Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 148 of 199
Found at i:43677082 original size:13 final size:13
Alignment explanation
Indices: 43677064--43677090 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43677054 CATAAAAAGC
43677064 AAACTTTTACAAA
1 AAACTTTTACAAA
43677077 AAACTTTTACAAA
1 AAACTTTTACAAA
43677090 A
1 A
43677091 GTTTTTCAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
AAACTTTTACAAA
Found at i:43678472 original size:26 final size:26
Alignment explanation
Indices: 43678443--43678492 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
43678433 CACCAATATC
*
43678443 ATAGCAAAGCTGCCAGTAATAGTATT
1 ATAGCAAAGCTGCCAGTAACAGTATT
*
43678469 ATAGCGAAGCTGCCAGTAACAGTA
1 ATAGCAAAGCTGCCAGTAACAGTA
43678493 AATGCGACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (26 bp):
ATAGCAAAGCTGCCAGTAACAGTATT
Found at i:43678708 original size:27 final size:27
Alignment explanation
Indices: 43678678--43678817 Score: 167
Period size: 27 Copynumber: 5.3 Consensus size: 27
43678668 GGGTATAATA
43678678 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
43678705 GTCATTTTACCTTATGAGGGT-TTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
43678731 GTCATTTCACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
43678758 GTCATTTTACCATATAGGGGTATTT-G
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
43678784 ATCATTTTATCCTAAGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
43678811 ATCATTT
1 GTCATTT
43678818 ATTGACCTCT
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 42 0.44
27 53 0.56
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:43678743 original size:53 final size:53
Alignment explanation
Indices: 43678678--43678817 Score: 176
Period size: 53 Copynumber: 2.6 Consensus size: 53
43678668 GGGTATAATA
*
43678678 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTAT-GAGGGT-TTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCATATAG-GGGTATTT-G
* *
43678731 GTCATTTCACCCTATGGAGGTATTTCGGTCATTTTACCATATAGGGGTATTTG
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCATATAGGGGTATTTG
* * * * *
43678784 ATCATTTTATCCTAAGAGGGTATTTCGATCATTT
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTT
43678818 ATTGACCTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
53 71 0.95
54 4 0.05
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.42
Consensus pattern (53 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCATATAGGGGTATTTG
Found at i:43678818 original size:26 final size:27
Alignment explanation
Indices: 43678694--43678819 Score: 95
Period size: 26 Copynumber: 4.7 Consensus size: 27
43678684 TTACCCTATG
* *
43678694 GGGGTATTTCGGTCATTT-TACCTTAT
1 GGGGTATTTCGGTCATTTATACCATAA
* * *
43678720 GAGGGT-TTTCGGTCATTT-CACCCTAT
1 G-GGGTATTTCGGTCATTTATACCATAA
43678746 GGAGGTATTTCGGTCATTT-TACCATATA
1 GG-GGTATTTCGGTCATTTATACCATA-A
*
43678774 GGGGTATTT-GATCATTT-TATCC-TAA
1 GGGGTATTTCGGTCATTTATA-CCATAA
*
43678799 GAGGGTATTTCGATCATTTAT
1 G-GGGTATTTCGGTCATTTAT
43678820 TGACCTCTCG
Statistics
Matches: 86, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
25 3 0.03
26 42 0.49
27 38 0.44
28 3 0.03
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTATACCATAA
Found at i:43691235 original size:12 final size:12
Alignment explanation
Indices: 43691213--43691260 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 12
43691203 GGAAATTTGG
43691213 GAAAAAT-AAAT
1 GAAAAATAAAAT
43691224 GAAAAATAAAAT
1 GAAAAATAAAAT
*
43691236 -AAAATTAAAAT
1 GAAAAATAAAAT
* *
43691247 TAAAATTAAAAT
1 GAAAAATAAAAT
43691259 GA
1 GA
43691261 TCCCCACTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 17 0.52
12 16 0.48
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (12 bp):
GAAAAATAAAAT
Found at i:43691244 original size:6 final size:6
Alignment explanation
Indices: 43691220--43691258 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
43691210 TGGGAAAAAT
* *
43691220 AAATGA AAAATA AAA-TA AAATTA AAATTA AAATTA AAAT
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAAT
43691259 GATCCCCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (6 bp):
AAATTA
Found at i:43692121 original size:14 final size:15
Alignment explanation
Indices: 43692095--43692128 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
43692085 TCTTTCATAA
43692095 ATTAAAAATTTAAGT
1 ATTAAAAATTTAAGT
*
43692110 GTTAAAAA-TTAAGT
1 ATTAAAAATTTAAGT
43692124 ATTAA
1 ATTAA
43692129 TTTTTTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (15 bp):
ATTAAAAATTTAAGT
Found at i:43692483 original size:7 final size:7
Alignment explanation
Indices: 43692471--43692516 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
43692461 AACTCATTTA
43692471 AAATATT
1 AAATATT
43692478 AAATATTT
1 AAATA-TT
43692486 AAAATATT
1 -AAATATT
43692494 AAATATTT
1 AAATA-TT
43692502 AAAATATT
1 -AAATATT
43692510 AAATATT
1 AAATATT
43692517 TTAAACATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 17 0.49
8 8 0.23
9 10 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:43692487 original size:16 final size:16
Alignment explanation
Indices: 43692466--43692517 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
43692456 TATCAAACTC
43692466 ATTTAAAATATTAAAT
1 ATTTAAAATATTAAAT
43692482 ATTTAAAATATTAAAT
1 ATTTAAAATATTAAAT
43692498 ATTTAAAATATTAAAT
1 ATTTAAAATATTAAAT
43692514 ATTT
1 ATTT
43692518 TAAACATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAAAATATTAAAT
Found at i:43693629 original size:21 final size:21
Alignment explanation
Indices: 43693594--43693643 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
43693584 CATTGTTTCT
*
43693594 AATCTCACCACTACAATATCC
1 AATCTCACCACTACAATAACC
** * *
43693615 AATCTCACCTTTACAGTAACT
1 AATCTCACCACTACAATAACC
43693636 AATCTCAC
1 AATCTCAC
43693644 TGTCACCGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.34, G:0.02, T:0.28
Consensus pattern (21 bp):
AATCTCACCACTACAATAACC
Found at i:43697166 original size:9 final size:9
Alignment explanation
Indices: 43697118--43697211 Score: 64
Period size: 9 Copynumber: 10.1 Consensus size: 9
43697108 CTTTATAAAA
43697118 TTTTATAATT
1 TTTTAT-ATT
43697128 GTTTTA-ATAT
1 -TTTTATAT-T
* *
43697138 TTCTATATA
1 TTTTATATT
*
43697147 TTTTACAATT
1 TTTTA-TATT
43697157 TTTTATATT
1 TTTTATATT
* *
43697166 TTTTACAAT
1 TTTTATATT
43697175 TTTTATATT
1 TTTTATATT
* *
43697184 TCTTCTATT
1 TTTTATATT
*
43697193 TTTAATATT
1 TTTTATATT
*
43697202 TTTAATATT
1 TTTTATATT
43697211 T
1 T
43697212 GATTTTTTTT
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
9 50 0.77
10 10 0.15
11 5 0.08
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATATT
Found at i:43697183 original size:18 final size:18
Alignment explanation
Indices: 43697118--43697204 Score: 79
Period size: 18 Copynumber: 4.7 Consensus size: 18
43697108 CTTTATAAAA
43697118 TTTTATAATTGTTTTA-ATAT
1 TTTTAT-ATT-TTTTACA-AT
* *
43697138 TTCTATATATTTTACAATT
1 TTTTATATTTTTTACAA-T
43697157 TTTTATATTTTTTACAAT
1 TTTTATATTTTTTACAAT
* *
43697175 TTTTATATTTCTT-CTAT
1 TTTTATATTTTTTACAAT
43697192 TTTTAATATTTTT
1 TTTT-ATATTTTT
43697205 AATATTTGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
17 7 0.12
18 26 0.46
19 19 0.33
20 5 0.09
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTTTACAAT
Found at i:43697184 original size:27 final size:25
Alignment explanation
Indices: 43697115--43697224 Score: 69
Period size: 26 Copynumber: 4.1 Consensus size: 25
43697105 CGACTTTATA
*
43697115 AAATTTTATAATTGTTTTAATATTTCTAT
1 AAATTTT-TAATT-TTTT-ATATTT-TTT
* *
43697144 ATATTTTACAATTTTTTATATTTTTT
1 AAATTTT-TAATTTTTTATATTTTTT
* *
43697170 ACAATTTTTATATTTCTTCTA-TTTTT
1 A-AATTTTTA-ATTTTTTATATTTTTT
* * *
43697196 AATATTTTTAATATTTGATTTTTTTT
1 AA-ATTTTTAATTTTTTATATTTTTT
43697222 AAA
1 AAA
43697225 ATTTAATAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
25 7 0.11
26 24 0.37
27 19 0.29
28 4 0.06
29 11 0.17
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (25 bp):
AAATTTTTAATTTTTTATATTTTTT
Found at i:43697498 original size:90 final size:89
Alignment explanation
Indices: 43697316--43697506 Score: 213
Period size: 89 Copynumber: 2.1 Consensus size: 89
43697306 TGTTTTTTTT
* * *
43697316 AAGTTTGAGGGTCTTTTTTTATACATTTTGAAAGTTCAAGTACCCAATTGAATGCCAAAAAAAAG
1 AAGTTTGAGGGT-ATTTTTTATACATTTTGAAAGTTCAAGTACCCAAATGAATGCAAAAAAAAAG
* *
43697381 TAGGGGGTTAATTGCTTTTTCTGAAA
65 TAAGGGGTTAATTGCTTTTCCT-AAA
* * * * ** *
43697407 AGGTTTTAGGGTATTTTTTATGCATTTTGAAAGTTTAAGTATTCAAATGATTG-AAAAAAAAAGT
1 AAGTTTGAGGGTATTTTTTATACATTTTGAAAGTTCAAGTACCCAAATGAATGCAAAAAAAAAGT
** *
43697471 AATTGTTTAATTGCTTTTCCTAAAA
66 AAGGGGTTAATTGCTTTTCCT-AAA
43697496 AAGTTTGAGGG
1 AAGTTTGAGGG
43697507 CTTTTTGTAC
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
89 38 0.46
90 34 0.41
91 10 0.12
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (89 bp):
AAGTTTGAGGGTATTTTTTATACATTTTGAAAGTTCAAGTACCCAAATGAATGCAAAAAAAAAGT
AAGGGGTTAATTGCTTTTCCTAAA
Found at i:43697713 original size:21 final size:21
Alignment explanation
Indices: 43697666--43697714 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
43697656 TGATAATCTA
*
43697666 AAAAATATATTAAAAATTAAT
1 AAAAATATATTAAAAAATAAT
*
43697687 AAAAATATTTTAAAAAATAA-
1 AAAAATATATTAAAAAATAAT
43697707 AACAAATA
1 AA-AAATA
43697715 CAAACAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATATATTAAAAAATAAT
Found at i:43699565 original size:43 final size:43
Alignment explanation
Indices: 43699504--43699708 Score: 209
Period size: 43 Copynumber: 4.8 Consensus size: 43
43699494 CGTCGCTAAA
* * *
43699504 TTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACTAGGACC
1 TTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCAAGACC
* *
43699547 TTTAGCGACGCTTTTCTCACAAACACCGCTAAAGACCAAGACA
1 TTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCAAGACC
** * ** *
43699590 TTTAGCGACAATTTTCCCACAAGTGCCGCTAAAGACCAGGACC
1 TTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCAAGACC
* *
43699633 TTTAGC-AGCGCTTTT-TCCACAAACGCCACTATAG-CTCAAGACC
1 TTTAGCGA-CGCTTTTCT-CACAAACGCCGCTAAAGAC-CAAGACC
* ** *
43699676 TTTAGCAACGCTTTGATTACAAACGCCGCTAAA
1 TTTAGCGACGCTTTTCTCACAAACGCCGCTAAA
43699709 AGTACTATTA
Statistics
Matches: 132, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
42 2 0.02
43 128 0.97
44 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
TTTAGCGACGCTTTTCTCACAAACGCCGCTAAAGACCAAGACC
Found at i:43699971 original size:15 final size:15
Alignment explanation
Indices: 43699951--43699981 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43699941 AGGGATATGG
43699951 ATCATCTTCATCTTC
1 ATCATCTTCATCTTC
*
43699966 ATCATCTTCTTCTTC
1 ATCATCTTCATCTTC
43699981 A
1 A
43699982 CTTTCAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (15 bp):
ATCATCTTCATCTTC
Found at i:43704424 original size:12 final size:12
Alignment explanation
Indices: 43704407--43704435 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
43704397 GAATTTTGGG
43704407 ATAAAAAAATAT
1 ATAAAAAAATAT
43704419 ATAAAAAAATAT
1 ATAAAAAAATAT
43704431 ATAAA
1 ATAAA
43704436 CACAAAACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAAAAATAT
Found at i:43705036 original size:14 final size:13
Alignment explanation
Indices: 43705019--43705065 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
43705009 ATAAAACATA
43705019 AACCCTAAACCCCT
1 AACCCT-AACCCCT
*
43705033 AACCCCTAACCTCT
1 AA-CCCTAACCCCT
43705047 AACTCCTAACCCCT
1 AAC-CCTAACCCCT
43705061 AACCC
1 AACCC
43705066 CTCTTTTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 3 0.10
14 22 0.76
15 4 0.14
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTAACCCCT
Found at i:43705043 original size:21 final size:20
Alignment explanation
Indices: 43705019--43705065 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
43705009 ATAAAACATA
43705019 AACCCTAAACCCCTAACCCCT
1 AACCCT-AACCCCTAACCCCT
*
43705040 AACCTCTAACTCCTAACCCCT
1 AACC-CTAACCCCTAACCCCT
43705061 AACCC
1 AACCC
43705066 CTCTTTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.88
22 2 0.08
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCCTAACCCCTAACCCCT
Found at i:43705199 original size:7 final size:7
Alignment explanation
Indices: 43705186--43705224 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
43705176 CTCTTAGCCT
43705186 CTAACCC
1 CTAACCC
*
43705193 TTAACCC
1 CTAACCC
43705200 CTAACCC
1 CTAACCC
**
43705207 CTAACTA
1 CTAACCC
43705214 CTAACCC
1 CTAACCC
43705221 CTAA
1 CTAA
43705225 ACCTTATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAACCC
Found at i:43705292 original size:13 final size:13
Alignment explanation
Indices: 43705267--43705304 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
43705257 AATTAATCTA
43705267 AACCCTAAACCCT
1 AACCCTAAACCCT
43705280 AACCC-AAATCCCT
1 AACCCTAAA-CCCT
*
43705293 AACCCTTAACCC
1 AACCCTAAACCC
43705305 CTAAACCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 3 0.14
13 17 0.77
14 2 0.09
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:43705440 original size:14 final size:15
Alignment explanation
Indices: 43705407--43705449 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
43705397 CTCTTAATCT
43705407 CTAACCCCT-AACCA
1 CTAACCCCTAAACCA
*
43705421 CTAACCCCTAAATCA
1 CTAACCCCTAAACCA
*
43705436 C-AACCCTTAAACCA
1 CTAACCCCTAAACCA
43705450 AAATCCCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (15 bp):
CTAACCCCTAAACCA
Found at i:43705577 original size:14 final size:14
Alignment explanation
Indices: 43705532--43705568 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
43705522 ATCCTAAATT
43705532 AACCATATACCTTA
1 AACCATATACCTTA
*
43705546 AACCATATACCCTA
1 AACCATATACCTTA
43705560 AACCATATA
1 AACCATATA
43705569 TATTAAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCTTA
Found at i:43705958 original size:81 final size:81
Alignment explanation
Indices: 43705818--43705970 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 81
43705808 AGATAAAATA
* *
43705818 TTTTTGCGGCGCTTTTTTAAAAACGCCGCTAAAAGCCTAAGCATTAGCGGCGCTTTTTCAAAAAC
1 TTTTAGCGGCGCTTTTTGAAAAACGCCGCTAAAAGCCTAAGCATTAGCGGCGCTTTTTCAAAAAC
*
43705883 GCTGCTATGCTCGGGC
66 GCCGCTATGCTCGGGC
* *
43705899 TTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAAATA-TCTGAGCATTAGCGGCGCTTTTTCAAAA
1 TTTTAGCGGCGCTTTTTGAAAAA-CGCCGCTAAA-AGCCTAAGCATTAGCGGCGCTTTTTCAAAA
43705962 ACGCCGCTA
64 ACGCCGCTA
43705971 AAGATCTGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 10 0.15
81 54 0.83
82 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (81 bp):
TTTTAGCGGCGCTTTTTGAAAAACGCCGCTAAAAGCCTAAGCATTAGCGGCGCTTTTTCAAAAAC
GCCGCTATGCTCGGGC
Found at i:43706014 original size:41 final size:41
Alignment explanation
Indices: 43705823--43706014 Score: 203
Period size: 41 Copynumber: 4.7 Consensus size: 41
43705813 AAATATTTTT
* * *
43705823 GCGGCGCTTTTTTAAAAACGCCGCTAAA-AGCCTAAGCATTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGA-TCTGAGCATTA
* * * * * *
43705864 GCGGCGCTTTTTCAAAAACGCTGCT-ATGCTC-GGGCTTTTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGATCTGAGC-ATTA
* *
43705904 GCGGCG-TTTTTGAAAAAGCGCCGCTAAATATCTGAGCATTA
1 GCGGCGCTTTTT-AAAAAACGCCGCTAAAGATCTGAGCATTA
* *
43705945 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGATCTGAGCATTA
*
43705986 GCGACGCTTTTTAAAAAACGCCGCTAAAG
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAG
43706015 CCCCGAAAGG
Statistics
Matches: 123, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
39 7 0.06
40 21 0.17
41 87 0.71
42 8 0.07
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTTAAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:43706098 original size:40 final size:41
Alignment explanation
Indices: 43706051--43706148 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
43706041 TTTGGCTTAG
* *
43706051 ATTTTTAGCGGCGTTTTTTCAAAAAATGCCGCTAATGGTC-
1 ATTTTTAGCGGCGTTTTTTCAAAAAACGCCGCTAATGCTCA
* ** *
43706091 ATTTTTAGCGGCG-CTTTTCTGAAAGCGCCGCTAATGCTCA
1 ATTTTTAGCGGCGTTTTTTCAAAAAACGCCGCTAATGCTCA
43706131 ATTTTTAGCGGCGTTTTT
1 ATTTTTAGCGGCGTTTTT
43706149 GTCCAAACGC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 20 0.41
40 26 0.53
41 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.39
Consensus pattern (41 bp):
ATTTTTAGCGGCGTTTTTTCAAAAAACGCCGCTAATGCTCA
Found at i:43711356 original size:27 final size:27
Alignment explanation
Indices: 43711307--43711386 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
43711297 ACAGTCATAC
* *
43711307 ATAACATTA-AGCAT-ACAGTCATTTT
1 ATAACATAAGAGCATAATAGTCATTTT
43711332 ATAACATAAGAGCATAATAGTCATTTT
1 ATAACATAAGAGCATAATAGTCATTTT
* *
43711359 ATAACATAGGGGCATAATAGTCATTTT
1 ATAACATAAGAGCATAATAGTCATTTT
43711386 A
1 A
43711387 GTCATTTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.16
26 5 0.10
27 36 0.73
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (27 bp):
ATAACATAAGAGCATAATAGTCATTTT
Found at i:43711395 original size:63 final size:63
Alignment explanation
Indices: 43711323--43711449 Score: 193
Period size: 63 Copynumber: 2.0 Consensus size: 63
43711313 TTAAGCATAC
*
43711323 AGTCATTTTATAACATAAGAGCATAA-TAGTCATTTTATAACATAGGGGCATAATAGTCATTTT
1 AGTCATTTTATAACATAAGAGCATAACCA-TCATTTTATAACATAGGGGCATAATAGTCATTTT
* * * *
43711386 AGTCATTTTATAACATATGGGCATAACCATTATTTTATAACATAGGGGTATAATAGTCATTTT
1 AGTCATTTTATAACATAAGAGCATAACCATCATTTTATAACATAGGGGCATAATAGTCATTTT
43711449 A
1 A
43711450 CCACGTGAGG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 57 0.98
64 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (63 bp):
AGTCATTTTATAACATAAGAGCATAACCATCATTTTATAACATAGGGGCATAATAGTCATTTT
Found at i:43711447 original size:27 final size:28
Alignment explanation
Indices: 43711385--43711481 Score: 85
Period size: 27 Copynumber: 3.6 Consensus size: 28
43711375 ATAGTCATTT
*
43711385 TAGTCATTTTATAACATATGGGCATAAC
1 TAGTCATTTTATAACATAGGGGCATAAC
* * *
43711413 CA-TTATTTTATAACATAGGGGTATAA-
1 TAGTCATTTTATAACATAGGGGCATAAC
** *
43711439 TAGTCATTTTACCACGT-GAGGGCATAAC
1 TAGTCATTTTATAACATAG-GGGCATAAC
*
43711467 -AATCATTTTATAACA
1 TAGTCATTTTATAACA
43711482 GTTTGGGGGT
Statistics
Matches: 52, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
26 2 0.04
27 49 0.94
28 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (28 bp):
TAGTCATTTTATAACATAGGGGCATAAC
Found at i:43723038 original size:26 final size:26
Alignment explanation
Indices: 43723008--43723088 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
43722998 AACACACTAA
*
43723008 TATCGCAGCAAACCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* * * *
43723034 TATCGTAGCGAAGCTACCAGTATTAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* * *
43723060 TATTGCACCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
43723086 TAT
1 TAT
43723089 ATGTGGCAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAATAG
Found at i:43723114 original size:52 final size:52
Alignment explanation
Indices: 43723016--43723114 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 52
43723006 AATATCGCAG
* * * *
43723016 CAAACCTGCCAGTAATAGTATCGTAGCGAAGCTACCAGTATTAGTATTGCAC
1 CAAACCTGCCAGTAACAGTATCGTAGCAAAGCCACCAGTATCAGTATTGCAC
* * *
43723068 CAAAGCTGCCAGTAACAGTATATGTGGCAAAGCCACCAGTA-CAGTAT
1 CAAACCTGCCAGTAACAGTAT-CGTAGCAAAGCCACCAGTATCAGTAT
43723115 ATTTCCTCCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
52 24 0.62
53 15 0.38
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (52 bp):
CAAACCTGCCAGTAACAGTATCGTAGCAAAGCCACCAGTATCAGTATTGCAC
Found at i:43723594 original size:20 final size:20
Alignment explanation
Indices: 43723565--43723619 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
43723555 GAGCCAATTG
43723565 GCCC-ACACGGCCCATCTTA
1 GCCCAACACGGCCCATCTTA
*
43723584 GCCTAACACGGCCCATCTTA
1 GCCCAACACGGCCCATCTTA
43723604 GCCCAACACGGCCCAT
1 GCCCAACACGGCCCAT
43723620 TACGGCCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.24, C:0.45, G:0.16, T:0.15
Consensus pattern (20 bp):
GCCCAACACGGCCCATCTTA
Found at i:43724506 original size:30 final size:30
Alignment explanation
Indices: 43724472--43724534 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
43724462 TCCATTTCAT
43724472 TTTAAAAAGAAATGTTTAAAATATGTAATA
1 TTTAAAAAGAAATGTTTAAAATATGTAATA
* *** * *
43724502 TTTAATATTTAATGTTTTAAATATTTAATA
1 TTTAAAAAGAAATGTTTAAAATATGTAATA
43724532 TTT
1 TTT
43724535 TAAATGAGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.49
Consensus pattern (30 bp):
TTTAAAAAGAAATGTTTAAAATATGTAATA
Found at i:43724507 original size:7 final size:7
Alignment explanation
Indices: 43724491--43724534 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
43724481 AAATGTTTAA
*
43724491 AATATGT
1 AATATTT
43724498 AATATTT
1 AATATTT
43724505 AATATTT
1 AATATTT
*
43724512 AATGTTTT
1 AAT-ATTT
43724520 AAATATTT
1 -AATATTT
43724528 AATATTT
1 AATATTT
43724535 TAAATGAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 23 0.72
8 6 0.19
9 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (7 bp):
AATATTT
Found at i:43724524 original size:16 final size:16
Alignment explanation
Indices: 43724482--43724539 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
43724472 TTTAAAAAGA
* *
43724482 AATGTTTAAAATATGT
1 AATGTTTTAAATATTT
*
43724498 AAT-ATTT-AATATTT
1 AATGTTTTAAATATTT
43724512 AATGTTTTAAATATTT
1 AATGTTTTAAATATTT
*
43724528 AATATTTTAAAT
1 AATGTTTTAAAT
43724540 GAGTTTGATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.26
15 5 0.14
16 21 0.60
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (16 bp):
AATGTTTTAAATATTT
Found at i:43724893 original size:14 final size:15
Alignment explanation
Indices: 43724876--43724910 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
43724866 ACAGTAAAAA
43724876 TTTAATACTTA-ATT
1 TTTAATACTTATATT
*
43724890 TTTAACACTTATATT
1 TTTAATACTTATATT
43724905 TTTAAT
1 TTTAAT
43724911 TTATGAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAATACTTATATT
Found at i:43728321 original size:25 final size:25
Alignment explanation
Indices: 43728257--43728340 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
43728247 TACTAATTTC
**
43728257 AGCTCGTGAGAGCTTACCGATTCCC
1 AGCTCGTGAGAGCTTACCGATTCAT
*
43728282 AGCTC-TCGTATGAGCTTACCGATTTAT
1 AGCTCGT-G-A-GAGCTTACCGATTCAT
* *
43728309 AGCTCGTGAGAGCATACCAATTCAT
1 AGCTCGTGAGAGCTTACCGATTCAT
43728334 AGCTCGT
1 AGCTCGT
43728341 ATGAGCATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
24 1 0.02
25 26 0.53
26 2 0.04
27 19 0.39
28 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCTCGTGAGAGCTTACCGATTCAT
Found at i:43728338 original size:52 final size:49
Alignment explanation
Indices: 43728230--43728346 Score: 135
Period size: 52 Copynumber: 2.3 Consensus size: 49
43728220 GCAGACACAC
* * * *
43728230 CACAGCTCATATGAGCTTACTAATTTCAGCTCGTGAGAGCTTACCGATT
1 CACAGCTCGTATGAGCTTACCAATTTCAGCTCGTGAGAGCATACCAATT
* * *
43728279 CCCAGCTCTCGTATGAGCTTACCGATTTATAGCTCGTGAGAGCATACCAATT
1 CACAG--CTCGTATGAGCTTACCAATTT-CAGCTCGTGAGAGCATACCAATT
*
43728331 CATAGCTCGTATGAGC
1 CACAGCTCGTATGAGC
43728347 ATACATGTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
49 4 0.07
50 11 0.20
51 18 0.32
52 23 0.41
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (49 bp):
CACAGCTCGTATGAGCTTACCAATTTCAGCTCGTGAGAGCATACCAATT
Found at i:43728346 original size:25 final size:25
Alignment explanation
Indices: 43728286--43728350 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
43728276 ATTCCCAGCT
* * *
43728286 CTCGTATGAGCTTACCGATTTATAG
1 CTCGTATGAGCATACCAATTCATAG
43728311 CTCGTGA-GAGCATACCAATTCATAG
1 CTCGT-ATGAGCATACCAATTCATAG
43728336 CTCGTATGAGCATAC
1 CTCGTATGAGCATAC
43728351 ATGTATAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (25 bp):
CTCGTATGAGCATACCAATTCATAG
Found at i:43732731 original size:17 final size:17
Alignment explanation
Indices: 43732709--43732748 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
43732699 GTTGCACGCG
43732709 CAGGAGCGCAACACACA
1 CAGGAGCGCAACACACA
* *
43732726 CAGGAGCGGAACACGCA
1 CAGGAGCGCAACACACA
43732743 CAGGAG
1 CAGGAG
43732749 AAGGCCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.38, C:0.30, G:0.33, T:0.00
Consensus pattern (17 bp):
CAGGAGCGCAACACACA
Found at i:43733599 original size:44 final size:43
Alignment explanation
Indices: 43733551--43733688 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 43
43733541 GTGCTGAGGA
*
43733551 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATTTG-TATCTTTAACCAGCTCCACTGCAACCGATGG
* ** * * * * *
43733595 AGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAA-CGCA-GG
1 AGGCAA-GATTTGTATCTTTAACCAGCTCCACTG-CAACCG-ATGG
43733637 AAGGCAAGATTTGTTATCTTTAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATTTG-TATCTTTAACCAGCTCCACTGCAACCGATGG
43733682 AGGCAAG
1 AGGCAAG
43733689 GCTTTGCTTT
Statistics
Matches: 68, Mismatches: 17, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
42 20 0.29
43 11 0.16
44 18 0.26
45 19 0.28
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (43 bp):
AGGCAAGATTTGTATCTTTAACCAGCTCCACTGCAACCGATGG
Found at i:43733819 original size:86 final size:87
Alignment explanation
Indices: 43733547--43733840 Score: 448
Period size: 87 Copynumber: 3.4 Consensus size: 87
43733537 TCTAGTGCTG
43733547 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
43733612 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * *
43733634 AGGAAGGCAAGATTTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGCTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
43733699 CGATCTACTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * * **
43733721 AGGAAGGGAAGATCTGTTATCTTTAACTAGCTCCACTACAACCAAT-GAGGTGAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
43733785 CAATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* *
43733807 AAGAAGGCAAGATCTGCT-CCTTTAACCAGCTCCA
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
43733841 GCTCCTTTAA
Statistics
Matches: 188, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
85 14 0.07
86 50 0.27
87 124 0.66
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:43738565 original size:22 final size:22
Alignment explanation
Indices: 43738537--43738658 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
43738527 TTCCACATCC
43738537 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
43738559 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
43738583 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
43738606 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
43738630 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
43738653 ATCACA
1 ATCACA
43738659 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:43738572 original size:47 final size:47
Alignment explanation
Indices: 43738509--43739017 Score: 749
Period size: 47 Copynumber: 10.7 Consensus size: 47
43738499 CCCTTCGGGA
* * *
43738509 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
43738556 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43738603 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
43738650 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
43738697 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
43738744 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
43738791 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
43738838 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43738887 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43738934 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
43738983 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
43739018 ATATATACAC
Statistics
Matches: 435, Mismatches: 21, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 343 0.79
49 90 0.21
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:43739015 original size:74 final size:74
Alignment explanation
Indices: 43738937--43739083 Score: 285
Period size: 74 Copynumber: 2.0 Consensus size: 74
43738927 ATTAGGCCTT
43738937 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
43739002 TTCACATTC
66 TTCACATTC
*
43739011 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
43739076 TTCACATT
66 TTCACATT
43739084 TATTCAAATA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (74 bp):
ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTC
Found at i:43739029 original size:27 final size:27
Alignment explanation
Indices: 43738991--43739044 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
43738981 GCCTTATCAC
43738991 ATATATACACTTTCACATTCATCACAT
1 ATATATACACTTTCACATTCATCACAT
43739018 ATATATACACTTTCACATTCATCACAT
1 ATATATACACTTTCACATTCATCACAT
43739045 TGGCCATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATATACACTTTCACATTCATCACAT
Found at i:43740448 original size:85 final size:85
Alignment explanation
Indices: 43740340--43740507 Score: 327
Period size: 85 Copynumber: 2.0 Consensus size: 85
43740330 CTAACACTAA
43740340 TATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACA
1 TATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACA
*
43740405 TCTTGTTCACCCATGCTCTT
66 TCTTGTCCACCCATGCTCTT
43740425 TATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACA
1 TATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACA
43740490 TCTTGTCCACCCATGCTC
66 TCTTGTCCACCCATGCTC
43740508 ATGGCCGGCC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
TATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACA
TCTTGTCCACCCATGCTCTT
Found at i:43754974 original size:25 final size:25
Alignment explanation
Indices: 43754928--43754978 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
43754918 TGAAATTTTG
*
43754928 TTATATTTCTTTTATTACTTTAGTTT
1 TTATATTTATTTTATTACTTTA-TTT
43754954 TTAT-TTTATTTTATTTA-TTTATTT
1 TTATATTTATTTTA-TTACTTTATTT
43754978 T
1 T
43754979 CCTTCATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.17
25 12 0.52
26 7 0.30
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (25 bp):
TTATATTTATTTTATTACTTTATTT
Found at i:43757136 original size:11 final size:10
Alignment explanation
Indices: 43757118--43757180 Score: 63
Period size: 11 Copynumber: 5.8 Consensus size: 10
43757108 ACAAATCGAA
43757118 ACACCACCAT
1 ACACCACCAT
43757128 ACAACCACCAT
1 AC-ACCACCAT
*
43757139 ATCACCACCAC
1 A-CACCACCAT
43757150 ACCACCACCAT
1 A-CACCACCAT
*
43757161 AGCACCACCGT
1 A-CACCACCAT
43757172 ATCACCACC
1 A-CACCACC
43757181 CTTGTAACAC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
10 2 0.04
11 42 0.93
12 1 0.02
ACGTcount: A:0.37, C:0.51, G:0.03, T:0.10
Consensus pattern (10 bp):
ACACCACCAT
Found at i:43757180 original size:22 final size:22
Alignment explanation
Indices: 43757119--43757169 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
43757109 CAAATCGAAA
* * *
43757119 CACCACCATACAACCACCATAT
1 CACCACCACACCACCACCATAG
43757141 CACCACCACACCACCACCATAG
1 CACCACCACACCACCACCATAG
43757163 CACCACC
1 CACCACC
43757170 GTATCACCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.53, G:0.02, T:0.08
Consensus pattern (22 bp):
CACCACCACACCACCACCATAG
Found at i:43768548 original size:33 final size:33
Alignment explanation
Indices: 43768506--43768628 Score: 111
Period size: 33 Copynumber: 3.4 Consensus size: 33
43768496 CGGTAGATTT
*
43768506 AGCACTTAGCAACCACCAGTGATTCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
** *
43768539 AGCACTTAGCAACCCCTTTCACATTCAAAAATACGGTGGAATC
1 AGCACTTAGCAA---C---CAC---CAATGATTCGG-GGAATC
43768582 AGCACTTAGCAACCACCAATGATTCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
*
43768615 AACACTTAGCAACC
1 AGCACTTAGCAACC
43768629 CCTTGGGGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
33 31 0.43
34 8 0.11
36 1 0.01
37 3 0.04
39 3 0.04
40 1 0.01
42 7 0.10
43 18 0.25
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (33 bp):
AGCACTTAGCAACCACCAATGATTCGGGGAATC
Found at i:43768760 original size:51 final size:51
Alignment explanation
Indices: 43768684--43768865 Score: 233
Period size: 51 Copynumber: 3.6 Consensus size: 51
43768674 ACCGGTTCAT
*
43768684 ATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCTGGTATGC
1 ATAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTATCTGGTATGC
* * * * * * *
43768735 ATAGTAGCCTGTAGATAGTACTACACATGTGA-CCATCA-TTATCCGATATAC
1 ATAGTAGCCTGCACATAGTACTACACATGTGATCGA--AGCTATCTGGTATGC
* *
43768786 GTAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTATCTGGTACGC
1 ATAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTATCTGGTATGC
*
43768837 ATAGTAGCTTGCACATAGTACTACACATG
1 ATAGTAGCCTGCACATAGTACTACACATG
43768866 CCACCTATCA
Statistics
Matches: 108, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
50 3 0.03
51 102 0.94
52 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (51 bp):
ATAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTATCTGGTATGC
Found at i:43768861 original size:102 final size:101
Alignment explanation
Indices: 43768685--43768918 Score: 344
Period size: 102 Copynumber: 2.3 Consensus size: 101
43768675 CCGGTTCATA
* * *
43768685 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCTGGTATGCATAGTAGCCTGTAGA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACA
** *
43768750 TAGTACTACACATGTGACC-ATCATTATCCGATATACG
66 TAGTACTACACATGCCACCTATCA-T-TCCGATACACG
* *
43768787 TAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTATCTGGTACGCATAGTAGCTTGCACA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACA
* *
43768852 TAGTACTACACATGCCACCTATCATTCTGGTACACG
66 TAGTACTACACATGCCACCTATCATTCCGATACACG
*
43768888 TAGTAGCCTGCACATAGTACTACACGCGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
43768919 CCATCACTTT
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
101 37 0.31
102 78 0.66
103 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACA
TAGTACTACACATGCCACCTATCATTCCGATACACG
Found at i:43768900 original size:50 final size:50
Alignment explanation
Indices: 43768685--43768924 Score: 225
Period size: 51 Copynumber: 4.7 Consensus size: 50
43768675 CCGGTTCATA
* * * ** *
43768685 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TATCTGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-C-CATCATATCTGGTACACG
* * * * *
43768736 TAGTAGCCTGTAGATAGTACTACACATGTGACCATCATTATCCGATATACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-TATCTGGTACACG
* * * *
43768787 TAGTAGCCTGCACATAGTACTACACATGTGATCGAAGC-TATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-C-CATCATATCTGGTACACG
* **
43768838 TAGTAGCTTGCACATAGTACTACACATGCCACCTATCAT-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCATATCTGGTACACG
**
43768888 TAGTAGCCTGCACATAGTACTACACGCGTGACCATCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA
43768925 CTTTCACTTT
Statistics
Matches: 153, Mismatches: 30, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
49 6 0.04
50 41 0.27
51 103 0.67
52 1 0.01
53 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCATATCTGGTACACG
Found at i:43770600 original size:45 final size:45
Alignment explanation
Indices: 43770545--43770640 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 45
43770535 CCATAAAATT
*
43770545 TTCATAATTTTTGGTTTAGCCAATAAGTACAATTTATTCTTTAAA
1 TTCATCATTTTTGGTTTAGCCAATAAGTACAATTTATTCTTTAAA
*
43770590 TTCATCATTTTTGGTTTAGCCAATAAGTACAGTTTATTCTTTAAA
1 TTCATCATTTTTGGTTTAGCCAATAAGTACAATTTATTCTTTAAA
43770635 TTCATC
1 TTCATC
43770641 CCTATTCTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (45 bp):
TTCATCATTTTTGGTTTAGCCAATAAGTACAATTTATTCTTTAAA
Found at i:43770752 original size:15 final size:15
Alignment explanation
Indices: 43770732--43770764 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
43770722 ATTTGTTTCT
43770732 ATTGAAAATAGACTC
1 ATTGAAAATAGACTC
43770747 ATTGAAAATAGACTC
1 ATTGAAAATAGACTC
43770762 ATT
1 ATT
43770765 AAGGATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (15 bp):
ATTGAAAATAGACTC
Found at i:43775087 original size:61 final size:60
Alignment explanation
Indices: 43774991--43775219 Score: 215
Period size: 61 Copynumber: 3.8 Consensus size: 60
43774981 TTGACAGAAA
* * *
43774991 TCACCACAAAGGCTTACCTTTCAAGAGTTTTGCCACAAAGGCTATCCTTTACATCCAGTAC
1 TCACCACAAAGGCTTTCCTGTCCAGAG-TTTGCCACAAAGGCTATCCTTTACATCCAGTAC
* * * * * *
43775052 TCTCTACAATGGCTTTCCTGTCCAGAGTTTAGCCACAAAGGTTGTCCTTTACATCTAGTAC
1 TCACCACAAAGGCTTTCCTGTCCAGAGTTT-GCCACAAAGGCTATCCTTTACATCCAGTAC
* * * * ** * *
43775113 TCACCACAAAGGCTTTTCTGTCCAGAGTGTTGCCACAAATGTTGTATTTTATATCTAGTAC
1 TCACCACAAAGGCTTTCCTGTCCAGAGT-TTGCCACAAAGGCTATCCTTTACATCCAGTAC
* * * * * *
43775174 TCGCCACAAAGGCTTTCCTATCAAAAGTTTTGCCATAAAGGTTATC
1 TCACCACAAAGGCTTTCCTGTCCAGAG-TTTGCCACAAAGGCTATC
43775220 TTTCTCCTGG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
60 3 0.02
61 133 0.96
62 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (60 bp):
TCACCACAAAGGCTTTCCTGTCCAGAGTTTGCCACAAAGGCTATCCTTTACATCCAGTAC
Found at i:43775214 original size:122 final size:122
Alignment explanation
Indices: 43774991--43775216 Score: 272
Period size: 122 Copynumber: 1.9 Consensus size: 122
43774981 TTGACAGAAA
* * * *
43774991 TCACCACAAAGGCTTACCTTTCAAGAGTTTTGCCACAAAGGCTATCCTTTACATCCAGTACTCTC
1 TCACCACAAAGGCTTACCTGTCAAGAGTGTTGCCACAAAGGCTATACTTTACATCCAGTACTCGC
* * * * *
43775056 TACAATGGCTTTCCTGTCCAGAGTTTAGCCACAAAGGTTGTCCTTTACATCTAGTAC
66 CACAAAGGCTTTCCTATCAAAAGTTTAGCCACAAAGGTTGTCCTTTACATCTAGTAC
** * * * * * * *
43775113 TCACCACAAAGGCTTTTCTGTCCAGAGTGTTGCCACAAATGTTGTATTTTATATCTAGTACTCGC
1 TCACCACAAAGGCTTACCTGTCAAGAGTGTTGCCACAAAGGCTATACTTTACATCCAGTACTCGC
* *
43775178 CACAAAGGCTTTCCTATCAAAAGTTTTGCCATAAAGGTT
66 CACAAAGGCTTTCCTATCAAAAGTTTAGCCACAAAGGTT
43775217 ATCTTTCTCC
Statistics
Matches: 84, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
122 84 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (122 bp):
TCACCACAAAGGCTTACCTGTCAAGAGTGTTGCCACAAAGGCTATACTTTACATCCAGTACTCGC
CACAAAGGCTTTCCTATCAAAAGTTTAGCCACAAAGGTTGTCCTTTACATCTAGTAC
Found at i:43775473 original size:18 final size:19
Alignment explanation
Indices: 43775438--43775473 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
43775428 TGGGACATTG
*
43775438 ATTTTGGATTTTACTTTGT
1 ATTTTGGATTTGACTTTGT
43775457 ATTTTGG-TTTGACTTTG
1 ATTTTGGATTTGACTTTG
43775474 CATGATTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.14, C:0.06, G:0.19, T:0.61
Consensus pattern (19 bp):
ATTTTGGATTTGACTTTGT
Found at i:43776360 original size:20 final size:20
Alignment explanation
Indices: 43776289--43776361 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
43776279 CCAATTTGGG
* * *
43776289 GACAAGCCACCAGTATTGCA
1 GACAAGCTACCAGTAATGTA
* * * *
43776309 GATAAACTGCCAGTAATGTG
1 GACAAGCTACCAGTAATGTA
43776329 GACAAG-TCACCAGTAATGTA
1 GACAAGCT-ACCAGTAATGTA
43776349 GACAAGCTACCAG
1 GACAAGCTACCAG
43776362 ATTTGTGGAC
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (20 bp):
GACAAGCTACCAGTAATGTA
Found at i:43776404 original size:28 final size:29
Alignment explanation
Indices: 43776348--43776405 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
43776338 CCAGTAATGT
43776348 AGACAAGCTACCAGATTTGTGGACAAGCC
1 AGACAAGCTACCAGATTTGTGGACAAGCC
* * *
43776377 AGACAAGTTGCCAGA-TTGTGGAGAAGCC
1 AGACAAGCTACCAGATTTGTGGACAAGCC
43776405 A
1 A
43776406 CCAATAATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (29 bp):
AGACAAGCTACCAGATTTGTGGACAAGCC
Found at i:43776436 original size:68 final size:69
Alignment explanation
Indices: 43776316--43776445 Score: 163
Period size: 68 Copynumber: 1.9 Consensus size: 69
43776306 GCAGATAAAC
* * * * *
43776316 TGCCAGTAATGTGGACAAGTCACCAGTAATGTAGACAAGCTACCAGATTTGTGGACAAGCCAGAC
1 TGCCAGTAATGTGGACAAGCCACCAATAATGCAAACAAGCTACCAGAATTGTGGACAAGCCAGAC
43776381 AAGT
66 AAGT
* * * * *
43776385 TGCCAG-ATTGTGGAGAAGCCACCAATAATGCAAACAAGCTGCTAGAATTGTGGACTAGCCA
1 TGCCAGTAATGTGGACAAGCCACCAATAATGCAAACAAGCTACCAGAATTGTGGACAAGCCA
43776446 TTAGTAATGT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
68 45 0.88
69 6 0.12
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (69 bp):
TGCCAGTAATGTGGACAAGCCACCAATAATGCAAACAAGCTACCAGAATTGTGGACAAGCCAGAC
AAGT
Found at i:43778792 original size:22 final size:22
Alignment explanation
Indices: 43778761--43778803 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
43778751 TACACCAAAA
*
43778761 TAGGCTTTTAGCGGCATTTTTT
1 TAGGCCTTTAGCGGCATTTTTT
*
43778783 TAGGCCTTTAGCGGCGTTTTT
1 TAGGCCTTTAGCGGCATTTTT
43778804 AAGCGCCGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.16, G:0.26, T:0.47
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCATTTTTT
Found at i:43778921 original size:43 final size:43
Alignment explanation
Indices: 43778873--43779086 Score: 261
Period size: 43 Copynumber: 5.0 Consensus size: 43
43778863 AAAAATGCCA
*
43778873 CTAAAGATCATGGCCTTTAGCAGCGCTTTTATCACAAACGCCG
1 CTAAAGATCATGACCTTTAGCAGCGCTTTTATCACAAACGCCG
* * * *
43778916 CTAAAGATCATGACCTTTAGCGGCGCTTTTACCACAAGCGCCA
1 CTAAAGATCATGACCTTTAGCAGCGCTTTTATCACAAACGCCG
* * *
43778959 CTAAAGATCACGACCTTTAGCGGCTCTTTTATCACAAACGCCG
1 CTAAAGATCATGACCTTTAGCAGCGCTTTTATCACAAACGCCG
* * * * *
43779002 CTAAA-AGTCATGATCTTCAGCAACGCTTTTGTCACAAACGCTG
1 CTAAAGA-TCATGACCTTTAGCAGCGCTTTTATCACAAACGCCG
*
43779045 CTAAAGAACATGACCTTTAGC-GACGCTTTTTATCACAAACGC
1 CTAAAGATCATGACCTTTAGCAG-CGC-TTTTATCACAAACGC
43779087 TAGCGACGCT
Statistics
Matches: 144, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 128 0.89
44 15 0.10
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
CTAAAGATCATGACCTTTAGCAGCGCTTTTATCACAAACGCCG
Found at i:43783628 original size:67 final size:67
Alignment explanation
Indices: 43783519--43783648 Score: 188
Period size: 67 Copynumber: 1.9 Consensus size: 67
43783509 GAAAACGCCG
* * *
43783519 CTAAAGACCCAATCATTAGCAACGCTTTCTAAAAAACGCCGCTAAAACCATGAGTATTAGCGGAG
1 CTAAAGACCCAATCATTAGCAACGCTTTCTAAAAAACACCGCTAAAACCATAAGCATTAGCGGAG
43783584 CT
66 CT
* * * * *
43783586 CTAAAGACCCGATCATTAGCGACGCTTTTTAAAAAATACCGCTAAAACCCTAAGCATTAGCGG
1 CTAAAGACCCAATCATTAGCAACGCTTTCTAAAAAACACCGCTAAAACCATAAGCATTAGCGG
43783649 CGCCTATTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (67 bp):
CTAAAGACCCAATCATTAGCAACGCTTTCTAAAAAACACCGCTAAAACCATAAGCATTAGCGGAG
CT
Found at i:43783644 original size:41 final size:41
Alignment explanation
Indices: 43783586--43783754 Score: 187
Period size: 41 Copynumber: 4.1 Consensus size: 41
43783576 TAGCGGAGCT
* * *
43783586 CTAAAGACCC-GATCATTAGCGACGCTTTTTAAAAAATACCG
1 CTAAA-ACCCTGAGCATTAGCGGCGCTTTTTAAAAAACACCG
* * * *
43783627 CTAAAACCCTAAGCATTAGCGGCGCCTATTCAAAAACACCG
1 CTAAAACCCTGAGCATTAGCGGCGCTTTTTAAAAAACACCG
* * ** *
43783668 CTAAATCCCTGAGCATTAGCGGTGCTTTACAAAAAACGCCG
1 CTAAAACCCTGAGCATTAGCGGCGCTTTTTAAAAAACACCG
* * *
43783709 CTAAAACCCTGAGCATTAGCGGTGCTTTTTAAAAAACGCCA
1 CTAAAACCCTGAGCATTAGCGGCGCTTTTTAAAAAACACCG
43783750 CTAAA
1 CTAAA
43783755 GCCCCAAAAA
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
40 4 0.04
41 103 0.96
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (41 bp):
CTAAAACCCTGAGCATTAGCGGCGCTTTTTAAAAAACACCG
Found at i:43786863 original size:28 final size:28
Alignment explanation
Indices: 43786755--43786869 Score: 140
Period size: 30 Copynumber: 4.0 Consensus size: 28
43786745 ATACAATATG
* * * *
43786755 CAGTAACAGTCTGGGCCTGAGCCCTATT
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
*
43786783 CAGTAGTACAGTGTGGGCCTTAGCCCATTA
1 CAGTA--ACAGTGTGGGCCTTAGCCCAATA
*
43786813 TAGTAACAGTGTGTGGGCCTTAGCCCAATA
1 CAGTAACA--GTGTGGGCCTTAGCCCAATA
43786843 CAGTAACAGTGTGGGCCTTAGCCCAAT
1 CAGTAACAGTGTGGGCCTTAGCCCAAT
43786870 GCAGCAATGC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
28 27 0.36
30 48 0.64
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:43786997 original size:26 final size:26
Alignment explanation
Indices: 43786968--43787047 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
43786958 ACACACCAAT
*
43786968 ATCGCAGCAAAGTTGCCAGTAATAGC
1 ATCGCAGCAAAGCTGCCAGTAATAGC
* * *
43786994 ATCGCAGTAGAGCTGCCAGT-ATCAGT
1 ATCGCAGCAAAGCTGCCAGTAAT-AGC
* *
43787020 ATCGCAGCAAAGCTACCAGTAACAGC
1 ATCGCAGCAAAGCTGCCAGTAATAGC
43787046 AT
1 AT
43787048 ATGTTGCAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.05
26 40 0.93
27 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTAATAGC
Found at i:43787655 original size:27 final size:27
Alignment explanation
Indices: 43787281--43787666 Score: 432
Period size: 27 Copynumber: 14.3 Consensus size: 27
43787271 GGGTATAACA
43787281 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
43787308 GTCATTTTACCTTATAGAGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
43787335 GTCATTCTACCCTGTGGGGGTATTTAG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * **
43787362 GCCATTTTACCCTATGAGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
43787389 GTCATTCTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
43787416 ATCATTTTACCCTATAGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* *
43787444 GTCATTCTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
43787471 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
43787498 ATCATTTTACCCTATGGGGCTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
43787525 ATTATTTTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
43787552 ATCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *** *
43787579 GTCATTCTACCCTATAAAGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
43787606 GTCATTTTACCCTGTGGGAGTAATTT-G
1 GTCATTTTACCCTATGGGGGT-ATTTCG
* *
43787633 GTCATTTTACCCTGTGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
43787660 GCCATTT
1 GTCATTT
43787667 ATTGACCTCT
Statistics
Matches: 303, Mismatches: 53, Indels: 6
0.84 0.15 0.02
Matches are distributed among these distances:
26 3 0.01
27 273 0.90
28 27 0.09
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:43788346 original size:21 final size:21
Alignment explanation
Indices: 43788304--43788346 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
43788294 CAACAACAAC
*
43788304 CTCCCCAAATCCTAATATTCT
1 CTCCCCAAATCCTAATACTCT
*
43788325 CTCCTCAAATCTCTAAT-CTCT
1 CTCCCCAAATC-CTAATACTCT
43788346 C
1 C
43788347 CAAATATCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.26, C:0.40, G:0.00, T:0.35
Consensus pattern (21 bp):
CTCCCCAAATCCTAATACTCT
Found at i:43790048 original size:34 final size:35
Alignment explanation
Indices: 43789980--43790052 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
43789970 TAGCCTTCGG
* * * * *
43789980 TTCTTTCTTCTTTTCTTTGTGGTCGAATATTGCCT
1 TTCTTTATTCTTCTCTCTGTGGCCGAATACTGCCT
43790015 TTCTTTATTCTTCTCTCT-TGGCCGAATACTGCCT
1 TTCTTTATTCTTCTCTCTGTGGCCGAATACTGCCT
43790049 TTCT
1 TTCT
43790053 CTCCCTTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 18 0.55
35 15 0.45
ACGTcount: A:0.10, C:0.25, G:0.12, T:0.53
Consensus pattern (35 bp):
TTCTTTATTCTTCTCTCTGTGGCCGAATACTGCCT
Found at i:43790889 original size:27 final size:27
Alignment explanation
Indices: 43790690--43790887 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
43790680 GTAATGGGCA
*
43790690 TAAAATGACCGAATTACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
43790717 TAAAATGACTGAAATGCCTTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* **
43790744 TAAAATAAGGGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
43790771 TAAAATGACCGAAATACCC-CTGAAGGG
1 TAAAATGACCGAAATACCCTC-GAAGGG
* * *
43790798 TAAAATTACCAAAATACCCTCGAAGAG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
43790825 TAAACTGACCAAAATACCCTCGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
43790852 TAAAATGACTGAAATACCCTTGATGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
43790879 TAAAATGAC
1 TAAAATGAC
43790888 TGTTATACCC
Statistics
Matches: 142, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:43791284 original size:28 final size:28
Alignment explanation
Indices: 43791244--43791323 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 28
43791234 ACTGCATTGT
43791244 ACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* *
43791272 ACTGTTACTGTATTGGGCTAATGCCTAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* * * *
43791300 ACTGTTGCTATATAGGGCTCAGGC
1 ACTGTTACTGTATTGGGCTAAGGC
43791324 TTAGACTGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:43793761 original size:29 final size:29
Alignment explanation
Indices: 43793698--43793765 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
43793688 TAATCAACCA
43793698 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
43793727 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
43793756 CGCACACTTA
1 CGCACACTTA
43793766 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:43793906 original size:29 final size:29
Alignment explanation
Indices: 43793867--43793945 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
43793857 CTTAATAATC
** *
43793867 AACCGCGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATACAATTTA
* *
43793897 AACTCGCACACTTAGTGCTATACAATTTA
1 AACCCGCACACTTAGTGCCATACAATTTA
43793926 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43793946 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 39 0.93
30 3 0.07
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATACAATTTA
Found at i:43798378 original size:27 final size:27
Alignment explanation
Indices: 43798348--43798525 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
43798338 ATATTGAGCC
* *
43798348 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
43798375 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
43798402 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
43798430 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43798457 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
43798484 CGCACACTTAGTGCAACA-AAGTCGAA-T
1 CGCACACTTAGTGCTACATAA-TC-AACT
43798511 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43798526 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43798487 original size:82 final size:81
Alignment explanation
Indices: 43798369--43798524 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
43798359 TGCTATATAA
* * * *
43798369 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTC-GAATCGCA
43798434 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43798451 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACAAAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACAAAGTCGAATCGCA
43798515 CACTTAGTGC
65 CACTTAGTGC
43798525 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 19 0.29
82 46 0.71
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43804949 original size:40 final size:40
Alignment explanation
Indices: 43804877--43805061 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
43804867 GCTACTCGTT
* *
43804877 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
43804917 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
43804957 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
43804996 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
43805037 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43805062 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:43805045 original size:79 final size:81
Alignment explanation
Indices: 43804877--43805061 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
43804867 GCTACTCGTT
* * *
43804877 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCTG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTG
* *
43804941 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* *
43804958 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC-
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACCT
* *
43805019 GGATATGGTCACTTAGCA-
64 GGATATAGTAAC-TAGCAC
43805037 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
43805062 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
78 3 0.03
79 56 0.63
80 27 0.30
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGG
ATATAGTAACTAGCAC
Found at i:43806337 original size:56 final size:56
Alignment explanation
Indices: 43806197--43806371 Score: 325
Period size: 56 Copynumber: 3.1 Consensus size: 56
43806187 TATTAGTTTA
43806197 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATG-T
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
43806252 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
43806308 TTGCCCATGCTTCTTAATTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
43806364 TTGCCCAT
1 TTGCCCAT
43806372 CATCCCTTGT
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
55 54 0.46
56 63 0.54
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:43825182 original size:22 final size:24
Alignment explanation
Indices: 43825148--43825191 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
43825138 CTTGGACCAA
43825148 GATTTCCAAGA-T-TTGAAATCTT
1 GATTTCCAAGATTCTTGAAATCTT
* *
43825170 GATTTTCATGATTCTTGAAATC
1 GATTTCCAAGATTCTTGAAATC
43825192 GCTCAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 1 0.06
24 8 0.44
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (24 bp):
GATTTCCAAGATTCTTGAAATCTT
Found at i:43827479 original size:15 final size:15
Alignment explanation
Indices: 43827459--43827515 Score: 96
Period size: 15 Copynumber: 3.7 Consensus size: 15
43827449 TAGCTTCTTC
43827459 TTTTTTTTCACGAAATT
1 TTTTTTTTCACG-AA-T
43827476 TTTTTTTTCACGAAT
1 TTTTTTTTCACGAAT
43827491 TTTTTTTTCACGAAT
1 TTTTTTTTCACGAAT
43827506 TTTTTTTTCA
1 TTTTTTTTCA
43827516 GCTTGATATC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
15 26 0.65
16 2 0.05
17 12 0.30
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.63
Consensus pattern (15 bp):
TTTTTTTTCACGAAT
Found at i:43827605 original size:12 final size:13
Alignment explanation
Indices: 43827555--43827602 Score: 96
Period size: 13 Copynumber: 3.7 Consensus size: 13
43827545 GGAAACCAAT
43827555 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
43827568 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
43827581 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
43827594 TTTTTTTTT
1 TTTTTTTTT
43827603 GAAGAAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTTGAA
Found at i:43828639 original size:21 final size:23
Alignment explanation
Indices: 43828594--43828640 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
43828584 TCACCTGCAA
* *
43828594 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
43828617 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
43828638 TAA
1 TAA
43828641 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:43835645 original size:24 final size:23
Alignment explanation
Indices: 43835591--43835668 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
43835581 GGATAATTAA
**
43835591 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
43835614 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
43835638 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
43835659 GAAATAGTAT
1 GAAATGGTAT
43835669 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:43835653 original size:21 final size:21
Alignment explanation
Indices: 43835627--43835693 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
43835617 TTGGTATTTG
43835627 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
43835648 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
43835669 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
43835692 GG
1 GG
43835694 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:43836856 original size:11 final size:11
Alignment explanation
Indices: 43836842--43836882 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 11
43836832 CGAAAAGTCA
43836842 AAAAAAAATTG
1 AAAAAAAATTG
43836853 AAAAAAAAAATTG
1 --AAAAAAAATTG
43836866 AAAAAAAA--G
1 AAAAAAAATTG
43836875 AAAAAAAA
1 AAAAAAAA
43836883 ATTGCATACG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.32
11 8 0.29
13 11 0.39
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:43836857 original size:13 final size:13
Alignment explanation
Indices: 43836841--43836873 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
43836831 TCGAAAAGTC
43836841 AAAAAAAAATTGA
1 AAAAAAAAATTGA
43836854 AAAAAAAAATTGA
1 AAAAAAAAATTGA
43836867 AAAAAAA
1 AAAAAAA
43836874 GAAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATTGA
Found at i:43837971 original size:18 final size:18
Alignment explanation
Indices: 43837933--43837974 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43837923 AAATCGAAAG
* **
43837933 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
43837951 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
43837969 AAAAGA
1 AAAAGA
43837975 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:43853283 original size:84 final size:84
Alignment explanation
Indices: 43853184--43853355 Score: 344
Period size: 84 Copynumber: 2.0 Consensus size: 84
43853174 TTTAATCATA
43853184 AAGTCTAAAAATTAAAACTAAGTATTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTGACAA
1 AAGTCTAAAAATTAAAACTAAGTATTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTGACAA
43853249 TTTGGCCTGATTTTCAACT
66 TTTGGCCTGATTTTCAACT
43853268 AAGTCTAAAAATTAAAACTAAGTATTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTGACAA
1 AAGTCTAAAAATTAAAACTAAGTATTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTGACAA
43853333 TTTGGCCTGATTTTCAACT
66 TTTGGCCTGATTTTCAACT
43853352 AAGT
1 AAGT
43853356 GTCGTATCTT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (84 bp):
AAGTCTAAAAATTAAAACTAAGTATTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTGACAA
TTTGGCCTGATTTTCAACT
Found at i:43868160 original size:19 final size:20
Alignment explanation
Indices: 43868123--43868169 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
43868113 TGTGCTCAAG
*
43868123 TGAGCTGATTGGAGCTGAAA-
1 TGAGCT-ATGGGAGCTGAAAT
*
43868143 TGAGCTATGGGAGTTGAAAT
1 TGAGCTATGGGAGCTGAAAT
43868163 TGAGCTA
1 TGAGCTA
43868170 AAGTCAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.30, C:0.09, G:0.34, T:0.28
Consensus pattern (20 bp):
TGAGCTATGGGAGCTGAAAT
Found at i:43876081 original size:20 final size:20
Alignment explanation
Indices: 43876048--43876098 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
43876038 GTCCTAACCG
43876048 AATTAATTAG-GTCTTAATTT
1 AATTAATT-GTGTCTTAATTT
**
43876068 AATTAATTGTGTCTTGTTTT
1 AATTAATTGTGTCTTAATTT
43876088 AATTTAATTGT
1 AA-TTAATTGT
43876099 CCAGATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 18 0.67
21 8 0.30
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (20 bp):
AATTAATTGTGTCTTAATTT
Found at i:43883599 original size:15 final size:16
Alignment explanation
Indices: 43883579--43883608 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43883569 AAAATAAATA
43883579 CAATTTTTTT-AATTT
1 CAATTTTTTTCAATTT
43883594 CAATTTTTTTCAATT
1 CAATTTTTTTCAATT
43883609 CACGAACCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (16 bp):
CAATTTTTTTCAATTT
Found at i:43884304 original size:503 final size:500
Alignment explanation
Indices: 43883350--43884334 Score: 1594
Period size: 503 Copynumber: 1.9 Consensus size: 500
43883340 AGGGATGAAT
* * *
43883350 GTTTTAGGTGTAAGTTTGGTTGAAATAAAAGAAAAATGGTTATGTGTGTGGTGTTTGGGGTAGAA
1 GTTTTAGGTGTAAGTTTGGCTGAAATAAAAGAAAAATGGTTAAGTGTGTGGCGTTTGGGGTAGAA
* *
43883415 GAATTGGGAATGGAAAAGGATACGATGATCGGGAATAAACAAGAAGAAATGAGATTGGAAACTTG
66 GAATTGGGAATGGAAAAGGATACGATGATCGGGAATAAACAAAAAGAAATGAGATTGAAAACTTG
*
43883480 CAAGCTTCACTATATCTTTTTTTTATACTCGTATATATATTTTTTTCTTTTTTTTCAATATTTCA
131 CAAACTTCACTATATCTTTTTTTTATACTCGTATATATA----------TTTTTTCAATATTTCA
*
43883545 GTACAATATGTTGATTTACAAAGGAAAATAAATACAATTTTTTTAATTTCAATTTTTTTCAATTC
186 GTACAATATGCTGATTTACAAAGGAAAATAAATACAATTTTTTTAATTTCAATTTTTTTCAATTC
* * * *
43883610 ACGAACCTGTTCGGGCTTCTTCGATCTTCGGCGCTCCTCATTTTCTAGCTTTAATACTAAATGAT
251 ACGAACCTATTCGGGCTTCTTCGATCTTCGGCACTCCTCATTTTCTAGCTCTAATACCAAATGAT
43883675 GCGAACCGGCCCGGGTTAACCGAGTCGTTTCACAAAGTTTGCCCGATCGTAGACGAGGAGAAGTT
316 GCGAACCGGCCCGGGTTAACCGAGTCGTTTCACAAAGTTTGCCCGATCGTAGACGAGGAGAAGTT
* *
43883740 CTAGTAGTAAAAAATGTGTAAATTTGTTTTAGGTTTGCAGAAGCTTACAAAGTGATTTTTGAAAT
381 CTAGTAGTAAAAAAGGTGTAAATTTGTTTAAGGTTTGCAGAAGCTTACAAAGTGATTTTTGAAAT
43883805 GGATGGAAGGTTTAGAAAGATGTAGGTCGTGGATGCTTGGTAGTGGTCAAGCCAA
446 GGATGGAAGGTTTAGAAAGATGTAGGTCGTGGATGCTTGGTAGTGGTCAAGCCAA
*
43883860 GTTTTAGGTGTAGGTTTGGCTGAAATAAAAGAAAAATGGTTAAGTGTGTGGCGTTTGGGGTAGAA
1 GTTTTAGGTGTAAGTTTGGCTGAAATAAAAGAAAAATGGTTAAGTGTGTGGCGTTTGGGGTAGAA
43883925 GAATTGGGAATGGAAAAGGATACGATGATCGGGAATAAACAAAAAGAAATGAGATTGAAAACTTG
66 GAATTGGGAATGGAAAAGGATACGATGATCGGGAATAAACAAAAAGAAATGAGATTGAAAACTTG
43883990 CAAACTTCACTATATCTTTTTTTTATACTCGTATATATA-TTTTTCAATATTTCAGTACAATATG
131 CAAACTTCACTATATCTTTTTTTTATACTCGTATATATATTTTTTCAATATTTCAGTACAATATG
*
43884054 CTGATTTACAAAGGAAAATAAATACAACTTTTTTTAATTTTAATTTTTTTTTTCAATTCACGAAC
196 CTGATTTACAAAGGAAAATAAATACAA-TTTTTTTAATTTCAA---TTTTTTTCAATTCACGAAC
* * ** * *
43884119 CTATTCTGGCTTCTTCGATCTTTGGCACTCCTTGTTTTCTAGCTCTGATACCAAATGATGCTAAC
257 CTATTCGGGCTTCTTCGATCTTCGGCACTCCTCATTTTCTAGCTCTAATACCAAATGATGCGAAC
* ** *
43884184 TGGCCCGGGTTAATGGAGTCGTTTCACAAAGTTTGCCCGATCGTTGACGAGGAGAAGTTCTAGTA
322 CGGCCCGGGTTAACCGAGTCGTTTCACAAAGTTTGCCCGATCGTAGACGAGGAGAAGTTCTAGTA
* *
43884249 GTCAAAAAGGTGTAAATTTGTTTAAGGTTTGCGGAAGCTTACAAAGTGATTTTTGAAATGGATGG
387 GTAAAAAAGGTGTAAATTTGTTTAAGGTTTGCAGAAGCTTACAAAGTGATTTTTGAAATGGATGG
43884314 AAGGTTTAGAAAGATGTAGGT
452 AAGGTTTAGAAAGATGTAGGT
43884335 TCAGTTTAAT
Statistics
Matches: 444, Mismatches: 27, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
499 51 0.11
500 14 0.03
503 217 0.49
510 162 0.36
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (500 bp):
GTTTTAGGTGTAAGTTTGGCTGAAATAAAAGAAAAATGGTTAAGTGTGTGGCGTTTGGGGTAGAA
GAATTGGGAATGGAAAAGGATACGATGATCGGGAATAAACAAAAAGAAATGAGATTGAAAACTTG
CAAACTTCACTATATCTTTTTTTTATACTCGTATATATATTTTTTCAATATTTCAGTACAATATG
CTGATTTACAAAGGAAAATAAATACAATTTTTTTAATTTCAATTTTTTTCAATTCACGAACCTAT
TCGGGCTTCTTCGATCTTCGGCACTCCTCATTTTCTAGCTCTAATACCAAATGATGCGAACCGGC
CCGGGTTAACCGAGTCGTTTCACAAAGTTTGCCCGATCGTAGACGAGGAGAAGTTCTAGTAGTAA
AAAAGGTGTAAATTTGTTTAAGGTTTGCAGAAGCTTACAAAGTGATTTTTGAAATGGATGGAAGG
TTTAGAAAGATGTAGGTCGTGGATGCTTGGTAGTGGTCAAGCCAA
Found at i:43885511 original size:20 final size:20
Alignment explanation
Indices: 43885488--43885526 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43885478 AGAGCTAATA
43885488 ACGAGCTAAATTGAGCTCGT
1 ACGAGCTAAATTGAGCTCGT
* *
43885508 ACGAGCTGACTTGAGCTCG
1 ACGAGCTAAATTGAGCTCG
43885527 AGTGAGCTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (20 bp):
ACGAGCTAAATTGAGCTCGT
Found at i:43886815 original size:11 final size:11
Alignment explanation
Indices: 43886799--43886831 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
43886789 TTCAGCTTGT
43886799 TAGGAAACTTC
1 TAGGAAACTTC
43886810 TAGGAAA-TTGC
1 TAGGAAACTT-C
43886821 TAGGAAACTTC
1 TAGGAAACTTC
43886832 ATAGAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (11 bp):
TAGGAAACTTC
Found at i:43889371 original size:40 final size:39
Alignment explanation
Indices: 43889335--43889510 Score: 174
Period size: 40 Copynumber: 4.4 Consensus size: 39
43889325 ATATCCGGAC
* *
43889335 TAAGATCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
* *
43889375 TAAGTCCTGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCC-GAAGGCATTCGTGCGAGATACTAAATCCGGGT
* ** *
43889415 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATTCGGGT
1 TAAGT-CCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
* * * * *
43889455 TACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
*
43889494 TATGTCCCGAAGGCATT
1 TAAGT-CCGAAGGCATT
43889511 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.29
40 83 0.69
41 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
Found at i:43889425 original size:80 final size:79
Alignment explanation
Indices: 43889288--43889512 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 79
43889278 TTGAATGCTG
* * * ** * * * * *
43889288 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
43889352 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * * * *
43889368 TCCGGGTTAAGTCCTGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* **
43889433 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
43889448 TTCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
43889513 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
79 36 0.30
80 79 0.66
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:43897273 original size:40 final size:40
Alignment explanation
Indices: 43897243--43897412 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
43897233 GGACTAAGAT
* *
43897243 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
43897283 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
43897323 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
43897363 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
43897402 CCGAAGGCATT
1 CCGAAGGCATT
43897413 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 33 0.28
40 85 0.72
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:43897327 original size:80 final size:79
Alignment explanation
Indices: 43897190--43897414 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 79
43897180 TTGAATGCTG
* * * ** * * * * *
43897190 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
43897254 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * * *
43897270 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* **
43897335 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * *
43897350 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
43897415 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 36 0.30
80 82 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:43897432 original size:79 final size:80
Alignment explanation
Indices: 43897265--43897447 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
43897255 GTGCGAGATA
* * *
43897265 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
43897330 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
43897345 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
43897409 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
43897424 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
43897448 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:43907773 original size:44 final size:40
Alignment explanation
Indices: 43907681--43907758 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
43907671 TTAATTTAAA
*
43907681 TAAACTCATCTTAGTTAATAAATGAGTTGCTGGACTTTAT
1 TAAACTCATCTTAGTTAATAAATGAGTTACTGGACTTTAT
* * *
43907721 TAAACTCATCTTAGTTAGTAATTGAGTTATTGGACTTT
1 TAAACTCATCTTAGTTAATAAATGAGTTACTGGACTTT
43907759 CTTTATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (40 bp):
TAAACTCATCTTAGTTAATAAATGAGTTACTGGACTTTAT
Found at i:43934097 original size:29 final size:29
Alignment explanation
Indices: 43934034--43934101 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
43934024 TAATCAACCA
43934034 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
43934063 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
43934092 CGCACACTTA
1 CGCACACTTA
43934102 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:43934213 original size:173 final size:173
Alignment explanation
Indices: 43933924--43934249 Score: 564
Period size: 173 Copynumber: 1.9 Consensus size: 173
43933914 AACTCAAGGT
* *
43933924 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
43933989 GAAAATATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
43934054 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
43934097 ACTTACCTTTTCCGCTGTCC-AAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
43934161 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTT-GCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
43934226 ACTTTAAACTCGCACACTTAGTGC
130 ACTTTAAACTCACACACTTAGTGC
43934250 TGTACAATTT
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
172 60 0.42
173 84 0.58
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:43934241 original size:29 final size:30
Alignment explanation
Indices: 43934202--43934280 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
43934192 CTTAATAATC
43934202 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
43934232 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
43934261 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43934281 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:43942234 original size:29 final size:29
Alignment explanation
Indices: 43942171--43942238 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
43942161 TAATCAACCA
43942171 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
43942200 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
43942229 CGCACACTTA
1 CGCACACTTA
43942239 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:43942379 original size:29 final size:29
Alignment explanation
Indices: 43942340--43942418 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
43942330 CTTAATAATC
** *
43942340 AACCGCGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATACAATTTA
* *
43942370 AACTCGCACACTTAGTGCTATACAATTTA
1 AACCCGCACACTTAGTGCCATACAATTTA
43942399 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43942419 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 39 0.93
30 3 0.07
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATACAATTTA
Found at i:43949425 original size:34 final size:35
Alignment explanation
Indices: 43949354--43949436 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 35
43949344 TAGCCTTTGG
* * *
43949354 TTCTTTCCTCTTTTCTTTGTGGCCGAACATTGCCT
1 TTCTTTCCTCTTCTCTCTGTGGCCGAACACTGCCT
* * *
43949389 TTCTTTCTTCTTCTCTCT-TGGCCGAATACTGTCT
1 TTCTTTCCTCTTCTCTCTGTGGCCGAACACTGCCT
*
43949423 TTCTCTCCCTCTTC
1 TTCT-TTCCTCTTC
43949437 ATCTATTCCA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 17 0.44
35 22 0.56
ACGTcount: A:0.07, C:0.33, G:0.11, T:0.49
Consensus pattern (35 bp):
TTCTTTCCTCTTCTCTCTGTGGCCGAACACTGCCT
Found at i:43950101 original size:27 final size:27
Alignment explanation
Indices: 43950060--43950312 Score: 291
Period size: 27 Copynumber: 9.4 Consensus size: 27
43950050 GTAATGGGCC
* *
43950060 TAAAATGACCAAAATACCCTTGAAGGG
1 TAAAATGACTAAAATACCCTCGAAGGG
*
43950087 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACTAAAATACCCTCGAAGGG
*
43950114 TAAAATGACTAAAATACCCCCGAAGGG
1 TAAAATGACTAAAATACCCTCGAAGGG
*
43950141 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACTAAAATACCCTCGAAGGG
*
43950168 TAAAATGACTAAAATGCCC-CAGAAAGGG
1 TAAAATGACTAAAATACCCTC-G-AAGGG
* * * *
43950196 TAAAATGA-TCGAAATACCCCCAAAGGA
1 TAAAATGACT-AAAATACCCTCGAAGGG
*
43950223 TAAAATTACTAAAATACCCTCGAAGGG
1 TAAAATGACTAAAATACCCTCGAAGGG
**
43950250 -AAAACTGA-TCGAATACCCTCGAAGGG
1 TAAAA-TGACTAAAATACCCTCGAAGGG
* *
43950276 TAAAATGA-TCAAAATACCCCCGAAGAG
1 TAAAATGACT-AAAATACCCTCGAAGGG
43950303 TAAAATGACT
1 TAAAATGACT
43950313 GTTATACCCC
Statistics
Matches: 192, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
26 25 0.13
27 144 0.75
28 22 0.11
29 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (27 bp):
TAAAATGACTAAAATACCCTCGAAGGG
Found at i:43962608 original size:670 final size:670
Alignment explanation
Indices: 43961322--43963342 Score: 4015
Period size: 670 Copynumber: 3.0 Consensus size: 670
43961312 AACAAAAAGG
43961322 ATATGTCCCAATATATCACTTGGGGTGATGGATTCTCTCTAGACCAGTCCATCATTTTCGTATGT
1 ATATG-CCCAATATATCACTTGGGGTGATGGATTCTCTCTAGACCAGTCCATCATTTTCGTATGT
43961387 CTTTATGTCATACCCAAAACATCTTACCTTAAGCATCTATTTACGTAGGCTCATTATGTGATGAA
65 CTTTATGTCATACCCAAAACATCTTACCTTAAGCATCTATTTACGTAGGCTCATTATGTGATGAA
43961452 TCAAAGTATGACACTCAGCATACAAGATCAGTTTGTGTAACAAGTTTATGGATTATTTGCACTAC
130 TCAAAGTATGACACTCAGCATACAAGATCAGTTTGTGTAACAAGTTTATGGATTATTTGCACTAC
43961517 TAACTCATAAGAGTATTTTCATAGGCACTTGAGTGAAATAGCAAATGGAATTCTCATAAAGGGTC
195 TAACTCATAAGAGTATTTTCATAGGCACTTGAGTGAAATAGCAAATGGAATTCTCATAAAGGGTC
43961582 ATGTTCAGTGTATTTGTTCTTGTAACAAGCACCACATATTATCCTCAAGTATCTCATACTTCAAA
260 ATGTTCAGTGTATTTGTTCTTGTAACAAGCACCACATATTATCCTCAAGTATCTCATACTTCAAA
43961647 TTACGATATTAGTCATGTGCTAACTATTGAGAATTATTCATGTCTTGTCTTAATAATATGATGGC
325 TTACGATATTAGTCATGTGCTAACTATTGAGAATTATTCATGTCTTGTCTTAATAATATGATGGC
43961712 CAAGAACAGTTTAGAAATCACAACTTTGATGGATAAAGATCTCATAATTGTAACTCATTATAATT
390 CAAGAACAGTTTAGAAATCACAACTTTGATGGATAAAGATCTCATAATTGTAACTCATTATAATT
43961777 CTATTTCAATGCCTAATGTGTTGCATGGGCTTTATCTACATATGTGTGAAATATAAACTATTTTA
455 CTATTTCAATGCCTAATGTGTTGCATGGGCTTTATCTACATATGTGTGAAATATAAACTATTTTA
43961842 CATATGGACAAAGAAATATCTAAATATATTATTTTAAAAAATTATAATAAAGTCAACACAATTAA
520 CATATGGACAAAGAAATATCTAAATATATTATTTTAAAAAATTATAATAAAGTCAACACAATTAA
43961907 ATCCTTCTTAGTGCTCACAAGCAAATCATTATTTGCTTCTAGGGCTTACTCTAATAATCTCTTAC
585 ATCCTTCTTAGTGCTCACAAGCAAATCATTATTTGCTTCTAGGGCTTACTCTAATAATCTCTTAC
43961972 TAGCACTAAAGCCAATTGCTT
650 TAGCACTAAAGCCAATTGCTT
43961993 ATATGCCCAATATATCACTTGGGGTGATGGATTCTCTCTAGACCAGTCCATCATTTTCGTATGTC
1 ATATGCCCAATATATCACTTGGGGTGATGGATTCTCTCTAGACCAGTCCATCATTTTCGTATGTC
43962058 TTTATGTCATACCCAAAACATCTTACCTTAAGCATCTATTTACGTAGGCTCATTATGTGATGAAT
66 TTTATGTCATACCCAAAACATCTTACCTTAAGCATCTATTTACGTAGGCTCATTATGTGATGAAT
43962123 CAAAGTATGACACTCAGCATACAAGATCAGTTTGTGTAACAAGTTTATGGATTATTTGCACTACT
131 CAAAGTATGACACTCAGCATACAAGATCAGTTTGTGTAACAAGTTTATGGATTATTTGCACTACT
43962188 AACTCATAAGAGTATTTTCATAGGCACTTGAGTGAAATAGCAAATGGAATTCTCATAAAGGGTCA
196 AACTCATAAGAGTATTTTCATAGGCACTTGAGTGAAATAGCAAATGGAATTCTCATAAAGGGTCA
43962253 TGTTCAGTGTATTTGTTCTTGTAACAAGCACCACATATTATCCTCAAGTATCTCATACTTCAAAT
261 TGTTCAGTGTATTTGTTCTTGTAACAAGCACCACATATTATCCTCAAGTATCTCATACTTCAAAT
43962318 TACGATATTAGTCATGTGCTAACTATTGAGAATTATTCATGTCTTGTCTTAATAATATGATGGCC
326 TACGATATTAGTCATGTGCTAACTATTGAGAATTATTCATGTCTTGTCTTAATAATATGATGGCC
43962383 AAGAACAGTTTAGAAATCACAACTTTGATGGATAAAGATCTCATAATTGTAACTCATTATAATTC
391 AAGAACAGTTTAGAAATCACAACTTTGATGGATAAAGATCTCATAATTGTAACTCATTATAATTC
43962448 TATTTCAATGCCTAATGTGTTGCATGGGCTTTATCTACATATGTGTGAAATATAAACTATTTTAC
456 TATTTCAATGCCTAATGTGTTGCATGGGCTTTATCTACATATGTGTGAAATATAAACTATTTTAC
43962513 ATATGGACAAAGAAATATCTAAATATATTATTTTAAAAAATTATAATAAAGTCAACACAATTAAA
521 ATATGGACAAAGAAATATCTAAATATATTATTTTAAAAAATTATAATAAAGTCAACACAATTAAA
43962578 TCCTTCTTAGTGCTCACAAGCAAATCATTATTTGCTTCTAGGGCTTACTCTAATAATCTCTTACT
586 TCCTTCTTAGTGCTCACAAGCAAATCATTATTTGCTTCTAGGGCTTACTCTAATAATCTCTTACT
43962643 AGCACTAAAGCCAATTGCTT
651 AGCACTAAAGCCAATTGCTT
43962663 ATATGCCCAATATATCACTTGGGGTGATGGATTCTCTCTAGACCAGTCCATCATTTTCGTATGTC
1 ATATGCCCAATATATCACTTGGGGTGATGGATTCTCTCTAGACCAGTCCATCATTTTCGTATGTC
43962728 TTTATGTCATACCCAAAACATCTTACCTTAAGCATCTATTTACGTAGGCTCATTATGTGATGAAT
66 TTTATGTCATACCCAAAACATCTTACCTTAAGCATCTATTTACGTAGGCTCATTATGTGATGAAT
43962793 CAAAGTATGACACTCAGCATACAAGATCAGTTTGTGTAACAAGTTTATGGATTATTTGCACTACT
131 CAAAGTATGACACTCAGCATACAAGATCAGTTTGTGTAACAAGTTTATGGATTATTTGCACTACT
43962858 AACTCATAAGAGTATTTTCATAGGCACTTGAGTGAAATAGCAAATGGAATTCTCATAAAGGGTCA
196 AACTCATAAGAGTATTTTCATAGGCACTTGAGTGAAATAGCAAATGGAATTCTCATAAAGGGTCA
43962923 TGTTCAGTGTATTTGTTCTTGTAACAAGCACCACATATTATCCTCAAGTATCTCATACTTCAAAT
261 TGTTCAGTGTATTTGTTCTTGTAACAAGCACCACATATTATCCTCAAGTATCTCATACTTCAAAT
43962988 TACGATATTAGTCATGTGCTAACTATTGAGAATTATTCATGTCTTGTCTTAATAATATGATGGCC
326 TACGATATTAGTCATGTGCTAACTATTGAGAATTATTCATGTCTTGTCTTAATAATATGATGGCC
43963053 AAGAACAGTTTAGAAATCACAACTTTGATGGATAAAGATCTCATAATTGTAACTCATTATAATTC
391 AAGAACAGTTTAGAAATCACAACTTTGATGGATAAAGATCTCATAATTGTAACTCATTATAATTC
* *
43963118 TATTTCAATGCCTAATGTGTTGCATGGGCTTTATCTACATATGTGTTAAATATAAACTATTTTGC
456 TATTTCAATGCCTAATGTGTTGCATGGGCTTTATCTACATATGTGTGAAATATAAACTATTTTAC
43963183 ATATGGACAAAGAAATATCTAAATATATTATTTTAAAAAATTATAATAAAGTCAACACAATTAAA
521 ATATGGACAAAGAAATATCTAAATATATTATTTTAAAAAATTATAATAAAGTCAACACAATTAAA
43963248 TCCTTCTTAGTGCTCACAAGCAAATCATTATTTGCTTCTAGGGCTTACTCTAATAATCTCTTACT
586 TCCTTCTTAGTGCTCACAAGCAAATCATTATTTGCTTCTAGGGCTTACTCTAATAATCTCTTACT
43963313 AGCACTAAAGCCAATTGCTT
651 AGCACTAAAGCCAATTGCTT
43963333 ATATGCCCAA
1 ATATGCCCAA
43963343 GACCTAAATC
Statistics
Matches: 1348, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
670 1343 1.00
671 5 0.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (670 bp):
ATATGCCCAATATATCACTTGGGGTGATGGATTCTCTCTAGACCAGTCCATCATTTTCGTATGTC
TTTATGTCATACCCAAAACATCTTACCTTAAGCATCTATTTACGTAGGCTCATTATGTGATGAAT
CAAAGTATGACACTCAGCATACAAGATCAGTTTGTGTAACAAGTTTATGGATTATTTGCACTACT
AACTCATAAGAGTATTTTCATAGGCACTTGAGTGAAATAGCAAATGGAATTCTCATAAAGGGTCA
TGTTCAGTGTATTTGTTCTTGTAACAAGCACCACATATTATCCTCAAGTATCTCATACTTCAAAT
TACGATATTAGTCATGTGCTAACTATTGAGAATTATTCATGTCTTGTCTTAATAATATGATGGCC
AAGAACAGTTTAGAAATCACAACTTTGATGGATAAAGATCTCATAATTGTAACTCATTATAATTC
TATTTCAATGCCTAATGTGTTGCATGGGCTTTATCTACATATGTGTGAAATATAAACTATTTTAC
ATATGGACAAAGAAATATCTAAATATATTATTTTAAAAAATTATAATAAAGTCAACACAATTAAA
TCCTTCTTAGTGCTCACAAGCAAATCATTATTTGCTTCTAGGGCTTACTCTAATAATCTCTTACT
AGCACTAAAGCCAATTGCTT
Found at i:43965190 original size:9 final size:9
Alignment explanation
Indices: 43965176--43965201 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
43965166 CCGTACACCT
43965176 GCAACAAAC
1 GCAACAAAC
43965185 GCAACAAAC
1 GCAACAAAC
43965194 GCAACAAA
1 GCAACAAA
43965202 GGCAGCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.31, G:0.12, T:0.00
Consensus pattern (9 bp):
GCAACAAAC
Found at i:43965464 original size:9 final size:9
Alignment explanation
Indices: 43965450--43965474 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43965440 TCGTTTTTCC
43965450 TTTCTTTTT
1 TTTCTTTTT
43965459 TTTCTTTTT
1 TTTCTTTTT
43965468 TTTCTTT
1 TTTCTTT
43965475 CAATATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:43978829 original size:44 final size:44
Alignment explanation
Indices: 43978758--43978878 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
43978748 AAGATGGCGA
* * *
43978758 ATCTCATCTCTCT-AAGGTTGCAGTGGAGTAGATTGAAGCTGATA-
1 ATCTCATCTCCCTGAA-GTTGCAGTGGAGTAGATTAAAG-TAATAG
* *
43978802 ATC-CTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAG
1 ATCTC-ATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTAATAG
* *
43978846 ATCTCATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 ATCTCATCTCCCTGAAGTTGCAGTGGAGTAGAT
43978879 CACATCAGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
43 5 0.08
44 56 0.88
45 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (44 bp):
ATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTAATAG
Found at i:43979868 original size:515 final size:515
Alignment explanation
Indices: 43978897--43979925 Score: 2031
Period size: 515 Copynumber: 2.0 Consensus size: 515
43978887 AATTATCTTT
*
43978897 AAAGTGCAACAAAACAAGTTGAAGCTACAAGTCTTATCTCCCTGGAGTTGCAGTGGAGCAGACCA
1 AAAGTGCAACAAAACAAGTTAAAGCTACAAGTCTTATCTCCCTGGAGTTGCAGTGGAGCAGACCA
43978962 AGTATAGCAAATTTTGTTCTTTGAAAAACTACAAGTTACAAATCCTATCTCCCCGACGTTGCGGT
66 AGTATAGCAAATTTTGTTCTTTGAAAAACTACAAGTTACAAATCCTATCTCCCCGACGTTGCGGT
43979027 GGAGTGGATCGAAGCACTAATTCCAATACCTCTGAAGAAACAGTAAGGTGGAATGAGGCTACTTG
131 GGAGTGGATCGAAGCACTAATTCCAATACCTCTGAAGAAACAGTAAGGTGGAATGAGGCTACTTG
*
43979092 AAGAATAGGAGCACCAAAGTCCAAACACGATGGGCAAAATTGGTCCTCTTTAGTCTTTTCCCTAT
196 AAGAATAGGAGCACCAAAGTCCAAACACGATGGGCAAAATTGGTCCTCTTTAGTCTTTGCCCTAT
43979157 TCTCGTTACATGACAATGAGCAAAGAGGGGCAGCTGTAATAACCCAATTTGCCCGGCCCGTTTCA
261 TCTCGTTACATGACAATGAGCAAAGAGGGGCAGCTGTAATAACCCAATTTGCCCGGCCCGTTTCA
43979222 TTAAACCAATTTAAATAAAATAATAGTCCAAAACCATAGTGTCCAGATTACAAACCAGGCTAAAT
326 TTAAACCAATTTAAATAAAATAATAGTCCAAAACCATAGTGTCCAGATTACAAACCAGGCTAAAT
*
43979287 TAAGCCTAAAACCGTTTACAAAATCCAAATCTAAACCCATTAAGCCTAGCCCAGCAAACCAACTT
391 TAAGCCTAAAACCGTTTACAAAATCCAAACCTAAACCCATTAAGCCTAGCCCAGCAAACCAACTT
43979352 AACCCAAATCCTAACTCGATTACAGAAACCCTAGCAGCCTGCAGCAAGCCTCCAGCGTCA
456 AACCCAAATCCTAACTCGATTACAGAAACCCTAGCAGCCTGCAGCAAGCCTCCAGCGTCA
43979412 AAAGTGCAACAAAACAAGTTAAAGCTACAAGTCTTATCTCCCTGGAGTTGCAGTGGAGCAGACCA
1 AAAGTGCAACAAAACAAGTTAAAGCTACAAGTCTTATCTCCCTGGAGTTGCAGTGGAGCAGACCA
43979477 AGTATAGCAAATTTTGTTCTTTGAAAAACTACAAGTTACAAATCCTATCTCCCCGACGTTGCGGT
66 AGTATAGCAAATTTTGTTCTTTGAAAAACTACAAGTTACAAATCCTATCTCCCCGACGTTGCGGT
43979542 GGAGTGGATCGAAGCACTAATTCCAATACCTCTGAAGAAACAGTAAGGTGGAATGAGGCTACTTG
131 GGAGTGGATCGAAGCACTAATTCCAATACCTCTGAAGAAACAGTAAGGTGGAATGAGGCTACTTG
43979607 AAGAATAGGAGCACCAAAGTCCAAACACGATGGGCAAAATTGGTCCTCTTTAGTCTTTGCCCTAT
196 AAGAATAGGAGCACCAAAGTCCAAACACGATGGGCAAAATTGGTCCTCTTTAGTCTTTGCCCTAT
43979672 TCTCGTTACATGACAATGAGCAAAGAGGGGCAGCTGTAATAACCCAATTTGCCCGGCCCGTTTCA
261 TCTCGTTACATGACAATGAGCAAAGAGGGGCAGCTGTAATAACCCAATTTGCCCGGCCCGTTTCA
43979737 TTAAACCAATTTAAATAAAATAATAGTCCAAAACCATAGTGTCCAGATTACAAACCAGGCTAAAT
326 TTAAACCAATTTAAATAAAATAATAGTCCAAAACCATAGTGTCCAGATTACAAACCAGGCTAAAT
43979802 TAAGCCTAAAACCGTTTACAAAATCCAAACCTAAACCCATTAAGCCTAGCCCAGCAAACCAACTT
391 TAAGCCTAAAACCGTTTACAAAATCCAAACCTAAACCCATTAAGCCTAGCCCAGCAAACCAACTT
43979867 AACCCAAATCCTAACTCGATTACAGAAACCCTAGCAGCCTGCAGCAAGCCTCCAGCGTC
456 AACCCAAATCCTAACTCGATTACAGAAACCCTAGCAGCCTGCAGCAAGCCTCCAGCGTC
43979926 GCAGCGACAA
Statistics
Matches: 511, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
515 511 1.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (515 bp):
AAAGTGCAACAAAACAAGTTAAAGCTACAAGTCTTATCTCCCTGGAGTTGCAGTGGAGCAGACCA
AGTATAGCAAATTTTGTTCTTTGAAAAACTACAAGTTACAAATCCTATCTCCCCGACGTTGCGGT
GGAGTGGATCGAAGCACTAATTCCAATACCTCTGAAGAAACAGTAAGGTGGAATGAGGCTACTTG
AAGAATAGGAGCACCAAAGTCCAAACACGATGGGCAAAATTGGTCCTCTTTAGTCTTTGCCCTAT
TCTCGTTACATGACAATGAGCAAAGAGGGGCAGCTGTAATAACCCAATTTGCCCGGCCCGTTTCA
TTAAACCAATTTAAATAAAATAATAGTCCAAAACCATAGTGTCCAGATTACAAACCAGGCTAAAT
TAAGCCTAAAACCGTTTACAAAATCCAAACCTAAACCCATTAAGCCTAGCCCAGCAAACCAACTT
AACCCAAATCCTAACTCGATTACAGAAACCCTAGCAGCCTGCAGCAAGCCTCCAGCGTCA
Found at i:43980014 original size:9 final size:9
Alignment explanation
Indices: 43980000--43980025 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
43979990 CCGTACACCT
43980000 GCAACAAAC
1 GCAACAAAC
43980009 GCAACAAAC
1 GCAACAAAC
43980018 GCAACAAA
1 GCAACAAA
43980026 GGCAGCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.31, G:0.12, T:0.00
Consensus pattern (9 bp):
GCAACAAAC
Found at i:43981090 original size:3 final size:3
Alignment explanation
Indices: 43981082--43981119 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
43981072 TATAATCATA
43981082 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
43981120 CTTTTTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:43993271 original size:50 final size:50
Alignment explanation
Indices: 43993029--43993271 Score: 315
Period size: 50 Copynumber: 4.9 Consensus size: 50
43993019 TTTTTTGTAT
* * * ** * *
43993029 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
* * ** * * *
43993079 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
* * *
43993129 TGCCAACGCCATCTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
*
43993179 TGCCAACGCCATGTCCCAGACATGGTCTTACATGATACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
*
43993229 TGCCAACGCCATGCCCCAGACATGGTCTTACATGAGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTT
43993272 TACCCAAATG
Statistics
Matches: 169, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 169 1.00
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
Found at i:44001118 original size:50 final size:50
Alignment explanation
Indices: 44001040--44001473 Score: 484
Period size: 50 Copynumber: 8.8 Consensus size: 50
44001030 ATTATAAGAT
*
44001040 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* * * *
44001090 GTCCCACGTAAGACCATGTCTTGAACATGGCGTTGGCACCGAGATAAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* *
44001140 GTCCCATATAAGACCATGTCTGGGACATGGTC-TTGGCACCAAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGG-CGTTGGCACCGAGATGAGAG
44001190 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* * ** * *
44001240 GTCCTATG---GACCATGTTTGATACATGGCGTTGACACCGAGATGAAAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* *
44001287 GACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATTAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
** * * * * * *
44001337 GTCCCCCGTAAGACCATGTTTGGGACATGACATGGGCACCGATATGAGAA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* ** * * * * * *
44001387 CTCCCATGTAAGACCATACCTGGGATATGGCATTGGCA--GTACAGGACAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATGAGAG
* * * *
44001436 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
44001474 TGTTATATTC
Statistics
Matches: 321, Mismatches: 57, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
47 40 0.12
48 1 0.00
49 37 0.12
50 242 0.75
51 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
Done.