Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 55 of 198
Found at i:16642176 original size:58 final size:59
Alignment explanation
Indices: 16642076--16642303 Score: 182
Period size: 58 Copynumber: 3.9 Consensus size: 59
16642066 GGCGTATCAG
***
16642076 CGATCATCG-ATCAATGAAAAGGGATAGCTGTGGTTATCGATTATGAAAAGGGATGGTGA
1 CGATCATCGAAT-AATGAAAAGGGATAGCTGTGACCATCGATTATGAAAAGGGATGGTGA
* * * * * **
16642135 CGATCATCGAAT-ATGAAAAGGGATAGCT-TCGGCTATTGATTATGAAAAAGGATAGCTTT
1 CGATCATCGAATAATGAAAAGGGATAGCTGT-GACCATCGATTATGAAAAGGGAT-GGTGA
* * * * * *
16642194 GGCT-ATTG-ATTATGAAAAGGGATAG-TGATGACCATCAACTATGAAAAGGGATGGTGA
1 CGATCATCGAATAATGAAAAGGGATAGCTG-TGACCATCGATTATGAAAAGGGATGGTGA
* * * *
16642251 CGACCATCGATTAATGAAAAGGGATAG-TTTCGACCATCGAATATGAAAAGGGA
1 CGATCATCGAATAATGAAAAGGGATAGCTGT-GACCATCGATTATGAAAAGGGA
16642304 CAGTTACGAC
Statistics
Matches: 133, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
57 7 0.05
58 74 0.56
59 50 0.38
60 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.25
Consensus pattern (59 bp):
CGATCATCGAATAATGAAAAGGGATAGCTGTGACCATCGATTATGAAAAGGGATGGTGA
Found at i:16642263 original size:87 final size:86
Alignment explanation
Indices: 16642080--16642318 Score: 248
Period size: 87 Copynumber: 2.7 Consensus size: 86
16642070 TATCAGCGAT
* * * * *
16642080 CATCGATCAATGAAAAGGGATAGCTGTGGTTATCGATTATGAAAAGGGATGGTGACGATCATCGA
1 CATCGAT-TATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATAGTGACGACCATC-A
* *
16642145 ATATGAAAAGGGATAGCTTCGGC
64 ATATGAAAAGGGATAGCTACGAC
* * * * *
16642168 TATTGATTATGAAAAAGGATAGCTTTGGCTATTGATTATGAAAAGGGATAGTGATGACCATCAAC
1 CATCGATTATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATAGTGACGACCATCAA-
*
16642233 TATGAAAAGGGAT-GGTGACGAC
65 TATGAAAAGGGATAGCT-ACGAC
* * * * *
16642255 CATCGATTAATGAAAAGGGATAG-TTTCGACCATCGAATATGAAAAGGGACAGTTACGACCATCA
1 CATCGATT-ATGAAAAGGGATAGCTTT-GGCTATCGATTATGAAAAGGGATAGTGACGACCATCA
16642319 TTTAGTACAC
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
86 4 0.03
87 72 0.58
88 48 0.39
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (86 bp):
CATCGATTATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATAGTGACGACCATCAAT
ATGAAAAGGGATAGCTACGAC
Found at i:16642308 original size:29 final size:29
Alignment explanation
Indices: 16642111--16642317 Score: 175
Period size: 29 Copynumber: 7.1 Consensus size: 29
16642101 AGCTGTGGTT
* ** *
16642111 ATCGATTATGAAAAGGGATGGTGACGATC
1 ATCGATTATGAAAAGGGATAGTTTCGACC
* * * *
16642140 ATCGAATATGAAAAGGGATAGCTTCGGCT
1 ATCGATTATGAAAAGGGATAGTTTCGACC
* * * *
16642169 ATTGATTATGAAAAAGGATAGCTTT-GGCT
1 ATCGATTATGAAAAGGGATAG-TTTCGACC
* *
16642198 ATTGATTATGAAAAGGGATAGTGAT-GACC
1 ATCGATTATGAAAAGGGATAGT-TTCGACC
* * * **
16642227 ATCAACTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATAGTTTCGACC
16642256 ATCGATTAATGAAAAGGGATAGTTTCGACC
1 ATCGATT-ATGAAAAGGGATAGTTTCGACC
* * *
16642286 ATCGAATATGAAAAGGGACAGTTACGACC
1 ATCGATTATGAAAAGGGATAGTTTCGACC
16642315 ATC
1 ATC
16642318 ATTTAGTACA
Statistics
Matches: 144, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
28 1 0.01
29 116 0.81
30 27 0.19
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATAGTTTCGACC
Found at i:16645817 original size:9 final size:9
Alignment explanation
Indices: 16645803--16645827 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16645793 TGCTTGCTGT
16645803 AGAGAAATA
1 AGAGAAATA
16645812 AGAGAAATA
1 AGAGAAATA
16645821 AGAGAAA
1 AGAGAAA
16645828 ATGATGCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (9 bp):
AGAGAAATA
Found at i:16647858 original size:26 final size:26
Alignment explanation
Indices: 16647828--16647886 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
16647818 GTAAGAGTTT
16647828 TGAAACTGATACATGCTATGATATTC
1 TGAAACTGATACATGCTATGATATTC
* *
16647854 TGAAACTGATATATGTTATGATATTC
1 TGAAACTGATACATGCTATGATATTC
*
16647880 TAAAACT
1 TGAAACT
16647887 ACTGTAGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (26 bp):
TGAAACTGATACATGCTATGATATTC
Found at i:16668887 original size:30 final size:29
Alignment explanation
Indices: 16668821--16668892 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
16668811 ATACTCGAAT
*
16668821 TATGAAAAGGGATGGTGACGACCATCAGC
1 TATGAAAAGGGATGGTGACGACCATAAGC
*
16668850 AATGAAAAGGGATGGTGACGACCATTGAAG-
1 TATGAAAAGGGATGGTGACGACCA-T-AAGC
*
16668880 TATGAAAAAGGAT
1 TATGAAAAGGGAT
16668893 AGCTTCGGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 23 0.62
30 12 0.32
31 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.31, T:0.18
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATAAGC
Found at i:16668962 original size:67 final size:67
Alignment explanation
Indices: 16668854--16668980 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
16668844 ATCAGCAATG
** * **
16668854 AAAAGGGATGGTGACGACCATTGAAGTATGAAAAAGGATAGCTTCGGGTATCGAATTATGAACTA
1 AAAAGGGATGGTGACGACCATCAAAATATGAAAAAGGATAGCTTCGACTATCGAATTATGAACTA
16668919 TA
66 TA
16668921 AAAAGGGATGGTGACGACCATCAAAATATG-AAAAGGTATAGCTTCGACTATCGAATTATG
1 AAAAGGGATGGTGACGACCATCAAAATATGAAAAAGG-ATAGCTTCGACTATCGAATTATG
16668981 GAAAAGGATG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 6 0.11
67 48 0.89
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (67 bp):
AAAAGGGATGGTGACGACCATCAAAATATGAAAAAGGATAGCTTCGACTATCGAATTATGAACTA
TA
Found at i:16675656 original size:40 final size:40
Alignment explanation
Indices: 16675612--16675746 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 40
16675602 GGTTCTGTGC
16675612 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
* * * * *
16675652 CTAGCAGCCTTAATACTGGTAAATTTTTCAGGCTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
* * * * *
16675692 CCAGTAGGCTTAATGCCGATGAATTTTTCAAACTTAATGG
1 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
*
16675732 CTACCAGGCTTAATG
1 CTAGCAGGCTTAATG
16675747 TCGTGTTCTG
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
Found at i:16676176 original size:33 final size:33
Alignment explanation
Indices: 16676139--16676225 Score: 110
Period size: 31 Copynumber: 2.8 Consensus size: 33
16676129 ATTTGTTGAA
*
16676139 TATATACATACATTCGGGTATATGCTCTTGATG
1 TATATACATACATTCGGTTATATGCTCTTGATG
* *
16676172 TATATAAATAC--TCGGTTATATGCTCTTGCTG
1 TATATACATACATTCGGTTATATGCTCTTGATG
*
16676203 TATAT-CA-ATATTCGGTTATATGC
1 TATATACATACATTCGGTTATATGC
16676226 ATTCGAGGAG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
29 1 0.02
30 1 0.02
31 35 0.74
33 10 0.21
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (33 bp):
TATATACATACATTCGGTTATATGCTCTTGATG
Found at i:16676193 original size:31 final size:31
Alignment explanation
Indices: 16676152--16676225 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
16676142 ATACATACAT
*
16676152 TCGGGTATATGCTCTTGATGTATATAAATAC
1 TCGGTTATATGCTCTTGATGTATATAAATAC
* * *
16676183 TCGGTTATATGCTCTTGCTGTATATCAATAT
1 TCGGTTATATGCTCTTGATGTATATAAATAC
16676214 TCGGTTATATGC
1 TCGGTTATATGC
16676226 ATTCGAGGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (31 bp):
TCGGTTATATGCTCTTGATGTATATAAATAC
Found at i:16680544 original size:242 final size:243
Alignment explanation
Indices: 16680113--16680596 Score: 907
Period size: 242 Copynumber: 2.0 Consensus size: 243
16680103 TCATATGAAA
* * *
16680113 AGGTTGATGATTGTGTAATATGTATTATAAAATCCTATTATGTTATGGATGAAAAATATATGTGA
1 AGGTTAATGATTGTGTAATATGTATTATAAAATCCTATTATGTTAAGAATGAAAAATATATGTGA
16680178 TGTTGATGGACTTACTCATTTGTAAGTTGATGGTTATATAGTTTTATAAATCTTATGGCATTGGT
66 TGTTGATGGACTTACTCATTTGTAAGTTGATGGTTATATAGTTTTATAAATCTTATGGCATTGGT
*
16680243 ATAGGTTTATATTTATCCTATAAAGTTCATTATTGAAATGAAATATTATGTTTAAAGTTTATATG
131 ATAGGTTTATATTTATCCTATAAAGTTCATTATTGAAATGAAATATTATGTTTAAAGTTTATATA
16680308 AGCTTACTAAGCATTCATTGCTTATGTAA-TATTTTCCTTTACTTTAT
196 AGCTTACTAAGCATTCATTGCTTATGTAATTATTTTCCTTTACTTTAT
16680355 AGGTTAATGATTGTGTAATATGTATTATAAAATCCTATTATGTTAAGAATGAAAAATATATGTGA
1 AGGTTAATGATTGTGTAATATGTATTATAAAATCCTATTATGTTAAGAATGAAAAATATATGTGA
16680420 TGTTGATGGACTTACTCATTTGTAAGTTGATGGTTATATAGTTTTATAAATCTTATGGCATTGGT
66 TGTTGATGGACTTACTCATTTGTAAGTTGATGGTTATATAGTTTTATAAATCTTATGGCATTGGT
* *
16680485 ATAGGTTTATATTTATTCTATAAAGTTCATTATTGAAATGGAATATTATGTTTAAAGTTTATATA
131 ATAGGTTTATATTTATCCTATAAAGTTCATTATTGAAATGAAATATTATGTTTAAAGTTTATATA
16680550 AGCTTACTAAGCATTCATTGCTTATGTAATTATTTTCCTTTACTTTA
196 AGCTTACTAAGCATTCATTGCTTATGTAATTATTTTCCTTTACTTTA
16680597 CAAATTATCG
Statistics
Matches: 235, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
242 218 0.93
243 17 0.07
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (243 bp):
AGGTTAATGATTGTGTAATATGTATTATAAAATCCTATTATGTTAAGAATGAAAAATATATGTGA
TGTTGATGGACTTACTCATTTGTAAGTTGATGGTTATATAGTTTTATAAATCTTATGGCATTGGT
ATAGGTTTATATTTATCCTATAAAGTTCATTATTGAAATGAAATATTATGTTTAAAGTTTATATA
AGCTTACTAAGCATTCATTGCTTATGTAATTATTTTCCTTTACTTTAT
Found at i:16688852 original size:16 final size:16
Alignment explanation
Indices: 16688831--16688863 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16688821 CCTTTACATA
16688831 GGTGAGGTGATGTGAT
1 GGTGAGGTGATGTGAT
16688847 GGTGAGGTGATGTGAT
1 GGTGAGGTGATGTGAT
16688863 G
1 G
16688864 TACTTTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.52, T:0.30
Consensus pattern (16 bp):
GGTGAGGTGATGTGAT
Found at i:16689236 original size:19 final size:20
Alignment explanation
Indices: 16689194--16689236 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
16689184 TGTGCCTAAT
*
16689194 TTAGTTTTAATTAGATGAAT
1 TTAGTTTTAATTAGATGAAA
16689214 TTAG-TTTAATTTAGA-GAAA
1 TTAGTTTTAA-TTAGATGAAA
16689233 TTAG
1 TTAG
16689237 GAAAAAGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (20 bp):
TTAGTTTTAATTAGATGAAA
Found at i:16689410 original size:20 final size:22
Alignment explanation
Indices: 16689385--16689425 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
16689375 TAAATATATT
16689385 AATATATTAT-TT-TATTATAA
1 AATATATTATATTATATTATAA
16689405 AATATATTATATTATATTATA
1 AATATATTATATTATATTATA
16689426 TTATATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:16689415 original size:5 final size:5
Alignment explanation
Indices: 16689379--16689434 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
16689369 ATGTTTTAAA
*
16689379 TATAT TA-A- TATAT TAT-T T-TAT TATAAAA TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TAT--AT TATAT TATAT TATAT TATAT
16689427 TATAT TAT
1 TATAT TAT
16689435 TATGTAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
3 3 0.07
4 6 0.14
5 30 0.70
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:16694603 original size:19 final size:19
Alignment explanation
Indices: 16694566--16694603 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16694556 CTAATTAAGT
*
16694566 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
16694585 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
16694604 GAAAAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:16695951 original size:14 final size:13
Alignment explanation
Indices: 16695916--16695953 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
16695906 TTTGATTGTA
16695916 AAATGAATTAAA-
1 AAATGAATTAAAT
16695928 AATATGAATTAAAT
1 AA-ATGAATTAAAT
16695942 AAACTGAATTAA
1 AAA-TGAATTAA
16695954 TTTATGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 11 0.48
14 10 0.43
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (13 bp):
AAATGAATTAAAT
Found at i:16696116 original size:17 final size:19
Alignment explanation
Indices: 16696094--16696128 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
16696084 AAAGTGATCT
16696094 TGAATTG-GAAA-TGAAAG
1 TGAATTGTGAAATTGAAAG
16696111 TGAATTGTGAAATTGAAA
1 TGAATTGTGAAATTGAAA
16696129 TACCCTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.29
Consensus pattern (19 bp):
TGAATTGTGAAATTGAAAG
Found at i:16696240 original size:23 final size:22
Alignment explanation
Indices: 16696214--16696299 Score: 63
Period size: 21 Copynumber: 4.0 Consensus size: 22
16696204 ACTTTACCGA
* *
16696214 TCAGGCACTTTATGTGTTGTATT
1 TCAGGCAC-TCATGTGTCGTATT
* *
16696237 TCAGGCACATCCTGTGTTGTA-T
1 TCAGGCAC-TCATGTGTCGTATT
*
16696259 T-AGGCACCTCGTGTGTCG--TT
1 TCAGGCA-CTCATGTGTCGTATT
*
16696279 TCAGGCACTTATGTGTCGTAT
1 TCAGGCACTCATGTGTCGTAT
16696300 ACTGATCAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
20 11 0.22
21 18 0.35
22 4 0.08
23 18 0.35
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (22 bp):
TCAGGCACTCATGTGTCGTATT
Found at i:16696612 original size:18 final size:18
Alignment explanation
Indices: 16696591--16696628 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16696581 TGTTATTGTT
16696591 AATTAA-TGAAACTTTAAG
1 AATTAATTGAAA-TTTAAG
*
16696609 AATTAATTGATATTTAAG
1 AATTAATTGAAATTTAAG
16696627 AA
1 AA
16696629 ATTGGATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (18 bp):
AATTAATTGAAATTTAAG
Found at i:16699820 original size:129 final size:132
Alignment explanation
Indices: 16699579--16699833 Score: 345
Period size: 129 Copynumber: 2.0 Consensus size: 132
16699569 TTTTAGAAAT
* * *
16699579 AAATGCCGCTATAGATCATGACCTTTAGCGGCGCTATTCCCACAAACACCACCGCTATTGATCGG
1 AAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTATTCCCACAAACACCACCGCTATAGATCAG
* * *
16699644 GACCTTTAGCGGCGATTACTCCACAAACGCCGCTATAGATTAGGACCTTTAGCGGCGCTTTTCCC
66 GACCTTTAGCGGCGATTACTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCCC
16699709 AC
131 AC
* * * **
16699711 AAATGCCGCTATTGCTCAGGACCTTTAGCGGCGCTTTTCCCAC-AA-A-CGTCGCTATAGATCAG
1 AAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTATTCCCACAAACACCACCGCTATAGATCAG
* * ** *
16699773 GACCTTTAGCGGTGTTTTTTCCACAAACGCCGCTATAGCTCAAGACCTTTAGCGACGCTTT
66 GACCTTTAGCGGCGATTACTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTT
16699834 GATTACAAAC
Statistics
Matches: 107, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
129 65 0.61
130 1 0.01
131 2 0.02
132 39 0.36
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (132 bp):
AAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTATTCCCACAAACACCACCGCTATAGATCAG
GACCTTTAGCGGCGATTACTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCCC
AC
Found at i:16699850 original size:43 final size:43
Alignment explanation
Indices: 16699583--16699833 Score: 297
Period size: 43 Copynumber: 5.8 Consensus size: 43
16699573 AGAAATAAAT
* *
16699583 GCCGCTATAGATCATGACCTTTAGCGGCGCTATTCCCACAAACACC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC-AA-A-C
* * * * *
16699629 ACCGCTATTGATCGGGACCTTTAGCGGCG-ATTACTCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTC-CCACAAAC
* *
16699672 GCCGCTATAGATTAGGACCTTTAGCGGCGCTTTTCCCACAAAT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
16699715 GCCGCTATTGCTCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
16699758 GTCGCTATAGATCAGGACCTTTAGCGGTGTTTTTTCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
16699801 GCCGCTATAGCTCAAGACCTTTAGCGACGCTTT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTT
16699834 GATTACAAAC
Statistics
Matches: 173, Mismatches: 30, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
43 136 0.79
44 4 0.02
45 4 0.02
46 29 0.17
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (43 bp):
GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:16704856 original size:7 final size:7
Alignment explanation
Indices: 16704844--16704924 Score: 67
Period size: 7 Copynumber: 11.3 Consensus size: 7
16704834 ACTAGTTAAT
16704844 CTAAACC
1 CTAAACC
16704851 CTAAACC
1 CTAAACC
*
16704858 ATAAA-C
1 CTAAACC
*
16704864 CTAATCC
1 CTAAACC
16704871 CTAAAACC
1 CT-AAACC
16704879 CTAAAACC
1 CT-AAACC
*
16704887 ATAAA-C
1 CTAAACC
*
16704893 CTAATCC
1 CTAAACC
16704900 CTAAAACC
1 CT-AAACC
16704908 CTAAAACC
1 CT-AAACC
*
16704916 ATAAACC
1 CTAAACC
16704923 CT
1 CT
16704925 TAACACATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
6 8 0.13
7 26 0.43
8 26 0.43
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:16704864 original size:14 final size:14
Alignment explanation
Indices: 16704845--16705020 Score: 99
Period size: 14 Copynumber: 12.3 Consensus size: 14
16704835 CTAGTTAATC
16704845 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
16704859 TAAA-CCTAATCCC
1 TAAACCCTAAACCA
16704872 TAAAACCCTAAAACCA
1 T-AAACCCT-AAACCA
* *
16704888 TAAA-CCTAATCCC
1 TAAACCCTAAACCA
16704901 TAAAACCCTAAAACCA
1 T-AAACCCT-AAACCA
*
16704917 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
* *
16704932 T-AACCTTTAAACCT
1 TAAACC-CTAAACCA
* * *
16704946 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
* *
16704960 TAAACCATAAATCA
1 TAAACCCTAAACCA
*
16704974 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
16704988 TAATCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
16705003 TAATCCATAAACCT
1 TAAACCCTAAACCA
16705017 TAAA
1 TAAA
16705021 ATGGTAACAC
Statistics
Matches: 124, Mismatches: 26, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
13 16 0.13
14 56 0.45
15 42 0.34
16 10 0.08
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:16704882 original size:8 final size:8
Alignment explanation
Indices: 16704869--16704924 Score: 57
Period size: 8 Copynumber: 7.5 Consensus size: 8
16704859 TAAACCTAAT
16704869 CCCTAAAA
1 CCCTAAAA
16704877 CCCTAAAA
1 CCCTAAAA
*
16704885 CCAT-AAA
1 CCCTAAAA
*
16704892 -CCT-AAT
1 CCCTAAAA
16704898 CCCTAAAA
1 CCCTAAAA
16704906 CCCTAAAA
1 CCCTAAAA
*
16704914 CCAT-AAA
1 CCCTAAAA
16704921 CCCT
1 CCCT
16704925 TAACACATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
6 4 0.10
7 12 0.30
8 24 0.60
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (8 bp):
CCCTAAAA
Found at i:16704891 original size:29 final size:29
Alignment explanation
Indices: 16704846--16704922 Score: 147
Period size: 29 Copynumber: 2.7 Consensus size: 29
16704836 TAGTTAATCT
16704846 AAACCCT-AAACCATAAACCTAATCCCTA
1 AAACCCTAAAACCATAAACCTAATCCCTA
16704874 AAACCCTAAAACCATAAACCTAATCCCTA
1 AAACCCTAAAACCATAAACCTAATCCCTA
16704903 AAACCCTAAAACCATAAACC
1 AAACCCTAAAACCATAAACC
16704923 CTTAACACAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.15
29 41 0.85
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (29 bp):
AAACCCTAAAACCATAAACCTAATCCCTA
Found at i:16704970 original size:7 final size:7
Alignment explanation
Indices: 16704960--16705020 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
16704950 CCCCAGCCTT
16704960 TAAACCA
1 TAAACCA
*
16704967 TAAATCA
1 TAAACCA
16704974 TAAACCA
1 TAAACCA
16704981 TAAACCA
1 TAAACCA
* *
16704988 TAATCCC
1 TAAACCA
16704995 TAAACCCA
1 TAAA-CCA
*
16705003 TAATCCA
1 TAAACCA
*
16705010 TAAACCT
1 TAAACCA
16705017 TAAA
1 TAAA
16705021 ATGGTAACAC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 39 0.89
8 5 0.11
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:16705005 original size:15 final size:15
Alignment explanation
Indices: 16704972--16705015 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
16704962 AACCATAAAT
*
16704972 CATAAACCATAAA-C
1 CATAATCCATAAACC
*
16704986 CATAATCCCTAAACC
1 CATAATCCATAAACC
16705001 CATAATCCATAAACC
1 CATAATCCATAAACC
16705016 TTAAAATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:16705060 original size:14 final size:14
Alignment explanation
Indices: 16705041--16705074 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16705031 CTAAACCTAT
*
16705041 CTAAACCAAATACC
1 CTAAACCAAAAACC
*
16705055 CTAAACCAAAAATC
1 CTAAACCAAAAACC
16705069 CTAAAC
1 CTAAAC
16705075 TATAGTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (14 bp):
CTAAACCAAAAACC
Found at i:16705329 original size:40 final size:41
Alignment explanation
Indices: 16705280--16705456 Score: 200
Period size: 41 Copynumber: 4.3 Consensus size: 41
16705270 TGCTCTTCAG
** *
16705280 AAAACGCCGCTAAA-AATAGAGCATTAGCGGCGCTTTTCCA
1 AAAACGCCGCTAAACCCTAGAGCATTAGCGGCGCTTTCCCA
* * *
16705320 AAAATGCCGCTAAAGCCCT-GAGTATTAGCAGCGCTTTCCCA
1 AAAACGCCGCTAAA-CCCTAGAGCATTAGCGGCGCTTTCCCA
* *
16705361 AAAACTCTGCTAAAGCCCTA-AGCATTAGCGGCGCTTTCCCA
1 AAAACGCCGCTAAA-CCCTAGAGCATTAGCGGCGCTTTCCCA
* * *
16705402 AAAACGCCGCTAAAGCCCT-GAGCATTAGTGGCGCTTTCTCT
1 AAAACGCCGCTAAA-CCCTAGAGCATTAGCGGCGCTTTCCCA
16705443 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
16705457 TCCCCGAAAC
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 13 0.11
41 103 0.88
42 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAACCCTAGAGCATTAGCGGCGCTTTCCCA
Found at i:16705354 original size:41 final size:41
Alignment explanation
Indices: 16705298--16705456 Score: 228
Period size: 41 Copynumber: 3.9 Consensus size: 41
16705288 GCTAAAAATA
* *
16705298 GAGCATTAGCGGCGCTTTTCCAAAAATGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
* * * *
16705339 GAGTATTAGCAGCGCTTTCCCAAAAACTCTGCTAAAGCCCT
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
*
16705380 AAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
* * *
16705421 GAGCATTAGTGGCGCTTTCTCTAAAACGCCGCTAAA
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA
16705457 TCCCCGAAAC
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 103 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
Found at i:16705619 original size:42 final size:42
Alignment explanation
Indices: 16705563--16705642 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
16705553 TAAAGCGCCT
* ** *
16705563 CTAAAGCTTGATCTTTAGTGGCGTTTTTATCCAAACGCACCA
1 CTAAAGCTCGATCTTTAGCAGCATTTTTATCCAAACGCACCA
* *
16705605 CTAATGCTCGATCTTTAGCAGTATTTTTATCCAAACGC
1 CTAAAGCTCGATCTTTAGCAGCATTTTTATCCAAACGC
16705643 CGCTAAAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (42 bp):
CTAAAGCTCGATCTTTAGCAGCATTTTTATCCAAACGCACCA
Found at i:16710292 original size:32 final size:32
Alignment explanation
Indices: 16710251--16710319 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
16710241 TCTGATAATA
16710251 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
16710283 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
16710315 ACATG
1 ACATG
16710320 GGATGTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (32 bp):
ACATGCTAAAGCCATGTCCTAGACATGGCCTT
Found at i:16710410 original size:50 final size:50
Alignment explanation
Indices: 16710293--16710532 Score: 173
Period size: 50 Copynumber: 4.7 Consensus size: 50
16710283 ACATGCTAAA
* ** * * * *
16710293 GCCATGTCCTAGACATGGCCTTACATGGGATGTTTCTTGTAC--TTCCAAT
1 GCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAT-CGGTGCCAAT
* * * ** *
16710342 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
** **
16710392 GCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCCCGGTGCCAACT
1 GCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAA-T
* *
16710443 -CCATGT-CTCAGACATGGTCTTACATGAGACCTCTCATAACCTCAATGATGCCAAT
1 GCCATGTCCT-AGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAAT
* * *
16710498 TCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCTAGACATGGTCTTACATGGGACCTCT
16710533 TTACCCAAAT
Statistics
Matches: 149, Mismatches: 30, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
48 1 0.01
49 33 0.22
50 75 0.50
51 1 0.01
53 1 0.01
55 1 0.01
56 36 0.24
57 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
GCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
Found at i:16717929 original size:50 final size:50
Alignment explanation
Indices: 16717855--16718040 Score: 174
Period size: 50 Copynumber: 3.6 Consensus size: 50
16717845 TCTTGTACTT
* * * * **
16717855 CCAATGCCATATCCCATATATGGTCTTACATGAGAGTTCTCATATTGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATTGGTG
* * * * * * *
16717905 CCCATGCCATGTCTCAGACATGGTCTTATAGGGGACCTCTCATCTTGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATTGGTG
*
16717955 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACTTCAATGATG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--T---TGGTG
**
16718011 CCAATTCCATGTCCCAGACATGGTCTTACA
1 CCAACGCCATGTCCCAGACATGGTCTTACA
16718041 AGGGATCTCT
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
50 76 0.70
53 1 0.01
56 32 0.29
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATTGGTG
Found at i:16727697 original size:24 final size:24
Alignment explanation
Indices: 16727649--16727699 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
16727639 CGGTCAATTG
* * *
16727649 TACTTCTACATTTGCTGCTACGTC
1 TACTTCTACATCTACTACTACGTC
*
16727673 TACTTCTACATCTACTACTATGTC
1 TACTTCTACATCTACTACTACGTC
16727697 TAC
1 TAC
16727700 AACTAAGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.29, G:0.08, T:0.41
Consensus pattern (24 bp):
TACTTCTACATCTACTACTACGTC
Found at i:16732742 original size:24 final size:24
Alignment explanation
Indices: 16732697--16732742 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
16732687 AACAAAATAA
**
16732697 AATAACATAAAGTGACTTGAAATT
1 AATAACATAAAGTGACGAGAAATT
* *
16732721 AATAACATTAAGTGCCGAGAAA
1 AATAACATAAAGTGACGAGAAA
16732743 ACTCTAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.24
Consensus pattern (24 bp):
AATAACATAAAGTGACGAGAAATT
Found at i:16734319 original size:26 final size:26
Alignment explanation
Indices: 16734285--16734350 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
16734275 TAAATTTAAT
*
16734285 TTTTTTATTTATAAAGTTTTA-AAATA
1 TTTTATATTT-TAAAGTTTTATAAATA
* * *
16734311 TTTTATATTTTATATTTTTATGAATA
1 TTTTATATTTTAAAGTTTTATAAATA
16734337 TTTTATATTTTAAA
1 TTTTATATTTTAAA
16734351 ATATTACTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 8 0.24
26 26 0.76
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTTATATTTTAAAGTTTTATAAATA
Found at i:16734320 original size:7 final size:7
Alignment explanation
Indices: 16734308--16734348 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
16734298 AAGTTTTAAA
16734308 ATATTTT
1 ATATTTT
16734315 ATATTTT
1 ATATTTT
16734322 ATATTTT
1 ATATTTT
**
16734329 -TA-TGA
1 ATATTTT
16734334 ATATTTT
1 ATATTTT
16734341 ATATTTT
1 ATATTTT
16734348 A
1 A
16734349 AAATATTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
5 1 0.04
6 4 0.14
7 23 0.82
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (7 bp):
ATATTTT
Found at i:16734321 original size:17 final size:19
Alignment explanation
Indices: 16734315--16734355 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
16734305 AAAATATTTT
*
16734315 ATATTTTATATTTTTATGA
1 ATATTTTATATTTTTATAA
16734334 ATATTTTATA-TTTTA-AA
1 ATATTTTATATTTTTATAA
16734351 ATATT
1 ATATT
16734356 ACTAAATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 5 0.24
19 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
ATATTTTATATTTTTATAA
Found at i:16734631 original size:2 final size:2
Alignment explanation
Indices: 16734624--16734659 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16734614 GAATATGTAT
16734624 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
16734660 ATATTAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16737757 original size:14 final size:16
Alignment explanation
Indices: 16737730--16737761 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
16737720 TCTAAAACTT
16737730 AAAAATGATCAAATTA
1 AAAAATGATCAAATTA
16737746 AAAAAT-AT-AAATTA
1 AAAAATGATCAAATTA
16737760 AA
1 AA
16737762 TTACTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAAATGATCAAATTA
Found at i:16740987 original size:10 final size:10
Alignment explanation
Indices: 16740958--16740987 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
16740948 ATTCATTATC
16740958 CTCAAAACCT
1 CTCAAAACCT
16740968 CTCAACAACCT
1 CTCAA-AACCT
16740979 CTCAAAACC
1 CTCAAAACC
16740988 CCTAAACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (10 bp):
CTCAAAACCT
Found at i:16743444 original size:17 final size:17
Alignment explanation
Indices: 16743432--16743465 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16743422 AGAAATTATT
16743432 ATGGTAGAAAAATCTAA
1 ATGGTAGAAAAATCTAA
16743449 ATGGTAGAAAAATCTAA
1 ATGGTAGAAAAATCTAA
16743466 GTTCTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (17 bp):
ATGGTAGAAAAATCTAA
Found at i:16744681 original size:35 final size:34
Alignment explanation
Indices: 16744634--16744899 Score: 111
Period size: 35 Copynumber: 7.4 Consensus size: 34
16744624 GATTCGTTTG
* *
16744634 ACTAGTGCTGGGCACAAATCTCGTTGGTTTATCCA
1 ACTAGAGCTGGGCACAAAT-TCGTCGGTTTATCCA
* * * **
16744669 ACTAGAGTTGGGCTCACTAATTATTTCATCAGTTTATCTG
1 ACTAGAGCTGGG--CAC-AA--A-TTCGTCGGTTTATCCA
* * *
16744709 ACTAGTGCTAGGCACACATTCGTCGGTTTATCCA
1 ACTAGAGCTGGGCACAAATTCGTCGGTTTATCCA
* * * * *
16744743 ACTAGCGTTGGGCGCAAATATTGTTGGTTTATCCA
1 ACTAGAGCTGGGCACAAAT-TCGTCGGTTTATCCA
* *
16744778 ACTAGAGCTGGGCTCACTAATTATTTCATCGGTTTATCCG
1 ACTAGAGCTGGG--CAC-AA--A-TTCGTCGGTTTATCCA
** * * **
16744818 ACTAGCA-CTGGGTGCAACTTCCGTCAGTTTATCTG
1 ACTAG-AGCTGGGCACAAATT-CGTCGGTTTATCCA
* * * ** **
16744853 ACTAGTGTTGGGCACACATTTATCGGTTTATCTG
1 ACTAGAGCTGGGCACAAATTCGTCGGTTTATCCA
16744887 ACTAGAGCTGGGC
1 ACTAGAGCTGGGC
16744900 GTAAACTCAT
Statistics
Matches: 169, Mismatches: 46, Indels: 33
0.68 0.19 0.13
Matches are distributed among these distances:
34 50 0.30
35 58 0.34
37 8 0.05
38 8 0.05
40 42 0.25
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (34 bp):
ACTAGAGCTGGGCACAAATTCGTCGGTTTATCCA
Found at i:16744881 original size:109 final size:109
Alignment explanation
Indices: 16744632--16744899 Score: 317
Period size: 109 Copynumber: 2.5 Consensus size: 109
16744622 TCGATTCGTT
* * * *
16744632 TGACTAGTGCTGGGCACAAATCTCGTTGGTTTATCCAACTAGAGTTGGGCTCACTAATTATTTCA
1 TGACTAGTGTTGGGCACAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTTCA
* ** *
16744697 TCAGTTTATCTGACTAGTGCTAGGCACACATTCGTCGGTTTATC
66 TCAGTTTATCCGACTAGCACTAGGCACACATTCGTCAGTTTATC
** * *
16744741 CAACTAGCGTTGGGCGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTTCA
1 TGACTAGTGTTGGGCACAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTTCA
* *
16744806 TCGGTTTATCCGACTAGCACTGGGTGCA-AC-TTCCGTCAGTTTATC
66 TCAGTTTATCCGACTAGCACT-AG-GCACACATT-CGTCAGTTTATC
* * * **
16744851 TGACTAGTGTTGGGCACACAT-TTATCGGTTTATCTGACTAGAGCTGGGC
1 TGACTAGTGTTGGGCACAAATATTGTTGGTTTATCCAACTAGAGCTGGGC
16744900 GTAAACTCAT
Statistics
Matches: 133, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
109 100 0.75
110 30 0.23
111 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (109 bp):
TGACTAGTGTTGGGCACAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTTCA
TCAGTTTATCCGACTAGCACTAGGCACACATTCGTCAGTTTATC
Found at i:16760714 original size:38 final size:38
Alignment explanation
Indices: 16760672--16760748 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
16760662 GGACAACATA
16760672 TAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTTT
1 TAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTTT
16760710 TAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTTT
1 TAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTTT
16760748 T
1 T
16760749 TTGGAAAGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (38 bp):
TAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTTT
Found at i:16762199 original size:33 final size:33
Alignment explanation
Indices: 16762157--16762224 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
16762147 AAAAGAAGTG
*
16762157 ATCAAATGGTTAGATGCAGGAATCATCTATCCT
1 ATCAAATGGTTAGATGCAGGAATAATCTATCCT
*
16762190 ATCAAATGGTTAGATGTAGGAATAATCTATCCT
1 ATCAAATGGTTAGATGCAGGAATAATCTATCCT
16762223 AT
1 AT
16762225 TTCAGATAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (33 bp):
ATCAAATGGTTAGATGCAGGAATAATCTATCCT
Found at i:16769063 original size:38 final size:37
Alignment explanation
Indices: 16768994--16769066 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
16768984 TTTTCATAAT
* *
16768994 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
16769031 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
16769067 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:16769097 original size:23 final size:22
Alignment explanation
Indices: 16769054--16769097 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
16769044 TTTCAAGTCA
16769054 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
16769077 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
16769098 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:16769227 original size:45 final size:45
Alignment explanation
Indices: 16769157--16769335 Score: 254
Period size: 45 Copynumber: 4.0 Consensus size: 45
16769147 AACAGATACA
* * * * **
16769157 CGGTGG-ATCTGCACACAGC-ACCACCTTTATAGTCAATGATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
16769200 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
*
16769245 CGGTGGAATCAGTACATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
* * *
16769290 CAGTGGAATCATCACATAGCAACCACCTTTATAATTAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
16769335 C
1 C
16769336 AATTTACCCG
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
43 6 0.05
44 11 0.09
45 106 0.86
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
Found at i:16773565 original size:38 final size:37
Alignment explanation
Indices: 16773496--16773568 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
16773486 TTTTCATAAT
* *
16773496 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
16773533 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
16773569 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:16773599 original size:23 final size:22
Alignment explanation
Indices: 16773556--16773599 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
16773546 TTTCAAGTCA
16773556 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
16773579 ATATTCACTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
16773600 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:16773794 original size:44 final size:45
Alignment explanation
Indices: 16773685--16773810 Score: 193
Period size: 44 Copynumber: 2.8 Consensus size: 45
16773675 TGATGGATCG
* * * *
16773685 GCACACAGC-ACCACCGTTATAGTCAATGGTACCCAGTGGAATCA
1 GCACATAGCAACCACCTTTATAATCAATGGTACCCGGTGGAATCA
*
16773729 GCACATAGCAAGCACCTTTATAATCAATGGTACCCGGTGGAATCA
1 GCACATAGCAACCACCTTTATAATCAATGGTACCCGGTGGAATCA
16773774 G-ACATAGCAACCACCTTTATAATCAATGGTACCCGGT
1 GCACATAGCAACCACCTTTATAATCAATGGTACCCGGT
16773811 ACACGTAGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
44 43 0.57
45 32 0.43
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (45 bp):
GCACATAGCAACCACCTTTATAATCAATGGTACCCGGTGGAATCA
Found at i:16776722 original size:26 final size:27
Alignment explanation
Indices: 16776693--16776765 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
16776683 TAACGCATCG
16776693 AAGCTACCAGTAACAGTA-ATGCAGCA
1 AAGCTACCAGTAACAGTATATGCAGCA
**
16776719 AAGCTACCAGTAACAGTATATGTGGCA
1 AAGCTACCAGTAACAGTATATGCAGCA
* *
16776746 TAGCCACCAGT-ACAGTATAT
1 AAGCTACCAGTAACAGTATAT
16776766 TTCCCCTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 27 0.64
27 15 0.36
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (27 bp):
AAGCTACCAGTAACAGTATATGCAGCA
Found at i:16777331 original size:27 final size:27
Alignment explanation
Indices: 16776925--16777329 Score: 452
Period size: 27 Copynumber: 15.0 Consensus size: 27
16776915 AGGGGTATAA
* *
16776925 CGGTCATTTTACCCTATAG-GGGTATTT
1 CGGTAATTTTACCCT-TCGAGGGTATTT
* * * *
16776952 CGATCATTTTATCCTTCGGGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
* * *
16776979 CAGTTATTTTACCCTTTGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
*
16777006 CAGTAATTTTACCCTTCGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
* *
16777033 CGATAATTTTACCCTTTGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
*
16777060 CAGTAATTTTACCCTTCGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
* * *
16777087 CGGTAACTTAACCATTCGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
* * *
16777114 CGATAATTTTACCCTTCAAGAGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
* * *
16777141 TGGTAGTTTTACCCTTTGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
* * *
16777168 CAGTTATTTTGCCCTTCGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
* * **
16777195 CGATCATTTTACCCTTTTAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
16777222 CGGTAATTTTACCCTTCGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
* * *
16777249 CGGTAACTTAACCATTCGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
* * *
16777276 TGGTAGTTTTACCCTTTGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
***
16777303 TAATAATTTTACCCTTCGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
16777330 TAGTCCCATT
Statistics
Matches: 315, Mismatches: 62, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 2 0.01
27 313 0.99
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
CGGTAATTTTACCCTTCGAGGGTATTT
Found at i:16785412 original size:10 final size:10
Alignment explanation
Indices: 16785370--16785421 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
16785360 AAATCTGAAG
16785370 AAATTAAATAA
1 AAATTAAAT-A
*
16785381 AAATT-TATGA
1 AAATTAAAT-A
*
16785391 AAATTTATATA
1 AAA-TTAAATA
16785402 AAATTAAATA
1 AAATTAAATA
16785412 AAATTAAATA
1 AAATTAAATA
16785422 TGTTAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 22 0.61
11 11 0.31
12 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
AAATTAAATA
Found at i:16785422 original size:22 final size:22
Alignment explanation
Indices: 16785370--16785422 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
16785360 AAATCTGAAG
*
16785370 AAATTAAATA-AAAATTTATGA
1 AAATTAAATATAAAATTAATGA
*
16785391 AAATT-TATATAAAATTAAAT-A
1 AAATTAAATATAAAATT-AATGA
16785412 AAATTAAATAT
1 AAATTAAATAT
16785423 GTTAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATTAAATATAAAATTAATGA
Found at i:16789226 original size:40 final size:40
Alignment explanation
Indices: 16789176--16789251 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
16789166 GTTTGGATGA
* *
16789176 AAAACGCCGCTAAAGATCGAGCATTAGTGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATAGAGCATTAGCGGCGCTTTTTGG
*
16789216 AAAACGCCGCTAAAGATAGAGCTTTAGCGGCGCTTT
1 AAAACGCCGCTAAAGATAGAGCATTAGCGGCGCTTT
16789252 ACAGAAAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATAGAGCATTAGCGGCGCTTTTTGG
Found at i:16789407 original size:39 final size:39
Alignment explanation
Indices: 16789350--16789578 Score: 161
Period size: 41 Copynumber: 5.9 Consensus size: 39
16789340 TTCCGGGGAT
* * *
16789350 TTAGCGGCGTTTTAGAGAAAGTGCCGCTAATGCTCAGGG
1 TTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGG
* *
16789389 TTAGCGGCATTTTTGAGAAAGCGCCGGTAATGCTCAGGACT
1 TTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGG--G
* *
16789430 TTAGCGGCATTTTT-AGGAAAGCACCGGTAATGCTCAGGG
1 TTAGCGGCATTTTTGA-GAAAGCGCCGCTAATGCTCAGGG
* *
16789469 CTTTAGCGGCGTTTTCTGA-AGAGCGCCGCTAATG--C----
1 --TTAGCGGCATTTT-TGAGAAAGCGCCGCTAATGCTCAGGG
* * * *
16789504 TTAGCGGCGTTTTTGGGAAAGCACCGGTAATGCTCAGGG
1 TTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGG
* * * *
16789543 CTTTAGCGGCGTATTCTGA-AGAGCGCCGCAAATGCT
1 --TTAGCGGCAT-TTTTGAGAAAGCGCCGCTAATGCT
16789579 TAGGAATTTA
Statistics
Matches: 152, Mismatches: 21, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
32 2 0.01
33 25 0.16
35 1 0.01
39 35 0.23
40 1 0.01
41 82 0.54
42 5 0.03
43 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (39 bp):
TTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGG
Found at i:16789450 original size:41 final size:39
Alignment explanation
Indices: 16789349--16789552 Score: 174
Period size: 41 Copynumber: 5.2 Consensus size: 39
16789339 GTTCCGGGGA
* * * *
16789349 TTTAGCGGCGTTTTAGAGAAAGTGCCGCTAATGCTCAGG-
1 TTTAGCGGCATTTTTG-GAAAGCGCCGGTAATGCTCAGGC
*
16789388 GTTAGCGGCATTTTTGAGAAAGCGCCGGTAATGCTCAGGAC
1 TTTAGCGGCATTTTTG-GAAAGCGCCGGTAATGCTCAGG-C
*
16789429 TTTAGCGGCATTTTTAGGAAAGCACCGGTAATGCTCAGGGC
1 TTTAGCGGCATTTTT-GGAAAGCGCCGGTAATGCTCA-GGC
* *
16789470 TTTAGCGGCGTTTTCT-GAAGAGCGCCGCTAA---T---GC
1 TTTAGCGGCATTTT-TGGAA-AGCGCCGGTAATGCTCAGGC
* *
16789504 -TTAGCGGCGTTTTTGGGAAAGCACCGGTAATGCTCAGGGC
1 TTTAGCGGCATTTTT-GGAAAGCGCCGGTAATGCTCA-GGC
16789544 TTTAGCGGC
1 TTTAGCGGC
16789553 GTATTCTGAA
Statistics
Matches: 137, Mismatches: 12, Indels: 30
0.77 0.07 0.17
Matches are distributed among these distances:
32 1 0.01
33 22 0.16
34 5 0.04
36 1 0.01
38 1 0.01
39 34 0.25
40 5 0.04
41 64 0.47
42 4 0.03
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (39 bp):
TTTAGCGGCATTTTTGGAAAGCGCCGGTAATGCTCAGGC
Found at i:16789523 original size:74 final size:74
Alignment explanation
Indices: 16789430--16789581 Score: 268
Period size: 74 Copynumber: 2.1 Consensus size: 74
16789420 GCTCAGGACT
*
16789430 TTAGCGGCATTTTTAGGAAAGCACCGGTAATGCTCAGGGCTTTAGCGGCGTTTTCTGAAGAGCGC
1 TTAGCGGCATTTTTAGGAAAGCACCGGTAATGCTCAGGGCTTTAGCGGCGTATTCTGAAGAGCGC
*
16789495 CGCTAATGC
66 CGCAAATGC
* *
16789504 TTAGCGGCGTTTTTGGGAAAGCACCGGTAATGCTCAGGGCTTTAGCGGCGTATTCTGAAGAGCGC
1 TTAGCGGCATTTTTAGGAAAGCACCGGTAATGCTCAGGGCTTTAGCGGCGTATTCTGAAGAGCGC
16789569 CGCAAATGC
66 CGCAAATGC
16789578 TTAG
1 TTAG
16789582 GAATTTAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (74 bp):
TTAGCGGCATTTTTAGGAAAGCACCGGTAATGCTCAGGGCTTTAGCGGCGTATTCTGAAGAGCGC
CGCAAATGC
Found at i:16789535 original size:33 final size:33
Alignment explanation
Indices: 16789471--16789537 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
16789461 GCTCAGGGCT
*
16789471 TTAGCGGCGTTTTCTGAAGAGCGCCGCTAATGC
1 TTAGCGGCGTTTTCTGAAGAGCACCGCTAATGC
*
16789504 TTAGCGGCGTTTT-TGGGAA-AGCACCGGTAATGC
1 TTAGCGGCGTTTTCT--GAAGAGCACCGCTAATGC
16789537 T
1 T
16789538 CAGGGCTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 1 0.03
33 26 0.87
34 3 0.10
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.28
Consensus pattern (33 bp):
TTAGCGGCGTTTTCTGAAGAGCACCGCTAATGC
Found at i:16789855 original size:75 final size:74
Alignment explanation
Indices: 16789765--16789947 Score: 305
Period size: 75 Copynumber: 2.4 Consensus size: 74
16789755 TATCACTATA
*
16789765 GTTTAGGGTTTTTGGTTTAGGATATATGGTTTAGATAGGTTTAGGTGTTACCATTTTAAGGTTTA
1 GTTTAGGGTTATTGGTTTAGG-TATATGGTTTAGATAGGTTTAGGTGTTACCATTTTAAGGTTTA
16789830 TGGATTATGG
65 TGGATTATGG
16789840 GTTTAGGGTTATTGGTTTAGGGTATATGGTTTAGATAGGTTTAGGTGTTACCATTTTAAGGTTTA
1 GTTTAGGGTTATTGGTTTA-GGTATATGGTTTAGATAGGTTTAGGTGTTACCATTTTAAGGTTTA
16789905 TGGATTATGG
65 TGGATTATGG
*
16789915 GTTTAGGGATTA-TGGTTTATGGTTTATGGTTTA
1 GTTTAGGG-TTATTGGTTTA-GGTATATGGTTTA
16789948 TGGTTTAAAG
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
75 98 0.95
76 5 0.05
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (74 bp):
GTTTAGGGTTATTGGTTTAGGTATATGGTTTAGATAGGTTTAGGTGTTACCATTTTAAGGTTTAT
GGATTATGG
Found at i:16789912 original size:7 final size:7
Alignment explanation
Indices: 16789894--16790040 Score: 84
Period size: 7 Copynumber: 20.6 Consensus size: 7
16789884 GTGTTACCAT
*
16789894 TTTAAGG
1 TTTATGG
16789901 TTTATGG
1 TTTATGG
*
16789908 ATTATGGG
1 TTTAT-GG
*
16789916 TTTAGGG
1 TTTATGG
*
16789923 ATTATGG
1 TTTATGG
16789930 TTTATGG
1 TTTATGG
16789937 TTTATGG
1 TTTATGG
16789944 TTTATGG
1 TTTATGG
*
16789951 TTTAAAGG
1 TTT-ATGG
**
16789959 -TTGGGG
1 TTTATGG
*
16789965 TTTAAGG
1 TTTATGG
*
16789972 TTTAGAGG
1 TTTA-TGG
16789980 TTATAT-G
1 TT-TATGG
* *
16789987 TTAAGGG
1 TTTATGG
16789994 TTTATGG
1 TTTATGG
*
16790001 TTTTAGGG
1 -TTTATGG
*
16790009 TTTTAAGG
1 -TTTATGG
*
16790017 ATTA-GG
1 TTTATGG
16790023 TTTATGG
1 TTTATGG
*
16790030 TTTAGGG
1 TTTATGG
16790037 TTTA
1 TTTA
16790041 GATTAATTAG
Statistics
Matches: 110, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
6 8 0.07
7 74 0.67
8 26 0.24
9 2 0.02
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:16789951 original size:14 final size:14
Alignment explanation
Indices: 16789765--16790040 Score: 123
Period size: 14 Copynumber: 18.9 Consensus size: 14
16789755 TATCACTATA
*
16789765 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
* *
16789779 GTTTAGGATATATG
1 GTTTAGGGTTTATG
16789793 GTTTAGATAGGTTTA-G
1 GTTTAG---GGTTTATG
*** *
16789809 GTGTTACCATTTTAAG
1 GT-TTA-GGGTTTATG
* *
16789825 GTTTATGGATTATGG
1 GTTTAGGGTTTAT-G
16789840 GTTTAGGG-TTATTG
1 GTTTAGGGTTTA-TG
*
16789854 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
16789868 GTTTAGATAGGTTTA-G
1 GTTTAG---GGTTTATG
*** *
16789884 GTGTTACCATTTTAAG
1 GT-TTA-GGGTTTATG
* *
16789900 GTTTATGGATTATGG
1 GTTTAGGGTTTAT-G
*
16789915 GTTTAGGGATTATG
1 GTTTAGGGTTTATG
*
16789929 GTTTATGGTTTATG
1 GTTTAGGGTTTATG
* *
16789943 GTTTATGGTTTAAAG
1 GTTTAGGGTTT-ATG
* *
16789958 G-TTGGGGTTTAAG
1 GTTTAGGGTTTATG
16789971 GTTTAGAGGTTATAT-
1 GTTTAG-GGTT-TATG
*
16789986 GTTAAGGGTTTATG
1 GTTTAGGGTTTATG
*
16790000 GTTTTAGGGTTTTAAG
1 G-TTTAGGG-TTTATG
*
16790016 GATTA-GGTTTATG
1 GTTTAGGGTTTATG
16790029 GTTTAGGGTTTA
1 GTTTAGGGTTTA
16790041 GATTAATTAG
Statistics
Matches: 200, Mismatches: 38, Indels: 48
0.70 0.13 0.17
Matches are distributed among these distances:
13 16 0.08
14 90 0.45
15 59 0.29
16 20 0.10
17 15 0.08
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:16789960 original size:29 final size:29
Alignment explanation
Indices: 16789897--16790040 Score: 116
Period size: 29 Copynumber: 5.0 Consensus size: 29
16789887 TTACCATTTT
* * *
16789897 AAGGTTTATGGATTATGGGTTTAGGGATT-
1 AAGGTTTAGGGTTTAT-GGTTTAGGGTTTA
* * *
16789926 ATGGTTTATGGTTTATGGTTTATGGTTTA
1 AAGGTTTAGGGTTTATGGTTTAGGGTTTA
* *
16789955 AAGG-TTGGGGTTTAAGGTTTAGAGG-TTA
1 AAGGTTTAGGGTTTATGGTTTAG-GGTTTA
* * * *
16789983 TATGTTAAGGGTTTATGGTTTTAGGGTTTT
1 AAGGTTTAGGGTTTATGG-TTTAGGGTTTA
*
16790013 AAGGATTA-GGTTTATGGTTTAGGGTTTA
1 AAGGTTTAGGGTTTATGGTTTAGGGTTTA
16790041 GATTAATTAG
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
28 39 0.43
29 40 0.44
30 11 0.12
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (29 bp):
AAGGTTTAGGGTTTATGGTTTAGGGTTTA
Found at i:16790746 original size:20 final size:20
Alignment explanation
Indices: 16790684--16790747 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
16790674 TTTTTCGTGA
16790684 TTTA-AAATTTTAAAATGAAT
1 TTTAGAAATTTTAAAATG-AT
**
16790704 TTTAGAAGATTTT-AAATTTT
1 TTTAGAA-ATTTTAAAATGAT
*
16790724 TTTAGAAATTTTAAAAAGAT
1 TTTAGAAATTTTAAAATGAT
16790744 TTTA
1 TTTA
16790748 AACTTTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 5 0.14
20 20 0.56
21 6 0.17
22 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (20 bp):
TTTAGAAATTTTAAAATGAT
Found at i:16804360 original size:12 final size:12
Alignment explanation
Indices: 16804345--16804372 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16804335 GCACACGCCA
16804345 GTGTGCTAGGCC
1 GTGTGCTAGGCC
16804357 GTGTGCTAGGCC
1 GTGTGCTAGGCC
16804369 GTGT
1 GTGT
16804373 AACAACCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:16805458 original size:30 final size:30
Alignment explanation
Indices: 16805422--16805497 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
16805412 TGGTTGACAC
* * *
16805422 ATCCCTTTTCGTAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAATTCGACAACCGAAGCT
* *
16805452 ATCCCTTTTCACAGTTCGACAACCGAAGCT
1 ATCCCTTTTCATAATTCGACAACCGAAGCT
16805482 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
16805498 TGATGGTCGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGACAACCGAAGCT
Found at i:16805516 original size:30 final size:30
Alignment explanation
Indices: 16805482--16805677 Score: 130
Period size: 30 Copynumber: 6.5 Consensus size: 30
16805472 AACCGAAGCT
16805482 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* ** *
16805512 ATCCCTTTTTATTGTTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * * *
16805542 ATCCCTTTACATAATTTGATAGTCG-AAGCT
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
* * * * *
16805572 GTCCCTTTTCATAGA-TCGATGGTTGAACCCCC
1 ATCCCTTTTCATA-ATTTGATGGTCG--TCACC
* * * **
16805604 ATCCCTTTTTATAGTTTAATGGTTATCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* *
16805634 ATCCCTTTTCAT--TGCTAATGGTCGTCACC
1 ATCCCTTTTCATAAT-TTGATGGTCGTCACC
*
16805663 ATCTCTTTTCATAAT
1 ATCCCTTTTCATAAT
16805678 CGATAGCTGA
Statistics
Matches: 124, Mismatches: 33, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
28 1 0.01
29 24 0.19
30 78 0.63
31 2 0.02
32 19 0.15
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:16805546 original size:60 final size:59
Alignment explanation
Indices: 16805482--16805677 Score: 160
Period size: 60 Copynumber: 3.3 Consensus size: 59
16805472 AACCGAAGCT
*
16805482 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTTATTGTTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATTG-TTGATGGTCATCACC
* * * ** * * * * *
16805542 ATCCCTTTACATAATTTGATAGTCG-AAGCTGTCCCTTTTCATAGATCGATGGTTGAACCCCC
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CCATCCCTTTTCATTG-TTGATGG-T-CATCACC
* * * ** * * *
16805604 ATCCCTTTTTATAGTTTAATGGTTATCACCATCCCTTTTCATTGCTAATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCATCACC
*
16805663 ATCTCTTTTCATAAT
1 ATCCCTTTTCATAAT
16805678 CGATAGCTGA
Statistics
Matches: 99, Mismatches: 33, Indels: 9
0.70 0.23 0.06
Matches are distributed among these distances:
59 16 0.16
60 42 0.42
61 5 0.05
62 35 0.35
63 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (59 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCATCACC
Found at i:16805652 original size:29 final size:30
Alignment explanation
Indices: 16805602--16805675 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
16805592 GGTTGAACCC
* * *
16805602 CCATCCCTTTTTATAGTTTAATGGTTATCA
1 CCATCCCTTTTCATAGTCTAATGGTCATCA
* *
16805632 CCATCCCTTTTCATTG-CTAATGGTCGTCA
1 CCATCCCTTTTCATAGTCTAATGGTCATCA
*
16805661 CCATCTCTTTTCATA
1 CCATCCCTTTTCATA
16805676 ATCGATAGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 23 0.62
30 14 0.38
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (30 bp):
CCATCCCTTTTCATAGTCTAATGGTCATCA
Found at i:16822520 original size:50 final size:50
Alignment explanation
Indices: 16822462--16822705 Score: 240
Period size: 50 Copynumber: 4.9 Consensus size: 50
16822452 TATTGAGGTT
* *
16822462 ATGAGAGGTCCTACGTAAGACCATATCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAG
* * *
16822512 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAG
* * * * * * *
16822562 ATGAGATGTCCCCCGTAAGACCATGTCTGGTACATGGCATGGGAACCGAT
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAG
*** * * *
16822612 ATGAGAACACCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCG-AG
* * ** * * *
16822661 AGGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCA
16822706 TGTTATTATC
Statistics
Matches: 165, Mismatches: 28, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.23
50 126 0.76
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAG
Found at i:16822931 original size:20 final size:20
Alignment explanation
Indices: 16822906--16822954 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16822896 TGAGTTATTT
16822906 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
16822926 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
16822946 AAG-AAGCAA
1 AAGTAAGCAA
16822955 AGACATGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:16824834 original size:13 final size:14
Alignment explanation
Indices: 16824816--16824844 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16824806 CCTCTTTCCC
16824816 TATATCTATTT-TT
1 TATATCTATTTCTT
16824829 TATATCTATTTCTT
1 TATATCTATTTCTT
16824843 TA
1 TA
16824845 ACCTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (14 bp):
TATATCTATTTCTT
Found at i:16829503 original size:12 final size:12
Alignment explanation
Indices: 16829486--16829511 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16829476 AGCCGTTCAC
16829486 GGCCTAGCACAT
1 GGCCTAGCACAT
16829498 GGCCTAGCACAT
1 GGCCTAGCACAT
16829510 GG
1 GG
16829512 GCATGTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (12 bp):
GGCCTAGCACAT
Found at i:16833812 original size:27 final size:27
Alignment explanation
Indices: 16833782--16833841 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
16833772 CAACTCCTAC
16833782 GGGTATAACAGACATTTTACCCTTCGG
1 GGGTATAACAGACATTTTACCCTTCGG
*** * *
16833809 GGGTATTTTAGTCATTTTACCCTTTGG
1 GGGTATAACAGACATTTTACCCTTCGG
16833836 GGGTAT
1 GGGTAT
16833842 TTCGGTCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (27 bp):
GGGTATAACAGACATTTTACCCTTCGG
Found at i:16834140 original size:27 final size:27
Alignment explanation
Indices: 16833794--16834149 Score: 324
Period size: 27 Copynumber: 13.2 Consensus size: 27
16833784 GTATAACAGA
* **
16833794 CATTTTACCCTTCGGGGGTATTTTAGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* *
16833821 CATTTTACCCTTTGGGGGTATTTCGGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
** * **
16833848 CATTTTATTCTTC-AGTAGTATTTTAGT
1 CATTTTACCCTTCGAG-GGTATTTCGGT
* * *
16833875 CATTTTACCCGTCGGGGGTATTTTGGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* * **
16833902 CATTTTACCCTTTGAGCGTATTTTAGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
*
16833929 CATTTTACCCTTCGAAGGTATTTCGGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* *
16833956 TATTTTACCCTTCGAGGGTATTTTGGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* * *
16833983 CATTTTACCTTTTG-GGGTATTTCGAT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* * *
16834009 CATTTTACCCTTCGAAGGTATTACGAT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* * **
16834036 CATTTTACCATTCGAAGGTATTTTAGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
** * *
16834063 TGTTTTACCCTT-TACGGGTATTTCGAT
1 CATTTTACCCTTCGA-GGGTATTTCGGT
*
16834090 CATTTTACCCTT-TAGGGGTATTTCGGT
1 CATTTTACCCTTCGA-GGGTATTTCGGT
* *
16834117 TATTTTACCCTTCGAGGGTATTTCGAT
1 CATTTTACCCTTCGAGGGTATTTCGGT
16834144 CATTTT
1 CATTTT
16834150 TTAGGCCTAT
Statistics
Matches: 265, Mismatches: 59, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
26 24 0.09
27 239 0.90
28 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.19, T:0.46
Consensus pattern (27 bp):
CATTTTACCCTTCGAGGGTATTTCGGT
Found at i:16841145 original size:26 final size:26
Alignment explanation
Indices: 16841116--16841192 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
16841106 ATACCAATAT
* *
16841116 TGCAACAAAGCTGCCAGTAATAGTGA
1 TGCAACAAAGCTGCCAGTAACAGTAA
*
16841142 TGCAGCAAAGCTGCCAGTAACAGTAA
1 TGCAACAAAGCTGCCAGTAACAGTAA
* * *
16841168 CGCATCAAAGCTGTCAGTAACAGTA
1 TGCAACAAAGCTGCCAGTAACAGTA
16841193 TATGTGGCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
TGCAACAAAGCTGCCAGTAACAGTAA
Found at i:16841380 original size:27 final size:28
Alignment explanation
Indices: 16841350--16841669 Score: 283
Period size: 27 Copynumber: 11.9 Consensus size: 28
16841340 CATTTCAAGT
*
16841350 TTTAG-GGGTATTTCGGTCATTTTACCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* *
16841377 TTTA-AGGGTATTTCGGTCATTTTATCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* *
16841404 TTCAG-GGGTATTTCAATCATTTTA-CC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* * *
16841430 TTTCGAGGGTATTTTAGTTATTTTA-CC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* * * *
16841457 ATTCGAGGCTATTTC-GATCATTTTAGCC
1 TTTAGAGGGTATTTCAG-TCATTTTACCC
* *
16841485 -TTCGAGAGTATTTCAGTCATTTT-CCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* ** *
16841511 -TTCGAGTTTATTTCGGTCATTTTACCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* * * *
16841538 TTCA-TGGGTATTTCGGTCATTTTACCT
1 TTTAGAGGGTATTTCAGTCATTTTACCC
*
16841565 TTTAG-GGGTATTTTAGTCATTTTACCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
*
16841592 TTCA-AGGGTATTTC-GATCATTTTACCC
1 TTTAGAGGGTATTTCAG-TCATTTTACCC
*
16841619 -TTCGAGGGTATTTCAGTCATTTTACCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
*
16841646 TTT-GAGTGTATTTCAGTCATTTTA
1 TTTAGAGGGTATTTCAGTCATTTTA
16841670 GACCCAATAC
Statistics
Matches: 245, Mismatches: 34, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
26 30 0.12
27 208 0.85
28 7 0.03
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (28 bp):
TTTAGAGGGTATTTCAGTCATTTTACCC
Found at i:16841424 original size:54 final size:53
Alignment explanation
Indices: 16841355--16841669 Score: 330
Period size: 54 Copynumber: 5.9 Consensus size: 53
16841345 CAAGTTTTAG
* * *
16841355 GGGTATTTCGGTCATTTTACCCTTTAAGGGTATTTCGGTCATTTTATCCTTC-A
1 GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTA-CCTTCGA
* * * * *
16841408 GGGGTATTTCAATCATTTTACCTTTCGAGGGTATTTTAGTTATTTTACCATTCGA
1 -GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACC-TTCGA
* * * * *
16841463 GGCTATTTC-GATCATTTTAGCCTTCGAGAGTATTTCAGTCATTTTCCCTTCGA
1 GGGTATTTCAG-TCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCTTCGA
** * * * **
16841516 GTTTATTTCGGTCATTTTACCCTTCATGGGTATTTCGGTCATTTTACCTTTTA
1 GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCTTCGA
*
16841569 GGGGTATTTTAGTCATTTTACCCTTCAAGGGTATTTC-GATCATTTTACCCTTCGA
1 -GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAG-TCATTTTA-CCTTCGA
** *
16841624 GGGTATTTCAGTCATTTTACCCTTTGAGTGTATTTCAGTCATTTTA
1 GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTA
16841670 GACCCAATAC
Statistics
Matches: 216, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
53 49 0.23
54 160 0.74
55 7 0.03
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.45
Consensus pattern (53 bp):
GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCTTCGA
Found at i:16841625 original size:161 final size:161
Alignment explanation
Indices: 16841358--16841668 Score: 448
Period size: 161 Copynumber: 1.9 Consensus size: 161
16841348 GTTTTAGGGG
*
16841358 TATTTCGGTCATTTTACCCTTTAAGGGTATTTCGGTCATTTTATCCTTCAGGGGTATTTCAATCA
1 TATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTATCCTTCAGGGGTATTTCAATCA
* * * * *
16841423 TTTTACCTTTCGAGGGTATTTTAGTTATTTTACCATTCGAGGCTATTTC-GATCATTTTAGCCTT
66 TTTTACCCTTCAAGGGTATTTGAGTCATTTTACCATTCGAGGCTATTTCAG-TCATTTTACCCTT
16841487 CGAGAGTATTTCAGTCATTTTCCCTTCGAGTT
130 CGAGAGTATTTCAGTCATTTTCCCTTCGAGTT
* * * *
16841519 TATTTCGGTCATTTTACCCTTCATGGGTATTTCGGTCATTTTA-CCTTTTAGGGGTATTTTAGTC
1 TATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTATCC-TTCAGGGGTATTTCAATC
* *
16841583 ATTTTACCCTTCAAGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCT
65 ATTTTACCCTTCAAGGGTATTT-GAGTCATTTTACCATTCGAGGCTATTTCAGTCATTTTACCCT
* *
16841647 TTGAGTGTATTTCAGTCATTTT
129 TCGAGAGTATTTCAGTCATTTT
16841669 AGACCCAATA
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
160 2 0.02
161 129 0.97
162 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (161 bp):
TATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTATCCTTCAGGGGTATTTCAATCA
TTTTACCCTTCAAGGGTATTTGAGTCATTTTACCATTCGAGGCTATTTCAGTCATTTTACCCTTC
GAGAGTATTTCAGTCATTTTCCCTTCGAGTT
Found at i:16845263 original size:16 final size:16
Alignment explanation
Indices: 16845242--16845284 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
16845232 ACATTGGAGC
16845242 ATTTGACGTGATGAGG
1 ATTTGACGTGATGAGG
* *
16845258 ATTTGACATGATGAGT
1 ATTTGACGTGATGAGG
16845274 ATTTGACGTGA
1 ATTTGACGTGA
16845285 ACAATCATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (16 bp):
ATTTGACGTGATGAGG
Found at i:16847594 original size:36 final size:36
Alignment explanation
Indices: 16847543--16847623 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
16847533 TTTCATCAAT
16847543 AAAATAATTCTCATAGTATAGAGCATTATAAAAGTAA
1 AAAATAA-TCTCATAGTATAGAGCATTATAAAAGTAA
* * *
16847580 AAAATAATCTCATAGTATGGAGCATTATAAATGTCA
1 AAAATAATCTCATAGTATAGAGCATTATAAAAGTAA
16847616 AAAATAAT
1 AAAATAAT
16847624 TCAAGGGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 34 0.83
37 7 0.17
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.30
Consensus pattern (36 bp):
AAAATAATCTCATAGTATAGAGCATTATAAAAGTAA
Found at i:16853804 original size:74 final size:74
Alignment explanation
Indices: 16853683--16853832 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 74
16853673 ATCTTGTAAT
16853683 AACCCCTATCCTTGGGATGACATCCTTATTTGCTTGGGCTAAGACATTAACATGCTGGCAAAGTA
1 AACCCCTATCCTTGGGATGACATCCTTATTTGCTTGGGCTAAGACATTAACATGCTGGCAAAGTA
16853748 CGGTGATTA
66 CGGTGATTA
* *
16853757 AACCCCTTTCCTTGGGTTGACATCCTTATTTGCTTGGGCTAAGACATTAACATGCTGGCAAAGTA
1 AACCCCTATCCTTGGGATGACATCCTTATTTGCTTGGGCTAAGACATTAACATGCTGGCAAAGTA
16853822 CGGTGATTA
66 CGGTGATTA
16853831 AA
1 AA
16853833 GAAGGAAAGT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (74 bp):
AACCCCTATCCTTGGGATGACATCCTTATTTGCTTGGGCTAAGACATTAACATGCTGGCAAAGTA
CGGTGATTA
Found at i:16868042 original size:29 final size:29
Alignment explanation
Indices: 16867968--16868166 Score: 258
Period size: 29 Copynumber: 6.8 Consensus size: 29
16867958 CTGTGCTAAA
* * *
16867968 CGATGGTCAAAACCATCCTTTTTCTTTAATT
1 CGATGGTCGAAACCATCCCTTTTC-AT-ATT
16867999 -GATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
16868027 CGATGGTCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * *
16868056 CAATGGTCGAAGCCACCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
16868085 CGATGGTTGACACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
**
16868114 CGATGGTCGTTACCA-CCTCTTTTCATATT
1 CGATGGTCGAAACCATCC-CTTTTCATATT
16868143 CGATGGTCGAAACCATCCCTTTTC
1 CGATGGTCGAAACCATCCCTTTTC
16868167 TTTAATCGAT
Statistics
Matches: 149, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
28 5 0.03
29 121 0.81
30 23 0.15
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:16873983 original size:29 final size:29
Alignment explanation
Indices: 16873950--16874039 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
16873940 TTTATCATTC
*
16873950 TTCATATTCGATTGTTGATACCATCCCTT
1 TTCATATTCGATGGTTGATACCATCCCTT
* *
16873979 TTCATATTCGATGGTCG-TCACCATCCTTT
1 TTCATATTCGATGGTTGAT-ACCATCCCTT
*
16874008 TTCATATTCGATGGTTGAAACCATCCCTT
1 TTCATATTCGATGGTTGATACCATCCCTT
16874037 TTC
1 TTC
16874040 TTTAATCGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.02
29 52 0.98
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (29 bp):
TTCATATTCGATGGTTGATACCATCCCTT
Found at i:16875408 original size:8 final size:8
Alignment explanation
Indices: 16875395--16875419 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16875385 AAGAGTAAAT
16875395 TTTTATTA
1 TTTTATTA
16875403 TTTTATTA
1 TTTTATTA
16875411 TTTTATTA
1 TTTTATTA
16875419 T
1 T
16875420 CATTGGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATTA
Found at i:16880009 original size:7 final size:7
Alignment explanation
Indices: 16879991--16880027 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
16879981 CTGCTCTTTC
16879991 CTTTTAT
1 CTTTTAT
16879998 C-TTTAT
1 CTTTTAT
16880004 CTTTTAT
1 CTTTTAT
16880011 CTTTTAT
1 CTTTTAT
16880018 CTTTT-T
1 CTTTTAT
16880024 CTTT
1 CTTT
16880028 GTTTTGACCG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (7 bp):
CTTTTAT
Found at i:16880009 original size:13 final size:13
Alignment explanation
Indices: 16879991--16880027 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
16879981 CTGCTCTTTC
16879991 CTTTTATCTTTAT
1 CTTTTATCTTTAT
16880004 CTTTTATCTTTTAT
1 CTTTTATC-TTTAT
16880018 CTTTT-TCTTT
1 CTTTTATCTTT
16880028 GTTTTGACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.13
13 10 0.43
14 10 0.43
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTATCTTTAT
Found at i:16881177 original size:28 final size:28
Alignment explanation
Indices: 16881133--16881203 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
16881123 AAACTGATAT
16881133 TGTATTGGG-TAAGGCCCACT-TTGTTAC
1 TGTATTGGGCTAAGGCCCA-TATTGTTAC
*
16881160 TGTACTGGGCTAAGGCCCATATTGTTAC
1 TGTATTGGGCTAAGGCCCATATTGTTAC
16881188 TGTATTGGGCTAAGGC
1 TGTATTGGGCTAAGGC
16881204 GCACACTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.22
28 31 0.77
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCATATTGTTAC
Found at i:16887936 original size:12 final size:13
Alignment explanation
Indices: 16887921--16887953 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16887911 AAATAAAATC
16887921 ATAAATAATT-AA
1 ATAAATAATTAAA
*
16887933 ATAATTAATTAAA
1 ATAAATAATTAAA
16887946 ATAAATAA
1 ATAAATAA
16887954 ATCAAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAATAATTAAA
Found at i:16892553 original size:20 final size:20
Alignment explanation
Indices: 16892502--16892616 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
16892492 CATAATAGGA
* * *
16892502 GCACTGAAGTGTAGACAGGG
1 GCACCGAAGTGCAAACAGGG
*
16892522 GCA-CAAATGTGCAAACAGGG
1 GCACCGAA-GTGCAAACAGGG
* *
16892542 GCACCGTAGTGCGAACAGGG
1 GCACCGAAGTGCAAACAGGG
* ** * *
16892562 ACACTAAAGTGTATACAGGG
1 GCACCGAAGTGCAAACAGGG
*
16892582 GTACCGAAGTGCAAACAGGG
1 GCACCGAAGTGCAAACAGGG
16892602 GCACCGAAGTGCAAA
1 GCACCGAAGTGCAAA
16892617 TCTCATACAA
Statistics
Matches: 72, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
19 2 0.03
20 68 0.94
21 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.12
Consensus pattern (20 bp):
GCACCGAAGTGCAAACAGGG
Found at i:16893397 original size:28 final size:29
Alignment explanation
Indices: 16893366--16893421 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
16893356 TACTTATAAA
16893366 TAACAACTAATACTT-CAAA-TTCATCATT
1 TAACAACTAA-ACTTACAAAGTTCATCATT
*
16893394 TAACATCTAAACTTACAAAGGTTCATCA
1 TAACAACTAAACTTACAAA-GTTCATCA
16893422 AAGGCAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.17
28 13 0.54
30 7 0.29
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (29 bp):
TAACAACTAAACTTACAAAGTTCATCATT
Found at i:16897448 original size:18 final size:19
Alignment explanation
Indices: 16897425--16897484 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
16897415 TTTAGGTTTC
16897425 TATTTTA-TTTATTTTTAT
1 TATTTTACTTTATTTTTAT
* * *
16897443 TATTTTAGTCGT-TTTTTCT
1 TATTTTACT-TTATTTTTAT
16897462 T-TTTTACTTTTATTTTTAT
1 TATTTTAC-TTTATTTTTAT
16897481 TATT
1 TATT
16897485 AGTTGTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
18 13 0.41
19 16 0.50
20 3 0.09
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (19 bp):
TATTTTACTTTATTTTTAT
Found at i:16900707 original size:25 final size:25
Alignment explanation
Indices: 16900671--16900724 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
16900661 TACCGATTTT
16900671 AGCTCGTATGAGCTTACCGATACTC
1 AGCTCGTATGAGCTTACCGATACTC
* *
16900696 AGCTCGCT-TGAGCTTACCGTTATTC
1 AGCTCG-TATGAGCTTACCGATACTC
16900721 AGCT
1 AGCT
16900725 TGAAGGTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.31
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATACTC
Found at i:16906128 original size:94 final size:94
Alignment explanation
Indices: 16905895--16906391 Score: 556
Period size: 94 Copynumber: 5.3 Consensus size: 94
16905885 ATTCCGTTGT
* * * * *
16905895 AACTTTAGGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAATTTCAGGGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
* ** * * ** *
16905960 GCTATTGT---TTTGATCTATTCTGA-TGT
66 ACTATTGTAGCTTCAATCCA-ACCCACTGC
* * * * * * * *
16905986 AACTTCAGGGATATACGATTTATAACTTCATCTTTCTCTACTACAACTTCAGGGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
* *
16906051 ACTATTGTAGCTTCATTCCAACCCATTGC
66 ACTATTGTAGCTTCAATCCAACCCACTGC
*
16906080 AACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
** * *
16906145 GTTATGGTAGCTTCAATCCGACCCACTGC
66 ACTATTGTAGCTTCAATCCAACCCACTGC
* * *
16906174 AACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAGAAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
* * * *
16906239 ACCATTGTA-ATTTATTTCCAACCCACTGC
66 ACTATTGTAGCTTCA-ATCCAACCCACTGC
* *
16906268 AACTTCAGGGGTATAGGATTTGTAGCTTCATCCTT-CTCCACTGTAACTTTAAGGAGATAAGATT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCAT-CTTGCTCCACTGCAACTTCAAGGAGATAAGATT
* *
16906332 CACTACTGTAGCTTCAATCCGACCCACTGC
65 CACTATTGTAGCTTCAATCCAACCCACTGC
* *
16906362 AACTTCAAGGGTATAGGAATTGTAGCTTCA
1 AACTTCAGGGGTATAGGATTTGTAGCTTCA
16906392 CTGATATGTT
Statistics
Matches: 342, Mismatches: 57, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
91 64 0.19
93 5 0.01
94 267 0.78
95 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (94 bp):
AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
ACTATTGTAGCTTCAATCCAACCCACTGC
Found at i:16906223 original size:44 final size:44
Alignment explanation
Indices: 16906077--16906224 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 44
16906067 TCCAACCCAT
* *
16906077 TGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCAC
1 TGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCTCCAC
* *
16906121 TGCAACTTCAAGGAGATAAGATTC-G-TTATGGTAGCTTCAATC-CGAC-CCAC
1 TGCAACTTC-AGG-GGT---A-TCGGATT-T-GTAGCTTC-ATCTTG-CTCCAC
16906171 TGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCTCCAC
1 TGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCTCCAC
*
16906215 TACAACTTCA
1 TGCAACTTCA
16906225 AGAAGATAAG
Statistics
Matches: 83, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
43 4 0.05
44 32 0.39
45 6 0.07
46 4 0.05
48 4 0.05
49 6 0.07
50 23 0.28
51 4 0.05
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (44 bp):
TGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCTCCAC
Found at i:16906263 original size:188 final size:187
Alignment explanation
Indices: 16905895--16906391 Score: 612
Period size: 188 Copynumber: 2.7 Consensus size: 187
16905885 ATTCCGTTGT
* * * *
16905895 AACTTTAGGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAATTTCAGGGAGATAAGATTC
1 AACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
* ** * ** * * * *
16905960 GCTAT-T-GTTTTGAT-CTATTCTGA-TGTAACTTCAGGGATATAC-GATTTATAACTTCATCTT
66 GCTATGTAGCTTCAATCCGA--CCCACTGCAACTTCAGGGGTAT-CGGATTTGTAGCTTCATCTT
* * * * * * *
16906020 TCTCTACTACAACTTCAGGGAGATAAGATTCACTATTGTAGCTTCATTCCAACCCATTGC
128 GCTCCACTACAACTTCAAGAAGATAAGATTCACCATTGTAGATTCATTCCAACCCACTGC
16906080 AACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
1 AACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
*
16906145 GTTATGGTAGCTTCAATCCGACCCACTGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGC
66 GCTAT-GTAGCTTCAATCCGACCCACTGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGC
*
16906210 TCCACTACAACTTCAAGAAGATAAGATTCACCATTGTA-ATTTATTTCCAACCCACTGC
130 TCCACTACAACTTCAAGAAGATAAGATTCACCATTGTAGATTCA-TTCCAACCCACTGC
* * *
16906268 AACTTCAGGGGTATAGGATTTGTAGCTTCATCCTT-CTCCACTGTAACTTTAAGGAGATAAGATT
1 AACTTTAGGGGTATAGGATTTGTAGCTTCAT-CTTGCTCCACTGCAACTTCAAGGAGATAAGATT
* * * *
16906332 CACTACTGTAGCTTCAATCCGACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCA
65 CGCTA-TGTAGCTTCAATCCGACCCACTGCAACTTCAGGGGTATCGGATTTGTAGCTTCA
16906392 CTGATATGTT
Statistics
Matches: 272, Mismatches: 31, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
185 65 0.24
187 7 0.03
188 194 0.71
189 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (187 bp):
AACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
GCTATGTAGCTTCAATCCGACCCACTGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCT
CCACTACAACTTCAAGAAGATAAGATTCACCATTGTAGATTCATTCCAACCCACTGC
Found at i:16924584 original size:19 final size:19
Alignment explanation
Indices: 16924552--16924607 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
16924542 TGAATTATTA
16924552 TAATT-ATAATTTATAAAAT
1 TAATTAATAA-TTATAAAAT
* *
16924571 TAATTTAA-AATTATATATT
1 TAA-TTAATAATTATAAAAT
16924590 TAATTAATAATATATAAA
1 TAATTAATAAT-TATAAA
16924608 TTGTTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.13
19 16 0.53
20 9 0.30
21 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATTAATAATTATAAAAT
Found at i:16930384 original size:31 final size:31
Alignment explanation
Indices: 16930331--16930425 Score: 109
Period size: 31 Copynumber: 3.1 Consensus size: 31
16930321 GACCACCACA
* * *
16930331 TGTTTACTATCCTAACAGACTATCTGTTTTG
1 TGTTCACTATCCCAACAGACTATTTGTTTTG
* * * *
16930362 TGTTCACTGTCCCAGCAGACTATTTGTTCTA
1 TGTTCACTATCCCAACAGACTATTTGTTTTG
* *
16930393 TGTTTACTATCCCAACAAACTATTTGTTTTG
1 TGTTCACTATCCCAACAGACTATTTGTTTTG
16930424 TG
1 TG
16930426 GATGCCATGG
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (31 bp):
TGTTCACTATCCCAACAGACTATTTGTTTTG
Found at i:16932460 original size:27 final size:27
Alignment explanation
Indices: 16932429--16932501 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
16932419 ACAAGTTAGT
**
16932429 AAAGAAAAGCCTTTGTGGTGTAATATG
1 AAAGAAAAGCCTTTGTGGCATAATATG
*
16932456 AAAGAAAATCCTTTGTGGCATAATATG
1 AAAGAAAAGCCTTTGTGGCATAATATG
* * *
16932483 AAAGGAATGCCTTTATGGC
1 AAAGAAAAGCCTTTGTGGC
16932502 GAACTCTGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (27 bp):
AAAGAAAAGCCTTTGTGGCATAATATG
Found at i:16941496 original size:63 final size:63
Alignment explanation
Indices: 16941397--16941518 Score: 199
Period size: 63 Copynumber: 1.9 Consensus size: 63
16941387 GTTGATGGGA
*
16941397 ACCTCTTTCTCATCATCGTCGATATCAAACTTTGTGATTTTATCAAGCAATTGATGAACGGGC
1 ACCTCTTCCTCATCATCGTCGATATCAAACTTTGTGATTTTATCAAGCAATTGATGAACGGGC
* * * *
16941460 ACCTCTTCCTCATCATCGTCGGTATCTAACTTTGTGATTTTATCAATCAGTTGATGAAC
1 ACCTCTTCCTCATCATCGTCGATATCAAACTTTGTGATTTTATCAAGCAATTGATGAAC
16941519 TACACGTTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (63 bp):
ACCTCTTCCTCATCATCGTCGATATCAAACTTTGTGATTTTATCAAGCAATTGATGAACGGGC
Found at i:16942106 original size:113 final size:113
Alignment explanation
Indices: 16941904--16942130 Score: 409
Period size: 113 Copynumber: 2.0 Consensus size: 113
16941894 TTCTACAACT
*
16941904 TCAATCATTCACTGCTCAAACTCAGTATAAGAAGTCGGGGGGGCAACAGAAGTAGTCCTAGGAGG
1 TCAATCATTCACTGCTCAAACTCAGTATAAGAAGTCGAGGGGGCAACAGAAGTAGTCCTAGGAGG
16941969 AGAAGATGGAGGTGTGCCAATTTGCCTTGGCATTTCCTTGCTAACCAC
66 AGAAGATGGAGGTGTGCCAATTTGCCTTGGCATTTCCTTGCTAACCAC
* *
16942017 TCAATTATTCACTGCTCAAACTCAGTATGAGAAGTCGAGGGGGCAACAGAAGTAGTCCTAGGAGG
1 TCAATCATTCACTGCTCAAACTCAGTATAAGAAGTCGAGGGGGCAACAGAAGTAGTCCTAGGAGG
* *
16942082 AGAAGATGGAGGTGTGCTAGTTTGCCTTGGCATTTCCTTGCTAACCAC
66 AGAAGATGGAGGTGTGCCAATTTGCCTTGGCATTTCCTTGCTAACCAC
16942130 T
1 T
16942131 TTCTGTGCAA
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (113 bp):
TCAATCATTCACTGCTCAAACTCAGTATAAGAAGTCGAGGGGGCAACAGAAGTAGTCCTAGGAGG
AGAAGATGGAGGTGTGCCAATTTGCCTTGGCATTTCCTTGCTAACCAC
Found at i:16950220 original size:12 final size:12
Alignment explanation
Indices: 16950195--16950233 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16950185 ACTCACTTCT
* *
16950195 TTACTTACTCAC
1 TTACTTGCTTAC
*
16950207 TTACTTGTTTAC
1 TTACTTGCTTAC
16950219 TTACTTGCTTAC
1 TTACTTGCTTAC
16950231 TTA
1 TTA
16950234 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:16950558 original size:50 final size:50
Alignment explanation
Indices: 16950484--16950722 Score: 253
Period size: 50 Copynumber: 4.7 Consensus size: 50
16950474 TTCTGTACTA
* * * * ** *
16950484 CCAATGCCATATTCTAGATATGGTCTTACATGGGAATTCCCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * **
16950534 CCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * *
16950584 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * * * *
16950634 CGAATGCTATGTCCCAGGCATGGTCTTACATGGAACCTCTCATAATTTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
16950690 CCAATGCCATGTCCCAGACATGGTCTTACATGG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGG
16950723 CATCTCATTC
Statistics
Matches: 154, Mismatches: 29, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
50 119 0.77
53 2 0.01
56 33 0.21
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:16953517 original size:25 final size:25
Alignment explanation
Indices: 16953448--16953519 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
16953438 TATTGATACA
* * *
16953448 CAGCTCGCACGAGCTTACCATTATT
1 CAGCTCGAAGGAGCTTACCGTTATT
* * *
16953473 TAGCTCGGAGTAGCTTACCGTTATT
1 CAGCTCGAAGGAGCTTACCGTTATT
16953498 CAGCTCGAAGGAGCTTACCGTT
1 CAGCTCGAAGGAGCTTACCGTT
16953520 TACAGATTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (25 bp):
CAGCTCGAAGGAGCTTACCGTTATT
Found at i:16955543 original size:14 final size:14
Alignment explanation
Indices: 16955524--16955551 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16955514 CAGGGTGTAA
16955524 ACAACATCCAAATT
1 ACAACATCCAAATT
16955538 ACAACATCCAAATT
1 ACAACATCCAAATT
16955552 TTAGCTGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
ACAACATCCAAATT
Found at i:16959851 original size:25 final size:27
Alignment explanation
Indices: 16959800--16959851 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
16959790 TTGCAGAAAT
*
16959800 TTTTCTTTGTTTGTTATTATTTTTTAA
1 TTTTCTTTGTTTGTTATTATTTGTTAA
*
16959827 TTTTCTTT-TTTTTTA-TATTTGTTAA
1 TTTTCTTTGTTTGTTATTATTTGTTAA
16959852 CCAAAATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (27 bp):
TTTTCTTTGTTTGTTATTATTTGTTAA
Found at i:16963774 original size:23 final size:22
Alignment explanation
Indices: 16963723--16963775 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
16963713 CTTGAAAAGA
**
16963723 ATATAAAAAATAAAAAATTAAT
1 ATATAAAAAATAAAAAAAAAAT
16963745 -TGAATAAAAAATAAAAATAAAAAT
1 AT--ATAAAAAATAAAAA-AAAAAT
16963769 ATATAAA
1 ATATAAA
16963776 CCAAATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
21 1 0.04
23 19 0.76
24 4 0.16
25 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
ATATAAAAAATAAAAAAAAAAT
Found at i:16964026 original size:19 final size:17
Alignment explanation
Indices: 16964002--16964041 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
16963992 ATGTTAAATT
16964002 AAATTAATTAACTAAATGC
1 AAATTAA-T-ACTAAATGC
*
16964021 AAATTAATCCTAAATGC
1 AAATTAATACTAAATGC
16964038 AAAT
1 AAAT
16964042 AAGATGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 1 0.05
19 7 0.35
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (17 bp):
AAATTAATACTAAATGC
Found at i:16989028 original size:28 final size:28
Alignment explanation
Indices: 16988988--16989072 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
16988978 TAGTATCAAT
*
16988988 ACAGTGTGGGCCTTAGCCCATTACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
16989016 ACAGTGTGGGCCTTAGCCCAATATAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
* * **
16989044 ATAATGTGGGCCTTAGCCCGGTACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
16989072 A
1 A
16989073 ACAATACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:16989490 original size:27 final size:27
Alignment explanation
Indices: 16989452--16989871 Score: 373
Period size: 27 Copynumber: 15.6 Consensus size: 27
16989442 TACCCTATGG
* *
16989452 GGTATTTCGGTCATTTTACCCTTCAGA
1 GGTATTTTGGTAATTTTACCCTTCAGA
*
16989479 GGTATTTTGGTCATTTTACCCTTC-GAA
1 GGTATTTTGGTAATTTTACCCTTCAG-A
* *
16989506 GGTA-TTTGGTTATATTACCCTTC-GA
1 GGTATTTTGGTAATTTTACCCTTCAGA
*
16989531 GGGTATTTTGGTCATTTTACCCTTTCAG-
1 -GGTATTTTGGTAATTTTACCC-TTCAGA
*
16989559 GGTATTTCGGTAATTTTACCCTTCA-A
1 GGTATTTTGGTAATTTTACCCTTCAGA
* *
16989585 GGGTATTTTGGTAATTTTACCAATTGAG-
1 -GGTATTTTGGTAATTTTACC-CTTCAGA
*
16989613 GGTATTTTGGTAATTTTACCCTAT-AGG
1 GGTATTTTGGTAATTTTACCCT-TCAGA
*
16989640 GGTATTTTGGTAATTTTACCCTTCAAA
1 GGTATTTTGGTAATTTTACCCTTCAGA
* *
16989667 GGTATTTTAGTAAATTTACCCTTC-GA
1 GGTATTTTGGTAATTTTACCCTTCAGA
* * *
16989693 GGGTATTTCGATAATTTTACCCTTTA-A
1 -GGTATTTTGGTAATTTTACCCTTCAGA
* *
16989720 GAGTATTTTGGTAATTTTACCCTAT-GGG
1 G-GTATTTTGGTAATTTTACCCT-TCAGA
*
16989748 GGTATTTTGATAATTTTACCCTTCA-A
1 GGTATTTTGGTAATTTTACCCTTCAGA
**
16989774 GGGTATTTCAGTAATTTTACCCTTCA-A
1 -GGTATTTTGGTAATTTTACCCTTCAGA
** ** *
16989801 GGGTATTTTGGT-ATTTTTTCCTAAAGG
1 -GGTATTTTGGTAATTTTACCCTTCAGA
*
16989828 GGTATTTCGGTAATTTTACCCTTC-GA
1 GGTATTTTGGTAATTTTACCCTTCAGA
**
16989854 GGGTATTTCAGTAATTTT
1 -GGTATTTTGGTAATTTT
16989872 TTCTAACCCG
Statistics
Matches: 326, Mismatches: 45, Indels: 44
0.79 0.11 0.11
Matches are distributed among these distances:
25 1 0.00
26 54 0.17
27 262 0.80
28 8 0.02
29 1 0.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACCCTTCAGA
Found at i:16989602 original size:54 final size:53
Alignment explanation
Indices: 16989438--16989871 Score: 448
Period size: 54 Copynumber: 8.1 Consensus size: 53
16989428 TATATCAGTC
* * *
16989438 ATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTTC-AGAGGTATTTTGGTC
1 ATTTTACCCT-TCAGGGTATTTCGGTAATTTTACCCTTCGAG-GGTATTTTGGTA
* * * *
16989491 ATTTTACCCTTCGAAGGTATTT-GGTTATATTACCCTTCGAGGGTATTTTGGTC
1 ATTTTACCCTTC-AGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
*
16989544 ATTTTACCCTTTCAGGGTATTTCGGTAATTTTACCCTTCAAGGGTATTTTGGTA
1 ATTTTACCC-TTCAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
* * * *
16989598 ATTTTACCAATTGAGGGTATTTTGGTAATTTTACCCTATAG-GGGTATTTTGGTA
1 ATTTTACC-CTTCAGGGTATTTCGGTAATTTTACCCT-TCGAGGGTATTTTGGTA
* ** * * *
16989652 ATTTTACCCTTCAAAGGTATTTTAGTAAATTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTC-AGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
* * * * *
16989706 ATTTTACCCTTTAAGAGTATTTTGGTAATTTTACCCTAT-GGGGGTATTTTGATA
1 ATTTTACCC-TTCAGGGTATTTCGGTAATTTTACCCT-TCGAGGGTATTTTGGTA
* *
16989760 ATTTTACCCTTCAAGGGTATTTCAGTAATTTTACCCTTCAAGGGTATTTTGGT-
1 ATTTTACCCTTC-AGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
** ** **
16989813 ATTTTTTCCTAAAGGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTCA-GGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
16989867 ATTTT
1 ATTTT
16989872 TTCTAACCCG
Statistics
Matches: 322, Mismatches: 44, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.01
53 103 0.32
54 213 0.66
55 4 0.01
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTTCAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
Found at i:16989622 original size:81 final size:81
Alignment explanation
Indices: 16989438--16989871 Score: 485
Period size: 81 Copynumber: 5.4 Consensus size: 81
16989428 TATATCAGTC
* *
16989438 ATTTTACCCTAT-G-GGGTATTTCGGTCATTTTACCC-TTCAGAGGTATTTTGGTCATTTTACCC
1 ATTTTACCCT-TCGAGGGTATTTCGGTAATTTTACCCTTTCAG-GGTATTTTGGTAATTTTACCC
*
16989500 TTCGAA-GGTA-TTTGGTT
64 TTC-AAGGGTATTTTGGTA
* * * *
16989517 ATATTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTTCAGGGTATTTCGGTAATTTTACCCTT
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTTCAGGGTATTTTGGTAATTTTACCCTT
16989582 CAAGGGTATTTTGGTA
66 CAAGGGTATTTTGGTA
* * *
16989598 ATTTTACCAATT-GAGGGTATTTTGGTAATTTTACCCTAT-AGGGGTATTTTGGTAATTTTACCC
1 ATTTTACC-CTTCGAGGGTATTTCGGTAATTTTACCCTTTCA-GGGTATTTTGGTAATTTTACCC
* *
16989661 TTCAAAGGTATTTTAGTA
64 TTCAAGGGTATTTTGGTA
* * * *
16989679 AATTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTAAGAGTATTTTGGTAATTTTACCCTA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTTCAGGGTATTTTGGTAATTTTACCCT-
** *
16989744 T-GGGGGTATTTTGATA
65 TCAAGGGTATTTTGGTA
* * **
16989760 ATTTTACCCTTCAAGGGTATTTCAGTAATTTTACCC-TTCAAGGGTATTTTGGT-ATTTTTTCC-
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTTC-AGGGTATTTTGGTAATTTTACCCT
* *
16989822 TAAAGGGGTATTTCGGTA
65 TCAA-GGGTATTTTGGTA
*
16989840 ATTTTACCCTTCGAGGGTATTTCAGTAATTTT
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTT
16989872 TTCTAACCCG
Statistics
Matches: 306, Mismatches: 36, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.01
79 12 0.04
80 101 0.33
81 187 0.61
82 4 0.01
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTTCAGGGTATTTTGGTAATTTTACCCTT
CAAGGGTATTTTGGTA
Found at i:16992464 original size:18 final size:18
Alignment explanation
Indices: 16992441--16992478 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
16992431 AAAAAATACT
16992441 TAACAA-AATACTTATAAA
1 TAACAACAATACTTA-AAA
16992459 TAACAACTAATACTTAAAA
1 TAACAAC-AATACTTAAAA
16992478 T
1 T
16992479 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACAACAATACTTAAAA
Found at i:16997361 original size:24 final size:25
Alignment explanation
Indices: 16997310--16997366 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
16997300 AAAAATTTGA
16997310 AATTAT-AATTTTTAAAAATGAAAG
1 AATTATGAATTTTTAAAAATGAAAG
*
16997334 AATTATGATATTTTT-AAAAT-AAAT
1 AATTATGA-ATTTTTAAAAATGAAAG
16997358 AATTATGAA
1 AATTATGAA
16997367 AAAAATCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.03
24 17 0.57
25 6 0.20
26 6 0.20
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (25 bp):
AATTATGAATTTTTAAAAATGAAAG
Found at i:17005080 original size:24 final size:25
Alignment explanation
Indices: 17005030--17005080 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
17005020 ATGTGCATTT
*
17005030 AAAAATAGTATACAATAATGTTAAA
1 AAAAATAGTATACAATAATGTAAAA
* *
17005055 AAAAATA-TATACACTAAT-TAATA
1 AAAAATAGTATACAATAATGTAAAA
17005078 AAA
1 AAA
17005081 TGTAAGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 10 0.43
25 7 0.30
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (25 bp):
AAAAATAGTATACAATAATGTAAAA
Found at i:17018867 original size:50 final size:51
Alignment explanation
Indices: 17018796--17018931 Score: 179
Period size: 50 Copynumber: 2.7 Consensus size: 51
17018786 AGTGAATGTG
* * *
17018796 ATGGTCACGTGTGTAGTACTATATGTAGGCCACTACGTGTACCAGAATGAT-
1 ATGGTCACATGTGTAGTACTATATGCAGGCTACTACGTGTACC-GAATGATA
* * *
17018847 A-GGTCGA-ATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTA
1 ATGGTC-ACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGAATGATA
17018897 ATGGTCACATGTGTAGTACTATATGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATATGCAGGCTACTA
17018932 TGTGAACAGG
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
49 6 0.08
50 36 0.49
51 32 0.43
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGAATGATA
Done.