Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 77 of 433
Found at i:22459193 original size:13 final size:13
Alignment explanation
Indices: 22459175--22459202 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22459165 GTTACAAATT
22459175 TTGTAACAGCCCA
1 TTGTAACAGCCCA
22459188 TTGTAACAGCCCA
1 TTGTAACAGCCCA
22459201 TT
1 TT
22459203 TTTAGCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (13 bp):
TTGTAACAGCCCA
Found at i:22460446 original size:43 final size:43
Alignment explanation
Indices: 22460399--22460503 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
22460389 AATTGTATTG
* **
22460399 TGATTACGTGTAAGACCATGTCTGGGACATTGGAATCGTTATA
1 TGATTACGTGTAAGACCATGTCTGGGACAGTGGAATCAATATA
* * * * * *
22460442 TGATTTCGTATAAGACCTTGTGTGGGACAGTGGCATCAATATG
1 TGATTACGTGTAAGACCATGTCTGGGACAGTGGAATCAATATA
* *
22460485 TGATAACATGTAAGACCAT
1 TGATTACGTGTAAGACCAT
22460504 ATTCGGGATA
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACAGTGGAATCAATATA
Found at i:22460667 original size:56 final size:56
Alignment explanation
Indices: 22460602--22460717 Score: 232
Period size: 56 Copynumber: 2.1 Consensus size: 56
22460592 ATGAAAGTAC
22460602 AATTGAATTAAGTGATACAGGTATGTATAAAACCTATATGAGAATTAAATGAAGGT
1 AATTGAATTAAGTGATACAGGTATGTATAAAACCTATATGAGAATTAAATGAAGGT
22460658 AATTGAATTAAGTGATACAGGTATGTATAAAACCTATATGAGAATTAAATGAAGGT
1 AATTGAATTAAGTGATACAGGTATGTATAAAACCTATATGAGAATTAAATGAAGGT
22460714 AATT
1 AATT
22460718 TGGTAAGTTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (56 bp):
AATTGAATTAAGTGATACAGGTATGTATAAAACCTATATGAGAATTAAATGAAGGT
Found at i:22465100 original size:40 final size:40
Alignment explanation
Indices: 22464975--22465102 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
22464965 AAATTGAATG
* * **
22464975 ATATCCGGGCTAA-ATCCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTGATT
* *
22465015 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-ATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
22465055 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
22465095 ATATCCGG
1 ATATCCGG
22465103 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.03
40 70 0.95
41 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:22472637 original size:40 final size:40
Alignment explanation
Indices: 22472571--22472737 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
22472561 AAATTGAATG
* * *
22472571 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
22472610 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
22472650 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
22472690 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
22472730 ATATCCGG
1 ATATCCGG
22472738 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:22473704 original size:40 final size:40
Alignment explanation
Indices: 22473604--22473750 Score: 136
Period size: 40 Copynumber: 3.6 Consensus size: 40
22473594 CGAATGGTGT
* * *
22473604 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAAA
* * * *
22473645 CCGGG-TCAATTCCCTAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCAAGTTACTAAAA
* * *
22473685 CCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAA
* * *
22473725 TCTGGGCTAA-TTCCGAAGGCAATTGT
1 -CCGGGCTAAGTCCCGAAGGCATTTGT
22473751 ACGAATCACT
Statistics
Matches: 86, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
40 55 0.64
41 31 0.36
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAA
Found at i:22475938 original size:30 final size:29
Alignment explanation
Indices: 22475844--22475945 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
22475834 TATAGTGAAT
* * *
22475844 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
22475873 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
22475901 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
22475931 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
22475946 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:22483726 original size:29 final size:29
Alignment explanation
Indices: 22483694--22483793 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
22483684 ATAGTGAATC
* *
22483694 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAACT
22483723 CGCACACTTAGTGCTATAGAA---TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTC-AACT
* *
22483751 CGCACACTTAGTGCTGTACAATTTT-AACC
1 CGCACACTTAGTGCTATA-AATTTTCAACT
22483780 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22483794 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
27 2 0.03
28 22 0.36
29 35 0.57
30 1 0.02
31 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAAATTTTCAACT
Found at i:22488397 original size:26 final size:26
Alignment explanation
Indices: 22488368--22488422 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
22488358 TACTAAAATT
22488368 CCCTAAGTATG-AAAATTACCATTATA
1 CCCTAAG-ATGCAAAATTACCATTATA
* * *
22488394 CCCTTAGGTGCAAAATTAGCATTATA
1 CCCTAAGATGCAAAATTACCATTATA
22488420 CCC
1 CCC
22488423 CTGGGGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (26 bp):
CCCTAAGATGCAAAATTACCATTATA
Found at i:22488620 original size:55 final size:55
Alignment explanation
Indices: 22488530--22488640 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
22488520 GGAGGAAGCG
* * * * *
22488530 TTCTGGTGGCTCTGCCACAAATATCTGTTTCTGGTGGCTCTGTTACAAATATTTGT
1 TTCTAGTGGCTCTGCCACAAATATCTGTATCTGGTGACTCTGTCAC-AATATCTGT
22488586 TTCTAGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCACAATATCTGT
1 TTCTAGTGGCTCTGCCACAAATATCTGTATCTGGTGACTCTGTCACAATATCTGT
22488640 T
1 T
22488641 CTGGCAGCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 9 0.18
55 24 0.48
56 17 0.34
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.40
Consensus pattern (55 bp):
TTCTAGTGGCTCTGCCACAAATATCTGTATCTGGTGACTCTGTCACAATATCTGT
Found at i:22488625 original size:27 final size:28
Alignment explanation
Indices: 22488530--22488644 Score: 146
Period size: 28 Copynumber: 4.2 Consensus size: 28
22488520 GGAGGAAGCG
22488530 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
** *
22488558 TTCTGGTGGCTCTGTTACAAATATTTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
22488586 TTCTAGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
22488613 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
22488639 TTCTGG
1 TTCTGG
22488645 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
26 5 0.07
27 30 0.40
28 40 0.53
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:22489238 original size:18 final size:20
Alignment explanation
Indices: 22489215--22489253 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22489205 AAAGCTTCCG
22489215 AAATGAA-AA-TGTTTTCAA
1 AAATGAATAAGTGTTTTCAA
22489233 AAATGAATAAGTGTTTTCAA
1 AAATGAATAAGTGTTTTCAA
22489253 A
1 A
22489254 GGCTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (20 bp):
AAATGAATAAGTGTTTTCAA
Found at i:22490570 original size:36 final size:36
Alignment explanation
Indices: 22490485--22490557 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
22490475 ACCACTTAGG
22490485 TATCATACATACCTGGATCGTCCCATACTTATTCAC
1 TATCATACATACCTGGATCGTCCCATACTTATTCAC
* * *
22490521 TATCATACATACCTGGATCTTCTCGTACTTATTCAC
1 TATCATACATACCTGGATCGTCCCATACTTATTCAC
22490557 T
1 T
22490558 TTCCTACTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.29, G:0.08, T:0.37
Consensus pattern (36 bp):
TATCATACATACCTGGATCGTCCCATACTTATTCAC
Found at i:22504032 original size:13 final size:13
Alignment explanation
Indices: 22504014--22504038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22504004 CTCTTTGCTT
22504014 TAATTAGTTTAAA
1 TAATTAGTTTAAA
22504027 TAATTAGTTTAA
1 TAATTAGTTTAA
22504039 TAAACAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:22511260 original size:13 final size:13
Alignment explanation
Indices: 22511244--22511276 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22511234 TTTAATTAAA
*
22511244 TTAGTTAATTAGT
1 TTAGATAATTAGT
22511257 TTAGATAATTAGT
1 TTAGATAATTAGT
22511270 TTA-ATAA
1 TTAGATAA
22511277 ACAAACACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:22512833 original size:18 final size:19
Alignment explanation
Indices: 22512800--22512835 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22512790 AAATGTAGTG
*
22512800 AATTAATTGAATTATGGTA
1 AATTAAATGAATTATGGTA
22512819 AATTAAATG-ATTATGGT
1 AATTAAATGAATTATGGT
22512836 GCCAAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (19 bp):
AATTAAATGAATTATGGTA
Found at i:22513318 original size:64 final size:64
Alignment explanation
Indices: 22513169--22513420 Score: 199
Period size: 68 Copynumber: 3.8 Consensus size: 64
22513159 TACAGATAGT
* ** * * *
22513169 ATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACAAG--A
*
22513232 TTATG
62 -TA-A
* ** *
22513237 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
* * * * *
22513301 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACAAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACAAGAT
22513366 AA
63 AA
* * *
22513368 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
22513421 CGAACTATAT
Statistics
Matches: 150, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 25 0.17
65 2 0.01
66 22 0.15
67 33 0.22
68 47 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
Found at i:22514953 original size:29 final size:27
Alignment explanation
Indices: 22514919--22515021 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
22514909 TACTCAATCA
*
22514919 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
22514948 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
22514977 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
22515006 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
22515022 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:22522750 original size:29 final size:27
Alignment explanation
Indices: 22522716--22522818 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
22522706 TACTCAATCA
*
22522716 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
22522745 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
22522774 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
22522803 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
22522819 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:22531043 original size:5 final size:5
Alignment explanation
Indices: 22531017--22531072 Score: 69
Period size: 5 Copynumber: 10.8 Consensus size: 5
22531007 TCCTTCTATT
*
22531017 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA TTTTTA TTTTA TTTTT
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA
22531064 TTTTA TTTT
1 TTTTA TTTT
22531073 TATCTTCATT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
4 4 0.09
5 28 0.62
6 11 0.24
7 2 0.04
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:22531067 original size:21 final size:21
Alignment explanation
Indices: 22531013--22531075 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 21
22531003 TGAATCCTTC
*
22531013 TATTTTTTATTTATTCTTATTTT
1 TATTTTTT-TTTATTTTTA-TTT
*
22531036 TATTTTATTTTATTTTTATTT
1 TATTTTTTTTTATTTTTATTT
22531057 TATTTTTTTTTATTTTTAT
1 TATTTTTTTTTATTTTTAT
22531076 CTTCATTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 21 0.57
22 9 0.24
23 7 0.19
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (21 bp):
TATTTTTTTTTATTTTTATTT
Found at i:22531075 original size:16 final size:16
Alignment explanation
Indices: 22531016--22531072 Score: 91
Period size: 16 Copynumber: 3.6 Consensus size: 16
22531006 ATCCTTCTAT
22531016 TTTTTA-TTTATTCTTA
1 TTTTTATTTTATT-TTA
22531032 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
22531048 TTTTTATTTTATTTT-
1 TTTTTATTTTATTTTA
22531063 TTTTTATTTT
1 TTTTTATTTT
22531073 TATCTTCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.25
16 24 0.60
17 6 0.15
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:22537604 original size:21 final size:21
Alignment explanation
Indices: 22537580--22537621 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22537570 GTCCCTACTG
22537580 AGCCCAAGTTTAGTCCAATTC
1 AGCCCAAGTTTAGTCCAATTC
22537601 AGCCCAAGTTTAGTCCAATTC
1 AGCCCAAGTTTAGTCCAATTC
22537622 GGAAAAGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (21 bp):
AGCCCAAGTTTAGTCCAATTC
Found at i:22543196 original size:34 final size:33
Alignment explanation
Indices: 22543124--22543217 Score: 107
Period size: 34 Copynumber: 2.8 Consensus size: 33
22543114 CTGATATTGT
* *
22543124 AATGGGCTTAGGCCCAACTAATACTATTACTGA
1 AATGGGCTAAGGCCCAACTGATACTATTACTGA
* * *
22543157 AATGGGCTCAGGCCCAAACTGCTACTGTTACTGA
1 AATGGGCTAAGGCCC-AACTGATACTATTACTGA
* *
22543191 TATGGGCTAAGGCCCTAACTGAAACTA
1 AATGGGCTAAGGCCC-AACTGATACTA
22543218 AAAGGGCTTG
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 14 0.28
34 36 0.72
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (33 bp):
AATGGGCTAAGGCCCAACTGATACTATTACTGA
Found at i:22547264 original size:68 final size:64
Alignment explanation
Indices: 22547199--22547406 Score: 204
Period size: 67 Copynumber: 3.2 Consensus size: 64
22547189 CATCATGTGT
*
22547199 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
22547264 TAG
62 TAG
* * * * * * *
22547267 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
22547332 AG
63 AG
* * * * * *
22547334 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
22547396 TACAAGAGAGC
1 -ACAAGAGAGC
22547407 CGAACTATAT
Statistics
Matches: 116, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 21 0.18
65 11 0.09
66 19 0.16
67 32 0.28
68 13 0.11
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:22555857 original size:38 final size:39
Alignment explanation
Indices: 22555802--22555980 Score: 112
Period size: 40 Copynumber: 4.5 Consensus size: 39
22555792 AATCAAGCAT
* * *
22555802 CTTCGGGGTTTAG-CCGGATATAACCACTCGCA-CAAGGC
1 CTTC-GGGCTTAGCCCGGATATAACCACTAGCATAAAGGC
*** *
22555840 CTTCGGGCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGCTTAGCCCGGATATAACCACTAGCATAAAGGC
** * * *
22555879 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGG-CTTAGCCCGGATATAACCACTAGCATAAAGGC
* * * ** * * *
22555919 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGG-GCTTAGCCCGGATATAACCAC-TAGCATAAAGGC
22555960 CTTCGGGACTTAGCCC-GATAT
1 CTTCGGG-CTTAGCCCGGATAT
22555981 CATTCGAGTA
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
37 7 0.06
38 19 0.16
39 11 0.09
40 57 0.48
41 24 0.20
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CTTCGGGCTTAGCCCGGATATAACCACTAGCATAAAGGC
Found at i:22555895 original size:40 final size:40
Alignment explanation
Indices: 22555838--22555980 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
22555828 CTCGCACAAG
* * *
22555838 GCCTTCGGG-CTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
22555877 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
22555917 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
22555958 GCCTTCGGGACTTAGCCC-GATAT
1 GCCTTCGGGACTTAGCCCGGATAT
22555981 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.13
40 55 0.60
41 22 0.24
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:22563985 original size:41 final size:40
Alignment explanation
Indices: 22563858--22564002 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
22563848 CTCGCACAAG
* * * *
22563858 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
22563898 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
22563938 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
22563979 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
22564003 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:22572896 original size:40 final size:40
Alignment explanation
Indices: 22572852--22573016 Score: 242
Period size: 40 Copynumber: 4.0 Consensus size: 40
22572842 ACTCACGCAC
*
22572852 ATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA
*
22572892 ATGCCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAA
*
22572935 ATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA
* *
22572975 ATGCCTTCGGGACTTAACCCGGATATGGTCACTAGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA
22573015 AT
1 AT
22573017 TCTGTGACAG
Statistics
Matches: 113, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
39 1 0.01
40 75 0.66
43 36 0.32
44 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA
Found at i:22572943 original size:83 final size:80
Alignment explanation
Indices: 22572816--22573000 Score: 273
Period size: 83 Copynumber: 2.3 Consensus size: 80
22572806 AACCCAAGTA
** *
22572816 CCTTCGGGGTTTAG-CCGGATATAGCAACTCACGCACATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCACGCACATGCCTTCGGGACTTAGCCCGGATATAG
22572880 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* * *
22572895 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACT-CACGCAC--ATGCCTTCGGGACTTAGCCCGGATA
22572960 TAGTCACTAGCACAAATG
63 TAGTCACTAGCACAAATG
*
22572978 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
22573001 GGTCACTAGC
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 12 0.13
80 14 0.15
81 6 0.06
83 62 0.66
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCACGCACATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:22574596 original size:40 final size:40
Alignment explanation
Indices: 22574541--22574784 Score: 310
Period size: 40 Copynumber: 6.1 Consensus size: 40
22574531 TGAATGATAC
* * * * *
22574541 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
22574581 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
22574621 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
22574661 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
22574701 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
22574741 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
22574781 CCGG
1 CCGG
22574785 TTGTATTCCG
Statistics
Matches: 183, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 180 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:22580412 original size:50 final size:49
Alignment explanation
Indices: 22580358--22580485 Score: 184
Period size: 50 Copynumber: 2.6 Consensus size: 49
22580348 AACTTCGATT
* *
22580358 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTC
*
22580408 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTC
*** *
22580457 GTATGTGTAGTACTAAGTGGAGGCTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTA
22580486 TGCATACCAG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 29 0.41
50 42 0.59
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (49 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTC
Found at i:22584876 original size:48 final size:48
Alignment explanation
Indices: 22584822--22584960 Score: 149
Period size: 48 Copynumber: 2.9 Consensus size: 48
22584812 AGCTAGGTCG
* * *
22584822 CATGTGTAGT-CTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGAT-
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GATC
* * * *
22584870 CATGTGTGTAGTGCTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTC
1 CA--TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATC
22584920 GCATGTGT-GTACTAAGTGCAGGCTACTACGCGTACCAGATA
1 -CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
22584961 GTTGGCTACA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
48 32 0.41
49 7 0.09
50 10 0.13
51 29 0.37
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (48 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATC
Found at i:22584895 original size:51 final size:49
Alignment explanation
Indices: 22584824--22584960 Score: 163
Period size: 51 Copynumber: 2.8 Consensus size: 49
22584814 CTAGGTCGCA
* * *
22584824 TGTGTAGTCTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGAT-CATG
1 TGTGTAGTCTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GATCCATG
* * *
22584874 TGTGTAGTGCTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATG
1 TGTGTAGT-CTAAGTGCAGGCTACTACGCGTACCAGATAATTGATC-CATG
22584925 TGTGTA--CTAAGTGCAGGCTACTACGCGTACCAGATA
1 TGTGTAGTCTAAGTGCAGGCTACTACGCGTACCAGATA
22584961 GTTGGCTACA
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
48 28 0.36
49 2 0.03
50 10 0.13
51 37 0.48
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTCTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCCATG
Found at i:22595441 original size:5 final size:5
Alignment explanation
Indices: 22595431--22595459 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
22595421 TTTTTCTTGC
22595431 AATTT AATTT AATTT AATTT AATTT AATT
1 AATTT AATTT AATTT AATTT AATTT AATT
22595460 ATTATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
AATTT
Found at i:22597609 original size:40 final size:40
Alignment explanation
Indices: 22597554--22597738 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
22597544 CTGATGATAA
* *
22597554 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
22597594 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
22597634 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
22597674 CCGGGCTAAGCCCCAAAGGCATTTGTGCTAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
22597714 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22597739 ATGGGTCATA
Statistics
Matches: 134, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 133 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:22605342 original size:40 final size:40
Alignment explanation
Indices: 22605297--22605559 Score: 327
Period size: 40 Copynumber: 6.6 Consensus size: 40
22605287 CTTGCACAAG
* * *
22605297 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
22605337 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
22605377 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
22605417 GCCTTCGGGT-TTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
22605456 GCC-TCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
22605495 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCAC-AAAT
*
22605537 -CCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
22605560 CATTCGAATA
Statistics
Matches: 196, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
38 7 0.04
39 58 0.30
40 102 0.52
41 26 0.13
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:22615349 original size:40 final size:40
Alignment explanation
Indices: 22615292--22615509 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
22615282 CGGATGATAA
* * *
22615292 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
22615332 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
22615372 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
22615412 CCGGGCTAAGCCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
22615452 CCGGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
22615492 CC-GGCTAAATCCTGAAGG
1 CCGGGCTAAGTCCCGAAGG
22615510 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:22619158 original size:14 final size:14
Alignment explanation
Indices: 22619139--22619165 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22619129 AGTACTAACA
22619139 TATTTTAATTTCTT
1 TATTTTAATTTCTT
22619153 TATTTTAATTTCT
1 TATTTTAATTTCT
22619166 AACACTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTAATTTCTT
Found at i:22620555 original size:5 final size:5
Alignment explanation
Indices: 22620545--22620577 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
22620535 AAATTTTCTT
22620545 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
22620578 ACTATGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:22628985 original size:13 final size:13
Alignment explanation
Indices: 22628967--22628991 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22628957 AACGAAGCTA
22628967 GACACGGTCGTGC
1 GACACGGTCGTGC
22628980 GACACGGTCGTG
1 GACACGGTCGTG
22628992 TGAACTCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GACACGGTCGTGC
Found at i:22642202 original size:43 final size:43
Alignment explanation
Indices: 22642155--22642298 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
22642145 TCAAGATGTT
22642155 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTG
* * * * *
22642198 ATTACGTGTTAGACCATGTCTAGGATATTGGCATCAT-TA-TATG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGTG
* * * * * *
22642241 ATTTCGTTTAAGACCTTGTCTGGGACAGTGGCATCG-ATATGTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTG
*
22642284 ATAACATGTAAGACC
1 ATTACATGTAAGACC
22642299 GTATCTTGGA
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
41 1 0.01
43 74 0.95
44 2 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTG
Found at i:22651534 original size:40 final size:40
Alignment explanation
Indices: 22651476--22651635 Score: 266
Period size: 40 Copynumber: 4.0 Consensus size: 40
22651466 GTATGGGAAA
*
22651476 TGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
1 TGGTGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
*
22651516 TGTTGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
1 TGGTGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* *
22651556 TGGTGTTACATCTGGGCTAAGTCCCGAAGAGCATTCATGC
1 TGGTGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
* *
22651596 TGGTGTTACATCCGGGCTAAGTCCTGAAGGGCATTCGTGC
1 TGGTGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
22651636 CGATGATGTG
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (40 bp):
TGGTGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
Found at i:22651850 original size:28 final size:28
Alignment explanation
Indices: 22651817--22651915 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
22651807 ATGAATATAG
22651817 GCACTATGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
*** * ***
22651845 GCACTATGTGTGCGAGATGGGTCAGTGGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
22651874 -CACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
22651901 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
22651916 GATCGGTCAG
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
27 6 0.11
28 41 0.77
29 6 0.11
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:22651884 original size:56 final size:56
Alignment explanation
Indices: 22651818--22651940 Score: 219
Period size: 56 Copynumber: 2.2 Consensus size: 56
22651808 TGAATATAGG
*
22651818 CACTATGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATGGGTCAGTGGA
1 CACTATGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTGGA
* *
22651874 CACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTGGG
1 CACTATGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTGGA
22651930 CACTATGTGTG
1 CACTATGTGTG
22651941 TGGATTTCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (56 bp):
CACTATGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTGGA
Found at i:22651932 original size:28 final size:28
Alignment explanation
Indices: 22651845--22651940 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
22651835 CTTTAACCGA
*
22651845 GCACTATGTGTGCGAGATGGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCAGTGG
* * ** * ** *
22651873 ACACTGTGTGTGCGA-ATTCTTTAACCGA
1 GCACTATGTGTGCGAGA-TCGGTCAGTGG
22651901 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCAGTGG
22651929 GCACTATGTGTG
1 GCACTATGTGTG
22651941 TGGATTTCGT
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
27 1 0.02
28 47 0.96
29 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCAGTGG
Found at i:22655729 original size:46 final size:46
Alignment explanation
Indices: 22655662--22655754 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
22655652 AATGAGGAGT
22655662 ATAAACTCCTCAAACCACCATGACCATTCACTGAAGAGGTAAGTCG
1 ATAAACTCCTCAAACCACCATGACCATTCACTGAAGAGGTAAGTCG
22655708 ATAAACTCCTCAAACCACCATGACCATTCACTGAAGAGGTAAGTCG
1 ATAAACTCCTCAAACCACCATGACCATTCACTGAAGAGGTAAGTCG
22655754 A
1 A
22655755 GCTTAGACTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (46 bp):
ATAAACTCCTCAAACCACCATGACCATTCACTGAAGAGGTAAGTCG
Found at i:22682182 original size:50 final size:50
Alignment explanation
Indices: 22682072--22682251 Score: 263
Period size: 50 Copynumber: 3.6 Consensus size: 50
22682062 CTGGTATGCA
* * * ** * *
22682072 TAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCTGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
22682121 TAGTAGCCTGCACTTAGTACTAAACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* *
22682171 TAGTAGCCTGCACTTAATACTACACACGTGATCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
22682221 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
22682252 TCACAGTTTT
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 29 0.25
50 89 0.75
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:22682252 original size:50 final size:50
Alignment explanation
Indices: 22682070--22682297 Score: 262
Period size: 50 Copynumber: 4.6 Consensus size: 50
22682060 ATCTGGTATG
* * * * ** *
22682070 CATAGTAGCCTGCACATAGTACTACACATGCGA-CCAATTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACA
* *
22682119 CATAGTAGCCTGCACTTAGTACTAAACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACA
* *
22682169 CGTAGTAGCCTGCACTTAATACTACACACGTGATCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACA
* *** * * *
22682219 CGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCTA-A-CCATCTGATACA
22682270 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
22682298 TGCGACCTCA
Statistics
Matches: 156, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 30 0.19
50 93 0.60
51 33 0.21
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACA
Found at i:22685937 original size:29 final size:29
Alignment explanation
Indices: 22685872--22685986 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
22685862 TACCTGTATC
* * * *
22685872 TGGCCCATTAAGCCC-AGTCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
22685900 TGACCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-TATA
22685929 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
22685958 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
22685986 T
1 T
22685987 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.61
30 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:22693177 original size:43 final size:43
Alignment explanation
Indices: 22693129--22693284 Score: 129
Period size: 43 Copynumber: 3.6 Consensus size: 43
22693119 ATTACCGAGA
*
22693129 TGTGATTACATGTAGGACCATGTCTGGAACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGAACATTGGCATTGTAT
* * * *
22693172 TGTGATTACGTGTAATACCATGTCTGGGACATTGGCATTAT-T
1 TGTGATTACATGTAAGACCATGTCTGGAACATTGGCATTGTAT
* * * * * * * *
22693214 ATATGATTTCGTGTAAGACCCTGTTTTGG-ATAGTGGCATCG-AT
1 -TGTGATTACATGTAAGACCATG-TCTGGAACATTGGCATTGTAT
* *
22693257 ATGTGATAACATGTAAGACCATATCTGG
1 -TGTGATTACATGTAAGACCATGTCTGG
22693285 CATATGGTGT
Statistics
Matches: 89, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 5 0.06
43 80 0.90
44 4 0.04
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGAACATTGGCATTGTAT
Found at i:22702068 original size:38 final size:38
Alignment explanation
Indices: 22702019--22702215 Score: 270
Period size: 38 Copynumber: 5.1 Consensus size: 38
22702009 GAAGGCCCAA
* * * *
22702019 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
22702057 ATATAATACCAGCATGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
**
22702095 ATATTTTACCAGCACGAAGCCTGCGGG-TCTGTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGAT-T-TAA-CCCGG
* *
22702135 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGA
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
22702173 ATATAATACCAGTACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
22702211 ATATA
1 ATATA
22702216 CATCGAATAT
Statistics
Matches: 140, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.01
38 102 0.73
39 6 0.04
40 30 0.21
41 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:22702155 original size:78 final size:76
Alignment explanation
Indices: 22702018--22702215 Score: 272
Period size: 78 Copynumber: 2.6 Consensus size: 76
22702008 CGAAGGCCCA
* * * * **
22702018 AATATAATACCAGCACTAGGCCTGCGGGATTTATCCCAGATATAATACCAGCATGAAGCCTGCGG
1 AATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTGCGG
22702083 GATTTAACCCG
66 GATTTAACCCG
* **
22702094 GATATTTTACCAGCACGAAGCCTGCGGG-TCTGTAAGCCCGGATATAATACCAGCACAAAGCCTG
1 AATATAATACCAGCACGAAGCCTGCGGGAT-T-TAA-CCCGGATATAATACCAGCACAAAGCCTG
22702158 CGGGATTTAACCCG
63 CGGGATTTAACCCG
*
22702172 AATATAATACCAGTACGAAGCCTGCGGGATTTAACCCGGATATA
1 AATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
22702216 CATCGAATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
75 1 0.01
76 34 0.32
77 5 0.05
78 64 0.61
79 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (76 bp):
AATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTGCGG
GATTTAACCCG
Found at i:22728292 original size:24 final size:24
Alignment explanation
Indices: 22728262--22728332 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
22728252 GAGCTTACTA
22728262 TTTCAGCTCATAAGAGCTTATTGT
1 TTTCAGCTCATAAGAGCTTATTGT
* **
22728286 TTTCAGCTCATCAGAGCTTACCG-
1 TTTCAGCTCATAAGAGCTTATTGT
22728309 TTTCAGCTCA-ATAGAGCTTATTGT
1 TTTCAGCTCATA-AGAGCTTATTGT
22728333 CCATCAGCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (24 bp):
TTTCAGCTCATAAGAGCTTATTGT
Found at i:22728316 original size:23 final size:22
Alignment explanation
Indices: 22728252--22728328 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 22
22728242 CTGTACGTTG
*
22728252 GAGCTTACTATTTCAGCTCATAA
1 GAGCTTACTGTTTCAGCTCAT-A
*
22728275 GAGCTTATTGTTTTCAGCTCATCA
1 GAGCTTACTG-TTTCAGCTCAT-A
*
22728299 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTC-ATA
22728322 GAGCTTA
1 GAGCTTA
22728329 TTGTCCATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 25 0.53
24 22 0.47
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (22 bp):
GAGCTTACTGTTTCAGCTCATA
Found at i:22732360 original size:27 final size:27
Alignment explanation
Indices: 22732330--22732483 Score: 146
Period size: 29 Copynumber: 5.5 Consensus size: 27
22732320 ATAGTGAATC
22732330 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
22732357 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
*
22732385 TGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * * *
22732412 CACACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
22732441 CGCACACTTAGTGCCATATATTTCTAGCT
1 CGCACACTTAGTGCTATA-AAATC-AGCT
*
22732470 TGCACACTTAGTGC
1 CGCACACTTAGTGC
22732484 CATTCTCGTC
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
27 38 0.37
28 26 0.25
29 39 0.38
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:22732398 original size:28 final size:28
Alignment explanation
Indices: 22732330--22732454 Score: 119
Period size: 27 Copynumber: 4.5 Consensus size: 28
22732320 ATAGTGAATC
*
22732330 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
22732357 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
22732385 TGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * * ** *
22732412 CACACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AAATCAAACT
22732441 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22732455 CATATATTTC
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
27 38 0.48
28 25 0.32
29 16 0.20
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:22753747 original size:51 final size:52
Alignment explanation
Indices: 22753660--22753900 Score: 213
Period size: 51 Copynumber: 4.7 Consensus size: 52
22753650 AAGGCGAGAT
* * **
22753660 GGTGT-AAGACCATGTGAGAGAAGCTCCATCTCATCCATAAATATGATATGA
1 GGTGTAAAGACCATGTGAGTGAGGCTCCATGGCATCCATAAATATGATATGA
** * * * * * * *
22753711 GGCATAAAG-CTATGTGAATGTGGCTCCATGGCATCCATAAGTATAAAAAGA
1 GGTGTAAAGACCATGTGAGTGAGGCTCCATGGCATCCATAAATATGATATGA
* * * * * * *
22753762 GGTG-CAAGACCATGTGAGTGTGGCTCCATGGCATGCACAGATTTGATATAA
1 GGTGTAAAGACCATGTGAGTGAGGCTCCATGGCATCCATAAATATGATATGA
* *** * *
22753813 GTTGTAAA-AATGTGTGAGTGAGACTCCATGGCATCCATAGATATGATATGA
1 GGTGTAAAGACCATGTGAGTGAGGCTCCATGGCATCCATAAATATGATATGA
22753864 GGTGT-AAGACCATGTGAGTGAGGCTCCATGGCATCCA
1 GGTGTAAAGACCATGTGAGTGAGGCTCCATGGCATCCA
22753901 CAGTGTTAGT
Statistics
Matches: 143, Mismatches: 43, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
50 5 0.03
51 133 0.93
52 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (52 bp):
GGTGTAAAGACCATGTGAGTGAGGCTCCATGGCATCCATAAATATGATATGA
Found at i:22755719 original size:24 final size:24
Alignment explanation
Indices: 22755683--22755835 Score: 245
Period size: 24 Copynumber: 6.4 Consensus size: 24
22755673 CTGGAGGCCT
*
22755683 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
22755708 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
22755732 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
22755756 AGCCTTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
22755780 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22755804 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22755827 AGCCCTTTT
1 AGCCCTTTT
22755836 TCACTTCCTC
Statistics
Matches: 120, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
23 22 0.18
24 94 0.78
25 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:22755909 original size:20 final size:20
Alignment explanation
Indices: 22755884--22755950 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
22755874 TTATGATTAC
22755884 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
22755904 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
22755924 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
22755944 ACCATGT
1 ATCATGT
22755951 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:22755915 original size:11 final size:11
Alignment explanation
Indices: 22755884--22755939 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
22755874 TTATGATTAC
22755884 ATCATGTGCAT
1 ATCATGTGCAT
*
22755895 ATCA--TACAT
1 ATCATGTGCAT
22755904 ATCATGTGCAT
1 ATCATGTGCAT
*
22755915 ATCA--TACAT
1 ATCATGTGCAT
*
22755924 GTCATGTGCAT
1 ATCATGTGCAT
22755935 ATCAT
1 ATCAT
22755940 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:22756019 original size:25 final size:25
Alignment explanation
Indices: 22755987--22756034 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22755977 ATACATAAAC
* * *
22755987 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGAAAAACGGTCATTTTTA
22756012 CCTAGGGGAAAAACGGTCATTTT
1 CCTAGGGGAAAAACGGTCATTTT
22756035 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGAAAAACGGTCATTTTTA
Found at i:22757756 original size:39 final size:40
Alignment explanation
Indices: 22757633--22757792 Score: 173
Period size: 40 Copynumber: 4.0 Consensus size: 40
22757623 AATTTAGCCA
* * * *
22757633 GATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* *** *
22757673 GATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* *
22757713 GATATAACAACTCGCACGAATGCCTTCGGGT-TTAGCCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
*
22757752 GATATAATC-ACTAGCATAAATGCCTTCGAGG-CTTAGCCCG
1 GATATAA-CAACTAGCACAAATGCCTTCG-GGTCTTAGCCCG
22757792 G
1 G
22757793 GTATCATTCA
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 31 0.31
40 68 0.69
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:22765741 original size:40 final size:40
Alignment explanation
Indices: 22765692--22765859 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
22765682 TCTTCGGAAT
* * *
22765692 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
22765731 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
22765771 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
22765811 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
22765851 TTAGCCCGG
1 TTAGCCCGG
22765860 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:22775233 original size:23 final size:24
Alignment explanation
Indices: 22775202--22775399 Score: 314
Period size: 24 Copynumber: 8.4 Consensus size: 24
22775192 CTGGAGGCCT
*
22775202 AGCCTCTTTTAATAACT-GGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
22775226 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22775250 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
22775273 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
22775297 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
22775321 AGCCCTTTT-ATAACTGAGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
22775344 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22775368 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22775391 AGCCCTTTT
1 AGCCCTTTT
22775400 TCACTTCCTC
Statistics
Matches: 165, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
23 79 0.48
24 86 0.52
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:22775279 original size:47 final size:48
Alignment explanation
Indices: 22775202--22775399 Score: 314
Period size: 47 Copynumber: 4.2 Consensus size: 48
22775192 CTGGAGGCCT
*
22775202 AGCCTCTTTTAATAACT-GGGCAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
22775250 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
* *
22775297 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTT-ATAACTGAGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
22775344 AGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
22775391 AGCCCTTTT
1 AGCCCTTTT
22775400 TCACTTCCTC
Statistics
Matches: 142, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
46 13 0.09
47 99 0.70
48 30 0.21
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:22775470 original size:9 final size:9
Alignment explanation
Indices: 22775456--22775508 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
22775446 ACATCATGTG
22775456 CATATCATA
1 CATATCATA
22775465 CATATCATA
1 CATATCATA
22775474 TGCATATCATA
1 --CATATCATA
* *
22775485 CATGTCATGTG
1 CATATCA--TA
22775496 CATATCATA
1 CATATCATA
22775505 CATA
1 CATA
22775509 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:22775477 original size:20 final size:20
Alignment explanation
Indices: 22775448--22775514 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
22775438 TTATGATTAC
22775448 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
22775468 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
22775488 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
22775508 ACCATGT
1 ATCATGT
22775515 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:22775479 original size:11 final size:11
Alignment explanation
Indices: 22775448--22775504 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
22775438 TTATGATTAC
*
22775448 ATCATGTGCAT
1 ATCATATGCAT
22775459 ATCATA--CAT
1 ATCATATGCAT
22775468 ATCATATGCAT
1 ATCATATGCAT
22775479 ATCATA--CAT
1 ATCATATGCAT
* *
22775488 GTCATGTGCAT
1 ATCATATGCAT
22775499 ATCATA
1 ATCATA
22775505 CATACCATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:22775583 original size:25 final size:25
Alignment explanation
Indices: 22775551--22775598 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22775541 ATACATAAAC
* * *
22775551 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
22775576 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22775599 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:22779625 original size:6 final size:6
Alignment explanation
Indices: 22779614--22779698 Score: 66
Period size: 6 Copynumber: 13.8 Consensus size: 6
22779604 TATCAAAACT
* * *
22779614 AGAATC AGAATC AAAATC AAAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
22779663 AGAATC AGTATC AGGTAA-C AGAATC AAAATT AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
22779699 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
5 3 0.05
6 53 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:22779698 original size:31 final size:31
Alignment explanation
Indices: 22779619--22779698 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
22779609 AAACTAGAAT
* *
22779619 CAGAATCAAAATCAAAATCAGAATCAGGTGA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
* *
22779650 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
*
22779681 CAGAATCAAAATTAGAAT
1 CAGAATCAAAATCAGAAT
22779699 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGAATCAGGTAA
Found at i:22779928 original size:27 final size:26
Alignment explanation
Indices: 22779880--22779931 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22779870 GCGAGACTGC
*
22779880 CAGATATTGTGACAAAGTCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
* *
22779906 CAGATATATGTGACGAGGCCACCAGA
1 CAGATAT-TGTGACAAAGCCACCAGA
22779932 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:22780198 original size:27 final size:27
Alignment explanation
Indices: 22780168--22780254 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
22780158 AACACCCTAG
*
22780168 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
22780195 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
22780222 GGGTAAAATAGTAATTTTTTTAATTCGA
1 GGGTAAAATAGTAA-TTTTGTAAATCGA
22780250 GGGTA
1 GGGTA
22780255 CTTTGATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
27 37 0.71
28 15 0.29
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:22780331 original size:54 final size:54
Alignment explanation
Indices: 22780249--22780400 Score: 155
Period size: 54 Copynumber: 2.8 Consensus size: 54
22780239 TTTTAATTCG
* * ** *
22780249 AGGGTACTTTGATAATTTTACATGTCGAGGGTATTTCAGTAATTTTACAAACTA
1 AGGGTACTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACCA
* ** * *
22780303 AGGGTA-TCTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACCG
1 AGGGTACT-TCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACCA
* * * *
22780357 GGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAGTAATTT
1 AGGGTACTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
22780401 GGTAAACTAA
Statistics
Matches: 79, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
53 16 0.20
54 62 0.78
55 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (54 bp):
AGGGTACTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACCA
Found at i:22780397 original size:26 final size:26
Alignment explanation
Indices: 22780248--22780400 Score: 112
Period size: 27 Copynumber: 5.7 Consensus size: 26
22780238 TTTTTAATTC
* **
22780248 GAGGGTACTTT-GATAATTTTACATGT
1 GAGGGTA-TTTCGGTAATTTTACAACT
*
22780274 CGAGGGTATTTCAGTAATTTTACAAACT
1 -GAGGGTATTTCGGTAATTTTAC-AACT
* * *
22780302 AAGGGTATCTCGGTAATTTTACAAAT
1 GAGGGTATTTCGGTAATTTTACAACT
* * * *
22780328 CGAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCGGTAATTTTA-CAACT
*
22780356 GGGGGTACTTT-GGTAATTTTACAACT
1 GAGGGTA-TTTCGGTAATTTTACAACT
* *
22780382 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCGGTAATTT
22780401 GGTAAACTAA
Statistics
Matches: 100, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
25 3 0.03
26 23 0.23
27 67 0.67
28 7 0.07
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (26 bp):
GAGGGTATTTCGGTAATTTTACAACT
Found at i:22789512 original size:40 final size:40
Alignment explanation
Indices: 22789429--22789596 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
22789419 AAATTGAATG
* * * ** *
22789429 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * * *
22789469 ATATCTGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
22789509 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
22789549 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
22789589 ATATCCGG
1 ATATCCGG
22789597 TTATATTCCG
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.04
40 98 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:22808706 original size:46 final size:46
Alignment explanation
Indices: 22808639--22808813 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
22808629 TGTAACCCGC
* *
22808639 CCATAAGCGAACTCGGACTCAACCCAACGAGCTCGGGCATTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACAT
*
22808685 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCACAT
* * *
22808735 CGC---A-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACAT
*
22808778 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
22808814 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 1 0.01
46 60 0.55
47 27 0.25
48 2 0.02
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACAT
Found at i:22808805 original size:93 final size:93
Alignment explanation
Indices: 22808646--22808817 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
22808636 CGCCCATAAG
*
22808646 CGAACTCGGACTCAACCCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACCCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
22808711 ACGAGTTCGGATGCCTAGTTACATCGCA
66 ACGAGTTCGGATGCCTAGTTACATCGCA
* * * *
22808739 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACCCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
22808804 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
22808818 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACCCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCGCA
Found at i:22808833 original size:46 final size:45
Alignment explanation
Indices: 22808647--22808833 Score: 145
Period size: 46 Copynumber: 4.0 Consensus size: 45
22808637 GCCCATAAGC
* *
22808647 GAACTCGGACTCAACCCAACGAGCTCGG--GCATTC-ACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC--TCAACATCC-T-AGT
*
22808693 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACATCGC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATC-CTAGT
* *** *
22808740 GAACTCGGACTCAACTCAACGAGTTTGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC-T-AGT
22808786 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CATCCTAGT
22808832 GA
1 GA
22808834 CATGTCACTT
Statistics
Matches: 112, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
45 2 0.02
46 61 0.54
47 29 0.26
48 9 0.08
50 5 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCCTAGT
Found at i:22816742 original size:30 final size:31
Alignment explanation
Indices: 22816684--22816744 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
22816674 TTAATCCTTA
22816684 ACTAAAATTTTGGCAAAATTACAATTTTGCC
1 ACTAAAATTTTGGCAAAATTACAATTTTGCC
* * * *
22816715 ACTAAACTTTT-GCATATTTACATTTTTGCC
1 ACTAAAATTTTGGCAAAATTACAATTTTGCC
22816745 CCTAGGCTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (31 bp):
ACTAAAATTTTGGCAAAATTACAATTTTGCC
Found at i:22817768 original size:27 final size:27
Alignment explanation
Indices: 22817738--22817816 Score: 140
Period size: 27 Copynumber: 2.9 Consensus size: 27
22817728 GTCAAGAAAA
*
22817738 AAAATCTTATTCCCAAGCATGAATAAT
1 AAAATCTTATTCCCAAGCATGAACAAT
22817765 AAAATCTTATTCCCAAGCATGAACAAT
1 AAAATCTTATTCCCAAGCATGAACAAT
*
22817792 AAAATCTTATTCTCAAGCATGAACA
1 AAAATCTTATTCCCAAGCATGAACA
22817817 TTTCATTAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (27 bp):
AAAATCTTATTCCCAAGCATGAACAAT
Found at i:22818265 original size:15 final size:15
Alignment explanation
Indices: 22818247--22818289 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
22818237 GAAGCCTAGA
22818247 ATAAAGAAATCCATG
1 ATAAAGAAATCCATG
22818262 ATAAAGAAATCCATG
1 ATAAAGAAATCCATG
*
22818277 ATAAGGAAATCCA
1 ATAAAGAAATCCA
22818290 ATTTACAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.19
Consensus pattern (15 bp):
ATAAAGAAATCCATG
Found at i:22827650 original size:6 final size:6
Alignment explanation
Indices: 22827641--22827679 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
22827631 AATAAAATTG
*
22827641 AAATGA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
22827680 GATAAGAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:22832738 original size:56 final size:56
Alignment explanation
Indices: 22832627--22832739 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 56
22832617 TCTCGTTGGT
* * * **
22832627 TGGGAGTTGAGTATCATCTTCTTTCTCGTTCTTCGTGTATCATAAGTTGTGCCTTA
1 TGGGAGTTGAGTATCATCTTCTTGCTCGTTCTCCGTGTATCATAACTTGCACCTTA
* *
22832683 TGGGAGTTGAGTATCGTCTTCTTGCTCGTTCTCCGTGTATCGTAACTTGCACCTTA
1 TGGGAGTTGAGTATCATCTTCTTGCTCGTTCTCCGTGTATCATAACTTGCACCTTA
22832739 T
1 T
22832740 CTCTCTTTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.42
Consensus pattern (56 bp):
TGGGAGTTGAGTATCATCTTCTTGCTCGTTCTCCGTGTATCATAACTTGCACCTTA
Found at i:22834314 original size:24 final size:24
Alignment explanation
Indices: 22834263--22834381 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
22834253 GCTTTATCAT
*
22834263 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
22834288 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
22834312 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
22834335 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
22834359 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
22834382 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:22834342 original size:47 final size:48
Alignment explanation
Indices: 22834263--22834381 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
22834253 GCTTTATCAT
*
22834263 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
22834312 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
22834359 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
22834382 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:22834457 original size:20 final size:20
Alignment explanation
Indices: 22834432--22834491 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
22834422 TATGATTACC
22834432 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
22834452 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
22834472 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
22834492 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:22834462 original size:11 final size:11
Alignment explanation
Indices: 22834432--22834486 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
22834422 TATGATTACC
22834432 TCATGTGCATA
1 TCATGTGCATA
*
22834443 TCA--TACATA
1 TCATGTGCATA
22834452 TCATGTGCATA
1 TCATGTGCATA
* *
22834463 TCA--TACATT
1 TCATGTGCATA
22834472 TCATGTGCATA
1 TCATGTGCATA
22834483 TCAT
1 TCAT
22834487 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:22834566 original size:25 final size:25
Alignment explanation
Indices: 22834534--22834581 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22834524 ATACATAAAC
* * *
22834534 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
22834559 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22834582 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:22841475 original size:50 final size:50
Alignment explanation
Indices: 22841411--22841643 Score: 281
Period size: 50 Copynumber: 4.7 Consensus size: 50
22841401 TAAGATGGTT
*
22841411 TTAGGTCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTACCAAATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
* * * * *
22841461 TTAGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGACA-AC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-A-ATAG
* * * * * * *
22841512 TTCGATCACGTGTGTAGTACTAGGTGCAGGCTACTACATGTATCAGATGG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
* * *
22841562 TTAGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAAATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
*
22841612 TT-GGTCACATGTGTAGTACTAAGTGCAGGCTA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTA
22841644 GTATGCATAC
Statistics
Matches: 153, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
49 29 0.19
50 85 0.56
51 38 0.25
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
Found at i:22841541 original size:101 final size:101
Alignment explanation
Indices: 22841416--22841597 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
22841406 TGGTTTTAGG
* *
22841416 TCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATAGTTAGGTCACATGTGTAGTAC
**
22841481 TAAGTGTAGGCTACTATGCGTACCAGACAACTTCGA
66 TAAGTACAGGCTACTATGCGTACCAGACAACTTCGA
* * * * *
22841517 TCACGTGTGTAGTACTAGGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATAGTTAGGTCACATGTGTAGTAC
22841582 TAAGTACAGGCTACTA
66 TAAGTACAGGCTACTA
22841598 CGTGTATCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATAGTTAGGTCACATGTGTAGTAC
TAAGTACAGGCTACTATGCGTACCAGACAACTTCGA
Found at i:22841689 original size:150 final size:151
Alignment explanation
Indices: 22841411--22841692 Score: 395
Period size: 150 Copynumber: 1.9 Consensus size: 151
22841401 TAAGATGGTT
* *
22841411 TTAGGTCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGT
* * ** * *
22841476 AGTACTAAGTGTAGGCTACTATGCGTACCAGACAACTTCGATCACGTGTGTAGTACTAGGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCATACCAGACAACTTCGATCACAAGGGTAGTAATAGGTGCAG
22841541 GCTACTACATGTATCAGATGG
131 GCTACTACATGTATCAGATGG
* *
22841562 TTAGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAAATTGTT-GGTCACATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGT
* * * * * * * *
22841626 AGTACTAAGTGCAGGCTAGTATGCATACCAGATAGCTTTGGTTACAAGGGTGGTAATATGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCATACCAGACAACTTCGATCACAAGGGTAGTAATAGGTGCAG
22841691 GC
131 GC
22841693 CACTGAGTAT
Statistics
Matches: 113, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
150 65 0.58
151 48 0.42
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATAGTTAGGTCACATGTGT
AGTACTAAGTGCAGGCTACTATGCATACCAGACAACTTCGATCACAAGGGTAGTAATAGGTGCAG
GCTACTACATGTATCAGATGG
Found at i:22847624 original size:106 final size:106
Alignment explanation
Indices: 22847435--22847653 Score: 393
Period size: 106 Copynumber: 2.1 Consensus size: 106
22847425 ATTTGAAAGT
*
22847435 AGCTTTTGATAGACAAAAATCATATGCAGATTTAAAAAGAAAAGAGATTGAGTTTTAGGTCGGTG
1 AGCTTTTGATAGACAAAAATCATATGCAGATTTAAAAAGAAAAGAGATTGAGTTTCAGGTCGGTG
*
22847500 ATAAAGTATTTTTGAAAGTATCTCCATGGAAGAAAGTTTTC
66 ATAAAGTATTTTTGAAAGTATCTCCATGGAAGAAAGTTCTC
*
22847541 AGCTTTTGATAGACAGAAATCATATGCAGATTTAAAAAGAAAAGAGATTGAGTTTCAGGTCGGTG
1 AGCTTTTGATAGACAAAAATCATATGCAGATTTAAAAAGAAAAGAGATTGAGTTTCAGGTCGGTG
*
22847606 ATAAAGTATTTTTTAAAGTATCTCCATGGAAGAAAGTTCTC
66 ATAAAGTATTTTTGAAAGTATCTCCATGGAAGAAAGTTCTC
*
22847647 AGATTTT
1 AGCTTTT
22847654 ACCGAAAAAT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 108 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (106 bp):
AGCTTTTGATAGACAAAAATCATATGCAGATTTAAAAAGAAAAGAGATTGAGTTTCAGGTCGGTG
ATAAAGTATTTTTGAAAGTATCTCCATGGAAGAAAGTTCTC
Found at i:22851050 original size:33 final size:34
Alignment explanation
Indices: 22851009--22851091 Score: 127
Period size: 33 Copynumber: 2.5 Consensus size: 34
22850999 AAACTAAATT
22851009 GGGC-TAAGGCCCAGACTGTACTGTTACTGTATA
1 GGGCATAAGGCCCAGACTGTACTGTTACTGTATA
*
22851042 GGG-ATAAGGTCCAGACTGTACTGTTACTGTATA
1 GGGCATAAGGCCCAGACTGTACTGTTACTGTATA
*
22851075 GGGCTTAA-GCCCAGACT
1 GGGCATAAGGCCCAGACT
22851092 TTTTTGCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
33 42 0.93
34 3 0.07
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (34 bp):
GGGCATAAGGCCCAGACTGTACTGTTACTGTATA
Found at i:22856232 original size:41 final size:40
Alignment explanation
Indices: 22856014--22856233 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
22856004 GCTCGATTGT
* * * * *
22856014 CTTCGAGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
* *
22856054 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
22856094 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
22856134 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
22856174 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
22856215 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
22856234 CACCATTCGA
Statistics
Matches: 156, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
40 127 0.81
41 28 0.18
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:22871015 original size:92 final size:93
Alignment explanation
Indices: 22870849--22871018 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
22870839 GCCCCTAAGT
* *
22870849 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22870914 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
22870942 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22871006 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22871019 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 35 0.48
93 38 0.52
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:22871468 original size:30 final size:30
Alignment explanation
Indices: 22871434--22871490 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
22871424 ATTTAATACG
22871434 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
22871464 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
22871491 TAGGCTCGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:22875475 original size:40 final size:40
Alignment explanation
Indices: 22875430--22875597 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
22875420 CGGAATATAA
22875430 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
22875470 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
22875510 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
22875550 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
22875590 CCGGATAT
1 CCGGATAT
22875598 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:22880533 original size:40 final size:40
Alignment explanation
Indices: 22880488--22880655 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
22880478 CGGAATATAA
22880488 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
22880528 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
22880568 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
22880608 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
22880648 CCGGATAT
1 CCGGATAT
22880656 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:22888546 original size:40 final size:40
Alignment explanation
Indices: 22888501--22888668 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
22888491 CGGAATATAA
22888501 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
22888541 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
22888581 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
22888621 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
22888661 CCGGATAT
1 CCGGATAT
22888669 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:22893261 original size:21 final size:21
Alignment explanation
Indices: 22893228--22893269 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
22893218 AAATGGACTT
*
22893228 CAAAATAATAATTTTTATAAAA
1 CAAAATAATAATTATTA-AAAA
*
22893250 CAAAGTAA-AATTATTAAAAA
1 CAAAATAATAATTATTAAAAA
22893270 GGATTAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (21 bp):
CAAAATAATAATTATTAAAAA
Found at i:22903121 original size:17 final size:19
Alignment explanation
Indices: 22903073--22903112 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
22903063 ATTGATTCTG
22903073 ACACTCCATATCAATGACA
1 ACACTCCATATCAATGACA
22903092 ACACTCCATATCAATGACA
1 ACACTCCATATCAATGACA
22903111 AC
1 AC
22903113 TCTTTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.33, G:0.05, T:0.20
Consensus pattern (19 bp):
ACACTCCATATCAATGACA
Found at i:22908039 original size:49 final size:49
Alignment explanation
Indices: 22907967--22908166 Score: 373
Period size: 49 Copynumber: 4.1 Consensus size: 49
22907957 ACATAATAAC
22907967 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAT
1 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAT
22908016 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAT
1 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAT
* *
22908065 ATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAT
*
22908114 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAT
22908163 ATAT
1 ATAT
22908167 ATATGTGGTA
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 146 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (49 bp):
ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAT
Found at i:22908288 original size:37 final size:37
Alignment explanation
Indices: 22908237--22908327 Score: 146
Period size: 37 Copynumber: 2.4 Consensus size: 37
22908227 AACTTAGAAA
22908237 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTGAGACCCGATGACTACGTGTGGAGAT
*
22908275 TATGTCCGGGTGAGTCCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
* *
22908312 TATGGCCGGGTAAGAC
1 TATGTCCGGGTGAGAC
22908328 TTCGTAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 45 0.92
38 4 0.08
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
Found at i:22914631 original size:40 final size:39
Alignment explanation
Indices: 22914504--22914633 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
22914494 ATGCTGGAAA
* *
22914504 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
22914544 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
22914584 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
22914624 TTATATCCGG
1 TTATATCCGG
22914634 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:22916789 original size:2 final size:2
Alignment explanation
Indices: 22916777--22916806 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22916767 ACTTTAACAC
*
22916777 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22916807 CCCTTTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:22930449 original size:85 final size:85
Alignment explanation
Indices: 22930350--22930509 Score: 266
Period size: 85 Copynumber: 1.9 Consensus size: 85
22930340 TTTAATAATT
* *
22930350 CCAGTATAGATTTATAAAATACTTTGCAACTAATATATATATGATTTTAAATAGAAAAGATATCA
1 CCAGTATAGATTTATAAAATACTTTGCAACTAATATATATATGATTTTAAATAAAAAACATATCA
22930415 GGAATGAAACCTACGGGCTG
66 GGAATGAAACCTACGGGCTG
* * *
22930435 CCAGTATAGATTTATAAAATACTTTGCAACTAATATATTTTTTATTTTAAATAAAAAACATATCA
1 CCAGTATAGATTTATAAAATACTTTGCAACTAATATATATATGATTTTAAATAAAAAACATATCA
*
22930500 GGGATGAAAC
66 GGAATGAAAC
22930510 TAGCGGTCTG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (85 bp):
CCAGTATAGATTTATAAAATACTTTGCAACTAATATATATATGATTTTAAATAAAAAACATATCA
GGAATGAAACCTACGGGCTG
Found at i:22941606 original size:5 final size:5
Alignment explanation
Indices: 22941596--22941623 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22941586 TTCTTTCATC
22941596 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
22941624 CGCTTCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:22948571 original size:19 final size:21
Alignment explanation
Indices: 22948520--22948571 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
22948510 TGCTGGCCCA
*
22948520 TTTTATCTTCAAATTCACACT
1 TTTTACCTTCAAATTCACACT
* * *
22948541 TTTTGCCCTCAAATT-TC-CT
1 TTTTACCTTCAAATTCACACT
22948560 TTTTACCTTCAA
1 TTTTACCTTCAA
22948572 TTTAGTCCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 12 0.48
20 1 0.04
21 12 0.48
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTACCTTCAAATTCACACT
Found at i:22949179 original size:99 final size:99
Alignment explanation
Indices: 22949008--22949189 Score: 274
Period size: 99 Copynumber: 1.8 Consensus size: 99
22948998 TCTTTTTGCC
* * * * * *
22949008 TAAGAATATATTAAACCTTTTGTCGCGAAGAGAGATGATAGCCAAGCACCCCACCCCGGTTACTC
1 TAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCACCCCAGTTACTC
*
22949073 AGCCCAACATACTCCTAATTTATTATATTTTTCT
66 AGCCCAACACACTCCTAATTTATTATATTTTTCT
* *
22949107 TAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAACCAAGCATCCTACCCCAGTTACTC
1 TAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCACCCCAGTTACTC
*
22949172 AGCCCAACACATTCCTAA
66 AGCCCAACACACTCCTAA
22949190 AAAAAATTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.25
Consensus pattern (99 bp):
TAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCACCCCAGTTACTC
AGCCCAACACACTCCTAATTTATTATATTTTTCT
Found at i:22950343 original size:20 final size:21
Alignment explanation
Indices: 22950318--22950372 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
22950308 ATATCCAAAC
22950318 AAAATAAAGTAATAAATAA-T-
1 AAAATAAAGTAATAAA-AAGTA
22950338 AAAATAAA-TAATAAAAAGTA
1 AAAATAAAGTAATAAAAAGTA
*
22950358 AAAATAAAGAAATAA
1 AAAATAAAGTAATAA
22950373 TAAAAATTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 2 0.06
19 8 0.26
20 16 0.52
21 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAATAAAGTAATAAAAAGTA
Found at i:22951829 original size:22 final size:22
Alignment explanation
Indices: 22951804--22951849 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22951794 TCCATCTCCA
22951804 CCCTACTCTACATCACTTTCCT
1 CCCTACTCTACATCACTTTCCT
22951826 CCCTACTCTACATCACTTTCCT
1 CCCTACTCTACATCACTTTCCT
22951848 CC
1 CC
22951850 ATTAATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.48, G:0.00, T:0.35
Consensus pattern (22 bp):
CCCTACTCTACATCACTTTCCT
Found at i:22952876 original size:28 final size:28
Alignment explanation
Indices: 22952844--22952908 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
22952834 ATTTACTAGA
*
22952844 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
22952872 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
22952900 ATACCCCTA
1 ATACCCCTA
22952909 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:22953071 original size:27 final size:28
Alignment explanation
Indices: 22953024--22953102 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
22953014 CTGGTGGCTA
* *
22953024 TGCCACAAATTATCTGTTCTGGTAGCCC
1 TGCCACAAAATATCTGTTCTGGTAGCAC
** *
22953052 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTAGCAC
22953079 TGCCACAAAATATCTGTATCTGGT
1 TGCCACAAAATATCTGT-TCTGGT
22953103 GACTCTGTCA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.52
28 14 0.33
29 6 0.14
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTAGCAC
Found at i:22953114 original size:29 final size:28
Alignment explanation
Indices: 22953024--22953114 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 28
22953014 CTGGTGGCTA
* *
22953024 TGCCACAAATTATCTGTTCTGGT-AGCCC
1 TGCCACAAAATATCTGTTCTGGTGA-CAC
** *
22953052 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
22953079 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
22953108 TGTCACA
1 TGCCACA
22953115 TTTTCTATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 21 0.42
28 14 0.28
29 15 0.30
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:22954208 original size:11 final size:10
Alignment explanation
Indices: 22954180--22954213 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22954170 AGCCTGTAAG
22954180 TATTCTGAAT
1 TATTCTGAAT
*
22954190 TTTTCTGAAT
1 TATTCTGAAT
22954200 ATATTCTGAAT
1 -TATTCTGAAT
22954211 TAT
1 TAT
22954214 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:22960714 original size:28 final size:28
Alignment explanation
Indices: 22960682--22960743 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
22960672 ATTTACTAAA
*
22960682 ATACCCCTATGTATGCAAAATTACCGTT
1 ATACCCCTATGTATGCAAAATGACCGTT
*
22960710 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCGTT
22960738 ATACCC
1 ATACCC
22960744 TTAGGGTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCGTT
Found at i:22960909 original size:27 final size:28
Alignment explanation
Indices: 22960860--22960939 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 28
22960850 CTGGTAGCTA
* * *
22960860 TGCCACAAATTATCTGTTTTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
**
22960888 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
22960915 TGCCACAAAATATCTGTATCTGGTG
1 TGCCACAAAATATCTGT-TCTGGTG
22960940 ACTCTGTCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.51
28 14 0.33
29 7 0.16
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.34
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGGCAC
Found at i:22960950 original size:29 final size:28
Alignment explanation
Indices: 22960860--22960950 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
22960850 CTGGTAGCTA
* * * *
22960860 TGCCACAAATTATCTGTTTTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
22960888 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
22960915 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
22960944 TGTCACA
1 TGCCACA
22960951 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Done.