Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 146 of 356
Found at i:47023277 original size:6 final size:6
Alignment explanation
Indices: 47023269--47023412 Score: 225
Period size: 6 Copynumber: 24.0 Consensus size: 6
47023259 ATTATAAATG
* * *
47023269 TGTATG TGTACA TGTACA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
*
47023317 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGCATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
* * *
47023365 TGCATA TGCATA TGTATA TGAATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
47023413 ATTAAAATAG
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 131 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.46
Consensus pattern (6 bp):
TGTATA
Found at i:47027237 original size:25 final size:25
Alignment explanation
Indices: 47027203--47027255 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
47027193 AATAAAGGTG
47027203 AATAAAAAAAATTTAGAATTTAACA
1 AATAAAAAAAATTTAGAATTTAACA
*
47027228 AAT-AAAAAAATTTAGAATTTAATA
1 AATAAAAAAAATTTAGAATTTAACA
47027252 AATA
1 AATA
47027256 TCTTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (25 bp):
AATAAAAAAAATTTAGAATTTAACA
Found at i:47028457 original size:27 final size:25
Alignment explanation
Indices: 47028419--47028470 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
47028409 TTAGACGTGC
*
47028419 ATTTTTTTTGTAATTACGTTATTATTT
1 ATTTGTTTTGTAATT-C-TTATTATTT
47028446 ATTTGTTTTGTAATTCTTATTATTT
1 ATTTGTTTTGTAATTCTTATTATTT
47028471 GTCTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
26 1 0.04
27 14 0.58
ACGTcount: A:0.21, C:0.04, G:0.08, T:0.67
Consensus pattern (25 bp):
ATTTGTTTTGTAATTCTTATTATTT
Found at i:47032699 original size:12 final size:12
Alignment explanation
Indices: 47032681--47032710 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47032671 TAGGTTTCCA
47032681 AAAATGGAAATG
1 AAAATGGAAATG
*
47032693 GAAATGGAAATG
1 AAAATGGAAATG
47032705 AAAATG
1 AAAATG
47032711 AAAACTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.17
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:47035463 original size:46 final size:44
Alignment explanation
Indices: 47035404--47035518 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
47035394 ACAGGACAGA
* *
47035404 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
47035450 ACAGGATTGAGCCATGTAAGCCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
47035494 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
47035519 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:47035510 original size:44 final size:45
Alignment explanation
Indices: 47035404--47035537 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
47035394 ACAGGACAGA
* * *
47035404 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
47035450 ACAGGATTGAGCCATGTAAGCCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
47035494 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
47035538 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:47042840 original size:46 final size:44
Alignment explanation
Indices: 47042781--47042895 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
47042771 ACAGGACAGA
* *
47042781 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
47042827 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
47042871 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
47042896 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:47042876 original size:44 final size:45
Alignment explanation
Indices: 47042781--47042914 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
47042771 ACAGGACAGA
* *
47042781 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
47042827 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
47042871 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
47042915 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:47046168 original size:58 final size:58
Alignment explanation
Indices: 47046078--47046196 Score: 220
Period size: 58 Copynumber: 2.1 Consensus size: 58
47046068 TTCACCGCGT
47046078 ATCCTCTTTGAAGAAGTAAACAACAAATCATGAAATATACTCCATTTCCCAAGTAAAG
1 ATCCTCTTTGAAGAAGTAAACAACAAATCATGAAATATACTCCATTTCCCAAGTAAAG
* *
47046136 ATCCTCTTTGAAGAAGTAAACAACAAATCATGAAATATACTCCATTTCCTAAGTATAG
1 ATCCTCTTTGAAGAAGTAAACAACAAATCATGAAATATACTCCATTTCCCAAGTAAAG
47046194 ATC
1 ATC
47046197 GAATCCCCCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (58 bp):
ATCCTCTTTGAAGAAGTAAACAACAAATCATGAAATATACTCCATTTCCCAAGTAAAG
Found at i:47050044 original size:58 final size:59
Alignment explanation
Indices: 47049932--47050062 Score: 160
Period size: 59 Copynumber: 2.2 Consensus size: 59
47049922 TTGTTATTAA
* * **
47049932 ATTTTAATA-AGATTATTATTAAAAATAAATTTAAAATAAATGATAAATAATTTAATTGT
1 ATTTTAATATA-ATTATTACTAAAAATAAATTTAAAATAAATAATAAATAATTTAATAAT
* *
47049991 ATTTTAATATAATTATTACTAAATAT-AATTTAATAA-AAATAATATATAATTTAATAAT
1 ATTTTAATATAATTATTACTAAAAATAAATTTAA-AATAAATAATAAATAATTTAATAAT
47050049 ATTTTTAATATAAT
1 A-TTTTAATATAAT
47050063 CATTTTTATA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 26 0.41
59 36 0.57
60 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (59 bp):
ATTTTAATATAATTATTACTAAAAATAAATTTAAAATAAATAATAAATAATTTAATAAT
Found at i:47050091 original size:32 final size:31
Alignment explanation
Indices: 47050066--47050158 Score: 116
Period size: 32 Copynumber: 2.9 Consensus size: 31
47050056 ATATAATCAT
*
47050066 TTTTATATTAAATTATATTAAAATATTTAGAATA
1 TTTTATTTTAAATTATATTAAAATA--TA-AATA
*
47050100 TTTTATTTTAAATTATATTTTGAAAT-TAAATA
1 TTTTATTTTAAATTATA--TTAAAATATAAATA
47050132 TTTTATTTTAAATTATATTAAAATATA
1 TTTTATTTTAAATTATATTAAAATATA
47050159 TTAAAATATT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
30 6 0.11
31 2 0.04
32 21 0.40
33 2 0.04
34 16 0.30
36 6 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (31 bp):
TTTTATTTTAAATTATATTAAAATATAAATA
Found at i:47050167 original size:8 final size:10
Alignment explanation
Indices: 47050139--47050176 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
47050129 ATATTTTATT
*
47050139 TTAAATTATA
1 TTAAAATATA
47050149 TTAAAATATA
1 TTAAAATATA
47050159 TTAAAATAT-
1 TTAAAATATA
*
47050168 TTCAAATAT
1 TTAAAATAT
47050177 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (10 bp):
TTAAAATATA
Found at i:47060217 original size:21 final size:21
Alignment explanation
Indices: 47060191--47060231 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47060181 ATCTGCTCAA
* *
47060191 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
47060212 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
47060232 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:47063658 original size:16 final size:16
Alignment explanation
Indices: 47063625--47063658 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47063615 GGTTCGTGTT
* *
47063625 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
47063641 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
47063657 AA
1 AA
47063659 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:47066479 original size:21 final size:21
Alignment explanation
Indices: 47066453--47066493 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47066443 AGACGAGCAA
* *
47066453 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
47066474 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
47066494 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:47071151 original size:11 final size:11
Alignment explanation
Indices: 47071137--47071195 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
47071127 TTATTTAAAA
47071137 ATAAAAAAATT
1 ATAAAAAAATT
*
47071148 ATAAAAATA-T
1 ATAAAAAAATT
*
47071158 ATAAAAACATT
1 ATAAAAAAATT
47071169 AT--AAAAA-T
1 ATAAAAAAATT
47071177 AT-AAAAAATT
1 ATAAAAAAATT
47071187 ATTAAAAAA
1 A-TAAAAAA
47071196 CACAATATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 3 0.08
9 9 0.22
10 11 0.28
11 12 0.30
12 5 0.12
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAAAAAATT
Found at i:47071160 original size:10 final size:10
Alignment explanation
Indices: 47071132--47071194 Score: 64
Period size: 10 Copynumber: 6.6 Consensus size: 10
47071122 AAAATTTATT
47071132 TAAAAATA-A
1 TAAAAATATA
47071141 -AAAAAT-TA
1 TAAAAATATA
47071149 TAAAAATATA
1 TAAAAATATA
*
47071159 TAAAAACATTA
1 TAAAAATA-TA
47071170 TAAAAATATA
1 TAAAAATATA
47071180 -AAAAAT-TA
1 TAAAAATATA
47071188 TTAAAAA
1 -TAAAAA
47071195 ACACAATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
8 9 0.20
9 12 0.26
10 16 0.35
11 9 0.20
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAATATA
Found at i:47071161 original size:21 final size:21
Alignment explanation
Indices: 47071137--47071184 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
47071127 TTATTTAAAA
47071137 ATAAAAAAATTATAAAAATAT
1 ATAAAAAAATTATAAAAATAT
*
47071158 ATAAAAACATTATAAAAATAT
1 ATAAAAAAATTATAAAAATAT
47071179 A-AAAAA
1 ATAAAAA
47071185 TTATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAAAAAAATTATAAAAATAT
Found at i:47071163 original size:19 final size:18
Alignment explanation
Indices: 47071132--47071194 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 18
47071122 AAAATTTATT
47071132 TAAAAATA-AAAAAATTA
1 TAAAAATATAAAAAATTA
47071149 TAAAAATATATAAAAACATTA
1 T-AAAA-ATATAAAAA-ATTA
47071170 TAAAAATATAAAAAATTA
1 TAAAAATATAAAAAATTA
47071188 TTAAAAA
1 -TAAAAA
47071195 ACACAATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.02
18 8 0.20
19 18 0.44
20 9 0.22
21 5 0.12
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAATATAAAAAATTA
Found at i:47071190 original size:21 final size:20
Alignment explanation
Indices: 47071133--47071195 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
47071123 AAATTTATTT
47071133 AAAA-ATAAAAAA-ATTATA
1 AAAATATAAAAAATATTATA
*
47071151 AAAATATATAAAAACATTATA
1 AAAATATA-AAAAATATTATA
47071172 AAAATATAAAAAATTATTA-A
1 AAAATATAAAAAA-TATTATA
47071192 AAAA
1 AAAA
47071196 CACAATATTG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
18 4 0.10
19 3 0.08
20 15 0.38
21 18 0.45
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATATAAAAAATATTATA
Found at i:47071193 original size:29 final size:26
Alignment explanation
Indices: 47071119--47071194 Score: 71
Period size: 30 Copynumber: 2.7 Consensus size: 26
47071109 CTTTTAAATT
*
47071119 TTAAAAATTTATTTAAAAATAAAAAAA
1 TTAAAAAATTA-TTAAAAATAAAAAAA
* *
47071146 TTATAAAAATATATAAAAACATTATAAAAA
1 TTA-AAAAAT-TATTAAAA-A-TAAAAAAA
47071176 TATAAAAAATTATTAAAAA
1 T-TAAAAAATTATTAAAAA
47071195 ACACAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
27 3 0.08
28 11 0.28
29 10 0.25
30 14 0.35
31 2 0.05
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (26 bp):
TTAAAAAATTATTAAAAATAAAAAAA
Found at i:47077585 original size:29 final size:30
Alignment explanation
Indices: 47077535--47077614 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 30
47077525 GATTCGATTC
* *
47077535 AAATCAAAATTTTATGTTTAAAATTACACA-
1 AAATCAAAATTCT-TGTATAAAATTACACAT
* * *
47077565 AAATCAAAGTTCTTGTATAAAGTTGCACATT
1 AAATCAAAATTCTTGTATAAAATTACACA-T
*
47077596 AAATCAAAATTCATGTATA
1 AAATCAAAATTCTTGTATA
47077615 GTTTTGAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 13 0.32
30 11 0.27
31 17 0.41
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (30 bp):
AAATCAAAATTCTTGTATAAAATTACACAT
Found at i:47077769 original size:30 final size:30
Alignment explanation
Indices: 47077706--47077771 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
47077696 TGACATTAAG
* * **
47077706 TTTTAGAGGTTTAATTAAAAATTTCAACTA
1 TTTTAGAGGTTTAAATAAAAATTTAAAAAA
47077736 TTTTAGAGG-TTAAATAAGAAATTTAAAAAA
1 TTTTAGAGGTTTAAATAA-AAATTTAAAAAA
47077766 TTTTAG
1 TTTTAG
47077772 GGGGCATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (30 bp):
TTTTAGAGGTTTAAATAAAAATTTAAAAAA
Found at i:47078443 original size:16 final size:17
Alignment explanation
Indices: 47078417--47078449 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47078407 TTTAAAATTC
*
47078417 TAAATAATAAATTTATA
1 TAAATAATAAAATTATA
47078434 TAAA-AATAAAATTATA
1 TAAATAATAAAATTATA
47078450 ATTGACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATAATAAAATTATA
Found at i:47078741 original size:30 final size:31
Alignment explanation
Indices: 47078692--47078749 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
47078682 ATAAATTCAA
*
47078692 CTTTATTATTTACATTTTTAATTAAATAAGG
1 CTTTAATATTTACATTTTTAATTAAATAAGG
*
47078723 CTTTAATATTTA-ATTTTTACTTAAATA
1 CTTTAATATTTACATTTTTAATTAAATA
47078750 CACTTATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.53
Consensus pattern (31 bp):
CTTTAATATTTACATTTTTAATTAAATAAGG
Found at i:47079389 original size:22 final size:22
Alignment explanation
Indices: 47079346--47079390 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
47079336 CTTTCCTTCC
**
47079346 AAATTTAATTTTAAAAAAAATA
1 AAATTTAATAATAAAAAAAATA
* *
47079368 AAATTTAATAATAATAATAATA
1 AAATTTAATAATAAAAAAAATA
47079390 A
1 A
47079391 TAAACACGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATTTAATAATAAAAAAAATA
Found at i:47081344 original size:11 final size:11
Alignment explanation
Indices: 47081330--47081381 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
47081320 TCTTTCAATA
47081330 TTCTCTCAAAT
1 TTCTCTCAAAT
47081341 TTCTCTCAAA-
1 TTCTCTCAAAT
47081351 -TCTCTCAAAT
1 TTCTCTCAAAT
*
47081361 TTCTCTTAAAT
1 TTCTCTCAAAT
*
47081372 TCCTCTCAAA
1 TTCTCTCAAA
47081382 ACTCTCGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:47081356 original size:20 final size:21
Alignment explanation
Indices: 47081324--47081381 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
47081314 CTTCAATCTT
47081324 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
47081346 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
47081366 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
47081382 ACTCTCGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 2 0.06
22 12 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:47083200 original size:18 final size:18
Alignment explanation
Indices: 47083177--47083219 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
47083167 GGCCAGGTAC
*
47083177 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
47083195 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
47083213 GTTTCCT
1 GTATCCT
47083220 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:47083808 original size:116 final size:116
Alignment explanation
Indices: 47083604--47084102 Score: 872
Period size: 116 Copynumber: 4.3 Consensus size: 116
47083594 TATTTGTACA
*
47083604 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
47083669 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGC
*
47083720 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
47083785 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGC
* * *
47083836 AACATTTTGAATATTTTTATATTCTTTCATGTAATTAGATAAAATGTTATTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
47083901 TGTAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGC
* * *
47083952 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
47084017 TATAATTTACTTTTATATTTTTAATAAAATAAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGC
*
47084068 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
47084103 AAAATATAAA
Statistics
Matches: 366, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 366 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGC
Found at i:47087343 original size:126 final size:126
Alignment explanation
Indices: 47087121--47087648 Score: 853
Period size: 126 Copynumber: 4.2 Consensus size: 126
47087111 TTTAGAAACC
* *
47087121 ACTGTAGCAAAAGAGCGTCCACGTGGGAGATTCTTTCAGTACTTTTGCTAAAAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
* ** *
47087186 TGAAGCGTTTTTGAAACTATTTATGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACC
66 TGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* * *
47087247 ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAGTTTTGCTGAAAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
47087312 TGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
66 TGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* *
47087373 ACTGTAGCAAAAGAGCGTCTACGTGGAAGCTTCTTTCAGTACTTTTGCT-AACAATGCATCCTGC
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAA-AATGCATCCTGC
* * * *
47087437 TTGGAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGATACT
65 TTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* *
47087499 ACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
* *
47087564 TGAAGCGTTTTTGACACTATTTGCGCAGACATGTCTTCTCAAATTTATTTTTTCAGAGACT
66 TGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
47087625 ACTGTAGCAAAAGAGCGTCCACGT
1 ACTGTAGCAAAAGAGCGTCCACGT
47087649 AGAAGCTTTT
Statistics
Matches: 370, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
125 3 0.01
126 365 0.99
127 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (126 bp):
ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
TGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
Found at i:47087860 original size:96 final size:97
Alignment explanation
Indices: 47087758--47087932 Score: 257
Period size: 96 Copynumber: 1.8 Consensus size: 97
47087748 CTTAAAATCC
* ** *
47087758 TAATCTAATTTTTTAAAATTTA-TAATTAATTTACTCAAGTAAC-CTTAAACCCTAATTTATTTG
1 TAATCTAATTTTTTAAAA-TTAGTAATTAATTTAATCAACAAACAC-TAAACCCTAATTTATTTA
47087821 A-TTTTTTCCTTAAAAACCATAAACACTAAACCA
64 ATTTTTTTCCTTAAAAACCATAAACACTAAACCA
* *
47087854 TAATCTAATTTTTTAAAATTAGTAATTAATTTAATTAACAAACACTAAACTCTAATTTATTTAAT
1 TAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTAAT
47087919 TTTTTTCCTTAAAA
66 TTTTTTCCTTAAAA
47087933 CCCTAAAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
95 3 0.04
96 52 0.74
97 15 0.21
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (97 bp):
TAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTAAT
TTTTTTCCTTAAAAACCATAAACACTAAACCA
Found at i:47094715 original size:12 final size:12
Alignment explanation
Indices: 47094695--47094723 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47094685 AACATATCAT
47094695 ATACT-ATATAA
1 ATACTAATATAA
47094706 ATACTAATATAA
1 ATACTAATATAA
47094718 ATACTA
1 ATACTA
47094724 GAAGGTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (12 bp):
ATACTAATATAA
Found at i:47098769 original size:33 final size:33
Alignment explanation
Indices: 47098727--47098792 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
47098717 GAGCAAGATC
*
47098727 GAAAAGAAAAACAAGTGTGGGTTGCGTTTTAGT
1 GAAAAGAAAAACAAATGTGGGTTGCGTTTTAGT
47098760 GAAAAGAAAAACAAATGTGGGTTGCGTTTTAGT
1 GAAAAGAAAAACAAATGTGGGTTGCGTTTTAGT
47098793 TTTTATTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.29, T:0.27
Consensus pattern (33 bp):
GAAAAGAAAAACAAATGTGGGTTGCGTTTTAGT
Found at i:47099510 original size:9 final size:9
Alignment explanation
Indices: 47099496--47099546 Score: 66
Period size: 9 Copynumber: 5.3 Consensus size: 9
47099486 TTAAGTTTAA
47099496 TATTATTAC
1 TATTATTAC
47099505 TATTATTAC
1 TATTATTAC
*
47099514 TACGATTTTTAC
1 T---ATTATTAC
47099526 TATTATTAC
1 TATTATTAC
47099535 TATTATTAC
1 TATTATTAC
47099544 TAT
1 TAT
47099547 GATTTTTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 29 0.78
12 8 0.22
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.55
Consensus pattern (9 bp):
TATTATTAC
Found at i:47099532 original size:30 final size:30
Alignment explanation
Indices: 47099491--47099568 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
47099481 GTTAATTAAG
*
47099491 TTTAATATTATTACTATTATTACTACGATT
1 TTTACTATTATTACTATTATTACTACGATT
*
47099521 TTTACTATTATTACTATTATTACTATGATT
1 TTTACTATTATTACTATTATTACTACGATT
47099551 TTTACTATTA-TA-TATTAT
1 TTTACTATTATTACTATTAT
47099569 GGCTATTGTC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 6 0.13
29 2 0.04
30 38 0.83
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (30 bp):
TTTACTATTATTACTATTATTACTACGATT
Found at i:47099583 original size:28 final size:25
Alignment explanation
Indices: 47099552--47099638 Score: 88
Period size: 24 Copynumber: 3.4 Consensus size: 25
47099542 ACTATGATTT
*
47099552 TTACTATTATATATTATGGCTATTGTCG
1 TTACTATTATATATTAT---TATTATCG
47099580 TTACTATTATATATTATTATTATCG
1 TTACTATTATATATTATTATTATCG
* *
47099605 TTACTATT-T-TCATTATTATTTTCA
1 TTACTATTATAT-ATTATTATTATCG
*
47099629 TTAATATTAT
1 TTACTATTAT
47099639 TTTCGTTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.02
24 19 0.36
25 16 0.30
28 17 0.32
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (25 bp):
TTACTATTATATATTATTATTATCG
Found at i:47100194 original size:125 final size:124
Alignment explanation
Indices: 47099956--47100252 Score: 364
Period size: 125 Copynumber: 2.4 Consensus size: 124
47099946 AACATAAGGA
* * *
47099956 AATATTTTGTGTTCGGAAGTTTGAAAAATCGTGTCCAACCGTGCTGGGTTTCGACTTTTTTCATT
1 AATATTTTGTGTTTGGAAGTTTGAAAAATCGTGCCCAATCGTGCTGGGTTTCGAC-TTTTTCATT
* * * *
47100021 CAACCGAAATATGAAATATCCTTGTGAAATTTCGTCCATGTTCCTAAATTAAAACGAGGT
65 CAACCAAAATATGAAATATCCTTGTGAAATTTCATCCATGTTCCTAAATAAAAACGAGGC
* *
47100081 AATATTTTGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGA-TTTTTCATTC
1 AATATTTTGTGTTTGGAAGTTTGAAAAATCGTGCCCAATCGTGCTGGGTTTCGACTTTTTCATTC
* * * * * *
47100145 GACTAAAATAT-AGAATATCCTTTTGAAATTTCATCCGTGTTTTCTTAAATAAAAATGAGGC
66 AACCAAAATATGA-AATATCCTTGTGAAATTTCATCCATG--TTCCTAAATAAAAACGAGGC
* * * **
47100206 AATATTTTGTATTTGAAAATTTGCTAAATCGTGCCCAATCGTGCTGG
1 AATATTTTGTGTTTGGAAGTTTGAAAAATCGTGCCCAATCGTGCTGG
47100253 ATTTTGATGT
Statistics
Matches: 148, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
122 1 0.01
123 41 0.28
125 106 0.72
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (124 bp):
AATATTTTGTGTTTGGAAGTTTGAAAAATCGTGCCCAATCGTGCTGGGTTTCGACTTTTTCATTC
AACCAAAATATGAAATATCCTTGTGAAATTTCATCCATGTTCCTAAATAAAAACGAGGC
Found at i:47100287 original size:125 final size:122
Alignment explanation
Indices: 47100027--47100302 Score: 284
Period size: 125 Copynumber: 2.2 Consensus size: 122
47100017 CATTCAACCG
* * * * *
47100027 AAATATGAAATATCCTTGTGAAATTTCGTCCATGTTCCTAAATTAAAACGAGGTAATATTTTGTG
1 AAATAT-AAATATCCTTTTGAAATTTCATCCATGTTCCTAAATAAAAACGAGGCAATATTTTGTA
* * * * * **
47100092 TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTA
65 TTTGAAAATTTGAGAAATCGTGCCCAATCGTGCTGGATTTCGATGTACCATTCGACTA
* * *
47100150 AAATATAGAATATCCTTTTGAAATTTCATCCGTGTTTTCTTAAATAAAAATGAGGCAATATTTTG
1 AAATATA-AATATCCTTTTGAAATTTCATCCATG--TTCCTAAATAAAAACGAGGCAATATTTTG
** * * * * *
47100215 TATTTGAAAATTTGCTAAATCGTGCCCAATCGTGCTGGATTTTGATGTACCGTTTGGC-C
63 TATTTGAAAATTTGAGAAATCGTGCCCAATCGTGCTGGATTTCGATGTACCATTCGACTA
*
47100274 AAATAGCTAAATATCCTTTTTAAATTTCA
1 AAATA--TAAATATCCTTTTGAAATTTCA
47100303 AATGCATGAG
Statistics
Matches: 125, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
122 1 0.01
123 29 0.23
124 5 0.04
125 88 0.70
126 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (122 bp):
AAATATAAATATCCTTTTGAAATTTCATCCATGTTCCTAAATAAAAACGAGGCAATATTTTGTAT
TTGAAAATTTGAGAAATCGTGCCCAATCGTGCTGGATTTCGATGTACCATTCGACTA
Found at i:47111515 original size:84 final size:84
Alignment explanation
Indices: 47111395--47111945 Score: 764
Period size: 84 Copynumber: 6.6 Consensus size: 84
47111385 GGTGAATTCA
* * *
47111395 CGAGCTTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAAAATACAGATATCCCCTAAACAGTAG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
*
47111460 TGAAACAGATCGAAGACAG
66 TGGAACAGATCGAAGACAG
* * * *
47111479 CGAGCCTTAACCCCCTAAGTAGTAGGGTAACTGGCTGAAAAATACAGATTTCCCCTAAATAGTAG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
* *
47111544 TGGAGCAGATAGAAGACAG
66 TGGAACAGATCGAAGACAG
* * * *
47111563 CGAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGTTGAAAAATACAGATTTCCCCTAAATAGTAG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
* *
47111628 TGGAGCAGATAGAAGACAG
66 TGGAACAGATCGAAGACAG
* * * *
47111647 CGAGCCTTAA-CCCCTAAGCAGTAGGGTAATAGGCTGGAAAATACAGATCTCCCATAAACAGTGG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
* *
47111711 T-AAAGCAGATCGAAGATAG
66 TGGAA-CAGATCGAAGACAG
** * *
47111730 TAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAATAGTAG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
* *
47111795 TGGAACAAATCGAAGATAG
66 TGGAACAGATCGAAGACAG
* *
47111814 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAGTAG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
*
47111879 TGGAACAGATCGAAGTCAG
66 TGGAACAGATCGAAGACAG
* ** *
47111898 CAAGCCCCAACCCCCTAAGCAGTAAGGTAACAGGCTGAAAAATACAGA
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGA
47111946 CCCTATCTCT
Statistics
Matches: 422, Mismatches: 42, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
82 1 0.00
83 67 0.16
84 352 0.83
85 2 0.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (84 bp):
CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
TGGAACAGATCGAAGACAG
Found at i:47111577 original size:43 final size:43
Alignment explanation
Indices: 47111530--47111663 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 43
47111520 ATACAGATTT
47111530 CCCCTAAATAGTAGTGGAGCAGATAGAAGACAGCGAGCCTTAA
1 CCCCTAAATAGTAGTGGAGCAGATAGAAGACAGCGAGCCTTAA
** * * * * * * *
47111573 CCCCTTAAGCAGTAG-GGTAACAGGTTGAA-AAATAC-AG-ATT-T
1 CCCC-TAAATAGTAGTGG-AGCAGATAGAAGACA-GCGAGCCTTAA
47111614 CCCCTAAATAGTAGTGGAGCAGATAGAAGACAGCGAGCCTTAA
1 CCCCTAAATAGTAGTGGAGCAGATAGAAGACAGCGAGCCTTAA
47111657 CCCCTAA
1 CCCCTAA
47111664 GCAGTAGGGT
Statistics
Matches: 65, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
40 17 0.26
41 10 0.15
42 4 0.06
43 17 0.26
44 17 0.26
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (43 bp):
CCCCTAAATAGTAGTGGAGCAGATAGAAGACAGCGAGCCTTAA
Found at i:47111627 original size:40 final size:40
Alignment explanation
Indices: 47111406--47111627 Score: 108
Period size: 40 Copynumber: 5.3 Consensus size: 40
47111396 GAGCTTTAAC
* *
47111406 CCCCTAAACAGTAGGGTAACAGGCTGAAAAATACAGATAT
1 CCCCTAAACAGTAGGGTAACAGGTTGAAAAATACAGATTT
* * * * * * * *
47111446 CCCCTAAACAGTAGTGAAACAGATCGAAGACA-GCGAGCCTTAAC
1 CCCCTAAACAGTAGGGTAACAGGTTGAA-AAATAC-AG-ATT--T
** * *
47111490 CCCCTAAGTAGTAGGGTAACTGGCTGAAAAATACAGATTT
1 CCCCTAAACAGTAGGGTAACAGGTTGAAAAATACAGATTT
* * * * * * * *
47111530 CCCCTAAATAGTAGTGG-AGCAGATAGAAGACA-GCGAGCCTTAA
1 CCCCTAAACAGTAG-GGTAACAGGTTGAA-AAATAC-AG-ATT-T
*
47111573 CCCCTTAAGCAGTAGGGTAACAGGTTGAAAAATACAGATTT
1 CCCC-TAAACAGTAGGGTAACAGGTTGAAAAATACAGATTT
*
47111614 CCCCTAAATAGTAG
1 CCCCTAAACAGTAG
47111628 TGGAGCAGAT
Statistics
Matches: 125, Mismatches: 43, Indels: 28
0.64 0.22 0.14
Matches are distributed among these distances:
40 52 0.42
41 14 0.11
42 7 0.06
43 14 0.11
44 38 0.30
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (40 bp):
CCCCTAAACAGTAGGGTAACAGGTTGAAAAATACAGATTT
Found at i:47111858 original size:251 final size:252
Alignment explanation
Indices: 47111395--47111945 Score: 800
Period size: 251 Copynumber: 2.2 Consensus size: 252
47111385 GGTGAATTCA
* * *
47111395 CGAGCTTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAAAATACAGATATCCCCTAAACAGTAG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATATCCCATAAACAGTAG
* * *
47111460 TGAAACAGATCGAAGACAGCGAGCCTTAACCCCCTAAGTAGTAGGGTAACTGGCTGAAAAATACA
66 TGAAACAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACA
* * * * *
47111525 GATTTCCCCTAAATAGTAGTGGAGCAGATAGAAGACAGCGAGCCTTAACCCCTTAAGCAGTAGGG
131 GATCTCCCCTAAATAGTAGTGGAACAAATAGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGG
* * * *
47111590 TAACAGGTTGAAAAATACAGATTTCCCCTAAATAGTAGTGGAGCAGATAGAAGACAG
196 TAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAGTGGAACAGATAGAAGACAG
* * * *
47111647 CGAGCCTTAA-CCCCTAAGCAGTAGGGTAATAGGCTGGAAAATACAGATCTCCCATAAACAGTGG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATATCCCATAAACAGTAG
* * *
47111711 T-AAAGCAGATCGAAGATAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATAC
66 TGAAA-CAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATAC
* *
47111775 AGATCTCCCCTAAATAGTAGTGGAACAAATCGAAGATAGCAAGCCTTAACCCCCTAAGCAGTAGG
130 AGATCTCCCCTAAATAGTAGTGGAACAAATAGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGG
* * *
47111840 GTAACAGGCTGGAAAATACAGATCTCCCCTAAACAGTAGTGGAACAGATCGAAGTCAG
195 GTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAGTGGAACAGATAGAAGACAG
* ** *
47111898 CAAGCCCCAACCCCCTAAGCAGTAAGGTAACAGGCTGAAAAATACAGA
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGA
47111946 CCCTATCTCT
Statistics
Matches: 264, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
250 3 0.01
251 218 0.83
252 43 0.16
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (252 bp):
CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATATCCCATAAACAGTAG
TGAAACAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACA
GATCTCCCCTAAATAGTAGTGGAACAAATAGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGG
TAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAGTGGAACAGATAGAAGACAG
Found at i:47111877 original size:40 final size:40
Alignment explanation
Indices: 47111741--47111886 Score: 120
Period size: 40 Copynumber: 3.5 Consensus size: 40
47111731 AAGCCTTAAC
*
47111741 CCCCTAAGCAGTAG-GGTAACAGGCTGGAAAATACAGATCT
1 CCCCTAAACAGTAGTGG-AACAGGCTGGAAAATACAGATCT
* ** * * *
47111781 CCCCTAAATAGTAGTGGAACA-AATCGAAGATAGCA-AGCCTT
1 CCCCTAAACAGTAGTGGAACAGGCTGGAAAATA-CAGA-TC-T
*
47111822 AACCCCCTAAGCAGTAG-GGTAACAGGCTGGAAAATACAGATCT
1 ---CCCCTAAACAGTAGTGG-AACAGGCTGGAAAATACAGATCT
47111865 CCCCTAAACAGTAGTGGAACAG
1 CCCCTAAACAGTAGTGGAACAG
47111887 ATCGAAGTCA
Statistics
Matches: 80, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
39 8 0.10
40 37 0.46
41 5 0.06
43 3 0.04
44 19 0.24
45 8 0.10
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (40 bp):
CCCCTAAACAGTAGTGGAACAGGCTGGAAAATACAGATCT
Found at i:47113521 original size:12 final size:12
Alignment explanation
Indices: 47113515--47113638 Score: 69
Period size: 12 Copynumber: 10.1 Consensus size: 12
47113505 ATATTATTAC
47113515 TATTATTACTAT
1 TATTATTACTAT
* * *
47113527 GATTTTTACCAT
1 TATTATTACTAT
47113539 TATATATTATGGCTAT
1 TAT-TATTA---CTAT
**
47113555 TATCGTTACTAT
1 TATTATTACTAT
*
47113567 TA-TA-TATTAT
1 TATTATTACTAT
*
47113577 TATTGTTACTAT
1 TATTATTACTAT
*
47113589 T-TTCATTATTAT
1 TATT-ATTACTAT
47113601 T-TTCATTACTAT
1 TATT-ATTACTAT
47113613 TATTTATATA-TAT
1 TA-TTAT-TACTAT
47113626 TATTATTACTAT
1 TATTATTACTAT
47113638 T
1 T
47113639 TATGTTATTT
Statistics
Matches: 85, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
10 7 0.08
11 5 0.06
12 49 0.58
13 11 0.13
14 4 0.05
15 3 0.04
16 6 0.07
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:47113554 original size:28 final size:28
Alignment explanation
Indices: 47113523--47113576 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
47113513 ACTATTATTA
**
47113523 CTATGATTTTTACCATTATATATTATGG
1 CTATGATCGTTACCATTATATATTATGG
* *
47113551 CTATTATCGTTACTATTATATATTAT
1 CTATGATCGTTACCATTATATATTAT
47113577 TATTGTTACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (28 bp):
CTATGATCGTTACCATTATATATTATGG
Found at i:47114280 original size:125 final size:123
Alignment explanation
Indices: 47114058--47114348 Score: 323
Period size: 125 Copynumber: 2.3 Consensus size: 123
47114048 TTGTGTGCGA
* * * *
47114058 AAGTTTGAGAAATCGTGTCCAACCGTGCTGGGTTTTGACCTTTTTCATTCAACCGAAATATGAAA
1 AAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCGA--TTTTTCATTCAACCAAAATATGAAA
* * * * *
47114123 TATCCTTGTGAAATTTCGTCCATGTTCCTAAATTAAAACGAGGCAATATTTTGTGTTTGG
64 TATCCTTGTGAAATTTCATCCATGTTCCTAAATAAAAACGAGGCAATATTTCGTATTTAG
* * * *
47114183 GAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATAT-AGAAT
1 AAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCAACCAAAATATGA-AAT
* * * *
47114247 ATCCTTTTGAAATTTCATCCGTGTTTTCTTAAATAAAAATGAGGCAATATTTCGTATTTAG
65 ATCCTTGTGAAATTTCATCCATG--TTCCTAAATAAAAACGAGGCAATATTTCGTATTTAG
* * ** * *
47114308 AAATTCGCTAAATCGTGCCCAATTGTGCTAGGTTTCGATTT
1 AAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
47114349 ACCGTTTGGC
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
122 1 0.01
123 41 0.30
125 96 0.70
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (123 bp):
AAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCAACCAAAATATGAAATA
TCCTTGTGAAATTTCATCCATGTTCCTAAATAAAAACGAGGCAATATTTCGTATTTAG
Found at i:47115099 original size:29 final size:30
Alignment explanation
Indices: 47115037--47115119 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 30
47115027 AAGGGGAAAC
* * * * *
47115037 AAAGGATTAAATTGAAAACATAACAAAATTT
1 AAAGGACTAAATT-AAAAGAAAATAAAATAT
* *
47115068 AAA-GTCTAAATTACAAGAAAATAAAATAT
1 AAAGGACTAAATTAAAAGAAAATAAAATAT
*
47115097 AAAGGACTAAATTAAAATAAAAT
1 AAAGGACTAAATTAAAAGAAAAT
47115120 GGAAAATACA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
29 15 0.37
30 23 0.56
31 3 0.07
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.24
Consensus pattern (30 bp):
AAAGGACTAAATTAAAAGAAAATAAAATAT
Found at i:47120727 original size:17 final size:17
Alignment explanation
Indices: 47120680--47120729 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
47120670 ATATAACTAG
47120680 TAATGTTAAAATATATGCA
1 TAATGTTAAAA-A-ATGCA
*
47120699 TAAT-ATATAAAAATGCA
1 TAATGTTA-AAAAATGCA
47120716 TAATGTTAAAAAAT
1 TAATGTTAAAAAAT
47120730 TTACATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 15 0.56
18 5 0.19
19 7 0.26
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (17 bp):
TAATGTTAAAAAATGCA
Found at i:47120752 original size:34 final size:35
Alignment explanation
Indices: 47120680--47120753 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
47120670 ATATAACTAG
* * *
47120680 TAATGTTAAAATATATGCATAATATATAAAAATGCA
1 TAATGTTAAAAAATATACATAATATAT-AAAATACA
* *
47120716 TAATGTTAAAAAATTTACATAATATAT-ACATACA
1 TAATGTTAAAAAATATACATAATATATAAAATACA
47120750 TAAT
1 TAAT
47120754 AATAATGTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 9 0.27
36 24 0.73
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (35 bp):
TAATGTTAAAAAATATACATAATATATAAAATACA
Found at i:47120940 original size:26 final size:25
Alignment explanation
Indices: 47120882--47120944 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
47120872 CATGAATAGT
* * *
47120882 ATAAAAAATATATATACAACTAATA
1 ATAAAATATATATATACAAATAACA
*
47120907 ATATAAATATATATATATGAAATAACA
1 ATA-AAATATATATATA-CAAATAACA
47120934 ATAAAATATAT
1 ATAAAATATAT
47120945 GAATAGTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 3 0.09
26 20 0.62
27 9 0.28
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (25 bp):
ATAAAATATATATATACAAATAACA
Found at i:47120990 original size:23 final size:23
Alignment explanation
Indices: 47120963--47121048 Score: 56
Period size: 23 Copynumber: 3.8 Consensus size: 23
47120953 TGATACTTAC
47120963 AAATACATACATAATATAATTAA
1 AAATACATACATAATATAATTAA
* * *
47120986 AAATATATATAT-ATAATACAATAA
1 AAATACATACATAAT-ATA-ATTAA
*
47121010 AATATAC-GA-ATAATATAATATAA
1 AA-ATACATACATAATATAAT-TAA
*
47121033 AAA-A-ATACATGATATA
1 AAATACATACATAATATA
47121049 TGAAAAAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
21 2 0.04
22 11 0.23
23 23 0.48
24 9 0.19
25 3 0.06
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATACATACATAATATAATTAA
Found at i:47121039 original size:72 final size:73
Alignment explanation
Indices: 47120881--47121042 Score: 179
Period size: 72 Copynumber: 2.2 Consensus size: 73
47120871 ACATGAATAG
* * * *
47120881 TATAAAAAATATATATACAACTAATAATATAAATATATATATATGAAATAACAATAAAATATATG
1 TATAAAAAA-ATACATACAAATAATAATAAAAATATATATATAT-AAATAACAATAAAATATACG
* *
47120946 AATAGTATGA
64 AATAATATAA
* *
47120956 TACT-TACAAATACATACATAAT-ATAATTAAAAATATATATATAT-AAT-ACAATAAAATATAC
1 TA-TAAAAAAATACATACA-AATAATAA-TAAAAATATATATATATAAATAACAATAAAATATAC
47121017 GAATAATATAA
63 GAATAATATAA
47121028 TATAAAAAAATACAT
1 TATAAAAAAATACAT
47121043 GATATATGAA
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
71 1 0.01
72 33 0.45
73 3 0.04
74 12 0.16
75 23 0.32
76 1 0.01
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (73 bp):
TATAAAAAAATACATACAAATAATAATAAAAATATATATATATAAATAACAATAAAATATACGAA
TAATATAA
Found at i:47121147 original size:29 final size:28
Alignment explanation
Indices: 47121115--47121169 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
47121105 AAAAATAAAA
47121115 ATAATGAAGA-AATGAGTAAAATAATATGC
1 ATAAT-AAGATAATGAG-AAAATAATATGC
*
47121144 ATAATAATATAATGAGAAAATAATAT
1 ATAATAAGATAATGAGAAAATAATAT
47121170 TTTTATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.27
Consensus pattern (28 bp):
ATAATAAGATAATGAGAAAATAATATGC
Found at i:47121270 original size:12 final size:12
Alignment explanation
Indices: 47121253--47121279 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47121243 AAAGTAAATG
47121253 ATATAATAATAA
1 ATATAATAATAA
47121265 ATATAATAATAA
1 ATATAATAATAA
47121277 ATA
1 ATA
47121280 CATATGTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATAATAATAA
Found at i:47121699 original size:12 final size:12
Alignment explanation
Indices: 47121654--47121702 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
47121644 TAATAACCAG
47121654 AATATTAATAAT
1 AATATTAATAAT
* *
47121666 AACAATAATAAT
1 AATATTAATAAT
**
47121678 AATAGAAATAAT
1 AATATTAATAAT
*
47121690 AGTATTAATAAT
1 AATATTAATAAT
47121702 A
1 A
47121703 TTAGGAATGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (12 bp):
AATATTAATAAT
Found at i:47122848 original size:18 final size:18
Alignment explanation
Indices: 47122825--47122870 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
47122815 TTATTTGTAA
47122825 TTGGGTTGTAGGTTAA-AG
1 TTGGGTTGTA-GTTAATAG
47122843 TTGGGTT-TAGTTAATTAG
1 TTGGGTTGTAGTTAA-TAG
*
47122861 TTGTGTTGTA
1 TTGGGTTGTA
47122871 AATGGGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 5 0.21
17 2 0.08
18 15 0.62
19 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.48
Consensus pattern (18 bp):
TTGGGTTGTAGTTAATAG
Found at i:47123235 original size:6 final size:6
Alignment explanation
Indices: 47123219--47123258 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
47123209 ATTTGATATA
47123219 TAAAA- TAAAAT TAAAAT TAAAAT T-AAAT TAAAATT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA-T TAAAA
47123259 AATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.31
6 16 0.50
7 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAAAT
Found at i:47123241 original size:17 final size:18
Alignment explanation
Indices: 47123219--47123258 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
47123209 ATTTGATATA
47123219 TAAAATAAAATTAAAA-T
1 TAAAATAAAATTAAAATT
*
47123236 TAAAATTAAATTAAAATT
1 TAAAATAAAATTAAAATT
47123254 TAAAA
1 TAAAA
47123259 AATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATAAAATTAAAATT
Found at i:47123430 original size:19 final size:18
Alignment explanation
Indices: 47123406--47123455 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
47123396 CAAAACTGTT
47123406 AAAAAAAAAGCTGAAACGA
1 AAAAAAAAAGCTGAAAC-A
47123425 AAAAAAAAAGCTGAAACA
1 AAAAAAAAAGCTGAAACA
*
47123443 AAAAAAAAGGCTG
1 AAAAAAAAAGCTG
47123456 CATATACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.68, C:0.10, G:0.16, T:0.06
Consensus pattern (18 bp):
AAAAAAAAAGCTGAAACA
Found at i:47123635 original size:14 final size:14
Alignment explanation
Indices: 47123616--47123650 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
47123606 TCATTTGGGG
47123616 AAGAAAGGAGAGAA
1 AAGAAAGGAGAGAA
*
47123630 AAGAAATGAGAGAA
1 AAGAAAGGAGAGAA
47123644 AAGAAAG
1 AAGAAAG
47123651 AAAGAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (14 bp):
AAGAAAGGAGAGAA
Found at i:47123652 original size:18 final size:19
Alignment explanation
Indices: 47123629--47123667 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
47123619 AAAGGAGAGA
47123629 AAAGAAATG-AGAGAA-AAG
1 AAAGAAA-GAAGAGAATAAG
47123647 AAAGAAAGAAGAGAATAAG
1 AAAGAAAGAAGAGAATAAG
47123666 AA
1 AA
47123668 GGAGCAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.05
18 13 0.68
19 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (19 bp):
AAAGAAAGAAGAGAATAAG
Found at i:47124722 original size:138 final size:138
Alignment explanation
Indices: 47124247--47124982 Score: 1179
Period size: 138 Copynumber: 5.4 Consensus size: 138
47124237 AAATAGTATA
* * * *
47124247 AAAATAATATAAAAAATGAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAA
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* * * *
47124312 AAATATAAACAAAGGGACAAATTTAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAATAT
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
*
47124377 TATGTATT
131 TATGTACT
**
47124385 AAAATAAGAT-AAAAATAAAATATAAAAATAGTATATTTTAAAAAATAAAATCCG--------A-
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* *
47124440 AAATACAAACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAGTAATACATTTGAAACAT
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
47124505 TATGTACT
131 TATGTACT
*
47124513 GAAATAAGAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
47124577 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
*
47124642 TGTGTACT
131 TATGTACT
*
47124650 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* *
47124715 AAATACAAACAAATGGACAAAATCAGGGTTATTTTAAAAACACTAAAATAATACATTTGAAACAT
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
47124780 TATGTACT
131 TATGTACT
*
47124788 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* * * *
47124853 AAATATAAACAAAGGGACAAAATCAAGGTTATTTTAAAAACACTAAAATAATACATTTCAAACAT
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
47124918 TATGTACT
131 TATGTACT
*
47124926 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAGAATCCGAA
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAA
47124983 AACTTTAAAA
Statistics
Matches: 560, Mismatches: 28, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
128 119 0.21
129 1 0.00
136 1 0.00
137 120 0.21
138 319 0.57
ACGTcount: A:0.56, C:0.08, G:0.09, T:0.27
Consensus pattern (138 bp):
AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
TATGTACT
Found at i:47127108 original size:72 final size:72
Alignment explanation
Indices: 47126979--47127123 Score: 182
Period size: 72 Copynumber: 2.0 Consensus size: 72
47126969 AGTCTGAGCA
* * *
47126979 ATCGTATTCACATTCGACTAATACTTCTTATCATCTGGATTTCTAGAACAATAACTATTTACCAG
1 ATCGCATTCACATTCGACCAATACTTCTTATCATCCGGATTTCTAGAACAATAACTATTTACCAG
*
47127044 GCTCGTC
66 GCTAGTC
* * * * ** * *
47127051 ATCGCATTCACATTCGGCCGATACTTCTTATCATCCGGATTTTTCGGGCAATTACTATTTCCCAG
1 ATCGCATTCACATTCGACCAATACTTCTTATCATCCGGATTTCTAGAACAATAACTATTTACCAG
47127116 GCTAGTC
66 GCTAGTC
47127123 A
1 A
47127124 GGGGGCGAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (72 bp):
ATCGCATTCACATTCGACCAATACTTCTTATCATCCGGATTTCTAGAACAATAACTATTTACCAG
GCTAGTC
Found at i:47127821 original size:11 final size:11
Alignment explanation
Indices: 47127805--47127829 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47127795 ACCGCAAGAA
47127805 GTAAGATTTGT
1 GTAAGATTTGT
47127816 GTAAGATTTGT
1 GTAAGATTTGT
47127827 GTA
1 GTA
47127830 TATTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (11 bp):
GTAAGATTTGT
Found at i:47128770 original size:18 final size:18
Alignment explanation
Indices: 47128749--47128783 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
47128739 TCGACCTCTT
47128749 GATCAGTATCACTATCGG
1 GATCAGTATCACTATCGG
47128767 GATCAGTATCACTATCG
1 GATCAGTATCACTATCG
47128784 ACCTCTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
GATCAGTATCACTATCGG
Found at i:47128794 original size:24 final size:24
Alignment explanation
Indices: 47128736--47128795 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 24
47128726 TGTGTTTTTG
47128736 CTATCGACCTCTTGATCAGTATCA
1 CTATCGACCTCTTGATCAGTATCA
*
47128760 CTATCG------GGATCAGTATCA
1 CTATCGACCTCTTGATCAGTATCA
47128778 CTATCGACCTCTTGATCA
1 CTATCGACCTCTTGATCA
47128796 CAAGAATCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
18 17 0.61
24 11 0.39
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (24 bp):
CTATCGACCTCTTGATCAGTATCA
Found at i:47129702 original size:16 final size:16
Alignment explanation
Indices: 47129683--47129715 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47129673 TTTATTGAAA
47129683 TTTTTTTCCTTCT-TTC
1 TTTTTTT-CTTCTCTTC
47129699 TTTTTTTCTTCTCTTC
1 TTTTTTTCTTCTCTTC
47129715 T
1 T
47129716 CCCTCCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTCTTCTCTTC
Found at i:47130658 original size:11 final size:11
Alignment explanation
Indices: 47130642--47130667 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
47130632 CATGCTTTTT
47130642 ATTTATTTATA
1 ATTTATTTATA
47130653 ATTTATTTATA
1 ATTTATTTATA
47130664 ATTT
1 ATTT
47130668 TGTTTGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTATTTATA
Found at i:47133067 original size:28 final size:26
Alignment explanation
Indices: 47133036--47133100 Score: 62
Period size: 28 Copynumber: 2.3 Consensus size: 26
47133026 CAATTTTAAA
47133036 AAAAATGATAAAGCAAA-TTAAAATGAAT
1 AAAAATGA-AAA-CAAATTTAAAATG-AT
47133064 AAAACAT-AAAACAAATTTTAAAATGAT
1 AAAA-ATGAAAACAAA-TTTAAAATGAT
47133091 AAGAAATGAA
1 AA-AAATGAA
47133101 TTTAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
26 4 0.12
27 9 0.28
28 17 0.53
29 2 0.06
ACGTcount: A:0.65, C:0.05, G:0.09, T:0.22
Consensus pattern (26 bp):
AAAAATGAAAACAAATTTAAAATGAT
Found at i:47133218 original size:26 final size:26
Alignment explanation
Indices: 47133180--47133255 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
47133170 ATATGTGTAA
* **
47133180 GAAATTTTAAAATAGGTAATATA-GG
1 GAAAGTTTAAAATAAATAATATACGG
*
47133205 CGAAAGTTTGAAATAAATAATATACGG
1 -GAAAGTTTAAAATAAATAATATACGG
*
47133232 GAAAGAGTTTAAAATGAATAATAT
1 G-AA-AGTTTAAAATAAATAATAT
47133256 GTAAAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 20 0.49
27 4 0.10
28 17 0.41
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (26 bp):
GAAAGTTTAAAATAAATAATATACGG
Found at i:47133277 original size:26 final size:28
Alignment explanation
Indices: 47133239--47133305 Score: 84
Period size: 26 Copynumber: 2.5 Consensus size: 28
47133229 CGGGAAAGAG
* *
47133239 TTTAAAATGAATAATATGTA-AAAT-AA
1 TTTAAAATAAATAATATATATAAATGAA
* *
47133265 TTTAAGATAAATAATATATATAAATGAG
1 TTTAAAATAAATAATATATATAAATGAA
47133293 TTTAAAATAAATA
1 TTTAAAATAAATA
47133306 TTAAGATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 17 0.50
27 4 0.12
28 13 0.38
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (28 bp):
TTTAAAATAAATAATATATATAAATGAA
Found at i:47133296 original size:28 final size:27
Alignment explanation
Indices: 47133209--47133305 Score: 90
Period size: 28 Copynumber: 3.6 Consensus size: 27
47133199 TATAGGCGAA
* **
47133209 AGTTTGAAATAAATAATATACGGGAAA-G
1 AGTTTAAAATAAATAATATA--TAAAATG
* *
47133237 AGTTTAAAATGAATAATATGTAAAAT-
1 AGTTTAAAATAAATAATATATAAAATG
* *
47133263 AATTTAAGATAAATAATATATATAAATG
1 AGTTTAAAATAAATAATATATA-AAATG
47133291 AGTTTAAAATAAATA
1 AGTTTAAAATAAATA
47133306 TTAAGATTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
26 21 0.38
27 4 0.07
28 30 0.55
ACGTcount: A:0.55, C:0.01, G:0.12, T:0.32
Consensus pattern (27 bp):
AGTTTAAAATAAATAATATATAAAATG
Found at i:47136100 original size:41 final size:40
Alignment explanation
Indices: 47136046--47136212 Score: 237
Period size: 41 Copynumber: 4.0 Consensus size: 40
47136036 TGTTTGAAGC
*
47136046 AAACTGCCACTAAAAACTGAGCAATAGTGGCGTTTTTATCCA
1 AAAC-GCCGCTAAAAACTGAGCAATAGTGGCGTTTTT-TCCA
47136088 AAACGCCGCTAAAAACTGAGCAATAGTGGCGTTTTTATCCA
1 AAACGCCGCTAAAAACTGAGCAATAGTGGCGTTTTT-TCCA
* *
47136129 AAACGCCGCTAAAAACTGAGAAATAGTGGCGTTTTTTTCA
1 AAACGCCGCTAAAAACTGAGCAATAGTGGCGTTTTTTCCA
*
47136169 AAACGCCGCAAAAAACTGAG-ATATAGTGGCGCTTTTGTTCCA
1 AAACGCCGCTAAAAACTGAGCA-ATAGTGGCG-TTTT-TTCCA
47136211 AA
1 AA
47136213 TGCCACAAAA
Statistics
Matches: 117, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 31 0.26
41 75 0.64
42 10 0.09
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (40 bp):
AAACGCCGCTAAAAACTGAGCAATAGTGGCGTTTTTTCCA
Found at i:47137936 original size:12 final size:12
Alignment explanation
Indices: 47137919--47137958 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
47137909 GGCGCAACGC
47137919 CGGCACGACGGA
1 CGGCACGACGGA
47137931 CGGCACGACGGA
1 CGGCACGACGGA
47137943 CGGCACGACGGA
1 CGGCACGACGGA
47137955 CGGC
1 CGGC
47137959 GACCGAAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.23, C:0.35, G:0.42, T:0.00
Consensus pattern (12 bp):
CGGCACGACGGA
Found at i:47138453 original size:3 final size:3
Alignment explanation
Indices: 47138447--47138510 Score: 92
Period size: 3 Copynumber: 21.3 Consensus size: 3
47138437 GTACTTTTGC
* *
47138447 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
47138495 TAC TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT T
47138511 GGTAGTATTG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:47138723 original size:36 final size:38
Alignment explanation
Indices: 47138641--47138723 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 38
47138631 AATTTGTTTA
*
47138641 ATATATATATCGTATACTCATATTTCTTTTTTTATATAT
1 ATATATATATCATATAC-CATATTTCTTTTTTTATATAT
*
47138680 ATCTATATA-CATATA-CATATTT-TTATTTTTATA-AGT
1 ATATATATATCATATACCATATTTCTT-TTTTTATATA-T
47138716 ATATATAT
1 ATATATAT
47138724 TTATATGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
35 3 0.08
36 23 0.59
38 5 0.13
39 8 0.21
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (38 bp):
ATATATATATCATATACCATATTTCTTTTTTTATATAT
Found at i:47139868 original size:18 final size:18
Alignment explanation
Indices: 47139842--47139877 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47139832 AACTTGTTGT
*
47139842 TTTAATAAAATCAAACCG
1 TTTAATAAAAACAAACCG
*
47139860 TTTATTAAAAACAAACCG
1 TTTAATAAAAACAAACCG
47139878 CTTTTCGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
TTTAATAAAAACAAACCG
Found at i:47141061 original size:19 final size:20
Alignment explanation
Indices: 47141021--47141064 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
47141011 TCCCTTTAAG
* *
47141021 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
47141040 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
47141059 GCATTA
1 GCATTA
47141065 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:47143637 original size:24 final size:24
Alignment explanation
Indices: 47143610--47143655 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
47143600 AAAACAAGGG
*
47143610 AAAAGGAAAAGAAAAAACAAAATC
1 AAAAGCAAAAGAAAAAACAAAATC
* * *
47143634 AAAATCAAAATAAAAAATAAAA
1 AAAAGCAAAAGAAAAAACAAAA
47143656 AGAAAAAGAG
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:0.78, C:0.07, G:0.07, T:0.09
Consensus pattern (24 bp):
AAAAGCAAAAGAAAAAACAAAATC
Found at i:47145490 original size:43 final size:43
Alignment explanation
Indices: 47145443--47145579 Score: 97
Period size: 42 Copynumber: 3.2 Consensus size: 43
47145433 AGAAGCAGAT
47145443 CTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * *
47145486 CTTG-CATCC-ATCGATT-GCAGTGGAGCTAG-T-GAAGACAGCAGAT
1 CTTGCCTTCCTA-C-ATTAACAGCGAAGC-AGATCGAAAACA-AAG-C
* *
47145529 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGC
1 CTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGC
*
47145571 TTTGCCTTC
1 CTTGCCTTC
47145580 ATTGGTTACA
Statistics
Matches: 67, Mismatches: 17, Indels: 21
0.64 0.16 0.20
Matches are distributed among these distances:
41 7 0.10
42 23 0.34
43 19 0.28
44 13 0.19
45 5 0.07
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGC
Found at i:47145537 original size:86 final size:85
Alignment explanation
Indices: 47145351--47145568 Score: 296
Period size: 86 Copynumber: 2.5 Consensus size: 85
47145341 AATGAAGTTA
* * * *
47145351 CAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCATCTCTCGATT
* *
47145416 GTAGTGGAGCTGGTTAAAGAAG
64 GCAGTGGAGCTAGTTAAAGAAG
*
47145438 CAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCATC-CATCGATT
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAA-CCTTGCATCTC-TCGATT
*
47145502 GCAGTGGAGCTAG-TGAAGACAG
64 GCAGTGGAGCTAGTTAAAGA-AG
*
47145524 CAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAA
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAA
47145569 GCTTTGCCTT
Statistics
Matches: 118, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
85 11 0.09
86 70 0.59
87 37 0.31
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (85 bp):
CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCATCTCTCGATTGC
AGTGGAGCTAGTTAAAGAAG
Found at i:47145819 original size:46 final size:43
Alignment explanation
Indices: 47145585--47146275 Score: 396
Period size: 44 Copynumber: 16.1 Consensus size: 43
47145575 CCTTCATTGG
* * * *
47145585 TTACAGTGGAGCTGGTTAAAGATTCGGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAGA-TCAGATCTTATCTCCCTGAGA
* * * *
47145629 TTACAGCGGAGCAGATCAAGGAT-AGTAATCCTATCTCCTTGAGA
1 TTACAGTGGAGCAGATCAAAGATCAG--ATCTTATCTCCCTGAGA
* * * *
47145673 TTACAATGGAGCGGATTAAAG----GATCTTATCTCTCTGA-A
1 TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
* * * *
47145711 GTTACAGTAGAGAAGATC--ACATCAGGTCTTATCTCCCTGAGA
1 -TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
* * *
47145753 TTATAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAG-A--TCAGATCTTATCTCCCTGAGA
* * *
47145799 TTACAGCGGAGCAGATCAAAGAT-AGTAATCCTATCTCCTTGAGA
1 TTACAGTGGAGCAGATCAAAGATCAG--ATCTTATCTCCCTGAGA
* * * * *
47145843 TTACAATGAAGCGGATTAAAG----GATCTTATCTCTCTGA-A
1 TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
* * * *
47145881 GTTACAGTAGAGAAGATC--ACATCAGGTCTTATCTCCCTGAGA
1 -TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
* * *
47145923 TTATAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAG-A--TCAGATCTTATCTCCCTGAGA
* * *
47145969 TTACAGCGGAGCAGATCAAAGAT-AGTAATCCTATCTCCTTGAGA
1 TTACAGTGGAGCAGATCAAAGATCAG--ATCTTATCTCCCTGAGA
* * * *
47146013 TTACAATGGAGCGGATTAAAG----GATCTTATCTCTCTGA-A
1 TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
* * * *
47146051 GTTACAGTAGAGAAGATC--ACATCAGGTCTTATCTCCCTGAGA
1 -TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
** * * *
47146093 TTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGG
1 TTACAGTGGAGCAGATCAAAG-A--TCAGATCTTATCTCCCTGAGA
** *
47146139 TTACAGTGGAGCAGATTGAAGCCA-GAGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAG--ATCAGATCTTATCTCCCTGAGA
* * *
47146183 TTACAGCGGAGCAGATCGAAA-A-CACTATCCTATCTCCCTGA-A
1 TTACAGTGGAGCAGATC-AAAGATCA-GATCTTATCTCCCTGAGA
* * * * *
47146225 GTTACAGTGGAGCGGATTAAA-ATAAAGGATCTTATCTCTCTGAGG
1 -TTACAGTGGAGCAGATCAAAGAT-CA-GATCTTATCTCCCTGAGA
47146270 TTACAG
1 TTACAG
47146276 CAGAGTAGAT
Statistics
Matches: 487, Mismatches: 114, Indels: 92
0.70 0.16 0.13
Matches are distributed among these distances:
37 3 0.01
38 3 0.01
39 71 0.15
41 82 0.17
42 15 0.03
43 34 0.07
44 166 0.34
45 4 0.01
46 108 0.22
47 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
Found at i:47146187 original size:170 final size:170
Alignment explanation
Indices: 47145611--47146154 Score: 1025
Period size: 170 Copynumber: 3.2 Consensus size: 170
47145601 TAAAGATTCG
*
47145611 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
47145676 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
66 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
47145741 ATCTCCCTGAGATTATAGTGGAACAGACCAAAGAATTTCA
131 ATCTCCCTGAGATTATAGTGGAACAGACCAAAGAATTTCA
47145781 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
*
47145846 CAATGAAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
66 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
47145911 ATCTCCCTGAGATTATAGTGGAACAGACCAAAGAATTTCA
131 ATCTCCCTGAGATTATAGTGGAACAGACCAAAGAATTTCA
47145951 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
47146016 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
66 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
* * *
47146081 ATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCG
131 ATCTCCCTGAGATTATAGTGGAACAGACCAAAGAATTTCA
* *
47146121 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGAT
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
47146155 TGAAGCCAGA
Statistics
Matches: 366, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
170 366 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (170 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
ATCTCCCTGAGATTATAGTGGAACAGACCAAAGAATTTCA
Found at i:47146217 original size:87 final size:87
Alignment explanation
Indices: 47146126--47146287 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
47146116 TTTCGGATCT
* * * *
47146126 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
47146190 GGAGCAGATCGAAAACACTATCC
65 AGAGCAGATCGAAAACACTATCC
* * * *
47146213 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
*
47146278 GAGTAGATCG
66 GAGCAGATCG
47146288 CATCAGGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAAACACTATCC
Found at i:47146391 original size:218 final size:213
Alignment explanation
Indices: 47145950--47146391 Score: 473
Period size: 218 Copynumber: 2.0 Consensus size: 213
47145940 AAAGAATTTC
* * *
47145950 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
*
47146015 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCT
* * ** * * *
47146080 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGGTTACAG
131 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATAAGGA-CGTATCTCCCTAAAGTTACAG
* ** *
47146145 TGGAGCAGATTGAAGCCAG
195 CGGAGCAGACAGAAGACAG
47146164 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAA-ACACT-ATCCTATCTCCCTGA-AG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAAGACACTAATCCTATCTCCCTGAGA-
* * * *
47146226 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCAT
64 TTACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACAT
* * * * *
47146291 CAGGTCTTATTTCCCTGAAGA-TGCAGTGGAACAGACTGAAA-ACAATAAGG-CGTGTCTCCTTA
124 CAGGTCTTATCTCCCTG-AGATTACAGTGGAACAGAC-CAAAGA-AATAAGGACGTATCTCCCTA
** * *
47146353 AAGTTGTAGCGGAGCGGACAGAAGATAG
186 AAGTTACAGCGGAGCAGACAGAAGACAG
*
47146381 TGATTCTTATC
1 AGA-TCTTATC
47146392 ATGTCTAATC
Statistics
Matches: 188, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
212 1 0.01
213 28 0.15
214 40 0.21
215 3 0.02
217 29 0.15
218 77 0.41
219 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (213 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCT
TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATAAGGACGTATCTCCCTAAAGTTACAGC
GGAGCAGACAGAAGACAG
Found at i:47146595 original size:86 final size:86
Alignment explanation
Indices: 47146468--47146656 Score: 306
Period size: 86 Copynumber: 2.2 Consensus size: 86
47146458 TCTCGGTTGT
* * *
47146468 AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCTTACATTAACAGCGAAGCAGATCGAAAACAA
1 AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTACATTAACAGCAAAGCAGATCAAAAACAA
47146533 AGCCTTGCATCCATCGATTGC
66 AGCCTTGCATCCATCGATTGC
* *
47146554 AGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCAAAAACAA
1 AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTACATTAACAGCAAAGCAGATCAAAAACAA
* *
47146619 AGCCTTGCCTCCATCGGTTGC
66 AGCCTTGCATCCATCGATTGC
*
47146640 ATTGGAGCTGGTTAAAG
1 AGTGGAGCTGGTTAAAG
47146657 GTTACAGATT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 94 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (86 bp):
AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTACATTAACAGCAAAGCAGATCAAAAACAA
AGCCTTGCATCCATCGATTGC
Found at i:47148025 original size:12 final size:12
Alignment explanation
Indices: 47148008--47148047 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
47147998 GGCGCAACGC
47148008 CGGCACGACGGA
1 CGGCACGACGGA
47148020 CGGCACGACGGA
1 CGGCACGACGGA
47148032 CGGCACGACGGA
1 CGGCACGACGGA
47148044 CGGC
1 CGGC
47148048 GACCGAAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.23, C:0.35, G:0.42, T:0.00
Consensus pattern (12 bp):
CGGCACGACGGA
Found at i:47148541 original size:3 final size:3
Alignment explanation
Indices: 47148535--47148589 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
47148525 GTACTTTTGC
* * *
47148535 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TTT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
47148583 TAG TAT T
1 TAT TAT T
47148590 GGTAGTATTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:47148802 original size:36 final size:37
Alignment explanation
Indices: 47148720--47148802 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 37
47148710 AATTTGTTTA
*
47148720 ATATATATATCGCATACTCATATTTCTTTTTTTATAT
1 ATATATATATCACATACTCATATTTCTTTTTTTATAT
*
47148757 ATATCTATAT-ACATA-TACATATTT-TTATTTTTATA-
1 ATATATATATCACATACT-CATATTTCTT-TTTTTATAT
47148792 AGTATATATAT
1 A-TATATATAT
47148803 TTATATGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
35 4 0.10
36 27 0.68
37 9 0.22
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.53
Consensus pattern (37 bp):
ATATATATATCACATACTCATATTTCTTTTTTTATAT
Found at i:47149950 original size:18 final size:18
Alignment explanation
Indices: 47149924--47149959 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47149914 AACTTGTTGT
*
47149924 TTTAATAAAATCAAACCG
1 TTTAATAAAAACAAACCG
*
47149942 TTTATTAAAAACAAACCG
1 TTTAATAAAAACAAACCG
47149960 CTTTTCGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
TTTAATAAAAACAAACCG
Found at i:47151604 original size:14 final size:13
Alignment explanation
Indices: 47151581--47151610 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
47151571 ATTACTATAA
47151581 TAATTATATGAAG
1 TAATTATATGAAG
47151594 TAATATATATGAAG
1 TAAT-TATATGAAG
47151608 TAA
1 TAA
47151611 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:47152686 original size:23 final size:23
Alignment explanation
Indices: 47152656--47152705 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
47152646 AACATTAATC
47152656 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
*
47152679 AAATGTATGAATTGCAGCCTTTT
1 AAATGTATGAATTGCAGCCCTTT
47152702 AAAT
1 AAAT
47152706 AAACTTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (23 bp):
AAATGTATGAATTGCAGCCCTTT
Found at i:47153086 original size:9 final size:9
Alignment explanation
Indices: 47153072--47153161 Score: 81
Period size: 9 Copynumber: 9.3 Consensus size: 9
47153062 TAGTTTAAAG
*
47153072 TTACATAAT
1 TTACATAAC
47153081 TTACATAACAAC
1 TTACAT-A--AC
47153093 TTACATAAC
1 TTACATAAC
*
47153102 TCACATAAC
1 TTACATAAC
*
47153111 TTACATAAT
1 TTACATAAC
47153120 TTACATAAC
1 TTACATAAC
*
47153129 TCACATAAC
1 TTACATAAC
*
47153138 GTACATAACAAC
1 TTACAT---AAC
47153150 TTACATAAC
1 TTACATAAC
47153159 TTA
1 TTA
47153162 ACTAATACAT
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
9 49 0.74
10 1 0.02
11 1 0.02
12 15 0.23
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Found at i:47153131 original size:27 final size:27
Alignment explanation
Indices: 47153093--47153145 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
47153083 ACATAACAAC
*
47153093 TTACATAACTCACATAACTTACATAAT
1 TTACATAACTCACATAACGTACATAAT
47153120 TTACATAACTCACATAACGTACATAA
1 TTACATAACTCACATAACGTACATAA
47153146 CAACTTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (27 bp):
TTACATAACTCACATAACGTACATAAT
Found at i:47156428 original size:21 final size:21
Alignment explanation
Indices: 47156404--47156448 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47156394 AACTTAGAGC
*
47156404 GAGGCAGCAACGCGGGAGGCG
1 GAGGCAGCAACGAGGGAGGCG
* *
47156425 GAGGGAGCAGCGAGGGAGGCG
1 GAGGCAGCAACGAGGGAGGCG
47156446 GAG
1 GAG
47156449 CAAAACAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.18, G:0.58, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAACGAGGGAGGCG
Found at i:47157846 original size:20 final size:20
Alignment explanation
Indices: 47157809--47157846 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47157799 TTTTTATTAC
*
47157809 ATTATTTATGATTTTTTCTA
1 ATTATTTATGATTATTTCTA
47157829 ATTATTTAATGA-TATTTC
1 ATTATTT-ATGATTATTTC
47157847 AGTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
ATTATTTATGATTATTTCTA
Found at i:47158013 original size:14 final size:14
Alignment explanation
Indices: 47157977--47158014 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
47157967 AGATTTGAGT
47157977 TTTAGGATTCAAGG
1 TTTAGGATTCAAGG
*
47157991 TTT-GGATTCAATG
1 TTTAGGATTCAAGG
47158004 TTTAGGATTCA
1 TTTAGGATTCA
47158015 GGATTCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (14 bp):
TTTAGGATTCAAGG
Found at i:47159804 original size:28 final size:26
Alignment explanation
Indices: 47159763--47159814 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
47159753 TCTCGTCTTC
47159763 TTTTTTATTTTATTTCTTGTTTTCTG
1 TTTTTTATTTTATTTCTTGTTTTCTG
*
47159789 TTTTCTTATTTTTATTTTTTGTTTTC
1 TTTT-TTA-TTTTATTTCTTGTTTTC
47159815 AAATTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 4 0.17
27 3 0.13
28 16 0.70
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.79
Consensus pattern (26 bp):
TTTTTTATTTTATTTCTTGTTTTCTG
Found at i:47159811 original size:21 final size:22
Alignment explanation
Indices: 47159772--47159814 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
47159762 CTTTTTTATT
*
47159772 TTATTTCTTGTTTTCTGTTTTC
1 TTATTTCTTATTTTCTGTTTTC
*
47159794 TTATTT-TTATTTTTTGTTTTC
1 TTATTTCTTATTTTCTGTTTTC
47159815 AAATTTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.77
Consensus pattern (22 bp):
TTATTTCTTATTTTCTGTTTTC
Found at i:47160716 original size:21 final size:21
Alignment explanation
Indices: 47160692--47160731 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47160682 TTATTTACGC
47160692 CTTTGTTAT-TATTATTATTAT
1 CTTT-TTATCTATTATTATTAT
*
47160713 CTTTTTATCTGTTATTATT
1 CTTTTTATCTATTATTATT
47160732 CTATTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (21 bp):
CTTTTTATCTATTATTATTAT
Found at i:47160741 original size:21 final size:18
Alignment explanation
Indices: 47160697--47160743 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
47160687 TACGCCTTTG
47160697 TTATTATTATTATTATCT
1 TTATTATTATTATTATCT
*
47160715 TT-TTATCTGTTATTAT-T
1 TTATTAT-TATTATTATCT
*
47160732 CTATTATTATTA
1 TTATTATTATTA
47160744 ATTTATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (18 bp):
TTATTATTATTATTATCT
Found at i:47162962 original size:21 final size:21
Alignment explanation
Indices: 47162937--47163039 Score: 93
Period size: 21 Copynumber: 4.8 Consensus size: 21
47162927 ACACACATAT
*
47162937 ATATAAATAATAGTATTAGAA
1 ATATAAATAATAATATTAGAA
47162958 ATATACAAT-ATAATATTAGAA
1 ATATA-AATAATAATATTAGAA
* **
47162979 ATATATATAATAGTATAAAAGAAAA
1 ATATAAATAATA--ATATTAG--AA
*
47163004 ATATAACTAATAATATTA-AA
1 ATATAAATAATAATATTAGAA
*
47163024 ATATATATAATAATAT
1 ATATAAATAATAATAT
47163040 ATGTGAAATA
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
20 18 0.27
21 24 0.36
22 3 0.05
23 9 0.14
25 12 0.18
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (21 bp):
ATATAAATAATAATATTAGAA
Found at i:47163024 original size:20 final size:20
Alignment explanation
Indices: 47163001--47163039 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
47162991 GTATAAAAGA
47163001 AAAATATA-ACTAATAATATT
1 AAAATATATA-TAATAATATT
47163021 AAAATATATATAATAATAT
1 AAAATATATATAATAATAT
47163040 ATGTGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATATATATAATAATATT
Found at i:47163048 original size:23 final size:22
Alignment explanation
Indices: 47162933--47163051 Score: 84
Period size: 23 Copynumber: 5.2 Consensus size: 22
47162923 ACATACACAC
47162933 ATATATATAAATAATAGTATTAGAA
1 ATATATAT-AATAATA-TATT-GAA
* *
47162958 ATATACA-ATATAATAT-TAGAA
1 ATATATATA-ATAATATATTGAA
* **
47162979 ATATATATAATAGTATAAAAGAA
1 ATATATATAATAATAT-ATTGAA
*
47163002 A-A-ATATAACTAATAATATTAAA
1 ATATATATAA-TAAT-ATATTGAA
47163024 ATATATATAATAATATATGTGAA
1 ATATATATAATAATATAT-TGAA
47163047 ATATA
1 ATATA
47163052 ATATTAAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
21 21 0.28
22 14 0.19
23 22 0.29
24 12 0.16
25 6 0.08
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (22 bp):
ATATATATAATAATATATTGAA
Found at i:47183342 original size:21 final size:21
Alignment explanation
Indices: 47183318--47183420 Score: 111
Period size: 21 Copynumber: 4.8 Consensus size: 21
47183308 ATACACATAT
*
47183318 ATATATATAATAGTATTAGAA
1 ATATATATAATAATATTAGAA
47183339 ATATATA-ATATAATATTAGAA
1 ATATATATA-ATAATATTAGAA
**
47183360 ATATATATAATAGTATAAAAGAA
1 ATATATATAATA--ATATTAGAA
*
47183383 AAATATAACTAATAATATTA-AA
1 ATATAT-A-TAATAATATTAGAA
47183405 ATATATATAATAATAT
1 ATATATATAATAATAT
47183421 ATGTGAAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
20 10 0.14
21 29 0.42
22 8 0.12
23 16 0.23
24 1 0.01
25 5 0.07
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (21 bp):
ATATATATAATAATATTAGAA
Found at i:47183342 original size:23 final size:23
Alignment explanation
Indices: 47183316--47183436 Score: 105
Period size: 23 Copynumber: 5.4 Consensus size: 23
47183306 ACATACACAT
*
47183316 ATATATATATAATAGTATTAGAA
1 ATATATATATAATAATATTAGAA
47183339 ATATATA-AT-ATAATATTAGAA
1 ATATATATATAATAATATTAGAA
* **
47183360 ATATATATAATAGT-ATAAAAGAA
1 ATATATAT-ATAATAATATTAGAA
*
47183383 AAATATA-ACTAATAATATTA-AA
1 ATATATATA-TAATAATATTAGAA
47183405 ATATATATAATAAT-ATATGT-GAA
1 ATATATAT-ATAATAATAT-TAGAA
47183428 ATATA-ATAT
1 ATATATATAT
47183437 TAAAAACTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 20
0.73 0.08 0.18
Matches are distributed among these distances:
21 21 0.26
22 19 0.24
23 38 0.47
24 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (23 bp):
ATATATATATAATAATATTAGAA
Found at i:47185884 original size:16 final size:16
Alignment explanation
Indices: 47185851--47185900 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
47185841 TACCAACTTC
47185851 TTTTATTTATAAATTATT
1 TTTTATTT-TAAA-TATT
*
47185869 TTTTATTTTGAATATT
1 TTTTATTTTAAATATT
* *
47185885 ATTTATATTAAATATT
1 TTTTATTTTAAATATT
47185901 AAATATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 17 0.61
17 3 0.11
18 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTATTTTAAATATT
Found at i:47187659 original size:7 final size:7
Alignment explanation
Indices: 47187647--47187679 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
47187637 TTATGAAAAT
47187647 AATTAAA
1 AATTAAA
47187654 AATTAAA
1 AATTAAA
47187661 AATTAAA
1 AATTAAA
47187668 AA-TAAA
1 AATTAAA
47187674 AATTAA
1 AATTAA
47187680 TAATATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AATTAAA
Found at i:47187673 original size:13 final size:13
Alignment explanation
Indices: 47187647--47187684 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
47187637 TTATGAAAAT
47187647 AATTAAAAATTAAA
1 AATTAAAAA-TAAA
47187661 AATTAAAAATAAA
1 AATTAAAAATAAA
*
47187674 AATTAATAATA
1 AATTAAAAATA
47187685 TCATACCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATTAAAAATAAA
Found at i:47188410 original size:18 final size:18
Alignment explanation
Indices: 47188389--47188425 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47188379 ATTCTTTACT
*
47188389 TCTTTCCTTCTTTCTCCA
1 TCTTTCCTTCCTTCTCCA
*
47188407 TCTTTTCTTCCTTCTCCA
1 TCTTTCCTTCCTTCTCCA
47188425 T
1 T
47188426 TTGCTCCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (18 bp):
TCTTTCCTTCCTTCTCCA
Found at i:47192199 original size:26 final size:26
Alignment explanation
Indices: 47192163--47192246 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
47192153 CATGAAATTC
47192163 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
47192189 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
47192215 TTAACATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
47192241 TTATCA
1 TTATCA
47192247 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:47193204 original size:29 final size:30
Alignment explanation
Indices: 47193171--47193234 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
47193161 CACTAACAAT
47193171 TTTTC-GTTACAAACATAACGGAGCTACCA
1 TTTTCTGTTACAAACATAACGGAGCTACCA
* *
47193200 TTTTCTGTTACAAACTTAACGGAGCTGCCA
1 TTTTCTGTTACAAACATAACGGAGCTACCA
47193230 TTTTC
1 TTTTC
47193235 CATCCCACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 5 0.16
30 27 0.84
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (30 bp):
TTTTCTGTTACAAACATAACGGAGCTACCA
Found at i:47206677 original size:31 final size:31
Alignment explanation
Indices: 47206629--47206692 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
47206619 AATGAAAAAA
*
47206629 CACCTCTGACTGATTTTTCATAAAATATATC
1 CACCCCTGACTGATTTTTCATAAAATATATC
*
47206660 CACCCCTGAGTGATTTTTCATAAAATATATC
1 CACCCCTGACTGATTTTTCATAAAATATATC
47206691 CA
1 CA
47206693 TGTTATTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (31 bp):
CACCCCTGACTGATTTTTCATAAAATATATC
Found at i:47208337 original size:31 final size:31
Alignment explanation
Indices: 47208300--47208409 Score: 94
Period size: 31 Copynumber: 3.4 Consensus size: 31
47208290 CTTCTCCCTC
47208300 TTTTTCATTCTCACGTCTGAAGCAACTTCTT
1 TTTTTCATTCTCACGTCTGAAGCAACTTCTT
* * * ****
47208331 TTTTTCATTCTTCCCATTTCCTTCCAACCTCTCTCT
1 TTTTTCATTC-TCACGTCT-GAAGCAA-CT-TCT-T
*
47208367 CTTTTTCATTCTCACGTCTGAAGCATCTTCTT
1 -TTTTTCATTCTCACGTCTGAAGCAACTTCTT
47208399 TTTTTCATTCT
1 TTTTTCATTCT
47208410 TCTTCCCATT
Statistics
Matches: 58, Mismatches: 15, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
31 21 0.36
32 6 0.10
33 6 0.10
34 4 0.07
35 5 0.09
36 6 0.10
37 10 0.17
ACGTcount: A:0.15, C:0.30, G:0.05, T:0.50
Consensus pattern (31 bp):
TTTTTCATTCTCACGTCTGAAGCAACTTCTT
Found at i:47208404 original size:68 final size:70
Alignment explanation
Indices: 47208289--47208447 Score: 259
Period size: 68 Copynumber: 2.3 Consensus size: 70
47208279 TCAACTTTAC
*
47208289 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCA-TTCTTCCCATTTCCT
1 CCTTCTCACTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCATTTCTTCCCATTTCCT
47208353 TCCAA
66 TCCAA
* *
47208358 CC-TCTCTCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
1 CCTTCTCACTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCA-T-TTCTTCCCATTTC
47208422 CTTCCAA
64 CTTCCAA
47208429 CCTTCTCACTCTTTTTCAT
1 CCTTCTCACTCTTTTTCAT
47208448 GCTTCTATCC
Statistics
Matches: 83, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
68 44 0.53
69 2 0.02
71 22 0.27
72 15 0.18
ACGTcount: A:0.13, C:0.35, G:0.04, T:0.48
Consensus pattern (70 bp):
CCTTCTCACTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCATTTCTTCCCATTTCCT
TCCAA
Found at i:47213787 original size:44 final size:43
Alignment explanation
Indices: 47213722--47213808 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 43
47213712 ATCAGGAATT
*
47213722 GGTTGAGTATCAAGTTAGAAAAGACATTAAATTGGTTGCCTTA
1 GGTTGAGTATCAAGTTAGAAAAGACATCAAATTGGTTGCCTTA
* * *
47213765 GGTTGGGTATCCAAGTTGGAAAAGGCATCAAATTGGTTGCCTTA
1 GGTTGAGTAT-CAAGTTAGAAAAGACATCAAATTGGTTGCCTTA
47213809 TGTATTTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 9 0.23
44 30 0.77
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (43 bp):
GGTTGAGTATCAAGTTAGAAAAGACATCAAATTGGTTGCCTTA
Found at i:47214325 original size:57 final size:55
Alignment explanation
Indices: 47214194--47214327 Score: 164
Period size: 57 Copynumber: 2.4 Consensus size: 55
47214184 TTAATTCATA
* ** *
47214194 TAATAATAATTATATTAAGAATGTTATTAAATTATATTTTTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATGGTTAAATTATATTATTTTATTAAATTATATT
*
47214250 TAATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTATTAAATTAT-TT
1 TAATAATAATTATATTAAAATATGGTTAAATTA--TATTATTTTATTAAATTATATT
47214306 TCAATAATAATCT-TATTAAAAT
1 T-AATAATAAT-TATATTAAAAT
47214328 TTAATAACAA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
55 12 0.18
56 20 0.29
57 35 0.51
58 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (55 bp):
TAATAATAATTATATTAAAATATGGTTAAATTATATTATTTTATTAAATTATATT
Found at i:47223834 original size:40 final size:40
Alignment explanation
Indices: 47223780--47223897 Score: 218
Period size: 40 Copynumber: 3.0 Consensus size: 40
47223770 CGGATGTAAC
* *
47223780 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
47223820 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
47223860 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
47223898 TTTTTTTTTC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:47230866 original size:20 final size:20
Alignment explanation
Indices: 47230837--47230935 Score: 94
Period size: 20 Copynumber: 5.0 Consensus size: 20
47230827 GTCACAGCAC
47230837 ATTC-GTGCCTCTGTTTGCA
1 ATTCAGTGCCTCTGTTTGCA
* * *
47230856 TTTCAGTGCCTCTGTATACA
1 ATTCAGTGCCTCTGTTTGCA
* *
47230876 ATTCAGTGTCTCTATTTGCA
1 ATTCAGTGCCTCTGTTTGCA
* *
47230896 CTTCAGTGCCTCTGATTGCA
1 ATTCAGTGCCTCTGTTTGCA
* *
47230916 CATT-TGTGCCTCTGGTTGCA
1 -ATTCAGTGCCTCTGTTTGCA
47230936 CTATGGTGCC
Statistics
Matches: 63, Mismatches: 15, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
19 3 0.05
20 58 0.92
21 2 0.03
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCAGTGCCTCTGTTTGCA
Done.