Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015292.1 Kokia drynarioides strain JFW-HI SEQ_130337, whole genome shotgun sequence
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: 338957
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 283 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:5788 original size:13 final size:13
Alignment explanation
Indices: 5770--5809 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
5760 TGTACTATTC
5770 TTGTTTTGTTTTT
1 TTGTTTTGTTTTT
*
5783 TTGTTTTCTTCTTT
1 TTGTTTTGTT-TTT
5797 TTGTTTTGGTTTT
1 TTGTTTT-GTTTT
5810 GGGATCCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 9 0.39
14 12 0.52
15 2 0.09
ACGTcount: A:0.00, C:0.05, G:0.15, T:0.80
Consensus pattern (13 bp):
TTGTTTTGTTTTT
Found at i:14752 original size:29 final size:29
Alignment explanation
Indices: 14720--14780 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
14710 AAAATGAGAC
*
14720 TTTTTGGATAC-CTAGGGGCAAAATGGTAA
1 TTTTTGGATACTCT-GGAGCAAAATGGTAA
*
14749 -TTTTGGATTCTCTGGAGCAAAATGGTAA
1 TTTTTGGATACTCTGGAGCAAAATGGTAA
14777 TTTT
1 TTTT
14781 GGGAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (29 bp):
TTTTTGGATACTCTGGAGCAAAATGGTAA
Found at i:14836 original size:28 final size:29
Alignment explanation
Indices: 14798--15103 Score: 114
Period size: 29 Copynumber: 10.5 Consensus size: 29
14788 TTTGAGGTTT
*
14798 AAAATGGAA-TTTTAGACATTCGAGGGTA
1 AAAATAGAATTTTTAGACATTCGAGGGTA
* * * *
14826 AAACA-ATAATTTTTAAGAAAATCGA-GATA
1 AAA-ATAGAATTTTT-AGACATTCGAGGGTA
14855 AAAATAGAATTTTTAGACATTCGAGGGT-
1 AAAATAGAATTTTTAGACATTCGAGGGTA
* **
14883 AAAATGGTAATTTTTGAGAGTTTCG-GGGTTA
1 AAAATAG-AATTTTT-AGACATTCGAGGG-TA
* * * * *
14914 AAAATGGAGTTTTTGGATATT-TAGGGGT-
1 AAAATAGAATTTTTAGACATTCGA-GGGTA
* * * ** *
14942 AAAATGGTAATTTTGAAAGTTTTG-GGGTAA
1 AAAATAG-AATTTTTAGACATTCGAGGGT-A
* * **
14972 AAAATGGAATTTTTGGAGGTTCGAGGGTA
1 AAAATAGAATTTTTAGACATTCGAGGGTA
* **
15001 AAAATATAATTTTTAGA-AGTTTTAGGGTCA
1 AAAATAGAATTTTTAGACA-TTCGAGGGT-A
* *
15031 AAAAT-GAAATTTTTGGA-AGTTTGAGGGTA
1 AAAATAG-AATTTTTAGACA-TTCGAGGGTA
* * * *
15060 AAAATATAATTTTT-GAAAGTTTTGAGGTTA
1 AAAATAGAATTTTTAGACA--TTCGAGGGTA
15090 AAAATAGAATTTTT
1 AAAATAGAATTTTT
15104 GGATAGTTTA
Statistics
Matches: 214, Mismatches: 42, Indels: 42
0.72 0.14 0.14
Matches are distributed among these distances:
28 33 0.15
29 91 0.43
30 83 0.39
31 7 0.03
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (29 bp):
AAAATAGAATTTTTAGACATTCGAGGGTA
Found at i:14927 original size:30 final size:29
Alignment explanation
Indices: 14874--15106 Score: 135
Period size: 30 Copynumber: 7.9 Consensus size: 29
14864 TTTTTAGACA
14874 TTCGAGGGT-AAAATGGTAATTTTTGAGAGT
1 TTCG-GGGTAAAAATGGTAATTTTTG-GAGT
* *
14904 TTCGGGGTTAAAAATGG-AGTTTTTGGATAT
1 TTCGGGG-TAAAAATGGTAATTTTTGGA-GT
* *
14934 TTAGGGGT-AAAATGGTAA-TTTTGAAAGT
1 TTCGGGGTAAAAATGGTAATTTTTG-GAGT
* *
14962 TTTGGGGTAAAAAATGG-AATTTTTGGAGG
1 TTCGGGGT-AAAAATGGTAATTTTTGGAGT
* *
14991 TTCGAGGGTAAAAAT-ATAATTTTTAGAAGT
1 TTCG-GGGTAAAAATGGTAATTTTT-GGAGT
** *
15021 TTTAGGGTCAAAAAT-GAAATTTTTGGAAGT
1 TTCGGGGT-AAAAATGGTAATTTTTGG-AGT
* *
15051 TT-GAGGGTAAAAAT-ATAATTTTTGAAAGT
1 TTCG-GGGTAAAAATGGTAATTTTTG-GAGT
* * *
15080 TTTGAGGTTAAAAATAG-AATTTTTGGA
1 TTCG-GGGTAAAAATGGTAATTTTTGGA
15107 TAGTTTAAGG
Statistics
Matches: 161, Mismatches: 25, Indels: 35
0.73 0.11 0.16
Matches are distributed among these distances:
28 20 0.12
29 53 0.33
30 81 0.50
31 7 0.04
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (29 bp):
TTCGGGGTAAAAATGGTAATTTTTGGAGT
Found at i:14944 original size:59 final size:60
Alignment explanation
Indices: 14877--15113 Score: 256
Period size: 59 Copynumber: 4.0 Consensus size: 60
14867 TTAGACATTC
* * * *
14877 GAGGGT-AAAATGGTAATTTTTGAGAGTTTCGGGGTTAAAAATGGAGTTTTTGGATA-TTTA
1 GAGGGTAAAAAT-ATAATTTTTGAAAGTTTTGGGGTTAAAAATGGAATTTTTGGA-AGTTTA
* * * *
14937 G-GGGT-AAAATGGTAA-TTTTGAAAGTTTTGGGGTAAAAAATGGAATTTTTGG-AGGTTC
1 GAGGGTAAAAAT-ATAATTTTTGAAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTA
* * *
14994 GAGGGTAAAAATATAATTTTT-AGAAGTTTTAGGGTCAAAAATGAAATTTTTGGAAGTTT-
1 GAGGGTAAAAATATAATTTTTGA-AAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTA
* *
15053 GAGGGTAAAAATATAATTTTTGAAAGTTTTGAGGTTAAAAATAGAATTTTTGGATAGTTTA
1 GAGGGTAAAAATATAATTTTTGAAAGTTTTGGGGTTAAAAATGGAATTTTTGGA-AGTTTA
15114 AGGACCTCTA
Statistics
Matches: 152, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
56 1 0.01
57 3 0.02
58 40 0.26
59 97 0.64
60 11 0.07
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (60 bp):
GAGGGTAAAAATATAATTTTTGAAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTA
Found at i:16203 original size:18 final size:16
Alignment explanation
Indices: 16174--16207 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16164 TATTAATTAT
16174 TTAATAAATATTATCA
1 TTAATAAATATTATCA
*
16190 TTAATAAA-ATTATTA
1 TTAATAAATATTATCA
16205 TTA
1 TTA
16208 TTATCATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAATAAATATTATCA
Found at i:16209 original size:24 final size:24
Alignment explanation
Indices: 16182--16227 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
16172 ATTTAATAAA
16182 TATTATCATTAATAAAATTATTAT
1 TATTATCATTAATAAAATTATTAT
*
16206 TATTATCATTAATGAAATTATT
1 TATTATCATTAATAAAATTATT
16228 TAATATATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTATCATTAATAAAATTATTAT
Found at i:16210 original size:18 final size:17
Alignment explanation
Indices: 16162--16210 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
16152 ATTAATTATT
16162 ATTATTAATTATTTAATAA
1 ATTATT-ATTA-TTAATAA
*
16181 A-TATTATCATTAATAAA
1 ATTATTATTATTAAT-AA
16198 ATTATTATTATTA
1 ATTATTATTATTA
16211 TCATTAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 5 0.19
17 6 0.23
18 14 0.54
19 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTATTATTATTAATAA
Found at i:17045 original size:17 final size:17
Alignment explanation
Indices: 17017--17096 Score: 99
Period size: 17 Copynumber: 4.7 Consensus size: 17
17007 ATTTTAAAGT
* *
17017 TTTAAGTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
17033 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
*
17051 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
*
17068 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
17085 TTTAAATTTAAA
1 TTTAAATTTAAA
17097 TTTAAAGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
16 3 0.05
17 50 0.88
18 4 0.07
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:17058 original size:6 final size:6
Alignment explanation
Indices: 17032--17123 Score: 84
Period size: 6 Copynumber: 15.8 Consensus size: 6
17022 GTTTAAAATT
* **
17032 ATTTCAA ATTTAA A-CTAA ATTTAA ATTTAA A-ACAA ATTTAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
** * *
17079 A-ACAA ATTTAA ATTTAA ATTTAA A-GTAA TTTTAA ATTTAA ATTTA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTA
17124 GAAATAAATT
Statistics
Matches: 67, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
5 13 0.19
6 50 0.75
7 4 0.06
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:17073 original size:23 final size:23
Alignment explanation
Indices: 17065--17133 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
17055 AATTTAAAAC
*
17065 AAATTTAAATTTAAAACAAATTT
1 AAATTTAAATTTAAAATAAATTT
* *
17088 AAATTTAAATTTAAAGTAATTTT
1 AAATTTAAATTTAAAATAAATTT
17111 AAATTTAAATTTAGAAATAAATT
1 AAATTTAAATTTA-AAATAAATT
17134 GAAAAATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 33 0.82
24 7 0.17
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (23 bp):
AAATTTAAATTTAAAATAAATTT
Found at i:19530 original size:43 final size:42
Alignment explanation
Indices: 19408--19615 Score: 169
Period size: 43 Copynumber: 4.9 Consensus size: 42
19398 GAAAACGCTA
* * ** * *
19408 CTATAGAACATGATCTTTAGTGGCGCTTTTCCCACAAAAGGCCC
1 CTATAGAACATGGTCTTTAGCGGCTTTTTTCCCAC-AAACG-CG
19452 CTATAGAACATGTGT-TTTAGCAGTGC--TTTTCCCACAAACGCTG
1 CTATAGAACATG-GTCTTTAGC-G-GCTTTTTTCCCACAAACGC-G
* * * *
19495 CTATAAAACATGGCCTTTAACGGCTTTTTTTCCACAAA---G
1 CTATAGAACATGGTCTTTAGCGGCTTTTTTCCCACAAACGCG
* *
19534 CTATAGAACATGGTCTTTAGCGG-TGCTTTACCCACAAACGCCG
1 CTATAGAACATGGTCTTTAGCGGCT-TTTTTCCCACAAACG-CG
* *
19577 CTGTAGAACATGGTCTTTAGCGGCATTTTTCCCACAAAC
1 CTATAGAACATGGTCTTTAGCGGCTTTTTTCCCACAAAC
19616 ACCACTAACA
Statistics
Matches: 133, Mismatches: 18, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
38 1 0.01
39 31 0.23
41 2 0.02
42 3 0.02
43 66 0.50
44 26 0.20
45 2 0.02
46 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
CTATAGAACATGGTCTTTAGCGGCTTTTTTCCCACAAACGCG
Found at i:19568 original size:82 final size:82
Alignment explanation
Indices: 19452--19614 Score: 229
Period size: 82 Copynumber: 2.0 Consensus size: 82
19442 CAAAAGGCCC
* *
19452 CTATAGAACATGTGTTTTAGCAGTGCTTTTCCCACAAACGCTGCTATAAAACATGGCCTTTAACG
1 CTATAGAACATGTGTTTTAGCAGTGCTTTACCCACAAACGCCGCTATAAAACATGGCCTTTAACG
* *
19517 GCTTTTTTTCCACAAAG
66 GCATTTTTCCCACAAAG
* * * * *
19534 CTATAGAACATG-GTCTTTAGCGGTGCTTTACCCACAAACGCCGCTGTAGAACATGGTCTTTAGC
1 CTATAGAACATGTGT-TTTAGCAGTGCTTTACCCACAAACGCCGCTATAAAACATGGCCTTTAAC
19598 GGCATTTTTCCCACAAA
65 GGCATTTTTCCCACAAA
19615 CACCACTAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 2 0.03
82 69 0.97
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (82 bp):
CTATAGAACATGTGTTTTAGCAGTGCTTTACCCACAAACGCCGCTATAAAACATGGCCTTTAACG
GCATTTTTCCCACAAAG
Found at i:23915 original size:33 final size:33
Alignment explanation
Indices: 23877--23944 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
23867 AACTCTTCAG
**
23877 TACCATCAAATAGAGTCATCTGAAATCTAAATC
1 TACCATCAAATAGAGTCATCCAAAATCTAAATC
*
23910 TACCATCGAATAGAGTCATCCAAAATCTAAATC
1 TACCATCAAATAGAGTCATCCAAAATCTAAATC
23943 TA
1 TA
23945 TGATTTCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (33 bp):
TACCATCAAATAGAGTCATCCAAAATCTAAATC
Found at i:38891 original size:30 final size:30
Alignment explanation
Indices: 38778--39066 Score: 125
Period size: 30 Copynumber: 9.7 Consensus size: 30
38768 TTATTTTATA
* *
38778 TAAAAATTATATTTTAACCCCTCAAAC-ATTC
1 TAAAAATTACATTTTAA-CCCT-AAACTCTTC
* * ** *
38809 CAAAATTTTGATTTTAACCCATGAACT-TTC
1 TAAAAATTACATTTTAACCC-TAAACTCTTC
* ** *
38839 TAAATATCGCATCTTGAA-CCTAAACTCTT-
1 TAAAAATTACAT-TTTAACCCTAAACTCTTC
* *
38868 TGAAAATTACATTTTAAGCCCTAAA-TTTTC
1 TAAAAATTACATTTTAA-CCCTAAACTCTTC
*
38898 TAAAAATTATATTTTAACCCATAAACT-TTC
1 TAAAAATTACATTTTAACCC-TAAACTCTTC
* * * *
38928 CAAAAATTATATTTTGATCCTTAAACT-TTC
1 TAAAAATTACATTTT-AACCCTAAACTCTTC
* * * *
38958 CAAAAATTATATTTTAACCCCTTGAACT-TTT
1 TAAAAATTACATTTTAA-CCC-TAAACTCTTC
*
38989 TAAAACTT-CAATTTTGAA-CCTAAACT-TTC
1 TAAAAATTAC-ATTTT-AACCCTAAACTCTTC
*** * * * *
39018 TAAAAATTGTGTTTTGATCTTGAACTCTT-
1 TAAAAATTACATTTTAACCCTAAACTCTTC
39047 TAAAAATTACATTTTAACCC
1 TAAAAATTACATTTTAACCC
39067 CCAAACTTTC
Statistics
Matches: 196, Mismatches: 45, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
28 5 0.03
29 58 0.30
30 91 0.46
31 40 0.20
32 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (30 bp):
TAAAAATTACATTTTAACCCTAAACTCTTC
Found at i:39013 original size:60 final size:59
Alignment explanation
Indices: 38870--39025 Score: 172
Period size: 60 Copynumber: 2.6 Consensus size: 59
38860 AAACTCTTTG
* *
38870 AAAATTACATTTT-AAGCCCTAAATTTTCTAAAAATTATATTTTAACCCATAAACTTTCCA
1 AAAATTATATTTTGAA--CCTAAACTTTCTAAAAATTATATTTTAACCCATAAACTTTCCA
* * * * **
38930 AAAATTATATTTTGATCCTTAAACTTTCCAAAAATTATATTTTAACCCCTTGAACTTTTTA
1 AAAATTATATTTTGAACC-TAAACTTTCTAAAAATTATATTTTAA-CCCATAAACTTTCCA
*
38991 AAACTTCA-ATTTTGAACCTAAACTTTCTAAAAATT
1 AAAATT-ATATTTTGAACCTAAACTTTCTAAAAATT
39026 GTGTTTTGAT
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
59 2 0.02
60 52 0.64
61 26 0.32
62 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (59 bp):
AAAATTATATTTTGAACCTAAACTTTCTAAAAATTATATTTTAACCCATAAACTTTCCA
Found at i:51242 original size:38 final size:39
Alignment explanation
Indices: 51186--51712 Score: 412
Period size: 38 Copynumber: 13.5 Consensus size: 39
51176 TCATGCCCCG
* *
51186 ATCAT-AGGGTAGATTGAAGCATCCAATCTTTTACCCTA
1 ATCATGAGGGCAGATTGAAGCATCCAATCTCTTACCCTA
* * **
51224 ATCA-GAGGGCAAATTGAAG-ACGCCAATCTCTTACCCCG
1 ATCATGAGGGCAGATTGAAGCA-TCCAATCTCTTACCCTA
*
51262 ATCATG-GGGCAGATTAAAGCATCCAATCT-TTACCCTA
1 ATCATGAGGGCAGATTGAAGCATCCAATCTCTTACCCTA
* * * *
51299 ATCA-GAGCGTAGATTGAAGACATGCAATCTCTTACCAC-G
1 ATCATGAGGGCAGATTGAAG-CATCCAATCTCTTACC-CTA
*
51338 ATCATG-GGGCAGATTGAAGCATCCAATCTTTTACCCTA
1 ATCATGAGGGCAGATTGAAGCATCCAATCTCTTACCCTA
* **
51376 ATCA-GAGGGTAGATTGAAGACA-CCAATCTCTTACCCCG
1 ATCATGAGGGCAGATTGAAG-CATCCAATCTCTTACCCTA
* * * *
51414 ATCATGA-GACAGATTGAAGCATTTCAATCTTTTACCTTA
1 ATCATGAGGGCAGATTGAAGCA-TCCAATCTCTTACCCTA
* * * **
51453 ATCA-AAAGGCAGATTGAAGACATGCAATCTCTTACCCCG
1 ATCATGAGGGCAGATTGAAG-CATCCAATCTCTTACCCTA
* *
51492 ATCATGA-GGCAGATTGAAGCA-CCTAATCTTTTACCTTA
1 ATCATGAGGGCAGATTGAAGCATCC-AATCTCTTACCCTA
* * *
51530 ATCA-GAAGGTAGATTGAAGACGATCCAATCTCTTA-CCTCG
1 ATCATGAGGGCAGATTGAAG-C-ATCCAATCTCTTACCCT-A
* *
51570 ATCATG-GGGTAAATTGAAGCATCCAATCTCTTACCCCT-
1 ATCATGAGGGCAGATTGAAGCATCCAATCTCTTA-CCCTA
51608 ATCATGA-GGCAGATTGAAGCATCAGTATCCAATCTCTTACCCCT-
1 ATCATGAGGGCAGATTGAAG---C---ATCCAATCTCTTA-CCCTA
* *
51652 ATCATG-GGGCAAATTGAAGCATCCAATCTTTTACCCTTA
1 ATCATGAGGGCAGATTGAAGCATCCAATCTCTTACCC-TA
* *
51691 ATTAAGAGGGGCAGATTGAAGC
1 ATCATGA-GGGCAGATTGAAGC
51713 TACCATCTCA
Statistics
Matches: 392, Mismatches: 58, Indels: 75
0.75 0.11 0.14
Matches are distributed among these distances:
36 1 0.00
37 31 0.08
38 187 0.48
39 88 0.22
40 32 0.08
41 18 0.05
44 35 0.09
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (39 bp):
ATCATGAGGGCAGATTGAAGCATCCAATCTCTTACCCTA
Found at i:51327 original size:76 final size:76
Alignment explanation
Indices: 51181--51711 Score: 631
Period size: 76 Copynumber: 6.8 Consensus size: 76
51171 ACAGGTCATG
* * *
51181 CCCCGATCATAGGGTAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAGAC-
1 CCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA-GGCAGATTGAAGACA
*
51245 GCCAATCTCTTA
65 TCCAATCTCTTA
* *
51257 CCCCGATCATGGGGCAGATTAAAGCATCCAATC-TTTACCCTAATCAGAGCGTAGATTGAAGACA
1 CCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAG-GCAGATTGAAGACA
*
51321 TGCAATCTCTTA
65 TCCAATCTCTTA
* *
51333 CCACGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGTAGATTGAAGACA
1 CCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA-GGCAGATTGAAGACA
51398 -CCAATCTCTTA
65 TCCAATCTCTTA
* * * * *
51409 CCCCGATCATGAGACAGATTGAAGCATTTCAATCTTTTACCTTAATCAAAAGGCAGATTGAAGAC
1 CCCCGATCATGGGGCAGATTGAAGCA-TCCAATCTTTTACCCTAATC-AGAGGCAGATTGAAGAC
*
51474 ATGCAATCTCTTA
64 ATCCAATCTCTTA
* * *
51487 CCCCGATCATGAGGCAGATTGAAGCA-CCTAATCTTTTACCTTAATCAGAAGGTAGATTGAAGAC
1 CCCCGATCATGGGGCAGATTGAAGCATCC-AATCTTTTACCCTAATCAG-AGGCAGATTGAAGAC
51551 GATCCAATCTCTTA
64 -ATCCAATCTCTTA
* * * *
51565 CCTCGATCATGGGGTAAATTGAAGCATCCAATCTCTTACCCCT-ATCATGAGGCAGATTGAAGCA
1 CCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTA-CCCTAATCA-GAGGCAGATTGAAG-A
51629 TCAGTATCCAATCTCTTA
63 -C---ATCCAATCTCTTA
* * *
51647 CCCCTATCATGGGGCAAATTGAAGCATCCAATCTTTTACCCTTAATTAAGAGGGGCAGATTGAAG
1 CCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCC-TAA-TCAGA--GGCAGATTGAAG
51712 CTACCATCTC
Statistics
Matches: 397, Mismatches: 36, Indels: 35
0.85 0.08 0.07
Matches are distributed among these distances:
74 1 0.00
75 26 0.07
76 106 0.27
77 92 0.23
78 96 0.24
79 7 0.02
80 1 0.00
81 3 0.01
82 48 0.12
83 3 0.01
84 2 0.01
85 12 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (76 bp):
CCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGCAGATTGAAGACAT
CCAATCTCTTA
Found at i:53441 original size:60 final size:60
Alignment explanation
Indices: 53339--53578 Score: 247
Period size: 60 Copynumber: 4.0 Consensus size: 60
53329 TTATTTATAT
* *
53339 AAAAATTACATTTTG-CCCTCGAACTTTCCAAAACTTTGATTTTGACCCCCAAAATTTCC
1 AAAAATTACATTTTGACCCTCGAACTTTCCAAAAATTTGATTTTGACCCCCAAACTTTCC
* * *
53398 AAAAATTATATTTTGACCCTCGAACTTTCTAAAAATTAT-ATTTTGACCCTCAAACTTTCC
1 AAAAATTACATTTTGACCCTCGAACTTTCCAAAAATT-TGATTTTGACCCCCAAACTTTCC
* * * * * * *
53458 AAAAAGTATATTTTAACCC-CTAAACTTTCCAAAACTTTGATTTTGA-CCTCAAACTTTCT
1 AAAAATTACATTTTGACCCTC-GAACTTTCCAAAAATTTGATTTTGACCCCCAAACTTTCC
* * * * ** * *
53517 AAAAATCACATTTTGA-TCTTGAACTCTCCAAAAATTACATTTTAACCCCTAAACTTTCC
1 AAAAATTACATTTTGACCCTCGAACTTTCCAAAAATTTGATTTTGACCCCCAAACTTTCC
53576 AAA
1 AAA
53579 TTTATGTTTT
Statistics
Matches: 149, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
58 20 0.13
59 53 0.36
60 75 0.50
61 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (60 bp):
AAAAATTACATTTTGACCCTCGAACTTTCCAAAAATTTGATTTTGACCCCCAAACTTTCC
Found at i:53529 original size:29 final size:29
Alignment explanation
Indices: 53339--53578 Score: 201
Period size: 30 Copynumber: 8.1 Consensus size: 29
53329 TTATTTATAT
* *
53339 AAAAATTACATTTTGCCCTCGAACTTTCC
1 AAAAATTACATTTTGACCTCAAACTTTCC
* ** * *
53368 AAAACTTTGATTTTGACCCCCAAAATTTCC
1 AAAAATTACATTTTGA-CCTCAAACTTTCC
* * *
53398 AAAAATTATATTTTGACCCTCGAACTTTCT
1 AAAAATTACATTTTGA-CCTCAAACTTTCC
*
53428 AAAAATTATATTTTGACCCTCAAACTTTCC
1 AAAAATTACATTTTGA-CCTCAAACTTTCC
* * * *
53458 AAAAAGTATATTTTAACCCCTAAACTTTCC
1 AAAAATTACATTTTGACCTC-AAACTTTCC
* ** *
53488 AAAACTTTGATTTTGACCTCAAACTTTCT
1 AAAAATTACATTTTGACCTCAAACTTTCC
* * ** *
53517 AAAAATCACATTTTGATCTTGAACTCTCC
1 AAAAATTACATTTTGACCTCAAACTTTCC
* *
53546 AAAAATTACATTTTAACCCCTAAACTTTCC
1 AAAAATTACATTTTGACCTC-AAACTTTCC
53576 AAA
1 AAA
53579 TTTATGTTTT
Statistics
Matches: 166, Mismatches: 42, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
29 58 0.35
30 108 0.65
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTGACCTCAAACTTTCC
Found at i:53604 original size:88 final size:89
Alignment explanation
Indices: 53338--53595 Score: 236
Period size: 90 Copynumber: 2.9 Consensus size: 89
53328 CTTATTTATA
* * * ** ** * * *
53338 TAAAAATTACATTTTG-CCCTCGAACTTTCCAAAACTTTGATTTTGACCCCCAAAATTTCCAAAA
1 TAAAAATCACATTTTGACCCTCAAACTCTCCAAAAAGTACATTTTAACCCCTAAACTTTCCAAAA
* * *
53402 ATTAT-ATTTTGACCCTCGAACTTTC
66 CTT-TGATTTTAACCC-CAAACTTTC
* * * *
53427 TAAAAATTATATTTTGACCCTCAAACTTTCCAAAAAGTATATTTTAACCCCTAAACTTTCCAAAA
1 TAAAAATCACATTTTGACCCTCAAACTCTCCAAAAAGTACATTTTAACCCCTAAACTTTCCAAAA
* *
53492 CTTTGATTTTGACCTCAAACTTTC
66 CTTTGATTTTAACCCCAAACTTTC
* ** *
53516 TAAAAATCACATTTTGA-TCTTGAACTCTCCAAAAATTACATTTTAACCCCTAAACTTTCC-AAA
1 TAAAAATCACATTTTGACCCTCAAACTCTCCAAAAAGTACATTTTAACCCCTAAACTTTCCAAAA
* *
53579 TTTATGTTTTTAACCCC
66 CTT-TGATTTTAACCCC
53596 GTTTTTTCTT
Statistics
Matches: 142, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
87 5 0.04
88 47 0.33
89 39 0.27
90 51 0.36
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (89 bp):
TAAAAATCACATTTTGACCCTCAAACTCTCCAAAAAGTACATTTTAACCCCTAAACTTTCCAAAA
CTTTGATTTTAACCCCAAACTTTC
Found at i:55932 original size:30 final size:30
Alignment explanation
Indices: 55898--56028 Score: 191
Period size: 30 Copynumber: 4.5 Consensus size: 30
55888 GGTTGTTTTT
55898 AATAATTAAATATTTAATTAAATATAATTA
1 AATAATTAAATATTTAATTAAATATAATTA
* * *
55928 AATAATTAAATATTTAGGTT--GT-T--TTT
1 AATAATTAAATATTTA-ATTAAATATAATTA
55954 AATAATTAAATATTTAATTAAATATAATTA
1 AATAATTAAATATTTAATTAAATATAATTA
55984 AATAATTAAATATTTAATTAAATATAATTA
1 AATAATTAAATATTTAATTAAATATAATTA
56014 AATAATTAAATATTT
1 AATAATTAAATATTT
56029 GGATTGTTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.02
26 18 0.20
27 1 0.01
28 2 0.02
29 1 0.01
30 63 0.71
31 2 0.02
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
AATAATTAAATATTTAATTAAATATAATTA
Found at i:55948 original size:56 final size:56
Alignment explanation
Indices: 55875--55999 Score: 232
Period size: 56 Copynumber: 2.2 Consensus size: 56
55865 ATTCATTTTG
* *
55875 AATTAAATTTTTGGGTTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAAT
1 AATTAAATATTTAGGTTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAAT
55931 AATTAAATATTTAGGTTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAAT
1 AATTAAATATTTAGGTTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAAT
55987 AATTAAATATTTA
1 AATTAAATATTTA
56000 ATTAAATATA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (56 bp):
AATTAAATATTTAGGTTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAAT
Found at i:55962 original size:26 final size:26
Alignment explanation
Indices: 55875--55969 Score: 93
Period size: 26 Copynumber: 3.5 Consensus size: 26
55865 ATTCATTTTG
* *
55875 AATTAAATTTTTGGGTTGTTTTTAAT
1 AATTAAATATTTAGGTTGTTTTTAAT
* * *
55901 AATTAAATATTTA-ATTAAATATAATTAAAT
1 AATTAAATATTTAGGTT--GT-T--TTTAAT
55931 AATTAAATATTTAGGTTGTTTTTAAT
1 AATTAAATATTTAGGTTGTTTTTAAT
55957 AATTAAATATTTA
1 AATTAAATATTTA
55970 ATTAAATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
25 2 0.04
26 29 0.53
27 1 0.02
28 2 0.04
29 1 0.02
30 18 0.33
31 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (26 bp):
AATTAAATATTTAGGTTGTTTTTAAT
Found at i:55991 original size:18 final size:18
Alignment explanation
Indices: 55968--56026 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
55958 ATTAAATATT
55968 TAATTAAATATAATTAAA
1 TAATTAAATATAATTAAA
55986 TAATT-AA-AT-ATT---
1 TAATTAAATATAATTAAA
55998 TAATTAAATATAATTAAA
1 TAATTAAATATAATTAAA
56016 TAATTAAATAT
1 TAATTAAATAT
56027 TTGGATTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
12 5 0.14
13 2 0.06
14 2 0.06
15 6 0.17
16 2 0.06
17 2 0.06
18 16 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATTAAATATAATTAAA
Found at i:55997 original size:86 final size:86
Alignment explanation
Indices: 55898--56056 Score: 293
Period size: 86 Copynumber: 1.8 Consensus size: 86
55888 GGTTGTTTTT
55898 AATAATTAAATATTTAATTAAATATAATTAAATAATTAAATATTTAGG-TTGTTTTTAATAATTA
1 AATAATTAAATATTTAATTAAATATAATTAAATAATTAAATATTT-GGATTGTTTTTAATAATTA
*
55962 AATATTTAATTAAATATAATTA
65 AATAATTAATTAAATATAATTA
55984 AATAATTAAATATTTAATTAAATATAATTAAATAATTAAATATTTGGATTGTTTTTAATAATTAA
1 AATAATTAAATATTTAATTAAATATAATTAAATAATTAAATATTTGGATTGTTTTTAATAATTAA
56049 ATAATTAA
66 ATAATTAA
56057 ATATTAGGAT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
85 2 0.03
86 69 0.97
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (86 bp):
AATAATTAAATATTTAATTAAATATAATTAAATAATTAAATATTTGGATTGTTTTTAATAATTAA
ATAATTAATTAAATATAATTA
Found at i:56050 original size:34 final size:34
Alignment explanation
Indices: 56007--56093 Score: 156
Period size: 34 Copynumber: 2.6 Consensus size: 34
55997 TTAATTAAAT
*
56007 ATAATTAAATAATTAAATATTTGGATTGTTTTTA
1 ATAATTAAATAATTAAATATTAGGATTGTTTTTA
*
56041 ATAATTAAATAATTAAATATTAGGATTGTTTTTT
1 ATAATTAAATAATTAAATATTAGGATTGTTTTTA
56075 ATAATTAAATAATTAAATA
1 ATAATTAAATAATTAAATA
56094 GTTAAATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (34 bp):
ATAATTAAATAATTAAATATTAGGATTGTTTTTA
Found at i:59960 original size:23 final size:24
Alignment explanation
Indices: 59911--59960 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
59901 TAAAAACACC
*
59911 GTTATTGTTTTACTTTTTGCAGTT
1 GTTATTGTTTTACTTTTTGCAGGT
* *
59935 GTTATTTTTTTATTTTTTGC-GGT
1 GTTATTGTTTTACTTTTTGCAGGT
59958 GTT
1 GTT
59961 TATGAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.10, C:0.06, G:0.18, T:0.66
Consensus pattern (24 bp):
GTTATTGTTTTACTTTTTGCAGGT
Found at i:65090 original size:22 final size:21
Alignment explanation
Indices: 65065--65112 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
65055 CAAATATTGA
*
65065 TTAATAATAGGATAAATTAAGG
1 TTAATAAGAGGATAAATTAA-G
* * *
65087 TTAAAAAGATGATTAATTAAG
1 TTAATAAGAGGATAAATTAAG
65108 TTAAT
1 TTAAT
65113 TATGAAAGTC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (21 bp):
TTAATAAGAGGATAAATTAAG
Found at i:65966 original size:43 final size:43
Alignment explanation
Indices: 65914--66014 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 43
65904 GTATAAAAAG
*
65914 GAAGACTCATGTCTCAGGGGGAGCATGAGAAATTGTGTAAATA
1 GAAGACTCATGTCTCAGGGGGAGCATAAGAAATTGTGTAAATA
*
65957 GAAGACTCATATCTCAGGGGGAGCATAAGAAATTGTGTAAATA
1 GAAGACTCATGTCTCAGGGGGAGCATAAGAAATTGTGTAAATA
*
66000 GAAGACTCAGGTCTC
1 GAAGACTCATGTCTC
66015 GAAATGAGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.23
Consensus pattern (43 bp):
GAAGACTCATGTCTCAGGGGGAGCATAAGAAATTGTGTAAATA
Found at i:66150 original size:47 final size:41
Alignment explanation
Indices: 66000--66152 Score: 243
Period size: 41 Copynumber: 3.7 Consensus size: 41
65990 TGTGTAAATA
*
66000 GAAGACTCAGGTCTCGAAATGAGGATGAGATTATGAATAAG
1 GAAGACTCATGTCTCGAAATGAGGATGAGATTATGAATAAG
66041 GAAGACTCATGTCTCGAAATGAGGATGAGATTATGAATAAG
1 GAAGACTCATGTCTCGAAATGAGGATGAGATTATGAATAAG
* * *
66082 GAACACTCATGTCTCGAAATGAGGATGAGATTTTGATTAAG
1 GAAGACTCATGTCTCGAAATGAGGATGAGATTATGAATAAG
* * *
66123 AAAGACTCATGTCTCGAGATGAGAATGAGA
1 GAAGACTCATGTCTCGAAATGAGGATGAGA
66153 ATGTTGTTAG
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (41 bp):
GAAGACTCATGTCTCGAAATGAGGATGAGATTATGAATAAG
Found at i:66181 original size:42 final size:41
Alignment explanation
Indices: 66000--66183 Score: 203
Period size: 41 Copynumber: 4.5 Consensus size: 41
65990 TGTGTAAATA
* * *
66000 GAAGACTCAGGTCTCGAAATGAGGATGAGAT-TATGAATAAG
1 GAAGACTCATGTCTCGAAATGAGAATGAGATGT-TGATTAAG
* *
66041 GAAGACTCATGTCTCGAAATGAGGATGAGAT-TATGAATAAG
1 GAAGACTCATGTCTCGAAATGAGAATGAGATGT-TGATTAAG
* * *
66082 GAACACTCATGTCTCGAAATGAGGATGAGATTTTGATTAAG
1 GAAGACTCATGTCTCGAAATGAGAATGAGATGTTGATTAAG
* *
66123 AAAGACTCATGTCTCGAGATGAGAATGAGAATGTTG-TTAGAG
1 GAAGACTCATGTCTCGAAATGAGAATGAG-ATGTTGATTA-AG
* *
66165 GAAGACTTATGACTCGAAA
1 GAAGACTCATGTCTCGAAA
66184 GAGCATAAGG
Statistics
Matches: 128, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
41 105 0.82
42 23 0.18
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.25
Consensus pattern (41 bp):
GAAGACTCATGTCTCGAAATGAGAATGAGATGTTGATTAAG
Found at i:72298 original size:22 final size:21
Alignment explanation
Indices: 72273--72320 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
72263 CAAATATTGA
*
72273 TTAATAATAGGATAAATTAAGG
1 TTAATAAGAGGATAAATTAA-G
* * *
72295 TTAAAAAGATGATTAATTAAG
1 TTAATAAGAGGATAAATTAAG
72316 TTAAT
1 TTAAT
72321 TATGAAAGTC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (21 bp):
TTAATAAGAGGATAAATTAAG
Found at i:73230 original size:41 final size:41
Alignment explanation
Indices: 73168--73352 Score: 219
Period size: 41 Copynumber: 4.5 Consensus size: 41
73158 TTGTATAAAT
* ** * *
73168 GGAATACTCATGTCTTAAAATGAGAATGAGATTATGAATAA
1 GGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATTAA
* *
73209 GGAAGACTTATGTCTCGAAATGAGAATGATATTTTGATTAA
1 GGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATTAA
*
73250 GGAAGACTCATGTCTCGAAATGAGAATGATATTTTGATTAA
1 GGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATTAA
* * * *
73291 GGAAGACTCATGTTTCGAGATGAGAATAAGAATGTTG-TTAAA
1 GGAAGACTCATGTCTCGAAATGAGAATGAG-ATTTTGATT-AA
* *
73333 GGAAGACTTATGACTCGAAA
1 GGAAGACTCATGTCTCGAAA
73353 GAGCATAAGG
Statistics
Matches: 125, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
41 102 0.82
42 23 0.18
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (41 bp):
GGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATTAA
Found at i:80521 original size:18 final size:19
Alignment explanation
Indices: 80498--80539 Score: 68
Period size: 18 Copynumber: 2.2 Consensus size: 19
80488 ACAAAAGGGA
80498 AAAAGAAAAAGAAA-ACTT
1 AAAAGAAAAAGAAATACTT
80516 AAAAGAAAAAGAAATTACTT
1 AAAAGAAAAAGAAA-TACTT
80536 AAAA
1 AAAA
80540 TTTTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 14 0.64
20 8 0.36
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.14
Consensus pattern (19 bp):
AAAAGAAAAAGAAATACTT
Found at i:82267 original size:20 final size:20
Alignment explanation
Indices: 82223--82269 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
82213 AAATTTCAAA
* *
82223 AATTCAAAAGAATATTAAAAC
1 AATT-AAAAAAATATAAAAAC
82244 --TTAAAAAAATATAAAAAC
1 AATTAAAAAAATATAAAAAC
82262 AATTAAAA
1 AATTAAAA
82270 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 14 0.64
19 2 0.09
20 6 0.27
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (20 bp):
AATTAAAAAAATATAAAAAC
Found at i:82294 original size:19 final size:19
Alignment explanation
Indices: 82247--82296 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
82237 TTAAAACTTA
*
82247 AAAAAATATAAAAACAATT
1 AAAAATTATAAAAACAATT
* * *
82266 AAAATTTTATAAAAATATTT
1 AAAA-ATTATAAAAACAATT
82286 AAAAATTATAA
1 AAAAATTATAA
82297 GAGTCATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAACAATT
Found at i:82680 original size:20 final size:20
Alignment explanation
Indices: 82657--82698 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
82647 TTCTTTTCCA
82657 TTCATATTTATAATTTTTAT
1 TTCATATTTATAATTTTTAT
82677 TTCATATTTATAATTTTTAT
1 TTCATATTTATAATTTTTAT
82697 TT
1 TT
82699 TATCTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTCATATTTATAATTTTTAT
Found at i:84119 original size:26 final size:26
Alignment explanation
Indices: 84062--84119 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
84052 TGCCTCATTA
*
84062 TTTT-TTCTTTTTCCTTTTTCTCTCC
1 TTTTCTTCTCTTTCCTTTTTCTCTCC
* * *
84087 TTCTCTTCTCTTTCCTTTTTCTTTTC
1 TTTTCTTCTCTTTCCTTTTTCTCTCC
84113 TTTTCTT
1 TTTTCTT
84120 AATTTCCTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTCTTCTCTTTCCTTTTTCTCTCC
Found at i:89349 original size:22 final size:24
Alignment explanation
Indices: 89315--89358 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
89305 CTTGGACCAA
89315 GATTTTCAAGATT-TT-AAATTTT
1 GATTTTCAAGATTCTTGAAATTTT
**
89337 GATTTTCTTGATTCTTGAAATT
1 GATTTTCAAGATTCTTGAAATT
89359 GTTTGGAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 2 0.11
24 5 0.28
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (24 bp):
GATTTTCAAGATTCTTGAAATTTT
Found at i:90271 original size:20 final size:18
Alignment explanation
Indices: 90242--90284 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
90232 GATTATCCTC
*
90242 TTTTATAATTTTAATAGTT
1 TTTTATAATTTT-ATAATT
90261 TTTTCATAATTTTATAATT
1 TTTT-ATAATTTTATAATT
90280 TTTTA
1 TTTTA
90285 AAAAACAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 13 0.59
20 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTATAATT
Found at i:90440 original size:16 final size:17
Alignment explanation
Indices: 90419--90452 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
90409 ATTTTTAACA
90419 TATTTTAAAATA-ATTT
1 TATTTTAAAATATATTT
90435 TATTTTAAAATATATTT
1 TATTTTAAAATATATTT
90452 T
1 T
90453 TTACTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTAAAATATATTT
Found at i:91177 original size:18 final size:17
Alignment explanation
Indices: 91145--91182 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
91135 GGGTGACTAG
*
91145 AATTCTTGTTAAAATAA
1 AATTCTTGGTAAAATAA
91162 AATTCATTGGTAAAATAA
1 AATTC-TTGGTAAAATAA
91180 AAT
1 AAT
91183 AAAAGTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (17 bp):
AATTCTTGGTAAAATAA
Found at i:94194 original size:17 final size:17
Alignment explanation
Indices: 94172--94207 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
94162 TGGAGAACTA
* *
94172 GTTCGTTGAGAGTTCTT
1 GTTCGTAGAGAATTCTT
94189 GTTCGTAGAGAATTCTT
1 GTTCGTAGAGAATTCTT
94206 GT
1 GT
94208 CAAGGTGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.11, G:0.28, T:0.44
Consensus pattern (17 bp):
GTTCGTAGAGAATTCTT
Found at i:94254 original size:41 final size:41
Alignment explanation
Indices: 94197--94289 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
94187 TTGTTCGTAG
94197 AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACT
*
94238 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACT
94279 AGAATTCTTGT
1 AGAATTCTTGT
94290 AAAAATAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.27, C:0.06, G:0.30, T:0.37
Consensus pattern (41 bp):
AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACT
Found at i:96652 original size:12 final size:12
Alignment explanation
Indices: 96635--96659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96625 TTGTTATATG
96635 ATGAATGCTATT
1 ATGAATGCTATT
96647 ATGAATGCTATT
1 ATGAATGCTATT
96659 A
1 A
96660 ATTCTTTAAT
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:101516 original size:143 final size:142
Alignment explanation
Indices: 101221--101482 Score: 336
Period size: 143 Copynumber: 1.8 Consensus size: 142
101211 TTTTATTATT
* *
101221 ATTTTATTTACTTTTTCAAAATTTTGATAATTCTTAATATTAAATTATAAATTAAACTTTATAAT
1 ATTTAATTTAATTTTTCAAAATTTTGATAATTCTTAATATTAAATTATAAATTAAACTTTATAAT
*
101286 TTATACTAATTATTATAAAGAATTTGAATCAAAATTTGTTTTCTTTAAAATTTTAAATTTAAATA
66 TTATACTAATCATTATAAAGAATTTGAATCAAAA--T-TTTTCTTTAAAATTTTAAATTTAAATA
* **
101351 AAGTTTTTCTTTTAA
128 AAGTTATAATTTTAA
*
101366 ATTTAATTTAATTTTTC-AAATTTTGATAATTCTTAATATT-AATTATAAATTAAATTTTATAAT
1 ATTTAATTTAATTTTTCAAAATTTTGATAATTCTTAATATTAAATTATAAATTAAACTTTATAAT
* *
101429 TTATATTAATCATTATCAAA-AAGTTTGAAAT-AAGAA-TTTTCATTTAAAGTTTTA
66 TTATACTAATCATTAT-AAAGAA-TTTG-AATCAA-AATTTTTC-TTTAAAATTTTA
101483 TTTTTCAAAG
Statistics
Matches: 106, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
141 5 0.05
142 11 0.10
143 38 0.36
144 32 0.30
145 20 0.19
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (142 bp):
ATTTAATTTAATTTTTCAAAATTTTGATAATTCTTAATATTAAATTATAAATTAAACTTTATAAT
TTATACTAATCATTATAAAGAATTTGAATCAAAATTTTTCTTTAAAATTTTAAATTTAAATAAAG
TTATAATTTTAA
Found at i:101519 original size:107 final size:99
Alignment explanation
Indices: 101376--101650 Score: 383
Period size: 107 Copynumber: 2.7 Consensus size: 99
101366 ATTTAATTTA
101376 ATTTTTCAAATTTTGATAATTCTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATCA
1 ATTTTTCAAATTTTGATAATTCTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATCA
*
101441 TTATCAAAAAGTTTGAAATAAGAATTTTCATTTAAAGTTTT
66 TTATC-AAAA-TTTGAAATAAG-ATTTTC---T-AACTTTT
* *
101482 ATTTTTCAAAGTGTTGATAATTCTTAATATTAATTATAAATTAAATTTTATAATTAATATTAATC
1 ATTTTTCAAA-TTTTGATAATTCTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATC
* *
101547 ATTATCAAAATTTGAGATTAGATTTTCTAACTTTT
65 ATTATCAAAATTTGAAATAAGATTTTCTAACTTTT
*
101582 A--TTTCAAAATTTTGATAATTCTTAATATTAATTATAAATTAAAATTTAATAATTTATATTAAT
1 ATTTTTC-AAATTTTGATAATTCTTAATATTAATTATAAATT-AAATTTTATAATTTATATTAAT
*
101645 TATTAT
64 CATTAT
101651 TAAGATTTTG
Statistics
Matches: 157, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
98 34 0.22
99 28 0.18
100 7 0.04
101 1 0.01
104 6 0.04
105 9 0.06
106 14 0.09
107 58 0.37
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.49
Consensus pattern (99 bp):
ATTTTTCAAATTTTGATAATTCTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATCA
TTATCAAAATTTGAAATAAGATTTTCTAACTTTT
Found at i:101674 original size:87 final size:86
Alignment explanation
Indices: 101583--101745 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 86
101573 CTAACTTTTA
* *
101583 TTTCAAAATTTTGATAATTCTTAATATTAATTATAAATTAAA-ATTTAATAATTTATATTAATTA
1 TTTCAAAATATTGATAATTCTTAATATTAATTATAAATTAAATA-TT-ATAATTTATATTAACTA
*
101647 TTATTAAGATTTTGTTCTTCATT
64 TTATCAAGATTTTGTTCTTCATT
*
101670 TTTCAAAATATTGATAATTTTTAATATTAATTATAAATTAAATATTATAATTTATATTAACTATT
1 TTTCAAAATATTGATAATTCTTAATATTAATTATAAATTAAATATTATAATTTATATTAACTATT
101735 ATCAAGATTTT
66 ATCAAGATTTT
101746 TCTTTTAAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
86 28 0.39
87 42 0.59
88 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (86 bp):
TTTCAAAATATTGATAATTCTTAATATTAATTATAAATTAAATATTATAATTTATATTAACTATT
ATCAAGATTTTGTTCTTCATT
Found at i:101873 original size:87 final size:88
Alignment explanation
Indices: 101774--101947 Score: 262
Period size: 87 Copynumber: 2.0 Consensus size: 88
101764 TTTTTCTTTC
* * *
101774 TCAAAGTTTTGATAAT-TATTAACATTGATTATAAATAAAATTTTATA-ATTTTTATTAATTATT
1 TCAAAGTGTTGATAATCT-TTAACATTAATTATAAATAAAATTTTATATATTTTTATTAATCATT
* *
101837 ATCATAAGTTTTCATTAAAATTTT
65 ATCAAAAGTTTGCATTAAAATTTT
* *
101861 TCAAAGTGTTGATAATCTTTAATATTAATTATAAATAAAATTTTATATTTTTTTATTAATCATTA
1 TCAAAGTGTTGATAATCTTTAACATTAATTATAAATAAAATTTTATATATTTTTATTAATCATTA
101926 TCAAAAGTTTGCATTAAAATTT
66 TCAAAAGTTTGCATTAAAATTT
101948 CTTTTTTAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
87 42 0.54
88 36 0.46
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (88 bp):
TCAAAGTGTTGATAATCTTTAACATTAATTATAAATAAAATTTTATATATTTTTATTAATCATTA
TCAAAAGTTTGCATTAAAATTTT
Found at i:101892 original size:189 final size:184
Alignment explanation
Indices: 101482--101936 Score: 513
Period size: 189 Copynumber: 2.4 Consensus size: 184
101472 TTAAAGTTTT
*
101482 ATTTTTCAAAGTGTTGATAATTCTTAATATTAATTATAAATTAAATTTTATAATTAATATTAATC
1 ATTTTTCAAAGTGTTGATAATT-TTAATATTAATTATAAATTAAATTTTATAATTTATATTAATC
* * * *
101547 ATTATCAAAATTTGAGATTAGATTTTCTAACTTTTATTTCAAAATTTTGATAATTCTTAATATTA
65 ATTATCAAAATTTGAGATTAAATTTTATAACTTTTATTTCAAAATTTTGATAATTATTAACATTA
* ***
101612 ATTATAAATTAAAATTTAATAATTTATATTAATTATTATTAAGATTTTGTTCTTC
130 ATTATAAATTAAAATTTAATAATTTATATTAATTATTATTAAGATTTTATTCAAA
* * *
101667 ATTTTTCAAAATATTGATAATTTTTAATATTAATTATAAATTAAATATTATAATTTATATTAA-C
1 ATTTTTCAAAGTGTTGATAA-TTTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATC
* **** *** * *
101731 TATTATCAAGATTTTTCTTTTAAATTCTTATTTTTTTTCTTTCTCAAAGTTTTGATAATTATTAA
65 -ATTATCAA-AATTTGAGATTAAATT-TTATAACTTTT-ATT-TCAAAATTTTGATAATTATTAA
* * *
101796 CATTGATTATAAA-TAAAATTTTATAATTTTTATTAATTATTATCATAAG-TTTTCATT-AAA
125 CATTAATTATAAATTAAAATTTAATAATTTATATTAATTATTAT--TAAGATTTT-ATTCAAA
* * *
101856 ATTTTTCAAAGTGTTGATAATCTTTAATATTAATTATAAATAAAATTTTATATTTTTTTATTAAT
1 ATTTTTCAAAGTGTTGATAAT-TTTAATATTAATTATAAATTAAATTTTATA-ATTTATATTAAT
101921 CATTATCAAAAGTTTG
64 CATTATCAAAA-TTTG
101937 CATTAAAATT
Statistics
Matches: 224, Mismatches: 33, Indels: 21
0.81 0.12 0.08
Matches are distributed among these distances:
184 1 0.00
185 64 0.29
186 12 0.05
187 7 0.03
188 31 0.14
189 82 0.37
190 26 0.12
191 1 0.00
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.51
Consensus pattern (184 bp):
ATTTTTCAAAGTGTTGATAATTTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATCA
TTATCAAAATTTGAGATTAAATTTTATAACTTTTATTTCAAAATTTTGATAATTATTAACATTAA
TTATAAATTAAAATTTAATAATTTATATTAATTATTATTAAGATTTTATTCAAA
Found at i:103451 original size:15 final size:15
Alignment explanation
Indices: 103431--103486 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
103421 TTCTATTAAA
*
103431 GAAGAAGAAGATTCT
1 GAAGAAGAAGATCCT
*
103446 GAAGAAGAGGATCCT
1 GAAGAAGAAGATCCT
103461 GAGGAAGAAGAAGATCCT
1 ---GAAGAAGAAGATCCT
*
103479 GAGGAAGA
1 GAAGAAGA
103487 TCATGTGGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 20 0.59
18 14 0.41
ACGTcount: A:0.45, C:0.09, G:0.34, T:0.12
Consensus pattern (15 bp):
GAAGAAGAAGATCCT
Found at i:103452 original size:18 final size:18
Alignment explanation
Indices: 103429--103486 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
103419 GATTCTATTA
*
103429 AAGAAGAAGAAGATTCTG
1 AAGAAGAAGAAGATCCTG
103447 AAGAAG-AG--GATCCTG
1 AAGAAGAAGAAGATCCTG
*
103462 AGGAAGAAGAAGATCCTG
1 AAGAAGAAGAAGATCCTG
*
103480 AGGAAGA
1 AAGAAGA
103487 TCATGTGGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 11 0.31
16 2 0.06
17 2 0.06
18 20 0.57
ACGTcount: A:0.47, C:0.09, G:0.33, T:0.12
Consensus pattern (18 bp):
AAGAAGAAGAAGATCCTG
Found at i:106133 original size:12 final size:12
Alignment explanation
Indices: 106116--106140 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
106106 TTGTTATATG
106116 ATGAATGCTATT
1 ATGAATGCTATT
106128 ATGAATGCTATT
1 ATGAATGCTATT
106140 A
1 A
106141 ATTCTTTAAT
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:107625 original size:18 final size:20
Alignment explanation
Indices: 107583--107630 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
107573 CCTCTATATG
*
107583 GTATCGACACCTTGACTCAA
1 GTATCGATACCTTGACTCAA
*
107603 GTATCGATACCTTG-C-CTA
1 GTATCGATACCTTGACTCAA
107621 GTATCGATAC
1 GTATCGATAC
107631 TAGTTTGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 12 0.46
19 1 0.04
20 13 0.50
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (20 bp):
GTATCGATACCTTGACTCAA
Found at i:108649 original size:18 final size:19
Alignment explanation
Indices: 108606--108652 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
108596 CAGTATAAAA
108606 TAAATTT-A-AATATAATT
1 TAAATTTAATAATATAATT
108623 TAAATTTAATAATA-AATT
1 TAAATTTAATAATATAATT
108641 GTAAA-TTAATAA
1 -TAAATTTAATAA
108653 AAACAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 7 0.26
18 12 0.44
19 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TAAATTTAATAATATAATT
Found at i:112149 original size:9 final size:8
Alignment explanation
Indices: 112135--112183 Score: 53
Period size: 9 Copynumber: 5.6 Consensus size: 8
112125 CTATAGATAA
112135 TATTTTCAT
1 TATTTT-AT
112144 TATTTTAT
1 TATTTTAT
112152 TATTCTTAT
1 TATT-TTAT
*
112161 TATTAGTAT
1 TATT-TTAT
112170 TATTATTAT
1 TATT-TTAT
112179 TATTT
1 TATTT
112184 AGGCTATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.19
9 29 0.81
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (8 bp):
TATTTTAT
Found at i:112163 original size:3 final size:3
Alignment explanation
Indices: 112142--112182 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
112132 TAATATTTTC
* *
112142 ATT ATT -TT ATT ATT CTT ATT ATT AGT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
112183 TAGGCTATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:115935 original size:19 final size:19
Alignment explanation
Indices: 115911--115950 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
115901 GTATATATGA
115911 TAGATGATAAATTTGAGAT
1 TAGATGATAAATTTGAGAT
115930 TAGATGATAAATTTGAGAT
1 TAGATGATAAATTTGAGAT
115949 TA
1 TA
115951 TTGCATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TAGATGATAAATTTGAGAT
Found at i:122014 original size:19 final size:17
Alignment explanation
Indices: 121975--122016 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
121965 CAGTATAAAA
121975 TAAATATTAATATAATT
1 TAAATATTAATATAATT
121992 TAAAT-TTAATAATAGATT
1 TAAATATTAAT-ATA-ATT
122010 GTAAATA
1 -TAAATA
122017 AATAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 3 0.14
19 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
TAAATATTAATATAATT
Found at i:124096 original size:3 final size:3
Alignment explanation
Indices: 124088--124116 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
124078 AATTTATCTT
124088 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
124117 TCAACCAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:125452 original size:16 final size:16
Alignment explanation
Indices: 125416--125463 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
125406 TTTTTTGAAA
* *
125416 TTATTTGCATTTTTAA
1 TTATTTGAATTTTTAT
* **
125432 ATATTTTTATTTTTAT
1 TTATTTGAATTTTTAT
125448 TTATTTGAATTTTTAT
1 TTATTTGAATTTTTAT
125464 AAAGTATACA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (16 bp):
TTATTTGAATTTTTAT
Found at i:127702 original size:22 final size:23
Alignment explanation
Indices: 127677--127719 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
127667 ACAATCTCAT
127677 TAGAAG-GTAA-AGGCATTAAATC
1 TAGAAGTGTAACAGG-ATTAAATC
127699 TAGAAGTGTAACAGGATTAAA
1 TAGAAGTGTAACAGGATTAAA
127720 ACCATATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 10 0.53
24 3 0.16
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (23 bp):
TAGAAGTGTAACAGGATTAAATC
Found at i:129292 original size:29 final size:29
Alignment explanation
Indices: 129260--129321 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
129250 AAAGGTTAGT
129260 AAATAACTTATCCTTGCGTAAAACCTCTA
1 AAATAACTTATCCTTGCGTAAAACCTCTA
129289 AAATAACTTATCCTTGCGTAAAACCTCTA
1 AAATAACTTATCCTTGCGTAAAACCTCTA
129318 AAAT
1 AAAT
129322 CTAACCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (29 bp):
AAATAACTTATCCTTGCGTAAAACCTCTA
Found at i:132272 original size:19 final size:20
Alignment explanation
Indices: 132248--132287 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
132238 AGAAATATTC
132248 TAGGATTTGGATC-AATTTT
1 TAGGATTTGGATCAAATTTT
132267 TAGGATTTGGATCAAATTTT
1 TAGGATTTGGATCAAATTTT
132287 T
1 T
132288 TTTCTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (20 bp):
TAGGATTTGGATCAAATTTT
Found at i:136192 original size:13 final size:13
Alignment explanation
Indices: 136170--136212 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
136160 ATATGCTCTC
136170 TTTTTC-TTTCTT
1 TTTTTCATTTCTT
136182 TTTTTCATTTCTT
1 TTTTTCATTTCTT
136195 TTTTTCATTTCTT
1 TTTTTCATTTCTT
136208 TTTTT
1 TTTTT
136213 TTTGAGCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 6 0.20
13 24 0.80
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCATTTCTT
Found at i:138632 original size:16 final size:16
Alignment explanation
Indices: 138608--138642 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
138598 GGTGTGGTTT
* *
138608 GGCAGCAGCACGGCTC
1 GGCAACAGCACAGCTC
138624 GGCAACAGCACAGCTC
1 GGCAACAGCACAGCTC
138640 GGC
1 GGC
138643 CGTAGCAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.37, G:0.34, T:0.06
Consensus pattern (16 bp):
GGCAACAGCACAGCTC
Found at i:139458 original size:22 final size:22
Alignment explanation
Indices: 139411--139458 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
139401 AAGATTTTAA
139411 AAAATAAAAAAAAATTAAATTT
1 AAAATAAAAAAAAATTAAATTT
* *
139433 -AAATGAAAAAAAACTT-TATTT
1 AAAAT-AAAAAAAAATTAAATTT
139454 AAAAT
1 AAAAT
139459 TTTAAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATAAAAAAAAATTAAATTT
Found at i:139462 original size:29 final size:28
Alignment explanation
Indices: 139423--139487 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
139413 AATAAAAAAA
139423 AATT-AAA-TTTAAATGAAAAAAAACTTT
1 AATTAAAATTTTAAA-GAAAAAAAACTTT
* * *
139450 ATTTAAAATTTTAAAGAAAACAAATTTT
1 AATTAAAATTTTAAAGAAAAAAAACTTT
*
139478 AATTCAAATT
1 AATTAAAATT
139488 CTTGATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.10
28 22 0.71
29 6 0.19
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (28 bp):
AATTAAAATTTTAAAGAAAAAAAACTTT
Found at i:139514 original size:19 final size:20
Alignment explanation
Indices: 139492--139539 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
139482 CAAATTCTTG
139492 ATAATAATTAATATA-AATT
1 ATAATAATTAATATATAATT
*
139511 ATAA-AATTTAATTTATAATT
1 ATAATAA-TTAATATATAATT
139531 -TAAT-ATTAA
1 ATAATAATTAA
139540 GAATTATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 15 0.60
20 4 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAATAATTAATATATAATT
Found at i:141039 original size:21 final size:21
Alignment explanation
Indices: 141001--141055 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
140991 CTGTACAGAT
* ** *
141001 TTCTATCGATACTTGTGCTAG
1 TTCTACCGATACAGGTGCAAG
* *
141022 TTCTACCGGTACAGGTGCAAT
1 TTCTACCGATACAGGTGCAAG
141043 TTCTACCGATACA
1 TTCTACCGATACA
141056 AGTAATGCAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (21 bp):
TTCTACCGATACAGGTGCAAG
Found at i:146284 original size:18 final size:18
Alignment explanation
Indices: 146251--146285 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
146241 TATAAATATG
*
146251 ATTAAATATAAACAAGCA
1 ATTAAATACAAACAAGCA
*
146269 ATTAAATACAATCAAGC
1 ATTAAATACAAACAAGC
146286 CAACACTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.23
Consensus pattern (18 bp):
ATTAAATACAAACAAGCA
Found at i:148155 original size:40 final size:40
Alignment explanation
Indices: 147975--148204 Score: 210
Period size: 41 Copynumber: 5.7 Consensus size: 40
147965 CACCGATTCA
* * * * * *
147975 TAGCCTACTAAGCTGTAGCTTGAGTTATA-AATCGGCTCA
1 TAGCCTGCTAAGCCGTAGCTTGAGTTCTATCACCGGCTCG
* * * *
148014 TAGCCAGCTAAGTCGTAACTTGAGTTCTATCACCGACTCG
1 TAGCCTGCTAAGCCGTAGCTTGAGTTCTATCACCGGCTCG
* * ** *
148054 TAACCCTGCTAAACTATAGCTTGAGTTCTATCACCGACTCG
1 T-AGCCTGCTAAGCCGTAGCTTGAGTTCTATCACCGGCTCG
* * ** *
148095 TAACCCTGCTAAACTATAGCTTGAGTTCTATCATCGGCTCG
1 T-AGCCTGCTAAGCCGTAGCTTGAGTTCTATCACCGGCTCG
* *
148136 TAGCCTGCTAAGCCGTAGCTTGAGATCTATCACCGGCTCA
1 TAGCCTGCTAAGCCGTAGCTTGAGTTCTATCACCGGCTCG
* * *
148176 TAACCTGTTAAGCCGTAGCTTGAATTCTA
1 TAGCCTGCTAAGCCGTAGCTTGAGTTCTA
148205 CCTAAGATAT
Statistics
Matches: 159, Mismatches: 30, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
39 23 0.14
40 64 0.40
41 72 0.45
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (40 bp):
TAGCCTGCTAAGCCGTAGCTTGAGTTCTATCACCGGCTCG
Found at i:151221 original size:37 final size:37
Alignment explanation
Indices: 151165--151343 Score: 245
Period size: 37 Copynumber: 4.8 Consensus size: 37
151155 TTGGATTACC
* * * *
151165 GGCACAAAGCCTGCTAGGCACATAGCCCGAATACACT
1 GGCACGAAGCCTACTAGGCACATAGCCTGAAAACACT
*
151202 GGCGCGAAGCCTACTAGGCACATAGCCTGAAAACACT
1 GGCACGAAGCCTACTAGGCACATAGCCTGAAAACACT
* *
151239 GGCAC-AAGGCCTACTAGGTACATAGCCTGAAAACACG
1 GGCACGAA-GCCTACTAGGCACATAGCCTGAAAACACT
*
151276 GGCACGAAGCCTACTAGGCACATAGCTTGAAAACA-T
1 GGCACGAAGCCTACTAGGCACATAGCCTGAAAACACT
*
151312 CGGCACAAAGCCTACTAGGCACATAGCCTGAA
1 -GGCACGAAGCCTACTAGGCACATAGCCTGAA
151344 TATTGTGTAA
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.02
37 122 0.97
38 2 0.02
ACGTcount: A:0.34, C:0.29, G:0.23, T:0.14
Consensus pattern (37 bp):
GGCACGAAGCCTACTAGGCACATAGCCTGAAAACACT
Found at i:151286 original size:74 final size:74
Alignment explanation
Indices: 151164--151343 Score: 272
Period size: 74 Copynumber: 2.4 Consensus size: 74
151154 CTTGGATTAC
* * * * *
151164 CGGCACAAAGCCTGCTAGGCACATAGCCCGAATACACTGGCGCGAAGCCTACTAGGCACATAGCC
1 CGGCACAAAGCCTACTAGGCACATAGCCTGAAAACACGGGCACGAAGCCTACTAGGCACATAGCC
151229 TGAAAACA-
66 TGAAAACAT
* *
151237 CTGGCACAAGGCCTACTAGGTACATAGCCTGAAAACACGGGCACGAAGCCTACTAGGCACATAGC
1 C-GGCACAAAGCCTACTAGGCACATAGCCTGAAAACACGGGCACGAAGCCTACTAGGCACATAGC
*
151302 TTGAAAACAT
65 CTGAAAACAT
151312 CGGCACAAAGCCTACTAGGCACATAGCCTGAA
1 CGGCACAAAGCCTACTAGGCACATAGCCTGAA
151344 TATTGTGTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
73 1 0.01
74 93 0.98
75 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.23, T:0.14
Consensus pattern (74 bp):
CGGCACAAAGCCTACTAGGCACATAGCCTGAAAACACGGGCACGAAGCCTACTAGGCACATAGCC
TGAAAACAT
Found at i:154073 original size:52 final size:52
Alignment explanation
Indices: 153970--154152 Score: 219
Period size: 52 Copynumber: 3.5 Consensus size: 52
153960 AAATGCAAAA
* *
153970 AGGTTCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGA-TTATATGAATCCTTTACGGATTATG
* * **
154023 AGGTCCAATGACTATGTGTCATCGTGATTATATGAATTCTTTACAAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGATTATATGAATCCTTTACGGATTATG
* ** * *
154075 A-GTCCGATGACTATGTGTCATTGTGAGCATATGGATCCTTTTACGGATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGATTATATGAATCC-TTTACGGATTATG
154126 AGGTCCGATGAC-ATTGTGTCATCGTGA
1 AGGTCCGATGACTA-TGTGTCATCGTGA
154153 GTATTAAATG
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
51 34 0.31
52 53 0.48
53 24 0.22
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGATTATATGAATCCTTTACGGATTATG
Found at i:161856 original size:40 final size:40
Alignment explanation
Indices: 161812--162044 Score: 259
Period size: 40 Copynumber: 5.8 Consensus size: 40
161802 TCAACATCGA
* * * *
161812 CTCATAGCTTGCTAAGTTGTAGCTTGAGTTATAACACCGG
1 CTCATAGCCTGCTAAGCTGTAGCTTGAGTTCTATCACCGG
* * * *
161852 CTCATAACCTGCTAAGCCGTAGCTTTAGTTCTATCATCGG
1 CTCATAGCCTGCTAAGCTGTAGCTTGAGTTCTATCACCGG
* * * * *
161892 CTCGTAGCCTGATAAGCTATAGCTTAAGTTCTATCATCGG
1 CTCATAGCCTGCTAAGCTGTAGCTTGAGTTCTATCACCGG
* * *
161932 CTCGTAGCCTGCTAAGCTATAACTTGAGTTCTATCACCGG
1 CTCATAGCCTGCTAAGCTGTAGCTTGAGTTCTATCACCGG
* * * * *
161972 CTCGTAGCTTGGTAAGCTGTAACTTGAGTTCTATCACCAG
1 CTCATAGCCTGCTAAGCTGTAGCTTGAGTTCTATCACCGG
* *
162012 CTCATAGCCTGCTAAGCCGTAGCTTGAATTCTA
1 CTCATAGCCTGCTAAGCTGTAGCTTGAGTTCTA
162045 CCCAATATAT
Statistics
Matches: 165, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (40 bp):
CTCATAGCCTGCTAAGCTGTAGCTTGAGTTCTATCACCGG
Found at i:165858 original size:37 final size:36
Alignment explanation
Indices: 165817--165928 Score: 99
Period size: 37 Copynumber: 3.2 Consensus size: 36
165807 CGGTTGGACC
165817 ATGGCAGTGCATATAGATGTAAGACCATAGCTGGCCT
1 ATGGCAGTG-ATATAGATGTAAGACCATAGCTGGCCT
* * * * * *
165854 ATGGCA-T--T-TTGACGTAAGATCATGGTTGG-AT
1 ATGGCAGTGATATAGATGTAAGACCATAGCTGGCCT
*
165885 GATGGCAGTGTATATAGATGCAAGACCATAGCTGGCCT
1 -ATGGCAGTG-ATATAGATGTAAGACCATAGCTGGCCT
165923 ATGGCA
1 ATGGCA
165929 TTCTGATGTT
Statistics
Matches: 55, Mismatches: 13, Indels: 14
0.67 0.16 0.17
Matches are distributed among these distances:
31 1 0.02
32 22 0.40
33 2 0.04
36 2 0.04
37 27 0.49
38 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (36 bp):
ATGGCAGTGATATAGATGTAAGACCATAGCTGGCCT
Found at i:165900 original size:69 final size:69
Alignment explanation
Indices: 165787--165946 Score: 230
Period size: 69 Copynumber: 2.3 Consensus size: 69
165777 AGAGACAGGC
* * * *
165787 GGCATTCTGACATAAGACCACGGTTGGACCATGGCAGTGCATATAGATGTAAGACCATAGCTGGC
1 GGCATTCTGACGTAAGATCATGGTTGGACCATGGCAGTGCATATAGATGCAAGACCATAGCTGGC
165852 CTAT
66 CTAT
* ** *
165856 GGCATTTTGACGTAAGATCATGGTTGGATGATGGCAGTGTATATAGATGCAAGACCATAGCTGGC
1 GGCATTCTGACGTAAGATCATGGTTGGACCATGGCAGTGCATATAGATGCAAGACCATAGCTGGC
165921 CTAT
66 CTAT
*
165925 GGCATTCTGATGTTAAGATCAT
1 GGCATTCTGACG-TAAGATCAT
165947 AACTGGGTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
69 71 0.89
70 9 0.11
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (69 bp):
GGCATTCTGACGTAAGATCATGGTTGGACCATGGCAGTGCATATAGATGCAAGACCATAGCTGGC
CTAT
Found at i:165986 original size:33 final size:32
Alignment explanation
Indices: 165832--165985 Score: 112
Period size: 33 Copynumber: 4.6 Consensus size: 32
165822 AGTGCATATA
*
165832 GATGTAAGACCATAGCTGGCCTATGGCATTTT
1 GATGTAAGACCATAGCTGGCCTATGGCATTAT
* * * * *
165864 GACGTAAGATCATGGTTGG-ATGATGGCAGTGTATAT
1 GATGTAAGACCATAGCTGGCCT-ATGGCA---T-TAT
* *
165900 AGATGCAAGACCATAGCTGGCCTATGGCATTCT
1 -GATGTAAGACCATAGCTGGCCTATGGCATTAT
* * **
165933 GATGTTAAGATCATAACTGGGTTATGGCATTAT
1 GATG-TAAGACCATAGCTGGCCTATGGCATTAT
*
165966 GAATGTAAGACCATGGCTGG
1 G-ATGTAAGACCATAGCTGG
165986 GCCATGACAA
Statistics
Matches: 91, Mismatches: 22, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
31 1 0.01
32 25 0.27
33 37 0.41
34 4 0.04
35 1 0.01
36 2 0.02
37 20 0.22
38 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (32 bp):
GATGTAAGACCATAGCTGGCCTATGGCATTAT
Found at i:170710 original size:102 final size:102
Alignment explanation
Indices: 170534--170727 Score: 334
Period size: 102 Copynumber: 1.9 Consensus size: 102
170524 GAGACAGGCA
* *
170534 GCATTCTGACGTAAGACCATGGTTGGACCATGGTAGTGTACATAGATGTAAAACCATAGTTGGGC
1 GCATTCTGACGTAAGACCATGGTTGGACCATGGCAGTGTACATAAATGTAAAACCATAGTTGGGC
170599 TATGGCATTCTGATGTTAAGACCATAGCTAAGCTATG
66 TATGGCATTCTGATGTTAAGACCATAGCTAAGCTATG
* * *
170636 GCATTCTGACGTAAGACCATGGTTGGACCATGGCAGTGTATATAAATGTAAGATCATAGTTGGGC
1 GCATTCTGACGTAAGACCATGGTTGGACCATGGCAGTGTACATAAATGTAAAACCATAGTTGGGC
*
170701 TATGGCATTCTGATGTTAGGACCATAG
66 TATGGCATTCTGATGTTAAGACCATAG
170728 TTGGGTTATG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 86 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
GCATTCTGACGTAAGACCATGGTTGGACCATGGCAGTGTACATAAATGTAAAACCATAGTTGGGC
TATGGCATTCTGATGTTAAGACCATAGCTAAGCTATG
Found at i:170732 original size:33 final size:33
Alignment explanation
Indices: 170578--170758 Score: 145
Period size: 33 Copynumber: 5.4 Consensus size: 33
170568 AGTGTACATA
*
170578 GATG-TAAAACCATAGTTGGGCTATGGCATTCT
1 GATGTTAAGACCATAGTTGGGCTATGGCATTCT
* **
170610 GATGTTAAGACCATAGCTAAGCTATGGCATTCT
1 GATGTTAAGACCATAGTTGGGCTATGGCATTCT
* * * * *
170643 GACG-TAAGACCATGGTTGGACCATGGCAGTGTAT
1 GATGTTAAGACCATAGTTGGGCTATGGCA-T-TCT
* *
170677 -ATAAATGTAAGATCATAGTTGGGCTATGGCATTCT
1 GAT--GT-TAAGACCATAGTTGGGCTATGGCATTCT
* * * *
170712 GATGTTAGGACCATAGTTGGGTTATGTCATTAT
1 GATGTTAAGACCATAGTTGGGCTATGGCATTCT
170745 GAATG-TAAGACCAT
1 G-ATGTTAAGACCAT
170759 GGCCGAGCCA
Statistics
Matches: 114, Mismatches: 26, Indels: 17
0.73 0.17 0.11
Matches are distributed among these distances:
32 22 0.19
33 61 0.54
34 6 0.05
35 2 0.02
36 3 0.03
37 20 0.18
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (33 bp):
GATGTTAAGACCATAGTTGGGCTATGGCATTCT
Found at i:171695 original size:21 final size:21
Alignment explanation
Indices: 171671--171716 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
171661 GTTTGTTATG
171671 TCGGTAAAAGTAATAATTGTA
1 TCGGTAAAAGTAATAATTGTA
** * *
171692 TCGGTAGTAGTCATACTTGTA
1 TCGGTAAAAGTAATAATTGTA
171713 TCGG
1 TCGG
171717 CAGAACCTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGGTAAAAGTAATAATTGTA
Found at i:173168 original size:23 final size:23
Alignment explanation
Indices: 173136--173188 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
173126 TCATTAATGC
*
173136 TTTCAATTAAAATCATGCATGTA
1 TTTCATTTAAAATCATGCATGTA
173159 TTTCATTTAAAATCATGCATGTA
1 TTTCATTTAAAATCATGCATGTA
173182 TTTCATT
1 TTTCATT
173189 CTTTAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (23 bp):
TTTCATTTAAAATCATGCATGTA
Found at i:181605 original size:15 final size:14
Alignment explanation
Indices: 181587--181620 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
181577 TTTTGTTACC
181587 AAAATCATTCTTAA
1 AAAATCATTCTTAA
*
181601 TAAAATCATTTTTAA
1 -AAAATCATTCTTAA
181616 AAAAT
1 AAAAT
181621 TGCCAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAATCATTCTTAA
Found at i:184625 original size:37 final size:37
Alignment explanation
Indices: 184584--184766 Score: 206
Period size: 37 Copynumber: 4.9 Consensus size: 37
184574 AGCCCGAGTA
* * *
184584 CACCAGCACGAGGCTTGCTAGGCACATAACTTGAATT
1 CACCAGCACGAAGCCTGCTAGGCACATAACCTGAATT
* *
184621 CACCAGCACGAAGCCTGCTAGGCACATAGCATGAATT
1 CACCAGCACGAAGCCTGCTAGGCACATAACCTGAATT
** * * * *
184658 CACTGGCACAAAGTCTGCTAGGCACATAGCCTGAATA
1 CACCAGCACGAAGCCTGCTAGGCACATAACCTGAATT
* * *
184695 CACCAGCACAAAGCCTGGTAGGCACACAACCTGAATT
1 CACCAGCACGAAGCCTGCTAGGCACATAACCTGAATT
* *
184732 CACC-GACACGAAGCCTGCAAGGCACATAGCCTGAA
1 CACCAG-CACGAAGCCTGCTAGGCACATAACCTGAA
184767 CTAAATGAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
36 1 0.01
37 122 0.99
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.16
Consensus pattern (37 bp):
CACCAGCACGAAGCCTGCTAGGCACATAACCTGAATT
Found at i:184756 original size:111 final size:111
Alignment explanation
Indices: 184562--184766 Score: 295
Period size: 111 Copynumber: 1.8 Consensus size: 111
184552 CACAAAGGAG
* * * * * * *
184562 TGCTAGGCATATAGCCCGAGTACACCAGCACGAGGCTTGCTAGGCACATAACTTGAATTCACCAG
1 TGCTAGGCACATAGCCCGAATACACCAGCACAAAGCCTGCTAGGCACACAACCTGAATTCACCAG
*
184627 CACGAAGCCTGCTAGGCACATAGCATGAATTCACTGGCACAAAGTC
66 CACGAAGCCTGCAAGGCACATAGCATGAATTCACTGGCACAAAGTC
* *
184673 TGCTAGGCACATAGCCTGAATACACCAGCACAAAGCCTGGTAGGCACACAACCTGAATTCACC-G
1 TGCTAGGCACATAGCCCGAATACACCAGCACAAAGCCTGCTAGGCACACAACCTGAATTCACCAG
*
184737 ACACGAAGCCTGCAAGGCACATAGCCTGAA
66 -CACGAAGCCTGCAAGGCACATAGCATGAA
184767 CTAAATGAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 1 0.01
111 81 0.99
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (111 bp):
TGCTAGGCACATAGCCCGAATACACCAGCACAAAGCCTGCTAGGCACACAACCTGAATTCACCAG
CACGAAGCCTGCAAGGCACATAGCATGAATTCACTGGCACAAAGTC
Found at i:191936 original size:37 final size:37
Alignment explanation
Indices: 191847--192027 Score: 175
Period size: 37 Copynumber: 4.9 Consensus size: 37
191837 AGTTCTCCAA
* * * * *
191847 TCACCAGCACAAAGGCTTGCTAGGCATATAGCCCGAGT
1 TCACCAGCACGAA-GCCTGCTAGGCACATAGCCTGAAT
* * * * *
191885 ACACCGGCAAGAAGCCTGTTAGACACATAGCCTGAAT
1 TCACCAGCACGAAGCCTGCTAGGCACATAGCCTGAAT
* *
191922 TCCCCAGCACGAAGCTTGCTAGGCACATAGCCTGAAT
1 TCACCAGCACGAAGCCTGCTAGGCACATAGCCTGAAT
* * * * *
191959 ACACCGGCACTAAGCCTGCTAGGCACACAACCTGAAT
1 TCACCAGCACGAAGCCTGCTAGGCACATAGCCTGAAT
*
191996 TCACCAGCACGAAGCCTACTA-GCAACATAGCC
1 TCACCAGCACGAAGCCTGCTAGGC-ACATAGCC
192028 CAAATTACTT
Statistics
Matches: 112, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
36 2 0.02
37 101 0.90
38 9 0.08
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.16
Consensus pattern (37 bp):
TCACCAGCACGAAGCCTGCTAGGCACATAGCCTGAAT
Found at i:191993 original size:74 final size:74
Alignment explanation
Indices: 191847--192028 Score: 222
Period size: 74 Copynumber: 2.4 Consensus size: 74
191837 AGTTCTCCAA
* * * *
191847 TCACCAGCACAAAGGCTTGCTAGGCATATAGCCCGAGTACACCGGCAAGAAGCCTGTTAGACACA
1 TCACCAGCACGAA-GCTTGCTAGGCACATAGCCCGAATACACCGGCAAGAAGCCTGCTAGACACA
* *
191912 TAGCCTGAAT
65 CAACCTGAAT
* * ** *
191922 TCCCCAGCACGAAGCTTGCTAGGCACATAGCCTGAATACACCGGCACTAAGCCTGCTAGGCACAC
1 TCACCAGCACGAAGCTTGCTAGGCACATAGCCCGAATACACCGGCAAGAAGCCTGCTAGACACAC
191987 AACCTGAAT
66 AACCTGAAT
* *
191996 TCACCAGCACGAAGCCTACTA-GCAACATAGCCC
1 TCACCAGCACGAAGCTTGCTAGGC-ACATAGCCC
192029 AAATTACTTA
Statistics
Matches: 91, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
73 2 0.02
74 78 0.86
75 11 0.12
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.16
Consensus pattern (74 bp):
TCACCAGCACGAAGCTTGCTAGGCACATAGCCCGAATACACCGGCAAGAAGCCTGCTAGACACAC
AACCTGAAT
Found at i:195356 original size:32 final size:32
Alignment explanation
Indices: 195320--195453 Score: 118
Period size: 26 Copynumber: 4.6 Consensus size: 32
195310 AAATGATTTT
*
195320 AAAATTATTAACATTATTTTTTTAAAATGTAA
1 AAAATTATTAACATTATTTTTTTAAAATATAA
195352 AAAATTA--AA-A-TA--TTTTTAAAATATAA
1 AAAATTATTAACATTATTTTTTTAAAATATAA
* *
195378 AATTATTATTAACATTATTTTTTAAAAATATAA
1 AA-AATTATTAACATTATTTTTTTAAAATATAA
195411 AAAATTA--AA-A-TA--TTTTTAAAATAT--
1 AAAATTATTAACATTATTTTTTTAAAATATAA
*
195435 AAAATTATTAA-ATAATTTT
1 AAAATTATTAACATTATTTT
195454 AATTTTCAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 27
0.72 0.05 0.23
Matches are distributed among these distances:
24 7 0.08
26 29 0.35
27 5 0.06
28 4 0.05
29 6 0.07
30 5 0.06
31 2 0.02
32 11 0.13
33 15 0.18
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (32 bp):
AAAATTATTAACATTATTTTTTTAAAATATAA
Found at i:195372 original size:26 final size:27
Alignment explanation
Indices: 195338--195455 Score: 125
Period size: 26 Copynumber: 4.3 Consensus size: 27
195328 TAACATTATT
*
195338 TTTTTAAAATGTAAAA-AATTAAAATA
1 TTTTTAAAATATAAAATAATTAAAATA
*
195364 TTTTTAAAATATAAAATTATTATTAACATTA
1 TTTTTAAAATATAAAA-TA--ATTAA-AATA
195395 TTTTTTAAAAATATAAAA-AATTAAAATA
1 -TTTTT-AAAATATAAAATAATTAAAATA
*
195423 TTTTTAAAATATAAAATTATT-AAATA
1 TTTTTAAAATATAAAATAATTAAAATA
*
195449 ATTTTAA
1 TTTTTAA
195456 TTTTCAATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
26 37 0.47
27 8 0.10
28 4 0.05
29 5 0.06
30 5 0.06
31 4 0.05
32 5 0.06
33 11 0.14
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (27 bp):
TTTTTAAAATATAAAATAATTAAAATA
Found at i:195384 original size:19 final size:17
Alignment explanation
Indices: 195352--195394 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
195342 TAAAATGTAA
*
195352 AAAATTAAAATATTTTT
1 AAAATTAAAATATTATT
195369 AAAATATAAAATTATTATT
1 AAAAT-TAAAA-TATTATT
*
195388 AACATTA
1 AAAATTA
195395 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 7 0.32
19 10 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTAAAATATTATT
Found at i:195412 original size:59 final size:59
Alignment explanation
Indices: 195323--195444 Score: 226
Period size: 59 Copynumber: 2.1 Consensus size: 59
195313 TGATTTTAAA
* *
195323 ATTATTAACATTATTTTTTTAAAATGTAAAAAATTAAAATATTTTTAAAATATAAAATT
1 ATTATTAACATTATTTTTTAAAAATATAAAAAATTAAAATATTTTTAAAATATAAAATT
195382 ATTATTAACATTATTTTTTAAAAATATAAAAAATTAAAATATTTTTAAAATATAAAATT
1 ATTATTAACATTATTTTTTAAAAATATAAAAAATTAAAATATTTTTAAAATATAAAATT
195441 ATTA
1 ATTA
195445 AATAATTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (59 bp):
ATTATTAACATTATTTTTTAAAAATATAAAAAATTAAAATATTTTTAAAATATAAAATT
Found at i:201208 original size:8 final size:8
Alignment explanation
Indices: 201195--201235 Score: 82
Period size: 8 Copynumber: 5.1 Consensus size: 8
201185 TAGTTAGATT
201195 GTGAGAGA
1 GTGAGAGA
201203 GTGAGAGA
1 GTGAGAGA
201211 GTGAGAGA
1 GTGAGAGA
201219 GTGAGAGA
1 GTGAGAGA
201227 GTGAGAGA
1 GTGAGAGA
201235 G
1 G
201236 AGAGGATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.12
Consensus pattern (8 bp):
GTGAGAGA
Found at i:201210 original size:2 final size:2
Alignment explanation
Indices: 201197--201239 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
201187 GTTAGATTGT
* * * *
201197 GA GA GA GT GA GA GA GT GA GA GA GT GA GA GA GT GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
201239 G
1 G
201240 GATTAGGTAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.51, T:0.09
Consensus pattern (2 bp):
GA
Found at i:205315 original size:15 final size:14
Alignment explanation
Indices: 205288--205323 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
205278 GAAAAATAAT
205288 TTATTTTCCAAAAA
1 TTATTTTCCAAAAA
205302 TTATTTTCCAAAAA
1 TTATTTTCCAAAAA
*
205316 TCATTTTC
1 TTATTTTC
205324 AATCAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (14 bp):
TTATTTTCCAAAAA
Found at i:205976 original size:19 final size:20
Alignment explanation
Indices: 205942--205983 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
205932 CATAATAAAA
205942 AAATAAGCAAAAGTTCAAGT
1 AAATAAGCAAAAGTTCAAGT
*
205962 AAATAA-CATAAGTTCAAGT
1 AAATAAGCAAAAGTTCAAGT
205981 AAA
1 AAA
205984 CATTATGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (20 bp):
AAATAAGCAAAAGTTCAAGT
Found at i:207587 original size:35 final size:35
Alignment explanation
Indices: 207548--207626 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 35
207538 AAAAATTAAC
*
207548 TCGATTTGAATAATTCGAA-TTTTTTTTTTAATTTT
1 TCGATTCGAATAATTC-AATTTTTTTTTTTAATTTT
207583 TCGATTCGAATAATTCAATTTTTTTTTTTTTAATTTT
1 TCGATTCGAATAATTCAA--TTTTTTTTTTTAATTTT
207620 TCGATTC
1 TCGATTC
207627 AAATTAAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
34 2 0.05
35 15 0.38
37 23 0.57
ACGTcount: A:0.24, C:0.09, G:0.08, T:0.59
Consensus pattern (35 bp):
TCGATTCGAATAATTCAATTTTTTTTTTTAATTTT
Found at i:209234 original size:34 final size:34
Alignment explanation
Indices: 209195--209267 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
209185 AGTAAATAAC
* *
209195 ATTTGGACAAGGTAAAAAGTAAAATATTAAAAAT
1 ATTTGGACAAGATAAAAAGTAAAAAATTAAAAAT
**
209229 ATTTGGGTAAGATAAAAAGTAAAAAATTAAAAAT
1 ATTTGGACAAGATAAAAAGTAAAAAATTAAAAAT
209263 ATTTG
1 ATTTG
209268 AGTTTAGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.55, C:0.01, G:0.15, T:0.29
Consensus pattern (34 bp):
ATTTGGACAAGATAAAAAGTAAAAAATTAAAAAT
Found at i:222898 original size:8 final size:8
Alignment explanation
Indices: 222877--222906 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
222867 AAGGATATGT
222877 ATTTTCATC
1 ATTTTCA-C
222886 ATTTTCAC
1 ATTTTCAC
222894 ATTTTCAC
1 ATTTTCAC
222902 ATTTT
1 ATTTT
222907 ACTCCCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTTTCAC
Found at i:224010 original size:33 final size:32
Alignment explanation
Indices: 223970--224038 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
223960 CTTAATTTAA
*
223970 AATTCAAATTAATCATTTTA-AAATCCTAATTAG
1 AATTCAAATTAATC-CTTTACAAATCCTAA-TAG
* *
224003 AATTCAAATTACTCCTTTACAAATCCTGATAG
1 AATTCAAATTAATCCTTTACAAATCCTAATAG
224035 AATT
1 AATT
224039 TATCTTTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.34
33 21 0.66
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (32 bp):
AATTCAAATTAATCCTTTACAAATCCTAATAG
Found at i:224414 original size:28 final size:28
Alignment explanation
Indices: 224370--224484 Score: 151
Period size: 28 Copynumber: 4.1 Consensus size: 28
224360 CTGCAACTGT
* *
224370 TTTTCCAGATTTTACAGTTTTACCACTA
1 TTTTCCAAATTTTACAGTTTTGCCACTA
* *
224398 TTTTCCAGATTTCACAGTTTTGCCACTA
1 TTTTCCAAATTTTACAGTTTTGCCACTA
* *
224426 CTTT-CAAATTTTACAGTTTTGCCATTA
1 TTTTCCAAATTTTACAGTTTTGCCACTA
* *
224453 TTTTTCAAATTTTGCAGTTTTGCCACTA
1 TTTTCCAAATTTTACAGTTTTGCCACTA
224481 TTTT
1 TTTT
224485 TTTTTTCCAA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 23 0.30
28 54 0.70
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (28 bp):
TTTTCCAAATTTTACAGTTTTGCCACTA
Found at i:224485 original size:28 final size:28
Alignment explanation
Indices: 224350--224485 Score: 148
Period size: 28 Copynumber: 4.9 Consensus size: 28
224340 GTGTGTGTTC
* * * * *
224350 TTTTATAGTTCTGCAACTGTTTTTCCAGA
1 TTTTACAGTTTTGCCACTATTTTT-CAAA
* * *
224379 TTTTACAGTTTTACCACTATTTTCCAGA
1 TTTTACAGTTTTGCCACTATTTTTCAAA
* *
224407 TTTCACAGTTTTGCCACTA-CTTTCAAA
1 TTTTACAGTTTTGCCACTATTTTTCAAA
*
224434 TTTTACAGTTTTGCCATTATTTTTCAAA
1 TTTTACAGTTTTGCCACTATTTTTCAAA
*
224462 TTTTGCAGTTTTGCCACTATTTTT
1 TTTTACAGTTTTGCCACTATTTTT
224486 TTTTTCCAAA
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
27 22 0.24
28 50 0.56
29 18 0.20
ACGTcount: A:0.22, C:0.19, G:0.10, T:0.49
Consensus pattern (28 bp):
TTTTACAGTTTTGCCACTATTTTTCAAA
Found at i:226016 original size:3 final size:3
Alignment explanation
Indices: 226008--226034 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
225998 CTCGCCAATG
226008 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
226035 CGTTTTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:230433 original size:6 final size:6
Alignment explanation
Indices: 230426--230513 Score: 104
Period size: 6 Copynumber: 14.7 Consensus size: 6
230416 TTGATGGAAG
* * * * *
230426 AAGAAG AAGAAG AAGAAG AAGAAT AAGAAT AAAAAT AAGAAT AAAAAT
1 AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT
* * *
230474 AAGAAC AAGAAT AAGAAT AAGAAT AAGAAT TAGAAC AAGA
1 AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGA
230514 GACGATAGAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.68, C:0.02, G:0.18, T:0.11
Consensus pattern (6 bp):
AAGAAT
Found at i:234273 original size:18 final size:17
Alignment explanation
Indices: 234246--234279 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
234236 TCACATTCAG
*
234246 TCAAATAATTGAGTCAT
1 TCAAATAATTCAGTCAT
234263 TCAACATAATTCAGTCA
1 TCAA-ATAATTCAGTCA
234280 AAATAACCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (17 bp):
TCAAATAATTCAGTCAT
Found at i:234777 original size:21 final size:22
Alignment explanation
Indices: 234748--234790 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
234738 ACTTTCATCA
*
234748 TTAAGCCTTAATTAACCCATTT
1 TTAAGCCTTAATCAACCCATTT
*
234770 TTAA-CCTTAATCAACCTATTT
1 TTAAGCCTTAATCAACCCATTT
234791 ATACTTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAGCCTTAATCAACCCATTT
Found at i:241206 original size:36 final size:36
Alignment explanation
Indices: 241159--241369 Score: 300
Period size: 36 Copynumber: 5.9 Consensus size: 36
241149 TCAAAGGAAA
241159 GCATACGTCTCGATTAGAGCGTATTGCTAAGATGTT
1 GCATACGTCTCGATTAGAGCGTATTGCTAAGATGTT
*
241195 GCATACGTCTCGATTAGAGCGTATTGCTATGATGTT
1 GCATACGTCTCGATTAGAGCGTATTGCTAAGATGTT
*
241231 GCATACATCTCGATTA-AGGCGTATTGCTAAGATGTT
1 GCATACGTCTCGATTAGA-GCGTATTGCTAAGATGTT
*
241267 GCATACGTCTCGGTTAGAGCGTATTGCTAAGATGTT
1 GCATACGTCTCGATTAGAGCGTATTGCTAAGATGTT
* * *
241303 GCATATGTCTCGTTTAGAGCGTATTGCTATGAAT-TT
1 GCATACGTCTCGATTAGAGCGTATTGCTAAG-ATGTT
* * * *
241339 GCTTACGTCTCGGTTAGAGCATAATGCTAAG
1 GCATACGTCTCGATTAGAGCGTATTGCTAAG
241370 TGATCGCTTA
Statistics
Matches: 158, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
35 1 0.01
36 154 0.97
37 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.35
Consensus pattern (36 bp):
GCATACGTCTCGATTAGAGCGTATTGCTAAGATGTT
Found at i:241379 original size:36 final size:36
Alignment explanation
Indices: 241162--241398 Score: 146
Period size: 36 Copynumber: 6.6 Consensus size: 36
241152 AAGGAAAGCA
* * * *
241162 TACGTCTCGATTAGAGCGTATTGCTAAGATG-TTGCA
1 TACGTCTCGGTTAGAGCATAATGCTAAG-TGATTGCT
* * * * *
241198 TACGTCTCGATTAGAGCGTATTGCTATGATG-TTGCA
1 TACGTCTCGGTTAGAGCATAATGCTAAG-TGATTGCT
* * * * *
241234 TACATCTCGATTA-AGGCGTATTGCTAAGATG-TTGCA
1 TACGTCTCGGTTAGA-GCATAATGCTAAG-TGATTGCT
* * *
241270 TACGTCTCGGTTAGAGCGTATTGCTAAGATG-TTGCA
1 TACGTCTCGGTTAGAGCATAATGCTAAG-TGATTGCT
* * * *
241306 TATGTCTCGTTTAGAGCGTATTGCT-A-TGAATTTGCT
1 TACGTCTCGGTTAGAGCATAATGCTAAGTG-A-TTGCT
*
241342 TACGTCTCGGTTAGAGCATAATGCTAAGTGATCGCT
1 TACGTCTCGGTTAGAGCATAATGCTAAGTGATTGCT
* *
241378 TATGTCTCAGTTAGAGCATAA
1 TACGTCTCGGTTAGAGCATAA
241399 GGTCATTTCA
Statistics
Matches: 179, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
33 2 0.01
35 2 0.01
36 170 0.95
37 3 0.02
38 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (36 bp):
TACGTCTCGGTTAGAGCATAATGCTAAGTGATTGCT
Found at i:241382 original size:72 final size:72
Alignment explanation
Indices: 241159--241394 Score: 300
Period size: 72 Copynumber: 3.3 Consensus size: 72
241149 TCAAAGGAAA
* *
241159 GCATACGTCTCGATTAGAGCGTATTGCTAAGATGTTGCATACGTCTCGATTAGAGCGTATTGCTA
1 GCATATGTCTCGATTAGAGCGTATTGCTAAGATGTTGCATACGTCTCGGTTAGAGCGTATTGCTA
*
241224 TGATGTT
66 AGATGTT
**
241231 GCATACATCTCGATTA-AGGCGTATTGCTAAGATGTTGCATACGTCTCGGTTAGAGCGTATTGCT
1 GCATATGTCTCGATTAGA-GCGTATTGCTAAGATGTTGCATACGTCTCGGTTAGAGCGTATTGCT
241295 AAGATGTT
65 AAGATGTT
* * * * *
241303 GCATATGTCTCGTTTAGAGCGTATTGCTATGAAT-TTGCTTACGTCTCGGTTAGAGCATAATGCT
1 GCATATGTCTCGATTAGAGCGTATTGCTAAG-ATGTTGCATACGTCTCGGTTAGAGCGTATTGCT
*
241367 AAG-TGATC
65 AAGATG-TT
*
241375 GCTTATGTCTC-AGTTAGAGC
1 GCATATGTCTCGA-TTAGAGC
241395 ATAAGGTCAT
Statistics
Matches: 146, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
71 3 0.02
72 140 0.96
73 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.35
Consensus pattern (72 bp):
GCATATGTCTCGATTAGAGCGTATTGCTAAGATGTTGCATACGTCTCGGTTAGAGCGTATTGCTA
AGATGTT
Found at i:241385 original size:108 final size:108
Alignment explanation
Indices: 241159--241394 Score: 316
Period size: 108 Copynumber: 2.2 Consensus size: 108
241149 TCAAAGGAAA
*
241159 GCATACGTCTCGATTAGAGCGTATTGCTAAGATGTTGCATACGTCTCGATTAGAGCGTATTGCTA
1 GCATACGTCTCGGTTAGAGCGTATTGCTAAGATGTTGCATACGTCTCGATTAGAGCGTATTGCTA
* * *
241224 TGATGTTGCATACATCTCGATTAAGGCGTATTGCTAAGATGTT
66 TGATGTTGCATACATCTCGATTAAGGCATAATGCTAAGATGTC
* *
241267 GCATACGTCTCGGTTAGAGCGTATTGCTAAGATGTTGCATATGTCTCGTTTAGAGCGTATTGCTA
1 GCATACGTCTCGGTTAGAGCGTATTGCTAAGATGTTGCATACGTCTCGATTAGAGCGTATTGCTA
* * *
241332 TGAAT-TTGCTTACGTCTCGGTT-AGAGCATAATGCTAAG-TGATC
66 TG-ATGTTGCATACATCTCGATTAAG-GCATAATGCTAAGATG-TC
* * *
241375 GCTTATGTCTCAGTTAGAGC
1 GCATACGTCTCGGTTAGAGC
241395 ATAAGGTCAT
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
107 4 0.04
108 107 0.95
109 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.35
Consensus pattern (108 bp):
GCATACGTCTCGGTTAGAGCGTATTGCTAAGATGTTGCATACGTCTCGATTAGAGCGTATTGCTA
TGATGTTGCATACATCTCGATTAAGGCATAATGCTAAGATGTC
Found at i:242240 original size:54 final size:54
Alignment explanation
Indices: 242153--242255 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
242143 CGCACGGCCT
*
242153 AATACACGATTTCACACACAAGCGTGTAAGGTAATTTCTCATGTTCACACAGCC
1 AATACACGATTTCACACACAAGCGTGTAAGGTAATTTCGCATGTTCACACAGCC
* * * *
242207 AATACACGGTTTCACACACGAGCTTGTAGGGTAATTTCGCATGTTCACA
1 AATACACGATTTCACACACAAGCGTGTAAGGTAATTTCGCATGTTCACA
242256 TGGCTTGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (54 bp):
AATACACGATTTCACACACAAGCGTGTAAGGTAATTTCGCATGTTCACACAGCC
Found at i:244493 original size:65 final size:65
Alignment explanation
Indices: 244366--244493 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 65
244356 ATCATCATTT
* * *** *
244366 AAAATTCCAGAAGAATGGTCAGACTATCAATATGTGAATCAATTGTTTCAACCGTTACAAAATTA
1 AAAATTCCAGAAGAATGGTCAGACTATCAATATGTGAATCAATTATATCAAAAATTAAAAAATTA
244431 AAAATTCCAGAAGAATGGTCAGACTATCAATATGTGAATCAATTATCAT-AAAAATTAAAAAAT
1 AAAATTCCAGAAGAATGGTCAGACTATCAATATGTGAATCAATTAT-ATCAAAAATTAAAAAAT
244494 ATTAAGAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 55 0.98
66 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (65 bp):
AAAATTCCAGAAGAATGGTCAGACTATCAATATGTGAATCAATTATATCAAAAATTAAAAAATTA
Found at i:244704 original size:16 final size:16
Alignment explanation
Indices: 244679--244737 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
244669 TGGTTCGCCA
* * *
244679 TAATGAAATAAAACTG
1 TAATGGAATAGAATTG
*
244695 TAATGGAATAGAGTTG
1 TAATGGAATAGAATTG
*
244711 TAATGTAATAGAATTG
1 TAATGGAATAGAATTG
244727 TAATGGAATAG
1 TAATGGAATAG
244738 TGCTGTAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAATTG
Found at i:244729 original size:32 final size:32
Alignment explanation
Indices: 244679--244746 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
244669 TGGTTCGCCA
*
244679 TAATGAAATAAAACTGTAATGGAATAGAGTTG
1 TAATGAAATAAAACTGTAATGGAATAGAGCTG
* * * *
244711 TAATGTAATAGAATTGTAATGGAATAGTGCTG
1 TAATGAAATAAAACTGTAATGGAATAGAGCTG
244743 TAAT
1 TAAT
244747 AAGTATTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (32 bp):
TAATGAAATAAAACTGTAATGGAATAGAGCTG
Found at i:244744 original size:16 final size:16
Alignment explanation
Indices: 244692--244746 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
244682 TGAAATAAAA
244692 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
* * *
244708 TTGTAATGTAATAGAA
1 CTGTAATGGAATAGAG
* *
244724 TTGTAATGGAATAGTG
1 CTGTAATGGAATAGAG
244740 CTGTAAT
1 CTGTAAT
244747 AAGTATTTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:254559 original size:4 final size:4
Alignment explanation
Indices: 254550--254583 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
254540 CATTATGTTA
*
254550 TATT TATT TATT TATT TATT TATT AAATT TATT T
1 TATT TATT TATT TATT TATT TATT -TATT TATT T
254584 TCAGTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:254565 original size:12 final size:13
Alignment explanation
Indices: 254547--254583 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
254537 AATCATTATG
254547 TTATATTTATTTA
1 TTATATTTATTTA
254560 TT-TATTTATTTA
1 TTATATTTATTTA
*
254572 TTAAATTTATTT
1 TTATATTTATTT
254584 TCAGTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATATTTATTTA
Found at i:259542 original size:18 final size:19
Alignment explanation
Indices: 259521--259557 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
259511 AAATTGAAAA
259521 TAAATTAAAAACT-AAATT
1 TAAATTAAAAACTCAAATT
*
259539 TAAATTGAAAACTCAAATT
1 TAAATTAAAAACTCAAATT
259558 GAAGAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAATTAAAAACTCAAATT
Found at i:260661 original size:14 final size:14
Alignment explanation
Indices: 260642--260670 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
260632 AAGAGCAAAC
260642 TTCCCCTTCCCCCT
1 TTCCCCTTCCCCCT
260656 TTCCCCTTCCCCCT
1 TTCCCCTTCCCCCT
260670 T
1 T
260671 CATTGCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (14 bp):
TTCCCCTTCCCCCT
Done.