Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 35 of 335
Found at i:12900156 original size:21 final size:21
Alignment explanation
Indices: 12900113--12900157 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
12900103 TATTTACATA
*
12900113 TTTAAATATAAATATATGATT
1 TTTAAATATAAATATAAGATT
*
12900134 TTTAAATATGAAATA-AAGTTT
1 TTTAAATAT-AAATATAAGATT
12900155 TTT
1 TTT
12900158 TAAGAGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (21 bp):
TTTAAATATAAATATAAGATT
Found at i:12901420 original size:31 final size:31
Alignment explanation
Indices: 12901367--12901429 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
12901357 AACAAAAAAG
* *
12901367 CCATTTCCCCTCCCCCATTTTCTTTCTTTTT
1 CCATTTCCCCTCCCCCATTTTCTCTCTCTTT
* *
12901398 CCATTT-CCTTCCCCCTTCTTTCTCTCTCTTT
1 CCATTTCCCCTCCCCCAT-TTTCTCTCTCTTT
12901429 C
1 C
12901430 TCTCTCAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.05, C:0.44, G:0.00, T:0.51
Consensus pattern (31 bp):
CCATTTCCCCTCCCCCATTTTCTCTCTCTTT
Found at i:12913500 original size:63 final size:63
Alignment explanation
Indices: 12913401--12913526 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
12913391 TTCAAACGAC
12913401 TTGATCAATTATAGAAAAGATGATAGCCATTCCTATGAGATTCTTAACAGCCATGAACAGCAT
1 TTGATCAATTATAGAAAAGATGATAGCCATTCCTATGAGATTCTTAACAGCCATGAACAGCAT
* *
12913464 TTGATCAATTATATAAAAGATGATAGCCATTTCTATGAGATTCTTAACAGCCATGAACAGCAT
1 TTGATCAATTATAGAAAAGATGATAGCCATTCCTATGAGATTCTTAACAGCCATGAACAGCAT
12913527 ACCTTCATCC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (63 bp):
TTGATCAATTATAGAAAAGATGATAGCCATTCCTATGAGATTCTTAACAGCCATGAACAGCAT
Found at i:12920553 original size:18 final size:21
Alignment explanation
Indices: 12920530--12920569 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
12920520 TTTTTTATAA
12920530 AATTAATT-CA-AAA-AATTT
1 AATTAATTACATAAATAATTT
12920548 AATTAATTACATAAATAATTT
1 AATTAATTACATAAATAATTT
12920569 A
1 A
12920570 TTTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
20 3 0.16
21 6 0.32
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTAATTACATAAATAATTT
Found at i:12920727 original size:20 final size:20
Alignment explanation
Indices: 12920685--12920731 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
12920675 TATATAAATA
** * *
12920685 TTAAAAAAAATATTATAATT
1 TTAAAAAAAATAAAAAAACT
12920705 TTAAAAAAAATAAAAAAACT
1 TTAAAAAAAATAAAAAAACT
12920725 TTAAAAA
1 TTAAAAA
12920732 TAATTTCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
TTAAAAAAAATAAAAAAACT
Found at i:12920945 original size:15 final size:15
Alignment explanation
Indices: 12920921--12920968 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
12920911 CAACATTTTC
* *
12920921 TTTAACATTTTTATA
1 TTTAAAATTTTTAAA
12920936 TTTAAAATTTTTAAA
1 TTTAAAATTTTTAAA
*
12920951 TTTTTAAAAATTTTAAA
1 --TTTAAAATTTTTAAA
12920968 T
1 T
12920969 ATATTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 14 0.50
17 14 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAAATTTTTAAA
Found at i:12920958 original size:17 final size:17
Alignment explanation
Indices: 12920936--12920979 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
12920926 CATTTTTATA
*
12920936 TTTAAAATTTTTAAATT
1 TTTAAAAATTTTAAATT
12920953 TTTAAAAATTTTAAATAT
1 TTTAAAAATTTTAAAT-T
*
12920971 ATTAAAAAT
1 TTTAAAAAT
12920980 ATTTTTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAAATTTTAAATT
Found at i:12920962 original size:18 final size:19
Alignment explanation
Indices: 12920932--12920984 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
12920922 TTAACATTTT
*
12920932 TATATTTAAAATTTTTAAA
1 TATATTAAAAATTTTTAAA
*
12920951 T-TTTTAAAAA-TTTTAAA
1 TATATTAAAAATTTTTAAA
12920968 TATATTAAAAATATTTT
1 TATATTAAAAAT-TTTT
12920985 TTCTCTTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 8 0.29
18 15 0.54
19 1 0.04
20 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTAAAAATTTTTAAA
Found at i:12921019 original size:9 final size:9
Alignment explanation
Indices: 12921001--12921075 Score: 50
Period size: 9 Copynumber: 8.3 Consensus size: 9
12920991 TTACTATTAA
*
12921001 AAATAGATT
1 AAATATATT
12921010 AAATATATT
1 AAATATATT
12921019 AAA-AT-TT
1 AAATATATT
*
12921026 TAATATATTT
1 AAATATA-TT
12921036 AAA-AT-TT
1 AAATATATT
*
12921043 CAATATATTT
1 AAATATA-TT
12921053 AAAAATATATT
1 --AAATATATT
*
12921064 GAATATATT
1 AAATATATT
12921073 AAA
1 AAA
12921076 ATTTTAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
7 8 0.16
8 6 0.12
9 23 0.45
10 6 0.12
11 2 0.04
12 6 0.12
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (9 bp):
AAATATATT
Found at i:12921037 original size:17 final size:16
Alignment explanation
Indices: 12921011--12921082 Score: 81
Period size: 17 Copynumber: 4.1 Consensus size: 16
12921001 AAATAGATTA
12921011 AATATATTAAAATTTT
1 AATATATTAAAATTTT
*
12921027 AATATATTTAAAATTTC
1 AATATA-TTAAAATTTT
12921044 AATATATTTAAAAATATATT
1 AATATA-TT-AAAAT-T-TT
12921064 GAATATATTAAAATTTT
1 -AATATATTAAAATTTT
12921081 AA
1 AA
12921083 AATGTTAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
16 8 0.16
17 20 0.41
18 6 0.12
19 6 0.12
20 3 0.06
21 6 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (16 bp):
AATATATTAAAATTTT
Found at i:12921079 original size:27 final size:27
Alignment explanation
Indices: 12920997--12921085 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
12920987 CTCTTTACTA
*
12920997 TTAAAAATAGATTAAATATATTAAAAT
1 TTAAAAATATATTAAATATATTAAAAT
* *
12921024 TTTAATATAT-TTAAA-AT-TTCAATATAT
1 TTAAAAATATATTAAATATATT-AA-A-AT
*
12921051 TTAAAAATATATTGAATATATTAAAAT
1 TTAAAAATATATTAAATATATTAAAAT
*
12921078 TTTAAAAT
1 TTAAAAAT
12921086 GTTAAAGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
24 2 0.04
25 4 0.08
26 6 0.12
27 26 0.53
28 5 0.10
29 4 0.08
30 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (27 bp):
TTAAAAATATATTAAATATATTAAAAT
Found at i:12921155 original size:79 final size:78
Alignment explanation
Indices: 12921033--12921205 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 78
12921023 TTTTAATATA
* * * *
12921033 TTTAAAATTTCAATATATTTAAAAATATATTGAATATATTAAAATTTT-AAAATGTTAAAGAAAA
1 TTTAAAATTTTAATATACTT---AATATATTAAATATATTAAAATTTTGAAAATATTAAA-AAAA
** *
12921097 TGT-TGAGTATAATTAAT
62 T-TAAAAGTATAACTAAT
* *
12921114 TTTAAATTTTTAATATACTTAATATATTTAAATATATTAAAATTTTGAACATATTAAAAAAATTA
1 TTTAAAATTTTAATATACTTAATATA-TTAAATATATTAAAATTTTGAAAATATTAAAAAAATTA
12921179 AAAGTATAACTAAT
65 AAAGTATAACTAAT
12921193 TTTAAAATTTTAA
1 TTTAAAATTTTAA
12921206 AATATTTTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
78 7 0.09
79 46 0.58
80 9 0.11
81 17 0.22
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (78 bp):
TTTAAAATTTTAATATACTTAATATATTAAATATATTAAAATTTTGAAAATATTAAAAAAATTAA
AAGTATAACTAAT
Found at i:12922691 original size:16 final size:17
Alignment explanation
Indices: 12922657--12922725 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
12922647 ATACATTTTC
12922657 TTTAACATATTTAAAAT
1 TTTAACATATTTAAAAT
* *
12922674 TTTAATATATTTAAATTTT
1 TTTAACATATTTAAA--AT
** *
12922693 TTTAAGTTTTTTAAAAT
1 TTTAACATATTTAAAAT
12922710 TTTAA-ATATATTAAAA
1 TTTAACATAT-TTAAAA
12922726 ATATTTTTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
16 2 0.05
17 26 0.63
19 13 0.32
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAACATATTTAAAAT
Found at i:12922803 original size:19 final size:19
Alignment explanation
Indices: 12922776--12922890 Score: 63
Period size: 19 Copynumber: 6.5 Consensus size: 19
12922766 TAAAATTGGT
*
12922776 TATACTTAATAATTTTTAA
1 TATATTTAATAATTTTTAA
*
12922795 TATATTTAAT-TTTTTTAAA
1 TATATTTAATAATTTTT-AA
* *
12922814 TATATTAAAT-A-TATTAA
1 TATATTTAATAATTTTTAA
* **
12922831 -A-ATTTTA-AATTAGT--
1 TATATTTAATAATTTTTAA
*
12922845 TATACTTAA-AATTTTTTAA
1 TATATTTAATAA-TTTTTAA
12922864 TATATTTAA-AA-TTTTAA
1 TATATTTAATAATTTTTAA
12922881 TATATTTAAT
1 TATATTTAAT
12922891 TTTTTTAAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
15 6 0.08
16 10 0.14
17 20 0.27
18 8 0.11
19 30 0.41
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (19 bp):
TATATTTAATAATTTTTAA
Found at i:12922808 original size:17 final size:17
Alignment explanation
Indices: 12922788--12922895 Score: 69
Period size: 17 Copynumber: 6.3 Consensus size: 17
12922778 TACTTAATAA
12922788 TTTTTAATATATTTAATT
1 TTTTTAATATATTTAA-T
*
12922806 TTTTTAAATATATTAAAT
1 TTTTT-AATATATTTAAT
* * *
12922824 ATATTAAAAT-TTTAAAT
1 TTTTTAATATATTT-AAT
** **
12922841 TAGTT-ATACT-TAAAAT
1 TTTTTAATA-TATTTAAT
*
12922857 TTTTTAATATATTTAAA
1 TTTTTAATATATTTAAT
*
12922874 ATTTTAATATATTTAAT
1 TTTTTAATATATTTAAT
12922891 TTTTT
1 TTTTT
12922896 TAAAGTTTTT
Statistics
Matches: 66, Mismatches: 19, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
16 11 0.17
17 36 0.55
18 9 0.14
19 10 0.15
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
TTTTTAATATATTTAAT
Found at i:12922833 original size:202 final size:206
Alignment explanation
Indices: 12922610--12923015 Score: 499
Period size: 202 Copynumber: 2.0 Consensus size: 206
12922600 GCCTGTTAAA
* * *
12922610 AAATATATTAAAATTTTAAAATTGATT-A-TACTTAAAAATACATTTTCTTTAACATATTTAAAA
1 AAATATATTAAAATATTAAAATT--TTAATTACTTAAAAATAAAATTT-TTTAACATATTTAAAA
12922673 TTTTAATATATTTAAATTTTTTT-AAGTTTTTTAAAATTTTAAATATATTAA-AAATATTTTTTC
63 TTTTAATATATTT-AATTTTTTTAAAGTTTTTTAAAATTTTAAATA-ATTAAGAAATATTTTTTC
* ** *
12922736 TCTTTACCTATT-AA-A-A-AA-TATATTAAAA-TTTAAAATTGGTTATACTTAATAATTTTTAA
126 TCTTCACCTATTAAATATATAAGTATATTAAAATTTTAAAATTAATTATACTTAACAATTTTTAA
12922795 TATATTTAATTTTTTT
191 TATATTTAATTTTTTT
* * ** *
12922811 AAATATATTAAATATATTAAAATTTTAAATTAGTTATACTTAAAATTTTTTAATATATTTAAAAT
1 AAATATATTAAA-ATATTAAAATTTT-AATTACTTAAAAATAAAATTTTTTAACATATTTAAAAT
* *
12922876 TTTAATATATTTAATTTTTTTAAAGTTTTTTAAAATTTTAAATAATTAAGGAAATTTTTTTTGTC
64 TTTAATATATTTAATTTTTTTAAAGTTTTTTAAAATTTTAAATAATTAA-GAAATATTTTTTCTC
* *
12922941 TTCACTTATTAAAATATATTTAAGTATATTAAAATTTTAAAATTAATTATACTTAACATTTTTTA
128 TTCACCTATT-AAATATA--TAAGTATATTAAAATTTTAAAATTAATTATACTTAACAATTTTTA
12923006 ATATATTTAA
190 ATATATTTAA
12923016 AATTTTAAAA
Statistics
Matches: 173, Mismatches: 16, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
200 2 0.01
201 26 0.15
202 61 0.35
203 32 0.18
205 2 0.01
206 1 0.01
207 1 0.01
210 2 0.01
211 10 0.06
212 36 0.21
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (206 bp):
AAATATATTAAAATATTAAAATTTTAATTACTTAAAAATAAAATTTTTTAACATATTTAAAATTT
TAATATATTTAATTTTTTTAAAGTTTTTTAAAATTTTAAATAATTAAGAAATATTTTTTCTCTTC
ACCTATTAAATATATAAGTATATTAAAATTTTAAAATTAATTATACTTAACAATTTTTAATATAT
TTAATTTTTTT
Found at i:12922836 original size:26 final size:26
Alignment explanation
Indices: 12922807--12922924 Score: 77
Period size: 26 Copynumber: 4.6 Consensus size: 26
12922797 TATTTAATTT
*
12922807 TTTTAAATATATTAAATATATTAAAA
1 TTTTAAATATATTAAATATTTTAAAA
*
12922833 TTTTAAAT-TAGTT--ATA-CTTAAAA
1 TTTTAAATATA-TTAAATATTTTAAAA
* *
12922856 TTTTTTAATATATTTAAA-ATTTTAATA
1 -TTTTAAATATA-TTAAATATTTTAAAA
* * * *
12922883 TATTTAATTTTTTTAAAGTTTTTTAAAA
1 T-TTTAAATATATTAAA-TATTTTAAAA
12922911 TTTTAAATA-ATTAA
1 TTTTAAATATATTAA
12922925 GGAAATTTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
23 6 0.09
24 10 0.14
25 6 0.09
26 21 0.30
27 18 0.26
28 8 0.12
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTTAAATATATTAAATATTTTAAAA
Found at i:12923015 original size:19 final size:20
Alignment explanation
Indices: 12922983--12923021 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
12922973 AATTTTAAAA
*
12922983 TTAATTATACTTAACATTTT
1 TTAATTATACTTAAAATTTT
*
12923003 TTAA-TATATTTAAAATTTT
1 TTAATTATACTTAAAATTTT
12923022 AAAAAAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAATTATACTTAAAATTTT
Found at i:12923114 original size:19 final size:18
Alignment explanation
Indices: 12923090--12923143 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
12923080 TCAGAAACTA
12923090 ATTTTTTTAAAATTTACCT
1 ATTTTTTTAAAATTTA-CT
** *
12923109 ATTTTTCGAAAATTATAGT
1 ATTTTTTTAAAATT-TACT
*
12923128 ATTTTTTTAATATTTA
1 ATTTTTTTAAAATTTA
12923144 TATAAGTAGC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 2 0.07
19 24 0.86
20 2 0.07
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (18 bp):
ATTTTTTTAAAATTTACT
Found at i:12925621 original size:6 final size:6
Alignment explanation
Indices: 12925607--12925636 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
12925597 ATTCTTTTCA
*
12925607 AAGTTG AAGTAG AAGTAG AAGTAG AAGTAG
1 AAGTAG AAGTAG AAGTAG AAGTAG AAGTAG
12925637 GACAACGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (6 bp):
AAGTAG
Found at i:12926508 original size:23 final size:21
Alignment explanation
Indices: 12926471--12926556 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 21
12926461 ATTATTTTTT
*
12926471 TATTGAAATT-TAT-TTTAAA
1 TATTAAAATTATATATTTAAA
12926490 TATATAAAATTATATATTTAAA
1 TAT-TAAAATTATATATTTAAA
*
12926512 T-TTATAATGATTATAT-TTTAAT
1 TATTA-AA--ATTATATATTTAAA
*
12926534 TATTATAGATTATATATTTAAA
1 TATTA-AAATTATATATTTAAA
12926556 T
1 T
12926557 TAAATAATTG
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.05
20 8 0.15
21 13 0.24
22 19 0.35
23 12 0.22
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
TATTAAAATTATATATTTAAA
Found at i:12926528 original size:21 final size:24
Alignment explanation
Indices: 12926484--12926557 Score: 88
Period size: 22 Copynumber: 3.3 Consensus size: 24
12926474 TGAAATTTAT
*
12926484 TTTAAATATATAA-A-ATTATATA
1 TTTAAATTTATAATAGATTATATA
12926506 TTTAAATTTATAAT-GATTATAT-
1 TTTAAATTTATAATAGATTATATA
*
12926528 TTT-AA-TTATTATAGATTATATA
1 TTTAAATTTATAATAGATTATATA
12926550 TTTAAATT
1 TTTAAATT
12926558 AAATAATTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
20 6 0.14
21 10 0.23
22 18 0.41
23 9 0.20
24 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (24 bp):
TTTAAATTTATAATAGATTATATA
Found at i:12929068 original size:20 final size:20
Alignment explanation
Indices: 12929036--12929073 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12929026 TGTTTCACAT
12929036 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
12929056 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
12929074 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:12929772 original size:39 final size:38
Alignment explanation
Indices: 12929705--12929839 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
12929695 ACCAATATGG
* * *
12929705 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATAGTTGA
* * *
12929744 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATAGTTGA
* * * *
12929782 TACCCAGTACCTCATCGAATCTATCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAGT--TGA
*
12929823 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
12929840 ACTCGAGGTT
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATAGTTGA
Found at i:12931114 original size:15 final size:14
Alignment explanation
Indices: 12931096--12931126 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
12931086 TTAATTTATT
12931096 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
12931111 TAATAATAATCTAA
1 TAATAATAATCTAA
12931125 TA
1 TA
12931127 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:12931137 original size:21 final size:20
Alignment explanation
Indices: 12931113--12931181 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
12931103 AATGCTAATA
12931113 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
12931134 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
12931153 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
12931174 ATAATAAT
1 ATAATAAT
12931182 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:12932682 original size:16 final size:16
Alignment explanation
Indices: 12932631--12932683 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
12932621 TAATTAATCT
12932631 AATAAGATAATTACATGTA
1 AATAA-ATAA-TACAT-TA
* *
12932650 AA-AAATAATAAAATA
1 AATAAATAATACATTA
12932665 AATAAATAATACATTA
1 AATAAATAATACATTA
12932681 AAT
1 AAT
12932684 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 4 0.14
16 17 0.59
17 4 0.14
18 2 0.07
19 2 0.07
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (16 bp):
AATAAATAATACATTA
Found at i:12940889 original size:2 final size:2
Alignment explanation
Indices: 12940882--12940914 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12940872 TAAAAATCTT
12940882 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
12940915 GTCTGGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12946980 original size:2 final size:2
Alignment explanation
Indices: 12946973--12947004 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12946963 TCTTAATTAA
12946973 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12947005 AGATTATAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12949382 original size:17 final size:17
Alignment explanation
Indices: 12949360--12949392 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12949350 CGAAACCCTG
12949360 AGTTTGTTCTGTTTTCT
1 AGTTTGTTCTGTTTTCT
*
12949377 AGTTTGTTCTTTTTTC
1 AGTTTGTTCTGTTTTC
12949393 CTTCTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.15, T:0.67
Consensus pattern (17 bp):
AGTTTGTTCTGTTTTCT
Found at i:12962894 original size:2 final size:2
Alignment explanation
Indices: 12962848--12962880 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
12962838 ACTTGTAAAT
12962848 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
12962881 AAATCATCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12963215 original size:5 final size:5
Alignment explanation
Indices: 12963205--12963230 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12963195 GTTTCTTCCC
12963205 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
12963231 TTCCTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:12968495 original size:12 final size:12
Alignment explanation
Indices: 12968478--12968502 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12968468 TTTTTATGGT
12968478 ATTCTTATTTTC
1 ATTCTTATTTTC
12968490 ATTCTTATTTTC
1 ATTCTTATTTTC
12968502 A
1 A
12968503 AACATAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTCTTATTTTC
Found at i:12975319 original size:13 final size:13
Alignment explanation
Indices: 12975303--12975360 Score: 80
Period size: 13 Copynumber: 4.5 Consensus size: 13
12975293 ATTTTAAACT
12975303 AATATTTTTTAAA
1 AATATTTTTTAAA
* *
12975316 AATATTTTTTCAC
1 AATATTTTTTAAA
* *
12975329 AACACTTTTTAAA
1 AATATTTTTTAAA
12975342 AATATTTTTTAAA
1 AATATTTTTTAAA
12975355 AATATT
1 AATATT
12975361 GTCAAACTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTTTTTAAA
Found at i:12975322 original size:26 final size:25
Alignment explanation
Indices: 12975293--12975349 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
12975283 AAATACTTAA
* *
12975293 ATTTTAAACTAATATTTTTTAAAAAT
1 ATTTTAAAC-AACACTTTTTAAAAAT
**
12975319 ATTTTTTCACAACACTTTTTAAAAAT
1 A-TTTTAAACAACACTTTTTAAAAAT
12975345 ATTTT
1 ATTTT
12975350 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 4 0.15
26 16 0.62
27 6 0.23
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTTAAACAACACTTTTTAAAAAT
Found at i:12977532 original size:25 final size:24
Alignment explanation
Indices: 12977504--12977562 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
12977494 AATTGATCCA
*
12977504 ATAATTAATTAAATTCGAATTAATT
1 ATAATTAAATAAATT-GAATTAATT
* *
12977529 ATAATTAAAATAGATTTAATTAATT
1 ATAATT-AAATAAATTGAATTAATT
12977554 ATAATTAAA
1 ATAATTAAA
12977563 ATAGATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.10
25 20 0.67
26 7 0.23
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (24 bp):
ATAATTAAATAAATTGAATTAATT
Found at i:12977547 original size:21 final size:21
Alignment explanation
Indices: 12977509--12977572 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 21
12977499 ATCCAATAAT
* * *
12977509 TAATTAAATTCGAATTAATTA
1 TAATTAAAATAGATTTAATTA
12977530 TAATTAAAATAGATTTAATTAATTA
1 TAATTAAAATAGA--T--TTAATTA
12977555 TAATTAAAATAGATTTAA
1 TAATTAAAATAGATTTAA
12977573 AGAAAAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 15 0.42
23 1 0.03
25 20 0.56
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (21 bp):
TAATTAAAATAGATTTAATTA
Found at i:12977563 original size:25 final size:25
Alignment explanation
Indices: 12977521--12977572 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
12977511 ATTAAATTCG
12977521 AATTAATTATAATTAAAATAGATTT
1 AATTAATTATAATTAAAATAGATTT
12977546 AATTAATTATAATTAAAATAGATTT
1 AATTAATTATAATTAAAATAGATTT
12977571 AA
1 AA
12977573 AGAAAAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
AATTAATTATAATTAAAATAGATTT
Found at i:12987578 original size:206 final size:206
Alignment explanation
Indices: 12987224--12987634 Score: 813
Period size: 206 Copynumber: 2.0 Consensus size: 206
12987214 TACTCTATGC
12987224 TGCCAAAGAATTTTAGTTCACATATAATGCAAATGTTTCTCGATACTTTAATGTTTTGATGTAGA
1 TGCCAAAGAATTTTAGTTCACATATAATGCAAATGTTTCTCGATACTTTAATGTTTTGATGTAGA
12987289 ATGTCGCGATTGTAAATTTAATCTCTGAATTCCAAATACTGTTATACCAAATTTCCGGTTCCAAA
66 ATGTCGCGATTGTAAATTTAATCTCTGAATTCCAAATACTGTTATACCAAATTTCCGGTTCCAAA
12987354 GTTGTGTTTAGACTATATGATGCCACATAATTCTAGTGCTAGATATAATATGCAGATGTTTAGCA
131 GTTGTGTTTAGACTATATGATGCCACATAATTCTAGTGCTAGATATAATATGCAGATGTTTAGCA
12987419 ATATTTTAATA
196 ATATTTTAATA
12987430 TGCCAAAGAATTTTAGTTCACATATAATGCAAATGTTTCTCGATACTTTAATGTTTTGATGTAGA
1 TGCCAAAGAATTTTAGTTCACATATAATGCAAATGTTTCTCGATACTTTAATGTTTTGATGTAGA
*
12987495 ATGTCGTGATTGTAAATTTAATCTCTGAATTCCAAATACTGTTATACCAAATTTCCGGTTCCAAA
66 ATGTCGCGATTGTAAATTTAATCTCTGAATTCCAAATACTGTTATACCAAATTTCCGGTTCCAAA
12987560 GTTGTGTTTAGACTATATGATGCCACATAATTCTAGTGCTAGATATAATATGCAGATGTTTAGCA
131 GTTGTGTTTAGACTATATGATGCCACATAATTCTAGTGCTAGATATAATATGCAGATGTTTAGCA
12987625 ATATTTTAAT
196 ATATTTTAAT
12987635 GTTTTTATGT
Statistics
Matches: 204, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
206 204 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (206 bp):
TGCCAAAGAATTTTAGTTCACATATAATGCAAATGTTTCTCGATACTTTAATGTTTTGATGTAGA
ATGTCGCGATTGTAAATTTAATCTCTGAATTCCAAATACTGTTATACCAAATTTCCGGTTCCAAA
GTTGTGTTTAGACTATATGATGCCACATAATTCTAGTGCTAGATATAATATGCAGATGTTTAGCA
ATATTTTAATA
Found at i:12991214 original size:29 final size:29
Alignment explanation
Indices: 12991150--12991219 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
12991140 ATTAACATTC
12991150 AATAATTAAATATTACAATATAATAACATA
1 AATAATTAAA-ATTACAATATAATAACATA
* **
12991180 AATAATTAAAA-TATAATATTTTAAGCATA
1 AATAATTAAAATTACAATATAATAA-CATA
12991209 AATAATTAAAA
1 AATAATTAAAA
12991220 GAAACGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.28
29 16 0.44
30 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (29 bp):
AATAATTAAAATTACAATATAATAACATA
Found at i:12991260 original size:38 final size:38
Alignment explanation
Indices: 12991217--12991295 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
12991207 TAAATAATTA
12991217 AAAGAAACGAAAATAACCATTTAAATAATTTACCCAAC
1 AAAGAAACGAAAATAACCATTTAAATAATTTACCCAAC
12991255 AAAGAAACGAAAATAACCATTTAAATAATTTACCCAAC
1 AAAGAAACGAAAATAACCATTTAAATAATTTACCCAAC
12991293 AAA
1 AAA
12991296 ATATTATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.57, C:0.18, G:0.05, T:0.20
Consensus pattern (38 bp):
AAAGAAACGAAAATAACCATTTAAATAATTTACCCAAC
Found at i:13007976 original size:2 final size:2
Alignment explanation
Indices: 13007969--13008000 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13007959 AATTTTTGAT
13007969 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13008001 AAACAGCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13013374 original size:21 final size:21
Alignment explanation
Indices: 13013348--13013395 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
13013338 GTATGAACAT
13013348 ATTGAACCGGCTAAAAAATCA
1 ATTGAACCGGCTAAAAAATCA
*
13013369 ATTGAACTGGCTAAAAAATCA
1 ATTGAACCGGCTAAAAAATCA
*
13013390 GTTGAA
1 ATTGAA
13013396 TCGAGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.23
Consensus pattern (21 bp):
ATTGAACCGGCTAAAAAATCA
Found at i:13026474 original size:29 final size:30
Alignment explanation
Indices: 13026428--13026489 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
13026418 TCAATTTTAT
*
13026428 TTTATGATTTATATATATTTTACAT-ATTA
1 TTTATGATTTATACATATTTTACATAATTA
*
13026457 TTTATG-TTTAATACATATTTTTCATAATTA
1 TTTATGATTT-ATACATATTTTACATAATTA
13026487 TTT
1 TTT
13026490 TAAACAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 3 0.10
29 19 0.66
30 7 0.24
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTATGATTTATACATATTTTACATAATTA
Found at i:13042142 original size:24 final size:24
Alignment explanation
Indices: 13042115--13042170 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
13042105 GGGCTGGCCT
13042115 GTTGCTGGGCCTGCAGTTGCTGAG
1 GTTGCTGGGCCTGCAGTTGCTGAG
13042139 GTTGCTGGGCCTGCAGTTGCTGAG
1 GTTGCTGGGCCTGCAGTTGCTGAG
13042163 GTTGCTGG
1 GTTGCTGG
13042171 TTCAATTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.07, C:0.20, G:0.43, T:0.30
Consensus pattern (24 bp):
GTTGCTGGGCCTGCAGTTGCTGAG
Found at i:13042260 original size:3 final size:3
Alignment explanation
Indices: 13042252--13042466 Score: 139
Period size: 3 Copynumber: 71.7 Consensus size: 3
13042242 AGTTGTTTCT
* *
13042252 TGC TGC TGC TGC TGC TGC TG- TGGC TGC TGC TGT TG- TAAC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC T-GC TGC TGC TGC TGC T-GC TGC TGC
* * * * * ** ** **
13042297 TGC TGC AGC TGT TGT TGC TGA TGA TGC AAC TGC TGC TGC AAC TGC AAC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
* * * *
13042345 TGC TGC TGT TGT TGT TGC TGC TGC TGC TGC TGC TGC TGC AAG- TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC -TGC TGC
** * * *** **
13042390 AAC TGC TGC TGT TGT TGC TGC TGC TGC TGC AAT TGC AAC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
*
13042438 TGC TGC TGC TGC TGC TGC TGT TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
13042467 GTTCATGTAA
Statistics
Matches: 163, Mismatches: 43, Indels: 12
0.75 0.20 0.06
Matches are distributed among these distances:
2 3 0.02
3 157 0.96
4 3 0.02
ACGTcount: A:0.09, C:0.26, G:0.31, T:0.34
Consensus pattern (3 bp):
TGC
Found at i:13042294 original size:36 final size:36
Alignment explanation
Indices: 13042254--13042461 Score: 198
Period size: 36 Copynumber: 5.9 Consensus size: 36
13042244 TTGTTTCTTG
*
13042254 CTGCTGCTGCTGCTGCTG-TGGCTGCTGCTGTTGTAA
1 CTGCTGCTGCTGCTGCTGCT-GCTGCTGCTGTTGCAA
* * * * *
13042290 CTGCTGCTGCTGCAGCTGTTGTTGCTGATGATGCAA
1 CTGCTGCTGCTGCTGCTGCTGCTGCTGCTGTTGCAA
** ** *
13042326 CTGCTGCTGCAACTGCAACTGCTGCTGTTGTTG---
1 CTGCTGCTGCTGCTGCTGCTGCTGCTGCTGTTGCAA
*
13042359 -T--TGCTGCTGCTGCTGCTGCTGCTGCAAG-TGCAA
1 CTGCTGCTGCTGCTGCTGCTGCTGCTGC-TGTTGCAA
* * **
13042392 CTGCTGCTGTTGTTGCTGCTGCTGCTGCAATTGCAA
1 CTGCTGCTGCTGCTGCTGCTGCTGCTGCTGTTGCAA
13042428 CTGCTGCTGCTGCTGCTGCTGCTGCTGCTGTTGC
1 CTGCTGCTGCTGCTGCTGCTGCTGCTGCTGTTGC
13042462 TGCTGGTTCA
Statistics
Matches: 136, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
30 21 0.15
31 1 0.01
32 1 0.01
34 1 0.01
35 1 0.01
36 110 0.81
37 1 0.01
ACGTcount: A:0.09, C:0.26, G:0.30, T:0.34
Consensus pattern (36 bp):
CTGCTGCTGCTGCTGCTGCTGCTGCTGCTGTTGCAA
Found at i:13042378 original size:48 final size:48
Alignment explanation
Indices: 13042264--13042419 Score: 188
Period size: 48 Copynumber: 3.2 Consensus size: 48
13042254 CTGCTGCTGC
* * ** * *
13042264 TGCTGCTG-TGGCTGCTGCTGTTGTAACTGCTGCTGCTGCAGCTGTTGT
1 TGCTGCTGCT-GCTGCTGCTGCTGCAACTGCAACTGCTGCTGTTGTTGT
* * **
13042312 TGCTGATGATGCAACTGCTGCTGCAACTGCAACTGCTGCTGTTGTTGT
1 TGCTGCTGCTGCTGCTGCTGCTGCAACTGCAACTGCTGCTGTTGTTGT
* *
13042360 TGCTGCTGCTGCTGCTGCTGCTGCAAGTGCAACTGCTGCTGTTGTTGC
1 TGCTGCTGCTGCTGCTGCTGCTGCAACTGCAACTGCTGCTGTTGTTGT
13042408 TGCTGCTGCTGC
1 TGCTGCTGCTGC
13042420 AATTGCAACT
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
48 91 0.99
49 1 0.01
ACGTcount: A:0.10, C:0.25, G:0.31, T:0.35
Consensus pattern (48 bp):
TGCTGCTGCTGCTGCTGCTGCTGCAACTGCAACTGCTGCTGTTGTTGT
Found at i:13042444 original size:48 final size:48
Alignment explanation
Indices: 13042252--13042466 Score: 183
Period size: 48 Copynumber: 4.6 Consensus size: 48
13042242 AGTTGTTTCT
* * **
13042252 TGCTGCTGCTGCTGCTGCTG-TGGCTGCTGCTGTTGTAACTGCTGCTGC
1 TGCTGCTGCTGCTGCTGCTGCT-GCTGCTGCTGCTGCAACTGCAACTGC
* * * * * **
13042300 TGCAGCTGTTGTTGCTGATGATGCAACTGCTGCTGCAACTGCAACTGC
1 TGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCAACTGCAACTGC
* * * *
13042348 TGCTGTTGTTGTTGCTGCTGCTGCTGCTGCTGCTGCAAGTGCAACTGC
1 TGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCAACTGCAACTGC
*** **
13042396 TGCTG-T--TG-T--TGCTGCTGCTGCTGCAATTGCAACTGCTGCTGC
1 TGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCAACTGCAACTGC
*
13042438 TGCTGCTGCTGCTGCTGCTGTTGCTGCTG
1 TGCTGCTGCTGCTGCTGCTGCTGCTGCTG
13042467 GTTCATGTAA
Statistics
Matches: 136, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
42 32 0.24
43 1 0.01
44 1 0.01
45 4 0.03
46 1 0.01
47 1 0.01
48 95 0.70
49 1 0.01
ACGTcount: A:0.09, C:0.26, G:0.31, T:0.34
Consensus pattern (48 bp):
TGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCAACTGCAACTGC
Found at i:13042965 original size:21 final size:21
Alignment explanation
Indices: 13042932--13042995 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
13042922 TCATTTTCCT
*
13042932 CTGCATTTGCTGCTGCTGCTG
1 CTGCAATTGCTGCTGCTGCTG
*
13042953 -TG--GTTGCTGCTGCTGCTG
1 CTGCAATTGCTGCTGCTGCTG
* *
13042971 TTGCAATTGCCGCTGCTGCTG
1 CTGCAATTGCTGCTGCTGCTG
13042992 CTGC
1 CTGC
13042996 TGTTGCATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 15 0.42
19 2 0.06
20 2 0.06
21 17 0.47
ACGTcount: A:0.05, C:0.28, G:0.31, T:0.36
Consensus pattern (21 bp):
CTGCAATTGCTGCTGCTGCTG
Found at i:13042973 original size:15 final size:15
Alignment explanation
Indices: 13042942--13042997 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
13042932 CTGCATTTGC
13042942 TGCTGCTGCTG-TGGT
1 TGCTGCTGCTGCT-GT
13042957 TGCTGCTGCTGCTGT
1 TGCTGCTGCTGCTGT
* *
13042972 TGCAATTGCCGCTGCTGC
1 TGC---TGCTGCTGCTGT
13042990 TGCTGCTG
1 TGCTGCTG
13042998 TTGCATCATC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 20 0.59
16 1 0.03
18 13 0.38
ACGTcount: A:0.04, C:0.27, G:0.34, T:0.36
Consensus pattern (15 bp):
TGCTGCTGCTGCTGT
Found at i:13043001 original size:21 final size:21
Alignment explanation
Indices: 13042940--13043001 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
13042930 CTCTGCATTT
*
13042940 GCTGCTGCTGCTG-TGGTTGCT
1 GCTGCTGCTGCTGCT-GTTGCC
* **
13042961 GCTGCTGCTGTTGCAATTGCC
1 GCTGCTGCTGCTGCTGTTGCC
13042982 GCTGCTGCTGCTGCTGTTGC
1 GCTGCTGCTGCTGCTGTTGC
13043002 ATCATCTGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.03, C:0.27, G:0.34, T:0.35
Consensus pattern (21 bp):
GCTGCTGCTGCTGCTGTTGCC
Found at i:13062673 original size:23 final size:21
Alignment explanation
Indices: 13062624--13062674 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
13062614 ACTTCTAAAT
* *
13062624 TTTATTCTTTTAAAAATATTA
1 TTTATTATTTTAAAAATAATA
13062645 TGTTATTATTTTAAAAAATCAATA
1 T-TTATTATTTT-AAAAAT-AATA
13062669 TTTATT
1 TTTATT
13062675 TTAAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 11 0.44
24 4 0.16
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTATTATTTTAAAAATAATA
Found at i:13062690 original size:20 final size:19
Alignment explanation
Indices: 13062623--13062694 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
13062613 AACTTCTAAA
*
13062623 TTTTATTCTTTTAAAAATAT
1 TTTTATTATTTT-AAAATAT
*
13062643 TATGTTATTATTTTAAAAAAT
1 T-T-TTATTATTTTAAAATAT
***
13062664 CAATATTTATTTTAAAATAT
1 TTTTA-TTATTTTAAAATAT
13062684 TTTTATTATTT
1 TTTTATTATTT
13062695 GATTATTTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
19 8 0.20
20 16 0.40
21 7 0.17
22 9 0.22
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (19 bp):
TTTTATTATTTTAAAATAT
Found at i:13062729 original size:29 final size:27
Alignment explanation
Indices: 13062667--13062730 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
13062657 AAAAAATCAA
13062667 TATTTATTTTAAAATATTTTTATTATT
1 TATTTATTTTAAAATATTTTTATTATT
* * *
13062694 TGA-TTATTTTCATAATTTTTTTCGTTATT
1 T-ATTTATTTT-AAAATATTTTT-ATTATT
13062723 TATTTATT
1 TATTTATT
13062731 GCTGATAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 8 0.27
28 11 0.37
29 11 0.37
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (27 bp):
TATTTATTTTAAAATATTTTTATTATT
Found at i:13069653 original size:25 final size:25
Alignment explanation
Indices: 13069589--13069653 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
13069579 AAAAAATTAA
* *
13069589 AATTTTAAAATATTTTATAAATTTT
1 AATTTTAAAATAATTCATAAATTTT
* *
13069614 AATTTTTAAGA-AATTCATATATTTT
1 AA-TTTTAAAATAATTCATAAATTTT
* *
13069639 TATTTTCAAATAATT
1 AATTTTAAAATAATT
13069654 AATCAAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
24 6 0.19
25 18 0.58
26 7 0.23
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (25 bp):
AATTTTAAAATAATTCATAAATTTT
Found at i:13081719 original size:46 final size:46
Alignment explanation
Indices: 13081667--13081843 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
13081657 GCTCTTTGAT
** *
13081667 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATAGTTGAAAGATACCATGGCAACGTGAC
* *
13081713 ATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATAGTTGAAAGATACCATGGCAACGTGAC
* *
13081759 ATGAAAAGAATAAGACCATAGTTGAAAGATACCATGGCAA-GATGAT
1 ATGAAATGAATAAGACCATAGTTGAAAGATACCATGGCAACG-TGAC
* * * *
13081805 A-GAAAATGAGTAAGACCATAGTTGAGAGACACTATGGCA
1 ATG-AAATGAATAAGACCATAGTTGAAAGATACCATGGCA
13081844 TCCTGTCAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.02
46 115 0.98
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATAGTTGAAAGATACCATGGCAACGTGAC
Found at i:13087406 original size:37 final size:37
Alignment explanation
Indices: 13087365--13087439 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
13087355 AGACATCTCA
13087365 AGTTGCCAAGTTTTACCTTTATTAACGATCAGGAAAT
1 AGTTGCCAAGTTTTACCTTTATTAACGATCAGGAAAT
13087402 AGTTGCCAAGTTTTACCTTTATTAACGATCAGGAAAT
1 AGTTGCCAAGTTTTACCTTTATTAACGATCAGGAAAT
13087439 A
1 A
13087440 TATTAAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (37 bp):
AGTTGCCAAGTTTTACCTTTATTAACGATCAGGAAAT
Found at i:13097815 original size:1 final size:1
Alignment explanation
Indices: 13097809--13097834 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
13097799 CATTTGAATT
13097809 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
13097835 CTTGATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13099129 original size:16 final size:16
Alignment explanation
Indices: 13099108--13099139 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13099098 CAGTTTTAGA
13099108 CACATCATCAATAAAC
1 CACATCATCAATAAAC
13099124 CACATCATCAATAAAC
1 CACATCATCAATAAAC
13099140 TTTCCAGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
CACATCATCAATAAAC
Found at i:13101487 original size:18 final size:18
Alignment explanation
Indices: 13101459--13101493 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13101449 ATTTAGTAGC
13101459 ATTTAAAAAAATATATTTG
1 ATTTAAAAAAAT-TATTTG
13101478 ATTT-AAAAAATTATTT
1 ATTTAAAAAAATTATTT
13101494 TTAGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
ATTTAAAAAAATTATTTG
Found at i:13105125 original size:16 final size:16
Alignment explanation
Indices: 13105104--13105135 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13105094 TAGAGGGTTT
13105104 GCCTCCATGGGAAACA
1 GCCTCCATGGGAAACA
13105120 GCCTCCATGGGAAACA
1 GCCTCCATGGGAAACA
13105136 AACACTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.12
Consensus pattern (16 bp):
GCCTCCATGGGAAACA
Found at i:13107240 original size:22 final size:23
Alignment explanation
Indices: 13107198--13107254 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
13107188 ATATTAACAA
13107198 ATAAAATTAAAATTTTGAAATT-T
1 ATAAAA-TAAAATTTTGAAATTCT
13107221 ATAAAATAAAATATTT-AAATTCT
1 ATAAAATAAAAT-TTTGAAATTCT
13107244 -TAAAAATAAAA
1 AT-AAAATAAAA
13107255 GTAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
ATAAAATAAAATTTTGAAATTCT
Found at i:13108226 original size:4 final size:4
Alignment explanation
Indices: 13108219--13108250 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
13108209 TTTACCCAAA
*
13108219 AAAT AAAT AAAT AAAT AAAT AAAC AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
13108251 CAAAATCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:13120260 original size:40 final size:40
Alignment explanation
Indices: 13120201--13120281 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
13120191 ATGGAACTCT
13120201 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
1 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
*
13120241 ATCTAAATTGGCAAGATAACTTATTTGCTTGAGTATCTGC
1 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
13120281 A
1 A
13120282 GTATAACTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (40 bp):
ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
Found at i:13122808 original size:24 final size:22
Alignment explanation
Indices: 13122735--13122808 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 22
13122725 ATATTAAAAT
13122735 TATTATTAAAAATTATATTTATAA
1 TATTATT--AAATTATATTTATAA
*
13122759 TGTTATTAAATTATATATTAT--
1 TATTATTAAATTATAT-TTATAA
13122780 T-TTATTAAATTATATTTAATAA
1 TATTATTAAATTATATTT-ATAA
13122802 TAATTAT
1 T-ATTAT
13122809 GTTAAAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
19 2 0.05
20 16 0.37
21 1 0.02
22 10 0.23
23 4 0.09
24 10 0.23
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (22 bp):
TATTATTAAATTATATTTATAA
Found at i:13123033 original size:44 final size:46
Alignment explanation
Indices: 13122963--13123056 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
13122953 ATTACAACAT
13122963 CATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTACTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTC
*** *
13123007 CATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTC
13123053 CATT
1 CATT
13123057 ACAACTCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 24 0.55
45 2 0.05
46 18 0.41
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTC
Found at i:13123059 original size:16 final size:16
Alignment explanation
Indices: 13123038--13123092 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
13123028 TGAATTACTG
* *
13123038 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCA
13123054 ATTACAACTCTATTCA
1 ATTACAACTCTATTCA
* *
13123070 ATTACAACCCTATTCT
1 ATTACAACTCTATTCA
13123086 ATTACAA
1 ATTACAA
13123093 TAAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (16 bp):
ATTACAACTCTATTCA
Found at i:13124641 original size:16 final size:15
Alignment explanation
Indices: 13124620--13124657 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
13124610 ATATGAAAAT
13124620 TTGTGAAATAATAATA
1 TTGTGAAATAAT-ATA
13124636 TTGTG-AATAATATA
1 TTGTGAAATAATATA
13124650 -TGTGAAAT
1 TTGTGAAAT
13124658 TCGAGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.19
14 6 0.29
15 6 0.29
16 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (15 bp):
TTGTGAAATAATATA
Found at i:13126052 original size:21 final size:21
Alignment explanation
Indices: 13126026--13126066 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
13126016 AAAGGGAACG
13126026 AATATGATATTTTTCACTAAA
1 AATATGATATTTTTCACTAAA
13126047 AATATGATATTTTTCACTAA
1 AATATGATATTTTTCACTAA
13126067 CCATAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (21 bp):
AATATGATATTTTTCACTAAA
Found at i:13126873 original size:18 final size:19
Alignment explanation
Indices: 13126829--13126875 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
13126819 TCATACCTAA
*
13126829 ATATAA-ATATTTTAAAAT
1 ATATAACATATGTTAAAAT
* *
13126847 TTATTACATATGTT-AAAT
1 ATATAACATATGTTAAAAT
13126865 ATATAACATAT
1 ATATAACATAT
13126876 ATATTATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
ATATAACATATGTTAAAAT
Found at i:13135062 original size:20 final size:21
Alignment explanation
Indices: 13135019--13135062 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
13135009 TTAGTCCCTT
13135019 TAGGTTGACTCCAGCTATGCCC
1 TAGGTTGACTCCA-CTATGCCC
13135041 TAGGTTGACATCCA-TA-GCCC
1 TAGGTTGAC-TCCACTATGCCC
13135061 TA
1 TA
13135063 TCACGACACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 9 0.43
23 4 0.19
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (21 bp):
TAGGTTGACTCCACTATGCCC
Found at i:13142877 original size:31 final size:31
Alignment explanation
Indices: 13142829--13142924 Score: 99
Period size: 36 Copynumber: 3.0 Consensus size: 31
13142819 GGTGGCTAGG
*
13142829 TTTTTTTATTTTATTTTT-GGTTAGGTTTTTC
1 TTTTTTTCTTTT-TTTTTGGGTTAGGTTTTTC
13142860 TTTTTTTCTTCTTTTTTTTTTTGGGTTAGGTTTTTC
1 --TTTTT-TTC--TTTTTTTTTGGGTTAGGTTTTTC
13142896 --TTTTTCTTTTTTTTTAGGGTTAGGTTTTT
1 TTTTTTTCTTTTTTTTT-GGGTTAGGTTTTT
13142925 TGGGGGGGCT
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
29 9 0.16
30 13 0.23
31 3 0.05
32 3 0.05
33 5 0.09
34 2 0.04
35 5 0.09
36 17 0.30
ACGTcount: A:0.06, C:0.05, G:0.15, T:0.74
Consensus pattern (31 bp):
TTTTTTTCTTTTTTTTTGGGTTAGGTTTTTC
Found at i:13142925 original size:31 final size:29
Alignment explanation
Indices: 13142861--13142925 Score: 96
Period size: 28 Copynumber: 2.2 Consensus size: 29
13142851 AGGTTTTTCT
13142861 TTTTTTCTTCTTTTTTTTTTTGGGTTAGG
1 TTTTTTCTTCTTTTTTTTTTTGGGTTAGG
*
13142890 -TTTTTCTTTTTCTTTTTTTTTAGGGTTAGG
1 TTTTTTCTTCTT-TTTTTTTTT-GGGTTAGG
13142920 TTTTTT
1 TTTTTT
13142926 GGGGGGGCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 10 0.31
29 9 0.28
30 8 0.25
31 5 0.16
ACGTcount: A:0.05, C:0.06, G:0.15, T:0.74
Consensus pattern (29 bp):
TTTTTTCTTCTTTTTTTTTTTGGGTTAGG
Found at i:13143662 original size:30 final size:30
Alignment explanation
Indices: 13143626--13143687 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
13143616 TTTTGAAAAA
13143626 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
13143656 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
13143686 CA
1 CA
13143688 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:13145168 original size:46 final size:46
Alignment explanation
Indices: 13145118--13145293 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
13145108 TGGTTGAGCA
*
13145118 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
13145164 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
*
13145211 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
13145257 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13145294 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
45 2 0.02
46 68 0.64
47 36 0.34
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:13145274 original size:93 final size:93
Alignment explanation
Indices: 13145115--13145286 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
13145105 GGATGGTTGA
*
13145115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
13145180 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
13145208 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
13145272 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
13145287 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:13146790 original size:77 final size:79
Alignment explanation
Indices: 13146622--13147142 Score: 271
Period size: 75 Copynumber: 6.5 Consensus size: 79
13146612 ATGTGACCTG
* * *
13146622 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAATACCT
* * * *
13146687 CAGTGTGTGATCTGA
65 CAGCGCGTGAGCTCA
* * *
13146702 A-GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG-AAAATAGCTC
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
13146765 AGCGCGTGAGC-CA
66 AGCGCGTGAGCTCA
* * ***
13146778 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTTTTTGAAAGGTAGAAATTGAAAAA
1 AGGCTCAACTCACATCTCGCAATATGAGTTGA------TTTTTTTGAAAAACAGAAATTG---AA
** ** * ** *
13146843 CGGAAATTGAAAATACCTCAGCATTTGAC-CTG
57 ---AAA-T--ACCT-CAGC-GCGTGAG-CTC-A
* * * * * *
13146875 AGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTACCTC
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
** *
13146938 A--GCGTGTCCT-G
66 AGCGCGTGAGCTCA
*
13146949 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAATACCTC
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
* * **
13147013 A--GCATG-TCTTG
66 AGCGCGTGAGCTCA
** * *
13147024 AGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTTTTTTTTTGAAAGACAGAAATTG-AAAA
1 AGGCTCAACTCACATCTCGCAATATGAGTTG-A-----TTTTTTTGAAAAACAGAAATTGAAAAA
** * *
13147088 TACCTCAGCATGTGAAC-CG
60 TACCTCAGCGCGTGAGCTCA
* * *
13147107 AGGCTCAACTCACCTCTCACAATATGAGCTGATTTT
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTT
13147143 GAAAAAGTAG
Statistics
Matches: 352, Mismatches: 56, Indels: 69
0.74 0.12 0.14
Matches are distributed among these distances:
74 40 0.11
75 56 0.16
76 7 0.02
77 49 0.14
79 48 0.14
80 3 0.01
81 32 0.09
82 2 0.01
83 53 0.15
84 1 0.00
86 1 0.00
87 1 0.00
90 12 0.03
91 9 0.03
93 2 0.01
94 2 0.01
95 4 0.01
96 2 0.01
97 28 0.08
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (79 bp):
AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
AGCGCGTGAGCTCA
Found at i:13146904 original size:97 final size:97
Alignment explanation
Indices: 13146738--13146913 Score: 237
Period size: 97 Copynumber: 1.8 Consensus size: 97
13146728 GTTGATTTTT
* * * ** *
13146738 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
13146803 GAGTTGATTTTTTTTTTTTTGAAAGGTAGAAA
66 GAGTTGATTTTTTTTTTTTTGAAAGGTAGAAA
* ** * *
13146835 TTGAAAAACGGAAATTGAAAATACCTCAGCATTTGA-CCTGAGGCTCAACTCGCCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
13146899 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
13146914 GACAACAGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
96 2 0.03
97 65 0.97
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (97 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTTTTTGAAAGGTAGAAA
Found at i:13147030 original size:75 final size:75
Alignment explanation
Indices: 13146835--13147142 Score: 386
Period size: 75 Copynumber: 4.0 Consensus size: 75
13146825 AAGGTAGAAA
* * * *
13146835 TTGAAAAACGGAAATTGAAAATACCTCAGCATTTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCA--TGTCCTGAGGCTCAACTCACCTCTCACAATAT
13146900 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * *
13146912 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGA
13146976 GTTGATTTTT
66 GTTGATTTTT
* **
13146986 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGA
13147051 GTTGAATTTTTTTTTT
66 GTTG-A-----TTTTT
*
13147067 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT---CCTGAGGCTCAACTCACCTCTCACAATA
*
13147131 TGAGCTGATTTT
63 TGAGTTGATTTT
13147143 GAAAAAGTAG
Statistics
Matches: 201, Mismatches: 20, Indels: 20
0.83 0.08 0.08
Matches are distributed among these distances:
74 43 0.21
75 58 0.29
76 24 0.12
77 7 0.03
81 38 0.19
82 1 0.00
83 29 0.14
84 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTTT
Found at i:13147064 original size:248 final size:249
Alignment explanation
Indices: 13146615--13147087 Score: 632
Period size: 248 Copynumber: 1.9 Consensus size: 249
13146605 ACTCGACATG
* ** * *
13146615 TGACCTGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAA
1 TGACCTGAGGCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTG-AAA
* * * *
13146680 AATACCTCAGTGTGTGATCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAG
65 AATACCTCAGCGTGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
* * **
13146745 ACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGTTGA
129 ACAGAAATTGAAAATACCTCA-CGCATGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTTGA
**
13146810 TTTTTTTTTTTTTGAAAGGTAGAAATTGAAAAACGGAAATTGAAAATACCTCAGCATT
193 -TTTTTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCAGCATT
* * *
13146868 TGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAA
1 TGACCTGAGGCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
* *
13146931 TTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
66 ATACCTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
* ** **
13146995 AGAAATTGAAAATACCTCA-GCATG-TCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAAT
131 AGAAATTGAAAATACCTCACGCATGAGC-CAAGGCTCAACTCACCTCTCACAATATGAGTTG-AT
13147058 TTTTTTTTTTTGAAAGACAGAAATTGAAAA
194 TTTTTTTTTTTGAAAGACAGAAATTGAAAA
13147088 TACCTCAGCA
Statistics
Matches: 193, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
245 1 0.01
246 60 0.31
247 1 0.01
248 64 0.33
250 15 0.08
252 10 0.05
253 42 0.22
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (249 bp):
TGACCTGAGGCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
ATACCTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
AGAAATTGAAAATACCTCACGCATGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
TTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCAGCATT
Found at i:13147211 original size:54 final size:54
Alignment explanation
Indices: 13147111--13147216 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
13147101 GAACCGAGGC
*
13147111 TCAACTCACCTCTCACAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCACAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
13147165 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCACAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
13147217 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCACAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:13147278 original size:223 final size:210
Alignment explanation
Indices: 13146990--13147399 Score: 536
Period size: 223 Copynumber: 1.9 Consensus size: 210
13146980 ATTTTTTTGA
* * **
13146990 AAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
* * *
13147055 AATTTTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCAC
66 AA---------ATTAAAACACA-AAATTGAAAATACCTCAGC--GTGAACCGAGGCTCAACTCAC
* *
13147120 CTCTCA-CAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGCAA
119 CTCT-AGCAATATGAGCTGATTTTGAAAAA-CAAAAATTAAAAGGCTT-AACCCACCTCTCGCAA
13147183 TATGAGTTGATTCTTGAACAACGTAAATTG
181 TATGAGTTGATTCTTGAACAACGTAAATTG
* *
13147213 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
**
13147278 AAATTAAAACACAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATAT
66 AAATTAAAACACAAAATTGAAAATACCTCAGCGTGAACCGAGGCTCAACTCACCTCTAGCAATAT
* *
13147343 GAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGT
131 GAGCTGATTTTGAAAAACAAAAATTAAAAGGCTTAACCCACCTCTCGCAATATGAGT
13147400 CAATTTAAAA
Statistics
Matches: 170, Mismatches: 15, Indels: 17
0.84 0.07 0.08
Matches are distributed among these distances:
210 35 0.21
211 47 0.28
213 19 0.11
214 8 0.05
223 61 0.36
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (210 bp):
AAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
AAATTAAAACACAAAATTGAAAATACCTCAGCGTGAACCGAGGCTCAACTCACCTCTAGCAATAT
GAGCTGATTTTGAAAAACAAAAATTAAAAGGCTTAACCCACCTCTCGCAATATGAGTTGATTCTT
GAACAACGTAAATTG
Found at i:13147323 original size:71 final size:71
Alignment explanation
Indices: 13147207--13147371 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 71
13147197 TGAACAACGT
* * *
13147207 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTGAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
13147272 GAGTTG
66 GAGTTG
*
13147278 AAATT-AAAACACAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTGAAAACA-AAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
13147342 TGAGTTG
65 TGAGTTG
**
13147349 ATTTTGAAAAACAAAAATT-AAAA
1 AAATTG-AAAACAAAAATTGAAAA
13147372 GGCTTAACTC
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
70 6 0.07
71 67 0.79
72 6 0.07
73 6 0.07
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTGAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:13147514 original size:71 final size:71
Alignment explanation
Indices: 13147371--13147634 Score: 356
Period size: 70 Copynumber: 3.7 Consensus size: 71
13147361 AAAAATTAAA
* * * * *
13147371 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
13147434 GCCCCG
66 GCCCCG
* *
13147440 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
13147505 GTCTTG
66 GCCCCG
* * *
13147511 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
13147574 TGCCCCG
65 TGCCCCG
*
13147581 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
13147635 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 58 0.35
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:13147592 original size:70 final size:69
Alignment explanation
Indices: 13147371--13147634 Score: 339
Period size: 71 Copynumber: 3.7 Consensus size: 69
13147361 AAAAATTAAA
* ** * * *
13147371 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
13147436 CCCG
66 CCCG
* * *
13147440 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
13147505 GTCTTG
64 GCCCCG
* *
13147511 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
13147576 CCCCG
65 CCCCG
*
13147581 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
13147635 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 60 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:13147626 original size:263 final size:256
Alignment explanation
Indices: 13147210--13147801 Score: 1013
Period size: 257 Copynumber: 2.3 Consensus size: 256
13147200 ACAACGTAAA
* * * * * *
13147210 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
13147275 TTGAAATTAAAACACAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
66 TTG--ATTAAAACACAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
13147340 TATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATT
129 TATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATT
13147405 TAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTT
194 T-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTT
13147470 GATT
253 GATT
13147474 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
13147539 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACAC-AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
13147604 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
130 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
* *
13147669 AAAACTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
195 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
* *
13147731 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTTGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
13147796 TTGATT
66 TTGATT
13147802 TTCCTTGAAA
Statistics
Matches: 317, Mismatches: 10, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
257 128 0.40
258 1 0.00
262 10 0.03
263 116 0.37
264 62 0.20
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (256 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
TGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTA
AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:13149946 original size:47 final size:49
Alignment explanation
Indices: 13149824--13150003 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 49
13149814 TGTAACCCGC
* * * *
13149824 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
13149870 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
13149920 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
13149964 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
13150004 TCAACCATTC
Statistics
Matches: 114, Mismatches: 7, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:13149992 original size:94 final size:93
Alignment explanation
Indices: 13149832--13150003 Score: 299
Period size: 94 Copynumber: 1.8 Consensus size: 93
13149822 GCCCATAAGT
* * *
13149832 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
13149897 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13149925 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
13149990 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
13150004 TCAACCATTC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 30 0.41
94 44 0.59
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13153477 original size:44 final size:44
Alignment explanation
Indices: 13153375--13153535 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 44
13153365 GTCGATGCCG
* * *
13153375 TGTCCCAGACAGGTCTTACACT-GACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT---CGTAGCCGACGCA
13153421 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
* * *
13153465 TGTCCCAGACATGTCTGACACTGGCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC-A-CATCTCGTA-GCCGACGCA
13153511 TGTCCCAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
13153536 CCTCGTCTCA
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
43 3 0.03
44 31 0.30
45 2 0.02
46 65 0.64
47 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
Found at i:13153552 original size:46 final size:43
Alignment explanation
Indices: 13153418--13153580 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 43
13153408 CCGTGCTGAC
*
13153418 GCATGTCCCAGACATGTCTTACACTAGCACATCTCGT-AGCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCTC-TCAGCCGAT
* * *
13153462 GCATGTCCCAGACATGTCTGACACTGGCTATCATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATC-TCTC-A-GCCGAT
*
13153508 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATC-TCTC-A-GCCGAT
* *
13153554 GCCATGTCTCATACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
13153581 GGCACACAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
43 4 0.04
44 28 0.28
45 1 0.01
46 45 0.45
47 12 0.12
48 10 0.10
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (43 bp):
GCATGTCCCAGACATGTCTTACACTAGCCATCTCTCAGCCGAT
Found at i:13156153 original size:47 final size:49
Alignment explanation
Indices: 13156031--13156210 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 49
13156021 TGTAACCCGC
* * * *
13156031 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
13156077 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
13156127 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
13156171 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
13156211 TCAACCATTC
Statistics
Matches: 114, Mismatches: 7, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:13156199 original size:94 final size:93
Alignment explanation
Indices: 13156039--13156210 Score: 299
Period size: 94 Copynumber: 1.8 Consensus size: 93
13156029 GCCCATAAGT
* * *
13156039 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
13156104 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13156132 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
13156197 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
13156211 TCAACCATTC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 30 0.41
94 44 0.59
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13158138 original size:7 final size:7
Alignment explanation
Indices: 13158126--13158158 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
13158116 TCCCTCTCTC
13158126 TTTTTCT
1 TTTTTCT
13158133 TTTTTCT
1 TTTTTCT
13158140 TTTTTCT
1 TTTTTCT
13158147 TTTCTT-T
1 TTT-TTCT
13158154 TTTTT
1 TTTTT
13158159 TAAGATGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 2 0.08
7 21 0.84
8 2 0.08
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:13165724 original size:19 final size:19
Alignment explanation
Indices: 13165702--13165790 Score: 56
Period size: 19 Copynumber: 4.3 Consensus size: 19
13165692 TAATAATAAT
13165702 ATAAAATAATAATATGTAC
1 ATAAAATAATAATATGTAC
*
13165721 ATAAAATACATATATATATATATGC
1 ATAAAAT--A-ATA-ATATGTA--C
*
13165746 ATATAATAA-AAGTATGTA-
1 ATAAAATAATAA-TATGTAC
*
13165764 ATAATAATAATAATATCTAC
1 ATAA-AATAATAATATGTAC
13165784 AATAAAA
1 -ATAAAA
13165791 GAAAATATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 21
0.68 0.06 0.26
Matches are distributed among these distances:
18 3 0.06
19 17 0.31
20 5 0.09
21 11 0.20
22 4 0.07
23 7 0.13
25 7 0.13
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (19 bp):
ATAAAATAATAATATGTAC
Found at i:13166603 original size:33 final size:32
Alignment explanation
Indices: 13166548--13166643 Score: 126
Period size: 31 Copynumber: 3.1 Consensus size: 32
13166538 GGTGGCTAGG
* *
13166548 TTTTTTT-ATTTTATTTTT-GGTTAGGTTTTT
1 TTTTTTTCTTTTTTTTTTTGGGTTAGGTTTTT
13166578 TTTTTTTCTTCTTTTTTTTTGGGTTAGGTTTTT
1 TTTTTTTCTT-TTTTTTTTTGGGTTAGGTTTTT
* *
13166611 CTTTTTTC-TTTTTTTTTAGGGTTAGGTTTTT
1 TTTTTTTCTTTTTTTTTTTGGGTTAGGTTTTT
13166642 TT
1 TT
13166644 GGGGGGACTT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
30 7 0.12
31 23 0.40
32 9 0.16
33 19 0.33
ACGTcount: A:0.06, C:0.04, G:0.15, T:0.75
Consensus pattern (32 bp):
TTTTTTTCTTTTTTTTTTTGGGTTAGGTTTTT
Found at i:13166641 original size:26 final size:26
Alignment explanation
Indices: 13166579--13166643 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 26
13166569 TAGGTTTTTT
13166579 TTTTTTCTTCTTTTTTTTTGGGTTAGG
1 TTTTTT-TTCTTTTTTTTTGGGTTAGG
13166606 TTTTTCTTTTTTCTTTTTTTTTAGGGTTAGG
1 ---TT-TTTTTTCTTTTTTTTT-GGGTTAGG
13166637 TTTTTTT
1 TTTTTTT
13166644 GGGGGGACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
27 5 0.15
28 2 0.06
30 14 0.42
31 12 0.36
ACGTcount: A:0.05, C:0.06, G:0.15, T:0.74
Consensus pattern (26 bp):
TTTTTTTTCTTTTTTTTTGGGTTAGG
Found at i:13166743 original size:17 final size:18
Alignment explanation
Indices: 13166721--13166761 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
13166711 AAATGGGTCA
13166721 TGGGTTAAG-GGTTTTAG-
1 TGGGTTAAGAGG-TTTAGT
*
13166738 TGGGTTTAGAGGTTTAGT
1 TGGGTTAAGAGGTTTAGT
13166756 TGGGTT
1 TGGGTT
13166762 TTGATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (18 bp):
TGGGTTAAGAGGTTTAGT
Found at i:13167819 original size:20 final size:20
Alignment explanation
Indices: 13167794--13167835 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
13167784 CTTCTTCTTC
13167794 TTTTTTTTTTCTTTTATAAA
1 TTTTTTTTTTCTTTTATAAA
13167814 TTTTTTTTTTCTTTTATAAA
1 TTTTTTTTTTCTTTTATAAA
13167834 TT
1 TT
13167836 ACGAACCGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTTTTTCTTTTATAAA
Found at i:13169928 original size:2 final size:2
Alignment explanation
Indices: 13169921--13169954 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
13169911 GAGTATCCTT
*
13169921 TA TA TA TA TA TA TA TA TA TA TA TG TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13169955 CTGGTCATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13170936 original size:10 final size:10
Alignment explanation
Indices: 13170918--13170952 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
13170908 TTTTTCTCAT
13170918 AAATTATAAA
1 AAATTATAAA
*
13170928 AAATCAT-AA
1 AAATTATAAA
13170937 AAATTATAAA
1 AAATTATAAA
13170947 AAATTA
1 AAATTA
13170953 AATTTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (10 bp):
AAATTATAAA
Found at i:13170978 original size:25 final size:28
Alignment explanation
Indices: 13170946--13170997 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
13170936 AAAATTATAA
13170946 AAAATTAAATTT-AT-TAA-ATATTTAC
1 AAAATTAAATTTGATATAACATATTTAC
13170971 AAAATTAAATTTGATATAACATATTTA
1 AAAATTAAATTTGATATAACATATTTA
13170998 AACTATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.50
26 2 0.08
27 3 0.12
28 7 0.29
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (28 bp):
AAAATTAAATTTGATATAACATATTTAC
Found at i:13171032 original size:20 final size:19
Alignment explanation
Indices: 13171007--13171071 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
13170997 AAACTATTTA
13171007 AAAATTTATAAAAACGTATT
1 AAAATTTATAAAAA-GTATT
*
13171027 AAAATTCTATAAAAA-TCATG
1 AAAATT-TATAAAAAGT-ATT
*
13171047 AAAA-TTATACAAAGGTATT
1 AAAATTTATA-AAAAGTATT
13171066 AAAATT
1 AAAATT
13171072 GATATACACT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 4 0.11
19 11 0.30
20 14 0.38
21 8 0.22
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (19 bp):
AAAATTTATAAAAAGTATT
Found at i:13171575 original size:19 final size:20
Alignment explanation
Indices: 13171542--13171597 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
13171532 AGTTGATATC
13171542 AATTTTAAT-TTTTTTTAA-
1 AATTTTAATATTTTTTTAAG
*
13171560 TATTTTAATATTTTTTTAAG
1 AATTTTAATATTTTTTTAAG
* *
13171580 AATTCTAATACTTTTTTA
1 AATTTTAATATTTTTTTA
13171598 GAAAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 8 0.25
19 9 0.28
20 15 0.47
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
AATTTTAATATTTTTTTAAG
Found at i:13181004 original size:58 final size:58
Alignment explanation
Indices: 13180939--13181054 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
13180929 TTGATACTAT
13180939 GGTGCGTTGGGCCAAACACCAAGCTAATTTCTGTTCATCAAGGTATTTGAAGCCTTTG
1 GGTGCGTTGGGCCAAACACCAAGCTAATTTCTGTTCATCAAGGTATTTGAAGCCTTTG
*
13180997 GGTGCGTTGGGCCAAACACTAAGCTAATTTCTGTTCATCAAGGTATTTGAAGCCTTTG
1 GGTGCGTTGGGCCAAACACCAAGCTAATTTCTGTTCATCAAGGTATTTGAAGCCTTTG
13181055 AGAGATGGGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (58 bp):
GGTGCGTTGGGCCAAACACCAAGCTAATTTCTGTTCATCAAGGTATTTGAAGCCTTTG
Found at i:13184516 original size:18 final size:18
Alignment explanation
Indices: 13184493--13184775 Score: 144
Period size: 18 Copynumber: 15.3 Consensus size: 18
13184483 GAATAATTAT
13184493 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
13184511 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * * *
13184529 TTATTCAATAATAATTAG
1 TTATTCAGTAACAGTCAG
*
13184547 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
13184573 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
13184591 TTATTCAGTGAA-A-TCAG
1 TTATTCAGT-AACAGTCAG
* * * * *
13184608 ATATGCAGTAATTATTAAG
1 TTATTCAGTAA-CAGTCAG
*
13184627 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
13184644 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
13184663 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
13184681 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
13184699 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
13184717 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
13184735 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
13184753 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
13184771 TTATT
1 TTATT
13184776 TTATACCTAT
Statistics
Matches: 199, Mismatches: 48, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
16 2 0.01
17 13 0.07
18 151 0.76
19 17 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:13184535 original size:36 final size:36
Alignment explanation
Indices: 13184493--13184775 Score: 169
Period size: 36 Copynumber: 7.6 Consensus size: 36
13184483 GAATAATTAT
* *
13184493 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
13184529 TTATTCAATAATAATTAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
13184565 TTGATCGGTTATCCAGTAACAGTCAATTATTCAGTGA-AATCAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * * * *
13184609 -TATGCAGTAATTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAA-CAATCAGTTATTCAGTAACAATCAA
* **
13184644 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
13184681 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * * *
13184718 -TATCCAGTAACAGTCAATTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
13184753 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
13184776 TTATACCTAT
Statistics
Matches: 182, Mismatches: 49, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
35 9 0.05
36 130 0.71
37 17 0.09
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:13184708 original size:72 final size:72
Alignment explanation
Indices: 13184574--13184775 Score: 198
Period size: 72 Copynumber: 2.8 Consensus size: 72
13184564 ATTGATCGGT
* * * *
13184574 TATCCAGTAACAGTCAATTATTCAGTGAA-A-TCAGA-TATGCAGTAATTATTAAGTTATTCAGT
1 TATCCAGTAACAATCAATTATCCAGT-AACAGTCA-ATTATTCAGTAA-TATTCAGTTATTCAGT
* *
13184636 AGCAGTC-AT
63 AACAGTCTAA
* * * * *
13184645 TCATTCAGTGACAATCAGTTATTCAGTAA-TGATCAATTATTCAGTAATATTCAGTTATTCAGTA
1 T-ATCCAGTAACAATCAATTATCCAGTAACAG-TCAATTATTCAGTAATATTCAGTTATTCAGTA
13184709 ACAGTCTAA
64 ACAGTCTAA
* * *
13184718 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATCCAGTAACAGTCAATTATTCAGTAATATTCAGTTATT
13184776 TTATACCTAT
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
71 3 0.03
72 90 0.83
73 15 0.14
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (72 bp):
TATCCAGTAACAATCAATTATCCAGTAACAGTCAATTATTCAGTAATATTCAGTTATTCAGTAAC
AGTCTAA
Found at i:13191137 original size:44 final size:44
Alignment explanation
Indices: 13191035--13191195 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 44
13191025 GTCGATGCCG
* * *
13191035 TGTCCCAGACAGGTCTTACACT-GACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT---CGTAGCCGACGCA
13191081 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
* * *
13191125 TGTCCCAGACATGTCTGACACTGGCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC-A-CATCTCGTA-GCCGACGCA
13191171 TGTCCCAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
13191196 CCTCGTCTCA
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
43 3 0.03
44 31 0.30
45 2 0.02
46 65 0.64
47 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
Found at i:13191212 original size:46 final size:43
Alignment explanation
Indices: 13191078--13191240 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 43
13191068 CCGTGCTGAC
*
13191078 GCATGTCCCAGACATGTCTTACACTAGCACATCTCGT-AGCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCTC-TCAGCCGAT
* * *
13191122 GCATGTCCCAGACATGTCTGACACTGGCTATCATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATC-TCTC-A-GCCGAT
*
13191168 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATC-TCTC-A-GCCGAT
* *
13191214 GCCATGTCTCATACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
13191241 GGCACACAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
43 4 0.04
44 28 0.28
45 1 0.01
46 45 0.45
47 12 0.12
48 10 0.10
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (43 bp):
GCATGTCCCAGACATGTCTTACACTAGCCATCTCTCAGCCGAT
Found at i:13195569 original size:24 final size:26
Alignment explanation
Indices: 13195533--13195583 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
13195523 TCAAACATGC
13195533 ATTTAGGTCAATTTAAC-CTAGGGGT
1 ATTTAGGTCAATTTAACTCTAGGGGT
* *
13195558 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACTCTAGGGGT
13195583 A
1 A
13195584 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCTAGGGGT
Found at i:13197702 original size:47 final size:49
Alignment explanation
Indices: 13197588--13197765 Score: 182
Period size: 47 Copynumber: 3.8 Consensus size: 49
13197578 TGTAACCCGC
* * * *
13197588 CCATAAGTGAACTC-GACTCAACTCAACGAGCTC-G--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
13197632 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
13197682 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
13197726 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
13197766 TCAACCATTC
Statistics
Matches: 112, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 19 0.17
45 19 0.17
46 3 0.03
47 58 0.52
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:13197761 original size:94 final size:91
Alignment explanation
Indices: 13197596--13197765 Score: 286
Period size: 94 Copynumber: 1.8 Consensus size: 91
13197586 GCCCATAAGT
* *
13197596 GAACTCGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 GAACTCGACTCAACTCAACGAGCTCGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAACG
13197661 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
*
13197687 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTC-GACTCAACTCAACGAGCTCGG-CATT-CACATCCATAAGTGAACTCGGACTCAACTCA
13197752 ACGAGTTCGGATGC
63 ACGAGTTCGGATGC
13197766 TCAACCATTC
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
91 6 0.08
92 20 0.27
93 3 0.04
94 44 0.60
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (91 bp):
GAACTCGACTCAACTCAACGAGCTCGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:13200462 original size:46 final size:45
Alignment explanation
Indices: 13200410--13200613 Score: 206
Period size: 46 Copynumber: 4.5 Consensus size: 45
13200400 TGTCGATGCC
* *
13200410 TGTCCCAGACAGGTCTTACACTGA-CACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCT---CGTAGCTGACGCA
13200456 TGTCCCAGACATGTCTTACACT-AGCACATCTCGTAGCTGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCTGACGCA
* * *
13200500 TGTCCCAGACATGTCTGACACTG-GCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAGC-A-CATCTCGTA-GCTGACGCA
* * *
13200546 TGTCCCAGACATGTCTTACACTG-GCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATC-T-C-GTAGCTGACGCA
13200592 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
13200614 AGCCCTCGTC
Statistics
Matches: 139, Mismatches: 9, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.04
44 34 0.24
45 4 0.03
46 96 0.69
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCTGACGCA
Found at i:13200613 original size:92 final size:91
Alignment explanation
Indices: 13200453--13200669 Score: 258
Period size: 92 Copynumber: 2.4 Consensus size: 91
13200443 CCGTGCTGAC
*
13200453 GCATGTCCCAGACATGTCTTACACTAG-CACATCTCGTAGCTGACGCATGTCCCAGACATGTCTG
1 GCATGTCCCAGACATGTCTTACACTGGCCACATCTCGTAGCTGACGCATGTCCCAGACATGTCTG
* * *
13200517 ACACTGGCTATCATCTCGAGGCCGAT
66 ACACTAGCCATCATCTCAAGGCCGAT
* * *
13200543 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGACATGTC
1 GCATGTCCCAGACATGTCTTACACTGGC-CACAT-CTCGTAGCTGACGCATGTCCCAGACATGTC
* * * *
13200607 TTACACTAGCCCTCGTCTCAATGCCGAT
64 TGACACTAGCCATCATCTCAAGGCCGAT
* *
13200635 GCCATGTCTCATACATGGTCTTACACTGGCACACA
1 G-CATGTCCCAGACAT-GTCTTACACTGGC-CACA
13200670 CAATCTCATG
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
90 26 0.24
92 51 0.48
93 14 0.13
94 16 0.15
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (91 bp):
GCATGTCCCAGACATGTCTTACACTGGCCACATCTCGTAGCTGACGCATGTCCCAGACATGTCTG
ACACTAGCCATCATCTCAAGGCCGAT
Found at i:13200636 original size:46 final size:44
Alignment explanation
Indices: 13200453--13200661 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 44
13200443 CCGTGCTGAC
* *
13200453 GCATGTCCCAGACATGTCTTACACTAGCACATC-TCGTA-GCTGAC
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCATC-TATGCCGAT
* * * *
13200497 GCATGTCCCAGACATGTCTGACACTGGCTATCATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* * *
13200543 GCATGTCCCAGACATGTCTTACACTGGCTC-TCATACTGTGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCAT-CTAT-GCCGAT
* *
13200589 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* *
13200635 GCCATGTCTCATACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
13200662 GGCACACACA
Statistics
Matches: 137, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
43 4 0.03
44 28 0.20
45 4 0.03
46 76 0.55
47 15 0.11
48 10 0.07
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTAGCCATCATCTATGCCGAT
Found at i:13203238 original size:47 final size:49
Alignment explanation
Indices: 13203116--13203295 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 49
13203106 TGTAACCCGC
* * * *
13203116 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
13203162 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
13203212 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
13203256 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
13203296 TCAACCATTC
Statistics
Matches: 114, Mismatches: 7, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:13203284 original size:94 final size:93
Alignment explanation
Indices: 13203124--13203295 Score: 299
Period size: 94 Copynumber: 1.8 Consensus size: 93
13203114 GCCCATAAGT
* * *
13203124 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
13203189 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13203217 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
13203282 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
13203296 TCAACCATTC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 30 0.41
94 44 0.59
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13205837 original size:26 final size:26
Alignment explanation
Indices: 13205799--13205882 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
13205789 CATGAAATTC
* *
13205799 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
13205825 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
13205851 TTATCATGGAACATTTACCTAACTTA
1 TTATCATGGAACATTTACCTAACCTA
13205877 TTATCA
1 TTATCA
13205883 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:13212631 original size:29 final size:32
Alignment explanation
Indices: 13212579--13212638 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
13212569 AATAAAAGTT
13212579 AATCAATACAGTATATAAATAAAATTAAATTAC
1 AATCAATACAGTATAT-AATAAAATTAAATTAC
13212612 AATCAATACAGTA-AT-A-AAAATTAAATT
1 AATCAATACAGTATATAATAAAATTAAATT
13212639 TTATTACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 11 0.41
30 1 0.04
32 2 0.07
33 13 0.48
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.30
Consensus pattern (32 bp):
AATCAATACAGTATATAATAAAATTAAATTAC
Done.