1 TGTGCCAGTATATTTTCTTCGA-TTATCCGATGATGCACT
22637841 TACGTACCGG
Statistics
Matches: 468, Mismatches: 74, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
84 72 0.15
85 2 0.00
86 182 0.39
87 210 0.45
88 2 0.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (85 bp):
TGTGCCAGTATATTTTCTTCGATTATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGGT
ATATTCGATGATGCACTGTG
Found at i:22637575 original size:130 final size:129
Alignment explanation
Indices: 22637227--22637840 Score: 677
Period size: 130 Copynumber: 4.7 Consensus size: 129
22637217 CGGTATATCC
* * * *
22637227 GATGATGCATTGTGTGTGCCAGTATATTTGCTTCGGTATA-TCTGATTAAGCACTGTGTGTGCCA
1 GATGATGCACTGTGTGTGCCAGTATATTTGCTTCGATATATTC-GATGATGCACTGTGTGTGCCA
* * ** * ** * * * *
22637291 GTATATTTGCTTTGGTATATCTGATGATGCAC--TGTGTGCTAGTATATTTGC-TTCGGTAT-AT
65 GTATATTTTCTTCGGT-TATCCAATGATGCACTATGTGTGCCAAAATA-GTACTTTCAGTTTCAT
*
22637352 CC
128 CT
* * * * * *
22637354 GATGATGCACCGTGTGTGCCAGTATATTTTCTTTGATTTATCCGATGATGCACTGTATGTGCCAG
1 GATGATGCACTGTGTGTGCCAGTATATTTGCTTCGATATATTCGATGATGCACTGTGTGTGCCAG
* * * * * * ** * * *
22637419 TATATTTGCTTCGATATATTCGATGATGCATTGTGTGTGCCAGTATATTTTCTTTGA-TTT-ATA
66 TATATTTTCTTCGGT-TATCCAATGATGCACTATGTGTGCCAAAATA-GTACTTTCAGTTTCAT-
22637482 C-
128 CT
* * * * *
22637483 AATGATGCACTGTGTGTGCCAGTATAGTAGCTTCGGTTTCATTCGATGATGCACTGTGTGTGCCA
1 GATGATGCACTGTGTGTGCCAGTATATTTGCTTCGATAT-ATTCGATGATGCACTGTGTGTGCCA
*
22637548 GTATATTTTCTTCGGTTGATCCAATGATGCACTATGTGTGCCAAAATAGTAGTTTCAGTTTCATC
65 GTATATTTTCTTCGGTT-ATCCAATGATGCACTATGTGTGCCAAAATAGTACTTTCAGTTTCATC
22637613 T
129 T
* *
22637614 GATGATGCACTGTGTGTGCTAGTATATTTGCTTCGATATATTTGATGATGCACTGTGTGTGCCAG
1 GATGATGCACTGTGTGTGCCAGTATATTTGCTTCGATATATTCGATGATGCACTGTGTGTGCCAG
*
22637679 TATATTTTCTTCGGTTGATCCAATGATGCACTATGTGTGCCAAAATAGTAGTTTCAGTTTCATCT
66 TATATTTTCTTCGGTT-ATCCAATGATGCACTATGTGTGCCAAAATAGTACTTTCAGTTTCATCT
* *
22637744 GATGATGCACTGTGTGTGCTAGTATATTTGCTTCGATATATTTGATGATGCACTGTGTGTGCCAG
1 GATGATGCACTGTGTGTGCCAGTATATTTGCTTCGATATATTCGATGATGCACTGTGTGTGCCAG
*
22637809 TATATTTTCTTCGATTTATCCAATGATGCACT
66 TATATTTTCTTCG-GTTATCCAATGATGCACT
22637841 TACGTACCGG
Statistics
Matches: 427, Mismatches: 49, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
127 79 0.19
128 1 0.00
129 59 0.14
130 251 0.59
131 37 0.09
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.40
Consensus pattern (129 bp):
GATGATGCACTGTGTGTGCCAGTATATTTGCTTCGATATATTCGATGATGCACTGTGTGTGCCAG
TATATTTTCTTCGGTTATCCAATGATGCACTATGTGTGCCAAAATAGTACTTTCAGTTTCATCT
Found at i:22639599 original size:56 final size:49
Alignment explanation
Indices: 22639511--22639729 Score: 186
Period size: 50 Copynumber: 4.3 Consensus size: 49
22639501 AAAGAGATCC
** *
22639511 CATGTAAGACCATGTTTGAGACATGGAATTGGCATCATTGAGATTATGAGAGGTCA
1 CATGTAAGACCATGTTTG-GACATGGCGTTGGCA-C--CGAG---ATGAGAGGTCA
* *
22639567 CATGTAAGACCATGTCTGGTACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTTTGG-ACATGGCGTTGGCACCGAGATGAGAGGTCA
* * *
22639617 CATGTAAGACCATGTTTGGGACATGGCGTTAGCACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTTT-GGACATGGCGTTGGCACCGAGATGAGAGGTCA
* * * * * * * ** *
22639667 CCTTTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGT-TTGGACATGGCGTTGGCACCGAGATGAGAGGTCA
22639717 CATGTAAGACCAT
1 CATGTAAGACCAT
22639730 ATATGGGATA
Statistics
Matches: 139, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
50 102 0.73
51 3 0.02
53 3 0.02
55 2 0.01
56 29 0.21
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (49 bp):
CATGTAAGACCATGTTTGGACATGGCGTTGGCACCGAGATGAGAGGTCA
Found at i:22639615 original size:50 final size:50
Alignment explanation
Indices: 22639556--22639750 Score: 228
Period size: 50 Copynumber: 3.9 Consensus size: 50
22639546 CATTGAGATT
* * *
22639556 ATGAGAGGTCACATGTAAGACCATGTCTGGTACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
* *
22639606 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTAGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
* * * * * *
22639656 ATGAGAGGTCCCCTTTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
** * * * * *
22639706 ATGAGAACTCTCATGTAAGACCATATATGGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
22639751 GTACAAGAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 123 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
Found at i:22642413 original size:9 final size:9
Alignment explanation
Indices: 22642395--22642431 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
22642385 TATAGTTTGA
*
22642395 TATTCTAAT
1 TATTCGAAT
22642404 TATTCGAAT
1 TATTCGAAT
*
22642413 TATTCGAGT
1 TATTCGAAT
22642422 TATTCGAAT
1 TATTCGAAT
22642431 T
1 T
22642432 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:22643626 original size:3 final size:3
Alignment explanation
Indices: 22643614--22643656 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
22643604 TGATTTTTTA
*
22643614 ATT A-T ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22643657 ATAAGCAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:22646153 original size:43 final size:42
Alignment explanation
Indices: 22646030--22646185 Score: 188
Period size: 42 Copynumber: 3.7 Consensus size: 42
22646020 TTAAGTCATA
* * *
22646030 TGAGTTTCCGTTTAACCCTAATGGGTTTCCATTAAGCTCTTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTTCGATTAAGCTCTTT
*
22646072 TTAGCTTCAGTTTAACCCTAATGGGTTTCTG-TTAAGCTCTTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTTC-GATTAAGCTCTTT
* * *
22646114 TGAGCTTCAGTTTAATCCCTTATGGGTTTCGATTCAGCTCTTA
1 TGAGCTTCAGTTTAA-CCCTAATGGGTTTCGATTAAGCTCTTT
* * * *
22646157 CGAGCTTCCGTTCAACCCTTATGGGTTTC
1 TGAGCTTCAGTTTAACCCTAATGGGTTTC
22646186 TGTTTAGCCT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
42 66 0.66
43 34 0.34
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTAATGGGTTTCGATTAAGCTCTTT
Found at i:22647803 original size:36 final size:37
Alignment explanation
Indices: 22647754--22647987 Score: 222
Period size: 36 Copynumber: 5.9 Consensus size: 37
22647744 TAGCTAAGCT
22647754 ACCACTTATCACTTTGTCACTTGATCAGATAAGTATG
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTATG
*
22647791 A-CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 ACCACTTATCACTTTGTCACTTGATCAGATAA--GTA--T---G
* *
22647834 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGT-
1 --ACCACTTATCACTTTGTCACTTGATCAGATAAGTATG
*
22647872 ACCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 ACCACTTATCACTTTGTCACTTGATCAGATAA--GTA--T---G
* *
22647916 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGT-
1 --ACCACTTATCACTTTGTCACTTGATCAGATAAGTATG
*
22647954 ACCACTTATCACTTTTTCACTTGATCAGATAAGT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGT
22647988 GTAGCTAAAG
Statistics
Matches: 165, Mismatches: 12, Indels: 41
0.76 0.06 0.19
Matches are distributed among these distances:
36 91 0.55
37 1 0.01
38 5 0.03
40 2 0.01
42 2 0.01
43 1 0.01
44 4 0.02
45 1 0.01
46 58 0.35
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTATG
Found at i:22647843 original size:46 final size:46
Alignment explanation
Indices: 22647792--22648028 Score: 280
Period size: 46 Copynumber: 5.6 Consensus size: 46
22647782 ATAAGTATGA
22647792 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
22647838 CACTTATCACTTTGTCTCTTGATCAGAT-A----AG-T---G-TAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
22647874 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
22647920 CACTTATCACTTTGTCTCTTGATCAGAT-A----AG-T---G-TAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
22647956 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
22648002 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
22648029 AGTACTCAAA
Statistics
Matches: 161, Mismatches: 10, Indels: 40
0.76 0.05 0.19
Matches are distributed among these distances:
36 58 0.36
37 4 0.02
40 2 0.01
41 8 0.05
42 2 0.01
45 4 0.02
46 83 0.52
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:22647851 original size:82 final size:82
Alignment explanation
Indices: 22647730--22648028 Score: 548
Period size: 82 Copynumber: 3.7 Consensus size: 82
22647720 CATTTGTCCC
* *
22647730 TGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATGA-C
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGT-ACC
22647793 ACTTATCACTTTTTCACT
65 ACTTATCACTTTTTCACT
22647811 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTACCA
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTACCA
22647876 CTTATCACTTTTTCACT
66 CTTATCACTTTTTCACT
22647893 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTACCA
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTACCA
22647958 CTTATCACTTTTTCACT
66 CTTATCACTTTTTCACT
*
22647975 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGATCAGA
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGA
22648029 AGTACTCAAA
Statistics
Matches: 213, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
81 20 0.09
82 193 0.91
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTACCA
CTTATCACTTTTTCACT
Found at i:22652870 original size:2 final size:2
Alignment explanation
Indices: 22652865--22652924 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
22652855 AAGTCATATA
*
22652865 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
22652907 TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG
22652925 ATGGGTTCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.02, G:0.50, T:0.48
Consensus pattern (2 bp):
TG
Found at i:22654932 original size:21 final size:21
Alignment explanation
Indices: 22654906--22654961 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
22654896 AACTGCGGTG
*
22654906 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
22654927 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
22654948 GCAGTAAGATTAGA
1 GCGGTGAGATTAGA
22654962 AATAGCGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:22658734 original size:6 final size:6
Alignment explanation
Indices: 22658723--22658772 Score: 82
Period size: 6 Copynumber: 8.2 Consensus size: 6
22658713 TTTGCAACCC
*
22658723 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAGGGG AAGGGG AAAGGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG
22658772 A
1 A
22658773 GAAGAAGGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:22658779 original size:18 final size:17
Alignment explanation
Indices: 22658723--22658781 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
22658713 TTTGCAACCC
22658723 AAGGGGAAGGGGA-AAGGG
1 AAGGGGAAGGGGAGAA--G
**
22658741 AAGGGGAAGGGGAAGGGG
1 AAGGGGAAGGGG-AGAAG
22658759 AAGGGGAAAGGGGAGAAG
1 AAGGGG-AAGGGGAGAAG
22658777 AAGGG
1 AAGGG
22658782 TAACCAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 27 0.79
19 7 0.21
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (17 bp):
AAGGGGAAGGGGAGAAG
Found at i:22661342 original size:28 final size:28
Alignment explanation
Indices: 22661302--22661378 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 28
22661292 AATACAATGA
22661302 AGGCCTTAGCCCAAT-TCAGTAGCAGTGT
1 AGGCCTTAGCCCAATAT-AGTAGCAGTGT
* *
22661330 AGGCTTTAGCCCAATATAGTATCAGTGT
1 AGGCCTTAGCCCAATATAGTAGCAGTGT
*
22661358 GGGCCTTAGCCCAATATAGTA
1 AGGCCTTAGCCCAATATAGTA
22661379 ACATTACAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 43 0.98
29 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (28 bp):
AGGCCTTAGCCCAATATAGTAGCAGTGT
Found at i:22661795 original size:27 final size:27
Alignment explanation
Indices: 22661765--22661878 Score: 115
Period size: 27 Copynumber: 4.2 Consensus size: 27
22661755 TATCTCCTAG
*
22661765 GGGTATAACGGACATTTTACCCTATGA
1 GGGTATATCGGACATTTTACCCTATGA
* ** * * *
22661792 GGGTATTTTAGTCATTTTATCCTATGG
1 GGGTATATCGGACATTTTACCCTATGA
*
22661819 GGGTATATCGGTCATTTTACCCTATG-
1 GGGTATATCGGACATTTTACCCTATGA
*
22661845 GGAGTATTTC-GATCATTTTACCCTATGA
1 GG-GTATATCGGA-CATTTTACCCTATGA
22661873 GGGTAT
1 GGGTAT
22661879 TTTGGTCGTA
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.04
27 66 0.93
28 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATATCGGACATTTTACCCTATGA
Found at i:22661835 original size:54 final size:53
Alignment explanation
Indices: 22661746--22661878 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 53
22661736 AAGGCCATAA
22661746 TAGTCATTTTATCTCCTA--GGGGTATAACGGACATTTTACCCTATGAGG-GTATTT
1 TAGTCATTTTA--TCCTATGGGGGTATAACGGACATTTTACCCTATG-GGAGTA-TT
* *
22661800 TAGTCATTTTATCCTATGGGGGTATATCGGTCATTTTACCCTATGGGAGTATT
1 TAGTCATTTTATCCTATGGGGGTATAACGGACATTTTACCCTATGGGAGTATT
* * *
22661853 TCGATCATTTTACCCTATGAGGGTAT
1 TAG-TCATTTTATCCTATGGGGGTAT
22661879 TTTGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
52 5 0.07
53 6 0.09
54 59 0.84
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (53 bp):
TAGTCATTTTATCCTATGGGGGTATAACGGACATTTTACCCTATGGGAGTATT
Found at i:22661879 original size:27 final size:27
Alignment explanation
Indices: 22661777--22661880 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
22661767 GTATAACGGA
*
22661777 CATTTTACCCTATGAGGGTATTT-TAGT
1 CATTTTACCCTATGAGGGTATTTCGA-T
* * * *
22661804 CATTTTATCCTATGGGGGTATATCGGT
1 CATTTTACCCTATGAGGGTATTTCGAT
22661831 CATTTTACCCTATG-GGAGTATTTCGAT
1 CATTTTACCCTATGAGG-GTATTTCGAT
22661858 CATTTTACCCTATGAGGGTATTT
1 CATTTTACCCTATGAGGGTATTT
22661881 TGGTCGTATA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.03
27 62 0.94
28 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
CATTTTACCCTATGAGGGTATTTCGAT
Found at i:22669224 original size:15 final size:15
Alignment explanation
Indices: 22669204--22669233 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22669194 AATGTCACTT
22669204 CATGGTTCACAAAGG
1 CATGGTTCACAAAGG
22669219 CATGGTTCACAAAGG
1 CATGGTTCACAAAGG
22669234 TGATCGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (15 bp):
CATGGTTCACAAAGG
Found at i:22674363 original size:27 final size:27
Alignment explanation
Indices: 22674190--22674351 Score: 218
Period size: 27 Copynumber: 6.0 Consensus size: 27
22674180 TTTGCATAGT
* *
22674190 CGTAATGCCTCTGTAGGGTAAGA-GAAC
1 CGTAATGCCCCTGTAGGGTAAAATG-AC
* *
22674217 CGTAACGCCCTTGTAGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* * *
22674244 TGTAATGCCGCTGTTGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
*
22674271 AGTAATGCCCCTGTAGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* *
22674298 CGTCATGCGCCTGTAGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
22674325 CGTAATGCCCCTGTAGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
22674352 TATTTTTCCC
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
27 116 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (27 bp):
CGTAATGCCCCTGTAGGGTAAAATGAC
Found at i:22674416 original size:24 final size:24
Alignment explanation
Indices: 22674369--22674454 Score: 82
Period size: 24 Copynumber: 3.6 Consensus size: 24
22674359 CCCCTCAGGG
* * *
22674369 TTAAATGATTGATTTGCCTTTGAT
1 TTAAATGAATGATTTGTCTGTGAT
*
22674393 GTAAATGAATGATTTGTCTGTGAT
1 TTAAATGAATGATTTGTCTGTGAT
* ** *
22674417 TTGAATGGCTGATTTGTTTGTGAT
1 TTAAATGAATGATTTGTCTGTGAT
**
22674441 TTGTATGAATGATT
1 TTAAATGAATGATT
22674455 CCGTGCATGG
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.24, C:0.05, G:0.23, T:0.48
Consensus pattern (24 bp):
TTAAATGAATGATTTGTCTGTGAT
Found at i:22674688 original size:32 final size:32
Alignment explanation
Indices: 22674633--22674815 Score: 213
Period size: 32 Copynumber: 5.7 Consensus size: 32
22674623 TGCTATTGAG
* * * * *
22674633 GGCTTTGTACCGATCATAATACCATTACTGAT
1 GGCTGTGTGCCGATCATATTACTACTACTGAT
* * *
22674665 GGCTGTGTGCCAATCATATTACCATTACTGAT
1 GGCTGTGTGCCGATCATATTACTACTACTGAT
* *
22674697 GGCTGTGTACCGATCATATTATTACTACTGAT
1 GGCTGTGTGCCGATCATATTACTACTACTGAT
* * *
22674729 GGCTTTGTGCCGATCATACTACTACTATTGAT
1 GGCTGTGTGCCGATCATATTACTACTACTGAT
*
22674761 GGCTGTGTGCCGATTATATTACTACTACTGAT
1 GGCTGTGTGCCGATCATATTACTACTACTGAT
* * *
22674793 GGCTTTATGCCAATCATATTACT
1 GGCTGTGTGCCGATCATATTACT
22674816 GTACTTATGG
Statistics
Matches: 129, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 129 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (32 bp):
GGCTGTGTGCCGATCATATTACTACTACTGAT
Found at i:22674739 original size:64 final size:64
Alignment explanation
Indices: 22674633--22674814 Score: 238
Period size: 64 Copynumber: 2.8 Consensus size: 64
22674623 TGCTATTGAG
* * * * * *
22674633 GGCTTTGTACCGATCATAATACCATTACTGATGGCTGTGTGCCAATCATATTACCATTACTGAT
1 GGCTGTGTACCGATCATATTACTACTACTGATGGCTTTGTGCCAATCATATTACCACTACTGAT
* * * * *
22674697 GGCTGTGTACCGATCATATTATTACTACTGATGGCTTTGTGCCGATCATACTACTACTATTGAT
1 GGCTGTGTACCGATCATATTACTACTACTGATGGCTTTGTGCCAATCATATTACCACTACTGAT
* * *
22674761 GGCTGTGTGCCGATTATATTACTACTACTGATGGCTTTATGCCAATCATATTAC
1 GGCTGTGTACCGATCATATTACTACTACTGATGGCTTTGTGCCAATCATATTAC
22674815 TGTACTTATG
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 101 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (64 bp):
GGCTGTGTACCGATCATATTACTACTACTGATGGCTTTGTGCCAATCATATTACCACTACTGAT
Found at i:22674809 original size:96 final size:96
Alignment explanation
Indices: 22674633--22674813 Score: 245
Period size: 96 Copynumber: 1.9 Consensus size: 96
22674623 TGCTATTGAG
* *
22674633 GGCTTTGTACCGATCATAATACCATTACTGATGGCTGTGTGCCAATCATATTACCATTACTGATG
1 GGCTTTGTACCGATCATAATACCACTACTGATGGCTGTGTGCCAATCATATTACCACTACTGATG
* *
22674698 GCTGTGTACCGATCATATTATTACTACTGAT
66 GCTGTATACCAATCATATTATTACTACTGAT
* * * * * * *
22674729 GGCTTTGTGCCGATCATACTACTACTATTGATGGCTGTGTGCCGATTATATTACTACTACTGATG
1 GGCTTTGTACCGATCATAATACCACTACTGATGGCTGTGTGCCAATCATATTACCACTACTGATG
* *
22674794 GCTTTATGCCAATCATATTA
66 GCTGTATACCAATCATATTA
22674814 CTGTACTTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (96 bp):
GGCTTTGTACCGATCATAATACCACTACTGATGGCTGTGTGCCAATCATATTACCACTACTGATG
GCTGTATACCAATCATATTATTACTACTGAT
Found at i:22678329 original size:10 final size:10
Alignment explanation
Indices: 22678314--22678344 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
22678304 TTCATAACTT
22678314 ATTTTGCTTA
1 ATTTTGCTTA
22678324 ATTTTGCTT-
1 ATTTTGCTTA
22678333 ATTTTGCTTA
1 ATTTTGCTTA
22678343 AT
1 AT
22678345 GACTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.61
Consensus pattern (10 bp):
ATTTTGCTTA
Found at i:22678336 original size:9 final size:9
Alignment explanation
Indices: 22678311--22678342 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
22678301 ATTTTCATAA
22678311 CTTATTTTG
1 CTTATTTTG
22678320 CTTAATTTTG
1 CTT-ATTTTG
22678330 CTTATTTTG
1 CTTATTTTG
22678339 CTTA
1 CTTA
22678343 ATGACTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.62
Consensus pattern (9 bp):
CTTATTTTG
Found at i:22680701 original size:25 final size:25
Alignment explanation
Indices: 22680651--22680788 Score: 88
Period size: 24 Copynumber: 5.6 Consensus size: 25
22680641 ATGTTATTTA
* * *
22680651 GCTCTTATGAGCATCCGGA-TATATG
1 GCTCTCATGAGCTTCCCGATTA-ATG
22680676 GCTCTCATGAGCTTCCCGATTAATG
1 GCTCTCATGAGCTTCCCGATTAATG
* ** * *
22680701 GCTTTCCGGAGCTTCCC-AATATTG
1 GCTCTCATGAGCTTCCCGATTAATG
* *
22680725 GCTCGCATGAGCTTCCCAAATT--TG
1 GCTCTCATGAGCTTCCC-GATTAATG
* * *
22680749 GCTCTCTTGAGCTTCCTG-TTTATG
1 GCTCTCATGAGCTTCCCGATTAATG
* *
22680773 GCTCACAAGAGCTTCC
1 GCTCTCATGAGCTTCC
22680789 TATTTATGGC
Statistics
Matches: 88, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
22 2 0.02
24 49 0.56
25 33 0.38
26 4 0.05
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.33
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATTAATG
Found at i:22680774 original size:24 final size:24
Alignment explanation
Indices: 22680757--22680806 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
22680747 TGGCTCTCTT
*
22680757 GAGCTTCCTGTTTATGGCTCACAA
1 GAGCTTCCTATTTATGGCTCACAA
22680781 GAGCTTCCTATTTATGGCTCACAA
1 GAGCTTCCTATTTATGGCTCACAA
22680805 GA
1 GA
22680807 ACTTTCCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (24 bp):
GAGCTTCCTATTTATGGCTCACAA
Found at i:22683244 original size:25 final size:25
Alignment explanation
Indices: 22683194--22683244 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
22683184 ATAATATTAC
*
22683194 TTATTAAAATATTATTTTAAATAAA
1 TTATTAAAATATTATTTTAAAAAAA
*
22683219 TTATTAAATTATTA-TTTAATAAAAA
1 TTATTAAAATATTATTTTAA-AAAAA
22683244 T
1 T
22683245 ATCATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATTAAAATATTATTTTAAAAAAA
Found at i:22689491 original size:54 final size:54
Alignment explanation
Indices: 22689397--22689536 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 54
22689387 AGTCATAATA
* * * * * * *
22689397 CATAGTCTAAAGGAATCAAATTGACCAAATGTCTTAGTAGGTAGTCTATGTTGTC
1 CATAGTCT-AAGGAATCAAATAGAGCAATTGTATTAGTAGGTAATATAAGTTGTC
*
22689452 CATAGTCTAAGGAATCAAATAGAGCAATTGTATTGGTAGGTAATATAAGTTGTC
1 CATAGTCTAAGGAATCAAATAGAGCAATTGTATTAGTAGGTAATATAAGTTGTC
* *
22689506 CATAGTCCAAAGCAATCAAACTA-AGCAATTG
1 CATAGT-CTAAGGAATCAAA-TAGAGCAATTG
22689537 ATTCAAATTG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 44 0.60
55 27 0.37
56 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (54 bp):
CATAGTCTAAGGAATCAAATAGAGCAATTGTATTAGTAGGTAATATAAGTTGTC
Found at i:22690682 original size:26 final size:27
Alignment explanation
Indices: 22690640--22690690 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
22690630 AGTTATTCCC
*
22690640 TATTTTTTTTAACAA-TTAAATTTTAA
1 TATTTTTTTCAACAATTTAAATTTTAA
22690666 TATTTTATTTCAA-AATTTAAATTTT
1 TATTTT-TTTCAACAATTTAAATTTT
22690691 CAAATCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTTTTTTCAACAATTTAAATTTTAA
Found at i:22691255 original size:4 final size:4
Alignment explanation
Indices: 22691246--22691274 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
22691236 TCCCTTTCAA
22691246 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
22691275 TTATCAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:22697606 original size:17 final size:17
Alignment explanation
Indices: 22697584--22697633 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
22697574 ATAGAAAGTC
22697584 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
22697601 AAAGATATGGGTATTAG
1 AAAGATATGGGTATCAG
22697618 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
22697634 AAATCTGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.42, C:0.04, G:0.28, T:0.26
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:22706755 original size:18 final size:18
Alignment explanation
Indices: 22706732--22706767 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22706722 ATTTTAAGAA
22706732 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
*
22706750 TTTTATTAAATTGTATTT
1 TTTTATTAAATTATATTT
22706768 AATAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:22707012 original size:45 final size:44
Alignment explanation
Indices: 22706923--22707015 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
22706913 ATTACAACAT
*
22706923 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
*
22706967 CATTCCATTCAACCAAACA-ATTGAATTACTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGCTCTATTC
22707012 CATT
1 CATT
22707016 ACAGTTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 22 0.49
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:22707018 original size:16 final size:16
Alignment explanation
Indices: 22706997--22707036 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
22706987 TTGAATTACT
22706997 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
22707013 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
22707029 ATTACAGC
1 ATTACAGC
22707037 GAACCAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:22707515 original size:14 final size:14
Alignment explanation
Indices: 22707496--22707522 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22707486 TTTTGGTTTC
22707496 AATAAAATATTCAA
1 AATAAAATATTCAA
22707510 AATAAAATATTCA
1 AATAAAATATTCA
22707523 TAACAACAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAATATTCAA
Found at i:22711012 original size:69 final size:68
Alignment explanation
Indices: 22710937--22711067 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 68
22710927 CTTATTAGGG
* *
22710937 AAAGAAAACCCATAATAACCTTTCCTGGTGGCATTGTTTAACTTCCTATAATTCCTACAAATCCT
1 AAAGAAAACCCATAATAACCTTTCATGGTGGCATTATTTAACTTCCTATAATTCCTACAAATCCT
22711002 CTA
66 CTA
* * * * *
22711005 NAAAGAAAACCCATAATGATCTTTCATGGTGGCCTTATTTAACTTCTTGTAATTCCTACAAAT
1 -AAAGAAAACCCATAATAACCTTTCATGGTGGCATTATTTAACTTCCTATAATTCCTACAAAT
22711068 TATCCAACCT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 55 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (68 bp):
AAAGAAAACCCATAATAACCTTTCATGGTGGCATTATTTAACTTCCTATAATTCCTACAAATCCT
CTA
Found at i:22717150 original size:13 final size:13
Alignment explanation
Indices: 22717132--22717158 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22717122 GTATCGCAGG
22717132 CCATGTGCCAAAC
1 CCATGTGCCAAAC
22717145 CCATGTGCCAAAC
1 CCATGTGCCAAAC
22717158 C
1 C
22717159 GTCTGAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.41, G:0.15, T:0.15
Consensus pattern (13 bp):
CCATGTGCCAAAC
Found at i:22725088 original size:59 final size:60
Alignment explanation
Indices: 22724994--22725125 Score: 198
Period size: 59 Copynumber: 2.2 Consensus size: 60
22724984 AATTGTAAAT
* * *
22724994 TTAATTGAGCCCCTTGTCAAAAAATGCAATCAATTAAACCTTTAATCGAAAA-TTAGTA-A
1 TTAATTGAGCCCCTTGTCAAAAAATGCAATAAATTAAACATTTAATC-AAAAGTTAGCAGA
*
22725053 TTAATTGAGCCCCTTGTCAAAAAGTGCAATAAATTAAACATTTAATCAAAAGTTAGCAGA
1 TTAATTGAGCCCCTTGTCAAAAAATGCAATAAATTAAACATTTAATCAAAAGTTAGCAGA
22725113 -TAATTGAGCCCCT
1 TTAATTGAGCCCCT
22725126 GTAATATGGT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
58 4 0.06
59 62 0.93
60 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (60 bp):
TTAATTGAGCCCCTTGTCAAAAAATGCAATAAATTAAACATTTAATCAAAAGTTAGCAGA
Found at i:22725397 original size:19 final size:20
Alignment explanation
Indices: 22725371--22725433 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 20
22725361 TAAAATTTTA
22725371 AATTTTTATAACATTTA-AT
1 AATTTTTATAACATTTATAT
*
22725390 AGTTTTTAATAAC--TTATAT
1 AATTTTT-ATAACATTTATAT
*
22725409 AATTTTTATAA-ATTTATAA
1 AATTTTTATAACATTTATAT
22725428 AATTTT
1 AATTTT
22725434 AGTAATTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 7 0.19
19 25 0.68
20 5 0.14
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTTTATAACATTTATAT
Found at i:22736080 original size:32 final size:34
Alignment explanation
Indices: 22736043--22736111 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 34
22736033 CCATTACCTC
* *
22736043 TTTTAATTTTGGTCACCCAGCT-ATC-A-ATTTTT
1 TTTTAA-TTTGATCACCCAACTAATCGAGATTTTT
22736075 TTTTAATTTGATCACCCAACTAATCGAGATTTTT
1 TTTTAATTTGATCACCCAACTAATCGAGATTTTT
22736109 TTT
1 TTT
22736112 GTCCATTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 13 0.41
32 9 0.28
33 1 0.03
34 9 0.28
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (34 bp):
TTTTAATTTGATCACCCAACTAATCGAGATTTTT
Found at i:22743014 original size:18 final size:19
Alignment explanation
Indices: 22742991--22743030 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22742981 ATATTTTACA
22742991 TTATAAA-AATAAATATTT
1 TTATAAATAATAAATATTT
* *
22743009 TTATAAATATTACATATTT
1 TTATAAATAATAAATATTT
22743028 TTA
1 TTA
22743031 ATATTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATAAATAATAAATATTT
Found at i:22743156 original size:8 final size:8
Alignment explanation
Indices: 22743143--22743178 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
22743133 GAAACTCCTA
22743143 AAAATTTT
1 AAAATTTT
22743151 AAAATTTT
1 AAAATTTT
*
22743159 -TAATTTT
1 AAAATTTT
22743166 AAAATTTT
1 AAAATTTT
22743174 AAAAT
1 AAAAT
22743179 ACTGAGGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AAAATTTT
Found at i:22743165 original size:15 final size:15
Alignment explanation
Indices: 22743145--22743173 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22743135 AACTCCTAAA
22743145 AATTTTAAAATTTTT
1 AATTTTAAAATTTTT
22743160 AATTTTAAAATTTT
1 AATTTTAAAATTTT
22743174 AAAATACTGA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTTAAAATTTTT
Found at i:22744802 original size:19 final size:19
Alignment explanation
Indices: 22744703--22744803 Score: 63
Period size: 19 Copynumber: 5.4 Consensus size: 19
22744693 CAAAAAAGTT
22744703 ATAAAAAA-TA-AAAAATC
1 ATAAAAAATTATAAAAATC
*
22744720 A-ATAAAAA-TATAAAAATG
1 ATA-AAAAATTATAAAAATC
**
22744738 AGT-AAACTTTAATAAAATAT-
1 A-TAAAAAATT-ATAAAA-ATC
**
22744758 ATAAAATTTTATAAAAATC
1 ATAAAAAATTATAAAAATC
22744777 ATAAAAAATTAT-AAAATGC
1 ATAAAAAATTATAAAAAT-C
22744796 ATAAAAAA
1 ATAAAAAA
22744804 AGACCATTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
16 1 0.01
17 8 0.12
18 17 0.25
19 27 0.40
20 13 0.19
21 2 0.03
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (19 bp):
ATAAAAAATTATAAAAATC
Found at i:22745056 original size:38 final size:40
Alignment explanation
Indices: 22745003--22745087 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 40
22744993 ATTCCTTTAC
22745003 ATTTTTTTACCATTTTCTTAC-AACTTTATAA-AATTTTCT
1 ATTTTTTTACCATTTT-TTACGAACTTTATAATAATTTTCT
* ** *
22745042 ATTTTTTTA-TATTTTTTACGATTTTTATAATATTTTTCT
1 ATTTTTTTACCATTTTTTACGAACTTTATAATAATTTTCT
*
22745081 AATTTTT
1 ATTTTTT
22745088 AATTAAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
37 4 0.10
38 13 0.33
39 22 0.56
ACGTcount: A:0.26, C:0.09, G:0.01, T:0.64
Consensus pattern (40 bp):
ATTTTTTTACCATTTTTTACGAACTTTATAATAATTTTCT
Found at i:22745085 original size:20 final size:20
Alignment explanation
Indices: 22745027--22745088 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
22745017 TTCTTACAAC
*
22745027 TTTATAA-AATTTTCT-ATT
1 TTTATAATATTTTTCTAATT
*
22745045 TTT-TTATATTTTT-TACGATT
1 TTTATAATATTTTTCTA--ATT
22745065 TTTATAATATTTTTCTAATT
1 TTTATAATATTTTTCTAATT
22745085 TTTA
1 TTTA
22745089 ATTAAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 3 0.09
18 8 0.23
20 13 0.37
21 9 0.26
22 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTATAATATTTTTCTAATT
Found at i:22745154 original size:20 final size:21
Alignment explanation
Indices: 22745111--22745155 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
22745101 ATTTCTTATA
*
22745111 TTTTTATTAAAATTTAATGTT
1 TTTTTATTAAAATTTAATGAT
* *
22745132 TTTTTA-TAAATTTTATTGAT
1 TTTTTATTAAAATTTAATGAT
22745152 TTTT
1 TTTT
22745156 ATTTTTTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTTATTAAAATTTAATGAT
Found at i:22746202 original size:44 final size:44
Alignment explanation
Indices: 22746104--22746191 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
22746094 AATGTAAATG
* ** **
22746104 AAATTATAATAATTTTTAAATGTGTAATTATTGCAAATTCTATT
1 AAATTATAATTATTTTTAAATGCATAATTATCACAAATTCTATT
*
22746148 AAATTATAATTATTTTTAAATGCATAATTATCACAACTTCTATT
1 AAATTATAATTATTTTTAAATGCATAATTATCACAAATTCTATT
22746192 TTATGTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.47
Consensus pattern (44 bp):
AAATTATAATTATTTTTAAATGCATAATTATCACAAATTCTATT
Found at i:22749128 original size:30 final size:30
Alignment explanation
Indices: 22749094--22749160 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
22749084 TGGTTAGGAA
*
22749094 TTAGTTAATAAC-GTGTAATTAGCAGTAGGG
1 TTAGTTAAT-ACTGTGTAATTAGCAGTAGAG
*
22749124 TTAGTT-ATACTTGTGTACTTAGCAGTAGAG
1 TTAGTTAATAC-TGTGTAATTAGCAGTAGAG
22749154 TTAGTTA
1 TTAGTTA
22749161 CACTCTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 2 0.06
29 2 0.06
30 28 0.88
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (30 bp):
TTAGTTAATACTGTGTAATTAGCAGTAGAG
Found at i:22750525 original size:30 final size:30
Alignment explanation
Indices: 22750490--22750551 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
22750480 TAACACAGCC
*
22750490 ACCGTCACTCTTATTGGTAATCACAACCTT
1 ACCGTCACTCATATTGGTAATCACAACCTT
22750520 ACCGTCACTCATATTGGTAATCACAACCTT
1 ACCGTCACTCATATTGGTAATCACAACCTT
22750550 AC
1 AC
22750552 ACCTCATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (30 bp):
ACCGTCACTCATATTGGTAATCACAACCTT
Found at i:22751764 original size:29 final size:28
Alignment explanation
Indices: 22751722--22751778 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
22751712 GATCAACCAC
* * * *
22751722 TCTTTCCTTTGGACGTGCATGCTTTTGG
1 TCTTTCCCTTGGACATACATACTTTTGG
22751750 NTCTTTCCCTTGGACATACATACTTTTGG
1 -TCTTTCCCTTGGACATACATACTTTTGG
22751779 ATTCTTGCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.44
Consensus pattern (28 bp):
TCTTTCCCTTGGACATACATACTTTTGG
Found at i:22753744 original size:30 final size:30
Alignment explanation
Indices: 22753710--22753776 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
22753700 TAGTTAGGAA
*
22753710 TTAGTTAATAAC-GTGTAATTAGCAGTAGGG
1 TTAGTTAAT-ACTGTGTAATTAGCAGTAGAG
*
22753740 TTAGTT-ATACTTGTGTACTTAGCAGTAGAG
1 TTAGTTAATAC-TGTGTAATTAGCAGTAGAG
22753770 TTAGTTA
1 TTAGTTA
22753777 CACTCTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 2 0.06
29 2 0.06
30 28 0.88
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (30 bp):
TTAGTTAATACTGTGTAATTAGCAGTAGAG
Found at i:22753787 original size:30 final size:30
Alignment explanation
Indices: 22753722--22753780 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
22753712 AGTTAATAAC
* * *
22753722 GTGTAATTAGCAGTAGGGTTAGTTATACTT
1 GTGTACTTAGCAGTAGAGTTAGTTACACTT
22753752 GTGTACTTAGCAGTAGAGTTAGTTACACT
1 GTGTACTTAGCAGTAGAGTTAGTTACACT
22753781 CTTGTACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (30 bp):
GTGTACTTAGCAGTAGAGTTAGTTACACTT
Found at i:22757224 original size:43 final size:43
Alignment explanation
Indices: 22757176--22757261 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
22757166 TTTTCCTATT
*
22757176 TAAATGTTTACTTTGTATGTAAACATATAAATT-GAAATAAAAA
1 TAAATGTATACTTTGTATGTAAACATATAAATTAG-AATAAAAA
* *
22757219 TAAATGTATACTTTGTATTTAAACATATGAATTAGAATAAAAA
1 TAAATGTATACTTTGTATGTAAACATATAAATTAGAATAAAAA
22757262 AGAAAAAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (43 bp):
TAAATGTATACTTTGTATGTAAACATATAAATTAGAATAAAAA
Found at i:22761734 original size:21 final size:21
Alignment explanation
Indices: 22761710--22761750 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22761700 TTAAAATGAT
* * *
22761710 TTTATATTTTTTATAATTTTA
1 TTTAAATTGTTTAAAATTTTA
22761731 TTTAAATTGTTTAAAATTTT
1 TTTAAATTGTTTAAAATTTT
22761751 TATGACAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTAAATTGTTTAAAATTTTA
Found at i:22762501 original size:30 final size:30
Alignment explanation
Indices: 22762467--22762582 Score: 128
Period size: 30 Copynumber: 3.9 Consensus size: 30
22762457 TTAAAAATAA
*
22762467 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCACT
* **
22762497 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
* * *
22762527 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
* *
22762557 AAATTTCATTTT-AACCCTAAATTTTC
1 AAATTTCATTTTGACCCCTAAACTTTC
22762583 TAAAAATTAC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
29 16 0.22
30 58 0.78
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.43
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCACT
Found at i:22762589 original size:29 final size:29
Alignment explanation
Indices: 22762464--22762596 Score: 94
Period size: 30 Copynumber: 4.5 Consensus size: 29
22762454 AAGTTAAAAA
* *
22762464 TAAAAATTGCATTTTGACCCCTAAACTTTTCC
1 TAAAAATTTCATTTT-AACCCTAAAC-TTT-C
*
22762496 T--AAATTTCATTTTGACCCTTAAACTTTC
1 TAAAAATTTCATTTTAACCC-TAAACTTTC
** *
22762524 TTTAAATTTCA-CTTAGACCCCTAAACTTTC
1 TAAAAATTTCATTTTA-A-CCCTAAACTTTC
* *
22762554 -ATTAAATTTCATTTTAACCCTAAATTTTC
1 TA-AAAATTTCATTTTAACCCTAAACTTTC
*
22762583 TAAAAATTACATTT
1 TAAAAATTTCATTT
22762597 AGCCCCAGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
28 2 0.02
29 29 0.35
30 45 0.54
31 6 0.07
32 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (29 bp):
TAAAAATTTCATTTTAACCCTAAACTTTC
Found at i:22762945 original size:3 final size:3
Alignment explanation
Indices: 22762937--22763067 Score: 118
Period size: 3 Copynumber: 40.0 Consensus size: 3
22762927 GCTCGGATTT
22762937 GAA GAA GAA GAA GAA GGAA GAA GAA GAA GAA GAAA GAAA GAAA GAGA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA G-AA G-AA G-AA GA-A
* * * * *
22762984 GAA GAA GAAA GAA GAA AAA AAA GAA AAA AAA TAA GAA GAA GGAA GAA
1 GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA
22763031 GAA GAA GAA GAAA GAAA GAGA GAA GAA GAAA GAA GAA
1 GAA GAA GAA G-AA G-AA GA-A GAA GAA G-AA GAA GAA
22763068 AAAAAAAGAA
Statistics
Matches: 115, Mismatches: 5, Indels: 16
0.85 0.04 0.12
Matches are distributed among these distances:
3 79 0.69
4 36 0.31
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:22763007 original size:34 final size:34
Alignment explanation
Indices: 22762944--22763078 Score: 159
Period size: 34 Copynumber: 3.9 Consensus size: 34
22762934 TTTGAAGAAG
*
22762944 AAGA-AGAAGGAAG-AAGAAGAAGAAGAAAGAAAGA
1 AAGAGAGAA-GAAGAAAGAAGAA-AAAAAAGAAAGA
22762978 AAGAGAGAAGAAGAAAGAAGAAAAAAAAGAAA-A
1 AAGAGAGAAGAAGAAAGAAGAAAAAAAAGAAAGA
* * * * *
22763011 AAAATAAGAAGAAGGAAGAAGAAGAAGAAGAAAGA
1 AAGA-GAGAAGAAGAAAGAAGAAAAAAAAGAAAGA
22763046 AAGAGAGAAGAAGAAAGAAGAAAAAAAAAGAAA
1 AAGAGAGAAGAAGAAAGAAG-AAAAAAAAGAAA
22763079 AAAAAATTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
33 4 0.05
34 55 0.65
35 26 0.31
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (34 bp):
AAGAGAGAAGAAGAAAGAAGAAAAAAAAGAAAGA
Found at i:22763030 original size:72 final size:69
Alignment explanation
Indices: 22762947--22763083 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
22762937 GAAGAAGAAG
22762947 AAGAAGGAA-GAAGAAGAAGAAGAAAGAAAGAAAGAGAGAAGAAGAAAGAAG-AAAAAAAAGAAA
1 AAGAA-GAAGGAAGAAGAAGAAG-AAGAAAGAAAGAGAGAAGAAGAAAGAAGAAAAAAAAAGAAA
22763010 AAAAAT
64 AAAAAT
22763016 AAGAAGAAGGAAGAAGAAGAAGAAGAAAGAAAGAGAGAAGAAGAAAGAAGAAAAAAAAAGAAAAA
1 AAGAAGAAGGAAGAAGAAGAAGAAGAAAGAAAGAGAGAAGAAGAAAGAAGAAAAAAAAAGAAAAA
22763081 AAA
66 AAA
22763084 ATTTAACAGT
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
68 31 0.47
69 35 0.53
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (69 bp):
AAGAAGAAGGAAGAAGAAGAAGAAGAAAGAAAGAGAGAAGAAGAAAGAAGAAAAAAAAAGAAAAA
AAAT
Found at i:22763084 original size:72 final size:72
Alignment explanation
Indices: 22762944--22763084 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 72
22762934 TTTGAAGAAG
* *
22762944 AAGAAGAAGGAAGAAGAAGAAGAAGAAAGAAAGAAAGAGAGAAGAAGAAAGAAGAAAAAAAAGAA
1 AAGAAGAAGGAAGAAGAAGAAGAAGAAAGAAAGAAAGAGAGAAGAAGAAAGAAAAAAAAAAAAAA
22763009 AAAAAAT
66 AAAAAAT
* *
22763016 AAGAAGAAGGAAGAAGAAGAAGAAGAAAGAAAGAGAGA-AGAAGAA-AGAAGAAAAAAAAAGAAA
1 AAGAAGAAGGAAGAAGAAGAAGAAGAAAGAAAGAAAGAGAGAAGAAGA-AAGAAAAAAAAAAAAA
22763079 AAAAAA
65 AAAAAA
22763085 TTTAACAGTC
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 1 0.02
71 26 0.41
72 37 0.58
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (72 bp):
AAGAAGAAGGAAGAAGAAGAAGAAGAAAGAAAGAAAGAGAGAAGAAGAAAGAAAAAAAAAAAAAA
AAAAAAT
Found at i:22763158 original size:18 final size:18
Alignment explanation
Indices: 22763121--22763163 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
22763111 AACCGGGTAT
* * *
22763121 AACCCGACCCGATCCGGC
1 AACCCAACCCGACCCAGC
22763139 AACCCAACCCGACCCAGC
1 AACCCAACCCGACCCAGC
22763157 AAGCCCA
1 AA-CCCA
22763164 TTAGCCAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.30, C:0.51, G:0.16, T:0.02
Consensus pattern (18 bp):
AACCCAACCCGACCCAGC
Found at i:22763367 original size:23 final size:24
Alignment explanation
Indices: 22763341--22763419 Score: 92
Period size: 23 Copynumber: 3.3 Consensus size: 24
22763331 GCAGCCCAGC
*
22763341 AGAAAAAAAAAGGAAGAAAAA-GA
1 AGAAAAAAAAAAGAAGAAAAAGGA
*
22763364 AGAAAAAAGAAAAAAAGAAAAAAGGA
1 AGAAAAAA-AAAAGAAG-AAAAAGGA
22763390 A-AAAAGAAAAAAGAA-AAAAAGGA
1 AGAAAA-AAAAAAGAAGAAAAAGGA
22763413 AGAAAAA
1 AGAAAAA
22763420 GGGGGTTCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
23 18 0.38
24 10 0.21
25 15 0.31
26 5 0.10
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (24 bp):
AGAAAAAAAAAAGAAGAAAAAGGA
Done.