Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 125 of 218
Found at i:37926914 original size:27 final size:27
Alignment explanation
Indices: 37926869--37926935 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
37926859 AGTATTGAAG
* *
37926869 AAAAAAAAGAAGAAGAAAAAATTCGGAATT
1 AAAAAAAA-AATAA-AAAAAA-TCGAAATT
37926899 AAAAAAAAAATAAAAAAAATCGAAATT
1 AAAAAAAAAATAAAAAAAATCGAAATT
*
37926926 GAAAAAAAAA
1 AAAAAAAAAA
37926936 GAGTGATTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.47
28 6 0.18
29 4 0.12
30 8 0.24
ACGTcount: A:0.75, C:0.03, G:0.10, T:0.12
Consensus pattern (27 bp):
AAAAAAAAAATAAAAAAAATCGAAATT
Found at i:37927804 original size:17 final size:15
Alignment explanation
Indices: 37927784--37927822 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
37927774 GCGAGCGAGA
37927784 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
37927801 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
37927816 AAGATGA
1 AA-ATGA
37927823 GTGGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:37929325 original size:20 final size:20
Alignment explanation
Indices: 37929300--37929354 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
37929290 TGTGGTTCAA
*
37929300 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
37929320 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
37929340 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
37929355 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:37935993 original size:30 final size:30
Alignment explanation
Indices: 37935959--37936055 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
37935949 TAAACTAAAA
*
37935959 TGAGCTAAGCTTTAGCTAGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
37935989 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
37936019 TGAGCTGAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
37936048 ATGAGCTA
1 -TGAGCTA
37936056 GGAGTTGGAT
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.90
31 3 0.06
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:37939055 original size:16 final size:15
Alignment explanation
Indices: 37939017--37939052 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
37939007 TAGCTTCTTC
37939017 TTTTTTCACGAATTT
1 TTTTTTCACGAATTT
37939032 TTTTTTCACGAATTT
1 TTTTTTCACGAATTT
37939047 TTTTTT
1 TTTTTT
37939053 TCAACTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTTTCACGAATTT
Found at i:37939112 original size:11 final size:11
Alignment explanation
Indices: 37939096--37939127 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
37939086 AAACCAAATT
37939096 TTTTTTTTGAA
1 TTTTTTTTGAA
37939107 -TTTTTTTGAA
1 TTTTTTTTGAA
37939117 TTTTTTTTGAA
1 TTTTTTTTGAA
37939128 GAAACTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:37939500 original size:46 final size:46
Alignment explanation
Indices: 37939442--37939535 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 46
37939432 CAAAGAAAAG
*
37939442 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
*
37939488 ACCTTGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
37939534 AC
1 AC
37939536 GCCACACTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:37942652 original size:22 final size:22
Alignment explanation
Indices: 37942622--37942665 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
37942612 TTTTGAACCA
37942622 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
* *
37942644 TTACTATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
37942666 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:37945436 original size:22 final size:22
Alignment explanation
Indices: 37945385--37945450 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
37945375 GGTATTTGGG
* *
37945385 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
37945406 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
37945428 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
37945451 TCAAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:37950531 original size:30 final size:30
Alignment explanation
Indices: 37950497--37950593 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
37950487 TAAACTAAAA
37950497 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
37950527 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
37950557 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
37950586 ATGAGCTA
1 -TGAGCTA
37950594 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:37952751 original size:12 final size:12
Alignment explanation
Indices: 37952736--37952766 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
37952726 TTCTTTTTGC
37952736 TTTTCAAAGGCT
1 TTTTCAAAGGCT
37952748 TTTTCAAAGGCT
1 TTTTCAAAGGCT
37952760 TTTTCAA
1 TTTTCAA
37952767 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:37952843 original size:6 final size:6
Alignment explanation
Indices: 37952827--37952876 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
37952817 TTTCTTTTTA
*
37952827 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
37952876 T
1 T
37952877 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:37952859 original size:37 final size:37
Alignment explanation
Indices: 37952816--37952886 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
37952806 CTTGCCTCTC
37952816 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
37952853 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
37952887 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:37952887 original size:16 final size:16
Alignment explanation
Indices: 37952812--37952872 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
37952802 GCCTCTTGCC
*
37952812 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
37952828 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
37952844 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
37952860 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
37952873 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:37953808 original size:26 final size:26
Alignment explanation
Indices: 37953766--37953836 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
37953756 ACTTTTCACT
*
37953766 TTTTTTTTTCTTCTTTTTTTAACTCGA
1 TTTTTTTTTCAT-TTTTTTTAACTCGA
***
37953793 TTTTTTTTTCATTTTTTTTTTTTCGA
1 TTTTTTTTTCATTTTTTTTAACTCGA
**
37953819 TTTTTTTTGAATTTTTTT
1 TTTTTTTTTCATTTTTTT
37953837 CTGAATTTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
26 27 0.71
27 11 0.29
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.77
Consensus pattern (26 bp):
TTTTTTTTTCATTTTTTTTAACTCGA
Found at i:37953811 original size:15 final size:15
Alignment explanation
Indices: 37953793--37953826 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
37953783 TTTAACTCGA
37953793 TTTTTTTTTC-ATTT
1 TTTTTTTTTCGATTT
37953807 TTTTTTTTTCGATTT
1 TTTTTTTTTCGATTT
37953822 TTTTT
1 TTTTT
37953827 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTCGATTT
Found at i:37955585 original size:30 final size:30
Alignment explanation
Indices: 37955551--37955647 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
37955541 TAAACTAAAA
37955551 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
37955581 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
37955611 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
37955640 ATGAGCTA
1 -TGAGCTA
37955648 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:37960917 original size:4 final size:4
Alignment explanation
Indices: 37960898--37960934 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
37960888 TTGTAAAAGT
*
37960898 TTTA TTTT TATTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
37960935 CTTAGTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 27 0.90
5 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:37967836 original size:20 final size:20
Alignment explanation
Indices: 37967813--37967858 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
37967803 CCAGCTCGAA
*
37967813 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
37967833 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
37967853 TTAGCT
1 TTAGCT
37967859 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:37967849 original size:30 final size:30
Alignment explanation
Indices: 37967815--37967878 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
37967805 AGCTCGAATT
37967815 AGCTCACA-TGAGCTTAATTTAGCTCGTTTG
1 AGCTCA-ATTGAGCTTAATTTAGCTCGTTTG
* *
37967845 AGCTCAATTTAGCTTACTTTAGCTCGTTTG
1 AGCTCAATTGAGCTTAATTTAGCTCGTTTG
37967875 AGCT
1 AGCT
37967879 TGGCTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCAATTGAGCTTAATTTAGCTCGTTTG
Found at i:37969493 original size:12 final size:12
Alignment explanation
Indices: 37969478--37969502 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37969468 AAAAAAATCA
37969478 AAAAAAAATTTG
1 AAAAAAAATTTG
37969490 AAAAAAAATTTG
1 AAAAAAAATTTG
37969502 A
1 A
37969503 TTTGAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:37970777 original size:32 final size:32
Alignment explanation
Indices: 37970718--37970778 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
37970708 AAAAGAAATT
*
37970718 GAAAGAGAGCTTGAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGCTTAAAAGAAATCAAGTGAAAAA
* *
37970750 GAAAGAGATCTGTAAAAGAAA-CGAGTGAA
1 GAAAGAGAGCT-TAAAAGAAATCAAGTGAA
37970779 GTCGAGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 17 0.68
33 8 0.32
ACGTcount: A:0.54, C:0.07, G:0.26, T:0.13
Consensus pattern (32 bp):
GAAAGAGAGCTTAAAAGAAATCAAGTGAAAAA
Found at i:37972609 original size:31 final size:30
Alignment explanation
Indices: 37972574--37972638 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
37972564 AGCTCGAATT
*
37972574 AGCTCACA-TGAGCTTAATTTAGCTCTTTTTG
1 AGCTCA-ATTGAGCTTAATTTAGCTC-GTTTG
* *
37972605 AGCTCAATTTAGCTTACTTTAGCTCGTTTG
1 AGCTCAATTGAGCTTAATTTAGCTCGTTTG
37972635 AGCT
1 AGCT
37972639 TGGCTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (30 bp):
AGCTCAATTGAGCTTAATTTAGCTCGTTTG
Found at i:37994923 original size:20 final size:20
Alignment explanation
Indices: 37994877--37994923 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
37994867 AGCTTGTTTC
37994877 CAGCTCACTCAAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
37994897 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
37994917 CAGCTCA
1 CAGCTCA
37994924 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:37996438 original size:11 final size:12
Alignment explanation
Indices: 37996415--37996439 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37996405 AAAAGAGAAG
37996415 AAATTCAAAAAA
1 AAATTCAAAAAA
37996427 AAATTCAAAAAA
1 AAATTCAAAAAA
37996439 A
1 A
37996440 TCGAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:38000443 original size:19 final size:18
Alignment explanation
Indices: 38000407--38000446 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
38000397 TTTCCACTCG
*
38000407 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
38000425 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
38000444 TTT
1 TTT
38000447 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:38001517 original size:15 final size:15
Alignment explanation
Indices: 38001497--38001536 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
38001487 AACTAGCTTC
*
38001497 TTTTTTTTCACTAAT
1 TTTTTTTTCACGAAT
38001512 TTTTTTTTCACGAAT
1 TTTTTTTTCACGAAT
38001527 TTTTTTTTCA
1 TTTTTTTTCA
38001537 ACTTGATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.12, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTTTTTCACGAAT
Found at i:38003253 original size:12 final size:12
Alignment explanation
Indices: 38003232--38003386 Score: 59
Period size: 12 Copynumber: 13.6 Consensus size: 12
38003222 AGAAAAGGAG
*
38003232 AAAGAGATTGAA
1 AAAGAAATTGAA
38003244 AAAGAAATTG--
1 AAAGAAATTGAA
**
38003254 AAAGAAA-ACAA
1 AAAGAAATTGAA
*
38003265 AAAGAAAATGAA
1 AAAGAAATTGAA
38003277 AAAGAAA---AA
1 AAAGAAATTGAA
*
38003286 AAATTGCAAA-AGAA
1 AAA--G-AAATTGAA
*
38003300 AAAGAAATCGAA
1 AAAGAAATTGAA
** **
38003312 AAAGTGAGAGAA
1 AAAGAAATTGAA
*
38003324 AAAGAAAATGAAGA
1 AAAGAAATTG-A-A
38003338 AAAGAAAATTGAA
1 AAAG-AAATTGAA
38003351 AAAGAAATTG--
1 AAAGAAATTGAA
38003361 --AG-AA-TGAA
1 AAAGAAATTGAA
38003369 AAA-AAATTGAA
1 AAAGAAATTGAA
38003380 AAAGAAA
1 AAAGAAA
38003387 AAGCGAAAAA
Statistics
Matches: 109, Mismatches: 15, Indels: 38
0.67 0.09 0.23
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 2 0.02
9 5 0.05
10 10 0.09
11 18 0.17
12 48 0.44
13 6 0.06
14 11 0.10
15 5 0.05
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.11
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:38003277 original size:6 final size:6
Alignment explanation
Indices: 38003254--38003389 Score: 62
Period size: 6 Copynumber: 22.7 Consensus size: 6
38003244 AAAGAAATTG
* * ** *
38003254 AAAG-A AAACAA AAAGAA AATGAA AAAGAA AAA-AA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
38003300 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
** * * **
38003351 AAAGAA ATTGAG AATGAA AAA-AA ATTGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG
38003390 CGAAAAAAGA
Statistics
Matches: 91, Mismatches: 34, Indels: 11
0.67 0.25 0.08
Matches are distributed among these distances:
5 9 0.10
6 71 0.78
7 7 0.08
8 4 0.04
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.10
Consensus pattern (6 bp):
AAAGAA
Found at i:38003306 original size:29 final size:29
Alignment explanation
Indices: 38003263--38003389 Score: 98
Period size: 29 Copynumber: 4.4 Consensus size: 29
38003253 GAAAGAAAAC
*
38003263 AAAAAGAAAATGAAAAAGAAAAAAAATTG
1 AAAAAGAAAAAGAAAAAGAAAAAAAATTG
* ** ** **
38003292 CAAAAGAAAAAGAAATCGAAAAAGTGAGAG
1 AAAAAGAAAAAGAAAAAGAAAAA-AAATTG
*
38003322 AAAAAGAAAATG---AAGAAAAGAAAATTG
1 AAAAAGAAAAAGAAAAAGAAAA-AAAATTG
** * *
38003349 AAAAAGAAATTGAGAATGAAAAAAAATTG
1 AAAAAGAAAAAGAAAAAGAAAAAAAATTG
38003378 AAAAAGAAAAAG
1 AAAAAGAAAAAG
38003390 CGAAAAAAGA
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
27 18 0.25
28 1 0.01
29 36 0.49
30 18 0.25
ACGTcount: A:0.70, C:0.02, G:0.18, T:0.10
Consensus pattern (29 bp):
AAAAAGAAAAAGAAAAAGAAAAAAAATTG
Found at i:38003441 original size:33 final size:33
Alignment explanation
Indices: 38003404--38003466 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
38003394 AAAAGAAATT
38003404 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
38003437 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
38003467 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:38008848 original size:4 final size:4
Alignment explanation
Indices: 38008839--38008866 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
38008829 AAGTTTTATT
38008839 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
38008867 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:38012627 original size:4 final size:4
Alignment explanation
Indices: 38012613--38012645 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
38012603 GTTGTAAAGT
38012613 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
38012646 CTTAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:38020543 original size:20 final size:20
Alignment explanation
Indices: 38020518--38020572 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
38020508 ACGAGTTAAA
* *
38020518 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
38020538 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
38020558 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
38020573 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:38028472 original size:45 final size:45
Alignment explanation
Indices: 38028404--38028667 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
38028394 AAGAGGTGGA
** * * *
38028404 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
38028449 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
38028494 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
38028539 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
38028584 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
38028629 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
38028668 CCATGGCCGA
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:38034001 original size:4 final size:4
Alignment explanation
Indices: 38033992--38034019 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
38033982 TTAAACTAAG
38033992 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
38034020 AATAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:38034793 original size:4 final size:4
Alignment explanation
Indices: 38034777--38034807 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
38034767 AAGTTTTATT
38034777 TTTA TTT- TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
38034808 CTTAGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:38037315 original size:45 final size:45
Alignment explanation
Indices: 38037247--38037510 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
38037237 AAGAGGTGGA
** * * *
38037247 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
38037292 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
38037337 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
38037382 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
38037427 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
38037472 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
38037511 CCATGGCCGA
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:38044166 original size:45 final size:45
Alignment explanation
Indices: 38044098--38044361 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
38044088 AAGAGGTGGA
** * * *
38044098 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
38044143 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
38044188 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
38044233 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
38044278 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
38044323 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
38044362 CCATGGCCGA
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:38046769 original size:10 final size:11
Alignment explanation
Indices: 38046741--38046769 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
38046731 TGCAATATAT
38046741 TTTTTTTTCAA
1 TTTTTTTTCAA
38046752 TTTTTTTT-AA
1 TTTTTTTTCAA
38046762 TTTTTTTT
1 TTTTTTTT
38046770 TTGAAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:38049459 original size:20 final size:20
Alignment explanation
Indices: 38049413--38049459 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38049403 AGCTTGTTTC
*
38049413 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
38049433 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
38049453 CAGCTCA
1 CAGCTCA
38049460 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:38050010 original size:20 final size:20
Alignment explanation
Indices: 38049964--38050010 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38049954 AGCTCGTTTC
*
38049964 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
38049984 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
38050004 CAGCTCA
1 CAGCTCA
38050011 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:38051733 original size:22 final size:22
Alignment explanation
Indices: 38051705--38051748 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
38051695 TTTTGAACCA
38051705 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
38051727 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
38051749 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:38053169 original size:15 final size:13
Alignment explanation
Indices: 38053138--38053205 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
38053128 AAAAAAATTC
38053138 AAAAAA-AAGGAA
1 AAAAAAGAAGGAA
38053150 AAAAAAGAAGTGACA
1 AAAAAAGAAG-GA-A
**
38053165 AAAAAAG-AGTTA
1 AAAAAAGAAGGAA
38053177 AAAAAAGAA-GAA
1 AAAAAAGAAGGAA
*
38053189 AGAAAAAAAAGTGAA
1 A-AAAAAGAAG-GAA
38053204 AA
1 AA
38053206 GTCTTGCGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
12 16 0.36
13 11 0.25
14 5 0.11
15 12 0.27
ACGTcount: A:0.75, C:0.01, G:0.18, T:0.06
Consensus pattern (13 bp):
AAAAAAGAAGGAA
Found at i:38053194 original size:27 final size:26
Alignment explanation
Indices: 38053137--38053205 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
38053127 AAAAAAAATT
**
38053137 CAAAAAAAAG-GAAAAAAAAGAAGTGA
1 CAAAAAAAAGTG-AAAAAAAGAAGAAA
*
38053163 CAAAAAAAGAGTTAAAAAAAGAAGAAA
1 CAAAAAAA-AGTGAAAAAAAGAAGAAA
*
38053190 GAAAAAAAAGTGAAAA
1 CAAAAAAAAGTGAAAA
38053206 GTCTTGCGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 15 0.42
27 21 0.58
ACGTcount: A:0.74, C:0.03, G:0.17, T:0.06
Consensus pattern (26 bp):
CAAAAAAAAGTGAAAAAAAGAAGAAA
Found at i:38057508 original size:20 final size:20
Alignment explanation
Indices: 38057463--38057508 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
38057453 GCTCGTTTCT
*
38057463 AGCTCACTCGAGCTCAAGTC
1 AGCTCACTCAAGCTCAAGTC
* *
38057483 AACTCACTCAAGCTCAATTC
1 AGCTCACTCAAGCTCAAGTC
38057503 AGCTCA
1 AGCTCA
38057509 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (20 bp):
AGCTCACTCAAGCTCAAGTC
Found at i:38063034 original size:18 final size:18
Alignment explanation
Indices: 38063013--38063047 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38063003 TTTTTCTTTT
38063013 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
38063031 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
38063048 TTCTTTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:38063063 original size:13 final size:12
Alignment explanation
Indices: 38063031--38063067 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
38063021 TTTCTCAATC
38063031 TCAATTTCTTTT
1 TCAATTTCTTTT
38063043 TCAATTTCTTTCT
1 TCAATTTCTTT-T
*
38063056 TCATTTTCTTTT
1 TCAATTTCTTTT
38063068 CGCTCACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.68
Consensus pattern (12 bp):
TCAATTTCTTTT
Found at i:38063994 original size:13 final size:13
Alignment explanation
Indices: 38063977--38064050 Score: 64
Period size: 13 Copynumber: 5.7 Consensus size: 13
38063967 TTTTTGCTTG
38063977 ATTTTTTTTTC--
1 ATTTTTTTTTCAA
* *
38063988 ACTTTTTTTTGAA
1 ATTTTTTTTTCAA
38064001 ATTTTTTTTTCAATCA
1 ATTTTTTTTTC-A--A
38064017 ATTTTTTTTTCAA
1 ATTTTTTTTTCAA
* *
38064030 TTTTTTTTTTC-G
1 ATTTTTTTTTCAA
38064042 ATTTTTTTT
1 ATTTTTTTT
38064051 GTTACTCCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
11 9 0.18
12 8 0.16
13 20 0.39
14 1 0.02
15 1 0.02
16 12 0.24
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (13 bp):
ATTTTTTTTTCAA
Found at i:38064009 original size:28 final size:28
Alignment explanation
Indices: 38063978--38064039 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
38063968 TTTTGCTTGA
*
38063978 TTTTTTTT--TCACTTTTTTTTGAAATT
1 TTTTTTTTAATCAATTTTTTTTGAAATT
* **
38064004 TTTTTTTCAATCAATTTTTTTTTCAATT
1 TTTTTTTTAATCAATTTTTTTTGAAATT
38064032 TTTTTTTT
1 TTTTTTTT
38064040 CGATTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 7 0.24
28 22 0.76
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTTTTTAATCAATTTTTTTTGAAATT
Found at i:38064033 original size:11 final size:12
Alignment explanation
Indices: 38063977--38064050 Score: 67
Period size: 12 Copynumber: 5.8 Consensus size: 12
38063967 TTTTTGCTTG
38063977 ATTTTTTTTTCA
1 ATTTTTTTTTCA
* **
38063989 CTTTTTTTTGAA
1 ATTTTTTTTTCA
38064001 ATTTTTTTTTCAATCA
1 A-TTTTTTTT---TCA
38064017 ATTTTTTTTTCA
1 ATTTTTTTTTCA
*
38064029 ATTTTTTTTTTCG
1 A-TTTTTTTTTCA
38064042 ATTTTTTTT
1 ATTTTTTTT
38064051 GTTACTCCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
12 21 0.42
13 19 0.38
15 8 0.16
16 2 0.04
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:38064039 original size:16 final size:16
Alignment explanation
Indices: 38064000--38064030 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38063990 TTTTTTTTGA
38064000 AATTTTTTTTTCAATC
1 AATTTTTTTTTCAATC
38064016 AATTTTTTTTTCAAT
1 AATTTTTTTTTCAAT
38064031 TTTTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTTTTTTTCAATC
Found at i:38065986 original size:10 final size:10
Alignment explanation
Indices: 38065971--38066003 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
38065961 TTAGCAAACC
38065971 TCACCGTTAA
1 TCACCGTTAA
38065981 TCACCGTTAA
1 TCACCGTTAA
38065991 TCACCGTTAA
1 TCACCGTTAA
38066001 TCA
1 TCA
38066004 AATTCTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.30
Consensus pattern (10 bp):
TCACCGTTAA
Found at i:38077102 original size:23 final size:22
Alignment explanation
Indices: 38077050--38077102 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38077040 TCCACGTCTT
*
38077050 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38077072 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38077095 TTTCTTTT
1 TTTCTTTT
38077103 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38080936 original size:20 final size:20
Alignment explanation
Indices: 38080911--38080953 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38080901 AAAAGAAAAG
38080911 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
38080931 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
38080951 AAA
1 AAA
38080954 ATAAGATCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:38086807 original size:20 final size:20
Alignment explanation
Indices: 38086752--38086796 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
38086742 CATTTCATTG
*
38086752 AGCTCCAATTAGCTCATTTCC
1 AGCTCC-ATGAGCTCATTTCC
*
38086773 AGCTCCATGAACTCATTT-C
1 AGCTCCATGAGCTCATTTCC
38086792 AGCTC
1 AGCTC
38086797 ATTTGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.31
Consensus pattern (20 bp):
AGCTCCATGAGCTCATTTCC
Found at i:38089627 original size:36 final size:36
Alignment explanation
Indices: 38089586--38089660 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
38089576 ACATGGAAAA
*
38089586 CATGATCATCTAATGTCTTTGAGTAAATTAAAATAT
1 CATGATCATCTAATGTCTTTAAGTAAATTAAAATAT
38089622 CATGATCATCTAATGTCTTTAAGTAAATTAAAATAT
1 CATGATCATCTAATGTCTTTAAGTAAATTAAAATAT
38089658 CAT
1 CAT
38089661 CAAAGTAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (36 bp):
CATGATCATCTAATGTCTTTAAGTAAATTAAAATAT
Found at i:38090989 original size:34 final size:34
Alignment explanation
Indices: 38090946--38091013 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
38090936 GGTGCGGCGA
38090946 ACTACAACGTATTGAAAATCAGCAAAGTGCCTTT
1 ACTACAACGTATTGAAAATCAGCAAAGTGCCTTT
*
38090980 ACTACAACGTATTGAAAATCGGCAAAGTGCCTTT
1 ACTACAACGTATTGAAAATCAGCAAAGTGCCTTT
38091014 CTTTTGGTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (34 bp):
ACTACAACGTATTGAAAATCAGCAAAGTGCCTTT
Found at i:38092174 original size:21 final size:23
Alignment explanation
Indices: 38092129--38092175 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
38092119 TCACCTGCAA
* *
38092129 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
38092152 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
38092173 TAA
1 TAA
38092176 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:38102905 original size:20 final size:20
Alignment explanation
Indices: 38102859--38102905 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38102849 AGCTTGTTTC
*
38102859 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
38102879 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
38102899 CAGCTCA
1 CAGCTCA
38102906 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:38104421 original size:11 final size:12
Alignment explanation
Indices: 38104395--38104420 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38104385 AAAAAAATCG
38104395 AAATTCAAAAAA
1 AAATTCAAAAAA
38104407 AAATTCAAAAAA
1 AAATTCAAAAAA
38104419 AA
1 AA
38104421 TCGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:38105654 original size:48 final size:47
Alignment explanation
Indices: 38105575--38105680 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
38105565 GAGTGTCATG
*
38105575 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
38105623 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
38105671 GAAAAAGAAA
1 GAAAAAGAAA
38105681 GAAAAGATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:38108695 original size:12 final size:12
Alignment explanation
Indices: 38108673--38108733 Score: 104
Period size: 12 Copynumber: 4.9 Consensus size: 12
38108663 AGACCGTATG
38108673 CAATTTTTTTTT
1 CAATTTTTTTTT
38108685 CAAAATTTTTTTTT
1 C--AATTTTTTTTT
38108699 CAATTTTTTTTT
1 CAATTTTTTTTT
38108711 CAATTTTTTTTT
1 CAATTTTTTTTT
38108723 CAATTTTTTTT
1 CAATTTTTTTT
38108734 GAATCTACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
12 35 0.74
14 12 0.26
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:38112923 original size:4 final size:4
Alignment explanation
Indices: 38112914--38112941 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
38112904 TTAAACTAAG
38112914 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
38112942 AATAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:38114338 original size:23 final size:22
Alignment explanation
Indices: 38114287--38114338 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
38114277 CCTCGTCTTT
*
38114287 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
38114309 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
38114332 TTCTTTT
1 TTCTTTT
38114339 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:38114353 original size:18 final size:18
Alignment explanation
Indices: 38114332--38114370 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
38114322 TTTCTTCAAC
* *
38114332 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
38114350 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
38114368 TTC
1 TTC
38114371 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:38118359 original size:17 final size:15
Alignment explanation
Indices: 38118337--38118392 Score: 94
Period size: 15 Copynumber: 3.6 Consensus size: 15
38118327 TAGCTTCTTC
38118337 TTTTTTTCACGAAAATT
1 TTTTTTTCACG--AATT
38118354 TTTTTTTCACGAATT
1 TTTTTTTCACGAATT
38118369 TTTTTTTCACGAATT
1 TTTTTTTCACGAATT
38118384 TTTTTTTCA
1 TTTTTTTCA
38118393 ACTTGATATC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
15 28 0.72
17 11 0.28
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.61
Consensus pattern (15 bp):
TTTTTTTCACGAATT
Found at i:38118450 original size:12 final size:13
Alignment explanation
Indices: 38118430--38118465 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
38118420 ATGGAAACCA
38118430 AATTTTTTTTTTG
1 AATTTTTTTTTTG
38118443 AATTTTTTTTTTG
1 AATTTTTTTTTTG
38118456 AATTTTTTTT
1 AATTTTTTTT
38118466 GAAGAAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (13 bp):
AATTTTTTTTTTG
Found at i:38119534 original size:12 final size:12
Alignment explanation
Indices: 38119517--38119541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38119507 TTTTTTTTAA
38119517 TATACGATTTTT
1 TATACGATTTTT
38119529 TATACGATTTTT
1 TATACGATTTTT
38119541 T
1 T
38119542 TTTCAAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TATACGATTTTT
Found at i:38122575 original size:13 final size:13
Alignment explanation
Indices: 38122528--38122575 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
38122518 AAAAAAATAT
38122528 AAAAAAAATTCGAA
1 AAAAAAAATTC-AA
** *
38122542 AAAAAATTTTGAA
1 AAAAAAAATTCAA
38122555 AAAAAAAATTCAA
1 AAAAAAAATTCAA
38122568 AAAAAAAA
1 AAAAAAAA
38122576 GTTTGTGTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 20 0.71
14 8 0.29
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:38122634 original size:13 final size:13
Alignment explanation
Indices: 38122616--38122670 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
38122606 ATTTAGTATT
38122616 GAAGAAAAAAAAA
1 GAAGAAAAAAAAA
38122629 GAAGAAAAAAAAA
1 GAAGAAAAAAAAA
*
38122642 TTCGGAATTAAAAAAAAA
1 ----GAA-GAAAAAAAAA
38122660 GAAGAAAAAAA
1 GAAGAAAAAAA
38122671 TCAAAATTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 20 0.57
14 3 0.09
17 3 0.09
18 9 0.26
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (13 bp):
GAAGAAAAAAAAA
Found at i:38122667 original size:28 final size:29
Alignment explanation
Indices: 38122622--38122688 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
38122612 TATTGAAGAA
* **
38122622 AAAAAAAGAAGAAAAAAAAATTCGGAATT-
1 AAAAAAA-AAGAAAAAAAAAATCAAAATTG
*
38122651 AAAAAAAAAGAAGAAAAAAATCAAAATTG
1 AAAAAAAAAGAAAAAAAAAATCAAAATTG
38122680 AAAAAAAAA
1 AAAAAAAAA
38122689 AGAGTGATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 17 0.52
29 16 0.48
ACGTcount: A:0.76, C:0.03, G:0.10, T:0.10
Consensus pattern (29 bp):
AAAAAAAAAGAAAAAAAAAATCAAAATTG
Found at i:38122689 original size:31 final size:28
Alignment explanation
Indices: 38122613--38122670 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 28
38122603 TGTATTTAGT
*
38122613 ATTGAAGAAAAAAAAAGAAGAAAAAAAA
1 ATTGAATAAAAAAAAAGAAGAAAAAAAA
38122641 ATTCGGAATTAAAAAAAAAGAAGAAAAAAA
1 ATT--GAA-TAAAAAAAAAGAAGAAAAAAA
38122671 TCAAAATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 3 0.12
30 3 0.12
31 20 0.77
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (28 bp):
ATTGAATAAAAAAAAAGAAGAAAAAAAA
Found at i:38123527 original size:21 final size:20
Alignment explanation
Indices: 38123498--38123543 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
38123488 AATCTTGAAT
*
38123498 GAAATTGAGAGAAGAAAAAAA
1 GAAAATGAGAG-AGAAAAAAA
* *
38123519 GAAAATGAGAGTGAGAAAAA
1 GAAAATGAGAGAGAAAAAAA
38123539 GAAAA
1 GAAAA
38123544 AAGAATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (20 bp):
GAAAATGAGAGAGAAAAAAA
Found at i:38123559 original size:6 final size:6
Alignment explanation
Indices: 38123550--38123585 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
38123540 AAAAAAGAAT
* *
38123550 TTGAGA TTGAGA TTGAGA TTGATA TTGATA TTGAGA
1 TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA
38123586 AAAAATTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (6 bp):
TTGAGA
Found at i:38126876 original size:991 final size:991
Alignment explanation
Indices: 38124531--38127489 Score: 5822
Period size: 991 Copynumber: 3.0 Consensus size: 991
38124521 TTTGAGTGTT
38124531 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGGGAAACTCCTACGAAAACCC
1 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGGGAAACTCCTACGAAAACCC
38124596 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAAATTTTTGAATTTTCAGATCTGA
66 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAAATTTTTGAATTTTCAGATCTGA
38124661 AATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGGGTTCTTAAAA
131 AATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGGGTTCTTAAAA
38124726 CCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAAT
196 CCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAAT
38124791 CTAATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTA
261 CTAATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTA
*
38124856 AGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATAATTCAGCACAAGT
326 AGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGT
38124921 AGAAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCG
391 AGAAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCG
38124986 AAAGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAG
456 AAAGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAG
38125051 AAGGTTGAAGATGGCTCCCACAATCACAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGA
521 AAGGTTGAAGATGGCTCCCACAATCACAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGA
38125116 AAAATCTTGGAGAAAACTCAAAGAAAATTCTGCTCTCAACAAATCTGAAATTTTAATAATAATGA
586 AAAATCTTGGAGAAAACTCAAAGAAAATTCTGCTCTCAACAAATCTGAAATTTTAATAATAATGA
38125181 TAAGTGTTTTACAAGGTGGACAGCCATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATT
651 TAAGTGTTTTACAAGGTGGACAGCCATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATT
38125246 AAAAAACTAAAATAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGTTAAAGGTCATTTTA
716 AAAAAACTAAAATAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGTTAAAGGTCATTTTA
38125311 TCTAGGACTCTTGGACTGAATATTGACATAAAAATTTAAACTAAG----TAAATAAATAAATAAA
781 TCTAGGACTCTTGGACTGAATATTGACATAAAAATTTAAACTAAGTAAATAAATAAATAAATAAA
38125372 T--AAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAG
846 TAAAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAG
38125435 TATGGATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTTAAGAATTTGGGC
911 TATGGATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTTAAGAATTTGGGC
38125500 TTTTGTGAATACCAAA
976 TTTTGTGAATACCAAA
38125516 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGGGAAACTCCTACGAAAACCC
1 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGGGAAACTCCTACGAAAACCC
*
38125581 TAAACAATTAGATCTGAAACGAAACAAAAAATTAAAAGATTAAATTTTTGAATTTTCAGATCTGA
66 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAAATTTTTGAATTTTCAGATCTGA
*
38125646 AATAAAATCCCCAAATCAGTAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGGGTTCTTAAAA
131 AATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGGGTTCTTAAAA
38125711 CCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAAT
196 CCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAAT
38125776 CTAATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTA
261 CTAATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTA
38125841 AGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGT
326 AGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGT
38125906 AGAAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCG
391 AGAAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCG
38125971 AAAGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAG
456 AAAGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAG
38126036 AAGGTTGAAGATGGCTCCCACAATCACAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGA
521 AAGGTTGAAGATGGCTCCCACAATCACAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGA
38126101 AAAATCTTGGAGAAAACTCAAAGAAAATTCTGCTCTCAACAAATCTGAAATTTTAATAATAATGA
586 AAAATCTTGGAGAAAACTCAAAGAAAATTCTGCTCTCAACAAATCTGAAATTTTAATAATAATGA
38126166 TAAGTGTTTTACAAGGTGGACAGCCATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATT
651 TAAGTGTTTTACAAGGTGGACAGCCATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATT
38126231 AAAAAACTAAAATAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGTTAAAGGTCATTTTA
716 AAAAAACTAAAATAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGTTAAAGGTCATTTTA
*
38126296 TCTAGGACTCTTGGATTGAATATTGACATAAAAATTTAAACTAAGTAAATAAATAAATAAATAAA
781 TCTAGGACTCTTGGACTGAATATTGACATAAAAATTTAAACTAAGTAAATAAATAAATAAATAAA
38126361 TAAAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAG
846 TAAAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAG
38126426 TATGGATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTTAAGAATTTGGGC
911 TATGGATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTTAAGAATTTGGGC
38126491 TTTTGTGAATACCAAA
976 TTTTGTGAATACCAAA
* *
38126507 TGATATGGGGTTGCACGCGGACCAAGATCGAGTTGCCAAGTCACGGGAAACTCCTACGAAAACCC
1 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGGGAAACTCCTACGAAAACCC
38126572 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAAATTTTTGAATTTTCAGATCTGA
66 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAAATTTTTGAATTTTCAGATCTGA
38126637 AATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGGGTTCTTAAAA
131 AATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGGGTTCTTAAAA
38126702 CCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAAT
196 CCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAAT
38126767 CTAATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTA
261 CTAATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTA
38126832 AGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGT
326 AGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGT
38126897 AGAAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCG
391 AGAAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCG
38126962 AAAGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAG
456 AAAGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAG
38127027 AAGGTTGAAGATGGCTCCCACAATCACAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGA
521 AAGGTTGAAGATGGCTCCCACAATCACAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGA
38127092 AAAATCTTGGAGAAAACTCAAAGAAAATTCTGCTCTCAACAAATCTGAAATTTTAATAATAATGA
586 AAAATCTTGGAGAAAACTCAAAGAAAATTCTGCTCTCAACAAATCTGAAATTTTAATAATAATGA
38127157 TAAGTGTTTTACAAGGTGGACAGCCATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATT
651 TAAGTGTTTTACAAGGTGGACAGCCATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATT
38127222 AAAAAACTAAAATAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGTTAAAGGTCATTTTA
716 AAAAAACTAAAATAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGTTAAAGGTCATTTTA
38127287 TCTAGGACTCTTGGACTGAATATTGACATAAAAATTTAAACTAAGTAAATAAATAAATAAATAAA
781 TCTAGGACTCTTGGACTGAATATTGACATAAAAATTTAAACTAAGTAAATAAATAAATAAATAAA
38127352 TAAAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAG
846 TAAAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAG
38127417 TATGGATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTTAAGAATTTGGGC
911 TATGGATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTTAAGAATTTGGGC
38127482 TTTTGTGA
976 TTTTGTGA
38127490 CTCGTATCAG
Statistics
Matches: 1959, Mismatches: 9, Indels: 6
0.99 0.00 0.00
Matches are distributed among these distances:
985 821 0.42
989 17 0.01
991 1121 0.57
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (991 bp):
TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGGGAAACTCCTACGAAAACCC
TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAAATTTTTGAATTTTCAGATCTGA
AATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGGGTTCTTAAAA
CCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAAT
CTAATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTA
AGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGT
AGAAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCG
AAAGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAG
AAGGTTGAAGATGGCTCCCACAATCACAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGA
AAAATCTTGGAGAAAACTCAAAGAAAATTCTGCTCTCAACAAATCTGAAATTTTAATAATAATGA
TAAGTGTTTTACAAGGTGGACAGCCATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATT
AAAAAACTAAAATAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGTTAAAGGTCATTTTA
TCTAGGACTCTTGGACTGAATATTGACATAAAAATTTAAACTAAGTAAATAAATAAATAAATAAA
TAAAAATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAG
TATGGATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTTAAGAATTTGGGC
TTTTGTGAATACCAAA
Found at i:38128220 original size:22 final size:23
Alignment explanation
Indices: 38128172--38128220 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
38128162 TATTGGTATG
*
38128172 ATTAATGTGTCCTAATAAGTCGT
1 ATTAATGTGTCATAATAAGTCGT
*
38128195 -TTAATGTGTCATAATAGGT-GT
1 ATTAATGTGTCATAATAAGTCGT
38128216 ATTAA
1 ATTAA
38128221 AGAAGTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (23 bp):
ATTAATGTGTCATAATAAGTCGT
Found at i:38129079 original size:23 final size:23
Alignment explanation
Indices: 38129048--38129099 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
38129038 TTGTTTTTGT
38129048 AAAAAAAATTC-AAAAAAAAAGA
1 AAAAAAAATTCGAAAAAAAAAGA
*
38129070 AAAAGAAAATTCGAAAAGAAAAGA
1 AAAA-AAAATTCGAAAAAAAAAGA
38129094 AAAAAA
1 AAAAAA
38129100 TTATATACGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 4 0.15
23 9 0.33
24 14 0.52
ACGTcount: A:0.79, C:0.04, G:0.10, T:0.08
Consensus pattern (23 bp):
AAAAAAAATTCGAAAAAAAAAGA
Found at i:38132715 original size:20 final size:20
Alignment explanation
Indices: 38132692--38132745 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
38132682 AGTTTTACCC
*
38132692 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
38132712 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
38132732 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
38132746 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:38132727 original size:30 final size:30
Alignment explanation
Indices: 38132692--38132765 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
38132682 AGTTTTACCC
38132692 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
38132722 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
38132752 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
38132766 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:38132755 original size:20 final size:20
Alignment explanation
Indices: 38132692--38132756 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
38132682 AGTTTTACCC
* * * *
38132692 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
38132712 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
38132731 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
38132752 AGCTC
1 AGCTC
38132757 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:38136217 original size:22 final size:23
Alignment explanation
Indices: 38136169--38136217 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
38136159 TATTGGTATG
38136169 ATTAATGTGTCCTAATAAGTCGT
1 ATTAATGTGTCCTAATAAGTCGT
* *
38136192 -TTAATGTGTCTTAATAGGT-GT
1 ATTAATGTGTCCTAATAAGTCGT
38136213 ATTAA
1 ATTAA
38136218 AGAAGCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (23 bp):
ATTAATGTGTCCTAATAAGTCGT
Found at i:38138008 original size:20 final size:20
Alignment explanation
Indices: 38137962--38138008 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38137952 AGCTTGTTTC
*
38137962 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
38137982 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
38138002 CAGCTCA
1 CAGCTCA
38138009 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:38142132 original size:20 final size:20
Alignment explanation
Indices: 38142109--38142155 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38142099 GGGTTAAGAT
*
38142109 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
38142129 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
38142149 TGAGCTG
1 TGAGCTG
38142156 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:38143870 original size:48 final size:48
Alignment explanation
Indices: 38143815--38143920 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
38143805 TTGTCTTTTC
*
38143815 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
38143863 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
38143911 TTTCTTTTTC
1 TTTCTTTTTC
38143921 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:38143917 original size:18 final size:17
Alignment explanation
Indices: 38143896--38144020 Score: 76
Period size: 17 Copynumber: 7.1 Consensus size: 17
38143886 TTTTCACATC
38143896 CTTTTTCAATCTCAATTT
1 CTTTTTCAATCTC-ATTT
* *
38143914 CTTTTTCCATGACACTCGTTT
1 CTTTTT-CA--A-TCTCATTT
* * *
38143935 CTTTTACACTCTCGTTT
1 CTTTTTCAATCTCATTT
*
38143952 CTTTCTTCAATCTCACTCT
1 CTTT-TTCAATCTCA-TTT
* *
38143971 CTTTTTCAATTTCTTTT
1 CTTTTTCAATCTCATTT
* *
38143988 CCTTTTC--TTTCATTT
1 CTTTTTCAATCTCATTT
38144003 CTTTTTCAATCTC-TTT
1 CTTTTTCAATCTCATTT
38144019 CT
1 CT
38144021 CCTTTTCTCG
Statistics
Matches: 83, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
15 13 0.16
16 5 0.06
17 22 0.27
18 21 0.25
19 8 0.10
20 2 0.02
21 9 0.11
22 3 0.04
ACGTcount: A:0.14, C:0.27, G:0.02, T:0.57
Consensus pattern (17 bp):
CTTTTTCAATCTCATTT
Found at i:38146601 original size:20 final size:20
Alignment explanation
Indices: 38146578--38146624 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38146568 GGGTTAAGAT
*
38146578 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
38146598 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
38146618 TGAGCTG
1 TGAGCTG
38146625 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:38152771 original size:20 final size:20
Alignment explanation
Indices: 38152746--38152790 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
38152736 GCGAAAATAC
*
38152746 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAATCAAA
*
38152766 AAAAG-AAAGAAAATTCAAA
1 AAAAGAAAAGAAAAATCAAA
38152785 AAAAGA
1 AAAAGA
38152791 GAATGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATCAAA
Found at i:38152829 original size:15 final size:15
Alignment explanation
Indices: 38152795--38152838 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
38152785 AAAAGAGAAT
38152795 GAAAAGAGAGTGAGAAAA
1 GAAAA-AGA-TGA-AAAA
38152813 GAAAAAGATGAAAAA
1 GAAAAAGATGAAAAA
38152828 GAAAAAG-TGAA
1 GAAAAAGATGAA
38152839 TGAAAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.15
15 11 0.42
16 3 0.12
17 3 0.12
18 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.27, T:0.07
Consensus pattern (15 bp):
GAAAAAGATGAAAAA
Found at i:38156670 original size:48 final size:48
Alignment explanation
Indices: 38156612--38156717 Score: 146
Period size: 48 Copynumber: 2.2 Consensus size: 48
38156602 GAGTGTCATG
*
38156612 GAAAAAGAAATTGAGATTG-A-AAAAGGATG-TGAAAAAGAGAAAGATAT
1 GAAAAAGAAATTGAGATTGAACAAAAGGATGAGGAAAAAGAGAAA-AT-T
*
38156659 CGAAAAAGAAATTGAGATTGAACAAAAGTATGAGGAAAAAGAGAAAATT
1 -GAAAAAGAAATTGAGATTGAACAAAAGGATGAGGAAAAAGAGAAAATT
38156708 GAAAAAGAAA
1 GAAAAAGAAA
38156718 GAAAAGACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
48 29 0.55
49 2 0.04
50 10 0.19
51 12 0.23
ACGTcount: A:0.59, C:0.02, G:0.24, T:0.15
Consensus pattern (48 bp):
GAAAAAGAAATTGAGATTGAACAAAAGGATGAGGAAAAAGAGAAAATT
Found at i:38158425 original size:20 final size:20
Alignment explanation
Indices: 38158379--38158425 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38158369 AGCTCGTTTC
*
38158379 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
38158399 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
38158419 CAGCTCA
1 CAGCTCA
38158426 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:38163749 original size:51 final size:52
Alignment explanation
Indices: 38163673--38163772 Score: 175
Period size: 51 Copynumber: 1.9 Consensus size: 52
38163663 CATGCACATA
* *
38163673 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAG-TGCTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
38163724 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
38163773 CGTTTCCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 35 0.76
52 11 0.24
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
Found at i:38171656 original size:22 final size:22
Alignment explanation
Indices: 38171602--38171667 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
38171592 GGTATTTGGG
* *
38171602 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
*
38171623 AATTGGTGCGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
38171645 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
38171668 TCAAAGAGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 19 0.50
22 14 0.37
23 5 0.13
ACGTcount: A:0.29, C:0.05, G:0.32, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:38173266 original size:20 final size:20
Alignment explanation
Indices: 38173243--38173297 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
38173233 AGTTTAATTC
38173243 AGCTCAATTTTAGCTCAATG
1 AGCTCAATTTTAGCTCAATG
**
38173263 AGCT-TGTTCTTAGCTCAATG
1 AGCTCAATT-TTAGCTCAATG
*
38173283 AGCTCATTTTTAGCT
1 AGCTCAATTTTAGCT
38173298 TACTTTAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (20 bp):
AGCTCAATTTTAGCTCAATG
Found at i:38182570 original size:10 final size:10
Alignment explanation
Indices: 38182546--38182594 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
38182536 AGCTCGTTTC
*
38182546 CAGCTCACTT
1 CAGCTCAATT
* *
38182556 GAGCTCAAGT
1 CAGCTCAATT
38182566 CAGCTC-ATT
1 CAGCTCAATT
38182575 CGAGCTCAATT
1 C-AGCTCAATT
38182586 CAGCTCAAT
1 CAGCTCAAT
38182595 CTTAACCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 25 0.78
11 4 0.12
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:38182571 original size:20 final size:20
Alignment explanation
Indices: 38182546--38182592 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
38182536 AGCTCGTTTC
38182546 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGCTCAAGT
*
38182566 CAGCTCATTCGAGCTCAATT
1 CAGCTCATTCGAGCTCAAGT
38182586 CAGCTCA
1 CAGCTCA
38182593 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGCTCAAGT
Found at i:38184548 original size:21 final size:21
Alignment explanation
Indices: 38184511--38184575 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 21
38184501 CCACTCTCAA
*
38184511 TCTCTTTTT-GCTCTTTTTCAT
1 TCTCTTTTTCG-TTTTTTTCAT
*
38184532 TCTCTTTTTCG-TTTTTTGAT
1 TCTCTTTTTCGTTTTTTTCAT
38184552 T-TCTTTTTCTGTCTTTCTTTCAT
1 TCTCTTTTTC-GT-TTT-TTTCAT
38184575 T
1 T
38184576 ACAAGATAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 8 0.22
20 9 0.25
21 9 0.25
22 4 0.11
23 6 0.17
ACGTcount: A:0.05, C:0.20, G:0.06, T:0.69
Consensus pattern (21 bp):
TCTCTTTTTCGTTTTTTTCAT
Found at i:38187728 original size:46 final size:46
Alignment explanation
Indices: 38187676--38187768 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
38187666 TAGTGTGGCA
*
38187676 TTCATCATATACCAAGGTTCTTATCA-TCATTGATAGTGGGTCGAGG
1 TTCATCATATACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAGG
38187722 TTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGG
1 TTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGG
38187768 T
1 T
38187769 CTTTTATTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 43 0.96
47 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (46 bp):
TTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGG
Found at i:38193851 original size:23 final size:22
Alignment explanation
Indices: 38193799--38193851 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38193789 TCCACGTCTT
*
38193799 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38193821 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38193844 TTTCTTTT
1 TTTCTTTT
38193852 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38200087 original size:22 final size:22
Alignment explanation
Indices: 38200057--38200100 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
38200047 TTTGGTATTT
38200057 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
38200079 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
38200101 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:38207624 original size:24 final size:23
Alignment explanation
Indices: 38207570--38207625 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
38207560 GATTAATTAA
**
38207570 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
38207593 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
38207617 GAAATGGTA
1 GAAATGGTA
38207626 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.23, C:0.04, G:0.32, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:38227645 original size:10 final size:9
Alignment explanation
Indices: 38227623--38227670 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 9
38227613 AGCTAATAAC
38227623 GAGCTGAAGT
1 GAGCTGAA-T
38227633 GAGCTCGAAT
1 GAGCT-GAAT
*
38227643 GAGCTGACTT
1 GAGCTGA-AT
38227653 GAGCTCGAAT
1 GAGCT-GAAT
38227663 GAGCTGAA
1 GAGCTGAA
38227671 CCACATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
9 5 0.15
10 23 0.70
11 5 0.15
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (9 bp):
GAGCTGAAT
Found at i:38227648 original size:20 final size:20
Alignment explanation
Indices: 38227623--38227670 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
38227613 AGCTAATAAC
38227623 GAGCTGAAGTGAGCTCGAAT
1 GAGCTGAAGTGAGCTCGAAT
**
38227643 GAGCTGACTTGAGCTCGAAT
1 GAGCTGAAGTGAGCTCGAAT
38227663 GAGCTGAA
1 GAGCTGAA
38227671 CCACATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (20 bp):
GAGCTGAAGTGAGCTCGAAT
Found at i:38228604 original size:21 final size:21
Alignment explanation
Indices: 38228578--38228640 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
38228568 TTGGTATTTG
38228578 GGAATTGGCT-CGAAATGGTAT
1 GGAATTGG-TACGAAATGGTAT
38228599 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
38228620 GGTATTTGGTACGAAATGGTA
1 GG-AATTGGTACGAAATGGTA
38228641 ATGGTTCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
20 1 0.03
21 21 0.54
22 17 0.44
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.30
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:38248104 original size:13 final size:13
Alignment explanation
Indices: 38248082--38248118 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
38248072 ATAGTAGTTT
38248082 CTCG-AAAAAAAA
1 CTCGAAAAAAAAA
38248094 CTCGAAAAAAAAA
1 CTCGAAAAAAAAA
*
38248107 TTC-AAAAAAAAA
1 CTCGAAAAAAAAA
38248119 AATTTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.70, C:0.14, G:0.05, T:0.11
Consensus pattern (13 bp):
CTCGAAAAAAAAA
Found at i:38248116 original size:15 final size:15
Alignment explanation
Indices: 38248098--38248133 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
38248088 AAAAAACTCG
38248098 AAAAAAAAATTCAAA
1 AAAAAAAAATTCAAA
*
38248113 AAAAAAAATTTCAAA
1 AAAAAAAAATTCAAA
38248128 AAAAAA
1 AAAAAA
38248134 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAAAAATTCAAA
Found at i:38248119 original size:13 final size:13
Alignment explanation
Indices: 38248086--38248146 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
38248076 TAGTTTCTCG
* *
38248086 AAAAAAAACTCGA
1 AAAAAAAATTCAA
38248099 AAAAAAAATTCAAA
1 AAAAAAAATTC-AA
38248113 AAAAAAAATTTCAA
1 AAAAAAAA-TTCAA
* *
38248127 AAAAAAATTTTAA
1 AAAAAAAATTCAA
38248140 AAAAAAA
1 AAAAAAA
38248147 TTTGGTTTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
13 21 0.50
14 18 0.43
15 3 0.07
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:38248209 original size:15 final size:15
Alignment explanation
Indices: 38248186--38248225 Score: 71
Period size: 15 Copynumber: 2.6 Consensus size: 15
38248176 GATATCAAGT
38248186 TGAAAAAAAAATTTCG
1 TGAAAAAAAAA-TTCG
38248202 TGAAAAAAAAATTCG
1 TGAAAAAAAAATTCG
38248217 TGAAAAAAA
1 TGAAAAAAA
38248226 GAAGAAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.20
Consensus pattern (15 bp):
TGAAAAAAAAATTCG
Found at i:38254460 original size:20 final size:20
Alignment explanation
Indices: 38254435--38254489 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
38254425 TGTGGTTCAA
*
38254435 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
* *
38254455 CTCATTTGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
38254475 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
38254490 TTTAACTCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:38259894 original size:12 final size:12
Alignment explanation
Indices: 38259865--38259898 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
38259855 CTCATTTTCT
38259865 CTTCTTTCTTCAA
1 CTTCTTT-TTCAA
38259878 CTTCTTTTTCAA
1 CTTCTTTTTCAA
*
38259890 TTTCTTTTT
1 CTTCTTTTT
38259899 GTTTCACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.65
Consensus pattern (12 bp):
CTTCTTTTTCAA
Found at i:38262241 original size:4 final size:4
Alignment explanation
Indices: 38262232--38262256 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
38262222 TGGACTGAAT
38262232 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
38262257 AATAAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:38263505 original size:20 final size:20
Alignment explanation
Indices: 38263480--38263534 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
38263470 TGTGGTTCAA
*
38263480 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
38263500 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
38263520 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
38263535 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:38269733 original size:20 final size:20
Alignment explanation
Indices: 38269708--38269752 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38269698 TGTGGTTCAA
*
38269708 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
* *
38269728 CTCATTTGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
38269748 CTCAT
1 CTCAT
38269753 CAAGCCAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:38272554 original size:16 final size:15
Alignment explanation
Indices: 38272533--38272565 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
38272523 TGGAGCGAGA
38272533 AAATGAAATGAAAAAG
1 AAATGAAA-GAAAAAG
38272549 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
38272564 AA
1 AA
38272566 GCATGTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:38278728 original size:12 final size:12
Alignment explanation
Indices: 38278711--38278755 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
38278701 TATCAAGTTG
38278711 TGAAAAAAATTT
1 TGAAAAAAATTT
*
38278723 TGAAAAAAATTG
1 TGAAAAAAATTT
*
38278735 TGAAAAAAAATT
1 TGAAAAAAATTT
38278747 TGAAAAAAA
1 TGAAAAAAA
38278756 AAGAGCTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.24
Consensus pattern (12 bp):
TGAAAAAAATTT
Found at i:38278740 original size:24 final size:24
Alignment explanation
Indices: 38278708--38278755 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
38278698 GGATATCAAG
*
38278708 TTGTGAAAAAAATTTTGAAAAAAA
1 TTGTGAAAAAAAATTTGAAAAAAA
38278732 TTGTGAAAAAAAATTTGAAAAAAA
1 TTGTGAAAAAAAATTTGAAAAAAA
38278756 AAGAGCTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.27
Consensus pattern (24 bp):
TTGTGAAAAAAAATTTGAAAAAAA
Found at i:38282860 original size:11 final size:11
Alignment explanation
Indices: 38282844--38282886 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
38282834 TAGTTTCTCG
38282844 AAAAAAAACTC
1 AAAAAAAACTC
*
38282855 AAAAAAAATTC
1 AAAAAAAACTC
* *
38282866 AAAAAAAATTA
1 AAAAAAAACTC
38282877 AAAAAAAACT
1 AAAAAAAACT
38282887 AGTTTCCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAACTC
Found at i:38282946 original size:14 final size:13
Alignment explanation
Indices: 38282927--38282973 Score: 85
Period size: 13 Copynumber: 3.5 Consensus size: 13
38282917 TCAAGTTGTG
38282927 AAAAAAAATTTGA
1 AAAAAAAATTTGA
38282940 AAAAAAAATTGTGA
1 AAAAAAAATT-TGA
38282954 AAAAAAAATTTGA
1 AAAAAAAATTTGA
38282967 AAAAAAA
1 AAAAAAA
38282974 GAGAGCTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 20 0.61
14 13 0.39
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (13 bp):
AAAAAAAATTTGA
Found at i:38282951 original size:26 final size:27
Alignment explanation
Indices: 38282922--38282973 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
38282912 GGATATCAAG
38282922 TTGTG-AAAAAAAATTTGAAAAAAAAA
1 TTGTGAAAAAAAAATTTGAAAAAAAAA
38282948 TTGTGAAAAAAAAATTTGAAAAAAAA
1 TTGTGAAAAAAAAATTTGAAAAAAAA
38282974 GAGAGCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (27 bp):
TTGTGAAAAAAAAATTTGAAAAAAAAA
Found at i:38287607 original size:27 final size:29
Alignment explanation
Indices: 38287576--38287630 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
38287566 TTAGGACTTA
38287576 TCTTTT-AATT-T-CTTGCTGTCAATTTTT
1 TCTTTTAAATTATGCTTG-TGTCAATTTTT
38287603 TCTTTTAAATTATGCTTGTGTCAATTTT
1 TCTTTTAAATTATGCTTGTGTCAATTTT
38287631 ATTTAATCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 6 0.24
28 4 0.16
29 11 0.44
30 4 0.16
ACGTcount: A:0.18, C:0.13, G:0.09, T:0.60
Consensus pattern (29 bp):
TCTTTTAAATTATGCTTGTGTCAATTTTT
Done.